Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 51
Found at i:8712392 original size:13 final size:13
Alignment explanation
Indices: 8712376--8712422 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
8712366 TTAATACTTG
8712376 AATAAAATAAAAA
1 AATAAAATAAAAA
*
8712389 AATAAAATTAAAA
1 AATAAAATAAAAA
8712402 AATAATAATATATAAA
1 AATAA-AATA-A-AAA
8712418 AATAA
1 AATAA
8712423 TAAGTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 17 0.59
14 3 0.10
15 1 0.03
16 8 0.28
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:8712408 original size:16 final size:15
Alignment explanation
Indices: 8712376--8712437 Score: 65
Period size: 16 Copynumber: 4.0 Consensus size: 15
8712366 TTAATACTTG
8712376 AATAAAAT-AAAAA-
1 AATAAAATAAAAAAT
8712389 AATAAAATTAAAAAAT
1 AATAAAA-TAAAAAAT
*
8712405 AATAATATATAAAAAT
1 AATAAAATA-AAAAAT
8712421 AATAAGTAATAAAAAAT
1 AATAA--AATAAAAAAT
8712438 TTGAAAGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 7 0.17
14 1 0.02
15 7 0.17
16 17 0.41
17 6 0.15
18 3 0.07
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
AATAAAATAAAAAAT
Found at i:8713261 original size:139 final size:138
Alignment explanation
Indices: 8712993--8713270 Score: 318
Period size: 138 Copynumber: 2.0 Consensus size: 138
8712983 GTTACTTAGA
* * *
8712993 AATATCAGAAAAGAACTTCTTAGGTGCCTTAAGACAGCTCTTTTCTTCGATATTAAAAAATAAAT
1 AATATCAGAAAAGAACTTCATAGATGCCTTAAGACAACTCTTTTCTTCGATATTAAAAAATAAAT
* *
8713058 AAATAACTAAAAAAACATTTTTCTAAAAATAATTAATATATAATTTATAAAAATAGGATATTTAT
66 AAATAACTAAAAAAAAATTTTTCTAAAAATAATTAATATATAA-TAATAAAAATA-GATATTTAT
*
8713123 -TTATTTAAG
129 AATATTTAAG
*
8713132 AATATCAGAAAAGAACTT-ATAGATGCTTTAAGACAACTCTTTTCTTCGATATTAAAAAATTAAA
1 AATATCAGAAAAGAACTTCATAGATGCCTTAAGACAACTCTTTTCTTCGATATTAAAAAA-TAAA
* * *
8713196 TAAAT-ATTAAAAATGTAATAATTTTTCATAAAAATGATTTAA-ATA-AA-AATAAATTATA-AT
65 TAAATAACTAAAAA---AA-AATTTTTC-TAAAAAT-AATTAATATATAATAATAAA-AATAGAT
*
8713256 TTTTATAATATTTAA
123 ATTTATAATATTTAA
8713271 TTTAAACAAA
Statistics
Matches: 119, Mismatches: 11, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
138 44 0.37
139 34 0.29
140 12 0.10
141 5 0.04
142 9 0.08
143 10 0.08
144 5 0.04
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (138 bp):
AATATCAGAAAAGAACTTCATAGATGCCTTAAGACAACTCTTTTCTTCGATATTAAAAAATAAAT
AAATAACTAAAAAAAAATTTTTCTAAAAATAATTAATATATAATAATAAAAATAGATATTTATAA
TATTTAAG
Found at i:8719558 original size:30 final size:30
Alignment explanation
Indices: 8719524--8719591 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
8719514 TGGAGATTTG
8719524 TTGGTTTTTTGGTAAATTTTGAATCCCACA
1 TTGGTTTTTTGGTAAATTTTGAATCCCACA
8719554 TTGGTTTTTTGGTAAATTTTGAATCCCACA
1 TTGGTTTTTTGGTAAATTTTGAATCCCACA
8719584 TTGGTTTT
1 TTGGTTTT
8719592 GTATAAGGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.50
Consensus pattern (30 bp):
TTGGTTTTTTGGTAAATTTTGAATCCCACA
Found at i:8725988 original size:8 final size:8
Alignment explanation
Indices: 8725977--8726017 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
8725967 TCTAATATAT
8725977 TAATAATA
1 TAATAATA
8725985 TAATAATA
1 TAATAATA
8725993 TAATAATA
1 TAATAATA
* *
8726001 TTATAACAA
1 TAATAA-TA
8726010 TAATAATA
1 TAATAATA
8726018 ATACCGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (8 bp):
TAATAATA
Found at i:8726502 original size:48 final size:48
Alignment explanation
Indices: 8726362--8726508 Score: 231
Period size: 48 Copynumber: 3.1 Consensus size: 48
8726352 ACATTGAATA
* * * * * *
8726362 GAGACAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTAGAA
1 GAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAGATCTTGGAG
*
8726410 AAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAGATCTTGGAG
1 GAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAGATCTTGGAG
8726458 GAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAGATCTTGGAG
1 GAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAGATCTTGGAG
8726506 GAG
1 GAG
8726509 TTTGATCCAT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 91 1.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (48 bp):
GAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAGATCTTGGAG
Found at i:8726677 original size:114 final size:114
Alignment explanation
Indices: 8726415--8726729 Score: 479
Period size: 114 Copynumber: 2.8 Consensus size: 114
8726405 TAGAAAAGAG
* * * **
8726415 AGACATGTTCCGCTTACTCTGAAGGGAATATCAGATCTTGGAGGAGAGAGACATGTTCCGCTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTCCGCTTAC
* *
8726480 TCTGAAGGGAATATCAGATCTTGGAGGAGTTTGATCCATTGAATCGAAGC
66 TCTGAAGGGAATATCAGATC-TGAAGGAGTTTAATCCATTGAATCGAAGC
*
8726530 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGATAGACATGTTCCGCTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTCCGCTTAC
* **
8726595 TCGGAAGGGAATATCAGATCTGAAGG-GTTTTAATCCATTGAATCGGGGC
66 TCTGAAGGGAATATCAGATCTGAAGGAG-TTTAATCCATTGAATCGAAGC
* *
8726644 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAGAGACCTGTTCCGCTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTCCGCTTAC
*
8726709 TCTGAAGGGAATATCAAATCT
66 TCTGAAGGGAATATCAGATCT
8726730 TGGGAAAGAG
Statistics
Matches: 183, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
113 1 0.01
114 104 0.57
115 78 0.43
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (114 bp):
AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTCCGCTTAC
TCTGAAGGGAATATCAGATCTGAAGGAGTTTAATCCATTGAATCGAAGC
Found at i:8726701 original size:48 final size:48
Alignment explanation
Indices: 8726644--8726772 Score: 231
Period size: 48 Copynumber: 2.7 Consensus size: 48
8726634 GAATCGGGGC
*
8726644 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAG
1 AGACCTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAG
*
8726692 AGACCTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAG
1 AGACCTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAG
*
8726740 AGACCTGTTCCACTGACTCTGAAGGGAATATCA
1 AGACCTGTTCCACTTACTCTGAAGGGAATATCA
8726773 GATATGAAGG
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (48 bp):
AGACCTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAG
Found at i:8727847 original size:1 final size:1
Alignment explanation
Indices: 8727843--8727912 Score: 68
Period size: 1 Copynumber: 70.0 Consensus size: 1
8727833 TTTTCATATA
* * * * * * * *
8727843 TTTTTTCTTTCTTTTTTTTTCTTCTTTTTTTTTTTTTTTTTTTATTTTTTTCTTTTCTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8727908 TTTTT
1 TTTTT
8727913 CAAGCAAAAT
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.01, C:0.10, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:8727862 original size:14 final size:14
Alignment explanation
Indices: 8727843--8727913 Score: 82
Period size: 13 Copynumber: 5.5 Consensus size: 14
8727833 TTTTCATATA
8727843 TTTTTTCTTTCTTT
1 TTTTTTCTTTCTTT
8727857 TTTTTTC-TTC--T
1 TTTTTTCTTTCTTT
8727868 TTTTTT-TTT-TTT
1 TTTTTTCTTTCTTT
*
8727880 TTTTTTATTT-TTT
1 TTTTTTCTTTCTTT
*
8727893 TCTTTTCTTTCTTT
1 TTTTTTCTTTCTTT
8727907 TTTTTTC
1 TTTTTTC
8727914 AAGCAAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.18
12 7 0.14
13 17 0.35
14 16 0.33
ACGTcount: A:0.01, C:0.11, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTCTTTCTTT
Found at i:8740688 original size:9 final size:9
Alignment explanation
Indices: 8740674--8740710 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
8740664 ATTTTTGTTG
*
8740674 TTAATAATT
1 TTAATAATA
8740683 TTAAT-ATA
1 TTAATAATA
8740691 TTAATAATA
1 TTAATAATA
8740700 -TAATAATA
1 TTAATAATA
8740708 TTA
1 TTA
8740711 TACCAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
8 15 0.60
9 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
TTAATAATA
Found at i:8742267 original size:11 final size:11
Alignment explanation
Indices: 8742247--8742282 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
8742237 ACACTTATAA
*
8742247 TATATATAGTT
1 TATATGTAGTT
8742258 TATATGTAGTT
1 TATATGTAGTT
*
8742269 TACATGTAGTT
1 TATATGTAGTT
8742280 TAT
1 TAT
8742283 TAATAAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.53
Consensus pattern (11 bp):
TATATGTAGTT
Found at i:8742307 original size:2 final size:2
Alignment explanation
Indices: 8742300--8742387 Score: 71
Period size: 2 Copynumber: 46.0 Consensus size: 2
8742290 CTATGTAATT
* * *
8742300 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A GA TT TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
8742341 TA TA GTT TA TA TA TA TA -A TA TA T- TA -A GTA CA TA TA TA T- TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
8742381 TA -A TA TA
1 TA TA TA TA
8742388 AATAGTTTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
1 6 0.09
2 61 0.88
3 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8742349 original size:13 final size:13
Alignment explanation
Indices: 8742300--8742357 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 13
8742290 CTATGTAATT
*
8742300 TATATATA-TATA
1 TATATATAGTTTA
*
8742312 TATATATA-TATA
1 TATATATAGTTTA
8742324 TATATA-AGATTTA
1 TATATATAG-TTTA
*
8742337 TGTATATAGTTTA
1 TATATATAGTTTA
8742350 TATATATA
1 TATATATA
8742358 ATATATTAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
11 1 0.03
12 18 0.45
13 19 0.47
14 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (13 bp):
TATATATAGTTTA
Found at i:8742474 original size:9 final size:9
Alignment explanation
Indices: 8742460--8742492 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
8742450 GTGTAAATAA
*
8742460 TATATAAAC
1 TATATAAAG
8742469 TATATAAAG
1 TATATAAAG
8742478 TAT-TAAAG
1 TATATAAAG
8742486 TATATAA
1 TATATAA
8742493 TTTATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (9 bp):
TATATAAAG
Found at i:8742500 original size:19 final size:20
Alignment explanation
Indices: 8742478--8742529 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
8742468 CTATATAAAG
8742478 TATTAAAGTATATAA-TTTA
1 TATTAAAGTATATAAGTTTA
8742497 TATTAATA-TAATATAAGTTTA
1 TATTAA-AGT-ATATAAGTTTA
8742518 TATATAAAGTAT
1 TAT-TAAAGTAT
8742530 TAGTGCATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 7 0.25
20 7 0.25
21 10 0.36
22 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (20 bp):
TATTAAAGTATATAAGTTTA
Found at i:8746060 original size:18 final size:18
Alignment explanation
Indices: 8746034--8746069 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8746024 CTATATTTAT
8746034 ATTAATATAAATTATATA
1 ATTAATATAAATTATATA
* *
8746052 ATTATTATAAGTTATATA
1 ATTAATATAAATTATATA
8746070 TATAAACTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTAATATAAATTATATA
Found at i:8746073 original size:52 final size:56
Alignment explanation
Indices: 8746014--8746136 Score: 148
Period size: 52 Copynumber: 2.3 Consensus size: 56
8746004 GTTGTTGTTG
* *
8746014 TATATATAAACTATATTTATATTAA-TATAAAT-TATA-TAATTATTATAAG-T-TA
1 TATATATAAACTATATTTATATGAACTATAAATATAAACTAATTA-TATAAGCTATA
* * *
8746066 TATATATAAACTATGTTTATATGAACTATATATATAAACTATTTATATAAGCTATA
1 TATATATAAACTATATTTATATGAACTATAAATATAAACTAATTATATAAGCTATA
*
8746122 TATGTATAAACTATA
1 TATATATAAACTATA
8746137 AAAAGTATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
52 23 0.39
53 6 0.10
54 9 0.15
55 6 0.10
56 15 0.25
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (56 bp):
TATATATAAACTATATTTATATGAACTATAAATATAAACTAATTATATAAGCTATA
Found at i:8746086 original size:13 final size:14
Alignment explanation
Indices: 8746064--8746136 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 14
8746054 TATTATAAGT
8746064 TATA-TATATAAAC
1 TATATTATATAAAC
* *
8746077 TATGTTTATATGAAC
1 TAT-ATTATATAAAC
8746092 TATA-TATATAAAC
1 TATATTATATAAAC
*
8746105 TAT-TTATATAAGC
1 TATATTATATAAAC
*
8746118 TATATATGTATAAAC
1 TATAT-TATATAAAC
8746133 TATA
1 TATA
8746137 AAAAGTATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
13 25 0.52
14 1 0.02
15 22 0.46
