Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 27 of 38
Found at i:4113682 original size:20 final size:21
Alignment explanation
Indices: 4113603--4113681 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
4113593 TATGTCCAAA
*
4113603 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
4113623 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
4113648 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
4113668 TTGTATCGATACAT
1 ATGTATCGATACAT
4113682 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:4113686 original size:13 final size:13
Alignment explanation
Indices: 4113668--4113706 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
4113658 ACATTTTTCT
4113668 TTGTATCGATACA
1 TTGTATCGATACA
4113681 TTGTATCGATACA
1 TTGTATCGATACA
*
4113694 CTGTATCGATACA
1 TTGTATCGATACA
4113707 GGGTGATTAT
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:4116173 original size:20 final size:20
Alignment explanation
Indices: 4116150--4116223 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
4116140 ACAATTCAAA
4116150 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
4116170 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
*
4116191 GTATCTATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
4116211 GTATCGATACATG
1 GTATCGATACATG
4116224 AAAAAGATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:4116194 original size:21 final size:21
Alignment explanation
Indices: 4116168--4116243 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4116158 ACATGTTGCA
4116168 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
* ****
4116189 ATGTATCTATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
4116209 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
4116230 ATGTATCGATACAT
1 ATGTATCGATACAT
4116244 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:4116202 original size:41 final size:41
Alignment explanation
Indices: 4116150--4116243 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
4116140 ACAATTCAAA
4116150 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
*
4116191 GTATCTATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
4116232 GTATCGATACAT
1 GTATCGATACAT
4116244 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:4116300 original size:13 final size:13
Alignment explanation
Indices: 4116282--4116307 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4116272 TACAGCAAGT
4116282 ATGTATCGATACA
1 ATGTATCGATACA
4116295 ATGTATCGATACA
1 ATGTATCGATACA
4116308 CAAAAAATTG
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:4121534 original size:19 final size:20
Alignment explanation
Indices: 4121486--4121534 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
4121476 GTTAACAGCC
*
4121486 CATGATTCATGCATTTTTAG
1 CATGATTCATGCATTTATAG
* *
4121506 CTATGCTTCATGCATTTATGG
1 C-ATGATTCATGCATTTATAG
4121527 CATG-TTCA
1 CATGATTCA
4121535 GCACCTCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.16
20 4 0.16
21 17 0.68
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.43
Consensus pattern (20 bp):
CATGATTCATGCATTTATAG
Found at i:4124316 original size:754 final size:754
Alignment explanation
Indices: 4122869--4124375 Score: 2719
Period size: 754 Copynumber: 2.0 Consensus size: 754
4122859 TTTTCAGACT
4122869 TCAATTAATCAAAGAATCCAGACAAATCTCTAAATTGTCAATTCGATTATTTCAAGATAATTGAT
1 TCAATTAATCAAAGAATCCAGACAAATCTCTAAATTGTCAATTCGATTATTTCAAGATAATTGAT
*
4122934 GGCAATTACGAGATACATCACGATCATTATGTTCTCTTTCTTCTTCCTTGTTTGACCTCGATAAT
66 GGCAATTACGAGATACATCACGATCATTATGTTCTCTTTCTTCTTCCTTATTTGACCTCGATAAT
* *
4122999 TCATTTACATGAAATATCATATGCTTTTTATCACATTATCAGTATGCTTCCTCCTTGTTAATCTT
131 TCATTTACATGAAATATCATAAGCATTTTATCACATTATCAGTATGCTTCCTCCTTGTTAATCTT
* * *
4123064 GATGGCACTCATATTTTTAAAACTGGTTTACAAAAATTGTAAGGTGATGTTCTGTGTCAGTATCT
196 GATGGCACTCATATTTTTAAAACTAGTTTACAAAAATTGTAAGGCGATGTTCCGTGTCAGTATCT
*
4123129 CTCTAGTGCTTGACACGGAATATCCTATTTTCAAAGTAAAATCCAGAGAGCTTTTATGTCTCTAT
261 CTCCAGTGCTTGACACGGAATATCCTATTTTCAAAGTAAAATCCAGAGAGCTTTTATGTCTCTAT
*
4123194 GTTTCCCATCTCTCTGGGGTGCATATGAGATGAAAACTTTTATCAAAACCTAGATTTATTTTTAT
326 GTTTCCCATCTCTCTAGGGTGCATATGAGATGAAAACTTTTATCAAAACCTAGATTTATTTTTAT
* *
4123259 ACAAAATTCATGCATTCAAAGGGGATCTTATCAAAATAATGATAAACCGAAATCAATGTAACCAA
391 AAAAAATTCATGCATTCAAAGGGGATCTTATCAAAATAATGATAAACCAAAATCAATGTAACCAA
* *
4123324 CTTTAAGTCAAAACATTGCTAGTAAGGTACCAATTTTGGGTATCGCGAGGAGGTTCGTACCTCTT
456 CTTTAAGTCAAAACATTGCTAGTAAGGTACCAATTTTGGGCATCGCGAGGAGGTTCATACCTCTT
* * *
4123389 TGCGCATAACCAACTCTCGAACCCAACCGACAAATCTCTAAAGTATGTAGACCACGGGATCGATG
521 TGCGCATAACCAACTCCCGAACCCAACCGACAAATCTCTAAAGTACGCAGACCACGGGATCGATG
4123454 TTTGGAGTTTCGTAACTCAAGACATAGGTTTAATAGGCATCCGATCAAGCCTAGCCCGAAATGAT
586 TTTGGAGTTTCGTAACTCAAGACATAGGTTTAATAGGCATCCGATCAAGCCTAGCCCGAAATGAT
4123519 CGGTGGCGACTCCAAAATTTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATA
651 CGGTGGCGACTCCAAAATTTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATA
4123584 CATCTACTGATCTTCCCCCTTTAATCAACATACTTTTCG
716 CATCTACTGATCTTCCCCCTTTAATCAACATACTTTTCG
*
4123623 TCAATTAATCAAAGAATCCAGACAAATCTTTAAATTGTCAATTCGATTATTTCAAGATAATTGAT
1 TCAATTAATCAAAGAATCCAGACAAATCTCTAAATTGTCAATTCGATTATTTCAAGATAATTGAT
*
4123688 GGCAATTACGAGATACATCACGATCATTATGTTTTCTTTCTTCTTCCTTATTTGACCTCGATAAT
66 GGCAATTACGAGATACATCACGATCATTATGTTCTCTTTCTTCTTCCTTATTTGACCTCGATAAT
*
4123753 TCATTTACATGAAATATCATAAGCATTTTATCACATTATCAGTATGCTTCCTCTTTGTTAATCTT
131 TCATTTACATGAAATATCATAAGCATTTTATCACATTATCAGTATGCTTCCTCCTTGTTAATCTT
*
4123818 GATGGCACTCATATTTTTAAAACTAGTTTACAAAAATTGTAAGGCGATGTTCCGTGTCGGTATCT
196 GATGGCACTCATATTTTTAAAACTAGTTTACAAAAATTGTAAGGCGATGTTCCGTGTCAGTATCT
4123883 CTCCAGTGCTTGACACGGAATATCCTA-TTTCAAAGTAAAATCCAGAGAGCTTTTATGTCTCTAT
261 CTCCAGTGCTTGACACGGAATATCCTATTTTCAAAGTAAAATCCAGAGAGCTTTTATGTCTCTAT
*
4123947 GTTTCCCATCTCTCTAGGGTGCATATGAGATGAAAACTTTTATCAAAACCTGGATTTATTTTTAT
326 GTTTCCCATCTCTCTAGGGTGCATATGAGATGAAAACTTTTATCAAAACCTAGATTTATTTTTAT
* *
4124012 AAAAAATTCATGCATTCAAAGGGGATCTTATCGAAATAATGATAAACCAAAATCAATGTAATCAA
391 AAAAAATTCATGCATTCAAAGGGGATCTTATCAAAATAATGATAAACCAAAATCAATGTAACCAA
4124077 CTTTAAGTCAAAACATTGCTAGTAAGGTACCAATTTTGGGCATCGCGAGGAGGTTCATACCTCTT
456 CTTTAAGTCAAAACATTGCTAGTAAGGTACCAATTTTGGGCATCGCGAGGAGGTTCATACCTCTT
* *
4124142 TGCGCATAACCAACTCCCGAACCCAACCGGCAAATCTCTAAAGTACGCAGACCATGGGATCGATG
521 TGCGCATAACCAACTCCCGAACCCAACCGACAAATCTCTAAAGTACGCAGACCACGGGATCGATG
* * * *
4124207 TTTTGAGTTTCGTAACTCAAGATATAGGTTTCAATAGGCATCCTATCATGCCTAGCCCGAAATGA
586 TTTGGAGTTTCGTAACTCAAGACATAGGTTT-AATAGGCATCCGATCAAGCCTAGCCCGAAATGA
* *
4124272 TCGGTGGCGACTCCAAAATTTCGGTCACTTCGTTGTGACCATTGAAGATCAATTAGATGGGTGAT
650 TCGGTGGCGACTCCAAAATTTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGAT
*
4124337 TCATCTACTGATCTTCCCCCTTTAATCAACATACTTTTC
715 ACATCTACTGATCTTCCCCCTTTAATCAACATACTTTTC
4124376 ATCATGCCAT
Statistics
Matches: 721, Mismatches: 31, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
753 313 0.43
754 408 0.57
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (754 bp):
TCAATTAATCAAAGAATCCAGACAAATCTCTAAATTGTCAATTCGATTATTTCAAGATAATTGAT
GGCAATTACGAGATACATCACGATCATTATGTTCTCTTTCTTCTTCCTTATTTGACCTCGATAAT
TCATTTACATGAAATATCATAAGCATTTTATCACATTATCAGTATGCTTCCTCCTTGTTAATCTT
GATGGCACTCATATTTTTAAAACTAGTTTACAAAAATTGTAAGGCGATGTTCCGTGTCAGTATCT
CTCCAGTGCTTGACACGGAATATCCTATTTTCAAAGTAAAATCCAGAGAGCTTTTATGTCTCTAT
GTTTCCCATCTCTCTAGGGTGCATATGAGATGAAAACTTTTATCAAAACCTAGATTTATTTTTAT
AAAAAATTCATGCATTCAAAGGGGATCTTATCAAAATAATGATAAACCAAAATCAATGTAACCAA
CTTTAAGTCAAAACATTGCTAGTAAGGTACCAATTTTGGGCATCGCGAGGAGGTTCATACCTCTT
TGCGCATAACCAACTCCCGAACCCAACCGACAAATCTCTAAAGTACGCAGACCACGGGATCGATG
TTTGGAGTTTCGTAACTCAAGACATAGGTTTAATAGGCATCCGATCAAGCCTAGCCCGAAATGAT
CGGTGGCGACTCCAAAATTTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATA
CATCTACTGATCTTCCCCCTTTAATCAACATACTTTTCG
Found at i:4126070 original size:79 final size:78
Alignment explanation
Indices: 4125873--4126106 Score: 229
Period size: 79 Copynumber: 2.9 Consensus size: 78
4125863 ATATTTCCCG
* * * * * *
4125873 ATGAGAAATTTAATATTTT-GGAGATAACAACGGGGTTGGGGTGTCCCCTTGAAAATGACGGGGC
1 ATGAGAAA-TCAATATTTTGGGA-ATAA-AACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGT
**
4125937 TGGAGTATCCCCGGTT
63 TGGAGTATCCCCAATT
* * * * * * *
4125953 GTGAAAAATCGATGA-TTAGGAAAAAAAATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTT
1 ATGAGAAATCAAT-ATTTTGGGAATAAAA-CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTT
4126017 GGAGTATCCCCAATT
64 GGAGTATCCCCAATT
* * **
4126032 ATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTG
1 ATGAGAAATCAATATTTTGGGAATAAA-ACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
4126097 GAGTATCCCC
65 GAGTATCCCC
4126107 GATGAAATAA
Statistics
Matches: 123, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
78 3 0.02
79 111 0.90
80 9 0.07
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (78 bp):
ATGAGAAATCAATATTTTGGGAATAAAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGG
AGTATCCCCAATT
Found at i:4126117 original size:28 final size:28
Alignment explanation
Indices: 4126061--4126137 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
4126051 GGAATAAAGC
*** **
4126061 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
4126089 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
4126117 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
4126138 TGTGAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:4126191 original size:53 final size:52
Alignment explanation
Indices: 4126120--4126342 Score: 229
Period size: 52 Copynumber: 4.3 Consensus size: 52
4126110 GAAATAACGA
* **
4126120 GGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTG-TTTTAAAAATAAAATCGG
* * *
4126173 AGCTGGAGTATCCCCGA-T-TAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAA--AAAATTGGTGTTTTAAAAATAAAATCGG
* * **
4126225 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTACCAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAAAAATAAAATCGG
* *** * * *
4126277 GGTTGGAGTATCCCCGATTATG-AAAAATCAATATTTTAATAAT-AAAGCAGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAAAAATAAAATC-GG
4126328 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
4126343 TCGAAAATAA
Statistics
Matches: 145, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
50 4 0.03
51 36 0.25
52 78 0.54
53 25 0.17
54 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAAAAATAAAATCGG
Found at i:4126423 original size:53 final size:51
Alignment explanation
Indices: 4126357--4126479 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
4126347 AAATAACGGG
* *
4126357 GTTGGAGTATCCCCGATTGT-GAAAAATTTGTGTTTTTTAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAG-AAAATTAGTG--TTTTAAAAATAAAATCGGA
*
4126410 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTAAAAATAAAATCGGA
* * *
4126461 GATGGAATATCCCTGATTA
1 GTTGGAGTATCCCCGATTA
4126480 CGGAGAATTG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
51 34 0.54
53 28 0.44
54 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTAAAAATAAAATCGGA
Found at i:4126472 original size:132 final size:131
Alignment explanation
Indices: 4126222--4126473 Score: 332
Period size: 132 Copynumber: 1.9 Consensus size: 131
4126212 AAAATAAAAT
** *
4126222 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTACCAATAAAATCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAAAAATAAAATCGGAGTTGGAGTA
* * *
4126287 TCCCCGATTATGAAAAATCAATATTTTAATAATAAAGCAGGGGTTGGAGTATCCCCTCGAAAATA
66 TCCCCGATTATGAAAAATCAATATTTTAATAATAAAGCAGGAGATGGAATATCCCCTCGAAAATA
4126352 A
131 A
*
4126353 CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTTGTGTTTTTTAAAAATAAAATCGGAGTTGGAG
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTG--TTTTAAAAATAAAATCGGAGTTGGAG
* * * *
4126417 TATCCCCGATTAT-AGAAAATTAGTGTTTTGAA-AATAAAATC-GGAGATGGAATATCCC
64 TATCCCCGATTATGA-AAAATCAATATTTT-AATAAT-AAAGCAGGAGATGGAATATCCC
4126474 TGATTACGGA
Statistics
Matches: 105, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
130 11 0.10
131 25 0.24
132 63 0.60
133 6 0.06
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (131 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAAAAATAAAATCGGAGTTGGAGTA
TCCCCGATTATGAAAAATCAATATTTTAATAATAAAGCAGGAGATGGAATATCCCCTCGAAAATA
A
Found at i:4128921 original size:32 final size:32
Alignment explanation
Indices: 4128880--4128942 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
4128870 TAGCTAATTA
*
4128880 TGTATCGATACAATACTTATCTATCGATACAT
1 TGTATCGATACAAAACTTATCTATCGATACAT
*
4128912 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATCTATCGATACA
4128943 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATCTATCGATACAT
