Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 6 of 320
Found at i:1530043 original size:20 final size:20
Alignment explanation
Indices: 1530006--1530046 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1529996 ATACATGGAA
*
1530006 TTAAAAAAATAACTCTTAAT
1 TTAAAAAAATAACACTTAAT
1530026 TTAAAGAAAATAA-ACTTAAT
1 TTAAA-AAAATAACACTTAAT
1530046 T
1 T
1530047 ATTTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (20 bp):
TTAAAAAAATAACACTTAAT
Found at i:1533612 original size:44 final size:43
Alignment explanation
Indices: 1533535--1533618 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 43
1533525 TATGTTCTTG
1533535 ATAATTTTTAAAATTAATTATTTAAACCATAATTATATTTTTAT
1 ATAATTTTTAAAATTAATTATTTAAACCATAATTA-ATTTTTAT
* * *
1533579 ATAATTTTTAATATTAATTATTTGAA-TAGTAATTAATTTT
1 ATAATTTTTAAAATTAATTATTTAAACCA-TAATTAATTTT
1533619 ATTCTTATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 6 0.17
44 30 0.83
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (43 bp):
ATAATTTTTAAAATTAATTATTTAAACCATAATTAATTTTTAT
Found at i:1548636 original size:30 final size:30
Alignment explanation
Indices: 1548600--1548661 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
1548590 CATCATGATC
*
1548600 TAAATTCACCAGTTGATATAGCACAGAACT
1 TAAATTCACCAGTTGATATAACACAGAACT
* *
1548630 TAAATTCACGAGTTGATATAACACGGAACT
1 TAAATTCACCAGTTGATATAACACAGAACT
1548660 TA
1 TA
1548662 TTTGGAAGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (30 bp):
TAAATTCACCAGTTGATATAACACAGAACT
Found at i:1552322 original size:31 final size:31
Alignment explanation
Indices: 1552287--1552356 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
1552277 CTTGTCACTT
* * *
1552287 GTAGCCGAAGCTATCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
* * *
1552318 GTAGCCGGAGCTACCATTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
1552349 GTAGCCGA
1 GTAGCCGA
1552357 TGATCAGGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAA
Found at i:1552378 original size:46 final size:46
Alignment explanation
Indices: 1552311--1552402 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
1552301 CACTATTCAC
* *
1552311 TGATCAGGTAGCCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * *
1552357 TGATCAGGTAGCCGAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
1552403 AGCTACCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Found at i:1552395 original size:31 final size:31
Alignment explanation
Indices: 1552357--1552415 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
1552347 AAGTAGCCGA
1552357 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1552388 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
1552416 TACTTGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:1552488 original size:50 final size:50
Alignment explanation
Indices: 1552395--1552571 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
1552385 CATTGATCAG
* * * *
1552395 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
**
1552446 GTAGCTAAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
1552496 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1552546 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
1552572 GTTGTCATGG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 95 0.82
51 21 0.18
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:1557523 original size:20 final size:20
Alignment explanation
Indices: 1557498--1557547 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1557488 TGGCTTAAAA
1557498 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1557518 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1557535 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1557548 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1562163 original size:20 final size:20
Alignment explanation
Indices: 1562138--1562187 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1562128 TGGCTTAAAA
1562138 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1562158 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1562175 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1562188 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1564503 original size:15 final size:16
Alignment explanation
Indices: 1564478--1564507 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1564468 TTTATAAATA
1564478 TATATATTTTATGCAT
1 TATATATTTTATGCAT
1564494 TATA-ATTTTATGCA
1 TATATATTTTATGCA
1564508 GAGGTGAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (16 bp):
TATATATTTTATGCAT
Found at i:1567435 original size:17 final size:17
Alignment explanation
Indices: 1567413--1567446 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1567403 ATCCACTAAT
*
1567413 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1567430 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1567447 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1572075 original size:17 final size:17
Alignment explanation
Indices: 1572053--1572086 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1572043 ATCCACTAAT
*
1572053 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1572070 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1572087 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1576507 original size:18 final size:18
Alignment explanation
Indices: 1576451--1576518 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
1576441 CATTTATGGC
*
1576451 ACTATTCACGTATACGAC
1 ACTATTCACGTATACGAT
1576469 ACTATTCACGTATACGAT
1 ACTATTCACGTATACGAT
*
1576487 ACTATTTACGTATAC-AGT
1 ACTATTCACGTATACGA-T
*
1576505 ACTATTCATGTATA
1 ACTATTCACGTATA
1576519 TAGTAGTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
17 1 0.02
18 44 0.98
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (18 bp):
ACTATTCACGTATACGAT
Found at i:1587070 original size:14 final size:14
Alignment explanation
Indices: 1587043--1587084 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
1587033 ATGCCTCTAA
*
1587043 AATAATAACAAAAA
1 AATAATAACAAAAC
*
1587057 AATTAATAATAAAAC
1 AA-TAATAACAAAAC
1587072 AATAATAACAAAA
1 AATAATAACAAAA
1587085 TAGTAACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (14 bp):
AATAATAACAAAAC
Found at i:1592092 original size:26 final size:25
Alignment explanation
Indices: 1592063--1592131 Score: 66
Period size: 28 Copynumber: 2.6 Consensus size: 25
1592053 ATTTTAAACA
* *
1592063 AAAATTTAAAAATAATATATTATTT
1 AAAATTTAAAAATAATAAACTATTT
* *
1592088 GAAAATTTATGAAAAAAATAAACTCTTT
1 -AAAATTTA--AAAATAATAAACTATTT
1592116 AAAATTTTAAAAATAA
1 AAAA-TTTAAAAATAA
1592132 ATTCTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 14 0.40
27 4 0.11
28 17 0.49
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (25 bp):
AAAATTTAAAAATAATAAACTATTT
Found at i:1592133 original size:27 final size:28
Alignment explanation
Indices: 1592062--1592133 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 28
1592052 TATTTTAAAC
* * *
1592062 AAAAATTTAAAAAT-AATATATTATTTG
1 AAAATTTTAAAAATAAATAAACTATTTG
* *
1592089 AAAATTTATGAAAA-AAATAAACTCTTT-
1 AAAATTT-TAAAAATAAATAAACTATTTG
1592116 AAAATTTTAAAAATAAAT
1 AAAATTTTAAAAATAAAT
1592134 TCTTTTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
26 5 0.14
27 17 0.47
28 14 0.39
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (28 bp):
AAAATTTTAAAAATAAATAAACTATTTG
Found at i:1593068 original size:37 final size:37
Alignment explanation
Indices: 1593015--1593085 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
1593005 ATAAACGTAC
*
1593015 TACCCATCCAAACCCACCATTAGAAAGATTGGAGTAG
1 TACCCACCCAAACCCACCATTAGAAAGATTGGAGTAG
* *
1593052 TACCCACCCAATCCCACCATTAGAAGGATTGGAG
1 TACCCACCCAAACCCACCATTAGAAAGATTGGAG
1593086 ATGAGAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.18
Consensus pattern (37 bp):
TACCCACCCAAACCCACCATTAGAAAGATTGGAGTAG
Found at i:1594594 original size:15 final size:15
Alignment explanation
Indices: 1594558--1594600 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1594548 TCAAAATACA
*
1594558 TATTTTTTATATTAT
1 TATTTTTTATAATAT
*
1594573 T-TATTTTAATAATAT
1 TAT-TTTTTATAATAT
1594588 TATTTTTTATAAT
1 TATTTTTTATAAT
1594601 TATTTTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTTATAATAT
Found at i:1604592 original size:28 final size:28
Alignment explanation
Indices: 1604548--1604606 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
1604538 CCTCTATGAG
1604548 TAAGGCGAAAGGAAAGGAGAAGCTCGTT
1 TAAGGCGAAAGGAAAGGAGAAGCTCGTT
*
1604576 TAAGGCGAAAGGCAAGGAGAAGCTCGTT
1 TAAGGCGAAAGGAAAGGAGAAGCTCGTT
1604604 TAA
1 TAA
1604607 ACTTTCAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.34, T:0.15
Consensus pattern (28 bp):
TAAGGCGAAAGGAAAGGAGAAGCTCGTT
Found at i:1604675 original size:37 final size:38
Alignment explanation
Indices: 1604625--1604701 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 38
1604615 TAATCGAGTG
*
1604625 AAAGCTAAACCAGTGAGTGATC-GGAGTGCTGCATGTA
1 AAAGCTAAACCAGTGAGTGATCTAGAGTGCTGCATGTA
*
1604662 AAAGCTAAACCAGTGAGTGATCTAGAGTGGTGCATGTA
1 AAAGCTAAACCAGTGAGTGATCTAGAGTGCTGCATGTA
1604700 AA
1 AA
1604702 CACTCATAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
37 22 0.59
38 15 0.41
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (38 bp):
AAAGCTAAACCAGTGAGTGATCTAGAGTGCTGCATGTA
Found at i:1609511 original size:13 final size:14
Alignment explanation
Indices: 1609469--1609513 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
1609459 TAATAATGTT
1609469 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
1609484 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
1609497 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
1609510 TAAA
1 TAAA
1609514 ATAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:1614883 original size:20 final size:20
Alignment explanation
Indices: 1614850--1614890 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1614840 GCCCCATGAC
* *
1614850 CATGTTCCAGGCCACACGGG
1 CATGTCCCAAGCCACACGGG
1614870 CATGTCCCAAGCCACACGGG
1 CATGTCCCAAGCCACACGGG
1614890 C
1 C
1614891 GTGTGCCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.39, G:0.27, T:0.12
Consensus pattern (20 bp):
CATGTCCCAAGCCACACGGG
