Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007386.1 Hibiscus syriacus cultivar Beakdansim tig00019862_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 903698
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 2 of 3
Found at i:477562 original size:24 final size:24
Alignment explanation
Indices: 477535--477650 Score: 137
Period size: 24 Copynumber: 4.8 Consensus size: 24
477525 TTAGATTTGA
* *
477535 ATTCTGATATGATACTTCACATGG
1 ATTCTGATCTGATACTTGACATGG
* *
477559 ATTCTAATCTGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
477583 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
477607 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
*
477631 AGTT-TGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
477651 CTGATTTATG
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.01
24 76 0.95
25 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:479790 original size:18 final size:18
Alignment explanation
Indices: 479767--479810 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
479757 ACCGGTCATA
479767 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
**
479785 ACCCGACCCGACTTGTTG
1 ACCCGACCCGACCCGTTG
479803 A-CCGACCC
1 ACCCGACCC
479811 ATTGACCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.18, C:0.48, G:0.20, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:481732 original size:24 final size:24
Alignment explanation
Indices: 481705--481844 Score: 124
Period size: 24 Copynumber: 5.8 Consensus size: 24
481695 TTCGATTTGA
*
481705 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
* *
481729 ATTCTGATATGATA-TCTGATATAG
1 ATTCTGATATGATACT-TGACATGG
* * **
481753 ATTCTGATCTGATA-TCTGATATAA
1 ATTCTGATATGATACT-TGACATGG
* * * *
481777 ATTCTGATCTAATAATTGACTTGG
1 ATTCTGATATGATACTTGACATGG
*
481801 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGG
481825 AGTT-TGATATGATACTTGAC
1 A-TTCTGATATGATACTTGAC
481845 CTGATTTATG
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
23 1 0.01
24 95 0.96
25 3 0.03
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:481748 original size:12 final size:12
Alignment explanation
Indices: 481731--481774 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
481721 TGACATGGAT
481731 TCTGATATGATA
1 TCTGATATGATA
481743 TCTGATATAGAT-
1 TCTGATAT-GATA
*
481755 TCTGATCTGATA
1 TCTGATATGATA
481767 TCTGATAT
1 TCTGATAT
481775 AAATTCTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 3 0.11
12 22 0.79
13 3 0.11
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (12 bp):
TCTGATATGATA
Found at i:481782 original size:12 final size:11
Alignment explanation
Indices: 481705--481784 Score: 61
Period size: 12 Copynumber: 6.7 Consensus size: 11
481695 TTCGATTTGA
*
481705 ATTCTGATCTG
1 ATTCTGATATG
* *
481716 ATACTTGACATGG
1 ATTC-TGATAT-G
481729 ATTCTGATATG
1 ATTCTGATATG
481740 ATATCTGATATAG
1 AT-TCTGATAT-G
*
481753 ATTCTGATCTG
1 ATTCTGATATG
*
481764 ATATCTGATATAA
1 AT-TCTGATAT-G
481777 ATTCTGAT
1 ATTCTGAT
481785 CTAATAATTG
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
11 9 0.16
12 37 0.67
13 9 0.16
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (11 bp):
ATTCTGATATG
Found at i:495895 original size:21 final size:21
Alignment explanation
Indices: 495853--495896 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
495843 ACCCCGGGAG
*
495853 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
495874 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
495895 CT
1 CT
495897 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:496553 original size:31 final size:31
Alignment explanation
Indices: 496482--496561 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
496472 ATTTAACAAA
* * **
496482 AAGGGGGAGAAAATTTAAGATGTGCTATAGT
1 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
496513 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
1 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
496544 AAGGGGGAGTAAGTTTTT
1 AAGGGGGAGTAAGTTTTT
496562 CAAAATCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.31, C:0.03, G:0.35, T:0.31
Consensus pattern (31 bp):
AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
Found at i:499103 original size:26 final size:26
Alignment explanation
Indices: 499074--499130 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
499064 ATTTAGGTAA
* *
499074 GTAACACTTGACTGGTTATATCTCAT
1 GTAACACTTGACTAGTTACATCTCAT
499100 GTAACACTTGACTAGTTACATCTCAT
1 GTAACACTTGACTAGTTACATCTCAT
499126 GTAAC
1 GTAAC
499131 TCCTCATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (26 bp):
GTAACACTTGACTAGTTACATCTCAT
Found at i:499452 original size:26 final size:27
Alignment explanation
Indices: 499423--499481 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
499413 TATTCATTTT
499423 AATATT-AGGCCCTTTTTGATCTCATC
1 AATATTCAGGCCCTTTTTGATCTCATC
**
499449 AATATTCATTCCCTTTTTGATCTCATC
1 AATATTCAGGCCCTTTTTGATCTCATC
499476 AATATT
1 AATATT
499482 TATTCTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.46
Consensus pattern (27 bp):
AATATTCAGGCCCTTTTTGATCTCATC
Found at i:499493 original size:27 final size:27
Alignment explanation
Indices: 499432--499486 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
499422 TAATATTAGG
499432 CCCTTTTTGATCTCATCAATATTCATT
1 CCCTTTTTGATCTCATCAATATTCATT
*
499459 CCCTTTTTGATCTCATCAATATTTATT
1 CCCTTTTTGATCTCATCAATATTCATT
499486 C
1 C
499487 TTATTTTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.25, G:0.04, T:0.49
Consensus pattern (27 bp):
CCCTTTTTGATCTCATCAATATTCATT
Found at i:507590 original size:53 final size:53
Alignment explanation
Indices: 507519--507628 Score: 148
Period size: 53 Copynumber: 2.1 Consensus size: 53
507509 ATTGCACCGA
* * * *
507519 AGTGCCAAAATGGAAATTCACAAACTTATTATCAATTCCATGGATGCACACAT
1 AGTGACAAAATAGAAATTCACAAACTCATTATCAATACCATGGATGCACACAT
* * * *
507572 AGTGACAAAATAGTAATTCACAAACTCATTATGAATACCATGGGTGCACATAT
1 AGTGACAAAATAGAAATTCACAAACTCATTATCAATACCATGGATGCACACAT
507625 AGTG
1 AGTG
507629 CCGAAAGTAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (53 bp):
AGTGACAAAATAGAAATTCACAAACTCATTATCAATACCATGGATGCACACAT
Found at i:522257 original size:21 final size:21
Alignment explanation
Indices: 522214--522258 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
522204 TATCAAATTA
**
522214 CGATTTTCCAAATTCGCGTTG
1 CGATTTTCCAAATTCGCAATG
*
522235 CGATTTTCCTAATTCGCAATG
1 CGATTTTCCAAATTCGCAATG
522256 CGA
1 CGA
522259 ATACGTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (21 bp):
CGATTTTCCAAATTCGCAATG
Found at i:522320 original size:20 final size:20
Alignment explanation
Indices: 522248--522313 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
522238 TTTTCCTAAT
522248 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
522268 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
522288 TCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
522308 TCGCAA
1 TCGCAA
522314 CACGAATCTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:522560 original size:22 final size:21
Alignment explanation
Indices: 522515--522579 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
522505 TGCGACATCC
*
522515 GTCCCCATCTCGATGAAATCA
1 GTCCCCATCTCGACGAAATCA
*
522536 GTCCCCATCTCTGACGATATCA
1 GTCCCCATCTC-GACGAAATCA
*
522558 GTCTCCATCTCCGACGAAATCA
1 GTCCCCATCT-CGACGAAATCA
522580 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 11 0.29
22 26 0.68
23 1 0.03
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.25
Consensus pattern (21 bp):
GTCCCCATCTCGACGAAATCA
Found at i:522955 original size:20 final size:20
Alignment explanation
Indices: 522930--522967 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
522920 CAATTTTCAT
522930 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
522950 TTCGCGTTGCGATAGTCA
1 TTCGCGTTGCGATAGTCA
522968 TTTTTCGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:522979 original size:21 final size:20
Alignment explanation
Indices: 522929--522999 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
522919 GCAATTTTCA
*
522929 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
522949 ATTCGCGTTGCGATAGTCATT
1 TTTCGCGTTGCGATAGTCA-T
* * **
522970 TTTCGTGTTGCAATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
*
522990 TTTCGTGTTG
1 TTTCGCGTTG
523000 AGATTTTAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 29 0.67
21 14 0.33
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.45
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:523013 original size:20 final size:20
Alignment explanation
Indices: 522970--523013 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
522960 GATAGTCATT
* *
522970 TTTCGTGTTGCAATTTTCAT
1 TTTCGTGTTGCAATTTTAAG
522990 TTTCGTGTTG-AGATTTTAAG
1 TTTCGTGTTGCA-ATTTTAAG
523010 TTTC
