Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 31 of 202
Found at i:9017802 original size:14 final size:14
Alignment explanation
Indices: 9017781--9017824 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
9017771 GATCCTAAAT
9017781 CCTAAACTTTGAAC
1 CCTAAACTTTGAAC
*
9017795 CTTAAACTTTGAAC
1 CCTAAACTTTGAAC
* *
9017809 CCTGAACCTTGAAC
1 CCTAAACTTTGAAC
9017823 CC
1 CC
9017825 AATGTCCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.09, T:0.27
Consensus pattern (14 bp):
CCTAAACTTTGAAC
Found at i:9019996 original size:21 final size:23
Alignment explanation
Indices: 9019972--9020013 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9019962 TAATCTTTTT
*
9019972 TTAAAT-TAAGTAAA-AAAATTC
1 TTAAATCTAAATAAACAAAATTC
9019993 TTAAATCTAAATAAACAAAAT
1 TTAAATCTAAATAAACAAAAT
9020014 AAATTAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TTAAATCTAAATAAACAAAATTC
Found at i:9022731 original size:12 final size:12
Alignment explanation
Indices: 9022714--9022743 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9022704 TCATTTAATC
9022714 ATCAAGTTTTTA
1 ATCAAGTTTTTA
*
9022726 ATCAAGTTTTTC
1 ATCAAGTTTTTA
9022738 ATCAAG
1 ATCAAG
9022744 CTCTCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (12 bp):
ATCAAGTTTTTA
Found at i:9029561 original size:5 final size:5
Alignment explanation
Indices: 9029551--9029600 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
9029541 AAAATTACAC
* * *
9029551 ATTTT ATTTT ATTTT ATTTT -TATTC CTTCT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT ATTTT
9029601 GCAGGTAGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
4 1 0.03
5 36 0.95
6 1 0.03
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:9030854 original size:12 final size:12
Alignment explanation
Indices: 9030837--9030866 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9030827 TCATTTAATC
9030837 ATCAAGTTTTTA
1 ATCAAGTTTTTA
*
9030849 ATCAAGTTTTTC
1 ATCAAGTTTTTA
9030861 ATCAAG
1 ATCAAG
9030867 CTCTCATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (12 bp):
ATCAAGTTTTTA
Found at i:9033415 original size:2 final size:2
Alignment explanation
Indices: 9033408--9033447 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
9033398 ACTAACTATG
*
9033408 AT AT AT AT AT AT TT 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 AT AT AT AT AT
9033448 TTGTTATGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:9033646 original size:41 final size:41
Alignment explanation
Indices: 9033583--9033691 Score: 137
Period size: 41 Copynumber: 2.7 Consensus size: 41
9033573 AGTTTAGGCT
** *
9033583 TTATGCCTAGCAGGCTCAGTGCCGGTGAATTATATCAGACC
1 TTATGCCTAGCAGGCTTTGTGCCGGTGAAATATATCAGACC
* * * *
9033624 TTATGTCTAGCAGGCTTTGTGCCGGTGAAATGTATCAGGCT
1 TTATGCCTAGCAGGCTTTGTGCCGGTGAAATATATCAGACC
* *
9033665 TTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTATGCCTAGCAGGCTTTGTGCCGGTG
9033692 TTTTATACAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.31
Consensus pattern (41 bp):
TTATGCCTAGCAGGCTTTGTGCCGGTGAAATATATCAGACC
Found at i:9034351 original size:2 final size:2
Alignment explanation
Indices: 9034344--9034376 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9034334 ATCTATTTGG
9034344 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9034377 GATGTTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9034701 original size:139 final size:139
Alignment explanation
Indices: 9034540--9034799 Score: 353
Period size: 139 Copynumber: 1.9 Consensus size: 139
9034530 ATTTGTTATA
* * * * *
9034540 TATATATACTGTTCAATCTTGGTGTAAAAATACTGCTCAATTTGGTATGTATATGTTGCCTAATT
1 TATATATACTGTTAAATCTTGGTGTAAAAATACTACTAAATTTGGTATGTATATGCTGCCCAATT
* * *
9034605 GTTGTATATCTATGCTGT-TAAATTTTGGTGTA-AAGTGCTGTTAAATTTGGTATATATATGTTG
66 GTTGTATA--TAAGCTGTCCAAATTTTGGTGTATAAATGCTGTTAAATTTGGTATATATATGTTG
9034668 TCTATTTGCTG
129 TCTATTTGCTG
* * * * * *
9034679 TATATATGCTGTTAAATTTTGGTGTAAAAGTGCTATTAAATTTGGTATGTATATGCTGCCCATTT
1 TATATATACTGTTAAATCTTGGTGTAAAAATACTACTAAATTTGGTATGTATATGCTGCCCAATT
*
9034744 GTTGTATATAAGCTGTCCAAATTTTGGTGTATAAATGCTGTTTAATTTGGTATATA
66 GTTGTATATAAGCTGTCCAAATTTTGGTGTATAAATGCTGTTAAATTTGGTATATA
9034800 ATTGCTATTC
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
137 7 0.07
138 13 0.12
139 84 0.81
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (139 bp):
TATATATACTGTTAAATCTTGGTGTAAAAATACTACTAAATTTGGTATGTATATGCTGCCCAATT
GTTGTATATAAGCTGTCCAAATTTTGGTGTATAAATGCTGTTAAATTTGGTATATATATGTTGTC
TATTTGCTG
Found at i:9034732 original size:69 final size:69
Alignment explanation
Indices: 9034516--9034796 Score: 323
Period size: 70 Copynumber: 4.0 Consensus size: 69
9034506 TGATGTATTG
* * * * * * * * *
9034516 TGTATATGTTGCCCATTTGTTATATATATATACTGTTCAATCTTGGTGTAAAAATACTGCTCAAT
1 TGTATATGTTGCCTATTTG-T-TGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
9034581 TTGGTA
64 TTGGTA
*
9034587 TGTATATGTTGCCTAATTGTTGTATATCTATGCTGTTAAATTTTGGTGT-AAAGTGCTGTTAAAT
1 TGTATATGTTGCCTATTTGTTGTATA--TATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
