Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1448
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1297309
ACGTcount: A:0.13, C:0.08, G:0.08, T:0.14
Warning! 744730 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:1151237 original size:118 final size:117
Alignment explanation
Indices: 1150987--1151255 Score: 369
Period size: 118 Copynumber: 2.3 Consensus size: 117
1150977 ACTTCACTCG
* * * *
1150987 GACTTCGGTGCCACCAACTCGTGTGGACTTTGACATTCTCAAGCTTAACCTCCTTAGACAAGTGC
1 GACTTGGGTGCCGCCAACTCGTGTGGGCTTTGATATTCTCAAGCTTAACCTCCTTAGACAAGTGC
* *
1151052 CAACTATGTGGACTTGACTCAAACTTAGGTGCCACTAACTCGTGTGGGCTTT
66 CAACTATGTGGACTTGACTCAAACTTAGGTGCCACCAACTCATGTGGGCTTT
* * * * * * *
1151104 GACTCGAGTGTCGCCAACTCATGTGGGCTTTGATATTCT-AAGGCTTAACCTTCTTAGGCAGGTG
1 GACTTGGGTGCCGCCAACTCGTGTGGGCTTTGATATTCTCAA-GCTTAACCTCCTTAGACAAGTG
*
1151168 CCAACTATTGTGGACTTGACTTAAACTTAGGTGCCACCAACTCATGTGGGCTTT
65 CCAACTA-TGTGGACTTGACTCAAACTTAGGTGCCACCAACTCATGTGGGCTTT
* *
1151222 GACTTGGGTGCCGCCAACTTGTGCGGGCTTTGAT
1 GACTTGGGTGCCGCCAACTCGTGTGGGCTTTGAT
1151256 TGGGGTGCCG
Statistics
Matches: 130, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
116 2 0.02
117 57 0.44
118 71 0.55
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (117 bp):
GACTTGGGTGCCGCCAACTCGTGTGGGCTTTGATATTCTCAAGCTTAACCTCCTTAGACAAGTGC
CAACTATGTGGACTTGACTCAAACTTAGGTGCCACCAACTCATGTGGGCTTT
Found at i:1151239 original size:31 final size:31
Alignment explanation
Indices: 1151192--1151286 Score: 129
Period size: 31 Copynumber: 3.1 Consensus size: 31
1151182 CTTGACTTAA
* * **
1151192 ACTTAGGTGCCACCAACTCATGTGGGCTTTG
1 ACTTGGGTGCCGCCAACTTGTGTGGGCTTTG
*
1151223 ACTTGGGTGCCGCCAACTTGTGCGGGCTTTG
1 ACTTGGGTGCCGCCAACTTGTGTGGGCTTTG
1151254 A-TTGGGGTGCCGCCAACTTGTGTGGGCTTTG
1 ACTT-GGGTGCCGCCAACTTGTGTGGGCTTTG
1151285 AC
1 AC
1151287 ATTCTAAGGC
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
30 2 0.04
31 54 0.96
ACGTcount: A:0.14, C:0.24, G:0.33, T:0.29
Consensus pattern (31 bp):
ACTTGGGTGCCGCCAACTTGTGTGGGCTTTG
Found at i:1151268 original size:149 final size:149
Alignment explanation
Indices: 1151074--1151436 Score: 483
Period size: 149 Copynumber: 2.4 Consensus size: 149
1151064 CTTGACTCAA
* * * * * * * * *
1151074 ACTTAGGTGCCACTAACTCGTGTGGGCTTTGACTCGAGTGTCGCCAACTCATGTGGGCTTTGATA
1 ACTTGGGTGCCGCCAACTTGTGTGGGCTTTGATTGGGGTGCCGCCAACTCATGTGGGCTTTGACA
* * * * * *
1151139 TTCTAAGGCTTAACCTTCTTAGGCAGGTGCCAACTATTGTGGACTTGACTTAAACTTAGGTGCCA
66 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACCAATATGGACTTGACTCAAACTTAGGTGCCA
1151204 CCAACTCATGTGGGCTTTG
131 CCAACTCATGTGGGCTTTG
* **
1151223 ACTTGGGTGCCGCCAACTTGTGCGGGCTTTGATTGGGGTGCCGCCAACTTGTGTGGGCTTTGACA
1 ACTTGGGTGCCGCCAACTTGTGTGGGCTTTGATTGGGGTGCCGCCAACTCATGTGGGCTTTGACA
*
1151288 TTCTAAGGCTTAACCTCCTTAGATAGGTGCCAACCAATATGGACTTGACTCAAACTTAGGTGCCA
66 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACCAATATGGACTTGACTCAAACTTAGGTGCCA
*
1151353 CCAACTCGTGTGGGCTTTG
131 CCAACTCATGTGGGCTTTG
* * * * * *
1151372 ACTTGGGTGTCGCCAACTTGTGTGGGCTTTGATTGGGATGCCACTAATTCGTGTAGGGCTTTGAC
1 ACTTGGGTGCCGCCAACTTGTGTGGGCTTTGATTGGGGTGCCGCCAACTCATGT-GGGCTTTGAC
1151437 TAGGGTGCCA
Statistics
Matches: 186, Mismatches: 27, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
149 176 0.95
150 10 0.05
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (149 bp):
ACTTGGGTGCCGCCAACTTGTGTGGGCTTTGATTGGGGTGCCGCCAACTCATGTGGGCTTTGACA
TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACCAATATGGACTTGACTCAAACTTAGGTGCCA
CCAACTCATGTGGGCTTTG
Found at i:1151395 original size:31 final size:31
Alignment explanation
Indices: 1151346--1151833 Score: 265
Period size: 31 Copynumber: 15.9 Consensus size: 31
1151336 CTCAAACTTA
* *
1151346 GGTGCCACCAACTCGTGTGGGCTTTGACTTG
1 GGTGCCACCAATTCGTGTGGGCTTTGACTAG
* * *
1151377 GGTGTCGCCAACTT-GTGTGGGCTTTGA-TTG
1 GGTGCCACCAA-TTCGTGTGGGCTTTGACTAG
*
1151407 GGATGCCACTAATTCGTGTAGGGCTTTGACTAG
1 GG-TGCCACCAATTCGTGT-GGGCTTTGACTAG
* *
1151440 GGTGCCACCAATTCATGTGGGCTTTAACTAG
1 GGTGCCACCAATTCGTGTGGGCTTTGACTAG
* *
1151471 GGTGCCACCAATTCGTATGGGCTTTAACTAG
1 GGTGCCACCAATTCGTGTGGGCTTTGACTAG
* * *
1151502 GGTGCCACCAATTCATATGGGCTTTGACTCG
1 GGTGCCACCAATTCGTGTGGGCTTTGACTAG
*
1151533 GGTGCCACCAACTCGTGTGGGCTTTGAC-A-
1 GGTGCCACCAATTCGTGTGGGCTTTGACTAG
* * ** * *****
1151562 --T---TCTAAGGCTTAACCTCTTTAGAC-A-
1 GGTGCCACCAATTCGTGTGGGCTTT-GACTAG
* ** *** ***
1151587 GGTGCCAACCAATGTGGACTTTACTCAAACTTA-
1 GGTGCC-ACCAAT-TCGTGTGGGCTTTGAC-TAG
*** * *
1151620 GGTGCTTTCAACTCGTGTGGGCTTTGACTTG
1 GGTGCCACCAATTCGTGTGGGCTTTGACTAG
* *
1151651 GGTGCCGCCAACTT-GTGCGGGCTTTGACTAG
1 GGTGCCACCAA-TTCGTGTGGGCTTTGACTAG
* * *
1151682 GATCCCACCAATTCGTGTGGGATTTGACTAG
1 GGTGCCACCAATTCGTGTGGGCTTTGACTAG
* *
1151713 GGTGCCACCAATTCGTGTGGGCTTGGACTCG
1 GGTGCCACCAATTCGTGTGGGCTTTGACTAG
** *
1151744 GGTGCCACCAACTT-GTGTGAACTTTGA-TTG
1 GGTGCCACCAA-TTCGTGTGGGCTTTGACTAG
* *
1151774 GGTTGCCACCAACTT-GTGCGGGCTTTGA-TTG
1 GG-TGCCACCAA-TTCGTGTGGGCTTTGACTAG
* *
1151805 GAGTGCCAGCAACTT-ATGTGGGCTTTGAC
1 G-GTGCCACCAA-TTCGTGTGGGCTTTGAC
1151834 ATTCTAAGGC
Statistics
Matches: 351, Mismatches: 84, Indels: 43
0.73 0.18 0.09
Matches are distributed among these distances:
24 9 0.03
25 4 0.01
27 2 0.01
30 14 0.04
31 279 0.79
32 33 0.09
33 10 0.03
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (31 bp):
GGTGCCACCAATTCGTGTGGGCTTTGACTAG
Found at i:1151576 original size:274 final size:272
Alignment explanation
Indices: 1150993--1151920 Score: 1078
Period size: 274 Copynumber: 3.4 Consensus size: 272
1150983 CTCGGACTTC
* *
1150993 GGTGCCACCAACTCGTGTGGACTTTGACATTCTCAA-GCTTAACCTCCTTAGACAAGTGCCAA-C
1 GGTGCCACCAACTCGTGTGGGCTTTGACATTCT-AAGGCTTAACCTCCTTAGACAGGTGCCAACC
* * * * *
1151056 TATGTGGACTTGACTCAAACTTAGGTGCCACTAACTCGTGTGGGCTTTGACTCGAGTGTCGCCAA
65 AATATGGACTTGACTCAAACTTAGGTGCCACCAACTCGTGTGGGCTTTGACTTGGGTGTCGCCAA
** *** * * * * * * * *
1151121 CTCATGTGGGCTTTGATATTCTAAGGC-TTAA--CCT-T---CTTAGGC-A-GGTGCCAACTATT
130 CTTGTGTGGGCTTTGAT-TAGGATGCCACTAATTCGTGTGGGCTTTGACTAGGGTGCCACCAATT
* * * * *
1151177 -GTGGACTTGACTTAAACTTA-GGTGCCACCAACTCATGTGGGCTTTGACTTGGGTGCCGCCAAC
194 CGT-G--TGGGCTTAAAC-TAGGGTGCCACCAATTCGTGTGGGCTTTGACTTGGGTGCCACCAAC
*
1151240 TTGTGCGGGCTTTGATTGG
255 TTGTGCGGGCTTTGA-TCG
* * *
1151259 GGTGCCGCCAACTTGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGATAGGTGCCAACCA
1 GGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACCA
1151324 ATATGGACTTGACTCAAACTTAGGTGCCACCAACTCGTGTGGGCTTTGACTTGGGTGTCGCCAAC
66 ATATGGACTTGACTCAAACTTAGGTGCCACCAACTCGTGTGGGCTTTGACTTGGGTGTCGCCAAC
*
1151389 TTGTGTGGGCTTTGATTGGGATGCCACTAATTCGTGTAGGGCTTTGACTAGGGTGCCACCAATTC
131 TTGTGTGGGCTTTGATTAGGATGCCACTAATTCGTGT-GGGCTTTGACTAGGGTGCCACCAATTC
* * * * * *
1151454 ATGTGGGCTTTAACTAGGGTGCCACCAATTCGTATGGGCTTTAACTAGGGTGCCACCAA-TTCAT
195 GTGTGGGCTTAAACTAGGGTGCCACCAATTCGTGTGGGCTTTGACTTGGGTGCCACCAACTT-GT
**
1151518 ATGGGCTTTGACTCG
259 GCGGGCTTTGA-TCG
*
1151533 GGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCTTTAGACAGGTGCCAACCA
1 GGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACCA
* * *** *
1151598 ATGTGGACTTTACTCAAACTTAGGTGCTTTCAACTCGTGTGGGCTTTGACTTGGGTGCCGCCAAC
66 ATATGGACTTGACTCAAACTTAGGTGCCACCAACTCGTGTGGGCTTTGACTTGGGTGTCGCCAAC
* * * * *
1151663 TTGTGCGGGCTTTGACTAGGATCCCACCAATTCGTGTGGGATTTGACTAGGGTGCCACCAATTCG
131 TTGTGTGGGCTTTGATTAGGATGCCACTAATTCGTGTGGGCTTTGACTAGGGTGCCACCAATTCG
** * **
1151728 TGTGGGCTTGGACTCGGGTGCCACCAACTT-GTGTGAACTTTGA-TTGGGTTGCCACCAACTTGT
196 TGTGGGCTTAAACTAGGGTGCCACCAA-TTCGTGTGGGCTTTGACTTGGG-TGCCACCAACTTGT
*
1151791 GCGGGCTTTGATTG
259 GCGGGCTTTGATCG
* ** *
1151805 GAGTGCCAGCAACTTATGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACT
1 G-GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACC
*
1151870 AATATGGACATGACTCAAACTTAGGTGCCACCAACTCGTGTGGGCTTTGAC
65 AATATGGACTTGACTCAAACTTAGGTGCCACCAACTCGTGTGGGCTTTGAC
1151921 ATTTTAAGGC
Statistics
Matches: 565, Mismatches: 78, Indels: 31
0.84 0.12 0.05
Matches are distributed among these distances:
265 2 0.00
266 58 0.10
267 79 0.14
269 2 0.00
270 1 0.00
272 7 0.01
273 185 0.33
274 217 0.38
275 1 0.00
276 12 0.02
277 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (272 bp):
GGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACCA
ATATGGACTTGACTCAAACTTAGGTGCCACCAACTCGTGTGGGCTTTGACTTGGGTGTCGCCAAC
TTGTGTGGGCTTTGATTAGGATGCCACTAATTCGTGTGGGCTTTGACTAGGGTGCCACCAATTCG
TGTGGGCTTAAACTAGGGTGCCACCAATTCGTGTGGGCTTTGACTTGGGTGCCACCAACTTGTGC
GGGCTTTGATCG
Found at i:1152053 original size:42 final size:42
Alignment explanation
Indices: 1151996--1152280 Score: 365
Period size: 42 Copynumber: 6.7 Consensus size: 42
1151986 GGGGGCGCCC
* * **
1151996 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAGTGGGTAA
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATCAAGTGCGTCT
* * * *
1152038 TGCTCCTTGAAGACAAAGGAAAAAAGGAAATAAAGTGCATCT
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATCAAGTGCGTCT
* * * *
1152080 TGCTCTTTAAGGACAAAGGAGAAAATGAAATCAAGTGCGTCC
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATCAAGTGCGTCT
* * *
1152122 TACTCTTTAAGGACAAAGGAAAAAAAGGAAATCAAGGGCGTCT
1 TGCTCTTTGAGGACAAAGG-AAAAAAGGAAATCAAGTGCGTCT
*
1152165 TGCTCTTTGAGGACAAAGGAGAAAAGGAAATCAAGTGCGTCT
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATCAAGTGCGTCT
* *
1152207 TGCTCTTTGAGGACAAAGGAGAAAAGGAAAT-AGAGTGCGTCC
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATCA-AGTGCGTCT
*
1152249 TGCTCTTTGAGGACAAAGGGAAAAAAAGAAAT
1 TGCTCTTTGAGGACAAA-GGAAAAAAGGAAAT
1152281 GCGTCTTGCT
Statistics
Matches: 213, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
41 1 0.00
42 164 0.77
43 48 0.23
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (42 bp):
TGCTCTTTGAGGACAAAGGAAAAAAGGAAATCAAGTGCGTCT
Found at i:1152183 original size:127 final size:127
Alignment explanation
Indices: 1151998--1152280 Score: 403
Period size: 127 Copynumber: 2.2 Consensus size: 127
1151988 GGGCGCCCTG
*
1151998 CTCTTTGAGGACAAAGG-AAAAAAGGAAATGAAGTGGGTAATGCTCCTTGAAGACAAAGGAAAAA
1 CTCTTTGAGGACAAAGGAAAAAAAGGAAATCAAGTGGGTAATGCTCCTTGAAGACAAAGGAAAAA
*
1152062 AGGAAATAAAGTGCATCTTGCTCTTTAAGGACAAAGGAGAAAATGAAATCA-AGTGCGTCCTA
66 AGGAAATAAAGTGCATCTTGCTCTTTAAGGACAAAGGAGAAAAGGAAAT-AGAGTGCGTCCTA
* ** * * *
1152124 CTCTTTAAGGACAAAGGAAAAAAAGGAAATCAAG-GGCGTCTTGCTCTTTGAGGACAAAGGAGAA
1 CTCTTTGAGGACAAAGGAAAAAAAGGAAATCAAGTGG-GTAATGCTCCTTGAAGACAAAGGAAAA
* * * *
1152188 AAGGAAATCAAGTGCGTCTTGCTCTTTGAGGACAAAGGAGAAAAGGAAATAGAGTGCGTCCTG
65 AAGGAAATAAAGTGCATCTTGCTCTTTAAGGACAAAGGAGAAAAGGAAATAGAGTGCGTCCTA
1152251 CTCTTTGAGGACAAAGGGAAAAAAA-GAAAT
1 CTCTTTGAGGACAAA-GGAAAAAAAGGAAAT
1152281 GCGTCTTGCT
Statistics
Matches: 140, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
126 19 0.14
127 112 0.80
128 9 0.06
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.19
Consensus pattern (127 bp):
CTCTTTGAGGACAAAGGAAAAAAAGGAAATCAAGTGGGTAATGCTCCTTGAAGACAAAGGAAAAA
AGGAAATAAAGTGCATCTTGCTCTTTAAGGACAAAGGAGAAAAGGAAATAGAGTGCGTCCTA
Found at i:1152345 original size:34 final size:33
Alignment explanation
Indices: 1152302--1152379 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 33
1152292 TTTGAAGACT
*
1152302 AAAAGGTGCCACAAAGTTGTGGA-TTTAAAAAGGA
1 AAAAGGTGCCACAAAGTTATGGACTTT-AAAA-GA
*
1152336 AAAAGGTGCCACAGAGTTATGGACTTTAAAAGA
1 AAAAGGTGCCACAAAGTTATGGACTTTAAAAGA
1152369 AAAA-GTGCCAC
1 AAAAGGTGCCAC
1152380 TGGGGGTCGC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 7 0.17
33 6 0.15
34 25 0.61
35 3 0.07
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (33 bp):
AAAAGGTGCCACAAAGTTATGGACTTTAAAAGA
Found at i:1162105 original size:152 final size:150
Alignment explanation
Indices: 1161827--1162105 Score: 375
Period size: 152 Copynumber: 1.8 Consensus size: 150
1161817 ATACTCCTCA
* *
1161827 TTGGGATACATGATATTGATGCTTTGGCTTCACAAGAAAAGCTTTTCTTTGACCATTTTTCTTAA
1 TTGGGATACATGACATTGATGCTTTGGCTTCACAAGAAAAGCTTTTCTTTCACCATTTTTCTTAA
* * ** * *
1161892 AATCAAAGTTCATCTCTCAAATGAGACAAACATGGATTCTTGTAATAGTCTCCACTCTTTTCGAA
66 AATCAAAGTTCATCCCTAAAATGAGACAAACATGGATTCTCATAATAATCTCCACTATTTTCGAA
1161957 TTGGGCACCAAAAATCCTAT
131 TTGGGCACCAAAAATCCTAT
** * *
1161977 TTGGGATACATGACATTGATTG-TTTGGCTTTGCAAGCAAAGCTTTTTTTTACCACCATTTTT-T
1 TTGGGATACATGACATTGA-TGCTTTGGCTTCACAAGAAAAGCTTTTCTTT--CACCATTTTTCT
*
1162040 ATAAAATCAAAGTTCATCCCTAAAATGAGACAAACATGGATTCTCATAATAATGC-CCATTATTT
63 -TAAAATCAAAGTTCATCCCTAAAATGAGACAAACATGGATTCTCATAATAAT-CTCCACTATTT
1162104 TC
126 TC
1162106 AAGATTAAGC
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
150 42 0.38
151 3 0.03
152 65 0.59
153 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (150 bp):
TTGGGATACATGACATTGATGCTTTGGCTTCACAAGAAAAGCTTTTCTTTCACCATTTTTCTTAA
AATCAAAGTTCATCCCTAAAATGAGACAAACATGGATTCTCATAATAATCTCCACTATTTTCGAA
TTGGGCACCAAAAATCCTAT
Found at i:1169078 original size:28 final size:28
Alignment explanation
Indices: 1169047--1169107 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
1169037 TTCTTTATTG
*
1169047 ATTTC-TTTCTCTTTGAAATTTCTTGCTT-
1 ATTTCGTTTC-CTTTCAAATTTCTTG-TTA
*
1169075 ATTTCGTTTCCTTTCATATTTCTTGTTA
1 ATTTCGTTTCCTTTCAAATTTCTTGTTA
1169103 ATTTC
1 ATTTC
1169108 ACTTCCTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 2 0.07
28 23 0.79
29 4 0.14
ACGTcount: A:0.15, C:0.18, G:0.07, T:0.61
Consensus pattern (28 bp):
ATTTCGTTTCCTTTCAAATTTCTTGTTA
Found at i:1175737 original size:157 final size:154
Alignment explanation
Indices: 1175444--1175991 Score: 463
Period size: 151 Copynumber: 3.5 Consensus size: 154
1175434 TTTTCCTAAA
* * *
1175444 AATCAAAGTTAATCCCTTAAATGAGACAAATATGGATTCTCATAATAGTCT-CATTTCTTTTCGA
1 AATCAAAGTTCATCCCTTAAATAAGACAAAT-TGGATTCTCATAATAATCTCCA-TTCTTTTC-A
* * * * * * **
1175508 -GATTGAGAACCAAAAACATGTTTCCTTCATTGGGATACACGACATTGATGCTTT-GATGTCGCA
63 TGATTGGGCACCATAAACATGTTTCC-TCATTGGG-TACATGACATTGATGATTTGGCT-TTACA
*
1175571 AGAAAGCTTTTTTTCTTCTATTTTTGATAG
125 AGAAAGCTTTTTTTCTTCTATTTTTCATAG
** * * *
1175601 AATCAAAGTTTGTCCCTAAAATAAGACAAACTTGGATTGTCATAACAATCTCCA-TCTTTTCATG
1 AATCAAAGTTCATCCCTTAAATAAGACAAA-TTGGATTCTCATAATAATCTCCATTCTTTTCATG
*
1175665 ATTGGGCACCATAAACATGTTCTCCTCATTGGGCTACATGATATTGATGATTTGGCTTTACAAGA
65 ATTGGGCACCATAAACATGTT-TCCTCATTGGG-TACATGACATTGATGATTTGGCTTTACAAGA
*** * * *
1175730 AATGCTTTTCTTTGACCTATTTTCCTTAA
128 AA-GCTTTT-TTTCTTCTATTTTTCATAG
* * * ** * * **
1175759 AATCAAAGTTCATCCTTTAAATAAGACAAACTAGATTCTTGTAATATTCTCCATTTTTTTTGTGA
1 AATCAAAGTTCATCCCTTAAATAAGACAAATTGGATTCTCATAATAATCTCCATTCTTTTCATGA
* *
1175824 TTGGGCACCA-AAA-A----TCCTCATTGTGGTGCATGACATTGATGGTTTGGCTTTACAAGGAA
66 TTGGGCACCATAAACATGTTTCCTCATTG-GGTACATGACATTGATGATTTGGCTTTACAA-GAA
*
1175883 AGCTTTTTTTACCTTC-ATTTTTTATAG
129 AGCTTTTTTT--CTTCTATTTTTCATAG
* * * * * * * *
1175910 AATCAAAGTTCGTCTCTCAAATTAGACAAATAGGAATTCTCATAATAATCCCCATTCTTCTCAAG
1 AATCAAAGTTCATCCCTTAAATAAGACAAATTGG-ATTCTCATAATAATCTCCATTCTTTTCATG
1175975 A-TGAGGCACCATAAACA
65 ATTG-GGCACCATAAACA
1175992 CATTTTTCTC
Statistics
Matches: 310, Mismatches: 65, Indels: 35
0.76 0.16 0.09
Matches are distributed among these distances:
150 3 0.01
151 76 0.25
152 36 0.12
153 3 0.01
154 1 0.00
155 1 0.00
156 59 0.19
157 72 0.23
158 59 0.19
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (154 bp):
AATCAAAGTTCATCCCTTAAATAAGACAAATTGGATTCTCATAATAATCTCCATTCTTTTCATGA
TTGGGCACCATAAACATGTTTCCTCATTGGGTACATGACATTGATGATTTGGCTTTACAAGAAAG
CTTTTTTTCTTCTATTTTTCATAG
Found at i:1175825 original size:158 final size:152
Alignment explanation
Indices: 1175302--1175896 Score: 415
Period size: 158 Copynumber: 3.8 Consensus size: 152
1175292 TATTGATGCT
* * * *
1175302 TTAAATAAGACAAACATGGATTCT-AGTAATGATCTTCATTTTTGT-GTAATTAGGCACCATAAA
1 TTAAATAAGACAAACATAGATTCTCA-TAAT-ATCTCCATTTTT-TCGTGATTGGGCACCAT-AA
* * * * * * * * *
1175365 CACAT-TTTCTTTATTAGTATACATGATATTGATCATTTGTTTTCATAAGAAAAGCTTTTCATTA
62 -ACATGTTTCCTCATTGGGATACATGACATTGATGATTTGCTTT-ACAAG-AAAGCTTTT-TTTA
* *
1175429 CCCCATTTTCCTAAAAATCAAAGTTAATCCC
123 -CCTATTTTCCTTAAAATCAAAGTTAATCCC
* * * * * * *
1175460 TTAAATGAGACAAATATGGATTCTCATAATAGTCT-CATTTCTTTTCGAGATTGAGAACCAAAAA
1 TTAAATAAGACAAACATAGATTCTCATAATA-TCTCCA-TT-TTTTCGTGATTGGGCACCATAAA
* * * **
1175524 CATGTTTCCTTCATTGGGATACACGACATTGATGCTTTGATGTCGCAAGAAAGCTTTTTTT-CTT
63 CATGTTTCC-TCATTGGGATACATGACATTGATGATTTGCT-TTACAAGAAAGCTTTTTTTAC--
*** * **
1175588 CTATTTTTGATAGAATCAAAGTTTGTCCC
124 CTATTTTCCTTAAAATCAAAGTTAATCCC
* * * * * * *
1175617 TAAAATAAGACAAACTTGGATTGTCATAACAATCTCCATCTTTTCATGATTGGGCACCATAAACA
1 TTAAATAAGACAAACATAGATTCTCATAA-TATCTCCATTTTTTCGTGATTGGGCACCATAAACA
* *
1175682 TGTTCTCCTCATTGGGCTACATGATATTGATGATTTGGCTTTACAAGAAATGCTTTTCTTTGACC
65 TGTT-TCCTCATTGGGATACATGACATTGATGATTT-GCTTTACAAGAAA-GCTTTT-TTT-ACC
* *
1175747 TATTTTCCTTAAAATCAAAGTTCATCCT
125 TATTTTCCTTAAAATCAAAGTTAATCCC
** *
1175775 TTAAATAAGACAAAC-TAGATTCTTGTAATATTCTCCATTTTTTTTGTGATTGGGCACCA-AAA-
1 TTAAATAAGACAAACATAGATTCTCATAATA-TCTCCA-TTTTTTCGTGATTGGGCACCATAAAC
* *
1175837 A----TCCTCATTGTGG-TGCATGACATTGATGGTTTGGCTTTACAAGGAAAGCTTTTTTTACCT
64 ATGTTTCCTCATTG-GGATACATGACATTGATGATTT-GCTTTACAA-GAAAGCTTTTTTTACCT
1175897 TCATTTTTTA
Statistics
Matches: 348, Mismatches: 67, Indels: 53
0.74 0.14 0.11
Matches are distributed among these distances:
149 4 0.01
150 3 0.01
151 41 0.12
152 6 0.02
155 1 0.00
156 58 0.17
157 87 0.25
158 107 0.31
159 39 0.11
160 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (152 bp):
TTAAATAAGACAAACATAGATTCTCATAATATCTCCATTTTTTCGTGATTGGGCACCATAAACAT
GTTTCCTCATTGGGATACATGACATTGATGATTTGCTTTACAAGAAAGCTTTTTTTACCTATTTT
CCTTAAAATCAAAGTTAATCCC
Found at i:1184164 original size:15 final size:15
Alignment explanation
Indices: 1184126--1184165 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1184116 CAAGAATACA
1184126 AAAAAAAAAAGAAAG
1 AAAAAAAAAAGAAAG
* * *
1184141 AATACAAAAAGAGAG
1 AAAAAAAAAAGAAAG
1184156 AAAAAAAAAA
1 AAAAAAAAAA
1184166 CCAGTATTTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAGAAAG
Found at i:1184934 original size:12 final size:11
Alignment explanation
Indices: 1184912--1184987 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1184902 AGAGAAAGAA
*
1184912 GAGAGAGGAGG
1 GAGATAGGAGG
1184923 GATGATAGGAGG
1 GA-GATAGGAGG
*
1184935 AGAGACAGGA--
1 -GAGATAGGAGG
*
1184945 GAGATAGTA--
1 GAGATAGGAGG
1184954 GAGATAGGAGG
1 GAGATAGGAGG
1184965 GATGATAGGAGG
1 GA-GATAGGAGG
*
1184977 AGAGACAGGAG
1 -GAGATAGGAG
1184988 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1184963 original size:42 final size:42
Alignment explanation
Indices: 1184902--1185020 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
1184892 TAGCCCTCAA
* *
