Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold369
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: 1106593
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 6 of 6
Found at i:913064 original size:136 final size:135
Alignment explanation
Indices: 912820--913133 Score: 423
Period size: 136 Copynumber: 2.3 Consensus size: 135
912810 TTCGTGGAAC
* * *
912820 CTTTAAGTCCAATATCGCTGACCTTGAATAAGCATATTGGCACCTTGTCTTCAAGCCTAATGTCG
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAGCCTAATGTCG
* *
912885 CTGACTTTGAATCAGCACACTAGCACAAGCCTAATATCACTGGCCTTGAATCAGCACATTGGCAT
66 CTGACCTTGAATCAGCACACTAGCACAAGCCTAATATCACTGGCCCTGAATCAGCACATTGGCA-
*
912950 CTTTAT
130 CCTTAT
* *
912956 CTTTAAGACCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACC-AATGTC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAG-CCTAATGTC
* * * * * * * *
913020 GCTGGCCTTGACTCAGCACATTAGCATAAGCCTAGTATCGCTGGCCCTGAATCAGTATATTGGCA
65 GCTGACCTTGAATCAGCACACTAGCACAAGCCTAATATCACTGGCCCTGAATCAGCACATTGGCA
*
913085 CCTTGT
130 CCTTAT
* * *
913091 CTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
913134 AAGCCCGATG
Statistics
Matches: 156, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
135 43 0.28
136 111 0.71
137 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (135 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAGCCTAATGTCG
CTGACCTTGAATCAGCACACTAGCACAAGCCTAATATCACTGGCCCTGAATCAGCACATTGGCAC
CTTAT
Found at i:913148 original size:87 final size:87
Alignment explanation
Indices: 912968--913171 Score: 284
Period size: 87 Copynumber: 2.3 Consensus size: 87
912958 TTAAGACCAA
* * *
912968 TATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGACT
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTGAAT
* *
913033 CAGCACATTAGCATAAGCCTAG
66 CAGCACATTAGCACAAGCCGAG
* *
913055 TATCGCTGGCCCTGAATCAGTATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTGAAT
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTGAAT
*
913120 CAGCACATTGGCACAAGCCCGA-
66 CAGCACATTAGCACAAG-CCGAG
* ** *
913142 TGTCGCTAACCTTGAATCAGCACATTGGCA
1 TATCGCTGGCCTTGAATCAGCATATTGGCA
913172 TGAGCCCAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
87 99 0.97
88 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (87 bp):
TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTGAAT
CAGCACATTAGCACAAGCCGAG
Found at i:913156 original size:39 final size:39
Alignment explanation
Indices: 913112--913200 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
913102 ATGTCACTGG
* *
913112 CCTTGAATCAGCACATTGGCACAAGCCCGATGTCGCTAA
1 CCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTAA
** **
913151 CCTTGAATCAGCACATTGGCATGAGCCCAATATCGCTGG
1 CCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTAA
913190 CCTTGAATCAG
1 CCTTGAATCAG
913201 TATATTCACA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
CCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTAA
Found at i:913296 original size:52 final size:50
Alignment explanation
Indices: 913236--913362 Score: 166
Period size: 49 Copynumber: 2.5 Consensus size: 50
913226 CCGATCTAGT
* * *
913236 TGGCCTTGAATCAGCATATCGGCACCACAACCATCTTTAAGTCTAGTGTCGC
1 TGGCCTTGAATCAGCATATTGGCACC-C-ACCATCTTCAAGTCTAATGTCGC
***
913288 TGGCCTTGAATCAGCATATTGGCA-CCTTTATCTTCAAGTCTAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCACCCACCATCTTCAAGTCTAATGTCGC
*
913337 TGGCCTTGAATCAGCACATTGGCACC
1 TGGCCTTGAATCAGCATATTGGCACC
913363 TTCATCCCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 41 0.61
50 2 0.03
51 1 0.01
52 23 0.34
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
TGGCCTTGAATCAGCATATTGGCACCCACCATCTTCAAGTCTAATGTCGC
Found at i:913340 original size:49 final size:49
Alignment explanation
Indices: 913268--913505 Score: 198
Period size: 49 Copynumber: 4.8 Consensus size: 49
913258 CACCACAACC
* * *
913268 ATCTTTAAGTCTAGTGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 ATCTTCAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
*
913317 ATCTTCAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTC
1 ATCTTCAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
* * * ** * *
913366 ATC-CCTAAGT-TCGATATCATTGGCCTTGAATCAGCATATTGGCATCTTT
1 ATCTTC-AAGTCT-AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
* * * * * **
913415 AACATTCCTAAGCCCAACGTCGTTGGCCTTGTCTCAGCACATTGGCA--TTCT
1 ATC-TT-C-AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-T
* * *
913466 -TCTTCAAGTTTAATGTCACTGGCCATGAATCAGCACATTG
1 ATCTTCAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTG
913506 CCATTCTTCG
Statistics
Matches: 149, Mismatches: 33, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
47 26 0.17
48 3 0.02
49 86 0.58
50 3 0.02
51 1 0.01
52 30 0.20
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (49 bp):
ATCTTCAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
Found at i:934171 original size:33 final size:33
Alignment explanation
Indices: 934124--934193 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 33
934114 GCCGTTTGGG
934124 ACAATGTATCGATACAATTCT-TCATGTATCGAT
1 ACAATGTATCGATACAA-TCTGTCATGTATCGAT
*
934157 ACAATGTATTGATACAATCTGTCATGTATCGAT
1 ACAATGTATCGATACAATCTGTCATGTATCGAT
934190 ACAA
1 ACAA
934194 ATAGTGGTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 3 0.09
33 32 0.91
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (33 bp):
ACAATGTATCGATACAATCTGTCATGTATCGAT
Found at i:934263 original size:42 final size:43
Alignment explanation
Indices: 934178--934278 Score: 161
Period size: 42 Copynumber: 2.4 Consensus size: 43
934168 ATACAATCTG
*
934178 TCATGTATCGATACAAATAGTGGTAGGGTAGCTACTGTCAGTT
1 TCATGTATCGATACAAATAGTGGTAGGGTAGCTACTGCCAGTT
*
934221 TCATGTATCGAAACAAAT-GTTGGTA-GGTAGCTACTGCCAGTT
1 TCATGTATCGATACAAATAG-TGGTAGGGTAGCTACTGCCAGTT
934263 TCATGTATCGATACAA
1 TCATGTATCGATACAA
934279 TTATGGATGT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
42 32 0.59
43 22 0.41
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
TCATGTATCGATACAAATAGTGGTAGGGTAGCTACTGCCAGTT
Found at i:936497 original size:17 final size:17
Alignment explanation
Indices: 936475--936507 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
936465 CAAAAACACA
936475 TTTCGTTCATTAGGATG
1 TTTCGTTCATTAGGATG
936492 TTTCGTTCATTAGGAT
1 TTTCGTTCATTAGGAT
936508 ACATGACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.21, T:0.48
Consensus pattern (17 bp):
TTTCGTTCATTAGGATG
Found at i:938308 original size:475 final size:473
Alignment explanation
Indices: 937405--938989 Score: 1925
Period size: 475 Copynumber: 3.3 Consensus size: 473
937395 CACAACATTC
* * * * *
937405 GATTTGGAACCAAAAACACATTCCGTTCTTTAAGATACATGACATTGATGCTTTGGTGTTGCAAG
1 GATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAG
* * * *
937470 AAAAAGTTTTCTTTCCATCATTTTTGATAAAATCAAAGTTTGTCTCTCAAATAAGACAAACATGA
66 AAAAGGTTTTCTTTCCATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGA
* * * * *
937535 ATAGTCATAGTAATCCCCACTCTTTTACAAGATTAGGCACCATAAACAGAA-TCTTCTCAAAAGG
131 ATACTCATACTAATCCCCATTCTTTT-CAGGATTAGGCACCATAAACA-AAGTCTTCTCATAAGG
* * * * * *
937599 ATACACGAAATGGATGCTTTGGTTTTGCAAGAAAAGCTTTCTTCCCACCAATTTTTAAAAAGTCT
194 ATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGTTTTCTT-CCACCAATTTTTGAAAAGTCT
* * * * *
937664 AAGTTAAG-GCCTCAAATGAGACAAACATGGATTCTAGTAAGGATTTTAATTCAATTTGTAATTA
258 AAGTT-CGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGG-TCTTCATTCATTTTGTGATTA
* *
937728 GGCACTATAAAAACATTCTCCTCATTAGGAAAAATGATATTGATTG-TTTTCTTTTGCATGAAAA
321 GGCACTATAAACACATTCTCCTCATTAGG-AAAATGATATTGA-TGATTTTCTTTTGCATGGAAA
* * * *
937792 TCTTTTTTTTGCCCTATTTTCCATAAAATCAAAGCTTGTCCCTTAAATAAGGCAAGAATTGATTC
384 TCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTTAAATAAGGCAAGCATTGATTC
* * * *
937857 TTGCAGCGGTCTCCATTCTTTTCAA
449 TCGTAACAGTCTCCATTCTTTTCAA
* * * * * * *
937882 GATTAGGAACCAGAAACATATTCCTTTCATTAGGATACATGACATTAAAGCTTTGGTGTTGCAAG
1 GATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAG
937947 AAAAGGTTTTCTTTCC-TCTGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
66 AAAAGGTTTTCTTTCCATC-GTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
* * * * ** * * *
938011 AAAACTCAGACTAATCCCCATTGTTTTCAAGATTAGGTGCCATTAACAAAGTCTACTCATAACGA
130 AATACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAAAGTCTTCTCATAAGGA
* ** * * *
938076 TACACGATATTGATGGTTTGGTTTCATAAGAAAGGTTTTTTTCCACTAATTTTTGTAAAGTCTAA
195 TACACGATATTGATGCTTTGGTTTCGCAAGAAAGGTTTTCTTCCACCAATTTTTGAAAAGTCTAA
* * * *
938141 GTTGGTGCCTCAAATGAGACAAACATTGATTCTAGTAATGGTCTTTATTCGTTTTGTGATTAGGC
260 GTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAA-GGTCTTCATTCATTTTGTGATTAGGC
* * *
938206 ACTATAAACACATTCTCCTCATTAGTCAAAATGATATTGATGATTTTCTTTTGCTTGGAAATATT
324 ACTATAAACACATTCTCCTCATTAG-GAAAATGATATTGATGATTTTCTTTTGCATGGAAATCTT
* * * *
938271 TTCTTTACCCTATGTTCCTTAAAATCAAAGTTTGTCCCTTAAATAAGGTAAGCTTTGATTCTCGT
388 TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTTAAATAAGGCAAGCATTGATTCTCGT
938336 AACAGTCTCCATTCTTTTCAA
453 AACAGTCTCCATTCTTTTCAA
* * * * * *
938357 GATTAGGAACTAAAAACACATTCCGTTCATTAGGATACATGACATTGATGCTTTAGAGTAGCAAG
1 GATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAG
* * ** * * * *
938422 AGAAGCTTTTCGCTCCATCGTTATTGATAGAAACAAAGTTTGTCTCTTAAATAAGACAAATAAG-
66 AAAAGGTTTTCTTTCCATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGA
* *** *
938486 ATACTCATACTAATACCCATTCTTTTCAGGATTAGGCACCATAAATGTAGTTTTCTCATAAGGAT
131 ATACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAAAGTCTTCTCATAAGGAT
** * ** *
938551 ACACGATATTGATGCTTTACTTTTGCAAGAATTGCTTTCTTCTCACCAATTTTTGAAAAGTCTAA
196 ACACGATATTGATGCTTTGGTTTCGCAAGAAAGGTTTTCTTC-CACCAATTTTTGAAAAGTCTAA
* *
938616 GTTCGTGCCTCAAATGAGACAAACATGGATTCTTGTAAGGATGTTCATTCATTTTGTGATTAGGC
260 GTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGG-TCTTCATTCATTTTGTGATTAGGC
* *
938681 ACTATAAACACATTCTCCTCATTGGGATAAATGATATTGATGATTTTCTTTTGCAAGGAAATCTT
324 ACTATAAACACATTCTCCTCATTAGGA-AAATGATATTGATGATTTTCTTTTGCATGGAAATCTT
* * * * *
938746 TTCCTTACCCTATTTTCATTAAAATCAAAGTTTGTTCCTTAAATAAGGTAAGCATTGATTCTCGT
388 TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTTAAATAAGGCAAGCATTGATTCTCGT
* *
938811 AACTGTCTCCATTCTTTTGAA
453 AACAGTCTCCATTCTTTTCAA
* *
938832 GATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTAACT-CTTT-G-GTAG-AA
1 GATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGA-TGCTTTGGTGTCGCAA
* * * * *
938893 CCAAAAGGTTTTCTTTCCACCGTTTTTGTTAGAATCAAAGTTTATCTCTTAAATAAGAAAAACAT
65 -GAAAAGGTTTTCTTTCCATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACAT
* * *
938958 GAATAGTCATAC-AAT--GCATTCTTTTCAAGATT
129 GAATACTCATACTAATCCCCATTCTTTTCAGGATT
938990 GGGAACCAAA
Statistics
Matches: 954, Mismatches: 141, Indels: 32
0.85 0.13 0.03
Matches are distributed among these distances:
471 15 0.02
472 2 0.00
473 59 0.06
474 99 0.10
475 575 0.60
476 69 0.07
477 135 0.14
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (473 bp):
GATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAG
AAAAGGTTTTCTTTCCATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGA
ATACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACAAAGTCTTCTCATAAGGAT
ACACGATATTGATGCTTTGGTTTCGCAAGAAAGGTTTTCTTCCACCAATTTTTGAAAAGTCTAAG
TTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGTCTTCATTCATTTTGTGATTAGGCAC
TATAAACACATTCTCCTCATTAGGAAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTC
TTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTTAAATAAGGCAAGCATTGATTCTCGTAAC
AGTCTCCATTCTTTTCAA
Found at i:938829 original size:158 final size:157
Alignment explanation
Indices: 937724--938873 Score: 465
Period size: 159 Copynumber: 7.3 Consensus size: 157
937714 TCAATTTGTA
* * * * *
937724 ATTAGGCACTATAAAAACATTCTCCTCATTAGGAAAAATGATATTGATTG-TTTTCTTTTGCATG
1 ATTAGGCACTATAAACACATTCTCCTCATTAGGATACATGATATTGA-TGATTTACTTTTGCAAG
** * * * * *
937788 AAAATCTTTTTTTTGCCCTATTTTCCA-TAAAATCAAAGCTTGTCCCTTAAATAAGGCAAGAATT
65 -AAATCTTTTCCTTACCCTATTTT-CATTAAAATCAAAGTTTGTTCCTTAAATAAGACAAGCATT
* * * * *
937852 GATTCTTGCAGCGGTCTCCATTCTTTTCAAG
128 GATTCTCGTAACTGTCTCCATTCTTTT-GAG
* * * * * * * * * ** *
937883 ATTAGGAACCAGAAACATATTC-CTTTCATTAGGATACATGACATTAAAGCTTTGGTGTTGCAAG
1 ATTAGGCACTATAAACACATTCTC-CTCATTAGGATACATGATATTGATGATTTACTTTTGCAAG
** * * * * *
937947 AAAAGGTTTT-CTTTCCTCTGTTTTTGA-TAGAATCAAAGTTTG-TCTCTTAAATAAGACAAACA
65 -AAATCTTTTCCTTACC-CT-ATTTTCATTAAAATCAAAGTTTGTTC-CTTAAATAAGACAAGCA
** * * * *
938009 -TGAAAACTC--AGACTAATCCCCATTGTTTTCAAG
126 TTG-ATTCTCGTA-ACT-GTCTCCATTCTTTT-GAG
** * * * * * * * * * ** ***
938042 ATTAGGTGCCATTAACAAAGTCTACTCATAACGATACACGATATTGATGGTTTGGTTTCATAAGA
1 ATTAGGCACTATAAACACATTCTCCTCATTAGGATACATGATATTGATGATTTACTTTTGCAAGA
** * * * * * * * *
938107 AAGGTTTT--TTTCCACTAATTTT--TGTAAAGTCTAAGTTGGTGCCTCAAATGAGACAAACATT
66 AATCTTTTCCTTACC-CT-ATTTTCAT-TAAAATCAAAGTTTGTTCCTTAAATAAGACAAGCATT
* ** *
938168 GATTCTAGTAA-TGGTCTTTATTCGTTTTGTG
128 GATTCTCGTAACT-GTCTCCATTC-TTTTGAG
* * * **
938199 ATTAGGCACTATAAACACATTCTCCTCATTAGTCA-AAATGATATTGATGATTTTCTTTTGCTTG
1 ATTAGGCACTATAAACACATTCTCCTCATTAG-GATACATGATATTGATGATTTACTTTTGC-AA
