Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 131 of 335
Found at i:38942606 original size:25 final size:24
Alignment explanation
Indices: 38942553--38942915 Score: 87
Period size: 25 Copynumber: 14.5 Consensus size: 24
38942543 ATATCATATG
* *
38942553 TATATATT-TTATGTACATACTTT
1 TATATATTATTATGTATATATTTT
*
38942576 TA-ATATTATTATGTATTTATTTT
1 TATATATTATTATGTATATATTTT
*
38942599 TA-ATATATATATATGTATATATTTA
1 TATATAT-TAT-TATGTATATATTTT
* *
38942624 TGTAGTATTATTAATAGTAGT-TTTTTT
1 TATA-TATTATT-AT-GTA-TATATTTT
* * *
38942651 TATATATTACGTATATATATCTTTT
1 TATATATTA-TTATGTATATATTTT
* *
38942676 TA-ATATTGTATT-TTTATATATGTCATG
1 TATATA-T-TATTATGTATATAT-T--TT
*
38942703 TATATATT-TCTAATACTATATTACTTTTTT
1 TATATATTAT-T-AT-GTATA-TA---TTTT
*
38942733 TACATATTACCTTATGTATATATTTT
1 TATATATTA--TTATGTATATATTTT
* *
38942759 TTTAATAACTATATTATGTATGTATTTT
1 TAT-AT-A-T-TATTATGTATATATTTT
*
38942787 TA-ACGCTA-TATTATGTACATA-TTT
1 TATA---TATTATTATGTATATATTTT
* *
38942811 T-TA-A-TACTATGTATATACCTTT
1 TATATATTATTATGTATATA-TTTT
* *
38942833 TATTCCTATTATTACGTATATATTTT
1 TA-T-ATATTATTATGTATATATTTT
* * **
38942859 AATACA-TA-TATGTATATATTCA
1 TATATATTATTATGTATATATTTT
38942881 TATATCATTATTAT-TAGT-TATTTT
1 TATAT-ATTATTATGTA-TATATTTT
38942905 T-TATATTATTA
1 TATATATTATTA
38942916 CTGTTTTCAA
Statistics
Matches: 252, Mismatches: 42, Indels: 93
0.65 0.11 0.24
Matches are distributed among these distances:
20 12 0.05
22 30 0.12
23 26 0.10
24 30 0.12
25 43 0.17
26 28 0.11
27 31 0.12
28 22 0.09
29 8 0.03
30 16 0.06
31 2 0.01
32 2 0.01
33 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.06, T:0.56
Consensus pattern (24 bp):
TATATATTATTATGTATATATTTT
Found at i:38942623 original size:23 final size:22
Alignment explanation
Indices: 38942574--38942623 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
38942564 TGTACATACT
*
38942574 TTTAATATTATTATGTATTTATT
1 TTTAATATTATTATGTA-TTATA
38942597 TTTAATATATATATATGTA-TATA
1 TTTAATAT-TAT-TATGTATTATA
38942620 TTTA
1 TTTA
38942624 TGTAGTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 15 0.62
24 3 0.12
25 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTAATATTATTATGTATTATA
Found at i:38946191 original size:10 final size:10
Alignment explanation
Indices: 38946176--38946207 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
38946166 TAAATACATT
38946176 TAATTAAAGA
1 TAATTAAAGA
38946186 TAATTAAAGA
1 TAATTAAAGA
38946196 TAATTAAA-A
1 TAATTAAAGA
38946205 TAA
1 TAA
38946208 AATTCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:38946252 original size:15 final size:15
Alignment explanation
Indices: 38946232--38946261 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38946222 ATAATCCTAA
*
38946232 TAATTATCTTAATAT
1 TAATTATCCTAATAT
38946247 TAATTATCCTAATAT
1 TAATTATCCTAATAT
38946262 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:38947147 original size:23 final size:23
Alignment explanation
Indices: 38947116--38947169 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
38947106 AATTAATTAC
38947116 TAACTAATGCCACCTTTATTGACT
1 TAAC-AATGCCACCTTTATTGACT
38947140 TAACAATGCCACCTTTATTGACT
1 TAACAATGCCACCTTTATTGACT
38947163 TAACAAT
1 TAACAAT
38947170 CTCTTGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.35
Consensus pattern (23 bp):
TAACAATGCCACCTTTATTGACT
Found at i:38949846 original size:57 final size:59
Alignment explanation
Indices: 38949727--38949847 Score: 167
Period size: 60 Copynumber: 2.1 Consensus size: 59
38949717 TTGTTATTAA
* *
38949727 ATTTTAATAAAATTATTATTAAGTATAATTTAATAAAAATAAAATAAATTAATTAATCAT
1 ATTTTAACAAAATTATTATTAAATATAATTTAATAAAAATAAAATAAATT-ATTAATCAT
* *
38949787 ATTTTAACATAATTATTATTAAATATAATTTAAT-AAAATAATATATAA-T-TTAATCAT
1 ATTTTAACAAAATTATTATTAAATATAATTTAATAAAAATAAAATA-AATTATTAATCAT
38949844 ATTT
1 ATTT
38949848 CAATTTATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
57 12 0.21
59 11 0.20
60 33 0.59
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (59 bp):
ATTTTAACAAAATTATTATTAAATATAATTTAATAAAAATAAAATAAATTATTAATCAT
Found at i:38976951 original size:13 final size:13
Alignment explanation
Indices: 38976933--38976958 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38976923 GGTTTCGACA
38976933 ACCACACATGCAC
1 ACCACACATGCAC
38976946 ACCACACATGCAC
1 ACCACACATGCAC
38976959 GGAGAAAAAC
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:0.46, G:0.08, T:0.08
Consensus pattern (13 bp):
ACCACACATGCAC
Found at i:38979367 original size:19 final size:19
Alignment explanation
Indices: 38979345--38979416 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
38979335 TAAAAATTAG
38979345 AAAAAAATATAAAAATCGT
1 AAAAAAATATAAAAATCGT
* * * *
38979364 AAAAATATATATAATTTGT
1 AAAAAAATATAAAAATCGT
***
38979383 AAAATTTTATAAAAATCGT
1 AAAAAAATATAAAAATCGT
*
38979402 AAAACAATTATAAAA
1 AAAA-AAATATAAAA
38979417 TATAAAAAAT
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
19 33 0.80
20 8 0.20
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAAAATATAAAAATCGT
Found at i:38979864 original size:85 final size:85
Alignment explanation
Indices: 38979765--38979928 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 85
38979755 AAGAGTAGGA
* * *
38979765 GTTTAATTGCTTTTTTGAAA-AATTTTAAG-GGTCTTTTTGATGCATTTTGAAAGTTCAAGAGCC
1 GTTTAATTGCTTTTTT-AAAGAAATTTAAGAGCT-TTTTTGATGCATTCTGAAAGTTCAAGAGCC
*
38979828 CAATTGAGTGAAAAAATTAAGG
64 CAATTAAGTGAAAAAATTAAGG
* * * ** *
38979850 GTTTAATTGTTTTTTTAAAGAAATTTGAGAGCTTTTTTGATGCATTCTGAAAGTTTAATTGCTCA
1 GTTTAATTGCTTTTTTAAAGAAATTTAAGAGCTTTTTTGATGCATTCTGAAAGTTCAAGAGCCCA
38979915 ATTAAGTGAAAAAA
66 ATTAAGTGAAAAAA
38979929 AAAGAGAGGC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 3 0.04
85 62 0.93
86 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (85 bp):
GTTTAATTGCTTTTTTAAAGAAATTTAAGAGCTTTTTTGATGCATTCTGAAAGTTCAAGAGCCCA
ATTAAGTGAAAAAATTAAGG
Found at i:38982453 original size:31 final size:31
Alignment explanation
Indices: 38982406--38982480 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
38982396 TTTTAATGAT
* *
38982406 AGAGTTACT-AAATTGACAACTTATCTAATA
1 AGAGTGACTAAAATTGACAACTTATCTAACA
38982436 AGAGTGACTAAAATTGACAACTTATCTAACA
1 AGAGTGACTAAAATTGACAACTTATCTAACA
*
38982467 TGAGTGACTAAAAT
1 AGAGTGACTAAAAT
38982481 AGTAAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 8 0.20
31 33 0.80
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (31 bp):
AGAGTGACTAAAATTGACAACTTATCTAACA
Found at i:38989276 original size:2 final size:2
Alignment explanation
Indices: 38989269--38989296 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38989259 TAACTAACTT
38989269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38989297 AGAGAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38992033 original size:3 final size:3
Alignment explanation
Indices: 38992013--38992080 Score: 97
Period size: 3 Copynumber: 23.3 Consensus size: 3
38992003 CTGAAGGAAG
*
38992013 GAA GAAA GAA GGA GAA GAA GAA -AA GAA G-A GAA GAA G-A GAA GAA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
38992056 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
38992081 GAGGAGGAGG
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
2 6 0.10
3 50 0.85
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:38992257 original size:15 final size:18
Alignment explanation
Indices: 38992233--38992268 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
38992223 AATTTATTTA
38992233 TTTTAGTTGTT-ATT-AT
1 TTTTAGTTGTTGATTGAT
38992249 TTTTA-TTGTTGATTGAT
1 TTTTAGTTGTTGATTGAT
38992266 TTT
1 TTT
38992269 GAATTAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.28
16 8 0.44
17 5 0.28
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (18 bp):
TTTTAGTTGTTGATTGAT
Found at i:38992594 original size:16 final size:15
Alignment explanation
Indices: 38992571--38992647 Score: 73
Period size: 16 Copynumber: 4.9 Consensus size: 15
38992561 ACAAAAATAG
38992571 TATAAAAAAATAAAA
1 TATAAAAAAATAAAA
***
38992586 TACTAAAAAAATATCT
1 TA-TAAAAAAATAAAA
*
38992602 TAATGAAAAAATAAAA
1 T-ATAAAAAAATAAAA
38992618 TATGAAAAGAAATAAAA
1 TAT-AAAA-AAATAAAA
*
38992635 TATGAAAAAATAA
1 TATAAAAAAATAA
38992648 CTTTTTGGGG
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
15 10 0.20
16 27 0.55
17 12 0.24
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (15 bp):
TATAAAAAAATAAAA
Found at i:38992630 original size:17 final size:17
Alignment explanation
Indices: 38992610--38992642 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38992600 CTTAATGAAA
38992610 AAATAAAATATGAAAAG
1 AAATAAAATATGAAAAG
38992627 AAATAAAATATGAAAA
1 AAATAAAATATGAAAA
38992643 AATAACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (17 bp):
AAATAAAATATGAAAAG
Found at i:38995172 original size:33 final size:32
Alignment explanation
Indices: 38995125--38995240 Score: 153
Period size: 33 Copynumber: 3.5 Consensus size: 32
38995115 ATCTTTGGAT
*
38995125 CGTATCCACTGCAGTACAGCACTACCCTCGACC
1 CGTATCCACCGCAGTACAGCACTACCC-CGACC
* *