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (14 bp):
TATATTATATAAAC
Found at i:8746101 original size:15 final size:14
Alignment explanation
Indices: 8746014--8746136 Score: 68
Period size: 13 Copynumber: 9.1 Consensus size: 14
8746004 GTTGTTGTTG
8746014 TATATATA-AACTA
1 TATATATATAACTA
*
8746027 TATTTATATTAA-TA
1 TATATATA-TAACTA
*
8746041 TAAATTATATAA-T-
1 TATA-TATATAACTA
**
8746054 TAT-TATA-AGTTA
1 TATATATATAACTA
8746066 TATATATA-AACTA
1 TATATATATAACTA
* *
8746079 TGTTTATATGAACTA
1 TATATATAT-AACTA
8746094 TATATATA-AACTA
1 TATATATATAACTA
8746107 T-T-TATATAAGCTA
1 TATATATATAA-CTA
*
8746120 TATATGTATAAACTA
1 TATATATAT-AACTA
8746135 TA
1 TA
8746137 AAAAGTATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
10 1 0.01
11 9 0.11
12 6 0.07
13 32 0.38
14 9 0.11
15 26 0.31
16 2 0.02
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (14 bp):
TATATATATAACTA
Found at i:8746104 original size:28 final size:27
Alignment explanation
Indices: 8746057--8746135 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 27
8746047 ATATAATTAT
*
8746057 TATAAGTTATATATATAAACTATGTTTA
1 TATAAGCTATATATATAAACTAT-TTTA
8746085 TATGAA-CTATATATATAAACTA-TTTA
1 TAT-AAGCTATATATATAAACTATTTTA
8746111 TATAAGCTATATATGTATAAACTAT
1 TATAAGCTATATA--TATAAACTAT
8746136 AAAAAGTATA
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
25 2 0.04
26 14 0.31
28 27 0.60
29 2 0.04
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (27 bp):
TATAAGCTATATATATAAACTATTTTA
Found at i:8746307 original size:13 final size:13
Alignment explanation
Indices: 8746288--8746651 Score: 161
Period size: 13 Copynumber: 28.5 Consensus size: 13
8746278 ATGCATAAAC
8746288 TATATATATAATA
1 TATATATATAATA
* * *
8746301 TAAATATATAGTT
1 TATATATATAATA
*
8746314 TATAAACTATAAT-
1 TATATA-TATAATA
8746327 T-TATAT-TAATA
1 TATATATATAATA
8746338 TAGTATATAT-ATA
1 TA-TATATATAATA
*
8746351 TGTATA-ACTAATA
1 TATATATA-TAATA
* *
8746364 TATGTA-AT-CTA
1 TATATATATAATA
*
8746375 TAGAT-TAT-ATA
1 TATATATATAATA
8746386 TATATATAT-ATA
1 TATATATATAATA
8746398 -ATATATATAATA
1 TATATATATAATA
8746410 TATATATAT-ATA
1 TATATATATAATA
8746422 TA-ATATATAAACTA
1 TATATATAT-AA-TA
*
8746436 TATAAAGTAATAAGTA
1 TATATA-T-ATAA-TA
* * *
8746452 TAGAGTTTATAGAAA
1 TATA-TATATA-ATA
*
8746467 CACTATGCATA-AACTA
1 TA-TAT--ATATAA-TA
8746483 TATATA-ATAA-A
1 TATATATATAATA
*
8746494 TTATAGTTTATAA-A
1 -TATA-TATATAATA
*
8746508 CTATA-AT-TTATA
1 -TATATATATAATA
8746520 T-TAATATATAATA
1 TAT-ATATATAATA
* *
8746533 TGTATGTATAACTA
1 TATATATATAA-TA
* *
8746547 -ATATATGTAATC
1 TATATATATAATA
*
8746559 TATAGAT-T-ATA
1 TATATATATAATA
8746570 TATATATAT-ATA
1 TATATATATAATA
8746582 TATATATAT-ATA
1 TATATATATAATA
8746594 TATATTATATAATA
1 TATA-TATATAATA
8746608 TATATATAT-ATA
1 TATATATATAATA
*
8746620 TATATATTATACTA
1 TATATA-TATAATA
8746634 TATATATAT-ATA
1 TATATATATAATA
8746646 TATATA
1 TATATA
8746652 AAACTATATA
Statistics
Matches: 271, Mismatches: 41, Indels: 79
0.69 0.10 0.20
Matches are distributed among these distances:
10 5 0.02
11 43 0.16
12 71 0.26
13 85 0.31
14 37 0.14
15 12 0.04
16 14 0.05
17 4 0.01
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.44
Consensus pattern (13 bp):
TATATATATAATA
Found at i:8746309 original size:15 final size:15
Alignment explanation
Indices: 8746289--8746428 Score: 65
Period size: 15 Copynumber: 8.9 Consensus size: 15
8746279 TGCATAAACT
8746289 ATATATATAATATAA
1 ATATATATAATATAA
*
8746304 ATATATAGT-TTATAA
1 ATATATA-TAATATAA
* *
8746319 ACTATA-ATTTATATTA
1 A-TATATA-TAATATAA
*
8746335 ATATAGTAT-ATATAT
1 ATATA-TATAATATAA
* *
8746350 ATGTATAACTAATATAT
1 ATATAT-A-TAATATAA
* * *
8746367 GTAATCTATAGAT-TAT
1 AT-ATATATA-ATATAA
8746383 ATATATAT-ATATATA
1 ATATATATAATATA-A
8746398 ATATATATAATATATA
1 ATATATATAATATA-A
8746414 TATATATATAATATA
1 -ATATATATAATATA
8746429 TAAACTATAT
Statistics
Matches: 98, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
13 2 0.02
14 3 0.03
15 41 0.42
16 25 0.26
17 25 0.26
18 2 0.02
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (15 bp):
ATATATATAATATAA
Found at i:8746331 original size:7 final size:7
Alignment explanation
Indices: 8746328--8746431 Score: 62
Period size: 7 Copynumber: 15.0 Consensus size: 7
8746318 AACTATAATT
8746328 TATATTAA
1 TATA-TAA
8746336 TATAGT-A
1 TATA-TAA
8746343 TATATATA
1 TATATA-A
*
8746351 TGTATAA
1 TATATAA
8746358 CTA-AT-A
1 -TATATAA
*
8746364 TATGTAA
1 TATATAA
*
8746371 TCTATAGA
1 TATATA-A
8746379 T-TAT-A
1 TATATAA
8746384 TATATATA
1 TATATA-A
8746392 TATATAA
1 TATATAA
8746399 TATAT-A
1 TATATAA
8746405 TA-AT-A
1 TATATAA
8746410 TATATATA
1 TATATA-A
8746418 TATATAA
1 TATATAA
8746425 TATATAA
1 TATATAA
8746432 ACTATATAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 25
0.72 0.06 0.23
Matches are distributed among these distances:
5 9 0.12
6 11 0.14
7 30 0.38
8 28 0.36
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (7 bp):
TATATAA
Found at i:8746661 original size:2 final size:2
Alignment explanation
Indices: 8746288--8746651 Score: 177
Period size: 2 Copynumber: 188.0 Consensus size: 2
8746278 ATGCATAAAC
* * * *
8746288 TA TA TA TA TA -A TA TA AA TA TA TA GTT TA TA AA CTA TA -A TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA
* *
8746330 TA T- TA -A TA TA GTA TA TA TA TA TG TA TA -A CTA -A TA TA TG TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* *
8746370 -A TC TA TA GA T- TA TA TA TA TA TA TA TA TA -A TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
8746408 TA TA TA TA TA TA TA TA -A TA TA TA AA CTA TA TA AA GTA -A TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA
* * * * * * * *
8746449 GTA TA GA GTT TA TA GA AA CA CTA TG CA TA AA CTA TA TA TA -A TA
1 -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA
* * * *
8746492 AA T- TA TA GTT TA TA AA CTA TA -A TT TA TA T- TA -A TA TA TA -A
1 TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
8746531 TA TG TA TG TA TA -A CTA -A TA TA TG TA -A TC TA TA GA T- TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8746570 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8746610 TA TA TA TA TA TA TA TA T- TA TA CTA 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
8746652 AAACTATATA
Statistics
Matches: 270, Mismatches: 52, Indels: 80
0.67 0.13 0.20
Matches are distributed among these distances:
1 26 0.10
2 229 0.85
3 15 0.06
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.44
Consensus pattern (2 bp):
TA
Found at i:8746731 original size:18 final size:18
Alignment explanation
Indices: 8746693--8746875 Score: 92
Period size: 18 Copynumber: 10.4 Consensus size: 18
8746683 GAAACTATGC
*
8746693 ATAAACTATATA-TATAAT
1 ATAAACTATATAGT-TATT
*
8746711 ATAAATTATATAGTTATT
1 ATAAACTATATAGTTATT
*
8746729 ATAAACTATATGGTTATT
1 ATAAACTATATAGTTATT
8746747 ATAAACTATATA-TGTA--
1 ATAAACTATATAGT-TATT
*
8746763 AT---CTATGTAGTTATT
1 ATAAACTATATAGTTATT
8746778 ATAAACTAATAAACTA-TATATAT
1 ATAAACT-AT--A-TAGT-TAT-T
* * *
8746801 ATAAACTATACATGTAAAT
1 ATAAACTATATA-GTTATT
8746820 ATAAACTATATA--TATGT
1 ATAAACTATATAGTTAT-T
8746837 AT-AACT-TATA--TA-T
1 ATAAACTATATAGTTATT
8746850 ATAAACTATATAGTT-TAT
1 ATAAACTATATAGTTAT-T
8746868 ATAAACTA
1 ATAAACTA
8746876 CATATGTATA
Statistics
Matches: 129, Mismatches: 13, Indels: 46
0.69 0.07 0.24
Matches are distributed among these distances:
13 11 0.09
14 5 0.04
15 12 0.09
16 7 0.05
17 5 0.04
18 54 0.42
19 16 0.12
20 2 0.02
21 2 0.02
22 7 0.05
23 8 0.06
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (18 bp):
ATAAACTATATAGTTATT
Found at i:8746804 original size:15 final size:15
Alignment explanation
Indices: 8746786--8746977 Score: 123
Period size: 15 Copynumber: 12.9 Consensus size: 15
8746776 TTATAAACTA
8746786 ATAAACTATATATAT
1 ATAAACTATATATAT
*
8746801 ATAAACTATACATGTAAAT
1 ATAAACTAT--A--TATAT
8746820 ATAAACTATATATAT
1 ATAAACTATATATAT
*
8746835 GTATAACT-TATATAT
1 ATA-AACTATATATAT
8746850 ATAAACTATATAGTTTAT
1 ATAAACTATATA---TAT
* *
8746868 ATAAACTACATATGT
1 ATAAACTATATATAT
*
8746883 ATAAAC--TATGTAT
1 ATAAACTATATATAT
*
8746896 ATAAA-T-TATATAA
1 ATAAACTATATATAT
* * *
8746909 ATCAATTATATAGAT
1 ATAAACTATATATAT
8746924 ATAAAC--TATATAT
1 ATAAACTATATATAT
* *
8746937 ACAATCTATATATA-
1 ATAAACTATATATAT
* * *
8746951 A-AAGCTACATATGT
1 ATAAACTATATATAT
8746965 ATAAACTATATAT
1 ATAAACTATATAT
8746978 GTAATCTATA
Statistics
Matches: 137, Mismatches: 24, Indels: 32
0.71 0.12 0.17
Matches are distributed among these distances:
13 37 0.27
14 7 0.05
15 60 0.44
16 4 0.03
17 2 0.01
18 14 0.10
19 13 0.09
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.38
Consensus pattern (15 bp):
ATAAACTATATATAT
Found at i:8746834 original size:13 final size:13
Alignment explanation
Indices: 8746818--8746989 Score: 94
Period size: 13 Copynumber: 12.1 Consensus size: 13
8746808 ATACATGTAA
8746818 ATATAAACTATAT
1 ATATAAACTATAT
8746831 ATATGTATAACTTATAT
1 ATA--TA-AAC-TATAT
8746848 ATATAAACTATATAGTTT
1 ATATAAAC--TATA---T
8746866 ATATAAACTACATAT
1 ATATAAACT--ATAT
* *
8746881 GTATAAACTATGT
1 ATATAAACTATAT
*
8746894 ATATAAATTATAT
1 ATATAAACTATAT
* * *
8746907 AAATCAATTATAT
1 ATATAAACTATAT
8746920 AGATATAAACTATAT
1 --ATATAAACTATAT
* *
8746935 ATACAATCTATAT
1 ATATAAACTATAT
8746948 ATA-AAAGCTACATAT
1 ATATAAA-CT--ATAT
*
8746963 GTATAAACTATAT
1 ATATAAACTATAT
* *
8746976 ATGTAATCTATAT
1 ATATAAACTATAT
8746989 A
1 A
8746990 GTTTATATAA
Statistics
Matches: 125, Mismatches: 18, Indels: 32
0.71 0.10 0.18
Matches are distributed among these distances:
12 2 0.02
13 58 0.46
14 3 0.02
15 35 0.28
16 7 0.06
17 8 0.06
18 12 0.10
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (13 bp):
ATATAAACTATAT
Found at i:8746925 original size:28 final size:28
Alignment explanation
Indices: 8746894--8746948 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
8746884 TAAACTATGT
*
8746894 ATATAAATTATATAAATCAAT-TATATAG
1 ATATAAACTATATAAA-CAATCTATATAG
*
8746922 ATATAAACTATATATACAATCTATATA
1 ATATAAACTATATAAACAATCTATATA
8746949 TAAAAGCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (28 bp):
ATATAAACTATATAAACAATCTATATAG
Found at i:8746968 original size:41 final size:39
Alignment explanation
Indices: 8746865--8746989 Score: 123
Period size: 41 Copynumber: 3.1 Consensus size: 39
8746855 CTATATAGTT
8746865 TATAT-AAACTACATATGTATAAACTATGTATATAAAT-TA
1 TATATAAAACTACATATGTATAAACTA--TATATAAATCTA
* *
8746904 TATA-AATCAATTATATA-GATATAAACTATATATACAATCTA
1 TATATAA--AACTACATATG-TATAAACTATATATA-AATCTA
*
8746945 TATATAAAAGCTACATATGTATAAACTATATATGTAATCTA
1 TATATAAAA-CTACATATGTATAAACTATATAT-AAATCTA
8746986 TATA
1 TATA
8746990 GTTTATATAA
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
39 11 0.15
40 6 0.08
41 51 0.72
42 3 0.04
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.38
Consensus pattern (39 bp):
TATATAAAACTACATATGTATAAACTATATATAAATCTA
Found at i:8747068 original size:20 final size:20
Alignment explanation
Indices: 8746984--8747068 Score: 81
Period size: 20 Copynumber: 4.3 Consensus size: 20
8746974 ATATGTAATC
8746984 TATATAGTTTATATAAA-TA
1 TATATAGTTTATATAAACTA
8747003 TAATATA-TTTATGTATAAACTA
1 T-ATATAGTTTA--TATAAACTA
*
8747025 TATATAGTTTATACAAAC--
1 TATATAGTTTATATAAACTA
*
8747043 TCTATAG-TTATTATAAACTA
1 TATATAGTTTA-TATAAACTA
8747063 TATATA
1 TATATA
8747069 TGCAACCTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
17 3 0.06
18 12 0.22
19 5 0.09
20 16 0.30
21 11 0.20
22 7 0.13
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.45
Consensus pattern (20 bp):
TATATAGTTTATATAAACTA
Found at i:8747145 original size:2 final size:2
Alignment explanation
Indices: 8747140--8747181 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
8747130 TATAGTCTAT
*
8747140 TA TA TA TA TA TA -A CA TA TA GTA 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
