Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold119
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: 3173904
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 20
Found at i:1742025 original size:88 final size:87
Alignment explanation
Indices: 1741864--1742097 Score: 299
Period size: 88 Copynumber: 2.7 Consensus size: 87
1741854 CTAGGCTTTA
* * ** *
1741864 AAAAGGGGTGCCATTGAGTTGTAGACTTAAAAGGGTACCATAGAGTTGTGGACTTAAAAAGAAAA
1 AAAA-GGGTGCCATAGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAAGAAAA
1741929 AGGTGCCACAGAGTCATGGACTT
65 AGGTGCCACAGAGTCATGGACTT
* * * * * *
1741952 AAAAGGGTGCCATGGAGTTATAGGCTTAAAAGGGTGCCACGGAATTATGGGCTTTGAAAAGAAAA
1 AAAAGGGTGCCATAGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTATGGAC-TTAAAAAGAAAA
**
1742017 AGGTGCCACAGAGTTGTGGACTT
65 AGGTGCCACAGAGTCATGGACTT
* *
1742040 AAAAGGGTGCCACAGAGTTGT-GCACTTAAAAAGGTGCCACGGAGTTATGGACTTAAAA
1 AAAAGGGTGCCATAGAGTTGTAG-ACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAA
1742098 GGGTGCCATA
Statistics
Matches: 124, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
87 45 0.36
88 79 0.64
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.22
Consensus pattern (87 bp):
AAAAGGGTGCCATAGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAAGAAAAA
GGTGCCACAGAGTCATGGACTT
Found at i:1742178 original size:34 final size:32
Alignment explanation
Indices: 1742008--1742664 Score: 208
Period size: 34 Copynumber: 21.0 Consensus size: 32
1741998 ATGGGCTTTG
* *
1742008 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTT
*
1742040 AAAAGG----G-TGCCACAGAGTTGTGCACTT
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTT
* * *
1742067 ---A--AAAAGGTGCCACGGAGTTATGGACTT
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTT
*
1742094 AAAAGG----G-TGCCATAGAGTTGTGGACTT
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTT
* * *
1742121 AAAAGGAAAAGGTGCCACAGAGTTATGAACTT
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTT
* * *
1742153 AAAAGGTGAAAGAATGCCACGGAGTTGTGGGCTT
1 AAAAGG-AAAAG-ATGCCACAGAGTTGTGGACTT
* *
1742187 AAAAGG----G-TGCCACGGAGTTGTGGGCTT
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTT
* *
1742214 TAAAGG----G-TGCCACAGAGTTGTGGGCTT
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTT
* * **
1742241 AACAGGAAAAAGGGTGTGACAGAGTTGTGGACTT
1 AAAAGG-AAAA-GATGCCACAGAGTTGTGGACTT
*
1742275 AAAAGG----G-TGCTAC-GAAGTTGTGGACTT
1 AAAAGGAAAAGATGCCACAG-AGTTGTGGACTT
* * * *
1742302 AAAAGGAAAAAGGGTACCACGGAGTTGTGGGCTTT
1 AAAAGG-AAAA-GATGCCACAGAGTTGTGGAC-TT
* * ** *
1742337 GAAAAGAAAAAGGTGCCATGGAATTGTGGACTT
1 -AAAAGGAAAAGATGCCACAGAGTTGTGGACTT
* * * * *
1742370 AAAAGGAAAAATGGTGTCA-TGAAGTTATGGGCTTT
1 AAAAGG-AAAA-GATGCCACAG-AGTTGTGGAC-TT
* ** ** *
1742405 GAAAAGAAAAAAGGCGCCATGGAATTGTGGACTT
1 -AAAAG-GAAAAGATGCCACAGAGTTGTGGACTT
* * *
1742439 AAAAGGTGAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGG-AAAAGA-TGCCACAGAGTTGTGGACTT
* *
1742473 AAAAGGAAAAGGGGTGCCA-TGAAGTTGTGGACTT
1 AAAAGGAAAA--GATGCCACAG-AGTTGTGGACTT
*
1742507 AAAAGG----G-TGCCACAGAGTTGTGGGCTT
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTT
*** * *
1742534 CGGAGGAAAAAGAGTGCCACGGAGTTGTAGACTT
1 AAAAGG-AAAAGA-TGCCACAGAGTTGTGGACTT
* * * ** *
1742568 AAAAAGAAAAAGGTACCATGGAGTTATGGACTT
1 -AAAAGGAAAAGATGCCACAGAGTTGTGGACTT
* **
1742601 AAAAGGAAAAAGAGTGCCATAGAGTCATGGACTT
1 AAAAGG-AAAAGA-TGCCACAGAGTTGTGGACTT
* * *
1742635 -AGA-GAAGAGATGCCACTA-AGTCGTGGACTT
1 AAAAGGAAAAGATGCCAC-AGAGTTGTGGACTT
1742665 TGGGAAAAAA
Statistics
Matches: 481, Mismatches: 85, Indels: 120
0.70 0.12 0.17
Matches are distributed among these distances:
24 1 0.00
26 2 0.00
27 149 0.31
28 5 0.01
29 1 0.00
30 17 0.04
31 7 0.01
32 40 0.08
33 49 0.10
34 171 0.36
35 24 0.05
36 15 0.03
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (32 bp):
AAAAGGAAAAGATGCCACAGAGTTGTGGACTT
Found at i:1742252 original size:61 final size:60
Alignment explanation
Indices: 1742187--1742331 Score: 184
Period size: 61 Copynumber: 2.4 Consensus size: 60
1742177 TTGTGGGCTT
* *
1742187 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGGTGCCACAGAGTTGTGGGCTTAACAGGA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTAA-AGGA
** * * *
1742248 AAAAGGGTGTGACAGAGTTGTGGACTTAAAAGGGTGCTAC-GAAGTTGTGGACTTAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG-AGTTGTGGGCTT-AAAGGA
*
1742309 AAAAGGGTACCACGGAGTTGTGG
1 AAAAGGGTGCCACGGAGTTGTGG
1742332 GCTTTGAAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
60 1 0.01
61 68 0.96
62 2 0.03
ACGTcount: A:0.30, C:0.12, G:0.37, T:0.21
Consensus pattern (60 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTAAAGGA
Found at i:1742374 original size:61 final size:63
Alignment explanation
Indices: 1742318--1742571 Score: 214
Period size: 69 Copynumber: 3.9 Consensus size: 63
1742308 AAAAAGGGTA
1742318 CCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATGGAATTGTGGACTTAAAAGGAAAAATG
1 CCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATGGAATTGTGGACTTAAAAGG----A-G
1742383 GTG
61 GTG
* * * * *
1742386 TCATGAAGTTATGGGCTTTGAAAAGAAAAAAGGCGCCATGGAATTGTGGACTTAAAAGGTGAAAG
1 CCACGGAGTTGTGGGCTTTGAAAAG-AAAAAGGTGCCATGGAATTGTGGACTTAAAA-G-G--AG
1742451 AGTG
61 -GTG
*
1742455 CCACGGAGTTGTGGGC-TT-AAAAGGAAAAGGGGTGCCAT-GAAGTTGTGGACTTAAAA-G-GGT
1 CCACGGAGTTGTGGGCTTTGAAAA-GAAAA-AGGTGCCATGGAA-TTGTGGACTTAAAAGGAGGT
1742515 G
63 G
* * * * * * *
1742516 CCACAGAGTTGTGGGCTTCG-GAGGAAAAAGAGTGCCACGGAGTTGTAGACTTAAAA
1 CCACGGAGTTGTGGGCTTTGAAAAGAAAAAG-GTGCCATGGAATTGTGGACTTAAAA
1742572 AGAAAAAGGT
Statistics
Matches: 156, Mismatches: 19, Indels: 29
0.76 0.09 0.14
Matches are distributed among these distances:
60 1 0.01
61 42 0.27
62 5 0.03
65 1 0.01
67 11 0.07
68 46 0.29
69 48 0.31
70 1 0.01
71 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (63 bp):
CCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATGGAATTGTGGACTTAAAAGGAGGTG
Found at i:1742401 original size:68 final size:67
Alignment explanation
Indices: 1742292--1742620 Score: 295
Period size: 68 Copynumber: 4.9 Consensus size: 67
1742282 TGCTACGAAG
*
1742292 TTGTGGACTTAAAAGGAAAAAGGGTACCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATG
1 TTGTGGACTTAAAAGGAAAAA-GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATG
1742357 GAA
65 GAA
* * * * *
1742360 TTGTGGACTTAAAAGGAAAAATGGTGTCATGAAGTTATGGGCTTTGAAAAGAAAAAAGGCGCCAT
1 TTGTGGACTTAAAAGGAAAAA-GGTGCCACGGAGTTGTGGGCTTTGAAAAG-AAAAAGGTGCCAT
1742425 GGAA
64 GGAA
** *
1742429 TTGTGGACTTAAAAGGTGAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGAAAAGGGGTGCCA
1 TTGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAA-AGGTGCCA
1742492 T-GAA
63 TGGAA
* * * * *
1742496 GTTGTGGACTTAAAA-G-----GGTGCCACAGAGTTGTGGGCTTCG-GAGGAAAAAGAGTGCCAC
1 -TTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG-GTGCCAT
*
1742554 GGAG
64 GGAA
* * * * * *
1742558 TTGTAGACTTAAAAAGAAAAAGGTACCATGGAGTTATGGAC-TT-AAAAGGAAAAAGAGTGCCAT
1 TTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAG-GTGCCAT
1742621 AGAGTCATGG
Statistics
Matches: 212, Mismatches: 32, Indels: 35
0.76 0.11 0.13
Matches are distributed among these distances:
60 1 0.00
61 42 0.20
62 6 0.03
66 2 0.01
67 41 0.19
68 70 0.33
69 50 0.24
ACGTcount: A:0.36, C:0.11, G:0.32, T:0.21
Consensus pattern (67 bp):
TTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATGG
AA
Found at i:1742591 original size:33 final size:34
Alignment explanation
Indices: 1742539--1742615 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 34
1742529 GGCTTCGGAG
* *
1742539 GAAAAAGAGTGCCACGGAGTTGTAGACTTAAAAA
1 GAAAAAGAGTACCACGGAGTTATAGACTTAAAAA
* * *
1742573 GAAAAAG-GTACCATGGAGTTATGGACTTAAAAG
1 GAAAAAGAGTACCACGGAGTTATAGACTTAAAAA
1742606 GAAAAAGAGT
1 GAAAAAGAGT
1742616 GCCATAGAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 28 0.76
34 9 0.24
ACGTcount: A:0.45, C:0.09, G:0.27, T:0.18
Consensus pattern (34 bp):
GAAAAAGAGTACCACGGAGTTATAGACTTAAAAA
Found at i:1745242 original size:128 final size:128
Alignment explanation
Indices: 1745009--1745268 Score: 378
Period size: 128 Copynumber: 2.0 Consensus size: 128
1744999 TAAGGCCAAA
* *
1745009 TTGTTGCCTTCACTGGTTCGTACCCAGATTGTTTGGAGCATTATTAGCAATATGGTTGGCACTTA
1 TTGTTGCCTTCACTGGTTCGCACCCAGATTGTTTGGAGCATTACTAGCAATATGGTTGGCACTTA
* **
1745074 GGTTAGCCTTGGGTGGGTTATTTCGTGGTGGATGCAGTGGGACAGTAAGGGATGGGTTATAAG
66 GGTTAGCCTGGGGTGGGTTATTTCGTGGTGGACACAGTGGGACAGTAAGGGATGGGTTATAAG
* * * * *
1745137 TTGTTGCCTTCGCTGGTTCGCCCCCAGATTGTTTGGTGCATTACTGGCAATA-GGTTTGGCATTT
1 TTGTTGCCTTCACTGGTTCGCACCCAGATTGTTTGGAGCATTACTAGCAATATGG-TTGGCACTT
* * * *
1745201 GGGTTAGCCTGGGGTGGGTTATTTTGTGGTGGACACGGTGGGATAGTAAGGGATGGGTTATAAG
65 AGGTTAGCCTGGGGTGGGTTATTTCGTGGTGGACACAGTGGGACAGTAAGGGATGGGTTATAAG
1745265 TTGT
1 TTGT
1745269 AGAATACACC
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
127 2 0.02
128 115 0.98
ACGTcount: A:0.17, C:0.13, G:0.34, T:0.35
Consensus pattern (128 bp):
TTGTTGCCTTCACTGGTTCGCACCCAGATTGTTTGGAGCATTACTAGCAATATGGTTGGCACTTA
GGTTAGCCTGGGGTGGGTTATTTCGTGGTGGACACAGTGGGACAGTAAGGGATGGGTTATAAG
Found at i:1752214 original size:15 final size:15
Alignment explanation
Indices: 1752188--1752239 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
1752178 TTTTTCTTCA
1752188 TTCA-TTTT-TTTAT
1 TTCATTTTTATTTAT
*
1752201 TTCATTTTTATTTAC
1 TTCATTTTTATTTAT
*
1752216 TTCATTTTTATTTCT
1 TTCATTTTTATTTAT
*
1752231 TTTATTTTT
1 TTCATTTTT
1752240 TAATGGTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 4 0.12
14 4 0.12
15 25 0.76
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (15 bp):
TTCATTTTTATTTAT
Found at i:1753942 original size:28 final size:28
Alignment explanation
Indices: 1753883--1753942 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
1753873 GCCATTTTTG
*
1753883 GGTCAAAAAGTAATTTTAAAAAATTAAG
1 GGTCAAAAAGTAATTTTAAAAAATTAAA
* **
1753911 GGTCAAAATGTAATTTTAAAACTTTAAA
1 GGTCAAAAAGTAATTTTAAAAAATTAAA
1753939 GGTC
1 GGTC
1753943 GAAGCATGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.32
Consensus pattern (28 bp):
GGTCAAAAAGTAATTTTAAAAAATTAAA
Found at i:1754470 original size:152 final size:156
Alignment explanation
Indices: 1754183--1754471 Score: 353
Period size: 156 Copynumber: 1.9 Consensus size: 156
1754173 CACCAAGTCG
* * *
1754183 CTTTTATGCTAAAGGTGTGCATTTAAGATAGGTTAGTCATTTTCCTTATCTTTTTTGTGTCCTTT
1 CTTTTATGCCAAAGGTGTGCATTTAAGATAGGTTAGTCATTTTCATTATCTTTTTTGTATCCTTT
* *
1754248 AAAGTTGCCAAGATACTTTTATATCAAAGATATACCCTAAGGGCATTTTAGTAATTTTCTTAGAA
66 AAAGTTGACAAGATACTTTTATATCAAAGATATACACTAAGGGCATTTTAGTAATTTTCTTAGAA
*
1754313 TTGAGTTTTAGGTTGTTACGGGGTCA
131 CTGAGTTTTAGGTTGTTACGGGGTCA
*
1754339 CTTTTATGCCAAAGGTGTGCATTT-AGAATAGGTTCA-TCCTTTT-ATTAT-TTTTTTGTATCCT
1 CTTTTATGCCAAAGGTGTGCATTTAAG-ATAGGTT-AGTCATTTTCATTATCTTTTTTGTATCCT
