Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 43 of 173
Found at i:11783330 original size:10 final size:10
Alignment explanation
Indices: 11783215--11783332 Score: 57
Period size: 10 Copynumber: 11.4 Consensus size: 10
11783205 ATCAAATATT
11783215 AAAA-TTATA
1 AAAATTTATA
* *
11783224 TAAACTTATA
1 AAAATTTATA
*
11783234 AAAATTATTTTA
1 AAAA-T-TTATA
*
11783246 AAAA-ATATA
1 AAAATTTATA
11783255 ATAAA-TTATA
1 A-AAATTTATA
*
11783265 AAAATTAATA
1 AAAATTTATA
11783275 AAATATATT-TA
1 AAA-AT-TTATA
*
11783286 AAATTTTATAAA
1 AAAATTTAT--A
*
11783298 AAAATAGTATA
1 AAAAT-TTATA
11783309 AAAATTCT-TA
1 AAAATT-TATA
11783319 AAAATTTATA
1 AAAATTTATA
11783329 AAAA
1 AAAA
11783333 AATCATAAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 25
0.69 0.11 0.21
Matches are distributed among these distances:
9 13 0.16
10 39 0.47
11 14 0.17
12 14 0.17
13 3 0.04
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (10 bp):
AAAATTTATA
Found at i:11786834 original size:25 final size:24
Alignment explanation
Indices: 11786785--11786835 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
11786775 AATGAAAAAT
*
11786785 AAAGAAAGAAAAAAAGATAAGTTA
1 AAAGAAAGAAAAAAAGAAAAGTTA
*
11786809 AAAGAATAGAAAAGAAA-AAAATTTA
1 AAAGAA-AGAAAA-AAAGAAAAGTTA
11786834 AA
1 AA
11786836 TTGCTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 14 0.61
26 3 0.13
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (24 bp):
AAAGAAAGAAAAAAAGAAAAGTTA
Found at i:11797786 original size:44 final size:45
Alignment explanation
Indices: 11797732--11797824 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
11797722 ATTACAACAT
* *
11797732 CATTCTATTCAACCAAACACAAT-AA-TACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACA-AATGAATTACTATTACAATTCTATTC
* *
11797776 CATTCCATTCAACCAAACAATTGAATTACTATTATAATTCTATTC
1 CATTCCATTCAACCAAACAAATGAATTACTATTACAATTCTATTC
11797821 CATT
1 CATT
11797825 ACAGCTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 2 0.05
44 20 0.47
45 21 0.49
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.37
Consensus pattern (45 bp):
CATTCCATTCAACCAAACAAATGAATTACTATTACAATTCTATTC
Found at i:11797835 original size:16 final size:16
Alignment explanation
Indices: 11797814--11797857 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
11797804 CTATTATAAT
11797814 TCTATTCCATTACAGC
1 TCTATTCCATTACAGC
* **
11797830 TTTATTAAATTACAGC
1 TCTATTCCATTACAGC
11797846 TCTATTCCATTA
1 TCTATTCCATTA
11797858 TAGTGAACCA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.43
Consensus pattern (16 bp):
TCTATTCCATTACAGC
Found at i:11798770 original size:24 final size:24
Alignment explanation
Indices: 11798743--11798810 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
11798733 TCATAATCAG
**
11798743 ATACAGATGCAAATTTAGATTCAA
1 ATACAGATGCAAACGTAGATTCAA
* * * *
11798767 ATACAAATGTAGACGTAGATTCAG
1 ATACAGATGCAAACGTAGATTCAA
* *
11798791 ATACAGATGCAGACATAGAT
1 ATACAGATGCAAACGTAGAT
11798811 CCTACCTCCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.25
Consensus pattern (24 bp):
ATACAGATGCAAACGTAGATTCAA
Found at i:11801287 original size:57 final size:57
Alignment explanation
Indices: 11801218--11801341 Score: 203
Period size: 57 Copynumber: 2.2 Consensus size: 57
11801208 TTTTTCATTT
*
11801218 TATGGAGCATGCCCAAGACCTATTTTTATCACACTGTCCTTCTAGGACATATACTTA
1 TATGGAGCATGCCCAAGACCTATTTTTATCACACTGTCCTTCTAAGACATATACTTA
* * *
11801275 TATGGAGCATGCCCAAGACTTATTTTTATCACATTGTCCTTCTAAGACATATACTTT
1 TATGGAGCATGCCCAAGACCTATTTTTATCACACTGTCCTTCTAAGACATATACTTA
*
11801332 TTTGGAGCAT
1 TATGGAGCAT
11801342 TTTAGTTGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (57 bp):
TATGGAGCATGCCCAAGACCTATTTTTATCACACTGTCCTTCTAAGACATATACTTA
Found at i:11807183 original size:24 final size:23
Alignment explanation
Indices: 11807156--11807231 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
11807146 AGATATTTAT
*
11807156 ATTATTTATTTATATAATATATAA
1 ATTAATTATTTATATAATAT-TAA
** *
11807180 ATTAATTATAAAGTATATTATTAA
1 ATTAATTATTTA-TATAATATTAA
*
11807204 ATTAATTATATTATA-AATATTAT
1 ATTAATTAT-TTATATAATATTAA
11807227 ATTAA
1 ATTAA
11807232 GAAATAAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
23 11 0.26
24 23 0.55
25 8 0.19
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (23 bp):
ATTAATTATTTATATAATATTAA
Found at i:11807199 original size:12 final size:11
Alignment explanation
Indices: 11807170--11807213 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
11807160 TTTATTTATA
11807170 TAATATATAAAT
1 TAAT-TATAAAT
*
11807182 TAATTATAAAG
1 TAATTATAAAT
11807193 TATATTATTAAAT
1 TA-ATTA-TAAAT
11807206 TAATTATA
1 TAATTATA
11807214 TTATAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 10 0.36
12 12 0.43
13 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TAATTATAAAT
Found at i:11807225 original size:14 final size:17
Alignment explanation
Indices: 11807193--11807230 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
11807183 AATTATAAAG
11807193 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
11807210 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
11807224 TATATTA
1 TATATTA
11807231 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:11807468 original size:15 final size:17
Alignment explanation
Indices: 11807450--11807481 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11807440 CATAATAGAA
11807450 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
11807465 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
11807482 GGGAAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Found at i:11808401 original size:43 final size:43
Alignment explanation
Indices: 11808335--11808504 Score: 202
Period size: 43 Copynumber: 4.0 Consensus size: 43
11808325 GTTTTTAGAT
* **
11808335 ACCAAGACCTTTAGCGGCTCTTTTTCCACAAATACCGCTAAAG
1 ACCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAG
* *
11808378 ACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGTCGCTAAAG
1 ACCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAG
*
11808421 ACCAAGACCTTTAGCGACGCTTTTAT-CACAAACGCCGCTAAAG
1 ACCAAGACCTTTAGCGGCGCTTTT-TCCACAAACGCCGCTAAAG
** * * *
11808464 AATAA-ACCTTTAGCGGTGC-TTCTCACAAAAACGCCGCTAAA
1 ACCAAGACCTTTAGCGGCGCTTTTTC-CACAAACGCCGCTAAA
11808505 AACATAACCT
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 27 0.25
43 80 0.73
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (43 bp):
ACCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAG
Found at i:11813370 original size:14 final size:14
Alignment explanation
Indices: 11813351--11813414 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
11813341 ACCCTTAAAT
11813351 CCCTAAATCCTAAC
1 CCCTAAATCCTAAC
11813365 CCCTAAATCCCTAA-
1 CCCTAAAT-CCTAAC
* * *
11813379 CTCTTAACCCTTAAC
1 CCCTAAATCC-TAAC
* *
11813394 CCCTAACTACTAAC
1 CCCTAAATCCTAAC
11813408 CCCTAAA
1 CCCTAAA
11813415 CCTTTAAATC
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
13 2 0.05
14 26 0.68
15 10 0.26
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAAATCCTAAC
Found at i:11813371 original size:22 final size:22
Alignment explanation
Indices: 11813341--11813436 Score: 79
Period size: 22 Copynumber: 4.4 Consensus size: 22
11813331 CCCTAACCCG
*
11813341 ACCCTTAAATCCCTAAATCCTA
1 ACCCCTAAATCCCTAAATCCTA
* *
11813363 ACCCCTAAATCCCTAACTCTTA
1 ACCCCTAAATCCCTAAATCCTA
* * * *
11813385 A-CCCTTAACCCCTAACTACTA
1 ACCCCTAAATCCCTAAATCCTA
* *
11813406 ACCCCTAAA-CCTTTAAATCCCA
1 ACCCCTAAATCC-CTAAATCCTA
*
11813428 ACCCTTAAA
1 ACCCCTAAA
11813437 CCATAATCCC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
21 19 0.32
22 40 0.68
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (22 bp):
ACCCCTAAATCCCTAAATCCTA
Found at i:11813656 original size:16 final size:16
Alignment explanation
Indices: 11813628--11813660 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11813618 TCTTTTTTAC
11813628 AATTATATAATAAATT
1 AATTATATAATAAATT
11813644 AATTA-ATATATAAATT
1 AATTATATA-ATAAATT
11813660 A
1 A
11813661 GAAAACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTATATAATAAATT
Found at i:11814113 original size:73 final size:73
Alignment explanation
Indices: 11814021--11814194 Score: 296
Period size: 73 Copynumber: 2.4 Consensus size: 73
11814011 CTAAGCATTA
* *
11814021 GCGGCGC-TTCTTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTT
1 GCGGCGCTTTCTT-GAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTAGCTT
11814085 AGGTTCTTT
65 AGGTTCTTT
**
11814094 GCGGCGCTTTCTTGAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTAGCTTA
1 GCGGCGCTTTCTTGAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTAGCTTA
11814159 GGTTCTTT
66 GGTTCTTT
11814167 GCGGCGCTTTCTTGAAAACGCCGCTAAA
1 GCGGCGCTTTCTTGAAAACGCCGCTAAA
11814195 GCCCTGAGCA
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
73 91 0.95
74 5 0.05
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (73 bp):
GCGGCGCTTTCTTGAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTAGCTTA
GGTTCTTT
Found at i:11814296 original size:111 final size:113
Alignment explanation
Indices: 11814094--11814305 Score: 320
Period size: 111 Copynumber: 1.9 Consensus size: 113
11814084 TAGGTTCTTT
*
11814094 GCGGCGCTTTCTTGAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTAGCTTA
1 GCGGCGCTTTCTTGAAAAC-ACGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTAGCTTA
* **
11814159 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTA
65 GGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
11814208 GCGGCGCTTTCTT-AAAA-ACGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTAG
1 GCGGCGCTTTCTTGAAAACACGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTAGCTTAG
