Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 15 of 47
Found at i:2110497 original size:14 final size:14
Alignment explanation
Indices: 2110478--2110507 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2110468 ATATAATATA
2110478 ATAAATAAATTTAT
1 ATAAATAAATTTAT
*
2110492 ATAAATATATTTAT
1 ATAAATAAATTTAT
2110506 AT
1 AT
2110508 TTTAGTTGGG
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAAATAAATTTAT
Found at i:2110629 original size:20 final size:20
Alignment explanation
Indices: 2110596--2110648 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
2110586 AAATTTATAT
2110596 TTTATTAAATATATTTTAAAT-A
1 TTTATTAAATATA---TAAATAA
*
2110618 TTTATTGAATATATAAATAA
1 TTTATTAAATATATAAATAA
2110638 TTTATTAAATA
1 TTTATTAAATA
2110649 CTCTTTTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 5 0.18
20 11 0.39
22 12 0.43
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTATTAAATATATAAATAA
Found at i:2113433 original size:16 final size:16
Alignment explanation
Indices: 2113406--2113438 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2113396 AAATTTTAAA
2113406 AAAAATTAATATATTTT
1 AAAAATTAATAT-TTTT
2113423 AAAAATT-ATATTTTT
1 AAAAATTAATATTTTT
2113438 A
1 A
2113439 TATATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 4 0.25
17 7 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAAAATTAATATTTTT
Found at i:2113839 original size:15 final size:15
Alignment explanation
Indices: 2113809--2113852 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
2113799 TTTGTACGTA
2113809 ATAAT-TATATTATAT
1 ATAATATATATT-TAT
2113824 ATAATATATATTTAT
1 ATAATATATATTTAT
* *
2113839 ATAGTAAATATTTA
1 ATAATATATATTTA
2113853 AATATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 20 0.77
16 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATAATATATATTTAT
Found at i:2116665 original size:2 final size:2
Alignment explanation
Indices: 2116658--2116688 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2116648 TCTTAATTAT
2116658 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2116689 AGCAGCCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2117918 original size:60 final size:60
Alignment explanation
Indices: 2117823--2117946 Score: 230
Period size: 60 Copynumber: 2.1 Consensus size: 60
2117813 GTATCCAAGG
*
2117823 AATCAGATCATTCTTATGGCCACAACATGGCATCTTCCTTCAAGGTTCATCTTGTTGAAA
1 AATCAGATCATTCTTATGGCCACAACATGGAATCTTCCTTCAAGGTTCATCTTGTTGAAA
*
2117883 AATCAGATCATTCTTATGGCCACAACATGGAATCTTCCTTCAAGGTTCATCTTGTTGAAG
1 AATCAGATCATTCTTATGGCCACAACATGGAATCTTCCTTCAAGGTTCATCTTGTTGAAA
2117943 AATC
1 AATC
2117947 TAGTCCCCGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (60 bp):
AATCAGATCATTCTTATGGCCACAACATGGAATCTTCCTTCAAGGTTCATCTTGTTGAAA
Found at i:2118794 original size:2 final size:2
Alignment explanation
Indices: 2118787--2118816 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2118777 AAGATTGCTA
2118787 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2118817 GCATAGGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2120449 original size:2 final size:2
Alignment explanation
Indices: 2120442--2120471 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2120432 TTCAAGTGAT
2120442 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2120472 TGCCCGCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2122364 original size:2 final size:2
Alignment explanation
Indices: 2122357--2122398 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
2122347 CTAGCTAGTA
*
2122357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2122399 CCTGTACGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2123482 original size:2 final size:2
Alignment explanation
Indices: 2123470--2123499 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
2123460 ATACATTATC
2123470 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
2123500 ATAAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2124172 original size:22 final size:22
Alignment explanation
Indices: 2124143--2124205 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
2124133 TCTAAACTTG
* *
2124143 AATAATTTAAATGTCAAATTTA
1 AATAATTTAAATGTAAAATCTA
* *
2124165 AATTATTTAAATTTAAAATCTA
1 AATAATTTAAATGTAAAATCTA
*
2124187 AATAATTTAAATTTAAAAT
1 AATAATTTAAATGTAAAAT
2124206 AATTTAACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (22 bp):
AATAATTTAAATGTAAAATCTA
Found at i:2124193 original size:16 final size:17
Alignment explanation
Indices: 2124174--2124212 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2124164 AAATTATTTA
2124174 AATTTAAAATCT-AAAT
1 AATTTAAAATCTAAAAT
*
2124190 AATTT-AAATTTAAAAT
1 AATTTAAAATCTAAAAT
2124206 AATTTAA
1 AATTTAA
2124213 CTTTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 14 0.70
17 1 0.05
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTTAAAATCTAAAAT
Found at i:2124217 original size:16 final size:16
Alignment explanation
Indices: 2124186--2124238 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
2124176 TTTAAAATCT
2124186 AAATAATTTAAATTTA
1 AAATAATTTAAATTTA
*
2124202 AAATAATTTAACTTTA
1 AAATAATTTAAATTTA
*
2124218 AAATTAATTAAAATTTTA
1 AAA-TAATTTAAA-TTTA
2124236 AAA
1 AAA
2124239 ATTAATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 18 0.56
17 7 0.22
18 7 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATAATTTAAATTTA
Found at i:2127695 original size:2 final size:2
Alignment explanation
Indices: 2127688--2127732 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
2127678 AATCTTTCAA
* *
2127688 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT GT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2127729 AT AT
1 AT AT
2127733 TATCAACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2128795 original size:2 final size:2
Alignment explanation
Indices: 2128790--2128829 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2128780 AACTTAAAAA
2128790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2128830 GAAAATTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2137673 original size:20 final size:20
Alignment explanation
Indices: 2137646--2137700 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2137636 TAAAATTTCC
*
2137646 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
2137666 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
2137686 AAATGTATCGATACA
1 AAATGTATCGATACA
2137701 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:2137744 original size:19 final size:19
Alignment explanation
Indices: 2137720--2137774 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
2137710 CAGTAGTTAA
*
2137720 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
*
2137739 TTATGTATCTATACAAAAC
1 TTATGTATCGATACAAAAC
2137758 TTATGTATCGATA-AAAA
1 TTATGTATCGATACAAAA
2137775 TTGTTGAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 4 0.12
19 29 0.88
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:2137854 original size:21 final size:21
Alignment explanation
Indices: 2137830--2137886 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2137820 CATTTGTAGG
2137830 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2137851 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2137872 ATGTATCGATACATT
1 ATGTATCGATACATT
2137887 TGGATAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2138715 original size:55 final size:55
Alignment explanation
Indices: 2138631--2139270 Score: 767
Period size: 55 Copynumber: 11.4 Consensus size: 55
2138621 ATAAAGTGTA
* * * * * *
2138631 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
2138686 TCCTGTTCTTTGAGGACTGAAAGGTGCCACAAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
2138741 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
2138796 TCCTACTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* **
2138851 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* * **
2138912 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGGGTGGGCTTTAAAAAAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAGGTG
* *
2138971 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
*
2139030 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
2139084 TCCTGCTCTCTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
2139139 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
2139194 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
2139249 TCCTGCTCTTTGGGGACTGAAA
1 TCCTGCTCTTTGAGGACTGAAA
2139271 AGCGGACGGA
Statistics
Matches: 530, Mismatches: 34, Indels: 43
0.87 0.06 0.07
Matches are distributed among these distances:
53 2 0.00
54 30 0.06
55 335 0.63
56 14 0.03
58 4 0.01
59 96 0.18
60 27 0.05
61 18 0.03
64 4 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:2138818 original size:26 final size:26
Alignment explanation
Indices: 2138789--2138876 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
2138779 GTGGGCTTTA
2138789 AAAGGTGTCCTACTCTTTGGGGACTG
1 AAAGGTGTCCTACTCTTTGGGGACTG
*
2138815 AAAGGTG-CC-ACCAACTTGTGTGGG-CTTTG
1 AAAGGTGTCCTA-C-TCTT-TG-GGGAC--TG
* *
2138844 AAAGGGGTCCTGCTCTTTGGGGACTG
1 AAAGGTGTCCTACTCTTTGGGGACTG
2138870 AAAGGTG
1 AAAGGTG
2138877 CCACCAACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
24 1 0.02
25 3 0.06
26 18 0.38
27 6 0.12
28 6 0.12
29 11 0.23
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.27
Consensus pattern (26 bp):
AAAGGTGTCCTACTCTTTGGGGACTG
Found at i:2139161 original size:27 final size:27
Alignment explanation
Indices: 2139131--2139216 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
2139121 TGTGGGCTTT
2139131 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
2139158 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
2139186 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
2139213 GAAA
1 GAAA
2139217 ATGCCACCAA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:2140257 original size:9 final size:9
Alignment explanation
Indices: 2140245--2140291 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
2140235 TTTCTTTTTT
2140245 TTTTGTTTG