8747182 CAATCTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
1 1 0.03
2 34 0.92
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:8747151 original size:25 final size:26
Alignment explanation
Indices: 8747108--8747177 Score: 97
Period size: 25 Copynumber: 2.7 Consensus size: 26
8747098 ATGTATAATT
* *
8747108 TATATAAACTATATATATAACCTATAG
1 TATATATA-TATATATATAACATATAG
*
8747135 TCTAT-TATATATATATAACATATAG
1 TATATATATATATATATAACATATAG
8747160 TATATATATATATATATA
1 TATATATATATATATATA
8747178 TATACAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 21 0.55
26 13 0.34
27 4 0.11
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (26 bp):
TATATATATATATATATAACATATAG
Found at i:8747296 original size:21 final size:21
Alignment explanation
Indices: 8747249--8747289 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8747239 ATTAGTGTAC
* *
8747249 TATATAGTTTATAACCTATAG
1 TATATAATTTATAAACTATAG
8747270 TATATAATTTATAAACTATA
1 TATATAATTTATAAACTATA
8747290 TTTTATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (21 bp):
TATATAATTTATAAACTATAG
Found at i:8747309 original size:20 final size:21
Alignment explanation
Indices: 8747284--8747325 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
8747274 TAATTTATAA
8747284 ACTATAT-TTTATATTAATGT
1 ACTATATATTTATATTAATGT
8747304 ACTATATAGTTTATATTAATGT
1 ACTATATA-TTTATATTAATGT
8747326 TAATTATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (21 bp):
ACTATATATTTATATTAATGT
Found at i:8747349 original size:31 final size:35
Alignment explanation
Indices: 8747308--8747426 Score: 111
Period size: 36 Copynumber: 3.5 Consensus size: 35
8747298 TAATGTACTA
* *
8747308 TATAGTTTATATTAATGT-TA-ATTATCT-T-AAC
1 TATAATTTATATTAATGTATATATAATCTATAAAC
*
8747339 TATAATTTATATTAATGTAGTATATAATTTATAAAC
1 TATAATTTATATTAATGTA-TATATAATCTATAAAC
* * * *
8747375 TATAATTTGTATTAATGTAGTAGATAGTTTATAAAC
1 TATAATTTATATTAATGTA-TATATAATCTATAAAC
* *
8747411 TATAGTTTACATTAAT
1 TATAATTTATATTAAT
8747427 ATTAACATAT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
31 17 0.23
33 2 0.03
34 5 0.07
35 1 0.01
36 49 0.66
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.48
Consensus pattern (35 bp):
TATAATTTATATTAATGTATATATAATCTATAAAC
Found at i:8747376 original size:36 final size:36
Alignment explanation
Indices: 8747336--8747426 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 36
8747326 TAATTATCTT
*
8747336 AACTATAATTTATATTAATGTAGTATATAATTTATA
1 AACTATAATTTATATTAATGTAGTAGATAATTTATA
* *
8747372 AACTATAATTTGTATTAATGTAGTAGATAGTTTATA
1 AACTATAATTTATATTAATGTAGTAGATAATTTATA
* *
8747408 AACTATAGTTTACATTAAT
1 AACTATAATTTATATTAAT
8747427 ATTAACATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (36 bp):
AACTATAATTTATATTAATGTAGTAGATAATTTATA
Found at i:8747476 original size:24 final size:24
Alignment explanation
Indices: 8747421--8747491 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
8747411 TATAGTTTAC
* *
8747421 ATTAATATTAACATATTAACTATAGT
1 ATTAATATTAATATAGT-A-TATAGT
8747447 -TT-ATATTAATATAGTATATAGT
1 ATTAATATTAATATAGTATATAGT
*
8747469 ATTAATATTAATTATAGTCTATA
1 ATTAATATTAA-TATAGTATATA
8747492 AACCATATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 6 0.15
23 3 0.08
24 18 0.46
25 12 0.31
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (24 bp):
ATTAATATTAATATAGTATATAGT
Found at i:8747557 original size:14 final size:14
Alignment explanation
Indices: 8747546--8747602 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
8747536 AAACTATACT
8747546 ATATAATTTATAAA
1 ATATAATTTATAAA
* *
8747560 ATATAGTTTATATTA
1 ATATAATTTATA-AA
8747575 ATATTAATTTTATAAA
1 ATA-TAA-TTTATAAA
* *
8747591 CTATATTTTATA
1 ATATAATTTATA
8747603 TTAATATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 17 0.50
15 6 0.18
16 5 0.15
17 6 0.18
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (14 bp):
ATATAATTTATAAA
Found at i:8747590 original size:31 final size:31
Alignment explanation
Indices: 8747502--8747614 Score: 129
Period size: 31 Copynumber: 3.5 Consensus size: 31
8747492 AACCATATAC
* *
8747502 TATATTAATATTAATTATATTAACTATAGTT
1 TATATTAATATTAATTTTATAAACTATAGTT
* *
8747533 TATAAACTATACTATATAA-TTTATAAAATATAGTT
1 TAT--A-T-TAATAT-TAATTTTATAAACTATAGTT
*
8747568 TATATTAATATTAATTTTATAAACTATATTT
1 TATATTAATATTAATTTTATAAACTATAGTT
8747599 TATATTAATATTAATT
1 TATATTAATATTAATT
8747615 ACAAATTATA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
30 3 0.04
31 38 0.55
32 1 0.01
33 2 0.03
34 1 0.01
35 21 0.30
36 3 0.04
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (31 bp):
TATATTAATATTAATTTTATAAACTATAGTT
Found at i:8747627 original size:36 final size:30
Alignment explanation
Indices: 8747488--8747700 Score: 123
Period size: 31 Copynumber: 6.7 Consensus size: 30
8747478 AATTATAGTC
* * *
8747488 TATAAACCATATACTATATTAATATTAATTA
1 TATAAACTATAT-TTATATTAATATTAATTT
* *
8747519 TATTAACTATAGTTTATAAACTATACTATATAA-TT
1 TATAAACTATA-TTTAT--A-T-TAATAT-TAATTT
*
8747554 TATAAAATATAGTTTATATTAATATTAATTT
1 TATAAACTATA-TTTATATTAATATTAATTT
8747585 TATAAACTATATTTTATATTAATATTAATTACAAAT
1 TATAAACTATA-TTTATATTAATATTAATT-----T
*
8747621 TATAAACTATA-TTATATTAATA-TAAGTTAA
1 TATAAACTATATTTATATTAATATTAA-TT-T
* *
8747651 TATTAA-TATTAATTATATTAATATTAA--T
1 TATAAACTA-TATTTATATTAATATTAATTT
* *
8747679 TATAATCCATAATTTATATTAA
1 TATAAACTAT-ATTTATATTAA
8747701 CTCTATTAAT
Statistics
Matches: 147, Mismatches: 17, Indels: 38
0.73 0.08 0.19
Matches are distributed among these distances:
28 5 0.03
29 13 0.09
30 11 0.07
31 58 0.39
32 5 0.03
33 5 0.03
34 14 0.10
35 21 0.14
36 15 0.10
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.47
Consensus pattern (30 bp):
TATAAACTATATTTATATTAATATTAATTT
Found at i:8747655 original size:16 final size:14
Alignment explanation
Indices: 8747567--8747736 Score: 80
Period size: 15 Copynumber: 11.4 Consensus size: 14
8747557 AAAATATAGT
8747567 TTATATTAATATTAA
1 TTATATTAATA-TAA
* * *
8747582 TTTTATAAACTATATT
1 TTATATTAA-TATA-A
8747598 TTATATTAATATTAA
1 TTATATTAATA-TAA
* *
8747613 TTACAAATTATAAACTATA
1 TT--ATATTA-ATA-TA-A
8747632 TTATATTAATATAA
1 TTATATTAATATAA
8747646 GTTAATATTAATATTAA
1 -TT-ATATTAATA-TAA
8747663 TTATATTAATATTAA
1 TTATATTAATA-TAA
** *
8747678 TTATAATCCATA-AT
1 TTAT-ATTAATATAA
*
8747692 TTATATTAACTCT-A
1 TTATATTAA-TATAA
8747706 TTA-ATTAA-ATAA
1 TTATATTAATATAA
8747718 TT-TATTAATATAAA
1 TTATATTAATAT-AA
8747732 TTATA
1 TTATA
8747737 GTTTATTAAT
Statistics
Matches: 118, Mismatches: 19, Indels: 36
0.68 0.11 0.21
Matches are distributed among these distances:
11 1 0.01
12 8 0.07
13 10 0.08
14 14 0.12
15 36 0.31
16 29 0.25
17 13 0.11
18 4 0.03
19 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (14 bp):
TTATATTAATATAA
Found at i:8747655 original size:21 final size:20
Alignment explanation
Indices: 8747629--8747680 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
8747619 ATTATAAACT
8747629 ATATTATATTAA-TATAAGTTA
1 ATATTATATTAATTAT-A-TTA
8747650 ATATTAATATTAATTATATTA
1 ATATT-ATATTAATTATATTA
8747671 ATATTA-ATTA
1 ATATTATATTA
8747681 TAATCCATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.14
20 1 0.03
21 13 0.45
22 8 0.28
23 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATTATATTAATTATATTA
Found at i:8747743 original size:20 final size:20
Alignment explanation
Indices: 8747718--8747756 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
8747708 AATTAAATAA
8747718 TTTATTAATATAAATTATAG
1 TTTATTAATATAAATTATAG
8747738 TTTATTAATATAAATTATA
1 TTTATTAATATAAATTATA
8747757 TAGGGATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TTTATTAATATAAATTATAG
Found at i:8748257 original size:102 final size:102
Alignment explanation
Indices: 8748057--8748250 Score: 223
Period size: 102 Copynumber: 1.9 Consensus size: 102
8748047 GTTCTTTGAA
* * * * * *
8748057 AAAACCTTCATTTGATCTTCAAAAACACCAAATCTCAAACATTTTTCTGTTTTTTCGCTCAAACA
1 AAAACCCTCATTTAATCTTCAAAAACACCAAAACCCAAACATTTTTCTGTTTTTCCGATCAAACA
* *
8748122 CACAAAATTTCTTAACTTGTTCATCCGAGTTCATACC
66 CACAAAATTTCTTAACCTGTTAATCCGAGTTCATACC
* *
8748159 AAAACCCTCATTTAATCTTCATAAACACCAAAACCCATACGATTTCTT-T-TTTTTCCGATCAAA
1 AAAACCCTCATTTAATCTTCAAAAACACCAAAACCCAAAC-ATTT-TTCTGTTTTTCCGATCAAA
* **
8748222 CACCCAAAAGTTTC-TCCCCTGTTAATCCG
64 CACACAAAA-TTTCTTAACCTGTTAATCCG
8748251 TATTCATCCG
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
102 65 0.86
103 9 0.12
104 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (102 bp):
AAAACCCTCATTTAATCTTCAAAAACACCAAAACCCAAACATTTTTCTGTTTTTCCGATCAAACA
CACAAAATTTCTTAACCTGTTAATCCGAGTTCATACC
Found at i:8750784 original size:6 final size:6
Alignment explanation
Indices: 8750773--8750801 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8750763 TTTATTAATT
8750773 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
8750802 TTTAGGGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:8751611 original size:42 final size:42
Alignment explanation
Indices: 8751565--8751650 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 42
8751555 TATTTTGGAG
* *
8751565 AATTAATCACGTTCAATACCAATATTCATT-TATT-ATCAAATT
1 AATT-ATCA-GTTCAATACCAAAATTAATTGTATTAATCAAATT
* * *
8751607 AATTATCATTTCAATGCCAAAATTAATTGTATTAATCATATT
1 AATTATCAGTTCAATACCAAAATTAATTGTATTAATCAAATT
8751649 AA
1 AA
8751651 ATGTCAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
40 16 0.43
41 8 0.22
42 13 0.35
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.41
Consensus pattern (42 bp):
AATTATCAGTTCAATACCAAAATTAATTGTATTAATCAAATT
Found at i:8751731 original size:23 final size:24
Alignment explanation
Indices: 8751703--8751756 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
8751693 TTATTTTTTC
8751703 TTTACATAAATTAAACTATA-TAA
1 TTTACATAAATTAAACTATATTAA
8751726 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
8751750 TTTACAT
1 TTTACAT
8751757 TTAATCATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:8752047 original size:32 final size:32
Alignment explanation
Indices: 8751985--8752048 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
8751975 ATTTCATCCA
* **
8751985 TGGTAATATATGAGTCAGGTAAATGTCAAGTC
1 TGGTAATATATCAGTCAGGTAAATAACAAGTC
*
8752017 TGGTAA-ATATCAGATCAGGTCAATAACAAGTC
1 TGGTAATATATCAG-TCAGGTAAATAACAAGTC
8752049 GGATCATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (32 bp):
TGGTAATATATCAGTCAGGTAAATAACAAGTC
Found at i:8757503 original size:17 final size:16
Alignment explanation
Indices: 8757479--8757523 Score: 72
Period size: 17 Copynumber: 2.8 Consensus size: 16
8757469 AAAAACAGTA
8757479 AAAGAAATAGTATAAT
1 AAAGAAATAGTATAAT
8757495 AAGAGAAATAGTATAAT
1 AA-AGAAATAGTATAAT
*
8757512 AAAAAAATAGTA
1 AAAGAAATAGTA
8757524 AGGGGAAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.22
Consensus pattern (16 bp):
AAAGAAATAGTATAAT
Found at i:8757554 original size:17 final size:17
Alignment explanation
Indices: 8757532--8757576 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
8757522 TAAGGGGAAG
8757532 GAAACAATACATTGAAA
1 GAAACAATACATTGAAA
8757549 GAAACAATACATTGAAA
1 GAAACAATACATTGAAA
*
8757566 GGAACAATACA
1 GAAACAATACA
8757577 AAAAATAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.16
Consensus pattern (17 bp):
GAAACAATACATTGAAA
Found at i:8757590 original size:35 final size:35
Alignment explanation
Indices: 8757545--8757626 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 35
8757535 ACAATACATT
* * *
8757545 GAAAGAAACAATACATTGAAAGGAACAATAC-AAAA
1 GAAAGGAACAATACA-AGAAAGAAACAATACGAAAA
*
8757580 -AATAGGAACAATATAAGAAAGAAACAATACGAAAA
1 GAA-AGGAACAATACAAGAAAGAAACAATACGAAAA
8757615 GAAAGG-ACAATA
1 GAAAGGAACAATA
8757627 TTAATTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
34 21 0.52
35 17 0.43
36 2 0.05
ACGTcount: A:0.63, C:0.10, G:0.16, T:0.11
Consensus pattern (35 bp):