1184902 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1184944 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1184986 AGAGATAATAGAGAGAGGAGGGATGATAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1185021 GAGAGAAGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.43, C:0.02, G:0.46, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1185004 original size:18 final size:18
Alignment explanation
Indices: 1184977--1185026 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
1184967 TGATAGGAGG
*
1184977 AGAGACAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
* *
1184995 AGAGAGAGGAGGGATGAT
1 AGAGAGAGGAGAGATAAT
1185013 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
1185027 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.44, C:0.02, G:0.46, T:0.08
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:1191616 original size:12 final size:12
Alignment explanation
Indices: 1191601--1191676 Score: 60
Period size: 12 Copynumber: 6.8 Consensus size: 12
1191591 CTATTATTAA
1191601 TCCTATCTCTCC
1 TCCTATCTCTCC
1191613 TCCTATCATC-CC
1 TCCTATC-TCTCC
*
1191625 GCCTA--TCT-C
1 TCCTATCTCTCC
*
1191634 TACTA--TCT-C
1 TCCTATCTCTCC
1191643 TCCTATCTCTCC
1 TCCTATCTCTCC
1191655 TCCTATCATC-CC
1 TCCTATC-TCTCC
1191667 TCCTATCTCT
1 TCCTATCTCT
1191677 ACTATCTCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
9 14 0.26
11 5 0.09
12 30 0.57
13 4 0.08
ACGTcount: A:0.13, C:0.46, G:0.01, T:0.39
Consensus pattern (12 bp):
TCCTATCTCTCC
Found at i:1191649 original size:18 final size:18
Alignment explanation
Indices: 1191626--1191693 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 18
1191616 TATCATCCCG
1191626 CCTATCTCTACTATCTCT
1 CCTATCTCTACTATCTCT
*
1191644 CCTATCTCTCCTCCTATCATCCCT
1 CCTA--TCT-CTACTATC-T--CT
1191668 CCTATCTCTACTATCTCT
1 CCTATCTCTACTATCTCT
*
1191686 CTTATCTC
1 CCTATCTC
1191694 CCCTCCTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
18 13 0.32
20 4 0.10
21 14 0.34
22 4 0.10
24 6 0.15
ACGTcount: A:0.15, C:0.43, G:0.00, T:0.43
Consensus pattern (18 bp):
CCTATCTCTACTATCTCT
Found at i:1191727 original size:42 final size:42
Alignment explanation
Indices: 1191563--1191718 Score: 215
Period size: 42 Copynumber: 3.7 Consensus size: 42
1191553 CATCTTCTAC
* * * *
1191563 TCTCTTCCTCCTGTCATCCCTCCTTTCTCTATTAT-TAATCCTA
1 TCTC-TCCTCCTATCATCCCTCCTATCTCTACTATCT-CTCCTA
*
1191606 TCTCTCCTCCTATCATCCCGCCTATCTCTACTATCTCTCCTA
1 TCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTA
*
1191648 TCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCTTA
1 TCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTA
* *
1191690 TCTCCCCTCCTATTATCCCTCCTATCTCT
1 TCTCTCCTCCTATCATCCCTCCTATCTCT
1191719 TTTTTCTCTT
Statistics
Matches: 103, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
42 98 0.95
43 5 0.05
ACGTcount: A:0.13, C:0.43, G:0.01, T:0.42
Consensus pattern (42 bp):
TCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTA
Found at i:1194614 original size:12 final size:11
Alignment explanation
Indices: 1194597--1194654 Score: 52
Period size: 12 Copynumber: 5.4 Consensus size: 11
1194587 AAGAAGGGAG
1194597 AGGAGGGATGAT
1 AGGAGGGA-GAT
1194609 AGGAGGAGAGAT
1 AGGAGG-GAGAT
1194621 AGGA--GAGAT
1 AGGAGGGAGAT
*
1194630 AGTA--GAGAT
1 AGGAGGGAGAT
1194639 AGGAGGGATGAT
1 AGGAGGGA-GAT
1194651 AGGA
1 AGGA
1194655 TGAGAGACAG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 16 0.40
11 2 0.05
12 20 0.50
13 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.47, T:0.14
Consensus pattern (11 bp):
AGGAGGGAGAT
Found at i:1194637 original size:11 final size:9
Alignment explanation
Indices: 1194612--1194643 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
1194602 GGATGATAGG
1194612 AGGAGAGAT
1 AGGAGAGAT
1194621 AGGAGAGAT
1 AGGAGAGAT
*
1194630 AGTAGAGAT
1 AGGAGAGAT
1194639 AGGAG
1 AGGAG
1194644 GGATGATAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:1194638 original size:18 final size:18
Alignment explanation
Indices: 1194615--1194685 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 18
1194605 TGATAGGAGG
1194615 AGAGATAGGAGAGATAGT
1 AGAGATAGGAGAGATAGT
1194633 AGAGATAGGAGGGATGATAGGAT
1 AGAGATAGGA--GA-GATA-G-T
* *
1194656 GAGAGACAGGAGAGATAAT
1 -AGAGATAGGAGAGATAGT
*
1194675 AGAGAGAGGAG
1 AGAGATAGGAG
1194686 GGATGACAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
18 20 0.45
19 1 0.02
20 2 0.05
21 8 0.18
22 3 0.07
23 1 0.02
24 9 0.20
ACGTcount: A:0.44, C:0.01, G:0.42, T:0.13
Consensus pattern (18 bp):
AGAGATAGGAGAGATAGT
Found at i:1194644 original size:42 final size:42
Alignment explanation
Indices: 1194594--1194700 Score: 169
Period size: 42 Copynumber: 2.5 Consensus size: 42
1194584 AGAAAGAAGG
* *
1194594 GAGAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAGTAGA
1 GAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAGA
* *
1194636 GATAGGAGGGATGATAGGATGAGAGACAGGAGAGATAATAGA
1 GAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAGA
*
1194678 GAGAGGAGGGATGACAGGAGGAG
1 GAGAGGAGGGATGATAGGAGGAG
1194701 GAGAGAAGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.40, C:0.02, G:0.47, T:0.11
Consensus pattern (42 bp):
GAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAGA
Found at i:1200628 original size:12 final size:11
Alignment explanation
Indices: 1200606--1200681 Score: 61
Period size: 12 Copynumber: 6.9 Consensus size: 11
1200596 AGAGAAAGAA
*
1200606 GAGAGAGGAGG
1 GAGATAGGAGG
1200617 GATGATAGGAGG
1 GA-GATAGGAGG
1200629 AGAGATAGGA--
1 -GAGATAGGAGG
*
1200639 GAGATAGTA--
1 GAGATAGGAGG
1200648 GAGATAGGAGG
1 GAGATAGGAGG
1200659 GATGATAGGAGG
1 GA-GATAGGAGG
*
1200671 AGAGACAGGAG
1 -GAGATAGGAG
1200682 AGATAATAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
9 16 0.29
11 4 0.07
12 31 0.56
13 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.49, T:0.11
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1200642 original size:33 final size:30
Alignment explanation
Indices: 1200596--1200686 Score: 76
Period size: 33 Copynumber: 2.8 Consensus size: 30
1200586 TAGCCCTCAA
* *
1200596 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGG
1 AGAGATAGGAGAGAGAGGA--GA-GATAGGAGG
* *
1200629 AGAGATAGGAGAGATAGTAGAGATAGGAGG
1 AGAGATAGGAGAGAGAGGAGAGATAGGAGG
1200659 -GATGATAGGAGGAGAGACAGGAGAGATA
1 AGA-GATAGGA-GAGAG--AGGAGAGATA
1200687 ATAGAGAGAG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
29 2 0.04
30 16 0.33
31 6 0.12
33 24 0.50
ACGTcount: A:0.44, C:0.01, G:0.45, T:0.10
Consensus pattern (30 bp):
AGAGATAGGAGAGAGAGGAGAGATAGGAGG
Found at i:1200651 original size:11 final size:9
Alignment explanation
Indices: 1200626--1200686 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
1200616 GGATGATAGG
1200626 AGGAGAGAT
1 AGGAGAGAT
1200635 AGGAGAGAT
1 AGGAGAGAT
*
1200644 AGTAGAGAT
1 AGGAGAGAT
*
1200653 AGGAGGGAT
1 AGGAGAGAT
* *
1200662 --GATAG-G
1 AGGAGAGAT
*
1200668 AGGAGAGAC
1 AGGAGAGAT
1200677 AGGAGAGAT
1 AGGAGAGAT
1200686 A
1 A
1200687 ATAGAGAGAG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 33 0.82
ACGTcount: A:0.43, C:0.02, G:0.44, T:0.11
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:1200657 original size:42 final size:42
Alignment explanation
Indices: 1200596--1200714 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1200586 TAGCCCTCAA
* * *
1200596 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1200638 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1200680 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1200715 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.43, C:0.02, G:0.46, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1211620 original size:42 final size:42
Alignment explanation
Indices: 1211559--1211690 Score: 185
Period size: 42 Copynumber: 3.1 Consensus size: 42
1211549 TAGCCCTCAA
* * *
1211559 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
*
1211601 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
* * *
1211643 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAGGAGAGAAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGA-GAGACAAG
1211686 A-AGAT
1 AGAGAT
1211691 GGAAGAGTGA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 73 0.90
43 8 0.10
ACGTcount: A:0.45, C:0.02, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
Found at i:1220608 original size:9 final size:9
Alignment explanation
Indices: 1220596--1220665 Score: 74
Period size: 9 Copynumber: 8.1 Consensus size: 9
1220586 CTCTCTCTAT
1220596 TATCTCTCC
1 TATCTCTCC
1220605 TATCTCTCC
1 TATCTCTCC
* *
1220614 T-CCTAT-C
1 TATCTCTCC
* *
1220621 -ATCCCTTC
1 TATCTCTCC
*
1220629 TATCTCTAC
1 TATCTCTCC
1220638 TATCTCTCC
1 TATCTCTCC
1220647 TATCTCTCC
1 TATCTCTCC
1220656 TATCTCTCC
1 TATCTCTCC
1220665 T
1 T
1220666 CTTATCGTCC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
7 3 0.06
8 4 0.08
9 43 0.86
ACGTcount: A:0.13, C:0.43, G:0.00, T:0.44
Consensus pattern (9 bp):
TATCTCTCC
Found at i:1220623 original size:42 final size:42
Alignment explanation
Indices: 1220568--1220656 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
1220558 TTCTTCTCTC
* * *
1220568 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
*
1220610 CTCCTCCTATCATCCCTTCTATCTCTACTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
1220652 CTCCT
1 CTCCT
1220657 ATCTCTCCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.11, C:0.45, G:0.01, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
Found at i:1220651 original size:51 final size:51
Alignment explanation
Indices: 1220596--1220695 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 51
1220586 CTCTCTCTAT
*
1220596 TATCTCTCCTATCTCTCCTCCTATCATCCCTTCTATCTCTACTATCTCTCC
1 TATCTCTCCTATCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCC
* * * *
1220647 TATCTCTCCTATCTCTCCTCTTATCGTCCCTCCTATCTCTTCTTTCTCT
1 TATCTCTCCTATCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCT
1220696 TTGAGGGCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.11, C:0.42, G:0.01, T:0.46
Consensus pattern (51 bp):
TATCTCTCCTATCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCC
Found at i:1222902 original size:638 final size:643
Alignment explanation
Indices: 1221660--1222944 Score: 2097
Period size: 638 Copynumber: 2.0 Consensus size: 643
1221650 CTTGAGATGG
* * * *
1221660 ATTTCTAACAATAAATAGAATTATTGATGCAAGAACAGAAATTGAAAGAAGCAGAAAAAAATAGC
1 ATTTCTAACAACAAACAGAATTATTAATGCAAGAACAGAAATTGAAAGAAGCAGAAAAAAATAAC
*
1221725 AAAATGGAATAGTTTAGAGATGAAGGATGGCGCCACAATCACAAGATTGATAAGCCAAAAAGAAT
66 AAAATGGAATA--TTAGAGATGAAGGATGGCACCACAATCACAAGATTGATAAGCCAAAAAGAAT
* * *
1221790 GATTGCCACAAGAGTCTTGGCCTCTTGATAAGATCCAGAAAAATTGGCTCACTTAAGAATCTAAG
129 GATTGCCACAAGAGTCTTGGCCTCCTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAG
* * *
1221855 AATCACACTCTCACACAAAATGTGTTTAATTTGCAAATATTAATGTCTATCCCCTCCAAATCTGT
194 AATCACACTCT-ACACAAAATGTGTTTAATCTGCAAATATCAATGTCTAGCCCCTCCAAATCTGT
*
1221920 TTACAAGAGCTTATATATGCCCTCATAAGCCATCGTTAACACAAACCCTAAGGGGCTTATTATTC
258 TTACAAGAGCTTATATATGCCCTCATAAGCCATCGTTAACACAAACCCTAAGGGGCTTATTATGC
1221985 TAACAAGCCCAACTCTTAGTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAA
323 TAACAAGCCCAAC-CTTAGTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAA
1222050 GTCACAACCAGCAGGCCCTTTATTACAAAATAACCTAAGTCCTAATTCAATCCATTGGAGCCCAT
387 GTCACAACCAGCAGGCCCTTTATTACAAAATAACCTAAGTCCTAATTCAATCCATTGGAGCCCAT
1222115 ATCTTCCAAATATATGCATTAACTAGCTTGGGCTCCTCTAACTCCAAATTGGGTCTACTTTCAAA
452 ATCTTCCAAATATATGCATTAACTAGCTTGGGCTCCTCTAACTCCAAATTGGGTCTACTTTCAAA
1222180 TAGGCCAGCAACCATCTTCTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCTCATCATTGGTC
517 TAGGCCAGCAACCATCTTCTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCTCATCATTGGTC
* *
1222245 CTTGAAACCCTTCCAATGCCTTCAGGTCATTGTATTTAATGGACCTTGC-TTGGTTTTCATCA
582 CTTGAAACCCTTCCAATGCCTTCAGGTCATTGTATTCAATGGACCTT-CATTGGTTCTCATCA
* * *
1222307 ATTTCTAACAACAAACAGAATTATTAATGCAATAATAGGAATTGAAAGAAGCAG-AAAAAATAAC
1 ATTTCTAACAACAAACAGAATTATTAATGCAAGAACAGAAATTGAAAGAAGCAGAAAAAAATAAC
*
1222371 AAAACTGG-A-A-TAGAGATGAAGGATGGCACCACAATCACAAGATTGATAAGCCAAAAGGAATG
66 AAAA-TGGAATATTAGAGATGAAGGATGGCACCACAATCACAAGATTGATAAGCCAAAAAGAATG
* * * *
1222433 ATTGCCACAAGAGTCTTGGCCTCCTGATAAGATCTAGAAACATTGGTTTACTCAAGAACCTAAGA
130 ATTGCCACAAGAGTCTTGGCCTCCTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGA
**
1222498 ATCACACTCT-CACAAAATGTGTTTAATCTGCAAATATCAA-GTCT-GCCTCCTTTAAATCTGTT
195 ATCACACTCTACACAAAATGTGTTTAATCTGCAAATATCAATGTCTAGCC-CCTCCAAATCTGTT
1222560 TACAAGAGCTTATATATGCCCTCATAAGCCATCGTTAACACAAACCCTAAGGGGCTTATTATGCT
259 TACAAGAGCTTATATATGCCCTCATAAGCCATCGTTAACACAAACCCTAAGGGGCTTATTATGCT
*
1222625 AACAAGCCCAA-CTTAGTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGTAAGT
324 AACAAGCCCAACCTTAGTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAAGT
* *
1222689 CACAACCAGCAGGCCCTTTATTACAAAATAATCC-AAGTCTTAATTCAATCCATTGGAGTCCATA
389 CACAACCAGCAGGCCCTTTATTACAAAATAA-CCTAAGTCCTAATTCAATCCATTGGAGCCCATA
* *
1222753 TCTTCCAAATATATGCAATTGACTAGCTTGGGCTCTTCTAACTCCAAATTGGGTCTACTTTCAAA
453 TCTTCCAAATATATGC-ATTAACTAGCTTGGGCTCCTCTAACTCCAAATTGGGTCTACTTTCAAA
* *
1222818 TAGGCCAGCATCCATCTTCTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCTCGTCATTGGTC
517 TAGGCCAGCAACCATCTTCTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCTCATCATTGGTC
* * *
1222883 CTTGAAA-CCTTGCCAATGCCTTTAGGTCTTTGTCTTCAATGGACCTTCATTGGTTCTCATCA
582 CTTGAAACCCTT-CCAATGCCTTCAGGTCATTGTATTCAATGGACCTTCATTGGTTCTCATCA
1222945 GACAAACATG
Statistics
Matches: 598, Mismatches: 34, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
637 132 0.22
638 163 0.27
639 91 0.15
640 28 0.05
642 118 0.20
645 1 0.00
646 14 0.02
647 51 0.09
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (643 bp):
ATTTCTAACAACAAACAGAATTATTAATGCAAGAACAGAAATTGAAAGAAGCAGAAAAAAATAAC
AAAATGGAATATTAGAGATGAAGGATGGCACCACAATCACAAGATTGATAAGCCAAAAAGAATGA
TTGCCACAAGAGTCTTGGCCTCCTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAA
TCACACTCTACACAAAATGTGTTTAATCTGCAAATATCAATGTCTAGCCCCTCCAAATCTGTTTA
CAAGAGCTTATATATGCCCTCATAAGCCATCGTTAACACAAACCCTAAGGGGCTTATTATGCTAA
CAAGCCCAACCTTAGTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAAGTCA
CAACCAGCAGGCCCTTTATTACAAAATAACCTAAGTCCTAATTCAATCCATTGGAGCCCATATCT
TCCAAATATATGCATTAACTAGCTTGGGCTCCTCTAACTCCAAATTGGGTCTACTTTCAAATAGG
CCAGCAACCATCTTCTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCTCATCATTGGTCCTTG
AAACCCTTCCAATGCCTTCAGGTCATTGTATTCAATGGACCTTCATTGGTTCTCATCA
Found at i:1225022 original size:159 final size:155
Alignment explanation
Indices: 1223022--1227801 Score: 958
Period size: 158 Copynumber: 30.8 Consensus size: 155
1223012 ATGCATGACC
* * * * * * * * *
1223022 TTGATGATTTGGCTTTGCGAGGAAAACTTTTTTTACCATAATTTTCCATAGAATCATAGTTCGTT
1 TTGATGATTT-GCTTTGCAAGGAAAGCTTTTTTTGCCCT-ATTTTCCTTAAAATCAAAGTTCATC
* * * * * * *
1223087 TCTTAAATGAGACAAACATGGATTCTCATAATAATCCCTATTATTTTCAAGATTAGGCACCATAA
64 CCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCGAGATTGGGCACCATAA
* ** ** *
1223152 AATCATTCTTTTTCATTAAAATACTTGTTA
129 AA-CA-T-TTTCTCATTAGGATACACGATA
* * * * * * **
1223182 TTGAT-ACTTTAG-TTT-CATAAGAAAGGCTTTTCTTCCCACCATTTT-TTGTAAAGTCTTAGTT
1 TTGATGA-TTT-GCTTTGCA-AGGAAA-GCTTTTTTTGCC-CTATTTTCCT-TAAAATCAAAGTT
* * * * * * * * * *
1223243 CATGCCTCAAATAAGGCAGACAAGGACTCT-ACTAA-AGATCTTTTTTCTTTTC-ATGATTGGGC
60 CATCCCTTAAATGAGACAAATATGGATTCTCA-TAATAG-TCTCTATTCTTTTCGA-GATTGGGC
* *
1223305 ACCAT-AAACATATTCTCCTCATTAGAATACATGATA
122 ACCATAAAACAT-TT-T-CTCATTAGGATACACGATA
* ** * * *
1223341 ATGATGATTTGCTTTTGCAAGGAAAATTTTTTTCTACCCCATTTTCCTTAAAATCAAAGTTTATC
1 TTGATGATTTGC-TTTGCAAGGAAAGCTTTTTT-TGCCCTATTTTCCTTAAAATCAAAGTTCATC
* * * * * * ** *
1223406 GCTTACATGGGACAAATATAGATTCTCATAATACT-TTTCATT-TTTTC-ATGATTAAGAACCA-
64 CCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCT-ATTCTTTTCGA-GATTGGGCACCAT
** * * *
1223467 AAAACACGTTCCTT-TTGTTGGGATACAAGACA
127 AAAACA--TT--TTCTCATTAGGATACACGATA
* * * * * ** * **
1223499 TTGATGTTTTGGTGT-CATAAGAAAAGCTTTTCTTT-CCAC-AATTTCGATACAATCAAAGTTTG
1 TTGATGATTTGCTTTGC--AAGGAAAGCTTTT-TTTGCC-CTATTTTCCTTAAAATCAAAGTTCA
* * * ** * * * *
1223561 TCGCTCAAATGAGACAAACT-TGGATTGTTGTAACAATCTTTA-TCTTTTC-ATGATTGGGTACC
62 TCCCTTAAATGAGACAAA-TATGGATTCTCATAATAGTCTCTATTCTTTTCGA-GATTGGGCACC
* * * * *
1223623 AT-AAACA-CTCCTCATTGGGATATACTATA
125 ATAAAACATTTTCTCATTAGGATACACGATA
* * * * *
1223652 TTGATGCTTTGGC-TTCCTAGGAAAAGCTTTTCTTTGACATATTTTCCTTAAAATCAAAGTTCAT
1 TTGATGATTT-GCTTTGCAAGG-AAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAGTTCAT
* * ** ** * * * *
1223716 CTCTTGAATGAGACAAGCATGGATTCTTGTAATAGTCT-TCGTTCTTTTTGTGATTGGGTACC--
63 CCCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCT-ATTCTTTTCGAGATTGGGCACCAT
* * * *** *
1223778 AAAA-A--TCCTCATT-GCAATGCTTTACA
127 AAAACATTTTCTCATTAG-GATACACGATA
* * * * * * * * *
1223804 TTAATGGTTAGGCTTTGCAAGGAAAGC-TTTTTTACCACAATTTTTCATAAAATCGAAGGTCATC
1 TTGATGATT-TGCTTTGCAAGGAAAGCTTTTTTTGCC-CTATTTTCCTTAAAATCAAAGTTCATC
* * * ** * * * * * * *
1223868 TCTTAAATGAAAAAAACGTGAATTCTCATAATATTGC-CCATTATTTTCAAGATTAGGCACTATA
64 CCTTAAATGAGACAAATATGGATTCTCATAATAGT-CTCTATTCTTTTCGAGATTGGGCACCATA
*
1223932 AACACATTTTACTCATTAGGATACATGATA
128 AA-ACATTTT-CTCATTAGGATACACGATA
* * * * * * * * * * *
1223962 TTGATGCTTTGGTTT-CACA-AAATAGGCCTTTCTTCCCACCATTTTCCAT-AGATCCTAAGTCC
1 TTGATGATTTGCTTTGCA-AGGAA-A-GCTTTTTTTGCC-CTATTTTCCTTAAAAT-CAAAGTTC
* * * * *
1224024 GTGCCTTAAATGAGACAAACATTGATTCT-ATTAAT-GATCT-TCA-T-TTTT-AATGATTGGGC
61 ATCCCTTAAATGAGACAAATATGGATTCTCA-TAATAG-TCTCT-ATTCTTTTCGA-GATTGGGC
* * * * *
1224083 AGCATAAACACGTTCTCCTCTTTAGTG-TACACAATA
122 ACCATAAA-ACATT-TTCTCATTAG-GATACACGATA
* * * * * *
1224119 TTGATGATTTGTTTTTGTAAGGAATGCTTTCTTTGCCCAATTTTCCTTAAAATAAAAGTTCATCC
1 TTGATGATTTG-CTTTGCAAGGAAAGCTTTTTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCC
* * * * *
1224184 TTTAAATGAGATAAATATGGATTCTCGTAATAGTCTCCATTCGTTTT-GAGATTGGGAACCA-AA
65 CTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTC-TTTTCGAGATTGGGCACCATAA
* * * * *
1224247 AACACGTTTCCTTGATT-GGCTTACATGACA
129 AACA--TTTTC-TCATTAGG-ATACACGATA
* * * * * * ** * **
1224277 TTGATGCTTTGGTGTTGCAAGGAAAGTTTTTCTTTTCACTTTTTTCGATGAAATCAAAGTTTGTC
1 TTGATGATTTGCT-TTGCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAGTTCATC
* * * * ** * * *
1224342 CCTCAAATGAGACATACT-TGGGTTGTTGTAACAATCT-TCA-TCTTTTC-ATGATTAGGCACCA
64 CCTTAAATGAGACA-AATATGGATTCTCATAATAGTCTCT-ATTCTTTTCGA-GATTGGGCACCA
* *
1224403 TAAACACATTTTCCTCATTGGGATACACAATA
126 TAAA-ACATTTT-CTCATTAGGATACACGATA
* * *** * **
1224435 TT-ATTGCTTTTGCTTTGCAAGAAAAGCTTTTCTTAAACCTATTTTCCTTTAAATCAAAGTTGGT
1 TTGA-TG-ATTTGCTTTGCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAGTTCAT
* * * * * * *
1224499 CTCC-CAAATGAGATAAACTA-GGATTCTTATAACAGTCTCCATTATTTTC-ATGGTTGGGCA-C