1 TTTTGTTTG
2140254 TTTTGTTTG
1 TTTTGTTTG
2140263 TTTTG-TTG
1 TTTTGTTTG
2140271 TTTT-TTT-
1 TTTTGTTTG
* *
2140278 TTGTGTTTT
1 TTTTGTTTG
2140287 TTTTG
1 TTTTG
2140292 AAAAAGAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 3 0.09
8 12 0.36
9 18 0.55
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (9 bp):
TTTTGTTTG
Found at i:2140257 original size:12 final size:11
Alignment explanation
Indices: 2140233--2140290 Score: 57
Period size: 12 Copynumber: 5.3 Consensus size: 11
2140223 CTTAAGCAGA
*
2140233 TTTTTCTTTTT
1 TTTTTGTTTTT
2140244 TTTTTG--TTT
1 TTTTTGTTTTT
*
2140253 GTTTTGTTTGTT
1 TTTTTGTTT-TT
*
2140265 TTGTTGTTTTT
1 TTTTTGTTTTT
2140276 TTTTGTGTTTTT
1 TTTT-TGTTTTT
2140288 TTT
1 TTT
2140291 GAAAAAGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 8 0.21
11 11 0.29
12 19 0.50
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:2140266 original size:29 final size:29
Alignment explanation
Indices: 2140234--2140291 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
2140224 TTAAGCAGAT
*
2140234 TTTTCTT-TTTTTTTTGTTTGTTTTGTTTG
1 TTTTCTTGTTTTTTTT-TGTGTTTTGTTTG
* *
2140263 TTTTGTTGTTTTTTTTTGTGTTTTTTTTG
1 TTTTCTTGTTTTTTTTTGTGTTTTGTTTG
2140292 AAAAAGAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.83
Consensus pattern (29 bp):
TTTTCTTGTTTTTTTTTGTGTTTTGTTTG
Found at i:2150435 original size:28 final size:27
Alignment explanation
Indices: 2150400--2150474 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
2150390 GGAATAAAGC
* **
2150400 CGGGGTTGGAGTGTCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGAGG-AATAA
* *
2150428 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGAGGAATAA
2150455 CGGGGTTGGAGTATCCCCGA
1 CGGGGTTGGAGTATCCCCGA
2150475 TTGTGAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.20, C:0.21, G:0.36, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGAGGAATAA
Found at i:2152902 original size:13 final size:13
Alignment explanation
Indices: 2152884--2152922 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2152874 ACAAAGATCC
2152884 ATGTATCGATACA
1 ATGTATCGATACA
2152897 ATGTATCGATACA
1 ATGTATCGATACA
2152910 ATGTATCGATACA
1 ATGTATCGATACA
2152923 CAGAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2152983 original size:13 final size:13
Alignment explanation
Indices: 2152965--2152989 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2152955 TAGCTAATTA
2152965 TGTATCGATACAT
1 TGTATCGATACAT
2152978 TGTATCGATACA
1 TGTATCGATACA
2152990 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2153090 original size:21 final size:21
Alignment explanation
Indices: 2153066--2153122 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2153056 CATTTGTAGG
2153066 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2153087 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2153108 ATGTATCGATACATT
1 ATGTATCGATACATT
2153123 TGGATAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2154086 original size:20 final size:20
Alignment explanation
Indices: 2154042--2154114 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 20
2154032 TCTTATAATT
*
2154042 TGTATCGATACA-ACAAGTTAA
1 TGTATCGATACATAC--GTGAA
2154063 TGTATCGATACATACGTGAA
1 TGTATCGATACATACGTGAA
*
2154083 TGTATCGATACATGC-TAGCAA
1 TGTATCGATACATACGT-G-AA
2154104 TGTATCGATAC
1 TGTATCGATAC
2154115 TGGACCTTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.02
20 19 0.40
21 25 0.53
22 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATACGTGAA
Found at i:2154200 original size:21 final size:21
Alignment explanation
Indices: 2154176--2154229 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
2154166 TAAGTGATTT
*
2154176 TATTGATATATGCTTTCAATG
1 TATTGATACATGCTTTCAATG
* *
2154197 TATTGATACAT-TTTTCTATG
1 TATTGATACATGCTTTCAATG
2154217 TATTGATACATGC
1 TATTGATACATGC
2154230 AGGCACATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (21 bp):
TATTGATACATGCTTTCAATG
Found at i:2157457 original size:28 final size:30
Alignment explanation
Indices: 2157426--2157488 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
2157416 CCAAACTCTA
*
2157426 TGGCA-CCCC-TTTAAAGTCCATAACTTCG
1 TGGCACCCCCTTTTAAAGTCCACAACTTCG
*
2157454 TGGCACCCCCTTTTTAAGTCCACAACTTCG
1 TGGCACCCCCTTTTAAAGTCCACAACTTCG
2157484 TGGCA
1 TGGCA
2157489 TAACTTCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 5 0.16
29 4 0.13
30 22 0.71
ACGTcount: A:0.22, C:0.33, G:0.16, T:0.29
Consensus pattern (30 bp):
TGGCACCCCCTTTTAAAGTCCACAACTTCG
Found at i:2157516 original size:43 final size:43
Alignment explanation
Indices: 2157444--2157529 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
2157434 CTTTAAAGTC
* *
2157444 CATAACTTCGTGGCACCCCCTTTTTAAGTCCACAACTTCGTGG
1 CATAACTTCATGGCACCCCCTTTTTAAGTCCACAACTCCGTGG
*
2157487 CATAACTTCATGGCA-CCCTTTTTTAAAGTCCACAACTCCGTGG
1 CATAACTTCATGGCACCCCCTTTTT-AAGTCCACAACTCCGTGG
2157530 TATCCTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
42 8 0.21
43 31 0.79
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.30
Consensus pattern (43 bp):
CATAACTTCATGGCACCCCCTTTTTAAGTCCACAACTCCGTGG
Found at i:2157609 original size:28 final size:28
Alignment explanation
Indices: 2157497--2157933 Score: 293
Period size: 28 Copynumber: 14.8 Consensus size: 28
2157487 CATAACTTCA
2157497 TGGCACCCTTTTTTAAAGTCCACAACTCCG
1 TGGCA-CC-TTTTTAAAGTCCACAACTCCG
* *
2157527 TGGTATCCTTTTTCAAAGTTCACAACTCCG
1 TGGCA-CCTTTTT-AAAGTCCACAACTCCG
*
2157557 TGGCACCCTTCTTTTAAAGTTCACAACTCCG
1 TGGCA-CC-T-TTTTAAAGTCCACAACTCCG
*
2157588 TGGCACCTTTTTAAAGTCCACAACTCTG
1 TGGCACCTTTTTAAAGTCCACAACTCCG
* * * *
2157616 TGGCACCCTTTTAAAGTCCACAATTTCA
1 TGGCACCTTTTTAAAGTCCACAACTCCG
* * **
2157644 TGGAACCTTTTTTTTAAAGTCCATAACTTTG
1 TGGCACC---TTTTTAAAGTCCACAACTCCG
*
2157675 TGGCACTTCTCTTTTAAAGTCCA-AAATCCG
1 TGGCAC--CT-TTTTAAAGTCCACAACTCCG
* * **
2157705 TGGCACCTTTTTAAAG-CTTACAATTTTG
1 TGGCACCTTTTTAAAGTC-CACAACTCCG
* * *
2157733 TGGCACCCTTTTAAAGTCCACAATTCCA
1 TGGCACCTTTTTAAAGTCCACAACTCCG
* * *
2157761 TGGCACATTTTTTTTAAAGTCCATAACTTCG
1 TGGCAC---CTTTTTAAAGTCCACAACTCCG
* * *
2157792 TGGCTCTTTTTCTTTTAAAGTCCATAACTCCG
1 TGGCAC---CT-TTTTAAAGTCCACAACTCCG
**
2157824 TGGCACCCCTTTAAAGTCCACAACTCCG
1 TGGCACCTTTTTAAAGTCCACAACTCCG
* * * * *
2157852 TGGTACCTTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTTAAAGTCCACAACTCCG
* * * *
2157880 TGGCAACCTTCTTCTAAAGCCCATAAGTCAG
1 TGGC-ACCTT-TT-TAAAGTCCACAACTCCG
* *
2157911 TGGCACCATTTTAAAGCCCACAA
1 TGGCACCTTTTTAAAGTCCACAA
2157934 GTTAATGGCA
Statistics
Matches: 331, Mismatches: 57, Indels: 40
0.77 0.13 0.09
Matches are distributed among these distances:
26 1 0.00
27 9 0.03
28 133 0.40
29 14 0.04
30 46 0.14
31 99 0.30
32 28 0.08
33 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (28 bp):
TGGCACCTTTTTAAAGTCCACAACTCCG
Found at i:2157708 original size:117 final size:119
Alignment explanation
Indices: 2157535--2157874 Score: 420
Period size: 117 Copynumber: 2.9 Consensus size: 119
2157525 CGTGGTATCC
* * * * ** *
2157535 TTTTTCAAAGTTCACAACTCCGTGGCACCCT-TCTTTTAAAGTTCACAACTCCGTGGCACCTTTT
1 TTTTTTAAAGTCCATAACTTCGTGGCACTTTCTCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* *
2157599 TAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAATTTCATGGAACCTT
66 TAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAATTCCATGGAACATT
* *
2157653 TTTTTTAAAGTCCATAACTTTGTGGCAC-TTCTCTTTTAAAGTCCA-AAATCCGTGGCACCTTTT
1 TTTTTTAAAGTCCATAACTTCGTGGCACTTTCTCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* * * *
2157716 TAAAG-CTTACAATTTTGTGGCACCCTTTTAAAGTCCACAATTCCATGGCACATT
66 TAAAGTC-CACAACTCTGTGGCACCCTTTTAAAGTCCACAATTCCATGGAACATT
* * * **
2157770 TTTTTTAAAGTCCATAACTTCGTGGCTCTTTTTCTTTTAAAGTCCATAACTCCGTGGCACCCCTT
1 TTTTTTAAAGTCCATAACTTCGTGGCACTTTCTCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* * *
2157835 TAAAGTCCACAACTCCGTGGTA-CCTTTTCAAAGCCCACAA
66 TAAAGTCCACAACTCTGTGGCACCCTTTT-AAAGTCCACAA
2157875 GTCAGTGGCA
Statistics
Matches: 190, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
116 1 0.01
117 90 0.47
118 58 0.31
119 40 0.21
120 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.35
Consensus pattern (119 bp):
TTTTTTAAAGTCCATAACTTCGTGGCACTTTCTCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
TAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAATTCCATGGAACATT
Found at i:2157728 original size:89 final size:86
Alignment explanation
Indices: 2157497--2157795 Score: 246
Period size: 89 Copynumber: 3.4 Consensus size: 86
2157487 CATAACTTCA
* * * * *
2157497 TGGCACCCTTTTTTAAAGTCCACAACTCCGTGGTATCCTTTTTCAAAGTTCACAACTCCGTGGCA
1 TGGCA-CC-TTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTT-AAAGTT-ACAATTTCATGGAA
*
2157562 CCCTTCTTTTAAAGTTCACAACTCCG
61 CCCTTCTTTTAAAGTCCACAACTCCG
* * * *
2157588 TGGCACCTTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAATTTCATGGAACCTT
1 TGGCACCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTAAAGT-TACAATTTCATGGAACCCT
* * **
2157653 TTTTTTAAAGTCCATAACTTTG
65 TCTTTTAAAGTCCACAACTCCG
* ** *
2157675 TGGCACTTCTCTTTTAAAGTCCA-AAATCCGTGGCACCTTTTTAAAGCTTACAATTTTGTGGCA-
1 TGGCAC--CT-TTTTAAAGTCCACAACTCCGTGGCACCTTTTTAAAG-TTACAATTTCATGGAAC
* *
2157738 CC--CTTTTAAAGTCCACAATTCCA
62 CCTTCTTTTAAAGTCCACAACTCCG
* * *
2157761 TGGCACATTTTTTTTAAAGTCCATAACTTCGTGGC
1 TGGCAC---CTTTTTAAAGTCCACAACTCCGTGGC
2157796 TCTTTTTCTT
Statistics
Matches: 170, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
86 33 0.19
87 53 0.31
88 7 0.04
89 57 0.34
90 15 0.09
91 5 0.03
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.35
Consensus pattern (86 bp):
TGGCACCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTAAAGTTACAATTTCATGGAACCCTT
CTTTTAAAGTCCACAACTCCG
Found at i:2157808 original size:32 final size:32
Alignment explanation
Indices: 2157623--2157829 Score: 118
Period size: 31 Copynumber: 6.8 Consensus size: 32
2157613 CTGTGGCACC
* * * * *
2157623 CTTTTAAAGTCCACAATTTCATGGAACCTTTT
1 CTTTTAAAGTCCATAACTTCGTGGCACATTTT
* *
2157655 -TTTTAAAGTCCATAACTTTGTGGCAC-TTCT