GAAAGGAACAATACAAGAAAGAAACAATACGAAAA
Found at i:8757600 original size:34 final size:34
Alignment explanation
Indices: 8757562--8757627 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
8757552 ACAATACATT
*
8757562 GAAAGGAACAATAC-AAAA-AATAGGAACAATATAA
1 GAAAGAAACAATACGAAAAGAA-AGG-ACAATATAA
8757596 GAAAGAAACAATACGAAAAGAAAGGACAATAT
1 GAAAGAAACAATACGAAAAGAAAGGACAATAT
8757628 TAATTTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 20 0.69
35 7 0.24
36 2 0.07
ACGTcount: A:0.64, C:0.09, G:0.17, T:0.11
Consensus pattern (34 bp):
GAAAGAAACAATACGAAAAGAAAGGACAATATAA
Found at i:8758667 original size:14 final size:14
Alignment explanation
Indices: 8758639--8758704 Score: 76
Period size: 14 Copynumber: 5.3 Consensus size: 14
8758629 CGTTCATGAA
8758639 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
8758653 CG-T---TTATGTT
1 CGTTCGGTTATGTT
8758663 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
8758677 CG-T---TTATGTT
1 CGTTCGGTTATGTT
8758687 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
8758701 CGTT
1 CGTT
8758705 TATGTTCATT
Statistics
Matches: 44, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
10 18 0.41
11 2 0.05
13 2 0.05
14 22 0.50
ACGTcount: A:0.08, C:0.14, G:0.26, T:0.53
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:8758724 original size:24 final size:24
Alignment explanation
Indices: 8758639--8758711 Score: 146
Period size: 24 Copynumber: 3.0 Consensus size: 24
8758629 CGTTCATGAA
8758639 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
8758663 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
8758687 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
8758711 C
1 C
8758712 ATTCATTTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.08, C:0.14, G:0.25, T:0.53
Consensus pattern (24 bp):
CGTTCGGTTATGTTCGTTTATGTT
Found at i:8759451 original size:16 final size:16
Alignment explanation
Indices: 8759430--8759496 Score: 84
Period size: 16 Copynumber: 4.3 Consensus size: 16
8759420 GTCTCCAACG
8759430 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
8759446 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
* * *
8759462 TTTATGTCCGTATTCG
1 TTTATGTTCGTGTTCA
8759478 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
8759492 TTTAT
1 TTTAT
8759497 TAAATGAACG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 5 0.11
15 2 0.04
16 39 0.85
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:8759482 original size:32 final size:32
Alignment explanation
Indices: 8759428--8759488 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
8759418 GGGTCTCCAA
* *
8759428 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATGTCCGTATTCATTTATGTTCGTGTT
*
8759460 CGTTTATGTCCGTATTCGTTTATGTTCGT
1 CGTTTATGTCCGTATTCATTTATGTTCGT
8759489 TTATTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.10, C:0.15, G:0.21, T:0.54
Consensus pattern (32 bp):
CGTTTATGTCCGTATTCATTTATGTTCGTGTT
Found at i:8760770 original size:22 final size:22
Alignment explanation
Indices: 8760744--8760793 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
8760734 CACTATGATA
8760744 TTTAGTAATTGAATTTGATACT
1 TTTAGTAATTGAATTTGATACT
8760766 TTTAGTAATTGAATTTGATACT
1 TTTAGTAATTGAATTTGATACT
8760788 TTTAGT
1 TTTAGT
8760794 GACAATTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (22 bp):
TTTAGTAATTGAATTTGATACT
Found at i:8764349 original size:36 final size:36
Alignment explanation
Indices: 8764286--8764402 Score: 112
Period size: 36 Copynumber: 3.3 Consensus size: 36
8764276 CATAGGATAT
* * *
8764286 TGAATGTGCCACACCTATAGTGTAATCACAGGACAC
1 TGAATGTGTCGCACCTATAGTGCAATCACAGGACAC
* * *
8764322 TGAATGTGTCGCATCTACAGTGCAATCACATGG-CAT
1 TGAATGTGTCGCACCTATAGTGCAATCACA-GGACAC
* * * *
8764358 TGAATTTGTTGCACCTGTGGTGCAATCA-AGGACAC
1 TGAATGTGTCGCACCTATAGTGCAATCACAGGACAC
*
8764393 TAAATGTGTC
1 TGAATGTGTC
8764403 ATACAGTTAC
Statistics
Matches: 63, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
34 2 0.03
35 10 0.16
36 49 0.78
37 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (36 bp):
TGAATGTGTCGCACCTATAGTGCAATCACAGGACAC
Found at i:8764719 original size:17 final size:17
Alignment explanation
Indices: 8764699--8764731 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8764689 TAAACAATAC
*
8764699 AATAAGAGAAATAGTAT
1 AATAAAAGAAATAGTAT
8764716 AATAAAAGAAATAGTA
1 AATAAAAGAAATAGTA
8764732 AGGTCAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (17 bp):
AATAAAAGAAATAGTAT
Found at i:8766037 original size:5 final size:5
Alignment explanation
Indices: 8766027--8766051 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8766017 ACCGGTCACA
8766027 ACCCG ACCCG ACCCG ACCCG ACCCG
1 ACCCG ACCCG ACCCG ACCCG ACCCG
8766052 TTAACCGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:8768508 original size:24 final size:24
Alignment explanation
Indices: 8768481--8768563 Score: 130
Period size: 24 Copynumber: 3.5 Consensus size: 24
8768471 TTATAATATC
8768481 TGACCTGGATTCTGATCGGATACT
1 TGACCTGGATTCTGATCGGATACT
* *
8768505 TGACCTGGATTCTGATTGAATACT
1 TGACCTGGATTCTGATCGGATACT
* *
8768529 TGACCTGGATTTTGATCTGATACT
1 TGACCTGGATTCTGATCGGATACT
8768553 TGACCTGGATT
1 TGACCTGGATT
8768564 ATGTTATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (24 bp):
TGACCTGGATTCTGATCGGATACT
Found at i:8768663 original size:15 final size:15
Alignment explanation
Indices: 8768645--8768677 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8768635 ATATCTGGAG
8768645 GCTCCTCGGCTGTGT
1 GCTCCTCGGCTGTGT
*
8768660 GCTCCTCGGTTGTGT
1 GCTCCTCGGCTGTGT
8768675 GCT
1 GCT
8768678 AAGGGCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.30, G:0.33, T:0.36
Consensus pattern (15 bp):
GCTCCTCGGCTGTGT
Found at i:8769525 original size:23 final size:23
Alignment explanation
Indices: 8769478--8769538 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
8769468 CAAATATGTG
8769478 ATAAATT-TG-TATTAATATAATA
1 ATAAATTATGCTA-TAATATAATA
8769500 ATAAATTATGCTATAAT-TAATAA
1 ATAAATTATGCTATAATATAAT-A
8769523 ATAAATTATGCTATAA
1 ATAAATTATGCTATAA
8769539 AGAATATTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.31
23 23 0.64
24 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (23 bp):
ATAAATTATGCTATAATATAATA
Found at i:8769544 original size:23 final size:23
Alignment explanation
Indices: 8769499--8769544 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8769489 TTAATATAAT
**
8769499 AATAAATTATGCTATAATTAATA
1 AATAAATTATGCTATAAAGAATA
8769522 AATAAATTATGCTATAAAGAATA
1 AATAAATTATGCTATAAAGAATA
8769545 TTCGATTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (23 bp):
AATAAATTATGCTATAAAGAATA
Found at i:8769828 original size:21 final size:20
Alignment explanation
Indices: 8769778--8769835 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
8769768 AAATGACCAA
8769778 CAAATTCGCAACGCGAACTC
1 CAAATTCGCAACGCGAACTC
* * **
8769798 TAATTTCGCAACGCGATTTTC
1 CAAATTCGCAACGCGA-ACTC
8769819 CAAATTCGCAACGCGAA
1 CAAATTCGCAACGCGAA
8769836 TAGGTAAATC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (20 bp):
CAAATTCGCAACGCGAACTC
Found at i:8769849 original size:20 final size:20
Alignment explanation
Indices: 8769824--8769958 Score: 103
Period size: 20 Copynumber: 6.8 Consensus size: 20
8769814 TTTTCCAAAT
*
8769824 TCGCAACGCGAATAGGTAAA
1 TCGCAACGCGAATATGTAAA
** *
8769844 TCGCAACGATAATATATAAA
1 TCGCAACGCGAATATGTAAA
* * * **
8769864 TTGCAACGTGAAAATCAAAA
1 TCGCAACGCGAATATGTAAA
* *
8769884 TCGTAATGC-AATA-GTAAAA
1 TCGCAACGCGAATATGT-AAA
*
8769903 TTCGCAACGCGAATAGGTAAA
1 -TCGCAACGCGAATATGTAAA
* **
8769924 TCACAACGATAATATGTAAA
1 TCGCAACGCGAATATGTAAA
8769944 TCGCAACGCGAATAT
1 TCGCAACGCGAATAT
8769959 TATTTTAGAA
Statistics
Matches: 85, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
19 6 0.07
20 70 0.82
21 7 0.08
22 2 0.02
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:8769925 original size:40 final size:41
Alignment explanation
Indices: 8769820--8769957 Score: 140
Period size: 40 Copynumber: 3.4 Consensus size: 41
8769810 GCGATTTTCC
*
8769820 AAATTCGCAACGCGAATAGGTAAATCGCAACGATAATATAT
1 AAATTCGCAACGCGAATAGGTAAATCGCAACGACAATATAT
* * *** * *
8769861 AAATT-GCAACGTGAAAATCAAAATCGTAATG-CAATAGTA-
1 AAATTCGCAACGCGAATAGGTAAATCGCAACGACAATA-TAT
* * *
8769900 AAATTCGCAACGCGAATAGGTAAATCACAACGATAATATGT
1 AAATTCGCAACGCGAATAGGTAAATCGCAACGACAATATAT
8769941 AAA-TCGCAACGCGAATA
1 AAATTCGCAACGCGAATA
8769958 TTATTTTAGA
Statistics
Matches: 75, Mismatches: 18, Indels: 9
0.74 0.18 0.09
Matches are distributed among these distances:
39 9 0.12
40 54 0.72
41 12 0.16
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.21
Consensus pattern (41 bp):
AAATTCGCAACGCGAATAGGTAAATCGCAACGACAATATAT
Found at i:8770428 original size:20 final size:20
Alignment explanation
Indices: 8770377--8770442 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 20
8770367 TTTGAAACTT
*
8770377 AAATTCGCAACACGAAAATGA
1 AAATT-GCAACGCGAAAATGA
*
8770398 AAATCGCAACGCGAAAATGA
1 AAATTGCAACGCGAAAATGA
8770418 AAATTGCAACGTTGCGAAAATGA
1 AAATTGCAAC---GCGAAAATGA
8770441 AA
1 AA
8770443 TTTACGTTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
20 23 0.59
21 4 0.10
23 12 0.31
ACGTcount: A:0.50, C:0.17, G:0.18, T:0.15
Consensus pattern (20 bp):
AAATTGCAACGCGAAAATGA
Found at i:8770471 original size:19 final size:20
Alignment explanation
Indices: 8770447--8770497 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
8770437 ATGAAATTTA
*
8770447 CGTTGCGATTTTTA-TTTCG
1 CGTTGCGATTTTCATTTTCG
8770466 CGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
8770486 CGTTACGATTTT
1 CGTTGCGATTTT
8770498 AAGTTTCAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.51
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:8770504 original size:20 final size:19
Alignment explanation
Indices: 8770447--8770504 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
8770437 ATGAAATTTA
*
8770447 CGTTGCGATTTTTATTTCG
1 CGTTGCGATTTTAATTTCG
*
8770466 CGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTT-AATTTCG
*
8770486 CGTTACGATTTTAAGTTTC
1 CGTTGCGATTTTAA-TTTC
8770505 AGAAACTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.14, C:0.17, G:0.19, T:0.50
Consensus pattern (19 bp):
CGTTGCGATTTTAATTTCG
Found at i:8771742 original size:22 final size:18
Alignment explanation
Indices: 8771695--8771765 Score: 106
Period size: 18 Copynumber: 3.7 Consensus size: 18
8771685 GTTCAGTATT
8771695 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
8771713 TGTCCCGAAGGACCACTGGA
1 TGTCCCGAAGGACCACT--A
8771733 TACGTCCCGAAGGACCACTA
1 T--GTCCCGAAGGACCACTA
8771753 TGTCCCGAAGGAC
1 TGTCCCGAAGGAC
8771766 TAATATACCC
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
18 29 0.59
20 4 0.08
22 16 0.33
ACGTcount: A:0.27, C:0.32, G:0.25, T:0.15
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:8772402 original size:19 final size:19
Alignment explanation
Indices: 8772378--8772427 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
8772368 TTTAATCAGG
8772378 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
8772397 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
8772416 TGCATCGATGCA
1 TGCATCGATGCA
8772428 TTAATGGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:8772493 original size:84 final size:83
Alignment explanation
Indices: 8772313--8772493 Score: 208
Period size: 83 Copynumber: 2.2 Consensus size: 83
8772303 CCCTTGACGG
* *
8772313 GTGCATCGATGCACTACCCATGCATCGGTGCATAAATCCTATTCGATGTTTGTATTTTAATCAGG
1 GTGCATCGATGCACTACCCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAAATCAGG
* *
8772378 TGCATCGATGCACTCCTT
66 TGCATCGATACACTCCAT
* * * *
8772396 ATGCATCGATGCACT-CCTTATGCATCGATGCATTAATGGC-ATTCGATGTTCAT-TAATTTAAA
1 GTGCATCGATGCACTACC-CATGCATCGATGCATAAAT-CCTATTCGATGTT--TGT-ATTTAAA
*
8772458 TGA-GTGCATCGATACACTCCAT