* ** * * *
1754400 TTAAGGTT-ACTGGATA-TTTTCATATAGAAAG-TATA-ACTAAGGGGATTTTGGTAATTTGT-T
64 TTAAAGTTGACAAGATACTTTT-ATAT-CAAAGATATACACTAAGGGCATTTTAGTAATTT-TCT
1754460 TAGAACTGAGTT
126 TAGAACTGAGTT
1754472 CAATGTAATC
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
152 35 0.30
153 14 0.12
154 23 0.20
155 6 0.05
156 36 0.31
157 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (156 bp):
CTTTTATGCCAAAGGTGTGCATTTAAGATAGGTTAGTCATTTTCATTATCTTTTTTGTATCCTTT
AAAGTTGACAAGATACTTTTATATCAAAGATATACACTAAGGGCATTTTAGTAATTTTCTTAGAA
CTGAGTTTTAGGTTGTTACGGGGTCA
Found at i:1760904 original size:18 final size:19
Alignment explanation
Indices: 1760868--1760907 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
1760858 CAATGAAAAC
1760868 AAAAGCTCTTGGAAATTTG
1 AAAAGCTCTTGGAAATTTG
* *
1760887 AAAA-CTCTTTGAACTTTG
1 AAAAGCTCTTGGAAATTTG
1760905 AAA
1 AAA
1760908 GCTTTGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (19 bp):
AAAAGCTCTTGGAAATTTG
Found at i:1761170 original size:13 final size:13
Alignment explanation
Indices: 1761152--1761182 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1761142 ACATTTCTTC
1761152 ATGTATCGATACA
1 ATGTATCGATACA
1761165 ATGTATCGATACA
1 ATGTATCGATACA
*
1761178 TTGTA
1 ATGTA
1761183 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1761170 original size:33 final size:33
Alignment explanation
Indices: 1761132--1761198 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
1761122 GTTACAAGCT
1761132 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
1761165 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
1761198 A
1 A
1761199 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:1761257 original size:21 final size:20
Alignment explanation
Indices: 1761227--1761282 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
1761217 CTGCCAGTTT
* **
1761227 CATGTGTCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
1761248 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1761267 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1761283 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.55
21 14 0.45
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1761286 original size:13 final size:13
Alignment explanation
Indices: 1761268--1761296 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1761258 TACAATGAAC
1761268 ATGTATCGATACA
1 ATGTATCGATACA
1761281 ATGTATCGATACA
1 ATGTATCGATACA
1761294 ATG
1 ATG
1761297 CAGTATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1761290 original size:32 final size:33
Alignment explanation
Indices: 1761249--1761313 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1761239 CAATTTGTCC
1761249 ATGTATCGATACAATG-AACATGTATCGATACA
1 ATGTATCGATACAATGCAACATGTATCGATACA
**
1761281 ATGTATCGATACAATGCAGTATGTATCGATACA
1 ATGTATCGATACAATGCAACATGTATCGATACA
1761314 TCTGGATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAATGCAACATGTATCGATACA
Found at i:1761306 original size:20 final size:20
Alignment explanation
Indices: 1761281--1761334 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1761271 TATCGATACA
1761281 ATGTATCGATACA-ATGCAGT
1 ATGTATCGATACATATGCA-T
* *
1761301 ATGTATCGATACATCTGGAT
1 ATGTATCGATACATATGCAT
1761321 ATGTATCGATACAT
1 ATGTATCGATACAT
1761335 TCAAGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATATGCAT
Found at i:1761827 original size:20 final size:20
Alignment explanation
Indices: 1761796--1761842 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 20
1761786 GATACACATC
1761796 TTCAAGAAACACATT-AGAAAG
1 TTCAA-AAACACATTGA-AAAG
1761817 TTCAAAAACACATTGAAAAG
1 TTCAAAAACACATTGAAAAG
1761837 TTCAAA
1 TTCAAA
1761843 TATCAAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.53, C:0.15, G:0.11, T:0.21
Consensus pattern (20 bp):
TTCAAAAACACATTGAAAAG
Found at i:1763812 original size:13 final size:13
Alignment explanation
Indices: 1763794--1763822 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1763784 AAATAGTACC
1763794 CAATGTATCGATA
1 CAATGTATCGATA
1763807 CAATGTATCGATA
1 CAATGTATCGATA
1763820 CAA
1 CAA
1763823 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1767056 original size:1 final size:1
Alignment explanation
Indices: 1767052--1767096 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
1767042 GTTTTTCCTC
* * * *
1767052 TTTTTTTTTCTTTTTTGTTTTTTTCTTTTTTTCTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1767097 GTGTTTGGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.91
Consensus pattern (1 bp):
T
Found at i:1767065 original size:8 final size:8
Alignment explanation
Indices: 1767054--1767096 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
1767044 TTTTCCTCTT
1767054 TTTTTTTC
1 TTTTTTTC
*
1767062 -TTTTTTG
1 TTTTTTTC
1767069 TTTTTTTC
1 TTTTTTTC
1767077 TTTTTTTC
1 TTTTTTTC
1767085 TTTTTTT-
1 TTTTTTTC
1767092 TTTTT
1 TTTTT
1767097 GTGTTTGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
7 11 0.34
8 21 0.66
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.91
Consensus pattern (8 bp):
TTTTTTTC
Found at i:1767074 original size:15 final size:15
Alignment explanation
Indices: 1767054--1767098 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
1767044 TTTTCCTCTT
1767054 TTTTTTTCTTTTTTG
1 TTTTTTTCTTTTTTG
1767069 TTTTTTTCTTTTTT-
1 TTTTTTTCTTTTTTG
1767083 TCTTTTTT-TTTTTTG
1 T-TTTTTTCTTTTTTG
1767098 T
1 T
1767099 GTTTGGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (15 bp):
TTTTTTTCTTTTTTG
Found at i:1767084 original size:23 final size:22
Alignment explanation
Indices: 1767054--1767096 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
1767044 TTTTCCTCTT
1767054 TTTTTTTCTTTTTTGTTTTTTTC
1 TTTTTTTCTTTTTT-TTTTTTTC
1767077 TTTTTTTCTTTTTTTTTTTT
1 TTTTTTTCTTTTTTTTTTTT
1767097 GTGTTTGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.91
Consensus pattern (22 bp):
TTTTTTTCTTTTTTTTTTTTTC
Found at i:1774353 original size:52 final size:52
Alignment explanation
Indices: 1774283--1774403 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
1774273 GAAAATTTAT
*
1774283 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
1774335 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1774387 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1774404 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1774416 original size:52 final size:52
Alignment explanation
Indices: 1774283--1774423 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 52
1774273 GAAAATTTAT
*
1774283 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *** *
1774335 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
1774387 CTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
1774424 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1774430 original size:13 final size:13
Alignment explanation
Indices: 1774412--1774436 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1774402 CAAAGATCGG
1774412 TGTATCGATACAA
1 TGTATCGATACAA
1774425 TGTATCGATACA
1 TGTATCGATACA
1774437 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1774505 original size:20 final size:20
Alignment explanation
Indices: 1774476--1774533 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1774466 GCAGTAGCTT
1774476 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
1774495 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
1774515 TTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
1774534 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:1776104 original size:13 final size:13
Alignment explanation
Indices: 1776086--1776111 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1776076 TCATCTTTAG
1776086 TGCTTAAAAATAA
1 TGCTTAAAAATAA
1776099 TGCTTAAAAATAA
1 TGCTTAAAAATAA
1776112 AACCCAAGTA
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:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
TGCTTAAAAATAA
Found at i:1779527 original size:33 final size:33
Alignment explanation
Indices: 1779489--1779555 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
1779479 GTTACAAGCT
1779489 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTATAC--CATGTATCGATACA
1779522 ATGTATCGATACATTATACCATGTATCGATACA
1 ATGTATCGATACATTATACCATGTATCGATACA
1779555 A
1 A
1779556 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTATACCATGTATCGATACA
Found at i:1779540 original size:20 final size:20
Alignment explanation
Indices: 1779517--1779554 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1779507 TCATGTATCG
1779517 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
1779537 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
1779555 AATAGTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:1779553 original size:13 final size:13
Alignment explanation
Indices: 1779509--1779534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1779499 ACATTTCTTC
1779509 ATGTATCGATACA
1 ATGTATCGATACA
1779522 ATGTATCGATACA
1 ATGTATCGATACA
1779535 TTATACCATG
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:1779624 original size:13 final size:13
Alignment explanation
Indices: 1779606--1779632 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1779596 CAATTTGTCC
1779606 ATGTATCGATACA
1 ATGTATCGATACA
1779619 ATGTATCGATACA
1 ATGTATCGATACA
1779632 A
1 A
1779633 AGCAGCATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1783123 original size:21 final size:20
Alignment explanation
Indices: 1783097--1783142 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
1783087 TTTTATAATT
1783097 TGTATCCATACAAATAGTAAA
1 TGTATCCATACAAA-AGTAAA
* * *
1783118 TGTATCGATACATAAGTGAA
1 TGTATCCATACAAAAGTAAA
1783138 TGTAT
1 TGTAT
1783143 TGATACATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCCATACAAAAGTAAA
Found at i:1783141 original size:20 final size:21
Alignment explanation
Indices: 1783097--1783150 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1783087 TTTTATAATT
* *
1783097 TGTATCCATACAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
1783118 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
*
1783138 TGTATTGATACAT
1 TGTATCGATACAT
1783151 GCCTAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:1783246 original size:22 final size:20
Alignment explanation
Indices: 1783218--1783273 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
1783208 CATAAGTAAA
1783218 TGTATCGATACATGCTTA-CAAT
1 TGTATCGATACAT--TTATC-AT
*
1783240 TGTATCGATATATTTATCAT
1 TGTATCGATACATTTATCAT
1783260 TGTATCGATACATT
1 TGTATCGATACATT
1783274 CTAGGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.58
21 1 0.03
22 12 0.39
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTATCAT
Found at i:1786707 original size:48 final size:48
Alignment explanation
Indices: 1786650--1786752 Score: 143