*
11814271 GTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAA
66 GTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAA
11814306 TCCCCCAAAG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
111 72 0.81
113 4 0.04
114 13 0.15
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (113 bp):
GCGGCGCTTTCTTGAAAACACGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTAGCTTAG
GTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:11814334 original size:184 final size:185
Alignment explanation
Indices: 11814004--11814378 Score: 565
Period size: 184 Copynumber: 2.0 Consensus size: 185
11813994 TAAATTATTT
*
11814004 TAAATCCCTAAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAAC
1 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAA--CCGCTAAATCCCCCAAAGCTCACAAAAC
* **
11814069 AACGTCGTTTTGGCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAATCCCCCAAAGCT
64 AACGTCGTTTTGGCTTAGGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCT
** **
11814134 CACAAAACGGCGTCGTTTTAGCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGC
129 CACAAAACAACGTCGTTTTAGCTTAGGTTCTTTGCGGCGCTTTCTCAAAAACGCCGC
* * * *
11814191 TAAAGCCCTGAGCATTAGCGGCGCTTTCTT-AAAAA-CGCTAAATCCCCGAAAGCTCACAGAACG
1 TAAAGCCCTAAGCATTAGCGGCGC-TTCTTCAAAAACCGCTAAATCCCCCAAAGCTCACAAAACA
* * *
11814254 GCGTTGTTTTGGCTTAGGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTC
65 ACGTCGTTTTGGCTTAGGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTC
*
11814319 ACAAAACAACGTCGTTTTGGCTTAGGTTCTTTGCGGCGCTTTCTCAAAAACGCCGC
130 ACAAAACAACGTCGTTTTAGCTTAGGTTCTTTGCGGCGCTTTCTCAAAAACGCCGC
11814375 TAAA
1 TAAA
11814379 TCCCCCAAAG
Statistics
Matches: 171, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
184 139 0.81
187 27 0.16
188 5 0.03
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (185 bp):
TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAACCGCTAAATCCCCCAAAGCTCACAAAACAA
CGTCGTTTTGGCTTAGGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCA
CAAAACAACGTCGTTTTAGCTTAGGTTCTTTGCGGCGCTTTCTCAAAAACGCCGC
Found at i:11814336 original size:73 final size:73
Alignment explanation
Indices: 11814208--11814451 Score: 359
Period size: 73 Copynumber: 3.4 Consensus size: 73
11814198 CTGAGCATTA
* * * * *
11814208 GCGGCGCTTTCTTAAAAA---CGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
*
11814270 GGTTTTTT
66 GGTTCTTT
* *
11814278 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
11814343 GGTTCTTT
66 GGTTCTTT
* *
11814351 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTTTGACTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
11814416 GGTTCTTT
66 GGTTCTTT
**
11814424 GCGGCGCTTTCTTGAAAACGCCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
11814452 GCCCTGAGCA
Statistics
Matches: 157, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
70 16 0.10
73 141 0.90
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (73 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
GGTTCTTT
Found at i:11814525 original size:187 final size:186
Alignment explanation
Indices: 11814278--11814644 Score: 599
Period size: 187 Copynumber: 2.0 Consensus size: 186
11814268 TAGGTTTTTT
11814278 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
*
11814343 GGTTCTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTT
66 GGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCACAC-AAACGACGTCGTT
*
11814408 TTGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTA
130 TTGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAAGCCCTGAGCATTA
* * ** * * *
11814465 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAATCTCACAAAACGACGTTGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
* * *
11814530 GGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAACGATGTCGTTT
66 GGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAACGACGTCGTTT
* *
11814595 TGGCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAATCCCTGA
131 TGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAAGCCCTGA
11814645 AAGCTCACAA
Statistics
Matches: 166, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
186 60 0.36
187 106 0.64
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (186 bp):
GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
GGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAACGACGTCGTTT
TGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAAGCCCTGAGCATTA
Found at i:11814556 original size:114 final size:114
Alignment explanation
Indices: 11814351--11814565 Score: 331
Period size: 114 Copynumber: 1.9 Consensus size: 114
11814341 TAGGTTCTTT
11814351 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTTTGACTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTTTGACTTA
* **
11814416 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTA
66 GGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* ** * * * *
11814465 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAATCTCACAAAACGACGTTGTTTTGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTTTGACTTA
*
11814530 GGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAA
66 GGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAA
11814566 TCCCCCAAAG
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 90 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTTTTGACTTA
GGTTCTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:11814628 original size:72 final size:73
Alignment explanation
Indices: 11814465--11814717 Score: 382
Period size: 73 Copynumber: 3.5 Consensus size: 73
11814455 CTGAGCATTA
*
11814465 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAATCTCACAAAACGACGTTGTTTTGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGACGTTGTTTTGGCTTA
11814530 GGTTTTTT
66 GGTTTTTT
* * ** * *
11814538 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCAC-AAACGATGTCGTTTTGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGACGTTGTTTTGGCTTA
*
11814602 GGTTCTTT
66 GGTTTTTT
* * *
11814610 GCGGCGCTTTCTTGAAAACGCCGCCAAATCCCTGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGACGTTGTTTTGGCTTA
11814675 GGTTTTTT
66 GGTTTTTT
* *
11814683 GTGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGA
11814718 GCATTAGCAG
Statistics
Matches: 157, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
72 63 0.40
73 94 0.60
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (73 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGACGTTGTTTTGGCTTA
GGTTTTTT
Found at i:11814703 original size:259 final size:260
Alignment explanation
Indices: 11814021--11814898 Score: 1399
Period size: 259 Copynumber: 3.4 Consensus size: 260
11814011 CTAAGCATTA
*
11814021 GCGGCGCTTCTTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
*
11814086 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTT
66 GGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTT
*
11814151 TTAGCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCT
131 TTGGCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCT
11814216 TTCTTAAAAA---CGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTAGGTTTTTT
196 TTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTAGGTTTTTT
11814278 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
* * *
11814343 GGTTCTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCCAAAGCACACAAAACGACGTCGTT
66 GGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTT
*
11814408 TTGACTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCT
131 TTGGCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCT
* * * *
11814473 TTCTTAAAAACGCCGCTAAATCCCTGAAATCTCACAAAACGACGTTGTTTTGGCTTAGGTTTTTT
196 TTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTAGGTTTTTT
* *
11814538 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCAC-AAACGATGTCGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
* * ** *
11814602 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAATCCCTGAAAGCTCACAAAACGGCGTTGTT
66 GGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTT
* * * *
11814667 TTGGCTTAGGTTTTTTGTGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCT
131 TTGGCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCT
* * * *
11814732 TTCCTT-AAAGCGCCGCTAAATCCCCGAAAGCTCATAGAACGGCGTCGTTTTTGCTTAGGTTTTT
196 TT-CTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTAGGTTTTT
11814796 T
260 T
** * *
11814797 GCGGCGCTTTTTCAAAAACGCCGCTAAATCCCCCAAATCTCACAAAA-ATGACGTCGTTTTGGTT
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACA--ACGTCGTTTTGGCT
* *
11814861 TAGGTTCTTTGTGGCGCTTTCTTAAAAATGCCGCTAAA
64 TAGGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAA
11814899 GCTTATTGTT
Statistics
Matches: 570, Mismatches: 44, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
257 198 0.35
259 229 0.40
260 97 0.17
261 46 0.08
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (260 bp):
GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
GGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTT
TTGGCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCT
TTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAGAACGGCGTTGTTTTGGCTTAGGTTTTTT
Found at i:11814814 original size:114 final size:114
Alignment explanation
Indices: 11814613--11814824 Score: 320
Period size: 114 Copynumber: 1.9 Consensus size: 114
11814603 GTTCTTTGCG
* *
11814613 GCGCTTTCTTGAAAACGCCGCCAAATCCCTGAAAGCTCACAAAACGGCGTTGTTTTGGCTTAGGT
1 GCGCTTTCTTGAAAACGCCGCCAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGGT
*
11814678 TTTTTGTGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
66 TTTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