1 CTTTTAAAGTCCATAACTTCGTGGCACATTTT
* * *
2157685 CTTTTAAAGTCCA-AAATCCGTGGCAC---CT
1 CTTTTAAAGTCCATAACTTCGTGGCACATTTT
* * * * *
2157713 -TTTTAAAG-CTTACAATTTTGTGGCAC----C
1 CTTTTAAAGTC-CATAACTTCGTGGCACATTTT
* *
2157740 CTTTTAAAGTCCACAA-TTCCATGGCACATTTT
1 CTTTTAAAGTCCATAACTT-CGTGGCACATTTT
* *
2157772 -TTTTAAAGTCCATAACTTCGTGGCTCTTTTT
1 CTTTTAAAGTCCATAACTTCGTGGCACATTTT
*
2157803 CTTTTAAAGTCCATAACTCCGTGGCAC
1 CTTTTAAAGTCCATAACTTCGTGGCAC
2157830 CCCTTTAAAG
Statistics
Matches: 139, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
26 1 0.01
27 11 0.08
28 30 0.22
29 1 0.01
30 13 0.09
31 57 0.41
32 26 0.19
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (32 bp):
CTTTTAAAGTCCATAACTTCGTGGCACATTTT
Found at i:2157916 original size:87 final size:86
Alignment explanation
Indices: 2157801--2158006 Score: 236
Period size: 87 Copynumber: 2.4 Consensus size: 86
2157791 GTGGCTCTTT
* * * * ** * *
2157801 TTCTTTTAAAGTCCATAACTCCGTGGCACCCCTTTAAAGTCCACAACTCCGTGGTACCTTTTCAA
1 TTCTTTTAAAGCCCATAAGTCAGTGGCACCCCTTTAAAGCCCACAACTCAATGGCACATTTTCAA
2157866 AGCCCACAAGTCAGTGGCAACC
66 AGCCCACAAGTCAGTGGC-ACC
* ** * * *
2157888 TTCTTCTAAAGCCCATAAGTCAGTGGCACCATTTTAAAGCCCACAAGTTAATGGCATATTTTCAA
1 TTCTTTTAAAGCCCATAAGTCAGTGGCACCCCTTTAAAGCCCACAACTCAATGGCACATTTTCAA
*
2157953 AGCCCACATGTCAGTGGCACC
66 AGCCCACAAGTCAGTGGCACC
* *
2157974 --CTTTTAAAGCCCATAAGTTAGTGGCAACCCTTT
1 TTCTTTTAAAGCCCATAAGTCAGTGGCACCCCTTT
2158007 TTTAAAGCCC
Statistics
Matches: 99, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
84 28 0.28
86 3 0.03
87 68 0.69
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (86 bp):
TTCTTTTAAAGCCCATAAGTCAGTGGCACCCCTTTAAAGCCCACAACTCAATGGCACATTTTCAA
AGCCCACAAGTCAGTGGCACC
Found at i:2157935 original size:28 final size:28
Alignment explanation
Indices: 2157803--2158211 Score: 210
Period size: 28 Copynumber: 13.5 Consensus size: 28
2157793 GGCTCTTTTT
* * * *
2157803 CTTTTAAAGTCCATAACTCCGTGGCACC
1 CTTTTAAAGCCCACAAGTCAGTGGCACC
* * * * *
2157831 CCTTTAAAGTCCACAACTCCGTGGTA-C
1 CTTTTAAAGCCCACAAGTCAGTGGCACC
2157858 CTTTTCAAAGCCCACAAGTCAGTGGCAACC
1 CTTTT-AAAGCCCACAAGTCAGTGGC-ACC
* *
2157888 TTCTTCTAAAGCCCATAAGTCAGTGGCACC
1 --CTTTTAAAGCCCACAAGTCAGTGGCACC
* * * *
2157918 ATTTTAAAGCCCACAAGTTAATGGCA-T
1 CTTTTAAAGCCCACAAGTCAGTGGCACC
* *
2157945 ATTTTCAAAGCCCACATGTCAGTGGCACC
1 CTTTT-AAAGCCCACAAGTCAGTGGCACC
* *
2157974 CTTTTAAAGCCCATAAGTTAGTGGCAACC
1 CTTTTAAAGCCCACAAGTCAGTGGC-ACC
* *
2158003 CTTTTTTAAAGCCCATAAAGTCGGTGGCAACC
1 C--TTTTAAAGCCCA-CAAGTCAGTGGC-ACC
* *
2158035 CTTTTCAAAGCCCATAAAAGTCAGTGGTAACC
1 CTTTT-AAAGCCC--ACAAGTCAGTGG-CACC
**
2158067 CTTTTCAAAAGCCCACACAAGTTGGTGGCAACC
1 CTTTT--AAAG-CC-CACAAGTCAGTGGC-ACC
*
2158100 CTTCTCTAAAGCCTACACAAGTCAGTGGCAACA
1 CTT-T-TAAAGCC--CACAAGTCAGTGGC-ACC
* * ** * *
2158133 TTTTTCAAAGCCCATAAAGTTGGTGGAAAC
1 CTTTT-AAAGCCCA-CAAGTCAGTGGCACC
*
2158163 CTTTTCAAAACCCATACAAAGTCAGTGGCAACC
1 CTTTT-AAAGCCC--AC-AAGTCAGTGGC-ACC
*
2158196 TTTTTCAAAGCCCACA
1 CTTTT-AAAGCCCACA
2158212 CACGTTGATG
Statistics
Matches: 300, Mismatches: 53, Indels: 54
0.74 0.13 0.13
Matches are distributed among these distances:
27 10 0.03
28 95 0.32
29 9 0.03
30 23 0.08
31 49 0.16
32 54 0.18
33 55 0.18
34 3 0.01
35 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (28 bp):
CTTTTAAAGCCCACAAGTCAGTGGCACC
Found at i:2158100 original size:33 final size:32
Alignment explanation
Indices: 2157857--2158213 Score: 270
Period size: 33 Copynumber: 11.6 Consensus size: 32
2157847 CTCCGTGGTA
2157857 CCTTTTCAAAG-CC-CACAAGTCAGTGGCAA-
1 CCTTTTCAAAGCCCACACAAGTCAGTGGCAAC
*
2157886 CCTTCTTCTAAAG-CC-CATAAGTCAGTGGC-AC
1 CCTT-TTC-AAAGCCCACACAAGTCAGTGGCAAC
* * *
2157917 CATTTT-AAAG-CC-CACAAGTTAATGGCATA-
1 CCTTTTCAAAGCCCACACAAGTCAGTGGCA-AC
*
2157946 --TTTTCAAAG-CC-CACATGTCAGTGGC-AC
1 CCTTTTCAAAGCCCACACAAGTCAGTGGCAAC
* *
2157973 CCTTTT-AAAG-CC-CATAAGTTAGTGGCAAC
1 CCTTTTCAAAGCCCACACAAGTCAGTGGCAAC
* * *
2158002 CCTTTTTTAAAGCCCATA-AAGTCGGTGGCAAC
1 CC-TTTTCAAAGCCCACACAAGTCAGTGGCAAC
* * *
2158034 CCTTTTCAAAGCCCATAAAAGTCAGTGGTAAC
1 CCTTTTCAAAGCCCACACAAGTCAGTGGCAAC
**
2158066 CCTTTTCAAAAGCCCACACAAGTTGGTGGCAAC
1 CCTTTTC-AAAGCCCACACAAGTCAGTGGCAAC
* *
2158099 CCTTCTCTAAAGCCTACACAAGTCAGTGGCAAC
1 CCTTTTC-AAAGCCCACACAAGTCAGTGGCAAC
** * ** *
2158132 ATTTTTCAAAGCCCATA-AAGTTGGTGG-AAA
1 CCTTTTCAAAGCCCACACAAGTCAGTGGCAAC
* *
2158162 CCTTTTCAAAACCCATACAAAGTCAGTGGCAAC
1 CCTTTTCAAAGCCCACAC-AAGTCAGTGGCAAC
*
2158195 CTTTTTCAAAGCCCACACA
1 CCTTTTCAAAGCCCACACA
2158214 CGTTGATGGC
Statistics
Matches: 265, Mismatches: 44, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.00
27 4 0.02
28 51 0.19
29 12 0.05
30 27 0.10
31 48 0.18
32 52 0.20
33 70 0.26
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (32 bp):
CCTTTTCAAAGCCCACACAAGTCAGTGGCAAC
Found at i:2158145 original size:129 final size:125
Alignment explanation
Indices: 2157857--2158224 Score: 361
Period size: 128 Copynumber: 3.0 Consensus size: 125
2157847 CTCCGTGGTA
* * *
2157857 CCTTTTCAAAGCCCACAAGTCAGTGGCAACC-TTCTTCTAAAGCCCAT-AAGTCAGTGG-CACCA
1 CCTTTT-AAAGCCCACAAGTCAGTGGCAACCATTTTTC-AAAGCCCATAAAGTCGGTGGAAACC-
* * * * **
2157919 TTTT-AAAGCCC--AC-AAGTTAATGGCATA---TTTTCAAAG-CC-CACATGTCAGTGGC-AC
63 TTTTCAAAACCCATACAAAGTCAGTGGCA-ACCCTTTTCAAAGCCCACACAAGTTGGTGGCAAC
* * * * *
2157973 CCTTTTAAAGCCCATAAGTTAGTGGCAACCCTTTTTTAAAGCCCATAAAGTCGGTGGCAACCCTT
1 CCTTTTAAAGCCCACAAGTCAGTGGCAACCATTTTTCAAAGCCCATAAAGTCGGTGG-AAACCTT
* *
2158038 TTCAAAGCCCATA-AAAGTCAGTGGTAACCCTTTTCAAAAGCCCACACAAGTTGGTGGCAAC
65 TTCAAAACCCATACAAAGTCAGTGGCAACCCTTTTC-AAAGCCCACACAAGTTGGTGGCAAC
*
2158099 CCTTCTCTAAAGCCTACACAAGTCAGTGGCAA-CATTTTTCAAAGCCCATAAAGTTGGTGGAAAC
1 CCTT-T-TAAAGCC--CACAAGTCAGTGGCAACCATTTTTCAAAGCCCATAAAGTCGGTGGAAAC
* * *
2158163 CTTTTCAAAACCCATACAAAGTCAGTGGCAACCTTTTTCAAAGCCCACACACGTTGATGGCA
62 CTTTTCAAAACCCATACAAAGTCAGTGGCAACCCTTTTCAAAGCCCACACAAGTTGGTGGCA
2158225 TCTTCTTCTA
Statistics
Matches: 208, Mismatches: 24, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
115 31 0.15
116 19 0.09
117 4 0.02
118 9 0.04
119 1 0.00
120 10 0.05
122 5 0.02
123 4 0.02
124 2 0.01
125 11 0.05
126 6 0.03
127 1 0.00
128 46 0.22
129 45 0.22
130 14 0.07
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (125 bp):
CCTTTTAAAGCCCACAAGTCAGTGGCAACCATTTTTCAAAGCCCATAAAGTCGGTGGAAACCTTT
TCAAAACCCATACAAAGTCAGTGGCAACCCTTTTCAAAGCCCACACAAGTTGGTGGCAAC
Found at i:2158596 original size:63 final size:61
Alignment explanation
Indices: 2158493--2158802 Score: 239
Period size: 61 Copynumber: 5.2 Consensus size: 61
2158483 AGCATTCTTC
* *
2158493 TCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTTTCATCCTTTTA
1 TCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTCTTCTCATCC--TTA
** * *
2158556 TCATCTTCAAGTCCAATGTTATTGGCCTTGAATCAACACATTGGTACTCTTCTCATCCTTA
1 TCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTCTTCTCATCCTTA
* * *
2158617 TCA-CTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-----C-CA---TTG
1 TCATC-TTCAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTCTTCTCATCCTTA
* * * * * * * *
2158669 TCATCTTTAA-TCCGATATCGCTGGCCTTGAATCAGCATATTGGCAC-CTTTATCATTCTTT
1 TCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTC-TTCTCATCCTTA
* * * *** * ** *
2158729 TTATCTTGAAGTCCAATGTCGTCGATGTTAAATCAATACATTGGCACTCTTCTTATCCTTA
1 TCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTCTTCTCATCCTTA
* *
2158790 TCATTTTTAAGTC
1 TCATCTTCAAGTC
2158803 AAGTGTCACA
Statistics
Matches: 196, Mismatches: 38, Indels: 28
0.75 0.15 0.11
Matches are distributed among these distances:
51 32 0.16
52 10 0.05
53 1 0.01
55 2 0.01
56 1 0.01
57 2 0.01
60 11 0.06
61 84 0.43
62 1 0.01
63 52 0.27
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (61 bp):
TCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTCTTCTCATCCTTA
Found at i:2158648 original size:61 final size:62
Alignment explanation
Indices: 2158493--2158663 Score: 238
Period size: 63 Copynumber: 2.8 Consensus size: 62
2158483 AGCATTCTTC
* *
2158493 TCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTTTCATCCTTTTA
1 TCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTCTTCTCATCC-TTTA
** * *
2158556 TCATCTTCAAGTCCAATGTTATTGGCCTTGAATCAACACATTGGTACTCTTCTCATCC-TTA
1 TCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTCTTCTCATCCTTTA
* *
2158617 TCA-CTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 TCATC-TTCAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCAC
2158664 CATTGTCATC
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
60 1 0.01
61 42 0.44
63 52 0.55
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (62 bp):
TCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTCTTCTCATCCTTTA
Found at i:2159459 original size:21 final size:22
Alignment explanation
Indices: 2159433--2159489 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
2159423 TCGATACAAT
*
2159433 AATGTATTGATACAATAAGTG-
1 AATGTATTGATACAATAACTGA
* **
2159454 AATGTATCGATAC-ATGTCTGA
1 AATGTATTGATACAATAACTGA
2159475 AATGTATTGATACAA
1 AATGTATTGATACAA
2159490 GACCATGTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 4 0.14
21 24 0.83
22 1 0.03
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (22 bp):
AATGTATTGATACAATAACTGA
Found at i:2159609 original size:51 final size:52
Alignment explanation
Indices: 2159534--2159661 Score: 161
Period size: 52 Copynumber: 2.5 Consensus size: 52
2159524 AAGTGTATCA
* *
2159534 ATACATTTTTTATT-TATCGATACATTTTGGGTTTTGA-CCCAAATGCATTG
1 ATACATTTTTTATTGTATCGATACATTCTGGGTTTTGATCCCAAATGCATCG
* * *
2159584 ATACATTTTTTATTGTATCGATACATTCTGGGTTTTTATCCTAAATGTATCG
1 ATACATTTTTTATTGTATCGATACATTCTGGGTTTTGATCCCAAATGCATCG
* * * *
2159636 ATACATTCTTCAATGTATCAATACAT
1 ATACATTTTTTATTGTATCGATACAT
2159662 GTAGGCAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
50 14 0.21
51 21 0.31
52 32 0.48
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (52 bp):
ATACATTTTTTATTGTATCGATACATTCTGGGTTTTGATCCCAAATGCATCG
Found at i:2160650 original size:12 final size:12
Alignment explanation