Found at i:4128936 original size:19 final size:19
Alignment explanation
Indices: 4128877--4128944 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
4128867 TAGTAGCTAA
*
4128877 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
*
4128896 TTATCTATCGATAC---A-
1 TTATGTATCGATACAAAAC
4128911 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
4128928 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
4128945 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.66
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:4131222 original size:20 final size:20
Alignment explanation
Indices: 4131183--4131223 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4131173 ATTGTCTGCA
* * *
4131183 TGAAGCATGTATCGATACAT
1 TGAAGAATGTATCAACACAT
4131203 TGAAGAATGTATCAACACAT
1 TGAAGAATGTATCAACACAT
4131223 T
1 T
4131224 TAGGTCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (20 bp):
TGAAGAATGTATCAACACAT
Found at i:4131312 original size:51 final size:51
Alignment explanation
Indices: 4131189--4131378 Score: 220
Period size: 51 Copynumber: 3.7 Consensus size: 51
4131179 TGCATGAAGC
* *
4131189 ATGTATCGATACATTGAAGAATGTATCAACACATTTAGGTCAAAAATCCAGA
1 ATGTATCGATACAATGAAGAATGTATCAATACATTT-GGTCAAAAATCCAGA
* * * * * *
4131241 ATGCATCAATACAATAAAGAATGTATCGATACATTTGGTAAAAAAT-TAGAA
1 ATGTATCGATACAATGAAGAATGTATCAATACATTTGGTCAAAAATCCAG-A
* *
4131292 ATGTATCGATACAATGAAGAATGTATCAATACATTTGGTCAAAAACCCATA
1 ATGTATCGATACAATGAAGAATGTATCAATACATTTGGTCAAAAATCCAGA
* ** * *
4131343 ATCTATTAATACAATGAAAAATATATCAATACATTT
1 ATGTATCGATACAATGAAGAATGTATCAATACATTT
4131379 TTTTTCTAGA
Statistics
Matches: 115, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
50 2 0.02
51 82 0.71
52 31 0.27
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACAATGAAGAATGTATCAATACATTTGGTCAAAAATCCAGA
Found at i:4131470 original size:20 final size:20
Alignment explanation
Indices: 4131414--4131475 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
4131404 TGCATGGTCC
**
4131414 TGTATCGATACATTTCAAGCA
1 TGTATCGATAC-TTTCACTCA
* * *
4131435 TGTATCGATGCATTCACTTA
1 TGTATCGATACTTTCACTCA
4131455 TGTATCGATACTTTCACTCA
1 TGTATCGATACTTTCACTCA
4131475 T
1 T
4131476 TTTATTAATA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 23 0.70
21 10 0.30
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (20 bp):
TGTATCGATACTTTCACTCA
Found at i:4137579 original size:51 final size:52
Alignment explanation
Indices: 4137521--4137656 Score: 184
Period size: 51 Copynumber: 2.6 Consensus size: 52
4137511 TCTGGAATAA
* *
4137521 AAATGTATCGATACATTTTTCATTATATTGATACATTATGGGTTT-TGACCT
1 AAATGTATCGATACATTCTTCATTATATCGATACATTATGGGTTTCTGACCT
* * *
4137572 AAATGTATTGATACATTCTTCATTGTATCGATACATTCTGGGTTTCTGACCT
1 AAATGTATCGATACATTCTTCATTATATCGATACATTATGGGTTTCTGACCT
* * * *
4137624 TAATGTATCAATACATTCTTTAATATATCGATA
1 AAATGTATCGATACATTCTTCATTATATCGATA
4137657 TATGCTGGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 40 0.55
52 33 0.45
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTCATTATATCGATACATTATGGGTTTCTGACCT
Found at i:4142765 original size:14 final size:14
Alignment explanation
Indices: 4142746--4142773 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4142736 ATTAAACAAG
4142746 TTTCAAGATCAAAT
1 TTTCAAGATCAAAT
4142760 TTTCAAGATCAAAT
1 TTTCAAGATCAAAT
4142774 ATGAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TTTCAAGATCAAAT
Found at i:4145070 original size:77 final size:77
Alignment explanation
Indices: 4144895--4145089 Score: 191
Period size: 77 Copynumber: 2.5 Consensus size: 77
4144885 AAAATATCGA
* * * *
4144895 TTTTCCACCATCGAGGGTACTCCCAACCCCATTATTTCTGAGGGGACCCACTCCAACCCTGGTTT
1 TTTTCCACCATCGAGGATAAT-CCAA-CCCATTATTTTTGAGGGGA-CCACTCCAACCCTAGTTT
* *
4144960 TATTTCACACACCAT
63 TATTGCACACAACAT
* * * *
4144975 TTTTTCACTATCGGGGATAATCCAATCCCATTATTTTTGAGGGGA-CACTCTAACCCTAGTTTTA
1 TTTTCCACCATCGAGGATAATCCAA-CCCATTATTTTTGAGGGGACCACTCCAACCCTAGTTTTA
4145039 -TGC-CTA-AACAT
65 TTGCAC-ACAACAT
**
4145050 TGATTTCCACCATCGAGGATAATCCAACCTGTTATTTTTG
1 T--TTTCCACCATCGAGGATAATCCAACCCATTATTTTTG
4145090 TTGACTCCAA
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
75 6 0.06
76 14 0.15
77 38 0.40
79 22 0.23
80 16 0.17
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (77 bp):
TTTTCCACCATCGAGGATAATCCAACCCATTATTTTTGAGGGGACCACTCCAACCCTAGTTTTAT
TGCACACAACAT
Found at i:4147809 original size:51 final size:51
Alignment explanation
Indices: 4147744--4147959 Score: 220
Period size: 51 Copynumber: 4.3 Consensus size: 51
4147734 TCAGAAATAA
* * * * *
4147744 CGGGGTTAGAGTATCCCCAATGGTGGAAAATCGATGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAAC
* * * * * *
4147795 TGGGGTTGGAGTATCCTCGATTATGAAAAATCAATATTTTGGAAATAAAAC
1 CGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAAC
*** * * * *
4147846 TAAGGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTGGAAATAAGAC
1 CGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAAC
* * *
4147897 CAGGCTTGGAGTATCCCCAATTGTGAAAAAT-TA-GTTTTGGAAATAAAAC
1 CGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAAC
*
4147946 CGAGGTTGGAGTAT
1 CGGGGTTGGAGTAT
4147960 TCCTTCGGAA
Statistics
Matches: 135, Mismatches: 30, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
49 26 0.19
51 109 0.81
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAAC
Found at i:4147997 original size:77 final size:78
Alignment explanation
Indices: 4147897--4148071 Score: 221
Period size: 78 Copynumber: 2.3 Consensus size: 78
4147887 GAAATAAGAC
* * *
4147897 CAGGCTTGGAGTATCCCCAATTGTGAAAAATTAGT-TT-TGGAAATAAAACCGAGGTTGGAGTAT
1 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTCTGAAAAT-AAACCGAGGTTGGAGTAT
*
4147960 -TCCTTCGGAAATAA
65 CTCCTT-AGAAATAA
* * * *
4147974 CAGGGTTGGAATATCCCCGATTGTGGAAAATTGGTGTTCTGAAAATAAATCGAGGTTGGAGTATC
1 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTCTGAAAATAAACCGAGGTTGGAGTATC
4148039 TCCTTAGAAATAA
66 TCCTTAGAAATAA
**
4148052 TGGGGTTGGAGTATCCCCGA
1 CAGGGTTGGAGTATCCCCGA
4148072 GGAAATAACG
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
77 30 0.36
78 43 0.51
79 11 0.13
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (78 bp):
CAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTCTGAAAATAAACCGAGGTTGGAGTATC
TCCTTAGAAATAA
Found at i:4148060 original size:28 final size:28
Alignment explanation
Indices: 4148024--4148097 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
4148014 GAAAATAAAT
**
4148024 CGAGGTTGGAGTATCTCCTTA-GAAATAA
1 CGAGGTTGGAGTATC-CCCGAGGAAATAA
* *
4148052 TGGGGTTGGAGTATCCCCGAGGAAATAA
1 CGAGGTTGGAGTATCCCCGAGGAAATAA
4148080 CGAGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
4148098 AATTGTGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 3 0.08
28 36 0.92
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCGAGGAAATAA
Found at i:4148154 original size:51 final size:51
Alignment explanation
Indices: 4148083--4148188 Score: 140
Period size: 51 Copynumber: 2.1 Consensus size: 51
4148073 GAAATAACGA
* *
4148083 GGTTGGAGTATCCCCAATTGTGAAAAAACGGTATTTTGGAAATAAAATCGG
1 GGTTAGAGTATCCCCAATTGTGAAAAAACAGTATTTTGGAAATAAAATCGG
* * ** * *
4148134 GGTTAGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAGATCGG
1 GGTTAGAGTATCCCCAATTGTGAAAAAACAGTATTTTGGAAATAAAATCGG
4148185 GGTT
1 GGTT
4148189 GCAGTGTCCC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTTAGAGTATCCCCAATTGTGAAAAAACAGTATTTTGGAAATAAAATCGG
Found at i:4148215 original size:28 final size:27
Alignment explanation
Indices: 4148184--4148255 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
4148174 AATAAGATCG
*
4148184 GGGTTGCAGTGTCCCC-TCAGAAATAACA
1 GGGTTG-AGTATCCCCATCA-AAATAACA
* *
4148212 GGGTTAGAGTATCCCCATGAAAATAACG
1 GGGTT-GAGTATCCCCATCAAAATAACA
4148240 GGGTTGGAGTATCCCC
1 GGGTT-GAGTATCCCC
4148256 GATTGTGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 35 0.92
29 3 0.08
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (27 bp):
GGGTTGAGTATCCCCATCAAAATAACA
Found at i:4148245 original size:158 final size:157
Alignment explanation
Indices: 4147976--4148305 Score: 407
Period size: 158 Copynumber: 2.1 Consensus size: 157
4147966 GGAAATAACA
* * * * * *
4147976 GGGTTGGAATATCCCCGATTGTGGAAAATTGGTGTTCTGAAAATAAATCGAGGTTGGAGTATCTC
1 GGGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTCTGAAAATAAATCGAGGTTGCAGTATCCC
* ** * *
4148041 CTTAGAAATAATGGGGTTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCCCAATTGT-G
66 CTCAGAAATAACAGGGTTAGAGTATCCCCGAGAAAATAACGAGGTTGGAGTATCCCCAATTGTGG
*
4148105 AAA-AAACGGTATTTTGGAAATAAAATCG
131 AAATAAA-GGT-TTTTGAAAATAAAATCG
* * * * *
4148133 GGGTTAGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAGATCGGGGTTGCAGTGTCC
1 GGGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTCTGAAAATAA-ATCGAGGTTGCAGTATCC
* *
4148198 CCTCAGAAATAACAGGGTTAGAGTATCCCC-ATGAAAATAACGGGGTTGGAGTATCCCCGATTGT
65 CCTCAGAAATAACAGGGTTAGAGTATCCCCGA-GAAAATAACGAGGTTGGAGTATCCCCAATTGT
* *
4148262 GGAAATTAATGTTTTTGAAAATAAAATCG
129 GGAAATAAAGGTTTTTGAAAATAAAATCG
4148291 GGGTTAG-GTATCCCC
1 GGGTTAGAGTATCCCC
4148306 TCGTAAATAA
Statistics
Matches: 147, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
157 47 0.32
158 92 0.63
159 6 0.04
160 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (157 bp):
GGGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTCTGAAAATAAATCGAGGTTGCAGTATCCC
CTCAGAAATAACAGGGTTAGAGTATCCCCGAGAAAATAACGAGGTTGGAGTATCCCCAATTGTGG
AAATAAAGGTTTTTGAAAATAAAATCG
Found at i:4150782 original size:313 final size:315
Alignment explanation
Indices: 4150200--4150808 Score: 1118
Period size: 313 Copynumber: 1.9 Consensus size: 315
4150190 AATGGAATAG
*
4150200 TATTTTCTAAGTGTTTTTTGGTTTTTTGGTTGCTGAAGGATTCTCTAAGGGTTTCTTTGTTGCTG
1 TATTTTCTAAGTGTTTTTTGGTTTTTTGGTTGCTGAAGGATTCTCAAAGGGTTTCTTTGTTGCTG
4150265 GAACTTTGTTTTGCTACCAAAAGATCCCCTTTGCTGAGCCAATAGCCCTTATTTATCATCATGCT
66 GAACTTTGTTTTGCTACCAAAAGATCCCCTTTGCTGAGCCAATAGCCCTTATTTATCATCATGCT
*
4150330 CAGCCAATAGGATTAGGAGACACACCAAGGGCATTGTGGGGATTTTCTTTTGCATAAGGATATGA
131 CAGCCAATAGGATTAGGAGACACACCAAGGGCATTGTGGGGATTTTCTTTTGCATAAGGAGATGA
*
4150395 CCACTCACCAGCTCAGTCTGCCCCTCATTGCCATTGGCTCTGTAATGCAGTATAGTGGTCCCAAA
196 CCACTCACCAGCTCAGTCTGCCCCTCATTGCCATCGGCTCTGTAATGCAGTATAGTGGTCCCAAA
*
4150460 ATATATCAATACATCTAGGTAATTTTGAATGTATCAATGTATCAATACATTAAATTT
261 ATATATCAATACATCTAGGT-A-TTTGAATATATCAATGTATCAATACATTAAATTT
4150517 TATTTTCTAAGTGTTTTTTGGTTTTTTGGTTGCTGAAGGATTCTCAAAGGGTTTCTTTGTTGCTG
1 TATTTTCTAAGTGTTTTTTGGTTTTTTGGTTGCTGAAGGATTCTCAAAGGGTTTCTTTGTTGCTG
4150582 GAACTTTG-TTTGCTA-C-AAAGATCCCCTTTGCTGAGCCAATAGCCCTTATTTATCATCATGCT
66 GAACTTTGTTTTGCTACCAAAAGATCCCCTTTGCTGAGCCAATAGCCCTTATTTATCATCATGCT
4150644 CAGCCAATAGGATTAGGAGACACACCAAGGGCATTGTGGGGA-TTTCTTTTGCATAAGGAGATGA
131 CAGCCAATAGGATTAGGAGACACACCAAGGGCATTGTGGGGATTTTCTTTTGCATAAGGAGATGA
* *
4150708 CCACTCACCAGCTCAGTCTGCCCCTCATTGCCATCGGTTCTGTAATGCAGTATAGTGGTCCCAGA
196 CCACTCACCAGCTCAGTCTGCCCCTCATTGCCATCGGCTCTGTAATGCAGTATAGTGGTCCCAAA
4150773 ATATATCAATACATCTAGGTATTTGAATATATCAAT
261 ATATATCAATACATCTAGGTATTTGAATATATCAAT
4150809 ACATCTAGGC
Statistics
Matches: 286, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
311 14 0.05
312 1 0.00
313 103 0.36
314 88 0.31
315 1 0.00
316 7 0.02
317 72 0.25
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (315 bp):
TATTTTCTAAGTGTTTTTTGGTTTTTTGGTTGCTGAAGGATTCTCAAAGGGTTTCTTTGTTGCTG
GAACTTTGTTTTGCTACCAAAAGATCCCCTTTGCTGAGCCAATAGCCCTTATTTATCATCATGCT
CAGCCAATAGGATTAGGAGACACACCAAGGGCATTGTGGGGATTTTCTTTTGCATAAGGAGATGA
CCACTCACCAGCTCAGTCTGCCCCTCATTGCCATCGGCTCTGTAATGCAGTATAGTGGTCCCAAA
ATATATCAATACATCTAGGTATTTGAATATATCAATGTATCAATACATTAAATTT
Found at i:4153066 original size:16 final size:16
Alignment explanation
Indices: 4153045--4153094 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
4153035 AAGTCAAAAT
4153045 CAAAAATGAAAAAACA
1 CAAAAATGAAAAAACA
**
4153061 CAAAAAAAAAAAAACA
1 CAAAAATGAAAAAACA
*
4153077 AAAAAAGTGAAAAGAACA
1 CAAAAA-TGAAAA-AACA
4153095 AATGCAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 19 0.70
17 4 0.15
18 4 0.15
ACGTcount: A:0.78, C:0.10, G:0.08, T:0.04
Consensus pattern (16 bp):
CAAAAATGAAAAAACA
Found at i:4153070 original size:14 final size:14
Alignment explanation
Indices: 4153053--4153082 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4153043 ATCAAAAATG
*
4153053 AAAAAACACAAAAA
1 AAAAAAAACAAAAA
4153067 AAAAAAAACAAAAA
1 AAAAAAAACAAAAA
4153081 AA
1 AA
4153083 GTGAAAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAA
Found at i:4154796 original size:90 final size:87
Alignment explanation
Indices: 4154662--4154855 Score: 203
Period size: 90 Copynumber: 2.2 Consensus size: 87
4154652 ACTCAGTAGC