38995158 CGTATCCATCGCAGTACAGCACTACCCCTGGCC
1 CGTATCCACCGCAGTACAGCACTACCCC-GACC
*
38995191 CGAATCCACCGCAGTACAGCACTACTCCC-AGCC
1 CGTATCCACCGCAGTACAGCACTAC-CCCGA-CC
38995224 CGTATCCACCGCAGTAC
1 CGTATCCACCGCAGTAC
38995241 TCCACTCCTT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
32 1 0.01
33 69 0.95
34 3 0.04
ACGTcount: A:0.24, C:0.43, G:0.16, T:0.16
Consensus pattern (32 bp):
CGTATCCACCGCAGTACAGCACTACCCCGACC
Found at i:39001685 original size:2 final size:2
Alignment explanation
Indices: 39001678--39001709 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
39001668 ATACACATAA
39001678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
39001710 AAAAAAGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39002290 original size:3 final size:3
Alignment explanation
Indices: 39002284--39002310 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
39002274 ACTACTATAT
39002284 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
39002311 GTGTATACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:39002473 original size:19 final size:20
Alignment explanation
Indices: 39002449--39002486 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
39002439 TTTATAATAC
39002449 TATTATTAT-AATCTTATTT
1 TATTATTATCAATCTTATTT
*
39002468 TATTATTATCATTCTTATT
1 TATTATTATCAATCTTATT
39002487 AATACATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTATTATCAATCTTATTT
Found at i:39002529 original size:15 final size:16
Alignment explanation
Indices: 39002499--39002531 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
39002489 TACATTGTTG
39002499 TTATTTTACCATATTA
1 TTATTTTACCATATTA
*
39002515 TTATTTTA-TATATTA
1 TTATTTTACCATATTA
39002530 TT
1 TT
39002532 GCTGTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTTTACCATATTA
Found at i:39002765 original size:23 final size:23
Alignment explanation
Indices: 39002738--39002791 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
39002728 TTCTTATTTC
**
39002738 TTATATTACTAGTTATATATATT
1 TTATATTACTACATATATATATT
* *
39002761 TTATATTACTTCATGTATATATT
1 TTATATTACTACATATATATATT
39002784 TTATATTA
1 TTATATTA
39002792 TCCTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (23 bp):
TTATATTACTACATATATATATT
Found at i:39003692 original size:21 final size:22
Alignment explanation
Indices: 39003663--39003710 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
39003653 ATTAATGTAT
* *
39003663 TTTATTATACATGTA-TATATC
1 TTTAATATACATATAGTATATC
*
39003684 TTTAATATATATATAGGTATATC
1 TTTAATATACATATA-GTATATC
39003707 TTTA
1 TTTA
39003711 TATTAGTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 12 0.55
23 10 0.45
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (22 bp):
TTTAATATACATATAGTATATC
Found at i:39003896 original size:21 final size:20
Alignment explanation
Indices: 39003865--39003903 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
39003855 TATACGTACC
39003865 ATATACATATTTCGAATATT
1 ATATACATATTTCGAATATT
*
39003885 ATATAGCATATTTCTAATA
1 ATATA-CATATTTCGAATA
39003904 CTATTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (20 bp):
ATATACATATTTCGAATATT
Found at i:39006485 original size:26 final size:26
Alignment explanation
Indices: 39006449--39006558 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
39006439 TGATACAAAT
39006449 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
39006475 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
39006501 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
39006527 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
39006553 TGATAA
1 TGATAA
39006559 GAATATCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:39008947 original size:64 final size:64
Alignment explanation
Indices: 39008874--39009084 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
39008864 CTGGGCCAGA
*
39008874 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
39008938 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
39009000 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
39009011 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
39009075 GCCCATTTCA
1 GCCCATTTCA
39009085 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:39009086 original size:137 final size:136
Alignment explanation
Indices: 39008840--39009125 Score: 536
Period size: 137 Copynumber: 2.1 Consensus size: 136
39008830 CATTGGGCCT
**
39008840 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
39008905 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
39008970 CATATGC
130 CATATGC
39008977 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
39009042 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
39009107 ATATGC
131 ATATGC
39009113 AAGCCCATTTGGG
1 AAGCCCATTTGGG
39009126 GAGACTACTC
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 22 0.15
137 124 0.85
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:39010975 original size:26 final size:26
Alignment explanation
Indices: 39010906--39011040 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
39010896 ACATGAATTC
*
39010906 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
39010932 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
39010957 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
39010983 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
39011009 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
39011035 TTATCA
1 TTATCA
39011041 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 24 0.24
26 78 0.76
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:39015040 original size:137 final size:136
Alignment explanation
Indices: 39014794--39015079 Score: 518
Period size: 137 Copynumber: 2.1 Consensus size: 136
39014784 CATTGGGCCT
** *
39014794 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
39014859 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
39014924 CATATGC
130 CATATGC
*
39014931 AAGCCCATTTGGGTAACAGTGGTACTGGGTAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
39014996 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
39015061 ATATGC
131 ATATGC
39015067 AAGCCCATTTGGG
1 AAGCCCATTTGGG
39015080 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 22 0.15
137 122 0.85
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:39016933 original size:26 final size:26
Alignment explanation
Indices: 39016864--39016998 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
39016854 CATGATATTC
*
39016864 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
39016890 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
39016915 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
39016941 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
39016967 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
39016993 TTATCA
1 TTATCA
39016999 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 24 0.24
26 78 0.76
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:39017792 original size:137 final size:137
Alignment explanation
Indices: 39017545--39017831 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
39017535 GAGTAGTCTC
*
39017545 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCTTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
39017610 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATATGAAAAGGGCTCTAGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATATGAAAAGGGCTCTAGCCCAGTACC
39017675 ACTGTTA
131 ACTGTTA
39017682 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
39017747 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGTCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATATGAAAAGGGCTCTAGCCCAGTACC
39017812 ACTGTTA
131 ACTGTTA
**
39017819 CCTGAATGGGCTT
1 CCCAAATGGGCTT
39017832 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATATGAAAAGGGCTCTAGCCCAGTACC
ACTGTTA
Found at i:39019113 original size:22 final size:22
Alignment explanation
Indices: 39019085--39019126 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
39019075 TTGAAAATGA
39019085 ATTGATTCT-TTATTATTTTTGG
1 ATTGATT-TGTTATTATTTTTGG
*
39019107 ATTGATTTGTTTTTATTTTT
1 ATTGATTTGTTATTATTTTT
39019127 TAATTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.69
Consensus pattern (22 bp):
ATTGATTTGTTATTATTTTTGG
Found at i:39020764 original size:4 final size:4
Alignment explanation
Indices: 39020757--39020786 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
39020747 ACACGCAAGC
*
39020757 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
39020787 TGGTAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:39021274 original size:19 final size:17
Alignment explanation
Indices: 39021250--39021286 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
39021240 AAAATAGACA
39021250 TAACAATAATATGATATAT
1 TAACAAT-ATAT-ATATAT
39021269 TAACAATATATATATAT
1 TAACAATATATATATAT
39021286 T
1 T
39021287 TATATGATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (17 bp):
TAACAATATATATATAT
Found at i:39021501 original size:21 final size:23
Alignment explanation