Period size: 48 Copynumber: 2.1 Consensus size: 48
1786640 AGAATATCAG
* *
1786650 TAAAGTTTTTCTTTTAAGTTTGCTTCATTCGATTAGGCAGAAGATCGA
1 TAAAGTTTTTCTTTTAAGTTAGCTTCATTCGATTAGGCAAAAGATCGA
* * ** *
1786698 TGAAGTTTTTTTTTTTGGTTAGCTTTATTCGATTAGGCAAAAGATCGA
1 TAAAGTTTTTCTTTTAAGTTAGCTTCATTCGATTAGGCAAAAGATCGA
1786746 TAAAGTT
1 TAAAGTT
1786753 AGTTGTTGGC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (48 bp):
TAAAGTTTTTCTTTTAAGTTAGCTTCATTCGATTAGGCAAAAGATCGA
Found at i:1787458 original size:63 final size:63
Alignment explanation
Indices: 1787283--1787476 Score: 182
Period size: 63 Copynumber: 3.1 Consensus size: 63
1787273 ATCGATGAAG
* * * * * ***
1787283 TTTTTCTCCATTAAGTTTGCTTTATTTGGTTAGGCAAAAGACCAGTAAA-ATCAATACCTTTTA
1 TTTTTCTCTATTAAGTCTCCTTTATTTGGATAGACAAAAGACCAGTAAAGA-CGGCACCTTTTA
* * *
1787346 TTTTTC-CATGTTAAGTC-CACTTTATTTGGATA-AGTAAAAGACCAATAAAGACGGCACCTTTT
1 TTTTTCTC-TATTAAGTCTC-CTTTATTTGGATAGA-CAAAAGACCAGTAAAGACGGCACCTTTT
1787408 A
63 A
**
1787409 TTTTTCTCTATTAAGTCTCCTTTATTTGGATAGACAAAATG-CCAGTAAAGTTGGCACCTTTTTA
1 TTTTTCTCTATTAAGTCTCCTTTATTTGGATAGACAAAA-GACCAGTAAAGACGGCACC-TTTTA
1787473 TTTT
1 TTTT
1787477 CTTTGATAAG
Statistics
Matches: 106, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 91 0.86
64 14 0.13
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (63 bp):
TTTTTCTCTATTAAGTCTCCTTTATTTGGATAGACAAAAGACCAGTAAAGACGGCACCTTTTA
Found at i:1791096 original size:13 final size:13
Alignment explanation
Indices: 1791078--1791103 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1791068 CAAGGGACAC
1791078 TGTATCGATACAT
1 TGTATCGATACAT
1791091 TGTATCGATACAT
1 TGTATCGATACAT
1791104 GGTAAAAAGT
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:1793762 original size:16 final size:15
Alignment explanation
Indices: 1793713--1793763 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
1793703 GAAACACGAG
*
1793713 AAAAT-TCTAACCCA
1 AAAATATCTAAGCCA
*
1793727 AAAATATCTAAGCCC
1 AAAATATCTAAGCCA
* *
1793742 GAAATGATCTGAGCCA
1 AAAAT-ATCTAAGCCA
1793758 AAAATA
1 AAAATA
1793764 AATTTGAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 5 0.17
15 12 0.41
16 12 0.41
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.20
Consensus pattern (15 bp):
AAAATATCTAAGCCA
Found at i:1794068 original size:20 final size:20
Alignment explanation
Indices: 1794043--1794080 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1794033 TTTATTTGTA
1794043 TCTCTTTTCTATTAGCTTTG
1 TCTCTTTTCTATTAGCTTTG
1794063 TCTCTTTTCTATTAGCTT
1 TCTCTTTTCTATTAGCTT
1794081 AAACTTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.11, C:0.21, G:0.08, T:0.61
Consensus pattern (20 bp):
TCTCTTTTCTATTAGCTTTG
Found at i:1800587 original size:17 final size:16
Alignment explanation
Indices: 1800554--1800612 Score: 84
Period size: 17 Copynumber: 3.6 Consensus size: 16
1800544 TAACAAAAGT
1800554 AAAATAAAATGAAATG
1 AAAATAAAATGAAATG
1800570 -AAATGAAAATGAAAATG
1 AAAAT-AAAATG-AAATG
1800587 AAAATAAAATGAAGATG
1 AAAATAAAATGAA-ATG
1800604 AAAATAAAA
1 AAAATAAAA
1800613 AATAAAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.10
16 8 0.21
17 23 0.59
18 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (16 bp):
AAAATAAAATGAAATG
Found at i:1800622 original size:6 final size:6
Alignment explanation
Indices: 1800554--1800612 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
1800544 TAACAAAAGT
1800554 AAAAT- AAAATG -AAATG -AAATG AAAATG AAAATG AAAAT- AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
*
1800598 AAGATG AAAAT- AAAA
1 AAAATG AAAATG AAAA
1800613 AATAAAAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
5 24 0.49
6 25 0.51
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:1801286 original size:266 final size:268
Alignment explanation
Indices: 1800811--1801532 Score: 1227
Period size: 267 Copynumber: 2.7 Consensus size: 268
1800801 TAATTCGAAC
1800811 TGTGAAGTTTAACTATAAATCAGCTTTATAAAAATTTG-CCTATAAATCTTAAAATCTACTATAA
1 TGTGAAGTTTAACTATAAATCAGCTTTATAAAAATTTGTCC-ATAAATCTTAAAATCTACTATAA
* *
1800875 TCTTAAAATTGAATTAAAGTATATTTGATTTAAATTAAATTATCTCAAAAGAAACTAATTTAAAT
65 TCTTAAAATTGAATTAAAGTATATTTGATTTAAATTAAATTATCTCCAAAGAAATTAATTTAAAT
** *
1800940 AATCAAACACAATAAAGTTCAAATAACGTTTCAAAGATCCCCTATAAATTAGGCGTATACACATT
130 AATCAAACACAATAAAGTTCAAATAACGTTTCAAAGATCCTGTATAAATTAGGCGTATACAAATT
*
1801005 ACCATTCGAAGATTTATTTGGCTTTGCTTAGAGAAAAGAATAGG-AAAAAAATGG-AAAAGGAAA
195 ACCATTCGAAGATTTATTTGGCTTTGCATAGAGAAAAGAATAGGAAAAAAAATGGAAAAAGG-AA
1801068 ATAGAAGAAA
259 ATAGAAGAAA
* *
1801078 TGTGAAGTTTAACTAGAAATTAGCTTTATAAAAATTTGTCCATAAATCTTAAAATCTACTATAAT
1 TGTGAAGTTTAACTATAAATCAGCTTTATAAAAATTTGTCCATAAATCTTAAAATCTACTATAAT
* *
1801143 CTTAAAATTGAATT-GAGTATATTTGATTTAAATTAAATGATCTCCAAAGAAATTAATTTAAATA
66 CTTAAAATTGAATTAAAGTATATTTGATTTAAATTAAATTATCTCCAAAGAAATTAATTTAAATA
* * * * * *
1801207 ATCAAACAAAATAAAGTTTAAATAACATTTCAAATATTCTGTATAAATTAGGCATATACAAATTA
131 ATCAAACACAATAAAGTTCAAATAACGTTTCAAAGATCCTGTATAAATTAGGCGTATACAAATTA
1801272 CCATTCGAAGATTTATTTGGCTTTGCATAGAGAAAAGAATAGGAAAAAAAATGGAAAAAGGAAAT
196 CCATTCGAAGATTTATTTGGCTTTGCATAGAGAAAAGAATAGGAAAAAAAATGGAAAAAGGAAAT
1801337 AGAAGAAA
261 AGAAGAAA
1801345 TGTGAAGTTTAACTATAAATCAGCTTTATAAAAATTTGTCCATAAATCTTAAAATCTACTATAAT
1 TGTGAAGTTTAACTATAAATCAGCTTTATAAAAATTTGTCCATAAATCTTAAAATCTACTATAAT
* *
1801410 CTTAAAATTAAATTAAAGTATATTTGATTTAAATTAAATTATGTCCAAAGAAATTAATTTAAATA
66 CTTAAAATTGAATTAAAGTATATTTGATTTAAATTAAATTATCTCCAAAGAAATTAATTTAAATA
*
1801475 ATCAAACACAATAAAGTTCAAATAACGTTTCAAAGATCCTGTATAAATTGGGCGTATA
131 ATCAAACACAATAAAGTTCAAATAACGTTTCAAAGATCCTGTATAAATTAGGCGTATA
1801533 TGTCACGCCA
Statistics
Matches: 422, Mismatches: 29, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
266 144 0.34
267 172 0.41
268 106 0.25
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (268 bp):
TGTGAAGTTTAACTATAAATCAGCTTTATAAAAATTTGTCCATAAATCTTAAAATCTACTATAAT
CTTAAAATTGAATTAAAGTATATTTGATTTAAATTAAATTATCTCCAAAGAAATTAATTTAAATA
ATCAAACACAATAAAGTTCAAATAACGTTTCAAAGATCCTGTATAAATTAGGCGTATACAAATTA
CCATTCGAAGATTTATTTGGCTTTGCATAGAGAAAAGAATAGGAAAAAAAATGGAAAAAGGAAAT
AGAAGAAA
Found at i:1802847 original size:17 final size:19
Alignment explanation
Indices: 1802807--1802846 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1802797 TCTTAATAAC
1802807 TATAATAATACAAATAAAA
1 TATAATAATACAAATAAAA
*
1802826 TATAA-AATACATAAAAAAA
1 TATAATAATACA-AATAAAA
1802845 TA
1 TA
1802847 ATTAAGTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
TATAATAATACAAATAAAA
Found at i:1803859 original size:2 final size:2
Alignment explanation
Indices: 1803852--1803899 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1803842 TGCAAAGGGG
1803852 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1803894 GA GA GA
1 GA GA GA
1803900 ATGAAATGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1804054 original size:22 final size:22
Alignment explanation
Indices: 1804021--1804085 Score: 103
Period size: 22 Copynumber: 2.9 Consensus size: 22
1804011 CTAATATGTC
1804021 AAAATATTATACTTAAATATATT
1 AAAA-ATTATACTTAAATATATT
1804044 AAAAATTATACTTAAATATATT
1 AAAAATTATACTTAAATATATT
*
1804066 AAAAATTATATTTTAAATAT
1 AAAAATTATA-CTTAAATAT
1804086 TAATTCTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 28 0.70
23 12 0.30
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAAATTATACTTAAATATATT
Found at i:1804077 original size:12 final size:12
Alignment explanation
Indices: 1804038--1804077 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1804028 TATACTTAAA
1804038 TATATTAAAAAT
1 TATATTAAAAAT
1804050 TATACTT--AAA-
1 TATA-TTAAAAAT
1804060 TATATTAAAAAT
1 TATATTAAAAAT
1804072 TATATT
1 TATATT
1804078 TTAAATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
9 2 0.08
10 4 0.17
11 6 0.25
12 10 0.42
13 2 0.08
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATTAAAAAT
Found at i:1805546 original size:22 final size:20
Alignment explanation
Indices: 1805506--1805547 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
1805496 CAATTTTTTA
*
1805506 ATTATAAATTATTTTTAATT
1 ATTATAAATTAATTTTAATT
1805526 ATTATTAAATTAAATTTTAATT
1 ATTA-TAAATT-AATTTTAATT
1805548 TAATTATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 6 0.32
22 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTATAAATTAATTTTAATT
Found at i:1817266 original size:24 final size:24
Alignment explanation
Indices: 1817117--1817257 Score: 76
Period size: 24 Copynumber: 5.9 Consensus size: 24
1817107 TAAAGTCTCT
*
1817117 CATTTT-AAAACCTTTCATGA-AGA
1 CATTTTCAAAACCTCTCATGAGA-A
* * * *
1817140 CGTTTTCAAAGCCTCT-TTCGCGAA
1 CATTTTCAAAACCTCTCAT-GAGAA
** * **
1817164 CATTTTCAAAGGCTCTCTTGAGGG
1 CATTTTCAAAACCTCTCATGAGAA
* *
1817188 CATTTTCAAAAGC-CTCACTCGA-AG
1 CATTTTCAAAACCTCTCA-T-GAGAA
1817212 CGATTTTCAAAACCTCTCATGAGAA
1 C-ATTTTCAAAACCTCTCATGAGAA
* *
1817237 CATTTTCTAAGCCTCTCATGA
1 CATTTTCAAAACCTCTCATGA
1817258 TGATATTTTT
Statistics
Matches: 92, Mismatches: 17, Indels: 17
0.73 0.13 0.13
Matches are distributed among these distances:
23 9 0.10
24 60 0.65
25 19 0.21
26 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (24 bp):
CATTTTCAAAACCTCTCATGAGAA
Found at i:1829539 original size:162 final size:161
Alignment explanation
Indices: 1829306--1829930 Score: 621
Period size: 165 Copynumber: 3.8 Consensus size: 161
1829296 AATTATAGGA
* * * * * ** * *
1829306 TTTTCTTCTCCGTAAATTTTTTTGGGAGGATTTTTATGGGTTTAAAATTTTGAAAATTCATCAAC
1 TTTTCTACTCTGTAAA-TTTTTTGGGA-GATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAA
* * *
1829371 TATTATTATTTATTTCATATTATATCAATTTTTAAAAATTCATTTATTTTCATTAGTTTTCGAAT
64 TATTATTATTTATTTCATATTAAATCAATTTTTAAAAATTCATTTATTTTCATGAATTTT-GAAT
*
1829436 TTTTCCTTAAAATTTCTTGTTTTCGAAATACAGAG
128 TTTTCCTTAAAATTTCTT-TTTTCAAAATACAGAG
* * *
1829471 TTTTCTACTCTATAAATTTTTTGGGAGTTTTTTTTTG-TTTTTAATTTTTAAAATTCATCAAATA
1 TTTTCTACTCTGTAAATTTTTTGGGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAATA
* * * * *
1829535 TTATTATTTATTTCATATTAAATTAGTTTTTTAAAATTCATTAATTTTCAAT-AGTTTTGAATTT
66 TTATTATTTATTTCATATTAAATCAATTTTTAAAAATTCATTTATTTTC-ATGAATTTTGAATTT
* *
1829599 TTTCTTAAAATTT-TTTTGCTCAAAAAATACAGAG
130 TTCCTTAAAATTTCTTTT-TTC--AAAATACAGAG
* * *
1829633 TTTTCTACTCTGTAATTTTTTTCGAGGGGATTTTTCTTGATTTTTAATTTTTAAAATTAATCAAA
1 TTTTCTACTCTGTAAATTTTTT-G-GGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAA
* * * * * *
1829698 TATTATTATTTATTTCATAGTAAATCAAATTTCAAAAATTCA-TCATTTTCATGAATTTTTTATT
64 TATTATTATTTATTTCATATTAAATCAATTTTTAAAAATTCATTTATTTTCATGAA-TTTTGAAT
* * * * **
1829762 TTTTCTTTGAAATTTTCCTATTTCCAAAATATGGAG
128 TTTTCCTT-AAAATTT-CTTTTTTCAAAATACAGAG
* * ** *
1829798 TTTTCTACTCTGTAAATGTTTTCGGGAGGATTTTTCTAGATTTAAAATTTTTAAAATTCATCTAA
1 TTTTCTACTCTGTAAAT-TTTTTGGGA-GATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAA
* * * * * * *
1829863 TATTATCATTAAATTCACATTAAATCAATTTTGAAGAATTCAAATTA-TTTCATGAATTTTGAAT
64 TATTATTATTTATTTCATATTAAATCAATTTTTAAAAATTC-ATTTATTTTCATGAATTTTGAAT
1829927 TTTT
128 TTTT
1829931 TTGTATATAT
Statistics
Matches: 383, Mismatches: 61, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
159 2 0.01
160 4 0.01
161 18 0.05
162 103 0.27
163 13 0.03
164 31 0.08
165 186 0.49
166 20 0.05
167 3 0.01
168 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.51
Consensus pattern (161 bp):
TTTTCTACTCTGTAAATTTTTTGGGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAATA
TTATTATTTATTTCATATTAAATCAATTTTTAAAAATTCATTTATTTTCATGAATTTTGAATTTT
TCCTTAAAATTTCTTTTTTCAAAATACAGAG
Found at i:1830015 original size:2 final size:2
Alignment explanation
Indices: 1830008--1830041 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1829998 TCAGATCTTT
1830008 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1830042 AGGAACTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1832629 original size:13 final size:13
Alignment explanation
Indices: 1832607--1832645 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1832597 CAATTTTTGG
1832607 TGTATCGATACAT
1 TGTATCGATACAT
*
1832620 TGTATTGATACAT
1 TGTATCGATACAT
1832633 TGTATCGATACAT
1 TGTATCGATACAT
1832646 ACTTGGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1833340 original size:29 final size:29
Alignment explanation
Indices: 1833298--1833353 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
1833288 ACAAGTTCTA
1833298 CATTCTCCCCCTTAA-CAAAGTAATTCACG
1 CATTCTCCCCCTTAATC-AAGTAATTCACG
1833327 CATTCTCCCCCTTAATCAAGTAATTCA
1 CATTCTCCCCCTTAATCAAGTAATTCA
1833354 TATCAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.30, C:0.34, G:0.05, T:0.30
Consensus pattern (29 bp):
CATTCTCCCCCTTAATCAAGTAATTCACG
Found at i:1835174 original size:13 final size:13
Alignment explanation
Indices: 1835156--1835181 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1835146 ATAATCACCT
1835156 TGTATCGATACAA
1 TGTATCGATACAA
1835169 TGTATCGATACAA
1 TGTATCGATACAA
1835182 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:1837281 original size:15 final size:15
Alignment explanation
Indices: 1837261--1837291 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1837251 ATTTCGTTTG
*
1837261 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1837276 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1837291 G
1 G
1837292 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
Found at i:1839123 original size:21 final size:21
Alignment explanation
Indices: 1839094--1839138 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1839084 AAGTTTTTAT
*
1839094 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1839114 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1839136 TTT
1 TTT
1839139 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1841381 original size:13 final size:13
Alignment explanation
Indices: 1841359--1841397 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1841349 CAATTTTTGG
1841359 TGTATCGATACAT
1 TGTATCGATACAT
*
1841372 TGTATTGATACAT
1 TGTATCGATACAT
1841385 TGTATCGATACAT
1 TGTATCGATACAT
1841398 ACTTGGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1842876 original size:21 final size:21
Alignment explanation
Indices: 1842852--1842899 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
1842842 AAAATTTTAG
1842852 ATTTTAATCTTAATACAAAGA
1 ATTTTAATCTTAATACAAAGA
* *
1842873 ATTTTAATTTTAATCCAAAGA
1 ATTTTAATCTTAATACAAAGA
*
1842894 GTTTTA
1 ATTTTA
1842900 TTCCCATCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (21 bp):
ATTTTAATCTTAATACAAAGA
Found at i:1843296 original size:35 final size:35
Alignment explanation
Indices: 1843209--1843308 Score: 98
Period size: 35 Copynumber: 2.9 Consensus size: 35
1843199 TGAAAAATTT
* *
1843209 TTCCATCGAGGCATCAAATTT--AAATGAAAACTC
1 TTCCATCGAGGCTTCAATTTTAAAAATGAAAACTC
* * * * *
1843242 TTCTA-CTAAGGTTTGAATTTTAAAAATAAAAACTC
1 TTCCATC-GAGGCTTCAATTTTAAAAATGAAAACTC
*
1843277 TTCCATCGAGGCTTCAATTTAAAAAATGAAAA
1 TTCCATCGAGGCTTCAATTTTAAAAATGAAAA
1843309 GCTGCTCCAT
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
32 1 0.02
33 13 0.26
35 35 0.70
36 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (35 bp):
TTCCATCGAGGCTTCAATTTTAAAAATGAAAACTC
Found at i:1843402 original size:69 final size:69
Alignment explanation
Indices: 1843265--1843474 Score: 226
Period size: 69 Copynumber: 3.0 Consensus size: 69
1843255 TGAATTTTAA
* * * * * *
1843265 AAATAAAAACTCTTCCATCGAGGCTTCAATTTAAAAAATGAAAAGCTGCTCCA-TCAAG-ATATC
1 AAATGAAAACTCCTCCATCGAGGCTTCAACTTAAAAAATGAAAAACTCCTCCACTAAAGCAT-T-
1843328 AACTTT
64 AACTTT
* * * * * *
1843334 AAATGAATACTTCTCTATCGAGGCTTCAACTTCAAAATTGAAAAACTCCTCCACTAAAGCATTGA
1 AAATGAAAACTCCTCCATCGAGGCTTCAACTTAAAAAATGAAAAACTCCTCCACTAAAGCATTAA
1843399 CTTT
66 CTTT
* * * * * *
1843403 AAATGAAAACTCCTCCACCAACGCTTCAACTTTAAAAATGGAAAACTCCTCCACCAAAGCATTAA
1 AAATGAAAACTCCTCCATCGAGGCTTCAACTTAAAAAATGAAAAACTCCTCCACTAAAGCATTAA
1843468 CTTT
66 CTTT
1843472 AAA
1 AAA
1843475 AATGGAAAGC
Statistics
Matches: 116, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
69 109 0.94
70 5 0.04
71 2 0.02
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (69 bp):
AAATGAAAACTCCTCCATCGAGGCTTCAACTTAAAAAATGAAAAACTCCTCCACTAAAGCATTAA
CTTT
Found at i:1843510 original size:36 final size:36
Alignment explanation
Indices: 1843361--1843491 Score: 153
Period size: 36 Copynumber: 3.7 Consensus size: 36
1843351 TCGAGGCTTC
* * * *
1843361 AACTTCAAAATTGAAAAACTCCTCCACTAAAGCATT
1 AACTTTAAAAATGGAAAACTCCTCCACCAAAGCATT
* *
1843397 GACTTT--AAAT-GAAAACTCCTCCACCAACGC-TT
1 AACTTTAAAAATGGAAAACTCCTCCACCAAAGCATT
1843429 CAACTTTAAAAATGGAAAACTCCTCCACCAAAGCATT
1 -AACTTTAAAAATGGAAAACTCCTCCACCAAAGCATT
* *
1843466 AACTTTAAAAATGGAAAGCTCTTCCA
1 AACTTTAAAAATGGAAAACTCCTCCA
1843492 TTGAGGTATT
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
32 2 0.03
33 22 0.28
34 3 0.04
35 4 0.05
36 47 0.59
37 2 0.03
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.24
Consensus pattern (36 bp):
AACTTTAAAAATGGAAAACTCCTCCACCAAAGCATT
Found at i:1845426 original size:18 final size:18
Alignment explanation
Indices: 1845403--1845445 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
1845393 TTTCTTTTAA
1845403 TTTTCTCATTTGTTTG-TT
1 TTTTCTCATTT-TTTGCTT
*
1845421 TTTTCTTTATTTTTTGCTT
1 TTTTC-TCATTTTTTGCTT
1845440 TTTTCT
1 TTTTCT
1845446 TTTTTGCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.77
Consensus pattern (18 bp):
TTTTCTCATTTTTTGCTT
Found at i:1845441 original size:19 final size:19
Alignment explanation
Indices: 1845410--1845451 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1845400 TAATTTTCTC
1845410 ATTTGTTTGTTTTTTCTTT
1 ATTTGTTTGTTTTTTCTTT
1845429 ATTT-TTTGCTTTTTTCTTT
1 ATTTGTTTG-TTTTTTCTTT
1845448 -TTTG
1 ATTTG
1845452 CTATTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.05, C:0.07, G:0.10, T:0.79
Consensus pattern (19 bp):
ATTTGTTTGTTTTTTCTTT
Found at i:1850330 original size:18 final size:17
Alignment explanation
Indices: 1850315--1850346 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1850305 TTATATAATT
1850315 ATATAAAA-AAATATAA
1 ATATAAAATAAATATAA
1850331 ATATAAAATAAATATA
1 ATATAAAATAAATATA
1850347 TAAATATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
ATATAAAATAAATATAA
Found at i:1850779 original size:19 final size:21
Alignment explanation
Indices: 1850734--1850785 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 21
1850724 ACTTGATATA
*
1850734 ATTATACAAAAAAATTATATG
1 ATTATACAAAAAAATTATACG
* *
1850755 AATATA-AAATAAA-TATACG
1 ATTATACAAAAAAATTATACG
1850774 ATTATATCAAAA
1 ATTATA-CAAAA
1850786 TTTATATAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
19 10 0.42
20 6 0.25
21 8 0.33
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.31
Consensus pattern (21 bp):
ATTATACAAAAAAATTATACG
Found at i:1850793 original size:33 final size:33
Alignment explanation
Indices: 1850756--1850838 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
1850746 AATTATATGA
*
1850756 ATATAAAATAAATATACGATTATATCAAAATTT
1 ATATAAAATAAATATACGAATATATCAAAATTT
* * **
1850789 ATATAACATAAATTTATTAATATATCAAAATTT
1 ATATAAAATAAATATACGAATATATCAAAATTT
*
1850822 ATGTAAATATATAATAT
1 ATATAAA-ATA-AATAT
1850839 TTTAAATATA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 33 0.82
34 3 0.08
35 4 0.10
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (33 bp):
ATATAAAATAAATATACGAATATATCAAAATTT
Found at i:1850801 original size:425 final size:422
Alignment explanation
Indices: 1849744--1851005 Score: 1412
Period size: 407 Copynumber: 3.0 Consensus size: 422
1849734 ATCCTTACTT
* * *
1849744 TTATATTTATTATGAATAATAATATTTTTATTTTATTTTTTAATAATATTACTAATTGAG--TGT
1 TTATATTTATTATGAATAACAATA-TTTTATTTTATTTTTTAATTATTTTAC-AATTGAGTTTGT
* * * * * * * * *
1849807 GTTACTTGCGACATCAAGCGCAGCTAGGAATATTATTAGTAATATGCACATAGAGTAGAATTGGG
64 GTTACTTG-TATATCAAACTCAGCTAAGAGTATTATT-GTAGTATGCATATAGAGTAGAATTAGG
* ** * * *
1849872 TACATCTCTTGG-AAGCTTTGAATATGGTACGATTTTAC-AAAAAATAATATAAATATAAAATGA
127 TACATCTCTTGGCAA-CTTTGAATATGATATAATTATACAAAAAAATTATAT-AATATAAAATAA
* ** * * *
1849935 ATATATGAATATATTAAAATTTATTTATTACAAATTTAGTACCATATCAAAATTTATATAAATAT
190 ATATATGAATATATCAAAATTTATTTAACATAAATTTACTAACATATCAAAATTTATATAAATAT
* * * * *
1850000 ATAATATCTTAAACATAATAATTATATATGAAAATACACTAACATAATAAGCATACACATATTAC
255 ATAATATATTAAACATAATAATTATACATGAAAATATACTAACATAACATGCATACACATATTAC
* * ** *
1850065 TATTGTGTGGGTGAAAATACGTATTTTAAAAAGATAA-AGAATTATATTTGAAAGAGATTAATAT
320 TATTATGTAGGTGAAAATATATTTTTTAAAAAGA-AAGAGAATTATATTTGAAAGAGATTAATAT
* * **
1850129 GAAAAAAAAAGGTAGATAATTTTTTTAAGTGATATGAGTGAA
384 G-AAAAAAAA-GTAGATAA-TTTTTAAAGTGAAACAAGTGAA
* * * *
1850171 TTATAATTATTATGATTAACACTATTTTATTTT-TTTTGGTAATT-TTATT--AATTGAGTTTGT
1 TTATATTTATTATGAATAACAATATTTTATTTTATTTT-TTAATTATT-TTACAATTGAGTTTGT
*
1850232 GTTAC---T-TAT--AACTCAGCT-AG-G----A--GTAGAATGCATATAGAGTAGAATTAGGTA
64 GTTACTTGTATATCAAACTCAGCTAAGAGTATTATTGTAGTATGCATATAGAGTAGAATTAGGTA
* * *
1850283 CATCTCTTAGC-ACTTTTGAATATTATATAATTATATAAAAAAA-TATA-AATATAAAATAAATA
129 CATCTCTTGGCAAC-TTTGAATATGATATAATTATACAAAAAAATTATATAATATAAAATAAATA
* *
1850345 TATAAATATATCAAAATTTATTTAACATAAATTTACTAACATATCAAAATTTATATATATATATA
193 TATGAATATATCAAAATTTATTTAACATAAATTTACTAACATATCAAAATTTATATAAATATATA
* *
1850410 ATATATTAAACATAATAATTATACATAAAAATATACTAACATAACATGCATGCACATATTACTAT
258 ATATATTAAACATAATAATTATACATGAAAATATACTAACATAACATGCATACACATATTACTAT
* *
1850475 TATATAGGTGAAAATATATTTTTTAAAAAGAAAGAGAATTATATTTGAAAGAGATTAATATGGAA
323 TATGTAGGTGAAAATATATTTTTTAAAAAGAAAGAGAATTATATTTGAAAGAGATTAATATGAAA
*
1850540 AAAAA-TAGATAATTTTTAAAGTGAAACAAGTGGA