* * * * * ** *
938263 GAAATATTTTCTTTACCCTATGTTCCTTAAAATCAAAGTTTGTCCCTTAAATAAGGTAAGCTTTG
64 GAAATCTTTTCCTTACCCTATTTTCATTAAAATCAAAGTTTGTTCCTTAAATAAGACAAGCATTG
* *
938328 ATTCTCGTAACAGTCTCCATTCTTTTCAAG
129 ATTCTCGTAACTGTCTCCATTCTTTT-GAG
* * * * * *** *
938358 ATTAGGAACTAAAAACACATTC-CGTTCATTAGGATACATGACATTGATGCTTTAGAGTAGCAAG
1 ATTAGGCACTATAAACACATTCTC-CTCATTAGGATACATGATATTGATGATTTACTTTTGCAAG
* * * *
938422 AGAAGCTTTTCGC-T-CCATCGTTATTGA-TAGAAA-CAAAGTTTG-TCTCTTAAATAAGACAA-
65 A-AATCTTTTC-CTTACCCT-ATT-TTCATTA-AAATCAAAGTTTGTTC-CTTAAATAAGACAAG
* * * * *
938481 -ATAAGATACTCAT-ACTAATAC-CCATTCTTTTCAGG
124 CAT-TGATTCTCGTAACT-GT-CTCCATTCTTTTGA-G
* *** * * * *
938516 ATTAGGCACCATAAATGTAGTT-TTCTCATAAGGATACACGATATTGATGCTTTACTTTTGCAAG
1 ATTAGGCACTATAAACACA-TTCTCCTCATTAGGATACATGATATTGATGATTTACTTTTGCAAG
* * * * * * * * * * *
938580 AATTGCTTTCTTCTCA-CCAATTTT--TGAAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACAT
65 AAAT-CTTT-TCCTTACCCTATTTTCATTAAAA-TCAAAGTTTGTTCCTTAAATAAGACAAGCAT
* * * *
938642 GGATTCTTGTAAGGATGT-T-CATTCATTTTGTG
127 TGATTCTCGTAA--CTGTCTCCATTC-TTTTGAG
* * *
938674 ATTAGGCACTATAAACACATTCTCCTCATTGGGATAAATGATATTGATGATTTTCTTTTGCAAGG
1 ATTAGGCACTATAAACACATTCTCCTCATTAGGATACATGATATTGATGATTTACTTTTGCAA-G
**
938739 AAATCTTTTCCTTACCCTATTTTCATTAAAATCAAAGTTTGTTCCTTAAATAAGGTAAGCATTGA
65 AAATCTTTTCCTTACCCTATTTTCATTAAAATCAAAGTTTGTTCCTTAAATAAGACAAGCATTGA
938804 TTCTCGTAACTGTCTCCATTCTTTTGAAG
130 TTCTCGTAACTGTCTCCATTCTTTTG-AG
* * * *
938833 ATTGGGAACCAAAAACACATTC-CCTTCATTAGGATACATGA
1 ATTAGGCACTATAAACACATTCTCC-TCATTAGGATACATGA
938874 CATTAACTCT
Statistics
Matches: 712, Mismatches: 217, Indels: 124
0.68 0.21 0.12
Matches are distributed among these distances:
155 3 0.00
156 1 0.00
157 124 0.17
158 205 0.29
159 358 0.50
160 20 0.03
161 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (157 bp):
ATTAGGCACTATAAACACATTCTCCTCATTAGGATACATGATATTGATGATTTACTTTTGCAAGA
AATCTTTTCCTTACCCTATTTTCATTAAAATCAAAGTTTGTTCCTTAAATAAGACAAGCATTGAT
TCTCGTAACTGTCTCCATTCTTTTGAG
Found at i:938995 original size:154 final size:155
Alignment explanation
Indices: 938818--939774 Score: 639
Period size: 156 Copynumber: 6.1 Consensus size: 155
938808 CGTAACTGTC
* *
938818 TCCATTCTTTTGAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTAACT-
1 TCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGA-TG
* ** * *
938882 CTTTG-GTAGAACCAAAAGGTTTTCTTTCCACCGTTTTTGTTAGAATCAAAGTTTATCTCTTAAA
65 CTTTGTGTCGAAAAAAAAGGTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAA
*
938946 TAAGAAAAACATGAATAGTCATACAA
130 TAAGACAAACATGAATAGTCATACAA
* * *
938972 TGCATTCTTTTCAAGATTGGGAACCAAAAATACGTTCCCTTCATTAGGATACATGACATTGATGC
1 TCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGC
** * *
939037 ATCGGTGTCGAAAGAAAAGGTTTTCTTTCCACCGTTTTTGATAGAATCAAATTTTGTCTCTTAAA
66 -TTTGTGTCGAAAAAAAAGGTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAA
* * *
939102 TAAGACAAACAGGAATAGCCATACTA
130 TAAGACAAACATGAATAGTCATACAA
* * * **
939128 TCCATTCTTTTCAAGATTGGGAACTAAAAACACATTCCCTTGATTAGGATGCATGTTATTGATGC
1 TCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGC
* * * *
939193 TTTGGTGTCGAAAAAAAAGTTTTTCTTTCTATCGATTTTGATAGAATCAAAGTTTGTCTCTTAAA
66 TTT-GTGTCGAAAAAAAAGGTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAA
*
939258 TAAGACAAACATAAATAGTCATACCAA
130 TAAGACAAACATGAATAGTCATA-CAA
* * * * * * * * ** * * * *
939285 TCCCCATTCTTCTCAGGATTAGGCACCATAAACATAGT-CTTCTCAGAAGTACACATAATATTGA
1 T--CCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCT-TCATTAGGATACATGACATTGA
* * * * * * **
939349 TGCTTTGGTTTCG-TAAGAAAGGCTTTCTTCCCACCAATTTTTG-TA-AAGTCTTAGTTTGTGC-
63 TGCTTT-GTGTCGAAAAAAAAGGTTTTCTTTCCACC-GTTTTTGATAGAA-TCAAAGTTTGT-CT
* * * *
939410 CTCAAATGAGACAAACATAGATTCTAGTAATGATC--
124 CTTAAATAAGACAAACAT-GA--ATAGTCAT-A-CAA
* * ** * * * * * ** *
939445 TTCATTAATTTT-GGGATTGGGCACTATAAACACATTCTCC-TAATTAGGATAAATGTTACTGAT
1 TCCATT-CTTTTCAAGATTGGGAACCAAAAACACATTC-CCTTCATTAGGATACATGACATTGAT
* * * * * ** ** * ** ** * ** * *
939508 GGTTTTCTTTTGCATGAAAATCTTTCCTTTGCC-CTATTTTTCTTAAAATCAAAGTTTACCCCTA
64 -GCTTTGTGTCGAAAAAAAAGGTTTTCTTT-CCACCGTTTTTGATAGAATCAAAGTTTGTCTCTT
* ** ** *
939572 AAATAA-AGCAAGCATTCATTCTCATAACAGTC
127 AAATAAGA-CAAACATGAATAGTCAT-ACA--A
* * * *
939604 TCCATTCTTTTCAAGATTGGAAACCAAAAACATATTCCCTTCATTAGAATACATGACATTGACGC
1 TCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGC
* * * *
939669 TTTGGTGTCGCAACAAAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCT-TTCAA
66 TTT-GTGTCGAAAAAAAAGGTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTT-AA
* *
939733 ATAAGACAAACAT-AATACTCAGACCAA
129 ATAAGACAAACATGAATAGTCATA-CAA
939760 TCCCCATTCTTTTCA
1 T--CCATTCTTTTCA
939775 GAATTAGGCA
Statistics
Matches: 608, Mismatches: 157, Indels: 72
0.73 0.19 0.09
Matches are distributed among these distances:
153 1 0.00
154 58 0.10
155 4 0.01
156 213 0.35
157 6 0.01
158 126 0.21
159 185 0.30
160 7 0.01
161 6 0.01
162 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (155 bp):
TCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGC
TTTGTGTCGAAAAAAAAGGTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAAT
AAGACAAACATGAATAGTCATACAA
Found at i:940032 original size:475 final size:476
Alignment explanation
Indices: 939128--941046 Score: 2366
Period size: 475 Copynumber: 4.0 Consensus size: 476
939118 AGCCATACTA
* * * * **
939128 TCCATTCTTTTCAAGATTGGGAACTAAAAACACATTCCCTTGATTAGGATGCATGTTATTGATGC
1 TCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGAATACATGACATTGATGC
* * * * *
939193 TTTGGTGTCGAAAAAAAAGTTTTTCTTTCTATCGATT-TTGATAGAATCAAAGTTTGTCTCTTAA
66 TTTGGTGTCGCAAGAAAAGCTTTTCTTTCCACCG-TTATTGATAGAATCAAAGTTTGTCTCTTAA
* * * *
939257 ATAAGACAAACATAAATAGTCATACCAATCCCCATTCTTCTCAGGATTAGGCACCATAAACATAG
130 ATAAGACAAACATAAATACTCAGACCAATCCCCATTCTTTTCAGAATTAGGCACCATAAACATAG
* * * * **
939322 TCTTCTCAGAAGTACACATAATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
195 TCTTCTCATAAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACCAAT
* * * *
939387 TTTTGTAAAGTCTTAGTTTGTGCCTCAAATGAGACAAACATAGATTCTAGTAATGATCTTCATTA
260 TTTTGAAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATAGATTCTAGTAAGGATCTTCATTC
* * * * *
939452 ATTTTGGGATTGGGCACTATAAACACATTCTCCTAATTAGGATAAATGTTACTGATGGTTTTCTT
325 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGGTTTTCTT
* * * * *
939517 TTGCATGAAAATCTTTCCTTTGCCCTATTTTTCTTAAAATCAAAGTTTACCCCTAAAATAAAGCA
390 TTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGCCCCTTAAATAAGGCA
*
939582 AGCATTCATTCTCATAACAGTC
455 AGCATTGATTCTCATAACAGTC
* * *
939604 TCCATTCTTTTCAAGATTGGAAACCAAAAACATATTCCCTTCATTAGAATACATGACATTGACGC
1 TCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGAATACATGACATTGATGC
*
939669 TTTGGTGTCGCAACAAAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCT-TTCAA
66 TTTGGTGTCGCAAGAAAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTT-AA
*
939733 ATAAGACAAACAT-AATACTCAGACCAATCCCCATTCTTTTCAGAATTAGGCACCATAAACGTAG
130 ATAAGACAAACATAAATACTCAGACCAATCCCCATTCTTTTCAGAATTAGGCACCATAAACATAG
* * * * * *
939797 TTTTCTCATAGGGATACATGATATTGAAGCTTTGGTTTCACAAGAAACGCTTTTTTCCCACTAAT
195 TCTTCTCATAAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACCAAT
* * * *
939862 TTTTGAAAAGTCTAAGTTCGTGCCTCAAATGTGACAAACATGGATTCTAGTAAGGATCTTCAATC
260 TTTTGAAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATAGATTCTAGTAAGGATCTTCATTC
**
939927 ATTTTGTGATTAGGCACTATAAATGCATTCTCCTCATTAGGATAAATGATATTGATGGTTTTCTT
325 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGGTTTTCTT
* * * * *
939992 TTGCATGGAAATCCTTTT-TTTGCCCTGTTTTCCATAAAATCAAAGTTTGCCCCTTAGATAAGGT
390 TTGCATGAAAAT-CTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGCCCCTTAAATAAGGC
*
940056 AAGCATTGATTCTCATAACAGTT
454 AAGCATTGATTCTCATAACAGTC
* * * ** * *
940079 TCCATCCTTTCCAAGTTTGGGAACCAAAAACACATTCCCTTCACGAGGATACATGACATCGATGC
1 TCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGAATACATGACATTGATGC
* ** * * *
940144 TTTGGTGTTGCTGGAAAAGCTTTTTTTTTCCACCGTTATTGATAGAATGAAAGTTTGTCTCTTAC
66 TTTGGTGTCGCAAGAAAAGC-TTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAA
* * * * * * * * *
940209 ATAAAACAAATATGAATACTCATACTAATCCCCATTCTTTTCAGGATGAGGCGCCATAAACACAG
130 ATAAGACAAACATAAATACTCAGACCAATCCCCATTCTTTTCAGAATTAGGCACCATAAACATAG
* * * * * ** * * *
940274 CCTTCTTATAAGGATAAATGGTTTTGATGCTTTGGTTTGGCAAGAAATGCTTTCTTCCCGCTAAT
195 TCTTCTCATAAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACCAAT
* * * * * * *
940339 TTTTCAAAAGTCTGAGTTGGTTCCTCAAATAAGACAAACATAGATTCTAGTAAGGAGCTACATTC
260 TTTTGAAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATAGATTCTAGTAAGGATCTTCATTC
* *
940404 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCGTTAGGAAAAATGATATTGATGGTTTTCTT
325 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGGTTTTCTT
* ** * * *
940469 TTGCGTGAAAATCTTTTCTTCACCCTATTTTCCTTAAAATGAAAGTTTGTCGCTTAAATAAGGCA
390 TTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGCCCCTTAAATAAGGCA
*
940534 AGCATTGATTCTCATAACAGTA
455 AGCATTGATTCTCATAACAGTC
* * * * *
940556 TCTATTCTTTTTAAGAATGGGAACCAAAAACACATTCCGTTCATTA-AGATACATGA-GTTGATG
1 TCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGA-ATACATGACATTGATG
* * ** * *
940619 CTTTGGTGTCGCATGAGAAGCTTTTCAATCCACCGTTATCGATAGAATCAAAGTTTGTCTTTTAA
65 CTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAA
* * * * * *
940684 ATAAGACAAACA-AGAATACTCTGACTAATCCCCATTCTTGTCA-AGATTAAGCAGCACAAACAT
130 ATAAGACAAACATA-AATACTCAGACCAATCCCCATTCTTTTCAGA-ATTAGGCACCATAAACAT
* **
940747 AGTCTTCTCATAA-GAGTACATGATATTGATGCTTTGTTTTCATGAGAAAGGCTTTCTTCCCACC
193 AGTCTTCTCATAAGGA-TACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACC
* * * * *
940811 AATTTTTGTAAAGTCTAAGTTTGTGACTCAAATGAGACAAACATGGATTATTGTAAGGATCTTCA
257 AATTTTTGAAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATAGATTCTAGTAAGGATCTTCA
* * * * * * *
940876 TTCATTTTGTGATTAGGCACTATAACCATATTCTTCTTATCAGGATAATTGATATT-AAGGTTTT
322 TTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGGTTTT
* * * * * * *
940940 CTTTCGAATGAAAATCTTTTCTTTTCCCAATTTTGCTTAAATTCAAAGTTTGTCCCTTAAATAAG
387 CTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGCCCCTTAAATAAG
*
941005 GCAAGCATTGATTCTCGTAACAGTC
452 GCAAGCATTGATTCTCATAACAGTC
941030 TCCATT-TTTTCAAGATT
1 TCCATTCTTTTCAAGATT
941047 AGTGTCGCAA
Statistics
Matches: 1224, Mismatches: 208, Indels: 25
0.84 0.14 0.02
Matches are distributed among these distances:
473 9 0.01
474 92 0.08
475 593 0.48
476 202 0.17
477 328 0.27
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (476 bp):
TCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGAATACATGACATTGATGC
TTTGGTGTCGCAAGAAAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAAA
TAAGACAAACATAAATACTCAGACCAATCCCCATTCTTTTCAGAATTAGGCACCATAAACATAGT
CTTCTCATAAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACCAATT
TTTGAAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATAGATTCTAGTAAGGATCTTCATTCA
TTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGGTTTTCTTT
TGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGCCCCTTAAATAAGGCAA
GCATTGATTCTCATAACAGTC
Found at i:944261 original size:20 final size:20
Alignment explanation
Indices: 944187--944259 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
944177 AAATTCCCAG
944187 ATGTATCGATACAAAGATCA
1 ATGTATCGATACAAAGATCA
*
944207 ATGTATCGATATAAAGATCA
1 ATGTATCGATACAAAGATCA
**
944227 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACAAAG-ATCA
944247 ATGTATCGATACA
1 ATGTATCGATACA
944260 TTTCCTTGGC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 46 0.96
21 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAAAGATCA
Found at i:944320 original size:32 final size:32
Alignment explanation
Indices: 944284--944419 Score: 236
Period size: 32 Copynumber: 4.2 Consensus size: 32
944274 GCTTTGTAGT
* *
944284 GATACATTGTATCGATACAACACTTATGTAGC
1 GATACATTGCATCGATACAACACTTATGTATC
*
944316 GATACATGGCATCGATACAACACTTATGTATC
1 GATACATTGCATCGATACAACACTTATGTATC
944348 GATACATTGCATCGATACAACACTTATGTATC
1 GATACATTGCATCGATACAACACTTATGTATC
*
944380 GATACATTACATCGATACAACACTTATGTATC
1 GATACATTGCATCGATACAACACTTATGTATC
944412 GATACATT
1 GATACATT
944420 TACTGTTTGT
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 99 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (32 bp):
GATACATTGCATCGATACAACACTTATGTATC
Found at i:944350 original size:19 final size:19
Alignment explanation
Indices: 944291--944417 Score: 83
Period size: 19 Copynumber: 7.6 Consensus size: 19
944281 AGTGATACAT
944291 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
944310 TGTAGCGAT---ACA--T-
1 TGTATCGATACAACACTTA
* *
944323 GGCATCGATACAACACTTA
1 TGTATCGATACAACACTTA
944342 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
944355 TGCATCGATACAACACTTA
1 TGTATCGATACAACACTTA
944374 TGTATCGAT---ACA-TTA
1 TGTATCGATACAACACTTA
*
944389 --CATCGATACAACACTTA
1 TGTATCGATACAACACTTA
944406 TGTATCGATACA
1 TGTATCGATACA
944418 TTTACTGTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 36
0.63 0.08 0.29