* * * * *
11814727 GCGCTTTCCTT-AAAGCGCCGCTAAATCCCCGAAAGCTCATAGAACGGCGTCGTTTTTGCTTAGG
1 GCGCTTT-CTTGAAAACGCCGCCAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGG
11814791 TTTTTTGCGGCGCTTT-TTCAAAAACGCCGCTAAA
65 TTTTTTGCGGCGCTTTCTT-AAAAACGCCGCTAAA
11814825 TCCCCCAAAT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
113 2 0.02
114 83 0.94
115 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.29
Consensus pattern (114 bp):
GCGCTTTCTTGAAAACGCCGCCAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGGT
TTTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCA
Found at i:11814879 original size:74 final size:73
Alignment explanation
Indices: 11814727--11814898 Score: 195
Period size: 74 Copynumber: 2.3 Consensus size: 73
11814717 AGCATTAGCA
* * * * * *
11814727 GCGCTTTCCTT-AAAGCGCCGCTAAATCCCCGAAAGCTCATAGAACGGCGTCGTTTTTGCTTAGG
1 GCGCTTT-CTTAAAAACGCCGCTAAATCCCCCAAAGCTCAAAAAACGACGTCGTTTTGGCTTAGG
*
11814791 TTTTTTGCG
65 TTCTTTGCG
* * *
11814800 GCGCTTT-TTCAAAAACGCCGCTAAATCCCCCAAATCTCACAAAAATGACGTCGTTTTGGTTTAG
1 GCGCTTTCTT-AAAAACGCCGCTAAATCCCCCAAAGCTCA-AAAAACGACGTCGTTTTGGCTTAG
*
11814864 GTTCTTTGTG
64 GTTCTTTGCG
*
11814874 GCGCTTTCTTAAAAATGCCGCTAAA
1 GCGCTTTCTTAAAAACGCCGCTAAA
11814899 GCTTATTGTT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
71 2 0.02
73 32 0.39
74 47 0.57
75 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (73 bp):
GCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCAAAAAACGACGTCGTTTTGGCTTAGGT
TCTTTGCG
Found at i:11815139 original size:24 final size:27
Alignment explanation
Indices: 11815102--11815165 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
11815092 AATTGCGGAT
*
11815102 TAATTATTG-ATTGAAAG-GTG-GAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
11815126 -AATGATTGAATTGAAAGTGTGAGAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
**
11815152 TTGTGATTGAATTG
1 TAATGATTGAATTG
11815166 GGATTATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 7 0.21
24 8 0.24
25 3 0.09
26 4 0.12
27 11 0.33
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (27 bp):
TAATGATTGAATTGAAAGTGTGAGAAA
Found at i:11821419 original size:20 final size:23
Alignment explanation
Indices: 11821396--11821444 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
11821386 ATTATTTATC
11821396 TATATA-ATA-TA-TAAATTAAT
1 TATATAGATATTATTAAATTAAT
*
11821416 TATAAAGTATATTATTAAATTAAT
1 TATATAG-ATATTATTAAATTAAT
11821440 TATAT
1 TATAT
11821445 TATAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.22
22 3 0.13
23 2 0.09
24 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATATAGATATTATTAAATTAAT
Found at i:11821429 original size:12 final size:11
Alignment explanation
Indices: 11821400--11821443 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
11821390 TTTATCTATA
11821400 TAATATATAAAT
1 TAAT-TATAAAT
*
11821412 TAATTATAAAG
1 TAATTATAAAT
11821423 TATATTATTAAAT
1 TA-ATTA-TAAAT
11821436 TAATTATA
1 TAATTATA
11821444 TTATAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 10 0.36
12 12 0.43
13 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TAATTATAAAT
Found at i:11821455 original size:14 final size:17
Alignment explanation
Indices: 11821423--11821460 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
11821413 AATTATAAAG
11821423 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
11821440 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
11821454 TATATTA
1 TATATTA
11821461 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:11821674 original size:6 final size:5
Alignment explanation
Indices: 11821633--11821708 Score: 50
Period size: 5 Copynumber: 14.6 Consensus size: 5
11821623 TAAAGTAAAT
* *
11821633 AAAAG -AAAG TAAAG AAATA- AAAAG AAAAG AAAAG AAACAG AATAG -AAAG
1 AAAAG AAAAG AAAAG AAA-AG AAAAG AAAAG AAAAG AAA-AG AAAAG AAAAG
*
11821682 AACAAAG AAACAG AGAAG CAAAAG AAA
1 -A-AAAG AAA-AG AAAAG -AAAAG AAA
11821709 CGAGGGAAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
4 8 0.14
5 31 0.54
6 14 0.25
7 4 0.07
ACGTcount: A:0.72, C:0.05, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:11821690 original size:16 final size:16
Alignment explanation
Indices: 11821638--11821708 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
11821628 TAAATAAAAG
* *
11821638 AAAGTAAAG-AAATAA
1 AAAGAAAAGAAAAGAA
11821653 AAAGAAAAGAAAAGAA
1 AAAGAAAAGAAAAGAA
* *
11821669 ACAGAATAG-AAAGAA
1 AAAGAAAAGAAAAGAA
* *
11821684 CAAAGAAACAGAGAAGCA
1 -AAAGAAA-AGAAAAGAA
11821702 AAAGAAA
1 AAAGAAA
11821709 CGAGGGAAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
15 14 0.32
16 17 0.39
17 9 0.20
18 4 0.09
ACGTcount: A:0.72, C:0.06, G:0.18, T:0.04
Consensus pattern (16 bp):
AAAGAAAAGAAAAGAA
Found at i:11822604 original size:24 final size:27
Alignment explanation
Indices: 11822567--11822630 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
11822557 AATTGCGGAT
*
11822567 TAATTATTG-ATTGAAAG-GTG-GAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
11822591 -AATGATTGAATTGAAAGTGTGAGAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
**
11822617 TTGTGATTGAATTG
1 TAATGATTGAATTG
11822631 GGATTATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 7 0.21
24 8 0.24
25 3 0.09
26 4 0.12
27 11 0.33
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (27 bp):
TAATGATTGAATTGAAAGTGTGAGAAA
Found at i:11828819 original size:27 final size:27
Alignment explanation
Indices: 11828749--11828819 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
11828739 GGTCGAGGGT
* * *
11828749 CTGCCACATGCGGCACCAAAGGTGCTA
1 CTGCCACAGGCGACACCAAAGGTGCCA
* * * *
11828776 GTGGCAGAGGCGGCACCAAAGGTGCCA
1 CTGCCACAGGCGACACCAAAGGTGCCA
*
11828803 CTGCCACAGGTGACACC
1 CTGCCACAGGCGACACC
11828820 TGTGCCATGT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.25, C:0.32, G:0.31, T:0.11
Consensus pattern (27 bp):
CTGCCACAGGCGACACCAAAGGTGCCA
Found at i:11828922 original size:3 final size:3
Alignment explanation
Indices: 11828914--11828951 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
11828904 AAATGAAAGG
*
11828914 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGG AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
11828952 GAGAGGGTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11829117 original size:24 final size:24
Alignment explanation
Indices: 11829063--11829120 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
11829053 AAAGATTATC
11829063 TTGTTATTATGTTTTTTTGTATAT
1 TTGTTATTATGTTTTTTTGTATAT
* *
11829087 TTTTTATTGT-TTTTTTTGT-TAGT
1 TTGTTATTATGTTTTTTTGTATA-T
11829110 TTAGTTATTAT
1 TT-GTTATTAT
11829121 TGTTAGTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 2 0.07
23 12 0.43
24 14 0.50
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (24 bp):
TTGTTATTATGTTTTTTTGTATAT
Found at i:11829333 original size:23 final size:23
Alignment explanation
Indices: 11829293--11829339 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
11829283 CTAATTATTA
11829293 TTTTACTTAGTATGATTGTTAGT
1 TTTTACTTAGTATGATTGTTAGT
*
11829316 TTTTACATTA-TATTATTGTTAGT
1 TTTTAC-TTAGTATGATTGTTAGT
11829339 T
1 T
11829340 ATTATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.23, C:0.04, G:0.13, T:0.60
Consensus pattern (23 bp):
TTTTACTTAGTATGATTGTTAGT
Found at i:11829406 original size:76 final size:77
Alignment explanation
Indices: 11829201--11829424 Score: 231
Period size: 76 Copynumber: 2.9 Consensus size: 77
11829191 GTTTAGTTAT
* *
11829201 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATTATGGTAAGTTAT
1 TAATTATTATTGTTACTTAGTATTATTGTTAGTAAAAAAC---TATTATTA-T-T-GTTAGTTAT
**
11829266 TAAGATTAGTAAAAACCC
60 TATTATTAGTAAAAACCC
* *** * * *
11829284 TAATTATTATT-TTACTTAGTATGATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATTT
1 TAATTATTATTGTTACTTAGTATTATTGTTAG-TAAAAAACTATTATTATTGTTAGTTATTATTA
11829347 TTAGT-AAAACCC
65 TTAGTAAAAACCC
* * *
11829359 TAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAAACTATTATTATTATTA-TTATTATTAT
1 TAATTATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTAGTTATTATTAT
11829423 TA
66 TA
11829425 TTATTATTAT
Statistics
Matches: 117, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
75 34 0.29
76 42 0.36
77 1 0.01
78 1 0.01
79 5 0.04
80 2 0.02
82 19 0.16
83 13 0.11
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (77 bp):
TAATTATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTAGTTATTATTAT
TAGTAAAAACCC
Found at i:11829407 original size:3 final size:3
Alignment explanation
Indices: 11829399--11829445 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
11829389 AGTAAAAAAC
11829399 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11829446 GTGGTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11832270 original size:8 final size:8
Alignment explanation
Indices: 11832242--11832283 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
11832232 GAGCTTATGC
*
11832242 TGTAAAGT
1 TGTAATGT
*
11832250 TGTTATG-
1 TGTAATGT
11832257 TGTAATGT
1 TGTAATGT
11832265 TGTAATGT
1 TGTAATGT
11832273 TGTAATGT
1 TGTAATGT
11832281 TGT
1 TGT
11832284 TGTAACACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (8 bp):
TGTAATGT
Found at i:11835240 original size:158 final size:158
Alignment explanation
Indices: 11834694--11835386 Score: 1131
Period size: 159 Copynumber: 4.4 Consensus size: 158
11834684 TAATTTCAAT
*
11834694 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* *
11834759 TATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTG-TTTTTTATATAAATTTAG
*
11834824 TAAAAAACCCTTATTTTGGCCATTTGTTC
130 TAAAAAACCCTTATTTTGGCCCTTTGTTC
*