61 TCAGGTGCATCGATACACTCCAT
8772480 GTGCATCGATGCAC
1 GTGCATCGATGCAC
8772494 CTTCAACAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
82 2 0.02
83 40 0.48
84 32 0.39
85 9 0.11
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (83 bp):
GTGCATCGATGCACTACCCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAAATCAGG
TGCATCGATACACTCCAT
Found at i:8774250 original size:21 final size:21
Alignment explanation
Indices: 8774224--8774278 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
8774214 CTCGACACTC
8774224 AGAGCCATCACCTCCACAACG
1 AGAGCCATCACCTCCACAACG
* * *
8774245 AGAGCCATTACATCTACAACG
1 AGAGCCATCACCTCCACAACG
8774266 AGAGCCATCACCT
1 AGAGCCATCACCT
8774279 ATTCCATCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.36, G:0.15, T:0.15
Consensus pattern (21 bp):
AGAGCCATCACCTCCACAACG
Found at i:8774420 original size:21 final size:21
Alignment explanation
Indices: 8774393--8774442 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
8774383 GTTAGGGGAG
* *
8774393 TTACGTGATGAGGTCAATGCT
1 TTACGTGAGGAGGTCAATACT
* *
8774414 TTGCGTGAGGAGGTCGATACT
1 TTACGTGAGGAGGTCAATACT
8774435 TTACGTGA
1 TTACGTGA
8774443 CGACAATGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.14, G:0.32, T:0.32
Consensus pattern (21 bp):
TTACGTGAGGAGGTCAATACT
Found at i:8774483 original size:21 final size:21
Alignment explanation
Indices: 8774459--8774508 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
8774449 TGCTACATAG
*
8774459 CGTGATGAGGTA-CGGTCTTTA
1 CGTGATGAGGTAGAGGT-TTTA
*
8774480 CGTGGTGAGGTAGAGGTTTTA
1 CGTGATGAGGTAGAGGTTTTA
8774501 CGTGATGA
1 CGTGATGA
8774509 AAATGGTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.20, C:0.10, G:0.38, T:0.32
Consensus pattern (21 bp):
CGTGATGAGGTAGAGGTTTTA
Found at i:8774691 original size:12 final size:12
Alignment explanation
Indices: 8774665--8774706 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
8774655 TTTTTCAGCA
8774665 TTATTTATTTG-T
1 TTATTTA-TTGAT
8774677 TTATTTATTGAT
1 TTATTTATTGAT
* *
8774689 TTATGTATTAAT
1 TTATTTATTGAT
8774701 TTATTT
1 TTATTT
8774707 TTAGCGGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 3 0.12
12 23 0.88
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (12 bp):
TTATTTATTGAT
Found at i:8774962 original size:21 final size:21
Alignment explanation
Indices: 8774852--8774968 Score: 128
Period size: 21 Copynumber: 5.6 Consensus size: 21
8774842 TTCACCTGTA
*
8774852 ATCGTTCAAGAGGCCTCTC-C
1 ATCGTTCAAGAGGCCCCTCTC
* * *
8774872 TATCATTCAAGATGCCCCTATC
1 -ATCGTTCAAGAGGCCCCTCTC
* *
8774894 ATCCTTCAAGAGGCCCCTCCC
1 ATCGTTCAAGAGGCCCCTCTC
*
8774915 ATCGTTCAAGAGGCCCCTGTC
1 ATCGTTCAAGAGGCCCCTCTC
*
8774936 ATCGTTCAAGAGGTCCCTCTC
1 ATCGTTCAAGAGGCCCCTCTC
* *
8774957 ACCGTTCGAGAG
1 ATCGTTCAAGAG
8774969 CCCGATTCAC
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
21 79 0.99
22 1 0.01
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCTC
Found at i:8776383 original size:63 final size:63
Alignment explanation
Indices: 8776316--8776489 Score: 289
Period size: 63 Copynumber: 2.7 Consensus size: 63
8776306 TGGGTACACT
8776316 TTTTTTGCTTGTTTAATTGATTTGT-AAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA
1 TTTTTTGCTTGTTTAATTGATTTGTAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA
*
8776378 TTTTTTGATTGTTTAATTG-TTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA
1 TTTTTTGCTTGTTTAATTGATTTGT-AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA
*
8776441 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGAACTTGTTTAATTGAT
1 TTTTTTGCTTGTTTAATTGATTTGT-AAAGTTG-ATTTGTTTAATTGAT
8776490 TTGTTGTATA
Statistics
Matches: 105, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
61 5 0.05
62 18 0.17
63 55 0.52
64 13 0.12
65 14 0.13
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (63 bp):
TTTTTTGCTTGTTTAATTGATTTGTAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA
Found at i:8776395 original size:37 final size:38
Alignment explanation
Indices: 8776344--8776461 Score: 102
Period size: 37 Copynumber: 3.5 Consensus size: 38
8776334 GATTTGTAAG
8776344 TTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTT
1 TTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTT
** *
8776382 TTGA-TTGTTTAATTG-T-TTG---T-A-AA--A---G
1 TTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTT
8776407 TTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTT
1 TTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTT
*
8776445 TTG-CTTGTTTAATTGAT
1 TTGATTTGTTTAATTGAT
8776462 TTGTAAAAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 27
0.64 0.07 0.29
Matches are distributed among these distances:
25 4 0.07
26 11 0.18
27 1 0.02
28 2 0.03
30 2 0.03
31 2 0.03
32 2 0.03
33 2 0.03
35 2 0.03
36 1 0.02
37 24 0.40
38 7 0.12
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.50
Consensus pattern (38 bp):
TTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTT
Found at i:8776574 original size:20 final size:20
Alignment explanation
Indices: 8776549--8776587 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8776539 AGGTACACTT
*
8776549 TCGCAATGCGAAAATCAAAA
1 TCGCAACGCGAAAATCAAAA
*
8776569 TCGCAACGCGAAAGTCAAA
1 TCGCAACGCGAAAATCAAA
8776588 TTTCCGTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.18, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAAATCAAAA
Found at i:8776633 original size:20 final size:20
Alignment explanation
Indices: 8776605--8776744 Score: 181
Period size: 20 Copynumber: 7.0 Consensus size: 20
8776595 TACGATTTTT
8776605 GCGTTGCGATTTTGACTTTC
1 GCGTTGCGATTTTGACTTTC
* * * *
8776625 ACATTGCGAATTTGACTTTT
1 GCGTTGCGATTTTGACTTTC
*
8776645 GCGTTGCGATTTTGACTTTT
1 GCGTTGCGATTTTGACTTTC
* *
8776665 GCATTGCGATTTTAACTTTC
1 GCGTTGCGATTTTGACTTTC
* *
8776685 GCGTTGCGAATATGACTTTC
1 GCGTTGCGATTTTGACTTTC
8776705 GCGTTGCGATTTTGACTTTC
1 GCGTTGCGATTTTGACTTTC
* *
8776725 GTGTTGCGATTTTGTCTTTC
1 GCGTTGCGATTTTGACTTTC
8776745 ACAACAATCG
Statistics
Matches: 102, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 102 1.00
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.46
Consensus pattern (20 bp):
GCGTTGCGATTTTGACTTTC
Found at i:8776694 original size:60 final size:60
Alignment explanation
Indices: 8776601--8776747 Score: 204
Period size: 60 Copynumber: 2.5 Consensus size: 60
8776591 CCGTTACGAT
* * *
8776601 TTTTGCGTTGCGATTTTGACTTTCACATTGCGAATTTGACTTTTGCGTTGCGATTTTGAC
1 TTTTGCGTTGCGATTTTAACTTTCACATTGCGAATATGACTTTCGCGTTGCGATTTTGAC
* * *
8776661 TTTTGCATTGCGATTTTAACTTTCGCGTTGCGAATATGACTTTCGCGTTGCGATTTTGAC
1 TTTTGCGTTGCGATTTTAACTTTCACATTGCGAATATGACTTTCGCGTTGCGATTTTGAC
* * **
8776721 TTTCGTGTTGCGATTTTGTCTTTCACA
1 TTTTGCGTTGCGATTTTAACTTTCACA
8776748 ACAATCGCAA
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 74 1.00
ACGTcount: A:0.15, C:0.18, G:0.21, T:0.46
Consensus pattern (60 bp):
TTTTGCGTTGCGATTTTAACTTTCACATTGCGAATATGACTTTCGCGTTGCGATTTTGAC
Found at i:8779614 original size:24 final size:24
Alignment explanation
Indices: 8779580--8779633 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
8779570 CTGAAACATC
8779580 ATCAAAATCC-GAGTATTGACCAAA
1 ATCAAAATCCGGA-TATTGACCAAA
* *
8779604 ATCAAAGTCCGGATATTGACCAAG
1 ATCAAAATCCGGATATTGACCAAA
8779628 ATCAAA
1 ATCAAA
8779634 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAA
Found at i:8780591 original size:20 final size:19
Alignment explanation
Indices: 8780547--8780594 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
8780537 CAAAACATTT
8780547 GTGTTGCGAAAATAAAAGC
1 GTGTTGCGAAAATAAAAGC
* *
8780566 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAAATAAAA-GC
8780585 GTGTTGCGAA
1 GTGTTGCGAA
8780595 TCCGAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 15 0.60
19 1 0.04
20 9 0.36
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.29
Consensus pattern (19 bp):
GTGTTGCGAAAATAAAAGC
Found at i:8780610 original size:20 final size:20
Alignment explanation
Indices: 8780587--8780631 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
8780577 TAAAATTCGT
8780587 GTTGCGAATCCGAAAATCGA
1 GTTGCGAATCCGAAAATCGA
8780607 GTTGCGAATCCGAAAATCGA
1 GTTGCGAATCCGAAAATCGA
8780627 GTTGC
1 GTTGC
8780632 AAAATCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (20 bp):
GTTGCGAATCCGAAAATCGA
Found at i:8780650 original size:20 final size:20
Alignment explanation
Indices: 8780578--8780651 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
8780568 TTGCGAAATT
*
8780578 AAAATTCGTGTTGCGAATCCG
1 AAAA-TCGTGTTGCAAATCCG
* *
8780599 AAAATCGAGTTGCGAATCCG
1 AAAATCGTGTTGCAAATCCG
*
8780619 AAAATCGAGTTGCAAAAT-C-
1 AAAATCGTGTTGC-AAATCCG
8780638 AAAATTCGTGTTGC
1 AAAA-TCGTGTTGC
8780652 GATTTAGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.08
20 37 0.77
21 7 0.15
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (20 bp):
AAAATCGTGTTGCAAATCCG
Found at i:8780751 original size:20 final size:21
Alignment explanation
Indices: 8780708--8780751 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
8780698 TAAATTCGCA
8780708 TTGCGAATTTGAAATTACGTG
1 TTGCGAATTTGAAATTACGTG
* *
8780729 TTGCGAATTT-AACTTATGTG
1 TTGCGAATTTGAAATTACGTG
8780749 TTG
1 TTG
8780752 TGATTTACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (21 bp):
TTGCGAATTTGAAATTACGTG
Found at i:8780776 original size:20 final size:20
Alignment explanation
Indices: 8780748--8780811 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
8780738 TAACTTATGT
* *
8780748 GTTGTGATTTACATATTCGA
1 GTTGCGATTTACATATTCGC
8780768 GTTGCGATTTA-ACTATTCGC
1 GTTGCGATTTACA-TATTCGC
*
8780788 GTTGCGATTTACCTATTCGC
1 GTTGCGATTTACATATTCGC
8780808 GTTG
1 GTTG
8780812 TGAATTTGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
19 1 0.03
20 38 0.97
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:8780828 original size:21 final size:21
Alignment explanation
Indices: 8780804--8780898 Score: 72
Period size: 20 Copynumber: 4.7 Consensus size: 21
8780794 ATTTACCTAT
*
8780804 TCGCGTTGTGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
**
8780825 TCGCGTTGCGAATTTGGAACC
1 TCGCGTTGCGAATTTGGAAAA
* * **
8780846 T-GTGTTGCGAAATTGG-AGT
1 TCGCGTTGCGAATTTGGAAAA
* *
8780865 TCGCATTGCGAATTT-G-AGA
1 TCGCGTTGCGAATTTGGAAAA
*
8780884 TCGCGTTGTGAATTT
1 TCGCGTTGCGAATTT
8780899 ATTGGACATT
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
19 18 0.30
20 23 0.38
21 19 0.32
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGAATTTGGAAAA
Found at i:8780887 original size:19 final size:19
Alignment explanation
Indices: 8780850--8780898 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
8780840 GGAACCTGTG
* *
8780850 TTGCGAAATTGGAGTTCGCA
1 TTGCG-AATTTGAGATCGCA
*
8780870 TTGCGAATTTGAGATCGCG
1 TTGCGAATTTGAGATCGCA
*
8780889 TTGTGAATTT
1 TTGCGAATTT
8780899 ATTGGACATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.37
Consensus pattern (19 bp):
TTGCGAATTTGAGATCGCA
Found at i:8785024 original size:626 final size:628
Alignment explanation
Indices: 8783388--8785899 Score: 4926
Period size: 627 Copynumber: 4.0 Consensus size: 628
8783378 TTTATCTTTT
** *
8783388 GTAAAAGGACAGTGGTTCTATCTTAGCCCTTGAAAATATAGGGATTTGTAAAGATTATTTTTTAG
1 GTAAAAGGGGAGTGGTTCTATCTTAGCCTTTGAAAATATAGGGATTTGTAAAGATTATTTTTTAG
*
8783453 CCTAAAAAAAGAAAGAAAAAAATTAGTGAACATATTAGAAATCCTTAGTGTGGATCTAAGTTAGT
66 CCTAAAAAAAGAAAGAAAAAAATCAGTGAACATATTAGAAATCCTTAGTGTGGATCTAAGTTAGT
*
8783518 GGATGTAGACTTTGATTTATAAAGCCGAACCACTCTAAATCTTTGTGTAATATTTCTATCTTTTT
131 GGATGTAGACTTTGATTTATAAAGCCGAACCACTCTAAATCTTTGTGTAATTTTTCTATCTTTTT
8783583 TCCTTCCACACCTAAAATTTTCAAAAGGCCAATTCACCCCGGTTGCCACTTTTTCGGTTAATCAT
196 TCCTTCCACACCTAAAATTTTCAAAAGGCCAATTCACCCCGGTTGCCACTTTTTCGGTTAATCAT
8783648 AGAGCCTCAATAATACTAACACATATCTATTTCATATCGGCTCAGTAACACTTTTATGGTCTTCA
261 AGAGCCTCAATAATACTAACACATATCTATTTCATATCGGCTCAGTAACACTTTTATGGTCTTCA