Matches are distributed among these distances:
13 20 0.25
14 2 0.03
15 3 0.04
16 18 0.22
17 3 0.04
18 2 0.03
19 32 0.40
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.30
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:946091 original size:476 final size:475
Alignment explanation
Indices: 944733--950035 Score: 5773
Period size: 476 Copynumber: 11.1 Consensus size: 475
944723 GGTGTCTACA
***
944733 ATTGGGAACCAAGTTCACATTCCCTTCATTAGGATACATGACATTGATGCTTT-GTGTCGCAAGA
1 ATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGA
* * * *
944797 AAAGGTTTTCTCTCCACC-TTATTTGATAGAATCAAAGTTTGTCTCTTAAAAAAGACAAACATAA
66 AAAGCTTTTCTTTCCACCGTTA-TTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGA
* * * * * *
944861 ATAGTCATACTAATCCCCATTCTTCTCA-AGATTTGGCACCATAAACATAGACTTCCCATTAGGA
130 ATACTCATACTAATCCCCATTCTTTTCAGA-ATTAGGCACCATAAACATAGTCTTCTCATAAGGA
** * *
944925 TACATAATACTGATGCTTTGTTTTCGTAAGAAAGGCTTTCTTCCCACTAATTTTTGTAAAGTCTA
194 TACACGATACTGATGCTTTGTTTTCGCAAGAAAGGCTTTCTTCCCACTAATTTTTGAAAAGTCTA
* * * * * *
944990 AGTTTGTGGCTCAAATGAGATAAACATGGATTCTTGTAAAGATCTTTATTCATTTTCTGATTAGG
259 AGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGG
* * *
945055 CACTATAAATACATTCTCCTCATTAAGATAAATGATGTTGATGGTTTTCTTTTGCATGGAAATCC
324 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTG-TGGTTTTCTTTTGCATGGAAAT-C
* * * * *
945120 TTTTTTTTTGCCCAATTTTCCTTCAAATCAAAGTTT-ATCCCTTAAATATGGCAAGCATTGGTTC
387 -TTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGA-CCCTTAAATAAGGCAAGCATTGATTC
* ** *
945184 TCGTAACT-GTCTATATTCTTTTAAAG
450 TCATAA-TAGTCTCCATTCTTTTCAAG
* * * * *** *
945210 ATTGGGAACCAAAAACATAGTCCCTTCATTAGGATGCATGACATTGACGCTTTGGTGTTTTAGGA
1 ATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGA
* * *
945275 AAAGCTTTTCTTTCCACCGTTATTGATAAAATCAAAGTTTCTCTCTTAAACAAGACAAACATGAA
66 AAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAA
** * ** * * * * * *
945340 TACTTGTACTAAT-CCTATTCTTTTTGGGATTCGACACCATAAACATACTATTCTCATAAAGATA
131 TACTCATACTAATCCCCATTCTTTTCAGAATTAGGCACCATAAACATAGTCTTCTCATAAGGATA
* * * ** * *
945404 CACGATACTGAAGCTTCAG-TTTCGCAAAAAAGGCTTTCTTCTGACCAATTTTTGAAAAGTTTAA
196 CACGATACTGATGCTT-TGTTTTCGCAAGAAAGGCTTTCTTCCCACTAATTTTTGAAAAGTCTAA
* * *
945468 GTTCT-TGCCTCAAATGAGACAAACATGGAATCTAGTAAGGATTTTCACTCATTTTGTGATTAGG
260 GTT-TGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGG
* * * * * * *
945532 CGCAATAAACATAATCTCCTCATTAGGATAAATAATATTAATGGTTTTCTTTTGTATGGAAATCT
324 CACTATAAACACATTCTCCTCATTAGGATAAATGATATT-GTGGTTTTCTTTTGCATGGAAATCT
*
945597 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGACCCTTAAATAAAGCAAGCATTGATTCTCA
388 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGACCCTTAAATAAGGCAAGCATTGATTCTCA
* *
945662 TAATAGTGTCCATTCTTTGCAAG
453 TAATAGTCTCCATTCTTTTCAAG
** * *
945685 ATTGGGAACCAAAAACACATTCTGTTCTTTAGGATACATGACATTGATGCTTTGGTGTCACAAGA
1 ATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGA
* * * *
945750 AAAGGTTTTCTTTCCACCGCTATTGATAGAATCAAAGTTTATCTCTTAAATAAGATAAACATGAA
66 AAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAA
* * * * * * *
945815 TACTCAGACCAGTCCCAATTCTTTTCAGAATTAGGCACCATAAACGTAGTTTTCTCATACGGATA
131 TACTCATACTAATCCCCATTCTTTTCAGAATTAGGCACCATAAACATAGTCTTCTCATAAGGATA
* * * * * * *
945880 CACGATATTGATGCTTTGGTTTCACAAGAAACGTTTTCATCCCACTAATTTTTGAAAAGTCTGAG
196 CACGATACTGATGCTTTGTTTTCGCAAGAAAGGCTTTCTTCCCACTAATTTTTGAAAAGTCTAAG
* * * *
945945 TTCGTGCTTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCAATCATTTTGTGATCAGGCA
261 TTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGGCA
** *** * * * *
946010 AAATAAATGTATTCTCCTAATTAGGATAAATAATATTGTCGATTTTCTTTTGCGTGGAAATCTTT
326 CTATAAACACATTCTCCTCATTAGGATAAATGATATTGT-GGTTTTCTTTTGCATGGAAATCTTT
* *
946075 TCTTTGCCCTATTTTCCATAAAATCAAAGTTT-ACCCCTTAGATAAGGCAAGCATTGATTCTCAT
390 TCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGA-CCCTTAAATAAGGCAAGCATTGATTCTCAT
* * *
946139 AACCA-TTTCCATCCTTTTCAAG
454 AA-TAGTCTCCATTCTTTTCAAG
* ** * **
946161 TTTGGGAACCAAAAACACATTCCCTTCACGAGGATACATGACATTGATGCTTTGGTGTTGCTGGA
1 ATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGA
* *
946226 AAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTC-TAACATAAAACAAATATGA
66 AAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAA-ATAAGACAAACATGA
* * * *
946290 ATACTCATACTAATCCCCATTCTTTTTAGGATTAGGCACCATAAACACAGCCTTCTCATAAGGAT
130 ATACTCATACTAATCCCCATTCTTTTCAGAATTAGGCACCATAAACATAGTCTTCTCATAAGGAT
* * * ** * * * * * * * * *
946355 AAATGGTTTTGACGCTTTGGTTTGGCAAGAAATGCTTTCTTCTCGCTAATTTTTCAAATGTCTGA
195 ACACGATACTGATGCTTTGTTTTCGCAAGAAAGGCTTTCTTCCCACTAATTTTTGAAAAGTCTAA
* * * * * * *
946420 GTTTGTTCCCCAAATAAGACAAACATGGATTCTAGTAAGGACCTACATTCATCTTGTGATTACGC
260 GTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGGC
* * * * * *
946485 ACGATAAACACATTCTCCTCGTCAGGAAAAATGATATTGATGGTTTTCTTTTGCGTGAAAATCTT
325 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTG-TGGTTTTCTTTTGCATGGAAATCTT
** * * * *
946550 TTCTTCACCCTATTTTCCATAAAATGAAAGTTTGTCGCC-TAAATAAGGCAAGCATTGATTCTTA
389 TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGAC-CCTTAAATAAGGCAAGCATTGATTCTCA
* * *
946614 TAACAGTGTCCATTCTTTTTAAG
453 TAATAGTCTCCATTCTTTTCAAG
* * ** * * *
946637 ATTGGGAACCAAAAACACATTCCGTTCATTAAGATATGTGA-GTTGATGCTTTGGTGTCACATGA
1 ATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGA
* ** *
946701 GAAGCTTTTCGCTCCACCGTTATTGATAGAATCAAAGTTTGCCTCTTAAATAAGACAAACATGAA
66 AAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAA
* * * *
946766 TACT-TTGACTAATCCCCATTCTTGTCA-AGATTAGGCACCACAAACATAGTCTTCTCATAAGGG
131 TACTCAT-ACTAATCCCCATTCTTTTCAGA-ATTAGGCACCATAAACATAGTCTTCTCATAAGGA
* ** * * *
946829 TACACGATATTGATGCTTTGTTTTCATAAGAAAAGCTTTCTTCCCACCAATTTTTGTAAAGTCTA
194 TACACGATACTGATGCTTTGTTTTCGCAAGAAAGGCTTTCTTCCCACTAATTTTTGAAAAGTCTA
* * *
946894 AGTTTTTGACTCAAATGAGACAAACATGGATTCTTGTAAGGATCTTCATTCATTTTGTGATTAGG
259 AGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGG
* * * * * * ** *
946959 CACTATAACCATATTCTTCTTATCT-GGATAATTGATATTGAAGGTTTTCTTTCACATGAAAATC
324 CACTATAAACACATTCTCCTCAT-TAGGATAAATGATATTG-TGGTTTTCTTTTGCATGGAAATC
* * * * * * *
947023 TTTTCTTTTCCCAATTTTGCGTAAATTCAAAGTTTGTCCCTTAAAAAAGGCAAGCATTGATTCTC
387 TTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGACCCTTAAATAAGGCAAGCATTGATTCTC
* *
947088 GTAACAGTCTCCATT-TTTTCAAG
452 ATAATAGTCTCCATTCTTTTCAAG
***
947111 ATTGGGAACCAAGTTCACATTCCCTTCATTAGGATACATGACATTGATGCTTT-GTGTCGCAAGA
1 ATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGA
* * * * *
947175 AAAGGTTTCCTCTCCACC-TTATTTGATAGAATCAAAGTTTGTCTCTTAAATAATACAAACATAA
66 AAAGCTTTTCTTTCCACCGTTA-TTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGA
* * * * * *
947239 ATAGTCATACTAATCCCCATTCTTCTCA-AGATTTGGCACCATAAACATAGACTTCCCATTAGGA
130 ATACTCATACTAATCCCCATTCTTTTCAGA-ATTAGGCACCATAAACATAGTCTTCTCATAAGGA
** *
947303 TACATAATACTGATGCTTTGTTTTCGCAAGAAAGGCTTTCTTCCCACTAATTTTTGTAAAGTCTA
194 TACACGATACTGATGCTTTGTTTTCGCAAGAAAGGCTTTCTTCCCACTAATTTTTGAAAAGTCTA
* * * * * * *
947368 AGTTTGTGGCTTAAATGAGATAAACATGGATTCTTGTAAAGATCTTTATTCATTTTCTGATTAGG
259 AGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGG
* * * *
947433 CACTATAAATACATTCTCCTCATTAAGATAAATGATGTTGATGGTTTTCTTATGCATGGAAATCC
324 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTG-TGGTTTTCTTTTGCATGGAAAT-C
* * * * *
947498 TTTTTTTTTTGCCCAATTTTCCTTAAAATCAAAGTTT-ATCCCTTAAATATGGCGAGCATTGGTT
387 --TTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGA-CCCTTAAATAAGGCAAGCATTGATT
* ** * *
947562 CTCGTAACT-GTCTATATTATTTTAAAG
449 CTCATAA-TAGTCTCCATTCTTTTCAAG
* * * *** *
947589 ATTGGGAACCAAAAACATATTCCCTTCATTAGGATGCATGACATTGACGCTTTGGTGTTTTAGGA
1 ATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGA
* * * * *
947654 AAAGCATTTCTTTCCACCATTATTAATAAAATCAAAGTTTGTCTCTTAAACAAGACAAACATGAA
66 AAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAA
* * * * * * *
947719 TACTCATACTAAT-CCTATTCCTTTT-AGGATTCGACACCATAAACATACTATTCTCATAAAGAT
131 TACTCATACTAATCCCCATT-CTTTTCAGAATTAGGCACCATAAACATAGTCTTCTCATAAGGAT
* * * ** *
947782 ACACGATACTGAAGCTTCAG-TTTCGCAAAAAAGGCTTTCTTCTGA-TCAATTTTTGAAAAGTTT
195 ACACGATACTGATGCTT-TGTTTTCGCAAGAAAGGCTTTCTTCCCACT-AATTTTTGAAAAGTCT
* * * *
947845 AAGTTCT-TGCCTCAAATGAGGCAAACATGGAATCTAGTAAGGATTTTCACTCATTTTGTGATTA
258 AAGTT-TGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTCATTTTGTGATTA
* * * * * *
947909 GGCACAATAAACATAATCTCCTCATTAGGATAAATAATATTAATGGTTTTCTTTTGTATGGAAAT
322 GGCACTATAAACACATTCTCCTCATTAGGATAAATGATATT-GTGGTTTTCTTTTGCATGGAAAT
947974 CTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGACCCTTAAATAAGGCAAGCATTGATTCT
386 CTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGACCCTTAAATAAGGCAAGCATTGATTCT
* *
948039 CATAATAGTGTCCATTATTTTCAAG
451 CATAATAGTCTCCATTCTTTTCAAG
* * ** ** * * *
948064 TTTGGAAACTGAAAACACATAT-TGTTCTTTAAGATGCATGACATTGATGCTTTGGTGTCGCAAG
1 ATTGGGAACCAAAAACACAT-TCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAG
* * * *
948128 AAAAGGTTTTCTTTCCACCGCTATTGATAGAATCAAAGTTTGTCTC-TAACATAAAACAAATATG
65 AAAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAA-ATAAGACAAACATG
* * *
948192 AATACTCATACTAATCCCCATTCTTTTTAGGATTAGGCACCATAAACATAGCCTTCTCATAAGGA
129 AATACTCATACTAATCCCCATTCTTTTCAGAATTAGGCACCATAAACATAGTCTTCTCATAAGGA
* * * ** * * * * * *
948257 TAAATGGTTTTGATGCTTTGGTTTGGCAAGAAATGCTTTCTTCTCGCTAATTTTTCAAAAGTCTA
194 TACACGATACTGATGCTTTGTTTTCGCAAGAAAGGCTTTCTTCCCACTAATTTTTGAAAAGTCTA
* * * * *
948322 AGTTTGTTCCTCAAATAAGACAAACATGGATTCTAGTAAGGACCTACATTCATCTTGTGATTAGG
259 AGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGG
* * *
948387 CACTATAAACACATTCTCCTCATTAGGAAAAATGATATTGATGGTTTTCTTTTGCGTGAAAATCT
324 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTG-TGGTTTTCTTTTGCATGGAAATCT
** * * * *
948452 TTTCTTCACCCTATTTTCCATAAAATGAAAGTTTGTCGCTTAAATAAGGCAAGCATTGATTCTCA
388 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGACCCTTAAATAAGGCAAGCATTGATTCTCA
* * *
948517 TAACAGTGTCCATTCTTTTCTAG
453 TAATAGTCTCCATTCTTTTCAAG
* * * * *
948540 ATTGGGAACCAAAAACACATTCCGTTCATTAAGATA-AGTGA-GTTGATGCTTTGGTATCAG-AT
1 ATTGGGAACCAAAAACACATTCCCTTCATTAGGATACA-TGACATTGATGCTTTGGTGTC-GCAA
** *
948602 GAAAAGCTTTTCGCTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTGAATAAGACAAACATG
64 GAAAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
* * * *
948667 AATACT-TTGACTAATCCCCATTCTTGTCA-AGATTAGGCACCACAAACATAGTATTCTCATAAG
129 AATACTCAT-ACTAATCCCCATTCTTTTCAGA-ATTAGGCACCATAAACATAGTCTTCTCATAAG
* * * ** * *
948730 GGTACACGATATTGATGCTTTATTTTCATAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTC
192 GATACACGATACTGATGCTTTGTTTTCGCAAGAAAGGCTTTCTTCCCACTAATTTTTGAAAAGTC
* *
948795 TAAGTTTGTGACTCAAATGAGACAAACATGGATTCTTGTAAGGATCTTCATTCATTTTGTGATTA
257 TAAGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTCATTTTGTGATTA
* * * * * * * *
948860 GGCACTATAACCATATTCTTCTTATCT-GGATAATTGATATTGCAGGTTTTCTTTCGCATGAAAA
322 GGCACTATAAACACATTCTCCTCAT-TAGGATAAATGATATTG-TGGTTTTCTTTTGCATGGAAA
* * * * * * *
948924 TCTTTTCTTTTCCCAATTTTGCTTAAATTCAAAGTTTGTCCCCTAAAAAAGGCAAGCATTGATTC
385 TCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGACCCTTAAATAAGGCAAGCATTGATTC
* *
948989 TCGTAACAGTCTCCATT-TTTTCAAG
450 TCATAATAGTCTCCATTCTTTTCAAG
***
949014 ATTGGGAACCAAGTTCACATTCCCTTCATTAGGATACATGACATTGATGCTTT-GTGTCGCAAGA
1 ATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGA
* * *
949078 AAAGGTTTTCTCTCCACC-TTATTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATAA
66 AAAGCTTTTCTTTCCACCGTTA-TTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGA
* * * * * *
949142 ATAGTCATACTAATCCCCATTCTTCTCA-AGATTTGGCACCATAAACATAGACTTCCCATTAGGA
130 ATACTCATACTAATCCCCATTCTTTTCAGA-ATTAGGCACCATAAACATAGTCTTCTCATAAGGA
** * * * * *
949206 TACATAATACTGATGCTTTGTTTTCGTAAAAAAGACTTTCTTCCCACCAATTTTTGTAAAGTCTA
194 TACACGATACTGATGCTTTGTTTTCGCAAGAAAGGCTTTCTTCCCACTAATTTTTGAAAAGTCTA
* * * * * *
949271 AGTTCGTGGCTCAAATGAGACAAACATGGATTCTTGTAAAGATCTTTATTCATTTTCTGATTAGG
259 AGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGG
* * * * * **
949336 TACTATAAATACATTCTCCTTATTATGATAAATGATAATGATGGTTTTCTTTTGTGTGGAAATCC
324 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTG-TGGTTTTCTTTTGCATGGAAAT-C
* * *
949401 TTTTTTTTGGCCCAATTTTCCTTAAAATCAAAGTTTG-CCTCTTAAATATGGCAAGCATTGATTC
387 TTTTCTTT-GCCCTATTTTCCTTAAAATCAAAGTTTGACC-CTTAAATAAGGCAAGCATTGATTC
* * *
949465 TCGTAACT-GCCTCCATTATTTTCAAG
450 TCATAA-TAGTCTCCATTCTTTTCAAG
* * * * ** *
949491 ATTGGGAACCAAAAACATATTCCCTTCATTAGGATGCATGACATTGACGGTTTGGTGTTTCAGGA
1 ATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGA
* *
949556 AAAGCTTTTCTTTCCACCGTTATTGATAAAATCAAAGTTTGTCTCTTAAACAAGACAAACATGAA
66 AAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAA
* * * * * *
949621 TACTCGTACTAAT-CCCATTCTTTTCAGGATTCGGCACCATAAACATACTATTCTCATAAAGATA
131 TACTCATACTAATCCCCATTCTTTTCAGAATTAGGCACCATAAACATAGTCTTCTCATAAGGATA
* * * * * ** * * *
949685 CACGATACTAACGCTTTAATTTT-GCAAAAAAATGCTTTCTTCTGACCAATTTTTGAAAAATTTA
196 CACGATACTGATGCTTT-GTTTTCGC-AAGAAAGGCTTTCTTCCCACTAATTTTTGAAAAGTCTA
* * *