1 TTTC
523014 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.16, C:0.11, G:0.18, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCAATTTTAAG
Found at i:526052 original size:17 final size:17
Alignment explanation
Indices: 526030--526063 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
526020 TCCATAAATC
*
526030 CAAAATCCAACAATCCA
1 CAAAATCAAACAATCCA
*
526047 CAAAATCAAACATTCCA
1 CAAAATCAAACAATCCA
526064 AAATATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (17 bp):
CAAAATCAAACAATCCA
Found at i:528050 original size:21 final size:21
Alignment explanation
Indices: 528024--528063 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
528014 CAGAACCCTA
*
528024 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
528045 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
528064 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:528098 original size:20 final size:21
Alignment explanation
Indices: 528044--528106 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
528034 GATTCCCCTG
528044 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
528068 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
528088 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
528107 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:531958 original size:22 final size:21
Alignment explanation
Indices: 531916--531955 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
531906 GAGTTTGTTT
*
531916 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
531937 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
531956 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:534425 original size:20 final size:20
Alignment explanation
Indices: 534400--534451 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
534390 ATAATAGTTT
*
534400 ACTATCGCAATGCAAAAATG
1 ACTATCGCAACGCAAAAATG
*
534420 ACTATCGCAACGCGAAAATG
1 ACTATCGCAACGCAAAAATG
534440 ACTATCGCAACG
1 ACTATCGCAACG
534452 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.17
Consensus pattern (20 bp):
ACTATCGCAACGCAAAAATG
Found at i:534512 original size:47 final size:47
Alignment explanation
Indices: 534443--534545 Score: 206
Period size: 47 Copynumber: 2.2 Consensus size: 47
534433 GAAAATGACT
534443 ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTGCAACAACAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTGCAACAACAAA
534490 ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTGCAACAACAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTGCAACAACAAA
534537 ATCGCAACG
1 ATCGCAACG
534546 CGAAAATGAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (47 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTGCAACAACAAA
Found at i:534600 original size:20 final size:20
Alignment explanation
Indices: 534537--534603 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
534527 CAACAACAAA
*
534537 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
534557 ATCACAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
534577 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
534597 ATCGCAA
1 ATCGCAA
534604 CGAAAGAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:534685 original size:19 final size:20
Alignment explanation
Indices: 534650--534735 Score: 111
Period size: 20 Copynumber: 4.3 Consensus size: 20
534640 GATTCTCTCG
534650 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
534670 TTGCGATAGT-AAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
534689 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
** *
534709 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
534729 TTGCGAT
1 TTGCGAT
534736 TTTAAGTTTC
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 19 0.31
20 43 0.69
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:534745 original size:20 final size:20
Alignment explanation
Indices: 534648--534745 Score: 83
Period size: 20 Copynumber: 5.0 Consensus size: 20
534638 GCGATTCTCT
*
534648 CGTTGCGATAGTCAA-ATTCG
1 CGTTGCGATAGT-AAGTTTCG
* *
534668 CATTGCGATAGTAA-ATTCG
1 CGTTGCGATAGTAAGTTTCG
* * *
534687 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
534707 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
534727 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
534746 AGATTCTATT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 20 0.29
20 49 0.71
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:536725 original size:14 final size:14
Alignment explanation
Indices: 536706--536741 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
536696 ATTGTTTAAT
536706 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
536720 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
536734 TGATTTGT
1 TGATTTGT
536742 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:536911 original size:33 final size:34
Alignment explanation
Indices: 536866--536941 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
536856 CGGAATGACT
*
536866 ATCGCAATGAGAGAATCGCAATGCG-AAATAAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATAAAA
*
536899 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATAAAA
536933 ATCGCAACG
1 ATCGCAACG
536942 CGAAACTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 24 0.60
34 16 0.40
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCGCAATGCGAAAATAAAA
Found at i:536977 original size:20 final size:19
Alignment explanation
Indices: 536952--537018 Score: 81
Period size: 20 Copynumber: 3.7 Consensus size: 19
536942 CGAAACTAAA
536952 TTCGCATTGCGATTTTCATT
1 TTCGCATTGCGATTTTCA-T
536972 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
536988 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
537005 TTCGCATTGCGATT
1 TTCGCATTGCGATT
537019 CTCTCATTGC
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
14 6 0.15
16 7 0.17
17 4 0.10
18 3 0.08
19 8 0.20
20 12 0.30
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:537013 original size:33 final size:34
Alignment explanation
Indices: 536956--537031 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 34
536946 ACTAAATTCG
536956 CATTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CATTGCGATTTTCATTTTCGCATTGCGATTCTCT
*
536990 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CATTGCGATTTTCATTTTCGCATTGCGATTCTCT
537023 CATTGCGAT
1 CATTGCGAT
537032 AGTTATTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 27 0.68
34 13 0.32
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (34 bp):
CATTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:537040 original size:33 final size:33
Alignment explanation
Indices: 536956--537040 Score: 118
Period size: 33 Copynumber: 2.5 Consensus size: 33
536946 ACTAAATTCG
*
536956 CATTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CATTGCGATGTTCA-TTTCGCATTGCGATTCTCT
* *
536990 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CATTGCGATGTTCATTTCGCATTGCGATTCTCT
537023 CATTGCGATAGTT-ATTTC
1 CATTGCGAT-GTTCATTTC
537041 CGCGTTACGA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 32 0.68
34 15 0.32
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.46
Consensus pattern (33 bp):
CATTGCGATGTTCATTTCGCATTGCGATTCTCT
Found at i:537053 original size:20 final size:20
Alignment explanation
Indices: 537025--537111 Score: 113
Period size: 20 Copynumber: 4.3 Consensus size: 20
537015 GATTCTCTCA
*
537025 TTGCGATAGTTATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
* * *
537045 TTACGATAGTCAATTCCGCA
1 TTGCGATAGTCATTTCCGCG
*
537065 TTGCGATAGTCATTTCCGTG
1 TTGCGATAGTCATTTCCGCG
537085 TTGCGATAGTCATATT-CGCG
1 TTGCGATAGTCAT-TTCCGCG
537105 TTGCGAT
1 TTGCGAT
537112 TTCCGCGTTG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 55 0.96
21 2 0.04
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:537080 original size:40 final size:40
Alignment explanation
Indices: 537023--537111 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
537013 GCGATTCTCT
*
537023 CATTGCGATAGTTATTTCCGCGTTACGATAGTCA-ATTCCG
1 CATTGCGATAGTCATTTCCGCGTTACGATAGTCATATT-CG
* *
537063 CATTGCGATAGTCATTTCCGTGTTGCGATAGTCATATTCG
1 CATTGCGATAGTCATTTCCGCGTTACGATAGTCATATTCG
*
537103 CGTTGCGAT
1 CATTGCGAT
537112 TTCCGCGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 41 0.93
41 3 0.07
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (40 bp):
CATTGCGATAGTCATTTCCGCGTTACGATAGTCATATTCG
Found at i:539899 original size:20 final size:20
Alignment explanation
Indices: 539874--539956 Score: 130
Period size: 20 Copynumber: 4.2 Consensus size: 20
539864 TATGTATTGT
*
539874 GATAGTCAGAATCACGTTGC
1 GATAGTCAGAATCTCGTTGC
539894 GATAGTCAGAATCTCGTTGC
1 GATAGTCAGAATCTCGTTGC
*
539914 GATAGTCATAATCTCGTTGC
1 GATAGTCAGAATCTCGTTGC
* *
539934 GATAGTCAGATTCGCGTTGC
1 GATAGTCAGAATCTCGTTGC
539954 GAT
1 GAT