*
8783713 AAGAAGCAACAAACGTTAGCTCTTTCAACATGCGAAGCATAATATACGACCGCAACAATGTGCAC
326 AAGAAGCAACAAACGTTAGCTCTTTCAACATGCGAAGCATAATATACGACCGCAACAACGTGCAC
8783778 TTGTCAAGAAATATGGTTGAAGAATATTTTGACCGAGTTAAATTTGGCACAAAAAGAACCGACTA
391 TTGTCAAGAAATATGGTTGAAGAATATTTTGACCGAGTTAAATTTGGCACAAAAAGAACCGACTA
8783843 CAATGATGTAACATGGAATTTTACTATGGCAAGCAAAGTAAGGCAATAATTCAGATTTAGTCGGT
456 CAATGATGTAACATGGAATTTTACTATGGCAAGCAAAGTAAGGCAATAATTCAGATTTAGTCGGT
*
8783908 TAATCACTAGCAT-AATAGGTGTTTTTAGTTCTTCGTTTAGATGTATGAGTGTGTGAGAAATAAA
521 TAATCACTAGCATAAATAGGTGTTTTTAGTTCTTCGTTTAGATGTATGAGTGTGTGAGAAATACA
8783972 AAAAATACGAGAGAAAGAGTGAAGTTTAACAAAGCTATGTGGA
586 AAAAATACGAGAGAAAGAGTGAAGTTTAACAAAGCTATGTGGA
8784015 GTAAAAGGGGAGTGGTTCTATCTTAGCCTTTGAAAATATAGGGATTTGTAAAGATTATTTTTTAG
1 GTAAAAGGGGAGTGGTTCTATCTTAGCCTTTGAAAATATAGGGATTTGTAAAGATTATTTTTTAG
8784080 CCTAAAAAAAGAAAGAAAAAAATCAGTGAACATATTAGAAATCCTTAGTGTGGATCTAAGTTAGT
66 CCTAAAAAAAGAAAGAAAAAAATCAGTGAACATATTAGAAATCCTTAGTGTGGATCTAAGTTAGT
8784145 GGATGTAGACTTTGATTTATAAAGCCGAACCACTCTAAATCTTTGTGTAATTTTTCTATCTTTTT
131 GGATGTAGACTTTGATTTATAAAGCCGAACCACTCTAAATCTTTGTGTAATTTTTCTATCTTTTT
8784210 TCCTTCCACACCTAAAATTTTCAAAAGGCCAATTCACCCCGGTTGCCACTTTTTCGGTTAATCAT
196 TCCTTCCACACCTAAAATTTTCAAAAGGCCAATTCACCCCGGTTGCCACTTTTTCGGTTAATCAT
8784275 AGAGCCTCAATAATACTAACACATATCTATTTCATATCGGCTCAGTAACACTTTTATGGTCTTCA
261 AGAGCCTCAATAATACTAACACATATCTATTTCATATCGGCTCAGTAACACTTTTATGGTCTTCA
8784340 AAGAAGCAACAAACGTTAGCTCTTTCAACATGCGAAGCATAATATACGACCGCAACAACGTGCAC
326 AAGAAGCAACAAACGTTAGCTCTTTCAACATGCGAAGCATAATATACGACCGCAACAACGTGCAC
8784405 TTGTCAAGAAATATGGTTGAAGAATATTTTGACCGAGTTAAATTTGGCACAAAAAGAACCGACTA
391 TTGTCAAGAAATATGGTTGAAGAATATTTTGACCGAGTTAAATTTGGCACAAAAAGAACCGACTA
8784470 CAATGATGTAACATGGAATTTTACTATGGCAAGCAAAGTAAGGCAATAATTCAGATTTAGTCGGT
456 CAATGATGTAACATGGAATTTTACTATGGCAAGCAAAGTAAGGCAATAATTCAGATTTAGTCGGT
8784535 TAATCACTAGCAT-AATAGGTGTTTTTAGTTCTTCGTTTAGATGTATGAGTGTGTGAGAAATACA
521 TAATCACTAGCATAAATAGGTGTTTTTAGTTCTTCGTTTAGATGTATGAGTGTGTGAGAAATACA
8784599 AAAAATACGAGAGAAAGAGTGAAGTTTAACAAAGCTATGTGGA
586 AAAAATACGAGAGAAAGAGTGAAGTTTAACAAAGCTATGTGGA
8784642 GTAAAAGGGGAGTGGTTCTATCTTAGCCTTTGAAAATATAGGGATTTGTAAAGATTA-TTTTTAG
1 GTAAAAGGGGAGTGGTTCTATCTTAGCCTTTGAAAATATAGGGATTTGTAAAGATTATTTTTTAG
8784706 CCTAAAAAAAGAAAGAAAAAAATCAGTGAACATATTAGAAATCCTTAGTGTGGATCTAAGTTAGT
66 CCTAAAAAAAGAAAGAAAAAAATCAGTGAACATATTAGAAATCCTTAGTGTGGATCTAAGTTAGT
8784771 GGATGTAGACTTTGATTTATAAAGCCGAACCACTCTAAATCTTTGTGTAATTTTTCTATCTTTTT
131 GGATGTAGACTTTGATTTATAAAGCCGAACCACTCTAAATCTTTGTGTAATTTTTCTATCTTTTT
8784836 TCCTTCCACACCTAAAATTTTCAAAAGGCCAATTCACCCCGGTTGCCACTTTTTCGGTTAATCAT
196 TCCTTCCACACCTAAAATTTTCAAAAGGCCAATTCACCCCGGTTGCCACTTTTTCGGTTAATCAT
8784901 AGAGCCTCAATAATACTAACACATATCTATTTCATATCGGCTCAGTAACACTTTTATGGTCTTCA
261 AGAGCCTCAATAATACTAACACATATCTATTTCATATCGGCTCAGTAACACTTTTATGGTCTTCA
8784966 AAGAAGCAACAAACGTTAGCTCTTTCAACATGCGAAGCATAATATACGACCGCAACAACGTGCAC
326 AAGAAGCAACAAACGTTAGCTCTTTCAACATGCGAAGCATAATATACGACCGCAACAACGTGCAC
8785031 TTGTCAAGAAATATGGTTGAAGAATATTTTGACCGAGTTAAATTTGGCACAAAAAGAACCGACTA
391 TTGTCAAGAAATATGGTTGAAGAATATTTTGACCGAGTTAAATTTGGCACAAAAAGAACCGACTA
8785096 CAATGATGTAACATGGAATTTTACTATGGCAAGCAAAGTAAGGCAATAATTCAGATTTAGTCGGT
456 CAATGATGTAACATGGAATTTTACTATGGCAAGCAAAGTAAGGCAATAATTCAGATTTAGTCGGT
8785161 TAATCACTAGCATAAATAGGTGTTTTTAGTTCTTCGTTTAGATGTATGAGTGTGTGAGAAATACA
521 TAATCACTAGCATAAATAGGTGTTTTTAGTTCTTCGTTTAGATGTATGAGTGTGTGAGAAATACA
8785226 AAAAATACGAGAGAAAGAGTGAAGTTTAACAAAGCTATGTGGA
586 AAAAATACGAGAGAAAGAGTGAAGTTTAACAAAGCTATGTGGA
8785269 GTAAAAGGGGAGTGGTTCTATCTTAGCCTTTGAAAATATAGGGATTTGTAAAGATTATTTTTTAG
1 GTAAAAGGGGAGTGGTTCTATCTTAGCCTTTGAAAATATAGGGATTTGTAAAGATTATTTTTTAG
8785334 CCTAAAAAAAGAAAGAAAAAAATCAGTGAACATATTAGAAATCCTTAGTGTGGATCTAAGTTAGT
66 CCTAAAAAAAGAAAGAAAAAAATCAGTGAACATATTAGAAATCCTTAGTGTGGATCTAAGTTAGT
8785399 GGATGTAGACTTTGATTTATAAAGCCGAACCACTCTAAATCTTTGTGTAATTTTTCTATCTTTTT
131 GGATGTAGACTTTGATTTATAAAGCCGAACCACTCTAAATCTTTGTGTAATTTTTCTATCTTTTT
8785464 TCCTTCCACACCTAAAATTTTCAAAAGGCCAATTCACCCCGGTTGCCACTTTTTCGGTTAATCAT
196 TCCTTCCACACCTAAAATTTTCAAAAGGCCAATTCACCCCGGTTGCCACTTTTTCGGTTAATCAT
8785529 AGAGCCTCAATAATACTAACACATATCTATTTCATATCGGCTCAGTAACACTTTTATGGTCTTCA
261 AGAGCCTCAATAATACTAACACATATCTATTTCATATCGGCTCAGTAACACTTTTATGGTCTTCA
8785594 AAGAAGCAACAAACGTTAGCTCTTTCAACATGCGAAGCATAATATACGACCGCAACAACGTGCAC
326 AAGAAGCAACAAACGTTAGCTCTTTCAACATGCGAAGCATAATATACGACCGCAACAACGTGCAC
8785659 TTGTCAAGAAATATGGTTGAAGAATATTTTGACCGAGTTAAATTTGGCACAAAAAGAACCGACTA
391 TTGTCAAGAAATATGGTTGAAGAATATTTTGACCGAGTTAAATTTGGCACAAAAAGAACCGACTA
8785724 CAATGATGTAACATGGAATTTTACTATGGCAAGCAAAGTAAGGCAATAATTCAGATTTAGTCGGT
456 CAATGATGTAACATGGAATTTTACTATGGCAAGCAAAGTAAGGCAATAATTCAGATTTAGTCGGT
8785789 TAATCACTAGCATAAATAGGTGTTTTTAGTTCTTCGTTTAGATGTAT--GTGTGTGAGAAATACA
521 TAATCACTAGCATAAATAGGTGTTTTTAGTTCTTCGTTTAGATGTATGAGTGTGTGAGAAATACA
8785852 AAAAATACGAGAGAAAGAGTGAAGTTTAACAAAGCTATGTGGA
586 AAAAATACGAGAGAAAGAGTGAAGTTTAACAAAGCTATGTGGA
8785895 GTAAA
1 GTAAA
8785900 CTAATCGAAA
Statistics
Matches: 1876, Mismatches: 7, Indels: 5
0.99 0.00 0.00
Matches are distributed among these distances:
626 539 0.29
627 828 0.44
628 509 0.27
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (628 bp):
GTAAAAGGGGAGTGGTTCTATCTTAGCCTTTGAAAATATAGGGATTTGTAAAGATTATTTTTTAG
CCTAAAAAAAGAAAGAAAAAAATCAGTGAACATATTAGAAATCCTTAGTGTGGATCTAAGTTAGT
GGATGTAGACTTTGATTTATAAAGCCGAACCACTCTAAATCTTTGTGTAATTTTTCTATCTTTTT
TCCTTCCACACCTAAAATTTTCAAAAGGCCAATTCACCCCGGTTGCCACTTTTTCGGTTAATCAT
AGAGCCTCAATAATACTAACACATATCTATTTCATATCGGCTCAGTAACACTTTTATGGTCTTCA
AAGAAGCAACAAACGTTAGCTCTTTCAACATGCGAAGCATAATATACGACCGCAACAACGTGCAC
TTGTCAAGAAATATGGTTGAAGAATATTTTGACCGAGTTAAATTTGGCACAAAAAGAACCGACTA
CAATGATGTAACATGGAATTTTACTATGGCAAGCAAAGTAAGGCAATAATTCAGATTTAGTCGGT
TAATCACTAGCATAAATAGGTGTTTTTAGTTCTTCGTTTAGATGTATGAGTGTGTGAGAAATACA
AAAAATACGAGAGAAAGAGTGAAGTTTAACAAAGCTATGTGGA
Found at i:8786268 original size:21 final size:21
Alignment explanation
Indices: 8786230--8786269 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8786220 CTAGATAATA
* **
8786230 TAAAAAGTAAAATCTAAAACT
1 TAAAAAATAAAAAATAAAACT
8786251 TAAAAAATAAAAAATAAAA
1 TAAAAAATAAAAAATAAAA
8786270 ACCGAAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (21 bp):
TAAAAAATAAAAAATAAAACT
Found at i:8787818 original size:54 final size:53
Alignment explanation
Indices: 8787721--8788417 Score: 806
Period size: 54 Copynumber: 13.0 Consensus size: 53
8787711 ATAAGTTCTT
* ** * *
8787721 TGGGGTGCACACAAAGTGCC-ATACGGTCATTCATAAACATATTATGAATCTCA
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAAT-TCG
* * * *
8787774 TGGGTTGCACAATTAGTGCCAATATGGTCGTTCATAAACATATTATGAATTCCG
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-CG
* * *
8787828 TGGGTTGCACACTCAGTGTCAATATGGTCGTTCATAAACATA-TATGAATTCCG
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-CG
* * * * *
8787881 TAGGTTGCACACTTAGTGCCTATACGATCGTTCATAAACTTATTATGAATTTCG
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAA-TTCG
* *
8787935 TGGGTTGCACACTCAGTGCCTATACGGTCATTCATAAACATATTATGAATTTCG
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAA-TTCG
* * * *
8787989 TGGGCTGGACACTCAGTGCCGATACGGTTGTTCATAAACATATTATGACTTTCG
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGA-ATTCG
* * * * *
8788043 TGGGTTGTACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTTTG
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAA-TTCG
* * * * *
8788097 TGGGTTGCACACTCAGTGTCGATATGGCCGTTCATAAACTTATTATGAATTATG
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-CG
* * * *
8788151 TGGGTTGCAAACTCAGTGCTGATAAGGTCGTTCATAAACATATTATAAATTCTG
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC-G
* * *
8788205 TGGGTTGCACACTTAGTGCCGATACGGTTGTTCATAAA-TTATTATGAATATCG
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAAT-TCG
* * * * *
8788258 TAGGTTACACACTCAGTTCCGATACTGTCGTTCATAAACATATTATGAATTCCA
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-CG
* ** * *
8788312 TGGGTTGCACACTTAGTGCCGATACATTCATTCATAAACTTATTATGAATTTCG
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAA-TTCG
*
8788366 TGGGTTGCACACTCAATGCCGATACGGTCGTTCATAAACATATTATGAATTC
1 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
8788418 TCACTTAGTG
Statistics
Matches: 554, Mismatches: 78, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
53 111 0.20
54 439 0.79
55 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (53 bp):
TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCG
Found at i:8788250 original size:269 final size:270
Alignment explanation
Indices: 8787735--8788416 Score: 915
Period size: 269 Copynumber: 2.5 Consensus size: 270
8787725 GTGCACACAA
* * * * *
8787735 AGTGCC-ATACGGTCATTCATAAACATATTATGAATCTCATGGGTTGCACAATTAGTGCCAATAT
1 AGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCATGGGTTGCACACTTAGTGCCGATAC
* * *
8787799 GGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACACTCAGTGTCAATATGGTCGTTCATA
66 GGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTCAGTGTCGATATGGTCGTTCATA
* * * * * *
8787864 AACATA-TATGAATTCCGTAGGTTGCACACTTAGTGCCTATACGATCGTTCATAAACTTATTATG
131 AACATATTATGAATTACGTAGGTTGCAAACTCAGTGCCTATAAGATCGTTCATAAACATATTATA
* * *
8787928 AATTTCGTGGGTTGCACACTCAGTGCCTATACGGTCATTCATAAACATATTATGAATTTCGTGGG
196 AATTTCGTGGGTTGCACACTCAGTGCCGATACGGTCATTCATAAACATATTATGAATATCGTAGG
**
8787993 CTGGACACTC
261 CTACACACTC
* * * * *
8788003 AGTGCCGATACGGTTGTTCATAAACATATTATGACTTTCGTGGGTTGTACACTTAGTGTCGATAC
1 AGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCATGGGTTGCACACTTAGTGCCGATAC
* *
8788068 GGTCGTTCATAAACTTATTATGAATTTTGTGGGTTGCACACTCAGTGTCGATATGGCCGTTCATA
66 GGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTCAGTGTCGATATGGTCGTTCATA
* * * *
8788133 AACTTATTATGAATTATGTGGGTTGCAAACTCAGTG-CTGATAAGGTCGTTCATAAACATATTAT
131 AACATATTATGAATTACGTAGGTTGCAAACTCAGTGCCT-ATAAGATCGTTCATAAACATATTAT
* ** *
8788197 AAA-TTCTGTGGGTTGCACACTTAGTGCCGATACGGTTGTTCATAAA-TTATTATGAATATCGTA
195 AAATTTC-GTGGGTTGCACACTCAGTGCCGATACGGTCATTCATAAACATATTATGAATATCGTA
*
8788260 GGTTACACACTC
259 GGCTACACACTC
* * *
8788272 AGTTCCGATACTGTCGTTCATAAACATATTATGAATTCCATGGGTTGCACACTTAGTGCCGATAC
1 AGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCATGGGTTGCACACTTAGTGCCGATAC
** * * * *
8788337 ATTCATTCATAAACTTATTATGAATTTCGTGGGTTGCACACTCAATGCCGATACGGTCGTTCATA
66 GGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTCAGTGTCGATATGGTCGTTCATA
8788402 AACATATTATGAATT
131 AACATATTATGAATT
8788417 CTCACTTAGT
Statistics
Matches: 358, Mismatches: 52, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
268 6 0.02
269 269 0.75
270 83 0.23
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (270 bp):
AGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCATGGGTTGCACACTTAGTGCCGATAC
GGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTCAGTGTCGATATGGTCGTTCATA
AACATATTATGAATTACGTAGGTTGCAAACTCAGTGCCTATAAGATCGTTCATAAACATATTATA
AATTTCGTGGGTTGCACACTCAGTGCCGATACGGTCATTCATAAACATATTATGAATATCGTAGG
CTACACACTC
Found at i:8788513 original size:31 final size:31
Alignment explanation
Indices: 8788478--8788546 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
8788468 ACATTGAACC
* *
8788478 AAATGCAACTATAACTCTAAATGTACATAAT
1 AAATGCAACTATAACTATAAATGTACAAAAT
*
8788509 AAATGCAACTATAACTATGAATGTACAAAAT
1 AAATGCAACTATAACTATAAATGTACAAAAT
8788540 AAATGCA
1 AAATGCA
8788547 CTCACCTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (31 bp):
AAATGCAACTATAACTATAAATGTACAAAAT
Found at i:8793181 original size:54 final size:53
Alignment explanation
Indices: 8793085--8794071 Score: 1066
Period size: 54 Copynumber: 18.3 Consensus size: 53
8793075 TATAAGTTCT
* * * *
8793085 TTGGGGTGCACACATAGTGTC-ATACGGTTGTTCATAAACATATTATGAATTCC