Indices: 39021475--39021523 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
39021465 AGGTATTACA
*
39021475 TAAAAATATATACAT-AT-ATAT
1 TAAAAATAAATACATGATAATAT
*
39021496 TAAAAATAAATATATGATAATAT
1 TAAAAATAAATACATGATAATAT
39021519 TAAAA
1 TAAAA
39021524 GTATGTGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.54
22 2 0.08
23 9 0.38
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAAAATAAATACATGATAATAT
Found at i:39022552 original size:26 final size:26
Alignment explanation
Indices: 39022516--39022755 Score: 399
Period size: 26 Copynumber: 9.2 Consensus size: 26
39022506 TGATACAAAT
*
39022516 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
39022542 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
39022568 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
39022594 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
39022620 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
39022646 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
39022672 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
39022698 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
39022724 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
39022750 TAATAA
1 TGATAA
39022756 GAATTTCATG
Statistics
Matches: 208, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 208 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:39024222 original size:27 final size:26
Alignment explanation
Indices: 39024192--39024251 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
39024182 AAAAGTAGCT
*
39024192 AAATTACTATAATACCCCTATGTATGA
1 AAATTACTATAATACCCCTAGGTAT-A
* * *
39024219 AAATTACTGTTATACCCCTAGGTGTA
1 AAATTACTATAATACCCCTAGGTATA
39024245 AAATTAC
1 AAATTAC
39024252 CGTTATACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (26 bp):
AAATTACTATAATACCCCTAGGTATA
Found at i:39024256 original size:26 final size:27
Alignment explanation
Indices: 39024203--39024266 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
39024193 AATTACTATA
* *
39024203 ATACCCCTATGTATGAAAATTACTGTT
1 ATACCCCTAGGTATGAAAATTACCGTT
*
39024230 ATACCCCTAGGTGT-AAAATTACCGTT
1 ATACCCCTAGGTATGAAAATTACCGTT
*
39024256 ATACCCGTAGG
1 ATACCCCTAGG
39024267 GTTAATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (27 bp):
ATACCCCTAGGTATGAAAATTACCGTT
Found at i:39024410 original size:27 final size:27
Alignment explanation
Indices: 39024369--39024508 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
39024359 GAGAAAGCGT
*
39024369 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
39024396 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
39024423 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
39024450 TCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
39024478 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
39024504 TCTGG
1 TCTGG
39024509 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 81 0.81
28 14 0.14
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:39024454 original size:54 final size:55
Alignment explanation
Indices: 39024369--39024508 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
39024359 GAGAAAGCGT
* * * *
39024369 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
* *
39024423 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
* *
39024478 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
39024509 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 59 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
Found at i:39026966 original size:43 final size:43
Alignment explanation
Indices: 39026896--39027045 Score: 203
Period size: 43 Copynumber: 3.5 Consensus size: 43
39026886 CGCCTTCGAT
* * *
39026896 CTGTTTCCCTACTGCTTAAGGG-GTTAAGATCTGTGAATTTAAC
1 CTGTTTCCCTACTGC-TAAGGGATTTAAGGTCTGTAAATTTAAC
*
39026939 CTGTTTCCCTACTGCTCAGGGATTTAAGGTCTGTAAATTTAAC
1 CTGTTTCCCTACTGCTAAGGGATTTAAGGTCTGTAAATTTAAC
**
39026982 CTGTTTCCCTACTGCTAAGGGATTTAAGGTCTGTAAATTTGGC
1 CTGTTTCCCTACTGCTAAGGGATTTAAGGTCTGTAAATTTAAC
* * *
39027025 TTGTTACCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTAAGGG
39027046 GGTTAAGCCC
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 5 0.05
43 91 0.95
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (43 bp):
CTGTTTCCCTACTGCTAAGGGATTTAAGGTCTGTAAATTTAAC
Found at i:39027072 original size:86 final size:85
Alignment explanation
Indices: 39026849--39027098 Score: 261
Period size: 86 Copynumber: 2.9 Consensus size: 85
39026839 TATGAACGTC
* **
39026849 AGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTCGCCTTCGATCTGTTTCCCTACTGCTTA
1 AGCTTGTTACCCTACTGCTTAGGGAGTT-AAGCCCGTCATCTTCGATCTGTTTCCCTACTGC-TA
*
39026914 AGGGGTTAAGATCTGTGAATTT
64 AGGGGTTAAGATCTGTAAATTT
* * * * * * * * * *
39026936 AACCTGTTTCCCTACTGCTCAGGGATTTAAGGTCTGTAAAT-TT-AACCTGTTTCCCTACTGCTA
1 AGCTTGTTACCCTACTGCTTAGGGAGTTAA-GCCCGT-CATCTTCGATCTGTTTCCCTACTGCTA
* *
39026999 AGGGATTTAAGGTCTGTAAATTT
64 AGGG-GTTAAGATCTGTAAATTT
* * * *
39027022 GGCTTGTTACCCTACTGCTTAGGGGGTTAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAG
1 AGCTTGTTACCCTACTGCTTAGGGAGTTAAGCCCGTCATCTTCGATCTGTTTCCCTACTGCTAAG
39027087 GGGTTAAGATCT
66 GGGTTAAGATCT
39027099 TATAAATTCA
Statistics
Matches: 126, Mismatches: 32, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
84 2 0.02
85 19 0.15
86 77 0.61
87 28 0.22
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (85 bp):
AGCTTGTTACCCTACTGCTTAGGGAGTTAAGCCCGTCATCTTCGATCTGTTTCCCTACTGCTAAG
GGGTTAAGATCTGTAAATTT
Found at i:39027105 original size:86 final size:86
Alignment explanation
Indices: 39026811--39027106 Score: 258
Period size: 86 Copynumber: 3.4 Consensus size: 86
39026801 TTTGATCTAC
* * ** *
39026811 TTCCCTACTGCTTAGGGTGATAAGATCTTATGAACGTCAGCTTGTTACCCTACTGCTTAGGGAGT
1 TTCCCTACTGCTTAGGGAGTTAAGATC-TAT-AAATTTAGCTTGTTACCCTACTGCTTAGGGAGT
* **
39026876 TAAAGCTCGTCGCCTTCGATCTGT
64 T-AAGCCCGTCATCTTCGATCTGT
* * * * * * *
39026900 TTCCCTACTGCTTAAGGG-GTTAAGATCTGTGAATTTAACCTGTTTCCCTACTGCTCAGGGATTT
1 TTCCCTACTGCTT-AGGGAGTTAAGATCTATAAATTTAGCTTGTTACCCTACTGCTTAGGGAGTT
* * * * *
39026964 AAGGTCTGTAAAT-TT-AACCTGT
65 AA-GCCCGT-CATCTTCGATCTGT
* * * * * *
39026986 TTCCCTACTGCTAAGGGATTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTA
1 TTCCCTACTGCTTAGGGAGTTAAGATCTATAAATTTAGCTTGTTACCCTACTGCTTAGGGAGTTA
*
39027051 AGCCCATCATCTTCGATCTGT
66 AGCCCGTCATCTTCGATCTGT
39027072 TTCCCTACTGCTTAGGG-GTTAAGATCTTATAAATT
1 TTCCCTACTGCTTAGGGAGTTAAGATC-TATAAATT
39027107 CAGTCTGCTC
Statistics
Matches: 160, Mismatches: 40, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
84 2 0.01
85 16 0.10
86 85 0.53
87 30 0.19
88 2 0.01
89 21 0.13
90 4 0.03
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (86 bp):
TTCCCTACTGCTTAGGGAGTTAAGATCTATAAATTTAGCTTGTTACCCTACTGCTTAGGGAGTTA
AGCCCGTCATCTTCGATCTGT
Found at i:39039304 original size:4 final size:4
Alignment explanation
Indices: 39039297--39039326 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
39039287 ACACGCAAGC
*
39039297 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
39039327 TGGTAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:39040048 original size:21 final size:23
Alignment explanation
Indices: 39040022--39040070 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
39040012 AGGTATTACA
*
39040022 TAAAAATATATACAT-AT-ATAT
1 TAAAAATAAATACATGATAATAT
*
39040043 TAAAAATAAATATATGATAATAT
1 TAAAAATAAATACATGATAATAT
39040066 TAAAA
1 TAAAA
39040071 GTATGTGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.54
22 2 0.08
23 9 0.38
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAAAATAAATACATGATAATAT
Found at i:39040282 original size:2 final size:2
Alignment explanation
Indices: 39040275--39040300 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
39040265 ACTTTATGAC
39040275 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
39040301 GAGTATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39053755 original size:2 final size:2
Alignment explanation
Indices: 39053750--39053791 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
39053740 TTTTTACACG
39053750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39053792 AAAGAGGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39053908 original size:43 final size:43
Alignment explanation
Indices: 39053860--39053948 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
39053850 CAATGAAAAG
*
39053860 TATGATTTGGAACTAATTAATAGTAATACATGAGTATATACCA
1 TATGATTTGGAACTAATTAATAGTAATACATGAATATATACCA
* *
39053903 TATGATTTGGAACTAATTAATAGTAATCCATGAATATATACTA
1 TATGATTTGGAACTAATTAATAGTAATACATGAATATATACCA
39053946 TAT
1 TAT
39053949 TAAAATAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (43 bp):
TATGATTTGGAACTAATTAATAGTAATACATGAATATATACCA
Found at i:39056181 original size:2 final size:2
Alignment explanation
Indices: 39056174--39056200 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
39056164 AAACACCTAC
39056174 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