388 AAAAAGTAGATAATTTTTAAAGTGAAACAAGTGAA
* * *
1850574 TTATATTTATTTTGAATAACAATATTTTATTTTATTTTTTAATTATTTTACCAATTGAGTTTTTA
1 TTATATTTATTATGAATAACAATATTTTATTTTATTTTTTAATTATTTTA-CAATTGAGTTTGTG
* **
1850639 TTACTTGTAATATCAAACTTAGCTAAGAGTATTATTTGTAGTATGCATATAGAGTAGAATTAAAT
65 TTACTTGT-ATATCAAACTCAGCTAAGAGTATTA-TTGTAGTATGCATATAGAGTAGAATTAGGT
1850704 ACATCTCTTGGCAACTTTGAACT-TGATATAATTATACAAAAAAATTATATGAATATAAAATAAA
128 ACATCTCTTGGCAACTTTGAA-TATGATATAATTATACAAAAAAATTATAT-AATATAAAATAAA
* * * * * *
1850768 TATACGATTATATCAAAATTTATATAACATAAATTTATTAATATATCAAAATTTATGTAAATATA
191 TATATGAATATATCAAAATTTATTTAACATAAATTTACTAACATATCAAAATTTATATAAATATA
* * * * * *
1850833 TAATATTTTAAATATAATAATTATACACGAAAATATATTAACATAACATGCATACAAAGA-TACT
256 TAATATATTAAACATAATAATTATACATGAAAATATACTAACATAACATGCATACACATATTACT
* * * *
1850897 ATTATGTATGTGAAAATATTTTTTTTTAAAAAAAAAAGAGAATGATATTTGAAAGAGATTAATAT
321 ATTATGTAGGTGAAAATA-TATTTTTT-AAAAAGAAAGAGAATTATATTTGAAAGAGATTAATAT
* * *
1850962 AAAAAAAAAAGTAGATATTTTTTTTAAAGTGAAGCAAGTGAA
384 -GAAAAAAAAGTAGATA--ATTTTTAAAGTGAAACAAGTGAA
1851004 TT
1 TT
1851006 TTTTTTACAA
Statistics
Matches: 702, Mismatches: 93, Indels: 77
0.81 0.11 0.09
Matches are distributed among these distances:
403 53 0.08
404 13 0.02
406 24 0.03
407 182 0.26
408 1 0.00
409 55 0.08
410 6 0.01
411 3 0.00
412 1 0.00
413 8 0.01
414 2 0.00
415 1 0.00
417 1 0.00
418 7 0.01
419 1 0.00
420 2 0.00
422 61 0.09
423 14 0.02
424 20 0.03
425 142 0.20
426 50 0.07
427 27 0.04
428 6 0.01
430 22 0.03
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (422 bp):
TTATATTTATTATGAATAACAATATTTTATTTTATTTTTTAATTATTTTACAATTGAGTTTGTGT
TACTTGTATATCAAACTCAGCTAAGAGTATTATTGTAGTATGCATATAGAGTAGAATTAGGTACA
TCTCTTGGCAACTTTGAATATGATATAATTATACAAAAAAATTATATAATATAAAATAAATATAT
GAATATATCAAAATTTATTTAACATAAATTTACTAACATATCAAAATTTATATAAATATATAATA
TATTAAACATAATAATTATACATGAAAATATACTAACATAACATGCATACACATATTACTATTAT
GTAGGTGAAAATATATTTTTTAAAAAGAAAGAGAATTATATTTGAAAGAGATTAATATGAAAAAA
AAGTAGATAATTTTTAAAGTGAAACAAGTGAA
Found at i:1852585 original size:15 final size:15
Alignment explanation
Indices: 1852565--1852594 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1852555 GCTTTTACAA
*
1852565 ATCATTCATAACATT
1 ATCATTAATAACATT
1852580 ATCATTAATAACATT
1 ATCATTAATAACATT
1852595 GAATGTGCTT
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:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (15 bp):
ATCATTAATAACATT
Found at i:1853944 original size:13 final size:13
Alignment explanation
Indices: 1853926--1853951 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1853916 ACATTTTGGG
1853926 ATGTATCGATACA
1 ATGTATCGATACA
1853939 ATGTATCGATACA
1 ATGTATCGATACA
1853952 TATTGTGTGT
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:1853946 original size:33 final size:32
Alignment explanation
Indices: 1853904--1853971 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
1853894 CGTTACAAGC
*
1853904 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
1853937 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
1853969 CAA
1 CAA
1853972 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:1854046 original size:20 final size:21
Alignment explanation
Indices: 1854003--1854055 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
1853993 CCCAATGACC
**
1854003 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
1854024 TGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
1854044 TGTATCGATACA
1 TGTATCGATACA
1854056 ATATATCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:1856070 original size:21 final size:21
Alignment explanation
Indices: 1856039--1856090 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
1856029 GCTGCTAGTG
*
1856039 TGGGGGCTGCCCGATTGCGACC
1 TGGGGG-TGCCCGATCGCGACC
*
1856061 TGGGGGTG-CCGGTCGCGACC
1 TGGGGGTGCCCGATCGCGACC
1856081 TGGTGGGTGC
1 TGG-GGGTGC
1856091 TGCCTAGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.06, C:0.27, G:0.48, T:0.19
Consensus pattern (21 bp):
TGGGGGTGCCCGATCGCGACC
Found at i:1856542 original size:13 final size:13
Alignment explanation
Indices: 1856524--1856561 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1856514 ATAAACCCCT
*
1856524 TGTATCGATACAC
1 TGTATCGATACAA
1856537 TGTATCGATACAA
1 TGTATCGATACAA
1856550 TGTATCGATACA
1 TGTATCGATACA
1856562 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1856670 original size:6 final size:6
Alignment explanation
Indices: 1856661--1856699 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
1856651 TAAAAATCAA
1856661 AAATTC AAATTC AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAATTC AAATTC AAA
1856700 AAAAAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATTC
Found at i:1856730 original size:13 final size:14
Alignment explanation
Indices: 1856714--1856848 Score: 53
Period size: 14 Copynumber: 11.2 Consensus size: 14
1856704 AAATAATAAA
1856714 AATGA-AGGCATGG
1 AATGATAGGCATGG
*
1856727 AATGATGGGCATGG
1 AATGATAGGCATGG
*
1856741 AAT-ATA---A--A
1 AATGATAGGCATGG
1856749 AATGA-AGGCATGG
1 AATGATAGGCATGG
*
1856762 AATGATGGGCATGG
1 AATGATAGGCATGG
*
1856776 AAT-ATA---A--A
1 AATGATAGGCATGG
1856784 AATGA-AGGCATGG
1 AATGATAGGCATGG
*
1856797 AATGATGGGCATGG
1 AATGATAGGCATGG
*
1856811 AAT-ATA---A--A
1 AATGATAGGCATGG
1856819 AATGA-AGGCATGG
1 AATGATAGGCATGG
*
1856832 AATGATGGGCATGG
1 AATGATAGGCATGG
1856846 AAT
1 AAT
1856849 ATAAAAATGG
Statistics
Matches: 87, Mismatches: 13, Indels: 43
0.61 0.09 0.30
Matches are distributed among these distances:
8 12 0.14
9 3 0.03
10 3 0.03
11 3 0.03
13 26 0.30
14 40 0.46
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (14 bp):
AATGATAGGCATGG
Found at i:1856755 original size:35 final size:35
Alignment explanation
Indices: 1856709--1856913 Score: 401
Period size: 35 Copynumber: 5.9 Consensus size: 35
1856699 AAAAAAAATA
1856709 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1856744 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1856779 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1856814 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1856849 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1856884 ATAAAAATGAAGGCATGGAATGATGGGCAT
1 ATAAAAATGAAGGCATGGAATGATGGGCAT
1856914 AAAAAATGAA
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 168 1.00
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.20
Consensus pattern (35 bp):
ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
Found at i:1858422 original size:79 final size:79
Alignment explanation
Indices: 1858306--1859050 Score: 1163
Period size: 79 Copynumber: 9.4 Consensus size: 79
1858296 AAATTTTCTT
* *
1858306 AATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTT
*
1858371 ATTTCTAAAAAATC
66 ATTTCTAAAACATC
* *
1858385 AATTTTTCATAATCGGGGATACTCCGACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTT
**
1858450 ATCACTAAAACATC
66 ATTTCTAAAACATC
* *
1858464 AATTTTTCATAATCAGGGATACTCCAACCCCGTTATTT-TCGAGGGGATACTCTAACCCCGGTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCGGTTT
* *
1858528 TATTTCTAAAATATT
65 TATTTCTAAAACATC
* * *
1858543 AATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTT
*
1858608 ATCTCTAAAACATC
66 ATTTCTAAAACATC
*
1858622 AATTTTTCATAATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTT
1858687 ATTTCTAAAACATC
66 ATTTCTAAAACATC
* *
1858701 AATTTTTCATAATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCGAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTT
1858766 ATTTCTAAAACATC
66 ATTTCTAAAACATC
*
1858780 AATTTTTCATAATCAGGGATACTCCAACCCCGTTATTT-TCGAGGGGATACTCCAACCCCGGTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCGGTTT
1858844 TATTTCTAAAACATC
65 TATTTCTAAAACATC
* *
1858859 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTT
1858924 ATTTCTAAAACATC
66 ATTTCTAAAACATC
* * * * **
1858938 AATTTCTCATAATCAGGGATACTTCAACCCCGTTATTT-TCACGGGGATACTCCAACCCCGGCCC
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGA-GGGGATACTCCAACCCCGG-TT
1859002 TTATTTCTAAAACATC
64 TTATTTCTAAAACATC
* *
1859018 AATTTTTTTATAATCGGGGATACTCTAACCCCG
1 AA-TTTTTCATAATCGGGGATACTCCAACCCCG
1859051 ATTTTATTTT
Statistics
Matches: 611, Mismatches: 48, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
78 2 0.00
79 566 0.93
80 18 0.03
81 25 0.04
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTT
ATTTCTAAAACATC
Found at i:1872786 original size:55 final size:56
Alignment explanation
Indices: 1872621--1872869 Score: 317
Period size: 55 Copynumber: 4.4 Consensus size: 56
1872611 CTTTCGCCCT
* * * *
1872621 TAGTCCTCAAAGAGTAGGATGCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATC-TTTC
1872677 TAGTCCTCAAAGAGCAGGATGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTC
1 TAGTCCTCAAAGAGCAGGA------CGCCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTC
* * *
1872739 -AGTCTTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTC
* * *
1872794 -AGTCCTTAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCAT-TTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTC
1872848 TAGTCCTCAAAGAGCAGGACGC
1 TAGTCCTCAAAGAGCAGGACGC
1872870 TCTCTCCTTT
Statistics
Matches: 170, Mismatches: 15, Indels: 17
0.84 0.07 0.08
Matches are distributed among these distances:
54 4 0.02
55 99 0.58
56 18 0.11
61 16 0.09
62 32 0.19
63 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (56 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTC
Found at i:1872861 original size:110 final size:115
Alignment explanation
Indices: 1872621--1872869 Score: 357
Period size: 117 Copynumber: 2.2 Consensus size: 115
1872611 CTTTCGCCCT
* * * *
1872621 TAGTCCTCAAAGAGTAGGATGCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCA
1 TAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCA
1872686 AAGAGCAGGATGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTC
66 AAGAGCAGGA--CCTTC-CCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTC
* *
1872739 -AGTCTTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTTA
1 TAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCA
*
1872802 AAGAGCAGGA-C-T-CCTTTTAAAGCCCACACAAGTTGGTGGCAT-TTTC
66 AAGAGCAGGACCTTCCCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTC
*
1872848 TAGTCCTCAAAGAGCAGGACGC
1 TAGTCCTCAAAGAGTAGGACGC
1872870 TCTCTCCTTT
Statistics
Matches: 121, Mismatches: 9, Indels: 10
0.86 0.06 0.07
Matches are distributed among these distances:
109 4 0.03
110 48 0.40
112 1 0.01
113 1 0.01
116 17 0.14
117 50 0.41
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (115 bp):
TAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCA
AAGAGCAGGACCTTCCCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTC
Found at i:1872956 original size:99 final size:94
Alignment explanation