Indices: 2160633--2160666 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2160623 CTTGCATTTT
*
2160633 TGTCATAACACA
1 TGTCATAAAACA
2160645 TGTCATAAAACA
1 TGTCATAAAACA
*
2160657 TGTCACAAAA
1 TGTCATAAAA
2160667 TTTTCAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (12 bp):
TGTCATAAAACA
Found at i:2162905 original size:15 final size:15
Alignment explanation
Indices: 2162885--2162914 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2162875 CAAGTTAAGT
*
2162885 TCAAGCTAGCTTCAA
1 TCAAGCTAGCCTCAA
2162900 TCAAGCTAGCCTCAA
1 TCAAGCTAGCCTCAA
2162915 CAAATTTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.23
Consensus pattern (15 bp):
TCAAGCTAGCCTCAA
Found at i:2166458 original size:73 final size:73
Alignment explanation
Indices: 2166356--2166514 Score: 300
Period size: 73 Copynumber: 2.2 Consensus size: 73
2166346 ACATGTTGCA
*
2166356 ATGTATCGATACATGAAAAAGATGCATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGATA
1 ATGTATCGATACACGAAAAAGATGCATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGATA
2166421 CAGCAAGT
66 CAGCAAGT
*
2166429 ATGTATCGATACACGAAAAAGATGTATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGATA
1 ATGTATCGATACACGAAAAAGATGCATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGATA
2166494 CAGCAAGT
66 CAGCAAGT
2166502 ATGTATCGATACA
1 ATGTATCGATACA
2166515 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 84 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (73 bp):
ATGTATCGATACACGAAAAAGATGCATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGATA
CAGCAAGT
Found at i:2166520 original size:13 final size:13
Alignment explanation
Indices: 2166502--2166527 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2166492 TACAGCAAGT
2166502 ATGTATCGATACA
1 ATGTATCGATACA
2166515 ATGTATCGATACA
1 ATGTATCGATACA
2166528 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:2168776 original size:21 final size:21
Alignment explanation
Indices: 2168743--2168787 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2168733 TTGCAAGTTG
*
2168743 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2168765 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2168785 AAA
1 AAA
2168788 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:2170610 original size:15 final size:15
Alignment explanation
Indices: 2170590--2170620 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2170580 TAAAAATGTC
*
2170590 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2170605 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2170620 C
1 C
2170621 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:2172717 original size:13 final size:13
Alignment explanation
Indices: 2172699--2172724 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2172689 ACATTTTTCT
2172699 TTGTATCGATACA
1 TTGTATCGATACA
2172712 TTGTATCGATACA
1 TTGTATCGATACA
2172725 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2172888 original size:20 final size:20
Alignment explanation
Indices: 2172845--2172890 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2172835 AAATCTTTTG
2172845 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2172866 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2172886 CAAAA
1 CAAAA
2172891 CTAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2175295 original size:73 final size:73
Alignment explanation
Indices: 2175193--2175351 Score: 309
Period size: 73 Copynumber: 2.2 Consensus size: 73
2175183 ACATGTTGCA
*
2175193 ATGTATCGATACATGAAAAAGATGTATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGATA
1 ATGTATCGATACACGAAAAAGATGTATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGATA
2175258 CAGCAAGT
66 CAGCAAGT
2175266 ATGTATCGATACACGAAAAAGATGTATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGATA
1 ATGTATCGATACACGAAAAAGATGTATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGATA
2175331 CAGCAAGT
66 CAGCAAGT
2175339 ATGTATCGATACA
1 ATGTATCGATACA
2175352 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 85 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (73 bp):
ATGTATCGATACACGAAAAAGATGTATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGATA
CAGCAAGT
Found at i:2175357 original size:13 final size:13
Alignment explanation
Indices: 2175339--2175364 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2175329 TACAGCAAGT
2175339 ATGTATCGATACA
1 ATGTATCGATACA
2175352 ATGTATCGATACA
1 ATGTATCGATACA
2175365 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:2182063 original size:42 final size:42
Alignment explanation
Indices: 2182007--2182125 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
2181997 GTCTTCTCTC
* *
2182007 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* * *
2182049 CTTCTTCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* * *
2182091 CTCCTCCTATCATCCTTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2182126 TTGAGGGCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.08, C:0.44, G:0.03, T:0.45
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:2182100 original size:21 final size:21
Alignment explanation
Indices: 2182025--2182101 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
2182015 GTCATCCCTC
*
2182025 CTCTCTCTATTATCTCTCCTGT
1 CTCTC-CTACTATCTCTCCTGT
* * *
2182047 CTCTTCTTCTATCATC-CCT-C
1 CTCTCCTACTATC-TCTCCTGT
*
2182067 CTATCTCTACTATCTCTCCTGT
1 CTCTC-CTACTATCTCTCCTGT
*
2182089 CTCTCCTCCTATC
1 CTCTCCTACTATC
2182102 ATCCTTCCTC
Statistics
Matches: 41, Mismatches: 10, Indels: 9
0.68 0.17 0.15
Matches are distributed among these distances:
20 5 0.12
21 26 0.63
22 10 0.24
ACGTcount: A:0.10, C:0.42, G:0.03, T:0.45
Consensus pattern (21 bp):
CTCTCCTACTATCTCTCCTGT
Found at i:2191740 original size:28 final size:28
Alignment explanation
Indices: 2191666--2191929 Score: 339
Period size: 28 Copynumber: 9.3 Consensus size: 28
2191656 CATTCCTCAC
* * *
2191666 CCTTTAAAAGCCCACGAGTCAGTGGCAT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* *
2191694 CTTTTACAAAGCCCACAAGTCAGTGGCAA
1 CCTTCA-AAAGCCCACAAGTCAGTGGCAA
*
2191723 CCTTCAAAAGCTCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
*
2191751 CCTTCAAAAGCCCACAAGTTAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
*
2191779 CCTTCAAAAGCCCACAAGTTAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
*
2191807 CCTTCAAAAGCCCACAAGTCAGTGGCAT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* *
2191835 CTTTCCCAAAGCCCACAAGTCAGTGGCAA
1 CCTT-CAAAAGCCCACAAGTCAGTGGCAA
* * *
2191864 TCTTCAAAAGCCCACAAGTCAATGGCAT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* * *
2191892 CTTTTCCAAAGCCCATAAGTCAGTGGCAA
1 C-CTTCAAAAGCCCACAAGTCAGTGGCAA
*
2191921 TCTTCAAAA
1 CCTTCAAAA
2191930 CACTACAGCG
Statistics
Matches: 206, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
28 136 0.66
29 70 0.34
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (28 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:2191775 original size:56 final size:56
Alignment explanation
Indices: 2191666--2191929 Score: 339
Period size: 57 Copynumber: 4.7 Consensus size: 56
2191656 CATTCCTCAC
* * * * *
2191666 CCTTTAAAAGCCCACGAGTCAGTGGCATCTTTTACAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCA-AAAGCCCACAAGTCAGTGGCAA
* *
2191723 CCTTCAAAAGCTCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTTAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAA
* *
2191779 CCTTCAAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAA
* * * * *
2191835 CTTTCCCAAAGCCCACAAGTCAGTGGCAATCTTCAAAAGCCCACAAGTCAATGGCAT
1 CCTT-CAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAA
* * * *
2191892 CTTTTCCAAAGCCCATAAGTCAGTGGCAATCTTCAAAA
1 C-CTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAA
2191930 CACTACAGCG
Statistics
Matches: 188, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
56 76 0.40
57 109 0.58
58 3 0.02
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (56 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:2192487 original size:13 final size:13
Alignment explanation
Indices: 2192469--2192496 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2192459 CATTATTCAA
2192469 TGTATCGATACAT
1 TGTATCGATACAT
2192482 TGTATCGATACAT
1 TGTATCGATACAT
2192495 TG
1 TG
2192497 ATCTTTGTAT
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:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2198053 original size:20 final size:20
Alignment explanation
Indices: 2198028--2198103 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
2198018 TTTTTACCCA
*
2198028 AATGTATTGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * *
2198048 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
* * *
2198068 AGTATATCGATACATTCTTC
1 AATGTATCGATACATTTTTC
2198088 AATGTATCGATACATT
1 AATGTATCGATACATT
2198104 CTGTCTTTTT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:2198133 original size:71 final size:71
Alignment explanation
Indices: 2198048--2198204 Score: 208
Period size: 71 Copynumber: 2.2 Consensus size: 71
2198038 TACATTTTTC
* *
2198048 AATGTATCGATACATGTATGAGTATATCGATACAT-TCTTCAATGTATCGATACATTCTGTCTTT
1 AATGTATCGATACATGTATGAATATATCGATACATGT-ATCAATGTATCGATACATTCTGTCTTT
2198112 TTACCCA
65 TTACCCA
* * * * * * *
2198119 GATGTATCGATACATTTTTTAATTTATCGATATATGTATGAATGTATCGATACATTCTGTCTTTT
1 AATGTATCGATACATGTATGAATATATCGATACATGTATCAATGTATCGATACATTCTGTCTTTT
*
2198184 TTCCCA
66 TACCCA
2198190 AATGTATCGATACAT
1 AATGTATCGATACAT
2198205 TTTTCGATGT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
71 73 0.99
72 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (71 bp):
AATGTATCGATACATGTATGAATATATCGATACATGTATCAATGTATCGATACATTCTGTCTTTT
TACCCA
Found at i:2198148 original size:20 final size:20
Alignment explanation
Indices: 2198120--2198174 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
2198110 TTTTACCCAG
* *
2198120 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTATGA
* * *
2198140 ATTTATCGATATATGTATGA
1 ATGTATCGATACATTTATGA