39056201 TAAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39056476 original size:77 final size:77
Alignment explanation
Indices: 39056389--39056554 Score: 314
Period size: 77 Copynumber: 2.2 Consensus size: 77
39056379 AAATAATTGA
*
39056389 ATTTCTATTCAATTTACACCTTATTTTCAATTAGGTCCTAGCTGATTCAATCACTTTACTAACTT
1 ATTTCTATTCAATTTACACCTTATTTTCAATTAGGTCCTAACTGATTCAATCACTTTACTAACTT
39056454 AATTCATACTCT
66 AATTCATACTCT
*
39056466 ATTTCTATTCAATTTACACCTTATTTTCAATTAGGTCCTAACTGATTCATTCACTTTACTAACTT
1 ATTTCTATTCAATTTACACCTTATTTTCAATTAGGTCCTAACTGATTCAATCACTTTACTAACTT
39056531 AATTCATACTCT
66 AATTCATACTCT
39056543 ATTTCTATTCAA
1 ATTTCTATTCAA
39056555 GTTCCATCCA
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 87 1.00
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (77 bp):
ATTTCTATTCAATTTACACCTTATTTTCAATTAGGTCCTAACTGATTCAATCACTTTACTAACTT
AATTCATACTCT
Found at i:39057769 original size:28 final size:28
Alignment explanation
Indices: 39057737--39057792 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
39057727 CCCTATGATA
**
39057737 GTATGTGTGAGGCCGTGTGCGAACCCTT
1 GTATGTGTGAACCCGTGTGCGAACCCTT
* *
39057765 GTATGTGTTAACCCGTGTGTGAACCCTT
1 GTATGTGTGAACCCGTGTGCGAACCCTT
39057793 AGGTTAGTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.32
Consensus pattern (28 bp):
GTATGTGTGAACCCGTGTGCGAACCCTT
Found at i:39057870 original size:26 final size:26
Alignment explanation
Indices: 39057841--39057890 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
39057831 TGTGAGACCT
*
39057841 TAGTGT-TAGAACCCTTAAGTGCGAGC
1 TAGTGTGT-GAACCCCTAAGTGCGAGC
*
39057867 TAGTGTGTGAACCCCTATGTGCGA
1 TAGTGTGTGAACCCCTAAGTGCGA
39057891 ACCCTTATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (26 bp):
TAGTGTGTGAACCCCTAAGTGCGAGC
Found at i:39057892 original size:14 final size:14
Alignment explanation
Indices: 39057870--39057969 Score: 51
Period size: 14 Copynumber: 7.3 Consensus size: 14
39057860 TGCGAGCTAG
*
39057870 TGTGTGAACCCCTA
1 TGTGCGAACCCCTA
39057884 TGTGCGAA-CCCT-
1 TGTGCGAACCCCTA
* * **
39057896 TATGCAAACCTGTA
1 TGTGCGAACCCCTA
*
39057910 TGTGCGAACTCCTA
1 TGTGCGAACCCCTA
* ** *
39057924 CGTGTAAACCCTTA
1 TGTGCGAACCCCTA
* ***
39057938 TGTGTGAACTTGTA
1 TGTGCGAACCCCTA
*
39057952 TGTGCAAACCCCTA
1 TGTGCGAACCCCTA
39057966 TGTG
1 TGTG
39057970 TGAGCTCTAG
Statistics
Matches: 59, Mismatches: 25, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
12 6 0.10
13 6 0.10
14 47 0.80
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (14 bp):
TGTGCGAACCCCTA
Found at i:39057960 original size:28 final size:28
Alignment explanation
Indices: 39057898--39058027 Score: 86
Period size: 28 Copynumber: 4.6 Consensus size: 28
39057888 CGAACCCTTA
* ** *
39057898 TGCAAA-CCTGTATGTGCGAACTCCTACG
1 TGCAAACCCT-TATGTGTGAACTTGTATG
*
39057926 TGTAAACCCTTATGTGTGAACTTGTATG
1 TGCAAACCCTTATGTGTGAACTTGTATG
* * *
39057954 TGCAAACCCCTATGTGTGAGCTCTAGGTGTG
1 TGCAAACCCTTATGTGTGAACT-T--GTATG
** ** *
39057985 TG--AACCCTTATACGCAAACCTGTATG
1 TGCAAACCCTTATGTGTGAACTTGTATG
39058011 TGCAAACCCTTATGTGT
1 TGCAAACCCTTATGTGT
39058028 CAACCCTATA
Statistics
Matches: 76, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
26 6 0.08
28 49 0.64
29 15 0.20
31 6 0.08
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (28 bp):
TGCAAACCCTTATGTGTGAACTTGTATG
Found at i:39059985 original size:18 final size:19
Alignment explanation
Indices: 39059958--39060008 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
39059948 TGTTTGCAGA
39059958 ATTT-TATTATTTTTATAT
1 ATTTATATTATTTTTATAT
**
39059976 -TTTATATTATTAATA-AT
1 ATTTATATTATTTTTATAT
39059993 ATTTATA-TATTTTTAT
1 ATTTATATTATTTTTAT
39060009 GAATCTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTATATTATTTTTATAT
Found at i:39060003 original size:27 final size:27
Alignment explanation
Indices: 39059968--39060031 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
39059958 ATTTTATTAT
*
39059968 TTTTATATTTTATAT-TAT-TAATAATA
1 TTTTATATTTT-TATGAATCTAATAATA
39059994 TTTATATATTTTTATGAATCTAATAATA
1 TTT-TATATTTTTATGAATCTAATAATA
39060022 TTTTATATTT
1 TTTTATATTT
39060032 AATAATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
26 6 0.18
27 17 0.50
28 11 0.32
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTATATTTTTATGAATCTAATAATA
Found at i:39062507 original size:226 final size:217
Alignment explanation
Indices: 39062112--39062515 Score: 504
Period size: 226 Copynumber: 1.8 Consensus size: 217
39062102 GAAGTTGTCG
* * * * * *
39062112 AAATTATGATATAATGTTGAAAATTTTAAATTTTTTTGGTTAAAGAACTGGTTTTAGGTGAGGAA
1 AAATTATGATATAAGGTTCAAAAATTTAAATTTTTTTGGTTAAAGAACTGATATTAGGTGAAGAA
* * * *
39062177 TTTATTTGAATTTATATTTTAAAAGCTCCAATTTTAAAGAAAATGTAAGATGCTTGATCTCAATA
66 TTTATATGAATTTAGATTATAAAAGCTCCAATTTTAAAGAAAATGCAAGATGCTTGATCTCAATA
* * *
39062242 TTTTAATTTTATTTTGTTTGATTTGGATTCTTGTGAGCTTGTTTATTTAAATTTTTTTTCTTTTG
131 TTTTAATTTTATTTTGTTTAATTTGGATTATTGTGAGCTTATTTATTTAAATTTTTTTTCTTTTG
39062307 GGTTAAATTGGCTTCTTTTGTT
196 GGTTAAATTGGCTTCTTTTGTT
** *
39062329 AAATTATGATATGCGGTTCAAAAATTTAAGTTTTTTTGGGTTAAAGAACTGATATTAGGT-AAGA
1 AAATTATGATATAAGGTTCAAAAATTTAAATTTTTTT-GGTTAAAGAACTGATATTAGGTGAAGA
* *
39062393 ATATATATATGAGTTTAGATTATAAAAGCTCCTATTGTTTAAAAAAGAAAAGTTGCAAGATGCTT
65 AT-T-TATATGAATTTAGATTATAAAAGCTCC-AAT-TTT---AAAGAAAA--TGCAAGATGCTT
* * * * *
39062458 GATCTTAATATTTTTATTTTGTTTTGTTTAATTTGGCTTATTTTGAGCTTATTTATTT
121 GATCTCAATATTTTAATTTTATTTTGTTTAATTTGGATTATTGTGAGCTTATTTATTT
39062516 GGATTTATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
217 36 0.23
218 21 0.14
219 23 0.15
220 2 0.01
221 3 0.02
224 8 0.05
226 61 0.40
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.48
Consensus pattern (217 bp):
AAATTATGATATAAGGTTCAAAAATTTAAATTTTTTTGGTTAAAGAACTGATATTAGGTGAAGAA
TTTATATGAATTTAGATTATAAAAGCTCCAATTTTAAAGAAAATGCAAGATGCTTGATCTCAATA
TTTTAATTTTATTTTGTTTAATTTGGATTATTGTGAGCTTATTTATTTAAATTTTTTTTCTTTTG
GGTTAAATTGGCTTCTTTTGTT
Found at i:39068986 original size:28 final size:26
Alignment explanation
Indices: 39068939--39068991 Score: 61
Period size: 28 Copynumber: 2.0 Consensus size: 26
39068929 AATTAATTAA
*
39068939 AATTTTAAAAATTAAAAAAAGAAATT
1 AATTTTAAAAAATAAAAAAAGAAATT
* *
39068965 AATTATTAAAATAATAATAAAATAAAT
1 AATT-TTAAAA-AATAAAAAAAGAAAT
39068992 CATGCAAGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 6 0.27
28 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (26 bp):
AATTTTAAAAAATAAAAAAAGAAATT
Found at i:39069153 original size:41 final size:37
Alignment explanation
Indices: 39069108--39069185 Score: 86
Period size: 41 Copynumber: 2.0 Consensus size: 37
39069098 ATAATTATAT
39069108 TATATAAAAATAAGAAC-ATGAAATCATAATAATTTTATTAA
1 TATATAAAAAT-AGAACAAT-AAAT-A-AATAA-TTTATTAA
**
39069149 TATATATTAATAGAACAATAAATAAATAATTTATTAA
1 TATATAAAAATAGAACAATAAATAAATAATTTATTAA
39069186 ACAAGTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
37 8 0.24
38 5 0.15
39 1 0.03
40 9 0.26
41 11 0.32
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (37 bp):
TATATAAAAATAGAACAATAAATAAATAATTTATTAA
Found at i:39070250 original size:26 final size:25
Alignment explanation
Indices: 39070208--39070269 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
39070198 TTTTACCTAG
39070208 TAAAATTTTGACAATTTTACCCCCAA
1 TAAAATTTTGACAA-TTTACCCCCAA
** * * *
39070234 TAAAATTTTGATGATTTATCCTCGA
1 TAAAATTTTGACAATTTACCCCCAA
39070259 TAAAATTTTGA
1 TAAAATTTTGA
39070270 GAAAATTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 19 0.61
26 12 0.39
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (25 bp):
TAAAATTTTGACAATTTACCCCCAA
Found at i:39073657 original size:41 final size:39
Alignment explanation
Indices: 39073604--39073692 Score: 133
Period size: 41 Copynumber: 2.2 Consensus size: 39
39073594 ATTGGGTAAT
*
39073604 TCGAAGTAATAAATTGACACCCAATGTCTCATCGAATAAA
1 TCGAAGTAATAAATTGACACACAATGTCTCATCG-ATAAA
* *
39073644 TCTGAAGTAATAAATTGACACACAATGTCTCATTGGTAAA
1 TC-GAAGTAATAAATTGACACACAATGTCTCATCGATAAA
39073684 TCGAAGTAA
1 TCGAAGTAA
39073693 ATTGGAACCC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 7 0.16
40 8 0.18
41 30 0.67
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (39 bp):
TCGAAGTAATAAATTGACACACAATGTCTCATCGATAAA
Found at i:39074465 original size:46 final size:47
Alignment explanation
Indices: 39074405--39074572 Score: 225
Period size: 46 Copynumber: 3.6 Consensus size: 47
39074395 TTTGACGTGA
* * * *
39074405 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
* *
39074451 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
* * *
39074497 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
*
39074543 TTCCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
39074573 ACATCTCATG
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 5 0.05
46 103 0.95
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
Found at i:39074599 original size:75 final size:75
Alignment explanation
Indices: 39074514--39074656 Score: 268
Period size: 75 Copynumber: 1.9 Consensus size: 75
39074504 GTATCTTTCA
*