949749 AGTTCT-TGCCTCAAATGAGACAAACATGAAATCTAGTAAGGATTTTCATTCATTTTGTGATTAG
259 AGTT-TGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTCATTTTGTGATTAG
* * * *
949813 GCATTATAAACACATTCTCCTCATTAGGATAAATGATATTAATGGTTTTCTTTTGTATGCAAATC
323 GCACTATAAACACATTCTCCTCATTAGGATAAATGATATT-GTGGTTTTCTTTTGCATGGAAATC
* **
949878 TTTTCTTTGCCTTATTTTAATTAAAATCAAAGTTTGACCCTTAAATAAGGCAAGCATTGATTCTC
387 TTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGACCCTTAAATAAGGCAAGCATTGATTCTC
* *
949943 ATAATAGTGTCCATTATTTTCAAG
452 ATAATAGTCTCCATTCTTTTCAAG
* ** ** * * * *
949967 TTTGGGAACTGAAAACACATAT-TGTTCTTTAAGATGCATGACATTGATGCTTTGGTGTCACAAG
1 ATTGGGAACCAAAAACACAT-TCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAG
950031 AAAAG
65 AAAAG
950036 TCTGTCTCTT
Statistics
Matches: 4036, Mismatches: 710, Indels: 161
0.82 0.14 0.03
Matches are distributed among these distances:
473 9 0.00
474 650 0.16
475 1132 0.28
476 1194 0.30
477 431 0.11
478 534 0.13
479 83 0.02
480 3 0.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (475 bp):
ATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGA
AAAGCTTTTCTTTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAA
TACTCATACTAATCCCCATTCTTTTCAGAATTAGGCACCATAAACATAGTCTTCTCATAAGGATA
CACGATACTGATGCTTTGTTTTCGCAAGAAAGGCTTTCTTCCCACTAATTTTTGAAAAGTCTAAG
TTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGGCA
CTATAAACACATTCTCCTCATTAGGATAAATGATATTGTGGTTTTCTTTTGCATGGAAATCTTTT
CTTTGCCCTATTTTCCTTAAAATCAAAGTTTGACCCTTAAATAAGGCAAGCATTGATTCTCATAA
TAGTCTCCATTCTTTTCAAG
Found at i:951034 original size:475 final size:475
Alignment explanation
Indices: 950032--953668 Score: 4241
Period size: 475 Copynumber: 7.7 Consensus size: 475
950022 TGTCACAAGA
* * * *
950032 AAAGTCTGTCTCTTAAATAAGACAAACATGAATACTCAT-A-TCAGTTCCCATTCTTTTCAGAAT
1 AAAGTTTGTCTCTTAAATAAGACAAACATGAATACT-ATGACT-AATCCCCATTCTTTTCAGGAT
* * * * *
950095 TAGGCAGCATAAACGTAGT-TTCCTCATAGGGATACATGATATTGATGCTTTGGTTTCACAAGAA
64 TAGGCACCATAAACATAGTCTT-CTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAA
* * * * *
950159 ACGTTTTCTTCCCACTAATTTTTGAAAAGTCTGAGTTCGTGCCTCAAATGAGACAAACGTGGATT
128 AAGCTTTCTTCCCACCAATTTTTGAAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATT
* * * **
950224 CTAGTAAGGATCTTCAATCATTTTGTGATTAGGCAATATAGATGCATTCTCCTCATTAGGATAAA
193 CTAGTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAA
* * * *
950289 TAATATTGATGGTTTTCTTTTGCA-CAGAAATCCTTTCTTTGCCCTATTTTCCATAAAATCAAAG
258 TGATATTGATGGTTTTCTTTTGCATGA-AAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAG
** * * * * * *
950353 TTTACCCCATAGATAAGGCAAACATTGATTCTCATAACAGTTTCCATCCTTTTCAAGTTTGGGAA
322 TTTGTCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAA
** * **
950418 CCAAAAACACATTCCCTTCACGAGGATACATGACATTGATGCTTTGGTGTTGCTCGAAAAGCTTT
387 CCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCG-AAGAAAAGCTTT
* *
950483 TTTTTCCACCATTATTGATAGAATC
451 TCTTTCCACCGTTATTGATAGAATC
* * * * * *
950508 AAAGTTTGTCTCCTACATAAAACAAATATAAATACTCAT-ACTAAT-CCCATTCTTTTTAGGATT
1 AAAGTTTGTCTCTTAAATAAGACAAACATGAATACT-ATGACTAATCCCCATTCTTTTCAGGATT
* * * * * * * *
950571 AGGCACCATAAACACAGCCTTCTCATAAGGATACACGGTTTTGATGCTTTGGTTTGGCAGGAGAT
65 AGGCACCATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAA
* * * * * * * * * *
950636 GCTTTCTTCTCGCTAATTTTTCAAAAGTCTGAGTTCATTCCTCAAATAACACAAACATGCATTCT
130 GCTTTCTTCCCACCAATTTTTGAAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCT
* * * *
950701 AGTAAGGATCTACATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCGTTATGAAAAATG
195 AGTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATG
* * ** * *
950766 ATATTGATGGTTTTCTTTTACGTGAAAATCTTTTCTTCACCCTATTTTCCTTGAAATGAAAGTTT
260 ATATTGATGGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTT
* * ** *
950831 GTCGCTTAAATAAGGCAAGCATTGATTCTCATAACAGTGTCCATTCTTTTTTAGGTTGGGAACCA
325 GTCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAACCA
* * ** * * *
950896 AAAACACATTCCGTTCATTAAGATATGTGA-GTTGATGCTTTGGTGTCAGATGAAAAGCTTTTCG
390 AAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTC-GAAGAAAAGCTTTTCT
*
950960 CTCCACCGTTATTGATAGAATC
454 TTCCACCGTTATTGATAGAATC
* * *
950982 AAAGTTTGTCTCTTAAATAAGACAAACATGAATACTTTGACTAATCCCCATTCTTGTCAAGATTA
1 AAAGTTTGTCTCTTAAATAAGACAAACATGAATACTATGACTAATCCCCATTCTTTTCAGGATTA
* * * * * *
951047 GGCACCACAAACATAGTCTTCTCATAAAGG-TACATGATATTGATTCTTTGTTTTCGTAACAAAA
66 GGCACCATAAACATAGTCTTCTCAT-AAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAA
* * *
951111 GCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGACTCAAATGAGGCAAACATGGATTCT
130 GCTTTCTTCCCACCAATTTTTGAAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCT
* * * * * * * *
951176 TGTAAGGATCTTCATCCATTTTGTGATTAGGCACTATAACCATATTCTTCTTATCAGGATAATTG
195 AGTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATG
** * * * * * *
951241 ATATTGAAAGTTTTCTTTCGCATGAAAATCATTTCTTTTCCCAATTTTGCTTAAATTCAAAGTTT
260 ATATTGATGGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTT
* * *
951306 GTCCCCTAAAAAAGGCAAGCATTGATTCTCGTAACAGTCTCCATT-TTTTCAAGATTGGGAACCA
325 GTCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAACCA
*** *
951370 AGTTCACATTCCCTTCATTAGGATACATGACATTGATGCTTT-GTGTCGCAAGAAAAGGTTTTCT
390 AAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCG-AAGAAAAGCTTTTCT
* * * *
951434 TTTCACCTTTTTTCATAGAATC
454 TTCCACCGTTATTGATAGAATC
* * * * *
951456 AAAGTTTGTCTCTTAAATAACACAAACATGAATAGTCAT-ACGAATCCCCATTCTTCTCAAGATT
1 AAAGTTTGTCTCTTAAATAAGACAAACATGAATACT-ATGACTAATCCCCATTCTTTTCAGGATT
* * * * ** * * *
951520 TGGCACCATAAACATAGACTTCCCATTAGGATACATAATACTGATGCTTTGTTTTCGTAAGAAAA
65 AGGCACCATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAA
* *
951585 GTTTTCTTCCCACCAATTTTTGAAAAGTCTAAGTTCGTGGCTCAAATGAGACAAACATGGATTCT
130 GCTTTCTTCCCACCAATTTTTGAAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCT
* * * * * *
951650 TGTACA-GATCTTCATTCGTTTTCTGATTAGGCACTATATATACATTCTCCTTATTAGGATAAAT
195 AGTA-AGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAT
*
951714 GATATTGATGGTTTTCTTTTGCATGAAAATCCTTTT-TTTGGCCCAATTTTCCTTAAAATCAAAG
259 GATATTGATGGTTTTCTTTTGCATGAAAAT-CTTTTCTTT-GCCCTATTTTCCTTAAAATCAAAG
* * *
951778 TTTGTCCCTTAAATATGGCAAGCATTGATTCTTATAACTGTCTCCATTCTTTTCAAGATTGGGAA
322 TTTGTCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAA
* * * * * *
951843 CCAAAAACATATTCCATTCATTAGGATGCGTGACATTGACGCTTTGGTGTTTC-AGGAAAAGCTT
387 CCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTG--TCGAAGAAAAGCTT
* * *
951907 TTCTTTTCATCGTTATTGATAAAATC
450 TTCTTTCCACCGTTATTGATAGAATC
* * * *
951933 AAAGTTTGTCTCTTAAACAAGACAAACATGAATACT-CGTACTAAT-CCTATTCTTTTCAAGATT
1 AAAGTTTGTCTCTTAAATAAGACAAACATGAATACTATG-ACTAATCCCCATTCTTTTCAGGATT
* * * * * *
951996 CGGCACCATAAACATACTATTCTCATAAAGATACACGATATTGATGCTTTAGTTTCGTAA-AAAA
65 AGGCACCATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAA
** * ** *
952060 CGCTTTCTTCTGACCAATTTTTGAAAAGTTTAAGTTATTGCCTCAAATGAGACAAACATGGAATC
130 -GCTTTCTTCCCACCAATTTTTGAAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTC
* *
952125 TAGTAAGGATTTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTTATTAGGATAAAT
194 TAGTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAT
* * * *
952190 GATATTAATGGTTTTCTTTTGTATGGAAAT-TTTTTTTTGCCCTATTTTCCTTAAAATCAAAGTT
259 GATATTGATGGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTT
* ** * * *
952254 TGACCCTTAAATAAGAAAAGCATTGATTCTCATAATAGTGTCCATTCTTTTCAAGATTAGGAACC
324 TGTCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAACC
** * *
952319 AAAAACACATTCTGTTCTTTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGGTTTTC
389 AAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCG-AAGAAAAGCTTTTC
*
952384 TTTCCACCGCTATTGATAGAATC
453 TTTCCACCGTTATTGATAGAATC
* * *
952407 AAAGTCTGTCTCTTAAATAAGACAAACATGAATACTCTGACTAATCCCCATTCTTTTCTGGATTA
1 AAAGTTTGTCTCTTAAATAAGACAAACATGAATACTATGACTAATCCCCATTCTTTTCAGGATTA
* * * * *
952472 GGTACTATAAACATAGTCTTCTAATAAGAATACACGATATTGATGCTTTTTGTTTCAG-AAGAAA
66 GGCACCATAAACATAGTCTTCTCATAAGGATACACGATATTGATGC-TTTGGTTTC-GCAAGAAA
*
952536 AGCTTTCTTCCCACCAATTTTTAAAAAGTTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATT
129 AGCTTTCTTCCCACCAATTTTTGAAAAG-TCTAAGTTCGTGCCTCAAATGAGACAAACATGGATT
* * * *
952601 CTAGAAAGGATCTTCATTCATTTTGTGATTAGGAACTATAATCACATTCTCGTCATTAGGATAAA
193 CTAGTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAA
* * * *
952666 TAATATT-ACTGGTTTTCTTTTGCATGAAAATCTTTTCTTTGTCCTATTTTTCATAAAATCAAAG
258 TGATATTGA-TGGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAG
* * *
952730 TTTGTCCCCTAAATAAGGCAAGCTTTGATTCTCATAACTA-TCTCCATTCTTTCCAAGATTGGGA
322 TTTGTCCCTTAAATAAGGCAAGCATTGATTCTCATAAC-AGTCTCCATTCTTTTCAAGATTGGGA
* * * * * * * *
952794 GCCAAAAACATATTCCCTTCATTAGGATGCATGACATTGACGCTTTGGTGTTGCAGGAAATGCTC
386 ACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCG-AAGAAAAGCTT
* *
952859 TTCTTTCCACCGTTGTTGATAAAATC
450 TTCTTTCCACCGTTATTGATAGAATC
* * *
952885 AATGTTTATCTCTTAAACAAGACAAACATGAATACT-TGTACTAATCCCCATTCTTTTCAGGATT
1 AAAGTTTGTCTCTTAAATAAGACAAACATGAATACTATG-ACTAATCCCCATTCTTTTCAGGATT
* * * * * *
952949 CGACACCATAAACATAGTATTCTCATAAGGAAACACGATATTGATGCTTTAGTTTCGCAAGAAAC
65 AGGCACCATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAA
** * * * *
953014 GCTTTCTTGTCACCAATTTTTGAAAAATCT-AGTTTTGTGCCTTAAATGAGACAAAAATGGATTC
130 GCTTTCTTCCCACCAATTTTTGAAAAGTCTAAG-TTCGTGCCTCAAATGAGACAAACATGGATTC
* * * ** *
953078 -ATGCATGGATCTTCAATCATTTTGTGATTAGGCACTATAAACATGTTCTCCTCTTTAGGATAAA
194 TA-GTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAA
* * * *
953142 TGATATTGATAGATTTCTTTTGCACGGAAATCTTTTCTTTGCCCT-TTTTCCTTAAAATCAAAGT
258 TGATATTGATGGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGT
* * *
953206 TTG-CCCTTCAAATAAGGGAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAT
323 TTGTCCCTT-AAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAA
* *
953270 CCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTTGCAGAAAAAGCTTT
387 CCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGAAG-AAAAGCTTT
* *
953335 TCTTTCCACCGTTATTGATAAAATA
451 TCTTTCCACCGTTATTGATAGAATC
* * *
953360 AAAGTTTGTCTCTCAAATAAGACAAACATAAATACTAAGACTAATCCCCATTCTTTTCAGGATTA
1 AAAGTTTGTCTCTTAAATAAGACAAACATGAATACTATGACTAATCCCCATTCTTTTCAGGATTA
* * * ** * *
953425 GTCACCATAAACATAGTCTTCTCATTATGATACATAATATTAATGCTTTGGTTTCGTAAGAAAAG
66 GGCACCATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAAG
* * * ** * * *
953490 CTTTCTTCTCACCAATTTTTGTAAAGTCTAAGTTTGCCCCTCAAATTAGACCAACATGAATTCTA
131 CTTTCTTCCCACCAATTTTTGAAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTA
* * * * * * * *
953555 GTTATGATCTTCAATAATTTTGTGATTAGGCATTATAGACACATTTTCCTGC-TTAGGATAAATA
196 GTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCT-CATTAGGATAAATG
* ** * * *
953619 ATATTGATGATTTTGGTTTGCACGAAAATCTTTTATTTGCCCTGTTTTCC
260 ATATTGATGGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCC
953669 CTAAGGTAAA
Statistics
Matches: 2679, Mismatches: 435, Indels: 94
0.84 0.14 0.03
Matches are distributed among these distances:
472 2 0.00
473 5 0.00
474 610 0.23
475 1105 0.41
476 468 0.17
477 234 0.09
478 252 0.09
479 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (475 bp):
AAAGTTTGTCTCTTAAATAAGACAAACATGAATACTATGACTAATCCCCATTCTTTTCAGGATTA
GGCACCATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAAG
CTTTCTTCCCACCAATTTTTGAAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTA
GTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGA
TATTGATGGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTG
TCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAACCAA
AAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGAAGAAAAGCTTTTCTTT
CCACCGTTATTGATAGAATC
Found at i:951723 original size:158 final size:157
Alignment explanation
Indices: 951029--953523 Score: 470
Period size: 158 Copynumber: 15.7 Consensus size: 157
951019 TGACTAATCC
* * * * * * *
951029 CCATTCTTGTCAAGATTAGGCACCACAA-ACATAGTCTTCTCATAAAGG-TACATGATATTGATT
1 CCATTCTTTTCAAGATTAGGCACCATAATACAT--TCTCCTTAT-TAGGATAAATGATATTGATG
* * * * *
951092 CTTTGTTTTCGTAACAAAAGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGACTCAAA
63 CTTTGTTTTCGCAAGAAAAGTTTTCTTCCCACCAATTTTTGAAAAGTCAAAGTTCGTGACTCAAA
* * *
951157 TGAGGCAAACATGGATTCTTGTA-AGGATCT
128 TAAGACAAACATGGATTCTCGTACA-GATCT
* * ** * * * * * * *
951187 TCATCCATTTT-GTGATTAGGCACTATAACCATATTCTTCTTATCAGGATAATTGATATTGAAAG
1 CCATTC-TTTTCAAGATTAGGCACCATAA-TACATTCTCCTTATTAGGATAAATGATATTG-ATG
* ** * * * *
951251 -TTT-TCTTTCGCATGAAAA-TCATTTCTTTTC-CCAA-TTTTGCTTAAATTCAAAGTTTGT-CC
63 CTTTGT-TTTCGCAAGAAAAGT--TTTCTTCCCACCAATTTTTG--AAAAGTCAAAGTTCGTGAC
* * * * *
951310 CCTAAAAAAGGCAAGCATTGATTCTCGTAACAG-TCT
123 TC-AAATAAGACAAACATGGATTCTCGT-ACAGATCT
* * * * *
951346 CCATT-TTTTCAAGATTGGGAACCA-AGTTCACATTC-CCTTCATTAGGATACATGACATTGATG
1 CCATTCTTTTCAAGATTAGGCACCATA-AT-ACATTCTCCTT-ATTAGGATAAATGATATTGATG
* ** * * * ** *
951408 CTTTG-TGTCGCAAGAAAAGGTTTTCTTTTCACC-TTTTTTCATAGAA-TCAAAGTTTGTCTCTT
63 CTTTGTTTTCGCAAGAAAA-GTTTTCTTCCCACCAATTTTTGA-A-AAGTCAAAGTTCGTGACTC
* * ** * *
951470 AAATAACACAAACATGAATAGTCATAC-GAATCC