2198160 ATGTATCGATACATT
1 ATGTATCGATACATT
2198175 CTGTCTTTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTATGA
Found at i:2198218 original size:71 final size:71
Alignment explanation
Indices: 2198088--2198221 Score: 223
Period size: 71 Copynumber: 1.9 Consensus size: 71
2198078 TACATTCTTC
* * *
2198088 AATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCGATACATTTTTTAATTTATCGATATA
1 AATGTATCGATACATTCTGTCTTTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATATA
2198153 TGTATG
66 TGTATG
* *
2198159 AATGTATCGATACATTCTGTCTTTTTTCCCAAATGTATCGATACATTTTTCGATGTATCGATA
1 AATGTATCGATACATTCTGTCTTTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATA
2198222 CATTAGTTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.44
Consensus pattern (71 bp):
AATGTATCGATACATTCTGTCTTTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATATA
TGTATG
Found at i:2199107 original size:23 final size:23
Alignment explanation
Indices: 2199080--2199135 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
2199070 AGCCTTTGAC
2199080 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
2199103 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
2199125 CATGCATTTTT
1 CATGCATTTTT
2199136 AATATGTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:2202567 original size:23 final size:23
Alignment explanation
Indices: 2202508--2202567 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
2202498 GTTTTAATTG
*
2202508 GGTTTACATGGGC-TTGAGTTTA
1 GGTTTAAATGGGCTTTGAGTTTA
* ** *
2202530 GGTTTAGATTAGCTTTTAGTTTA
1 GGTTTAAATGGGCTTTGAGTTTA
2202553 GGTTTAAATGGGCTT
1 GGTTTAAATGGGCTT
2202568 AAGTTTAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 10 0.33
23 20 0.67
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (23 bp):
GGTTTAAATGGGCTTTGAGTTTA
Found at i:2206922 original size:20 final size:20
Alignment explanation
Indices: 2206880--2206938 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
2206870 CAAATTTCTA
*
2206880 TAAATTGTAGTGATACAATAAG
1 TAAA-TGTAGCGATAC-ATAAG
*
2206902 TGAATGTAGCGATACATAAG
1 TAAATGTAGCGATACATAAG
*
2206922 TAAATGTATCGATACAT
1 TAAATGTAGCGATACAT
2206939 GTTTGAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 20 0.61
21 10 0.30
22 3 0.09
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (20 bp):
TAAATGTAGCGATACATAAG
Found at i:2210236 original size:22 final size:21
Alignment explanation
Indices: 2210207--2210249 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2210197 ACCCTGTTTT
*
2210207 TTAAATTTTAAATTTTTATAA
1 TTAAATTTTAAATTTATATAA
*
2210228 TTAATATTTTGAATTTATATAA
1 TTAA-ATTTTAAATTTATATAA
2210250 AATAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTAAATTTTAAATTTATATAA
Found at i:2210296 original size:23 final size:24
Alignment explanation
Indices: 2210272--2210318 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
2210262 AAAATCATAA
* *
2210272 AAAT-AAATTAAATTA-ATTTTAA
1 AAATCAAAATAAATTAGAATTTAA
2210294 AAATCAAAATAAATTAGAATTTAA
1 AAATCAAAATAAATTAGAATTTAA
2210318 A
1 A
2210319 TTTTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 10 0.48
24 7 0.33
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
AAATCAAAATAAATTAGAATTTAA
Found at i:2212432 original size:13 final size:13
Alignment explanation
Indices: 2212414--2212439 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2212404 ACACCAAAGT
2212414 ATGTATCGATACA
1 ATGTATCGATACA
2212427 ATGTATCGATACA
1 ATGTATCGATACA
2212440 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:2212437 original size:33 final size:33
Alignment explanation
Indices: 2212395--2212459 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2212385 TAGCCAAACT
* *
2212395 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
2212428 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2212460 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2218639 original size:13 final size:13
Alignment explanation
Indices: 2218621--2218655 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2218611 ACATTTTTCT
2218621 TTGTATCGATACA
1 TTGTATCGATACA
*
2218634 TTGTATCAATACA
1 TTGTATCGATACA
*
2218647 CTGTATCGA
1 TTGTATCGA
2218656 AATAGGGGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2218823 original size:20 final size:20
Alignment explanation
Indices: 2218780--2218825 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2218770 AAATCTTTTG
2218780 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2218801 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2218821 CAAAA
1 CAAAA
2218826 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2220509 original size:44 final size:44
Alignment explanation
Indices: 2220446--2220534 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
2220436 TGTATGTGCA
2220446 AATAAATTTTTGATATGTGTGTAAACTACCTTATTAAGGGGGAG
1 AATAAATTTTTGATATGTGTGTAAACTACCTTATTAAGGGGGAG
*
2220490 AATAAATTTTTGATATGTGTGTAAATTACCTTATTAAGGGGGAG
1 AATAAATTTTTGATATGTGTGTAAACTACCTTATTAAGGGGGAG
2220534 A
1 A
2220535 TTTTTTAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (44 bp):
AATAAATTTTTGATATGTGTGTAAACTACCTTATTAAGGGGGAG
Found at i:2221304 original size:13 final size:13
Alignment explanation
Indices: 2221286--2221311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2221276 ACACCAAAGT
2221286 ATGTATCGATACA
1 ATGTATCGATACA
2221299 ATGTATCGATACA
1 ATGTATCGATACA
2221312 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:2221309 original size:33 final size:33
Alignment explanation
Indices: 2221267--2221331 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2221257 TAGCCAAACT
* *
2221267 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
2221300 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2221332 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2223148 original size:98 final size:98
Alignment explanation
Indices: 2222908--2223158 Score: 272
Period size: 98 Copynumber: 2.6 Consensus size: 98
2222898 TTTTAGTTAA
* * * ** * * * *
2222908 AAAAATGAGGTTAGAGTATCCCCTCAGAGGAATGGGGTTGGAATGCCCCCAACGATGATTATTTA
1 AAAAATGAGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCTCGATGATGATAATTTA
*
2222973 GGCAAACATAAGATTCAAATATTGACAAGTTTT
66 GGCAAAAATAAGATTCAAATATTGACAAGTTTT
* * * * * ***
2223006 AAAAACG-GAGTTGAAGTATCCTCTTGAAGGAATGAAATTGGAGTATCCTCGATGATGATAATTT
1 AAAAATGAG-GTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCTCGATGATGATAATTT
* *
2223070 AGGTAAAAATAAGATTCAAATCTTGACAAGTTTT
65 AGGCAAAAATAAGATTCAAATATTGACAAGTTTT
* *
2223104 AAAAATGAGGTTGGAGTATCCCCTCGGAGGAAAGGGGTTAGAGTAT-CTCCGATGA
1 AAAAATGAGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCT-CGATGA
2223159 ATAAAACTTT
Statistics
Matches: 120, Mismatches: 30, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
97 3 0.03
98 116 0.97
99 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (98 bp):
AAAAATGAGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCTCGATGATGATAATTTA
GGCAAAAATAAGATTCAAATATTGACAAGTTTT
Found at i:2224851 original size:20 final size:20
Alignment explanation
Indices: 2224826--2224900 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 20
2224816 CCCTTATTTC
2224826 TATCGATACACA-TGCAGATG
1 TATCGATACA-ATTGCAGATG
2224846 TATCGATACAAGTTGCAATGTATCG
1 TATCGATACAA-TTGC-A-G-AT-G
2224871 TATCGATACAAATTGCA-ATG
1 TATCGATAC-AATTGCAGATG
2224891 TATCGATACA
1 TATCGATACA
2224901 TTATGTGAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 15
0.76 0.00 0.24
Matches are distributed among these distances:
19 2 0.04
20 20 0.42
21 5 0.10
22 1 0.02
23 1 0.02
24 3 0.06
25 14 0.29
26 2 0.04
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (20 bp):
TATCGATACAATTGCAGATG
Found at i:2224879 original size:25 final size:25
Alignment explanation
Indices: 2224845--2224895 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
2224835 ACATGCAGAT
*
2224845 GTATCGATACAAGTTGCAATGTATC
1 GTATCGATACAAATTGCAATGTATC
2224870 GTATCGATACAAATTGCAATGTATC
1 GTATCGATACAAATTGCAATGTATC
2224895 G
1 G
2224896 ATACATTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (25 bp):
GTATCGATACAAATTGCAATGTATC
Found at i:2224994 original size:20 final size:20
Alignment explanation
Indices: 2224946--2225022 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 20
2224936 GCTACCCTTC
2224946 AAATGTATCGATAGACA-CATAG
1 AAATGTATCGAT--ACATC-TAG
* *
2224968 GAATGTAACGATACATTCTA-
1 AAATGTATCGATACA-TCTAG
2224988 AAATGTATCGATACATCTAG
1 AAATGTATCGATACATCTAG
*
2225008 AATTGTATCGATACA
1 AAATGTATCGATACA
2225023 ATTAGCCCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
19 4 0.09
20 30 0.64
21 2 0.04
22 11 0.23
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.29
Consensus pattern (20 bp):
AAATGTATCGATACATCTAG
Found at i:2229841 original size:20 final size:20
Alignment explanation
Indices: 2229797--2229841 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2229787 TACACATACA
*
2229797 GATGTATCAATACAAGTTGC
1 GATGTATCAATACAAGTCGC
* * *
2229817 AATGTATCGATACATGTCGC
1 GATGTATCAATACAAGTCGC
2229837 GATGT
1 GATGT
2229842 GTCCTCGACC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (20 bp):
GATGTATCAATACAAGTCGC
Found at i:2233892 original size:46 final size:47
Alignment explanation
Indices: 2233769--2233908 Score: 147
Period size: 46 Copynumber: 3.0 Consensus size: 47
2233759 AAGAGGAGTG
* * * *
2233769 CCAATGTGCCAATTCAAGGCCAGTGACATTGGGCTAAGGGAAAAGTGGA
1 CCAAGGTGCTAATTCAAGGCCAGTGACATTGGGCTAA--CAAAGGTGGA
* * *
2233818 CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTAATAAAGGTGGA
1 CCAAGGTGCTAATTCAAGGCCAGTGACATTGGGCTAACAAAGGTGGA
* * * * *
2233865 -TAAGGTGTTGATTCAAGGCTAGTGACATTGAGCTAACAAAGGTG
1 CCAAGGTGCTAATTCAAGGCCAGTGACATTGGGCTAACAAAGGTG
2233909 CCAATATGCT
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
46 36 0.46
47 8 0.10
49 35 0.44
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.22
Consensus pattern (47 bp):
CCAAGGTGCTAATTCAAGGCCAGTGACATTGGGCTAACAAAGGTGGA
Found at i:2234149 original size:29 final size:28
Alignment explanation