63 C-CCTTAAATGAGACAAA-TATGGATTCTCATAATAGTCTCTATTCTTTTCGA-GATTGGGCACC
* * * * * *
1224560 -TAAAA-A--TCCTTATTGGGATATATGACA
125 ATAAAACATTTTCTCATTAGGATACACGATA
* * * * * * ** * ** * * *
1224587 TTAATGGTTTGGCTTTGTAAGTAAAGCTCTTTTTACCAAAATTTTTCACAGAATCAAAATTTATC
1 TTGATGATTT-GCTTTGCAAGGAAAGCTTTTTTTGCC-CTATTTTCCTTAAAATCAAAGTTCATC
* * * * * * * * *
1224652 TCTTAAATGAGACAAACAT-GATTCTCATAATA-ACCCCATTCATTTCAAGATTAGGCTCCAT-A
64 CCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCGAGATTGGGCACCATAA
* *
1224714 AACATAGTCTAT-TCATTAGGATATATGATA
129 AACAT--T-T-TCTCATTAGGATACACGATA
* * * * * * * * *
1224744 TTGATGCTTTGGTTT-CACAAGAAAGGCTTTTCTTCCCACCATTTTCCAT-AGAGCATAAGTTCA
1 TTGATGATTTGCTTTGCA-AGGAAA-GCTTTTTTTGCC-CTATTTTCCTTAAAATCA-AAGTTCA
* * * * * *
1224807 TGCCTTAACTGAGATAAACATGGATTCT-AGTAAT-GAACT-TCATTTTTTTC-ATGATTGGGCA
62 TCCCTTAAATGAGACAAATATGGATTCTCA-TAATAG-TCTCT-ATTCTTTTCGA-GATTGGGCA
** *
1224868 CCATAAACACATTTTCATCATTATTATACACAATA
123 CCATAAA-ACATTTTC-TCATTAGGATACACGATA
* * * *
1224903 TTGATGATTTGGTTTCGTAAGGAAAGCTTTTCTTTGCCCAAATTTCCTTAAAATCAAAGTTCATC
1 TTGATGATTTGCTTT-GCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAGTTCATC
* *
1224968 CCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTACGAGATTGGGAACCA-AA
64 CCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCGAGATTGGGCACCATAA
* *
1225032 AAC-TTGTTCCCTTCATTAAGG-TACATGACA
129 AACATT-TT--C-TCATT-AGGATACACGATA
* * * * * * * * ** *
1225062 TTGATGCTTTACTGTTGCAAGGAAAGATTTTCTTTTCACTATTTTCCATAGAACCAAAGTTTGTT
1 TTGATGATTTGCT-TTGCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAGTTCATC
* * * * * *
1225127 GCTCAAATGAGACAAACT-TGGATTGTCATAACAATCTCTA-TCATTTC-ATGATTGGGCACCAT
64 CCTTAAATGAGACAAA-TATGGATTCTCATAATAGTCTCTATTCTTTTCGA-GATTGGGCACCAT
** * *
1225189 -AAACATGTTCTCCTTGTTGGGATATACGATA
127 AAAACAT-TT-T-CTCATTAGGATACACGATA
* * ** * * *
1225220 TTGATGCTTTTGCTTTGTAATAAAAGCTTTTCTTTGACTTATTTTCCTTAAAATTAAAGTTCAT-
1 TTGATG-ATTTGCTTTGCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAGTTCATC
* * * ** ** * * * *
1225284 CCTTCAAATGAGATAAAAATCGATTCTTGTAAGGGCCTCTAATT-TTTTCGTGATTGGTCA--AC
64 CCTT-AAATGAGACAAATATGGATTCTCATAATAGTCTCT-ATTCTTTTCGAGATTGGGCACCAT
* * *
1225346 AAAA-A--TCCTCATTGGGATACATG-TCA
127 AAAACATTTTCTCATTAGGATACACGAT-A
* * * * *
1225372 TTG--GTTTTGCTTTGCAAGCAAAGCTTTTTTCAGTG-CC-ATTTTCCATAGAATCAACGTTCAT
1 TTGATGATTTGCTTTGCAAGGAAAGCTTTTTT---TGCCCTATTTTCCTTAAAATCAAAGTTCAT
** * * * * * *
1225433 CTTTTAAATGAAACAAATATGGACTCTCATAATAATCTCTATTCTTTTCAAGATTAGGCATCATA
63 CCCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCGAGATTGGGCACCATA
*
1225498 AACACATTCTTCTCATTAGGATACATGATA
128 AA-ACATT-TTCTCATTAGGATACACGATA
* * * * * * * * *
1225528 TTGGTGCTTTGGTTTCGCAA-GAAAGGTTTTTCTT-CACACCATTTT-TTGTATAGTCTAAGTTC
1 TTGATGATTTGCTTT-GCAAGGAAAGCTTTTT-TTGC-C-CTATTTTCCT-TAAAATCAAAGTTC
* * * * * *
1225590 ATGCCTTAAATGAGACAAACATGGATTCT-ATTAAT-GATCGCCATTTTTTTTCAAGATTGGGCA
61 ATCCCTTAAATGAGACAAATATGGATTCTCA-TAATAG-TCTCTA-TTCTTTTCGAGATTGGGCA
* * * *
1225653 CCATAAACACGTTTCCCTTATTAGTATACACGATA
123 CCATAAA-ACATTT-TCTCATTAGGATACACGATA
1225688 TTGATGATTTGCTTT-CATAAGGAAAGCTTTTTTTGCCCTATTTTCCTTAAAATCAAAGTTCATC
1 TTGATGATTTGCTTTGC--AAGGAAAGCTTTTTTTGCCCTATTTTCCTTAAAATCAAAGTTCATC
* * * *
1225752 TCC-TAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTCGAGATTGGGAAGCA-A
64 -CCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCGAGATTGGGCACCATA
* ** * * * *
1225815 AAACGCGTTCCCTTCATTGGGACACATGACA
128 AAA--CATTTTC-TCATTAGGATACACGATA
* * *
1225846 TTGATGCTTTGATGTTGCAAGGAAAGCTTTTCTTT-CCACCATTTT--TTATAGAATCAAAGCTT
1 TTGATGATTTGCT-TTGCAAGGAAAGCTTTT-TTTGCC-CTATTTTCCTTA-A-AATCAAAG-TT
* * * * * * * * * *
1225908 GC-T-CCTCAAATAAGACAAACT-TTGATTGTCATAACAATCTCCA-TCATTTT-GTGATCGAGC
60 -CATCCCTTAAATGAGACAAA-TATGGATTCTCATAATAGTCTCTATTC-TTTTCGAGATTGGGC
* *
1225968 ACCA-AAAACACGTTCTCCTCATTAGGATATACGATA
122 ACCATAAAACA--TT-TTCTCATTAGGATACACGATA
* * ** * * ** *
1226004 ATGATGCTTTGGCTTCACAAGAAAATCTTTTCTTTAACCTATTTTCCTTAAAATCAAAGTTCGTC
1 TTGATGATTT-GCTTTGCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAGTTCATC
* * * * *
1226069 CTTTAAATGAGACAAACATGCAATCT--T-AT-CT-TC-ATTCTTTTC-ATGATTGGGCACC--A
64 CCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCGA-GATTGGGCACCATA
* * * * *
1226125 AAA-A--TCCTTATTGGGATACAAGACA
128 AAACATTTTCTCATTAGGATACACGATA
* * *
1226150 TTAATGGTTTGGCTTTTG-AAGAAAAGCTTTTTTT----TA-----C-------CAAAGTTCATC
1 TTGATGATTT-GC-TTTGCAAGGAAAGCTTTTTTTGCCCTATTTTCCTTAAAATCAAAGTTCATC
** * * * * * * * *
1226198 TTTTAAGTGAGACAAACAAGGATTCTCATAATAATCCCCA-TCTTTTCAAGATTAGGCACCATAA
64 CCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCGAGATTGGGCACCATAA
* * *
1226262 ACACATTCTTCTCACTAGGATACATGAAA
129 A-ACATT-TTCTCATTAGGATACACGATA
* * * * * * * *
1226291 TTAATGTTTTGGTTTCGCAA-GAAAGGCTTTTTTT-CTCAGTATTTTCCATAGAGTCTAAGTTCA
1 TTGATGATTTGCTTT-GCAAGGAAA-GCTTTTTTTGC-C-CTATTTTCCTTAAAATCAAAGTTCA
* * * * * *
1226354 TGCCTCAAATGAGACAAACATTGATTCT-AGTAAT-GATCT-TCATTCTTTTTGTGATTGGGC-C
62 TCCCTTAAATGAGACAAATATGGATTCTCA-TAATAG-TCTCT-ATTCTTTTCGAGATTGGGCAC
* * *
1226415 CAT-AAACAAGTTATCCTTATTAGG-TACATGATA
124 CATAAAAC-A-TT-TTCTCATTAGGATACACGATA
* * * * * *
1226448 TTGA-GATTTGTTTTTGCAAGGAAAGCTTTTCTTTGCCCCATTTACCCTAAAGTCAAAGTTCTTC
1 TTGATGATTTG-CTTTGCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAGTTCATC
* * * ** * * * **
1226512 CCTTTAATGAGACAAACATGAATTCTTGTAATAGCCTCCATTCTTTTCAAGATTGGAAACCA-AA
64 CCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCGAGATTGGGCACCATAA
* * *
1226576 AACATGTTTGCTTCA-TAGGGACACATGACA
129 AACAT-TTT-C-TCATTA-GGATACACGATA
* * * * * ** *
1226606 TTGATGCTTTGGTGTCGCAA-AAAAACTTTTCTTT-CGATCATTTT--TTATATAATCAAAGTTT
1 TTGATGATTTGCT-TTGCAAGGAAAGCTTTT-TTTGCCCT-ATTTTCCTTA-A-AATCAAAGTTC
* * * * *
1226667 ATCTCTCAAATGAGACAAACT-TGGATTGTCATAATGGTCTCCA-TCTTTTC-ATGATTGGGCAC
61 ATCCCTTAAATGAGACAAA-TATGGATTCTCATAATAGTCTCTATTCTTTTCGA-GATTGGGCAC
* *
1226729 CAT-AAACATGTTCTCCTT---AT---CGATA
124 CATAAAACATTTTCTCATTAGGATACACGATA
* * * * ** *
1226754 TTGATGCTTTGGCTTCGCAAGAAAAGTTTTTCTTTATCCTATTTTCCTTAAAATCAAAGTTTATC
1 TTGATGATTT-GCTTTGCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAGTTCATC
* * * * * * *
1226819 CCTCAAATAAGACAAACATGGATTCTTGA-AACAATCTCCATTCTTTTC-ATGATTGGGCACC--
64 CCTTAAATGAGACAAATATGGATTC-TCATAATAGTCTCTATTCTTTTCGA-GATTGGGCACCAT
* * * * * * *
1226880 --CACA-ATCCTCATT-GCAATGCATGACA
127 AAAACATTTTCTCATTAG-GATACACGATA
* * * **
1226906 TTGATGGTTTGGCTTTGCAAGGAAAGCTTTTTTTACCACCATTTT--TTATAGAATCAAAGTTTG
1 TTGATGATTT-GCTTTGCAAGGAAAGCTTTTTTTGCC-CTATTTTCCTTA-A-AATCAAAGTTCA
** * * * * * * * *
1226969 TCTTTTAAATGA-A-ACAT-T-GATTCTCCTAATAATC-CTTGTTCATTTCAAGATTAGGCACTA
62 TCCCTTAAATGAGACAAATATGGATTCTCATAATAGTCTC-TATTCTTTTCGAGATTGGGCACCA
* * *
1227029 TAAACACTTTTTTCTCAGTAAGATACACGATA
126 TAAA-AC-ATTTTCTCATTAGGATACACGATA
* * * * * * * * * **
1227061 TTGATGCTTTGGTTTTGCAA-GAAAGGCTTTTCTTCCCACCATTTTTCATAGAGTCTTCA-TTCA
1 TTGATGATTT-GCTTTGCAAGGAAA-GCTTTTTTTGCC-CTATTTTCCTTAAAATC-AAAGTTCA
* * * * * *
1227124 TGCTTTAAATGAGACAAACATGGATTCT-AGTAAT-GATTTTTATTCTTTTC-ATTATTGGGCAC
62 TCCCTTAAATGAGACAAATATGGATTCTCA-TAATAG-TCTCTATTCTTTTCGA-GATTGGGCAC
** * *
1227186 CATAAACACATACTCTTCATTGGGATACAAGATA
124 CATAAA-ACATTTTC-TCATTAGGATACACGATA
* * * * *
1227220 TTGATGCTTTGGC-TTGACAA-GAAAGTTTTTCTTTGACCTATTTTCTTTAAAATCAAAGTTCGT
1 TTGATGATTT-GCTTTG-CAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAGTTCAT
* * * * * ** * * * * **
1227283 CCCTCAAAAGAGATAAACATGGATTATTGTATTAGTCTCCATTCTTTTAGTGATTGGGTTCC--A
63 CCCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCGAGATTGGGCACCATA
* * *
1227346 AAA-A--TCCTCATTAGGATACATGACA
128 AAACATTTTCTCATTAGGATACACGATA
* * * * * * * * **
1227371 TTGATGGTTTGGCTTT---A--CAAGCTTTTCTTACCACCATTTTTCATAGAATCAAAGTTTGTC
1 TTGATGATTT-GCTTTGCAAGGAAAGCTTTTTTTGCC-CTATTTTCCTTAAAATCAAAGTTCATC
* * * * * * **
1227431 CCTTAAATGAGACAAATATGGATTCTTATAGTAATCCCTATTTTTTTTTCTAGATTAAGCACCAT
64 CCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTA--TTCTTTTCGAGATTGGGCACCAT
* *
1227496 AAACATATTTTTCTCATTAGGATACATGATA
127 AAA-ACA-TTTTCTCATTAGGATACACGATA
* * * ** * * * * * ** ** *** ** *
1227527 TTAATGCTTTAGTTTTGCAAGTTAAGCTTTTCTTCCCACCATTTTTCGTGGAGCCTTGGTTTGTG
1 TTGATGATTT-GCTTTGCAAGGAAAGCTTTTTTTGCC-CTATTTTCCTTAAAATCAAAGTTCATC
* * * ** * *
1227592 GCTGAAATGAGACAAACACAGATTCTAATAATTA-TCT-TCATTCTTTT-GTGATTGGGCACCA-
64 CCTTAAATGAGACAAATATGGATTCTCATAA-TAGTCTCT-ATTCTTTTCGAGATTGGGCACCAT
* *
1227653 GAAACATGTTTTCCTCATTATGATA-A--ATA
127 AAAACA--TTTT-CTCATTAGGATACACGATA
* * * * * *
1227682 TTGATGATTTACTTT-CACAGAGAGAGCATTTCTTTACCCTATTTTCCTTTAAATGAAAGTTCAT
1 TTGATGATTTGCTTTGCA-AG-GAAAGC-TTTTTTTGCCCTATTTTCCTTAAAATCAAAGTTCAT
** ** * * *
1227746 CCCTTAAATGA-ACAAGCATGGATTCTTGTAATAGTCTCCATGCTTTTTGAGATTGG
63 CCCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCGAGATTGG
1227802 AAACCAAAAA
Statistics
Matches: 3377, Mismatches: 888, Indels: 715
0.68 0.18 0.14
Matches are distributed among these distances:
129 31 0.01
131 1 0.00
132 2 0.00
133 1 0.00
134 18 0.01
135 2 0.00
136 4 0.00
137 1 0.00
138 1 0.00
139 3 0.00
140 5 0.00
141 37 0.01
145 3 0.00
146 49 0.01
147 65 0.02
148 52 0.02
149 155 0.05
150 53 0.02
151 140 0.04
152 181 0.05
153 69 0.02
154 93 0.03
155 132 0.04
156 228 0.07
157 322 0.10
158 732 0.22
159 714 0.21
160 201 0.06
161 80 0.02
162 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (155 bp):
TTGATGATTTGCTTTGCAAGGAAAGCTTTTTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCC
TTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCGAGATTGGGCACCATAAAA
CATTTTCTCATTAGGATACACGATA
Found at i:1225864 original size:784 final size:783
Alignment explanation
Indices: 1222944--1227349 Score: 4216
Period size: 784 Copynumber: 5.7 Consensus size: 783
1222934 GGTTCTCATC
* * * * * * *
1222944 AGACAAACATGGATGCTTATAATAGTCTC-AATTATTTTAATGATTGGGCACAAAAAATCCTCAT
1 AGACAAACATGGATTCTTGTAACAGTCTCTCATTCTTTTCATGATTGGGCACCAAAAATCCTCAT
* * * * * * *
1223008 TGCGATGCATGACCTTGATGATTTGGCTTTGCGAGGAAAACTTTTTTTACCATAATTTTCCATAG
66 TGGGATACATGACATT-ATGGTTTGGCTTTGCAAGGAAAGC-TTTTTTACCACAATTTTCCATAG
* * * *
1223073 AATCATAGTTCGT-TTCTTAAATGAGACAAACATGGATTCTCATAATAATCCCTATTATTTTCAA
129 AATCA-AGTTCATCTT-TTAAATGAAACAAACATGGATTCTCATAATAATCCCCATTCTTTTCAA
* ** * * * * *
1223137 GATTAGGCACCATAAA-ATCATTCTTTTTCATTAAAATACTTGTTATTGATACTTTAGTTTCATA
192 GATTAGGCA-CATAAACA-CATTC-TTCTCATTAGGATACATGATATTGATGCTTTGGTTTCACA
** * * * * * * *
1223201 AGAAAGGCTTTTCTTCCCACCATTTTTTGTAAAGTCTTAGTTCATGCCTCAAATAAGGCAGACAA
254 AGAAAGGCTTTTCTTCCCACCATTTTTCATAGAGTCTAAGTTCATGCCTTAAATGAGACAAACAT
* * * * *
1223266 GGACTCTACTAAAGATCTT-TTTTCTTTTCATGATTGGGCACCATAAACA--TATTCTCCTCATT
319 GGATTCTAGTAATGATCTTCATTT-TTTTCATGATTGGGCACCATAAACACGT-TTC-CCTTATT
* * * * * * *
1223328 AGAATACATGATAATGATGATTTGCTTTTGCAAGGAAA-ATTTTTTTCTACCCCATTTTCCTTAA
381 AGTATACACGATATTGATGATTTGCTTTTGCAAGGAAAGCTTTTCTT-TGCCCAATTTTCCTTAA
* * * * * * * * *
1223392 AATCAAAGTTTATCGCTTACATGGGACAAATATAGATTCTCATAATACTTTTCATT-TTTTC-AT
445 AATCAAAGTTCATC-CCTAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTCGA-
** * ** * * ***
1223455 GATTAAGAACCAAAAACACGTTCCTTTTGTTGGGATACAAGACATTGATGTTTTGGTGTCATAAG
508 GATTGGGAACCAAAAACACGTTCCCTTCATTGGGATACATGACATTGATGCTTTGGTGTTGCAAG
* * * * *
1223520 AAAAGCTTTTCTTTCCAC-AATTTCGATACAATCAAAGTTTG-TCGCTCAAATGAGACAAACTTG
573 GAAAGATTTTCTTTTCACTATTTTCGATAGAATCAAAGTTTGTTC-CTCAAATGAGACAAACTTG
** * *
1223583 GATTGTTGTAACAATCTTTATCTTTTCATGATTGGGTACCATAAACA----CTCCTCATTGGGAT
637 GATTGTCATAACAATCTCTATCTTTTCATGATTGGGCACCATAAACACGTTCTCCTCATTGGGAT
* * * *
1223644 ATACTATATTGATGCTTTGGCTTC-CTAGGAAAAGCTTTTCTTTGACATATTTTCCTTAAAATCA
702 ATACGATATTGATGCTTTGGCTTCGC-AAGAAAAGCTTTTCTTTAACCTATTTTCCTTAAAATCA
*
1223708 AAGTTCATCTCTT-GAATG
766 AAGTTCATC-CTTCAAATG
* * * ** *
1223726 AGACAAGCATGGATTCTTGTAATAGTCT-TCGTTCTTTTTGTGATTGGGTACCAAAAATCCTCAT
1 AGACAAACATGGATTCTTGTAACAGTCTCTCATTCTTTTCATGATTGGGCACCAAAAATCCTCAT
** * * * * * *
1223790 TGCAATGCTTTACATTAATGGTTAGGCTTTGCAAGGAAAGCTTTTTTACCACAATTTTTCATAAA
66 TGGGATACATGACATT-ATGGTTTGGCTTTGCAAGGAAAGCTTTTTTACCACAATTTTCCATAGA
* * * * * * * *
1223855 ATCGAAGGTCATCTCTTAAATGAAAAAAACGTGAATTCTCATAATATTGCCCATTATTTTCAAGA
130 ATC-AAGTTCATCTTTTAAATGAAACAAACATGGATTCTCATAATAATCCCCATTCTTTTCAAGA
1223920 TTAGGCACTATAAACACATT-TTACTCATTAGGATACATGATATTGATGCTTTGGTTTCACAA-A
194 TTAGGCAC-ATAAACACATTCTT-CTCATTAGGATACATGATATTGATGCTTTGGTTTCACAAGA
* * * * *
1223983 ATAGGCCTTTCTTCCCACCATTTTCCATAGA-TCCTAAGTCCGTGCCTTAAATGAGACAAACATT
257 A-AGGCTTTTCTTCCCACCATTTTTCATAGAGT-CTAAGTTCATGCCTTAAATGAGACAAACATG
* * *
1224047 GATTCTATTAATGATCTTCA--TTTTTAATGATTGGGCAGCATAAACACG-TTCTCCTCT-TTAG
320 GATTCTAGTAATGATCTTCATTTTTTTCATGATTGGGCACCATAAACACGTTTC-CCT-TATTAG
* * * * *
1224108 TGTACACAATATTGATGATTTGTTTTTGTAAGGAATGC-TTTCTTTGCCCAATTTTCCTTAAAAT
383 TATACACGATATTGATGATTTGCTTTTGCAAGGAAAGCTTTTCTTTGCCCAATTTTCCTTAAAAT
* * * * *
1224172 AAAAGTTCATCCTTTAAATGAGATAAATATGGATTCTCGTAATAGTCTCCATTCGTTTT-GAGAT
448 CAAAGTTCATCC-CTAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTC-TTTTCGAGAT
* * **
1224236 TGGGAACCAAAAACACGTTTCCTTGATTGGCTTACATGACATTGATGCTTTGGTGTTGCAAGGAA
511 TGGGAACCAAAAACACGTTCCCTTCATTGGGATACATGACATTGATGCTTTGGTGTTGCAAGGAA
* * * * *
1224301 AGTTTTTCTTTTCACTTTTTTCGAT-GAAATCAAAGTTTGTCCCTCAAATGAGACATACTTGGGT
576 AGATTTTCTTTTCACTATTTTCGATAG-AATCAAAGTTTGTTCCTCAAATGAGACAAACTTGGAT
** * * * *
1224365 TGTTGTAACAATCT-TCATCTTTTCATGATTAGGCACCATAAACACATTTTCCTCATTGGGATAC
640 TGTCATAACAATCTCT-ATCTTTTCATGATTGGGCACCATAAACACGTTCTCCTCATTGGGATAT
* * * * *
1224429 ACAATATT-ATTGCTTTTGCTTTGCAAGAAAAGCTTTTCTTAAACCTATTTTCCTTTAAATCAAA
704 ACGATATTGA-TGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTAACCTATTTTCCTTAAAATCAAA
** *
1224493 GTTGGT-CTCCCAAATG
768 GTTCATCCT-TCAAATG
* * * * * *
1224509 AGATAAAC-TAGGATTCTTATAACAGTCTC-CATTATTTTCATGGTTGGGCACTAAAAATCCTTA
1 AGACAAACAT-GGATTCTTGTAACAGTCTCTCATTCTTTTCATGATTGGGCACCAAAAATCCTCA
* * * * * *
1224572 TTGGGATATATGACATTAATGGTTTGGCTTTGTAAGTAAAGCTCTTTTTACCAAAATTTTTCACA
65 TTGGGATACATGACATT-ATGGTTTGGCTTTGCAAGGAAAGCT-TTTTTACCACAATTTTCCATA
* * * * *
1224637 GAATCAAAATTTATCTCTTAAATGAGACAAACAT-GATTCTCATAATAA-CCCCATTCATTTCAA
128 GAATC-AAGTTCATCTTTTAAATGAAACAAACATGGATTCTCATAATAATCCCCATTCTTTTCAA
* * * *
1224700 GATTAGGCTCCATAAACATAGTCTAT-TCATTAGGATATATGATATTGATGCTTTGGTTTCACAA
192 GATTAGGC-ACATAAACACATTCT-TCTCATTAGGATACATGATATTGATGCTTTGGTTTCACAA
* * *
1224764 GAAAGGCTTTTCTTCCCACCATTTTCCATAGAG-CATAAGTTCATGCCTTAACTGAGATAAACAT
255 GAAAGGCTTTTCTTCCCACCATTTTTCATAGAGTC-TAAGTTCATGCCTTAAATGAGACAAACAT
* * * * * *
1224828 GGATTCTAGTAATGAACTTCATTTTTTTCATGATTGGGCACCATAAACACATTTTCATCATTATT
319 GGATTCTAGTAATGATCTTCATTTTTTTCATGATTGGGCACCATAAACACGTTTCCCTTATTAGT
* * * * *
1224893 ATACACAATATTGATGATTTGGTTTCGTAAGGAAAGCTTTTCTTTGCCCAAATTTCCTTAAAATC
384 ATACACGATATTGATGATTTGCTTTTGCAAGGAAAGCTTTTCTTTGCCCAATTTTCCTTAAAATC
* * *
1224958 AAAGTTCATCCCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTACGAGATTG
449 AAAGTTCATCCC-TAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTCGAGATTG
** * **
1225023 GGAACCAAAAACTTGTTCCCTTCATTAAGG-TACATGACATTGATGCTTTACTGTTGCAAGGAAA
513 GGAACCAAAAACACGTTCCCTTCATT-GGGATACATGACATTGATGCTTTGGTGTTGCAAGGAAA
* * *
1225087 GATTTTCTTTTCACTATTTTCCATAGAACCAAAGTTTGTTGCTCAAATGAGACAAACTTGGATTG
577 GATTTTCTTTTCACTATTTTCGATAGAATCAAAGTTTGTTCCTCAAATGAGACAAACTTGGATTG
* * **
1225152 TCATAACAATCTCTATCATTTCATGATTGGGCACCATAAACATGTTCTCCTTGTTGGGATATACG
642 TCATAACAATCTCTATCTTTTCATGATTGGGCACCATAAACACGTTCTCCTCATTGGGATATACG
* * * * * * *
1225217 ATATTGATGCTTTTGCTTTGTAATAAAAGCTTTTCTTTGACTTATTTTCCTTAAAATTAAAGTTC
707 ATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTAACCTATTTTCCTTAAAATCAAAGTTC
1225282 ATCCTTCAAATG
772 ATCCTTCAAATG
* * * ** * * * * *
1225294 AGATAAAAATCGATTCTTGTAAGGGCCTCTAATT-TTTTCGTGATTGGTCAACAAAAATCCTCAT
1 AGACAAACATGGATTCTTGTAACAGTCTCTCATTCTTTTCATGATTGGGCACCAAAAATCCTCAT
* * * *** *
1225358 TGGGATACATGTCA-T-TGGTTTTGCTTTGCAAGCAAAGCTTTTTTCAGTGCCATTTTCCATAGA
66 TGGGATACATGACATTATGGTTTGGCTTTGCAAGGAAAGCTTTTTT-ACCACAATTTTCCATAGA
* * * *
1225421 ATCAACGTTCATCTTTTAAATGAAACAAATATGGACTCTCATAATAATCTCTATTCTTTTCAAGA
130 ATCAA-GTTCATCTTTTAAATGAAACAAACATGGATTCTCATAATAATCCCCATTCTTTTCAAGA
* *
1225486 TTAGGCATCATAAACACATTCTTCTCATTAGGATACATGATATTGGTGCTTTGGTTTCGCAAGAA
194 TTAGGCA-CATAAACACATTCTTCTCATTAGGATACATGATATTGATGCTTTGGTTTCACAAGAA
* * ** *
1225551 AGGTTTTTCTTCACACCATTTTTTGTATAGTCTAAGTTCATGCCTTAAATGAGACAAACATGGAT
258 AGGCTTTTCTTCCCACCATTTTTCATAGAGTCTAAGTTCATGCCTTAAATGAGACAAACATGGAT
* ** *
1225616 TCTATTAATGATCGCCATTTTTTTTCAAGATTGGGCACCATAAACACGTTTCCCTTATTAGTATA
323 TCTAGTAATGATCTTCA-TTTTTTTCATGATTGGGCACCATAAACACGTTTCCCTTATTAGTATA
*** *
1225681 CACGATATTGATGATTTGCTTTCATAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAA
387 CACGATATTGATGATTTGCTTTTGCAAGGAAAGCTTTTCTTTGCCCAATTTTCCTTAAAATCAAA
1225745 GTTCATCTCCTAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTCGAGATTGGGA
452 GTTCATC-CCTAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTCGAGATTGGGA
* * * * *
1225810 AGCAAAAACGCGTTCCCTTCATTGGGACACATGACATTGATGCTTTGATGTTGCAAGGAAAGCTT
516 ACCAAAAACACGTTCCCTTCATTGGGATACATGACATTGATGCTTTGGTGTTGCAAGGAAAGATT
* * ** * * * *
1225875 TTCTTTCCACCATTTTTTATAGAATCAAAGCTTGCTCCTCAAATAAGACAAACTTTGATTGTCAT
581 TTCTTTTCACTATTTTCGATAGAATCAAAGTTTGTTCCTCAAATGAGACAAACTTGGATTGTCAT
* * * * * *
1225940 AACAATCTCCATCATTTT-GTGATCGAGCACCAAAAACACGTTCTCCTCATTAGGATATACGATA
646 AACAATCTCTATC-TTTTCATGATTGGGCACCATAAACACGTTCTCCTCATTGGGATATACGATA
* * * *
1226004 ATGATGCTTTGGCTTCACAAGAAAATCTTTTCTTTAACCTATTTTCCTTAAAATCAAAGTTCGTC
710 TTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTAACCTATTTTCCTTAAAATCAAAGTTCATC
*
1226069 CTTTAAATG
775 CTTCAAATG
* * *
1226078 AGACAAACATGCAATC-T-T---A-TCT-TCATTCTTTTCATGATTGGGCACCAAAAATCCTTAT
1 AGACAAACATGGATTCTTGTAACAGTCTCTCATTCTTTTCATGATTGGGCACCAAAAATCCTCAT
* * *
1226136 TGGGATACAAGACATTAATGGTTTGGCTTTTG-AAGAAAAGC-TTTTT-------TTTACC----
66 TGGGATACATGACATT-ATGGTTTGGC-TTTGCAAGGAAAGCTTTTTTACCACAATTTTCCATAG
* * *
1226188 -A--AAGTTCATCTTTTAAGTGAGACAAACAAGGATTCTCATAATAATCCCCA-TCTTTTCAAGA
129 AATCAAGTTCATCTTTTAAATGAAACAAACATGGATTCTCATAATAATCCCCATTCTTTTCAAGA
* * * * *
1226249 TTAGGCACCATAAACACATTCTTCTCACTAGGATACATGAAATTAATGTTTTGGTTTCGCAAGAA
194 TTAGGCA-CATAAACACATTCTTCTCATTAGGATACATGATATTGATGCTTTGGTTTCACAAGAA
* * ** * * *
1226314 AGGCTTTTTTTCTCAGTATTTTCCATAGAGTCTAAGTTCATGCCTCAAATGAGACAAACATTGAT
258 AGGCTTTTCTTCCCACCATTTTTCATAGAGTCTAAGTTCATGCCTTAAATGAGACAAACATGGAT
* * *
1226379 TCTAGTAATGATCTTCATTCTTTTT-GTGATTGGGC-CCATAAACAAGTTAT-CCTTATTAG-GT
323 TCTAGTAATGATCTTCATT-TTTTTCATGATTGGGCACCATAAACACGTT-TCCCTTATTAGTAT