39074514 ACCATGGTCTTACACATCTCATATCAGGTTTCCATGGTATCTTTCAACCATGGTCTTACACATCT
1 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCT
39074579 CATGGCAACC
66 CATGGCAACC
*
39074589 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCT
39074654 CAT
66 CAT
39074657 ATCAGGTTGC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (75 bp):
ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCT
CATGGCAACC
Found at i:39074642 original size:46 final size:46
Alignment explanation
Indices: 39074589--39074791 Score: 341
Period size: 46 Copynumber: 4.6 Consensus size: 46
39074579 CATGGCAACC
*
39074589 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
1 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
39074635 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
39074681 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
39074727 ACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTATCTTTCA
1 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
39074765 ACCATGGTCTTACACATTTCATATCAG
1 ACCATGGTCTTACACATTTCATATCAG
39074792 AGAGCACACT
Statistics
Matches: 148, Mismatches: 1, Indels: 16
0.90 0.01 0.10
Matches are distributed among these distances:
38 33 0.22
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 1 0.01
46 105 0.71
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (46 bp):
ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
Found at i:39074682 original size:121 final size:122
Alignment explanation
Indices: 39074468--39074791 Score: 400
Period size: 121 Copynumber: 2.6 Consensus size: 122
39074458 GTATCTTTCA
** * * * * *
39074468 ACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCT
1 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
* *
39074533 CATATCAGGTTTCCATGGTATCTTTCAACCATGGTCTTACACATCTCATGGCA-ACC
66 CATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATAGCAGACC
39074589 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
* * ***
39074654 CATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
66 CATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATAGCAGACC
* * *
39074711 GCCATGGTATCTTTCAACCATGGTCTTACACA-CAGGTTGCCATGGTATCTTTCAACCATGGTCT
1 ACCATGG--TCTTAC-A-CA---TC-T-CATATCAGGTTGCCATGGTATCTTTCAACCATGGTCT
39074775 TACACATTTCATATCAG
57 TACACATTTCATATCAG
39074792 AGAGCACACT
Statistics
Matches: 176, Mismatches: 17, Indels: 11
0.86 0.08 0.05
Matches are distributed among these distances:
121 107 0.61
122 6 0.03
124 5 0.03
125 1 0.01
126 2 0.01
129 2 0.01
130 50 0.28
131 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (122 bp):
ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
CATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATAGCAGACC
Found at i:39074705 original size:167 final size:167
Alignment explanation
Indices: 39074425--39074742 Score: 530
Period size: 167 Copynumber: 1.9 Consensus size: 167
39074415 TCTTTCAACT
* * * ** *
39074425 ATGGTCTTACTCATTTTCTATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCAT
1 ATGGTCTTACACATTCTCTATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
* *
39074490 GTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTTCCATGGTATC
66 ATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATC
39074555 TTTCAACCATGGTCTTACACATCTCATGGCAACCACC
131 TTTCAACCATGGTCTTACACATCTCATGGCAACCACC
39074592 ATGGTCTTACACA-TCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
1 ATGGTCTTACACATTCTC-TATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
* *
39074656 TATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTAT
65 TATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTAT
39074721 CTTTCAACCATGGTCTTACACA
130 CTTTCAACCATGGTCTTACACA
39074743 CAGGTTGCCA
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
166 3 0.02
167 137 0.98
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (167 bp):
ATGGTCTTACACATTCTCTATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
ATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATC
TTTCAACCATGGTCTTACACATCTCATGGCAACCACC
Found at i:39074756 original size:38 final size:38
Alignment explanation
Indices: 39074705--39074780 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
39074695 CATTTCATAT
39074705 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
39074743 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
39074781 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:39078435 original size:137 final size:136
Alignment explanation
Indices: 39078228--39078513 Score: 536
Period size: 137 Copynumber: 2.1 Consensus size: 136
39078218 TATTGGGCCT
**
39078228 AAGCCCATTCAGGTAACAGTGGTACTGGGCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
39078293 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
39078358 ATATGC
131 ATATGC
*
39078364 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTATAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGG-CAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
39078429 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
39078494 CATATGC
130 CATATGC
39078501 AAGCCCATTTGGG
1 AAGCCCATTTGGG
39078514 GAGACTACTC
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 27 0.18
137 119 0.82
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
ATATGC
Found at i:39080332 original size:26 final size:26
Alignment explanation
Indices: 39080296--39080430 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
39080286 CATGATATTC
*
39080296 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
39080322 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
39080348 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
39080374 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
39080400 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
39080425 TTATCA
1 TTATCA
39080431 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:39084308 original size:64 final size:64
Alignment explanation
Indices: 39084235--39084445 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
39084225 CTGGGCCAGA
*
39084235 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
39084299 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGAT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA--G-T
* *
39084361 ACTGGGCCAGA-
54 A-TGGCCCATAG
* *
39084372 GCCCTTTTCAGATTATAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
39084436 GCCCATTTCA
1 GCCCATTTCA
39084446 AAATACATGC
Statistics
Matches: 102, Mismatches: 28, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 9 0.09
64 24 0.24
65 6 0.06
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 6 0.06
73 14 0.14
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:39084447 original size:137 final size:137
Alignment explanation
Indices: 39084213--39084465 Score: 488
Period size: 137 Copynumber: 1.8 Consensus size: 137
39084203 GCCCATTCAA
*
39084213 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
39084278 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
39084343 CATTTGG
131 CATTTGG
*
39084350 GTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTATAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
39084415 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTA
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTA
39084466 TTCTTTAATA
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 114 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
GTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
CATTTGG
Found at i:39084529 original size:26 final size:26
Alignment explanation
Indices: 39084493--39084628 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
39084483 CATGATATTC
*
39084493 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
39084519 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
* *
39084545 TTATTATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
39084571 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
39084597 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
39084623 TTATCA
1 TTATCA
39084629 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:39085225 original size:5 final size:5
Alignment explanation
Indices: 39085215--39085248 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
39085205 ATTCATCAAT
39085215 ACAAC ACAAC ACAAC ACAAC ACAAC ACAAC ACAA
1 ACAAC ACAAC ACAAC ACAAC ACAAC ACAAC ACAA
39085249 TTCAATTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAC
Found at i:39085729 original size:10 final size:10
Alignment explanation
Indices: 39085697--39085741 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
39085687 GTCTTTCTCC
39085697 TTTCTTTCTT
1 TTTCTTTCTT
* *
39085707 TCCTCTTTTTT
1 T-TTCTTTCTT
39085718 TTTCTTTCTT
1 TTTCTTTCTT
*
39085728 TTTCTTTCTG
1 TTTCTTTCTT
39085738 TTTC
1 TTTC
39085742 GTTTAGCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:39085784 original size:3 final size:3
Alignment explanation
Indices: 39085776--39085827 Score: 68
Period size: 3 Copynumber: 16.3 Consensus size: 3
39085766 TTTTTCTTTT
*