Indices: 2234023--2235091 Score: 827
Period size: 28 Copynumber: 37.5 Consensus size: 28
2234013 CATTAGCTTA
*
2234023 TGTGGGCTTTGAAACGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
2234051 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
2234079 TGTGGGCTTTGAAAAGATGCCATTGATTT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
*
2234108 GTGTGGGCTTTGAGAAGAATGCCACTGACT
1 -TGTGGGCTTTGA-AAGGATGCCACTGACT
*
2234138 TGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
2234167 TGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
2234196 TGTGAGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* * **
2234225 TGTTGGCTTTGAAATGGGTTGCCACCAACTT
1 TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* * *
2234256 GTGTGGGCTTTGAGAAGGATACGACTAACT
1 -TGTGGGCTTTGA-AAGGATGCCACTGACT
*
2234286 TGTGGGCTTTGAGAAGGTTGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* **
2234315 TGTGGGCTTTGAGAGGGATGCCACCAACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
** * *
2234344 TGTGCACTTTGAAATGGGTTGCCACCGACT
1 TGTGGGCTTTGAAA--GGATGCCACTGACT
* *
2234374 TATGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
2234402 TGCGTGGGCTTTGAAAAGG-TGCCACTAACT
1 T--GTGGGCTTTG-AAAGGATGCCACTGACT
* *
2234432 TGTAGGCTTTGAAA-GAGTGCAACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
2234460 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
2234488 CGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
2234516 CGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
2234544 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
*
2234574 TGTGGGCTTTGAAAGGATGCCAATGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
2234602 TGTGGGCTTTGAAAAGAGTTACCACCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
*
2234632 CGTGTGGGCTTTGAAAAGATGCCACTGACT
1 --TGTGGGCTTTGAAAGGATGCCACTGACT
*
2234662 TGTGGGCTTTGAAAAGATTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
2234691 TGTGGGCTTTGAAAGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
2234719 TGTGGGCTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * * * * *
2234748 TATAGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
2234775 TATGGAC-TTAAAAGGGATGCCACGGAGC-
1 TGTGGGCTTTGAAA-GGATGCCACTGA-CT
* * * * * *
2234803 TGTGGACTTTAAAAGGGTGACACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
2234831 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
2234859 TATGGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
2234886 GGTTGACTTTAAAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACT
* * * *
2234914 TGTGGAC-TTAAAAGTG-TGCCACAGAGT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
* * * * * *
2234941 TATAGACTTT-AAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
2234968 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
2234995 TGTGGACTTTAAAAAGG-TGCCA-TGGAGT
1 TGTGGGCTTT-GAAAGGATGCCACT-GACT
* * *
2235023 TGTGGACTTTAAAAGGATGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * * *
2235051 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
2235078 TGTGGACTTTGAAA
1 TGTGGGCTTTGAAA
2235092 AGAAATGCCA
Statistics
Matches: 893, Mismatches: 107, Indels: 82
0.83 0.10 0.08
Matches are distributed among these distances:
26 4 0.00
27 146 0.16
28 359 0.40
29 224 0.25
30 107 0.12
31 29 0.03
32 22 0.02
33 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:2234172 original size:58 final size:56
Alignment explanation
Indices: 2234023--2235091 Score: 827
Period size: 58 Copynumber: 18.8 Consensus size: 56
2234013 CATTAGCTTA
*
2234023 TGTGGGCTTTGAAACGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
2234079 TGTGGGCTTTGAAAAGATGCCATTGATTTGTGTGGGCTTTGAGAAGAATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT-TGTGGGCTTTGA-AAGGATGCCACTGACT
* *
2234138 TGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACT
* * * **
2234196 TGTGAGCTTTGAGAAGGATGCCACTGACTTGTTGGCTTTGAAATGGGTTGCCACCAACTT
1 TGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACTGAC-T
* * * *
2234256 GTGTGGGCTTTGAGAAGGATACGACTAACTTGTGGGCTTTGAGAAGGTTGCCACTGACT
1 -TGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACT
* ** ** * *
2234315 TGTGGGCTTTGAGAGGGATGCCACCAACTTGTGCACTTTGAAATGGGTTGCCACCGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACTGACT
* * *
2234374 TATGGGCTTTGAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTT--GTGGGCTTTG-AAAGGATGCCACTGACT
* * *
2234432 TGTAGGCTTTGAAA-GAGTGCAACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * *
2234488 CGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * *
2234544 TGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGGGCTTTGAAAGGATGCCAATGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
2234602 TGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT--TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
2234662 TGTGGGCTTTGAAAAGATTGCCACTGACTTGTGGGCTTTGAAAGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * * * *
2234719 TGTGGGCTTTGAAAAGGGTGCCACTAACTTATAGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * * * * * *
2234775 TATGGAC-TTAAAAGGGATGCCACGGAGC-TGTGGACTTTAAAAGGGTGACACAGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGA-CTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * * * * *
2234831 TGTGGACTTTAAAAGGATGCCACGGAGTTATGGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * * * * * *
2234886 GGTTGACTTTAAAAGGGTGCCAC-GAAGTTGTGGAC-TTAAAAGTG-TGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACTTGTGGGCTTTGAAAG-GATGCCACTGACT
* * * * * * * * * *
2234941 TATAGACTTT-AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
2234995 TGTGGACTTTAAAAAGG-TGCCA-TGGAGTTGTGGACTTTAAAAGGATGCCA-TGGAGT
1 TGTGGGCTTT-GAAAGGATGCCACT-GACTTGTGGGCTTTGAAAGGATGCCACT-GACT
* * * * *
2235051 TGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTGAAA
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA
2235092 AGAAATGCCA
Statistics
Matches: 869, Mismatches: 105, Indels: 79
0.83 0.10 0.08
Matches are distributed among these distances:
53 1 0.00
54 57 0.07
55 134 0.15
56 195 0.22
57 68 0.08
58 227 0.26
59 78 0.09
60 68 0.08
61 39 0.04
62 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.27
Consensus pattern (56 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:2234768 original size:27 final size:26
Alignment explanation
Indices: 2234752--2235086 Score: 287
Period size: 27 Copynumber: 12.2 Consensus size: 26
2234742 CTAACTTATA
*
2234752 GACTTAAAAGGATGCCACAGAGTTATG
1 GACTTAAAAGGATGCCACA-AGTTGTG
* *
2234779 GACTTAAAAGGGATGCCACGGAGCTGTG
1 GACTTAAAA-GGATGCCAC-AAGTTGTG
* *
2234807 GACTTTAAAAGGGTGACACAGAGTTGTG
1 GAC-TTAAAAGGATGCCACA-AGTTGTG
* *
2234835 GACTTTAAAAGGATGCCACGGAGTTATG
1 GAC-TTAAAAGGATGCCAC-AAGTTGTG
* *
2234863 GACTTAAAAGGATGCCACAGAGTGGTT
1 GACTTAAAAGGATGCCACA-AGTTGTG
*
2234890 GACTTTAAAAGGGTGCCACGAAGTTGTG
1 GAC-TTAAAAGGATGCCAC-AAGTTGTG
* *
2234918 GACTTAAAAGTG-TGCCACAGAGTTATA
1 GACTTAAAAG-GATGCCACA-AGTTGTG
* * *
2234945 GACTTTAAAGGGTGCCACGGAGTTGTG
1 GACTTAAAAGGATGCCAC-AAGTTGTG
*
2234972 GACTTAAAAGGATGCCACGGAGTTGTG
1 GACTTAAAAGGATGCCAC-AAGTTGTG
**
2234999 GACTTTAAAAAGG-TGCCATGGAGTTGTG
1 GAC-TT-AAAAGGATGCCA-CAAGTTGTG
**
2235027 GACTTTAAAAGGATGCCATGGAGTTGTG
1 GAC-TTAAAAGGATGCCA-CAAGTTGTG
*
2235055 GACTTAAAAGGATGCCACGGAGTTGTG
1 GACTTAAAAGGATGCCAC-AAGTTGTG
2235082 GACTT
1 GACTT
2235087 TGAAAAGAAA
Statistics
Matches: 263, Mismatches: 28, Indels: 34
0.81 0.09 0.10
Matches are distributed among these distances:
26 2 0.01
27 130 0.49
28 118 0.45
29 13 0.05
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.24
Consensus pattern (26 bp):
GACTTAAAAGGATGCCACAAGTTGTG
Found at i:2234811 original size:55 final size:55
Alignment explanation
Indices: 2234645--2235086 Score: 462
Period size: 55 Copynumber: 8.0 Consensus size: 55
2234635 GTGGGCTTTG
* * * ** * * *
2234645 AAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGATTGCCACTGACTTGTGGGCTTT
1 AAAAGGATGCCACAGAGTTGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * * * * * ** * * *
2234701 GAAAGGGTACCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTATAGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGACTT
* *
2234757 AAAAGGATGCCACAGAGTTATGGAC-TTAAAAGGGATGCCACGGAGCTGTGGACTTT
1 AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGG-TGCCACGGAGTTGTGGAC-TT
* * * *
2234813 AAAAGGGTGACACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTATGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
2234868 AAAAGGATGCCACAGAGTGGTTGACTTTAAAAGGGTGCCACGAAGTTGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
* *
2234923 AAAAGTG-TGCCACAGAGTTATAGACTTT-AAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAG-GATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
2234977 AAAAGGATGCCACGGAGTTGTGGACTTTAAAAAGGTGCCATGGAGTTGTGGACTTT
1 AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TT
** *
2235033 AAAAGGATGCCATGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
2235087 TGAAAAGAAA
Statistics
Matches: 330, Mismatches: 48, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.00
54 57 0.17
55 133 0.40
56 90 0.27
57 49 0.15
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (55 bp):
AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:2235087 original size:55 final size:55
Alignment explanation
Indices: 2234471--2235086 Score: 449
Period size: 55 Copynumber: 11.0 Consensus size: 55
2234461 GTGGGCTTTG
* * * * * * * * * * *
2234471 AAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTG
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTA
* * * * * * *
2234527 AAAGGATGCCACTA-ACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGGGCTTTG
1 AAAGGATGCCAC-AGAGTTGTGGACTTT-AAAAG-GATGCCACGGAGTTGTGGAC-TTA
* * * * * * *
2234585 AAAGGATGCCA-ATGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGA
1 AAAGGATGCCACA-GAGTTGTGGACTTT-AAAAG-GATGCCACGGAGT--TGTGGAC-TT-A
* * * * * * *
2234646 AAA-GATGCCACTGACTTGTGGGCTTTGAAAA-GATTGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACAGAGTTGTGGACTTT-AAAAGGA-TGCCACGGAGTTGTGGAC-TTA