**** * *
4154662 ACCCTTCTCAAAGTCCATGACTCAGTGGCACCCTTTTTTTAAGTCCATGACTCAGTGGCA-TCCA
1 ACCCTTCTCAAAGTCCATGACTCAGTGGCACCCTTTCCCAAAGTCAACGACTCAGTGGCACT-C-
* *
4154726 TTTTAAAAGCCCATGACTTATTGGTA
64 TTTT-AAAGCCCATGACTCAATGG-A
* * * *
4154752 TCCCTTCTCAAAGTCCATGACTTAGTGGCA-TCTCTTCCCAAAGTCAACGACTCAGTGGTACTCT
1 ACCCTTCTCAAAGTCCATGACTCAGTGGCACCCT-TTCCCAAAGTCAACGACTCAGTGGCACTCT
*
4154816 TTTAAAGTCCATGACTCAATGGA
65 TTTAAAGCCCATGACTCAATGGA
*
4154839 ACCCTTTTCAAAGTCCA
1 ACCCTTCTCAAAGTCCA
4154856 CAACTTCGTG
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
87 16 0.18
88 16 0.18
89 6 0.07
90 48 0.55
91 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (87 bp):
ACCCTTCTCAAAGTCCATGACTCAGTGGCACCCTTTCCCAAAGTCAACGACTCAGTGGCACTCTT
TTAAAGCCCATGACTCAATGGA
Found at i:4154875 original size:29 final size:29
Alignment explanation
Indices: 4154584--4155079 Score: 172
Period size: 30 Copynumber: 16.9 Consensus size: 29
4154574 CTTTTGTTTT
* * * * *
4154584 AAGTCCATAACTTAGTGCCATCCTATTCA
1 AAGTCCACAACTTCGTGGCACCCTTTTCA
* * * **
4154613 AAGTCCACAATTTAGTGGCATCCTTTCTTG
1 AAGTCCACAACTTCGTGGCACCCTTT-TCA
* * *
4154643 AAGTCCACGAC-TCAGTAGCACCCTTCTCA
1 AAGTCCACAACTTC-GTGGCACCCTTTTCA
** **
4154672 AAGTCCATGAC-TCAGTGGCACCCTTTTTTT
1 AAGTCCACAACTTC-GTGGCACCC-TTTTCA
** * *
4154702 AAGTCCATGAC-TCAGTGGCATCCATTTTAA
1 AAGTCCACAACTTC-GTGGCA-CCCTTTTCA
* ** ** * *
4154732 AAGCCCATGACTTATTGGTATCCCTTCTCA
1 AAGTCCACAACTTCGTGGCA-CCCTTTTCA
** * * **
4154762 AAGTCCATGACTTAGTGGCATCTCTTCCCA
1 AAGTCCACAACTTCGTGGCA-CCCTTTTCA
* * * *
4154792 AAGTCAACGAC-TCAGTGGTACTCTTTT-A
1 AAGTCCACAACTTC-GTGGCACCCTTTTCA
** * *
4154820 AAGTCCATGAC-TCAATGGAACCCTTTTCA
1 AAGTCCACAACTTC-GTGGCACCCTTTTCA
*
4154849 AAGTCCACAACTTCGTGGCA-CCTTTTTA
1 AAGTCCACAACTTCGTGGCACCCTTTTCA
* * *
4154877 AAGTGCACAAC-TCTATGGCAACCCTTCT-A
1 AAGTCCACAACTTC-GTGGC-ACCCTTTTCA
* *
4154906 AAGTTCACAAC-TC-TACGACACCCCTTTT-A
1 AAGTCCACAACTTCGT--GGCA-CCCTTTTCA
*
4154935 AAGTCCACAAC-TCTGTGGCAACCTTTTCAA
1 AAGTCCACAACTTC-GTGGCACCCTTTTC-A
* * * *
4154965 AACTCCACAACTCCATGGCACCTTTTTCTA
1 AAGTCCACAACTTCGTGGCACCCTTTTC-A
*
4154995 AAGTCCACAACTCCGTGGCACCCTTTTCA
1 AAGTCCACAACTTCGTGGCACCCTTTTCA
* * * *** *
4155024 AAATTCAAAACTTCGTGGTGTCCATTTCA
1 AAGTCCACAACTTCGTGGCACCCTTTTCA
* *
4155053 AATTCCACAACTTTGTGGCACCCTTTT
1 AAGTCCACAACTTCGTGGCACCCTTTT
4155080 TGTTAGGATC
Statistics
Matches: 364, Mismatches: 84, Indels: 38
0.75 0.17 0.08
Matches are distributed among these distances:
27 3 0.01
28 51 0.14
29 144 0.40
30 161 0.44
31 5 0.01
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
AAGTCCACAACTTCGTGGCACCCTTTTCA
Found at i:4154974 original size:30 final size:30
Alignment explanation
Indices: 4154818--4155022 Score: 165
Period size: 29 Copynumber: 7.0 Consensus size: 30
4154808 GGTACTCTTT
** *
4154818 TAAAGTCCATGACTCAATGG-AACCCTTTTC
1 TAAAGTCCACAACTCTATGGCAA-CCTTTTC
*
4154848 -AAAGTCCACAACT-TCGTGGC-ACCTTTT-
1 TAAAGTCCACAACTCT-ATGGCAACCTTTTC
* *
4154875 TAAAGTGCACAACTCTATGGCAACC-CTTC
1 TAAAGTCCACAACTCTATGGCAACCTTTTC
* * * * *
4154904 TAAAGTTCACAACTCTACGACACCCCTTT-
1 TAAAGTCCACAACTCTATGGCAACCTTTTC
*
4154933 TAAAGTCCACAACTCTGTGGCAACCTTTTC
1 TAAAGTCCACAACTCTATGGCAACCTTTTC
* * *
4154963 AAAACTCCACAACTCCATGGC-ACCTTTTTC
1 TAAAGTCCACAACTCTATGGCAACC-TTTTC
** *
4154993 TAAAGTCCACAACTCCGTGGCACCCTTTTC
1 TAAAGTCCACAACTCTATGGCAACCTTTTC
4155023 AAAATTCAAA
Statistics
Matches: 139, Mismatches: 26, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
28 24 0.17
29 66 0.47
30 47 0.34
31 2 0.01
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (30 bp):
TAAAGTCCACAACTCTATGGCAACCTTTTC
Found at i:4155521 original size:20 final size:20
Alignment explanation
Indices: 4155468--4155523 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
4155458 TGTATCAATA
*
4155468 AATTGTATCGACACATGATG
1 AATTGTATCGATACATGATG
*
4155488 AATTGTATCGATACATGGTG
1 AATTGTATCGATACATGATG
*
4155508 AATTGTATCAATACAT
1 AATTGTATCGATACAT
4155524 TGAGCCCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (20 bp):
AATTGTATCGATACATGATG
Found at i:4155574 original size:19 final size:20
Alignment explanation
Indices: 4155550--4155587 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4155540 TAAATTTCAA
4155550 ATGCA-TGTATCGATACATT
1 ATGCATTGTATCGATACATT
4155569 ATGCATTGTATCGATACAT
1 ATGCATTGTATCGATACAT
4155588 AGGAGCCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGCATTGTATCGATACATT
Found at i:4157958 original size:32 final size:33
Alignment explanation
Indices: 4157917--4157978 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
4157907 TAGCCAAACT
*
4157917 TGTATCGATACAGC-AAGTA-TGTATCGATAAAA
1 TGTATCGATACA-CAAAATATTGTATCGATAAAA
4157949 TGTATCGATACACAAAATATTGTATCGATA
1 TGTATCGATACACAAAATATTGTATCGATA
4157979 CATTGGCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 1 0.04
32 16 0.59
33 10 0.37
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (33 bp):
TGTATCGATACACAAAATATTGTATCGATAAAA
Found at i:4160163 original size:21 final size:21
Alignment explanation
Indices: 4160130--4160174 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4160120 TTGCAAGTTG
*
4160130 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
4160152 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
4160172 AAA
1 AAA
4160175 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:4161994 original size:15 final size:15
Alignment explanation
Indices: 4161974--4162004 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4161964 TAAAAATGTC
*
4161974 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4161989 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4162004 C
1 C
4162005 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4164096 original size:20 final size:20
Alignment explanation
Indices: 4164017--4164096 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
4164007 AATGTCCAAA
*
4164017 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
4164037 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
4164062 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
4164082 TTGTATCGATACATT
1 ATGTATCGATACATT
4164097 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:4164100 original size:13 final size:13
Alignment explanation
Indices: 4164082--4164120 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
4164072 ACATTTTTCT
4164082 TTGTATCGATACA
1 TTGTATCGATACA
4164095 TTGTATCGATACA
1 TTGTATCGATACA
*
4164108 CTGTATCGATACA
1 TTGTATCGATACA
4164121 GGGTGATTAT
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:4167348 original size:21 final size:20
Alignment explanation
Indices: 4167307--4167368 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
4167297 CGATTATATC
* * *
4167307 GATACATTGTATCAATGCAT
1 GATAAATTGTATCGATACAT
*
4167327 GATTAAATTGTATTGATACAT
1 GA-TAAATTGTATCGATACAT
*
4167348 GATGAATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
4167368 G
1 G
4167369 TGGCCCAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (20 bp):
GATAAATTGTATCGATACAT
Found at i:4169459 original size:21 final size:21
Alignment explanation
Indices: 4169433--4169478 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
4169423 TTGCAAGAAG
*
4169433 AAAATAAAGAATTAACTAATA
1 AAAATAAAGAATTAACTAAGA
*
4169454 AAAATAATGAATTAACTAAGA
1 AAAATAAAGAATTAACTAAGA
4169475 AAAA
1 AAAA
4169479 CAAATCTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (21 bp):
AAAATAAAGAATTAACTAAGA
Found at i:4174318 original size:52 final size:52
Alignment explanation
Indices: 4174238--4174358 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
4174228 TGATTTTTTG
4174238 CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTA
1 CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTA
* * *
4174290 CCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTG
1 CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTA
4174342 CCTGCATGTATCGATAC
1 CCTGCATGTATCGATAC
4174359 GAAGATCAGT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (52 bp):
CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTA
Found at i:4174370 original size:52 final size:51
Alignment explanation
Indices: 4174234--4174385 Score: 182
Period size: 52 Copynumber: 2.9 Consensus size: 51
4174224 AATATGATTT
*
4174234 TTTGCCTGCATGTATCGATAC-ATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACAATATC--AGTGTATCGATACATCTGGGCAAA
* * *
4174286 TTTACCTGTATGTATCGATACATTTTAT-AGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACA--ATATCAGTGTATCGATACATCTGGGCAAA
* * *
4174338 TTTGCCTGCATGTATCGATACGAAGATCAGTGTATCGATGCATTTGGG
1 TTTGCCTGCATGTATCGATAC-AATATCAGTGTATCGATACATCTGGG
4174386 TAATGTATCG
Statistics
Matches: 85, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
51 2 0.02
52 80 0.94
53 1 0.01
55 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (51 bp):
TTTGCCTGCATGTATCGATACAATATCAGTGTATCGATACATCTGGGCAAA
Found at i:4174487 original size:19 final size:19
Alignment explanation
Indices: 4174463--4174557 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
4174453 TTTGATACAT
4174463 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
4174482 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
4174495 GGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
4174514 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
4174527 GGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
4174546 TGTATCGATACA
1 TGTATCGATACA
4174558 TTGTATCGAT
Statistics
Matches: 60, Mismatches: 4, Indels: 24
0.68 0.05 0.27
Matches are distributed among these distances:
13 16 0.27
14 2 0.03
16 12 0.20
18 2 0.03
19 28 0.47
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:4174492 original size:32 final size:32
Alignment explanation
Indices: 4174425--4174571 Score: 251
Period size: 32 Copynumber: 4.6 Consensus size: 32
4174415 GCTTCGTAGT
* *
4174425 GATACATTGTATCGATACAA-ACTTATGTTTT
1 GATACATTGTATCGATACAACACTTATGTATC
4174456 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
*
4174488 GATACATGGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
*
4174520 GATACATGGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
4174552 GATACATTGTATCGATACAA
1 GATACATTGTATCGATACAA
4174572 ATCGTTGAAA
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
31 20 0.18
32 91 0.82
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (32 bp):
GATACATTGTATCGATACAACACTTATGTATC
Found at i:4174564 original size:13 final size:13
Alignment explanation
Indices: 4174482--4174570 Score: 52
Period size: 13 Copynumber: 5.9 Consensus size: 13
4174472 ACAACACTTA
4174482 TGTATCGATACAT
1 TGTATCGATACAT
*
4174495 GGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
4174513 ATGTATCGATACAT
1 -TGTATCGATACAT
*
4174527 GGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
4174545 ATGTATCGATACAT
1 -TGTATCGATACAT
4174559 TGTATCGATACA
1 TGTATCGATACA
4174571 AATCGTTGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 24
0.68 0.05 0.27
Matches are distributed among these distances:
13 28 0.47
14 2 0.03
16 12 0.20
18 2 0.03
19 16 0.27
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4175507 original size:49 final size:49
Alignment explanation
Indices: 4175415--4175905 Score: 565
Period size: 49 Copynumber: 10.1 Consensus size: 49
4175405 CTTAGGAATG
* * * **
4175415 TTAAAGTTGAAGGTGCCAATGTGGTGATTGAAGGCCAATGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * *
4175464 TTAAAGATGAAGGTGCCAATTTGCTGATGCAAGGTCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
4175513 GTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
*
4175565 TTAAAGATGAAGGTGCCAATGTGCTGATTTAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
4175614 TTAAAGATGACAAAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* *
4175666 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGTCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* *
4175715 TT--A-A--AA-GTGCCAATGTGCTGATTTAAGGCTAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * *
4175758 ATAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * *
4175810 TTAAAGATGAAGGTTCCAATGTGCTAATTCAAGGCCAGCAACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
*
4175859 TT--A-A--AA-GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
4175902 TTAA
1 TTAA
4175906 GGAAATGCCA
Statistics
Matches: 378, Mismatches: 47, Indels: 38
0.82 0.10 0.08
Matches are distributed among these distances:
43 69 0.18
44 4 0.01
45 1 0.00
46 3 0.01
47 2 0.01
49 169 0.45
51 2 0.01
52 128 0.34
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
Found at i:4175567 original size:101 final size:100
Alignment explanation
Indices: 4175424--4175905 Score: 564