125 AAATAAGACAAACATGGATTCTCGTACAG-ATCT
* * * * * * *
951503 CCATTCTTCTCAAGATTTGGCACCATAA-ACATAGACTTCC-CATTAGGATACATAATACTGATG
1 CCATTCTTTTCAAGATTAGGCACCATAATACAT--TC-TCCTTATTAGGATAAATGATATTGATG
* * *
951566 CTTTGTTTTCGTAAGAAAAGTTTTCTTCCCACCAATTTTTGAAAAGTCTAAGTTCGTGGCTCAAA
63 CTTTGTTTTCGCAAGAAAAGTTTTCTTCCCACCAATTTTTGAAAAGTCAAAGTTCGTGACTCAAA
* *
951631 TGAGACAAACATGGATTCTTGTACAGATCT
128 TAAGACAAACATGGATTCTCGTACAGATCT
* * * *
951661 TCATTCGTTTTC-TGATTAGGCACTATATATACATTCTCCTTATTAGGATAAATGATATTGATGG
1 CCATTC-TTTTCAAGATTAGGCACCATA-ATACATTCTCCTTATTAGGATAAATGATATTGATGC
* * * * ** * * **
951725 TTT-TCTTTTGCATGAAAATCCTTTTTTTGGC-CCAATTTTCCTTAAAA-TCAAAGTTTGTCCCT
64 TTTGT-TTTCGCAAGAAAA--GTTTTCTTCCCACCAATTTT--TGAAAAGTCAAAGTTCGTGACT
* * * * * ** *
951787 TAAATATGGCAAGCATTGATTCTTATAACTG-TCT
124 CAAATAAGACAAACATGGATTCTCGT-ACAGATCT
* * * *** * *
951821 CCATTCTTTTCAAGATTGGGAACCA-AAAACATAT-TCCATTCATTAGGATGCGTGACATTGACG
1 CCATTCTTTTCAAGATTAGGCACCATAATACAT-TCTCC-TT-ATTAGGATAAATGATATTGATG
* ** * * * * * **
951884 CTTTGGTGTTT--CAGGAAAAGCTTTTCTTTTCATC-GTTATTGATAAAATCAAAGTTTGTCTCT
63 CTTT-GT-TTTCGCAAGAAAAG-TTTTCTTCCCACCAATTTTTGA-AAAGTCAAAGTTCGTGACT
* * * *
951946 TAAACAAGACAAACATGAATACTCGTACTA-ATC-
124 CAAATAAGACAAACATGGATTCTCGTAC-AGATCT
* * * * * * * * *
951979 CTATTCTTTTCAAGATTCGGCACCATAA-ACATACTATTCTCATAAAGATACACGATATTGATGC
1 CCATTCTTTTCAAGATTAGGCACCATAATACAT--TCTCCTTATTAGGATAAATGATATTGATGC
* * ** ** ** *
952043 TTTAG-TTTCGTAA-AAAACGCTTTCTTCTGACCAATTTTTGAAAAGTTTAAGTTATTGCCTCAA
64 TTT-GTTTTCGCAAGAAAA-GTTTTCTTCCCACCAATTTTTGAAAAGTCAAAGTTCGTGACTCAA
* * * *
952106 ATGAGACAAACATGGAATCTAGTA-AGGATTT
127 ATAAGACAAACATGGATTCTCGTACA-GATCT
* ** * * * *
952137 TCATTCATTTT-GTGATTAGGCACTATAAACACATTCTCCTTATTAGGATAAATGATATTAATGG
1 CCATTC-TTTTCAAGATTAGGCACCAT-AATACATTCTCCTTATTAGGATAAATGATATTGATGC
* * * * * * ** * *
952201 TTT-TCTTTTGTATGGAAATTTTTTTTTGC-CCTATTTTCCTTAAAA-TCAAAGTT--TGACCCT
64 TTTGT-TTTCGCAAGAAAAGTTTTCTTCCCACCAATTTT--TGAAAAGTCAAAGTTCGTGA--CT
* * * * *
952261 TAAATAAGA-AAAGCATTGATTCTCATA-ATAGTGT
124 CAAATAAGACAAA-CATGGATTCTCGTACAGA-TCT
* * * * * * *
952295 CCATTCTTTTCAAGATTAGGAACCAAAAACACATTCT-GTTCTTTAGGATACATGACATTGATGC
1 CCATTCTTTTCAAGATTAGGCACC-ATAATACATTCTCCTT-ATTAGGATAAATGATATTGATGC
* * * ** * *
952359 TTTGGTGTCGCAAGAAAAGGTTTTCTTTCCACC-GCTATTGATAGAA-TCAAAG-TC-TGTCTCT
64 TTTGTTTTCGCAAGAAAA-GTTTTCTTCCCACCAATTTTTGA-A-AAGTCAAAGTTCGTGACTC-
* * *
952420 TAAATAAGACAAACATGAATACTC-TGACTA-ATCC
125 -AAATAAGACAAACATGGATTCTCGT-AC-AGATCT
** * * * * * * * *
952454 CCATTCTTTTCTGGATTAGGTACTATAA-ACATAGTCTTCTAATAAGAATACACGATATTGATGC
1 CCATTCTTTTCAAGATTAGGCACCATAATACAT--TCTCCTTATTAGGATAAATGATATTGATGC
* * * * *
952518 TTTTTGTTTCAG-AAGAAAAGCTTTCTTCCCACCAATTTTTAAAAAGTTCTAAGTTCGTGCCTCA
64 TTTGT-TTTC-GCAAGAAAAGTTTTCTTCCCACCAATTTTTGAAAAG-TCAAAGTTCGTGACTCA
* * *
952582 AATGAGACAAACATGGATTCTAG-AAAGGATCT
126 AATAAGACAAACATGGATTCTCGTACA-GATCT
* ** * * * * *
952614 TCATTCATTTT-GTGATTAGGAACTATAATCACATTCTCGTCATTAGGATAAATAATATT-ACTG
1 CCATTC-TTTTCAAGATTAGGCACCATAAT-ACATTCTCCTTATTAGGATAAATGATATTGA-TG
* * * * *** * * * * * *
952677 GTTT-TCTTTTGCATGAAAATCTTTTCTT-TGTCCTATTTTTCATAAAATCAAAGTTTGT-CCCC
63 CTTTGT-TTTCGCAAGAAAA-GTTTTCTTCCCACCAATTTTTGA-AAAGTCAAAGTTCGTGACTC
* * * * * *
952739 TAAATAAGGCAAGCTTTGATTCTCATA-ACTATCT
125 -AAATAAGACAAACATGGATTCTCGTACA-GATCT
* * * ** * *
952773 CCATTCTTTCCAAGATT-GGGAGCCA-AAAACATAT-TCCCTTCATTAGGATGCATGACATTGAC
1 CCATTCTTTTCAAGATTAGGCA-CCATAATACAT-TCT-CCTT-ATTAGGATAAATGATATTGAT
* * * * * * * * * ** **
952835 GCTTTGGTGTT-GCAGGAAATGCTCTTCTTTCCACC-GTTGTTGATAAAATCAATGTTTATCTCT
62 GCTTT-GTTTTCGCAAGAAAAG-TTTTCTTCCCACCAATTTTTGA-AAAGTCAAAGTTCGTGACT
* * * * * *
952898 TAAACAAGACAAACATGAATACTTGTACTA-ATCC
124 CAAATAAGACAAACATGGATTCTCGTAC-AGATCT
* * * * * * * *
952932 CCATTCTTTTCAGGATTCGACACCATAA-ACATAGTATTCTCATAAGGA-AACACGATATTGATG
1 CCATTCTTTTCAAGATTAGGCACCATAATACAT--TCTCCTTATTAGGATAA-ATGATATTGATG
* * ** * * * * *
952995 CTTTAG-TTTCGCAAGAAACGCTTTCTTGTCACCAATTTTTGAAAAATC-TAGTTTTGTGCCTTA
63 CTTT-GTTTTCGCAAGAAAAGTTTTCTTCCCACCAATTTTTGAAAAGTCAAAG-TTCGTGACTCA
* * * **
953058 AATGAGACAAAAATGGATTCAT-GCATGGATCT
126 AATAAGACAAACATGGATTC-TCGTACAGATCT
* * ** *
953090 TCAATCATTTT-GTGATTAGGCACTATAA-ACATGTTCTCCTCT-TTAGGATAAATGATATTGAT
1 CCATTC-TTTTCAAGATTAGGCACCATAATACA--TTCTCCT-TATTAGGATAAATGATATTGAT
* * * ** ** * * *
953152 AGATTTCTTTT-GCACGGAAATCTTTTCTTTGC-CC-TTTTTCCTTAAAA-TCAAAGTT--TGCC
62 -GCTTTGTTTTCGCA-AGAAAAGTTTTCTTCCCACCAATTTT--TGAAAAGTCAAAGTTCGTG-A
** * *
953211 CTTCAAATAAGGGAAGCATTGATTCTCGTAACAG-TCT
122 C-TCAAATAAGACAAACATGGATTCTCGT-ACAGATCT
* * * * *
953248 CCATTCTTTTCAAGATT-GGGATCCAAAAACACATTC-CCTTCATTAGGATACATGACATTGATG
1 CCATTCTTTTCAAGATTAGGCA-CC-ATAATACATTCTCCTT-ATTAGGATAAATGATATTGATG
* * * * * * * **
953311 CTTTGGTGTT-GC-AGAAAAAGCTTTTCTTTCCACC-GTTATTGATAAAATAAAAGTTTGTCTCT
63 CTTT-GTTTTCGCAAG-AAAAG-TTTTCTTCCCACCAATTTTTGA-AAAGTCAAAGTTCGTGACT
** * * *
953373 CAAATAAGACAAACATAAATACTAAG-ACTA-ATCC
124 CAAATAAGACAAACATGGATTCT-CGTAC-AGATCT
* * * * * * * *
953407 CCATTCTTTTCAGGATTAGTCACCATAA-ACATAGTCTTCTCATTATGATACATAATATTAATGC
1 CCATTCTTTTCAAGATTAGGCACCATAATACAT--TCTCCTTATTAGGATAAATGATATTGATGC
* * * * * *
953471 TTTGGTTTCGTAAGAAAAGCTTTCTTCTCACCAATTTTTGTAAAGTCTAAGTT
64 TTTGTTTTCGCAAGAAAAGTTTTCTTCCCACCAATTTTTGAAAAGTCAAAGTT
953524 TGCCCCTCAA
Statistics
Matches: 1666, Mismatches: 490, Indels: 362
0.66 0.19 0.14
Matches are distributed among these distances:
155 2 0.00
156 15 0.01
157 190 0.11
158 641 0.38
159 561 0.34
160 223 0.13
161 21 0.01
162 13 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (157 bp):
CCATTCTTTTCAAGATTAGGCACCATAATACATTCTCCTTATTAGGATAAATGATATTGATGCTT
TGTTTTCGCAAGAAAAGTTTTCTTCCCACCAATTTTTGAAAAGTCAAAGTTCGTGACTCAAATAA
GACAAACATGGATTCTCGTACAGATCT
Found at i:955808 original size:12 final size:12
Alignment explanation
Indices: 955791--955823 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
955781 GTTAATCTCT
955791 TCATCATTATCA
1 TCATCATTATCA
955803 TCATCATCT-TCA
1 TCATCAT-TATCA
955815 TCATCATTA
1 TCATCATTA
955824 ATGGTTGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (12 bp):
TCATCATTATCA
Found at i:957316 original size:24 final size:23
Alignment explanation
Indices: 957272--957316 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
957262 ATAATTTTTA
* *
957272 CTTGAAAAACATTTGATTTATTG
1 CTTGAAAAACATTTAACTTATTG
*
957295 CTTGAAAAATATTTAAACTTAT
1 CTTGAAAAACATTT-AACTTAT
957317 CTCTAAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (23 bp):
CTTGAAAAACATTTAACTTATTG
Found at i:959902 original size:149 final size:149
Alignment explanation
Indices: 959632--959924 Score: 532
Period size: 149 Copynumber: 2.0 Consensus size: 149
959622 ATCAAATAGT
*
959632 TAGTTAATTTACTATAAATAATTTTCATCTAAAAAACCAAGACATCTATAGTGCCATGTCTACAG
1 TAGTTAATTTACTATAAATAATTTTCATCCAAAAAACCAAGACATCTATAGTGCCATGTCTACAG
959697 TTTGACATTTCCTCAATAAGACATATCTATAAATAATATGCCATGTCTAAAATAATTTATTATCT
66 TTTGACATTTCCTCAATAAGACATATCTATAAATAATATGCCATGTCTAAAATAATTTATTATCT
*
959762 TTGTTGCTGTATTATCAAA
131 TTGTTGCTATATTATCAAA
*
959781 TAGTTAATTTACTATAAATAATTTTCATCCGAAAAACCAAGACATCTATAGTGCCATGTCTACAG
1 TAGTTAATTTACTATAAATAATTTTCATCCAAAAAACCAAGACATCTATAGTGCCATGTCTACAG
* * *
959846 TTTGACCTTTTCTCAATAAGACATCTCTATAAATAATATGCCATGTCTAAAATAATTTATTATCT
66 TTTGACATTTCCTCAATAAGACATATCTATAAATAATATGCCATGTCTAAAATAATTTATTATCT
959911 TTGTTGCTATATTA
131 TTGTTGCTATATTA
959925 AGACATCTCT
Statistics
Matches: 138, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 138 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.39
Consensus pattern (149 bp):
TAGTTAATTTACTATAAATAATTTTCATCCAAAAAACCAAGACATCTATAGTGCCATGTCTACAG
TTTGACATTTCCTCAATAAGACATATCTATAAATAATATGCCATGTCTAAAATAATTTATTATCT
TTGTTGCTATATTATCAAA
Found at i:963237 original size:23 final size:24
Alignment explanation
Indices: 963186--963239 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
963176 ATTTAAAAGT
*
963186 TTATTTATAAATTAAATATAAATAA
1 TTATTT-TAAATTAAATATAAAAAA
963211 -TATTTTAAA-TAAATA-AGAAAAA
1 TTATTTTAAATTAAATATA-AAAAA
963233 TTATTTT
1 TTATTTT
963240 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.04
22 10 0.38
23 10 0.38
24 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TTATTTTAAATTAAATATAAAAAA
Found at i:967081 original size:20 final size:21
Alignment explanation
Indices: 967056--967101 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
967046 TCTTTCAAAA
**
967056 AAAAATAAATTAAA-AAAAGG
1 AAAAATAAAGAAAATAAAAGG
967076 AAAAATAAAGAAAATAAAAGG
1 AAAAATAAAGAAAATAAAAGG
967097 AAAAA
1 AAAAA
967102 AGATATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (21 bp):
AAAAATAAAGAAAATAAAAGG
Found at i:967647 original size:18 final size:20
Alignment explanation
Indices: 967603--967648 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
967593 TGTAGTTATC
967603 ATCAAAATAAAATTAACTATA
1 ATCAAAAT-AAATTAACTATA
*
967624 AT-AAAAT-AATTAA-TTTA
1 ATCAAAATAAATTAACTATA
967641 ATCAAAAT
1 ATCAAAAT
967649 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 5 0.22
18 11 0.48
20 5 0.22
21 2 0.09
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
ATCAAAATAAATTAACTATA
Found at i:968690 original size:17 final size:17
Alignment explanation
Indices: 968668--968701 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
968658 TGAGTGATTG
*
968668 AGCTAGATGCTAATATT
1 AGCTAGATGATAATATT
968685 AGCTAGATGATAATATT
1 AGCTAGATGATAATATT
968702 TAGGCTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (17 bp):
AGCTAGATGATAATATT
Found at i:971059 original size:78 final size:77
Alignment explanation
Indices: 970879--971080 Score: 216
Period size: 78 Copynumber: 2.6 Consensus size: 77
970869 GAATCGCTAT
*
970879 GCCTTTTCAAGCCTTAACCTTTTTTCAAAGGTTCAAAATTGAA-AAACATCTTTCATATTATAGA
1 GCCTTTTCAAGCCTTAACCTTTTTTCAAAGGTTCAAAATT-AACAAACA-CTTTCATATTACAGA
*
970943 TCGAGAAAAACTAC
64 TCAAGAAAAACTAC
* * *
970957 ACTTTTTCAAGCCTTAACCTTTTTTCCAAGGTTCAAAATTAACAAACA-TTTCACCTATTACA-A
1 GCCTTTTCAAGCCTTAACCTTTTTTCAAAGGTTCAAAATTAACAAACACTTTCA--TATTACAGA
* *
971020 CTTAAGAACAACTAC
64 -TCAAGAAAAACTAC
* * *
971035 GCCTTTTCAAGCTTTAA-ATCTTTTTCAAAAGTT-AAGAATTAACAAA
1 GCCTTTTCAAGCCTTAACCT-TTTTTCAAAGGTTCAA-AATTAACAAA
971081 TGCTTTTCCA
Statistics
Matches: 105, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
76 5 0.05
77 6 0.06
78 94 0.90
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (77 bp):
GCCTTTTCAAGCCTTAACCTTTTTTCAAAGGTTCAAAATTAACAAACACTTTCATATTACAGATC
AAGAAAAACTAC
Found at i:972485 original size:32 final size:33
Alignment explanation
Indices: 972447--972510 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
972437 CAATTCAATG
**
972447 TGTATCAATACTGTG-AACATGTATCGATACAA
1 TGTATCAATACTAAGCAACATGTATCGATACAA
*
972479 TGTATCAATACTAAGCAATATGTATCGATACA
1 TGTATCAATACTAAGCAACATGTATCGATACA
972511 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (33 bp):
TGTATCAATACTAAGCAACATGTATCGATACAA
Found at i:973433 original size:19 final size:18
Alignment explanation
Indices: 973404--973449 Score: 74
Period size: 19 Copynumber: 2.5 Consensus size: 18
973394 ATAGGAAGAA
973404 AAACAAATTTCATTCATC
1 AAACAAATTTCATTCATC
973422 AAACATAATTTCATTCATC
1 AAACA-AATTTCATTCATC
*
973441 AAAGAAATT
1 AAACAAATT
973450 CATGTACAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (18 bp):
AAACAAATTTCATTCATC
Found at i:974548 original size:20 final size:20
Alignment explanation
Indices: 974523--974577 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
974513 AAAACCCTTA
974523 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
974543 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
974563 AATGTATCGATACAT
1 AAAGTATCGATACAT
974578 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:974667 original size:13 final size:13
Alignment explanation
Indices: 974649--974674 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
974639 ACACCAAAGT
974649 ATGTATCGATACA
1 ATGTATCGATACA
974662 ATGTATCGATACA
1 ATGTATCGATACA
974675 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:974672 original size:33 final size:34
Alignment explanation
Indices: 974630--974695 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
974620 TAGCCAAACT
* **
974630 TGTATCGATACACCAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAAATTGTATCGATACAA
974663 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAAATTGTATCGATACA
974696 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 17 0.59
34 12 0.41
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (34 bp):
TGTATCGATACACAAAAAAATTGTATCGATACAA
Found at i:980153 original size:13 final size:13
Alignment explanation
Indices: 980135--980173 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
980125 ACATTTTTCT
980135 TTGTATCGATACA
1 TTGTATCGATACA
980148 TTGTATCGATACA
1 TTGTATCGATACA
*
980161 CTGTATCGATACA
1 TTGTATCGATACA
980174 AGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:982648 original size:20 final size:20
Alignment explanation
Indices: 982623--982677 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
982613 AAAACCCTTA