Indices: 1872791--1873063 Score: 343
Period size: 99 Copynumber: 2.8 Consensus size: 94
1872781 GGTGGCACCT
* * *
1872791 TTCAGTCCTTAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTC
1 TTCAATCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTC
*
1872856 AAAGAGCAGGACGCTCTCTCC-TTT-CACC
66 AAAGAGCAGGACGCTCCCTCCTTTTGC-CC
* * * * * *
1872884 TTCAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCATACAAGTTAGTGGCGCTTCCTA
1 TTCAATCCTCAAAGAGCAGGA---C---TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTA
1872949 GTCCTCAAAGAGCAGGACGCTCCCTCCTTTTGCCC
60 GTCCTCAAAGAGCAGGACGCTCCCTCCTTTTGCCC
* *
1872984 TTTAATCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCT
1 TTCAATCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCT
*
1873049 CAAAGATCAGGACGC
65 CAAAGAGCAGGACGC
1873064 CTTCGCCTTT
Statistics
Matches: 154, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
93 19 0.12
94 27 0.18
95 24 0.16
96 1 0.01
97 1 0.01
99 58 0.38
100 23 0.15
101 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (94 bp):
TTCAATCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTC
AAAGAGCAGGACGCTCCCTCCTTTTGCCC
Found at i:1872968 original size:209 final size:194
Alignment explanation
Indices: 1872678--1873063 Score: 461
Period size: 209 Copynumber: 1.9 Consensus size: 194
1872668 GCACTTTTCT
* * *
1872678 AGTCCTCAAAGAGCAGGATGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCATCTTTCAGTC
1 AGTCCTCAAAGAGCAGGATGCCTTCGCCTTTCAAAGCCCACACAAGTTAGTGGCAGCTTCCAGTC
* * * *
1872743 TTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGC
66 CTCAAAGAGCAGGACG-C--T-----CCCAC-C---TT--TGGC-CCTTT-AATCCTCAAAGAGC
*
1872808 AGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACGCTC
115 AGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCTC
1872872 TCTCCTTTCACCTTC
180 TCTCCTTTCACCTTC
* ** * *
1872887 AGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCATACAAGTTAGTGGC-GCTTCCTAGT
1 AGTCCTCAAAGAGCAGGATGCCTTCGCCTTTCAAAGCCCACACAAGTTAGTGGCAGCTTCC-AGT
* *
1872951 CCTCAAAGAGCAGGACGCTCCCTCCTTTTGCCCTTTAATCCTCAAAGAGCAGGACGCCTTTTAAA
65 CCTCAAAGAGCAGGACGCTCCCACCTTTGGCCCTTTAATCCTCAAAGAGCAGGACGCCTTTTAAA
*
1873016 GCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGATCAGGACGC
130 GCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGC
1873064 CTTCGCCTTT
Statistics
Matches: 159, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
193 46 0.29
194 31 0.19
195 3 0.02
197 2 0.01
200 1 0.01
201 4 0.03
206 1 0.01
208 5 0.03
209 66 0.42
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (194 bp):
AGTCCTCAAAGAGCAGGATGCCTTCGCCTTTCAAAGCCCACACAAGTTAGTGGCAGCTTCCAGTC
CTCAAAGAGCAGGACGCTCCCACCTTTGGCCCTTTAATCCTCAAAGAGCAGGACGCCTTTTAAAG
CCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCTTC
Found at i:1873151 original size:55 final size:55
Alignment explanation
Indices: 1872989--1873406 Score: 541
Period size: 55 Copynumber: 7.3 Consensus size: 55
1872979 TGCCCTTTAA
* *
1872989 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAG
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AG
*
1873045 TCCTCAAAGATCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGA------CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* *
1873106 TCTTCAAAGAGCAGAACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * *
1873161 TCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAG
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AG
1873217 TCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGA------CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * * *
1873278 TCTTCAAAGAGCATGACGCCTTTCGAAGCCCACACAAGTTGGTGACACCTTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * * **
1873333 TCCTCAAAGAGTAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTCCCTAG
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AG
1873388 TCCTCAAAGAGCAGGACGC
1 TCCTCAAAGAGCAGGACGC
1873407 TCTCTCCTTT
Statistics
Matches: 319, Mismatches: 29, Indels: 29
0.85 0.08 0.08
Matches are distributed among these distances:
54 3 0.01
55 183 0.57
56 33 0.10
61 31 0.10
62 69 0.22
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (55 bp):
TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
Found at i:1873193 original size:365 final size:365
Alignment explanation
Indices: 1872524--1873235 Score: 1212
Period size: 365 Copynumber: 2.0 Consensus size: 365
1872514 CACTTTTTTC
* **
1872524 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCC
1 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTAGTGGCATTCCTCAGTCC
* * * * *
1872589 TCAAAGAGCAGGATGCTCCCTCCTTTCGCCCTTAGTCCTCAAAGAGTAGGATGCTTTTTAAAGCC
66 TCAAAGAGCAGGACGCTCCCTCCTTTCGCCCTTAATCCTCAAAGAGCAGGACGCCTTTTAAAGCC
*
1872654 CACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTCGCCTTTCAAAGCCCAC
131 CACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCAC
* * *
1872719 ACAAGTTGGTGGCATCTTTCAGTCTTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGT
196 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGAACGCCTTTCAAAGCCCACACAAGTTGGT
*
1872784 GGCACCTTTCAGTCCTTAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTC
261 GGCACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
1872848 TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCTTCA
326 TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCTTCA
* * * * *
1872888 GTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCATACAAGTTAGTGGCGCTTCCT-AGTC
1 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTAGTGGC-ATTCCTCAGTC
*
1872952 CTCAAAGAGCAGGACGCTCCCTCCTTTTGCCCTTTAATCCTCAAAGAGCAGGACGCCTTTTAAAG
65 CTCAAAGAGCAGGACGCTCCCTCCTTTCGCCC-TTAATCCTCAAAGAGCAGGACGCCTTTTAAAG
*
1873017 CCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGATCAGGACGCCTTCGCCTTTCAAAGCCC
129 CCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCC
1873082 ACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGAACGCCTTTCAAAGCCCACACAAGTTG
194 ACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGAACGCCTTTCAAAGCCCACACAAGTTG
1873147 GTGGCACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
259 GTGGCACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
1873212 TCTAGTCCTCAAAGAGCAGGACGC
324 TCTAGTCCTCAAAGAGCAGGACGC
1873236 CTTCGCCTTT
Statistics
Matches: 325, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
364 82 0.25
365 216 0.66
366 27 0.08
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (365 bp):
GTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTAGTGGCATTCCTCAGTCC
TCAAAGAGCAGGACGCTCCCTCCTTTCGCCCTTAATCCTCAAAGAGCAGGACGCCTTTTAAAGCC
CACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCAC
ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGAACGCCTTTCAAAGCCCACACAAGTTGGT
GGCACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCTTCA
Found at i:1873243 original size:117 final size:113
Alignment explanation
Indices: 1872989--1873404 Score: 526
Period size: 117 Copynumber: 3.7 Consensus size: 113
1872979 TGCCCTTTAA
* *
1872989 TCCTCAAAGAGCAGGA--CGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
1 TCCTCAAAGAGCAGGACTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAA
*
1873052 AGATCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
66 AGAGCAGGA---C-T--CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* *
1873106 TCTTCAAAGAGCA-GA-ACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAA
1 TCCTCAAAGAGCAGGACTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAA
* *
1873168 AGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAG
66 AGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AG
*
1873217 TCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCT
1 TCCTCAAAGAGCAGGA---C-TCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCC
* * * *
1873281 TCAAAGAGCATGACGCCTTTCGAAGCCCACACAAGTTGGTGACACCTTTCAG
62 TCAAAGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * **
1873333 TCCTCAAAGAGTAGGACT--CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTCCCTAGTCCTCAA
1 TCCTCAAAGAGCAGGACTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAA
1873395 AGAGCAGGAC
66 AGAGCAGGAC
1873405 GCTCTCTCCT
Statistics
Matches: 269, Mismatches: 21, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
109 3 0.01
110 78 0.29
111 14 0.05
112 4 0.01
113 2 0.01
116 36 0.13
117 132 0.49
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (113 bp):
TCCTCAAAGAGCAGGACTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAA
AGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
Found at i:1873275 original size:172 final size:172
Alignment explanation
Indices: 1872989--1873406 Score: 750
Period size: 172 Copynumber: 2.4 Consensus size: 172
1872979 TGCCCTTTAA
*
1872989 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAG
1 TCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAG
*
1873054 ATCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCA
66 AGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCA
*
1873119 -GAACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
131 TG-ACGCCTTTCAAAGCCCACACAAGTTGGTGACACCTTTCAG
1873161 TCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAG
1 TCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAG
1873226 AGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCA
66 AGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCA
*
1873291 TGACGCCTTTCGAAGCCCACACAAGTTGGTGACACCTTTCAG
131 TGACGCCTTTCAAAGCCCACACAAGTTGGTGACACCTTTCAG
* **
1873333 TCCTCAAAGAGTAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TCCCTAGTCCTCAAAG
1 TCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAG
1873397 AGCAGGACGC
66 AGCAGGACGC
1873407 TCTCTCCTTT
Statistics
Matches: 238, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
171 24 0.10
172 213 0.89
173 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (172 bp):
TCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAG
AGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCA
TGACGCCTTTCAAAGCCCACACAAGTTGGTGACACCTTTCAG
Found at i:1873525 original size:61 final size:61
Alignment explanation
Indices: 1873426--1873621 Score: 256
Period size: 61 Copynumber: 3.2 Consensus size: 61
1873416 TCACCTTTAA
*
1873426 TCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAG
1 TCCTCAAAGAGCAAGACGCCTTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * * * *
1873487 TCCTCAAAGAGTAAGATG-C-TTTCTTTTTGCAAATCCCACACTAGTTGGTGGCA-TCTTCTAG
1 TCCTCAAAGAGCAAGACGCCTTTTC-TTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTC-AG
* *
1873548 TCCTCAAAGAGCAAGACGCCTTTTCTTTTCAAAGACCACACGAGTTGGTGGCACTTTTCAG
1 TCCTCAAAGAGCAAGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
1873609 TCCTCAAAGAGCA
1 TCCTCAAAGAGCA
1873622 GGATACATTT
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