Period size: 101 Copynumber: 4.9 Consensus size: 100
4175414 GTTAAAGTTG
* * ** *
4175424 AAGGTGCCAATGTGGTGATTGAAGGCCAATGACATTGGACTTAAAGATGAAGGTGCCAATTTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCT
* * *
4175489 GATGCAAGGTCAGCGACATTGGACGTAAAGATGACA
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGA-A
* * *
4175525 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCT
*
4175590 GATTTAAGGCCAGCGACATTGGACTTAAAGATGACA
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGA-A
* * * *
4175626 AAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCT
* *
4175691 GATTCAAGTCCAGCGATATTGGAC-T-----T-AA
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
* * * *
4175719 AA-GTGCCAATGTGCTGATTTAAGGCTAGCGACATTGGACATAAAGATGACAAAGGTGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGCCAATGT
*
4175783 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG--
63 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
* * *
4175819 AAGGTTCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTT--A-A--AA-GTGCCAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCT
*
4175878 GATTCAAGGCCAACGACATTGGACTTAA
66 GATTCAAGGCCAGCGACATTGGACTTAA
4175906 GGAAATGCCA
Statistics
Matches: 334, Mismatches: 36, Indels: 31
0.83 0.09 0.08
Matches are distributed among these distances:
92 77 0.23
93 5 0.01
94 1 0.00
95 39 0.12
96 1 0.00
98 1 0.00
99 1 0.00
100 3 0.01
101 206 0.62
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (100 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCT
GATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
Found at i:4175796 original size:144 final size:144
Alignment explanation
Indices: 4175427--4175905 Score: 658
Period size: 144 Copynumber: 3.3 Consensus size: 144
4175417 AAAGTTGAAG
* * * *
4175427 GTGCCAATGTGGTGATTGAAGGCCAATGACATTGGACTTAAAGATG---AAGGTGCCAATTTGCT
1 GTGCCAATGTGCTGATTTAAGGCCAACGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCT
* * * * * *
4175489 GATGCAAGGTCAGCGACATTGGACGTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAG
66 GATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAG
4175554 CGATATTGGACTTAAAGATGAA
128 CGATATTGGACTT--A-A--AA
* *
4175576 GGTGCCAATGTGCTGATTTAAGGCCAGCGACATTGGACTTAAAGATGACAAAGATGCCAATATGC
1 -GTGCCAATGTGCTGATTTAAGGCCAACGACATTGGACTTAAAGATGACAAAGGTGCCAATATGC
* *
4175641 TGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGTCCAGCG
65 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCG
4175706 ATATTGGACTTAAAA
130 ATATTGGACTTAAAA
* * *
4175721 GTGCCAATGTGCTGATTTAAGGCTAGCGACATTGGACATAAAGATGACAAAGGTGCCAATATGCT
1 GTGCCAATGTGCTGATTTAAGGCCAACGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCT
* * *
4175786 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTTCCAATGTGCTAATTCAAGGCCAGCAA
66 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
*
4175851 CATTGGACTTAAAA
131 TATTGGACTTAAAA
*
4175865 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAA
1 GTGCCAATGTGCTGATTTAAGGCCAACGACATTGGACTTAA
4175906 GGAAATGCCA
Statistics
Matches: 299, Mismatches: 27, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
144 172 0.58
145 2 0.01
147 1 0.00
148 1 0.00
150 81 0.27
153 42 0.14
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (144 bp):
GTGCCAATGTGCTGATTTAAGGCCAACGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
TATTGGACTTAAAA
Found at i:4175807 original size:95 final size:93
Alignment explanation
Indices: 4175625--4175905 Score: 297
Period size: 92 Copynumber: 3.0 Consensus size: 93
4175615 TAAAGATGAC
* * * *
4175625 AAAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACATAAAGATGAAGGTGCCAATATGC
*
4175690 TGATTCAAGTCCAGCGATATTGGACTTA
66 TGATTCAAGGCCAGCGATATTGGACTTA
* * *
4175718 AAAG-TGCCAATGTGCTGATTTAAGGCTAGCGACATTGGACATAAAGATGACAAAGGTGCCAATA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACATAAAGATG---AAGGTGCCAATA
4175782 TGCTGATTCAAGGCCAGCGATATTGGACTTA
63 TGCTGATTCAAGGCCAGCGATATTGGACTTA
* * * * *
4175813 AAGATGAAGGTTCCAATGTGCTAATTCAAGGCCAGCAACATTGGAC-T-TA-A--AA-GTGCCAA
1 AA-A-G-A--TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACATAAAGATGAAGGTGCCAA
* * *
4175872 TGTGCTGATTCAAGGCCAACGACATTGGACTTA
61 TATGCTGATTCAAGGCCAGCGATATTGGACTTA
4175905 A
1 A
4175906 GGAAATGCCA
Statistics
Matches: 162, Mismatches: 17, Indels: 19
0.82 0.09 0.10
Matches are distributed among these distances:
92 77 0.48
93 6 0.04
95 43 0.27
96 1 0.01
97 1 0.01
98 1 0.01
99 1 0.01
100 1 0.01
101 31 0.19
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (93 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACATAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTTA
Found at i:4175956 original size:33 final size:33
Alignment explanation
Indices: 4175919--4176104 Score: 225
Period size: 33 Copynumber: 5.7 Consensus size: 33
4175909 AATGCCACTA
*
4175919 ACTTGTGTGGGCTTTTGAGAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTTGAAAAGGGTTGCCACCG
* ** * * *
4175952 ACTTGTGTGGGC-TTTGGAGGGGGTTACGACCA
1 ACTTGTGTGGGCTTTTGAAAAGGGTTGCCACCG
** *
4175984 ACTTGTGTGGGCTTTAAAAAAAGGTTGCCACCG
1 ACTTGTGTGGGCTTTTGAAAAGGGTTGCCACCG
* *
4176017 ACTTGTGTGCGC-TTTGAAAAGGCTTGCCACCG
1 ACTTGTGTGGGCTTTTGAAAAGGGTTGCCACCG
* *
4176049 ACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCG
1 ACTTGTGTGGGCTTTTGAAAAGGGTTGCCACCG
4176082 ACTTGTGTGGGC-TTTGAAAAGGG
1 ACTTGTGTGGGCTTTTGAAAAGGG
4176105 GAAAGATGCC
Statistics
Matches: 124, Mismatches: 27, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
32 61 0.49
33 63 0.51
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.28
Consensus pattern (33 bp):
ACTTGTGTGGGCTTTTGAAAAGGGTTGCCACCG
Found at i:4176022 original size:65 final size:65
Alignment explanation
Indices: 4175913--4176103 Score: 265
Period size: 65 Copynumber: 2.9 Consensus size: 65
4175903 TAAGGAAATG
* * * * * ** *
4175913 CCACTAACTTGTGTGGGCTTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGGGGGTTA
1 CCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGCTTA
* * * *
4175978 CGACCAACTTGTGTGGGCTTTAAAAAAAGGTTGCCACCGACTTGTGTGCGCTTTGAAAAGGCTTG
1 CCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGCTTA
*
4176043 CCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGG
1 CCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGG
4176104 GGAAAGATGC
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 110 1.00
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (65 bp):
CCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGCTTA
Found at i:4176209 original size:68 final size:68
Alignment explanation
Indices: 4176134--4176452 Score: 326
Period size: 68 Copynumber: 4.9 Consensus size: 68
4176124 TGGACTTAAA
*
4176134 AAGGTGCCAGGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTGGGCTTAAAAGG
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTGGGCTTAAAAGG
4176199 AAC
66 AAC
** * * *
4176202 AAGGTGCCATAGAGTTGTGGACTTT------AAAAAG-GTGCCACGGAGTTGTGGACTTTAAAAG
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTGGGC-TTAAAAG
* *
4176260 AAAA
65 GAAC
* * * * ** ** *
4176264 AAGAATGCCATGCAGTTGTGGGC-TTAAAAGGAAAAA-AGCGCCACAAAGTTGTGGACTTTAAAA
1 AAG-GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTGGGC-TTAAAA
4176327 -G---
64 GGAAC
*
4176328 --GGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCATGCAGTTGTGGGCTTAAAAGG
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTGGGCTTAAAAGG
4176391 AAC
66 AAC
* *
4176394 AAGGTGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTT
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTGGGCTT
4176453 TTGAAGGTTG
Statistics
Matches: 206, Mismatches: 28, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
61 31 0.15
62 40 0.19
63 30 0.15
68 105 0.51
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.21
Consensus pattern (68 bp):
AAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTGGGCTTAAAAGG
AAC
Found at i:4176244 original size:28 final size:28
Alignment explanation
Indices: 4176117--4176258 Score: 106
Period size: 28 Copynumber: 4.7 Consensus size: 28
4176107 AAGATGCCTT
*
4176117 GGAGTTGTGGAC-TTAAAAAGGTGCCAG
1 GGAGTTGTGGACTTTAAAAAGGTGCCAC
*
4176144 GGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCAC
1 GGAGTTGTGGACTTT------AAAAAG-GTGCCAC
* * * *
4176179 GCAGTTGTGGGCTTAAAAGGAACAAGGTGCCAT
1 GGAGTTGTGGACTT--TA--AA-AAGGTGCCAC
*
4176212 AGAGTTGTGGACTTTAAAAAGGTGCCAC
1 GGAGTTGTGGACTTTAAAAAGGTGCCAC
4176240 GGAGTTGTGGACTTTAAAA
1 GGAGTTGTGGACTTTAAAA
4176259 GAAAAAAGAA
Statistics
Matches: 89, Mismatches: 13, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
27 12 0.13
28 29 0.33
29 2 0.02
31 2 0.02
33 18 0.20
34 9 0.10
35 17 0.19
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.23
Consensus pattern (28 bp):
GGAGTTGTGGACTTTAAAAAGGTGCCAC
Found at i:4176335 original size:28 final size:28
Alignment explanation
Indices: 4176303--4176356 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
4176293 GGAAAAAAGC
4176303 GCCACAAAGTTGTGGACTTTAAAAGGGT
1 GCCACAAAGTTGTGGACTTTAAAAGGGT
**
4176331 GCCACGGAGTTGTGGACTTTAAAAGG
1 GCCACAAAGTTGTGGACTTTAAAAGG
4176357 AAAAAGAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (28 bp):
GCCACAAAGTTGTGGACTTTAAAAGGGT
Found at i:4176424 original size:96 final size:96
Alignment explanation
Indices: 4176118--4176422 Score: 522
Period size: 96 Copynumber: 3.2 Consensus size: 96
4176108 AGATGCCTTG
* *
4176118 GAGTTGTGGAC-TTAAAAAGGTGCCAGGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGCA
1 GAGTTGTGGACTTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCATGCA
*
4176182 GTTGTGGGCTTAAAAGGAACAAGGTGCCATA
66 GTTGTGGGCTTAAAAGGAACAAGGTGCCACA
*
4176213 GAGTTGTGGACTTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGAAAAAAGAATGCCATGCA
1 GAGTTGTGGACTTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCATGCA
* * *
4176278 GTTGTGGGCTTAAAAGGAAAAAAGCGCCACA
66 GTTGTGGGCTTAAAAGGAACAAGGTGCCACA
* *
4176309 AAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCATGCA
1 GAGTTGTGGACTTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCATGCA
4176374 GTTGTGGGCTTAAAAGGAACAAGGTGCCACA
66 GTTGTGGGCTTAAAAGGAACAAGGTGCCACA
4176405 GAGTTGTGGACTTTAAAA
1 GAGTTGTGGACTTTAAAA
4176423 GGAAAAAGAA
Statistics
Matches: 195, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
95 11 0.06
96 184 0.94
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (96 bp):
GAGTTGTGGACTTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCATGCA
GTTGTGGGCTTAAAAGGAACAAGGTGCCACA
Found at i:4176495 original size:58 final size:58
Alignment explanation
Indices: 4176433--4176742 Score: 421
Period size: 58 Copynumber: 5.3 Consensus size: 58
4176423 GGAAAAAGAA
* * * * *
4176433 TGCCACGGAGTTGTGGGCTTTTGAAGGTTGCCACTGATTTGTGGGCTTTGAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAAGGG
* *
4176491 TGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAAGGG
4176549 TGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAAGGG
* * * *
4176607 TGCCACTGACTTGTGGGCTTTGGAAAAAGG-TGCCACTCACTTGTGGGCTTTGGATAA-GC
1 TGCCACTGACTTGTGGGCTTTTG---AAGGTTGCCACTAACTTGTGGGCTTTGGAAAAGGG
* * * *
4176666 TGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTAACTTGTGGGCTTTTG--AAGGT
1 TGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTAACTTGTGGGCTTTGGAAAAGGG
4176723 TGCCACTGACTTGTGGGCTT
1 TGCCACTGACTTGTGGGCTT
4176743 AAAAAGAAAC
Statistics
Matches: 233, Mismatches: 14, Indels: 11
0.90 0.05 0.04
Matches are distributed among these distances:
56 2 0.01
57 26 0.11
58 152 0.65
59 24 0.10
60 25 0.11
61 4 0.02
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.31
Consensus pattern (58 bp):
TGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAAGGG
Found at i:4176568 original size:88 final size:85
Alignment explanation
Indices: 4176427--4176742 Score: 368
Period size: 88 Copynumber: 3.6 Consensus size: 85
4176417 TTAAAAGGAA
* * * * * * *
4176427 AAAGAATGCCACGGAGTTGTGGGCTTTTGAAGGTTGCCACTGATTTGTGGGCTTTGAAAAAGGGT
1 AAAGGATGCCACTGACTTGTGGGCTTTGGAAGGGTGCCACTGACTTGTGGGCTTTG--AAAGGCT
*
4176492 GCCACTAACTTGTGGGCTTTTG
64 GCCACTAACTTGTGGGCTTTGG
* *
4176514 -AAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG-AAGGT
1 AAAGGATGCCACTGACTTGTGGGCTTTGG--AAGGGTGCCACTGACTTGTGGGC-TTTGAAAGGC
4176577 TGCCACTAACTTGTGGGCTTTGG
63 TGCCACTAACTTGTGGGCTTTGG
* * *
4176600 AAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAAGGTGCCACTCACTTGTGGGCTTTGGATAA-
1 -AAAGGATGCCACTGACTTGTGGGCTTTGG--AAGGGTGCCACTGACTTGTGGGCTTT-GA-AAG
*
4176664 GCTGCCACTGACTTGTGGGCTTTGG
61 GCTGCCACTAACTTGTGGGCTTTGG
* * *
4176689 AAAGGATGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTT
1 AAAGGATGCCACTGACTTGTGGGCTTTGGAAGGGTGCCACTGACTTGTGGGCTT
4176743 AAAAAGAAAC
Statistics