Found at i:1615359 original size:20 final size:20
Alignment explanation
Indices: 1615334--1615376 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1615324 CTAGAGTTGT
1615334 TAATGCTCAAACAATTGCTA
1 TAATGCTCAAACAATTGCTA
*
1615354 TAATGCTCAAACAATTTCTA
1 TAATGCTCAAACAATTGCTA
1615374 TAA
1 TAA
1615377 AGGAAAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (20 bp):
TAATGCTCAAACAATTGCTA
Found at i:1616601 original size:23 final size:23
Alignment explanation
Indices: 1616557--1616601 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1616547 TTATATTAAA
**
1616557 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAAAATAAATATG
* *
1616580 ATTAAGAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
1616602 TTTTAGTATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:1618603 original size:14 final size:16
Alignment explanation
Indices: 1618584--1618616 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
1618574 ACTAAGGCGA
1618584 AATTTTTT-TAA-TAT
1 AATTTTTTATAATTAT
1618598 AATTTTTTATAATTAT
1 AATTTTTTATAATTAT
1618614 AAT
1 AAT
1618617 GATATGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 3 0.18
16 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTTTTTATAATTAT
Found at i:1626667 original size:16 final size:17
Alignment explanation
Indices: 1626637--1626672 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1626627 TTCATATAAT
1626637 AAATAAAAGATAATGAG
1 AAATAAAAGATAATGAG
*
1626654 AAATAAAA-ATAATGTG
1 AAATAAAAGATAATGAG
1626670 AAA
1 AAA
1626673 CGAAGCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (17 bp):
AAATAAAAGATAATGAG
Found at i:1630714 original size:54 final size:54
Alignment explanation
Indices: 1630632--1630780 Score: 165
Period size: 54 Copynumber: 2.8 Consensus size: 54
1630622 AAAGGATTTC
* * * * *
1630632 GCAAACCGAAAGATTC-GAAAATCTTATAAGTATATGGTTGCGATCTTAAATTG
1 GCAAACTGTAAGATTCTGAAAATCTTATAAGTATAAGGTCGCGATCTTAAATCG
* *
1630685 GCAAACTGTAAGATTCTGAAAATCTTATAAATAAAAGGTCGCGATCTTAAATCG
1 GCAAACTGTAAGATTCTGAAAATCTTATAAGTATAAGGTCGCGATCTTAAATCG
** * * * * *
1630739 GTGAATTGTAAAATTCTTAAAATCGTATAAGTATACGGTCGC
1 GCAAACTGTAAGATTCTGAAAATCTTATAAGTATAAGGTCGC
1630781 TATAACACCC
Statistics
Matches: 79, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
53 14 0.18
54 65 0.82
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (54 bp):
GCAAACTGTAAGATTCTGAAAATCTTATAAGTATAAGGTCGCGATCTTAAATCG
Found at i:1638739 original size:20 final size:21
Alignment explanation
Indices: 1638714--1638753 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1638704 TTAATAATTC
1638714 AAAAAATA-AAAAATATTTTA
1 AAAAAATATAAAAATATTTTA
1638734 AAAAAATATAAAAATATTTT
1 AAAAAATATAAAAATATTTT
1638754 TAATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAATATAAAAATATTTTA
Found at i:1639210 original size:72 final size:73
Alignment explanation
Indices: 1639131--1639269 Score: 235
Period size: 72 Copynumber: 1.9 Consensus size: 73
1639121 TTTTTAGTTT
* * * *
1639131 TGGCCTGTCAATGGCCGGCACCCAGTACAATAAAAAAAATCGATTTTTTTTTC-AAAAATTTTTT
1 TGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATCAAATTTTTTTTCAAAAAATTTTTT
1639195 TTGGGTGC
66 TTGGGTGC
1639203 TGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATCAAATTTTTTTTCAAAAAATTTTTT
1 TGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATCAAATTTTTTTTCAAAAAATTTTTT
1639268 TT
66 TT
1639270 TGCTCTCTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 49 0.79
73 13 0.21
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (73 bp):
TGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATCAAATTTTTTTTCAAAAAATTTTTT
TTGGGTGC
Found at i:1639308 original size:110 final size:109
Alignment explanation
Indices: 1639194--1639603 Score: 581
Period size: 109 Copynumber: 3.8 Consensus size: 109
1639184 AAAAATTTTT
* * *
1639194 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAAC-AAAAAAAATCAAATTTTTTTTCAA
1 TTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAAATCGAATTTTTTTTC-A
1639258 AAAATTTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAAA
65 AAAATTTTTTTTTGCTCTCTAAAAATACGAGTTTT-AAAAAAAAAA
* *
1639304 TTTGGGTGCTGGCCTGTTAATGGCTGACACCCAGTACAAC-AAAAAAAATCGAATTTTTTTTCAA
1 TTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAAATCGAATTTTTTTTCAA
1639368 AAATTTTTTTTTGCTCTCTAAAAATACGAGTTTT-AAAAAAAAA
66 AAATTTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAA
*
1639411 TTTGGGGTGCTGGCCTGTCAATGGCTGACACCCAGTACAACAAAAAAAAATCGAATTTTTTTTCA
1 TTT-GGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAAATCGAATTTTTTTTCA
*** *
1639476 AAAA---AAATTT-CTCTCTAAAAATACGGGTTTTAAAAAAAAAA
65 AAAATTTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAA
* * *
1639517 --TAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAAAAAAAAATTTGAA-TTTTTTTC-
1 TTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAAA-TCGAATTTTTTTTCA
*
1639578 AAATTTTTTTTTTGCTCTCTAAAAAT
65 AAAATTTTTTTTTGCTCTCTAAAAAT
1639604 GTAATGACCC
Statistics
Matches: 274, Mismatches: 18, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
102 3 0.01
103 51 0.19
104 5 0.02
105 23 0.08
106 24 0.09
107 12 0.04
108 36 0.13
109 63 0.23
110 57 0.21
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (109 bp):
TTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAAATCGAATTTTTTTTCAA
AAATTTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAA
Found at i:1640314 original size:16 final size:16
Alignment explanation
Indices: 1640293--1640326 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1640283 TTATATATAT
1640293 AAAAGAAA-AGAAAAGA
1 AAAAGAAAGA-AAAAGA
1640309 AAAAGAAAGAAAAAGA
1 AAAAGAAAGAAAAAGA
1640325 AA
1 AA
1640327 CAGAGAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAAAAAGA
Found at i:1641682 original size:16 final size:16
Alignment explanation
Indices: 1641649--1641700 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
1641639 ATATATAGTT
1641649 AATTAATT-AAAATATG
1 AATTAATTGAAAA-ATG
*
1641665 AATTAATTGAAAACTG
1 AATTAATTGAAAAATG
*
1641681 AA--AATTGAAAAGTG
1 AATTAATTGAAAAATG
1641695 AATTAA
1 AATTAA
1641701 ATACCCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 13 0.42
16 14 0.45
17 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.31
Consensus pattern (16 bp):
AATTAATTGAAAAATG
Found at i:1642082 original size:45 final size:45
Alignment explanation
Indices: 1642018--1642127 Score: 193
Period size: 45 Copynumber: 2.4 Consensus size: 45
1642008 CTGTTACCGC
* * *
1642018 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTTGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1642063 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1642108 TACTGTTACCGTTACCGATT
1 TACTGTTACCGTTACCGATT
1642128 GTCGAATATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:1642131 original size:32 final size:32
Alignment explanation
Indices: 1642095--1642159 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
1642085 GCACTTTGTG
1642095 TGTCGAATATTGTTACTGTTACCGTTACCGAT
1 TGTCGAATATTGTTACTGTTACCGTTACCGAT
1642127 TGTCGAATATTGTTACTGTTACCGTTACCGAT
1 TGTCGAATATTGTTACTGTTACCGTTACCGAT
1642159 T
1 T
1642160 CGGCACTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (32 bp):
TGTCGAATATTGTTACTGTTACCGTTACCGAT
Found at i:1642466 original size:18 final size:18
Alignment explanation
Indices: 1642421--1642594 Score: 140
Period size: 18 Copynumber: 9.6 Consensus size: 18
1642411 TAACTGATTA
1642421 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
1642439 TTA-TCAGATAATTGACTG
1 TTACTGA-ATAATTGACTG
* *
1642457 TTACTGGAT-ATTAGACTA
1 TTACTGAATAATT-GACTG
* * *
1642475 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
* *
1642493 TTACTGAATAATTTA-TCA
1 TTACTGAATAATTGACT-G
* *
1642511 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
1642529 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
1642547 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
1642566 TTATTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
1642584 TTACTGGATAA
1 TTACTGAATAA
1642595 CCGATCAATT
Statistics
Matches: 125, Mismatches: 22, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
17 8 0.06
18 97 0.78
19 20 0.16
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.39
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:1642637 original size:18 final size:18
Alignment explanation
Indices: 1642611--1642674 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
1642601 AATTGATCGA
*
1642611 TACTGAATAACTGGTTAT
1 TACTGAATAACTGATTAT
* *
1642629 TATTGAATAATTGATTAT
1 TACTGAATAACTGATTAT
* * *
1642647 TACCGAATAACTGACTGT
1 TACTGAATAACTGATTAT
1642665 TACTGAATAA
1 TACTGAATAA
1642675 ATAATTGTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:1643503 original size:109 final size:112
Alignment explanation
Indices: 1643305--1643549 Score: 340
Period size: 111 Copynumber: 2.2 Consensus size: 112
1643295 GGGACGTTAC
*
1643305 AAAACATACGAGTTTAAAAAAAAAAAATTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
1 AAAA-ATACGAGTTTTAAAAAAAAAAATTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
* * *
1643370 CGACAAAAAAAATTCGAT--TTTTTTTTAAAAATTTCTTTTTGCTCCCT
65 CAACAAAAAAAATTCGATACTTTTTTTAAAAAAATT-TTTTTGCTCCCT
*
1643417 AAAAATACGAGTTTTAAAAAAAAAAA-TTT-GGGTGCTGGCCTGTCAATGGCTGGCACCCAGTAC
1 AAAAATACGAGTTTTAAAAAAAAAAATTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
*
1643480 AACAAAAAAAAATTCGA-ACTTTTTTTCAAAAAAAATTTTTTTGCTCTCT
66 AAC-AAAAAAAATTCGATACTTTTTTT--AAAAAAATTTTTTTGCTCCCT
*
1643529 AAAAATACCAG-TTTAAAAAAA
1 AAAAATACGAGTTTTAAAAAAA
1643550 CATTTTGAAA
Statistics
Matches: 121, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
109 35 0.29
110 16 0.13
111 38 0.31
112 25 0.21
113 7 0.06
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (112 bp):
AAAAATACGAGTTTTAAAAAAAAAAATTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
AACAAAAAAAATTCGATACTTTTTTTAAAAAAATTTTTTTGCTCCCT
Found at i:1643531 original size:112 final size:111
Alignment explanation
Indices: 1643305--1643549 Score: 345
Period size: 109 Copynumber: 2.2 Consensus size: 111
1643295 GGGACGTTAC
*
1643305 AAAACATACGAGTTTAAAAAAAAAAAATTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