539957 TTACATATTC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (20 bp):
GATAGTCAGAATCTCGTTGC
Found at i:539966 original size:20 final size:20
Alignment explanation
Indices: 539943--540095 Score: 270
Period size: 20 Copynumber: 7.7 Consensus size: 20
539933 CGATAGTCAG
* *
539943 ATTCGCGTTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
539963 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
539983 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
540003 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
540023 ATTCACATTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
540043 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
540063 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
540083 ATTCGCATTGCGA
1 ATTCGCATTGCGA
540096 ATATGGAAAA
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 127 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:540117 original size:21 final size:21
Alignment explanation
Indices: 540093--540132 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
540083 ATTCGCATTG
540093 CGAATATGGAAAATCGCAACT
1 CGAATATGGAAAATCGCAACT
*
540114 CGAATTTGGAAAATCGCAA
1 CGAATATGGAAAATCGCAA
540133 TGCGATAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (21 bp):
CGAATATGGAAAATCGCAACT
Found at i:544157 original size:59 final size:59
Alignment explanation
Indices: 544063--544184 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 59
544053 CAATCCCTAG
* * * **
544063 TATGACACATAAGGTTGTGTCCACCATCTGTACTAGGTATCCTTAAGTATAGTCCCGAA
1 TATGACACATAAGATTGTGCCCACCATATACACTAGGTATCCTTAAGTATAGTCCCGAA
* * * * *
544122 TATGATACATAAGATTGTGCCCACCATATACACTAGGTATCCTTTAGTGTATTCCTGAA
1 TATGACACATAAGATTGTGCCCACCATATACACTAGGTATCCTTAAGTATAGTCCCGAA
544181 TATG
1 TATG
544185 CAGTCTGCTG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (59 bp):
TATGACACATAAGATTGTGCCCACCATATACACTAGGTATCCTTAAGTATAGTCCCGAA
Found at i:551862 original size:20 final size:19
Alignment explanation
Indices: 551830--551906 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 19
551820 ATATGCCTTA
551830 GGGTATC-AGTACCATCTGAG
1 GGGTATCGA-TACCAT-TGAG
551850 GGGTATCGATACCATTGCATGG
1 GGGTATCGATACCATTG-A--G
*
551872 GGGTATCGATACC-TATGGG
1 GGGTATCGATACCAT-TGAG
*
551891 GGGTATCGGTACCATT
1 GGGTATCGATACCATT
551907 CGAGCATTCT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
19 16 0.33
20 15 0.31
21 2 0.04
22 16 0.33
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.27
Consensus pattern (19 bp):
GGGTATCGATACCATTGAG
Found at i:554670 original size:23 final size:23
Alignment explanation
Indices: 554638--554681 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
554628 CCATCAAGAG
*
554638 GGTATCGATACCAATTCAAGGAT
1 GGTATAGATACCAATTCAAGGAT
* *
554661 GGTATAGATACCTATTGAAGG
1 GGTATAGATACCAATTCAAGG
554682 GGTATCGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (23 bp):
GGTATAGATACCAATTCAAGGAT
Found at i:554694 original size:21 final size:21
Alignment explanation
Indices: 554637--554740 Score: 84
Period size: 21 Copynumber: 4.8 Consensus size: 21
554627 ACCATCAAGA
* *
554637 GGGTATCGATACCAATTCAAG
1 GGGTATCGATACCTATTAAAG
* *
554658 GATGGTATAGATACCTATTGAAG
1 G--GGTATCGATACCTATTAAAG
*
554681 GGGTATCGAGACCTATTCAAAG
1 GGGTATCGATACCTATT-AAAG
* *
554703 GGGTATCAATACCAATCT-AAG
1 GGGTATCGATACCTAT-TAAAG
*
554724 GGGTATTGATACTCTAT
1 GGGTATCGATAC-CTAT
554741 GCAAAAAAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
21 28 0.42
22 19 0.29
23 19 0.29
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (21 bp):
GGGTATCGATACCTATTAAAG
Found at i:554725 original size:43 final size:41
Alignment explanation
Indices: 554617--554729 Score: 115
Period size: 43 Copynumber: 2.6 Consensus size: 41
554607 ACCCCGTGTA
*
554617 GGGTATCAATACCATC-AAGAGGGTATCGATACCAATTCAAG
1 GGGTATCAATACCATCTAAG-GGGTATCGAGACCAATTCAAG
*
554658 GATGGTAT-AGATACCTAT-TGAAGGGGTATCGAGACCTATTCAAAG
1 G--GGTATCA-ATACC-ATCT-AAGGGGTATCGAGACCAATTC-AAG
554703 GGGTATCAATACCAATCTAAGGGGTAT
1 GGGTATCAATACC-ATCTAAGGGGTAT
554730 TGATACTCTA
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
41 1 0.02
42 1 0.02
43 31 0.52
44 20 0.33
45 7 0.12
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (41 bp):
GGGTATCAATACCATCTAAGGGGTATCGAGACCAATTCAAG
Found at i:557251 original size:20 final size:20
Alignment explanation
Indices: 557226--557268 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
557216 CCATTATTCC
* *
557226 ATAACCATATACCATAGAAA
1 ATAACCATAAACAATAGAAA
*
557246 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGAAA
557266 ATA
1 ATA
557269 GCCCAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.19, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGAAA
Found at i:568815 original size:13 final size:13
Alignment explanation
Indices: 568799--568828 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
568789 TCCATAATCA
568799 CCATAAAACCAAG
1 CCATAAAACCAAG
568812 CCATAAAACCAAG
1 CCATAAAACCAAG
568825 CCAT
1 CCAT
568829 CTGATCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.33, G:0.07, T:0.10
Consensus pattern (13 bp):
CCATAAAACCAAG
Found at i:573397 original size:20 final size:19
Alignment explanation
Indices: 573363--573439 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 19
573353 ATATACCTTA
* *
573363 GGGTATCGGTGCCATCTGAG
1 GGGTATCGATACCAT-TGAG
573383 GGGTATCGATACCATTGCATGG
1 GGGTATCGATACCATTG-A--G
* *
573405 GGGTATTGATACC-TATGGG
1 GGGTATCGATACCAT-TGAG
573424 GGGTATCGATACCATT
1 GGGTATCGATACCATT
573440 CGAACATTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 16 0.34
20 15 0.32
21 1 0.02
22 15 0.32
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.29
Consensus pattern (19 bp):
GGGTATCGATACCATTGAG
Found at i:573410 original size:22 final size:21
Alignment explanation
Indices: 573382--573439 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 21
573372 TGCCATCTGA
573382 GGGGTATCGATACCATTGCAT-G
1 GGGGTATCGATACCATT--ATGG
*
573404 GGGGTATTGATACC--TATGG
1 GGGGTATCGATACCATTATGG
573423 GGGGTATCGATACCATT
1 GGGGTATCGATACCATT
573440 CGAACATTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 2 0.06
19 14 0.45
20 1 0.03
21 1 0.03
22 13 0.42
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (21 bp):
GGGGTATCGATACCATTATGG
Found at i:574151 original size:59 final size:59
Alignment explanation
Indices: 574033--574154 Score: 163
Period size: 59 Copynumber: 2.1 Consensus size: 59
574023 CAATCACGAG
* * ** *
574033 TATGACACATAAGGTTGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAGTCTCAAA
1 TATGACACATAAGGTTGTGCCCACCATATACACTAGGTATCCTTAAGTACAGTCCCAAA
* ** *
574092 TATGACACATAAGGTTGTGCCCACCATATACACTAGGTATCCTTTAGTGTATTCCCAAA
1 TATGACACATAAGGTTGTGCCCACCATATACACTAGGTATCCTTAAGTACAGTCCCAAA
574151 TATG
1 TATG
574155 CAACCTGCTG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (59 bp):
TATGACACATAAGGTTGTGCCCACCATATACACTAGGTATCCTTAAGTACAGTCCCAAA
Found at i:580648 original size:22 final size:21
Alignment explanation
Indices: 580611--580659 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
580601 TACATTGGAC
*
580611 TATGAAAGTAAAGATGAAAGT
1 TATGAAAATAAAGATGAAAGT
580632 TATGAAAATGAAAGATGAAAGT
1 TATGAAAAT-AAAGATGAAAGT
*
580654 TTTGAA
1 TATGAA
580660 CTTTTTCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (21 bp):
TATGAAAATAAAGATGAAAGT
Found at i:585099 original size:19 final size:20
Alignment explanation
Indices: 585075--585124 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
585065 ACAAATATTT
**
585075 TATGAATAGTATTG-TACTG
1 TATGAATAGTACCGATACTG
*
585094 TATGAATAGCACCGATACTG
1 TATGAATAGTACCGATACTG
585114 TATGAATAGTA
1 TATGAATAGTA
585125 ACTATATTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGAATAGTACCGATACTG
Found at i:585215 original size:20 final size:20
Alignment explanation
Indices: 585190--585230 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
585180 AAATGAGTGC
585190 CGATACTACTACAGTAGTAT
1 CGATACTACTACAGTAGTAT
**
585210 CGATACTGTTACAGTAGTAT
1 CGATACTACTACAGTAGTAT
585230 C
1 C
585231 AAGCCCAACA
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:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (20 bp):
CGATACTACTACAGTAGTAT
Found at i:588810 original size:21 final size:21
Alignment explanation
Indices: 588786--588831 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
588776 GAATAAGTGG
*
588786 AAGTAGATGAATTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
588807 AAGTAGATGAAGTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
588828 AAGT
1 AAGT
588832 GTCTTTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (21 bp):
AAGTAGATGAAGTACCTTGGT
Found at i:600576 original size:23 final size:22
Alignment explanation
Indices: 600537--600581 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