9034651 TTGGTA
64 TTGGTA
* * * *
9034657 TATATATGTTGTCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTATTAAATTT
1 TGTATATGTTGCCTATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTT
9034722 GGTA
66 GGTA
* * * * *
9034726 TGTATATGCTGCCCATTTGTTGTATATAAGCTGTCCAAATTTTGGTGTATAAA-TGCTGTTTAAT
1 TGTATATGTTGCCTATTTGTTGTATATATGCTGT-TAAATTTTGGTGTA-AAAGTGCTGTTAAAT
9034790 TTGGTA
64 TTGGTA
9034796 T
1 T
9034797 ATAATTGCTA
Statistics
Matches: 181, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
68 21 0.12
69 53 0.29
70 69 0.38
71 38 0.21
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (69 bp):
TGTATATGTTGCCTATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTT
GGTA
Found at i:9034792 original size:23 final size:23
Alignment explanation
Indices: 9034616--9034814 Score: 113
Period size: 23 Copynumber: 8.6 Consensus size: 23
9034606 TTGTATATCT
9034616 ATGCTGTTAAATTTTGGTGTA-AA
1 ATGCTGTTAAA-TTTGGTGTATAA
* * *
9034639 GTGCTGTTAAATTTGGTATATAT
1 ATGCTGTTAAATTTGGTGTATAA
* * *
9034662 ATGTTGTCT--ATTTGCTGTATAT
1 ATGCTGT-TAAATTTGGTGTATAA
9034684 ATGCTGTTAAATTTTGGTGTA-AA
1 ATGCTGTTAAA-TTTGGTGTATAA
* * * *
9034707 AGTGCTATTAAATTTGGTATGTAT
1 A-TGCTGTTAAATTTGGTGTATAA
*** *
9034731 ATGCTG-CCCATTTGTTGTATATA
1 ATGCTGTTAAATTTGGTGTATA-A
*
9034754 A-GCTGTCCAAATTTTGGTGTATAA
1 ATGCTGT-TAAA-TTTGGTGTATAA
* *
9034778 ATGCTGTTTAATTTGGTATATAA
1 ATGCTGTTAAATTTGGTGTATAA
* *
9034801 TTGCTATTCAAATT
1 ATGCTGTT-AAATT
9034815 AATGTATAAG
Statistics
Matches: 132, Mismatches: 31, Indels: 25
0.70 0.16 0.13
Matches are distributed among these distances:
21 1 0.01
22 38 0.29
23 48 0.36
24 30 0.23
25 15 0.11
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (23 bp):
ATGCTGTTAAATTTGGTGTATAA
Found at i:9038537 original size:22 final size:25
Alignment explanation
Indices: 9038511--9038564 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
9038501 TTATAAATTC
9038511 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
9038533 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
9038558 AATTTAA
1 AATTTAA
9038565 TCGTCCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:9038694 original size:22 final size:21
Alignment explanation
Indices: 9038661--9038702 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9038651 TAATTTTACC
*
9038661 AAAAATCAATCAACA-AAGGAG
1 AAAAAACAATC-ACATAAGGAG
9038682 AAAAAACATATCACATAAGGA
1 AAAAAACA-ATCACATAAGGA
9038703 TTATATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.62, C:0.14, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAAAACAATCACATAAGGAG
Found at i:9040210 original size:17 final size:18
Alignment explanation
Indices: 9040185--9040222 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
9040175 TCTTAAATTT
9040185 AATGAAAATA-ATTATTA
1 AATGAAAATATATTATTA
* *
9040202 AATGTAAATATATTTTTA
1 AATGAAAATATATTATTA
9040220 AAT
1 AAT
9040223 AGTATATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
AATGAAAATATATTATTA
Found at i:9041550 original size:26 final size:26
Alignment explanation
Indices: 9041521--9041570 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9041511 ACGGCATCAT
* *
9041521 AGATAGTCCATTAGGACGTTAAACTA
1 AGATAGTCCATCAGGACGTGAAACTA
* *
9041547 AGATTGTTCATCAGGACGTGAAAC
1 AGATAGTCCATCAGGACGTGAAAC
9041571 ACGAGGTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (26 bp):
AGATAGTCCATCAGGACGTGAAACTA
Found at i:9043603 original size:15 final size:16
Alignment explanation
Indices: 9043575--9043610 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 16
9043565 TTTTTTTTTA
9043575 TTTTAATTAATTAATTT
1 TTTTAATT-ATTAATTT
9043592 TTTTAATT-TTAATTT
1 TTTTAATTATTAATTT
9043607 TTTT
1 TTTT
9043611 CCCAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
17 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTAATTATTAATTT
Found at i:9044528 original size:18 final size:17
Alignment explanation
Indices: 9044505--9044538 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9044495 TAGTATCTGG
9044505 TATCTGATCATTCTATTT
1 TATCTGAT-ATTCTATTT
*
9044523 TATCTGGTATTCTATT
1 TATCTGATATTCTATT
9044539 ATATTTGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (17 bp):
TATCTGATATTCTATTT
Found at i:9045633 original size:18 final size:20
Alignment explanation
Indices: 9045603--9045639 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9045593 TAGTTTAAGA
9045603 CTGAAACCTTCTGA-AAATC
1 CTGAAACCTTCTGATAAATC
9045622 CTGAAA-CTTCTGATAAAT
1 CTGAAACCTTCTGATAAAT
9045640 ATTTGAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (20 bp):
CTGAAACCTTCTGATAAATC
Found at i:9058056 original size:17 final size:17
Alignment explanation
Indices: 9058034--9058071 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
9058024 TTTACAAGTT
9058034 AAATCCGATGCATGCAA
1 AAATCCGATGCATGCAA
*
9058051 AAATCCGATGCATGCCA
1 AAATCCGATGCATGCAA
9058068 AAAT
1 AAAT
9058072 TAAATCCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (17 bp):
AAATCCGATGCATGCAA