Matches: 201, Mismatches: 20, Indels: 17
0.84 0.08 0.07
Matches are distributed among these distances:
86 71 0.35
87 3 0.01
88 98 0.49
89 27 0.13
90 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.30
Consensus pattern (85 bp):
AAAGGATGCCACTGACTTGTGGGCTTTGGAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGCTGC
CACTAACTTGTGGGCTTTGG
Found at i:4176639 original size:146 final size:144
Alignment explanation
Indices: 4176443--4176742 Score: 460
Period size: 146 Copynumber: 2.1 Consensus size: 144
4176433 TGCCACGGAG
* * *
4176443 TTGTGGGCTTTTGAAGGTTGCCACTGATTTGTGGGCTTTGAAAAAGGGTGCCACTAACTTGTGGG
1 TTGTGGGCTTTGGAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCACTAACTTGTGGG
* * * * *
4176508 CTTTTGA-AGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG
66 CTTTGGATAAGCTGCCACTGACTTGTGGGCTTTGG-AAAGGATGCCACTAACTTGTGGGCTTTTG
4176572 AAGGTTGCCACTAAC
130 AAGGTTGCCACTAAC
*
4176587 TTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAA-GGTGCCACTCACTTGT
1 TTGTGGGCTTTGG--AAGGGTGCCACTGACTTGTGGGCTTT-GAAAAAGGGTGCCACTAACTTGT
4176651 GGGCTTTGGATAAGCTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTAACTTGTGGGCTTT
63 GGGCTTTGGATAAGCTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTAACTTGTGGGCTTT
*
4176716 TGAAGGTTGCCACTGAC
128 TGAAGGTTGCCACTAAC
4176733 TTGTGGGCTT
1 TTGTGGGCTT
4176743 AAAAAGAAAC
Statistics
Matches: 142, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
144 12 0.08
146 99 0.70
147 31 0.22
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (144 bp):
TTGTGGGCTTTGGAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCACTAACTTGTGGG
CTTTGGATAAGCTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTAACTTGTGGGCTTTTGA
AGGTTGCCACTAAC
Found at i:4177969 original size:14 final size:13
Alignment explanation
Indices: 4177947--4177990 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
4177937 CCTTTGCACC
4177947 TTTTTTGTTTTGT
1 TTTTTTGTTTTGT
4177960 TTTTTGTGTTTTGT
1 TTTTT-TGTTTTGT
4177974 TTTTTTGACTTTTGT
1 TTTTTTG--TTTTGT
4177989 TT
1 TT
4177991 GTATGTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.25
14 13 0.46
15 8 0.29
ACGTcount: A:0.02, C:0.02, G:0.16, T:0.80
Consensus pattern (13 bp):
TTTTTTGTTTTGT
Found at i:4177979 original size:15 final size:15
Alignment explanation
Indices: 4177947--4177990 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
4177937 CCTTTGCACC
4177947 TTTTT-TGTTTTG-T
1 TTTTTGTGTTTTGTT
4177960 TTTTTGTGTTTTGTT
1 TTTTTGTGTTTTGTT
**
4177975 TTTTTGACTTTTGTT
1 TTTTTGTGTTTTGTT
4177990 T
1 T
4177991 GTATGTTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 5 0.19
14 7 0.26
15 15 0.56
ACGTcount: A:0.02, C:0.02, G:0.16, T:0.80
Consensus pattern (15 bp):
TTTTTGTGTTTTGTT
Found at i:4182323 original size:27 final size:27
Alignment explanation
Indices: 4182285--4182358 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
4182275 TTTGGTTGAA
4182285 AATGGGGTTGGAGTGTCCCCTCAGAGG
1 AATGGGGTTGGAGTGTCCCCTCAGAGG
4182312 AATGGGGTTGGAGTGTCCCCTCAGAGG
1 AATGGGGTTGGAGTGTCCCCTCAGAGG
*
4182339 AATGGGGTTAGAGTGTCCCC
1 AATGGGGTTGGAGTGTCCCC
4182359 GATGAATAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.19, C:0.19, G:0.39, T:0.23
Consensus pattern (27 bp):
AATGGGGTTGGAGTGTCCCCTCAGAGG
Found at i:4184486 original size:51 final size:52
Alignment explanation
Indices: 4184361--4184487 Score: 211
Period size: 52 Copynumber: 2.5 Consensus size: 52
4184351 CGAAATATGA
*
4184361 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATATATTTCATAGTGTATCGATACATCTAGGC
* *
4184413 AAATTTGCCTGTATGTATCGATATATTTTATAGTGTATCGATACATCT-GGC
1 AAATTTGCCTGCATGTATCGATATATTTCATAGTGTATCGATACATCTAGGC
*
4184464 AAATTTGCTTGCATGTATCGATAT
1 AAATTTGCCTGCATGTATCGATAT
4184488 GAAAATCAGT
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 25 0.36
52 45 0.64
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATATATTTCATAGTGTATCGATACATCTAGGC
Found at i:4184499 original size:51 final size:51
Alignment explanation
Indices: 4184361--4184508 Score: 183
Period size: 52 Copynumber: 2.9 Consensus size: 51
4184351 CGAAATATGA
* **
4184361 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATATA-TAAATAGTGTATCGATACATCTAGGC
* **
4184413 AAATTTGCCTGTATGTATCGATATATTTTATAGTGTATCGATACATCT-GGC
1 AAATTTGCCTGCATGTATCGATATA-TAAATAGTGTATCGATACATCTAGGC
*
4184464 AAATTTGCTTGCATGTATCGATATGA-AAATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATAT-ATAAAT-AGTGTATCGATACA
4184509 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
50 2 0.02
51 39 0.45
52 46 0.53
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATATATAAATAGTGTATCGATACATCTAGGC
Found at i:4184515 original size:13 final size:13
Alignment explanation
Indices: 4184497--4184521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4184487 TGAAAATCAG
4184497 TGTATCGATACAA
1 TGTATCGATACAA
4184510 TGTATCGATACA
1 TGTATCGATACA
4184522 TTTGGGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4184597 original size:18 final size:19
Alignment explanation
Indices: 4184574--4184622 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
4184564 AGCGATACAT
4184574 TGTATCGATACAA-ACTCA
1 TGTATCGATACAACACTCA
*
4184592 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTCA
4184611 TGTATCGATACA
1 TGTATCGATACA
4184623 TTATATTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAACACTCA
Found at i:4187093 original size:20 final size:20
Alignment explanation
Indices: 4187068--4187105 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4187058 TAGATTTTTC
4187068 CAAAATGCATCGATACATTG
1 CAAAATGCATCGATACATTG
*
4187088 CAAAATGTATCGATACAT
1 CAAAATGCATCGATACAT
4187106 CTAGGTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (20 bp):
CAAAATGCATCGATACATTG
Found at i:4189032 original size:17 final size:17
Alignment explanation
Indices: 4188995--4189032 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
4188985 GGCTTATAAC
4188995 ATAAAGGGGAGAACGTT
1 ATAAAGGGGAGAACGTT
4189012 -TAAAGGGAGAGAA-GTT
1 ATAAAGGG-GAGAACGTT
4189028 ATAAA
1 ATAAA
4189033 CTTGAGGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.47, C:0.03, G:0.32, T:0.18
Consensus pattern (17 bp):
ATAAAGGGGAGAACGTT
Found at i:4189804 original size:13 final size:13
Alignment explanation
Indices: 4189786--4189813 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4189776 ATAAATAATG
4189786 CATTGTATCGATA
1 CATTGTATCGATA
4189799 CATTGTATCGATA
1 CATTGTATCGATA
4189812 CA
1 CA
4189814 ACTTGCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:4189936 original size:20 final size:21
Alignment explanation
Indices: 4189891--4189947 Score: 98
Period size: 20 Copynumber: 2.8 Consensus size: 21
4189881 GTATCAATAC
4189891 ATTGTATCGATACATGATTAA
1 ATTGTATCGATACATGATTAA
*
4189912 ATTGTATCGATACATGA-TGA
1 ATTGTATCGATACATGATTAA
4189932 ATTGTATCGATACATG
1 ATTGTATCGATACATG
4189948 TGGCCCAACG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 18 0.51
21 17 0.49
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (21 bp):
ATTGTATCGATACATGATTAA
Found at i:4191710 original size:20 final size:20
Alignment explanation
Indices: 4191687--4191760 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
4191677 TCAATTCAAA
*
4191687 GTATCGATACACGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
4191707 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
4191728 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
4191748 GTATCGATACATG
1 GTATCGATACATG
4191761 AAAAAGATGT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:4191731 original size:21 final size:21
Alignment explanation
Indices: 4191705--4191780 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
4191695 ACACGTTGCA
4191705 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
4191726 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
4191746 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
4191767 ATGTATCGATACAT
1 ATGTATCGATACAT
4191781 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:4191780 original size:41 final size:41
Alignment explanation
Indices: 4191687--4191780 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
4191677 TCAATTCAAA
*
4191687 GTATCGATACACGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
4191728 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
4191769 GTATCGATACAT
1 GTATCGATACAT
4191781 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:4191837 original size:13 final size:13
Alignment explanation
Indices: 4191819--4191844 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4191809 TACAGCAAGT
4191819 ATGTATCGATACA
1 ATGTATCGATACA
4191832 ATGTATCGATACA
1 ATGTATCGATACA
4191845 CAAAAAATTG
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:4197070 original size:19 final size:20
Alignment explanation
Indices: 4197022--4197070 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
4197012 GTTAACAGCC
*
4197022 CATGATTCATGCATTTTTAG
1 CATGATTCATGCATTTATAG
* *
4197042 CTATGCTTCATGCATTTATGG
1 C-ATGATTCATGCATTTATAG
4197063 CATG-TTCA
1 CATGATTCA
4197071 GCACCTCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.16
20 4 0.16
21 17 0.68
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.43
Consensus pattern (20 bp):
CATGATTCATGCATTTATAG
Found at i:4199851 original size:754 final size:754
Alignment explanation
Indices: 4198404--4199910 Score: 2728
Period size: 754 Copynumber: 2.0 Consensus size: 754
4198394 TTTTCAGACT
4198404 TCAATTAATCAAAGAATCCAGACAAATCTCTAAATTGTCAATTCGATTATTTCAAGATAATTGAT
1 TCAATTAATCAAAGAATCCAGACAAATCTCTAAATTGTCAATTCGATTATTTCAAGATAATTGAT
*
4198469 GGCAATTACGAGATACATCACGATCATTATGTTCTCTTTCTTCTTCCTTGTTTGACCTCGATAAT
66 GGCAATTACGAGATACATCACGATCATTATGTTCTCTTTCTTCTTCCTTATTTGACCTCGATAAT
* *
4198534 TCATTTACATGAAATATCATATGCTTTTTATCACATTATCAGTATGCTTCCTCCTTGTTAATCTT
131 TCATTTACATGAAATATCATAAGCATTTTATCACATTATCAGTATGCTTCCTCCTTGTTAATCTT
* * *
4198599 GATGGCACTCATATTTTTAAAACTGGTTTACAAAAATTGTAAGGTGATGTTCTGTGTCAGTATCT
196 GATGGCACTCATATTTTTAAAACTAGTTTACAAAAATTGTAAGGCGATGTTCCGTGTCAGTATCT
*
4198664 CTCTAGTGCTTGACACGGAATATCCTATTTTCAAAGTAAAATCCAGAGAGCTTTTATGTCTCTAT
261 CTCCAGTGCTTGACACGGAATATCCTATTTTCAAAGTAAAATCCAGAGAGCTTTTATGTCTCTAT
*
4198729 GTTTCCCATCTCTCTGGGGTGCATATGAGATGAAAACTTTTATCAAAACCTAGATTTATTTTTAT
326 GTTTCCCATCTCTCTAGGGTGCATATGAGATGAAAACTTTTATCAAAACCTAGATTTATTTTTAT
* *
4198794 ACAAAATTCATGCATTCAAAGGGGATCTTATCAAAATAATGATAAACCGAAATCAATGTAACCAA
391 AAAAAATTCATGCATTCAAAGGGGATCTTATCAAAATAATGATAAACCAAAATCAATGTAACCAA
* *
4198859 CTTTAAGTCAAAACATTGCTAGTAAGGTACCAATTTTGGGTATCGCGAGGAGGTTCGTACCTCTT
456 CTTTAAGTCAAAACATTGCTAGTAAGGTACCAATTTTGGGCATCGCGAGGAGGTTCATACCTCTT
* *
4198924 TGCGCATAACCAACTCCCGAACCCAACCGACAAATCTCTAAAGTATGTAGACCACGGGATCGATG
521 TGCGCATAACCAACTCCCGAACCCAACCGACAAATCTCTAAAGTACGCAGACCACGGGATCGATG
4198989 TTTGGAGTTTCGTAACTCAAGACATAGGTTTAATAGGCATCCGATCAAGCCTAGCCCGAAATGAT
586 TTTGGAGTTTCGTAACTCAAGACATAGGTTTAATAGGCATCCGATCAAGCCTAGCCCGAAATGAT
4199054 CGGTGGCGACTCCAAAATTTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATA
651 CGGTGGCGACTCCAAAATTTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATA
4199119 CATCTACTGATCTTCCCCCTTTAATCAACATACTTTTCG
716 CATCTACTGATCTTCCCCCTTTAATCAACATACTTTTCG
*
4199158 TCAATTAATCAAAGAATCCAGACAAATCTTTAAATTGTCAATTCGATTATTTCAAGATAATTGAT
1 TCAATTAATCAAAGAATCCAGACAAATCTCTAAATTGTCAATTCGATTATTTCAAGATAATTGAT
*
4199223 GGCAATTACGAGATACATCACGATCATTATGTTTTCTTTCTTCTTCCTTATTTGACCTCGATAAT
66 GGCAATTACGAGATACATCACGATCATTATGTTCTCTTTCTTCTTCCTTATTTGACCTCGATAAT
*
4199288 TCATTTACATGAAATATCATAAGCATTTTATCACATTATCAGTATGCTTCCTCTTTGTTAATCTT
131 TCATTTACATGAAATATCATAAGCATTTTATCACATTATCAGTATGCTTCCTCCTTGTTAATCTT
*
4199353 GATGGCACTCATATTTTTAAAACTAGTTTACAAAAATTGTAAGGCGATGTTCCGTGTCGGTATCT
196 GATGGCACTCATATTTTTAAAACTAGTTTACAAAAATTGTAAGGCGATGTTCCGTGTCAGTATCT
4199418 CTCCAGTGCTTGACACGGAATATCCTA-TTTCAAAGTAAAATCCAGAGAGCTTTTATGTCTCTAT
261 CTCCAGTGCTTGACACGGAATATCCTATTTTCAAAGTAAAATCCAGAGAGCTTTTATGTCTCTAT
*
4199482 GTTTCCCATCTCTCTAGGGTGCATATGAGATGAAAACTTTTATCAAAACCTGGATTTATTTTTAT
326 GTTTCCCATCTCTCTAGGGTGCATATGAGATGAAAACTTTTATCAAAACCTAGATTTATTTTTAT
* *
4199547 AAAAAATTCATGCATTCAAAGGGGATCTTATCGAAATAATGATAAACCAAAATCAATGTAATCAA
391 AAAAAATTCATGCATTCAAAGGGGATCTTATCAAAATAATGATAAACCAAAATCAATGTAACCAA
4199612 CTTTAAGTCAAAACATTGCTAGTAAGGTACCAATTTTGGGCATCGCGAGGAGGTTCATACCTCTT
456 CTTTAAGTCAAAACATTGCTAGTAAGGTACCAATTTTGGGCATCGCGAGGAGGTTCATACCTCTT
* *
4199677 TGCGCATAACCAACTCCCGAACCCAACCGGCAAATCTCTAAAGTACGCAGACCATGGGATCGATG
521 TGCGCATAACCAACTCCCGAACCCAACCGACAAATCTCTAAAGTACGCAGACCACGGGATCGATG
* * * *
4199742 TTTTGAGTTTCGTAACTCAAGATATAGGTTTCAATAGGCATCCTATCATGCCTAGCCCGAAATGA
586 TTTGGAGTTTCGTAACTCAAGACATAGGTTT-AATAGGCATCCGATCAAGCCTAGCCCGAAATGA