1 AAAA-ATACGAGTTTTAAAAAAAAAAATTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
* ** *
1643370 CGACAAAAAAAATTCGATTTTTTTTTAAAAATTTCTTTTTGCTCCCT
65 CAACAAAAAAAATTCGATTTTTTTAAAAAAAATTCTTTTTGCTCCCT
*
1643417 AAAAATACGAGTTTTAAAAAAAAAAA-TTT-GGGTGCTGGCCTGTCAATGGCTGGCACCCAGTAC
1 AAAAATACGAGTTTTAAAAAAAAAAATTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
*
1643480 AACAAAAAAAAATTCGAACTTTTTTTCAAAAAAAATT-TTTTTGCTCTCT
66 AAC-AAAAAAAATTCG-A-TTTTTTT-AAAAAAAATTCTTTTTGCTCCCT
*
1643529 AAAAATACCAG-TTTAAAAAAA
1 AAAAATACGAGTTTTAAAAAAA
1643550 CATTTTGAAA
Statistics
Matches: 121, Mismatches: 8, Indels: 9
0.88 0.06 0.07
Matches are distributed among these distances:
109 35 0.29
110 15 0.12
111 32 0.26
112 32 0.26
113 7 0.06
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (111 bp):
AAAAATACGAGTTTTAAAAAAAAAAATTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
AACAAAAAAAATTCGATTTTTTTAAAAAAAATTCTTTTTGCTCCCT
Found at i:1643830 original size:109 final size:108
Alignment explanation
Indices: 1643591--1644595 Score: 1041
Period size: 109 Copynumber: 9.2 Consensus size: 108
1643581 GCACCCAATT
* * *
1643591 TTTTTTTTTGAAAATTCGTATTTTTAGAGAGCAAAAAAATTTTTTTTGAAAAAAA-TTGAA-TTT
1 TTTTTTTTT-AAAACTCGTATTTTTAGAGAGCAAAAAAAATTTTTTTAAAAAAAATTTGAATTTT
* * *
1643654 TTTT-TTGTACTGGGTG-CTGCCCATTGACAAGCCAGCACCCAAAT
65 TTTTGTTGTACTGGGTGCCAG-CCATTGACAGGCCAGCA-CCAAAA
*
1643698 TTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAAATTTTTTAAAAAAAATTTGAAGTTTT
1 TTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATTTTTTTAAAAAAAATTTGAA--TTT
* * *
1643763 TTTTTGTTGTACTGGGTGCCAGCCATTAACAGGCCAACACC-TAA
64 TTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCAAAA
* *
1643807 TTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAACTTTTTTGAAAAAAAATTCGAATTTT
1 TTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAA-TTTTTTTAAAAAAAATTTGAATTTT
*
1643872 TTTTGTTGTACTGGGTGCCAACCATTGACAGG-CAGCACCCAAAAAAAA
65 TTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCA-CC----AAAA
** * *
1643920 GTTTTTTTTTAAAACAAGTATTTTCAGAGAGCAAAAAAAATATTTTTTGTAAAAAAAA-TTGACT
1 -TTTTTTTTTAAAACTCGTATTTTTAGAGAGC-AAAAAAA-ATTTTTT-TAAAAAAAATTTGA-A
* * * *
1643984 TTTTTTTTTTTGGAGTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
61 TTTTTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCA-CCAAAA
* * * * * *
1644033 TTTTGTTTTTTTAAACTCATATTTTTAGAGAGC--AAATAATTTTTTTTAAAAGAA-TTCAATTT
1 -TTT-TTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATTTTTTTAAAAAAAATTTGAATTT
*
1644095 TTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAAA
64 TTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCA--CCAAAA
* *
1644142 TTTTTTTTT-AAACTCGTATTTTTAGAGAGCAAAAAAAGTTTTTTTGAAAAAAAATTCGAATTTT
1 TTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATTTTTTT-AAAAAAAATTTGAATTTT
* *
1644206 TTTTGTTGTACTGGGTGCCGGCCAGTGACAGGCCAGCATCCAAAA
65 TTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCA-CCAAAA
* * ** * *
1644251 TTTTTTTTTTAAAGCTCGTATTTTTAGAGA--ACAAAATTTTGTTTTTGAAAAATAATTCG-ATT
1 -TTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATT-TTTTT-AAAAAAAATTTGAATT
* *
1644313 TTTTTTGTTGTACTAGGTGCAAGCCATTGACAGGCCAGCACC-AAA
63 TTTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCAAAA
* * * *
1644358 TTTTTTTTTAAAACTTGTATTTTTAGAGAGTAAAAAAAA---ATTTGAAAAAAATTTGAATTTTT
1 TTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATTTTTTTAAAAAAAATTTGAA-TTTT
* * *
1644420 TTTTGTTTTATTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAAA
65 TTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACC--AAAA
** * * * *
1644466 AATTTTTTT--AACTTGTTTTTTTAAAGAGC-AAAAAAATTGTTTTTGAAAAAAAA-TCGAATTT
1 TTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATT-TTTTT-AAAAAAAATTTGAA--T
* *
1644527 TGTTTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCTAGCACC-CAA
62 T-TTTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCAAAA
1644574 TTTTTTTTT-AAACTCGTATTTT
1 TTTTTTTTTAAAACTCGTATTTT
1644596 GTATACCAAT
Statistics
Matches: 764, Mismatches: 91, Indels: 84
0.81 0.10 0.09
Matches are distributed among these distances:
103 9 0.01
104 4 0.01
105 46 0.06
106 105 0.14
107 27 0.04
108 115 0.15
109 132 0.17
110 114 0.15
111 86 0.11
112 2 0.00
113 9 0.01
114 51 0.07
115 16 0.02
116 40 0.05
117 8 0.01
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (108 bp):
TTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATTTTTTTAAAAAAAATTTGAATTTTT
TTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCAAAA
Found at i:1647730 original size:109 final size:108
Alignment explanation
Indices: 1647382--1647951 Score: 559
Period size: 107 Copynumber: 5.2 Consensus size: 108
1647372 ATTGGTATAC
** * * ** ** * *
1647382 AAAATACGAGTTTCAAAAAAAAATTTTTTGGGTACTGGCCTGTCAATGACCGGTACCTAGCACAA
1 AAAATACGAGTTT-AAAAAAAAAAATTTTGGGTGCTAGCCTGTCAATGGTCGACACCCAGTAC-A
* * *
1647447 CACAAAAAAAATTCGAT-TTTTTTTTTCAAAAAAAATTTTTTTTGCTCTTTA
64 -ACAAAAAAAATT--ATAATTTTTTTTC----AAATTTTTTTTTGCTCTCTA
* * *
1647498 AAAATACGAG-TT---AAAAAAAATTTTGGGTG-TAGGCCTGTAAATGCTCGGCACCCAGTACAA
1 AAAATACGAGTTTAAAAAAAAAAATTTTGGGTGCTA-GCCTGTCAATGGTCGACACCCAGTACAA
* *
1647558 CAAAAAAAAATTCTAATTTTTTTTC-AATTTTTTTTTGCTCTTTA
65 C-AAAAAAAATTATAATTTTTTTTCAAATTTTTTTTTGCTCTCTA
* * * *
1647602 AAAATACAACTTTAAAAAAAAAAATTTTGGGTGCTAGCCTGTCAATGG-CTAACACCCAATACAA
1 AAAATACGAGTTTAAAAAAAAAAATTTTGGGTGCTAGCCTGTCAATGGTC-GACACCCAGTACAA
*
1647666 CAAAAAAAATTATAATTTTTTTTCAAAAATTTTTTTTTGCTCT-AA
65 CAAAAAAAATTATAATTTTTTTTC--AAATTTTTTTTTGCTCTCTA
* * * *
1647711 AAAAAACTAGTTTAAAAAAAAAAATTTTGGGTGCTGGTCTGTCAATGGTCGACACCCAGTACAAC
1 AAAATACGAGTTTAAAAAAAAAAATTTTGGGTGCTAGCCTGTCAATGGTCGACACCCAGTACAAC
** * *
1647776 AAAAAAAATTCGAATTTTTTTTCAATTTTTTTTTTACTCTCTA
66 AAAAAAAATTATAATTTTTTTTCAAATTTTTTTTTGCTCTCTA
* * * * **
1647819 AAAATACGAGTTTTAAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGCATGAC
1 AAAATACGAGTTTAAAAAAAAAAATTTTGGGTGCTAGCCTGTCAATGGTCGACACCCAGTACAAC
1647883 AAAAAAAATTCA-AATTTTTTTTCAATAATTTTTTTTTTGCTCTCTA
66 AAAAAAAATT-ATAATTTTTTTTC-A-AA-TTTTTTTTTGCTCTCTA
*
1647929 AAAATACGAGTTTTAAAAAAAAA
1 AAAATACGAGTTTAAAAAAAAAA
1647952 TTTGAAAACA
Statistics
Matches: 391, Mismatches: 45, Indels: 42
0.82 0.09 0.09
Matches are distributed among these distances:
104 26 0.07
105 2 0.01
107 94 0.24
108 63 0.16
109 92 0.24
110 68 0.17
111 34 0.09
115 2 0.01
116 10 0.03
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.35
Consensus pattern (108 bp):
AAAATACGAGTTTAAAAAAAAAAATTTTGGGTGCTAGCCTGTCAATGGTCGACACCCAGTACAAC
AAAAAAAATTATAATTTTTTTTCAAATTTTTTTTTGCTCTCTA
Found at i:1647952 original size:217 final size:214
Alignment explanation
Indices: 1647382--1647954 Score: 654
Period size: 217 Copynumber: 2.6 Consensus size: 214
1647372 ATTGGTATAC
** * * * *
1647382 AAAATACGAGTTTCAAAAAAAAATTTTTTGGGTACTGGCCTGTCAATGACCGGTACCTAGCACAA
1 AAAATACGAGTTT-AAAAAAAAA-AATTTGGGTGCTGGCCTGTCAATG-GCGGCACCCAGCA-AA
** *
1647447 CACAAAAAAAATTCGATTTTTTTTTTCAAAAAAAATTTTTTTTGCTCTTTAAAAATACGAG--TT
62 -ACAAAAAAAATTC-AAATTTTTTTTC--AAAAATTTTTTTTTGCTC-TTAAAAATACGAGTTTT
* *
1647510 -AAAAAAAATTTTGGGTGTAGGCCTGTAAATGCTCGGCACCCAGTACAACAAAAAAAAATTCTAA
122 AAAAAAAAATTTTGGGTGTAGGCCTGTAAATGCTCGACACCCAGTACAACAAAAAAAAATTCGAA
* *
1647574 TTTTTTTTCAATTTTTTTTTGCTCTTTA
187 TTTTTTTTCAATTTTTTTTTACTCTCTA
* * * ** ** *
1647602 AAAATACAACTTTAAAAAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCTAACACCCAATACAAC
1 AAAATACGAGTTTAAAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGC-GGCACCCAGCAAAAC
* * * *
1647667 AAAAAAAATT-ATAATTTTTTTTCAAAAATTTTTTTTTGCTCTAAAAAAAACTAGTTTAAAAAAA
64 AAAAAAAATTCA-AATTTTTTTTCAAAAATTTTTTTTTGCTCTTAAAAATACGAGTTT-TAAAAA
* * *
1647731 AAAATTTTGGGTGCT-GGTCTGTCAATGGTCGACACCCAGTACAAC-AAAAAAAATTCGAATTTT
127 AAAATTTTGGGTG-TAGGCCTGTAAATGCTCGACACCCAGTACAACAAAAAAAAATTCGAATTTT
1647794 TTTTCAATTTTTTTTTTACTCTCTA
191 TTTTCAA-TTTTTTTTTACTCTCTA
* **
1647819 AAAATACGAGTTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGCATGACA
1 AAAATACGAGTTTAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGG-CGGCACCCAGCAAAACA
*
1647884 AAAAAAATTCAAATTTTTTTTCAATAATTTTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAA
65 AAAAAAATTCAAATTTTTTTTCAA-AAATTTTTTTTTGCTCT-TAAAAATACGAGTTTTAAAAAA
1647949 AAATTT
128 AAATTT
1647955 GAAAACAAAT
Statistics
Matches: 297, Mismatches: 43, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
213 10 0.03
214 17 0.06
215 2 0.01
216 87 0.29
217 121 0.41
218 15 0.05
219 34 0.11
220 11 0.04
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (214 bp):
AAAATACGAGTTTAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCGGCACCCAGCAAAACAA
AAAAAATTCAAATTTTTTTTCAAAAATTTTTTTTTGCTCTTAAAAATACGAGTTTTAAAAAAAAA
TTTTGGGTGTAGGCCTGTAAATGCTCGACACCCAGTACAACAAAAAAAAATTCGAATTTTTTTTC
AATTTTTTTTTACTCTCTA
Found at i:1648242 original size:108 final size:108
Alignment explanation
Indices: 1647979--1649073 Score: 1151
Period size: 108 Copynumber: 10.3 Consensus size: 108
1647969 AATTTTTTTT
* * *** *
1647979 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAGAAAGCAAAAAAA--AAATTTGAAAAAAATT
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAGAGAGGAAAAAAATTTTTTTTGAAAAAAAAT
* *
1648042 TGAATTTTTTTTTGTTGTACTGGGTGCCGGCC--T-----GTCA
66 TCAA-TTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * *
1648079 GCA-CC-AATTTTTTTTTAAAAGTCGTA-TTTTATAGA-G-AAAAATTTTTTTTTG-AAAAAAAT
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAGAGAGGAAAAAAATTTTTTTTGAAAAAAAAT
* * *
1648138 TCAATTTTTTTTGTTGTACTGGGTGCCGGCAATTAATAGGCCA
66 TCAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* ***
1648181 GCA-CCAAATTTTTTTTTAAAACTCGTATTTTTAAAGAGGAAAAAAAAAATTTTTGAAAAAAAAT
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAGAGAGGAAAAAAATTTTTTTTGAAAAAAAAT
* * *
1648245 TCGAA--TTTTTT-TTGTACTGGGTGCCAGCCATTAATAGGCCA
66 TC-AATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
** * * * *
1648286 GCACCCAAATTTTTTTTTTTAAAACAAGTATTTTCAGATAGCAAAAAAAATATTTTTTGAAAAAA
1 GCACCCAAA--TTTTTTTTTAAAACTCGTATTTTTAGAGAG-GAAAAAAATTTTTTTTGAAAAAA
* * * * *
1648351 AATTGACTTTTTCTTT-TTGCATTGGGTGCCGGCCATTGACAGGCTA