* * * * * *
1226440 ACATGATATTGA-GATTTGTTTTTGCAAGGAAAGCTTTTCTTTGCCCCATTTACCCTAAAGTCAA
386 ACACGATATTGATGATTTGCTTTTGCAAGGAAAGCTTTTCTTTGCCCAATTTTCCTTAAAATCAA
* * * ** * * *
1226504 AGTTCTTCCCTTTAATGAGACAAACATGAATTCTTGTAATAGCCTCCATTCTTTTCAAGATTGGA
451 AGTTCATCCC-TAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTCGAGATTGGG
* ** * * * *
1226569 AACCAAAAACATGTTTGCTTCATAGGGACACATGACATTGATGCTTTGGTGTCGCAA--AAAAAC
515 AACCAAAAACACGTTCCCTTCATTGGGATACATGACATTGATGCTTTGGTGTTGCAAGGAAAGA-
** * *
1226632 TTTTC-TTTCGA-TCATTTTTTATATAATCAAAGTTT-ATCTCTCAAATGAGACAAACTTGGATT
579 TTTTCTTTTC-ACT-ATTTTCGATAGAATCAAAGTTTGTTC-CTCAAATGAGACAAACTTGGATT
*** * *
1226694 GTCATAATGGTCTCCATCTTTTCATGATTGGGCACCATAAACATGTTCT-C-C--T----TAT-C
641 GTCATAACAATCTCTATCTTTTCATGATTGGGCACCATAAACACGTTCTCCTCATTGGGATATAC
* *
1226750 GATATTGATGCTTTGGCTTCGCAAGAAAAGTTTTTCTTTATCCTATTTTCCTTAAAATCAAAGTT
706 GATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTAACCTATTTTCCTTAAAATCAAAGTT
* * *
1226815 TATCCCTCAAATA
771 CATCCTTCAAATG
* * * *
1226828 AGACAAACATGGATTCTTGAAACAATCTC-CATTCTTTTCATGATTGGGCACCCACAATCCTCAT
1 AGACAAACATGGATTCTTGTAACAGTCTCTCATTCTTTTCATGATTGGGCACCAAAAATCCTCAT
** * * **
1226892 TGCAATGCATGACATTGATGGTTTGGCTTTGCAAGGAAAGCTTTTTTTACCACCATTTTTTATAG
66 TGGGATACATGACATT-ATGGTTTGGCTTTGCAAGGAAAGC-TTTTTTACCACAATTTTCCATAG
** * * *** *
1226957 AATCAAAGTTTGTCTTTTAAATG----AAACATTGATTCTCCTAATAATCCTTGTTCATTTCAAG
129 AATC-AAGTTCATCTTTTAAATGAAACAAACATGGATTCTCATAATAATCCCCATTCTTTTCAAG
* * * * * **
1227018 ATTAGGCACTATAAACACTTTTTTCTCAGTAAGATACACGATATTGATGCTTTGGTTTTGCAAGA
193 ATTAGGCAC-ATAAACACATTCTTCTCATTAGGATACATGATATTGATGCTTTGGTTTCACAAGA
* *
1227083 AAGGCTTTTCTTCCCACCATTTTTCATAGAGTCTTCA-TTCATGCTTTAAATGAGACAAACATGG
257 AAGGCTTTTCTTCCCACCATTTTTCATAGAGTC-TAAGTTCATGCCTTAAATGAGACAAACATGG
* * * * * * * * *
1227147 ATTCTAGTAATGATTTTTATTCTTTTCATTATTGGGCACCATAAACAC-ATACTCTTCATTGGGA
321 ATTCTAGTAATGATCTTCATTTTTTTCATGATTGGGCACCATAAACACGTTTCCCTT-ATTAGTA
* * * * * *
1227211 TACAAGATATTGATGCTTTGGC--TTGACAA-GAAAGTTTTTCTTTGACCTATTTTCTTTAAAAT
385 TACACGATATTGATGATTT-GCTTTTG-CAAGGAAAGCTTTTCTTTGCCCAATTTTCCTTAAAAT
* * * * ** * * *
1227273 CAAAGTTCGTCCCTCAAAAGAGATAAACATGGATTATTGTATTAGTCTCCATTCTTTTAGTGATT
448 CAAAGTTCATCCCT-AAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTCGAGATT
**
1227338 GGGTTCCAAAAA
512 GGGAACCAAAAA
1227350 TCCTCATTAG
Statistics
Matches: 3002, Mismatches: 508, Indels: 238
0.80 0.14 0.06
Matches are distributed among these distances:
750 83 0.03
751 4 0.00
755 6 0.00
756 65 0.02
757 1 0.00
758 18 0.01
759 107 0.04
760 136 0.05
761 21 0.01
762 11 0.00
763 143 0.05
764 40 0.01
765 5 0.00
767 1 0.00
769 26 0.01
770 147 0.05
771 16 0.01
772 107 0.04
773 22 0.01
774 1 0.00
776 1 0.00
777 63 0.02
778 175 0.06
779 91 0.03
780 99 0.03
781 114 0.04
782 288 0.10
783 189 0.06
784 568 0.19
785 444 0.15
786 10 0.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (783 bp):
AGACAAACATGGATTCTTGTAACAGTCTCTCATTCTTTTCATGATTGGGCACCAAAAATCCTCAT
TGGGATACATGACATTATGGTTTGGCTTTGCAAGGAAAGCTTTTTTACCACAATTTTCCATAGAA
TCAAGTTCATCTTTTAAATGAAACAAACATGGATTCTCATAATAATCCCCATTCTTTTCAAGATT
AGGCACATAAACACATTCTTCTCATTAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAGG
CTTTTCTTCCCACCATTTTTCATAGAGTCTAAGTTCATGCCTTAAATGAGACAAACATGGATTCT
AGTAATGATCTTCATTTTTTTCATGATTGGGCACCATAAACACGTTTCCCTTATTAGTATACACG
ATATTGATGATTTGCTTTTGCAAGGAAAGCTTTTCTTTGCCCAATTTTCCTTAAAATCAAAGTTC
ATCCCTAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTCGAGATTGGGAACCAA
AAACACGTTCCCTTCATTGGGATACATGACATTGATGCTTTGGTGTTGCAAGGAAAGATTTTCTT
TTCACTATTTTCGATAGAATCAAAGTTTGTTCCTCAAATGAGACAAACTTGGATTGTCATAACAA
TCTCTATCTTTTCATGATTGGGCACCATAAACACGTTCTCCTCATTGGGATATACGATATTGATG
CTTTGGCTTCGCAAGAAAAGCTTTTCTTTAACCTATTTTCCTTAAAATCAAAGTTCATCCTTCAA
ATG
Found at i:1227648 original size:465 final size:463
Alignment explanation
Indices: 1226750--1227658 Score: 1104
Period size: 466 Copynumber: 2.0 Consensus size: 463
1226740 TCTCCTTATC
1226750 GATATTGATGCTTTGGCTTCGCAAGAAAAGTTTTTCTTTATCCTATTTTCCTTAAAATCAAAGTT
1 GATATTGATGCTTTGGCTTCGCAAGAAAAGTTTTTCTTTATCCTATTTTCCTTAAAATCAAAGTT
* *
1226815 TATCCCTCAAATAAGACAAACATGGATTCTTGAAACAATCTCCATTCTTTTCATGATTGGGCACC
66 CATCCCTCAAATAAGACAAACATGGATTATTGAAACAATCTCCATTCTTTTCATGATTGGGCACC
* * * *
1226880 CACAATCCTCATTGCAATGCATGACATTGATGGTTTGGCTTTGCAAGGAAAGCTTTTTTTACCAC
131 AAAAATCCTCATTGCAATACATGACATTGATGGTTTGGCTTT--AA-GAAAGCTTTTCTTACCAC
* ** * *
1226945 CATTTTTTATAGAATCAAAGTTTGTCTTTTAAATGAAACATTGATTCTCCTAATAATCCTTGTTC
193 CATTTTTCATAGAATCAAAGTTTGTCCCTTAAATGAAAAATTGATTCTCATAATAATCCTTGTTC
* * * *
1227010 ATTTCAAGATTAGGCACTATAAACACTTTTTTCTCAGTAAGATACACGATATTGATGCTTTGGTT
258 ATTTCAAGATTAAGCACCATAAACACTTTTTTCTCAGTAAGATACACGATATTAATGCTTTAGTT
* *
1227075 TTGCAAGAAAGGCTTTTCTTCCCACCATTTTTCATAGAGTCTTCATTCATGCTTTAAATGAGACA
323 TTGCAAGAAAGGCTTTTCTTCCCACCATTTTTCATAGAGCCTTCATTCATGCTTGAAATGAGACA
** * * * * *
1227140 AACATGGATTCTAGTAATGATTTTTATTCTTTTCATTATTGGGCACCATAAACACATACTCTTCA
388 AACACAGATTCTAATAATGATCTTCATTCTTTTCATGATTGGGCACCAGAAACACATACTCTTCA
1227205 TTGGGATACAA
453 TTGGGATACAA
*
1227216 GATATTGATGCTTTGGCTT-GACAAG-AAAGTTTTTCTTTGA-CCTATTTTCTTTAAAATCAAAG
1 GATATTGATGCTTTGGCTTCG-CAAGAAAAGTTTTTCTTT-ATCCTATTTTCCTTAAAATCAAAG
* * * ** *
1227278 TTCGTCCCTCAAA-AGAGATAAACATGGATTATTGTATTAGTCTCCATTCTTTT-AGTGATTGGG
64 TTCATCCCTCAAATA-AGACAAACATGGATTATTGAAACAATCTCCATTCTTTTCA-TGATTGGG
** * *
1227341 TTCCAAAAATCCTCATTAG-GATACATGACATTGATGGTTTGGCTTT-A-CAAGCTTTTCTTACC
127 CACCAAAAATCCTCATT-GCAATACATGACATTGATGGTTTGGCTTTAAGAAAGCTTTTCTTACC
* *
1227403 ACCATTTTTCATAGAATCAAAGTTTGTCCCTTAAATGAGACAAATATGGATTCTTATAGTAATCC
191 ACCATTTTTCATAGAATCAAAGTTTGTCCCTTAAATGA-A-AAAT-T-GATTCTCATAATAAT-C
* ** * * * *
1227468 CTATTTTTTTTTCTAGATTAAGCACCATAAACA-TATTTTTCTCATTAGGATACATGATATTAAT
251 CT-TGTTCATTTCAAGATTAAGCACCATAAACACT-TTTTTCTCAGTAAGATACACGATATTAAT
* * * ** **
1227532 GCTTTAGTTTTGCAAGTTAA-GCTTTTCTTCCCACCATTTTTCGTGGAGCCTTGGTTTGTGGC-T
314 GCTTTAGTTTTGCAAG-AAAGGCTTTTCTTCCCACCATTTTTCATAGAGCCTTCATTCAT-GCTT
* *
1227595 GAAATGAGACAAACACAGATTCTAATAATTATCTTCATTCTTTT-GTGATTGGGCACCAGAAACA
377 GAAATGAGACAAACACAGATTCTAATAATGATCTTCATTCTTTTCATGATTGGGCACCAGAAACA
1227659 TGTTTTCCTC
Statistics
Matches: 376, Mismatches: 53, Indels: 29
0.82 0.12 0.06
Matches are distributed among these distances:
460 48 0.13
461 1 0.00
462 4 0.01
463 1 0.00
464 14 0.04
465 145 0.39
466 159 0.42
467 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (463 bp):
GATATTGATGCTTTGGCTTCGCAAGAAAAGTTTTTCTTTATCCTATTTTCCTTAAAATCAAAGTT
CATCCCTCAAATAAGACAAACATGGATTATTGAAACAATCTCCATTCTTTTCATGATTGGGCACC
AAAAATCCTCATTGCAATACATGACATTGATGGTTTGGCTTTAAGAAAGCTTTTCTTACCACCAT
TTTTCATAGAATCAAAGTTTGTCCCTTAAATGAAAAATTGATTCTCATAATAATCCTTGTTCATT
TCAAGATTAAGCACCATAAACACTTTTTTCTCAGTAAGATACACGATATTAATGCTTTAGTTTTG
CAAGAAAGGCTTTTCTTCCCACCATTTTTCATAGAGCCTTCATTCATGCTTGAAATGAGACAAAC
ACAGATTCTAATAATGATCTTCATTCTTTTCATGATTGGGCACCAGAAACACATACTCTTCATTG
GGATACAA
Found at i:1229172 original size:152 final size:155
Alignment explanation
Indices: 1228906--1229357 Score: 375
Period size: 152 Copynumber: 2.9 Consensus size: 155
1228896 TTTAGGTTTG
* * * * * * * * **
1228906 CAAGAAAAGGATTTCTTTCCACTACTTTCTTTATAGTCAAAGTTCCTCTATCAAATGAAAGGAAC
1 CAAGAAAAGAATTTCTTTCCACCATTTTCTTTAAAATTAAAG-TCCTC-GTCAAATGACACAAAC
* * * * * *
1228971 TTAGATTCTCATAATAATCAT-CATTCTTTTCCTAATTTGG-CAGCATAAACATGTTCTACTCAT
64 TTAGATTCTCACAAAAATC-TCCA-TCTTTTCATGA-TTGGACACCATAAACACGTTCTACTCAT
1229034 TAGGATACATGATAGT-ATGCTTCGATTTCA
126 T-GGATACATGATAGTAATGCTTCGATTTCA
* * *
1229064 CAA-AAAA-AACTTCTCTTTCCACCATTTT-TCTTAAAATT-TA-TCC-C-TCAAGTGAGACAAA
1 CAAGAAAAGAA-TT-TCTTTCCACCATTTTCT-TTAAAATTAAAGTCCTCGTCAAATGACACAAA
* * *
1229122 CTTGGATTCTCACAAAAATCTCCATTCTTTTCATGATTGGACTCCATAAACACGTTCTACTGATT
63 CTTAGATTCTCACAAAAATCTCCA-TCTTTTCATGATTGGACACCATAAACACGTTCTACTCATT
* * * **
1229187 GGAATACATGATATTAATGCTTTGGTTTTG
127 GG-ATACATGATAGTAATGCTTCGATTTCA
* * * *
1229217 CAAGAAAAGGATTTCTTTTCACCATTTTCTTTACAATTAAAGTTCCTTTCGTCAAATGACATAAA
1 CAAGAAAAGAATTTCTTTCCACCATTTTCTTTAAAATTAAAG-TCC--TCGTCAAATGACACAAA
* * * * *
1229282 CTTAGATTCTCAGAATAATCTCTATCTTTTCATGATTGGGCACCATAAACACGTTCTTCTCATTG
63 CTTAGATTCTCACAAAAATCTCCATCTTTTCATGATTGGACACCATAAACACGTTCTACTCATT-
1229347 GGATACATGAT
127 GGATACATGAT
1229358 GTTGATGCTT
Statistics
Matches: 236, Mismatches: 40, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
151 7 0.03
152 70 0.30
153 34 0.14
154 9 0.04
155 4 0.02
156 4 0.02
157 8 0.03
158 21 0.09
159 46 0.19
160 33 0.14
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (155 bp):
CAAGAAAAGAATTTCTTTCCACCATTTTCTTTAAAATTAAAGTCCTCGTCAAATGACACAAACTT
AGATTCTCACAAAAATCTCCATCTTTTCATGATTGGACACCATAAACACGTTCTACTCATTGGAT
ACATGATAGTAATGCTTCGATTTCA
Found at i:1229328 original size:159 final size:156
Alignment explanation
Indices: 1228844--1229384 Score: 474
Period size: 159 Copynumber: 3.4 Consensus size: 156
1228834 ATGTTTTTTG
* * * * * **
1228844 TGATTAGGCACCATAAATATGTTATCCTCATTCGGATACACAATATTGATGCTTTAGGTTT-GCA
1 TGATTGGGCACCATAAACACGTTCTACTCATT-GGATACATGATATTGATGCTTT-GGTTTCGCA
* * * * * * **
1228908 AGAAAAGGATTTCTTTCCACTACTTTCTTTATAGTCAAAGTTCCTCTATCAAATGAAAGGAACTT
64 AGAAAAGGATTTCTTTCCACCATTTTCTTTAAAATTAAAGTTCCT-TCTCAAATGAAACAAACTT
* *
1228973 AGATTCTCATAATAATCATCATTCTTTTCC
128 AGATTCTCACAATAATC-TCATTCTTTTCA
* * * * * * * *
1229003 TAATTTGGCAGCATAAACATGTTCTACTCATTAGGATACATGATAGT-ATGCTTCGATTTCACAA
1 TGATTGGGCACCATAAACACGTTCTACTCATT-GGATACATGATATTGATGCTTTGGTTTCGCAA
* * * *
1229067 -AAAA-AACTTCTCTTTCCACCATTTT-TCTTAAAATT-TA--TCC--CTCAAGTGAGACAAACT
65 GAAAAGGA-TT-TCTTTCCACCATTTTCT-TTAAAATTAAAGTTCCTTCTCAAATGAAACAAACT
* *
1229124 TGGATTCTCACAAAAATCTCCATTCTTTTCA
127 TAGATTCTCACAATAATCT-CATTCTTTTCA
* * * * *
1229155 TGATTGGACTCCATAAACACGTTCTACTGATTGGAATACATGATATTAATGCTTTGGTTTTGCAA
1 TGATTGGGCACCATAAACACGTTCTACTCATTGG-ATACATGATATTGATGCTTTGGTTTCGCAA
* * * *
1229220 GAAAAGGATTTCTTTTCACCATTTTCTTTACAATTAAAGTTCCTTTCGTCAAATGACATAAACTT
65 GAAAAGGATTTCTTTCCACCATTTTCTTTAAAATTAAAGTTCC-TTC-TCAAATGAAACAAACTT
*
1229285 AGATTCTCAGAATAATCTC-TATCTTTTCA
128 AGATTCTCACAATAATCTCAT-TCTTTTCA
* * * *
1229314 TGATTGGGCACCATAAACACGTTCTTCTCATTGGGATACATGATGTTGATGCTTTGGCTTCCCAA
1 TGATTGGGCACCATAAACACGTTCTACTCATT-GGATACATGATATTGATGCTTTGGTTTCGCAA
1229379 GAAAAG
65 GAAAAG
1229385 CTTTTTGTTG
Statistics
Matches: 303, Mismatches: 60, Indels: 38
0.76 0.15 0.09
Matches are distributed among these distances:
151 3 0.01
152 73 0.24
153 34 0.11
154 8 0.03
155 4 0.01
156 4 0.01
157 12 0.04
158 28 0.09
159 106 0.35
160 31 0.10
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (156 bp):
TGATTGGGCACCATAAACACGTTCTACTCATTGGATACATGATATTGATGCTTTGGTTTCGCAAG
AAAAGGATTTCTTTCCACCATTTTCTTTAAAATTAAAGTTCCTTCTCAAATGAAACAAACTTAGA
TTCTCACAATAATCTCATTCTTTTCA
Found at i:1229477 original size:159 final size:159
Alignment explanation
Indices: 1228972--1229449 Score: 376
Period size: 159 Copynumber: 3.1 Consensus size: 159
1228962 GAAAGGAACT
* * * * *
1228972 TAGATTCTCATAATAATCAT-CATTCTTTTCCTAATTTGG-CAGCATAAACATGTTCTACTCATT
1 TAGATTCTCAGAATAATC-TCCATTCTTTTCATGA-TTGGACACCATAAACACGTTCTACTCATT
* * ** * * * *
1229035 AGG-ATACATGATAGT-ATGCTTCGATTTCACAA-AAAA-AACTTCTCTTTCCACCATTTTTCTT
64 -GGAATACATGATATTAATGCTTTGGCTTCCCAAGAAAAGGA-TT-TCTTTTCACCATTTTCCTT
* * * * *
1229096 AAAAT-----TT-ATCCCTCAAGTGAGACAAACT
126 AAAATAAAAGTTCTTCCCACAAATGACACAAACA
* * * * *
1229124 TGGATTCTCACAAAAATCTCCATTCTTTTCATGATTGGACTCCATAAACACGTTCTACTGATTGG
1 TAGATTCTCAGAATAATCTCCATTCTTTTCATGATTGGACACCATAAACACGTTCTACTCATTGG
* ** * *
1229189 AATACATGATATTAATGCTTTGGTTTTGCAAGAAAAGGATTTCTTTTCACCATTTTCTTTACAAT
66 AATACATGATATTAATGCTTTGGCTTCCCAAGAAAAGGATTTCTTTTCACCATTTTCCTTAAAAT
* * ** * *
1229254 TAAAGTTCCTTTCGTCAAATGACATAAACT
131 AAAAGTT-CTTCCCACAAATGACACAAACA
* * *
1229284 TAGATTCTCAGAATAATCTCTA-TCTTTTCATGATTGGGCACCATAAACACGTTCTTCTCATTGG
1 TAGATTCTCAGAATAATCTCCATTCTTTTCATGATTGGACACCATAAACACGTTCTACTCATTGG
* * * * *
1229348 GATACATGATGTTGATGCTTTGGCTTCCCAAGAAAA-GCTTT-TTGTTGACCTATTTTCCTTAAA
66 AATACATGATATTAATGCTTTGGCTTCCCAAGAAAAGGATTTCTT-TTCACC-ATTTTCCTTAAA
*
1229411 ATAAAAGTT-TGTCCCACAAATGAGACAAACA
129 ATAAAAGTTCT-TCCCACAAATGACACAAACA
1229442 TAGATTCT
1 TAGATTCT
1229450 TGTAATAGTT
Statistics
Matches: 260, Mismatches: 50, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
151 7 0.03
152 58 0.22
153 33 0.13
154 6 0.02
155 1 0.00
157 3 0.01
158 33 0.13
159 86 0.33
160 33 0.13
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (159 bp):
TAGATTCTCAGAATAATCTCCATTCTTTTCATGATTGGACACCATAAACACGTTCTACTCATTGG
AATACATGATATTAATGCTTTGGCTTCCCAAGAAAAGGATTTCTTTTCACCATTTTCCTTAAAAT
AAAAGTTCTTCCCACAAATGACACAAACA
Found at i:1234541 original size:12 final size:12
Alignment explanation
Indices: 1234524--1234573 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
1234514 AGAAAGAAGA
1234524 GATAGGAGGGAT
1 GATAGGAGGGAT
* * *
1234536 GATAGGCGGAAA
1 GATAGGAGGGAT
1234548 GATAGGA--GA-
1 GATAGGAGGGAT
1234557 GATAGGAGGGAT
1 GATAGGAGGGAT
1234569 GATAG
1 GATAG
1234574 AAGGTGAGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
9 7 0.23
10 1 0.03
11 2 0.07
12 20 0.67
ACGTcount: A:0.38, C:0.02, G:0.46, T:0.14
Consensus pattern (12 bp):
GATAGGAGGGAT
Found at i:1234584 original size:33 final size:33
Alignment explanation
Indices: 1234521--1234593 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
1234511 AAGAGAAAGA
**
1234521 AGAGATAGGAGGGATGATAGGCGGAAAGATAGG
1 AGAGATAGGAGGGATGATAGAAGGAAAGATAGG
** *
1234554 AGAGATAGGAGGGATGATAGAAGGTGAGATATG
1 AGAGATAGGAGGGATGATAGAAGGAAAGATAGG
1234587 AGAGATA
1 AGAGATA
1234594 ATAAAGAGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.01, G:0.42, T:0.15
Consensus pattern (33 bp):
AGAGATAGGAGGGATGATAGAAGGAAAGATAGG
Found at i:1239888 original size:42 final size:42
Alignment explanation
Indices: 1239824--1239938 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 42
1239814 TAGCTCTCAA
* * *
1239824 AGAGAAAGAAGAGAGAGAAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1239866 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
1239908 AGAGATAATAGAAAGAGGAGGGATGACAGGA
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGA
1239939 AGAGGAGAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.45, C:0.03, G:0.43, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1251133 original size:157 final size:158
Alignment explanation
Indices: 1250970--1251411 Score: 385
Period size: 157 Copynumber: 2.8 Consensus size: 158
1250960 ACAAGAATCT
* * *
1250970 AGTTTGTCACATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGTCAAAGAAAAGCATTTCTT
1 AGTTTGTCTCATTTAAGGGATAAACTTTGATTTTAAGGAAAATAGGACAAAGAAAAGC-TTTCTT
* * *
1251035 GTGAAGCCAAAGTATCAATATCATGTAGCCCAATAAGGAGAA-CTGTTTATGGTGCCCAATCAT-
65 GTGAAGACAAAGTATCAATATCATGTATCCCAATAAGGA-AATGTGTTTATGGTGCCCAATCATC
* * * *
1251098 GAAAAG-ATGGAGATTGTTATGACAATCCA
129 GAAAAGAAAGCAGACTATTATGACAATCCA
* * * * *** * * *
1251127 AGTTTGTCTCATTTGAGGGACAAACTTTGGTTCTATCAAAAATAGAAGAAAG-AAAGTTTTCTTG
1 AGTTTGTCTCATTTAAGGGATAAACTTTGATTTTAAGGAAAATAGGACAAAGAAAAGCTTTCTTG
* ** * * * * *
1251191 CG-AGTTGAAAGCATCAATGTCATGTATCCCAATGAAGGAAATGTGTTTTTGGTTCTCAATC-TC
66 TGAAG-ACAAAGTATCAATATCATGTATCCCAAT-AAGGAAATGTGTTTATGGTGCCCAATCATC
*
1251254 GAAAAGAAAGCAGACTATTATGAGAATCCA
129 GAAAAGAAAGCAGACTATTATGACAATCCA
* * * * * * * * *
1251284 TGTTTGTCTTACTTAAGGGATTAACTTTGATTTTTAGGAAAATGGGGCGATGAAAAGCTTTCCTT
1 AGTTTGTCTCATTTAAGGGATAAACTTTGATTTTAAGGAAAATAGGACAAAGAAAAGCTTT-CTT
* * * * *
1251349 ATGAAAACAAA-TGATCAATATCATGTATACTAATGAGGAAAATGTGTTTATGGTGCCCAATCA
65 GTGAAGACAAAGT-ATCAATATCATGTATCCCAATAAGG-AAATGTGTTTATGGTGCCCAATCA
1251412 CAAAAAAAAT
Statistics
Matches: 214, Mismatches: 60, Indels: 19
0.73 0.20 0.06
Matches are distributed among these distances:
154 2 0.01
155 34 0.16
156 30 0.14
157 92 0.43
158 10 0.05
159 45 0.21
160 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (158 bp):
AGTTTGTCTCATTTAAGGGATAAACTTTGATTTTAAGGAAAATAGGACAAAGAAAAGCTTTCTTG
TGAAGACAAAGTATCAATATCATGTATCCCAATAAGGAAATGTGTTTATGGTGCCCAATCATCGA
AAAGAAAGCAGACTATTATGACAATCCA
Found at i:1253460 original size:752 final size:751
Alignment explanation
Indices: 1250735--1253644 Score: 2479
Period size: 744 Copynumber: 3.8 Consensus size: 751
1250725 CAAAACCAAA
* *
1250735 GCATCAATATCATGTATCCTAA-AGAGAAGAATGTGTTAATGGTGCCTCATCTTGAAAAGAATGG
1 GCATCAATATC-TGTATCCTAACA-A-AAGAATGTGTTTATGGTGCCTAATCTTGAAAAGAATGG
* * * * * * *
1250799 GGATTATTATGAGAATCCCTATTTGTCTCATTTGAAAGATGAACTTTGATTCTATG-AAAAATGT
63 AG-TTATTA--AGAATCCATGTTTTTCTCATTTAAAAGA-CAACTTTGATTCTATGAAAAAAGGT
* * * *
1250863 AGGGTAAAAAAAGCTTTCCTTGTAAAGCCAAACCATCAATGTCAAGCATCACAATGAGGATTTTT
124 --GGTAAAAAAAGCTTTCTTTGCAAAGCCAAACCATCAATGT-AATCATCGCAATGAGGATTTTT
* * * * * * *
1250928 GGTGCCTAATCACAAAAAGAATGGAGAATATTACAAGAATCTA-GTTTGTCACATTT-AAGGGAT
186 GGTGCCCAATCACGAAAGGAATGGAGACTAATACAAGAATCCATGTTTGTCTCATTTGAA-GGAT
* *
1250991 GAACTTTGATTTTAAGGAAAATAGGTCAAAGAAAAGCATTTCTTGTGAAGCCAAAGTATCAATAT
250 GAACTTTGATTTTAAGGAAAATAGGTCAAAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATAT
* * * * **
1251056 CATGTAGCCCAATAAGGA-GAACTGTTTATGGTGCCCAATC-ATGAAAAGATGGAGATTGTTATG
315 CATGTATCCC--GAAGGAGGAAATGTTTATGGTG-CCAA-CGAAGAAAAGATGGAGATTGTTACC
* * **
1251119 ACAATCCAAGTTTGTCTCATTTGAGGGACAAACTTTGGTTCTATCAAAAATAGAAGAAAG-AAAG
376 ACAATCCAAGTTTGTCTCATTTGAGAGACAAACTTTGATTCTAT-AAAAAT-TTAGAAAGAAAAG
*
1251183 -TTTTCTTGCGAGTTG--AAAGCATCAATGTCATGTATCCCAATG-AAGGAA-ATGTGTTTTTGG
439 CTTTTCTTGCGA--TGCCAAAGCATCAATGTCATGTATCCAAATGAAAGGAACA--TGTTTTTGG
* * * *
1251243 TTCTCAATCTCGAAAAGAA-AGCAGACTATTATGAGAATCCATGTTTGTCTTACTT-AAGGGATT
500 TTCCCAATCTCGAAAAGAATAG-AGACTATTATGAGAATCCATGTTTGTCTCACTTAAAGGAATG
* * * ** *
1251306 AACTTTGATTTTTAGGAAAATGGGGCGATGAAAAGCTTTCCTTATG-AAAA-CAAATGATCAATA
564 AACTTTGATTTTAAGG-AAATGAGGCAAAAAAAAGCTTT-CTT-TGCAAAAGCAAATCATCAATA
* *
1251369 TCATGTATACTAATGAGGA-AAATGTGTTTATGGTGCCCAATCACAAAAAAAATGAAGATCATTA
626 TTATGTATCCTAATGAGGAGAAA--TGTTTATGGTGCCCAATCAC-AAAAAAATGAAGAT-ATTA
* *
1251433 CTAGAATCCATGTTTGTCTTATTTAAGGCACGAACTTAGACTCTACAACAAATGGTGCAAAGAAA
687 CTAGAATCCATGTTTGTCTCATTTAAGGCACGAACTAAGACTCTACAA-AAATGGTGCAAAG-AA
1251498 AGCCTTTCTT
750 A--------T
* * * * *
1251508 GCAAACCCAAAGCATCAATTAT-TGTATCCTAATGAATATAATGTGTTCATGCTGCCTAATCTTG
1 -----------GCATCAA-TATCTGTATCCTAA-CAAAAGAATGTGTTTATGGTGCCTAATCTTG
* * * * *
1251572 AAAAGAATGGGGATTGTT-TTGAGAATCCATGTTTATCTAATTTAAAAGACAGACATT-AAT-TA
53 AAAAGAAT--GGA--GTTATTAAGAATCCATGTTTTTCTCATTTAAAAGACA-ACTTTGATTCTA
* ** * * * * *
1251634 TGAATAATTGTGGTAAAAAAATCTTTGC-TTACAAAGCCAAACCATCAATGTCATGTATCCCAAT
113 TGAAAAAAGGTGGTAAAAAAAGCTTT-CTTTGCAAAGCCAAACCATCAATGTAAT-CATCGCAAT