1 TTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-C
* * * *
8793138 TTGAGTTGCACACTTAGTGCCAATACGGTCGTTCATAATCATATTTTGAATTC
1 TTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
* *
8793191 TGTGGGTTGTACACTTAGTGCCAATACGGTCGTTCATAAACATATTATGAATTCC
1 T-TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-C
* * * *
8793246 GTGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAA-ATTATTATGAATTA
1 TTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACA-TATTATGAATTC
*
8793299 TGTGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAAC-TCATTATGAATTTC
1 T-TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACAT-ATTATGAA-TTC
* * * * *
8793354 GTAGGTTGCACACTCAGTGCCAATACGGTTGTTCATAAACATATTATGAATTCC
1 TTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-C
* * * * * *
8793408 GTGGGTTGCACACTTAGTGTCAATACGATCGTTCATAAGCTTATTATGAATTCC
1 TTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-C
* * *
8793462 GTAGGTTGCACA-TTCATTGCCGATACGGTCGTTCATAAACATATTATGAATTAC
1 TTGGGTTGCACACTT-AGTGCCGATACGGTCGTTCATAAACATATTATGAATT-C
* * * *
8793516 ATGGGTTTCTCACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTC
1 TTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAA-TTC
* * * * * *
8793570 GTAGGTTGCACACTCAGTGCTGATAAGGTCGTTCATAAACTTATTATGAATTTC
1 TTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAA-TTC
* * * * * *
8793624 GTGGGTTGCACACTCAGTGCTGATAAGGTCGTTCATAAACTTATTATGAATTA
1 TTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
* * *
8793677 TGTGGGTTGCACACTCAGTGTCGATACGGTCGTTCATAAATATATTATGAATTC
1 T-TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
* *
8793731 TGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATGAACTTATTATGAATT-
1 T-TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
* * * * *
8793784 TAGTGGGTTGCACACTCAGTGCCGATACGATCATTCATAAACATATTATGAAATA
1 T--TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
** * * *
8793839 TGTGGGTTAAACACTTAGTGTCGATACGATCGTTCATAAACATATTATGATTTC
1 T-TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
* * * * *
8793893 TGTGGGTTGCACACTCAGTGCCGATACGATCGTTTATAAATATATTATGAATTA
1 T-TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
* * *
8793947 TGTGGGTTGCACACTTAGTGTCGATACGATCGTTCATAAACTTATTATGAATTCC
1 T-TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-C
* * * ** *
8794002 GTGGGTTGCACACTCAGTGTCGATACGGTCAATCATAAACATATTATGAATTTT
1 TTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAA-TTC
*
8794056 TTGGGTTGTACACTTA
1 TTGGGTTGCACACTTA
8794072 AGCCCAATAG
Statistics
Matches: 808, Mismatches: 108, Indels: 35
0.85 0.11 0.04
Matches are distributed among these distances:
53 28 0.03
54 769 0.95
55 11 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (53 bp):
TTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
Found at i:8793283 original size:162 final size:161
Alignment explanation
Indices: 8793086--8794071 Score: 1183
Period size: 162 Copynumber: 6.1 Consensus size: 161
8793076 ATAAGTTCTT
* * * ** *
8793086 TGGGGTGCACACATAGTGTC-ATACGGTTGTTCATAAACATATTATGAATTCCTTGAGTTGCACA
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATT-AGTGGGTTGCACA
* * * * * * * *
8793150 CTTAGTGCCAATACGGTCGTTCATAATCATATTTTGAATTCTGTGGGTTGTACACTTAGTGCCAA
65 CTCAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTGCACACTCAGTGTCGA
8793215 TACGGTCGTTCATAAACATATTATGAATTCCG
130 TACGGTCGTTCATAAACATATTATGAATTCCG
*
8793247 TGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAA-ATTATTATGAATTATGTGGGTTGCAC
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACA-TATTATGAATTA-GTGGGTTGCAC
* *
8793311 ACTCAGTGCCGATACGGTCGTTCATAAAC-TCATTATGAATT-TCGTAGGTTGCACACTCAGTGC
64 ACTCAGTGCCGATACGGTCGTTCATAAACAT-ATTATGAATTCT-GTGGGTTGCACACTCAGTGT
* *
8793374 CAATACGGTTGTTCATAAACATATTATGAATTCCG
127 CGATACGGTCGTTCATAAACATATTATGAATTCCG
* * * * * *
8793409 TGGGTTGCACACTTAGTGTCAATACGATCGTTCATAAGCTTATTATGAATTCCGTAGGTTGCACA
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATT-AGTGGGTTGCACA
* * * * * *
8793474 TTCATTGCCGATACGGTCGTTCATAAACATATTATGAATTAC-ATGGGTTTCTCACTTAGTGTCG
65 CTCAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-CTGTGGGTTGCACACTCAGTGTCG
*
8793538 ATACGGTCGTTCATAAACATATTATGAATTTCG
129 ATACGGTCGTTCATAAACATATTATGAATTCCG
* * * * *
8793571 TAGGTTGCACACTCAGTG-CTGATAAGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCAC
1 TGGGTTGCACACTTAGTGTC-GATACGGTCGTTCATAAACATATTATGAA-TTAGTGGGTTGCAC
* * * *
8793635 ACTCAGTGCTGATAAGGTCGTTCATAAACTTATTATGAATTATGTGGGTTGCACACTCAGTGTCG
64 ACTCAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTGCACACTCAGTGTCG
* *
8793700 ATACGGTCGTTCATAAATATATTATGAATTCTG
129 ATACGGTCGTTCATAAACATATTATGAATTCCG
* * *
8793733 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATGAACTTATTATGAATTTAGTGGGTTGCACA
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAA-TTAGTGGGTTGCACA
* * * * ** *
8793798 CTCAGTGCCGATACGATCATTCATAAACATATTATGAAATATGTGGGTTAAACACTTAGTGTCGA
65 CTCAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTGCACACTCAGTGTCGA
* * *
8793863 TACGATCGTTCATAAACATATTATGATTTCTG
130 TACGGTCGTTCATAAACATATTATGAATTCCG
* * * * *
8793895 TGGGTTGCACACTCAGTGCCGATACGATCGTTTATAAATATATTATGAATTATGTGGGTTGCACA
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTA-GTGGGTTGCACA
* * * * *
8793960 CTTAGTGTCGATACGATCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTCAGTGTCGA
65 CTCAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTGCACACTCAGTGTCGA
** ***
8794025 TACGGTCAATCATAAACATATTATGAATTTTT
130 TACGGTCGTTCATAAACATATTATGAATTCCG
*
8794057 TGGGTTGTACACTTA
1 TGGGTTGCACACTTA
8794072 AGCCCAATAG
Statistics
Matches: 716, Mismatches: 94, Indels: 29
0.85 0.11 0.03
Matches are distributed among these distances:
161 25 0.03
162 687 0.96
163 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (161 bp):
TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTAGTGGGTTGCACAC
TCAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTGCACACTCAGTGTCGAT
ACGGTCGTTCATAAACATATTATGAATTCCG
Found at i:8793296 original size:108 final size:107
Alignment explanation
Indices: 8793073--8794071 Score: 1189
Period size: 108 Copynumber: 9.3 Consensus size: 107
8793063 TTTTCATAAC
* * * * *
8793073 ATTAT-AAGTTCTTTGGGGTGCACACATAGTGTC-ATACGGTTGTTCATAAACATATTATGAATT
1 ATTATGAA-TTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATT
* * * * *
8793136 CCTTGAGTTGCACACTTAGTGCCAATACGGTCGTTCATAATCAT
65 CCGTGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAA-AAT
* * *
8793180 ATTTTGAATTCTGTGGGTTGTACACTTAGTGCCAATACGGTCGTTCATAAACATATTATGAATTC
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
* * *
8793245 CGTGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAAATT
66 CGTGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAAA-T
* *
8793288 ATTATGAATTATGTGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAAC-TCATTATGAATT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACAT-ATTATGAATT
* * * *
8793352 TCGTAGGTTGCACACTCAGTGCCAATACGGTTGTTCATAAACAT
65 CCGTGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAA-AT
* * * * * *
8793396 ATTATGAATTCCGTGGGTTGCACACTTAGTGTCAATACGATCGTTCATAAGCTTATTATGAATTC
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
* * *
8793461 CGTAGGTTGCACATTCATTGCCGATACGGTCGTTCATAAACAT
66 CGTGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAA-AT
* * * *
8793504 ATTATGAATTAC-ATGGGTTTCTCACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATT
1 ATTATGAATT-CTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATT
* * * * *
8793568 TCGTAGGTTGCACACTCAGTGCTGATAAGGTCGTTCATAAACTT
65 CCGTGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAA-AT
* * * *
8793612 ATTATGAATT-TCGTGGGTTGCACACTCAGTGCTGATAAGGTCGTTCATAAACTTATTATGAATT
1 ATTATGAATTCT-GTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATT
** *
8793676 ATGTGGGTTGCACACTCAGTGTCGATACGGTCGTTCATAAATAT
65 CCGTGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAA-AT
* * *
8793720 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATGAACTTATTATGAATTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
* * *
8793785 AGTGGGTTGCACACTCAGTGCCGATACGATCATTCATAAACAT
66 CGTGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAA-AT
* * ** * * *
8793828 ATTATGAAATATGTGGGTTAAACACTTAGTGTCGATACGATCGTTCATAAACATATTATGATTTC
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
* * *
8793893 TGTGGGTTGCACACTCAGTGCCGATACGATCGTTTATAAATAT
66 CGTGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAA-AT
* * * *
8793936 ATTATGAATTATGTGGGTTGCACACTTAGTGTCGATACGATCGTTCATAAACTTATTATGAATTC
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
* **
8794001 CGTGGGTTGCACACTCAGTGTCGATACGGTCAATCATAAACAT
66 CGTGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAA-AT
* * *
8794044 ATTATGAATTTTTTGGGTTGTACACTTA
1 ATTATGAATTCTGTGGGTTGCACACTTA
8794072 AGCCCAATAG
Statistics
Matches: 777, Mismatches: 105, Indels: 19
0.86 0.12 0.02
Matches are distributed among these distances:
107 26 0.03
108 747 0.96
109 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (107 bp):
ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
CGTGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAAAT
Found at i:8802000 original size:13 final size:13
Alignment explanation
Indices: 8801982--8802016 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
8801972 TGGGGATCAT
*
8801982 TATAGCCATTACA
1 TATAGCCAATACA
*
8801995 TATAGCCAATACC
1 TATAGCCAATACA
8802008 TATAGCCAA
1 TATAGCCAA
8802017 AAACAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (13 bp):
TATAGCCAATACA
Found at i:8806504 original size:39 final size:36
Alignment explanation
Indices: 8806417--8806507 Score: 110
Period size: 39 Copynumber: 2.4 Consensus size: 36
8806407 ACGAAATGAT
8806417 AATATATATATATATAAAATAAATAAAAACATAAAA
1 AATATATATATATATAAAATAAATAAAAACATAAAA
* * *
8806453 AATAGTAAATATATATATAAATTAATAAAACAGATAATAA
1 AATA-TATATATATATA-AAATAAATAAAA-ACATAA-AA
*
8806493 CATATATATATATAT
1 AATATATATATATAT
8806508 GTGTAATCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 4 0.09
37 11 0.24
38 11 0.24
39 15 0.33
40 5 0.11
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (36 bp):
AATATATATATATATAAAATAAATAAAAACATAAAA
Found at i:8807728 original size:32 final size:33
Alignment explanation
Indices: 8807650--8807739 Score: 110
Period size: 32 Copynumber: 2.6 Consensus size: 33
8807640 GAACTTGAGG
* * *
8807650 TTTTGGTGTTTCAAGAGAAACATTTTCAAAGGTTTTT
1 TTTTTGTGTTTCAAGAGAAA-AATTTCAAAGG---TA
8807687 TTTTTGTGTTTCAAGAGAAAAATTTCAAAGG-A
1 TTTTTGTGTTTCAAGAGAAAAATTTCAAAGGTA
8807719 TTTTTGTGTTTCAAGAGAAAA
1 TTTTTGTGTTTCAAGAGAAAA
8807740 TGTATTCAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
32 21 0.42
36 10 0.20
37 19 0.38
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (33 bp):
TTTTTGTGTTTCAAGAGAAAAATTTCAAAGGTA
Found at i:8807816 original size:19 final size:20
Alignment explanation
Indices: 8807775--8807818 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
8807765 GGAAATCGTC
**
8807775 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAA-TACTT
8807796 TCAAGAGAGACAAAA-ACTT
1 TCAAGAGAGACAAAATACTT
8807815 TCAA
1 TCAA
8807819 AAGAAACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
21 15 0.71
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (20 bp):
TCAAGAGAGACAAAATACTT
Found at i:8807913 original size:30 final size:30
Alignment explanation
Indices: 8807865--8807921 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
8807855 GTAAAACATA
*
8807865 TTCAAAGATTTTGTTTCAA-AGGAAACTATT
1 TTCAAAGATTTTGCTTCAAGA-GAAACTATT
8807895 TTCAAAG-TTTATGCTTCAAGAGAAACT
1 TTCAAAGATTT-TGCTTCAAGAGAAACT
8807922 TCTCAAGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.12
30 20 0.83
31 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (30 bp):