11834853 GTATTTTTCTTATTTTCGGATTTTATTACTTTTAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
11834918 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGA
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAG-
* *
11834983 AAAAAAACCCTTATTTTGGCCCTTTGTTA
130 TAAAAAACCCTTATTTTGGCCCTTTGTTC
* * *
11835012 ATATTTTTCTTATTTTCGGATTTTATTACTTT-AAAAGAAAATACTATTTTTGTATTTTATTATT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAA-AATATACTATTTTCGTATTTTATTATT
* *
11835076 TTATATTATTTTAGTACATAATGTTTAAAATGTATTATTTTAGTGTGTTTTTCATATAAATTTAG
65 TTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAG
*
11835141 TAAAAAACCCTTATTTTGGCTCTTTGTTC
130 TAAAAAACCCTTATTTTGGCCCTTTGTTC
* * *
11835170 GGATTTTTCTTATTTTCAGATTTTATTTCTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* *
11835235 CATATTATTTTAGTACATAATGTTTGAAATATATTATTTTAGTGTG-TTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
*
11835299 AAAAAACCATTATTTTGGCCCTTTGTTC
131 AAAAAACCCTTATTTTGGCCCTTTGTTC
** * *
11835327 GTATTTTTCTT-TTTTCGGATTTTATTACTTTCAGTAAATATACTATTTTCATTTTTTATT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATT
11835387 TCTTTTCGTA
Statistics
Matches: 497, Mismatches: 34, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
156 43 0.09
157 53 0.11
158 145 0.29
159 256 0.52
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (158 bp):
GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
AAAAAACCCTTATTTTGGCCCTTTGTTC
Found at i:11835272 original size:317 final size:316
Alignment explanation
Indices: 11834695--11835386 Score: 1122
Period size: 317 Copynumber: 2.2 Consensus size: 316
11834685 AATTTCAATG
* *
11834695 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTT
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAAAATACTATTTTCGTATTTTATTATTTT
* *
11834760 ATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT
66 ATATTATTTTAGTACATAAAGTTTAAAATGTATTAATTTAGTGTGTTTTTTCATATAAATTTAGT
* * *
11834825 AAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTTAAAA
131 AAAAAACCCTTATTTTGGCCATTTGTTCGGATTTTTCTTATTTTCAGATTTTATTACTTTCAAAA
* *
11834890 AATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTAT
196 AATATACTATTTTCGTATTTTATTATTTCATATTATTTTAGTACATAATGTTTGAAATATATTAT
*
11834955 TTTAGTGTGTTTTTTATATAAATTTAGAAAAAAAACCCTTATTTTGGCCCTTTGTTAA
261 TTTAGTGTG-TTTTTATATAAATTTAG-AAAAAAACCATTATTTTGGCCCTTTGTTAA
*
11835013 TATTTTTCTTATTTTCGGATTTTATTACTTT-AAAAGAAAATACTATTTTTGTATTTTATTATTT
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAA-AAAATACTATTTTCGTATTTTATTATTT
* *
11835077 TATATTATTTTAGTACATAATGTTTAAAATGTATTATTTTAGTGTG-TTTTTCATATAAATTTAG
65 TATATTATTTTAGTACATAAAGTTTAAAATGTATTAATTTAGTGTGTTTTTTCATATAAATTTAG
*
11835141 TAAAAAACCCTTATTTTGGCTC-TTTGTTCGGATTTTTCTTATTTTCAGATTTTATTTCTTTCAA
130 TAAAAAACCCTTATTTTGGC-CATTTGTTCGGATTTTTCTTATTTTCAGATTTTATTACTTTCAA
11835205 AAAATATACTATTTTCGTATTTTATTATTTCATATTATTTTAGTACATAATGTTTGAAATATATT
194 AAAATATACTATTTTCGTATTTTATTATTTCATATTATTTTAGTACATAATGTTTGAAATATATT
* **
11835270 ATTTTAGTGTGTTTTTATATAAATTTAGTAAAAAACCATTATTTTGGCCCTTTGTTCG
259 ATTTTAGTGTGTTTTTATATAAATTTAGAAAAAAACCATTATTTTGGCCCTTTGTTAA
** * * *
11835328 TATTTTTCTT-TTTTCGGATTTTATTACTTTCAGTAAATATACTATTTTCATTTTTTATT
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAAAATACTATTTTCGTATTTTATT
11835387 TCTTTTCGTA
Statistics
Matches: 348, Mismatches: 23, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
314 40 0.11
315 38 0.11
316 17 0.05
317 153 0.44
318 100 0.29
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (316 bp):
TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAAAATACTATTTTCGTATTTTATTATTTT
ATATTATTTTAGTACATAAAGTTTAAAATGTATTAATTTAGTGTGTTTTTTCATATAAATTTAGT
AAAAAACCCTTATTTTGGCCATTTGTTCGGATTTTTCTTATTTTCAGATTTTATTACTTTCAAAA
AATATACTATTTTCGTATTTTATTATTTCATATTATTTTAGTACATAATGTTTGAAATATATTAT
TTTAGTGTGTTTTTATATAAATTTAGAAAAAAACCATTATTTTGGCCCTTTGTTAA
Found at i:11835571 original size:30 final size:30
Alignment explanation
Indices: 11835537--11835659 Score: 147
Period size: 30 Copynumber: 4.4 Consensus size: 30
11835527 AAATTAAATA
11835537 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
11835567 AAATAATAAAACATA-AA--TA-AT---A-
1 AAATAATAAAACATAGAATGTACATAACAT
* * *
11835589 AAATAATAAGACATAGTATGTACATAAAAT
1 AAATAATAAAACATAGAATGTACATAACAT
11835619 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
11835649 AAA-AATTAAAA
1 AAATAA-TAAAA
11835660 TTAAATTATG
Statistics
Matches: 79, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
22 14 0.18
23 2 0.03
25 2 0.03
26 4 0.05
27 2 0.03
29 5 0.06
30 50 0.63
ACGTcount: A:0.63, C:0.07, G:0.06, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:11835581 original size:14 final size:14
Alignment explanation
Indices: 11835537--11835591 Score: 67
Period size: 14 Copynumber: 3.8 Consensus size: 14
11835527 AAATTAAATA
11835537 AAATAATAAAACAT
1 AAATAATAAAACAT
*
11835551 AGAAT-GTACATAACAT
1 A-AATAATA-A-AACAT
11835567 AAATAATAAAACAT
1 AAATAATAAAACAT
11835581 AAATAATAAAA
1 AAATAATAAAA
11835592 TAATAAGACA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 19 0.54
15 8 0.23
16 8 0.23
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (14 bp):
AAATAATAAAACAT
Found at i:11835596 original size:52 final size:52
Alignment explanation
Indices: 11835533--11835633 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
11835523 AAATAAATTA
*
11835533 AATAAAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAAAT
1 AATAAAATAATAAAACATAGAATGTACATAAAATAAATAATAAAACATAAAT
* *
11835585 AATAAAATAATAAGACATAGTATGTACATAAAATAAATAATAAAACATA
1 AATAAAATAATAAAACATAGAATGTACATAAAATAAATAATAAAACATA
11835634 GAATGTACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (52 bp):
AATAAAATAATAAAACATAGAATGTACATAAAATAAATAATAAAACATAAAT
Found at i:11835954 original size:3 final size:3
Alignment explanation
Indices: 11835946--11835998 Score: 67
Period size: 3 Copynumber: 18.0 Consensus size: 3
11835936 CCTCCTTCCC
11835946 CTT CTT CTT CTT CTT C-T CTT C-T CTT CTT CTT -TT CTT CTT CTCT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T
11835989 CATT CTT CTT
1 C-TT CTT CTT
11835999 TCCTGCAGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
2 6 0.13
3 34 0.76
4 4 0.09
5 1 0.02
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:11835967 original size:8 final size:8
Alignment explanation
Indices: 11835946--11835988 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
11835936 CCTCCTTCCC
11835946 CTTCTTCTT
1 CTTCTTC-T
11835955 CTTCTTCT
1 CTTCTTCT
11835963 CTTC-TCTT
1 CTTCTTC-T
*
11835971 CTTCTTTT
1 CTTCTTCT
11835979 CTTCTTCT
1 CTTCTTCT
11835987 CT
1 CT
11835989 CATTCTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
7 2 0.07
8 20 0.67
9 8 0.27
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (8 bp):
CTTCTTCT
Found at i:11835967 original size:11 final size:11
Alignment explanation
Indices: 11835946--11835998 Score: 65
Period size: 11 Copynumber: 4.8 Consensus size: 11
11835936 CCTCCTTCCC
11835946 CTTCTTCTTCTT
1 CTTCTTCTTC-T
11835958 CTTC-TCTTCT
1 CTTCTTCTTCT
*
11835968 CTTCTTCTTTT
1 CTTCTTCTTCT
11835979 CTTCTTC-TCT
1 CTTCTTCTTCT
11835989 CATTCTTCTT
1 C-TTCTTCTT
11835999 TCCTGCAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 8 0.22
11 23 0.64
12 5 0.14
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (11 bp):
CTTCTTCTTCT
Found at i:11835972 original size:19 final size:20
Alignment explanation
Indices: 11835948--11835998 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
11835938 TCCTTCCCCT
11835948 TCTTCTTCTTCTTC-TCTTC
1 TCTTCTTCTTCTTCTTCTTC
11835967 TCTTCTTCTT-TTCTTCTTC
1 TCTTCTTCTTCTTCTTCTTC
11835986 TC-TCATTCTTCTT
1 TCTTC-TTCTTCTT
11835999 TCCTGCAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.17
19 22 0.76
20 2 0.07
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (20 bp):
TCTTCTTCTTCTTCTTCTTC
Found at i:11839522 original size:6 final size:6
Alignment explanation
Indices: 11839511--11839541 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
11839501 CAAAATTCTG
11839511 CAGATC CAGATC CAGATC CAGATC CAGATC C
1 CAGATC CAGATC CAGATC CAGATC CAGATC C
11839542 CTTCAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.16
Consensus pattern (6 bp):
CAGATC
Found at i:11844247 original size:24 final size:24
Alignment explanation
Indices: 11844220--11844265 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11844210 TTTAAACCCA
*
11844220 AATACCCATTGAA-ATTTAAAACTC
1 AATACACATT-AATATTTAAAACTC
11844244 AATACACATTAATATTTAAAAC
1 AATACACATTAATATTTAAAAC
11844266 CCAAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.30
Consensus pattern (24 bp):
AATACACATTAATATTTAAAACTC
Found at i:11844423 original size:27 final size:27
Alignment explanation
Indices: 11844385--11844450 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
11844375 GTCAGTTCGA
11844385 TTTATTCGGTTTACATAGATAACTCAG
1 TTTATTCGGTTTACATAGATAACTCAG
*
11844412 TTTATTCGGTTTACATAGATAGCTCAG
1 TTTATTCGGTTTACATAGATAACTCAG
*
11844439 TTTATTCAGTTT
1 TTTATTCGGTTT
11844451 TTGGTATAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (27 bp):
TTTATTCGGTTTACATAGATAACTCAG
Found at i:11846796 original size:28 final size:28
Alignment explanation
Indices: 11846738--11846803 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
11846728 TCGGTTAATA
*
11846738 GGTCGGTTAACCGAATTAATTCAATCGG
1 GGTCGGTTAACCGAATTAATTCAATCAG
* **
11846766 GGTTGGTTAACCGAATTAATTCGGTCAG
1 GGTCGGTTAACCGAATTAATTCAATCAG
11846794 GGTCGGTTAA
1 GGTCGGTTAA
11846804 TAATTTTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (28 bp):
GGTCGGTTAACCGAATTAATTCAATCAG
Found at i:11850655 original size:40 final size:40
Alignment explanation