* * * * * * ** * * *
2234702 AAAGGGTACCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTATAGACTTA
1 AAAGGATGCCACAGAGTTGTGGACTTT-AAAAGGATGCCACGGAGTTGTGGACTTA
* *
2234758 AAAGGATGCCACAGAGTTATGGAC-TTAAAAGGGATGCCACGGAGCTGTGGACTTTA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAA-GGATGCCACGGAGTTGTGGAC-TTA
* * *
2234814 AAAGGGTGACACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTATGGACTTA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
* * * *
2234869 AAAGGATGCCACAGAGTGGTTGACTTTAAAAGGGTGCCACGAAGTTGTGGACTTA
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
* * *
2234924 AAAGTG-TGCCACAGAGTTATAGACTTT-AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAG-GATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
* *
2234978 AAAGGATGCCACGGAGTTGTGGACTTTAAAAAGG-TGCCATGGAGTTGTGGACTTTA
1 AAAGGATGCCACAGAGTTGTGGACTTT-AAAAGGATGCCACGGAGTTGTGGAC-TTA
**
2235034 AAAGGATGCCATGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
1 AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
2235087 TGAAAAGAAA
Statistics
Matches: 482, Mismatches: 57, Indels: 44
0.83 0.10 0.08
Matches are distributed among these distances:
53 1 0.00
54 60 0.12
55 125 0.26
56 122 0.25
57 60 0.12
58 66 0.14
59 9 0.02
60 36 0.07
61 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (55 bp):
AAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
Found at i:2246656 original size:21 final size:21
Alignment explanation
Indices: 2246632--2246688 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
2246622 GCCACATGGT
*
2246632 CATGTATCGATACATTTCAGG
1 CATGTATCGATACATTTCACG
*
2246653 CATGTATCGATACA-TTCACT
1 CATGTATCGATACATTTCACG
*
2246673 TATGTATCGATACATT
1 CATGTATCGATACATT
2246689 GCCTTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (21 bp):
CATGTATCGATACATTTCACG
Found at i:2246703 original size:21 final size:20
Alignment explanation
Indices: 2246657--2246705 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
2246647 TTCAGGCATG
*
2246657 TATCGATACATTCACTTATG
1 TATCGATACATTCACTTATA
2246677 TATCGATACATTGC-CTTATTA
1 TATCGATACATT-CACTTA-TA
2246698 TATCGATA
1 TATCGATA
2246706 TCAATTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (20 bp):
TATCGATACATTCACTTATA
Found at i:2249224 original size:13 final size:13
Alignment explanation
Indices: 2249206--2249231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2249196 AATTTTTTGG
2249206 TGTATCGATACAT
1 TGTATCGATACAT
2249219 TGTATCGATACAT
1 TGTATCGATACAT
2249232 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2249728 original size:21 final size:21
Alignment explanation
Indices: 2249703--2249773 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
2249693 TTCGATTAAG
* *
2249703 ATAATATGTATATATAGTAAA
1 ATAATATGTACATATAATAAA
* * *
2249724 ATAATATTTACATTTACTAAAA
1 ATAATATGTACATATAAT-AAA
* *
2249746 ACAATATGTACATACAATAAA
1 ATAATATGTACATATAATAAA
2249767 ATAATAT
1 ATAATAT
2249774 TTTTGCCTAA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 23 0.59
22 16 0.41
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (21 bp):
ATAATATGTACATATAATAAA
Found at i:2250098 original size:22 final size:22
Alignment explanation
Indices: 2250072--2250137 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
2250062 TTTTTCAACT
2250072 AAAATAATATGTACATATAATA
1 AAAATAATATGTACATATAATA
** * * *
2250094 AAAATAATACATATATTTAGTA
1 AAAATAATATGTACATATAATA
*
2250116 AAAATAATATGTACATACAATA
1 AAAATAATATGTACATATAATA
2250138 TAAACAACAT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.32
Consensus pattern (22 bp):
AAAATAATATGTACATATAATA
Found at i:2250670 original size:22 final size:22
Alignment explanation
Indices: 2250643--2250685 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2250633 AATTATTTTT
2250643 TATTTAAAT-TTAATTATAAAAA
1 TATTTAAATATTAA-TATAAAAA
*
2250665 TATTTAACTATTAATATAAAA
1 TATTTAAATATTAATATAAAA
2250686 TGTTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TATTTAAATATTAATATAAAAA
Found at i:2250743 original size:35 final size:35
Alignment explanation
Indices: 2250704--2250780 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
2250694 AAATTTTTTC
*
2250704 TATTTTTAAATAATAATTTAATATTTAATATAAAA
1 TATTTTTAAATAATAATTTAAAATTTAATATAAAA
* * *
2250739 TATTTTTAAATAGTATTTTAAAATTTAATATTAAA
1 TATTTTTAAATAATAATTTAAAATTTAATATAAAA
2250774 TATTTTT
1 TATTTTT
2250781 GAATTTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (35 bp):
TATTTTTAAATAATAATTTAAAATTTAATATAAAA
Found at i:2252744 original size:34 final size:34
Alignment explanation
Indices: 2252680--2252749 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
2252670 GAAAAAGAAA
* * ** *
2252680 ACCTTTGATAACTCATTGTCTGTTTGTTTTGCTC
1 ACCTTTAATAACTCATTATCTGTTCCTTTTGATC
*
2252714 ACCTTTAATGACTCATTATCTGTTCCTTTTGATC
1 ACCTTTAATAACTCATTATCTGTTCCTTTTGATC
2252748 AC
1 AC
2252750 TATGCGTTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.19, C:0.23, G:0.11, T:0.47
Consensus pattern (34 bp):
ACCTTTAATAACTCATTATCTGTTCCTTTTGATC
Found at i:2253224 original size:31 final size:31
Alignment explanation
Indices: 2253189--2253271 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
2253179 CACATACCCA
2253189 CACAT-TATACATGCATTAATCATATTACATG
1 CACATATATACATGCATTAAT-ATATTACATG
* *
2253220 CACATATATGTACAGGGA-T-ATATATTACATG
1 CACATATA--TACATGCATTAATATATTACATG
*
2253251 CACATATATACCTGCATTAAT
1 CACATATATACATGCATTAAT
2253272 TATAGGGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
29 5 0.12
30 1 0.02
31 25 0.60
32 4 0.10
33 1 0.02
34 6 0.14
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (31 bp):
CACATATATACATGCATTAATATATTACATG
Found at i:2253257 original size:15 final size:15
Alignment explanation
Indices: 2253210--2253259 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
2253200 TGCATTAATC
2253210 ATATTACATGCACAT
1 ATATTACATGCACAT
* * *
2253225 ATATGTACAGGGATAT
1 ATAT-TACATGCACAT
2253241 ATATTACATGCACAT
1 ATATTACATGCACAT
2253256 ATAT
1 ATAT
2253260 ACCTGCATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (15 bp):
ATATTACATGCACAT
Found at i:2255715 original size:3 final size:3
Alignment explanation
Indices: 2255709--2255742 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2255699 TTCGTATTCA
2255709 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2255743 TTGTGTTGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2260091 original size:17 final size:17
Alignment explanation
Indices: 2260069--2260101 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2260059 AGTCTGAAAT
2260069 AATAAA-TAAAATAATAA
1 AATAAATTAAAA-AATAA
2260086 AATAAATTAAAAAATA
1 AATAAATTAAAAAATA
2260102 TAAAAACTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAATTAAAAAATAA
Found at i:2261356 original size:23 final size:23
Alignment explanation
Indices: 2261310--2261360 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
2261300 AAATTTACAT
**
2261310 TTAAATAAAATTTATTTTATTAA
1 TTAAATAAAATTTATACTATTAA
2261333 TTAAATAATAATTTATACTA-TAA
1 TTAAATAA-AATTTATACTATTAA
2261356 -TAAAT
1 TTAAAT
2261361 TGAATTACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.20
23 11 0.44
24 9 0.36
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAAATAAAATTTATACTATTAA
Found at i:2261943 original size:13 final size:13
Alignment explanation
Indices: 2261925--2261949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2261915 ATAATGTACA
2261925 GTATCGATACATT
1 GTATCGATACATT
2261938 GTATCGATACAT
1 GTATCGATACAT
2261950 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2262047 original size:13 final size:13
Alignment explanation
Indices: 2262029--2262055 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2262019 CCTTAACTGT
2262029 TTGTATCGATACA
1 TTGTATCGATACA
2262042 TTGTATCGATACA
1 TTGTATCGATACA
2262055 T
1 T
2262056 GACCAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2263077 original size:19 final size:21
Alignment explanation
Indices: 2263030--2263079 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
2263020 TTCAATGATT
**
2263030 TGTATCGATACATTCGGTAAA
1 TGTATCGATACATTAAGTAAA
*
2263051 TGTGTCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
2263070 TGTATCGATA
1 TGTATCGATA
2263080 TAGTGTATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 11 0.44
20 3 0.12
21 11 0.44
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:2265615 original size:52 final size:52
Alignment explanation
Indices: 2265486--2265668 Score: 239
Period size: 52 Copynumber: 3.5 Consensus size: 52
2265476 TAAGTTTCTC
* * * * *
2265486 AATTTTTCATAATCGTGGATACTCCAACCCCGGTTTTA-TTTCGAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACT
2265537 AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACAC-
1 AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACT
* * *
2265587 CATTTTTC-CTTTAATCGGGGATACTCCAACTCCGATCTTATTTCCAAAAACACT
1 AATTTTTCAC---AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACT
2265641 AATTTTTCACAATCGGGGATACTCCAAC
1 AATTTTTCACAATCGGGGATACTCCAAC
2265669 CCCGTTAATC
Statistics
Matches: 117, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
49 1 0.01
50 7 0.06
51 41 0.35
52 53 0.45
53 7 0.06
54 7 0.06
55 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (52 bp):
AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACT
Found at i:2265852 original size:78 final size:80
Alignment explanation
Indices: 2265700--2265853 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 80
2265690 TTCAACCCCA
* * * * * *
2265700 TTATTTTCGAGAGGATATTCCAACCCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGAG
1 TTATTTTCGAGAGGATACTCCAACCCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATAGAG
2265765 GATACTCCAACCTTG
66 GATACTCCAACCTTG
* *
2265780 TTATTTTCGAGGGGATACTCGAA-CCCCGG-TTTATTTCTAAAACACCAATTCTCCACAATTAG-
1 TTATTTTCGAGAGGATACTCCAACCCCCGGTTTTATTTCTAAAACACCAATTCTCCACAA-TAGA
*
2265842 GGATATTCCAAC
65 GGATACTCCAAC
2265854 TATGATTTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
78 36 0.56