58 1 0.01
59 7 0.06
60 5 0.04
61 90 0.78
62 9 0.08
63 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
TCCTCAAAGAGCAAGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
Found at i:1873667 original size:45 final size:42
Alignment explanation
Indices: 1873608--1873745 Score: 133
Period size: 41 Copynumber: 3.2 Consensus size: 42
1873598 GCACTTTTCA
1873608 GTCCTCAAAGAGCAGGATACATTTCTTTCCCTTTTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGA-ACATTTCTTT-CCTTTTTTTCTC-TTT
* *
1873653 GTCCTCAAAGAGCAGGACGCACTTTATTTTCC---TTTT-TCTTT
1 GTCCTCAAAGAGCAGGA-ACA-TTT-CTTTCCTTTTTTTCTCTTT
* *
1873694 GTCCTTAAAGAGCAGGAAGTATTTCGTTTCCTTTTTTTC-CTTT
1 GTCCTCAAAGAGCAGGAA-CATTTC-TTTCCTTTTTTTCTCTTT
1873737 GTCCTCAAA
1 GTCCTCAAA
1873746 AAATGAGACA
Statistics
Matches: 77, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
40 8 0.10
41 20 0.26
42 2 0.03
43 20 0.26
45 19 0.25
46 5 0.06
47 3 0.04
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGAACATTTCTTTCCTTTTTTTCTCTTT
Found at i:1874301 original size:6 final size:6
Alignment explanation
Indices: 1874292--1874319 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1874282 GTAAAAATCA
1874292 AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAA
1874320 AATAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:1874368 original size:35 final size:35
Alignment explanation
Indices: 1874328--1874602 Score: 514
Period size: 35 Copynumber: 7.9 Consensus size: 35
1874318 AAAATAAAAA
*
1874328 ATAAAAATGAAGGCATGGAGTGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1874363 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1874398 ATAAAAATGAAAGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1874433 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1874468 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1874503 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1874538 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1874573 ATAAAAATGAAGGCATGGAATGATGGGCAT
1 ATAAAAATGAAGGCATGGAATGATGGGCAT
1874603 AAAAAATGAA
Statistics
Matches: 235, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 235 1.00
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.20
Consensus pattern (35 bp):
ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
Found at i:1876089 original size:79 final size:79
Alignment explanation
Indices: 1875958--1876307 Score: 538
Period size: 79 Copynumber: 4.4 Consensus size: 79
1875948 TTTAATTTTC
* *
1875958 TCAATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
1876023 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * *
1876037 TCAATTTTTCATAATCGGGGATACTCCGACCCCGTTATTTCCGAAGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
* *
1876102 TTATCTCTAAAATA
66 TTATTTCTAAAACA
* ** * *
1876116 TCAATTTTTCATAATCGGGGATATTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
*
1876181 TTATTTCTAAAAGA
66 TTATTTCTAAAACA
* * *
1876195 TTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
*
1876260 TTATATCTAAAACA
66 TTATTTCTAAAACA
*
1876274 TCAATTTATCATAATCGGGGATACTCCAACCCCG
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCG
1876308 GTTTTATTTC
Statistics
Matches: 244, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 244 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
TTATTTCTAAAACA
Found at i:1876320 original size:51 final size:51
Alignment explanation
Indices: 1876239--1876358 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
1876229 TTATTTCCGA
*
1876239 GGGGATACTCCAACCCCAATTTTATATCTAAAACATCAATTTATCATAATC
1 GGGGATACTCCAACCCCGATTTTATATCTAAAACATCAATTTATCATAATC
* * * * *
1876290 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAATTTTTCGTAATC
1 GGGGATACTCCAACCCCGATTTTATATCTAAAACATCAATTTATCATAATC
1876341 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1876359 TTATTTCCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATATCTAAAACATCAATTTATCATAATC
Found at i:1876320 original size:130 final size:130
Alignment explanation
Indices: 1876160--1876436 Score: 473
Period size: 130 Copynumber: 2.1 Consensus size: 130
1876150 TTATTTTTGA
* *
1876160 GGGGATACTCTAACCCCGGTTTTATTTCTAAAAGATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAAGATCAATTTCTCATAATCGGGGATACTCCAAC
1876225 CCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATATCTAAAACATCAATTTATCATAATC
66 CCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATATCTAAAACATCAATTTATCATAATC
* * *
1876290 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAATTTTTCGTAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAAGATCAATTTCTCATAATCGGGGATACTCCAAC
** * *
1876355 CCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
66 CCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATATCTAAAACATCAATTTATCATAATC
1876420 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
1876437 ATTATTTTTG
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 138 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (130 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAAGATCAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATATCTAAAACATCAATTTATCATAATC
Found at i:1876362 original size:209 final size:209
Alignment explanation
Indices: 1876082--1876516 Score: 708
Period size: 209 Copynumber: 2.1 Consensus size: 209
1876072 TATTTCCGAA
*
1876082 GGGATACTCCAACCCCGGTTTTATCTCTAAAATATCAATTTTTCATAATCGGGGATATTCCAACC
1 GGGATACTCCAACCCCGGTTTTATCTCTAAAATATCAATTTTTCATAATCGGGGATACTCCAACC
** * * *
1876147 CCGTTATTTTTGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAAGATTAATTTCTCATAATCG
66 CCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCG
*
1876212 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATATCTAAAACATCA
131 GGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCAATTTTATATCTAAAACATCA
1876277 ATTTATCATAATCG
196 ATTTATCATAATCG
* *
1876291 GGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAATTTTTCGTAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATCTCTAAAATATCAATTTTTCATAATCGGGGATACTCCAACC
*
1876356 CCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCG
66 CCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCG
** * * * *
1876421 GGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCAGTTTTATTTCTAAGACATTA
131 GGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCAATTTTATATCTAAAACATCA
* *
1876486 ATTTTTCATAATTG
196 ATTTATCATAATCG
1876500 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
1876517 TTATTTTCGA
Statistics
Matches: 208, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
209 208 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.33
Consensus pattern (209 bp):
GGGATACTCCAACCCCGGTTTTATCTCTAAAATATCAATTTTTCATAATCGGGGATACTCCAACC
CCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCG
GGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCAATTTTATATCTAAAACATCA
ATTTATCATAATCG
Found at i:1876373 original size:79 final size:79
Alignment explanation
Indices: 1876290--1876566 Score: 455
Period size: 79 Copynumber: 3.5 Consensus size: 79
1876280 TATCATAATC
* *
1876290 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAATTTTTCGTAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
1876355 CCCGTTATTTCCGA
66 CCCGTTATTTTCGA
1876369 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
* *
1876434 CCCATTATTTTTGA
66 CCCGTTATTTTCGA
* * * *
1876448 GGGGATACTCCAACCCCAGTTTTATTTCTAAGACATTAATTTTTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1876513 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* *
1876527 GGGGATACTCCAACTCCGGTTTTATTTCTAAGACATCAAT
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAAT
1876567 CGTCCCTCAT
Statistics
Matches: 184, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 184 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:1876518 original size:288 final size:288
Alignment explanation
Indices: 1876002--1876566 Score: 941
Period size: 288 Copynumber: 2.0 Consensus size: 288
1875992 TTATTTTCGA
*
1876002 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCGAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
1876067 CCCGTTATTTCCGAAGGGATACTCCAACCCCGGTTTTATCTCTAAAATATCAATTTTTCATAATC
66 CCCGTTATTTCCGAAGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATC
* * * * *
1876132 GGGGATATTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAAGATT
131 GGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATT
1876197 AATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTT
196 AATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTT
1876262 ATATCTAAAACATCAATTTATCATAATC
261 ATATCTAAAACATCAATTTATCATAATC
* * *
1876290 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAATTTTTCGTAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
* *
1876355 CCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
66 CCCGTTATTTCCGAAGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATC
*
1876420 GGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCAGTTTTATTTCTAAGACATT
131 GGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATT
* * * * **
1876485 AATTTTTCATAATTGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGGTTTT
196 AATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTT
* *
1876550 ATTTCTAAGACATCAAT
261 ATATCTAAAACATCAAT
1876567 CGTCCCTCAT
Statistics
Matches: 256, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
288 256 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (288 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTCCGAAGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATC
GGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATT
AATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTT
ATATCTAAAACATCAATTTATCATAATC
Found at i:1877515 original size:8 final size:8
Alignment explanation
Indices: 1877502--1877527 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1877492 AACATCATTC
1877502 ATCACAAA
1 ATCACAAA
1877510 ATCACAAA
1 ATCACAAA
1877518 ATCACAAA
1 ATCACAAA
1877526 AT
1 AT
1877528 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:1883526 original size:32 final size:33
Alignment explanation
Indices: 1883467--1883529 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1883457 CAAGCTAATG
**
1883467 TATCGATACATTTTGGGATGTATCGATACAATA
1 TATCGATACACATTGGGATGTATCGATACAATA
*
1883500 TATCGATACACATTGTG-TGTATCGATACAA
1 TATCGATACACATTGGGATGTATCGATACAA
1883530 ATTTGGCTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (33 bp):
TATCGATACACATTGGGATGTATCGATACAATA
Found at i:1887255 original size:20 final size:20
Alignment explanation
Indices: 1887223--1887260 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1887213 TATAAATATT
1887223 ATTTTAAATAACA-AAATAA
1 ATTTTAAATAACACAAATAA
*