600527 TTACCAAAAG
*
600537 GCAGAGAAAACGCATCACAAAT
1 GCAGAGAAAACACATCACAAAT
* *
600559 GCAGAGATAAACATATCATAAAT
1 GCAGAGA-AAACACATCACAAAT
600582 ACAAAGAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.51, C:0.18, G:0.16, T:0.16
Consensus pattern (22 bp):
GCAGAGAAAACACATCACAAAT
Found at i:607665 original size:12 final size:12
Alignment explanation
Indices: 607644--607678 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
607634 ACCACATTTC
*
607644 CAATACCAAACA
1 CAATATCAAACA
607656 CAATATCAAACA
1 CAATATCAAACA
*
607668 CAATCTCAAAC
1 CAATATCAAAC
607679 TCACAACCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.14
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:607827 original size:24 final size:23
Alignment explanation
Indices: 607799--607852 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
607789 AGTATTCGAA
*
607799 ATTTGATCTTGGTCAATACTCGG
1 ATTTGATATTGGTCAATACTCGG
*
607822 ACTTTGATATTGGTCAATACTTGG
1 A-TTTGATATTGGTCAATACTCGG
607846 ATTTGAT
1 ATTTGAT
607853 GATGTTTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (23 bp):
ATTTGATATTGGTCAATACTCGG
Found at i:609277 original size:13 final size:13
Alignment explanation
Indices: 609259--609302 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
609249 TGCGTCATAA
*
609259 ATTTATGACGCGC
1 ATTTATGACGCAC
*
609272 ATTTATGACACAC
1 ATTTATGACGCAC
609285 ATTTATGACGCAC
1 ATTTATGACGCAC
609298 ATTTA
1 ATTTA
609303 CATTCATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (13 bp):
ATTTATGACGCAC
Found at i:614146 original size:18 final size:18
Alignment explanation
Indices: 614123--614181 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 18
614113 CGAGGGTTAT
614123 ATAGTGGTCCTTCGGGAC
1 ATAGTGGTCCTTCGGGAC
*
614141 ATAGTGGTCCTTTGGGAC
1 ATAGTGGTCCTTCGGGAC
614159 ATATACAGTGGTCCTTCGGGAC
1 --AT--AGTGGTCCTTCGGGAC
614181 A
1 A
614182 AATATTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 17 0.49
20 3 0.09
22 15 0.43
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (18 bp):
ATAGTGGTCCTTCGGGAC
Found at i:614171 original size:22 final size:21
Alignment explanation
Indices: 614120--614181 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
614110 AGTCGAGGGT
614120 TATATAGTGGTCCTTCGGGAC-
1 TATA-AGTGGTCCTTCGGGACA
*
614141 -AT-AGTGGTCCTTTGGGACA
1 TATAAGTGGTCCTTCGGGACA
614160 TATACAGTGGTCCTTCGGGACA
1 TATA-AGTGGTCCTTCGGGACA
614182 AATATTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 15 0.43
20 4 0.11
22 16 0.46
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (21 bp):
TATAAGTGGTCCTTCGGGACA
Found at i:614775 original size:22 final size:22
Alignment explanation
Indices: 614750--614795 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
614740 TGTAGCAGTA
*
614750 CTGTAGTAGGGGAATCGGTTCC
1 CTGTAGCAGGGGAATCGGTTCC
614772 CTGTAGCAGGGGAATCGGTTCC
1 CTGTAGCAGGGGAATCGGTTCC
614794 CT
1 CT
614796 ATTTGTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.22, G:0.35, T:0.26
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCGGTTCC
Found at i:617636 original size:27 final size:26
Alignment explanation
Indices: 617606--617661 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 26
617596 GTTTGGAAAT
617606 GAAGTTTGGATGTTATATAAGCTAAAG
1 GAAGTTTGGATGTTATATAAGCT-AAG
617633 GAAGTTTGGATGTTATATAAGCTAAG
1 GAAGTTTGGATGTTATATAAGCTAAG
617659 GAA
1 GAA
617662 AGCTTATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.32
Consensus pattern (26 bp):
GAAGTTTGGATGTTATATAAGCTAAG
Found at i:618651 original size:22 final size:22
Alignment explanation
Indices: 618623--618684 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
618613 AGTCGAGGGT
618623 TATACAGTGGTCCTTCGGGACA
1 TATACAGTGGTCCTTCGGGACA
618645 TATACAGTGGTCCTTCGGGAC-
1 TATACAGTGGTCCTTCGGGACA
618666 -AT--AGTGGTCCTTCGGGACA
1 TATACAGTGGTCCTTCGGGACA
618685 AATATTCAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.41
20 2 0.05
22 21 0.54
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (22 bp):
TATACAGTGGTCCTTCGGGACA
Found at i:618673 original size:18 final size:19
Alignment explanation
Indices: 618628--618684 Score: 80
Period size: 18 Copynumber: 2.9 Consensus size: 19
618618 AGGGTTATAC
618628 AGTGGTCCTTCGGGACATATA
1 AGTGGTCCTTCGGGAC--ATA
618649 CAGTGGTCCTTCGGGACAT-
1 -AGTGGTCCTTCGGGACATA
618668 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
618685 AATATTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.49
20 2 0.06
22 16 0.46
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (19 bp):
AGTGGTCCTTCGGGACATA
Found at i:621893 original size:20 final size:20
Alignment explanation
Indices: 621868--621922 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
621858 TACTATTGTT
621868 GCGAAAGTCAAATTCAAAAC
1 GCGAAAGTCAAATTCAAAAC
* **
621888 GCGAAAGTAAAATTCGTAAC
1 GCGAAAGTCAAATTCAAAAC
* *
621908 GCAAAAATCAAATTC
1 GCGAAAGTCAAATTC
621923 GCAACGTGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.18
Consensus pattern (20 bp):
GCGAAAGTCAAATTCAAAAC
Found at i:622276 original size:31 final size:31
Alignment explanation
Indices: 622238--622301 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
622228 GTACTTAACC
622238 AAACATTTTCAAACCAACAAGTATATATGTT
1 AAACATTTTCAAACCAACAAGTATATATGTT
622269 AAACATTTTCAAACCAACAAGTATATATGTT
1 AAACATTTTCAAACCAACAAGTATATATGTT
622300 AA
1 AA
622302 CAACACTTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (31 bp):
AAACATTTTCAAACCAACAAGTATATATGTT
Found at i:623797 original size:20 final size:20
Alignment explanation
Indices: 623774--623848 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
623764 TTTGAAACTT
*
623774 AAATTCGCAACACGAAAATG
1 AAATTCGCAACGCGAAAATG
* *
623794 AAATTCGCAACGCAAAAATA
1 AAATTCGCAACGCGAAAATG
*
623814 AAATTCACAACGCGAAAATG
1 AAATTCGCAACGCGAAAATG
*
623834 AAAATCGCAACGCGA
1 AAATTCGCAACGCGA
623849 TTTTATTTCG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.51, C:0.21, G:0.15, T:0.13
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAATG
Found at i:624418 original size:20 final size:20
Alignment explanation
Indices: 624393--624438 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
624383 ACGCGCTTTT
* *
624393 CGAATTTGACTTTTGTGTTG
1 CGAATTTGACTTCTGTGTTA
624413 CGAATTTGACTTCTGTGTTA
1 CGAATTTGACTTCTGTGTTA
624433 CGAATT
1 CGAATT
624439 ACAAATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.13, G:0.22, T:0.46
Consensus pattern (20 bp):
CGAATTTGACTTCTGTGTTA
Found at i:625741 original size:10 final size:10
Alignment explanation
Indices: 625726--625756 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
625716 AGGATGCTTT
625726 TTTAATTTGA
1 TTTAATTTGA
*
625736 TTTAATTTAA
1 TTTAATTTGA
625746 TTTAATTTGA
1 TTTAATTTGA
625756 T
1 T
625757 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (10 bp):
TTTAATTTGA
Found at i:626168 original size:2 final size:2
Alignment explanation
Indices: 626163--626192 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
626153 AAAATTTTGA
626163 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
626193 TTGTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:642222 original size:20 final size:21
Alignment explanation
Indices: 642198--642267 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
642188 ATATCTAGAG
642198 TTAATTAAATATATGATTTAA
1 TTAATTAAATATATGATTTAA
* * *
642219 -TAATCCTGAATATTTAATTTTAA
1 TTAAT--TAAATATATGA-TTTAA
*
642242 TTGATTAAATATA-GATTTAA
1 TTAATTAAATATATGATTTAA
642262 TTAATT
1 TTAATT
642268 TGAAATAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 9
0.69 0.15 0.17
Matches are distributed among these distances:
20 14 0.38
21 1 0.03
22 14 0.38
23 5 0.14
24 3 0.08
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (21 bp):
TTAATTAAATATATGATTTAA
Found at i:642352 original size:90 final size:89
Alignment explanation
Indices: 642240--642402 Score: 272
Period size: 89 Copynumber: 1.8 Consensus size: 89
642230 ATTTAATTTT
* *
642240 AATTGATTAAATATAGATTTAATTAATTTGAAATAATTAAATCCCTAATATGATTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAA-TAAAACCCTAATATGATTAGGGTAACTT
642305 GGATATAAATTGATTATTAAATTCC
65 GGATATAAATTGATTATTAAATTCC
* *
642330 AATTAATTAAATATATATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGGGTACCTTG
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGGGTAACTTG
*
642395 GCTATAAA
66 GATATAAA
642403 AGGGTGTGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 34 0.50
90 34 0.50
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (89 bp):
AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGGGTAACTTG
GATATAAATTGATTATTAAATTCC
Found at i:642729 original size:24 final size:24
Alignment explanation
Indices: 642697--642743 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
642687 CCGACGTCCT
642697 AATAGATACTCATTAATCAGTACC