63 AATTCAATTTTT-TTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * **
1648397 GCACCCAATTTTTTTTTTTAAACTCGTACTTTTAGAGA-G-AAAATTTTTTTTTTGAAAAAAAA-
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAGAGAGGAAAAAAATTTTTTTTGAAAAAAAAT
* *
1648459 TCGAAATTTTTTTGTTGTACTAGGTGCCGGCCATTGACAGGCCA
66 TC-AATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * * * * *
1648503 GAATCAAAATTTTTTTTTAAAACTTGTATTTTT--AG-GG-AGAAATTTTTTTTTGACAAAAAAT
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAGAGAGGAAAAAAATTTTTTTTGAAAAAAAAT
* * * *
1648564 TTAAATTTTTTTATTGTACTAGGTGCCGGCCATTGACAGGCCA
66 TCAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * * *
1648607 GCA-CCAATTTTTTTTTTAAAACTCTTATTTTTAGAGAGTAAAAAATTTTTTTTTGAAAAATAAT
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAGAGAGGAAAAAAATTTTTTTTGAAAAAAAAT
* *
1648671 TCGAATTTTTTTTTGTTGTACTGGGTGCCAGCCATTGATAGGCCA
66 TC-AA-TTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * *
1648716 GCACCCAAAATTTTTTTTTAAAACTCGTATTTTTAGAGA-GCAAAATATTTTTTTTGAAAAATAA
1 GCACCC-AAATTTTTTTTTAAAACTCGTATTTTTAGAGAGGAAAAAAATTTTTTTTGAAAAAAAA
* *
1648780 TTCGATTTTTTTTGTTGTATTGGGTGCCGGCCATTGACAGGCCA
65 TTCAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * *
1648824 GCA-CCAAATTTTTTTTTTAAAACTCGTATTTTTAGAGA-GCAAAAATTTTTTTTTGAAAAAAAT
1 GCACCCAAA-TTTTTTTTTAAAACTCGTATTTTTAGAGAGGAAAAAAATTTTTTTTGAAAAAAAA
* * *
1648887 TTGAATTTTTTTTTGTTTTACTGGGTGCCAGCCATTGACAGGCCA
65 TTCAA-TTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * *
1648932 GCACCCAAAAATTTTTTTT--AACTCGTATTTTTAAAGAGCAAAAAAATTTTTTTTGAAAAAAAA
1 GCACCC-AAATTTTTTTTTAAAACTCGTATTTTTAGAGAGGAAAAAAATTTTTTTTGAAAAAAAA
*
1648995 GTCGAACTTTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
65 TTC-AA--TTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
1649042 GCACCCAAAATTTTTTTTT-AAACTCGTATTTT
1 GCACCC-AAATTTTTTTTTAAAACTCGTATTTT
1649074 GTATACCAAT
Statistics
Matches: 842, Mismatches: 111, Indels: 73
0.82 0.11 0.07
Matches are distributed among these distances:
95 31 0.04
96 10 0.01
97 12 0.01
98 20 0.02
99 2 0.00
100 3 0.00
102 8 0.01
103 45 0.05
104 73 0.09
105 39 0.05
106 103 0.12
107 104 0.12
108 130 0.15
109 97 0.12
110 88 0.10
111 77 0.09
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (108 bp):
GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAGAGAGGAAAAAAATTTTTTTTGAAAAAAAAT
TCAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
Found at i:1650050 original size:26 final size:26
Alignment explanation
Indices: 1650014--1650067 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
1650004 AATCCGAAAG
1650014 TTTGCAGCAAGTTAACAACTACAATC
1 TTTGCAGCAAGTTAACAACTACAATC
1650040 TTTGCAGCAAGTTAACAACTACAATC
1 TTTGCAGCAAGTTAACAACTACAATC
1650066 TT
1 TT
1650068 AAGCGTGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (26 bp):
TTTGCAGCAAGTTAACAACTACAATC
Found at i:1650733 original size:18 final size:19
Alignment explanation
Indices: 1650710--1650754 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
1650700 TCGCACATTT
*
1650710 GATGAGCTT-ACAGTTTTG
1 GATGAGCTTCACAGTTTTA
1650728 GATGAG-TTCACAGTTTTA
1 GATGAGCTTCACAGTTTTA
1650746 GATGAGCTT
1 GATGAGCTT
1650755 GTAGGTGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (19 bp):
GATGAGCTTCACAGTTTTA
Found at i:1652689 original size:22 final size:21
Alignment explanation
Indices: 1652657--1652697 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
1652647 TAAACAAAGT
1652657 AAATAAAAGAATA-AAAGAATG
1 AAATAAAAGAA-ACAAAGAATG
1652678 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
1652698 AAGAAAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:1654444 original size:20 final size:20
Alignment explanation
Indices: 1654421--1654458 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1654411 GTTATTAAGT
1654421 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
1654441 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
1654459 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:1656394 original size:12 final size:11
Alignment explanation
Indices: 1656379--1656440 Score: 53
Period size: 12 Copynumber: 5.8 Consensus size: 11
1656369 GATAAATATT
1656379 ATATTAAATTTA
1 ATATTAAA-TTA
1656391 ATATTAAATTA
1 ATATTAAATTA
1656402 ATA--AAA-TA
1 ATATTAAATTA
*
1656410 CTATTCAAA-TA
1 ATATT-AAATTA
1656421 AGTATTAAATTA
1 A-TATTAAATTA
1656433 A-ATTAAAT
1 ATATTAAAT
1656441 ATTAAATCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 7 0.16
11 14 0.33
12 15 0.35
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (11 bp):
ATATTAAATTA
Found at i:1656410 original size:49 final size:48
Alignment explanation
Indices: 1656338--1656463 Score: 164
Period size: 49 Copynumber: 2.6 Consensus size: 48
1656328 ACTTAATCAC
* *
1656338 TTTAATATTAAATTAATATAATACT-TATCAAGATAAATATTATATTAAA
1 TTTAATATTAAATTAATAAAATACTAT-TCAA-ATAAATATTAAATTAAA
*
1656387 TTTAATATTAAATTAATAAAATACTATTCAAATAAGTATTAAATTAAA
1 TTTAATATTAAATTAATAAAATACTATTCAAATAAATATTAAATTAAA
* * *
1656435 TTAAATATTAAATCTATTAAAATAATATT
1 TTTAATATTAAAT-TAATAAAATACTATT
1656464 ATTTTTAGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 27 0.39
49 41 0.59
50 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (48 bp):
TTTAATATTAAATTAATAAAATACTATTCAAATAAATATTAAATTAAA
Found at i:1665630 original size:17 final size:17
Alignment explanation
Indices: 1665609--1665648 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1665599 TATAAAATAG
*
1665609 AATTTA-TAATAATTAT
1 AATTTATTAAGAATTAT
1665625 ACATTTATTAAGAATTAT
1 A-ATTTATTAAGAATTAT
1665643 AATTTA
1 AATTTA
1665649 ATAGAAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 10 0.48
18 10 0.48
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTTATTAAGAATTAT
Found at i:1665653 original size:44 final size:44
Alignment explanation
Indices: 1665604--1665692 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
1665594 AAAACTATAA
* * *
1665604 AATAGAATTTATAATAATTATACATTTATTA-AGAATTATAATTT
1 AATAGAAATTATAATAATTACACATTTA-GACAGAATTATAATTT
* * *
1665648 AATAGAAATTGTGATAATTACACATTTAGACATAATTATAATTT
1 AATAGAAATTATAATAATTACACATTTAGACAGAATTATAATTT
1665692 A
1 A
1665693 TTTATATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (44 bp):
AATAGAAATTATAATAATTACACATTTAGACAGAATTATAATTT
Found at i:1668321 original size:20 final size:19
Alignment explanation
Indices: 1668292--1668343 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
1668282 AAACCCTTCT
* *
1668292 AAATTTTAAAAATTATTATA
1 AAATTATAAAAATTA-TAAA
*
1668312 AAATTATAAAATTTATAAA
1 AAATTATAAAAATTATAAA
1668331 AAAGTTATAAAAA
1 AAA-TTATAAAAA
1668344 GTTTACAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAATTATAAAAATTATAAA
Found at i:1668346 original size:10 final size:9
Alignment explanation
Indices: 1668292--1668343 Score: 50
Period size: 10 Copynumber: 5.3 Consensus size: 9
1668282 AAACCCTTCT
*
1668292 AAATTTTAA
1 AAATTATAA
1668301 AAATTATTATA
1 AAATTA-TA-A
1668312 AAATTATAA
1 AAATTATAA
*
1668321 AATTTATAAA
1 AAATTAT-AA
1668331 AAAGTTATAA
1 AAA-TTATAA
1668341 AAA
1 AAA
1668344 GTTTACAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
9 12 0.33
10 13 0.36
11 11 0.31
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (9 bp):
AAATTATAA
Found at i:1670585 original size:22 final size:21
Alignment explanation
Indices: 1670543--1670595 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
1670533 AATATTAAAA
* *
1670543 ATATATT-TGATAATAATTTT
1 ATATATTATTATAATAAATTT
1670563 ATATATTATTATAATTAAATTT
1 ATATATTATTATAA-TAAATTT
* *
1670585 AAATAATATTA
1 ATATATTATTA
1670596 GTATACATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 7 0.26
21 5 0.19
22 15 0.56
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATATTATTATAATAAATTT
Found at i:1672533 original size:21 final size:22
Alignment explanation
Indices: 1672507--1672553 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
1672497 CTCTGCTCAA
*
1672507 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
1672528 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
1672550 ACTC
1 ACTC
1672554 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:1675922 original size:21 final size:22
Alignment explanation
Indices: 1675893--1675939 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
1675883 CAGAAGGAGT
*
1675893 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
1675915 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
1675936 GAGT
1 GAGT
1675940 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:1693009 original size:15 final size:16
Alignment explanation
Indices: 1692989--1693018 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1692979 TTCTTACTCT
1692989 AAAATTA-ATAAAATC
1 AAAATTATATAAAATC
1693004 AAAATTATATAAAAT
1 AAAATTATATAAAAT
1693019 ATTGCTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATTATATAAAATC
Found at i:1695070 original size:42 final size:40
Alignment explanation
Indices: 1695020--1695099 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 40
1695010 CATGAATGTA
* *
1695020 TTATTTAATAAGACTATATTATTATTTTATTATATTGTAAT
1 TTATTTAATAAGACTATAATATTATTTTAATA-ATTGTAAT
* *
1695061 TTATATTAATAATATTATAATATTATTTTAATAATTGTA
1 TTAT-TTAATAAGACTATAATATTATTTTAATAATTGTA
1695100 TGGTAATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 10 0.29
42 24 0.71
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (40 bp):
TTATTTAATAAGACTATAATATTATTTTAATAATTGTAAT
Found at i:1695659 original size:15 final size:15
Alignment explanation
Indices: 1695639--1695670 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1695629 ATTGAGTAGA
1695639 AATAAAGTATGAATT
1 AATAAAGTATGAATT
1695654 AATAAAGTATGAATT
1 AATAAAGTATGAATT
1695669 AA
1 AA
1695671 GATAGAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (15 bp):
AATAAAGTATGAATT
Found at i:1697034 original size:45 final size:45
Alignment explanation
Indices: 1696948--1697087 Score: 176
Period size: 45 Copynumber: 3.1 Consensus size: 45
1696938 TTTTGTCGGC
* * *
1696948 TTACTGA-TCTGGCAC-TTATGTGCCGACTACTGTTACTGTTACTG
1 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
*