39085776 TTA TTA TTA TTCA TTTA CTA CTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TT-A -TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
39085824 TTA T
1 TTA T
39085828 AATACAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
3 38 0.86
4 4 0.09
5 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:39085899 original size:19 final size:20
Alignment explanation
Indices: 39085867--39085905 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
39085857 AAACATATTT
*
39085867 TATTAATATATACATATGTA
1 TATTAATATATACACATGTA
*
39085887 TATTAA-ATTTACACATGTA
1 TATTAATATATACACATGTA
39085906 ATCACTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (20 bp):
TATTAATATATACACATGTA
Found at i:39088090 original size:5 final size:5
Alignment explanation
Indices: 39088080--39088117 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
39088070 GATATCTAAA
39088080 TTATT TTATT TTATT TTA-- TTATT TTATT TT-TT TTATT T
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT T
39088118 CTCTCTTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.10
4 4 0.13
5 23 0.77
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:39088102 original size:18 final size:17
Alignment explanation
Indices: 39088079--39088116 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
39088069 TGATATCTAA
39088079 ATTATTTTATTTTATTTT
1 ATTATTTTATTTT-TTTT
39088097 ATTATTTTATTTTTTTT
1 ATTATTTTATTTTTTTT
39088114 ATT
1 ATT
39088117 TCTCTCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTATTTTATTTTTTTT
Found at i:39088103 original size:13 final size:13
Alignment explanation
Indices: 39088085--39088109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39088075 CTAAATTATT
39088085 TTATTTTATTTTA
1 TTATTTTATTTTA
39088098 TTATTTTATTTT
1 TTATTTTATTTT
39088110 TTTTATTTCT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:39091807 original size:17 final size:18
Alignment explanation
Indices: 39091785--39091819 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39091775 CAATCTGGGT
*
39091785 GTGTGGG-CTACACGGGC
1 GTGTGGGCCCACACGGGC
39091802 GTGTGGGCCCACACGGGC
1 GTGTGGGCCCACACGGGC
39091820 AAGCCGCACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.29, G:0.46, T:0.14
Consensus pattern (18 bp):
GTGTGGGCCCACACGGGC
Found at i:39092236 original size:13 final size:14
Alignment explanation
Indices: 39092215--39092249 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
39092205 ATGGGGGTAG
*
39092215 GATTCTGTATATCT
1 GATTCTGTACATCT
39092229 GA-TCTGTACATCT
1 GATTCTGTACATCT
39092242 GATTCTGT
1 GATTCTGT
39092250 GTACTGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (14 bp):
GATTCTGTACATCT
Found at i:39100547 original size:12 final size:12
Alignment explanation
Indices: 39100511--39100550 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
39100501 TGAATAGTAA
39100511 ATAATTAAAATT
1 ATAATTAAAATT
39100523 -TCAATT-AAA-T
1 AT-AATTAAAATT
39100533 ATAATTAAAATT
1 ATAATTAAAATT
39100545 ATAATT
1 ATAATT
39100551 CTAAATGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 5 0.21
11 8 0.33
12 11 0.46
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAATTAAAATT
Found at i:39105791 original size:18 final size:20
Alignment explanation
Indices: 39105762--39105812 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
39105752 CCATATATAA
*
39105762 TTTGAAATTTTTATAAA-TAT
1 TTTGAACTTTTTA-AAATTAT
39105782 TTTGAA-TTTTTAAAATTAT
1 TTTGAACTTTTTAAAATTAT
39105801 TTTGAACTTTTT
1 TTTGAACTTTTT
39105813 GTAATTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.10
19 15 0.52
20 11 0.38
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (20 bp):
TTTGAACTTTTTAAAATTAT
Found at i:39105818 original size:20 final size:19
Alignment explanation
Indices: 39105762--39105818 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
39105752 CCATATATAA
*
39105762 TTTGAAATTTTTATAAATAT
1 TTTG-AATTTTTATAATTAT
*
39105782 TTTGAATTTTTAAAATTAT
1 TTTGAATTTTTATAATTAT
*
39105801 TTTGAACTTTTTGTAATT
1 TTTGAA-TTTTTATAATT
39105819 TTTGTTAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (19 bp):
TTTGAATTTTTATAATTAT
Found at i:39106008 original size:18 final size:18
Alignment explanation
Indices: 39105985--39106021 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
39105975 TACTCACCCT
*
39105985 TAGTGCAAACTATAAAGC
1 TAGTGCAAACCATAAAGC
39106003 TAGTGCAAACCATAAAGC
1 TAGTGCAAACCATAAAGC
39106021 T
1 T
39106022 TTAATTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (18 bp):
TAGTGCAAACCATAAAGC
Found at i:39110609 original size:2 final size:2
Alignment explanation
Indices: 39110560--39110590 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
39110550 GGTATTTAAA
*
39110560 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
39110591 ATAGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39111147 original size:22 final size:20
Alignment explanation
Indices: 39111119--39111188 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
39111109 GTTAGGTGGC
39111119 TAGGTTTTTTTATCTTTTTTGT
1 TAGG-TTTTTT-TCTTTTTTGT
*
39111141 TAGGTTTTTTTCTTTTTTCT
1 TAGGTTTTTTTCTTTTTTGT
* **
39111161 T--CTTTTTTT-TTTTGGGT
1 TAGGTTTTTTTCTTTTTTGT
39111178 TAGGTTTTTTT
1 TAGGTTTTTTT
39111189 TGGGGTAAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
17 6 0.15
18 7 0.17
19 7 0.17
20 10 0.25
21 6 0.15
22 4 0.10
ACGTcount: A:0.06, C:0.06, G:0.14, T:0.74
Consensus pattern (20 bp):
TAGGTTTTTTTCTTTTTTGT
Found at i:39111185 original size:16 final size:16
Alignment explanation
Indices: 39111166--39111202 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
39111156 TTTCTTCTTT
* *
39111166 TTTTTTTTGGGTTAGG
1 TTTTTTTTGGGGTAAG
39111182 TTTTTTTTGGGGTAAG
1 TTTTTTTTGGGGTAAG
39111198 TTTTT
1 TTTTT
39111203 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.00, G:0.27, T:0.65
Consensus pattern (16 bp):
TTTTTTTTGGGGTAAG
Found at i:39111185 original size:17 final size:17
Alignment explanation
Indices: 39111164--39111207 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
39111154 TTTTTCTTCT
* *
39111164 TTTTTTTTTTGGGTTAG
1 TTTTTTTTTGGGGTAAG
*
39111181 GTTTTTTTTGGGGTAAG
1 TTTTTTTTTGGGGTAAG
39111198 TTTTTCTTTT
1 TTTTT-TTTT
39111208 TCTTTTTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.07, C:0.02, G:0.23, T:0.68
Consensus pattern (17 bp):
TTTTTTTTTGGGGTAAG
Found at i:39111215 original size:14 final size:14
Alignment explanation
Indices: 39111198--39111230 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
39111188 TTGGGGTAAG
39111198 TTTTTCTTT-TTCTT
1 TTTTTCTTTGTT-TT
39111212 TTTTTCTTTGTTTT
1 TTTTTCTTTGTTTT
39111226 TTTTT
1 TTTTT
39111231 TGGGTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTCTTTGTTTT
Found at i:39112274 original size:74 final size:74
Alignment explanation
Indices: 39112168--39112446 Score: 368
Period size: 74 Copynumber: 3.8 Consensus size: 74
39112158 AAGATAGAAT
* * * * *
39112168 TTGAAAATACCTTAGCGTGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATT
1 TTGAAATTACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
39112233 TAATGGGAA
66 TAATGGGAA
* *
39112242 TTGAAATTACCTCAACGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATT
1 TTGAAATTACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
39112307 TAATGGGAA
66 TAATGGGAA
* * * *
39112316 TTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA--
1 TTGAAATTACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
*
39112379 AACAT--GAA
66 TA-ATGGGAA
* * ***
39112387 TTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TTGAAATTACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
39112447 CTTGGAAACA
Statistics
Matches: 186, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
71 55 0.30
72 1 0.01
73 2 0.01
74 128 0.69
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (74 bp):
TTGAAATTACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
TAATGGGAA
Found at i:39112349 original size:148 final size:145
Alignment explanation
Indices: 39112168--39112924 Score: 546
Period size: 159 Copynumber: 4.9 Consensus size: 145
39112158 AAGATAGAAT
* *
39112168 TTGAAAATACCTTAGCGTGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATT
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGA--
* * * *
39112233 TA-ATGGGAATTGAAATTACCTCAACGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTG
64 AACAT--GAATTGAAATTACCCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
39112297 ATTTTAGATTTAATGGGAA
127 ATTTTAGATTTAATGGGAA
* * * * *
39112316 TTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGAAA
* ***
39112381 CATGAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
66 CATGAATTGAAATTACCCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
** * *
39112446 TCTTGGAAACATGAACTAAAAAGCAGAAA
129 T-TT------A-G-A-TTTAATG--GGAA
** * * *
39112475 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGAAA
* * ***
39112540 CATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
66 CATGAATTGAAATTACCCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