* * * * * *
1251698 AAGGATTTTTGGTGCCCAAT-ACTAAAGGAGTGGAGACCAATACAAAAATCTATGTTTGTCTCAT
176 GAGGATTTTTGGTGCCCAATCACGAAAGGAATGGAGACTAATACAAGAATCCATGTTTGTCTCAT
* * * * * ** *
1251762 TTGAGGGATGAATTTTGATTTTAAGCAAAATGGGTCATAGAAAAGCTTTTCTTGCAAAACCAAAG
241 TTGAAGGATGAACTTTGATTTTAAGGAAAATAGGTCAAAGAAAAGCTTTTCTTGTGAAGCCAAAG
* ** * * *
1251827 CATCAATATCATGCATCCTAATAAGGAGGATATGTTTAGGGTGCCAA-GTCACGAAAA-AGTGGA
306 CATCAATATCATGTATCC--CGAAGGAGGAAATGTTTATGGTGCCAACG--AAGAAAAGA-TGGA
* * * * *
1251890 GATTGTTACCACAATCCAAGTTTGTCCCATTTGAGGGACAAACTTCGATTCTGTCAAAATTGT-G
366 GATTGTTACCACAATCCAAGTTTGTCTCATTTGAGAGACAAACTTTGATTCTATAAAAATT-TAG
* * * *
1251954 ATAA-AAAAGCTTTTCATGAC-ATGCCAAAAGCATTAATGTCATGTATCCTAATGATAGGAACAT
430 A-AAGAAAAGCTTTTCTTG-CGATGCC-AAAGCATCAATGTCATGTATCCAAATGAAAGGAACAT
* * ** * * *
1252017 GTTTTTGGTTCCCAATCTCGAAAAGAGTGGAGACTATTACAAGAATCTATATTTGTCTCATTTAA
492 GTTTTTGGTTCCCAATCTCGAAAAGAATAGAGACTATTATGAGAATCCATGTTTGTCTCACTTAA
* * * * *
1252082 AGG-ATGAACTTTGATTTTAAGAAAAATGGGGCAAAAAAAAAACCTTTCTTTACGAAAGCAAATC
557 AGGAATGAACTTTGATTTTAAG-GAAATGAGGC--AAAAAAAAGCTTTCTTTGCAAAAGCAAATC
* * ** *
1252146 ATCAATATTGTGTTTCCTAATGAGGAG-AATGTGTTATGGTGCCCAATCATGAAACAAT---G--
619 ATCAATATTATGTATCCTAATGAGGAGAAATGT-TTATGGTGCCCAATCACAAAAAAATGAAGAT
* *
1252205 A--A-TAGAATCCATGTTTGTTTCATTTAAGGCATGAACTAAGACTCTACAAAAATGGTGCAAAG
683 ATTACTAGAATCCATGTTTGTCTCATTTAAGGCACGAACTAAGACTCTACAAAAATGGTGCAAAG
*
1252267 AAAA
748 AAAT
* ** * * * * ** *
1252271 GC-T---T-T-T-TTTGCAAAACCAAAGCATCATAGTGTA---T-CCTAGCCTTGAAAA-AAAGT
1 GCATCAATATCTGTAT-CCTAACAAAAGAAT-GT-GTTTATGGTGCCTAATCTTGAAAAGAATG-
* * * **
1252324 GA-TTATTTTAAGAATCCATGTTTATT-TCATTTAAAAGATGAACTTTGATTTTATGAATATTGG
62 GAGTTA--TTAAGAATCCATGTTT-TTCTCATTTAAAAGA-CAACTTTGATTCTATGAAAAAAGG
* *** * *
1252387 TGGTAAAAAACGCTTT-TCTTGCAAAGCCAAATTGTCAGTGTAATGCATCGCAATGATGATTTTT
123 TGGTAAAAAAAGCTTTCT-TTGCAAAGCCAAACCATCAATGTAAT-CATCGCAATGAGGATTTTT
* * * * *
1252451 GGTGCCCAATCACGAAATGAATTGAGA-TAAATAAAAGAATCCATGTTTGTATCATTTGAGGGAT
186 GGTGCCCAATCACGAAAGGAATGGAGACT-AATACAAGAATCCATGTTTGTCTCATTTGAAGGAT
* * *
1252515 GAACTTTG-TTTTAAAGGAAAATAGGTCAAAGAAAAGTTTTTCTTGTGAAGCCAACGCTTCAATA
250 GAACTTTGATTTT-AAGGAAAATAGGTCAAAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATA
* * * *
1252579 TCATCG-ATCCC-AATGAAGAGAACTTGTTTATGGTGTCCAACGATGAAAAGATGGAGATTGTTG
314 TCAT-GTATCCCGAA-GGAG-GAA-ATGTTTATGGTG-CCAACGAAGAAAAGATGGAGATTGTTA
* * * ** * **
1252642 TCATAGTCCAAGTTTGTCTTGTTT-AAAGGACAAACTTTGATTCTATTGAAATTGTAGAAAGAAA
374 CCACAATCCAAGTTTGTCTCATTTGAGA-GACAAACTTTGATTCTATAAAAATT-TAGAAAGAAA
* * * *
1252706 AGCTTTTCTTGCGATGCCAGAGAATCAATGTCATGTATTCAAATGAAAGGAACATGTTTTTGGCT
437 AGCTTTTCTTGCGATGCCAAAGCATCAATGTCATGTATCCAAATGAAAGGAACATGTTTTTGGTT
* * ** * ***
1252771 CCTAATATTAAAAAGAATAGAGACTATTATGAGCATATTTGTTTGTCTCA-TTAAAGGAATGAAC
502 CCCAATCTCGAAAAGAATAGAGACTATTATGAGAATCCATGTTTGTCTCACTTAAAGGAATGAAC
* *
1252835 TTTGCTTTTAAGG-AATGAGGCAAAAAAAAAAGGCTTTCTTTGCAAAAGGAAATCATCAATATTA
567 TTTGATTTTAAGGAAATGAGGC--AAAAAAAA-GCTTTCTTTGCAAAAGCAAATCATCAATATTA
** * *
1252899 TGTATCCTAACAAGGAGAACAAGTTTAT-GTGCCCAATCACAAAAGGAATGAAGATATTACTAGA
629 TGTATCCTAATGAGGAGAA-ATGTTTATGGTGCCCAATCACAAAA-AAATGAAGATATTACTAGA
* * * **
1252963 ATCCATGTCTGTCTCATTTGAGGCACGAACCAAGACTCTACGAAAAATGGTGGGAAGAAAT
692 ATCCATGTTTGTCTCATTTAAGGCACGAACTAAGACTCTAC-AAAAATGGTGCAAAGAAAT
1253024 GCATCAATATCGTGTATCCTAACAAGAAGAATGTGTTTATGGTGCCTAATCTTGAAAAGAAT-G-
1 GCATCAATATC-TGTATCCTAACAA-AAGAATGTGTTTATGGTGCCTAATCTTGAAAAGAATGGA
* * ** * **
1253087 G-TA-TAAAAATCCTTGTTTTTCTCATTTAGGAGACAA-GTTGATTCTACAAAAAAAGGTGGTAA
64 GTTATTAAGAATCCATGTTTTTCTCATTTAAAAGACAACTTTGATTCTATGAAAAAAGGTGGTAA
** * * *
1253149 AAAAAGCTTTCTTTGCAAAGGAAAACCATCAATGTAATCTATTGCACTGAGGATTTTTGGTGCCT
129 AAAAAGCTTTCTTTGCAAAGCCAAACCATCAATGTAATC-ATCGCAATGAGGATTTTTGGTGCCC
* * *
1253214 AATCACGAAA-GAATGGAGACTATTACAAGAATCCATCTTTATCTCATTTGAAGGATGAACTTTG
193 AATCACGAAAGGAATGGAGACTAATACAAGAATCCATGTTTGTCTCATTTGAAGGATGAACTTTG
*
1253278 ATTTTAAGGAAAATAGGTCAAAGAAAAGCTTTTTTTGTGTAA-CCAAAGCATCAATATCATGTAT
258 ATTTTAAGGAAAATAGGTCAAAGAAAAGCTTTTCTTGTG-AAGCCAAAGCATCAATATCATGTAT
*
1253342 CCCGAA-GA-GAAAGTGTTTATGGTGCACAACGAAGAAATGATGGAGATTGTTACCACAATCCAA
322 CCCGAAGGAGGAAA-TGTTTATGGTGC-CAACGAAGAAAAGATGGAGATTGTTACCACAATCCAA
* * * * *
1253405 GTTTGTCTCATTTGACAGACAAACTTTGGTTCTATAAAAATTTTGCAACGAAAAGCTTTTCTTGT
385 GTTTGTCTCATTTGAGAGACAAACTTTGATTCTATAAAAATTTAG-AAAGAAAAGCTTTTCTTGC
* * * * * *
1253470 GATGCCAAAGCATCAAAGTCATGCATTCGAATGAAAGGAACATATTTTTGGTTCCCAATCTTGAA
449 GATGCCAAAGCATCAATGTCATGTATCCAAATGAAAGGAACATGTTTTTGGTTCCCAATCTCGAA
* * * *
1253535 AAGAATGGAGACTATTAAGAGAATCCTTGTTTATCTCA-TTAAAGGAATGAACTTTGATTTTAAG
514 AAGAATAGAGACTATTATGAGAATCCATGTTTGTCTCACTTAAAGGAATGAACTTTGATTTTAAG
*
1253599 GAAAATGATGCAAAAAAAAGCTTTCTTTGCAAAAGCAAATCATCAA
579 G-AAATGAGGCAAAAAAAAGCTTTCTTTGCAAAAGCAAATCATCAA
1253645 AATCAGAGTT
Statistics
Matches: 1727, Mismatches: 290, Indels: 251
0.76 0.13 0.11
Matches are distributed among these distances:
738 2 0.00
740 1 0.00
741 34 0.02
742 26 0.02
743 151 0.09
744 275 0.16
745 35 0.02
746 7 0.00
747 5 0.00
749 1 0.00
751 31 0.02
752 258 0.15
753 20 0.01
754 10 0.01
755 99 0.06
756 88 0.05
757 6 0.00
758 24 0.01
759 4 0.00
760 7 0.00
761 9 0.01
762 2 0.00
763 12 0.01
764 2 0.00
771 3 0.00
772 13 0.01
773 43 0.02
774 1 0.00
776 1 0.00
779 31 0.02
780 161 0.09
781 84 0.05
782 123 0.07
783 100 0.06
784 47 0.03
785 8 0.00
786 2 0.00
787 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (751 bp):
GCATCAATATCTGTATCCTAACAAAAGAATGTGTTTATGGTGCCTAATCTTGAAAAGAATGGAGT
TATTAAGAATCCATGTTTTTCTCATTTAAAAGACAACTTTGATTCTATGAAAAAAGGTGGTAAAA
AAAGCTTTCTTTGCAAAGCCAAACCATCAATGTAATCATCGCAATGAGGATTTTTGGTGCCCAAT
CACGAAAGGAATGGAGACTAATACAAGAATCCATGTTTGTCTCATTTGAAGGATGAACTTTGATT
TTAAGGAAAATAGGTCAAAGAAAAGCTTTTCTTGTGAAGCCAAAGCATCAATATCATGTATCCCG
AAGGAGGAAATGTTTATGGTGCCAACGAAGAAAAGATGGAGATTGTTACCACAATCCAAGTTTGT
CTCATTTGAGAGACAAACTTTGATTCTATAAAAATTTAGAAAGAAAAGCTTTTCTTGCGATGCCA
AAGCATCAATGTCATGTATCCAAATGAAAGGAACATGTTTTTGGTTCCCAATCTCGAAAAGAATA
GAGACTATTATGAGAATCCATGTTTGTCTCACTTAAAGGAATGAACTTTGATTTTAAGGAAATGA
GGCAAAAAAAAGCTTTCTTTGCAAAAGCAAATCATCAATATTATGTATCCTAATGAGGAGAAATG
TTTATGGTGCCCAATCACAAAAAAATGAAGATATTACTAGAATCCATGTTTGTCTCATTTAAGGC
ACGAACTAAGACTCTACAAAAATGGTGCAAAGAAAT
Found at i:1256762 original size:138 final size:138
Alignment explanation
Indices: 1256514--1256781 Score: 344
Period size: 138 Copynumber: 1.9 Consensus size: 138
1256504 ATAAACATAG
* * *
1256514 TCTTCTCATGAGGATACGCAATATTGATGCTTTGATTTTGAAAGAAAGGCATTTTTCCAACCAAT
1 TCTTCTCATGAGGATACACAAAATTAATGCTTTGATTTTGAAAGAAAGGCATTTTTCCAACCAAT
* * *
1256579 TTTCGTAAGGTCTAAGTTCATGCCTCAAATGAGACGAACATGGATTCTAGTAAGGGTCTTCATTC
66 TTTCATAAGGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTC
1256644 ATTTACAT
131 ATTTACAT
* * * * **
1256652 TCTTCTCATTAGGATACACAAAATTAATGCTTTGGTTTTGCAAA-AAAGGCTTTTTTCCCA-GTA
1 TCTTCTCATGAGGATACACAAAATTAATGCTTTGATTTTG-AAAGAAAGGCATTTTTCCAACCAA
* ** *
1256715 TTTTCCAT-AGAGTCTAAGTTTATTTCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCA
65 TTTT-CATAAG-GTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCA
1256779 TTC
128 TTC
1256782 TTTTCGTGAT
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
137 7 0.06
138 101 0.91
139 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (138 bp):
TCTTCTCATGAGGATACACAAAATTAATGCTTTGATTTTGAAAGAAAGGCATTTTTCCAACCAAT
TTTCATAAGGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTC
ATTTACAT
Found at i:1258741 original size:782 final size:777
Alignment explanation
Indices: 1257587--1261767 Score: 3794
Period size: 778 Copynumber: 5.3 Consensus size: 777
1257577 CAAACACATA
* * * * * *
1257587 CTCTTCATTGGGATACATGATATTGACGC-TTCGC-TTGACAAGAAAAGTTTTTCTTTAACCTAT
1 CTCTTCATTAGGATACATGATATTGATGCTTTGGCTTTG-CAAGAAAAGCTTTTCTTTGACCCAT
** * * * ** *
1257650 TTTCTTTAAAATC-AAGTTTGTCCCTCAAAAGAGATAAACATGGATTAATGTATTAGTCTCCATT
65 TTTC-TTAAAATCAAAGTTCATCCTTCAAATGAGA-AAAAATGGATTCTTGTAATAGTCTCCATT
** * * * *
1257714 CTTTTTGTGATTGGGTTCCAAAAATCCACATTGAGATACATGACATTGATGGTTTGCAAACCAAA
128 CTTTTTGTGATTGGGCACC-AAAATCCTCATTGAGATGCATGACAATGATGGTTTG----GC---
*** *
1257779 AATCCACAAGCAAAGCTTTTTTTAACCACCATTTTTCATAGAATCAAAGTTCATCTCTTAAATGA
185 --TTTGC-AGGAAAGCTTTTTTT-ACCACCATTTTTCATAGAATCAAAGTTCATCTCTTAAATGA
* * * * * * *
1257844 GACAAATATGGATGCTTATAATAATCCCTATTCTTTTCTAGATTAAGCACCATAAACATATTCTT
246 GACAAACATGGATTCTCATAATAATCCCCATTCTTTTCAAGATTAGGCACCATAAACACATTCTT
* * * * * *
1257909 CTCATTAGGATACACGATATTAATGATTTGATTTCACAGGAAAAGCTTTTCTTCCCACCATTTTT
311 CTCATTAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTCTTCCCACCA-TTTT
* * ** ** * *** *
1257974 TTGTGGAGTCTTGGTTTGTGGCTCAAATGAGACAAACACAAATTCTAGTAATTATCTTCATTCTT
375 TCGTAGAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATT-TT
* * * * * *
1258039 TTTGTGATTGGGCACCATAAACACATTTTCCTTATTATGATACATGATATTGATGCTCTACTTTC
439 TTTATGATTGGGCACCATAAACACATTTTCCTCATTA-GATATATGATATTGATGATTTGCTTTC
* * * *
1258104 ACAAGGAGAGCTTTTCTTTACCCTATTTTCCTTTAAATCAAAGTTCATCCCTTAAATGA-ACAAG
503 ACAAGGAAAGCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAA-GAGACAAA
* ** *
1258168 CATGGATTCTCGTAATAGTCTCCATTCTTTTTGAGATTGGAAACCAAAAACATGTTGCCTTCATT
567 CATGGATTCTTGTAATAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACATGTT-CCTTCATT
*
1258233 GGGATATATGACATTGATGCTTTAGTGTCACAAGAAATGCTTTTCTTTCCACTAATTTTGATAGA
631 GGGATACATGACATTGATGCTTT-GTGTCACAAGAAA-GCTTTTCTTTCCACTAATTTTGATAGA
* ** *
1258298 ATAAAAGTTTATCCCTCAAATGAGACAAACTTGGATTATTGTAACAATCTCCAT-TTTTCATGAT
694 ATAAAAGTTTATCCCTCAAATGAGACAAACTTGGATTGTCATAACAATCTCCATCTTTTCGTGAT
* *
1258362 TAGGAACCATAAACATGTT
759 TGGGCACCATAAACATGTT
* * *
1258381 CTCTTCATTAGGATACATGATATTGAT-CTTTGGCTTTGGAAAAAAAACTTTTCTTTGACCCATT
1 CTCTTCATTAGGATACATGATATTGATGCTTTGGCTTTGCAAGAAAAGCTTTTCTTTGACCCATT
* * * *
1258445 TTCCTTGAAAATCAAAGTTC-TCCTTTAAATGAGATAAAAATTGATTCTTCTAATAGTCTTCATT
66 TT-CTT-AAAATCAAAGTTCATCCTTCAAATGAGA-AAAAATGGATTCTTGTAATAGTCTCCATT
* *
1258509 CTTTTTGTGATTGGGTACCAAAATCCTCATTGAGATGCATGACAATGATGGTTTGGCTTTGCGGG
128 CTTTTTGTGATTGGGCACCAAAATCCTCATTGAGATGCATGACAATGATGGTTTGGCTTTGCAGG
* * * *
1258574 AAAAG-TTTTTTTA-CACCATTTTTCTTAGAATAAAAGTTCATTTCTTAAATAAGACAAACATGG
193 -AAAGCTTTTTTTACCACCATTTTTCATAGAATCAAAGTTCATCTCTTAAATGAGACAAACATGG
* * *
1258637 ATTCTCATAATAATCCCCATTCTTTTCAAGATTAGGCACCATAAAAACATTCTTCCCATAAGGAT
257 ATTCTCATAATAATCCCCATTCTTTTCAAGATTAGGCACCATAAACACATTCTTCTCATTAGGAT
* * **
1258702 ACATGATATTGAGGCTTTGGTTTCGCAAGAAAGGCTTTTCTTTGCACCATTTTTCGTAGAGTC-A
322 ACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTCTTCCCACCATTTTTCGTAGAGTCTA
* * * **
1258766 AGTTTATGCCTTAAATGAGACAAACATGGGTTCTAGTAATGATCTTCATTTTTTTCATGATTGAA
387 AGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTTTTTT-ATGATTGGG
* * * * ** * *
1258831 TACTATTAAGAC-TTTGTCCTCATTATTCTATATGACATTGATGATTTG-TTT-TCAAGGAAAGC
451 CACCATAAACACATTT-TCCTCATTA-GATATATGATATTGATGATTTGCTTTCACAAGGAAAGC
* * * * **
1258893 TTTTCATTGGCCC-ATTTTCCTTAAAATCAAAATTTATCCTTTAACAGAGACTGACATGGATTCT
514 TTTTC-TTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAA-AGAGACAAACATGGATTCT
* ** * * *
1258957 TGTAATAGTCTTCATTC-TTTCAAGATTGGGAACCAAAAACACATTACTTTTATTGAGATACATG
577 TGTAATAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACATGTT-CCTTCATTGGGATACATG
* *
1259021 ACATTGATGCTTTGGTTTCGCAAGAAAAGCTTTTC-TTCCA-TAATTTTGATAGAATCAAAA-TT
641 ACATTGATGCTTT-GTGTCACAAG-AAAGCTTTTCTTTCCACTAATTTTGATAGAAT-AAAAGTT
* * * * *
1259083 TGTCCCTC--ATGGGACAAACTTGGATTGCCATAACAATCTCCATCATTTCGTGATTAGGCACCA
703 TATCCCTCAAATGAGACAAACTTGGATTGTCATAACAATCTCCATCTTTTCGTGATTGGGCACCA
*
1259146 TAGACATGTT
768 TAAACATGTT
* * * * ** * * *
1259156 TTACTT-ATTGGGATACACGATATTAACACTTT-GCTTTCGCAAGAAAAGTTTTTCTTCGACTCA
1 CT-CTTCATTAGGATACATGATATTGATGCTTTGGCTTT-GCAAGAAAAGCTTTTCTTTGACCCA
* * * * *
1259219 TTTTCCTTTAAATCAAAGTTCATCCCTCAAATGAGATAAACATGGATTCTTATAACAGTCTCCAT
64 TTTT-CTTAAAATCAAAGTTCATCCTTCAAATGAGA-AAAAATGGATTCTTGTAATAGTCTCCAT
* ** * * * * * * * *
1259284 TCTTTTTGT-ATTCGGCATAAAAAAATTCTCATTGGGGTACATGATATTGATGGTTTGGCTGTAC
127 TCTTTTTGTGATTGGGC--ACCAAAATCCTCATTGAGATGCATGACAATGATGGTTTGGCTTTGC
* ** * *
1259348 AAGCAAAGCTTTTGCTACCACCATTTTCCATAAAATCAAAGTTCATCTCTTAAATGAGACAAACA
190 -AGGAAAGCTTTTTTTACCACCATTTTTCATAGAATCAAAGTTCATCTCTTAAATGAGACAAACA
* * ** * * *
1259413 TGCATTCTCATCATAATCCTTATTTTTTTCAAGATTAGGCATCATAAACACATT-TTTTCATTAG
254 TGGATTCTCATAATAATCCCCATTCTTTTCAAGATTAGGCACCATAAACACATTCTTCTCATTAG
* * * * *** * * *
1259477 GATACATAATATTGATGCTTTAGTTTCACATGAAATGCTTTTCTTCGTGCCATTTTTTGTAAAAT
319 GATACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTCTTCCCACCATTTTTCGTAGAGT
* * * *
1259542 CTAAGTTCATGCTTGAAATGAGAC-AACATGGATTCTAGTAACGATCTTCATTTTTTTCATAATT
384 CTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTTTTTT-ATGATT
* * ** ** *
1259606 GAGCACCATAAACACATTCTCCTCATTAGCATATGCGATATTGATGATTTTTTTTTGA-AAGGAA
448 GGGCACCATAAACACATTTTCCTCATTAG-ATATATGATATTGATGA-TTTGCTTTCACAAGGAA
* ** *
1259670 AGCTTTTCCTTGCCCTATTTTCCTTAAAATCAAAGTT--T-TTTTATAAGAGACTAACATGGATT
511 AGCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTA-AAGAGACAAACATGGATT
** * * ** * **
1259732 CTCATAATAGTCTCTATCCTTTTTGAGATTGGGAGCCAAAGGCATGTTCTCTT-ATTTGGGATAC
575 CTTGTAATAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACATGTTC-CTTCA-TTGGGATAC
* * * * * * *
1259796 ATGACATTGATGCTATGT-TGCA-AGGAAAGCTTTTCTTTCTACTAGTGTTGACAGAATTAAAGT
638 ATGACATTGATGCTTTGTGT-CACAAGAAAGCTTTTCTTTCCACTAATTTTGATAGAATAAAAGT
* *
1259859 TTATCCCTCAAATGAGAGAAGA-TTGGATTGTCAAAACAATCTCCATCTATTT-GTGATTGGGCA
702 TTATCCCTCAAATGAGACAA-ACTTGGATTGTCATAACAATCTCCATCT-TTTCGTGATTGGGCA
* *
1259922 TCATAAATATGTT
765 CCATAAACATGTT
** * * * *
1259935 CTCTTCATTAGGATACATGATATTGATGCTTTCACTTTGCAAGAAAAGCATTTATTTGGCCAATT
1 CTCTTCATTAGGATACATGATATTGATGCTTTGGCTTTGCAAGAAAAGCTTTTCTTTGACCCA-T
* ** * * * * *
1260000 TTTTTTAAAATCAAAGTTTGT-CTCTCAAATGAGACAAACTAGATTATTGTTATAGTCT--ATGT
65 TTTCTTAAAATCAAAGTTCATCCT-TCAAATGAGAAAAAATGGATTCTTGTAATAGTCTCCAT-T
* * * * *
1260062 TTTTTTCATGATTGGGCACCAAGAATCCTCATT-ACGATGCGTGACAATGAAGG-TTGG-TCGTG
128 CTTTTT-GTGATTGGGCACCAA-AATCCTCATTGA-GATGCATGACAATGATGGTTTGGCT-TTG
* * * *
1260124 CAAGGAAAGC-TTTTTTGCCTCCATTTTTCATAGAAT-AAAATTCATTTCTTAAATGAGACAAAC
189 C-AGGAAAGCTTTTTTTACCACCATTTTTCATAGAATCAAAGTTCATCTCTTAAATGAGACAAAC
* * * * * *
1260187 AAGGATTTTTATAGTAATCGCCATTCTTTTCAAGATTAGGCACCATAAACACATTTTTCTCATTA
253 ATGGATTCTCATAATAATCCCCATTCTTTTCAAGATTAGGCACCATAAACACATTCTTCTCATTA
* * * ** * * *
1260252 GGATACATGATATTGATCCTTTAGTATCGTAAGAAAGGGTTTTCCTCCCACCATTTTTCCTAGAG
318 GGATACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTCTTCCCACCATTTTTCGTAGAG
* * * * * * ** *
1260317 TC-ATAGTTCATTCCTCAAATCACACAGACATAGATTCTAGTAACGATCTTCATTCTTTTCGTGG
383 TCTA-AGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATT-TTTTTATGA
** * ** * ** *
1260381 TTGGGCACTGTAACCATTTTTTCTTTGTTAGGATATATGATATTGGTGATTTGCTTTCACAAGGA
446 TTGGGCACCATAAACACATTTTCCTCATTA-GATATATGATATTGATGATTTGCTTTCACAAGGA
** * * * * *
1260446 AAGCTTTTCTTCACCCTACTATCCTTAAAATCAAAGTTCATCCCTTTAATGACACAAACATGGAA
510 AAGCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCC-TTAAAGAGACAAACATGGAT
*
1260511 TCTTGTAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACATGTTCCTTTCATTGGGATAC
574 TCTTGTAATAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACATGTTCC-TTCATTGGGATAC
* * ** * *
1260576 ATGA-ATTGATGCTTTG-G-CACTAGAAGAAAATCTTTTTTTTCCAC-AATTTCAATAAAATCAA
638 ATGACATTGATGCTTTGTGTCAC---AAG-AAAGCTTTTCTTTCCACTAATTTTGATAGAATAAA
* ** * * *
1260637 AGTTTCTCCCTCAAATGAGATGAACTTGGATTATCATAACAATCTTCATCTTTTTGTGATTGGGC
699 AGTTTATCCCTCAAATGAGACAAACTTGGATTGTCATAACAATCTCCATCTTTTCGTGATTGGGC
** *
1260702 ACCACGAACATGTA
764 ACCATAAACATGTT
* * **
1260716 CTCCTCATTGGGATACATGATATTGATGCTTTGGCTTCACAAGAAAAGCTTTTCTTTGACCCAAT
1 CTCTTCATTAGGATACATGATATTGATGCTTTGGCTTTGCAAGAAAAGCTTTTCTTTGACCC-AT
* *
1260781 TTTCTTAAAATCAAAGTTCAT-CTCTCAAATGAGACAAACATGGATTCTTGTAATAGTCTCCACT
65 TTTCTTAAAATCAAAGTTCATCCT-TCAAATGAGA-AAAAATGGATTCTTGTAATAGTCTCCATT
* * * * * *
1260845 CTTTTCGT-ATTGGGCACCAAAAATCCTTATTGGGATACATGACATTGATTGTTTGGCTTTGCAA
128 CTTTTTGTGATTGGGCACC-AAAATCCTCATTGAGATGCATGACAATGATGGTTTGGCTTTGC-A
* * * * * * *
1260909 GCAAAG-TTTTTTTACCACTATTTTTCATAAAATCAAAGTTCATCCCTAAAATAAGAAAAACATG
191 GGAAAGCTTTTTTTACCACCATTTTTCATAGAATCAAAGTTCATCTCTTAAATGAGACAAACATG
* * * * *
1260973 GATTCTCAAAATAATCCTCATTCTTTTCAAGATTGGGCACCATAACCACATTCATT-TCATTGGG
256 GATTCTCATAATAATCCCCATTCTTTTCAAGATTAGGCACCATAAACACATTC-TTCTCATTAGG
* * * *
1261037 ATACATGATATTGTTGCTGTGGTTTCACAAGAAAGGCTTTT-TTCACACCATTTTTCATAGAGTC
320 ATACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTCTTCCCACCATTTTTCGTAGAGTC
* * * *
1261101 TAAGTTCATGCCTTAAATGAGACAAACATGGCTTCTAGTAATAATCTTCAATTTTTTCATGATTG
385 TAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTC-ATTTTTTTATGATTG
* * * * * * *** *
1261166 GGTACCATAAACACATTCTCCACATTAGTATACAAGATATTGATGATTTGTTTTTGTAAGAAAAG
449 GGCACCATAAACACATTTTCCTCATTAG-ATATATGATATTGATGATTTGCTTTCACAAGGAAAG
* * * **
1261231 CTTTTCATTGCCCCATTTGT-C-TAAAATTCAAAGCTCATTACTTAAAAGAGACAAACATGGATT
513 CTTTTCTTTGCCCTATTT-TCCTTAAAA-TCAAAGTTCATCCCTT-AAAGAGACAAACATGGATT
* * * *
1261294 CTTGTTATAGTCTCCATTCTTTCCAAGATTGGGAACCAAAAAAACAT-TTCCTTTATTGGGATAT
575 CTTGTAATAGTCTCCATTCTTTTCAAGATTGGGAACC--AAAAACATGTTCCTTCATTGGGATAC
* * * *
1261358 ATGACATTGATGCTTTGATGTCGCAAAGAAAGCTTTTCTTTCCAAT-ATTCT--T--AATAGAA-
638 ATGACATTGATGCTTTG-TGTCAC-AAGAAAGCTTTTCTTTCCACTAATTTTGATAGAATAAAAG
* * * * ** *
1261417 TTTATCCCTCAAATCAGATAAAGTTGGATTGTCAAAACAATCTGTATCTTTTCATGATTGGGCAC
701 TTTATCCCTCAAATGAGACAAACTTGGATTGTCATAACAATCTCCATCTTTTCGTGATTGGGCAC
* *
1261482 CATAAATATATT
766 CATAAACATGTT
* *
1261494 CT-TCTC-TCTAGAATACATGATATTGATGCTTTGGCTTTGCAAGAAAAGCTTTTCTTTGACCTA
1 CTCT-TCAT-TAGGATACATGATATTGATGCTTTGGCTTTGCAAGAAAAGCTTTTCTTTGACCCA
* * * *
1261557 TTTTACTCAAAATCAAAGTTCATCCTTCAAATGAGACAAATTGGATTCTTGTAATTGTCTCCATT
64 TTTT-CTTAAAATCAAAGTTCATCCTTCAAATGAGAAAAAATGGATTCTTGTAATAGTCTCCATT
**** * *
1261622 CTTTTTGTGATCACCCCCCAAAAATCCTCATT-ACGATGCATGAGAATGATGGTTT-GCATTTGC
128 CTTTTTGTGATTGGGCACC-AAAATCCTCATTGA-GATGCATGACAATGATGGTTTGGC-TTTGC
* ** * * *
1261685 AAGGAAAGCTATTTTTACCATTATTTCTCATAGATTCAAAGTTCATCTCTTAAATGAGACAAATA
190 -AGGAAAGCTTTTTTTACCACCATTTTTCATAGAATCAAAGTTCATCTCTTAAATGAGACAAACA
* * *
1261750 GGGATTCTTATAGTAATC
254 TGGATTCTCATAATAATC
1261768 ATCTCTTAAA
Statistics
Matches: 2726, Mismatches: 557, Indels: 223
0.78 0.16 0.06
Matches are distributed among these distances:
774 30 0.01
775 145 0.05
776 218 0.08
777 273 0.10
778 528 0.19
779 364 0.13
780 202 0.07
781 215 0.08
782 413 0.15
783 152 0.06