Indices: 11850588--11850700 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 40
11850578 CGATTGAAAT
* * **
11850588 TACCGAAGTATAAATA-GGGCACGTATGTGCAATCAGGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGAAG
*
11850627 TACCGAAGTACAAACAGGGGCACATATGTGCAATCAGAAG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGAAG
* *
11850667 TATCGAAGTACAAACAGGGGCACGTATGTACAAT
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAAT
11850701 TAGGTATAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 14 0.22
40 51 0.78
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.19
Consensus pattern (40 bp):
TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGAAG
Found at i:11850699 original size:20 final size:20
Alignment explanation
Indices: 11850604--11850699 Score: 61
Period size: 20 Copynumber: 4.8 Consensus size: 20
11850594 AGTATAAATA
* *
11850604 GGGCACGTATGTGCAATCAG
1 GGGCACGTATGTACAAACAG
* *
11850624 GGGTACCG-AAGTACAAACAG
1 GGGCA-CGTATGTACAAACAG
* * *
11850644 GGGCACATATGTGCAATCAG
1 GGGCACGTATGTACAAACAG
** * *
11850664 AAGTATCG-AAGTACAAACAG
1 GGGCA-CGTATGTACAAACAG
11850684 GGGCACGTATGTACAA
1 GGGCACGTATGTACAA
11850700 TTAGGTATAA
Statistics
Matches: 52, Mismatches: 20, Indels: 8
0.65 0.25 0.10
Matches are distributed among these distances:
19 3 0.06
20 46 0.88
21 3 0.06
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.17
Consensus pattern (20 bp):
GGGCACGTATGTACAAACAG
Found at i:11872715 original size:16 final size:16
Alignment explanation
Indices: 11872694--11872730 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
11872684 TTGGTTCGTT
11872694 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
11872710 GTAATGGATTAGAGGC
1 GTAATGGAATAGAGGC
11872726 GTAAT
1 GTAAT
11872731 AGCAATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.35, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:11872774 original size:45 final size:44
Alignment explanation
Indices: 11872710--11872806 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
11872700 GAATAGAGGC
*
11872710 GTAATGGATTAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
11872755 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
11872799 GGAATGGA
1 GTAATGGA
11872807 GGTGTAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.51
45 22 0.47
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:11872984 original size:18 final size:17
Alignment explanation
Indices: 11872963--11872997 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11872953 TTATTATTAA
*
11872963 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11872981 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11872998 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11873100 original size:120 final size:120
Alignment explanation
Indices: 11872943--11873421 Score: 805
Period size: 120 Copynumber: 4.0 Consensus size: 120
11872933 TTAATCATAT
* * *
11872943 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * * * * * **
11873008 CAATATTATTATCTGAATTTACTAAAATAATAATATATGATACTATAAAATATTT
66 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
*
11873063 TTTAACATAACTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
**
11873128 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
11873183 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
11873248 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAA
66 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
*
11873303 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
11873368 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
66 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
11873422 GATTAATAGT
Statistics
Matches: 342, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 342 1.00
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
Found at i:11873369 original size:18 final size:18
Alignment explanation
Indices: 11873203--11873356 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
11873193 TTATTATTAA
11873203 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
11873221 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
11873239 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
11873258 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
11873276 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
11873292 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
11873311 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
11873323 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
11873341 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
11873357 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 8 0.08
17 16 0.16
18 41 0.41
19 15 0.15
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:11878221 original size:14 final size:14
Alignment explanation
Indices: 11878198--11878245 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
11878188 TCCTCCCTGC
*
11878198 CTTCTTCATTTTCT
1 CTTCTACATTTTCT
*
11878212 CTTCTACATTTTCC
1 CTTCTACATTTTCT
*
11878226 CTTCGATCATTTTCT
1 CTTCTA-CATTTTCT
*
11878241 TTTCT
1 CTTCT
11878246 TTTTCCAGCA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.10, C:0.29, G:0.02, T:0.58
Consensus pattern (14 bp):
CTTCTACATTTTCT
Found at i:11884743 original size:16 final size:16
Alignment explanation
Indices: 11884722--11884754 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11884712 TTCGCTGTAT
11884722 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
11884738 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
11884754 T
1 T
11884755 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:11885016 original size:14 final size:15
Alignment explanation
Indices: 11884977--11885018 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11884967 TCTAAACATA
*
11884977 ATTATTATTAAATAT
1 ATTATAATTAAATAT
11884992 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
11885006 A-TATAATTTAATA
1 ATTATAATTAAATA
11885019 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:11885111 original size:120 final size:120
Alignment explanation
Indices: 11884971--11885212 Score: 448
Period size: 120 Copynumber: 2.0 Consensus size: 120
11884961 ATCATATCTA
11884971 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
11885036 TATTCTTATATGAATTTACTCAAATAATAATATACGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTCAAATAATAATATACGATACTATAAAATATAATTT
*
11885091 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* * *
11885156 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATATTTT
66 TATTCTTATATGAATTTACTCAAATAATAATATACGATACTATAAAATATAATTT
11885211 AA
1 AA
11885213 TTAAAATTTA
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATAATAATATACGATACTATAAAATATAATTT
Found at i:11885127 original size:16 final size:16
Alignment explanation
Indices: 11885083--11885129 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
11885073 TACTATAAAA
*
11885083 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
11885099 TATTATT-AAATATAT
1 TATAATTAAAATATAT
11885114 TATAATTAAAATATAT
1 TATAATTAAAATATAT
11885130 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:11885214 original size:61 final size:61
Alignment explanation
Indices: 11885029--11885216 Score: 174
Period size: 61 Copynumber: 3.1 Consensus size: 61
11885019 AAATTCTTAA
* * *
11885029 TAATCAATATTCTTATATGAATTTACTCAAATAATAATATACGATACTATAAAATATAATT
1 TAATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATATTT
* * * * * * *
11885090 TAACATAATTATTATTAAAT--ATATTA-T-AATTAA-AATATATAAT-TTAATAAAAT-TCTTA
1 TAA-TTAA-TATTCTTATATGAAT-TTACTCAAATAATAATATATGATACT-ATAAAATATATT-
*
11885148 A
61 T
*
11885149 TAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATATTT
1 TAATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATATTT
11885210 TAATTAA
1 TAATTAA
11885217 AATTTATGAT
Statistics
Matches: 95, Mismatches: 20, Indels: 24
0.68 0.14 0.17
Matches are distributed among these distances:
57 9 0.09
58 9 0.09
59 21 0.22
60 9 0.09
61 29 0.31
62 9 0.09
63 9 0.09
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
TAATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATATTT
Found at i:11885348 original size:91 final size:91
Alignment explanation
Indices: 11885252--11885550 Score: 492
Period size: 91 Copynumber: 3.3 Consensus size: 91
11885242 TAATTATAAC
* *
11885252 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTGAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTGAATATAATTTAATAAT
*
11885317 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
* * *
11885343 TAATAAATTTTTTTATATGAATTTATATAATCTAAAATAATTAATA-TGTTATATAATTTAATAA
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTG-AATATAATTTAATAA
11885407 TGATATATAATTTCATAAAATTCTTGA
65 TGATATATAATTTCATAAAATTCTTGA
*
11885434 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTGAATATAATTTAATAAT
*
11885499 GATATATAATTTCATAAAATTCTTAA
66 GATATATAATTTCATAAAATTCTTGA
*
11885525 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
11885551 CTAAAATCAT
Statistics
Matches: 193, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
90 2 0.01
91 170 0.88
92 21 0.11
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTGAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:11885414 original size:44 final size:44
Alignment explanation
Indices: 11885366--11885510 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
11885356 TATATGAATT
*
11885366 TATATAATCTAAAATAATTAATATGTTATATAATTTAATAATGA
1 TATATAATTTAAAATAATTAATATGTTATATAATTTAATAATGA
* * * **
11885410 TATATAATTTCATAA-AATT-CT-TGATA-ATAAATTTTCTTATATGAA
1 TATATAATTT-AAAATAATTAATATGTTATAT-AA-TTTAATA-ATG-A
*