* *
4199807 TCGGTGGCGACTCCAAAATTTCGGTCACTTCGTTGTGACCATTGAAGATCAATTAGATGGGTGAT
650 TCGGTGGCGACTCCAAAATTTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGAT
*
4199872 TCATCTACTGATCTTCCCCCTTTAATCAACATACTTTTC
715 ACATCTACTGATCTTCCCCCTTTAATCAACATACTTTTC
4199911 ATCATGCCAT
Statistics
Matches: 722, Mismatches: 30, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
753 314 0.43
754 408 0.57
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (754 bp):
TCAATTAATCAAAGAATCCAGACAAATCTCTAAATTGTCAATTCGATTATTTCAAGATAATTGAT
GGCAATTACGAGATACATCACGATCATTATGTTCTCTTTCTTCTTCCTTATTTGACCTCGATAAT
TCATTTACATGAAATATCATAAGCATTTTATCACATTATCAGTATGCTTCCTCCTTGTTAATCTT
GATGGCACTCATATTTTTAAAACTAGTTTACAAAAATTGTAAGGCGATGTTCCGTGTCAGTATCT
CTCCAGTGCTTGACACGGAATATCCTATTTTCAAAGTAAAATCCAGAGAGCTTTTATGTCTCTAT
GTTTCCCATCTCTCTAGGGTGCATATGAGATGAAAACTTTTATCAAAACCTAGATTTATTTTTAT
AAAAAATTCATGCATTCAAAGGGGATCTTATCAAAATAATGATAAACCAAAATCAATGTAACCAA
CTTTAAGTCAAAACATTGCTAGTAAGGTACCAATTTTGGGCATCGCGAGGAGGTTCATACCTCTT
TGCGCATAACCAACTCCCGAACCCAACCGACAAATCTCTAAAGTACGCAGACCACGGGATCGATG
TTTGGAGTTTCGTAACTCAAGACATAGGTTTAATAGGCATCCGATCAAGCCTAGCCCGAAATGAT
CGGTGGCGACTCCAAAATTTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATA
CATCTACTGATCTTCCCCCTTTAATCAACATACTTTTCG
Found at i:4201605 original size:79 final size:78
Alignment explanation
Indices: 4201408--4201641 Score: 229
Period size: 79 Copynumber: 2.9 Consensus size: 78
4201398 ATATTTCCCG
* * * * * *
4201408 ATGAGAAATTTAATATTTT-GGAGATAACAACGGGGTTGGGGTGTCCCCTTGAAAATGACGGGGC
1 ATGAGAAA-TCAATATTTTGGGA-ATAA-AACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGT
**
4201472 TGGAGTATCCCCGGTT
63 TGGAGTATCCCCAATT
* * * * * * *
4201488 GTGAAAAATCGATGA-TTAGGAAAAAAAATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTT
1 ATGAGAAATCAAT-ATTTTGGGAATAAAA-CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTT
4201552 GGAGTATCCCCAATT
64 GGAGTATCCCCAATT
* * **
4201567 ATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTG
1 ATGAGAAATCAATATTTTGGGAATAAA-ACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
4201632 GAGTATCCCC
65 GAGTATCCCC
4201642 GATGAAATAA
Statistics
Matches: 123, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
78 3 0.02
79 111 0.90
80 9 0.07
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (78 bp):
ATGAGAAATCAATATTTTGGGAATAAAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGG
AGTATCCCCAATT
Found at i:4201652 original size:28 final size:28
Alignment explanation
Indices: 4201596--4201672 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
4201586 GGAATAAAGC
*** **
4201596 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
4201624 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
4201652 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
4201673 TGTGAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:4201726 original size:53 final size:52
Alignment explanation
Indices: 4201655--4201877 Score: 229
Period size: 52 Copynumber: 4.3 Consensus size: 52
4201645 GAAATAACGA
* **
4201655 GGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTG-TTTTAAAAATAAAATCGG
* * *
4201708 AGCTGGAGTATCCCCGA-T-TAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAA--AAAATTGGTGTTTTAAAAATAAAATCGG
* * **
4201760 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTACCAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAAAAATAAAATCGG
* *** * * *
4201812 GGTTGGAGTATCCCCGATTATG-AAAAATCAATATTTTAATAAT-AAAGCAGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAAAAATAAAATC-GG
4201863 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
4201878 TCGAAAATAA
Statistics
Matches: 145, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
50 4 0.03
51 36 0.25
52 78 0.54
53 25 0.17
54 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAAAAATAAAATCGG
Found at i:4201958 original size:53 final size:51
Alignment explanation
Indices: 4201892--4202014 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
4201882 AAATAACGGG
* *
4201892 GTTGGAGTATCCCCGATTGT-GAAAAATTTGTGTTTTTTAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAG-AAAATTAGTG--TTTTAAAAATAAAATCGGA
*
4201945 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTAAAAATAAAATCGGA
* * *
4201996 GATGGAATATCCCTGATTA
1 GTTGGAGTATCCCCGATTA
4202015 CGGAGAATTG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
51 34 0.54
53 28 0.44
54 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTAAAAATAAAATCGGA
Found at i:4202007 original size:132 final size:131
Alignment explanation
Indices: 4201757--4202008 Score: 332
Period size: 132 Copynumber: 1.9 Consensus size: 131
4201747 AAAATAAAAT
** *
4201757 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTACCAATAAAATCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAAAAATAAAATCGGAGTTGGAGTA
* * *
4201822 TCCCCGATTATGAAAAATCAATATTTTAATAATAAAGCAGGGGTTGGAGTATCCCCTCGAAAATA
66 TCCCCGATTATGAAAAATCAATATTTTAATAATAAAGCAGGAGATGGAATATCCCCTCGAAAATA
4201887 A
131 A
*
4201888 CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTTGTGTTTTTTAAAAATAAAATCGGAGTTGGAG
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTG--TTTTAAAAATAAAATCGGAGTTGGAG
* * * *
4201952 TATCCCCGATTAT-AGAAAATTAGTGTTTTGAA-AATAAAATC-GGAGATGGAATATCCC
64 TATCCCCGATTATGA-AAAATCAATATTTT-AATAAT-AAAGCAGGAGATGGAATATCCC
4202009 TGATTACGGA
Statistics
Matches: 105, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
130 11 0.10
131 25 0.24
132 63 0.60
133 6 0.06
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (131 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAAAAATAAAATCGGAGTTGGAGTA
TCCCCGATTATGAAAAATCAATATTTTAATAATAAAGCAGGAGATGGAATATCCCCTCGAAAATA
A
Found at i:4204400 original size:13 final size:13
Alignment explanation
Indices: 4204382--4204407 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4204372 ACAAAGATCC
4204382 ATGTATCGATACA
1 ATGTATCGATACA
4204395 ATGTATCGATACA
1 ATGTATCGATACA
4204408 CAAAAAAATG
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:4204491 original size:32 final size:32
Alignment explanation
Indices: 4204450--4204512 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
4204440 TAGCTAATTA
*
4204450 TGTATCGATACAATACTTATCTATCGATACAT
1 TGTATCGATACAAAACTTATCTATCGATACAT
*
4204482 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATCTATCGATACA
4204513 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATCTATCGATACAT
Found at i:4204506 original size:19 final size:19
Alignment explanation
Indices: 4204447--4204514 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
4204437 TAGTAGCTAA
*
4204447 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
*
4204466 TTATCTATCGATAC---A-
1 TTATGTATCGATACAAAAC
4204481 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
4204498 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
4204515 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.66
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:4206792 original size:20 final size:20
Alignment explanation
Indices: 4206753--4206793 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4206743 ATTGTCTGCA
* * *
4206753 TGAAGCATGTATCGATACAT
1 TGAAGAATGTATCAACACAT
4206773 TGAAGAATGTATCAACACAT
1 TGAAGAATGTATCAACACAT
4206793 T
1 T
4206794 TAGGTCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (20 bp):
TGAAGAATGTATCAACACAT
Found at i:4206882 original size:51 final size:51
Alignment explanation
Indices: 4206759--4206948 Score: 220
Period size: 51 Copynumber: 3.7 Consensus size: 51
4206749 TGCATGAAGC
* *
4206759 ATGTATCGATACATTGAAGAATGTATCAACACATTTAGGTCAAAAATCCAGA
1 ATGTATCGATACAATGAAGAATGTATCAATACATTT-GGTCAAAAATCCAGA
* * * * * *
4206811 ATGCATCAATACAATAAAGAATGTATCGATACATTTGGTAAAAAAT-TAGAA
1 ATGTATCGATACAATGAAGAATGTATCAATACATTTGGTCAAAAATCCAG-A
* *
4206862 ATGTATCGATACAATGAAGAATGTATCAATACATTTGGTCAAAAACCCATA
1 ATGTATCGATACAATGAAGAATGTATCAATACATTTGGTCAAAAATCCAGA
* ** * *
4206913 ATCTATTAATACAATGAAAAATATATCAATACATTT
1 ATGTATCGATACAATGAAGAATGTATCAATACATTT
4206949 TTTTTCTAGA
Statistics
Matches: 115, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
50 2 0.02
51 82 0.71
52 31 0.27
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACAATGAAGAATGTATCAATACATTTGGTCAAAAATCCAGA
Found at i:4207040 original size:20 final size:20
Alignment explanation
Indices: 4206984--4207045 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
4206974 TGCATGGTCC
**
4206984 TGTATCGATACATTTCAAGCA
1 TGTATCGATAC-TTTCACTCA
* * *
4207005 TGTATCGATGCATTCACTTA
1 TGTATCGATACTTTCACTCA
4207025 TGTATCGATACTTTCACTCA
1 TGTATCGATACTTTCACTCA
4207045 T
1 T
4207046 TTTATTAATA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 23 0.70
21 10 0.30
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (20 bp):
TGTATCGATACTTTCACTCA
Found at i:4213149 original size:51 final size:52
Alignment explanation
Indices: 4213091--4213226 Score: 184
Period size: 51 Copynumber: 2.6 Consensus size: 52
4213081 TCTGGAATAA
* *
4213091 AAATGTATCGATACATTTTTCATTATATTGATACATTATGGGTTT-TGACCT
1 AAATGTATCGATACATTCTTCATTATATCGATACATTATGGGTTTCTGACCT
* * *
4213142 AAATGTATTGATACATTCTTCATTGTATCGATACATTCTGGGTTTCTGACCT
1 AAATGTATCGATACATTCTTCATTATATCGATACATTATGGGTTTCTGACCT
* * * *
4213194 TAATGTATCAATACATTCTTTAATATATCGATA
1 AAATGTATCGATACATTCTTCATTATATCGATA
4213227 TATGCTGGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 40 0.55
52 33 0.45
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTCATTATATCGATACATTATGGGTTTCTGACCT
Found at i:4218328 original size:14 final size:14
Alignment explanation
Indices: 4218309--4218336 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4218299 ATTAAACAAG
4218309 TTTCAAGATCAAAT
1 TTTCAAGATCAAAT
4218323 TTTCAAGATCAAAT
1 TTTCAAGATCAAAT
4218337 ATGAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TTTCAAGATCAAAT
Found at i:4220580 original size:79 final size:78
Alignment explanation
Indices: 4220457--4220903 Score: 362
Period size: 79 Copynumber: 5.6 Consensus size: 78
4220447 TCATTGATGT
* * *
4220457 TTTTATTTCTAAAATATCGATTTTCCACCATCGAGGG-TACTCCAACCCCATTATTTCTGAGGGG
1 TTTTATTTCTAAAACATCCATTTTTCACCATCG-GGGATACTCCAACCCCATTATTT-TGAGGGG
4220521 ACACTCCAACCCTGG
64 ACACTCCAACCCTGG
* * *
4220536 TTTTATTTCTAAAACA-CCATTTTTTCACTATCGGGGATAATCCAATCCCATTATTTTTGAGGGG
1 TTTTATTTCTAAAACATCCA-TTTTTCACCATCGGGGATACTCCAACCCCATTA-TTTTGAGGGG
* *
4220600 ACACTCTAACCCTAG
64 ACACTCCAACCCTGG
** ** * * * ** *
4220615 TTTTATGCCTAAAACATTGATTTTCCACCATCGAGGATAATCCAACCCTGTTATTTTTGATGGGA
1 TTTTATTTCTAAAACATCCATTTTTCACCATCGGGGATACTCCAACCCCATTA-TTTTGAGGGGA
*
4220680 CACTCCAA-CCTCGA
65 CACTCCAACCCT-GG
* * * * * *
4220694 TTTTATTTTTAAAAAAATACCAATTTTTTACCATCGGGGATACTCTAACCCTATTATTTTGAAGT
1 TTTTATTTCT-AAAACAT-CC-ATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTG-AGG
* * * * *
4220759 TGATACTCTAACCCCGA
62 GGACACTCCAACCCTGG
* * * * * * * * *
4220776 TTTTATTCCTAAAATATCGATTTTTCACAATCGGGGATACTCTAACCTCGTAATTTTCGAGAGGA
1 TTTTATTTCTAAAACATCCATTTTTCACCATCGGGGATACTCCAACCCCATTATTTT-GAGGGGA
*
4220841 TACTCCAACCCTGG
65 CACTCCAACCCTGG
* * * *
4220855 TTTTATTTCCAAAACATCAATTTTTCATCAAT-GGGGATACTTCAACCCC
1 TTTTATTTCTAAAACATCCATTTTTCA-CCATCGGGGATACTCCAACCCC
4220904 GTTTTTATCT
Statistics
Matches: 294, Mismatches: 62, Indels: 24
0.77 0.16 0.06
Matches are distributed among these distances:
78 8 0.03
79 210 0.71
80 16 0.05
81 11 0.04
82 47 0.16
83 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (78 bp):
TTTTATTTCTAAAACATCCATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTGAGGGGAC
ACTCCAACCCTGG
Found at i:4220848 original size:161 final size:156
Alignment explanation
Indices: 4220457--4220881 Score: 414
Period size: 161 Copynumber: 2.7 Consensus size: 156
4220447 TCATTGATGT
* *
4220457 TTTTATTTCTAAAATATCGATTTTCCACCATCGAGGG-TACTCCAACCCCATTA-TTTCTGAGGG
1 TTTTATTCCTAAAATATCGATTTTCCACCATCG-GGGATACTCCAA-CCCGTTATTTTC-GA-GG
* *
4220520 GACACTCCAACCCTGGTTTTATTTCTAAAACACCATTTTTTCACTATCGGGGATAATCCAATCCC
62 GACACTCCAACCCTGATTTTATTTCTAAAACACCATTTTTTCACCATCGGGGATAATCCAATCCC
*
4220585 ATTATTTTTGAGGGGACACTCTAACCCTAG
127 ATTATTTTTGAGGGGACACTCTAACCCGAG
* * * * * *
4220615 TTTTATGCCTAAAACATTGATTTTCCACCATCGAGGATAATCCAACCCTGTTATTTTTGATGGGA
1 TTTTATTCCTAAAATATCGATTTTCCACCATCGGGGATACTCCAACCC-GTTATTTTCGA-GGGA
* * * *
4220680 CACTCCAA-CCTCGATTTTATTTTTAAAAAAATACCAATTTTTT-ACCATCGGGGATACTCTAA-
64 CACTCCAACCCT-GATTTTATTTCT---AAAACACC-ATTTTTTCACCATCGGGGATAATCCAAT
** *
4220742 CCCTATTA-TTTTGAAGTTGATACTCTAACCCCGA-
124 CCC-ATTATTTTTG-AGGGGACACTCTAA-CCCGAG
* * * *
4220776 TTTTATTCCTAAAATATCGATTTTTCACAATCGGGGATACTCTAACCTCGTAATTTTCGAGAGGA
1 TTTTATTCCTAAAATATCGATTTTCCACCATCGGGGATACTCCAACC-CGTTATTTTCGAG-GGA