982623 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
982643 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
982663 AATGTATCGATACAT
1 AAAGTATCGATACAT
982678 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:982767 original size:13 final size:13
Alignment explanation
Indices: 982749--982774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
982739 CCACCAAAGT
982749 ATGTATCGATACA
1 ATGTATCGATACA
982762 ATGTATCGATACA
1 ATGTATCGATACA
982775 CAAAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:987346 original size:7 final size:7
Alignment explanation
Indices: 987334--987374 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
987324 GAAAGTAGCT
987334 TCAAAAA
1 TCAAAAA
987341 TCAAAAA
1 TCAAAAA
987348 TCAAAAA
1 TCAAAAA
987355 TCAAAAA
1 TCAAAAA
987362 TCAAAAA
1 TCAAAAA
987369 TCAAAA
1 TCAAAA
987375 TAAAAATAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (7 bp):
TCAAAAA
Found at i:987360 original size:21 final size:20
Alignment explanation
Indices: 987334--987381 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
987324 GAAAGTAGCT
987334 TCAAAAATCAAAAATCAAAAA
1 TCAAAAATCAAAAATC-AAAA
987355 TCAAAAATCAAAAATCAAAA
1 TCAAAAATCAAAAATCAAAA
987375 T-AAAAAT
1 TCAAAAAT
987382 AGAAAACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 6 0.22
20 5 0.19
21 16 0.59
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (20 bp):
TCAAAAATCAAAAATCAAAA
Found at i:987387 original size:7 final size:6
Alignment explanation
Indices: 987336--987387 Score: 50
Period size: 7 Copynumber: 7.8 Consensus size: 6
987326 AAGTAGCTTC
*
987336 AAAAAT CAAAAAT CAAAAAT CAAAAAT CAAAAAT CAAAAT AAAAAT AGAAAA
1 AAAAAT -AAAAAT -AAAAAT -AAAAAT -AAAAAT AAAAAT AAAAAT A-AAAA
987388 CCTTCTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 11 0.26
7 31 0.74
ACGTcount: A:0.75, C:0.10, G:0.02, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:987808 original size:2 final size:2
Alignment explanation
Indices: 987801--987830 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
987791 AATTAATGTG
987801 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
987831 ATCTTGACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:990405 original size:2 final size:2
Alignment explanation
Indices: 990398--990432 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
990388 AACAAAACAG
990398 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
990433 CCAGTCTTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:993714 original size:13 final size:13
Alignment explanation
Indices: 993696--993721 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
993686 CAATTTTTTG
993696 TGTATCGATACAT
1 TGTATCGATACAT
993709 TGTATCGATACAT
1 TGTATCGATACAT
993722 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:993718 original size:33 final size:33
Alignment explanation
Indices: 993676--993740 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
993666 TACAAGCCAA
* *
993676 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
993709 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
993741 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:995326 original size:110 final size:110
Alignment explanation
Indices: 995133--995351 Score: 366
Period size: 110 Copynumber: 2.0 Consensus size: 110
995123 ATCTTAATTA
* *
995133 TAGTCAATTAGATTAAAGTCTTTGGCAGAACATAGTGAACTATAAGGAATCATTCTTCATAGATT
1 TAGTCAATTAGATTAAAATCTTTGGCAGAACATAGTGAACTATAAGGAATCATTCTTCACAGATT
* *
995198 TATAATTGTTAACCATAAGTTGTAAGGTCTCATATGGATTAAAGC
66 CATAATTGTTAACCATAAGTTGTAAGGTCTCATATGAATTAAAGC
* * * *
995243 TAGTCAATTAGATTAAAATCTTTGGCGGAGCATAGTGAACTATGAGGAATCGTTCTTCACAGATT
1 TAGTCAATTAGATTAAAATCTTTGGCAGAACATAGTGAACTATAAGGAATCATTCTTCACAGATT
995308 CATAATTGTTAACCATAAGTTGTAAGGTCTCATATGAATTAAAG
66 CATAATTGTTAACCATAAGTTGTAAGGTCTCATATGAATTAAAG
995352 TTTGAGTAGA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 101 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (110 bp):
TAGTCAATTAGATTAAAATCTTTGGCAGAACATAGTGAACTATAAGGAATCATTCTTCACAGATT
CATAATTGTTAACCATAAGTTGTAAGGTCTCATATGAATTAAAGC
Found at i:996709 original size:76 final size:77
Alignment explanation
Indices: 996539--996714 Score: 257
Period size: 76 Copynumber: 2.3 Consensus size: 77
996529 TAGAAGTAAA
* * * *
996539 AAAAATGGTGTTGGAGTATCACCTTAGAAATAATGGAGTTGGAATATCCCCCAATAAAAATTGAC
1 AAAAATGGGGTTGGAGTATCCCCTTAGAAATAAAGAAGTTGGAATATCCCCCAATAAAAATTGAC
996604 ATTTTTAGAAGT
66 ATTTTTAGAAGT
* *
996616 AAAAACGGGGTTGGAGTATCCCCTT-GAAAATAAAGAAGTTGGAGTAT-CCCCAATAAAAATTGA
1 AAAAATGGGGTTGGAGTATCCCCTTAG-AAATAAAGAAGTTGGAATATCCCCCAATAAAAATTGA
996679 CATTTTTAGAAGT
65 CATTTTTAGAAGT
* *
996692 TAAAATGGGGTTAGAGTATCCCC
1 AAAAATGGGGTTGGAGTATCCCC
996715 AATAAAAATT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
76 50 0.56
77 39 0.44
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (77 bp):
AAAAATGGGGTTGGAGTATCCCCTTAGAAATAAAGAAGTTGGAATATCCCCCAATAAAAATTGAC
ATTTTTAGAAGT
Found at i:996716 original size:48 final size:48
Alignment explanation
Indices: 996657--996762 Score: 185
Period size: 48 Copynumber: 2.2 Consensus size: 48
996647 AAAGAAGTTG
* *
996657 GAGTATCCCCAATAAAAATTGACATTTTTAGAAGTTAAAATGGGGTTA
1 GAGTATCCCCAATAAAAATTGACATTTTTAGAAGTAAAAACGGGGTTA
*
996705 GAGTATCCCCAATAAAAATTGACATTTTTAGAAGTAAAAACGGGGTTG
1 GAGTATCCCCAATAAAAATTGACATTTTTAGAAGTAAAAACGGGGTTA
996753 GAGTATCCCC
1 GAGTATCCCC
996763 TCAGAAGTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (48 bp):
GAGTATCCCCAATAAAAATTGACATTTTTAGAAGTAAAAACGGGGTTA
Found at i:1000869 original size:17 final size:17
Alignment explanation
Indices: 1000847--1000881 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1000837 GCATTTATTC
1000847 TTTCTTGTATTTTCTTT
1 TTTCTTGTATTTTCTTT
1000864 TTTCTTGTATTTTCTTT
1 TTTCTTGTATTTTCTTT
1000881 T
1 T
1000882 CAAAAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTCTTGTATTTTCTTT
Found at i:1011470 original size:13 final size:13
Alignment explanation
Indices: 1011452--1011478 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1011442 ACATGCTGCT
1011452 TTGTATCGATACA
1 TTGTATCGATACA
1011465 TTGTATCGATACA
1 TTGTATCGATACA
1011478 T
1 T
1011479 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1011475 original size:33 final size:32
Alignment explanation
Indices: 1011433--1011497 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1011423 CACACCCAGA
*
1011433 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
1011466 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
1011498 GGCCAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:1017744 original size:13 final size:13
Alignment explanation
Indices: 1017726--1017767 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
1017716 ACAACATTCC
* *
1017726 TTGTATTGATATA
1 TTGTATCGATACA
1017739 TTGTATCGATACA
1 TTGTATCGATACA
1017752 TTGTATCGATACA
1 TTGTATCGATACA
1017765 TTG
1 TTG
1017768 GGTACTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.45
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1020284 original size:32 final size:33
Alignment explanation
Indices: 1020224--1020288 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1020214 CACACCCAGA
*
1020224 TGTATCGATACATGTTGCTTTGTATCGATACAT
1 TGTATCGATACATGTTGCATTGTATCGATACAT
*
1020257 TGTATCGATGCATGTT-CATTGTATCGATACAT
1 TGTATCGATACATGTTGCATTGTATCGATACAT
1020289 GGCCAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGTTGCATTGTATCGATACAT
Found at i:1020375 original size:13 final size:13
Alignment explanation
Indices: 1020354--1020384 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1020344 TGATACATGG
*
1020354 TACAATGTATCGA
1 TACATTGTATCGA
1020367 TACATTGTATCGA
1 TACATTGTATCGA
1020380 TACAT
1 TACAT
1020385 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1020375 original size:33 final size:32
Alignment explanation
Indices: 1020338--1020404 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
1020328 CTATCACTAT
*
1020338 TTGTATTGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
1020371 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
1020404 T
1 T
1020405 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:1022075 original size:20 final size:20
Alignment explanation
Indices: 1022050--1022126 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
1022040 GCAAAAAGAC
**
1022050 AGAATGTATTAATACATTGA
1 AGAATGTATCGATACATTGA
*
1022070 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
1022090 TA-CATGTATCGATATATTGA
1 -AGAATGTATCGATACATTGA
1022110 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
1022127 CTAGGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1024140 original size:2 final size:2
Alignment explanation
Indices: 1024135--1024159 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1024125 ACACACACAC
1024135 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1024160 CTAACTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1024466 original size:20 final size:21
Alignment explanation
Indices: 1024424--1024467 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1024414 TTCATTCTTA
* *
1024424 AATTTTTAAAGATAATTTTTT
1 AATTTTTAAAGATAAGTTATT
1024445 AATTTTTAAAGAT-AGTTATT
1 AATTTTTAAAGATAAGTTATT
1024465 AAT
1 AAT
1024468 CGTTTTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (21 bp):
AATTTTTAAAGATAAGTTATT
Found at i:1025954 original size:28 final size:28
Alignment explanation
Indices: 1025922--1026098 Score: 184
Period size: 28 Copynumber: 6.4 Consensus size: 28
1025912 CCGACTTGTG
* **
1025922 TGGGCTTTGAAAGGATGTCGTTGACTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTA
* *
1025950 TGGGCTTTGAAAGGATGCCACTTACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTA
* *
1025978 TGGGCTTT-AAAGAGATGCCACTCACTTG
1 TGGGCTTTGAAAG-GATGCCACTGACTTA
1026006 TGGGCTTTGAAAAGG-TGCCACTGACTTA
1 TGGGCTTTG-AAAGGATGCCACTGACTTA
*
1026034 TGGGCTTT-AAAGAGATGCCACTGACTTG
1 TGGGCTTTGAAAG-GATGCCACTGACTTA
* * *
1026062 TGGG--TTGAAAGGGTGCCACTAACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTA
*
1026088 TGGACTTTGAA
1 TGGGCTTTGAA
1026099 GAGATGAGCA
Statistics
Matches: 129, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
26 22 0.17
27 9 0.07
28 93 0.72
29 1 0.01
30 4 0.03
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (28 bp):
TGGGCTTTGAAAGGATGCCACTGACTTA
Found at i:1025983 original size:56 final size:55
Alignment explanation
Indices: 1025920--1026104 Score: 223
Period size: 56 Copynumber: 3.3 Consensus size: 55
1025910 CACCGACTTG
* ** * *
1025920 TGTGGGCTTTGAAAG-GATGTCGTTGACTTATGGGCTTTGAAAGGATGCCACTTACT
1 TGTGGGCTTT-AAAGAGATGCCACTGACTTGTGGGCTTTGAAAGG-TGCCACTAACT
* *
1025976 TGTGGGCTTTAAAGAGATGCCACTCACTTGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTAAAGAGATGCCACTGACTTGTGGGCTTTG-AAAGGTGCCACTAACT
*
1026032 TATGGGCTTTAAAGAGATGCCACTGACTTGTGGG--TTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTAAAGAGATGCCACTGACTTGTGGGCTTTGAAA-GGTGCCACTAACT
* *
1026086 TGTGGACTTTGAAGAGATG
1 TGTGGGCTTTAAAGAGATG
1026105 AGCATTCTAG
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
53 3 0.03
54 31 0.27
55 4 0.04
56 71 0.62
57 5 0.04
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (55 bp):
TGTGGGCTTTAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTAACT
Found at i:1026031 original size:84 final size:83
Alignment explanation
Indices: 1025920--1026098 Score: 238
Period size: 84 Copynumber: 2.2 Consensus size: 83
1025910 CACCGACTTG
* ** *
1025920 TGTGGGCTTTG-AAAGGATGTCGTTGACTTATGGGCTTTGAAAG-GATGCCACTTACTTGTGGGC
1 TGTGGGCTTTGAAAAGGATGCCACTGACTTATGGGCTTT-AAAGAGATGCCACTGACTTGTGGG-
* *
1025983 TTTAAAGAGATGCCACTCACT
64 TTGAAAG-GATGCCACTAACT
1026004 TGTGGGCTTTGAAAAGG-TGCCACTGACTTATGGGCTTTAAAGAGATGCCACTGACTTGTGGGTT
1 TGTGGGCTTTGAAAAGGATGCCACTGACTTATGGGCTTTAAAGAGATGCCACTGACTTGTGGGTT
*
1026068 GAAAGGGTGCCACTAACT
66 GAAAGGATGCCACTAACT
*
1026086 TGTGGACTTTGAA
1 TGTGGGCTTTGAA
1026099 GAGATGAGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
82 23 0.27
83 10 0.12
84 47 0.55
85 5 0.06
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (83 bp):
TGTGGGCTTTGAAAAGGATGCCACTGACTTATGGGCTTTAAAGAGATGCCACTGACTTGTGGGTT
GAAAGGATGCCACTAACT
Found at i:1027341 original size:14 final size:14
Alignment explanation
Indices: 1027322--1027354 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1027312 GACCCTTCTT
1027322 TTTGTTTGTTTTTG
1 TTTGTTTGTTTTTG
*
1027336 TTTGTTTGTTTTTT
1 TTTGTTTGTTTTTG
1027350 TTTGT
1 TTTGT
1027355 ACGAAGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (14 bp):
TTTGTTTGTTTTTG
Found at i:1040989 original size:20 final size:20
Alignment explanation
Indices: 1040964--1041040 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
1040954 GCAAAAAGAT
1040964 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
1040984 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
1041004 TA-CATGTATCGATATATTGA
1 -AGAATGTATCGATACATTGA
1041024 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
1041041 CTAGGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1049210 original size:51 final size:51
Alignment explanation