11885455 TTTATATAATTTAAAATAATTAATAT-TAAATATAATTTAATAATGA
1 --TATATAATTTAAAATAATTAATATGT-TATATAATTTAATAATGA
11885501 TATATAATTT
1 TATATAATTT
11885511 CATAAAATTC
Statistics
Matches: 77, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
41 2 0.03
42 6 0.08
43 6 0.08
44 26 0.34
45 4 0.05
46 4 0.05
47 17 0.22
48 6 0.08
49 4 0.05
50 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (44 bp):
TATATAATTTAAAATAATTAATATGTTATATAATTTAATAATGA
Found at i:11885415 original size:18 final size:18
Alignment explanation
Indices: 11885379--11885424 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
11885369 ATAATCTAAA
*
11885379 ATAA-TTAAT-ATGTTAT
1 ATAATTTAATAATGATAT
11885395 ATAATTTAATAATGATAT
1 ATAATTTAATAATGATAT
*
11885413 ATAATTTCATAA
1 ATAATTTAATAA
11885425 AATTCTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 4 0.15
17 5 0.19
18 17 0.65
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (18 bp):
ATAATTTAATAATGATAT
Found at i:11885561 original size:47 final size:46
Alignment explanation
Indices: 11885328--11885562 Score: 126
Period size: 47 Copynumber: 5.1 Consensus size: 46
11885318 ATATATAATT
* * * *
11885328 TCATAAAATTCTTGATAAT-AAATTTTTTTATATGAATTTATATAA
1 TCATAAAATTCTTAATAATAAAATATTCTTATATGAATTTATAAAA
** * * * * * **
11885373 TC-TAAAATAATTAATATGTTATATAATT-TAATAATG-ATATATAATT
1 TCATAAAATTCTTAATA-ATAAAAT-ATTCTTAT-ATGAATTTATAAAA
* * *
11885419 TCATAAAATTCTTGATAAT-AAATTTTCTTATATGAATTTATATAA
1 TCATAAAATTCTTAATAATAAAATATTCTTATATGAATTTATAAAA
* ** * * * **
11885464 T-TTAAAATAATTAATATTAAATATAATT-TAATAATG-ATATATAATT
1 TCATAAAATTCTTAATAATAAA-AT-ATTCTTAT-ATGAATTTATAAAA
*
11885510 TCATAAAATTCTTAATAATAAAATGTTCTTATATGAATTTACTAAAA
1 TCATAAAATTCTTAATAATAAAATATTCTTATATGAATTTA-TAAAA
11885557 TCATAA
1 TCATAA
11885563 TATAACTTGA
Statistics
Matches: 133, Mismatches: 42, Indels: 28
0.66 0.21 0.14
Matches are distributed among these distances:
44 28 0.21
45 23 0.17
46 36 0.27
47 46 0.35
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (46 bp):
TCATAAAATTCTTAATAATAAAATATTCTTATATGAATTTATAAAA
Found at i:11886920 original size:20 final size:20
Alignment explanation
Indices: 11886895--11886940 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
11886885 GTGCAGTTAG
* *
11886895 GGGCACAAAAGTGTAAATAA
1 GGGCACAAAAGTGCAAACAA
11886915 GGGCACAAAAGTGCAAACAA
1 GGGCACAAAAGTGCAAACAA
11886935 GGGCAC
1 GGGCAC
11886941 TTCGTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.17, G:0.28, T:0.09
Consensus pattern (20 bp):
GGGCACAAAAGTGCAAACAA
Found at i:11888980 original size:3 final size:3
Alignment explanation
Indices: 11888952--11888989 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
11888942 AGAAAGATGT
*
11888952 AGA AGA ATGA AGA AAA AGA A-A AGA AGA AGA AGA AGA AG
1 AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
11888990 CTATCATCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:11888982 original size:17 final size:18
Alignment explanation
Indices: 11888954--11888988 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11888944 AAAGATGTAG
11888954 AAGAATGAAGAAAAAGAA
1 AAGAATGAAGAAAAAGAA
*
11888972 AAGAA-GAAGAAGAAGAA
1 AAGAATGAAGAAAAAGAA
11888989 GCTATCATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (18 bp):
AAGAATGAAGAAAAAGAA
Found at i:11888982 original size:27 final size:25
Alignment explanation
Indices: 11888939--11888989 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
11888929 TAGATGTTTT
* *
11888939 AAAAGAAAGATGTAGAAGAATGAAGA
1 AAAAGAAAGAAGAAGAAGAA-GAAGA
11888965 AAAAGAAAAGAAGAAGAAGAAGAAG
1 AAAAG-AAAGAAGAAGAAGAAGAAG
11888990 CTATCATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (25 bp):
AAAAGAAAGAAGAAGAAGAAGAAGA
Found at i:11889315 original size:24 final size:22
Alignment explanation
Indices: 11889287--11889337 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
11889277 AAATATTGTG
11889287 TATGAAAAATGTGTATTATGTAAA
1 TATGAAAAA--TGTATTATGTAAA
**
11889311 TATGATTAATGTATTATGTAAA
1 TATGAAAAATGTATTATGTAAA
11889333 TATGA
1 TATGA
11889338 TTAGTGCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 18 0.72
24 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (22 bp):
TATGAAAAATGTATTATGTAAA
Found at i:11889326 original size:22 final size:22
Alignment explanation
Indices: 11889298--11889340 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11889288 ATGAAAAATG
11889298 TGTATTATGTAAATATGATTAA
1 TGTATTATGTAAATATGATTAA
11889320 TGTATTATGTAAATATGATTA
1 TGTATTATGTAAATATGATTA
11889341 GTGCATGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (22 bp):
TGTATTATGTAAATATGATTAA
Found at i:11892195 original size:27 final size:28
Alignment explanation
Indices: 11892160--11892212 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
11892150 CGAAATTCAG
*
11892160 ACTTTAATTA-TAAAATAGTTAATTTGA
1 ACTTAAATTATTAAAATAGTTAATTTGA
* *
11892187 ACTTAAATTATTAACATATTTAATTT
1 ACTTAAATTATTAAAATAGTTAATTT
11892213 TAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (28 bp):
ACTTAAATTATTAAAATAGTTAATTTGA
Found at i:11894279 original size:24 final size:24
Alignment explanation
Indices: 11894263--11894308 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11894253 TAATCAATGT
11894263 AAAATATATTATGCTAATAAATTC
1 AAAATATATTATGCTAATAAATTC
* * *
11894287 TAAATATATTATACTACTAAAT
1 AAAATATATTATGCTAATAAAT
11894309 CTTTTAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (24 bp):
AAAATATATTATGCTAATAAATTC
Found at i:11894372 original size:35 final size:35
Alignment explanation
Indices: 11894324--11894395 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
11894314 AGAATGAAAA
*
11894324 TATATTTTTTTTAACTTAACTTGCAAGCAATCTCT
1 TATATTTTATTTAACTTAACTTGCAAGCAATCTCT
*
11894359 TATATTTTATTTAACTTGACTTGCAAGCAATCTCT
1 TATATTTTATTTAACTTAACTTGCAAGCAATCTCT
11894394 TA
1 TA
11894396 AAATTTGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.07, T:0.47
Consensus pattern (35 bp):
TATATTTTATTTAACTTAACTTGCAAGCAATCTCT
Found at i:11902873 original size:5 final size:5
Alignment explanation
Indices: 11902863--11902888 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11902853 TGAGCATTTG
11902863 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
11902889 AATTTTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:11902986 original size:5 final size:5
Alignment explanation
Indices: 11902978--11903003 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11902968 GAGATGGAAT
11902978 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
11903004 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:11903003 original size:26 final size:26
Alignment explanation
Indices: 11902952--11903003 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
11902942 TGAAGTTTTC
* * *
11902952 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
11902978 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
11903004 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:11903405 original size:19 final size:19
Alignment explanation
Indices: 11903372--11903419 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
11903362 TAAACAATTC
11903372 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
11903389 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
11903408 AATAATATAAAT
1 AATAATATAAAT
11903420 AGTATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:11903934 original size:9 final size:9
Alignment explanation
Indices: 11903920--11903953 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
11903910 AGTTTGATAC
11903920 TCGAATTAT
1 TCGAATTAT
11903929 TCGAATTAT
1 TCGAATTAT
*
11903938 TCGAGTTAT
1 TCGAATTAT
11903947 TCGAATT
1 TCGAATT
11903954 CGAAAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (9 bp):
TCGAATTAT
Found at i:11904022 original size:9 final size:9
Alignment explanation
Indices: 11904005--11904035 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11903995 TCGAATTGAT
11904005 TCGAATAAC
1 TCGAATAAC
*
11904014 TCGATTAAC
1 TCGAATAAC
11904023 TCGAATAAC
1 TCGAATAAC
11904032 TCGA
1 TCGA
11904036 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:11906501 original size:48 final size:48
Alignment explanation
Indices: 11906403--11906498 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 48
11906393 TTTTTCTAAT
*
11906403 ATTATATATTATTTTTATTAGTTCATATTTTAATAATAATTATATTAA
1 ATTATATATTATTTTTATTAATTCATATTTTAATAATAATTATATTAA
* *
11906451 ATTATTTATTATTTTTATTAAATT-ATA-TTTAATTAA-AATTCTATTAA
1 ATTATATATTATTTTTATT-AATTCATATTTTAA-TAATAATTATATTAA
11906498 A
1 A
11906499 ATTTAATAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 16 0.37
48 24 0.56
49 3 0.07
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (48 bp):
ATTATATATTATTTTTATTAATTCATATTTTAATAATAATTATATTAA
Found at i:11906661 original size:49 final size:49
Alignment explanation
Indices: 11906601--11906710 Score: 177
Period size: 49 Copynumber: 2.2 Consensus size: 49
11906591 ACATCTATTT
*
11906601 CATTCAACCAAAAGCAAGAATACTATTATAATTTTATTCTATTC-CATTC
1 CATTCAACCAAAAGCAAGAATACTATTATAATTCTATTCTA-TCACATTC
* *
11906650 CATTCAACCAAATGCAAGAATACTATTATAGTTCTATTCTATCACATTC
1 CATTCAACCAAAAGCAAGAATACTATTATAATTCTATTCTATCACATTC
11906699 CATTCAACCAAA
1 CATTCAACCAAA
11906711 CAATTGAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 2 0.04
49 55 0.96
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (49 bp):
CATTCAACCAAAAGCAAGAATACTATTATAATTCTATTCTATCACATTC
Found at i:11911502 original size:15 final size:14
Alignment explanation
Indices: 11911483--11911518 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
11911473 TTTTTATAAT
11911483 AATAAAATAAAAGA
1 AATAAAATAAAAGA
*