784 22 0.01
785 7 0.00
786 2 0.00
790 1 0.00
793 1 0.00
794 86 0.03
795 62 0.02
796 5 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (777 bp):
CTCTTCATTAGGATACATGATATTGATGCTTTGGCTTTGCAAGAAAAGCTTTTCTTTGACCCATT
TTCTTAAAATCAAAGTTCATCCTTCAAATGAGAAAAAATGGATTCTTGTAATAGTCTCCATTCTT
TTTGTGATTGGGCACCAAAATCCTCATTGAGATGCATGACAATGATGGTTTGGCTTTGCAGGAAA
GCTTTTTTTACCACCATTTTTCATAGAATCAAAGTTCATCTCTTAAATGAGACAAACATGGATTC
TCATAATAATCCCCATTCTTTTCAAGATTAGGCACCATAAACACATTCTTCTCATTAGGATACAT
GATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTCTTCCCACCATTTTTCGTAGAGTCTAAGTT
CATGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTTTTTTATGATTGGGCACCA
TAAACACATTTTCCTCATTAGATATATGATATTGATGATTTGCTTTCACAAGGAAAGCTTTTCTT
TGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAAGAGACAAACATGGATTCTTGTAATAGT
CTCCATTCTTTTCAAGATTGGGAACCAAAAACATGTTCCTTCATTGGGATACATGACATTGATGC
TTTGTGTCACAAGAAAGCTTTTCTTTCCACTAATTTTGATAGAATAAAAGTTTATCCCTCAAATG
AGACAAACTTGGATTGTCATAACAATCTCCATCTTTTCGTGATTGGGCACCATAAACATGTT
Found at i:1260826 original size:158 final size:157
Alignment explanation
Indices: 1256743--1261605 Score: 1458
Period size: 158 Copynumber: 31.1 Consensus size: 157
1256733 TTTATTTCTC
* ** *
1256743 AAATGAGACAAACATGGATTCT-AGTAATGATCTTCATTCTTTTCGTGATTGGGC-CACATGAAC
1 AAATGAGACAAACATGGATTCTCA-TAATAATCTTCA-TCTTTTTATGATTGGGCAC-CATAAAC
* * ** * * * *
1256806 ATGTTCT--T-ATTAGG-TACATGATAATGATGATTTGTTTTTGTAGGGAAAGCTTTTCTTTG--
63 AT-TTCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGAC
* *
1256865 CCACATTTTCCCTAAAATCAAAGTTCTTCCCTT
127 CCA-ATTTT-CTTAAAATCAAAGTTCATCCCTT
* * * * * * ** *
1256898 TAATGAGACAAACATGAATTCTCATAATAGTCTCCATTCTTTTCAAGATTGGAAACCAAAAACAT
1 AAATGAGACAAACATGGATTCTCATAATAATCTTCA-TCTTTTTATGATTGGGCACCATAAACAT
* * * * * * * *
1256963 GTTCGCTTCA-TAGGGACACATGACATTGATGCTTCGGTGTTAGGAA-AACAA-CTTTTCCTTTG
65 -TTCTCCTCATTA-GGATACATGATATTGATGCTTTGG-CTTCGCAAGAA-AAGCTTTT-CTTTG
* * ** * ** *
1257025 A-TCATTTTTAATATAATCAAAGTTTGTCCTTT
125 ACCCAATTTTCTTAAAATCAAAGTTCATCCCTT
* * * *
1257057 AAATGAGACAAACTTGGATTGTCATAA-AATTCTCCATCTTTTCATGATTGGGCACCATAAACAC
1 AAATGAGACAAACATGGATTCTCATAATAA-TCTTCATCTTTTTATGATTGGGCACCATAAACA-
* * * *
1257121 GTTCTCCTC------AT---TGATATTGATGCTTTGGCTTTGCAAGAAAAGTTTTTCTTT-ATCC
64 TTTCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGACCC
* *
1257176 TATTTTCCTTAAAATCAAAGTTTAT-CCTT
129 AATTTT-CTTAAAATCAAAGTTCATCCCTT
* ** * * * *
1257205 CAAATAAGACAAACATGGATTCTTGTAATAGTCTTTATTCTTTTTGTGATTGGGCACC-CAAA-A
1 -AAATGAGACAAACATGGATTCTCATAATAATCTTCA-TCTTTTTATGATTGGGCACCATAAACA
* * * * * * *
1257268 ----TCCTCATT-GTGATGCATGACATTGATGGTTTGGTTTTGCAAGGAAGGCTTTT-TTT-ACC
64 TTTCTCCTCATTAG-GATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGA-C
* * * *
1257326 ACCATTTTTTTTGTAGAATCAAAGTTCATCTCTT
127 -CCA-ATTTTCT-TAAAATCAAAGTTCATCCCTT
* * * * * * *
1257360 AAATGAAACAAACATTGATTCTCCTAATAATCCTT-ATTCATTTCAAGATTTGGCACCATAAACA
1 AAATGAGACAAACATGGATTCTCATAATAAT-CTTCA-TCTTTTTATGATTGGGCACCATAAACA
* * ** * * *
1257424 CTTTTTTCTCATTAGGATACATGATATTGACACTTTGGTTTTGCAAGAAAGGCTTTTC-TT--CC
64 -TTTCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGACC
* * * ** *
1257486 CATCATTTTTCGTAGAGTCTTAGTTCATGCCTT
128 CA--A-TTTTCTTAAAATCAAAGTTCATCCCTT
* * * * * * ** *
1257519 AAATGAGACAGACATGGATTCT-AGCAATGATATTTATTCTTTTCATGATTAAGCACCACAAACA
1 AAATGAGACAAACATGGATTCTCA-TAATAATCTTCA-TCTTTTTATGATTGGGCACCATAAACA
* * * * * * * *
1257583 CATACTCTTCATTGGGATACATGATATTGACGC-TTCGCTT-GACAAGAAAAGTTTTTCTTT-AA
64 -TTTCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCG-CAAGAAAAGCTTTTCTTTGAC
* ** *
1257645 CCTATTTTCTTTAAAATC-AAGTTTGTCCCTC
127 CCAATTTTC-TTAAAATCAAAGTTCATCCCTT
* * * * * * * * **
1257676 AAAAGAGATAAACATGGATTAAT-GTATTAGTCTCCATTCTTTTTGTGATTGGGTTCCA-AAA-A
1 AAATGAGACAAACATGGATT-CTCATAATAATCTTCA-TCTTTTTATGATTGGGCACCATAAACA
* * * * * * *
1257738 ----TCCACATT-GAGATACATGACATTGATGGTTTGCAAACCAAAAATCCACAAGCAAAGCTTT
64 TTTCTCCTCATTAG-GATACATGATATTGATGCTTTG----GC-----TTCGCAAGAAAAGCTTT
* * * * *
1257798 T-TTTAACCACCATTTTTCATAGAATCAAAGTTCATCTCTT
119 TCTTTGA-C-CCAATTTTCTTAAAATCAAAGTTCATCCCTT
* * * * **
1257838 AAATGAGACAAATATGGATGCTTATAATAATC-CCTATTCTTTTCTA-GATTAAGCACCATAAAC
1 AAATGAGACAAACATGGATTCTCATAATAATCTTC-A-TCTTTT-TATGATTGGGCACCATAAAC
* * * * ** * * **
1257901 ATATTCTTCTCATTAGGATACACGATATTAATGATTTGATTTCACAGGAAAAGCTTTTC-TTCCC
63 AT-TTCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGAC
* * ** * *** ** ** *
1257965 ACCATTTTTTTGTGGAGTCTTGGTTTGTGGCTC
127 -CCAATTTTCT-TAAAATCAAAGTTCATCCCTT
*** * *
1257998 AAATGAGACAAACACAAATTCT-AGTAATTATCTTCATTCTTTTTGTGATTGGGCACCATAAACA
1 AAATGAGACAAACATGGATTCTCA-TAATAATCTTCA-TCTTTTTATGATTGGGCACCAT-AA-A
* * * * * * *
1258062 CATTT-TCCTTATTATGATACATGATATTGATGCTCT-ACTTTCACAAGGAGAGCTTTTCTTT-A
62 CATTTCTCCTCATTAGGATACATGATATTGATGCTTTGGC-TTCGCAAGAAAAGCTTTTCTTTGA
* *
1258124 CCCTATTTTCCTTTAAATCAAAGTTCATCCCTT
126 CCCAATTTT-CTTAAAATCAAAGTTCATCCCTT
* * * * ** *
1258157 AAATGA-ACAAGCATGGATTCTCGTAATAGTCTCCATTCTTTTTGA-GATTGGAAACCAAAAACA
1 AAATGAGACAAACATGGATTCTCATAATAATCTTCA-TCTTTTT-ATGATTGGGCACCATAAACA
* * * * * * *
1258220 TGTTGC-CTTCATTGGGATATATGACATTGATGCTTTAG-TGTCACAAGAAATGCTTTTCTTT--
64 T-TT-CTCCTCATTAGGATACATGATATTGATGCTTTGGCT-TCGCAAGAAAAGCTTTTCTTTGA
** * * * *
1258281 CCACTAATTTTGATAGAATAAAAGTTTATCCCTC
126 CC-C-AATTTTCTTAAAATCAAAGTTCATCCCTT
* * ** * * * * *
1258315 AAATGAGACAAACTTGGATTATTGTAACAATCTCCAT-TTTTCATGATTAGGAACCATAAACATG
1 AAATGAGACAAACATGGATTCTCATAATAATCTTCATCTTTTTATGATTGGGCACCATAAACAT-
* * * * *
1258379 TTCTCTTCATTAGGATACATGATATTGAT-CTTTGGCTTTGGAAAAAAAACTTTTCTTTGACCC-
65 TTCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGACCCA
*
1258442 ATTTTCCTTGAAAATCAAAGTTC-TCCTTT
130 ATTTT-CTT-AAAATCAAAGTTCATCCCTT
* * * * * *
1258471 AAATGAGATAAAAATTGATTCTTC-TAATAGTCTTCATTCTTTTTGTGATTGGGTACC--AAA-A
1 AAATGAGACAAACATGGATTC-TCATAATAATCTTCA-TCTTTTTATGATTGGGCACCATAAACA
* * * * * **
1258532 ----TCCTCATT-GAGATGCATGACAATGATGGTTTGGCTTTGCGGGAAAAG-TTTT-TTT-ACA
64 TTTCTCCTCATTAG-GATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGAC-
* * * **
1258589 CCATTTTTCTTAGAATAAAAGTTCATTTCTT
127 CCAATTTTCTTAAAATCAAAGTTCATCCCTT
* ** * * *
1258620 AAATAAGACAAACATGGATTCTCATAATAATCCCCATTCTTTTCAAGATTAGGCACCATAAAAAC
1 AAATGAGACAAACATGGATTCTCATAATAATCTTCA-TCTTTTTATGATTGGGCACCAT--AAAC
* * * *
1258685 A-TTCTTCC-CATAAGGATACATGATATTGAGGCTTTGGTTTCGCAAGAAAGGCTTTTCTTTG-C
63 ATTTC-TCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGAC
* * * * * *
1258747 ACCATTTTTCGTAGAGTC-AAGTTTATGCCTT
127 -CCAATTTTCTTAAAATCAAAGTTCATCCCTT
* * * *** *
1258778 AAATGAGACAAACATGGGTTCT-AGTAATGATCTTCATTTTTTTCATGATTGAATACTATTAAGA
1 AAATGAGACAAACATGGATTCTCA-TAATAATCTTCATCTTTTT-ATGATTGGGCACCA-TAA-A
* *** * * * ** * * *
1258842 C-TTTGTCCTCATTATTCTATATGACATTGATGATTT-G-TTTTCAAGGAAAGCTTTTCATTGGC
62 CATTTCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGAC
* * *
1258904 CC-ATTTTCCTTAAAATCAAAATTTATCCTTT
127 CCAATTTT-CTTAAAATCAAAGTTCATCCCTT
** ** * * * * *
1258935 AACA-GAGACTGACATGGATTCTTGTAATAGTCTTCAT-TCTTTCAAGATTGGGAACCAAAAACA
1 AA-ATGAGACAAACATGGATTCTCATAATAATCTTCATCT-TTTTATGATTGGGCACC-ATAA-A
* * * * *
1258998 CATTACT-TTTATT-GAGATACATGACATTGATGCTTTGGTTTCGCAAGAAAAGCTTTTC-TT--
62 CATTTCTCCTCATTAG-GATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGA
* ** * * **
1259058 CCATAATTTTGATAGAATCAAAATTTGTCCC-T
126 CC-CAATTTTCTTAAAATCAAAGTTCATCCCTT
* * * * * * ** * *
1259090 -CATGGGACAAACTTGGATTGC-CATAACAATCTCCATCATTTCGTGATTAGGCACCATAGACAT
1 AAATGAGACAAACATGGATT-CTCATAATAATCTTCATCTTTTTATGATTGGGCACCATAAACAT
* * * * * * ** * * *
1259153 GTTTTACTTATTGGGATACACGATATTAACACTTT-GCTTTCGCAAGAAAAGTTTTTCTTCGACT
65 -TTCTCCTCATTAGGATACATGATATTGATGCTTTGGC-TTCGCAAGAAAAGCTTTTCTTTGACC
* *
1259217 C-ATTTTCCTTTAAATCAAAGTTCATCCCTC
128 CAATTTT-CTTAAAATCAAAGTTCATCCCTT
* * * * * * * * *
1259247 AAATGAGATAAACATGGATTCTTATAACAGTCTCCATTCTTTTTGT-ATTCGG---CATAAAAAA
1 AAATGAGACAAACATGGATTCTCATAATAATCTTCA-TCTTTTTATGATTGGGCACCATAAACAT
* * * * * *
1259308 AT-T-CTCATTGGGGTACATGATATTGATGGTTTGGCTGT-ACAAGCAAAGCTTTTGC--T-ACC
65 TTCTCCTCATTAGGATACATGATATTGATGCTTTGGCT-TCGCAAGAAAAGCTTTT-CTTTGACC
* * *
1259367 ACCATTTTCCATAAAATCAAAGTTCATCTCTT
128 -CAATTTT-CTTAAAATCAAAGTTCATCCCTT
* * * * * *
1259399 AAATGAGACAAACATGCATTCTCATCATAATCCTT-ATTTTTTTCAAGATTAGGCATCATAAACA
1 AAATGAGACAAACATGGATTCTCATAATAAT-CTTCATCTTTTT-ATGATTGGGCACCAT-AA-A
* * * * * * * * **
1259463 CATTT-T-TTCATTAGGATACATAATATTGATGCTTTAGTTTCACATGAAATGCTTTTCTTCGTG
62 CATTTCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGAC
* * *
1259526 CC-ATTTTTTGTAAAATCTAAGTTCAT-GCTT
127 CCAATTTTCT-TAAAATCAAAGTTCATCCCTT
** * * *
1259556 GAAATGAGAC-AACATGGATTCT-AGTAACGATCTTCATTTTTTTCATAATTGAGCACCATAAAC
1 -AAATGAGACAAACATGGATTCTCA-TAATAATCTTCATCTTTTT-ATGATTGGGCACCATAAAC
* * *** * *** * * * *
1259619 ACATTCTCCTCATTAGCATATGCGATATTGATGATTTTTTTTTGAAAGGAAAGCTTTTCCTTG-C
63 A-TTTCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGAC
* **
1259683 CCTATTTTCCTTAAAATCAAAGTT--T-TTTT
127 CCAATTTT-CTTAAAATCAAAGTTCATCCCTT
* *
1259712 ATAA-GAGACTAACATGGATTCTCATAATAGTC-TCTATCCTTTTTGA-GATTGGG-AGCCA-AA
1 A-AATGAGACAAACATGGATTCTCATAATAATCTTC-AT-CTTTTT-ATGATTGGGCA-CCATAA
* * * * * *
1259772 GGCATGTTCT-CTTATTTGGGATACATGACATTGATGCTAT-G-TT-GCAAGGAAAGCTTTTCTT
61 -ACAT-TTCTCCTCA-TTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTT
* * * * *** * * * *
1259833 TCTA-CTAGTGTTGACAGAATTAAAGTTTATCCCTC
123 T-GACCCAATTTTCTTAAAATCAAAGTTCATCCCTT
* * * * * * * * * *
1259868 AAATGAGAGAAGA-TTGGATTGTCAAAACAATCTCCATCTATTTGTGATTGGGCATCATAAATAT
1 AAATGAGACAA-ACATGGATTCTCATAATAATCTTCATCTTTTTATGATTGGGCACCATAAACAT
* ** * * * *
1259932 GTTCTCTTCATTAGGATACATGATATTGATGCTTTCACTTTGCAAGAAAAGCATTTATTTG-GCC
65 -TTCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGACCC
* ** * *
1259996 AATTTTTTTTAAAATCAAAGTTTGTCTCTC
129 AA-TTTTCTTAAAATCAAAGTTCATCCCTT
* * ** * * * * *
1260026 AAATGAGACAAAC-TAGATTATTGTTATAGTCTAT-GTTTTTTTCATGATTGGGCACCA-AGA-A
1 AAATGAGACAAACATGGATTCTCATAATAATCT-TCATCTTTTT-ATGATTGGGCACCATAAACA
* * * * * * * * * *
1260087 ----TCCTCATTACGATGCGTGACAATGAAG-GTTGGTCGT-GCAAGGAAAGC-TTT-TTTGCCT
64 TTTCTCCTCATTAGGATACATGATATTGATGCTTTGG-CTTCGCAAGAAAAGCTTTTCTTTGAC-
* * * * **
1260144 CCATTTTTCATAGAAT-AAAATTCATTTCTT
127 CCAATTTTCTTAAAATCAAAGTTCATCCCTT
* * * * ** * * *
1260174 AAATGAGACAAACAAGGATTTTTATAGTAATCGCCATTCTTTTCAAGATTAGGCACCATAAACAC
1 AAATGAGACAAACATGGATTCTCATAATAATCTTCA-TCTTTTTATGATTGGGCACCAT-AA-AC
* * * * * * * **
1260239 ATTT-TTCTCATTAGGATACATGATATTGATCCTTTAG-TATCGTAAGAAAGGGTTTTC-CTCCC
63 ATTTCTCCTCATTAGGATACATGATATTGATGCTTTGGCT-TCGCAAGAAAAGCTTTTCTTTGAC
* * * * * * *
1260301 ACCATTTTTCCTAGAGTCATAGTTCATTCCTC
127 -CCAATTTTCTTAAAATCAAAGTTCATCCCTT
* * * * ** ** * ** *
1260333 AAATCACACAGACATAGATTCT-AGTAACGATCTTCATTCTTTTCGTGGTTGGGCACTGTAACCA
1 AAATGAGACAAACATGGATTCTCA-TAATAATCTTCA-TCTTTTTATGATTGGGCACCATAAACA
* * ** * * * * * *
1260397 TTTTTTCTTTGTTAGGATATATGATATTGGTGATTT-GCTTTCACAAGGAAAGCTTTTC-TTCAC
64 -TTTCTCCTCATTAGGATACATGATATTGATGCTTTGGC-TTCGCAAGAAAAGCTTTTCTTTGAC
* * *
1260460 CCTACTATCCTTAAAATCAAAGTTCATCCCTT
127 CC-AATTTTCTTAAAATCAAAGTTCATCCCTT
* * * ** * * * * *
1260492 TAATGACACAAACATGGAATCTTGTAATAGTC-TCTATTCTTTTCAAGATTGGGAACCAAAAACA
1 AAATGAGACAAACATGGATTCTCATAATAATCTTC-A-TCTTTTTATGATTGGGCACCATAAACA
* * * * * *
1260556 TGTTC-CTTTCATTGGGATACATGA-ATTGATGCTTTGGCACTAG-AAGAAAATCTTTT-TTT-T
64 T-TTCTC-CTCATTAGGATACATGATATTGATGCTTTGGC-TTCGCAAGAAAAGCTTTTCTTTGA
* *
1260616 CCACAA-TTTCAATAAAATCAAAGTTTC-TCCCTC
126 CC-CAATTTTC-TTAAAATCAAAG-TTCATCCCTT
** * * * * **
1260649 AAATGAGATGAACTTGGATTATCATAACAATCTTCATCTTTTTGTGATTGGGCACCACGAACATG
1 AAATGAGACAAACATGGATTCTCATAATAATCTTCATCTTTTTATGATTGGGCACCATAAACAT-
* * *
1260714 TACTCCTCATTGGGATACATGATATTGATGCTTTGGCTTCACAAGAAAAGCTTTTCTTTGACCCA
65 TTCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGACCCA
* *
1260779 ATTTTCTTAAAATCAAAGTTCATCTCTC
130 ATTTTCTTAAAATCAAAGTTCATCCCTT
** * * **
1260807 AAATGAGACAAACATGGATTCTTGTAATAGTCTCCACTCTTTTCGT-ATTGGGCACCA-AAA-A-
1 AAATGAGACAAACATGGATTCTCATAATAATCTTCA-TCTTTTTATGATTGGGCACCATAAACAT
* * * * *
1260868 ---TCCTTATTGGGATACATGACATTGATTG-TTTGGCTTTGCAAGCAAAG-TTTT-TTT-ACCA
65 TTCTCCTCATTAGGATACATGATATTGA-TGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGACC-
* * *
1260926 CTATTTTTCATAAAATCAAAGTTCATCCCTA
128 C-AATTTTCTTAAAATCAAAGTTCATCCCTT
* * * * * *
1260957 AAATAAGAAAAACATGGATTCTCAAAATAATCCTCATTCTTTTCAAGATTGGGCACCATAACCAC
1 AAATGAGACAAACATGGATTCTCATAATAATCTTCA-TCTTTTTATGATTGGGCACCATAA--AC
* * * * * * * *
1261022 A-TTCAT-TTCATTGGGATACATGATATTGTTGCTGTGGTTTCACAAGAAAGGC-TTT-TTTCAC
63 ATTTC-TCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGAC
* * * * * *
1261083 ACCATTTTTCATAGAGTCTAAGTTCATGCCTT
127 -CCAATTTTCTTAAAATCAAAGTTCATCCCTT
* *
1261115 AAATGAGACAAACATGGCTTCT-AGTAATAATCTTCAAT-TTTTTCATGATTGGGTACCATAAAC
1 AAATGAGACAAACATGGATTCTCA-TAATAATCTTC-ATCTTTTT-ATGATTGGGCACCATAAAC
* * * * * ** * * *
1261178 ACATTCTCCACATTAGTATACAAGATATTGATGATTTGTTTTTGTAAGAAAAGCTTTTCATTG-C
63 A-TTTCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGAC
* * **
1261242 CCCATTTGTC-TAAAATTCAAAGCTCATTACTT
127 CCAATTT-TCTTAAAA-TCAAAGTTCATCCCTT
* ** * * * ** * * *
1261274 AAAAGAGACAAACATGGATTCTTGTTATAGTCTCCATTCTTTCCAAGATTGGGAACCAAAAAAAC
1 AAATGAGACAAACATGGATTCTCATAATAATCTTCA-TCTTTTTATGATTGGGCACC--ATAAAC
* * * * * *
1261339 ATTTC-CTTTATTGGGATATATGACATTGATGCTTT-GATGTCGCAA-AGAAAGCTTTTCTTT--
63 ATTTCTCCTCATTAGGATACATGATATTGATGCTTTGGCT-TCGCAAGA-AAAGCTTTTCTTTGA
* * *
1261399 -CCAATATTCTT--AAT-AGAA-TTTATCCCTC
126 CCCAATTTTCTTAAAATCA-AAGTTCATCCCTT
* * ** * * * * *
1261427 AAATCAGATAAAGTTGGATTGTCAAAACAATCTGT-ATCTTTTCATGATTGGGCACCATAAATAT
1 AAATGAGACAAACATGGATTCTCATAATAATCT-TCATCTTTTTATGATTGGGCACCATAAACAT
* * *
1261491 ATTCTTCTC-TCTAGAATACATGATATTGATGCTTTGGCTTTGCAAGAAAAGCTTTTCTTTGA-C
65 -TTCTCCTCAT-TAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGACC
* *
1261554 CTATTTTACTCAAAATCAAAGTTCAT-CCTT
128 CAATTTT-CTTAAAATCAAAGTTCATCCCTT
*
1261584 CAAATGAGACAAA-TTGGATTCT
1 -AAATGAGACAAACATGGATTCT
1261606 TGTAATTGTC
Statistics
Matches: 3438, Mismatches: 960, Indels: 618
0.69 0.19 0.12
Matches are distributed among these distances:
143 5 0.00
147 1 0.00
148 64 0.02
149 160 0.05
150 160 0.05
151 104 0.03
152 182 0.05
153 83 0.02
154 152 0.04
155 160 0.05
156 320 0.09
157 410 0.12
158 781 0.23
159 539 0.16
160 159 0.05
161 69 0.02
162 59 0.02
163 4 0.00
164 1 0.00
169 24 0.01
170 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (157 bp):
AAATGAGACAAACATGGATTCTCATAATAATCTTCATCTTTTTATGATTGGGCACCATAAACATT
TCTCCTCATTAGGATACATGATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTTGACCCAA
TTTTCTTAAAATCAAAGTTCATCCCTT
Found at i:1260832 original size:315 final size:309
Alignment explanation
Indices: 1260411--1261178 Score: 742
Period size: 308 Copynumber: 2.5 Consensus size: 309
1260401 TTCTTTGTTA
* * * * * * *
1260411 GGATATATGATATTGGTGATTT-GCTTTCACAAGGAAAGCTTTTC-TTCACCCTACTATCCTTAA
1 GGATACATGATATTGATGCTTTGGC-TTCACAAGAAAAGCTTTTCTTTCACCC-AATTTTCTTAA
* * * *
1260474 AATCAAAGTTCATCCCTTTAATGACACAAACATGGAATCTTGTAATAGTCTCTATTCTTTTCAAG
64 AATCAAAGTTCAT-CCTTAAATGAGACAAACATGGATTCTTGTAATAGTCTCAATTCTTTTC-AG
1260539 ATTGGGAACCAAAAACATGTTCCTTTCATTGGGATACATGA-ATTGA-TGCTTTGGCACTAG-AA
127 ATTGGGAACCAAAAACA---TCC-TT-ATTGGGATACATGACATTGATTG-TTTGGC-CTAGCAA
* * * ** *
1260601 GAAAATCTTTTTTTTCCAC-A-ATTTCAATAAAATCAAAGTTTC-TCCCTCAAATGAGATGAACT
185 GAAAA-CTTTTTTTACCACTATATTTC-ATAAAATCAAAG-TTCATCCCTAAAATAAGAAAAACA
* * *** *
1260663 TGGATTATCATAACAATCTTCA-TCTTTTTGTGATTGGGCACCACGA-ACATGT-ACTCCTCATT
247 TGGATTATCAAAACAATCCTCATTCTTTTCAAGATTGGGCACCACAACACAT-TCA-T-CTCATT
1260725 G
309 G
*
1260726 GGATACATGATATTGATGCTTTGGCTTCACAAGAAAAGCTTTTCTTTGACCCAATTTTCTTAAAA
1 GGATACATGATATTGATGCTTTGGCTTCACAAGAAAAGCTTTTCTTTCACCCAATTTTCTTAAAA
* * *
1260791 TCAAAGTTCATCTCTCAAATGAGACAAACATGGATTCTTGTAATAGTCTCCACTCTTTTC-GTAT
66 TCAAAGTTCATC-CTTAAATGAGACAAACATGGATTCTTGTAATAGTCTCAATTCTTTTCAG-AT
* * * * *
1260855 TGGGCACC-AAAA-ATCCTTATTGGGATACATGACATTGATTGTTTGGCTTTGCAAGCAAAGTTT
129 TGGGAACCAAAAACATCCTTATTGGGATACATGACATTGATTGTTTGGCCTAGCAAGAAAACTTT
* *
1260918 TTTTACCACTATTTTTCATAAAATCAAAGTTCATCCCTAAAATAAGAAAAACATGGATTCTCAAA
194 TTTTACCACTATATTTCATAAAATCAAAGTTCATCCCTAAAATAAGAAAAACATGGATTATCAAA
* * *
1260983 ATAATCCTCATTCTTTTCAAGATTGGGCACCATAACCACATTCATTTCATTG
259 ACAATCCTCATTCTTTTCAAGATTGGGCACCACAA-CACATTCATCTCATTG
* * * * * * *
1261035 GGATACATGATATTGTTGCTGTGGTTTCACAAGAAAGGC-TTT-TTTCACACCATTTTTCATAGA
1 GGATACATGATATTGATGCTTTGGCTTCACAAGAAAAGCTTTTCTTTCAC-CCAATTTTCTTAAA
* * * * *
1261098 GTCTAAGTTCATGCCTTAAATGAGACAAACATGGCTTCTAGTAATAATCTTCAATT-TTTTCATG
65 ATCAAAGTTCAT-CCTTAAATGAGACAAACATGGATTCTTGTAATAGTC-TCAATTCTTTTCA-G
* *
1261162 ATTGGGTACCATAAACA
127 ATTGGGAACCAAAAACA
1261179 CATTCTCCAC
Statistics
Matches: 378, Mismatches: 54, Indels: 46
0.79 0.11 0.10
Matches are distributed among these distances:
307 35 0.09
308 125 0.33
309 83 0.22
310 6 0.02
311 6 0.02
312 1 0.00
313 5 0.01
314 10 0.03
315 99 0.26
316 8 0.02
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (309 bp):
GGATACATGATATTGATGCTTTGGCTTCACAAGAAAAGCTTTTCTTTCACCCAATTTTCTTAAAA
TCAAAGTTCATCCTTAAATGAGACAAACATGGATTCTTGTAATAGTCTCAATTCTTTTCAGATTG
GGAACCAAAAACATCCTTATTGGGATACATGACATTGATTGTTTGGCCTAGCAAGAAAACTTTTT
TTACCACTATATTTCATAAAATCAAAGTTCATCCCTAAAATAAGAAAAACATGGATTATCAAAAC
AATCCTCATTCTTTTCAAGATTGGGCACCACAACACATTCATCTCATTG
Found at i:1261770 original size:39 final size:39
Alignment explanation
Indices: 1261727--1261846 Score: 240
Period size: 39 Copynumber: 3.1 Consensus size: 39
1261717 GATTCAAAGT
1261727 TCATCTCTTAAATGAGACAAATAGGGATTCTTATAGTAA
1 TCATCTCTTAAATGAGACAAATAGGGATTCTTATAGTAA
1261766 TCATCTCTTAAATGAGACAAATAGGGATTCTTATAGTAA
1 TCATCTCTTAAATGAGACAAATAGGGATTCTTATAGTAA
1261805 TCATCTCTTAAATGAGACAAATAGGGATTCTTATAGTAA
1 TCATCTCTTAAATGAGACAAATAGGGATTCTTATAGTAA
1261844 TCA
1 TCA
1261847 CCATTCTTTT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (39 bp):
TCATCTCTTAAATGAGACAAATAGGGATTCTTATAGTAA
Found at i:1265248 original size:30 final size:30
Alignment explanation
Indices: 1265175--1265251 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
1265165 GAGGGATGAT
* * *
1265175 AGGAGGAGAGACAAGAGAGATAGTAGAGAT
1 AGGAGGAGAGACAGGAGAGATAATAGAGAG
1265205 AGGAGGAGAGACAGGAGAGATAATAGAGAG
1 AGGAGGAGAGACAGGAGAGATAATAGAGAG
1265235 AGGAGG-GATGACAGGAG
1 AGGAGGAGA-GACAGGAG
1265252 GAGGAGAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 2 0.05
30 41 0.95
ACGTcount: A:0.44, C:0.04, G:0.44, T:0.08
Consensus pattern (30 bp):
AGGAGGAGAGACAGGAGAGATAATAGAGAG