1 AATAGATACTCATTAATCAGTACC
642721 AATAGATACTCATTAATCAGTAC
1 AATAGATACTCATTAATCAGTAC
642744 TGATACTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (24 bp):
AATAGATACTCATTAATCAGTACC
Found at i:643092 original size:24 final size:24
Alignment explanation
Indices: 643053--643098 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
643043 GAACAAAGGT
643053 GTGCAAAGAAACTTGTCGTGGCGA
1 GTGCAAAGAAACTTGTCGTGGCGA
* *
643077 GTGCAAAGGAATTTGTCGTGGC
1 GTGCAAAGAAACTTGTCGTGGC
643099 ATTTCTGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (24 bp):
GTGCAAAGAAACTTGTCGTGGCGA
Found at i:645776 original size:32 final size:32
Alignment explanation
Indices: 645739--645818 Score: 142
Period size: 32 Copynumber: 2.5 Consensus size: 32
645729 TTACTTATTA
645739 TTTGAGAGAAACTAAGTTAAAGATCCTTAGTG
1 TTTGAGAGAAACTAAGTTAAAGATCCTTAGTG
* *
645771 TTTGAGAGAAACAAAGTTAAAGATCCTTATTG
1 TTTGAGAGAAACTAAGTTAAAGATCCTTAGTG
645803 TTTGAGAGAAACTAAG
1 TTTGAGAGAAACTAAG
645819 GGAAGATCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (32 bp):
TTTGAGAGAAACTAAGTTAAAGATCCTTAGTG
Found at i:653630 original size:27 final size:24
Alignment explanation
Indices: 653582--653629 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
653572 CTATGTAACA
653582 TATATTTTTTAATATCATATATAC
1 TATATTTTTTAATATCATATATAC
*
653606 TATATTGTTTTAATATTATATATA
1 TATATT-TTTTAATATCATATATA
653630 TTGTCTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (24 bp):
TATATTTTTTAATATCATATATAC
Found at i:653641 original size:25 final size:25
Alignment explanation
Indices: 653582--653643 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
653572 CTATGTAACA
653582 TATATT-TTTTAATATCATATATAC
1 TATATTATTTTAATATCATATATAC
* * *
653606 TATATTGTTTTAATATTATATATAT
1 TATATTATTTTAATATCATATATAC
* *
653631 TGTCTTATTTTAA
1 TATATTATTTTAA
653644 AAAAAATACT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (25 bp):
TATATTATTTTAATATCATATATAC
Found at i:662682 original size:47 final size:46
Alignment explanation
Indices: 662587--662711 Score: 159
Period size: 47 Copynumber: 2.8 Consensus size: 46
662577 GTAAGTATGC
* * *
662587 AAATAAGCTTACGAGCTTAT-TAA-T-AATGGCAAATATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGATA
* *
662630 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA-TTAAATGGTAAGTATATTGATA
*
662677 AAATAAGCTTACGAGCTTATGGTA-TAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAG
662712 AGATTTTATA
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
43 20 0.28
44 2 0.03
45 11 0.15
46 1 0.01
47 38 0.53
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGATA
Found at i:668987 original size:16 final size:16
Alignment explanation
Indices: 668966--669014 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
668956 TTTTAATGGG
*
668966 TTTTTTGTTGATTTAT
1 TTTTTTGTTGATTGAT
668982 TTTTTTGTTGATTGAT
1 TTTTTTGTTGATTGAT
*
668998 TTTGTTGTTGATGTGAT
1 TTTTTTGTTGAT-TGAT
669015 ATGATGATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.67
Consensus pattern (16 bp):
TTTTTTGTTGATTGAT
Found at i:669299 original size:12 final size:12
Alignment explanation
Indices: 669282--669345 Score: 74
Period size: 12 Copynumber: 5.2 Consensus size: 12
669272 TGGGTCGGTA
*
669282 AAAAATGATAAT
1 AAAAATAATAAT
669294 AAAAATTAATAAT
1 AAAAA-TAATAAT
*
669307 AATAATAATAAT
1 AAAAATAATAAT
*
669319 ATAAATAATAAT
1 AAAAATAATAAT
*
669331 AATAATAATTAAT
1 AAAAATAA-TAAT
669344 AA
1 AA
669346 TAACCCGGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
12 28 0.64
13 16 0.36
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:669306 original size:3 final size:3
Alignment explanation
Indices: 669289--669348 Score: 77
Period size: 3 Copynumber: 19.3 Consensus size: 3
669279 GTAAAAAATG
*
669289 ATA ATA AAA ATTA ATA ATA ATA ATA ATA AT- ATAA ATA ATA ATA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
669335 ATA ATTA ATA ATA A
1 ATA A-TA ATA ATA A
669349 CCCGGACAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 2 0.04
3 42 0.82
4 7 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:670717 original size:42 final size:42
Alignment explanation
Indices: 670670--670749 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
670660 CAGATGACTT
*
670670 ATCATCTTGCTCGAAAGACTGACAGATGACCAGAAGGATTTA
1 ATCATCATGCTCGAAAGACTGACAGATGACCAGAAGGATTTA
* * * *
670712 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
1 ATCATCATGCTCGAAAGACTGACAGATGACCAGAAGGA
670750 CTTACTAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (42 bp):
ATCATCATGCTCGAAAGACTGACAGATGACCAGAAGGATTTA
Found at i:670762 original size:259 final size:257
Alignment explanation
Indices: 669962--670826 Score: 1200
Period size: 256 Copynumber: 3.3 Consensus size: 257
669952 TCATCATGCT
* *
669962 CGAAAGACTTACTAATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCTCTTTCTTACT
1 CGAATGACTTACCAATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCTCTTTCTTACT
* *
670027 TTTCAAAAATTTCATTTTCTGAAAACATTAAATGAGAAACTTTAGAAACCGCTTTCACATTTAAT
66 TTTCAAAAATTTCATTTTCTGAAAACATTAAATGAGAAACTTTAGAAATCGCTTT--C---T-CT
* * * *
670092 TTTATTTTTGAAAATCATGTGGAAACATCTTGCCCGAAGGCCTTATAGATGGCCCAAAGGACTTA
125 TTT-TTTTT--AAATCATGTGGAAACATCTTACCCGAAGGTCTTATAGATGGCCCAGATGACTTA
* * * * * *
670157 ACATCTTTCTTTAAAGATTGACAGATTACCTGAAGGATTTAATCATCATGCTCGAAAGACATACT
187 TCATCTTGCTTGAAAGACTGACAGATGACC-GAAGGATTTAATCATCATGCTCGAAAGACTTACT
670222 GATGGCC
251 GATGGCC
* * * *
670229 CGAATGACTTACCAATTTTAGAAATAATTTACT-GGTAAGAAAATTTCGAAATCGCTTTCTTACT
1 CGAATGACTTACCAATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCTCTTTCTTACT
** ***
670293 TTTCAAAAATTTCATTTTCTGAAAACATTAAATGAGAAACTTTAGAAAT-TATTT-TCCCATTTT
66 TTTCAAAAATTTCATTTTCTGAAAACATTAAATGAGAAACTTTAGAAATCGCTTTCTCTTTTTTT
* * *
670356 TTAAATTGATGT-GAAAGCATCTTTCCCGAAGGTCTTATAGATAGCCC-GAATGACTTATCATCT
131 TTAAA-TCATGTGGAAA-CATCTTACCCGAAGGTCTTATAGATGGCCCAG-ATGACTTATCATCT
670419 TGCTTGAAAGACTGACAGATGACCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCC
193 TGCTTGAAAGACTGACAGATGACCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCC
* * * * * *
670484 CGAATAACTTACCAATTTTGGAAATAGTCTATTGGGTAAGAAACTTTGGAAATCACTTTTTTACT
1 CGAATGACTTACCAATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCTCTTTCTTACT
*
670549 TTTCAAAAATTTCATTTTCTGAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCGTTTTTT
66 TTTCAAAAATTTCATTTTCTGAAAACATTAAATGAGAAACTTTAGAAATCGCTTTCTC-TTTTTT
* *
670614 TTTAAATCATGTGGAAACATCCTACCCGAAGGTCTTATGGATGGCCCAGATGACTTATCATCTTG
130 TTTAAATCATGTGGAAACATCTTACCCGAAGGTCTTATAGATGGCCCAGATGACTTATCATCTTG
*
670679 CTCGAAAGACTGACAGATGACCAGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCC
195 CTTGAAAGACTGACAGATGACC-GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCC
* * *
670743 CGAAGGACTTACTAATTTTGGAAATAATTTATTGGGTAAGAAACTTTGGAAATCTCTTTCTTACT
1 CGAATGACTTACCAATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCTCTTTCTTACT
*
670808 TTTCAAAAATTTTATTTTC
66 TTTCAAAAATTTCATTTTC
670827 ATATAACTTT
Statistics
Matches: 534, Mismatches: 54, Indels: 28
0.87 0.09 0.05
Matches are distributed among these distances:
255 75 0.14
256 139 0.26
257 8 0.01
258 71 0.13
259 132 0.25
265 3 0.01
266 76 0.14
267 30 0.06
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (257 bp):
CGAATGACTTACCAATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCTCTTTCTTACT
TTTCAAAAATTTCATTTTCTGAAAACATTAAATGAGAAACTTTAGAAATCGCTTTCTCTTTTTTT
TTAAATCATGTGGAAACATCTTACCCGAAGGTCTTATAGATGGCCCAGATGACTTATCATCTTGC
TTGAAAGACTGACAGATGACCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCC
Found at i:681216 original size:20 final size:21
Alignment explanation
Indices: 681193--681260 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
681183 CCTATATATA
681193 TATTTTTA-ATTATATTTTTT
1 TATTTTTATATTATATTTTTT
* *
681213 TATTTACTATATTCATCTTTTTT
1 TATTT-TTATATT-ATATTTTTT
*
681236 T-TATTTATATTATATTATTTT
1 TATTTTTATATTATATT-TTTT
681257 TATT
1 TATT
681261 ATATATATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
20 9 0.24
21 13 0.35
22 6 0.16
23 9 0.24
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTTTTATATTATATTTTTT
Found at i:681244 original size:21 final size:21
Alignment explanation
Indices: 681201--681266 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 21
681191 TATATTTTTA
681201 ATTATATT-TTTTTATTTACTAT
1 ATTATATTATTTTTA-TTA-TAT
* *
681223 ATTCATCTTTTTTTTATT-TAT
1 ATT-ATATTATTTTTATTATAT
681244 ATTATATTATTTTTATTATAT
1 ATTATATTATTTTTATTATAT
681265 AT
1 AT
681267 ATGATATATC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 12 0.32
21 11 0.29
22 3 0.08
23 6 0.16
24 6 0.16
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTATATTATTTTTATTATAT
Found at i:681256 original size:23 final size:23
Alignment explanation