1696992 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACCG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
* * * * *
1697037 TTATTGATTCAGCACTTTGTGTGTTGAATATTGCTACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
1697082 TTACTG
1 TTACTG
1697088 TTACTGTTCC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
44 12 0.14
45 71 0.86
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (45 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
Found at i:1697082 original size:6 final size:6
Alignment explanation
Indices: 1697071--1697095 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1697061 TGAATATTGC
1697071 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
1697096 CCGGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:1697297 original size:18 final size:18
Alignment explanation
Indices: 1697274--1697443 Score: 164
Period size: 18 Copynumber: 9.4 Consensus size: 18
1697264 CTGATTATTT
1697274 CTGAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
*
1697292 CCGAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
* *
1697310 CTGGATAATAGACTGTTA
1 CTGAATAATTGACTGTTA
* * *
1697328 CTGAATAACTGAATATTA
1 CTGAATAATTGACTGTTA
* * *
1697346 CTGAATAACTGATTGTCA
1 CTGAATAATTGACTGTTA
*
1697364 CTGAATAAATGACTGTTA
1 CTGAATAATTGACTGTTA
* * *
1697382 CTGAATAACTTAATTGCTA
1 CTGAATAA-TTGACTGTTA
*
1697401 CTGAAT-ATCTGA-TTTTA
1 CTGAATAAT-TGACTGTTA
*
1697418 CTAAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
*
1697436 CTGGATAA
1 CTGAATAA
1697444 CCGATCAATT
Statistics
Matches: 122, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
17 12 0.10
18 98 0.80
19 12 0.10
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (18 bp):
CTGAATAATTGACTGTTA
Found at i:1697521 original size:36 final size:36
Alignment explanation
Indices: 1697259--1697536 Score: 168
Period size: 36 Copynumber: 7.5 Consensus size: 36
1697249 AAAGGTATAA
* * * * *
1697259 AATAACTGATTATTTCTGAATAATTGACTGTTACCG
1 AATAATTGATTGTTACTGAATAACTGACTGTTACTG
* *
1697295 AATAATTGACTGTTACTGGATAA-TAGACTGTTACTG
1 AATAATTGATTGTTACTGAATAACT-GACTGTTACTG
* * * * *
1697331 AATAACTGAATATTACTGAATAACTGATTGTCACTG
1 AATAATTGATTGTTACTGAATAACTGACTGTTACTG
* * * * *
1697367 AATAAATGACTGTTACTGAATAACTTAATTGCTACTG
1 AATAATTGATTGTTACTGAATAAC-TGACTGTTACTG
* *
1697404 AAT-ATCTGATT-TTACTAAATAATTGACTGTTACTGG
1 AATAAT-TGATTGTTACTGAATAACTGACTGTTACT-G
*** ** * *
1697440 ATAACCGATCAATTGATCAATACTGAATAACTGGTTATTATTG
1 ---A---AT-AATTGATTGTTACTGAATAACTGACTGTTACTG
*
1697483 AATAATTGATTGTTACCGAATAACTGACTGTTACTG
1 AATAATTGATTGTTACTGAATAACTGACTGTTACTG
* *
1697519 AATAAATAATTGTT-CTGA
1 AATAATTGATTGTTACTGA
1697537 TTGTTAATGA
Statistics
Matches: 184, Mismatches: 44, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
35 12 0.07
36 126 0.68
37 19 0.10
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 18 0.10
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (36 bp):
AATAATTGATTGTTACTGAATAACTGACTGTTACTG
Found at i:1697532 original size:18 final size:18
Alignment explanation
Indices: 1697259--1697536 Score: 130
Period size: 18 Copynumber: 15.1 Consensus size: 18
1697249 AAAGGTATAA
* * *
1697259 AATAACTGATTATTTCTG
1 AATAAATGATTGTTACTG
* * *
1697277 AATAATTGACTGTTACCG
1 AATAAATGATTGTTACTG
* *
1697295 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
1697313 GAT-AATAGACTGTTACTG
1 AATAAAT-GATTGTTACTG
* * *
1697331 AATAACTGAATATTACTG
1 AATAAATGATTGTTACTG
* *
1697349 AATAACTGATTGTCACTG
1 AATAAATGATTGTTACTG
*
1697367 AATAAATGACTGTTACTG
1 AATAAATGATTGTTACTG
* * *
1697385 AATAACTTAATTGCTACTG
1 AATAA-ATGATTGTTACTG
** *
1697404 AATATCTGATT-TTACTA
1 AATAAATGATTGTTACTG
* *
1697421 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
1697439 GATAACCGATCAATTGATCAATACTG
1 AATAA---AT-GATTG-T---TACTG
* * * *
1697465 AATAACTGGTTATTATTG
1 AATAAATGATTGTTACTG
* *
1697483 AATAATTGATTGTTACCG
1 AATAAATGATTGTTACTG
* *
1697501 AATAACTGACTGTTACTG
1 AATAAATGATTGTTACTG
*
1697519 AATAAATAATTGTT-CTG
1 AATAAATGATTGTTACTG
1697536 A
1 A
1697537 TTGTTAATGA
Statistics
Matches: 196, Mismatches: 52, Indels: 25
0.72 0.19 0.09
Matches are distributed among these distances:
17 18 0.09
18 145 0.74
19 15 0.08
21 2 0.01
22 5 0.03
23 2 0.01
26 9 0.05
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (18 bp):
AATAAATGATTGTTACTG
Found at i:1698787 original size:5 final size:5
Alignment explanation
Indices: 1698779--1698817 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
1698769 AGTATATACT
*
1698779 ATATG ATATG ATATG ATATG ATATG ATATG ATGTG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATAT
1698818 AACATTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:1699011 original size:263 final size:271
Alignment explanation
Indices: 1698520--1699060 Score: 661
Period size: 263 Copynumber: 2.0 Consensus size: 271
1698510 AACTATTAAT
* *
1698520 ATATGATATGATATGATATGATATAACATTATATAATATAGTAAAAGGGTTAACTTTCAAATATA
1 ATATGATATGATATGATATGATATAACATTATATAATATAGCAAAAGGGCTAACTTTCAAATATA
** * * * * *
1698585 CGAAATGTATAGAGACTTACAGCATATTTTAACAAAAAATAATAATATATAATAAGTAACATAGT
66 CGAAAAATATAAAGACTTAAAGCATATTTTAACAAAAAATAATAATAAACAATAAGTAACATAAT
* * *
1698650 ATGCATTATTATTATTATATATAATAATTATTATTATAATATAGATTATAATAAAAGATATAGTA
131 AT--ATTATTATTATAATATATAATAATCATTATTATAATATA-ATAATAATAAAAGATATAGTA
* *
1698715 TTACATGATATTATAATGTTTAACCATTGATGCATATATAAAAACTATTAATGTAGTATATACTA
193 TTACATGATATTATAATGTTTAACCATTGATGCATATACAAAAACTATTAATATAGTATATACTA
*
1698780 TATGATATGATATG
258 TATGATATGATATA
* * * *
1698794 ATATGATATGATATGATGTGATATAACATTATATAATATAGCAGAAGGGCT-ACTTTTAAATGTA
1 ATATGATATGATATGATATGATATAACATTATATAATATAGCAAAAGGGCTAACTTTCAAATATA
* * * * **
1698858 TGAAAAATATAAAGACTTAAAGCGTATTTTAAC-CAATATAATAATAAACAATAA-TATTATAAT
66 CGAAAAATATAAAGACTTAAAGCATATTTTAACAAAAAATAATAATAAACAATAAGTAACATAAT
* * *
1698921 AT-TTATTA-TATAATGTACTACT-ATCA-TATTATAGA-AT-ATAATAA-AAAATATATAGTAT
131 ATATTATTATTATAATATA-TAATAATCATTATTATA-ATATAATAATAATAAAAGATATAGTAT
* * * * *
1698979 TACATTATATTATAATGTTTAATCATTGATGCATATACATAAACTATTAATATTGTATATATTAT
194 TACATGATATTATAATGTTTAACCATTGATGCATATACAAAAACTATTAATATAGTATATACTAT
*
1699044 ATTATATGATATA
259 ATGATATGATATA
1699057 ATAT
1 ATAT
1699061 AACATTATAT
Statistics
Matches: 231, Mismatches: 34, Indels: 15
0.82 0.12 0.05
Matches are distributed among these distances:
263 86 0.37
264 6 0.03
266 9 0.04
267 11 0.05
268 9 0.04
271 8 0.03
272 17 0.07
273 38 0.16
274 47 0.20
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (271 bp):
ATATGATATGATATGATATGATATAACATTATATAATATAGCAAAAGGGCTAACTTTCAAATATA
CGAAAAATATAAAGACTTAAAGCATATTTTAACAAAAAATAATAATAAACAATAAGTAACATAAT
ATATTATTATTATAATATATAATAATCATTATTATAATATAATAATAATAAAAGATATAGTATTA
CATGATATTATAATGTTTAACCATTGATGCATATACAAAAACTATTAATATAGTATATACTATAT
GATATGATATA
Found at i:1708361 original size:21 final size:21
Alignment explanation
Indices: 1708335--1708408 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
1708325 GGATCAACTC
1708335 TTATGAGCTTCTGTTCAGCTT
1 TTATGAGCTTCTGTTCAGCTT
*
1708356 TTATGAGCTTCTGTTAAGCTT
1 TTATGAGCTTCTGTTCAGCTT
*
1708377 TTATGAGCTTCTATTCA----
1 TTATGAGCTTCTGTTCAGCTT
1708394 TTATGAGCTTCTGTT
1 TTATGAGCTTCTGTT
1708409 AGTGTGTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
17 14 0.29
21 35 0.71
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.49
Consensus pattern (21 bp):
TTATGAGCTTCTGTTCAGCTT
Found at i:1713010 original size:26 final size:26
Alignment explanation
Indices: 1712974--1713054 Score: 162
Period size: 26 Copynumber: 3.1 Consensus size: 26
1712964 AGATATATAA
1712974 CATAGTTTCCAAAACAATCTAAGCAT
1 CATAGTTTCCAAAACAATCTAAGCAT
1713000 CATAGTTTCCAAAACAATCTAAGCAT
1 CATAGTTTCCAAAACAATCTAAGCAT
1713026 CATAGTTTCCAAAACAATCTAAGCAT
1 CATAGTTTCCAAAACAATCTAAGCAT
1713052 CAT
1 CAT
1713055 GGCCAAATAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.27
Consensus pattern (26 bp):
CATAGTTTCCAAAACAATCTAAGCAT
Found at i:1724054 original size:5 final size:5
Alignment explanation
Indices: 1724044--1724069 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1724034 ATGAAATATA
1724044 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
1724070 TAACATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:1724222 original size:23 final size:24
Alignment explanation
Indices: 1724191--1724261 Score: 90
Period size: 23 Copynumber: 2.9 Consensus size: 24
1724181 TTTTAAATAT
1724191 TAATAAATTTAAATTTAAATAAAA
1 TAATAAATTTAAATTTAAATAAAA
**
1724215 TAAT-AATTTAAAAATAAATAAAA
1 TAATAAATTTAAATTTAAATAAAA
*
1724238 TAATAAAATTACATATTTAAATAA
1 TAATAAATTTA-A-ATTTAAATAA
1724262 TACAATTGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 21 0.54
24 9 0.23
25 1 0.03
26 8 0.21
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (24 bp):
TAATAAATTTAAATTTAAATAAAA
Found at i:1724235 original size:18 final size:17
Alignment explanation
Indices: 1724202--1724235 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1724192 AATAAATTTA
*
1724202 AATTTAAATAAAATAAT
1 AATTTAAAAAAAATAAT
1724219 AATTTAAAAATAAATAA
1 AATTTAAAAA-AAATAA
1724236 AATAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATTTAAAAAAAATAAT
Found at i:1724244 original size:12 final size:12
Alignment explanation
Indices: 1724206--1724244 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1724196 AATTTAAATT
1724206 TAAATAAAATAA
1 TAAATAAAATAA
* *
1724218 TAATTTAAA-AA
1 TAAATAAAATAA
1724229 TAAATAAAATAA
1 TAAATAAAATAA
1724241 TAAA
1 TAAA
1724245 ATTACATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAATAAAATAA
Found at i:1724795 original size:26 final size:26
Alignment explanation
Indices: 1724766--1724821 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 26
1724756 AAAAATTAAA
1724766 ATTAT-TC-AAATAAAAATATTTTGTTT
1 ATTATCTCAAAAT-AAAATATTTT-TTT
*
1724792 ATTATCGTCAAAATAATATATTTTTTT
1 ATTATC-TCAAAATAAAATATTTTTTT
1724819 ATT
1 ATT
1724822 TGGAGAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 5 0.19
27 6 0.23
28 11 0.42
29 4 0.15
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (26 bp):
ATTATCTCAAAATAAAATATTTTTTT
Found at i:1725286 original size:24 final size:22