Found at i:9058076 original size:22 final size:19
Alignment explanation
Indices: 9058032--9058080 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 19
9058022 CTTTTACAAG
9058032 TTAAATCCGATGCATGCAA
1 TTAAATCCGATGCATGCAA
9058051 --AAATCCGATGCATGCCAAAA
1 TTAAATCCGATGCATG-C--AA
9058071 TTAAATCCGA
1 TTAAATCCGA
9058081 ACAATAGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
17 14 0.56
18 1 0.04
20 2 0.08
22 8 0.32
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.22
Consensus pattern (19 bp):
TTAAATCCGATGCATGCAA
Found at i:9058547 original size:40 final size:42
Alignment explanation
Indices: 9058492--9058595 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 42
9058482 AAAATTATAC
* * *
9058492 TTTGCGGCATTTTTCTTC-T-AGCGCCGCTAATGCTTGACCT
1 TTTGCGGCGTTTTTCTTCATAAACACCGCTAATGCTTGACCT
* *
9058532 TTTGCGGTGTTTTTC-TCATAAACACCGTTAATGCTTGACCT
1 TTTGCGGCGTTTTTCTTCATAAACACCGCTAATGCTTGACCT
*
9058573 TTTGCAGCGTTTTTC-TCATAAAC
1 TTTGCGGCGTTTTTCTTCATAAAC
9058596 GCCACTACTG
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
39 2 0.04
40 14 0.25
41 39 0.71
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (42 bp):
TTTGCGGCGTTTTTCTTCATAAACACCGCTAATGCTTGACCT
Found at i:9064709 original size:22 final size:22
Alignment explanation
Indices: 9064683--9064734 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
9064673 AGAAAGCGAA
9064683 GGGAGAGGGGAGATAAGGAAAG
1 GGGAGAGGGGAGATAAGGAAAG
9064705 GGGAGAGGGGAGATAAGGAAAG
1 GGGAGAGGGGAGATAAGGAAAG
9064727 GGGAGAGG
1 GGGAGAGG
9064735 AGAAGGGACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.58, T:0.04
Consensus pattern (22 bp):
GGGAGAGGGGAGATAAGGAAAG
Found at i:9069650 original size:53 final size:53
Alignment explanation
Indices: 9069570--9069674 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
9069560 CTCCTAAGTA
9069570 TAGAAACATGAATTTAAAAGATTAGGAGCATAAAATTCACTAATTTACATAAC
1 TAGAAACATGAATTTAAAAGATTAGGAGCATAAAATTCACTAATTTACATAAC
* *
9069623 TAGAAACATGAATTT-AAAGCATTAGGAGCATCAACTTCACTAATTTACATAA
1 TAGAAACATGAATTTAAAAG-ATTAGGAGCATAAAATTCACTAATTTACATAA
9069675 TTAATCATCC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 4 0.08
53 45 0.92
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (53 bp):
TAGAAACATGAATTTAAAAGATTAGGAGCATAAAATTCACTAATTTACATAAC
Found at i:9070805 original size:169 final size:170
Alignment explanation
Indices: 9070516--9070844 Score: 464
Period size: 169 Copynumber: 1.9 Consensus size: 170
9070506 AATTAGGACT
* * *
9070516 AAACCGTAATGTTTATAAAATTCTAGGTTGACATCGCGAAGTTATAGGGTTCCTTGTCGCGACAC
1 AAACCGTAATGTTTACAAAATTCTAGGTTGACATCGCGAAGTTATAGGGCTCCTCGTCGCGACAC
* * * * **
9070581 AATATAGTAACTAGGTCTCATCTCAACAACCTATGCTTGACATAGTGTCGTGGCATAGTGGCCTG
66 AACATACTAACTAGGTCTCATCTAAACAACCCATGCTTGACATAGCATCGTGGCATAGTGGCCTG
* *
9070646 ATCTCGTCGCGATGATCTACA-TCGACGTCGCGATATGAC
131 ATCTCGTCGCGACGATCTACACTCAACGTCGCGATATGAC
* * * *
9070685 AAACTGTAATGTTTACAAAATTTTAGGTTGACGTCGCGAAGTTAT-GAGGCTCCTCGTCGTGACA
1 AAACCGTAATGTTTACAAAATTCTAGGTTGACATCGCGAAGTTATAG-GGCTCCTCGTCGCGACA
* * *
9070749 CAACATACTAACTAGGTCTCATCTAAACAACCCATGCTTGACATCGCATTGTGGCATGGTGGCCT
65 CAACATACTAACTAGGTCTCATCTAAACAACCCATGCTTGACATAGCATCGTGGCATAGTGGCCT
*
9070814 GATCTCGTCGCGACGATTTACACTCAACGTC
130 GATCTCGTCGCGACGATCTACACTCAACGTC
9070845 ACAATGTGAC
Statistics
Matches: 139, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
168 1 0.01
169 131 0.94
170 7 0.05
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (170 bp):
AAACCGTAATGTTTACAAAATTCTAGGTTGACATCGCGAAGTTATAGGGCTCCTCGTCGCGACAC
AACATACTAACTAGGTCTCATCTAAACAACCCATGCTTGACATAGCATCGTGGCATAGTGGCCTG
ATCTCGTCGCGACGATCTACACTCAACGTCGCGATATGAC
Found at i:9072127 original size:21 final size:21
Alignment explanation
Indices: 9072097--9072138 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9072087 GCAACCCTAG
*
9072097 TTAAACAAACTAGGGTTTATC
1 TTAAAAAAACTAGGGTTTATC
9072118 TTAAAAAAACTAGGGTTTATC
1 TTAAAAAAACTAGGGTTTATC
9072139 GTCCCTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (21 bp):
TTAAAAAAACTAGGGTTTATC
Found at i:9075044 original size:21 final size:21
Alignment explanation
Indices: 9075020--9075063 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9075010 TTATATATGT
*
9075020 TTAATTAAGC-TTTAGTTAATA
1 TTAATTAA-CTTTTAATTAATA
9075041 TTAATTAACTTTTAATTAATA
1 TTAATTAACTTTTAATTAATA
9075062 TT
1 TT
9075064 TTCTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (21 bp):
TTAATTAACTTTTAATTAATA
Found at i:9078944 original size:6 final size:6
Alignment explanation
Indices: 9078933--9078962 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
9078923 ATGTCCATTG
9078933 TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT
9078963 AAAATGTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:9079773 original size:2 final size:2
Alignment explanation
Indices: 9079766--9079791 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9079756 TGCGGACTTA
9079766 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