* * * * *
4220841 TACTCCAACCCTGGTTTTATTTCCAAAACATCAATTTTTCA
64 CACTCCAACCCTGATTTTATTTCTAAAACACCATTTTTTCA
4220882 TCAATGGGGA
Statistics
Matches: 216, Mismatches: 36, Indels: 30
0.77 0.13 0.11
Matches are distributed among these distances:
157 14 0.06
158 70 0.32
159 3 0.01
160 9 0.04
161 105 0.49
162 15 0.07
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (156 bp):
TTTTATTCCTAAAATATCGATTTTCCACCATCGGGGATACTCCAACCCGTTATTTTCGAGGGACA
CTCCAACCCTGATTTTATTTCTAAAACACCATTTTTTCACCATCGGGGATAATCCAATCCCATTA
TTTTTGAGGGGACACTCTAACCCGAG
Found at i:4223429 original size:51 final size:51
Alignment explanation
Indices: 4223364--4223579 Score: 220
Period size: 51 Copynumber: 4.3 Consensus size: 51
4223354 TCAGAAATAA
* * * * *
4223364 CGGGGTTAGAGTATCCCCAATGGTGGAAAATCGATGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAAC
* * * * * *
4223415 TGGGGTTGGAGTATCCTCGATTATGAAAAATCAATATTTTGGAAATAAAAC
1 CGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAAC
*** * * * *
4223466 TAAGGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTGGAAATAAGAC
1 CGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAAC
* * *
4223517 CAGGCTTGGAGTATCCCCAATTGTGAAAAAT-TA-GTTTTGGAAATAAAAC
1 CGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAAC
*
4223566 CGAGGTTGGAGTAT
1 CGGGGTTGGAGTAT
4223580 TCCTTCGGAA
Statistics
Matches: 135, Mismatches: 30, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
49 26 0.19
51 109 0.81
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAAC
Found at i:4223670 original size:79 final size:77
Alignment explanation
Indices: 4223517--4223692 Score: 237
Period size: 79 Copynumber: 2.3 Consensus size: 77
4223507 GAAATAAGAC
* * *
4223517 CAGGCTTGGAGTATCCCCAATTGTGAAAAATTAGTTTTGGAAATAAAACCGAGGTTGGAGTATTC
1 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTTTTGAAAATAAAACCGAGGTTGGAGTATTC
*
4223582 CTTCGGAAATAA
66 CTTCAGAAATAA
* * *
4223594 CAGGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTCTGAAAATAAAATCGAGGTTGGAGTAT
1 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGT-TT-TGAAAATAAAACCGAGGTTGGAGTAT
4223659 CTCCTT-AGAAATAA
64 -TCCTTCAGAAATAA
**
4223673 TGGGGTTGGAGTATCCCCGA
1 CAGGGTTGGAGTATCCCCGA
4223693 GGAAATAACG
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
77 31 0.36
78 2 0.02
79 49 0.56
80 5 0.06
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (77 bp):
CAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTTTTGAAAATAAAACCGAGGTTGGAGTATTC
CTTCAGAAATAA
Found at i:4223681 original size:28 final size:28
Alignment explanation
Indices: 4223645--4223718 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
4223635 AAAATAAAAT
**
4223645 CGAGGTTGGAGTATCTCCTTA-GAAATAA
1 CGAGGTTGGAGTATC-CCCGAGGAAATAA
* *
4223673 TGGGGTTGGAGTATCCCCGAGGAAATAA
1 CGAGGTTGGAGTATCCCCGAGGAAATAA
4223701 CGAGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
4223719 AATTGTGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 3 0.08
28 36 0.92
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCGAGGAAATAA
Found at i:4223775 original size:51 final size:51
Alignment explanation
Indices: 4223704--4223809 Score: 140
Period size: 51 Copynumber: 2.1 Consensus size: 51
4223694 GAAATAACGA
* *
4223704 GGTTGGAGTATCCCCAATTGTGAAAAAACGGTATTTTGGAAATAAAATCGG
1 GGTTAGAGTATCCCCAATTGTGAAAAAACAGTATTTTGGAAATAAAATCGG
* * ** * *
4223755 GGTTAGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAGATCGG
1 GGTTAGAGTATCCCCAATTGTGAAAAAACAGTATTTTGGAAATAAAATCGG
4223806 GGTT
1 GGTT
4223810 GCAGTGTCCC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTTAGAGTATCCCCAATTGTGAAAAAACAGTATTTTGGAAATAAAATCGG
Found at i:4223836 original size:28 final size:27
Alignment explanation
Indices: 4223805--4223876 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
4223795 AATAAGATCG
*
4223805 GGGTTGCAGTGTCCCC-TCAGAAATAACA
1 GGGTTG-AGTATCCCCATCA-AAATAACA
* *
4223833 GGGTTAGAGTATCCCCATGAAAATAACG
1 GGGTT-GAGTATCCCCATCAAAATAACA
4223861 GGGTTGGAGTATCCCC
1 GGGTT-GAGTATCCCC
4223877 GATTGTGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 35 0.92
29 3 0.08
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (27 bp):
GGGTTGAGTATCCCCATCAAAATAACA
Found at i:4223866 original size:158 final size:157
Alignment explanation
Indices: 4223596--4223926 Score: 416
Period size: 158 Copynumber: 2.1 Consensus size: 157
4223586 GGAAATAACA
* * * * *
4223596 GGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTCTGAAAATAAAATCGAGGTTGGAGTATCT
1 GGGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTCTGAAAATAAAATCGAGGTTGCAGTATCC
* ** * *
4223661 CCTTAGAAATAATGGGGTTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCCCAATTGT-
66 CCTCAGAAATAACAGGGTTAGAGTATCCCCGAGAAAATAACGAGGTTGGAGTATCCCCAATTGTG
*
4223725 GAAA-AAACGGTATTTTGGAAATAAAATCG
131 GAAATAAA---TATTTTGAAAATAAAATCG
* * * * * *
4223754 GGGTTAGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAGATCGGGGTTGCAGTGTCC
1 GGGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTCTGAAAATAAAATCGAGGTTGCAGTATCC
* *
4223819 CCTCAGAAATAACAGGGTTAGAGTATCCCC-ATGAAAATAACGGGGTTGGAGTATCCCCGATTGT
66 CCTCAGAAATAACAGGGTTAGAGTATCCCCGA-GAAAATAACGAGGTTGGAGTATCCCCAATTGT
* *
4223883 GGAAATTAATGTTTTGAAAATAAAATCG
130 GGAAATAAATATTTTGAAAATAAAATCG
4223911 GGGTTAGAGTATCCCC
1 GGGTTAGAGTATCCCC
4223927 TCGTAAATAA
Statistics
Matches: 148, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
157 33 0.22
158 109 0.74
159 4 0.03
160 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (157 bp):
GGGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTCTGAAAATAAAATCGAGGTTGCAGTATCC
CCTCAGAAATAACAGGGTTAGAGTATCCCCGAGAAAATAACGAGGTTGGAGTATCCCCAATTGTG
GAAATAAATATTTTGAAAATAAAATCG
Found at i:4226393 original size:316 final size:316
Alignment explanation
Indices: 4225813--4226425 Score: 1172
Period size: 316 Copynumber: 1.9 Consensus size: 316
4225803 AATGGAATAG
*
4225813 TATTTTCTAAGTGTTTTTTGGTTTTTTGGTTGCTGAAGGATTCTCTAAGGGTTTCTTTGTTGCTG
1 TATTTTCTAAGTGTTTTTTGGTTTTTTGGTTGCTGAAGGATTCTCAAAGGGTTTCTTTGTTGCTG
4225878 GAACTTTGTTTGCTACCAAAAGATCCCCTTTGCTGAGCCAATAGCCCTTATTTATCATCATGCTC
66 GAACTTTGTTTGCTACCAAAAGATCCCCTTTGCTGAGCCAATAGCCCTTATTTATCATCATGCTC
*
4225943 AGCCAATAGGATTAGGAGACACACCAAGGGCATTGTGGGGATTTTCTTTTGCATAAGGATATGAC
131 AGCCAATAGGATTAGGAGACACACCAAGGGCATTGTGGGGATTTTCTTTTGCATAAGGAGATGAC
*
4226008 CACTCACCAGCTCAGTCTGCCCCTCATTGCCATTGGCTCTGTAATGCAGTATAGTGGTCCCAAAA
196 CACTCACCAGCTCAGTCTGCCCCTCATTGCCATCGGCTCTGTAATGCAGTATAGTGGTCCCAAAA
*
4226073 TATATCAATACATCTAGGTAATTTTGAATGTATCAATGTATCAATACATTAAATTT
261 TATATCAATACATCTAGGTAATTTTGAATATATCAATGTATCAATACATTAAATTT
4226129 TATTTTCTAAGTGTTTTTTGGTTTTTTGGTTGCTGAAGGATTCTCAAAGGGTTTCTTTGTTGCTG
1 TATTTTCTAAGTGTTTTTTGGTTTTTTGGTTGCTGAAGGATTCTCAAAGGGTTTCTTTGTTGCTG
4226194 GAACTTTGTTTGCTACCAAAAGATCCCCTTTGCTGAGCCAATAGCCCTTATTTATCATCATGCTC
66 GAACTTTGTTTGCTACCAAAAGATCCCCTTTGCTGAGCCAATAGCCCTTATTTATCATCATGCTC
4226259 AGCCAATAGGATTAGGAGACACACCAAGGGCATTGTGGGGATTTTCTTTTGCATAAGGAGATGAC
131 AGCCAATAGGATTAGGAGACACACCAAGGGCATTGTGGGGATTTTCTTTTGCATAAGGAGATGAC
* *
4226324 CACTCACCAGCTCAGTCTGCCCCTCATTGCCATCGGTTCTGTAATGCAGTATAGTGGTCCCAGAA
196 CACTCACCAGCTCAGTCTGCCCCTCATTGCCATCGGCTCTGTAATGCAGTATAGTGGTCCCAAAA
4226389 TATATCAATACATCTAGGTAATTTTGAATATATCAAT
261 TATATCAATACATCTAGGTAATTTTGAATATATCAAT
4226426 ACATCTAGGC
Statistics
Matches: 291, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
316 291 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (316 bp):
TATTTTCTAAGTGTTTTTTGGTTTTTTGGTTGCTGAAGGATTCTCAAAGGGTTTCTTTGTTGCTG
GAACTTTGTTTGCTACCAAAAGATCCCCTTTGCTGAGCCAATAGCCCTTATTTATCATCATGCTC
AGCCAATAGGATTAGGAGACACACCAAGGGCATTGTGGGGATTTTCTTTTGCATAAGGAGATGAC
CACTCACCAGCTCAGTCTGCCCCTCATTGCCATCGGCTCTGTAATGCAGTATAGTGGTCCCAAAA
TATATCAATACATCTAGGTAATTTTGAATATATCAATGTATCAATACATTAAATTT
Found at i:4228693 original size:21 final size:21
Alignment explanation
Indices: 4228644--4228694 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4228634 AAGTCCCCTT
* **
4228644 AAAAAATAATGAAAAAGTCAA
1 AAAAAAAAATGAAAAACACAA
**
4228665 AATCAAAAATGAAAAACACAA
1 AAAAAAAAATGAAAAACACAA
4228686 AAAAAAAAA
1 AAAAAAAAA
4228695 AACAAAAAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.76, C:0.08, G:0.06, T:0.10
Consensus pattern (21 bp):
AAAAAAAAATGAAAAACACAA
Found at i:4228711 original size:16 final size:16
Alignment explanation
Indices: 4228669--4228711 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
4228659 AGTCAAAATC
4228669 AAAAATGAAAAACACA
1 AAAAATGAAAAACACA
**
4228685 AAAAAAAAAAAACA-A
1 AAAAATGAAAAACACA
4228700 AAAAAGTGAAAA
1 AAAAA-TGAAAA
4228712 GAACAAATGC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.81, C:0.07, G:0.07, T:0.05
Consensus pattern (16 bp):
AAAAATGAAAAACACA
Found at i:4230328 original size:30 final size:30
Alignment explanation
Indices: 4230123--4230500 Score: 162
Period size: 30 Copynumber: 12.9 Consensus size: 30
4230113 ATTGATGTGC
*
4230123 GACTTAGTGGCATCCCTTT-TTAAAGTCCAT
1 GACTCAGTGGCA-CCCTTTCTTAAAGTCCAT
*
4230153 GACT-A---GCATCCTTT-TTCAAAGTCCAT
1 GACTCAGTGGCACCCTTTCTT-AAAGTCCAT
* * * * * *
4230179 AACTTAATGTCACCCTTTTGTTTTAAGTCCAT
1 GACTCAGTGGCACCC-TTT-CTTAAAGTCCAT
* * * *
4230211 AACTTAGTGCCATCCCTATTC--AAAGTCCAC
1 GACTCAGTGGCA-CCCT-TTCTTAAAGTCCAT
* * * * * *
4230241 AATTTAGTGGCATCCTTTCTTGAAGTCCAC
1 GACTCAGTGGCACCCTTTCTTAAAGTCCAT
* *
4230271 GACTCAGTAGCACCC-TTCTCAAAGTCCAT
1 GACTCAGTGGCACCCTTTCTTAAAGTCCAT
* *
4230300 GACTCAGTGGCACCCTTTTTTTAAGTCCAT
1 GACTCAGTGGCACCCTTTCTTAAAGTCCAT
* * *
4230330 GACTCAGTGGCATCCATTT-TAAAAGCCCAT
1 GACTCAGTGGCA-CCCTTTCTTAAAGTCCAT
* * * *
4230360 GACTTATTGGTATCCC-TTCTCAAAGTCCAT
1 GACTCAGTGGCA-CCCTTTCTTAAAGTCCAT
* * ** * *
4230390 GACTTAGTGGCA-TCTCTTCCCAAAGTCAAC
1 GACTCAGTGGCACCCT-TTCTTAAAGTCCAT
* *
4230420 GACTCAGTGGTACTC-TT-TTAAAGTCCAT
1 GACTCAGTGGCACCCTTTCTTAAAGTCCAT
* * * *
4230448 GACTCAATGGAACCCTTT-TCAAAGTCCAC
1 GACTCAGTGGCACCCTTTCTTAAAGTCCAT
*
4230477 AACTTC-GTGGCA-CCTTT-TTAAAGT
1 GAC-TCAGTGGCACCCTTTCTTAAAGT
4230501 GCACAACTCT
Statistics
Matches: 271, Mismatches: 57, Indels: 42
0.73 0.15 0.11
Matches are distributed among these distances:
25 7 0.03
26 15 0.06
27 1 0.00
28 34 0.13
29 50 0.18
30 128 0.47
31 10 0.04
32 19 0.07
33 7 0.03
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.33
Consensus pattern (30 bp):
GACTCAGTGGCACCCTTTCTTAAAGTCCAT
Found at i:4230416 original size:90 final size:87
Alignment explanation
Indices: 4230282--4230475 Score: 203
Period size: 90 Copynumber: 2.2 Consensus size: 87
4230272 ACTCAGTAGC
**** * *
4230282 ACCCTTCTCAAAGTCCATGACTCAGTGGCACCCTTTTTTTAAGTCCATGACTCAGTGGCA-TCCA
1 ACCCTTCTCAAAGTCCATGACTCAGTGGCACCCTTTCCCAAAGTCAACGACTCAGTGGCACT-C-
* *
4230346 TTTTAAAAGCCCATGACTTATTGGTA
64 TTTT-AAAGCCCATGACTCAATGG-A
* * * *
4230372 TCCCTTCTCAAAGTCCATGACTTAGTGGCA-TCTCTTCCCAAAGTCAACGACTCAGTGGTACTCT
1 ACCCTTCTCAAAGTCCATGACTCAGTGGCACCCT-TTCCCAAAGTCAACGACTCAGTGGCACTCT
*
4230436 TTTAAAGTCCATGACTCAATGGA
65 TTTAAAGCCCATGACTCAATGGA
*
4230459 ACCCTTTTCAAAGTCCA
1 ACCCTTCTCAAAGTCCA
4230476 CAACTTCGTG
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
87 16 0.18
88 16 0.18
89 6 0.07
90 48 0.55
91 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (87 bp):
ACCCTTCTCAAAGTCCATGACTCAGTGGCACCCTTTCCCAAAGTCAACGACTCAGTGGCACTCTT
TTAAAGCCCATGACTCAATGGA
Found at i:4230495 original size:29 final size:29
Alignment explanation
Indices: 4230203--4230699 Score: 174
Period size: 30 Copynumber: 16.9 Consensus size: 29
4230193 CTTTTGTTTT
* * * *
4230203 AAGTCCATAACTTAGTGCCATCCCTATTCA
1 AAGTCCACAACTTCGTGGCA-CCCTTTTCA
* * * **
4230233 AAGTCCACAATTTAGTGGCATCCTTTCTTG
1 AAGTCCACAACTTCGTGGCACCCTTT-TCA
* * *
4230263 AAGTCCACGAC-TCAGTAGCACCCTTCTCA
1 AAGTCCACAACTTC-GTGGCACCCTTTTCA
** **
4230292 AAGTCCATGAC-TCAGTGGCACCCTTTTTTT
1 AAGTCCACAACTTC-GTGGCACCC-TTTTCA
** * *
4230322 AAGTCCATGAC-TCAGTGGCATCCATTTTAA
1 AAGTCCACAACTTC-GTGGCA-CCCTTTTCA
* ** ** * *
4230352 AAGCCCATGACTTATTGGTATCCCTTCTCA
1 AAGTCCACAACTTCGTGGCA-CCCTTTTCA
** * * **
4230382 AAGTCCATGACTTAGTGGCATCTCTTCCCA
1 AAGTCCACAACTTCGTGGCA-CCCTTTTCA
* * * *
4230412 AAGTCAACGAC-TCAGTGGTACTCTTTT-A
1 AAGTCCACAACTTC-GTGGCACCCTTTTCA
** * *
4230440 AAGTCCATGAC-TCAATGGAACCCTTTTCA
1 AAGTCCACAACTTC-GTGGCACCCTTTTCA
*
4230469 AAGTCCACAACTTCGTGGCA-CCTTTTTA
1 AAGTCCACAACTTCGTGGCACCCTTTTCA
* * *
4230497 AAGTGCACAAC-TCTATGGCAACCCTTCT-A
1 AAGTCCACAACTTC-GTGGC-ACCCTTTTCA
* *
4230526 AAGTTCACAAC-TC-TACGACACCCCTTTT-A
1 AAGTCCACAACTTCGT--GGCA-CCCTTTTCA
*
4230555 AAGTCCACAAC-TCTGTGGCAACCTTTTCAA
1 AAGTCCACAACTTC-GTGGCACCCTTTTC-A
* * * *
4230585 AACTCCACAACTCCATGGCACCTTTTTCTA
1 AAGTCCACAACTTCGTGGCACCCTTTTC-A
*