** * *
39112605 TCTTGGAAACATGAACTAAAAAGCAGAAA
129 T-TT------A-G-A-TTTAATG--GGAA
** * * *
39112634 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGAAA
* * * *** *
39112699 CATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
66 CATGAATTGAAATTACCCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
* * *
39112764 TCTTGGAAAACATGAATTAAAAAGTAGAAA
129 T-TT-------A-G-ATT--TAA-TGGGAA
* * *
39112794 TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG-CTGCTTTTTGAA
1 TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTC-GATTTTAGAA
* * * *** *
39112858 ACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
65 ACATGAATTGAAATTACCCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
39112923 TT
130 TT
39112925 CTTGGAAAAC
Statistics
Matches: 555, Mismatches: 34, Indels: 31
0.90 0.05 0.05
Matches are distributed among these distances:
145 52 0.09
146 1 0.00
147 4 0.01
148 58 0.10
154 1 0.00
155 1 0.00
156 1 0.00
157 6 0.01
158 2 0.00
159 290 0.52
160 136 0.25
161 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (145 bp):
TTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGAAA
CATGAATTGAAATTACCCCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TAGATTTAATGGGAA
Found at i:39112429 original size:71 final size:72
Alignment explanation
Indices: 39112123--39112446 Score: 345
Period size: 74 Copynumber: 4.5 Consensus size: 72
39112113 AATTAAAAGA
* * * * *
39112123 CTCAACTCACCTCTCGTAATATGAATTGACTCTTTAAGAT--A--GAATTTGAAAATACCTTAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGA-T-TTT-AGATAAATGGAA-TTGAAATTACCTCAAC
*
39112184 GTGCCGCAAGG
62 GTGCCCCAAGG
* *
39112195 CTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATTTAATGGGAATTGAAATTACCTCAACGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGA-TAAAT-GGAATTGAAATTACCTCAACGT
39112260 GCCCCAAGG
64 GCCCCAAGG
* * * *
39112269 TTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATGGGAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGA-TAAAT-GGAATTGAAATTACCTCAACGT
39112334 GCCCCAAGG
64 GCCCCAAGG
* * * *
39112343 TTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA-AACAT-GAATTGAAATTACCCCAACGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATAA-ATGGAATTGAAATTACCTCAACGTG
* ***
39112406 TCTTGAGG
65 CCCCAAGG
39112414 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
39112447 CTTGGAAACA
Statistics
Matches: 224, Mismatches: 21, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
69 3 0.01
70 4 0.02
71 56 0.25
72 28 0.12
73 2 0.01
74 128 0.57
75 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (72 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATAAATGGAATTGAAATTACCTCAACGTGC
CCCAAGG
Found at i:39112588 original size:71 final size:71
Alignment explanation
Indices: 39112472--39112605 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
39112462 TAAAAAGCAG
* * *
39112472 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
39112537 AAACAT
66 AAACAT
* * *
39112543 AAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
39112606 CTTGGAAACA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAACAT
Found at i:39112603 original size:159 final size:160
Alignment explanation
Indices: 39112314--39113015 Score: 1237
Period size: 159 Copynumber: 4.4 Consensus size: 160
39112304 ATTTAATGGG
* ** *
39112314 AATTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* *
39112379 AACATGAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
39112444 TTTCTTGG-AAACATGAACTAAAAAGCAGA
131 TTTCTTGGAAAACATGAACTAAAAAGCAGA
39112473 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
39112538 AACATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
39112603 TTTCTTGG-AAACATGAACTAAAAAGCAGA
131 TTTCTTGGAAAACATGAACTAAAAAGCAGA
39112632 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
39112697 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
39112762 TTTCTTGGAAAACATGAATTAAAAAGTAGA
131 TTTCTTGGAAAACATGAACTAAAAAGCAGA
* * * *
39112792 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGCTTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
39112857 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
39112922 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAACTAAAAAGCAGA
*
39112952 AATTGGAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
39113016 GAAAAAAACA
Statistics
Matches: 523, Mismatches: 19, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
159 290 0.55
160 233 0.45
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAACTAAAAAGCAGA
Found at i:39112747 original size:71 final size:71
Alignment explanation
Indices: 39112631--39112924 Score: 237
Period size: 71 Copynumber: 3.9 Consensus size: 71
39112621 TAAAAAGCAG
* * * * *
39112631 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
39112696 AAACAT
66 AAACAT
*
39112702 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
1 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTT-T
39112767 TGGAAAACAT
64 T-G-AAACAT
* * * ** * ** * * * * *
39112777 GAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
1 AAATT-GAAA-T--TACCTCAACGTGCCT-TGAG-G-CTC-A-ACT-----CACCTCTCGCAATA
*
39112842 TGAGCTGCTTTTTGAAACAT
52 TGAGCTGATTTTTGAAACAT
*
39112862 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
39112925 CTTGGAAAAC
Statistics
Matches: 169, Mismatches: 36, Indels: 36
0.70 0.15 0.15
Matches are distributed among these distances:
71 78 0.46
72 3 0.02
73 2 0.01
74 1 0.01
75 10 0.06
76 5 0.03
77 2 0.01
78 2 0.01
79 8 0.05
80 4 0.02
81 8 0.05
82 2 0.01
83 2 0.01
84 5 0.03
85 10 0.06
86 1 0.01
87 2 0.01
88 3 0.02
89 21 0.12
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (71 bp):
AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:39118094 original size:12 final size:12
Alignment explanation
Indices: 39118074--39118109 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
39118064 TGGGTTATGC
*
39118074 AATGTATGAATG
1 AATGCATGAATG
39118086 AATGCATGAATG
1 AATGCATGAATG
39118098 AATGCATGAATG
1 AATGCATGAATG
39118110 TCAAATGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:39120115 original size:10 final size:11
Alignment explanation
Indices: 39120076--39120115 Score: 52
Period size: 10 Copynumber: 4.0 Consensus size: 11
39120066 GGTATTTAAA
39120076 ATATATA-TAT
1 ATATATAGTAT
39120086 ATATATA-TAT
1 ATATATAGTAT
39120096 ATATAT-GTAT
1 ATATATAGTAT
39120106 ATA-ATAGTAT
1 ATATATAGTAT
39120116 TTAAGAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.07
10 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (11 bp):
ATATATAGTAT
Found at i:39120127 original size:2 final size:2
Alignment explanation
Indices: 39120076--39120108 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
39120066 GGTATTTAAA
*
39120076 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
39120109 ATAGTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39120667 original size:22 final size:20
Alignment explanation
Indices: 39120639--39120678 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39120629 GTTAGGTGGC
39120639 TAGGTTTTTTTATCTTTTTTGT
1 TAGG-TTTTTT-TCTTTTTTGT
39120661 TAGGTTTTTTTCTTTTTT
1 TAGGTTTTTTTCTTTTTT
39120679 CTTCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.07, C:0.05, G:0.12, T:0.75
Consensus pattern (20 bp):
TAGGTTTTTTTCTTTTTTGT
Found at i:39120728 original size:18 final size:18
Alignment explanation
Indices: 39120684--39120728 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
39120674 TTTTTCTTCT
*
39120684 TTTTTTTTTGGGGGTTAG
1 TTTTTTTTTGGGGGTAAG
*
39120702 GTTTTTTTT-GGGGTAAG
1 TTTTTTTTTGGGGGTAAG
39120719 TTTTTCTTTT
1 TTTTT-TTTT
39120729 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.07, C:0.02, G:0.27, T:0.64
Consensus pattern (18 bp):
TTTTTTTTTGGGGGTAAG
Found at i:39120736 original size:14 final size:14
Alignment explanation
Indices: 39120719--39120751 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
39120709 TTGGGGTAAG
39120719 TTTTTCTTT-TTCTT
1 TTTTTCTTTGTT-TT
39120733 TTTTTCTTTGTTTT
1 TTTTTCTTTGTTTT
39120747 TTTTT
1 TTTTT
39120752 TGGGTTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTCTTTGTTTT
Found at i:39121175 original size:2 final size:2
Alignment explanation
Indices: 39121163--39121211 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
39121153 AAACTGTGTA
*
39121163 AT AT A- AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
39121204 AT GT AT AT
1 AT AT AT AT
39121212 TAACAAATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:39122472 original size:19 final size:19
Alignment explanation
Indices: 39122427--39122470 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
39122417 TTGATTATTG
*
39122427 TAATT-AATTTTTAATTTA
1 TAATTAAATTTTTAATATA
*
39122445 TTATTAAATTTTTAA-ATA
1 TAATTAAATTTTTAATATA
39122463 TAATTAAA
1 TAATTAAA
39122471 ATATATTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATTAAATTTTTAATATA
Found at i:39123282 original size:2 final size:2
Alignment explanation
Indices: 39123275--39123299 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39123265 AACTCCTGCT