9079792 GTACATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9080328 original size:27 final size:27
Alignment explanation
Indices: 9080290--9080343 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
9080280 TTACCATCAG
9080290 AAAGCCTGATATAAGCTTTGATGATTT
1 AAAGCCTGATATAAGCTTTGATGATTT
* *
9080317 AAAGCCTTATATAAGTTTTGATGATTT
1 AAAGCCTGATATAAGCTTTGATGATTT
9080344 CTGGAATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (27 bp):
AAAGCCTGATATAAGCTTTGATGATTT
Found at i:9092185 original size:20 final size:21
Alignment explanation
Indices: 9092160--9092201 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
9092150 TCAATTGGTC
*
9092160 ATAATACTCTATATA-AACAA
1 ATAATAATCTATATATAACAA
9092180 ATAATAATCTATATATAACAA
1 ATAATAATCTATATATAACAA
9092201 A
1 A
9092202 GTAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAATAATCTATATATAACAA
Found at i:9092197 original size:22 final size:22
Alignment explanation
Indices: 9092160--9092201 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9092150 TCAATTGGTC
*
9092160 ATAATACTCTATATAAACAAATA
1 ATAATACTATATAT-AACAAATA
9092183 ATAAT-CTATATATAACAAA
1 ATAATACTATATATAACAAA
9092202 GTAAAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAATACTATATATAACAAATA
Found at i:9092761 original size:31 final size:29
Alignment explanation
Indices: 9092726--9092805 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
9092716 AATCTCAAAA
*
9092726 TTATACATGAACTTTGGTCTAATGTGCAATT
1 TTATACATGAACTTTGAT-T-ATGTGCAATT
*
9092757 TTATACAT-AGACTTTGATTTTGTGCAATT
1 TTATACATGA-ACTTTGATTATGTGCAATT
*
9092786 TTATACATGAAAATTTGATT
1 TTATACATG-AACTTTGATT
9092806 TGATACAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 17 0.40
30 10 0.23
31 16 0.37
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (29 bp):
TTATACATGAACTTTGATTATGTGCAATT
Found at i:9092807 original size:29 final size:29
Alignment explanation
Indices: 9092748--9092806 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
9092738 TTTGGTCTAA
* *
9092748 TGTGCAATTTTATACATAGACTTTGATTT
1 TGTGCAATTTTATACATAAAATTTGATTT
9092777 TGTGCAATTTTATACATGAAAATTTGATTT
1 TGTGCAATTTTATACAT-AAAATTTGATTT
9092807 GATACAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (29 bp):
TGTGCAATTTTATACATAAAATTTGATTT
Found at i:9092815 original size:30 final size:29
Alignment explanation
Indices: 9092752--9092815 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
9092742 GTCTAATGTG
* * *
9092752 CAATTTTATACATAGACTTTGATTTTGTG
1 CAATTTTATACATAAAATTTGATTTTGTA
9092781 CAATTTTATACATGAAAATTTGA-TTTGATA
1 CAATTTTATACAT-AAAATTTGATTTTG-TA
9092811 CAATT
1 CAATT
9092816 CTCACAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (29 bp):
CAATTTTATACATAAAATTTGATTTTGTA
Found at i:9104863 original size:18 final size:18
Alignment explanation
Indices: 9104840--9104877 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9104830 AAACAAGTTC
*
9104840 ATATAAA-AATCAAAATAT
1 ATATAAATAAT-AAAACAT
9104858 ATATAAATAATAAAACAT
1 ATATAAATAATAAAACAT
9104876 AT
1 AT
9104878 GATTTAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (18 bp):
ATATAAATAATAAAACAT
Found at i:9108307 original size:18 final size:18
Alignment explanation
Indices: 9108273--9108318 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
9108263 AAAAAGGTTT
* *
9108273 TTTTTTAA-AATATTTTA
1 TTTTTTAATTATAATTTA
9108290 TTTTTTAATTATAATTTA
1 TTTTTTAATTATAATTTA
*
9108308 TTTTATAATTA
1 TTTTTTAATTA
9108319 ATTATTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTTAATTATAATTTA
Found at i:9116238 original size:13 final size:13
Alignment explanation
Indices: 9116220--9116265 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
9116210 TTTTATGCCA
9116220 AAAGAAGAACCAT
1 AAAGAAGAACCAT
* * *
9116233 AAAGAACAACAAAA
1 AAAGAAGAAC-CAT
9116247 AAAGAAGAACCAT
1 AAAGAAGAACCAT
9116260 AAAGAA
1 AAAGAA
9116266 CAACAAAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.70, C:0.13, G:0.13, T:0.04
Consensus pattern (13 bp):
AAAGAAGAACCAT
Found at i:9116255 original size:27 final size:27
Alignment explanation
Indices: 9116219--9116274 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
9116209 ATTTTATGCC
9116219 AAAAGAAGAACCATAAAGAACAACAAA
1 AAAAGAAGAACCATAAAGAACAACAAA
9116246 AAAAGAAGAACCATAAAGAACAACAAA
1 AAAAGAAGAACCATAAAGAACAACAAA
9116273 AA
1 AA
9116275 GAGCGCACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.71, C:0.14, G:0.11, T:0.04
Consensus pattern (27 bp):
AAAAGAAGAACCATAAAGAACAACAAA
Found at i:9119465 original size:16 final size:15
Alignment explanation
Indices: 9119444--9119476 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
9119434 AAACTTACAC
9119444 TATTATTTATCTTATT
1 TATTATTTAT-TTATT
9119460 TATTATTTATTTATT
1 TATTATTTATTTATT
9119475 TA
1 TA
9119477 CATATATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTATTTATT
Found at i:9126814 original size:17 final size:17
Alignment explanation
Indices: 9126794--9126831 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9126784 TTTTTTATGA