Alignment explanation
Indices: 1725259--1725323 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 22
1725249 GAGATTGAAA
*
1725259 TTAAATTATATATTTTTATGATAG
1 TTAAA-TATATATTTTTATCAT-G
* *
1725283 TTAAA-ATATAATTTTATCATT
1 TTAAATATATATTTTTATCATG
1725304 TTAATAGTATATATTTTTAT
1 TTAA-A-TATATATTTTTAT
1725324 AATTTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.12
22 14 0.41
24 16 0.47
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (22 bp):
TTAAATATATATTTTTATCATG
Found at i:1737027 original size:49 final size:49
Alignment explanation
Indices: 1736973--1737072 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
1736963 ATCTTACATC
* * *
1736973 TAACTAAATTATTTGATAATGTATAAAATTATTATCAACTGTTTAAAGA
1 TAACTAAATTATTCGATAATGTATAAAACTATAATCAACTGTTTAAAGA
* *
1737022 TAACTAAATTATTCGGTAATGTATAAAACTATAATCAACTTTTTAAAGA
1 TAACTAAATTATTCGATAATGTATAAAACTATAATCAACTGTTTAAAGA
1737071 TA
1 TA
1737073 TAATCGATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (49 bp):
TAACTAAATTATTCGATAATGTATAAAACTATAATCAACTGTTTAAAGA
Found at i:1742392 original size:17 final size:17
Alignment explanation
Indices: 1742372--1742404 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1742362 ATTATTTTAA
1742372 TATT-TATATTATAGTAG
1 TATTATATATT-TAGTAG
1742389 TATTATATATTTAGTA
1 TATTATATATTTAGTA
1742405 TATGTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TATTATATATTTAGTAG
Found at i:1743760 original size:18 final size:18
Alignment explanation
Indices: 1743734--1743768 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1743724 GAATAACGAT
1743734 GACGACGACGAAGAAGAC
1 GACGACGACGAAGAAGAC
*
1743752 GACGCCGACGAAGAAGA
1 GACGACGACGAAGAAGA
1743769 AGAACAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.23, G:0.34, T:0.00
Consensus pattern (18 bp):
GACGACGACGAAGAAGAC
Found at i:1749141 original size:21 final size:22
Alignment explanation
Indices: 1749112--1749158 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
1749102 CAGAAGGAGT
*
1749112 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
1749134 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
1749155 GAGT
1 GAGT
1749159 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:1756424 original size:2 final size:2
Alignment explanation
Indices: 1756417--1756443 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1756407 TTTAAGAAAC
1756417 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1756444 AAGAAAGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1776968 original size:21 final size:21
Alignment explanation
Indices: 1776942--1776982 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1776932 AGACGAGCAA
* *
1776942 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1776963 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1776983 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1778921 original size:16 final size:16
Alignment explanation
Indices: 1778888--1778921 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1778878 GGAGATTGTT
* *
1778888 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
1778904 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
1778920 AA
1 AA
1778922 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:1780259 original size:35 final size:35
Alignment explanation
Indices: 1780213--1780282 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
1780203 ACAATCGTTT
1780213 TTATTACAAAACGATTGTTGAAGGGAGAATAAAGA
1 TTATTACAAAACGATTGTTGAAGGGAGAATAAAGA
1780248 TTATTACAAAACGATTGTTGAAGGGAGAATAAAGA
1 TTATTACAAAACGATTGTTGAAGGGAGAATAAAGA
1780283 GAGAAGAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.26
Consensus pattern (35 bp):
TTATTACAAAACGATTGTTGAAGGGAGAATAAAGA
Found at i:1786330 original size:216 final size:216
Alignment explanation
Indices: 1785956--1786607 Score: 1205
Period size: 216 Copynumber: 3.0 Consensus size: 216
1785946 ACCAATAGAT
*
1785956 TAGAGACATCAGTTTAGGTTTCAAACATTTGATCTAAGCCATTTCATAAAATTATTTAAATTTAA
1 TAGAGACATCAGTTTAGGTTTCAGACATTTGATCTAAGCCATTTCATAAAATTATTTAAATTTAA
*
1786021 AGCTAATTTAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
66 ACCTAATTTAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
**
1786086 GCACAAAGTTAAAATATTAAGTCTTTTGGAAAACAGATGATAAATTAATTGTTTTATGACATGTT
131 GCACAAAGTTAAAATATTAAGTCTTTTGGAAAACAGATGATAAATTAATTGTTTTATGACATGGA
1786151 AAACAGATGACTCCTCTAAAC
196 AAACAGATGACTCCTCTAAAC
1786172 TAGAGACATCAGTTTAGGTTTCAGACATTTGATCTAAGCCATTTCATAAAATTATTTAAATTTAA
1 TAGAGACATCAGTTTAGGTTTCAGACATTTGATCTAAGCCATTTCATAAAATTATTTAAATTTAA
* * *
1786237 ATCTAATTTAGATTGAAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAGATG
66 ACCTAATTTAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
* *
1786302 GCACAAAGTTAAAATATTAAGTCTTTTGGAAAACAGATGATAAACTAATTGTTTTATGATATGGA
131 GCACAAAGTTAAAATATTAAGTCTTTTGGAAAACAGATGATAAATTAATTGTTTTATGACATGGA
1786367 AAACAGATGACTCCTCTAAAC
196 AAACAGATGACTCCTCTAAAC
1786388 TAGAGACATCAGTTTAGGTTTCAGACATTTGATCTAAGCCATTTCATAAAATTATTTAAATTTAA
1 TAGAGACATCAGTTTAGGTTTCAGACATTTGATCTAAGCCATTTCATAAAATTATTTAAATTTAA
1786453 ACCTAATTTAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
66 ACCTAATTTAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
* *
1786518 GCACAAAGTTAAAATATCAAGTCTTTTGGAGAACAGATGATAAATTAATTGTTTTATGACATGGA
131 GCACAAAGTTAAAATATTAAGTCTTTTGGAAAACAGATGATAAATTAATTGTTTTATGACATGGA
1786583 AAACAGATGACTCCTCTAAAC
196 AAACAGATGACTCCTCTAAAC
1786604 TAGA
1 TAGA
1786608 TTAGGTTCAA
Statistics
Matches: 421, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 421 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (216 bp):
TAGAGACATCAGTTTAGGTTTCAGACATTTGATCTAAGCCATTTCATAAAATTATTTAAATTTAA
ACCTAATTTAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
GCACAAAGTTAAAATATTAAGTCTTTTGGAAAACAGATGATAAATTAATTGTTTTATGACATGGA
AAACAGATGACTCCTCTAAAC
Found at i:1788143 original size:166 final size:166
Alignment explanation
Indices: 1787954--1788289 Score: 645
Period size: 166 Copynumber: 2.0 Consensus size: 166
1787944 GAGCTTGAAT
1787954 TAACAATGTTTCATAAATCCAACTACCCTGACTACAAATCCACTCACAATGAAAGGATATCATAA
1 TAACAATGTTTCATAAATCCAACTACCCTGACTACAAATCCACTCACAATGAAAGGATATCATAA
1788019 TCAAAGAAAAATCATAACATGTGAGTTTGTGAGCATCTTGATTACCAAGCAGCAATGAAAAGTCA
66 TCAAAGAAAAATCATAACATGTGAGTTTGTGAGCATCTTGATTACCAAGCAGCAATGAAAAGTCA
1788084 TGTTCAGATAGATGAGTAAAGCTTTAGAATGATAAC
131 TGTTCAGATAGATGAGTAAAGCTTTAGAATGATAAC
1788120 TAACAATGTTTCATAAATCCAACTACCCTGACTACAAATCCACTCACAATGAAAGGATATCATAA
1 TAACAATGTTTCATAAATCCAACTACCCTGACTACAAATCCACTCACAATGAAAGGATATCATAA
* *
1788185 TCAAAGTAAAATCATAACATGTGAGTTTGTGAGCATCTTGATTACCAAGCAGCAATGAAGAGTCA
66 TCAAAGAAAAATCATAACATGTGAGTTTGTGAGCATCTTGATTACCAAGCAGCAATGAAAAGTCA
*
1788250 TGTTCAGATAGATGAGTAAAGCTTTGGAATGATAAC
131 TGTTCAGATAGATGAGTAAAGCTTTAGAATGATAAC
1788286 TAAC
1 TAAC
1788290 TCTTACACCC
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 167 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (166 bp):
TAACAATGTTTCATAAATCCAACTACCCTGACTACAAATCCACTCACAATGAAAGGATATCATAA
TCAAAGAAAAATCATAACATGTGAGTTTGTGAGCATCTTGATTACCAAGCAGCAATGAAAAGTCA
TGTTCAGATAGATGAGTAAAGCTTTAGAATGATAAC
Found at i:1788514 original size:205 final size:205
Alignment explanation
Indices: 1788120--1788521 Score: 590
Period size: 205 Copynumber: 2.0 Consensus size: 205
1788110 GAATGATAAC
* *
1788120 TAACAATGTTTCATAAATCCAACTACCCTGACTACAAATCCACTCACAATGAAAGGATATCATAA
1 TAACAATGTTTCATAAATCCAACTACCCTGACTACAAATCCACCCACAATGAAAAGATATCATAA
* * * * *
1788185 TCAAAGTAAAATCATAACATGTGAGTTTGTGAGCATCTTGATTACCAAGCAGCAATGAAGAGTCA
66 TCAAAGTAAAATCATAACATGCGAGTTTGGGAGAATCTTGAGTACCAAGCAGCAATGAAAAGTCA
** * * * * *
1788250 TGTTCAGATAGATGAGTAAAGCTTTGGAATGATAACTAACTCTTACACCCAGACCTCGAACTAAG
131 CATTCAGATAGAAGAGTAAAGCTTTAGAATGATAACCAACTCTGACAACCAGACCTCGAACTAAG
1788315 AAACTTGAAT
196 AAACTTGAAT
1788325 TAACAATGTTTCATAAATCCAACTACCCTGACTACAAATCCACCCACAATGAAAAGATATCATAA
1 TAACAATGTTTCATAAATCCAACTACCCTGACTACAAATCCACCCACAATGAAAAGATATCATAA
* *
1788390 TCGAAGTAAAATCATAACATGCGAGTTTGGGAGAATCTTG-GTAGCCAAGCAGCTATGAAAAGTC
66 TCAAAGTAAAATCATAACATGCGAGTTTGGGAGAATCTTGAGTA-CCAAGCAGCAATGAAAAGTC
* * *** *
1788454 ACATTCAGATAGAAGAGTAATGCTTTAGAATGGTAACCAACTCTGACAATTGGGCCTCGAACTAA
130 ACATTCAGATAGAAGAGTAAAGCTTTAGAATGATAACCAACTCTGACAACCAGACCTCGAACTAA
1788519 GAA
195 GAA
1788522 GAAACTTATT
Statistics
Matches: 174, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
204 2 0.01
205 172 0.99
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.25
Consensus pattern (205 bp):
TAACAATGTTTCATAAATCCAACTACCCTGACTACAAATCCACCCACAATGAAAAGATATCATAA
TCAAAGTAAAATCATAACATGCGAGTTTGGGAGAATCTTGAGTACCAAGCAGCAATGAAAAGTCA
CATTCAGATAGAAGAGTAAAGCTTTAGAATGATAACCAACTCTGACAACCAGACCTCGAACTAAG
AAACTTGAAT
Found at i:1795031 original size:11 final size:11
Alignment explanation
Indices: 1795015--1795039 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1795005 ATATGATATT
1795015 TTATTATTTTA
1 TTATTATTTTA
1795026 TTATTATTTTA
1 TTATTATTTTA
1795037 TTA
1 TTA
1795040 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:1795279 original size:38 final size:38
Alignment explanation
Indices: 1795237--1795311 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
1795227 CTATGGGGAG
1795237 TTAGAATATCAAATTGGATTCAAGGAATAGAAGCTGGT
1 TTAGAATATCAAATTGGATTCAAGGAATAGAAGCTGGT
1795275 TTAGAATATCAAATTGGATTCAAGGAATAGAAGCTGG
1 TTAGAATATCAAATTGGATTCAAGGAATAGAAGCTGG
1795312 AGGAGAGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (38 bp):
TTAGAATATCAAATTGGATTCAAGGAATAGAAGCTGGT
Found at i:1798726 original size:16 final size:17
Alignment explanation
Indices: 1798705--1798736 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1798695 CATTGGGTTG
1798705 AGAAAATT-ATTTAATT
1 AGAAAATTAATTTAATT
1798721 AGAAAATTAATTTAAT
1 AGAAAATTAATTTAAT
1798737 AAATAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
AGAAAATTAATTTAATT
Found at i:1802279 original size:20 final size:19
Alignment explanation
Indices: 1802236--1802279 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
1802226 ATGGTTATAT
*
1802236 TTTTAATATTTAAAATATA
1 TTTTAATATTTAAAATAAA
* *
1802255 GTTTATATATTTAAATTAAA