Found at i:1275618 original size:9 final size:9
Alignment explanation
Indices: 1275606--1275687 Score: 61
Period size: 9 Copynumber: 9.8 Consensus size: 9
1275596 ATCTCTCTAT
1275606 TATCTCTCC
1 TATCTCTCC
*
1275615 TATCTTTCC
1 TATCTCTCC
*
1275624 T-TCTAT-C
1 TATCTCTCC
1275631 -ATC-CTTCC
1 TATCTC-TCC
*
1275639 TATCTCTAC
1 TATCTCTCC
1275648 TATCTCTCC
1 TATCTCTCC
1275657 TATCTCTCC
1 TATCTCTCC
*
1275666 T-TCTAT-C
1 TATCTCTCC
*
1275673 -ATCCCTCC
1 TATCTCTCC
1275681 TATCTCT
1 TATCTCT
1275688 TCTTTCTCTT
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
7 8 0.14
8 10 0.18
9 37 0.66
10 1 0.02
ACGTcount: A:0.13, C:0.40, G:0.00, T:0.46
Consensus pattern (9 bp):
TATCTCTCC
Found at i:1275629 original size:24 final size:24
Alignment explanation
Indices: 1275601--1275694 Score: 76
Period size: 24 Copynumber: 4.1 Consensus size: 24
1275591 CCCTCATCTC
*
1275601 TCTATTATCTCTCCTATCTTTCCT
1 TCTATCATCTCTCCTATCTTTCCT
1275625 TCTATCATC-CTTCCTATC--T-CT
1 TCTATCATCTC-TCCTATCTTTCCT
* *
1275646 AC--T-ATCTCTCCTATCTCTCCT
1 TCTATCATCTCTCCTATCTTTCCT
* *
1275667 TCTATCATCCCTCCTATCTCTTCTT
1 TCTATCATCTCTCCTATCT-TTCCT
1275692 TCT
1 TCT
1275695 CTTTGAGAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
18 10 0.18
19 2 0.04
20 1 0.02
21 6 0.11
22 1 0.02
23 2 0.04
24 27 0.49
25 6 0.11
ACGTcount: A:0.13, C:0.38, G:0.00, T:0.49
Consensus pattern (24 bp):
TCTATCATCTCTCCTATCTTTCCT
Found at i:1275645 original size:42 final size:42
Alignment explanation
Indices: 1275587--1275696 Score: 157
Period size: 42 Copynumber: 2.6 Consensus size: 42
1275577 CCCCTTCATG
* * * *
1275587 TCATCCCTCATCTCTCTATTATCTCTCCTATCTTTCCTTCTA
1 TCATCCCTCCTATCTCTACTATCTCTCCTATCTCTCCTTCTA
*
1275629 TCATCCTTCCTATCTCTACTATCTCTCCTATCTCTCCTTCTA
1 TCATCCCTCCTATCTCTACTATCTCTCCTATCTCTCCTTCTA
* *
1275671 TCATCCCTCCTATCTCTTCTTTCTCT
1 TCATCCCTCCTATCTCTACTATCTCT
1275697 TTGAGAGCTA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.13, C:0.40, G:0.00, T:0.47
Consensus pattern (42 bp):
TCATCCCTCCTATCTCTACTATCTCTCCTATCTCTCCTTCTA
Found at i:1278574 original size:151 final size:151
Alignment explanation
Indices: 1278345--1278631 Score: 357
Period size: 151 Copynumber: 1.9 Consensus size: 151
1278335 CATTTTGATG
* * * *
1278345 CATGACATTAATGGTTTGGCTTTGCAAGGAAAGCTTTTCTTACTATCATTTTTCATAGAATCAAA
1 CATGACATTAATGCTTTGGCTTTGCAAGAAAAGCTTTTCTTACCATAATTTTTCATAGAATCAAA
*
1278410 GTTTGTCTCTTAAATGAGACAGGCATGGATTCTCA-TAATAATCCCCATTCTTTTCA-AGATTGG
66 GTTCGTCTCTTAAATGAGACAGGCATGGATTCT-AGTAATAATCCCCATTCTTTT-AGAGATTGG
1278473 GCACCATAAGCACAATCTTCTTA
129 GCACCATAAGCACAATCTTCTTA
* * * * * * *
1278496 CATGATATTGATGCTTTGGTTTTGCAAGAAAAGCTTTTCTTTCCATAATTTTTTATAGAGT-ATT
1 CATGACATTAATGCTTTGGCTTTGCAAGAAAAGCTTTTCTTACCATAATTTTTCATAGAATCA-A
* * ** *
1278560 AGTTCGTGCT-TTAAATGAGACAGTCATGGATTCTAGTACTAATCTTCATTCTTTTAGTGATTGG
65 AGTTCGT-CTCTTAAATGAGACAGGCATGGATTCTAGTAATAATCCCCATTCTTTTAGAGATTGG
1278624 GCACCATA
129 GCACCATA
1278632 GACACGTTCT
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
150 3 0.03
151 110 0.96
152 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (151 bp):
CATGACATTAATGCTTTGGCTTTGCAAGAAAAGCTTTTCTTACCATAATTTTTCATAGAATCAAA
GTTCGTCTCTTAAATGAGACAGGCATGGATTCTAGTAATAATCCCCATTCTTTTAGAGATTGGGC
ACCATAAGCACAATCTTCTTA
Found at i:1280676 original size:782 final size:768
Alignment explanation
Indices: 1278198--1280715 Score: 2177
Period size: 782 Copynumber: 3.2 Consensus size: 768
1278188 GGGCACATTG
*** * * * *
1278198 ATATTGATGCTTCAACTTCGTAAGAAAAG-TTTTCATTGACTT-TATTTCCCTAAAATCAAAGTT
1 ATATTGATGCTTTGGCTTCGCAA-AAAAGTTTTTCTTTAACTTAT-TTTCCTTAAAATCAAAGTT
* * * * * * **
1278261 CATCTCACAAATGAAACAAACATGGGTTCTTTTAATAGTCTCCATTCTTTTTGTGATTAGGCACC
64 CATCCCACAAATGAGACAAAAATGGATTCTTATACTAGTCTCCATTCTTTTCATGATTAGGCACC
* * ** * * *
1278326 --AAAGATCCTCATTTTGATGCATGACATTAATGGTTTGGCTTTGCAAGGAAAGCTTTTCTTACT
129 AAAAATATTCTC-TTAGGATACATGACATTGATGGTTTGGCTTTGCAAGAAAAGCTTTT-TTAC-
* ** * * **
1278389 ATCATTTTTCATAGAATCAAAGTTTGTCTCTTAAATGAGACAGGCATGGATTCTCATAATAATCC
191 ACCATTTTTCATAGAATCAAAGTTCATCTTTTAAATGAGAAAAACATGGATTCTCATAATAATCC
* * * *
1278454 CCATTCTTTTCAAGATTGGGCACCATAAGCACAATC-TT-C-T----TACATGATATTGATGCTT
256 CTATTCTTTTCAAGATTAGGCACCATAAACACATTCTTTCCTTAGGATACATGATATTGATGCTT
** * * * *
1278512 TGGTTTTGCAAGAAAAGCTTTTCTTTCCATAATTTTTTATAGAGTATTAGTTCGTGCTTTAAATG
321 TGGTTTTGCAAGAAAAGCTTTTCTTTCCACCATTTTTTATAGACTCTAAGTTCGTGCATTAAATG
** * * *
1278577 AGACAGTCATGGATTCTAGTACTAATCTTCATTCTTT-T-AGTGATTGGGCACCATAGACACGTT
386 AGACAAACATGGATTCTAGTAATGATCTTCATT-TTTCTCA-TGATTGGGCACCATAAACACGTT
* *
1278640 CTCCTCATTAGGGGATGCATGATATTGATGATTTGTTTTTGCAAGGAAAGCCTTTTTTTGCCCCA
449 CTTCTCATTA--GGATGCATGATATTGATGATTTGTTTTTGCAAGGAAAG-C-TTTTTTGCCCTA
* * * * * *
1278705 TTTTCCTTAAAATCTAATTTCATCCCTTTAATGAGACAAACTTGGATTCTCATAACAATTTCCCT
510 TTTTCCTTAAAATCAAAATTCATCCCTTTAACGAGACAAACATGGATTCTCATAATAGTTT--CT
* * * * * *
1278770 TTTTTTTCAAGATTGGAAACCAAAAACATGTTCCCTTCATCATGAT-GATGGCATTAATGCTTTA
573 ATTTTTTCAAGATTGG-AACCAAAAACATGTTCCCTTCATCAAGATACATGACATTGATGCTTTG
** * * *
1278834 GTGTTGCAAG-AAAACTTTTCTTTTGACCATTTTTGATAGACTCAAACTTTATCCCTTAAATAAG
637 GTGTTGCAAGAAAAACTTTTCTTTCAACCA-TTTTGATAGAATCAAAGTTTGTCCCTTAAATAAG
* * * * * * * *
1278898 ACAAACTTAGATTGTCATAACAATGTGCAAT-TTTTCATGGTTATGTACCATAAAAACATTTTCC
701 ACAAACTTAGATTGTCGTAACAATCT-CCATCTTTTCATGATT-TG-GCCCTATAAACATTTTCA
* *
1278962 TAATCG
763 TTATCA
* * * * **
1278968 AT-TCTCATGCGTTGGCTTCACAAAAAAAGTATTTCTTTGGC---TTTTCCTTAAAATCAAAGTT
1 ATAT-TGATGCTTTGGCTTCGC-AAAAAAGTTTTTCTTTAACTTATTTTCCTTAAAATCAAAGTT
* * * * * * *
1279029 CATCTCACAAATAAAACAAAAATGGATTCTTTTACTAGCCTCCATTCTTTTCGTGATTGGGCACC
64 CATCCCACAAATGAGACAAAAATGGATTCTTATACTAGTCTCCATTCTTTTCATGATTAGGCACC
** * * *
1279094 AAAAATCA-TCT-TTACTATGCATGACATTGATGGTTTAGCTTTGCAAAAAAAGCTTTTTTACCA
129 AAAAAT-ATTCTCTTAGGATACATGACATTGATGGTTTGGCTTTGCAAGAAAAGCTTTTTTA-CA
* * * * * *
1279157 CCATTTTTCTTACAATTTAAA-CTCATCTTTTAAATAAGATAAACATGGATTCTCATAATAATCC
192 CCATTTTTCATAGAA-TCAAAGTTCATCTTTTAAATGAGAAAAACATGGATTCTCATAATAATCC
* * * * * *
1279221 GTATACTTTTCAAAATTAGGTACCATAAACACATTCTTTTCATTAGGATACATGATATTAATGCT
256 CTATTCTTTTCAAGATTAGGCACCATAAACACATTC-TTTCCTTAGGATACATGATATTGATGCT
* * * * * * *
1279286 TTAGTTTTGCAAGAAAGGCTTTTCTTTGCACCATTTTTTTGTAGGCTCTAAGTTTGTGCCTTAAA
320 TTGGTTTTGCAAGAAAAGCTTTTCTTTCCACCA-TTTTTTATAGACTCTAAGTTCGTGCATTAAA
* * *
1279351 TGAGACAAACATGGATTCTAGTAATGATCTTCAGTTTTCTCATGATTAGGCACCATAAACATGTT
384 TGAGACAAACATGGATTCTAGTAATGATCTTCATTTTTCTCATGATTGGGCACCATAAACACGTT
* ** *
1279416 -TTCCTTATTAGTTTGCATGATATTGATGATTT-TCTTTTGTAAGGAAAGCTTGTTGTTGCCCT-
449 CTT-CTCATTAGGATGCATGATATTGATGATTTGT-TTTTGCAAGGAAAGCTT-TT-TTGCCCTA
* * * * * ** * * ** *
1279478 GTTTCTTTAGAATCAAAGTTTATCCCTAAAACGAGACAAACATAGATTCTCGTAATAGCCTCCAT
510 TTTTCCTTAAAATCAAAATTCATCCCTTTAACGAGACAAACATGGATTCTCATAATAGTTTCTAT
** * * ** * * * * * *
1279543 TTATTTTGAGCTTGGGAATCAAAAACACATTCCTTTAATTAGGATACAAGACATTGATCCTTTGG
575 TT-TTTCAAGATT-GGAACCAAAAACATGTTCCCTTCATCAAGATACATGACATTGATGCTTTGG
** * * * ** *
1279608 CATTGCAAGAAAAAATTTTCTCTCCATAATTTTGATAGAATCAAAGTTTGTCCCTTAAATGAGAC
638 TGTTGCAAGAAAAACTTTTCTTTCAACCATTTTGATAGAATCAAAGTTTGTCCCTTAAATAAGAC
* * * * * **
1279673 AAACTTGGATTATTGTAACAATCTCCATCATTTCATGATTAGGCACCATATGCACATTCTGGTCA
703 AAACTTAGATTGTCGTAACAATCTCCATCTTTTCATGATTTGGC-CC-TATAAACATT-T--TCA
1279738 TTGGGATGCA
763 TT---AT-CA
* * *
1279748 CGATATTG--G-TTTCGCTTTGTAATAAAA-TCTTTTCTTTAA-TCTATTTTCCTTAAAATCAAA
1 --ATATTGATGCTTTGGCTTCGCAA-AAAAGT-TTTTCTTTAACT-TATTTTCCTTAAAATCAAA
** * * * * *
1279808 GTT--TGCCTTTCAAATGAGACAAATATGGATTCTTGTAATAGTTTCCATT-TTTTACATGAATA
61 GTTCAT-CC-CACAAATGAGACAAAAATGGATTCTTATACTAGTCTCCATTCTTTT-CATGATTA
*
1279870 GGCA-CAAAAA-ATCCTCTTTAGGATACATGACATTGATGGTTTGGCTTTGCAAGAAAAGCTTTT
123 GGCACCAAAAATATTCTC-TTAGGATACATGACATTGATGGTTTGGCTTTGCAAGAAAAGCTTTT
*
1279933 TTATCACCATTTTTCATAGAATCAAAGTTCATCTTTTAAATGAGAAAAACAAGGATTCTCATAAT
187 TTA-CACCATTTTTCATAGAATCAAAGTTCATCTTTTAAATGAGAAAAACATGGATTCTCATAAT
* * * * *
1279998 AATCCCTATTCTTTCCAGGAGTAGGCACTATAAACACATTCTTCTCCTTAGGATACATGGTATTG
251 AATCCCTATTCTTTTCAAGATTAGGCACCATAAACACATTCTT-TCCTTAGGATACATGATATTG
*** * * * ** * *
1280063 ATGCTTTGGTTTCATAAGAAAAACTTGTCTTCCCACCATTTTCCATAGATTCTAAGTTCATGCAT
315 ATGCTTTGGTTTTGCAAGAAAAGCTTTTCTTTCCACCATTTTTTATAGACTCTAAGTTCGTGCAT
*
1280128 TAAGA-AAGACAAACATGGATTCTAGTAATGATCTTCATTTTTCTCAT-ATTGGGC-CCTATAAA
380 TAA-ATGAGACAAACATGGATTCTAGTAATGATCTTCATTTTTCTCATGATTGGGCACC-ATAAA
* * *
1280190 GACGTTCTTCTCATTAGGATAG-ATGATATTGATGATTTGTTTGTGCAAGGAAAGCTTTTCTCTA
443 CACGTTCTTCTCATTAGGAT-GCATGATATTGATGATTTGTTTTTGCAAGGAAAGCTTTT-T-TG
* * * * * *
1280254 CCATATTTTCCTTAAAATCAAAATTCATACCTTTAGCAAGACAAACATGGATTTTCCTAATAGTT
505 CCCTATTTTCCTTAAAATCAAAATTCATCCCTTTAACGAGACAAACATGGATTCTCATAATAGTT
*
1280319 TCTATTCTTTTCAAGATTAGGAACCAAAAACATGTTCCCTTCATCAAGATACATGATATTGATGC
570 TCTATT-TTTTCAAGATT-GGAACCAAAAACATGTTCCCTTCATCAAGATACATGACATTGATGC
** * *
1280384 TTTGGTGTCACAAGAAAAACTTTTCTTTCAACCATTTTCAATAAAATCAAAGTTTGT-CCTTCAA
633 TTTGGTGTTGCAAGAAAAACTTTTCTTTCAACCATTTT-GATAGAATCAAAGTTTGTCCCTT-AA
* * *
1280448 ATAAAATAAACTTAGATTGTCGTAACAATCTCCATCTTTTCATCATTTGGCCCTATAAACATATT
696 ATAAGACAAACTTAGATTGTCGTAACAATCTCCATCTTTTCATGATTTGGCCCTATAAACAT-TT
1280513 CTCATTATCA
760 -TCATTATCA
* *
1280523 ATATTGATGCTTTGGCTTCGCAAGCAAAGTTTTTCTTTAACTTATTTTCTTTAAAATCAAAGTTC
1 ATATTGATGCTTTGGCTTCGCAA-AAAAGTTTTTCTTTAACTTATTTTCCTTAAAATCAAAGTTC
* * * ** *
1280588 ATCCCACAAATGAGACCAACATGGATTCGTATACTAGTCTCTGTTCTTTTCAAGATTAGGCACCA
65 ATCCCACAAATGAGACAAAAATGGATTCTTATACTAGTCTCCATTCTTTTCATGATTAGGCACCA
* * ** * * **
1280653 CAAGCAATTTTTCTCAATAGGATACACCATATTGATGCTTTGATTTTGCAAGAAAAG-TTTTTT
130 -AA--AA-TATTCTC-TTAGGATACATGACATTGATGGTTTGGCTTTGCAAGAAAAGCTTTTTT
1280716 GCCCACAATT
Statistics
Matches: 1373, Mismatches: 296, Indels: 147
0.76 0.16 0.08
Matches are distributed among these distances:
767 79 0.06
768 120 0.09
769 4 0.00
770 22 0.02
771 17 0.01
772 36 0.03
773 144 0.10
774 53 0.04
775 51 0.04
776 171 0.12
777 11 0.01
778 6 0.00
779 30 0.02
780 73 0.05
781 218 0.16
782 337 0.25
783 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (768 bp):
ATATTGATGCTTTGGCTTCGCAAAAAAGTTTTTCTTTAACTTATTTTCCTTAAAATCAAAGTTCA
TCCCACAAATGAGACAAAAATGGATTCTTATACTAGTCTCCATTCTTTTCATGATTAGGCACCAA
AAATATTCTCTTAGGATACATGACATTGATGGTTTGGCTTTGCAAGAAAAGCTTTTTTACACCAT
TTTTCATAGAATCAAAGTTCATCTTTTAAATGAGAAAAACATGGATTCTCATAATAATCCCTATT
CTTTTCAAGATTAGGCACCATAAACACATTCTTTCCTTAGGATACATGATATTGATGCTTTGGTT
TTGCAAGAAAAGCTTTTCTTTCCACCATTTTTTATAGACTCTAAGTTCGTGCATTAAATGAGACA
AACATGGATTCTAGTAATGATCTTCATTTTTCTCATGATTGGGCACCATAAACACGTTCTTCTCA
TTAGGATGCATGATATTGATGATTTGTTTTTGCAAGGAAAGCTTTTTTGCCCTATTTTCCTTAAA
ATCAAAATTCATCCCTTTAACGAGACAAACATGGATTCTCATAATAGTTTCTATTTTTTCAAGAT
TGGAACCAAAAACATGTTCCCTTCATCAAGATACATGACATTGATGCTTTGGTGTTGCAAGAAAA
ACTTTTCTTTCAACCATTTTGATAGAATCAAAGTTTGTCCCTTAAATAAGACAAACTTAGATTGT
CGTAACAATCTCCATCTTTTCATGATTTGGCCCTATAAACATTTTCATTATCA
Found at i:1282926 original size:153 final size:150
Alignment explanation
Indices: 1282699--1282976 Score: 371
Period size: 153 Copynumber: 1.8 Consensus size: 150
1282689 CTCATCAATA
* * * *
1282699 TTGATGCTTTGGCTATGCAAGAAAAGTTTTTTTGACCTATTTTCTTTAAAAATAAAGTTTATCCC
1 TTGATGATTTGGCTATGCAAGAAAACTTTTTTTGACCTAATTTCTTCAAAAATAAAGTTTATCCC
* * *
1282764 CCAAATGAGACAAACATGGATTCTTATAATAGTCTCAATTCTTTT-AATGATTAGGCACCAAAGA
66 CCAAATGAGACAAACATGGATTCTCATAATAATCCCAATTCTTTTCAA-GATTAGGCACCAAAGA
1282828 TCCCCATTTTGATGCATGACC
130 TCCCCATTTTGATGCATGACC
* * *
1282849 TTGATGATTTGGCTTTGCAAGGAAAACTTTTTTTGACCATAATTT-TTCATAGAATCAAAGTTTG
1 TTGATGATTTGGCTATGCAA-GAAAACTTTTTTTGACC-TAATTTCTTCA-AAAAT-AAAGTTTA
* ** *
1282913 TCTCTTAAATGAGACAAACATGGATTCTCATAATAATCCCTATTCTTTTCAAGATTAGGCACCA
62 TCCCCCAAATGAGACAAACATGGATTCTCATAATAATCCCAATTCTTTTCAAGATTAGGCACCA
1282977 TAAAAACATT
Statistics
Matches: 109, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
150 18 0.17
151 19 0.17
152 9 0.08
153 61 0.56
154 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (150 bp):
TTGATGATTTGGCTATGCAAGAAAACTTTTTTTGACCTAATTTCTTCAAAAATAAAGTTTATCCC
CCAAATGAGACAAACATGGATTCTCATAATAATCCCAATTCTTTTCAAGATTAGGCACCAAAGAT
CCCCATTTTGATGCATGACC
Found at i:1282930 original size:773 final size:765
Alignment explanation
Indices: 1280631--1283666 Score: 2401
Period size: 777 Copynumber: 3.9 Consensus size: 765
1280621 CTAGTCTCTG
* * * * * ** *
1280631 TTCTTTTCAAGATTAGGCACCACAAGCAATTTTTCTCAATAGGATACACCATATTGATGCTTTGA
1 TTCTTTTCAAGATTAGGCACCATAA-AAATTCTTCTCATTAAGATACATGATATTGATGCTTTGG
* * * * ** * * * *
1280696 TTTTGCAAGAAAAG-TTTT-TTGCCCACAATTTTCTATAGAGTTTTACTTCATGCCTCAAATGAG
65 TTTTGCAAGAAAGGCTTTTCTT-CCCACCATTTTCCATAAAGCCTAAGTTCGTACCTCAAAT-AG
** * * * * * * * * * ** *
1280759 ATAGACATAGATTCTAGTAATGATCTTCATTCTTCTCATAATTGGGCATAATAAACACATTCTCC
128 GCAAACATGGATTCTGGTAATGATGTTCATTCTTTTCATGATTAGGCCTCATAAACATGTTTTCC
* ** * * *
1280824 TTATTAGGATACAAGATATTGATGATTTGTTTTTGCAAGGAAAGCTTTTTTTTGCTCTATTTTCC
193 TCACCAAGATACAAGATATTGATGATTTGTTTCT--AAAGAAAGC-TTTTTTTGC-CTATTTTCC
* * *
1280889 TTCAAATCAAAGTTCA-CTCCTTAAATGAGATAAACATGGATCCTCATAATAGTCTCCATTCTTT
254 TTAAAATCAAAGTTCATC-CCTTAAATGAGACAAACATGG-TTCTCATAATAG-CTCCATTCTTT
* * * * *
1280953 TTGAGATTGTGAACCAAAAACTCATT-CCTTACATTGGGACAAATGACATTGATGCTTTAG--CA
316 TTGAGATTG-GAACCAAAAACACATTCCCTT-CATTGGGATACATGACATTAATGCTTTGGTTC-
* * ***
1281015 TCACAAGAAAAGCTTTTCTTT-CCATAATTTTGATAGAATCAAAGTTTGTTGTTCAAATGAGACA
378 TTACAAGAAAAACTTTTCTTTACC--AATTTTGATAGAATCAAAGTTTGCCCTT-AAATGAGACA
* * * * * * *
1281079 AACTTGAATTGTTGTAACAATCTCCATTTTTTTATGATTGGGCACCACAAACATGTTCCCCTTGT
440 AACTTGGATTGTTGTAACAATCTCCA-TCTTTAATGATTAGGCACCATAAACACGTTCTCC----
* * * *
1281144 TGGGATACAAGGTATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTCTTGACCTATATTCCTTAAA
500 T--CAT-CAA--TATTGATGCTTTGGCTTCGCAAGAAAAGCTTTTTTTGACCTATTTTCTTTAAA
* * * * *
1281209 ATCAAAGTTCT-TCCCTTAAATGAGGCAAACAT-GATTTCTTGTTATAGTTTCCATTCTTTTCCT
560 ATCAAAGTT-TATCCCATAAATGAGACAAACATGGA-TTCTTGTAATAGTTTCAATTCTTTTCAT
* * * *** * *
1281272 GATTAGGCAACAAAAATCCTTATTGGGATATGTGATATTGATGGTTTGGCTTTGCAA-GAAATGC
623 GATTAGGCACCAAAAATCCTCATTGCGATGCATGACATTGATGGTTTGGCTTTGCAAGGAAA-AC
** * * * * *
1281336 TTTTTTT-ACCACCATTTTTCATAGAATCAAAGTTCATTTTTTAAATCAGATATACATGGATTCT
687 TTTTTTTGACCACCATTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGGATTCT
*
1281400 CACAATAATCCCCA
752 CATAATAATCCCCA
* * *
1281414 TTCTTCTCTAGATTAGGCACCAT---AA---TTCTCATTAAGATTGCATGATATTGATGCTTTGG
1 TTCTTTTCAAGATTAGGCACCATAAAAATTCTTCTCATTAAGA-TACATGATATTGATGCTTTGG
* * * * * * *
1281473 TTTTGTC-AGAAAGCCATTT-TTCCCACAATTTTCCATAGAGTCTAAGTTTGTGCCTCAAATAGG
65 TTTTG-CAAGAAAGGCTTTTCTTCCCACCATTTTCCATAAAGCCTAAGTTCGTACCTCAAATAGG
** * *
1281536 GTAACATGGATTTTGGTAATGATGTTCATTCTTTTCATGATTAGGCCTCATAAATATGTTTTCCT
129 CAAACATGGATTCTGGTAATGATGTTCATTCTTTTCATGATTAGGCCTCATAAACATGTTTTCCT
** * * * *
1281601 CATTAGGATACACGATATTGATGATTTGTTTTTGCAAGAAAAGCTTTTTTTGCCCTATTTTCCTT
194 CACCAAGATACAAGATATTGATGATTTGTTTCT-AAAG-AAAGCTTTTTTTG-CCTATTTTCCTT
* * * ** *
1281666 AAAATCAAAAGTTCATCCCTTTAATGAAACAAACAT--TAT-T-GTAGGAGCTTCCATTTTTTTT
256 AAAATC-AAAGTTCATCCCTTAAATGAGACAAACATGGT-TCTCATAATAGC-TCCATTCTTTTT
* * * * * * *
1281727 CAAGAATGGGAACAAAAAACACAATCCCTTTATTGGGATACAAGACATTAATGCTTTGGTTTTTA
318 -GAG-ATTGGAACCAAAAACACATTCCCTTCATTGGGATACATGACATTAATGCTTTGGTTCTTA
* * * * * * *
1281792 TAAGAAAAACTTTTCTTTCAACTATTTTTGATAGAGTCAAAGTTTGTGCCTCAAATGAGATAAAC
381 CAAGAAAAACTTTTCTTT--ACCAATTTTGATAGAATCAAAGTTTG-CCCTTAAATGAGACAAAC
* ** * * * * * **
1281857 TTGGATTATCATAACGATCTCCATCCTTTCATGATTAGGCACCATAAATACATTCTCCTTATTGA
443 TTGGATTGTTGTAACAATCTCCAT-CTTTAATGATTAGGCACCATAAACACGTTCTCCTCATCAA
* * * * *
1281922 TATTGTTGTTTTGGCTTCGCAAGAAAAGTTTTTCTTTGACCTATTTT-TCGTAAAATCAAAGTTC
507 TATTGATGCTTTGGCTTCGCAAGAAAAGCTTTT-TTTGACCTATTTTCT-TTAAAATCAAAGTTT
* * * * *
1281986 ATCTCATAAATGTGACAAACATGGATTCTTGTGATAGTTTCTATTCTTTTCATGATTAGGCACAA
570 ATCCCATAAATGAGACAAACATGGATTCTTGTAATAGTTTCAATTCTTTTCATGATTAGGCACCA
* *
1282051 AAAATCCTCATTGCGATGCATGACATTGAAGGTTTGGCTTTGAAAGGAAAACTTTGTTTTG-CCA
635 AAAATCCTCATTGCGATGCATGACATTGATGGTTTGGCTTTGCAAGGAAAACTTT-TTTTGACCA
*
1282115 CCATTTTT-ATTGGAATCAACA-TTTGTCTCTTAAATAAGACAAACATGGATTCTCATAATAATC
699 CCATTTTTCA-TAGAATCAA-AGTTTGTCTCTTAAATAAGACAAACATGGATTCTCATAATAATC
1282178 CCCA
762 CCCA
* * * * *
1282182 TTCTTTTCGAGATTAGGCACCATAAACATATTCTTCTCATTAGGATACAAGTTATTAATGCTTTG
1 TTCTTTTCAAGATTAGGCACCATAAA-A-ATTCTTCTCATTAAGATACATGATATTGATGCTTTG
* *
1282247 GTTTTGCAAGAAAGGCTTTTCTTCCCACCATTTTCCATAAAGCCTATGTTCGTACCTTAAATAGG
64 GTTTTGCAAGAAAGGCTTTTCTTCCCACCATTTTCCATAAAGCCTAAGTTCGTACCTCAAATAGG
* * * **
1282312 ACAAACATGGATTCTGGTAGTGATTTTCATTGTTTTCATTTTTAGGCC-CTATAAACATGTTTTC
129 -CAAACATGGATTCTGGTAATGATGTTCATTCTTTTCATGATTAGGCCTC-ATAAACATGTTTTC
* *
1282376 CTTACCAAGATACATGATATTGATGATTTGCTTTCCTAAAGAAAGCTTTTCTTTGCCTATTTTCC
192 CTCACCAAGATACAAGATATTGATGATTTG-TTT-CTAAAGAAAGCTTTT-TTTGCCTATTTTCC
*
1282441 -T-AAATCAAAGTTCATCCCTTCAATGAGACAAACATGGGTTCTCATAATAGACTCCATTCTTTT
254 TTAAAATCAAAGTTCATCCCTTAAATGAGACAAACAT-GGTTCTCATAATAG-CTCCATTCTTTT
* *
1282504 TGAGATTGGAAACCAAAAACACATTCCCTTCATCGGGATACATGATATTAATGCTTTGGTGTCTT
317 TGAGATTGG-AACCAAAAACACATTCCCTTCATTGGGATACATGACATTAATGCTTTGGT-TCTT
* *
1282569 A-AAAAAAAACTTTT-TTTGACCAATTTCGATAGAATCAAAGTTTGCCCCCTTAAATGAGACAAA
380 ACAAGAAAAACTTTTCTTT-ACCAATTTTGATAGAATCAAAGTTTG--CCCTTAAATGAGACAAA
*
1282632 CTTGGATTGTTGTAACAATCTCCATCTATTAATGA-TAGGCACCATAAAGACGGTT-TCCTCATC
442 CTTGGATTGTTGTAACAATCTCCATCT-TTAATGATTAGGCACCATAAACAC-GTTCTCCTCATC
1282695 AATATTGATGCTTTGGCTAT-GCAAGAAAAG-TTTTTTTGACCTATTTTCTTTAAAAAT-AAAGT
505 AATATTGATGCTTTGGCT-TCGCAAGAAAAGCTTTTTTTGACCTATTTTCTTT-AAAATCAAAGT
** * * *
1282757 TTATCCCCCAAATGAGACAAACATGGATTCTTATAATAGTCTCAATTCTTTTAATGATTAGGCAC
568 TTATCCCATAAATGAGACAAACATGGATTCTTGTAATAGTTTCAATTCTTTTCATGATTAGGCAC
* * ** * *
1282822 CAAAGATCCCCATTTTGATGCATGACCTTGATGATTTGGCTTTGCAAGGAAAACTTTTTTTGACC
633 CAAAAATCCTCATTGCGATGCATGACATTGATGGTTTGGCTTTGCAAGGAAAACTTTTTTTGACC
** *
1282887 ATAATTTTTCATAGAATCAAAGTTTGTCTCTTAAATGAGACAAACATGGATTCTCATAATAATCC
698 ACCATTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGGATTCTCATAATAATCC
*
1282952 CTA
763 CCA
* * *
1282955 TTCTTTTCAAGATTAGGCACCATAAAAACATTCTTTTTCATTAAAATACATGATATTGATACTTT
1 TTCTTTTCAAGATTAGGCACCAT-AAAA-ATTC-TTCTCATTAAGATACATGATATTGATGCTTT
*** * *** * * * ** *
1283020 GGTTTCATAAGAAAGGCTTTTCTTCCCATCATTTTTTGTAAAGTCTTAGTTCATTTCTCAAATAA
63 GGTTTTGCAAGAAAGGCTTTTCTTCCCACCATTTTCCATAAAGCCTAAGTTCGTACCTCAAATAG
** * * * * * * *
1283085 G-ATAGACATGGATTCTACTAGTGATCTCCTTTCTTTTCATGATTGGGCACT-ATAAACATATTC
128 GCA-A-ACATGGATTCTGGTAATGATGTTCATTCTTTTCATGATTAGGC-CTCATAAACATGTTT