9126794 TATTATCATTA-TACCAT
1 TATTATCATTATTA-CAT
*
9126811 TATTATTATTATTACAT
1 TATTATCATTATTACAT
9126828 TATT
1 TATT
9126832 TGCTATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATCATTATTACAT
Found at i:9126868 original size:6 final size:6
Alignment explanation
Indices: 9126859--9126890 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
9126849 TTGTATTTAC
9126859 TATACA TATACA TATACA TATACA TATACA TA
1 TATACA TATACA TATACA TATACA TATACA TA
9126891 CGCATATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
TATACA
Found at i:9126896 original size:18 final size:18
Alignment explanation
Indices: 9126859--9126907 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
9126849 TTGTATTTAC
*
9126859 TATACATATACATATACA
1 TATACATATACATACACA
*
9126877 TATACATATACATACGCA
1 TATACATATACATACACA
*
9126895 TATTTCATATACA
1 TA-TACATATACA
9126908 ATATATGTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (18 bp):
TATACATATACATACACA
Found at i:9127196 original size:17 final size:16
Alignment explanation
Indices: 9127174--9127213 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
9127164 TCTATTATTT
*
9127174 TATATACATATTGTACA
1 TATATACATATT-TAAA
9127191 TATATACATATTTAAA
1 TATATACATATTTAAA
9127207 TATATAC
1 TATATAC
9127214 GAATGCGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (16 bp):
TATATACATATTTAAA
Found at i:9127422 original size:5 final size:5
Alignment explanation
Indices: 9127412--9127442 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
9127402 TGAGCATTCG
*
9127412 ATCGA ATCGA ATAGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
9127443 AATTTTCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:9128449 original size:9 final size:9
Alignment explanation
Indices: 9128435--9128471 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9128425 TATAGTTTGA
9128435 TATTCGAAT
1 TATTCGAAT
9128444 TATTCGAAT
1 TATTCGAAT
*
9128453 TATTCGAGT
1 TATTCGAAT
9128462 TATTCGAAT
1 TATTCGAAT
9128471 T
1 T
9128472 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9129417 original size:23 final size:21
Alignment explanation
Indices: 9129391--9129435 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
9129381 AATTTTTGTT
9129391 TTCAAAAAAATGATTTCGATAGC
1 TTCAAAAAAAT-ATTTCGA-AGC
**
9129414 TTCAAATTAATATTTCGAAGC
1 TTCAAAAAAATATTTCGAAGC
9129435 T
1 T
9129436 ATACAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 9 0.45
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (21 bp):
TTCAAAAAAATATTTCGAAGC
Found at i:9131389 original size:25 final size:25
Alignment explanation
Indices: 9131361--9131409 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9131351 ATACTAATTG
9131361 AGTTAAAATTTAATTAATATTATTA
1 AGTTAAAATTTAATTAATATTATTA
9131386 AGTTAAAATTTAATTAATATTATT
1 AGTTAAAATTTAATTAATATTATT
9131410 TTTATTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
AGTTAAAATTTAATTAATATTATTA
Found at i:9133577 original size:30 final size:29
Alignment explanation
Indices: 9133517--9133580 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
9133507 TATTTTAATT
* *
9133517 TAAATTATGCATATATGTGTATTTACAAAA
1 TAAATTATGCATATAAGTATATTTA-AAAA
9133547 TAAATTATGACATATAAGTATATCTT-AAAA
1 TAAATTATG-CATATAAGTATAT-TTAAAAA
9133577 TAAA
1 TAAA
9133581 ATGCCTATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 17 0.57
31 11 0.37
32 2 0.07
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (29 bp):
TAAATTATGCATATAAGTATATTTAAAAA
Found at i:9140260 original size:4 final size:4
Alignment explanation
Indices: 9140251--9140275 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9140241 TTAAGATTAA
9140251 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
9140276 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:9140548 original size:16 final size:17
Alignment explanation
Indices: 9140529--9140561 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9140519 ATAAATTCTA
9140529 TTAAAT-TATAATTATT
1 TTAAATATATAATTATT
9140545 TTAAATATATAATTATT
1 TTAAATATATAATTATT
9140562 ACAACTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAAATATATAATTATT
Found at i:9142255 original size:12 final size:11
Alignment explanation
Indices: 9142237--9142261 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9142227 TATTTTTTAA
9142237 TTTAAAAATAC
1 TTTAAAAATAC
9142248 TTTAAAAATAC
1 TTTAAAAATAC
9142259 TTT
1 TTT
9142262 TTTTAAAATA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (11 bp):
TTTAAAAATAC
Found at i:9142268 original size:15 final size:14
Alignment explanation
Indices: 9142252--9142311 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 14
9142242 AAATACTTTA
9142252 AAAATACTTTTTTT
1 AAAATACTTTTTTT
9142266 AAAATACTTTTTAAAATTT
1 AAAATAC-TTTT----TTT
9142285 AAAATA---TTTTT
1 AAAATACTTTTTTT
9142296 AAAATACTTTTTTT
1 AAAATACTTTTTTT
9142310 AA
1 AA
9142312 TTTTTGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
11 9 0.24
14 14 0.37
15 6 0.16
19 9 0.24
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (14 bp):