11911497 AGATAACATAAAAGA
1 A-ATAAAATAAAAGA
11911512 AATAAAA
1 AATAAAA
11911519 GTTCAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:11916211 original size:24 final size:24
Alignment explanation
Indices: 11916179--11916226 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
11916169 AAAGAAAGAA
11916179 AGAAATTGCTTTGTATTCCCAATG
1 AGAAATTGCTTTGTATTCCCAATG
11916203 AGAAATTGCTTTGTATTCCCAATG
1 AGAAATTGCTTTGTATTCCCAATG
11916227 TCTTTTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (24 bp):
AGAAATTGCTTTGTATTCCCAATG
Found at i:11917805 original size:15 final size:15
Alignment explanation
Indices: 11917782--11917819 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
11917772 TTATATATAC
*
11917782 ATAATATTA-TTTCAA
1 ATAAAATTAGTTTC-A
11917797 ATAAAATTAGTTTCA
1 ATAAAATTAGTTTCA
11917812 ATAAAATT
1 ATAAAATT
11917820 TAATTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAAATTAGTTTCA
Found at i:11919406 original size:8 final size:8
Alignment explanation
Indices: 11919395--11919422 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
11919385 GTAATTTGCA
11919395 CCTTTGGT
1 CCTTTGGT
11919403 CCTTTGGT
1 CCTTTGGT
11919411 CCTTTGGT
1 CCTTTGGT
11919419 CCTT
1 CCTT
11919423 CAACTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.29, G:0.21, T:0.50
Consensus pattern (8 bp):
CCTTTGGT
Found at i:11919408 original size:16 final size:16
Alignment explanation
Indices: 11919389--11919422 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11919379 CCTTGGGTAA
11919389 TTTGCACCTTTGGTCC
1 TTTGCACCTTTGGTCC
**
11919405 TTTGGTCCTTTGGTCC
1 TTTGCACCTTTGGTCC
11919421 TT
1 TT
11919423 CAACTTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.26, G:0.21, T:0.50
Consensus pattern (16 bp):
TTTGCACCTTTGGTCC
Found at i:11941030 original size:10 final size:10
Alignment explanation
Indices: 11941001--11941035 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
11940991 TTAATTTTTA
11941001 ATTTTTAATT
1 ATTTTTAATT
*
11941011 ATCATTTAATT
1 AT-TTTTAATT
11941022 ATTTTTAATT
1 ATTTTTAATT
11941032 ATTT
1 ATTT
11941036 ATTTAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (10 bp):
ATTTTTAATT
Found at i:11941047 original size:21 final size:20
Alignment explanation
Indices: 11941001--11941052 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
11940991 TTAATTTTTA
11941001 ATTTTTAATTATCATTTAATT
1 ATTTTTAATTATCATTTAA-T
*
11941022 ATTTTTAATTATTTATTTAA-
1 ATTTTTAATTA-TCATTTAAT
*
11941042 AGTTTTAATTA
1 ATTTTTAATTA
11941053 GGGTATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 10 0.36
21 11 0.39
22 7 0.25
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTTAATTATCATTTAAT
Found at i:11941714 original size:11 final size:12
Alignment explanation
Indices: 11941699--11941729 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
11941689 TAAATGATAT
11941699 TTTATTATTTTA
1 TTTATTATTTTA
11941711 -TTATTATTTTA
1 TTTATTATTTTA
11941722 TTTATTAT
1 TTTATTAT
11941730 ATATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:11947926 original size:12 final size:10
Alignment explanation
Indices: 11947854--11947924 Score: 52
Period size: 12 Copynumber: 6.4 Consensus size: 10
11947844 ATTATTTAGA
11947854 TTTTATTTAGTT
1 TTTTATTT--TT
*
11947866 TTATATTTTAT
1 TTTTATTTT-T
*
11947877 GTTTTATTTCT
1 -TTTTATTTTT
11947888 TTTTATTTTT
1 TTTTATTTTT
*
11947898 TTTGCTATTTGT
1 TTT--TATTTTT
11947910 TTTTATTTTAT
1 TTTTATTTT-T
11947921 TTTT
1 TTTT
11947925 TAGACTTATA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
10 18 0.38
11 7 0.15
12 23 0.48
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:11950250 original size:21 final size:21
Alignment explanation
Indices: 11950203--11950252 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
11950193 GTCAAATCTA
*
11950203 ATCTTAGAAATATTCAATCGT
1 ATCTTGGAAATATTCAATCGT
11950224 ATCTTGGAAATATTCAATCGT
1 ATCTTGGAAATATTCAATCGT
11950245 ATCTTGGA
1 ATCTTGGA
11950253 CGGCCAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (21 bp):
ATCTTGGAAATATTCAATCGT
Found at i:11951412 original size:14 final size:14
Alignment explanation
Indices: 11951390--11951428 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
11951380 AGGAAATTCC
11951390 ATTAGATTAATTTA
1 ATTAGATTAATTTA
11951404 GATTA-ATTAATTTA
1 -ATTAGATTAATTTA
11951418 ATTAGATTAAT
1 ATTAGATTAAT
11951429 AAATATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (14 bp):
ATTAGATTAATTTA
Found at i:11951427 original size:9 final size:9
Alignment explanation
Indices: 11951390--11951428 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
11951380 AGGAAATTCC
11951390 ATTAGATTA
1 ATTAGATTA
11951399 ATTTAGATTA
1 A-TTAGATTA
11951409 ATTA-ATTTA
1 ATTAGA-TTA
11951418 ATTAGATTA
1 ATTAGATTA
11951427 AT
1 AT
11951429 AAATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.04
9 16 0.59
10 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (9 bp):
ATTAGATTA
Found at i:11955800 original size:3 final size:3
Alignment explanation
Indices: 11955792--11955845 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
11955782 AAGCATTTAA
* *
11955792 AAT AAT AAT AAT ATT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11955840 AAT AAT
1 AAT AAT
11955846 GGACATGTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11955933 original size:21 final size:22
Alignment explanation
Indices: 11955909--11955970 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
11955899 AAGAAAATAG
11955909 ATAAAAAT-TAT-TA-ATATAT
1 ATAAAAATATATGTATATATAT
11955928 ATATAAAATATATGTATATATAT
1 ATA-AAAATATATGTATATATAT
*
11955951 ATAAGAAATATATGTGTATA
1 ATAA-AAATATATGTATATA
11955971 ACAAAGTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 3 0.08
20 5 0.14
21 3 0.08
22 3 0.08
23 23 0.62
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (22 bp):
ATAAAAATATATGTATATATAT
Found at i:11956127 original size:42 final size:43
Alignment explanation
Indices: 11956050--11956130 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 43
11956040 CTTGAAGTAA
* *
11956050 ATAATAAATAATAAAAATGATATAATTAGACAAATATACATAT
1 ATAAAAAATAATAAAAATGAAATAATTAGACAAATATACATAT
* *
11956093 ATAAAAAATAA-ACAAATGAAATAAATTATA-AAATATAC
1 ATAAAAAATAATAAAAATGAAAT-AATTAGACAAATATAC
11956131 TAATTCATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 17 0.52
43 16 0.48
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (43 bp):
ATAAAAAATAATAAAAATGAAATAATTAGACAAATATACATAT
Found at i:11958986 original size:20 final size:21
Alignment explanation
Indices: 11958948--11958987 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11958938 ATGTTTTTCT
**
11958948 ATTTTCTAAATAATTTTTAAA
1 ATTTTCTAAATAAAATTTAAA
11958969 ATTTTC-AAATAAAATTTAA
1 ATTTTCTAAATAAAATTTAA
11958988 TTTTTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTTCTAAATAAAATTTAAA
Found at i:11959101 original size:15 final size:15
Alignment explanation
Indices: 11959081--11959110 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11959071 GAAATAACTG
*
11959081 AAAAAAGAAAGAAAA
1 AAAAAACAAAGAAAA
11959096 AAAAAACAAAGAAAA
1 AAAAAACAAAGAAAA
11959111 GAGTATTGTT
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:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAGAAAA
Found at i:11959742 original size:15 final size:15
Alignment explanation
Indices: 11959722--11959752 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11959712 GGTCGATTCC
11959722 TCTTCTAAGCTCATT
1 TCTTCTAAGCTCATT
11959737 TCTTCTAAGCTCATT
1 TCTTCTAAGCTCATT
11959752 T
1 T
11959753 GTATTTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.48
Consensus pattern (15 bp):
TCTTCTAAGCTCATT
Found at i:11960408 original size:13 final size:13
Alignment explanation
Indices: 11960390--11960428 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
11960380 CAATATATTT
11960390 ATTAATTAAAAAA
1 ATTAATTAAAAAA
11960403 ATTAATTAAAAATA
1 ATTAATTAAAAA-A
11960417 ATT--TTAAAAAA
1 ATTAATTAAAAAA
11960428 A
1 A
11960429 AAAGCTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 7 0.28
13 12 0.48
14 4 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATTAATTAAAAAA
Found at i:11969023 original size:16 final size:18
Alignment explanation
Indices: 11968990--11969027 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
11968980 TGCAATTTCG
11968990 ATTATAAAATAAATTTTA
1 ATTATAAAATAAATTTTA
* *
11969008 ATTA-AAAATATATTTAA
1 ATTATAAAATAAATTTTA
11969025 ATT
1 ATT
11969028 TGAATATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTATAAAATAAATTTTA
Found at i:11970031 original size:26 final size:26
Alignment explanation
Indices: 11969995--11970071 Score: 100
Period size: 28 Copynumber: 2.9 Consensus size: 26
11969985 GGCTTGGCCC
* *
11969995 ATTTTTAAAATAAACATTAAAAAATT
1 ATTTTAAAAATAAAAATTAAAAAATT
*
11970021 ATTTTAAAAATAAAAAATAAAAAAAATT
1 ATTTTAAAAAT-AAAAAT-TAAAAAATT
*
11970049 ATTTTAAAAATAAAAAATAAAAA
1 ATTTTAAAAATAAAAATTAAAAA
11970072 TAAAAATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
26 15 0.34
27 10 0.23
28 19 0.43
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (26 bp):
ATTTTAAAAATAAAAATTAAAAAATT
Found at i:11970053 original size:28 final size:28
Alignment explanation
Indices: 11970013--11970071 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
11970003 AATAAACATT
11970013 AAAAAATTATTTTAAAAATAAAAAATAA
1 AAAAAATTATTTTAAAAATAAAAAATAA
11970041 AAAAAATTATTTTAAAAATAAAAAATAA
1 AAAAAATTATTTTAAAAATAAAAAATAA
11970069 AAA
1 AAA
11970072 TAAAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (28 bp):
AAAAAATTATTTTAAAAATAAAAAATAA
Found at i:11977528 original size:43 final size:43
Alignment explanation
Indices: 11977476--11977898 Score: 515