1 TTTTA-ATATTTAAAATAAA
1802275 TTTTA
1 TTTTA
1802280 CAAACAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTAATATTTAAAATAAA
Found at i:1815920 original size:20 final size:20
Alignment explanation
Indices: 1815895--1815937 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
1815885 TATAAATATT
*
1815895 AATATTTATTAAATTATTA-A
1 AATATTTA-AAAATTATTATA
1815915 AATATTTAAAAATTATTATA
1 AATATTTAAAAATTATTATA
1815935 AAT
1 AAT
1815938 TGAAGTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATTTAAAAATTATTATA
Found at i:1818266 original size:39 final size:39
Alignment explanation
Indices: 1818222--1818464 Score: 324
Period size: 39 Copynumber: 6.0 Consensus size: 39
1818212 ATTATATTAT
* *
1818222 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
1818261 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
1818300 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
1818339 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTCCATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGAT--A----C----ATTTC
* * *
1818388 CAGCATGAAGCCTGTGGGAGTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1818427 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1818465 TCAGTGTCTT
Statistics
Matches: 182, Mismatches: 12, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
39 145 0.80
41 1 0.01
43 1 0.01
45 1 0.01
47 1 0.01
49 33 0.18
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:1818351 original size:78 final size:78
Alignment explanation
Indices: 1818222--1818464 Score: 324
Period size: 88 Copynumber: 3.0 Consensus size: 78
1818212 ATTATATTAT
* * *
1818222 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1818287 CCGGATACATTTC
66 CCGGATACATTTC
* *
1818300 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1818365 CCGGATACATTTCCATATATTTC
66 CCGGAT--A----C----ATTTC
* * *
1818388 CAGCATGAAGCCTGTGGGAGTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1818453 CCGGATACATTT
66 CCGGATACATTT
1818465 TCAGTGTCTT
Statistics
Matches: 145, Mismatches: 10, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
78 70 0.48
80 1 0.01
82 1 0.01
84 1 0.01
86 1 0.01
88 71 0.49
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (78 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
CCGGATACATTTC
Found at i:1825037 original size:40 final size:40
Alignment explanation
Indices: 1824993--1825069 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
1824983 ACCAACACAA
* *
1824993 TGCCTACGGGTCTTTAAGCCTGGATATAATTCCAGCATAT
1 TGCCTACGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
*
1825033 TGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCA
1 TGCCTACGGGTCTTTAAGCCCGGATACAATTCCAGCA
1825070 CGAAGTTTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
TGCCTACGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:1825158 original size:39 final size:39
Alignment explanation
Indices: 1825046--1825195 Score: 176
Period size: 39 Copynumber: 3.8 Consensus size: 39
1825036 CTGCGGGTCT
* ** *
1825046 TTAAGCCCGGATACAATTCCAGCACGAAGTTTGCAGACC
1 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACC
1825085 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACC
1 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACC
* *
1825124 TTAAGTCCGGATACAATTCTAGCACAAAGCCTGCGGGA-C
1 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGC-GGACC
* * * **
1825163 TTTAGCCCGGATATAACACCAGCACGAATGCCT
1 TTAAGTCCGGATACAATTCCAGCACGAA-GCCT
1825196 TTGGGACTTA
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
39 89 0.93
40 7 0.07
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (39 bp):
TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACC
Found at i:1825173 original size:78 final size:79
Alignment explanation
Indices: 1824988--1825214 Score: 194
Period size: 78 Copynumber: 2.9 Consensus size: 79
1824978 CAATCACCAA
* * * * * * * *
1824988 CACAATGCCTACGGGTCTTTAAGCCTGGATATAATTCCAGCA-TATTGCCTGCGGGTCTTTAAGC
1 CACAAAGCCTGCGGGACTTT-AGCCCGGATATAATTCCAGCACGA-AGCCTGCGGGACCTTAAGC
1825052 CCGGATACAATTCCAG
64 CCGGATACAATTCCAG
* ** * * * * *
1825068 CACGAAGTTTGC-AGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGC-GGACCTTAAGTC
1 CACAAAGCCTGCGGGA-CTTTAGCCCGGATATAATTCCAGCACGAAGCCTGCGGGACCTTAAGCC
*
1825131 CGGATACAATTCTAG
65 CGGATACAATTCCAG
** **
1825146 CACAAAGCCTGCGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGA-CTTAA-CC
1 CACAAAGCCTGCGGGACTTTAGCCCGGATATAATTCCAGCACGAA-GCCTGCGGGACCTTAAGCC
1825209 CGGATA
65 CGGATA
1825215 TAACACCATT
Statistics
Matches: 113, Mismatches: 29, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
78 63 0.56
79 36 0.32
80 14 0.12
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (79 bp):
CACAAAGCCTGCGGGACTTTAGCCCGGATATAATTCCAGCACGAAGCCTGCGGGACCTTAAGCCC
GGATACAATTCCAG
Found at i:1825328 original size:28 final size:28
Alignment explanation
Indices: 1825295--1825367 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
1825285 ATTTAATCAT
*
1825295 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGTCATTC
* *
1825323 TCAATATCTCGCACATTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGTCATTC
*
1825351 TCAATATTTCGTACACT
1 TCAATATTTCGCACACT
1825368 GAGTACCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGTCATTC
Found at i:1828399 original size:11 final size:11
Alignment explanation
Indices: 1828385--1828437 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
1828375 ATTATCATTT
1828385 TATTATTAAAA
1 TATTATTAAAA
*
1828396 TATTATAAAAA
1 TATTATTAAAA
* *
1828407 TATATAATTTAAT
1 TAT-T-ATTAAAA
*
1828420 TATTATTAATA
1 TATTATTAAAA
1828431 TATTATT
1 TATTATT
1828438 TAATTAAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
11 24 0.73
12 2 0.06
13 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATTATTAAAA
Found at i:1828452 original size:22 final size:21
Alignment explanation
Indices: 1828403--1828453 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
1828393 AAATATTATA
*
1828403 AAAATATATAATTTAATTATT
1 AAAATATATAATTTAATTAAT
* *
1828424 ATTAATATATTATTTAATTAAAT
1 A-AAATATATAATTTAATT-AAT
1828447 AAAATAT
1 AAAATAT
1828454 TCAAAATATC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAAATATATAATTTAATTAAT
Found at i:1829735 original size:75 final size:75
Alignment explanation
Indices: 1829619--1829775 Score: 314
Period size: 75 Copynumber: 2.1 Consensus size: 75
1829609 AAATAATTAC
1829619 AAAAATTTAAAAATAAATAAATATAATATGTCATAATCTTAATTCCACAGTTAAAAATTCAATAA
1 AAAAATTTAAAAATAAATAAATATAATATGTCATAATCTTAATTCCACAGTTAAAAATTCAATAA
1829684 ACGTAAATGA
66 ACGTAAATGA
1829694 AAAAATTTAAAAATAAATAAATATAATATGTCATAATCTTAATTCCACAGTTAAAAATTCAATAA
1 AAAAATTTAAAAATAAATAAATATAATATGTCATAATCTTAATTCCACAGTTAAAAATTCAATAA
1829759 ACGTAAATGA
66 ACGTAAATGA
1829769 AAAAATT
1 AAAAATT
1829776 AGGCTTGGGG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 82 1.00
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.31
Consensus pattern (75 bp):
AAAAATTTAAAAATAAATAAATATAATATGTCATAATCTTAATTCCACAGTTAAAAATTCAATAA
ACGTAAATGA
Found at i:1831723 original size:24 final size:24
Alignment explanation
Indices: 1831691--1831738 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1831681 GGCCTTGCAG
1831691 CCCAAATATCAATACCTACAAATC
1 CCCAAATATCAATACCTACAAATC
1831715 CCCAAATATCAATACCTACAAATC
1 CCCAAATATCAATACCTACAAATC
1831739 AAGTACCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (24 bp):
CCCAAATATCAATACCTACAAATC
Found at i:1832308 original size:24 final size:23
Alignment explanation
Indices: 1832268--1832322 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
1832258 ATTTTTAGAT
* *
1832268 TTTAATCATGAAAATA-TATATAA
1 TTTAATTATAAAAATATTAT-TAA
1832291 TTTAATTATAAAATATATTATTAA
1 TTTAATTATAAAA-ATATTATTAA
*
1832315 ATTAATTA
1 TTTAATTA
1832323 ATTATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.41
24 13 0.48
25 3 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TTTAATTATAAAAATATTATTAA
Found at i:1832326 original size:28 final size:26
Alignment explanation
Indices: 1832292--1832349 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
1832282 TATATATAAT
1832292 TTAATTATAAAATATATTATTAAATT-AA
1 TTAATTAT-AAATATA--ATTAAATTAAA
1832320 TTAATTATAAATATAATTAAATTAAA
1 TTAATTATAAATATAATTAAATTAAA
1832346 TTAA
1 TTAA
1832350 AGTCAAATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.28
26 6 0.21
27 7 0.24
28 8 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TTAATTATAAATATAATTAAATTAAA
Found at i:1832336 original size:16 final size:16
Alignment explanation
Indices: 1832285--1832339 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
1832275 ATGAAAATAT
1832285 ATATAATTTAATTATAA
1 ATATAA-TTAATTATAA
1832302 A-AT-A-T-ATTATTAA
1 ATATAATTAATTA-TAA
1832315 AT-TAATTAATTATAA
1 ATATAATTAATTATAA
1832330 ATATAATTAA
1 ATATAATTAA
1832340 ATTAAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 13
0.71 0.00 0.29
Matches are distributed among these distances:
12 4 0.12
13 6 0.19
14 1 0.03
15 7 0.22
16 13 0.41
17 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATAATTAATTATAA
Found at i:1832465 original size:16 final size:16
Alignment explanation
Indices: 1832446--1832495 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
1832436 AAATAGATAT
1832446 TTATTATTTATCATTA
1 TTATTATTTATCATTA
*
1832462 TTATTATTCTATCA-AA
1 TTATTATT-TATCATTA
*
1832478 TTATAATTTAT-ATTA
1 TTATTATTTATCATTA
1832493 TTA
1 TTA
1832496 AATTATGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 16 0.55
17 5 0.17
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTATTTATCATTA
Found at i:1832509 original size:19 final size:20
Alignment explanation
Indices: 1832475--1832516 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
1832465 TTATTCTATC
1832475 AAATTATAATTTATATTATT
1 AAATTATAATTTATATTATT
*
1832495 AAATTATGA-TTATATTATT
1 AAATTATAATTTATATTATT
1832514 AAA
1 AAA
1832517 AAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
AAATTATAATTTATATTATT
Found at i:1834045 original size:18 final size:18
Alignment explanation
Indices: 1833988--1834045 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
1833978 ATTATTGGAC