Indices: 1049134--1049230 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
1049124 AAAAGTCACA
** *
1049134 TTTTTACTTAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTC
1 TTTTTACCCAGATGTATCGATACATTCTTAAATGTATCGATACATTCTGTC
*
1049185 TTTTTACCCAGATGTATCGATACATTTTTAAATGTATCGATACATT
1 TTTTTACCCAGATGTATCGATACATTCTTAAATGTATCGATACATT
1049231 TAGTTAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.44
Consensus pattern (51 bp):
TTTTTACCCAGATGTATCGATACATTCTTAAATGTATCGATACATTCTGTC
Found at i:1061495 original size:51 final size:52
Alignment explanation
Indices: 1061216--1061557 Score: 354
Period size: 52 Copynumber: 6.6 Consensus size: 52
1061206 CTCGCGTTAT
* * * * * * * *
1061216 GTGCCAATGTGCAAATTCAAGGCTTGCAACATCGAACTTAATA-TTGATAAAG
1 GTGCCAATATGCTAATTCAAAGCTAGCGACATTGAGCTTAA-AGATGATAAAG
* * * * * * *
1061268 GTGCCATTGTGCTGATTCAAGGCCAGCCACATTG-GACTTAAAGATGACAAAG
1 GTGCCAATATGCTAATTCAAAGCTAGCGACATTGAG-CTTAAAGATGATAAAG
* * * * *
1061320 GTGCCAAGATGCTGATTCAGAGCTAGCAAAATTGAGCTTAAAGATGATAAAG
1 GTGCCAATATGCTAATTCAAAGCTAGCGACATTGAGCTTAAAGATGATAAAG
* * * * *
1061372 GTGCTAATATGCTAATTCAAGGCCAGCAACATT-AGACTTAAAGATGACAAAG
1 GTGCCAATATGCTAATTCAAAGCTAGCGACATTGAG-CTTAAAGATGATAAAG
1061424 GTGCCAATATGCTAATTCAAAGCTAGCGACATTGAGCTTAAAGAT-ATAAAG
1 GTGCCAATATGCTAATTCAAAGCTAGCGACATTGAGCTTAAAGATGATAAAG
* * *
1061475 GTGCCAAAATGCTAATTCAAAGCTAGTGACATTCAGCTTAAAGAT-ATAAAG
1 GTGCCAATATGCTAATTCAAAGCTAGCGACATTGAGCTTAAAGATGATAAAG
1061526 GTGCCAATATGCTAATTCAAAG-TCAGCGACAT
1 GTGCCAATATGCTAATTCAAAGCT-AGCGACAT
1061558 CAGACTTGCA
Statistics
Matches: 247, Mismatches: 37, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
50 1 0.00
51 84 0.34
52 159 0.64
53 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (52 bp):
GTGCCAATATGCTAATTCAAAGCTAGCGACATTGAGCTTAAAGATGATAAAG
Found at i:1061622 original size:58 final size:56
Alignment explanation
Indices: 1061560--1061922 Score: 200
Period size: 58 Copynumber: 6.6 Consensus size: 56
1061550 AGCGACATCA
*
1061560 GACTTGCAAAAGAAAGTTTGACAAGTGCCAATGTGTTGATTTAAGGCCAACGATAATG
1 GACTTG-AAAAGAAAGTTTGA-AAGTGCCAATGTGTTGATTCAAGGCCAACGATAATG
* * * * * * *
1061618 GACTT--AAAGAAA--ATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTA
1 GACTTGAAAAGAAAGTTTGAAAGTGCCAATGTGTTGATTCAAGGCCAACGATAATG
* * * *
1061670 GACTTGAGAAATAAAGTTTAATAAGTGCCAATGTGTTAATTCAAGGCCAATGATAATG
1 GACTTGA-AAAGAAAGTTTGA-AAGTGCCAATGTGTTGATTCAAGGCCAACGATAATG
* * * * ** *
1061728 GACTT--AAAGAAA--ATGAATGTGCCAACAG-GCTGATTCAAGGCCAGTGAT-ATCA
1 GACTTGAAAAGAAAGTTTGAAAGTGCCAA-TGTGTTGATTCAAGGCCAACGATAAT-G
* * * * *
1061780 AACTTGAAAAAGAATGTTTAATAAGTGCCAATGTGTTGATTCAAGGCCAATGACAATG
1 GACTTG-AAAAGAAAGTTTGA-AAGTGCCAATGTGTTGATTCAAGGCCAACGATAATG
* * * * ** * *
1061838 AACTT--AAAGAAA-ATT--AGGTGCCAATATGCAGATTCAAGGCCAGCAAT-ATCG
1 GACTTGAAAAGAAAGTTTGAAAGTGCCAATGTGTTGATTCAAGGCCAACGATAAT-G
* * *
1061889 AACTTGAGAAAAAAAGTTTGATAAGCGCCAATGT
1 GACTTGA-AAAGAAAGTTTGA-AAGTGCCAATGT
1061923 ATTTAAGAGC
Statistics
Matches: 228, Mismatches: 53, Indels: 48
0.69 0.16 0.15
Matches are distributed among these distances:
50 2 0.01
51 32 0.14
52 63 0.28
53 6 0.03
54 8 0.04
55 33 0.14
57 5 0.02
58 77 0.34
59 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (56 bp):
GACTTGAAAAGAAAGTTTGAAAGTGCCAATGTGTTGATTCAAGGCCAACGATAATG
Found at i:1061652 original size:52 final size:52
Alignment explanation
Indices: 1061582--1061879 Score: 190
Period size: 52 Copynumber: 5.5 Consensus size: 52
1061572 AAAGTTTGAC
* * *
1061582 AAGTGCCAATGTGTTGATTTAAGGCCAACGATAATGGACTTAAAGAAAATGA
1 AAGTGCCAATATGCTGATTCAAGGCCAACGATAATGGACTTAAAGAAAATGA
* * * * *
1061634 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTGAGAA-ATAAAGTTTAA
1 AAGTGCCAATATGCTGATTCAAGGCCAACGATAATGGACTT-A-AAGA-AAA---TGA
* * * *
1061691 TAAGTGCCAATGTGTTAATTCAAGGCCAATGATAATGGACTTAAAGAAAATGA
1 -AAGTGCCAATATGCTGATTCAAGGCCAACGATAATGGACTTAAAGAAAATGA
* * * ** **
1061744 ATGTGCCAACAGGCTGATTCAAGGCCAGTGAT-ATCAAACTTGAAA-AAGAATGTTTAA
1 AAGTGCCAATATGCTGATTCAAGGCCAACGATAAT-GGACTT-AAAGAA-AATG----A
* * * * * *
1061801 TAAGTGCCAATGTGTTGATTCAAGGCCAATGACAATGAACTTAAAGAAAAT-T
1 -AAGTGCCAATATGCTGATTCAAGGCCAACGATAATGGACTTAAAGAAAATGA
* *
1061853 AGGTGCCAATATGCAGATTCAAGGCCA
1 AAGTGCCAATATGCTGATTCAAGGCCA
1061880 GCAATATCGA
Statistics
Matches: 189, Mismatches: 39, Indels: 37
0.71 0.15 0.14
Matches are distributed among these distances:
51 25 0.13
52 65 0.34
53 11 0.06
54 5 0.03
56 5 0.03
57 11 0.06
58 65 0.34
59 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (52 bp):
AAGTGCCAATATGCTGATTCAAGGCCAACGATAATGGACTTAAAGAAAATGA
Found at i:1061673 original size:110 final size:110
Alignment explanation
Indices: 1061523--1061922 Score: 527
Period size: 110 Copynumber: 3.6 Consensus size: 110
1061513 TAAAGATATA
* * * * * *
1061523 AAGGTGCCAATATGCTAATTCAAAGTCAGCGACATCAGACTTGCA-AAAGAAAGTTTGACAAGTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTG-AGAAAGAAAGTTTAATAAGTG
* *
1061587 CCAATGTGTTGATTTAAGGCCAACGATAATGGACTTAAAGAAAATG
65 CCAATGTGTTGATTCAAGGCCAATGATAATGGACTTAAAGAAAATG
* *
1061633 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTGAGAAATAAAGTTTAATAAGTGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTGAGAAAGAAAGTTTAATAAGTGC
*
1061698 CAATGTGTTAATTCAAGGCCAATGATAATGGACTTAAAGAAAATG
66 CAATGTGTTGATTCAAGGCCAATGATAATGGACTTAAAGAAAATG
* * * * * * *
1061743 AATGTGCCAACAGGCTGATTCAAGGCCAGTGATATCAAACTTGAAAAAGAATGTTTAATAAGTGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTGAGAAAGAAAGTTTAATAAGTGC
* *
1061808 CAATGTGTTGATTCAAGGCCAATGACAATGAACTTAAAGAAAAT-
66 CAATGTGTTGATTCAAGGCCAATGATAATGGACTTAAAGAAAATG
* * * * * *
1061852 TAGGTGCCAATATGCAGATTCAAGGCCAGCAATATC-GAACTTGAGAAAAAAAGTTTGATAAGCG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCAG-ACTTGAGAAAGAAAGTTTAATAAGTG
1061916 CCAATGT
65 CCAATGT
1061923 ATTTAAGAGC
Statistics
Matches: 252, Mismatches: 36, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
109 58 0.23
110 194 0.77
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (110 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTGAGAAAGAAAGTTTAATAAGTGC
CAATGTGTTGATTCAAGGCCAATGATAATGGACTTAAAGAAAATG
Found at i:1062540 original size:19 final size:20
Alignment explanation
Indices: 1062496--1062548 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
1062486 CTACCAGTTT
**
1062496 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
*
1062516 CATGTATTGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1062535 CATGTATCGATACA
1 CATGTATCGATACA
1062549 TTATATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1065590 original size:21 final size:21
Alignment explanation
Indices: 1065566--1065605 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1065556 GATATTAAAA
*
1065566 AATTGGCTAATGAA-AATAATG
1 AATTAGCTAA-GAAGAATAATG
1065587 AATTAGCTAAGAAGAATAA
1 AATTAGCTAAGAAGAATAA
1065606 GAACTTGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.53, C:0.05, G:0.17, T:0.25
Consensus pattern (21 bp):
AATTAGCTAAGAAGAATAATG
Found at i:1070763 original size:383 final size:383
Alignment explanation
Indices: 1070056--1070825 Score: 1450
Period size: 383 Copynumber: 2.0 Consensus size: 383
1070046 ATATCTCAAG
*
1070056 TCCTTTTACTTTCTTTATTTTCCTACATTTGAGATGTTTAGTTGGATTACCCTCTTAAGCCTTAA
1 TCCTTTTACTTTCTTTATTTTCCTACACTTGAGATGTTTAGTTGGATTACCCTCTTAAGCCTTAA
1070121 CGTGTTGGTTCGTGAGAACCTTGTCCGGGCCTTTCTTTGTAACGCTCGTCTCGAGCATAACGATA
66 CGTGTTGGTTCGTGAGAACCTTGTCCGGGCCTTTCTTTGTAACGCTCGTCTCGAGCATAACGATA
1070186 GCAATGAAATTGTTGCTATTCACTCCTATCTCATGGGTTAAGACTTGATCTTTACCCCCTTCATT
131 GCAATGAAATTGTTGCTATTCACTCCTATCTCATGGGTTAAGACTTGATCTTTACCCCCTTCATT
1070251 CTAGCCGATACACTAAACATGCCATGTGAGGGAGAGACCAAAGAGGGGACAGCCCTTCGTAACAT
196 CTAGCCGATACACTAAACATGCCATGTGAGGGAGAGACCAAAGAGGGGACAGCCCTTCGTAACAT
* *
1070316 GAGAGTTCCCCTAAACAAAGCCACTTGCCTTCCACCACATGATCGATACCTTCACCTTCTCATTA
261 GAGAGTTCCCCTAAACAAAGCCACTCGCCTTCCACCACATGATCGATAACTTCACCTTCTCATTA
* *
1070381 CACATATCCTCCGACTGTTCGGCACTCAAGAGGAACCACAACAAATGGAAAAAGACGT
326 CACATATCCTCCGACCGTTCGGCACTCAAGAGGAACCACAACAAATGGAAAAAGACGC
1070439 TCCTTTTACTTTCTTTATTTTCCTACACTTGAGATGTTTAGTTGGATTACCCTCTTAAGCCTTAA
1 TCCTTTTACTTTCTTTATTTTCCTACACTTGAGATGTTTAGTTGGATTACCCTCTTAAGCCTTAA
*
1070504 CGTGTTGGTTCGTGAGAACCTTGTTCGGGCCTTTCTTTGTAACGCTCGTCTCGAGCATAACGATA
66 CGTGTTGGTTCGTGAGAACCTTGTCCGGGCCTTTCTTTGTAACGCTCGTCTCGAGCATAACGATA
1070569 GCAATGAAATTGTTGCTATTCACTCCTATCTCATGGGTTAAGACTTGATCTTTACCCCCTTCATT
131 GCAATGAAATTGTTGCTATTCACTCCTATCTCATGGGTTAAGACTTGATCTTTACCCCCTTCATT
*
1070634 CTAGCCGATACACTAAACATGCCATGTGAGGGAGAGACCAAATAGGGGACAGCCCTTCGTAACAT
196 CTAGCCGATACACTAAACATGCCATGTGAGGGAGAGACCAAAGAGGGGACAGCCCTTCGTAACAT
1070699 GAGAGTTCCCCTAAACAAAGCCACTCGCCTTCCACCACATGATCGATAACTTCACCTTCTCATTA
261 GAGAGTTCCCCTAAACAAAGCCACTCGCCTTCCACCACATGATCGATAACTTCACCTTCTCATTA
* * *
1070764 CCCATATCCTCCGACCGTTTGGCACTCAAGAGGAACCACAACAAATGGAAAACGACGC
326 CACATATCCTCCGACCGTTCGGCACTCAAGAGGAACCACAACAAATGGAAAAAGACGC
1070822 TCCT
1 TCCT
1070826 CCTCCTCCTC
Statistics
Matches: 377, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
383 377 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (383 bp):
TCCTTTTACTTTCTTTATTTTCCTACACTTGAGATGTTTAGTTGGATTACCCTCTTAAGCCTTAA
CGTGTTGGTTCGTGAGAACCTTGTCCGGGCCTTTCTTTGTAACGCTCGTCTCGAGCATAACGATA
GCAATGAAATTGTTGCTATTCACTCCTATCTCATGGGTTAAGACTTGATCTTTACCCCCTTCATT
CTAGCCGATACACTAAACATGCCATGTGAGGGAGAGACCAAAGAGGGGACAGCCCTTCGTAACAT
GAGAGTTCCCCTAAACAAAGCCACTCGCCTTCCACCACATGATCGATAACTTCACCTTCTCATTA
CACATATCCTCCGACCGTTCGGCACTCAAGAGGAACCACAACAAATGGAAAAAGACGC
Found at i:1071917 original size:13 final size:13
Alignment explanation
Indices: 1071899--1071925 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1071889 ACATTACGCT
1071899 TTGTATCGATACA
1 TTGTATCGATACA
1071912 TTGTATCGATACA
1 TTGTATCGATACA
1071925 T
1 T
1071926 GAAACTGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1071989 original size:13 final size:13
Alignment explanation
Indices: 1071971--1072000 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1071961 CGATACATGG
*
1071971 TACATTGTATCGA
1 TACATTATATCGA
1071984 TACATTATATCGA
1 TACATTATATCGA
1071997 TACA
1 TACA
1072001 CAATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
TACATTATATCGA
Found at i:1073443 original size:21 final size:22
Alignment explanation
Indices: 1073404--1073446 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1073394 ATGATTTTGA
* *
1073404 TGAAAAATAAAGTATTTTAAAG
1 TGAAAAATAAAGAAATTTAAAG
1073426 TGAAAAAT-AAGAAATTTAAAG
1 TGAAAAATAAAGAAATTTAAAG
1073447 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (22 bp):
TGAAAAATAAAGAAATTTAAAG
Found at i:1078099 original size:15 final size:15
Alignment explanation
Indices: 1078079--1078107 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1078069 CATCTGAGTC
1078079 ATCATCTTCATCATT
1 ATCATCTTCATCATT
1078094 ATCATCTTCATCAT
1 ATCATCTTCATCAT
1078108 CTTTGATGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (15 bp):
ATCATCTTCATCATT
Found at i:1078255 original size:20 final size:20
Alignment explanation
Indices: 1078230--1078271 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1078220 TAGTGTGTTA
1078230 GGATCCTTGGATTCTTCGAT
1 GGATCCTTGGATTCTTCGAT
1078250 GGATCCTTGGATTCTTCGAT
1 GGATCCTTGGATTCTTCGAT
1078270 GG
1 GG
1078272 CGGTGACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.29, T:0.38
Consensus pattern (20 bp):
GGATCCTTGGATTCTTCGAT
Found at i:1079439 original size:79 final size:77
Alignment explanation
Indices: 1079308--1079554 Score: 257
Period size: 79 Copynumber: 3.1 Consensus size: 77
1079298 AACGGGGCTA
* * * *
1079308 GAGTATCCCCAATTATGGAAAATCGATGTTCT-GAAAATAAAATCGAGGTTGGAGTATCCCCTCG
1 GAGTATCCCCGATTATGGAAAATCAATGTT-TAG-AAAT-AAACCGGGGTTGGAGTATCCCCTCG
1079372 GAAATAACGAGGTTG
63 GAAATAACGAGGTTG
* * *
1079387 GAGTATCCCCGATTATGGAAAATCTATGCTTTAGAAATAAGGCCGGGGTTGGAGTAT-CCCTATG
1 GAGTATCCCCGATTATGGAAAATCAATG-TTTAGAAATAA-ACCGGGGTTGGAGTATCCCCT-CG
* *
1079451 AAAATAACGGGGTTG
63 GAAATAACGAGGTTG
* * * * *
1079466 CAGTATCCCCGATTGT-GAGAAATCAATATTTTAGAAATAAACACAGGGTTGGAGTATCCCTTCG
1 GAGTATCCCCGATTATGGA-AAATCAAT-GTTTAGAAATAAAC-CGGGGTTGGAGTATCCCCTCG
*
1079530 GAAATAACGAGATTG
63 GAAATAACGAGGTTG
1079545 GAGTATCCCC
1 GAGTATCCCC
1079555 AATGAAATAA
Statistics
Matches: 140, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
78 9 0.06
79 125 0.89
80 6 0.04
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (77 bp):
GAGTATCCCCGATTATGGAAAATCAATGTTTAGAAATAAACCGGGGTTGGAGTATCCCCTCGGAA
ATAACGAGGTTG
Found at i:1079548 original size:28 final size:28
Alignment explanation
Indices: 1079514--1079580 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
1079504 AAACACAGGG
***
1079514 TTGGAGTATCCCTTCGGAAATAACGAGA
1 TTGGAGTATCCCCAAGGAAATAACGAGA
* * *
1079542 TTGGAGTATCCCCAATGAAATAACGGGG
1 TTGGAGTATCCCCAAGGAAATAACGAGA
1079570 TTGGAGTATCC
1 TTGGAGTATCC
1079581 TCGATTGTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (28 bp):
TTGGAGTATCCCCAAGGAAATAACGAGA
Found at i:1079637 original size:51 final size:50
Alignment explanation
Indices: 1079573--1079683 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 50