TTCAAAGATTTTGCTTCAAGAGAAACTATT
Found at i:8808064 original size:37 final size:36
Alignment explanation
Indices: 8808006--8808092 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 36
8807996 TCAATGTTTA
* *
8808006 TGTTTCAAGAGAAACTGTCTCAA-AGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGA-GAGACAAAA-TT
*
8808043 TGTTTCAAGGGAACCTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
**
8808079 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
8808093 TGTTTTTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
36 13 0.30
37 29 0.67
38 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:8808140 original size:102 final size:100
Alignment explanation
Indices: 8807878--8808259 Score: 372
Period size: 102 Copynumber: 3.8 Consensus size: 100
8807868 AAAGATTTTG
* * * * *
8807878 TTTCAAAGGAAACTATTTTCAAAGTTTATGCTTCAAGAGAAACTTCTCAAGGGAGACAAAATTTG
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTTCTCAAGAGAGACAAAATTTG
* *
8807943 TTTCAAGGGAAACTATATCATGAGTGAAAAAATTCA
65 TTTCAAGGGAAACTATATCAAGAGAGAAAAAATTCA
8807979 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAA-AGGAGACAAAATTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACT-TCTCAAGA-GAGACAAAA-TT
* * *
8808043 TGTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTCA
63 TGTTTCAAGGGAAACTATATCAAGAGAGAAAAAATTCA
* * *
8808081 TTTCAAGGGAAATGTTTTTAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAAACAAAACTTA
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACT-TCTCAAGAGAGACAAAA-TTT
* ** * * * * ** **
8808146 GTTCCAAAAGAAAATGTCTCAAGGGAGACGAAATTTT
64 GTTTCAAGGGAAACTATATCAAGAGAGAAAAAATTCA
** * * * * * * *
8808183 TTTCAAGGGAAACATATTCAAAGATTT-TATCTCAAGAGAAACTATCTTAGGAGAGACAAAATTC
1 TTTCAAGGGAAATGTTTTCAATG-TTTATGTTTCAAGAGAAACT-TCTCAAGAGAGACAAAATTT
*
8808247 ATTTCAAGGGAAA
64 GTTTCAAGGGAAA
8808260 TGTTTTCAAT
Statistics
Matches: 236, Mismatches: 40, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
100 28 0.12
101 37 0.16
102 167 0.71
103 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.30
Consensus pattern (100 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTTCTCAAGAGAGACAAAATTTGT
TTCAAGGGAAACTATATCAAGAGAGAAAAAATTCA
Found at i:8808253 original size:167 final size:166
Alignment explanation
Indices: 8808047--8808355 Score: 501
Period size: 167 Copynumber: 1.9 Consensus size: 166
8808037 AAATTTTGTT
* * *
8808047 TCAAGGGAACCTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTTAATGTTTATGTT
1 TCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
*
8808112 TCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGTTCCAAAAGAAAATGTCTCAAGGGAGACGA
66 TCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGAT-CAAAAGAAAATGTCTCAAGGGAGACGA
*
8808177 AATTTTTTTCAAGGGAAACATATTCAAAGATTTTATC
130 AATTTGTTTCAAGGGAAACATATTCAAAGATTTTATC
* *
8808214 TCAAGAGAAACTATCTTAGGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
1 TCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
* * * * *
8808279 TCAAGAGAAACTGTCTCAAGAGAGACGAAACTTAGATCTAAATAAAATGTCTCAAGGGAGACGAA
66 TCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGATCAAAAGAAAATGTCTCAAGGGAGACGAA
8808344 ATTTGTTTCAAG
131 ATTTGTTTCAAG
8808356 AGAGACAAAA
Statistics
Matches: 130, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
166 37 0.28
167 93 0.72
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (166 bp):
TCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
TCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGATCAAAAGAAAATGTCTCAAGGGAGACGAA
ATTTGTTTCAAGGGAAACATATTCAAAGATTTTATC
Found at i:8808268 original size:65 final size:65
Alignment explanation
Indices: 8808162--8808304 Score: 153
Period size: 65 Copynumber: 2.2 Consensus size: 65
8808152 AAAGAAAATG
* * **
8808162 TCTCAAGGGAGACGAAATTTTTTTCAAGGGAAACATATTCAAAGATTT-TATCTCAAGAGAAACT
1 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATATTCAAAG-TTTATATCTCAAGAGAAACT
8808226 A
65 A
* * ** * * * * *
8808227 TCTTAGGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTG
1 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATATTCAAAGTTTATATCTCAAGAGAAACTA
8808292 TCTCAAGAGAGAC
1 TCTCAAGAGAGAC
8808305 GAAACTTAGA
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
64 3 0.05
65 59 0.95
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (65 bp):
TCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATATTCAAAGTTTATATCTCAAGAGAAACTA
Found at i:8808358 original size:19 final size:21
Alignment explanation
Indices: 8808330--8808384 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
8808320 ATAAAATGTC
* *
8808330 TCAAGGGAGACGAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
8808351 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
*
8808372 TCAAGAGAAACAA
1 TCAAGAGAGACAA
8808385 TCTTGACTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.24
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:8808520 original size:72 final size:71
Alignment explanation
Indices: 8808351--8808597 Score: 280
Period size: 72 Copynumber: 3.4 Consensus size: 71
8808341 GAAATTTGTT
* * * * * *
8808351 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTTGACTGAAATATATCTTCTTTCGAGTGA
1 TCAAGTGAGACAAAGTCTGTTTTAAGA-AAACAATCTTGAGTGAAATAAATCTTCTTTCGAGT-A
*
8808416 AAACGGTC
64 AAACAGTC
* * * *
8808424 CCAAGAGAGACAAA-TCTGGTTTTAAGAAAACCAATCTTGAGTGGAATAAATATTCTTTCGAGTA
1 TCAAGTGAGACAAAGTCT-GTTTTAAGAAAA-CAATCTTGAGTGAAATAAATCTTCTTTCGAGTA
8808488 AAACAGTC
64 AAACAGTC
* * *
8808496 TCATGTGAGACAAAGTCTGTTTTAAGCAAAGCAAACTTGAGTGAAATAAATCTTCTTTCGAGTAA
1 TCAAGTGAGACAAAGTCTGTTTTAAG-AAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTAA
*
8808561 AACAATC
65 AACAGTC
* * *
8808568 TCAAGTAAGACAAAGTATGCTTTAAGAAAA
1 TCAAGTGAGACAAAGTCTGTTTTAAGAAAA
8808598 ACAAACACAT
Statistics
Matches: 149, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
71 3 0.02
72 91 0.61
73 55 0.37
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (71 bp):
TCAAGTGAGACAAAGTCTGTTTTAAGAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTAAA
ACAGTC
Found at i:8810063 original size:183 final size:183
Alignment explanation
Indices: 8809755--8810106 Score: 605
Period size: 183 Copynumber: 1.9 Consensus size: 183
8809745 CAAGTTTAAT
8809755 TGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCAAATTGC
1 TGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCAAATTGC
* *
8809820 CAAGTGTCTGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTC
66 CAAGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGACTTTCGAGTTTC
* * *
8809885 CTCTATAACCGATTTCCTTAGTGGAATAGCTCATCTTTAAAGGGACAAATCAC
131 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATCAC
* * * * * *
8809938 TGAAGGGTTTGTCTCATTATAAAGTCTTTGGCCTGATAAAAGTAGTGGAGCAAACACCGAATTGC
1 TGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCAAATTGC
8810003 CAAGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGACTTTCGAGTTTC
66 CAAGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGACTTTCGAGTTTC
8810068 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
8810107 CGGATTTAAT
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
183 158 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (183 bp):
TGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCAAATTGC
CAAGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGACTTTCGAGTTTC
CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATCAC
Found at i:8814053 original size:19 final size:18
Alignment explanation
Indices: 8814026--8814061 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
8814016 AAGTAAATTA
8814026 AATAAAAATAAATAAAAG
1 AATAAAAATAAATAAAAG
8814044 AATAATAAATAAATAAAA
1 AATAA-AAATAAATAAAA
8814062 TAAAAGACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (18 bp):
AATAAAAATAAATAAAAG
Found at i:8814054 original size:25 final size:25
Alignment explanation
Indices: 8814024--8814073 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
8814014 ACAAGTAAAT
8814024 TAAATAAAAATAAATAAAAGA-ATAA
1 TAAATAAAAA-AAATAAAAGACATAA
*
8814049 TAAATAAATAAAATAAAAGACATAA
1 TAAATAAAAAAAATAAAAGACATAA
8814074 AAAAATAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (25 bp):
TAAATAAAAAAAATAAAAGACATAA
Found at i:8814081 original size:33 final size:34
Alignment explanation
Indices: 8814019--8814082 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
8814009 CGATAACAAG
* * *
8814019 TAAATTAAATAAAAATAAATAAAAGAATAATAAA
1 TAAATAAAATAAAAAGAAATAAAAAAATAATAAA
*
8814053 TAAATAAAAT-AAAAGACATAAAAAAATAAT
1 TAAATAAAATAAAAAGAAATAAAAAAATAAT
8814083 GTCCATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 17 0.65
34 9 0.35
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (34 bp):
TAAATAAAATAAAAAGAAATAAAAAAATAATAAA
Found at i:8814109 original size:19 final size:19
Alignment explanation
Indices: 8814031--8814111 Score: 52
Period size: 19 Copynumber: 4.6 Consensus size: 19
8814021 AATTAAATAA
8814031 AAATAAATAAAAGAATAAT-
1 AAATAAATAAAAGAA-AATG
*
8814050 AAATAAATAAAATAAAA-G
1 AAATAAATAAAAGAAAATG
* *
8814068 ACAT-AA-AAAA-ATAATG
1 AAATAAATAAAAGAAAATG
**
8814084 ---TCCATAAAAGAAAATG
1 AAATAAATAAAAGAAAATG
8814100 AAATAAATAAAA
1 AAATAAATAAAA
8814112 TACTAGAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
13 1 0.02
14 1 0.02
15 7 0.15
16 10 0.21
17 2 0.04
18 5 0.11
19 21 0.45
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.19
Consensus pattern (19 bp):
AAATAAATAAAAGAAAATG
Found at i:8814324 original size:41 final size:38
Alignment explanation
Indices: 8814230--8814323 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 38
8814220 ACGAAATGAT
*
8814230 AATATGTATATATATAAAATAAATAAAAACATAAAAAA
1 AATATATATATATATAAAATAAATAAAAACATAAAAAA
* * *
8814268 AATAGTAAATATATATATAAATTAAT-AAAACATATAATAA
1 AATA-TATATATATATA-AAATAAATAAAAACATA-AAAAA
*
8814308 CATATATATATATATA
1 AATATATATATATATA
8814324 TGTGTAATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
38 4 0.09
39 29 0.62
40 14 0.30
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (38 bp):
AATATATATATATATAAAATAAATAAAAACATAAAAAA
Found at i:8824852 original size:2 final size:2
Alignment explanation
Indices: 8824845--8824905 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
8824835 GAAAGTAAGT
8824845 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
8824887 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
8824906 TTATTTGAGC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8825771 original size:81 final size:81
Alignment explanation
Indices: 8825628--8825786 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 81
8825618 TTATTATTAT
* * * * *
8825628 TATTTTATTAAATTAAAATATATATTTTATTCTTATCTTAACTTATATATATACATTATTTTAAT
1 TATTTTATTAAACTAAAATATATATTTTATTCTTATCTTAACATAAAAAAATACATTATTTTAAT
8825693 -TTCAATTTAAAAAATA
66 ATT-AATTTAAAAAATA
* * *
8825709 TATTTTATTAAACTAAAATAATATATTTTATTTTTATCTTAA-ATAAAAAAATATATTTTTTTAA
1 TATTTTATTAAACTAAAAT-ATATATTTTATTCTTATCTTAACATAAAAAAATACATTATTTTAA
*
8825773 TATTAATTTTAAAA
65 TATTAATTTAAAAA
8825787 TATTAAAAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 44 0.66
82 23 0.34
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (81 bp):
TATTTTATTAAACTAAAATATATATTTTATTCTTATCTTAACATAAAAAAATACATTATTTTAAT
ATTAATTTAAAAAATA
Found at i:8825884 original size:27 final size:27
Alignment explanation
Indices: 8825826--8825890 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
8825816 TGTTATAAAT
* *
8825826 AAAATATAAATA--TTTAAGTTAAGGTA
1 AAAATA-AAATATTTTTAACTTAAGATA
8825852 AAAATAAAATATTTTTAACTTAAGATA
1 AAAATAAAATATTTTTAACTTAAGATA
*
8825879 AGAATAAAATAT
1 AAAATAAAATAT
8825891 ATTTCAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.15
26 6 0.18
27 23 0.68
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (27 bp):
AAAATAAAATATTTTTAACTTAAGATA
Done.