Indices: 681230--681273 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
681220 TATATTCATC
* * *
681230 TTTTTTTTATTTATATTATATTA
1 TTTTTATTATATATATGATATTA
681253 TTTTTATTATATATATGATAT
1 TTTTTATTATATATATGATAT
681274 ATCATATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTTATTATATATATGATATTA
Found at i:681257 original size:24 final size:24
Alignment explanation
Indices: 681201--681257 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
681191 TATATTTTTA
*
681201 ATTATATTTTTTTATTTACTATAT
1 ATTATTTTTTTTTATTTACTATAT
*
681225 -TCATCTTTTTTTTATTTA-TATTAT
1 ATTAT-TTTTTTTTATTTACTA-TAT
681249 ATTATTTTT
1 ATTATTTTT
681258 ATTATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
23 5 0.19
24 19 0.70
25 3 0.11
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (24 bp):
ATTATTTTTTTTTATTTACTATAT
Found at i:681347 original size:15 final size:16
Alignment explanation
Indices: 681329--681358 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
681319 TTGCTATGTA
681329 TATATTTT-TTTATAT
1 TATATTTTATTTATAT
681344 TATATTTTATTTATA
1 TATATTTTATTTATA
681359 CGTTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATATTTTATTTATAT
Found at i:681351 original size:12 final size:12
Alignment explanation
Indices: 681336--681425 Score: 50
Period size: 11 Copynumber: 7.8 Consensus size: 12
681326 GTATATATTT
681336 TTTTATATTATA
1 TTTTATATTATA
681348 TTTTAT-TTATA
1 TTTTATATTATA
681359 CGTTTT-TATATATA
1 --TTTTATAT-TATA
* *
681373 TTTTTTCTTAATA
1 TTTTATATT-ATA
* *
681386 TTTTAT-TTTTG
1 TTTTATATTATA
681397 TTTT-TATT-TA
1 TTTTATATTATA
681407 -TTTATA-TATA
1 TTTTATATTATA
*
681417 TATTATATT
1 TTTTATATT
681426 TTTACTTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 22
0.69 0.07 0.25
Matches are distributed among these distances:
9 4 0.07
10 6 0.10
11 17 0.28
12 15 0.25
13 15 0.25
14 4 0.07
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATATTATA
Found at i:681371 original size:38 final size:36
Alignment explanation
Indices: 681327--681427 Score: 105
Period size: 38 Copynumber: 2.7 Consensus size: 36
681317 ATTTGCTATG
681327 TATATATTTTTTTATATTATATTTTATTTATACGTTTT
1 TATATATTTTTTTATATTATATTTTATTT-T-CGTTTT
* * *
681365 TATATATATTTTTTCT-TAATATTTTATTTTTGTTTT
1 TATATAT-TTTTTTATATTATATTTTATTTTCGTTTT
* *
681401 TATTTATTTATATATATATTATATTTT
1 TATATATTT-T-TTTATATTATATTTT
681428 TACTTTATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
35 2 0.04
36 12 0.23
37 4 0.08
38 27 0.52
39 7 0.13
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (36 bp):
TATATATTTTTTTATATTATATTTTATTTTCGTTTT
Found at i:681378 original size:14 final size:14
Alignment explanation
Indices: 681327--681378 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
681317 ATTTGCTATG
681327 TATATATTTTTTTA
1 TATATATTTTTTTA
*
681341 TAT-TA-TATTTTA
1 TATATATTTTTTTA
* **
681353 TTTATACGTTTTTA
1 TATATATTTTTTTA
681367 TATATATTTTTT
1 TATATATTTTTT
681379 CTTAATATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
12 8 0.28
13 4 0.14
14 17 0.59
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (14 bp):
TATATATTTTTTTA
Found at i:681646 original size:6 final size:6
Alignment explanation
Indices: 681635--681661 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
681625 ATTCATTTTG
681635 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
681662 TATGTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:681702 original size:26 final size:25
Alignment explanation
Indices: 681645--681703 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
681635 TTTATTTTTA
*
681645 TTTTTATTTTTATTTTTTATGTGTT
1 TTTTTATTTTCATTTTTTATGTGTT
* *
681670 TTGTTATTTTCCATTTTTTCT-TGTT
1 TTTTTATTTT-CATTTTTTATGTGTT
681695 TTATTTATT
1 TT-TTTATT
681704 ATTCTCACGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (25 bp):
TTTTTATTTTCATTTTTTATGTGTT
Found at i:684769 original size:27 final size:25
Alignment explanation
Indices: 684708--684780 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 25
684698 TCAGAACAAA
684708 AAGAAAAAAGAGAAAAAAGAAAAGAG
1 AAGAAAAAAGA-AAAAAAGAAAAGAG
* **
684734 AAAATAAAAAGGAAAAAAAGGAAAATTG
1 AAGA-AAAAA-GAAAAAAA-GAAAAGAG
*
684762 AAGAAAAAAGAAAACAAGA
1 AAGAAAAAAGAAAAAAAGA
684781 TGCATATGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 2 0.05
26 10 0.26
27 16 0.41
28 11 0.28
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.04
Consensus pattern (25 bp):
AAGAAAAAAGAAAAAAAGAAAAGAG
Found at i:684950 original size:69 final size:69
Alignment explanation
Indices: 684831--684968 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 69
684821 GATTTAAACT
684831 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
684896 TCAA
66 TCAA
* * * * *
684900 ATGAGATTGATCAAGCATAATCATTTCTGAATTACTGCATCAC-TCTACTCGAAGATCATGGAGC
1 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTTC-ACTCGAAGATCATAGAGC
684964 ATCAA
65 ATCAA
684969 GAGAGAGACA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
68 2 0.03
69 61 0.97
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
TCAA
Found at i:686543 original size:65 final size:64
Alignment explanation
Indices: 686438--686740 Score: 293
Period size: 65 Copynumber: 4.6 Consensus size: 64
686428 CTTGAGATAG
* * * *
686438 TTTCCCTTGAAACAAAATTTTGTCTCCCCTAAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA-AAACATTGAAAAT
686503 A
64 A
* ** *
686504 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTATTTGAAAATG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAACA-TTGAAAATA
*** * * * **
686569 TTTTATTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAA-CATTGAAAATA
* * * *
686634 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAA-ATCTTCAAAT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA-AAACA--TTGAAA-
*
686698 TTA
62 ATA
* * * *
686701 TTTCCCTTAAAACAAAATTTTATTTCCCTTGAGACCGTTT
1 TTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTT
686741 TTCATGAAAA
Statistics
Matches: 197, Mismatches: 33, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
64 3 0.02
65 136 0.69
66 20 0.10
67 15 0.08
68 23 0.12
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (64 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAACATTGAAAATA
Found at i:686551 original size:36 final size:35
Alignment explanation
Indices: 686504--686620 Score: 113
Period size: 36 Copynumber: 3.5 Consensus size: 35
686494 ATTGAAAACA
686504 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAA-TTTGTCTCTCTTGAGACAG
* *
686540 TTTCCCTTGAAACAAA----T-TAT-TTGA-AAATG
1 TTTCCCTTGAAACAAATTTGTCTCTCTTGAGACA-G
***
686569 TTTTATTTGAAACAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTT-GTCTCTCTTGAGACAG
686605 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
686621 ATCTTTGAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
28 2 0.03
29 18 0.29
30 2 0.03
31 1 0.02
34 1 0.02
35 2 0.03
36 34 0.55
37 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (35 bp):
TTTCCCTTGAAACAAATTTGTCTCTCTTGAGACAG
Found at i:687777 original size:110 final size:110
Alignment explanation
Indices: 687469--687831 Score: 486
Period size: 110 Copynumber: 3.3 Consensus size: 110
687459 GCTTCCCAGT
* * * *
687469 TTCAGAGCCAATTTGAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
* * *
687534 CAACGAAGGGGTGACTGATTGTCAATAAACAACTTTTCAGTTTCA
66 CAACGAAGGGGCGACTGATTGTCAACAAAAAACTTTTCAGTTTCA
*
687579 TTCAGAGTTAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
* *
687644 CAACGAAGAGGCGACTAATTGTCAACAAAAAACTTTTCAGTTTCA
66 CAACGAAGGGGCGACTGATTGTCAACAAAAAACTTTTCAGTTTCA
* *
687689 TTCATAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
* * ** * *
687754 CAGCGAAGGGGCGGCTGGCTGTCAACAAACAA-TTTCCTAG-TTC-
66 CAACGAAGGGGCGACTGATTGTCAACAAAAAACTTTTC-AGTTTCA
* *
687797 --CAGAGCCAATTTCAACTTCAC-GACGGAGGATATTG
1 TTCAGAGTCAATTTCAACTTCACAG-CGAAGGATATTG
687832 GACTTGGAAC
Statistics
Matches: 227, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
105 1 0.00
106 30 0.13
109 7 0.03
110 189 0.83
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (110 bp):
TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
CAACGAAGGGGCGACTGATTGTCAACAAAAAACTTTTCAGTTTCA
Found at i:689128 original size:18 final size:18
Alignment explanation
Indices: 689105--689175 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
689095 CATCTCTTTT
689105 TTATTTAT-TTATACTATA
1 TTATTTATATTATA-TATA
*
689123 TTATTTTTATTATATATA
1 TTATTTATATTATATATA
*
689141 TCT-TATATCATTATATATA
1 T-TATTTAT-ATTATATATA
689160 -TATTTATA-TATATATA
1 TTATTTATATTATATATA
689176 GATGTATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
16 8 0.18
17 2 0.04
18 19 0.42
19 16 0.36
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTTATATTATATATA
Found at i:689175 original size:16 final size:17
Alignment explanation
Indices: 689110--689175 Score: 59