AAAATACTTTTTTT
Found at i:9142276 original size:11 final size:11
Alignment explanation
Indices: 9142241--9142306 Score: 57
Period size: 11 Copynumber: 6.0 Consensus size: 11
9142231 TTTTAATTTA
*
9142241 AAAATACTTTA
1 AAAATACTTTT
9142252 AAAATACTTTTTTT
1 AAAATAC---TTTT
9142266 AAAATACTTTT
1 AAAATACTTTT
*
9142277 TAAA-A--TTT
1 AAAATACTTTT
*
9142285 AAAATATTTTT
1 AAAATACTTTT
9142296 AAAATACTTTT
1 AAAATACTTTT
9142307 TTTAATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
8 6 0.13
9 1 0.02
10 1 0.02
11 27 0.60
14 10 0.22
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATACTTTT
Found at i:9142296 original size:18 final size:19
Alignment explanation
Indices: 9142263--9142300 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
9142253 AAATACTTTT
9142263 TTTAAAATACTTTTTAAAA
1 TTTAAAATACTTTTTAAAA
9142282 TTTAAAATA-TTTTTAAAA
1 TTTAAAATACTTTTTAAAA
9142300 T
1 T
9142301 ACTTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAAAATACTTTTTAAAA
Found at i:9145473 original size:11 final size:11
Alignment explanation
Indices: 9145435--9145472 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9145425 TTAACTCCTT
*
9145435 TTTTTTAAATAA
1 TTTTTAAAAT-A
9145447 TTTTTAAAATA
1 TTTTTAAAATA
9145458 TTTTTAAAAT-
1 TTTTTAAAATA
9145468 TTTTT
1 TTTTT
9145473 TTAAACCGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 5 0.20
11 11 0.44
12 9 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTAAAATA
Found at i:9145473 original size:12 final size:12
Alignment explanation
Indices: 9145435--9145477 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
9145425 TTAACTCCTT
* *
9145435 TTTTTTAAATAA
1 TTTTTAAAATTA
9145447 TTTTTAAAA-TA
1 TTTTTAAAATTA
*
9145458 TTTTTAAAATTT
1 TTTTTAAAATTA
9145470 TTTTTAAA
1 TTTTTAAA
9145478 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTTAAAATTA
Found at i:9147717 original size:45 final size:45
Alignment explanation
Indices: 9147668--9147755 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
9147658 ATATTTTGAA
* *
9147668 TATTTTGATATTATTTTATATAATAAAATAGAAATTTTTTTGAGT
1 TATTTTGATATTATTTGATATAATAAAATAGAAATTTATTTGAGT
* *
9147713 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATATAATAAAATAGAAATTTATTTGA
9147756 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (45 bp):
TATTTTGATATTATTTGATATAATAAAATAGAAATTTATTTGAGT
Found at i:9147751 original size:25 final size:25
Alignment explanation
Indices: 9147723--9147770 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
9147713 TATTTTGATA
9147723 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
9147748 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
9147771 ATTTTCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:9148542 original size:33 final size:34
Alignment explanation
Indices: 9148467--9148544 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 34
9148457 AACTCCTCAC
* *
9148467 TCCAAAAAAAAACTCCGAAAATTCTTCGAAAAAA
1 TCCAAAAAATAACTCCGAAAATTCTTCAAAAAAA
*
9148501 TCCCAAAAATAA-TCCGAAAATTC-TCAAAAAAA
1 TCCAAAAAATAACTCCGAAAATTCTTCAAAAAAA
*
9148533 TCTTAAAAAATA
1 TC-CAAAAAATA
9148545 CGAAATTCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 10 0.26
33 18 0.47
34 10 0.26
ACGTcount: A:0.56, C:0.19, G:0.04, T:0.21
Consensus pattern (34 bp):
TCCAAAAAATAACTCCGAAAATTCTTCAAAAAAA
Found at i:9152585 original size:40 final size:39
Alignment explanation
Indices: 9152518--9152626 Score: 128
Period size: 40 Copynumber: 2.8 Consensus size: 39
9152508 GCGTTTGGAT
9152518 AAAAAACGCCGCTAAAAATAAGCATTAGCGACGCTATTA
1 AAAAAACGCCGCTAAAAATAAGCATTAGCGACGCTATTA
* * * * *
9152557 AAAAAACGCCGCTAAAGATCAAGTATTAGCGGCGCTTTTT
1 AAAAAACGCCGCTAAAAAT-AAGCATTAGCGACGCTATTA
** * *
9152597 GGAAAATGCCGCTAAAAATGAGCATTAGCG
1 AAAAAACGCCGCTAAAAATAAGCATTAGCG
9152627 GGGTTTTCCA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 27 0.47
40 31 0.53
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (39 bp):
AAAAAACGCCGCTAAAAATAAGCATTAGCGACGCTATTA
Found at i:9155360 original size:17 final size:18
Alignment explanation
Indices: 9155338--9155371 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9155328 ATGAGTAAAG
9155338 AAAAAC-TTTTTTATTTA
1 AAAAACTTTTTTTATTTA
9155355 AAAAACTTTTTTTATTT
1 AAAAACTTTTTTTATTT
9155372 TATAGGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
AAAAACTTTTTTTATTTA
Found at i:9156819 original size:43 final size:42
Alignment explanation
Indices: 9156746--9157015 Score: 228
Period size: 43 Copynumber: 6.3 Consensus size: 42
9156736 AAAGTCATGT
* * * * * *
9156746 TTTTAGTGGCATTTGTGAAAAAGCGCCGCTAAGGGTCATGAG
1 TTTTAGCGGCGTTTGTGGAGAAGCGCCGCTAAAGGTCAAGAG
* * * *
9156788 TTTTAGTGGTGTTTGTGGTAGAAGCGTCGCTAAAGGCCAAGA-
1 TTTTAGCGGCGTTTGTGG-AGAAGCGCCGCTAAAGGTCAAGAG
* *
9156830 TCTTTAGCGGCGTTTGTTGGAGAAGCGTCGCTAAAGGTCACGAG
1 T-TTTAGCGGCGTTTG-TGGAGAAGCGCCGCTAAAGGTCAAGAG
* * * *
9156874 CTTTAGCAGCGTTTGTGGGGGAAGCGCCGCTAAAGGTCACGA-
1 TTTTAGCGGCGTTTGT-GGAGAAGCGCCGCTAAAGGTCAAGAG
*
9156916 TCTTTAGCGGCGATTGTGTGG-GAAGTGCCGCTAAAGGTCACA-A-