Period size: 43 Copynumber: 9.8 Consensus size: 43
11977466 TTTTCTTTAC
* ***
11977476 AACGCCGCTATAGACCATGGTTTTTAGCGGCGCTTACCCCTGA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
* * *
11977519 AACGCCGCTATAGACCATGGCCTTTAGCGGCGCATACCAAACA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
*
11977562 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCAACA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
* * *
11977605 AACGCCACTATAGACCATGGTCTTTTGCGCCGCTTACCCAACA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
* * * ** *
11977648 AACGCTGCTATAGACCATGCTCTATAGCGGCGCTTAGACAAGA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
* * * *
11977691 GACGCCGCTATAGACCATGGTCTTTAACGGCGCTTACGCAAGA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
11977734 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
* * * * *
11977777 AACGCTGCTATAGACCGTGGTCTTTAGCAGCGCTTATCCAATA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
* ** ** *
11977820 AACGCCGCTAAAGATAATGACCTTTAGCGGCGCTTACCGTGAA-A
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACC--CAACA
* *
11977864 AACACCGCTATAGACCATGGTCTTTAGCGGTGCTT
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTT
11977899 TTAGAAAAAC
Statistics
Matches: 321, Mismatches: 57, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
43 290 0.90
44 29 0.09
45 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (43 bp):
AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
Found at i:11978258 original size:21 final size:21
Alignment explanation
Indices: 11978213--11978261 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
11978203 TTTAAGTTGT
*
11978213 TCTGCTTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCA
*
11978234 TCTGCTTCTCTCGCTGTC-GCA
1 TCTGCTTCCCTCGCTG-CAGCA
11978255 TCTGCTT
1 TCTGCTT
11978262 TAAGCTGCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCA
Found at i:11978322 original size:87 final size:87
Alignment explanation
Indices: 11978216--11978414 Score: 285
Period size: 87 Copynumber: 2.3 Consensus size: 87
11978206 AAGTTGTTCT
* * * *
11978216 GCTTCCCTCGCTGCAGCCTCTGCTTCTCTCGCTGTCGCATCTGCTTTAAGCTGCT-GCTGGAGTT
1 GCTTCTCTCGATGCTGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTT
11978280 CTTCATA-CTTTCGTTGAACCTCA
65 CTTCATATCTTT-GTTGAACCTCA
* *
11978303 GCTTCTCTCGTTGCTGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTC
1 GCTTCTCTCGATGCTGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTC
*
11978368 TTCATATCTTTTTTGAACCTCA
66 TTCATATCTTTGTTGAACCTCA
* *
11978390 GCTTCTCTCGATGTTGCCTCCGCTT
1 GCTTCTCTCGATGCTGCCTCTGCTT
11978415 TAAGTTGTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
86 1 0.01
87 96 0.95
88 4 0.04
ACGTcount: A:0.11, C:0.32, G:0.19, T:0.39
Consensus pattern (87 bp):
GCTTCTCTCGATGCTGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTC
TTCATATCTTTGTTGAACCTCA
Found at i:11978327 original size:21 final size:21
Alignment explanation
Indices: 11978298--11978348 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11978288 TTTCGTTGAA
* * *
11978298 CCTCAGCTTCTCTCGTTGCTG
1 CCTCTGCTTCTCTCGCTGCCG
11978319 CCTCTGCTTCTCTCGCTGCCG
1 CCTCTGCTTCTCTCGCTGCCG
*
11978340 CATCTGCTT
1 CCTCTGCTT
11978349 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCCG
Found at i:11983929 original size:15 final size:15
Alignment explanation
Indices: 11983893--11983933 Score: 73
Period size: 16 Copynumber: 2.7 Consensus size: 15
11983883 CGTATTATGT
11983893 AAGTTATGTATTAAA
1 AAGTTATGTATTAAA
11983908 AATGTTATGTATTAAA
1 AA-GTTATGTATTAAA
11983924 AAGTTATGTA
1 AAGTTATGTA
11983934 AGTTACGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (15 bp):
AAGTTATGTATTAAA
Found at i:11983980 original size:18 final size:19
Alignment explanation
Indices: 11983957--11983992 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11983947 TTTAAAATAT
11983957 ATATTA-ATAAGTTATGTC
1 ATATTATATAAGTTATGTC
*
11983975 ATATTATGTAAGTTATGT
1 ATATTATATAAGTTATGT
11983993 ATTAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (19 bp):
ATATTATATAAGTTATGTC
Found at i:11984019 original size:50 final size:50
Alignment explanation
Indices: 11983958--11984113 Score: 184
Period size: 50 Copynumber: 3.3 Consensus size: 50
11983948 TTAAAATATA
11983958 TATTAATAAGTTATGTCATATTATGTAAGTTATGTATTAAAAATGTTATG
1 TATTAATAAGTTATGTCATATTATGTAAGTTATGTATTAAAAATGTTATG
* * * * *
11984008 TATTAATAAGTTATAT-A-AGGTATGT-A-TCAT-T-TT-AAAAT-ATATA
1 TATTAATAAGTTATGTCATA-TTATGTAAGTTATGTATTAAAAATGTTATG
* *
11984051 TATTAATAAGTTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATG
1 TATTAATAAGTTATGTCATATTATGTAAGTTATGTATTAAAAATGTTATG
11984101 TATTAATAAGTTA
1 TATTAATAAGTTA
11984114 CGTAAGTTAT
Statistics
Matches: 85, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
43 18 0.21
44 9 0.11
45 4 0.05
46 4 0.05
47 4 0.05
48 4 0.05
49 11 0.13
50 31 0.36
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (50 bp):
TATTAATAAGTTATGTCATATTATGTAAGTTATGTATTAAAAATGTTATG
Found at i:11984057 original size:43 final size:43
Alignment explanation
Indices: 11984008--11984170 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 43
11983998 AAATGTTATG
* *
11984008 TATTAATAAGTTATATAAGGTATGTATCATTTTAAAATATATA
1 TATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATA
* * * * *
11984051 TATTAATAAGTTATGT-CGTATTATATAAGTTATGTATTAAAAATGTTATG
1 TATTAATAAGTTATGTAAG--TTATGT-A-TCAT-T-TT-AAAAT-ATATA
* *
11984101 TATTAATAAGTTACGTAAGTTATGTATCATTTTAAAAAATATA
1 TATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATA
11984144 TATTAATAAGTTATGTAA-TGTATGTAT
1 TATTAATAAGTTATGTAAGT-TATGTAT
11984171 TATAAATGAG
Statistics
Matches: 95, Mismatches: 15, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 42 0.44
44 8 0.08
45 3 0.03
46 4 0.04
47 4 0.04
48 3 0.03
49 10 0.11
50 18 0.19
51 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (43 bp):
TATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATA
Found at i:11984089 original size:16 final size:15
Alignment explanation
Indices: 11984051--11984113 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 15
11984041 AAAATATATA
11984051 TATTAATAAGTTATGTCG
1 TATTAATAAGTTA--T-G
11984069 TATTATATAAGTTATG
1 TATTA-ATAAGTTATG
*
11984085 TATTAAAAATGTTATG
1 TATTAATAA-GTTATG
11984101 TATTAATAAGTTA
1 TATTAATAAGTTA
11984114 CGTAAGTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.17
16 20 0.49
17 1 0.02
18 5 0.12
19 8 0.20
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.46
Consensus pattern (15 bp):
TATTAATAAGTTATG
Found at i:11984104 original size:93 final size:92
Alignment explanation
Indices: 11983877--11984159 Score: 478
Period size: 93 Copynumber: 3.1 Consensus size: 92
11983867 ATTTATGTTA
* *
11983877 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAAAAAGTTATGTAAGTTACGT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
11983942 ATCATTTT-AAAATATATATTAATAAG
66 ATCATTTTAAAAATATATATTAATAAG
* * *
11983968 TTATGTCATATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATATAAGGTATGT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
11984033 ATCATTTTAAAATATATATATTAATAAG
66 ATCATTTTAAAA-ATATATATTAATAAG
* *
11984061 TTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTACGTAAGTTATGT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
11984126 ATCATTTTAAAAAATATATATTAATAAG
66 ATCATTTT-AAAAATATATATTAATAAG
11984154 TTATGT
1 TTATGT
11984160 AATGTATGTA
Statistics
Matches: 179, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
91 68 0.38
92 3 0.02
93 104 0.58
94 4 0.02
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (92 bp):
TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
ATCATTTTAAAAATATATATTAATAAG
Found at i:11984802 original size:15 final size:15
Alignment explanation
Indices: 11984774--11984809 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
11984764 TTAATAAAAG
*
11984774 GAAAA-AGTAGAAAT
1 GAAAACAGTACAAAT
11984788 GAAAACAGTACAAAT
1 GAAAACAGTACAAAT
11984803 GAAAACA
1 GAAAACA
11984810 AATTGGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.64, C:0.08, G:0.17, T:0.11
Consensus pattern (15 bp):
GAAAACAGTACAAAT
Found at i:11986657 original size:13 final size:14
Alignment explanation
Indices: 11986631--11986666 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
11986621 AATTCAGTTC
11986631 TTATAATATTTTAT
1 TTATAATATTTTAT
11986645 TTATAAT-TTTTAT
1 TTATAATATTTTAT
*
11986658 TTTTAATAT
1 TTATAATAT
11986667 ATTTCTGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATAATATTTTAT
Found at i:11987829 original size:74 final size:73
Alignment explanation
Indices: 11987660--11987907 Score: 424
Period size: 73 Copynumber: 3.4 Consensus size: 73
11987650 ATAACTATCA
*
11987660 TTTGCGGCGTTTGTACCAGAAACGCCGTTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTG
1 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTG
11987725 GTTAAACT
66 GTTAAACT
* *
11987733 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACTAATAAACAGTATACAAAACGAAGTCATTTT
1 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATA-AAAACGAAGTCGTTTT
11987798 GGTTAAACT
65 GGTTAAACT
*
11987807 TTTGCGGCGTTTTTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTG
1 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTG
11987872 GTTAAACT
66 GTTAAACT
* * *
11987880 TTTGCGGCGTTTTTACAATAAACGCCGC
1 TTTGCGGCGTTTGTACCAGAAACGCCGC
11987908 AAATTCGTGC
Statistics
Matches: 166, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
73 96 0.58
74 70 0.42
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (73 bp):
TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTG
GTTAAACT
Done.