Period size: 19 Copynumber: 4.0 Consensus size: 17
689100 CTTTTTTATT
689110 TATTTATACTATAT-TA
1 TATTTATACTATATATA
*
689126 T-TTT-TATTATATATA
1 TATTTATACTATATATA
* *
689141 TCTTATATCATTATATATA
1 TATT-TAT-ACTATATATA
689160 TATTTATA-TATATATA
1 TATTTATACTATATATA
689176 GATGTATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
14 7 0.16
15 6 0.14
16 11 0.26
17 2 0.05
18 4 0.09
19 13 0.30
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTTATACTATATATA
Found at i:689225 original size:17 final size:17
Alignment explanation
Indices: 689205--689264 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
689195 TTTGCTATGT
689205 ATATATATTTTTTCTTA
1 ATATATATTTTTTCTTA
* *
689222 ATATTATATTTTATACGTTTTT
1 ATA-TATATTTT-T---TCTTA
689244 ATATATATTTTTTCTTA
1 ATATATATTTTTTCTTA
689261 ATAT
1 ATAT
689265 TCCATTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 10 0.29
18 8 0.24
19 1 0.03
20 1 0.03
21 8 0.24
22 6 0.18
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
ATATATATTTTTTCTTA
Found at i:690815 original size:3 final size:3
Alignment explanation
Indices: 690809--690865 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
690799 GTAAAAAAAG
* *
690809 ATA ATA AAA ATCA ATA ATA ATA AT- ATAA ATA ATA ATG ATA ATA GATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -ATA
*
690856 TTA ATA ATA A
1 ATA ATA ATA A
690866 CTCGACAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 2 0.05
3 34 0.77
4 8 0.18
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:691557 original size:38 final size:39
Alignment explanation
Indices: 691487--691578 Score: 100
Period size: 38 Copynumber: 2.4 Consensus size: 39
691477 ATTGGAGGGT
* * *
691487 AACCTAAAATTTTAACTTTTTATTAATATTTTTAGTTGA-
1 AACCGAAAATGTT-ACTTTTTATTAATATTTTTAGCTGAC
*
691526 AA-CGAAAATGTTACTTTTTCA-TAATATTTTTTGGCTGAC
1 AACCGAAAATGTTACTTTTT-ATTAATA-TTTTTAGCTGAC
691565 AACCGAAAATGTTA
1 AACCGAAAATGTTA
691579 TATAATTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
37 12 0.27
38 18 0.40
39 4 0.09
40 11 0.24
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (39 bp):
AACCGAAAATGTTACTTTTTATTAATATTTTTAGCTGAC
Found at i:695142 original size:18 final size:21
Alignment explanation
Indices: 695121--695159 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
695111 TTGTAAGGTA
695121 ATTT-TTTTA-ATAT-ATTAT
1 ATTTATTTTATATATGATTAT
695139 ATTTATTTTATATATGATTAT
1 ATTTATTTTATATATGATTAT
695160 TTGAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 4 0.22
21 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
ATTTATTTTATATATGATTAT
Found at i:696158 original size:60 final size:59
Alignment explanation
Indices: 696053--696170 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 59
696043 ATTTGTCACA
* ** * * *
696053 ATGCCTTCAAGCTCCAGGGGAGGCATTCAACTACGAGCTTCTTCGACCTCAATGTCGAG
1 ATGCCTTCAAGCTCAAGGGGAGGCATGAAACTACCAACTTCTTCGACCTAAATGTCGAG
** *
696112 ATGCCTTCAATTTCAAGGGGAAGGCATGAAACTACCAACTTGTTCGACCTAAATGTCGA
1 ATGCCTTCAAGCTCAAGGGG-AGGCATGAAACTACCAACTTCTTCGACCTAAATGTCGA
696171 TAGCATGGAG
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 17 0.35
60 32 0.65
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (59 bp):
ATGCCTTCAAGCTCAAGGGGAGGCATGAAACTACCAACTTCTTCGACCTAAATGTCGAG
Found at i:698518 original size:24 final size:24
Alignment explanation
Indices: 698486--698534 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
698476 TAAATTAAGT
* *
698486 AATAAAAATAAACAAATTAATTTA
1 AATAAAAATAAACAAAATAAATTA
698510 AATAAAAATAAACAAAATAAATTA
1 AATAAAAATAAACAAAATAAATTA
698534 A
1 A
698535 GTAATAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (24 bp):
AATAAAAATAAACAAAATAAATTA
Found at i:700843 original size:17 final size:17
Alignment explanation
Indices: 700821--700863 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
700811 GAATTTGATC
700821 GGGTTTGAGCTTTAAGA
1 GGGTTTGAGCTTTAAGA
* *
700838 GGGTTTGGGCTTTGAGA
1 GGGTTTGAGCTTTAAGA
*
700855 GGATTTGAG
1 GGGTTTGAG
700864 AATTTGGTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.42, T:0.35
Consensus pattern (17 bp):
GGGTTTGAGCTTTAAGA
Found at i:703166 original size:19 final size:18
Alignment explanation
Indices: 703131--703165 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
703121 TAGGGCTATT
703131 AAGAGTTTAGTGATTTTA
1 AAGAGTTTAGTGATTTTA
703149 AAGAGTTTTAG-GATTTT
1 AAGAG-TTTAGTGATTTT
703166 TGTGTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (18 bp):
AAGAGTTTAGTGATTTTA
Found at i:711209 original size:18 final size:18
Alignment explanation
Indices: 711178--711222 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
711168 ATTTGATGAT
* *
711178 TAGGATTATGAAGAGTT-
1 TAGGATTTTAAAGAGTTG
711195 TAGTGATTTTAAAGAGTTG
1 TAG-GATTTTAAAGAGTTG
711214 TAGGATTTT
1 TAGGATTTT
711223 TATGTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (18 bp):
TAGGATTTTAAAGAGTTG
Found at i:712603 original size:212 final size:212
Alignment explanation
Indices: 712344--712838 Score: 855
Period size: 212 Copynumber: 2.3 Consensus size: 212
712334 ATATCGCGTA
* * *
712344 AAGTCAACCCCATTCCAATTTATAGTATAAATTATAAAGTTTATAAAGAATATTTTTATAATATT
1 AAGTCAACCTCATTCCAATTTATAGTATGATTTATAAAGTTTATAAAGAATATTTTTATAATATT
712409 TTATATAAAGAAAAATCTAACAGTTTGGATGATTCGAAAGGAAAAGGAAAAGCACGTTATGAGAA
66 TTATATAAAGAAAAATCTAACAGTTTGGATGATTCGAAAGGAAAAGGAAAAGCACGTTATGAGAA
* *
712474 ATATCGCGTAAAGGATACTATAGTGAGGCAAAGGTAAATGCAGTTATTTATTTAATTATTTTGAT
131 ATATCGCGTAAAGGATACTATAGTGAGGCAAAGGTAAATGCAATTATGTATTTAATTATTTTGAT
*
712539 CGAGGACGATTTGCGAT
196 CGAGGACGACTTGCGAT
*
712556 AAGTCAACCTCATTCCAATTTACAGTATGATTTATAAAGTTTATAAAGAATATTTTTATAATATT
1 AAGTCAACCTCATTCCAATTTATAGTATGATTTATAAAGTTTATAAAGAATATTTTTATAATATT
* * ** *
712621 TTTTATAAAGAAAAATCTAGCAGTTTGGATGATTCGAAAGGAAAAGGAAAAGTGCGTTATTAGAA
66 TTATATAAAGAAAAATCTAACAGTTTGGATGATTCGAAAGGAAAAGGAAAAGCACGTTATGAGAA
712686 ATATCGCGTAAAGGATACTATAGTGAGGCAAAGGTAAATGCAATTATGTATTTAATTATTTTGAT
131 ATATCGCGTAAAGGATACTATAGTGAGGCAAAGGTAAATGCAATTATGTATTTAATTATTTTGAT
* *
712751 CGATGATGACTTGCGAT
196 CGAGGACGACTTGCGAT
*
712768 AAGTCAACCTCATTCCAATTTATAGTATGATTTATAAAGTTTATAAATAATATTTTTATAATATT
1 AAGTCAACCTCATTCCAATTTATAGTATGATTTATAAAGTTTATAAAGAATATTTTTATAATATT
712833 TTATAT
66 TTATAT
712839 CAGTTTTATG
Statistics
Matches: 266, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
212 266 1.00
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (212 bp):
AAGTCAACCTCATTCCAATTTATAGTATGATTTATAAAGTTTATAAAGAATATTTTTATAATATT
TTATATAAAGAAAAATCTAACAGTTTGGATGATTCGAAAGGAAAAGGAAAAGCACGTTATGAGAA
ATATCGCGTAAAGGATACTATAGTGAGGCAAAGGTAAATGCAATTATGTATTTAATTATTTTGAT
CGAGGACGACTTGCGAT
Found at i:714093 original size:21 final size:21
Alignment explanation
Indices: 714067--714107 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
714057 AACTCGAAAT
*
714067 TTTTTTCAAGTCGACTCGAGC
1 TTTTTTCAAGTCGAATCGAGC
*
714088 TTTTTTCGAGTCGAATCGAG
1 TTTTTTCAAGTCGAATCGAG
714108 TCAAAAAATT
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:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (21 bp):
TTTTTTCAAGTCGAATCGAGC
Found at i:716451 original size:290 final size:288
Alignment explanation
Indices: 716064--716645 Score: 1008
Period size: 291 Copynumber: 2.0 Consensus size: 288
716054 AAAAAATTTA
716064 TCTATAGATGAAAACCGATAGTTAACAAATTGTTAAAACTCTAAAATAGAGATTTTTTATGTTAA
1 TCTATAGATGAAAACCGATAGTTAACAAATTGTTAAAACTCTAAAATAGAGATTTTTTATGTTAA
716129 AATGAAATATTAAAGGTCAAAATCTTTAATAAAAAGAATAAGGAGCCATGAATATTTTATCAAAT
66 AATGAAATATTAAAGGTCAAAATCTTTAATAAAAAGAATAAGGAGCCATGAATATTTTATCAAAT
* *
716194 ATTTGAGACTTTTTTT-TTTAAAATGAAACATTTGTTAAAATATT-AAAAATTAAAATAATTATT
131 ATTTGAGACTTTTTTTCCTTAAAATGAAACATTTGTTAAAATATTAAAAAAATAAAATAATTATT
716257 TTAATAAATATTAGGTTATAATTTTAATATTATTCTTACCATAATATTAATATGGGATGTCAACT
196 TTAATAAATATTAGGTTATAA--TTAATATTATTCTTACCATAATATTAATATGGGATGTCAACT
716322 TGAAACCCAATTAGGTAGGTTAGTTGGCGG
259 TGAAACCCAATTAGGTAGGTTAGTTGGCGG
*
716352 TCTATAGATG-AAACCGATAGTTAACAAATTGTTAAAATTCTAAAATAGAGATTTTTTTTAATGT
1 TCTATAGATGAAAACCGATAGTTAACAAATTGTTAAAACTCTAAAATAGAGA--TTTTTT-ATGT
* *
716416 TAAAATGAAATATTAAAGGTTAAAATCTTTAATAAAAAGAATAAGGAGCCATTAATATTTTATCA
63 TAAAATGAAATATTAAAGGTCAAAATCTTTAATAAAAAGAATAAGGAGCCATGAATATTTTATCA
*
716481 AATATTTGAGACTTTTTTTCCTTAAATTGAAACATTTGTTAAAATATTAAAAAAAATAAAATAAT
128 AATATTTGAGACTTTTTTTCCTTAAAATGAAACATTTGTTAAAATATT-AAAAAAATAAAATAAT
* *
716546 TATTTTAATAAATATTAGGTTATAATTAATATTATTCTTATCATAATGTTAATATGGGATGTCAA
192 TATTTTAATAAATATTAGGTTATAATTAATATTATTCTTACCATAATATTAATATGGGATGTCAA
*
716611 CTTGTAACCCAATTAGGTAGGTTAGTTGGCGG
257 CTTGAAACCCAATTAGGTAGGTTAGTTGGCGG
716643 TCT
1 TCT
716646 GGTCCCACCT
Statistics
Matches: 279, Mismatches: 9, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
287 40 0.14
288 10 0.04
289 6 0.02