1833988 TGAATAACTGATTGTTAT
1 TGAATAACTGATTGTTAT
* * *
1834006 TG-AT---TGTTTGATAC
1 TGAATAACTGATTGTTAT
*
1834020 TAAATAACTGATTGTTAT
1 TGAATAACTGATTGTTAT
1834038 TGAATAAC
1 TGAATAAC
1834046 AATAAACAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
14 8 0.29
15 2 0.07
17 2 0.07
18 16 0.57
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (18 bp):
TGAATAACTGATTGTTAT
Found at i:1835332 original size:13 final size:13
Alignment explanation
Indices: 1835314--1835338 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1835304 TTTAAAAATA
1835314 TATTTTTATATTT
1 TATTTTTATATTT
1835327 TATTTTTATATT
1 TATTTTTATATT
1835339 AAGTCATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTTTATATTT
Found at i:1844165 original size:23 final size:25
Alignment explanation
Indices: 1844139--1844185 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
1844129 TATCATTCAT
*
1844139 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
1844162 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
1844186 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:1844516 original size:46 final size:46
Alignment explanation
Indices: 1844446--1844711 Score: 325
Period size: 46 Copynumber: 6.0 Consensus size: 46
1844436 TTTGACGTGA
* * * * * *
1844446 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
1844492 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
1844538 TGCCATAGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1844584 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1844630 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
1844668 TGCCAAGGTATCTTTCAACCATAGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1844712 AGAGCACACT
Statistics
Matches: 194, Mismatches: 17, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
38 31 0.16
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 149 0.77
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:1844678 original size:38 final size:38
Alignment explanation
Indices: 1844625--1844700 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
1844615 CATTTCATAT
* *
1844625 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCAAGGTATCTTTCAACCATAGTCTTACACA
1844663 CAGGTTGCCAAGGTATCTTTCAACCATAGTCTTACACA
1 CAGGTTGCCAAGGTATCTTTCAACCATAGTCTTACACA
1844701 TTTCATATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (38 bp):
CAGGTTGCCAAGGTATCTTTCAACCATAGTCTTACACA
Found at i:1848373 original size:44 final size:45
Alignment explanation
Indices: 1848320--1848423 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 45
1848310 TGTCTTTGAC
* * *
1848320 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
1848364 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
1848410 ATGGACTTACATGA
1 ATGGACTTACATGA
1848424 CTCATTTCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 33 0.65
46 18 0.35
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:1854175 original size:41 final size:40
Alignment explanation
Indices: 1854113--1854377 Score: 356
Period size: 41 Copynumber: 6.6 Consensus size: 40
1854103 TATTCGGATG
* *
1854113 ATATTCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
*
1854154 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
1854193 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 -ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
1854235 ATATCTGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
1854275 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* *
1854316 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* *
1854356 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
1854378 TACTTGGGTT
Statistics
Matches: 201, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
39 15 0.07
40 88 0.44
41 97 0.48
42 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:1854245 original size:81 final size:81
Alignment explanation
Indices: 1854109--1854344 Score: 436
Period size: 81 Copynumber: 2.9 Consensus size: 81
1854099 TGATTATTCG
* *
1854109 GATGATATTCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
1 GATGATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
1854174 AGGCATTTGCGCTAGT
66 AGGCATTTGCGCTAGT
*
1854190 GATGATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGA
1 GATGATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
1854255 AGGCATTTGCGCTAGT
66 AGGCATTTGCGCTAGT
*
1854271 GACGATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
1 GATGATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
1854336 AGGCATTTG
66 AGGCATTTG
1854345 TGCGATTTGC
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 150 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
GATGATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
AGGCATTTGCGCTAGT
Found at i:1862273 original size:40 final size:40
Alignment explanation
Indices: 1862188--1862492 Score: 425
Period size: 40 Copynumber: 7.6 Consensus size: 40
1862178 TATTCGGATG
*
1862188 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
*
1862229 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
1862269 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGTTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* *
1862310 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
1862350 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
1862391 ATATCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
1862431 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* *
1862471 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
1862493 TACTTGGGTT
Statistics
Matches: 238, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.05
40 127 0.53
41 98 0.41
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:1862322 original size:81 final size:81
Alignment explanation
Indices: 1862187--1862492 Score: 465
Period size: 81 Copynumber: 3.8 Consensus size: 81
1862177 TTATTCGGAT
*
1862187 GATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1862252 CATTTGTGCTAGTGAC
66 CATTTGTGCTAGTGAC
*
1862268 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGTTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
*
1862333 CATTTGCGCTAGTGAC
66 CATTTGTGCTAGTGAC
*
1862349 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTTCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
* *
1862414 CATTTGTGCGAGTTAC
66 CATTTGTGCTAGTGAC
* * * * * * *
1862430 TATATCCGGGCTAAGTCCTGAAGGCA-TTTGTGCGATTTG-CTATATCC-GGTTAAATCCCGAAG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTA-GTGACTATATCCGGGCTAAGTCCCGAAG
1862492 G
65 G
1862493 TACTTGGGTT
Statistics
Matches: 208, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
79 13 0.06
80 16 0.08
81 179 0.86
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
CATTTGTGCTAGTGAC
Found at i:1864617 original size:58 final size:58
Alignment explanation
Indices: 1864532--1864687 Score: 185
Period size: 58 Copynumber: 2.7 Consensus size: 58
1864522 ATATATTATG
**
1864532 ATTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAA-TTATACATT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAA-AA-AATATTAAATTTATACATT
* **
1864592 A-TTTTATTAAATTATATTTAATAATAATTATGTTAAAAAATATTAAATTTATTTATT
1 ATTTTTATTAAATTATATTTAATAATAATTATATTAAAAAATATTAAATTTATACATT
*
1864649 ATTTTTATTAAATTATATTCAATAATAATCT-TATTAAAA
1 ATTTTTATTAAATTATATTTAATAATAAT-TATATTAAAA
1864688 TTTAATAATA
Statistics
Matches: 85, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
56 7 0.08
57 10 0.12
58 52 0.61
59 11 0.13
60 5 0.06
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAAAATATTAAATTTATACATT
Found at i:1864850 original size:16 final size:16
Alignment explanation
Indices: 1864831--1864874 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
1864821 TTGATTATAA
*
1864831 CTCTATTCCATTACAT
1 CTCTATTCCATTACAG
* *
1864847 CTCTTTTCTATTACAG
1 CTCTATTCCATTACAG
1864863 CTCTATTCCATT
1 CTCTATTCCATT
1864875 CCATTGTACC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.30, G:0.02, T:0.48
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:1864905 original size:78 final size:78
Alignment explanation
Indices: 1864776--1864952 Score: 345
Period size: 78 Copynumber: 2.3 Consensus size: 78
1864766 TAAAAGAATA
1864776 CTATTACAGCTCTATTCCATTCCATTGTACCAAACAATTGAATTATTGATTATAACTCTATTCCA
1 CTATTACAGCTCTATTCCATTCCATTGTACCAAACAATTGAATTATTGATTATAACTCTATTCCA
1864841 TTACATCTCTTTT
66 TTACATCTCTTTT
1864854 CTATTACAGCTCTATTCCATTCCATTGTACCAAACAATTGAATTATTGATTATAACTCTATTCCA
1 CTATTACAGCTCTATTCCATTCCATTGTACCAAACAATTGAATTATTGATTATAACTCTATTCCA
*
1864919 TTGCATCTCTTTT
66 TTACATCTCTTTT
1864932 CTATTACAGCTCTATTCCATT
1 CTATTACAGCTCTATTCCATT
1864953 TACCCCAATC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 98 1.00
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.42
Consensus pattern (78 bp):
CTATTACAGCTCTATTCCATTCCATTGTACCAAACAATTGAATTATTGATTATAACTCTATTCCA
TTACATCTCTTTT
Found at i:1867407 original size:13 final size:13
Alignment explanation
Indices: 1867389--1867417 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1867379 CCTAAAACAC
1867389 AGACACATAAATG
1 AGACACATAAATG
1867402 AGACACATAAATG
1 AGACACATAAATG
1867415 AGA
1 AGA
1867418 AAGGAACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (13 bp):
AGACACATAAATG
Found at i:1868643 original size:6 final size:6
Alignment explanation
Indices: 1868608--1868643 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
1868598 AGTCCACGGA
* *
1868608 GGAAGA GGAAGA GGAAGG GGAAGG GGAAGG GGAAGG
1 GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG
1868644 AGCCGACGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
GGAAGG
Found at i:1873267 original size:27 final size:25
Alignment explanation
Indices: 1873205--1873273 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
1873195 GAGATAGAGT
* *
1873205 TGCTCACACGAGCTGTGAATATAAG
1 TGCTCACATGAGCTGTGAAAATAAG
* **
1873230 TGCTTACATGAGCTGTGAAAATTGG
1 TGCTCACATGAGCTGTGAAAATAAG
1873255 CCTGCTCACATGAGCTGTG
1 --TGCTCACATGAGCTGTG
1873274 GGTCGCGATG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
25 20 0.56
27 16 0.44
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (25 bp):
TGCTCACATGAGCTGTGAAAATAAG
Done.