*** * * * * *
1283148 TCCTCGTTAAAATACACGATATTTATGATTTGCTTT-TGCAAGAGGAAAACTTTTTTCTACCCTA
190 TCCTCACCAAGATACAAGATATTGATGATTTG-TTTCT--AA-A-GAAAGCTTTTTT-T-GCCTA
* * * * * ** **
1283212 TTTTCCTTATAATCAAAGTTTAGCGCTTAAATGAGACAAATATGGATTCTTGTAATA-CTTTTTA
248 TTTTCCTTAAAATCAAAGTTCATCCCTTAAATGAGACAAACATGG-TTCTCATAATAGC--TCCA
* * * * * * *
1283276 TT-TTTTTCATGATTAAGAACCAAAAACACGTT-CTTTCTGTTGGGATACAAGACATTGATG-TT
310 TTCTTTTTGA-GATT-GGAACCAAAAACACATTCCCTTC-ATTGGGATACATGACATTAATGCTT
* * * * * * * * *
1283338 TTGTGTC--ATAAGAAAAGCTTGTCTTTCCACAATTTCGATACAATCAGAGTTTGTCGCTTAAAT
372 TGGT-TCTTACAAGAAAAACTTTTCTTTAC-CAATTTTGATAGAATCAAAGTTTG-CCCTTAAAT
* * * * * *
1283401 TAGACAAACTTGGATTATTGTAACAATCTCTATCTTTTCATGATTGGGTACCATAAACAC-TCCT
434 GAGACAAACTTGGATTGTTGTAACAATCTCCATC-TTTAATGATTAGGCACCATAAACACGT--T
** * * * * * * * *
1283465 CATTATGATACACTCTATTGATGCTTTGACTTTGCAGGAAAAGATTTTCTTT-AGCATATTTTCC
496 C-TCCTCAT-CA--ATATTGATGCTTTGGCTTCGCAAGAAAAGCTTTT-TTTGA-CCTATTTTCT
* * ** * *
1283529 TTAAAATTAAAGTTCATCCTTTAAATGAGACAAACATGAATTCTTGTAATACTCTTC-ATTCTTT
555 TTAAAATCAAAGTTTATCCCATAAATGAGACAAACATGGATTCTTGTAATAGT-TTCAATTCTTT
** * * * * * * *
1283593 TTGTGATTGGGCACCAAAAATCCTTATTGCGATGCTTTACATTGACGGTTGGGCTTTACAAGG-A
619 TCATGATTAGGCACCAAAAATCCTCATTGCGATGCATGACATTGATGGTTTGGCTTTGCAAGGAA
*
1283657 AAGTTTTTTT
684 AACTTTTTTT
1283667 ACCGTAATTT
Statistics
Matches: 1827, Mismatches: 328, Indels: 195
0.78 0.14 0.08
Matches are distributed among these distances:
766 30 0.02
767 118 0.06
768 89 0.05
769 3 0.00
771 2 0.00
772 24 0.01
773 252 0.14
774 218 0.12
775 213 0.12
776 237 0.13
777 285 0.16
778 96 0.05
779 80 0.04
780 5 0.00
781 2 0.00
782 1 0.00
783 44 0.02
784 20 0.01
785 106 0.06
786 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (765 bp):
TTCTTTTCAAGATTAGGCACCATAAAAATTCTTCTCATTAAGATACATGATATTGATGCTTTGGT
TTTGCAAGAAAGGCTTTTCTTCCCACCATTTTCCATAAAGCCTAAGTTCGTACCTCAAATAGGCA
AACATGGATTCTGGTAATGATGTTCATTCTTTTCATGATTAGGCCTCATAAACATGTTTTCCTCA
CCAAGATACAAGATATTGATGATTTGTTTCTAAAGAAAGCTTTTTTTGCCTATTTTCCTTAAAAT
CAAAGTTCATCCCTTAAATGAGACAAACATGGTTCTCATAATAGCTCCATTCTTTTTGAGATTGG
AACCAAAAACACATTCCCTTCATTGGGATACATGACATTAATGCTTTGGTTCTTACAAGAAAAAC
TTTTCTTTACCAATTTTGATAGAATCAAAGTTTGCCCTTAAATGAGACAAACTTGGATTGTTGTA
ACAATCTCCATCTTTAATGATTAGGCACCATAAACACGTTCTCCTCATCAATATTGATGCTTTGG
CTTCGCAAGAAAAGCTTTTTTTGACCTATTTTCTTTAAAATCAAAGTTTATCCCATAAATGAGAC
AAACATGGATTCTTGTAATAGTTTCAATTCTTTTCATGATTAGGCACCAAAAATCCTCATTGCGA
TGCATGACATTGATGGTTTGGCTTTGCAAGGAAAACTTTTTTTGACCACCATTTTTCATAGAATC
AAAGTTTGTCTCTTAAATAAGACAAACATGGATTCTCATAATAATCCCCA
Found at i:1285562 original size:159 final size:158
Alignment explanation
Indices: 1284348--1285571 Score: 403
Period size: 159 Copynumber: 7.8 Consensus size: 158
1284338 GGGATATGAC
* * * * * *
1284348 ATTGATGGTTTGGCTTTGTAAGTAAAGCTTTTT-TTACCA-CAATTTTTCATAGAATCAAAGTTC
1 ATTGATGATTTGGTTTTGAAAG-AAAGCTTTTTCTT-CGACCATTTTTTC-TAAAATCAAAGTTC
* * * * * * *
1284411 ATCTCTTAAATAAGACAAACAT-GATTCTCATAATA-ACCCCATTC-ATTTCAAGATTAGGCACC
63 AT-GCTTAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTTGAAGATTGGGCACC
** * * *
1284473 ATAAACGTAGTCCAT-TCATTAGGATACATAAT
127 ATAAACACA-TTCTTCTCATTAGGATACACAAT
* * * * ** *
1284505 ATTGATGCTTTGGTTTTGCAAGAAAGGCTTTTT-TTCCCACCATTTTTTATAAAGCCTAAGTTCA
1 ATTGATGATTTGGTTTTGAAAGAAA-GCTTTTTCTT-CGACCATTTTTTCTAAAATCAAAGTTCA
* * * * * *
1284569 TGCCTTAAGT-ACGATAAAAATGGATT-TTAGTAAT-GATCTTCATT-TTTTT-ATGATTGGGCA
64 TG-CTTAAATGA-GACAAACATGGATTCTCA-TAATAG-TCTCCATTCTTTTTGAAGATTGGGCA
** *
1284629 CCATAAACATGTTC-TCATCATTAGTATACACAAT
125 CCATAAACACATTCTTC-TCATTAGGATACACAAT
** * * *** * *
1284663 ATTGATGATTTACTTTCAT-AAGGAAAGC-TTTTCTTTG-CCTAAACTTCCTTAAAATCAATGTT
1 ATTGATGATTTGGTTT--TGAAAGAAAGCTTTTTCTTCGACC-ATTTTTTC-TAAAATCAAAGTT
* * * * ** *
1284725 CATCCTTTAAATGAGATAAACATGGATTCTCATAATAGTCTCTATCCTTTACG-AGATTGGGAAC
62 CATGC-TTAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTTGAAGATTGGGCAC
* * ** *
1284789 CA-AAA-AC-TTGTTCCCTTCATTAGGGTACATGAC
126 CATAAACACATTCTT--C-TCATTAGGATACACAAT
* * * * * * *** * *
1284822 ATTGATGCTTT-GTTGTCAGAAGGAACA-C-TTTTCTTTCCACTATTGTCGATAGAATCAAAATT
1 ATTGATGATTTGGTT-T-TGAAAGAA-AGCTTTTTC-TTCGACCATTTTTTCTAAAATCAAAGTT
** * * * * * * * * * * *
1284884 TGTCACTCAAATGAGACAAACTTGCATTGTCATAACAATCTCTA-TC-ATTTCATGATTGGGCAC
62 CAT-GCTTAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTTGAAGATTGGGCAC
* * ** * **
1284947 TATAAACACGTTC-TCTTTGTTGGGATACATGAT
126 CATAAACACATTCTTC-TCATTAGGATACACAAT
* * * * * *
1284980 GTTGATGCTTTTGCTTTGTAATA-AAAGC-TTTTCTTTGA-C-TTATTTTCCTTCAAATCAAAGT
1 ATTGATGATTTGGTTTTG-AA-AGAAAGCTTTTTCTTCGACCATT-TTTT-C-TAAAATCAAAGT
* * * ** ** * *
1285041 TCATTCCTCAAATGAAACAAACATGGATTCTTGTAAGGGTTTCCATT-TTTTT-AATGATTGGTC
61 TCA-TGCTTAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTTGAA-GATTGGGC
* * * ** *
1285104 A-C-TGAA-A-A-TC--CTCATTGGGATGCATGAC
124 ACCATAAACACATTCTTCTCATTAGGATACACAAT
* * * * * * * *
1285132 ATTGATGGTTTGGCTTTGCAAGCAAAGCTTTTT-TCACCACCA-TTTTTCATAGAATCAATGTTT
1 ATTGATGATTTGGTTTTGAAAG-AAAGCTTTTTCT-TCGACCATTTTTTC-TAAAATCAAAGTTC
* * * * *
1285195 AT-CTTTTAAATGAAACAAACATGGATTCTCATAATAATCTCTATTC-TTTTCAAGATTAGGCAC
63 ATGC--TTAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTTGAAGATTGGGCAC
*
1285258 CATAAACACATTCTTCTCATTAGGATACATAAT
126 CATAAACACATTCTTCTCATTAGGATACACAAT
* * * * * * * *
1285291 ATTGGTGCTTTGGTTTTGCAAGAAAGGTTTTTCTTCGTACCATTTTTTGTAGAGTCTAAGTTCAT
1 ATTGATGATTTGGTTTTGAAAGAAAGCTTTTTCTTCG-ACCATTTTTTCTAAAATCAAAGTTCAT
* *
1285356 GCTTCAAATGAGACAAACATGGATTCT-ACTAAT-GATTTTCATT-TTTTTGAAGATTGGGCACC
65 GCTT-AAATGAGACAAACATGGATTCTCA-TAATAG-TCTCCATTCTTTTTGAAGATTGGGCACC
* * * *
1285418 ATAAACACGTT-TTCCTTATTAGTATACACGAT
127 ATAAACACATTCTT-CTCATTAGGATACACAAT
1285450 ATTGATGATTTGGTTTCAT-AAAGAAAGCTTTTT-TT-G-CC-TTATTTTCCCTAAAATCAAAGT
1 ATTGATGATTTGGTTT--TGAAAGAAAGCTTTTTCTTCGACCATT-TTTT--CTAAAATCAAAGT
* *
1285510 TCATATCTTAAATGAGACAAACAAGGATTCTCATAATAGTCTCCATTCTTTTTG-AGATTGGG
61 TCAT-GCTTAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTTGAAGATTGGG
1285572 AAGCAAAAAA
Statistics
Matches: 785, Mismatches: 201, Indels: 161
0.68 0.18 0.14
Matches are distributed among these distances:
150 2 0.00
151 2 0.00
152 89 0.11
153 13 0.02
154 7 0.01
155 5 0.01
156 18 0.02
157 81 0.10
158 262 0.33
159 274 0.35
160 28 0.04
161 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (158 bp):
ATTGATGATTTGGTTTTGAAAGAAAGCTTTTTCTTCGACCATTTTTTCTAAAATCAAAGTTCATG
CTTAAATGAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTTTGAAGATTGGGCACCATAA
ACACATTCTTCTCATTAGGATACACAAT
Found at i:1288220 original size:159 final size:158
Alignment explanation
Indices: 1288057--1290822 Score: 1427
Period size: 159 Copynumber: 17.5 Consensus size: 158
1288047 AGATTCTATA
1288057 GAAAATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGAA
1 GAAAATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGAA
* * * **
1288122 GAGAATGTGTTTATGATGCCTAATTATGAAAAAATTGGAGATTATTATAAGAATCCATGTTCATC
66 GAGAATGTGTTTATGGTGCCCAATCATGAAAAAA-TGGAGATTATTATAAGAATCCATGTTTGTC
* *
1288187 TCATTTGAAGGATGAACTTTAATTTTAAG
130 TCATTTGAAGGATGAACTTTGATTTTAAT
* * * *
1288216 GAAAATG--GTAAAGAAAAAGCTTTTCTTGCGAAGCCAAAGCATTAATATCATGTATCCCAAT-A
1 GAAAATGATGGAAAG-AAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGA
* * * *** * * * * * * *
1288278 AGGAAAACGTATTTACAATGCCTAGTTAGGAAAAGAATGGAGATTATTTTAAGAATCCAGGTTTA
65 A-GAGAATGTGTTTATGGTGCCCAATCATGAAAA-AATGGAGATTATTATAAGAATCCATGTTTG
* * * * *
1288343 TCTCATTTTACGAATGACCTTTGATTATAAT
128 TCTCATTTGAAGGATGAACTTTGATTTTAAT
** * * * *
1288374 GAAAACAAT-GAAAGAAAAAGGTTTTCTTGC----CCAATA-CGTCAATATCATGAATTCCAATG
1 GAAAATGATGGAAAG-AAAAGCTTTTCTTGCAAAACCAA-AGCATCAATATCATGTATCCCAATG
* * * * * *
1288433 AGGAGAACGTGTTTATGGTGTCCAATCAT-AACAAGAATGGAGATTATTATGATAATCCAAGTTT
64 AAGAGAATGTGTTTATGGTGCCCAATCATGAA-AA-AATGGAGATTATTATAAGAATCCATGTTT
* ** * *
1288497 GTCCCATTTGAAACATAAACTTTGATTCTAAT
127 GTCTCATTTGAAGGATGAACTTTGATTTTAAT
* * * * * ** *
1288529 G-AAATGGTGTAAAGAAAAGCATTTCTTGCTAAACTAAAGGTTCAATATCATGTATCCTAAT-AA
1 GAAAATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGAA
** * * * * * **
1288592 GCAGAACATGTTTATGGTGCCCAATCATAGAAAGAATGAAAACTATTATGAGAATCTGTGTTTGT
66 G-AGAATGTGTTTATGGTGCCCAATCAT-GAAAAAATGGAGATTATTATAAGAATCCATGTTTGT
* ** * * *
1288657 TTTGTTTG-AGGAATGAACTCTGGTTTGT-AG
129 CTCATTTGAAGG-ATGAACTTTGATTT-TAAT
* * * ** * *
1288687 GAAAAT-A-GTAGAA-AAAAGCCTTTATTGCAAAACCAAAGCATCAATATTGTGTATCTCAA-AA
1 GAAAATGATGGA-AAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGA
* * ** ** * *
1288748 AAATAATACGTTTATTATGCCCAA-CATGAAAAATATGGAGATTGTTATGAGAATCCATGTTTGT
65 AGAGAATGTGTTTATGGTGCCCAATCATGAAAAA-ATGGAGATTATTATAAGAATCCATGTTTGT
* *
1288812 CTCATTTGACA-AATGAAGTTTGA-TTTAAT
129 CTCATTTGA-AGGATGAACTTTGATTTTAAT
* * * ** * * **
1288841 GAAAATGGTGAAAAGGAAAA-CATTTCTTGTGAAAGCAAAGCATTAATATTGTGTA-CCCAAATG
1 GAAAATGATGGAAA-GAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCC-AATG
* ** * * *
1288904 AGGAGAACATGTATATGGTGCCCAATTATGAAAAGAATAGAGATTATTATAAGAATCCATGTTTG
64 AAGAGAATGTGTTTATGGTGCCCAATCATGAAAA-AATGGAGATTATTATAAGAATCCATGTTTG
* * * * * *
1288969 TTTTATTTGAGGGATAAATTTTAATTTT-AT
128 TCTCATTTGAAGGATGAACTTTGATTTTAAT
* * * * **
1288999 G-AAA-GATGGAAA-AAAAGGCTTTTCCTACAAAGTCC-AAGCATCAATATCATGTTTCCTTAT-
1 GAAAATGATGGAAAGAAAA-GCTTTTCTTGCAAA-ACCAAAGCATCAATATCATGTATCCCAATG
* * * * * ** * ** * *
1289059 TAGTAAAATATGTTTATGGTGCCCAATTATGAAAAGCATAAAGATCATTACGAGAATCTAAGTTT
64 AAG-AGAATGTGTTTATGGTGCCCAATCATGAAAA-AATGGAGATTATTATAAGAATCCATGTTT
* * *
1289124 GTCTCATTTGATA-GATGAACTATGCTTGTAAT
127 GTCTCATTTGA-AGGATGAACTTTGATTTTAAT
* * ** * * * ** *
1289156 GAAAATGGTGAAAAGAAAAGCTTTTCTTGGGAAACCAAGGCATTAACATTGTGTATGCCAATGAA
1 GAAAATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGAA
* * * *
1289221 GAGAACGTGTTTATGGTGCCCAATCACAT-AAAGAATGGAGATTATTATGATG-ATCCAAGTTTG
66 GAGAATGTGTTTATGGTGCCCAAT--CATGAAAAAATGGAGATTATTAT-AAGAATCCATGTTTG
* * *
1289284 TCTCATTTTATAGG-TGAACTTTGCTTCTAAT
128 TCTCATTTGA-AGGATGAACTTTGATTTTAAT
* * * * * * *
1289315 GAAAATGGTGGAAAGAAAGGCATCTCTTGCAAAAATCAAAGCATCAATATCGCGTGTATCCCAAA
1 GAAAATGATGGAAAGAAAAGCTTTTCTTGC-AAAACCAAAGCATCAATAT--CATGTATCCCAAT
* * * * * * *
1289380 G-AGTAGAATGTGTTTATAGTGCCTAATCTTAGAAAAAAAAGAAGATTATTTTGAGAAT-CATTG
63 GAAG-AGAATGTGTTTATGGTGCCCAATCAT-G-AAAAAATGGAGATTATTATAAGAATCCA-TG
* * * *
1289443 TTTGTCTTGA-TTGAAGGA-AAAATGTTAATTTT-AT
124 TTTGTC-TCATTTGAAGGATGAACT-TTGATTTTAAT
* * ** * * * * *
1289477 GGAAAACG--GTAAAGGCAA-CTTTTCATGCAAAGCCAAAGCATTAATATCATGTATCCTAACG-
1 -GAAAATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGA
* * * * * *** *
1289538 AGAAGGAA--TGTTTATGGTGCCCAATCATAAAAAGAAT-GAAACTATTACAAGATTATTTATTT
65 AG-A-GAATGTGTTTATGGTGCCCAATCATGAAAA-AATGGAGATTATTATAAGAATCCATGTTT
* ** ** ** *
1289600 GCCTCA----AAGGACAAACAATGATTCGAAG
127 GTCTCATTTGAAGGATGAACTTTGATTTTAAT
* * * * *
1289628 GAAAAT-AGTGGAAAGAAAAACCTTTCTTGCAATACCAAAGCATCAATATCAAGTATCCTAATG-
1 GAAAATGA-TGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGA
* * * * ** ** * *
1289691 AGCAAAACGTGTTTACGTTGAACAATCACAAAAAAATGGAGATTATTACAAGAATCCAAGTTTGT
65 AG-AGAATGTGTTTATGGTGCCCAATCATGAAAAAATGGAGATTATTATAAGAATCCATGTTTGT
* * *
1289756 CTCATTTGACA-AATGAATTTTGATTCTAAT
129 CTCATTTGA-AGGATGAACTTTGATTTTAAT
* ** * * * * * *
1289786 -AAAATGCTATAAAGAAAAGCATTTCTTACGAAACTAAAGCATTAATATCATGTATCCTAATGGG
1 GAAAATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAAT--G
* * * * * *
1289850 AAGA-ACAT-T-TTTATGGTGCCTAATCATGAAAAAAGTGAAAAATATTCTGAA-AATACATGTT
64 AAGAGA-ATGTGTTTATGGTGCCCAATCATGAAAAAA-TGGAGATTATTAT-AAGAATCCATGTT
* * * * *
1289911 TGTCTTATTTGAGGGATGAAATTTGATTATAAGG
126 TGTCTCATTTGAAGGATGAACTTTGATTTTAA-T
* *** * * ** *
1289945 GAATAA-G-TGGAAAGAAAAACTTTTCTTATGAAACCAAAGCATTAGTATTGTGTATCCTAAT-A
1 GAA-AATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGA
** * * * *
1290007 AGGAGAATGTGTTTATGGTGCCCAATCACAAAAAAAAATGGATACTATTATGAGAATCCAAG-TT
65 A-GAGAATGTGTTTATGGTGCCCAAT--CATGAAAAAATGGAGATTATTATAAGAATCCATGTTT
* * *
1290071 GTCTCATTT-AATAGATAAACTTTGATTATAAT
127 GTCTCATTTGAA-GGATGAACTTTGATTTTAAT
* * * * ** * *
1290103 GAAAGTAATGGATGAA-AAAAGCTTTTCTAGCAAAACAAAAGCATCAATATTGTGTAT-ACTA-G
1 GAAAATGATGGA--AAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATG
* ** * * *
1290165 CAAGAAGAACGTGTCGATGGTGCCAAATCATAAAAAGAATGGAGAATT-TCA-AGAGAATCCATG
64 -AAG-AGAATGTGTTTATGGTGCCCAATCATGAAAA-AATGGAG-ATTATTATA-AGAATCCATG
* * * *
1290228 TTTATATCATTT-AAGGGATGAACTTTGATTCTAAA
124 TTTGTCTCATTTGAA-GGATGAACTTTGATTTTAAT
* * * ** * ** *
1290263 GAAAATGGTGGAATGAAAAGCTTTTATTGTGAAACCAAAGCATCAGTATTGTGTATTCCAATGAA
1 GAAAATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGAA
* ** * * ** ** * *
1290328 AAGAATGCATTTATTGTGCCCAATCCTGAAAAGAATAAAGATTA-TACGAGAA-CCTAAGTTTGA
66 GAGAATGTGTTTATGGTGCCCAATCATGAAAA-AATGGAGATTATTATAAGAATCC-ATGTTTGT
*
1290391 CTCA-TTCAATGGATGAACTTTGA-TTTAAT
129 CTCATTTGAA-GGATGAACTTTGATTTTAAT
* * * ** * *
1290420 GAAAATCG-TGAAAAGAAAAGCTTTTCTTGCAAAACCAAAGTATCGATATCGGGTATCCTAATTA
1 GAAAAT-GATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGA
* * * *
1290484 GGAGAATGTGTTTATGGTGTCCAATCATGAAAAGAATGGAGATTATTACAAGAGTCCATGTTTGT
65 AGAGAATGTGTTTATGGTGCCCAATCATGAAAA-AATGGAGATTATTATAAGAATCCATGTTTGT
* *
1290549 CTCATTT-AAGGGATGAACTTTAATTTTAAG
129 CTCATTTGAA-GGATGAACTTTGATTTTAAT
* * * * ** *
1290579 GAAAATGATGG-AAGAATAAGCTTTTTTTGCAAAGCTAAAGCATTAATATTGTGTATCCCAATTA
1 GAAAATGATGGAAAGAA-AAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGA
** * * ** * * * *
1290643 AGAGAATGTGCCTATGGTGACTAATCACAAAAATAATGGATATTACTATAAGAATCTAAGTTTGT
65 AGAGAATGTGTTTATGGTGCCCAATCATGAAAA-AATGGAGATTATTATAAGAATCCATGTTTGT
* * * *
1290708 CTCATTCGATGGATGAACTTTGATTATGAT
129 CTCATTTGAAGGATGAACTTTGATTTTAAT
* * * * * * *
1290738 GAAAA-CAGTGAAAAGAAAAGATTTTCTTGCGAAACTAAAGCATCAATATCATGTAGCCCATTGA
1 GAAAATGA-TGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGA
*
1290802 GGAGAATGTGTTTATGGTGCC
65 AGAGAATGTGTTTATGGTGCC
1290823 TGATGGAGTT
Statistics
Matches: 1961, Mismatches: 517, Indels: 258
0.72 0.19 0.09
Matches are distributed among these distances:
150 14 0.01
151 4 0.00
152 9 0.00
153 45 0.02
154 99 0.05
155 142 0.07
156 171 0.09
157 262 0.13
158 408 0.21
159 544 0.28
160 158 0.08
161 23 0.01
162 42 0.02
163 38 0.02
164 2 0.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (158 bp):
GAAAATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGAA
GAGAATGTGTTTATGGTGCCCAATCATGAAAAAATGGAGATTATTATAAGAATCCATGTTTGTCT
CATTTGAAGGATGAACTTTGATTTTAAT
Found at i:1290560 original size:316 final size:313
Alignment explanation
Indices: 1289713--1290822 Score: 923
Period size: 316 Copynumber: 3.5 Consensus size: 313
1289703 TTACGTTGAA
* * ** ** *** *
1289713 CAATCAC-AAAAAAATGGAGATTATTACAAGAATCC-AAGTTTGTCTCATTTGACAAATGAATTT
1 CAATCACAAAAAAAATGGATATTACTATGAGAA-CCTAAGTTTGTCTCATTCAATGGATGAACTT
* * * * * * *
1289776 TGATTCTAAT-AAAAT-GCT-ATAAAGAAAAGCATTTCTTACGAAACTAAAGCATTAATATCATG
65 TGATTATAATGAAAATCG-TGA-AAAGAAAAGCTTTTCTTGCAAAACAAAAGCATCAATATCGTG
* ** * * * * * *
1289838 TATCCTAA-TGGGAAGAACATTTTTATGGTGCCTAATCATGAAAAA-AGTGAAAAATATTCTGAA
128 TATCCTAATTAGG-AGAATGTGTTTATGGTGCCAAATCAT-AAAAAGAATGGAGAAT-TAC--AA
* * * *
1289901 -A-ATACATGTTTGTCTTATTTGAGGGATGAAATTTGATTATAAGGGAATAA--GTGGAAAGAAA
188 GAGATCCATGTTTGTCTCATTTAAGGGATGAACTTTGATTATAA-GGAA-AATGGTGG-AAGAAA
*
1289962 AACTTTTCTTATGAAACCAAAGCATTAGTATTGTGTA-TCCTAATAAGGAGAATGTGTTTATGGT
250 AGCTTTT-TT-TGAAACCAAAGCATTAGTATTGTGTATTCC-AATAA-GAGAATGTGTTTATGGT
1290026 GCC
311 GCC
* * * * *
1290029 CAATCACAAAAAAAAATGGATACTATTATGAGAATCC-AAG-TTGTCTCATTTAATAGATAAACT
1 CAATCAC-AAAAAAAATGGATATTACTATGAGAA-CCTAAGTTTGTCTCATTCAATGGATGAACT
* ** * * *
1290092 TTGATTATAATGAAAGTAATGGATGAA-AAAAGCTTTTCTAGCAAAACAAAAGCATCAATATTGT
64 TTGATTATAATGAAAATCGT-GA-AAAGAAAAGCTTTTCTTGCAAAACAAAAGCATCAATATCGT
* *** * * ** *
1290156 GTATACTAGCAAGAAGAACGTGTCGATGGTGCCAAATCATAAAAAGAATGGAGAATTTCAAGAGA
127 GTATCCTAATTAGGAGAATGTGTTTATGGTGCCAAATCATAAAAAGAATGGAGAATTACAAGAG-
* * * *
1290221 ATCCATGTTTATATCATTTAAGGGATGAACTTTGATTCTAAAGAAAATGGTGGAATGAAAAGCTT
191 ATCCATGTTTGTCTCATTTAAGGGATGAACTTTGATTATAAGGAAAATGGTGGAA-GAAAAGCTT
* * ** *
1290286 TTATTGTGAAACCAAAGCATCAGTATTGTGTATTCCAATGAAAAGAATGCATTTATTGTGCC
255 TT-TT-TGAAACCAAAGCATTAGTATTGTGTATTCCAAT-AAGAGAATGTGTTTATGGTGCC
* * ** * * *
1290348 CAATC-CTGAAAAGAATAAAGATTA-TACGAGAACCTAAGTTTGACTCATTCAATGGATGAACTT
1 CAATCAC-AAAAAAAATGGATATTACTATGAGAACCTAAGTTTGTCTCATTCAATGGATGAACTT
* * * *
1290411 TGATT-TAATGAAAATCGTGAAAAGAAAAGCTTTTCTTGCAAAACCAAAGTATCGATATCGGGTA
65 TGATTATAATGAAAATCGTGAAAAGAAAAGCTTTTCTTGCAAAACAAAAGCATCAATATCGTGTA
*
1290475 TCCTAATTAGGAGAATGTGTTTATGGTGTCC-AATCATGAAAAGAATGGAGATTATTACAAGAG-
130 TCCTAATTAGGAGAATGTGTTTATGGTG-CCAAATCATAAAAAGAATGGAGA--ATTACAAGAGA
* * *
1290538 TCCATGTTTGTCTCATTTAAGGGATGAACTTTAATTTTAAGGAAAATGATGGAAGAATAAGCTTT
192 TCCATGTTTGTCTCATTTAAGGGATGAACTTTGATTATAAGGAAAATGGTGGAAGAA-AAGCTTT
* * * ** *
1290603 TTTTGCAAAGCTAAAGCATTAATATTGTGTATCCCAATTAAGAGAATGTGCCTATGGTGAC
256 TTTTG-AAA-CCAAAGCATTAGTATTGTGTATTCCAA-TAAGAGAATGTGTTTATGGTGCC
* * * * *
1290664 TAATCACAAAAATAATGGATATTACTATAAGAATCTAAGTTTGTCTCATTCGATGGATGAACTTT
1 CAATCACAAAAAAAATGGATATTACTATGAGAACCTAAGTTTGTCTCATTCAATGGATGAACTTT
* * * * *
1290729 GATTATGATGAAAA-CAGTGAAAAGAAAAGATTTTCTTGCGAAACTAAAGCATCAATATCATGTA
66 GATTATAATGAAAATC-GTGAAAAGAAAAGCTTTTCTTGCAAAACAAAAGCATCAATATCGTGTA
* *
1290793 GCC-CATTGAGGAGAATGTGTTTATGGTGCC
130 TCCTAATT-AGGAGAATGTGTTTATGGTGCC
1290823 TGATGGAGTT
Statistics
Matches: 643, Mismatches: 120, Indels: 61
0.78 0.15 0.07
Matches are distributed among these distances:
314 2 0.00
315 10 0.02
316 196 0.30
317 100 0.16
318 162 0.25
319 163 0.25
320 10 0.02
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (313 bp):
CAATCACAAAAAAAATGGATATTACTATGAGAACCTAAGTTTGTCTCATTCAATGGATGAACTTT
GATTATAATGAAAATCGTGAAAAGAAAAGCTTTTCTTGCAAAACAAAAGCATCAATATCGTGTAT
CCTAATTAGGAGAATGTGTTTATGGTGCCAAATCATAAAAAGAATGGAGAATTACAAGAGATCCA
TGTTTGTCTCATTTAAGGGATGAACTTTGATTATAAGGAAAATGGTGGAAGAAAAGCTTTTTTTG
AAACCAAAGCATTAGTATTGTGTATTCCAATAAGAGAATGTGTTTATGGTGCC
Found at i:1291996 original size:28 final size:28
Alignment explanation
Indices: 1291916--1291996 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
1291906 TTCATTTCTC
* *
1291916 TTCCTTTGTTATTTCTTATTGATTTTGTT
1 TTCC-TTGATATTTCTTGTTGATTTTGTT
* * *
1291945 TCCCTTAATATTTCTTGGTGATTTTGTT
1 TTCCTTGATATTTCTTGTTGATTTTGTT
*
1291973 TTCCTTGATATTTCTTGTTAATTT
1 TTCCTTGATATTTCTTGTTGATTT
1291997 CGCTTCCTTG
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 40 0.93
29 3 0.07
ACGTcount: A:0.14, C:0.12, G:0.11, T:0.63
Consensus pattern (28 bp):
TTCCTTGATATTTCTTGTTGATTTTGTT
Done.