1 T-TTTAGCGGCG-TT-TGTGGAGAAGCGCCGCTAAAGGTCA-AGAG
*
9156959 TCTTTAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCACGA-
1 T-TTTAGCGGCGTTTGTG-GAGAAGCGCCGCTAAAGGTCAAGAG
*
9157002 TCTTTAGCGACGTT
1 T-TTTAGCGGCGTT
9157016 GGCGCTTGTT
Statistics
Matches: 193, Mismatches: 23, Indels: 23
0.81 0.10 0.10
Matches are distributed among these distances:
41 4 0.02
42 20 0.10
43 159 0.82
44 7 0.04
45 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.27
Consensus pattern (42 bp):
TTTTAGCGGCGTTTGTGGAGAAGCGCCGCTAAAGGTCAAGAG
Found at i:9156891 original size:86 final size:85
Alignment explanation
Indices: 9156766--9157015 Score: 313
Period size: 86 Copynumber: 2.9 Consensus size: 85
9156756 ATTTGTGAAA
* * * * * * * *
9156766 AAGCGCCGCTAAGGGTCATGAGTTTTAGTGGTGTTTGTGGTAGAAGCGTCGCTAAAGGCCAAGAT
1 AAGCGCCGCTAAAGGTCACGAGCTTTAGCGGCGTTTGTGG-AGAAGCGCCGCTAAAGGTCACGAT
9156831 CTTTAGCGGCGTTTGT-TGGAG
65 CTTTAGCGGCGTTTGTGTGG-G
* * *
9156852 AAGCGTCGCTAAAGGTCACGAGCTTTAGCAGCGTTTGTGGGGGAAGCGCCGCTAAAGGTCACGAT
1 AAGCGCCGCTAAAGGTCACGAGCTTTAGCGGCGTTTGT-GGAGAAGCGCCGCTAAAGGTCACGAT
*
9156917 CTTTAGCGGCGATTGTGTGGG
65 CTTTAGCGGCGTTTGTGTGGG
* * *
9156938 AAGTGCCGCTAAAGGTCACAATCTTTAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCACGAT
1 AAGCGCCGCTAAAGGTCACGAGCTTTAGCGGCGTTTGTG-GAGAAGCGCCGCTAAAGGTCACGAT
*
9157003 CTTTAGCGACGTT
65 CTTTAGCGGCGTT
9157016 GGCGCTTGTT
Statistics
Matches: 141, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.01
86 135 0.96
87 5 0.04
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (85 bp):
AAGCGCCGCTAAAGGTCACGAGCTTTAGCGGCGTTTGTGGAGAAGCGCCGCTAAAGGTCACGATC
TTTAGCGGCGTTTGTGTGGG
Found at i:9161891 original size:39 final size:39
Alignment explanation
Indices: 9161837--9161917 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
9161827 ACGTTGTTAG
9161837 AAACATTGGGAAATTATATTCACCAACAGTTAAAACGAA
1 AAACATTGGGAAATTATATTCACCAACAGTTAAAACGAA
9161876 AAACATTGGGAAATTATATTCACCAACAGTTAAAACGAA
1 AAACATTGGGAAATTATATTCACCAACAGTTAAAACGAA
9161915 AAA
1 AAA
9161918 AAGGGGGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (39 bp):
AAACATTGGGAAATTATATTCACCAACAGTTAAAACGAA
Found at i:9168460 original size:27 final size:27
Alignment explanation
Indices: 9168422--9168476 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
9168412 GTGCCAAAAA
9168422 ACCTAAAAATCATAACTTTCAGTTATT
1 ACCTAAAAATCATAACTTTCAGTTATT
9168449 ACCTAAAAATCATAACTTTCAGTTATT
1 ACCTAAAAATCATAACTTTCAGTTATT
9168476 A
1 A
9168477 GCACATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (27 bp):
ACCTAAAAATCATAACTTTCAGTTATT
Found at i:9170512 original size:50 final size:50
Alignment explanation
Indices: 9170437--9170534 Score: 196
Period size: 50 Copynumber: 2.0 Consensus size: 50
9170427 TCAATTACTA
9170437 ATCCACTCTAAAACTCTAATATGAAGTTAGTTACAAACCCTGAAGTGAGT
1 ATCCACTCTAAAACTCTAATATGAAGTTAGTTACAAACCCTGAAGTGAGT
9170487 ATCCACTCTAAAACTCTAATATGAAGTTAGTTACAAACCCTGAAGTGA
1 ATCCACTCTAAAACTCTAATATGAAGTTAGTTACAAACCCTGAAGTGA
9170535 ATTAATCTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (50 bp):
ATCCACTCTAAAACTCTAATATGAAGTTAGTTACAAACCCTGAAGTGAGT
Found at i:9170524 original size:24 final size:24
Alignment explanation
Indices: 9170447--9170524 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
9170437 ATCCACTCTA
9170447 AAACTCTAATATGAAGTTAGTTAC
1 AAACTCTAATATGAAGTTAGTTAC
* * *
9170471 AAACCCTGAA-GTG-AGTATCCACTCTA-
1 AAACTCT-AATATGAAGT-T--AGT-TAC
9170497 AAACTCTAATATGAAGTTAGTTAC
1 AAACTCTAATATGAAGTTAGTTAC
9170521 AAAC
1 AAAC
9170525 CCTGAAGTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 16
0.65 0.10 0.26
Matches are distributed among these distances:
23 5 0.12
24 15 0.38
25 4 0.10
26 11 0.28
27 5 0.12
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (24 bp):
AAACTCTAATATGAAGTTAGTTAC
Found at i:9170535 original size:24 final size:24
Alignment explanation
Indices: 9170458--9170535 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
9170448 AACTCTAATA
9170458 TGAAGTTAGTTACAAACCCTGAAG
1 TGAAGTTAGTTACAAACCCTGAAG
* * *
9170482 TG-AGTATCCACTCTA-AAACTCT-AATA
1 TGAAGT-T--AGT-TACAAACCCTGAA-G
9170508 TGAAGTTAGTTACAAACCCTGAAG
1 TGAAGTTAGTTACAAACCCTGAAG
9170532 TGAA
1 TGAA
9170536 TTAATCTTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 16
0.65 0.10 0.26
Matches are distributed among these distances:
23 5 0.12
24 15 0.38
25 4 0.10
26 11 0.28
27 5 0.12
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (24 bp):
TGAAGTTAGTTACAAACCCTGAAG
Found at i:9171755 original size:45 final size:45
Alignment explanation
Indices: 9171691--9171784 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
9171681 AAAATGAGGA
9171691 GAAAACTAAAATAGCCCTGAATTAGGATGAATGTCTAGAGATAGT
1 GAAAACTAAAATAGCCCTGAATTAGGATGAATGTCTAGAGATAGT
9171736 GAAAACTAAAATAGCCCTGAATTAGGATGAATGTCTAGAGATAGT
1 GAAAACTAAAATAGCCCTGAATTAGGATGAATGTCTAGAGATAGT
9171781 GAAA
1 GAAA
9171785 GCTTGAGGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (45 bp):