290 86 0.31
291 98 0.35
293 39 0.14
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (288 bp):
TCTATAGATGAAAACCGATAGTTAACAAATTGTTAAAACTCTAAAATAGAGATTTTTTATGTTAA
AATGAAATATTAAAGGTCAAAATCTTTAATAAAAAGAATAAGGAGCCATGAATATTTTATCAAAT
ATTTGAGACTTTTTTTCCTTAAAATGAAACATTTGTTAAAATATTAAAAAAATAAAATAATTATT
TTAATAAATATTAGGTTATAATTAATATTATTCTTACCATAATATTAATATGGGATGTCAACTTG
AAACCCAATTAGGTAGGTTAGTTGGCGG
Found at i:721320 original size:29 final size:29
Alignment explanation
Indices: 721278--721357 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
721268 ATTGTACAGT
*
721278 GACCAAAGAGGTCGTCATGCACGCCCAAC
1 GACCAAAGAGGTCGCCATGCACGCCCAAC
721307 GACCAAAGAGGTCGCCATGCACGCCCAAC
1 GACCAAAGAGGTCGCCATGCACGCCCAAC
*
721336 GACCAAGGAGGTCGCCATGCAC
1 GACCAAAGAGGTCGCCATGCAC
721358 TCGGGGCGAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.30, C:0.35, G:0.26, T:0.09
Consensus pattern (29 bp):
GACCAAAGAGGTCGCCATGCACGCCCAAC
Found at i:721604 original size:17 final size:17
Alignment explanation
Indices: 721582--721615 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
721572 GCCCAAGCTT
721582 TAACCCTATCCCTCATC
1 TAACCCTATCCCTCATC
721599 TAACCCTATCCCTCATC
1 TAACCCTATCCCTCATC
721616 ATGCATCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (17 bp):
TAACCCTATCCCTCATC
Found at i:722151 original size:21 final size:21
Alignment explanation
Indices: 722126--722169 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
722116 AATCTAGTTA
722126 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
722147 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
722168 AT
1 AT
722170 ATATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:723004 original size:15 final size:15
Alignment explanation
Indices: 722986--723021 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
722976 TTAAATATCA
722986 AATCATTAGATTAAT
1 AATCATTAGATTAAT
723001 AATCATT--ATTAAT
1 AATCATTAGATTAAT
723014 AAT-ATTAG
1 AATCATTAG
723022 TAATCAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.16
13 9 0.47
15 7 0.37
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (15 bp):
AATCATTAGATTAAT
Found at i:726048 original size:17 final size:18
Alignment explanation
Indices: 725967--726056 Score: 67
Period size: 17 Copynumber: 4.8 Consensus size: 18
725957 GATAGTAATG
*
725967 ATTAGTAATAATGAAATT
1 ATTAATAATAATGAAATT
* **
725985 ATTATTAAT-ATTTAATT
1 ATTAATAATAATGAAATT
*
726002 ATTTAATAGTAATGATTAGTAATT
1 A-TTAATAATAATG---A--AATT
726026 ATTAATAATAATGAAATT
1 ATTAATAATAATGAAATT
726044 A-TAATAATAATGA
1 ATTAATAATAATGA
726057 TTTACTAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
17 19 0.33
18 19 0.33
19 2 0.04
20 1 0.02
23 11 0.19
24 5 0.09
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (18 bp):
ATTAATAATAATGAAATT
Found at i:726273 original size:12 final size:12
Alignment explanation
Indices: 726252--726289 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
726242 AATAATCATT
726252 ATAATG-ATTTA
1 ATAATGAATTTA
726263 ATAATGAATTTA
1 ATAATGAATTTA
726275 ATAATGAATTTA
1 ATAATGAATTTA
726287 ATA
1 ATA
726290 TTTAATGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.23
12 20 0.77
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
ATAATGAATTTA
Found at i:726341 original size:26 final size:26
Alignment explanation
Indices: 726311--726504 Score: 199
Period size: 26 Copynumber: 7.7 Consensus size: 26
726301 TATGATTTAG
*
726311 TAATGATATGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
726337 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
726363 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
*
726389 TAATGA-TT--TAATAATGATT-T-A
1 TAATGATTTGATAATAATCATTATAA
* * * * *
726410 -AAT-ATTTAATCATTTGATGATT-TAG
1 TAATGATTTGAT-A-ATAATCATTATAA
*
726435 TAATGATTTGATAGTAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
*
726461 TAATGATTTAATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
* *
726487 TAATAATTTAATAATAAT
1 TAATGATTTGATAATAAT
726505 GATTTGATAG
Statistics
Matches: 145, Mismatches: 13, Indels: 20
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.01
20 5 0.03
21 1 0.01
22 2 0.01
23 11 0.08
24 8 0.06
25 9 0.06
26 102 0.70
27 6 0.04
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:726475 original size:124 final size:124
Alignment explanation
Indices: 726252--726509 Score: 403
Period size: 124 Copynumber: 2.1 Consensus size: 124
726242 AATAATCATT
* * *
726252 ATAATGATTTAATAATGAATTTAATAATGAATTTAATATTTAATGATTTTATGATTTAGTAATGA
1 ATAATCATTTAATAATGAATTTAATAATGAATTTAATATTTAATCATTTGATGATTTAGTAATGA
* * *
726317 TATGATAATAATCATTATAATAATGATTTGATAATAATCATTATAATAATGATTTAGTA
66 TATGATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATAATTTAATA
726376 ATAATCATTATAATAATG-ATTTAATAATG-ATTTAAATATTTAATCATTTGATGATTTAGTAAT
1 ATAATCATT-TAATAATGAATTTAATAATGAATTT-AATATTTAATCATTTGATGATTTAGTAAT
* *
726439 GATTTGATAGTAATCATTATAATAATGATTTAATAATAATCATTATAATAATAATTTAATA
64 GATATGATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATAATTTAATA
*
726500 ATAATGATTT
1 ATAATCATTT
726510 GATAGTAGTG
Statistics
Matches: 123, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
123 5 0.04
124 110 0.89
125 8 0.07
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (124 bp):
ATAATCATTTAATAATGAATTTAATAATGAATTTAATATTTAATCATTTGATGATTTAGTAATGA
TATGATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATAATTTAATA
Found at i:726560 original size:49 final size:49
Alignment explanation
Indices: 726501--726786 Score: 331
Period size: 49 Copynumber: 5.4 Consensus size: 49
726491 AATTTAATAA
* *
726501 TAATGATTTGATAGTAGTGATTAATAATAATGAAATTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
726550 TAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTT
1 T-A--A--TG--ATT--TGA--TAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
726610 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATTTT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
726659 TAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAG---T-A--A-TAATGA-AA-TTATTATTAATATT
*
726717 TAATGATTTGATAGTAATGATTAGTAATAAT-AATTTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
726765 TAATGATTTGATAGTAATGATT
1 TAATGATTTGATAGTAATGATT
726787 TACGACTTGA
Statistics
Matches: 211, Mismatches: 6, Indels: 41
0.82 0.02 0.16
Matches are distributed among these distances:
48 36 0.17
49 64 0.30
50 2 0.01
51 7 0.03
52 3 0.01
53 4 0.02
54 3 0.01
55 4 0.02
56 8 0.04
57 3 0.01
58 40 0.19
59 1 0.00
60 36 0.17
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (49 bp):
TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:726637 original size:24 final size:24
Alignment explanation
Indices: 726610--726690 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
726600 TATTAATTTT
726610 TAATGATTTGATAGTAATGATTAG
1 TAATGATTTGATAGTAATGATTAG
* *** * * * **
726634 TAATAATGAAATTATTATTAATTTT
1 TAATGATTTGA-TAGTAATGATTAG
726659 TAATGATTTGATAGTAATGATTAG
1 TAATGATTTGATAGTAATGATTAG
726683 TAATGATT
1 TAATGATT
726691 AGTAATAATA
Statistics
Matches: 38, Mismatches: 18, Indels: 2
0.66 0.31 0.03
Matches are distributed among these distances:
24 23 0.61
25 15 0.39
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.46
Consensus pattern (24 bp):
TAATGATTTGATAGTAATGATTAG
Found at i:726638 original size:109 final size:108
Alignment explanation
Indices: 726501--726788 Score: 490
Period size: 109 Copynumber: 2.7 Consensus size: 108
726491 AATTTAATAA
* * *
726501 TAATGATTTGATAGTAGTGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTA
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTA
*
726566 ATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTT
66 ATGATTTAGTAATGATTAGTAATAAT-AAATTATTATTAATATT
*
726610 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTA
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTA
*
726675 ATGA-TTAGTAATGATTAGTAATAATAATTTATTATTAATATT
66 ATGATTTAGTAATGATTAGTAATAATAAATTATTATTAATATT
*
726717 TAATGATTTGATAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATAGTA
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTA
726781 ATGATTTA
66 ATGATTTA
726789 CGACTTGAAC
Statistics
Matches: 170, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
106 35 0.21
107 49 0.29
108 21 0.12
109 65 0.38
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (108 bp):
TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTA
ATGATTTAGTAATGATTAGTAATAATAAATTATTATTAATATT
Found at i:726683 original size:10 final size:10
Alignment explanation
Indices: 726670--726696 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
726660 AATGATTTGA
726670 TAGTAATGAT
1 TAGTAATGAT
726680 TAGTAATGAT
1 TAGTAATGAT
726690 TAGTAAT
1 TAGTAAT
726697 AATAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Done.