1887242 ATTTTAACTCAACACAAAT
1 ATTTTAAAT-AACACAAAT
1887261 TTAGGCATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 4 0.25
21 4 0.25
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (20 bp):
ATTTTAAATAACACAAATAA
Found at i:1891167 original size:53 final size:54
Alignment explanation
Indices: 1891102--1891207 Score: 162
Period size: 53 Copynumber: 2.0 Consensus size: 54
1891092 TTGAATTTGA
*
1891102 GTCATTTCAGATTCGGATCAATCGAGTTTAATATTCGAGTT-AATCGAGTTCAG
1 GTCATTTCAGATTCGGATCAATCGAGTTTAATATTCGAGTTAAATCAAGTTCAG
* *
1891155 GTCA-TTCTAGATTCGGATCAATTGGGTTTAATATTCGAGTTAAATCAAGTTCA
1 GTCATTTC-AGATTCGGATCAATCGAGTTTAATATTCGAGTTAAATCAAGTTCA
1891208 AGTTATTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
52 3 0.06
53 35 0.73
54 10 0.21
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (54 bp):
GTCATTTCAGATTCGGATCAATCGAGTTTAATATTCGAGTTAAATCAAGTTCAG
Found at i:1891925 original size:19 final size:19
Alignment explanation
Indices: 1891903--1891952 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 19
1891893 TTTATTAACT
1891903 TAATATTTTTTAAATAAAA
1 TAATATTTTTTAAATAAAA
1891922 TAATATTTAATTTTTAAATAAAA
1 TAATA--T--TTTTTAAATAAAA
1891945 TAATATTT
1 TAATATTT
1891953 AATTTAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 7 0.26
21 2 0.07
23 18 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATATTTTTTAAATAAAA
Found at i:1891936 original size:23 final size:23
Alignment explanation
Indices: 1891909--1891957 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
1891899 AACTTAATAT
1891909 TTTTTAAATAAAATAATATTTAA
1 TTTTTAAATAAAATAATATTTAA
1891932 TTTTTAAATAAAATAATATTTAA
1 TTTTTAAATAAAATAATATTTAA
1891955 TTT
1 TTT
1891958 AAGTTCAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTTAAATAAAATAATATTTAA
Found at i:1896387 original size:6 final size:6
Alignment explanation
Indices: 1896378--1896415 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
1896368 TAAATGTGGG
1896378 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTT-TTA TTTTTA
1896416 GCCTTTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 21 0.70
7 6 0.20
8 3 0.10
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:1899683 original size:13 final size:13
Alignment explanation
Indices: 1899665--1899690 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1899655 TACAAGCCAA
1899665 TGTATCGATACAT
1 TGTATCGATACAT
1899678 TGTATCGATACAT
1 TGTATCGATACAT
1899691 ACTTGCTGTA
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:1900430 original size:21 final size:21
Alignment explanation
Indices: 1900389--1900432 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1900379 TTCTCCTTTA
* *
1900389 TCTCCCCCATTTATTAATAAT
1 TCTCCCCCATTAATCAATAAT
1900410 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCATTAATCAA-TAAT
1900431 TC
1 TC
1900433 ATATCAGAAA
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:0.27, C:0.32, G:0.02, T:0.39
Consensus pattern (21 bp):
TCTCCCCCATTAATCAATAAT
Found at i:1902256 original size:13 final size:13
Alignment explanation
Indices: 1902235--1902273 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1902225 ATAATCACCC
1902235 TGTATCGATACAA
1 TGTATCGATACAA
*
1902248 TGTACCGATACAA
1 TGTATCGATACAA
1902261 TGTATCGATACAA
1 TGTATCGATACAA
1902274 AGAAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1904376 original size:15 final size:15
Alignment explanation
Indices: 1904356--1904386 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1904346 ATTTCGTTTA
*
1904356 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1904371 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1904386 G
1 G
1904387 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
Found at i:1906219 original size:21 final size:21
Alignment explanation
Indices: 1906190--1906234 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1906180 AAGTTTTCAT
*
1906190 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1906210 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1906232 TTT
1 TTT
1906235 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1908470 original size:13 final size:13
Alignment explanation
Indices: 1908452--1908477 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1908442 CAATTTTTTG
1908452 TGTATCGATACAT
1 TGTATCGATACAT
1908465 TGTATCGATACAT
1 TGTATCGATACAT
1908478 ACTTGCTGTA
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:1914674 original size:21 final size:20
Alignment explanation
Indices: 1914631--1914676 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
1914621 TCATCTAAAC
* *
1914631 TTTAAATTTTAATTAAATTA
1 TTTAAATTTTAAATAAATAA
*
1914651 TTTATATTTATAAATAAATAA
1 TTTAAATTT-TAAATAAATAA
1914672 TTTAA
1 TTTAA
1914677 GTTATTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTAAATTTTAAATAAATAA
Found at i:1914924 original size:22 final size:22
Alignment explanation
Indices: 1914899--1914943 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
1914889 TCTGAGATAT
1914899 TAAAT-TTAGATTATTT-TTTAAA
1 TAAATATTA-ATT-TTTATTTAAA
1914921 TAAATATTAATTTTTATTTAAA
1 TAAATATTAATTTTTATTTAAA
1914943 T
1 T
1914944 TTTTTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 3 0.14
22 15 0.71
23 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TAAATATTAATTTTTATTTAAA
Found at i:1914962 original size:27 final size:28
Alignment explanation
Indices: 1914921--1914973 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
1914911 ATTTTTTAAA
*
1914921 TAAATATTAATTTTT-ATTTAAATTTTT
1 TAAATATTAATTTTTAATTCAAATTTTT
1914948 TAAATA-TAATATTTTAATTCAAATTT
1 TAAATATTAAT-TTTTAATTCAAATTT
1914974 ATCGAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 10 0.43
28 9 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
TAAATATTAATTTTTAATTCAAATTTTT
Found at i:1915131 original size:13 final size:13
Alignment explanation
Indices: 1915113--1915159 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
1915103 GTTAATTCTT
1915113 AAATAAATTATTA
1 AAATAAATTATTA
1915126 AAATAATATTAATTTA
1 AAATAA-ATT-A-TTA
*
1915142 AAATAAATTATCA
1 AAATAAATTATTA
1915155 AAATA
1 AAATA
1915160 TTACTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 13 0.43
14 4 0.13
15 4 0.13
16 9 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATAAATTATTA
Found at i:1915147 original size:29 final size:30
Alignment explanation
Indices: 1915104--1915195 Score: 89
Period size: 34 Copynumber: 2.9 Consensus size: 30
1915094 GAAAGTGCTG
*
1915104 TTAATTCTTAAATAAATTATTAAAATAATA-
1 TTAATT-TAAAATAAATTATTAAAATAATAT
*
1915134 TTAATTTAAAATAAATTATCAAAATATTACTATT
1 TTAATTTAAAATAAATTATTAAAATA--A-TA-T
*
1915168 TTAATTTATAAA-AAATTATTAAATTAAT
1 TTAATTTA-AAATAAATTATTAAAATAAT
1915196 TAACGTGTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
29 18 0.35
30 6 0.12
31 2 0.04
32 3 0.06
34 20 0.38
35 3 0.06
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (30 bp):
TTAATTTAAAATAAATTATTAAAATAATAT
Found at i:1915438 original size:19 final size:19
Alignment explanation
Indices: 1915414--1915459 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
1915404 ATTTTTTAAA
* *
1915414 ATTAATAAAAGATTATGTT
1 ATTAATAAAAGATAATATT
1915433 ATTAATAAAAGATAATATT
1 ATTAATAAAAGATAATATT
1915452 ATT-ATAAA
1 ATTAATAAA
1915460 TATCATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (19 bp):
ATTAATAAAAGATAATATT
Found at i:1915619 original size:39 final size:37
Alignment explanation
Indices: 1915584--1915684 Score: 115
Period size: 31 Copynumber: 2.8 Consensus size: 37
1915574 AATTTAAAAT
1915584 TTTAATTTAAATTATAATTATCTAATTATTTTTTAAA
1 TTTAATTTAAATTATAATTATCTAATTATTTTTTAAA
* * *
1915621 TTTAAATTAAAAGCTATAATTGTCTAATTA--TTTT-AA
1 TTT-AATTTAAA-TTATAATTATCTAATTATTTTTTAAA
1915657 ---AATTTAAATTATAATTATCTAATTATTT
1 TTTAATTTAAATTATAATTATCTAATTATTT
1915685 AAAAATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
31 15 0.28
32 7 0.13
33 1 0.02
36 2 0.04
37 7 0.13
38 7 0.13
39 15 0.28
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (37 bp):
TTTAATTTAAATTATAATTATCTAATTATTTTTTAAA
Found at i:1915656 original size:31 final size:31
Alignment explanation
Indices: 1915624--1915692 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
1915614 TTTTAAATTT
*
1915624 AAATTAAAAGCTATAATTGTCTAATTATTTTA
1 AAATTAAAA-CTATAATTATCTAATTATTTTA
* * *
1915656 AAATTTAAATTATAATTATCTAATTATTTAA
1 AAATTAAAACTATAATTATCTAATTATTTTA
1915687 AAATTA
1 AAATTA
1915693 TATTACAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 24 0.75
32 8 0.25
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (31 bp):
AAATTAAAACTATAATTATCTAATTATTTTA
Found at i:1915660 original size:38 final size:38
Alignment explanation
Indices: 1915576--1915667 Score: 123
Period size: 38 Copynumber: 2.4 Consensus size: 38
1915566 ATTTCTTTAA
* * *
1915576 TTTAAAATTTTAATTTAAATTATAATTATCTAATTATT
1 TTTAAAATTTAAATTAAAACTATAATTATCTAATTATT
* *
1915614 TTTTAAATTTAAATTAAAAGCTATAATTGTCTAATTA-T
1 TTTAAAATTTAAATTAAAA-CTATAATTATCTAATTATT
1915652 TTTAAAATTTAAATTA
1 TTTAAAATTTAAATTA
1915668 TAATTATCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 32 0.68
39 15 0.32
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.51
Consensus pattern (38 bp):
TTTAAAATTTAAATTAAAACTATAATTATCTAATTATT
Found at i:1915688 original size:30 final size:31
Alignment explanation
Indices: 1915590--1915704 Score: 106
Period size: 30 Copynumber: 3.5 Consensus size: 31
1915580 AAATTTTAAT
1915590 TTAAATTATAATTATCTAATTATTTTTTAAATTTAAA
1 TTAAATTATAATTATCTAATTA--TTTT-AA---AAA
* * *
1915627 TTAAAAGCTATAATTGTCTAATTATTTTAAAAT
1 TT-AAA-TTATAATTATCTAATTATTTTAAAAA
1915660 TTAAATTATAATTATCTAATTA-TTTAAAAA
1 TTAAATTATAATTATCTAATTATTTTAAAAA
* *
1915690 TTATATTACAATTAT
1 TTAAATTATAATTAT
1915705 GTTTAATTAG
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
30 20 0.29
31 15 0.22
32 3 0.04
33 4 0.06
36 2 0.03
37 6 0.09
38 3 0.04
39 15 0.22
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (31 bp):
TTAAATTATAATTATCTAATTATTTTAAAAA
Found at i:1915781 original size:16 final size:17
Alignment explanation
Indices: 1915744--1915778 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1915734 TTTATAAATT
1915744 AATTATAATTATTTTAA
1 AATTATAATTATTTTAA
1915761 AATTATAATTATTTTAA
1 AATTATAATTATTTTAA
1915778 A
1 A
1915779 TTACTAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTATAATTATTTTAA
Found at i:1916088 original size:27 final size:27
Alignment explanation
Indices: 1916052--1916105 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1916042 ATAATATTTT
*
1916052 TAATTTAAAAATA-TCAACATAATAATA
1 TAATTAAAAAATACT-AACATAATAATA
*
1916079 TAATTAAAAATTACTAACATAATAATA
1 TAATTAAAAAATACTAACATAATAATA
1916106 ACCTTAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (27 bp):
TAATTAAAAAATACTAACATAATAATA
Done.