4230615 AAGTCCACAACTCCGTGGCACCCTTTTCA
1 AAGTCCACAACTTCGTGGCACCCTTTTCA
* * * *** *
4230644 AAATTCAAAACTTCGTGGTGTCCATTTCA
1 AAGTCCACAACTTCGTGGCACCCTTTTCA
* *
4230673 AATTCCACAACTTTGTGGCACCCTTTT
1 AAGTCCACAACTTCGTGGCACCCTTTT
4230700 TGTTAGGATC
Statistics
Matches: 363, Mismatches: 85, Indels: 39
0.75 0.17 0.08
Matches are distributed among these distances:
27 3 0.01
28 51 0.14
29 126 0.35
30 178 0.49
31 5 0.01
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.30
Consensus pattern (29 bp):
AAGTCCACAACTTCGTGGCACCCTTTTCA
Found at i:4230594 original size:30 final size:30
Alignment explanation
Indices: 4230438--4230642 Score: 165
Period size: 29 Copynumber: 7.0 Consensus size: 30
4230428 GGTACTCTTT
** *
4230438 TAAAGTCCATGACTCAATGG-AACCCTTTTC
1 TAAAGTCCACAACTCTATGGCAA-CCTTTTC
*
4230468 -AAAGTCCACAACT-TCGTGGC-ACCTTTT-
1 TAAAGTCCACAACTCT-ATGGCAACCTTTTC
* *
4230495 TAAAGTGCACAACTCTATGGCAACC-CTTC
1 TAAAGTCCACAACTCTATGGCAACCTTTTC
* * * * *
4230524 TAAAGTTCACAACTCTACGACACCCCTTT-
1 TAAAGTCCACAACTCTATGGCAACCTTTTC
*
4230553 TAAAGTCCACAACTCTGTGGCAACCTTTTC
1 TAAAGTCCACAACTCTATGGCAACCTTTTC
* * *
4230583 AAAACTCCACAACTCCATGGC-ACCTTTTTC
1 TAAAGTCCACAACTCTATGGCAACC-TTTTC
** *
4230613 TAAAGTCCACAACTCCGTGGCACCCTTTTC
1 TAAAGTCCACAACTCTATGGCAACCTTTTC
4230643 AAAATTCAAA
Statistics
Matches: 139, Mismatches: 26, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
28 24 0.17
29 66 0.47
30 47 0.34
31 2 0.01
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (30 bp):
TAAAGTCCACAACTCTATGGCAACCTTTTC
Found at i:4231140 original size:20 final size:20
Alignment explanation
Indices: 4231087--4231142 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
4231077 TGTATCAATA
*
4231087 AATTGTATCGACACATGATG
1 AATTGTATCGATACATGATG
*
4231107 AATTGTATCGATACATGGTG
1 AATTGTATCGATACATGATG
*
4231127 AATTGTATCAATACAT
1 AATTGTATCGATACAT
4231143 TGAGCCCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (20 bp):
AATTGTATCGATACATGATG
Found at i:4231192 original size:19 final size:20
Alignment explanation
Indices: 4231168--4231205 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4231158 TAAATTTCAA
4231168 ATGCA-TGTATCGATACATT
1 ATGCATTGTATCGATACATT
4231187 ATGCATTGTATCGATACAT
1 ATGCATTGTATCGATACAT
4231206 AGGAGCCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGCATTGTATCGATACATT
Found at i:4233578 original size:32 final size:33
Alignment explanation
Indices: 4233537--4233598 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
4233527 TAGCCAAACT
*
4233537 TGTATCGATACAGC-AAGTA-TGTATCGATAAAA
1 TGTATCGATACA-CAAAATATTGTATCGATAAAA
4233569 TGTATCGATACACAAAATATTGTATCGATA
1 TGTATCGATACACAAAATATTGTATCGATA
4233599 CATTGGCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 1 0.04
32 16 0.59
33 10 0.37
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (33 bp):
TGTATCGATACACAAAATATTGTATCGATAAAA
Found at i:4235785 original size:21 final size:21
Alignment explanation
Indices: 4235752--4235796 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4235742 TTGCAAGTTG
*
4235752 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
4235774 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
4235794 AAA
1 AAA
4235797 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:4237620 original size:15 final size:15
Alignment explanation
Indices: 4237600--4237630 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4237590 TAAAAATGTC
*
4237600 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4237615 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4237630 C
1 C
4237631 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4239723 original size:20 final size:20
Alignment explanation
Indices: 4239644--4239723 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
4239634 AATGTCCAAA
*
4239644 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
4239664 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
4239689 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
4239709 TTGTATCGATACATT
1 ATGTATCGATACATT
4239724 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:4239727 original size:13 final size:13
Alignment explanation
Indices: 4239709--4239747 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
4239699 ACATTTTTCT
4239709 TTGTATCGATACA
1 TTGTATCGATACA
4239722 TTGTATCGATACA
1 TTGTATCGATACA
*
4239735 CTGTATCGATACA
1 TTGTATCGATACA
4239748 GGGTGATTAT
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:4243263 original size:21 final size:21
Alignment explanation
Indices: 4243239--4243286 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
4243229 ATCGTGTGCT
**
4243239 ATTATTGATGTTTTGTGCTTA
1 ATTATTGATGTTTCATGCTTA
4243260 ATTATTGATGTTTCATGCTTA
1 ATTATTGATGTTTCATGCTTA
4243281 ATTATT
1 ATTATT
4243287 CTTCAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.06, G:0.15, T:0.56
Consensus pattern (21 bp):
ATTATTGATGTTTCATGCTTA
Found at i:4243505 original size:32 final size:32
Alignment explanation
Indices: 4243441--4243509 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
4243431 ATTTTTCTAG
*
4243441 ATTGTATCGATATAATCAAATTTATATTGATAC
1 ATTGTATCGATATAATCAAA-TTATATCGATAC
**
4243474 ATTGTATCGATATAATTTTAA-TATATCGATAC
1 ATTGTATCGATATAA-TCAAATTATATCGATAC
4243506 ATTG
1 ATTG
4243510 CTTTAGTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 14 0.44
33 15 0.47
34 3 0.09
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (32 bp):
ATTGTATCGATATAATCAAATTATATCGATAC
Found at i:4244591 original size:26 final size:26
Alignment explanation
Indices: 4244555--4244613 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
4244545 TAGAGAAATA
4244555 GAATTGATTATTTGTTATAAAGGAAG
1 GAATTGATTATTTGTTATAAAGGAAG
4244581 GAATTGATTATTTGTTATAAAGGAAG
1 GAATTGATTATTTGTTATAAAGGAAG
*
4244607 AAATTGA
1 GAATTGA
4244614 AAAAATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (26 bp):
GAATTGATTATTTGTTATAAAGGAAG
Found at i:4245313 original size:13 final size:13
Alignment explanation
Indices: 4245295--4245319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4245285 ATACTGCTTA
4245295 GTATCAATACATT
1 GTATCAATACATT
4245308 GTATCAATACAT
1 GTATCAATACAT
4245320 GTTCTTGGTC
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
GTATCAATACATT
Found at i:4246227 original size:30 final size:29
Alignment explanation
Indices: 4246191--4246258 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 29
4246181 TAAGCTAACA
**
4246191 CTTTTCAAAGTCCACAACTCCGTGGTGTCC
1 CTTTTCAAAGTCCACAACTCCGTGG-CACC
*
4246221 CTTTTCAAAGTCCCCAACTCCGTGGCACC
1 CTTTTCAAAGTCCACAACTCCGTGGCACC
4246250 CTTTTCAAA
1 CTTTTCAAA
4246259 AGCCCACACA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 11 0.31
30 24 0.69
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.29
Consensus pattern (29 bp):
CTTTTCAAAGTCCACAACTCCGTGGCACC
Found at i:4246285 original size:32 final size:32
Alignment explanation
Indices: 4246242--4246810 Score: 370
Period size: 32 Copynumber: 17.8 Consensus size: 32
4246232 CCCCAACTCC
* *
4246242 GTGGCACCCTTTTCAAAAGCCCACACAAGTTA
1 GTGGCAACCTTTTCAAAAGCCCACACAAGTTG
** * *
4246274 GTGGCAACCTTTTTTAAAGCCTACTCAAGTTG
1 GTGGCAACCTTTTCAAAAGCCCACACAAGTTG
* *
4246306 GTAGCAACCCTTT--AAAGCCCACACAAGTTG
1 GTGGCAACCTTTTCAAAAGCCCACACAAGTTG
* * * *
4246336 GTGGTAACCCTTTC-AAAGCCCGCACAAGTCG
1 GTGGCAACCTTTTCAAAAGCCCACACAAGTTG
* * * *
4246367 ATGGCATCCTTTTTCAAAAGCCCACATAAGTCG
1 GTGGCAACC-TTTTCAAAAGCCCACACAAGTTG
* * * * *
4246400 ATGGCAACCCTCTCTAAAGCCCACACAAGTTA
1 GTGGCAACCTTTTCAAAAGCCCACACAAGTTG
* * * *
4246432 GTGGCAACCCTTTCAAAAGTCCACACTAGTCG
1 GTGGCAACCTTTTCAAAAGCCCACACAAGTTG
* * * *
4246464 GTGGCAATCCCTTTTCTAAAGCCCATACAACTCG
1 GTGGCAA--CCTTTTCAAAAGCCCACACAAGTTG
** * * * *
4246498 AAGGCATCCTTTTTCAAAAGCCCACATAAATCG
1 GTGGCAACC-TTTTCAAAAGCCCACACAAGTTG
* **
4246531 GTGGCAACCCTTTT-TAAAGCCCACACAAGTCA
1 GTGGCAA-CCTTTTCAAAAGCCCACACAAGTTG
* * ***
4246563 CTGGCAACCCTTTTCAAAA-CCCTATACAAGGCA
1 GTGGCAA-CCTTTTCAAAAGCCC-ACACAAGTTG
* **
4246596 GTGGCAACCTCTTTC-AAAGCTCACACAAGTCA
1 GTGGCAACCT-TTTCAAAAGCCCACACAAGTTG
* *
4246628 GTAGCAACCTTTTTC-AAAGCCCACACAAGTTA
1 GTGGCAACC-TTTTCAAAAGCCCACACAAGTTG
* * *
4246660 TTGGCAACGCTTTT--AAAGCTCACATAAGTTG
1 GTGGCAAC-CTTTTCAAAAGCCCACACAAGTTG
* * *
4246691 GTGGCAACC-CTTCCAAAGCCCACAAAAGTTG
1 GTGGCAACCTTTTCAAAAGCCCACACAAGTTG
* * * * *
4246722 ATGGCATCTTTTTCCAAAA-CCTACACAAGTCG
1 GTGGCAACCTTTT-CAAAAGCCCACACAAGTTG
**
4246754 GTGGCAACCTTCTT-AAAAGTGCACACAAGTTG
1 GTGGCAACCTT-TTCAAAAGCCCACACAAGTTG
* * *
4246786 GTGGCAACCCTCTCAAAAGTCCACA
1 GTGGCAACCTTTTCAAAAGCCCACA
4246811 TCAGTCGATG
Statistics
Matches: 425, Mismatches: 92, Indels: 40
0.76 0.17 0.07
Matches are distributed among these distances:
29 2 0.00
30 27 0.06
31 68 0.16
32 222 0.52
33 81 0.19
34 25 0.06
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (32 bp):
GTGGCAACCTTTTCAAAAGCCCACACAAGTTG
Found at i:4246317 original size:65 final size:65
Alignment explanation
Indices: 4246242--4246794 Score: 407
Period size: 65 Copynumber: 8.6 Consensus size: 65
4246232 CCCCAACTCC
* * * *
4246242 GTGGC-ACCCTTTTCAAAAGCCCACACAAGTTAGTGGCAACCTTTTTTAAAGCCTACTCAAGTTG
1 GTGGCAACCCTTTTCAAAAGCCCACACAAGTTGGTGGCAACCTTTTTTAAAGCCCACACAAGTCG
* * * * *
4246306 GTAGCAACCC-TTT--AAAGCCCACACAAGTTGGTGGTAACC-CTTTCAAAGCCCGCACAAGTCG
1 GTGGCAACCCTTTTCAAAAGCCCACACAAGTTGGTGGCAACCTTTTTTAAAGCCCACACAAGTCG
* * * * * * * * * **
4246367 ATGGCATCCTTTTTCAAAAGCCCACATAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTTA
1 GTGGCAACCCTTTTCAAAAGCCCACACAAGTTGGTGGCAACCTTTTTTAAAGCCCACACAAGTCG
* * * * * *
4246432 GTGGCAACCC-TTTCAAAAGTCCACACTAGTCGGTGGCAATCCCTTTTCTAAAGCCCATACAACT
1 GTGGCAACCCTTTTCAAAAGCCCACACAAGTTGGTGGCAA--CCTTTTTTAAAGCCCACACAAGT
4246496 CG
64 CG
** * * * * * * *
4246498 AAGGCATCCTTTTTCAAAAGCCCACATAAATCGGTGGCAACCCTTTTTAAAGCCCACACAAGTCA
1 GTGGCAACCCTTTTCAAAAGCCCACACAAGTTGGTGGCAACCTTTTTTAAAGCCCACACAAGTCG
* * *** * * *
4246563 CTGGCAACCCTTTTCAAAA-CCCTATACAAGGCAGTGGCAACCTCTTTCAAAGCTCACACAAGTC
1 GTGGCAACCCTTTTCAAAAGCCC-ACACAAGTTGGTGGCAACCTTTTTTAAAGCCCACACAAGTC
*
4246627 A
65 G
* * ** * * *
4246628 GTAGCAACCTTTTTC-AAAGCCCACACAAGTTATTGGCAACGC--TTTTAAAGCTCACATAAGTT
1 GTGGCAACCCTTTTCAAAAGCCCACACAAGTTGGTGGCAAC-CTTTTTTAAAGCCCACACAAGTC
4246690 G
65 G
* * * * * * *
4246691 GTGGCAACCC--TTCCAAAGCCCACAAAAGTTGATGGC-ATCTTTTTCCAAAACCTACACAAGTC
1 GTGGCAACCCTTTTCAAAAGCCCACACAAGTTGGTGGCAACCTTTTT-TAAAGCCCACACAAGTC
4246753 G
65 G
**
4246754 GTGGCAA-CCTTCTT-AAAAGTGCACACAAGTTGGTGGCAACC
1 GTGGCAACCCTT-TTCAAAAGCCCACACAAGTTGGTGGCAACC
4246795 CTCTCAAAAG
Statistics
Matches: 378, Mismatches: 92, Indels: 37
0.75 0.18 0.07
Matches are distributed among these distances:
60 1 0.00
61 26 0.07
62 51 0.13
63 44 0.12
64 92 0.24
65 114 0.30
66 25 0.07
67 25 0.07
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (65 bp):
GTGGCAACCCTTTTCAAAAGCCCACACAAGTTGGTGGCAACCTTTTTTAAAGCCCACACAAGTCG
Found at i:4246523 original size:131 final size:128
Alignment explanation
Indices: 4246251--4246719 Score: 470
Period size: 131 Copynumber: 3.7 Consensus size: 128
4246241 CGTGGCACCC
* * * * * * *
4246251 TTTTCAAAAGCCCACACAAGT-TAGTGGCAACCTTTTTTAAAGCCTACTCAAGTTGGTAGCAACC
1 TTTTCAAAAGCCCACATAAGTCGA-TGGCAACCCTTTTTAAAGCCCACACAAGTTAGTGGCAACC
* * * * *
4246315 CTTT--AAAGCCCACACAAGTTGGTGGTAACCCTTTCAAAGCCCGCACAAGTCGATGGCATCCT
65 CTTTCAAAAGCCCACACAAGTCGGTGGCAACCCTTTCAAAGCCCACACAACTCGAAGGCATCCT
* *
4246377 TTTTCAAAAGCCCACATAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTTAGTGGCAACCC
1 TTTTCAAAAGCCCACATAAGTCGATGGCAACCCTTTTTAAAGCCCACACAAGTTAGTGGCAACCC
* * *
4246442 TTTCAAAAGTCCACACTAGTCGGTGGCAATCCCTTTTCTAAAGCCCATACAACTCGAAGGCATCC
66 TTTCAAAAGCCCACACAAGTCGGTGGCAA-CCC-TTTC-AAAGCCCACACAACTCGAAGGCATCC
4246507 T
128 T
* * * *
4246508 TTTTCAAAAGCCCACATAAATCGGTGGCAACCCTTTTTAAAGCCCACACAAGTCACTGGCAACCC
1 TTTTCAAAAGCCCACATAAGTCGATGGCAACCCTTTTTAAAGCCCACACAAGTTAGTGGCAACCC
* * * * * * *
4246573 TTTTCAAAA-CCCTATACAAGGCAGTGGCAACCTCTTTCAAAGCTCACACAAGTCAGTA-GCAAC
66 -TTTCAAAAGCCC-ACACAAGTCGGTGGCAACC-CTTTCAAAGCCCACACAACTC-GAAGGCATC
4246636 CT
127 CT
* * * * * *
4246638 TTTTC-AAAGCCCACACAAGT-TATTGGCAACGC-TTTTAAAGCTCACATAAGTTGGTGGCAACC
1 TTTTCAAAAGCCCACATAAGTCGA-TGGCAACCCTTTTTAAAGCCCACACAAGTTAGTGGCAACC
* *
4246700 C-TTCCAAAGCCCACAAAAGT
65 CTTTCAAAAGCCCACACAAGT
4246720 TGATGGCATC
Statistics
Matches: 284, Mismatches: 47, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
126 68 0.24
127 4 0.01
128 46 0.16
129 24 0.08
130 28 0.10
131 92 0.32
132 22 0.08
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (128 bp):
TTTTCAAAAGCCCACATAAGTCGATGGCAACCCTTTTTAAAGCCCACACAAGTTAGTGGCAACCC
TTTCAAAAGCCCACACAAGTCGGTGGCAACCCTTTCAAAGCCCACACAACTCGAAGGCATCCT
Done.