39123275 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
39123300 TAAAGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39124939 original size:63 final size:62
Alignment explanation
Indices: 39124751--39124939 Score: 209
Period size: 63 Copynumber: 3.0 Consensus size: 62
39124741 TGTGGCCCAT
* * * * * *
39124751 ACAGCTTGGACACACGTCCGTGTCTCTGACCCGTGTGACTCAAATTCTAAACTAATATGTTAT
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCCAAAATAGTA-GTTAC
* * * * *
39124814 AC-GGTTGGACACACGTCCGTTTCTCTAACTCGTGTGACTTAAATTCCAAAACAGTAAATTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCCAAAATAGT-AGTTAC
* * * *
39124876 ACAGCCTGGACACACGCCCGTGTCTCTAACCCATGTGAATTAAATTCCAAAATAGTGAGTTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCCAAAATAGT-AGTTAC
39124939 A
1 A
39124940 TATCCTACCA
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
62 49 0.48
63 54 0.52
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (62 bp):
ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCCAAAATAGTAGTTAC
Found at i:39125607 original size:47 final size:47
Alignment explanation
Indices: 39125524--39125624 Score: 123
Period size: 47 Copynumber: 2.1 Consensus size: 47
39125514 CCTTGTGTGT
** * *
39125524 CGTACTGTTACTGTTTCTTCGGTTTAATCCGATGAGGTACTAAGTAC
1 CGTACTGTTACTGTTTCTTCGGTCAAAGCCGATGAGGCACTAAGTAC
* * *
39125571 CGTACTGTTACTGTTTACTTCGG-CAAAGCCGTTGAGGCATTAAGTAT
1 CGTACTGTTACTGTTT-CTTCGGTCAAAGCCGATGAGGCACTAAGTAC
39125618 CGTACTG
1 CGTACTG
39125625 GTGTGTTGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
47 40 0.87
48 6 0.13
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (47 bp):
CGTACTGTTACTGTTTCTTCGGTCAAAGCCGATGAGGCACTAAGTAC
Found at i:39125715 original size:18 final size:18
Alignment explanation
Indices: 39125688--39125754 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
39125678 TAAACTACTG
*
39125688 TACTGTATAATTGATAGT
1 TACTGAATAATTGATAGT
** *
39125706 TACTGAATAACTAAATTACT
1 TACTGAATAA-TTGA-TAGT
*
39125726 GTATTGAATAATTGATAGT
1 -TACTGAATAATTGATAGT
*
39125745 TATTGAATAA
1 TACTGAATAA
39125755 CTAAACTACT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 19 0.50
19 5 0.13
20 5 0.13
21 9 0.24
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (18 bp):
TACTGAATAATTGATAGT
Found at i:39125726 original size:39 final size:39
Alignment explanation
Indices: 39125678--39125828 Score: 196
Period size: 39 Copynumber: 3.9 Consensus size: 39
39125668 TTAATAGGGG
*
39125678 TAAACTACTGTACTGTATAATTGATAGTTACTGAATAAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * *
39125717 TAAATTACTGTATTGAATAATTGATAGTTATTGAATAAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * *
39125756 TAAACTACTGCACTGAATATTTGATAGTTACTGAGA-GAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGA-ATAAC
* * *
39125795 TAAATTACTGTACTGAATAACTGATTGTTACTGA
1 TAAACTACTGTACTGAATAATTGATAGTTACTGA
39125829 TTAAATATGA
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 95 0.99
40 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (39 bp):
TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
Found at i:39125733 original size:21 final size:20
Alignment explanation
Indices: 39125709--39125765 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 20
39125699 TGATAGTTAC
39125709 TGAATAACTAAATTACTGTAT
1 TGAATAACTAAA-TACTGTAT
** *
39125730 TGAATAA-TTGATAGT-TAT
1 TGAATAACTAAATACTGTAT
39125748 TGAATAACTAAACTACTG
1 TGAATAACTAAA-TACTG
39125766 CACTGAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
18 10 0.37
19 5 0.19
20 5 0.19
21 7 0.26
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (20 bp):
TGAATAACTAAATACTGTAT
Found at i:39127039 original size:29 final size:30
Alignment explanation
Indices: 39127006--39127064 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
39126996 TACGGTTTAA
*
39127006 TGTGCAATTGTATACAT-AAACTTTGATTT
1 TGTGCAATTGTATACATGAAAATTTGATTT
* *
39127035 TGTGCAATTTTATATATGAAAATTTGATTT
1 TGTGCAATTGTATACATGAAAATTTGATTT
39127065 GATCAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAAATTTGATTT
Found at i:39127944 original size:20 final size:20
Alignment explanation
Indices: 39127919--39127958 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
39127909 AATTGTACAT
39127919 TAAATCATAGTTCATGTATA
1 TAAATCATAGTTCATGTATA
39127939 TAAATCATAGTTCATGTATA
1 TAAATCATAGTTCATGTATA
39127959 GTTTTGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
TAAATCATAGTTCATGTATA
Found at i:39128468 original size:3 final size:3
Alignment explanation
Indices: 39128460--39128484 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
39128450 TCTAATATAG
39128460 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
39128485 GAATTGTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:39129479 original size:17 final size:18
Alignment explanation
Indices: 39129457--39129496 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
39129447 AATTTTAAAA
*
39129457 AAAAATTCAAAGAA-ATT
1 AAAAATTCAAAAAATATT
*
39129474 AAAAATTTAAAAAATATT
1 AAAAATTCAAAAAATATT
39129492 AAAAA
1 AAAAA
39129497 ATTATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAATTCAAAAAATATT
Found at i:39141404 original size:13 final size:12
Alignment explanation
Indices: 39141372--39141409 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
39141362 TAATTATCAC
39141372 TTAATTAA-TAT
1 TTAATTAATTAT
39141383 TTGAATTAATTAT
1 TT-AATTAATTAT
39141396 GTTAATTAATTAT
1 -TTAATTAATTAT
39141409 T
1 T
39141410 ATTTTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 7 0.29
13 13 0.54
14 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (12 bp):
TTAATTAATTAT
Found at i:39173738 original size:2 final size:2
Alignment explanation
Indices: 39173731--39173771 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
39173721 AAAGCACCAC
39173731 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
39173772 GTCGTCGCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:39180661 original size:48 final size:48
Alignment explanation
Indices: 39180536--39180722 Score: 293
Period size: 48 Copynumber: 3.9 Consensus size: 48
39180526 GGTTAAGTGA
*
39180536 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * *
39180584 GAGATCCCATGTAAGACCATGTTTAGGACATGGCATTGGCACCGATATGT
1 --GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
*
39180634 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGGTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* *
39180682 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
39180723 TTATTATGTG
Statistics
Matches: 129, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
48 83 0.64
50 46 0.36
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:39180732 original size:98 final size:97
Alignment explanation
Indices: 39180536--39180720 Score: 300
Period size: 98 Copynumber: 1.9 Consensus size: 97
39180526 GGTTAAGTGA
*
39180536 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGAGATCCCATGTAAGAC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT-AGATCCCATGTAAGAC
* *
39180601 CATGTTTAGGACATGGCATTGGCACCGATATGT
65 CATATCTAGGACATGGCATTGGCACCGATATGT
*
39180634 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGGTATGT-GATCCCATGTAAGACC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTAGATCCCATGTAAGACC
* *
39180698 ATATCTGGGATATGGCATTGGCA
66 ATATCTAGGACATGGCATTGGCA
39180721 TCTTATTATG
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 35 0.43
98 46 0.57
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (97 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTAGATCCCATGTAAGACC
ATATCTAGGACATGGCATTGGCACCGATATGT
Found at i:39185069 original size:30 final size:30
Alignment explanation
Indices: 39185029--39185089 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
39185019 CATAGGTTGG
39185029 CACATGGGCGTGTGACCTGCCCGTGTGGAT
1 CACATGGGCGTGTGACCTGCCCGTGTGGAT
* * * *
39185059 CACATTGGCGTGTGGCTTGCCCTTGTGGAT
1 CACATGGGCGTGTGACCTGCCCGTGTGGAT
39185089 C
1 C
39185090 CTGAAAACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.11, C:0.26, G:0.34, T:0.28
Consensus pattern (30 bp):
CACATGGGCGTGTGACCTGCCCGTGTGGAT
Found at i:39185912 original size:12 final size:11
Alignment explanation
Indices: 39185895--39185924 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
39185885 AACATAAATG
39185895 TTTTTTTTTCA
1 TTTTTTTTTCA
39185906 CTTTTTTTTTCA
1 -TTTTTTTTTCA
39185918 TTTTTTT
1 TTTTTTT
39185925 AGAATAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTTCA
Found at i:39187031 original size:22 final size:22
Alignment explanation
Indices: 39186999--39187059 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
39186989 TTGTAATGGT
39186999 AATAGTAAAAATAAAAAAATACG
1 AATAG-AAAAATAAAAAAATACG
* *
39187022 AA-AGAAAAAAGAAAAAAATAGG
1 AATAG-AAAAATAAAAAAATACG
*
39187044 AATAGCAAAATAAAAA
1 AATAGAAAAATAAAAA
39187060 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.74, C:0.03, G:0.11, T:0.11
Consensus pattern (22 bp):
AATAGAAAAATAAAAAAATACG
Done.