1079563 AACGGGGTTG
* * * *
1079573 GAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAG-TTA
1 GAGTATCCCCGATTATGAAAAATAGGTGTTTTAGAAAT-AAATCGG-GTTTA
* *
1079624 GAGTATCCCCGATTATGGAAAATAGGTGTTTTAGAAATAAATCGGGTTTG
1 GAGTATCCCCGATTATGAAAAATAGGTGTTTTAGAAATAAATCGGGTTTA
1079674 GAGTATCCCC
1 GAGTATCCCC
1079684 TCGGAAATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.02
50 19 0.36
51 33 0.62
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (50 bp):
GAGTATCCCCGATTATGAAAAATAGGTGTTTTAGAAATAAATCGGGTTTA
Found at i:1081759 original size:13 final size:13
Alignment explanation
Indices: 1081741--1081808 Score: 91
Period size: 13 Copynumber: 5.2 Consensus size: 13
1081731 CCACTATTCA
1081741 TGTATCGATACAT
1 TGTATCGATACAT
* *
1081754 TGTATCGATATAG
1 TGTATCGATACAT
*
1081767 TGTATTGATACAT
1 TGTATCGATACAT
* *
1081780 TGTATCGATATAG
1 TGTATCGATACAT
1081793 TGTATCGATACAT
1 TGTATCGATACAT
1081806 TGT
1 TGT
1081809 GAATAGTATC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1081777 original size:26 final size:26
Alignment explanation
Indices: 1081741--1081808 Score: 127
Period size: 26 Copynumber: 2.6 Consensus size: 26
1081731 CCACTATTCA
1081741 TGTATCGATACATTGTATCGATATAG
1 TGTATCGATACATTGTATCGATATAG
*
1081767 TGTATTGATACATTGTATCGATATAG
1 TGTATCGATACATTGTATCGATATAG
1081793 TGTATCGATACATTGT
1 TGTATCGATACATTGT
1081809 GAATAGTATC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.41
Consensus pattern (26 bp):
TGTATCGATACATTGTATCGATATAG
Found at i:1083908 original size:21 final size:21
Alignment explanation
Indices: 1083884--1083940 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
1083874 TAATATTCTT
* *
1083884 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
1083905 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
* *
1083926 GAAGAGAAAAGAAAT
1 GAAAAGAAAATAAAT
1083941 AAGTTGCAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.63, C:0.00, G:0.19, T:0.18
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:1087262 original size:13 final size:13
Alignment explanation
Indices: 1087244--1087268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1087234 ATTTTGCTTA
1087244 GTATCGATACATT
1 GTATCGATACATT
1087257 GTATCGATACAT
1 GTATCGATACAT
1087269 AAACTGGCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1088720 original size:13 final size:13
Alignment explanation
Indices: 1088673--1088702 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1088663 GTAAACCCGT
1088673 AATGTATCGATAC
1 AATGTATCGATAC
*
1088686 AATGTATTGATAC
1 AATGTATCGATAC
1088699 AATG
1 AATG
1088703 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1089380 original size:61 final size:61
Alignment explanation
Indices: 1089285--1090096 Score: 772
Period size: 61 Copynumber: 13.4 Consensus size: 61
1089275 ATAAAATGGG
* * * * * * ** *
1089285 TCCTGCTCCTTGTGGACTAGAAGGTGCTACCAACTTGTGTTGGCTTTGCAAGGTGAAA-GCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGCA
1089346 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * **
1089407 TCCTGCTCTTTGAGGGCT-GAAGGTGCCACCAGCTTGTGTGGGCTTCGAAAGGAGAAA-GCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCA
* * * *
1089467 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAATGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * *
1089528 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * *
1089590 TCTTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTT-----G-AAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
** * * *
1089644 TCCTAATCTTGGAGGACTGGAAAGTGCCACCAACATGTGTAGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * * *
1089705 TCCTACTCTTTGAGGACTAGAAGAGTGCCACCTACTTGTGTGGGCTTTAAAAGGAAAAGACG
1 TCCTGCTCTTTGAGGACTGGAA-AGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * * *
1089767 CCCTGCTCTTTGAGGACTGAAAAGTGCTACCAACTTGTGTGTGCTTTAAAAGGAAAATGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * * **
1089828 TCATGCCCCTT-AGGAATAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * *
1089888 TCCTGCTCATTGAGGACTGAAAAGTGCCACCAACTTGTGT-GGCTTT------AAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * * *
1089942 TCTTGCTTTTTGAGGACTGAAAAATGCCACCAACTTGTGTGTGCTTT-----G-AAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* *
1089997 TCCTGCTCTTTGAGGACTAAAGGTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 TCCTGCTCTTTGAGGACT----G-GA--A---AG-TG--CCACCAACTTGTGTGGGCTTTAAAAG
*
1090062 GAGAAGGCA
53 GAAAAGGCA
* *
1090071 TCCTACTCTTTGAGGACTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTG
1090097 AAAGGAGAAA
Statistics
Matches: 625, Mismatches: 91, Indels: 68
0.80 0.12 0.09
Matches are distributed among these distances:
54 64 0.10
55 52 0.08
59 1 0.00
60 140 0.22
61 210 0.34
62 108 0.17
63 1 0.00
64 1 0.00
66 1 0.00
67 1 0.00
68 20 0.03
69 1 0.00
70 1 0.00
73 1 0.00
74 23 0.04
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
Found at i:1089518 original size:121 final size:123
Alignment explanation
Indices: 1089284--1090088 Score: 779
Period size: 121 Copynumber: 6.7 Consensus size: 123
1089274 AATAAAATGG
* * * * * ** *
1089284 GTCCTGCTCCTTGTGGACTAG-AAGGTGCTACCAACTTGTGTTGGCTTTGCAAGGTGAAA-GCAT
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGCAT
* *
1089347 CCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
65 CCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * **
1089406 ATCCTGCTCTTTGAGGGCT-G-AAGGTGCCACCAGCTTGTGTGGGCTTCGAAAGGAGAAA-GCAT
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCAT
* * *
1089468 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAATGGC
65 CCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
1089527 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* *
1089592 TTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTT-----G-AAAGGC
66 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
** * * * *
1089643 GTCCTAATCTTGGAGGACT-GGAAAGTGCCACCAACATGTGTAGGCTTTAAAAGGAAAAGGCATC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * *
1089707 CTACTCTTTGAGGACTAGAAGAGTGCCACCTACTTGTGTGGGCTTTAAAAGGAAAAGAC
66 CTGCTCTTTGAGGACTAGAAG-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
1089766 GCCCTGCTCTTTGAGGACT-GAAAAGTGCTACCAACTTGTGTGTGCTTTAAAAGGAAAATGCATC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * * * * *
1089830 ATGCCCCTT-AGGAATAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
66 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
1089887 ATCCTGCTCATTGAGGACT-GAAAAGTGCCACCAACTTGTGT-GGCTTT------AAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * ** *
1089944 TTGCTTTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGTGCTTT-----G-AAAGGC
66 CTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
*
1089996 ATCCTGCTCTTTGAGGACTAAAGGTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 GTCCTGCTCTTTGAGGACT--A---GA--A-----AAGTGCCACCAACTTGTGTGGGCTTTAAAA
* *
1090061 GGAGAAGGCATCCTACTCTTTGAGGACT
54 GGAAAAGGCATCCTGCTCTTTGAGGACT
1090089 GAAAAGTGAA
Statistics
Matches: 571, Mismatches: 78, Indels: 61
0.80 0.11 0.09
Matches are distributed among these distances:
109 24 0.04
110 1 0.00
114 13 0.02
115 86 0.15
116 25 0.04
117 24 0.04
120 5 0.01
121 181 0.32
122 73 0.13
123 118 0.21
129 21 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (123 bp):
GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:1089852 original size:298 final size:297
Alignment explanation
Indices: 1089352--1090096 Score: 902
Period size: 298 Copynumber: 2.5 Consensus size: 297
1089342 AGCATCCTGC
1089352 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTT
1 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGT-GGCTTTAAAAGGAAAAGGCATCCTGCTCTT
* **
1089417 TGAGGGCT-GAAG-GTGCCACCAGCTTGTGTGGGCTTCGAAAGGAGAAAGCATCCTGCTCTTTGA
65 TGAGGACTAGAAGAGTGCCACCA-CTTGTGTGGGCTTTAAAAGGA-AAAGCATCCTGCTCTTTGA
* * * * * * *
1089480 GGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAATGGCGTCCTGCTCTTTGAGGAC
128 GGACTGAAAAGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAATGGCATCATGCCCCTTGAGGAA
* * * *
1089545 TAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCTCTTTGAGGACTG-
193 TAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCATTGAGGACTGA
* * *
1089609 AAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCGTCCTAA
258 AAAGTGCCACCAACTTGTGT-GGCTTTAAAAGGCGTCCTAA
* * *
1089650 TCTTGGAGGACTGGAAAGTGCCACCAACATGTGTAGGCTTTAAAAGGAAAAGGCATCCTACTCTT
1 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGT-GGCTTTAAAAGGAAAAGGCATCCTGCTCTT
**
1089715 TGAGGACTAGAAGAGTGCCACCTACTTGTGTGGGCTTTAAAAGGAAAAGACGCCCTGCTCTTTGA
65 TGAGGACTAGAAGAGTGCCACC-ACTTGTGTGGGCTTTAAAAGGAAAAG-CATCCTGCTCTTTGA
* * *
1089780 GGACTGAAAAGTGCTACCAACTTGTGTGTGCTTTAAAAGGAAAAT-GCATCATGCCCCTT-AGGA
128 GGACTGAAAAGTGCCACCAACCTGTGTGGGCTTTAAAAGG-AAATGGCATCATGCCCCTTGAGGA
1089843 ATA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCATTGAGGACTG
192 ATAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCATTGAGGACTG
* **
1089907 AAAAGTGCCACCAACTTGTGTGGCTTTAAAAGGCGTCTTGC
257 AAAAGTGCCACCAACTTGTGTGGCTTTAAAAGGCGTCCTAA
* * *
1089948 TTTTTGAGGACTGAAAAATGCCACCAACTTGTGTGTGCTTT-----G-AAAGGCATCCTGCTCTT
1 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTG-GCTTTAAAAGGAAAAGGCATCCTGCTCTT
*
1090007 TGAGGACTAAAGGTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCAT
65 TGAGGACT--A---GA--A----G-AGTGCCACC-ACTTGTGTGGGCTTTAAAAGGA-AAAGCAT
*
1090072 CCTACTCTTTGAGGACTGAAAAGTG
116 CCTGCTCTTTGAGGACTGAAAAGTG
1090097 AAAGGAGAAA
Statistics
Matches: 387, Mismatches: 40, Indels: 34
0.84 0.09 0.07
Matches are distributed among these distances:
292 24 0.06
293 1 0.00
294 1 0.00
297 3 0.01
298 175 0.45
299 33 0.09
300 85 0.22
301 5 0.01
303 1 0.00
304 56 0.14
305 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (297 bp):
TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGCTTTAAAAGGAAAAGGCATCCTGCTCTTT
GAGGACTAGAAGAGTGCCACCACTTGTGTGGGCTTTAAAAGGAAAAGCATCCTGCTCTTTGAGGA
CTGAAAAGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAATGGCATCATGCCCCTTGAGGAATAG
AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCATTGAGGACTGAAAA
GTGCCACCAACTTGTGTGGCTTTAAAAGGCGTCCTAA
Found at i:1091092 original size:12 final size:12
Alignment explanation
Indices: 1091075--1091129 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
1091065 CTCTCTTTTA
1091075 TTTTTTTTG--T
1 TTTTTTTTGTTT
1091085 TTTTTTTTGTTT
1 TTTTTTTTGTTT
*
1091097 TGTTTTTTGTGTT
1 TTTTTTTTGT-TT
*
1091110 GTTTTTTTGTTT
1 TTTTTTTTGTTT
1091122 TTTTTTTT
1 TTTTTTTT
1091130 AAAAAAAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.24
12 19 0.50
13 10 0.26
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:1091097 original size:24 final size:24
Alignment explanation
Indices: 1091070--1091129 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
1091060 ATTTGCTCTC
1091070 TTTTATTTTTTTTGTT-TTTTTTTG
1 TTTT-TTTTTTTTGTTGTTTTTTTG
*
1091094 TTTTGTTTTTTGTGTTGTTTTTTTG
1 TTTT-TTTTTTTTGTTGTTTTTTTG
1091119 TTTTTTTTTTT
1 TTTTTTTTTTT
1091130 AAAAAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 20 0.62
25 12 0.38
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.87
Consensus pattern (24 bp):
TTTTTTTTTTTTGTTGTTTTTTTG
Found at i:1099787 original size:19 final size:18
Alignment explanation
Indices: 1099762--1099858 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
1099752 ATTTCAACAA
1099762 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1099780 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1099796 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1099812 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1099828 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1099844 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1099859 ATGTATCACT
Statistics
Matches: 66, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
18 1 0.02
19 35 0.53
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1099801 original size:13 final size:13
Alignment explanation
Indices: 1099783--1099839 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1099773 ACATAAGTGT
1099783 TGTATCGATACAA
1 TGTATCGATACAA
1099796 TGTATCGATACATAA
1 TGTATCGATAC--AA
1099811 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1099828 TGTATCGATACA
1 TGTATCGATACA
1099840 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1099801 original size:32 final size:32
Alignment explanation
Indices: 1099764--1099865 Score: 195
Period size: 32 Copynumber: 3.2 Consensus size: 32
1099754 TTCAACAATT
1099764 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1099796 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1099828 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1099860 TGTATC
1 TGTATC
1099866 ACTACGAAGC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1099929 original size:13 final size:13
Alignment explanation
Indices: 1099911--1099935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1099901 ATTACTAAAA
1099911 TGTATCGATACAT
1 TGTATCGATACAT
1099924 TGTATCGATACA
1 TGTATCGATACA
1099936 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.