79 8 0.12
80 20 0.31
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (80 bp):
TTATTTTCGAGAGGATACTCCAACCCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATAGAG
GATACTCCAACCTTG
Found at i:2265924 original size:28 final size:30
Alignment explanation
Indices: 2265888--2265964 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 30
2265878 ATTTTTCACA
* *
2265888 ATCGAGGATACTCCAACCTCGTTA-TTTC-
1 ATCGGGGATACTCCAACCCCGTTACTTTCG
2265916 ATCGGGGATACTCCAACCCCGTTACTTTCG
1 ATCGGGGATACTCCAACCCCGTTACTTTCG
*
2265946 A--GGGGATACTCGAACCCCG
1 ATCGGGGATACTCCAACCCCG
2265965 ACTTTATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 39 0.89
29 4 0.09
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCGTTACTTTCG
Found at i:2266032 original size:236 final size:237
Alignment explanation
Indices: 2265604--2266035 Score: 600
Period size: 236 Copynumber: 1.8 Consensus size: 237
2265594 CCTTTAATCG
* *
2265604 GGGATACTCCAACTCCGATCTTATTTCCAAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGATACTCCAACTACGATCTTATTTCCAAAAACACTAATTTTTCACAATCGAGGATACTCCAAC
* * * **
2265669 CCCGTTAATCATCGGGGATACTTCAACCCCATTATTTTCGAGAGGATATTCCAACCCCCGGTTTT
66 CCCGTTAATCATCGGGGATACTCCAACCCCATTACTTTCGAGAGGATACTCCAACCCCCGACTTT
* * * *
2265734 ATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAACCTTGTTATTTTCGAGGGGATACT
131 ATTTCCAAAACATCAATTTCTCATAATCGAGGATACTCCAACCCTATTATTTTCGAGGGGATACT
2265799 CGAACCCCGGTTTATTTCTAAAACACCAATTCTCCACAATTA
196 CGAACCCCGGTTTATTTCTAAAACACCAATTCTCCACAATTA
* * *
2265841 GGGATATTCCAACTATGATTTTATTTCC-AAAACACTAATTTTTCACAATCGAGGATACTCCAAC
1 GGGATACTCCAACTACGATCTTATTTCCAAAAACACTAATTTTTCACAATCGAGGATACTCCAAC
* * * * *
2265905 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCGAA-CCCCGACTT
66 CCCGTTA-ATCATCGGGGATACTCCAACCCCATTACTTTCGAGAGGATACTCCAACCCCCGACTT
* ** * * *
2265969 TATTTCCAAAATATTGATTTCTCATAATTGGGGATACTCTAACCCTATTATTTTC-ATGGGGATA
130 TATTTCCAAAACATCAATTTCTCATAATCGAGGATACTCCAACCCTATTATTTTCGA-GGGGATA
2266033 CTC
194 CTC
2266036 CAATCTCGAC
Statistics
Matches: 168, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
235 1 0.01
236 103 0.61
237 64 0.38
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (237 bp):
GGGATACTCCAACTACGATCTTATTTCCAAAAACACTAATTTTTCACAATCGAGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCCCATTACTTTCGAGAGGATACTCCAACCCCCGACTTT
ATTTCCAAAACATCAATTTCTCATAATCGAGGATACTCCAACCCTATTATTTTCGAGGGGATACT
CGAACCCCGGTTTATTTCTAAAACACCAATTCTCCACAATTA
Found at i:2266127 original size:237 final size:237
Alignment explanation
Indices: 2265620--2266171 Score: 614
Period size: 237 Copynumber: 2.3 Consensus size: 237
2265610 CTCCAACTCC
*
2265620 GATCTTATTTCCAAAAACACTAATTTTTCACAATCGGGGATACTCCAACCCCGTTA-ATCATCGG
1 GATCTTATTTCC-AAAACACTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCGG
* * * ** *
2265684 GGATACTTCAACCCCATTATTTTCGAGAGGATATTCCAACCCCCGGTTTTATTTCTAAAACATCA
65 GGATACTCCAACCCCATTACTTTCGAGAGGATACTCCAACCCCCGACTTTATTTCCAAAACATCA
* * * * *
2265749 ATTTTTCATAATCGAGGATACTCCAACCTTGTTATTTTCGAGGGGATACTCGAACCCCGGTTTAT
130 ATTTCTCATAATCGAGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGCTTTAT
* * *
2265814 TTCTAAAACACCAATTCTCCACAATTAGGGATATTCCAACTAT
195 TTCTAAAACACCAATTCTCCACAATCAGGGACATTCCAACCAT
* * *
2265857 GATTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGG
1 GATCTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCGGG
* * * * **
2265922 GATACTCCAACCCCGTTACTTTCGAGGGGATACTCGAA-CCCCGACTTTATTTCCAAAATATTGA
66 GATACTCCAACCCCATTACTTTCGAGAGGATACTCCAACCCCCGACTTTATTTCCAAAACATCAA
* * * * *
2265986 TTTCTCATAATTGGGGATACTCTAACCCTATTATTTTC-ATGGGGATACTCCAATCTCGACTTTA
131 TTTCTCATAATCGAGGATACTCCAACCCTATTATTTTCGA-GGGGATACTCCAACCCCG-CTTTA
* * * * * * * *
2266050 TTTTTGAAACATCTATTTTCTATAATCAGGGACACTT-CAACCCT
194 TTTCTAAAACACCAATTCTCCACAATCAGGGACA-TTCCAACCAT
* * * * *
2266094 TATCTTATTTCTAAATCA-TCGATTTTTCACAATCGGGGATTCTCCAACCCCGTTATTT--TCGA
1 GATCTTATTTCCAAAACACT-AATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCG-
2266156 AGGGATACTCCAACCC
64 -GGGATACTCCAACCC
2266172 TGCTATTATC
Statistics
Matches: 263, Mismatches: 45, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
235 4 0.02
236 109 0.41
237 148 0.56
238 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (237 bp):
GATCTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCGGG
GATACTCCAACCCCATTACTTTCGAGAGGATACTCCAACCCCCGACTTTATTTCCAAAACATCAA
TTTCTCATAATCGAGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGCTTTATT
TCTAAAACACCAATTCTCCACAATCAGGGACATTCCAACCAT
Found at i:2272652 original size:13 final size:13
Alignment explanation
Indices: 2272634--2272672 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
2272624 CAGCATTCTC
2272634 TGTATCGATACAT
1 TGTATCGATACAT
* *
2272647 TGTATCAATACAC
1 TGTATCGATACAT
2272660 TGTATCGATACAT
1 TGTATCGATACAT
2272673 GGCAATTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2275160 original size:13 final size:13
Alignment explanation
Indices: 2275142--2275166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2275132 ATAATGCACA
2275142 GTATCGATACATT
1 GTATCGATACATT
2275155 GTATCGATACAT
1 GTATCGATACAT
2275167 GACCACTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2275284 original size:13 final size:13
Alignment explanation
Indices: 2275266--2275291 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2275256 ACATACAAGA
2275266 TGTATCGATACAT
1 TGTATCGATACAT
2275279 TGTATCGATACAT
1 TGTATCGATACAT
2275292 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2275307 original size:33 final size:32
Alignment explanation
Indices: 2275246--2275313 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
2275236 CCTTAACTGT
*
2275246 TTGTATCTATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
2275278 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
2275311 TTG
1 TTG
2275314 GCTTGTAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 17 0.52
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:2276636 original size:19 final size:18
Alignment explanation
Indices: 2276612--2276722 Score: 116
Period size: 19 Copynumber: 6.5 Consensus size: 18
2276602 CAGTAAATGC
2276612 ATCGATACATAAGTGTTGT
1 ATCGATACATAAGT-TTGT
2276631 ATCGATACATAAGTGTTGT
1 ATCGATACATAAGT-TTGT
2276650 ATCGATAC--AA---TGT
1 ATCGATACATAAGTTTGT
2276663 ATCGATACATAAGTTTTGT
1 ATCGATACATAAG-TTTGT
2276682 ATCGATAC--AA---TGT
1 ATCGATACATAAGTTTGT
2276695 ATCGATACATAAGTTTTGT
1 ATCGATACATAAG-TTTGT
2276714 ATCGATACA
1 ATCGATACA
2276723 ATGTATCGCT
Statistics
Matches: 80, Mismatches: 0, Indels: 24
0.77 0.00 0.23
Matches are distributed among these distances:
13 22 0.28
15 4 0.05
17 4 0.05
19 50 0.62
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (18 bp):
ATCGATACATAAGTTTGT
Found at i:2276665 original size:13 final size:13
Alignment explanation
Indices: 2276647--2276703 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2276637 ACATAAGTGT
2276647 TGTATCGATACAA
1 TGTATCGATACAA
2276660 TGTATCGATACATAA
1 TGTATCGATAC--AA
2276675 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
2276692 TGTATCGATACA
1 TGTATCGATACA
2276704 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2276669 original size:32 final size:32
Alignment explanation
Indices: 2276628--2276730 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
2276618 ACATAAGTGT
*
2276628 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
2276660 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
2276692 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
2276724 TGTATCG
1 TGTATCG
2276731 CTATGAAGCT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:2281740 original size:20 final size:20
Alignment explanation
Indices: 2281715--2281766 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
2281705 TACAAGCCAA
** *
2281715 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
2281735 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
2281754 TGTATCGATACAA
1 TGTATCGATACAA
2281767 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:2281772 original size:19 final size:18
Alignment explanation
Indices: 2281715--2281772 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
2281705 TACAAGCCAA
*
2281715 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
2281735 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
2281754 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
2281773 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:2282464 original size:21 final size:21
Alignment explanation
Indices: 2282423--2282466 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2282413 CTCCCCTTTA
* *
2282423 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
2282444 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
2282465 TC
1 TC
2282467 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:2284130 original size:21 final size:21
Alignment explanation
Indices: 2284106--2284152 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2284096 TTTGATGCTG
2284106 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
2284126 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
2284147 ATTTTG
1 ATTTTG
2284153 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:2284291 original size:13 final size:13
Alignment explanation
Indices: 2284273--2284324 Score: 104
Period size: 13 Copynumber: 4.0 Consensus size: 13
2284263 ATAATCACCC
2284273 TGTATCGATACAA
1 TGTATCGATACAA
2284286 TGTATCGATACAA
1 TGTATCGATACAA
2284299 TGTATCGATACAA
1 TGTATCGATACAA
2284312 TGTATCGATACAA
1 TGTATCGATACAA
2284325 AGAAAAAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2286394 original size:15 final size:15
Alignment explanation
Indices: 2286374--2286404 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2286364 ATTTCTTGTG
*
2286374 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2286389 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2286404 G
1 G
2286405 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Done.