GAAAACTAAAATAGCCCTGAATTAGGATGAATGTCTAGAGATAGT
Found at i:9175758 original size:21 final size:21
Alignment explanation
Indices: 9175734--9175775 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9175724 AGGTTGGATG
9175734 ATTTCTCCATAGTGGGTTATA
1 ATTTCTCCATAGTGGGTTATA
9175755 ATTTCTCCATAGTGGGTTATA
1 ATTTCTCCATAGTGGGTTATA
9175776 TGTATTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (21 bp):
ATTTCTCCATAGTGGGTTATA
Found at i:9178126 original size:8 final size:8
Alignment explanation
Indices: 9178108--9178239 Score: 50
Period size: 8 Copynumber: 14.9 Consensus size: 8
9178098 TATTTTTTCA
9178108 TAAAAATAT
1 TAAAAA-AT
9178117 TAAAAAAT
1 TAAAAAAT
*
9178125 TATAAGGAAT
1 TA-AA-AAAT
9178135 TAGAAAAATT
1 TA-AAAAA-T
*
9178145 TTAAAAAT
1 TAAAAAAT
9178153 TAAAAAA-
1 TAAAAAAT
9178160 TATAAAAAT
1 TA-AAAAAT
**
9178169 TATTAAATCT
1 TA--AAAAAT
*
9178179 TAAAAAAA
1 TAAAAAAT
*
9178187 TATGAAAAT
1 TA-AAAAAT
*
9178196 TGATATAGAAT
1 T-A-A-AAAAT
9178207 TATAAAAAT
1 TA-AAAAAT
*
9178216 TATAAAAT
1 TAAAAAAT
*
9178224 TATAAAAT
1 TAAAAAAT
9178232 ATAAAAAA
1 -TAAAAAA
9178240 ATCTAATAAA
Statistics
Matches: 96, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
7 2 0.02
8 34 0.35
9 34 0.35
10 21 0.22
11 5 0.05
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (8 bp):
TAAAAAAT
Found at i:9178218 original size:9 final size:9
Alignment explanation
Indices: 9178110--9178368 Score: 111
Period size: 9 Copynumber: 27.6 Consensus size: 9
9178100 TTTTTTCATA
9178110 AAAATATTA-
1 AAAA-ATTAT
9178119 AAAAATTAT
1 AAAAATTAT
* *
9178128 AAGGAATTAG
1 AA-AAATTAT
*
9178138 AAAAATTTT
1 AAAAATTAT
9178147 AAAAATTA-
1 AAAAATTAT
9178155 AAAAA-TAT
1 AAAAATTAT
9178163 AAAAATTATT
1 AAAAATTA-T
**
9178173 AAATCTTA-
1 AAAAATTAT
*
9178181 AAAAAATAT
1 AAAAATTAT
*
9178190 GAAAATTGAT
1 AAAAATT-AT
*
9178200 ATAGAATTAT
1 A-AAAATTAT
9178210 AAAAATTAT
1 AAAAATTAT
9178219 -AAAATTAT
1 AAAAATTAT
*
9178227 -AAAATATAA
1 AAAAAT-TAT
9178236 AAAAATCTAAT
1 AAAAAT-T-AT
*
9178247 AAATTATTAAT
1 AAA-AATT-AT
*
9178258 AAAACATATTT
1 AAAA-AT-TAT
**
9178269 ATAATTTTAT
1 A-AAAATTAT
9178279 AAAACCTATT-T
1 AAAA---ATTAT
*
9178290 AAAAACTAT
1 AAAAATTAT
* *
9178299 ACAAATCAT
1 AAAAATTAT
9178308 AAAAATTAT
1 AAAAATTAT
9178317 AAAAA-TAT
1 AAAAATTAT
* *
9178325 TAAAAGTAT
1 AAAAATTAT
*
9178334 GAAAATTGAT
1 AAAAATT-AT
*
9178344 ATAAATTTAT
1 A-AAAATTAT
9178354 AAAAATTATT
1 AAAAATTA-T
9178364 AAAAA
1 AAAAA
9178369 AACATAAAGA
Statistics
Matches: 188, Mismatches: 39, Indels: 45
0.69 0.14 0.17
Matches are distributed among these distances:
7 2 0.01
8 41 0.22
9 68 0.36
10 39 0.21
11 31 0.16
12 7 0.04
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9178239 original size:17 final size:17
Alignment explanation
Indices: 9178147--9178239 Score: 64
Period size: 17 Copynumber: 5.3 Consensus size: 17
9178137 GAAAAATTTT
*
9178147 AAAAATTAAAAAATAT-
1 AAAAATTATAAAATATA
* *
9178163 AAAAATTATTAAATCTTA
1 AAAAATTATAAAAT-ATA
*
9178181 AAAAAATATGAAAATTGATA
1 AAAAATTAT-AAAA-T-ATA
* *
9178201 TAGAATTATAAAA-ATTA
1 AAAAATTATAAAATA-TA
*
9178218 TAAAATTATAAAATATA
1 AAAAATTATAAAATATA
9178235 AAAAA
1 AAAAA
9178240 ATCTAATAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
16 13 0.22
17 21 0.36
18 9 0.15
19 7 0.12
20 9 0.15
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAAATTATAAAATATA
Found at i:9178985 original size:7 final size:7
Alignment explanation
Indices: 9178973--9179003 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
9178963 TTATATCAAT
9178973 TTTAATA
1 TTTAATA
9178980 TTTAATA
1 TTTAATA
9178987 TTTAATA
1 TTTAATA
9178994 TTTAATA
1 TTTAATA
9179001 TTT
1 TTT
9179004 TTATAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTAATA
Found at i:9187248 original size:54 final size:53
Alignment explanation
Indices: 9187123--9187248 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 53
9187113 TTAAAAACAG
* * *
9187123 GGGTCACACGGTTGTGTCCCAGCCTGTGTCTCTACTCATATAACTCATTGACTT
1 GGGTCACACGG-TGTGTCCCAGCCCGTGTCTCTACCCATATAACTCATTAACTT
* * * * * *
9187177 GAGACACACGGTCGTGTCCCAGCCCGTGTCTTTGCCCGTGTAACTCATTAACTT
1 GGGTCACACGGT-GTGTCCCAGCCCGTGTCTCTACCCATATAACTCATTAACTT
9187231 GGGTCACACGGCTGTGTC
1 GGGTCACACGG-TGTGTC
9187249 GCAGGTCGTG
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
53 1 0.02
54 57 0.97
55 1 0.02
ACGTcount: A:0.17, C:0.29, G:0.24, T:0.29
Consensus pattern (53 bp):
GGGTCACACGGTGTGTCCCAGCCCGTGTCTCTACCCATATAACTCATTAACTT
Found at i:9188461 original size:15 final size:16
Alignment explanation
Indices: 9188441--9188470 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9188431 AAATTCACAT
9188441 TTATAC-CATATATAA
1 TTATACACATATATAA
9188456 TTATACACATATATA
1 TTATACACATATATA
9188471 TATATATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (16 bp):
TTATACACATATATAA
Found at i:9194944 original size:25 final size:27
Alignment explanation
Indices: 9194897--9194947 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
9194887 AAACTAAATT
*
9194897 ATAATTATTTTTAAATGTGTAATTATC
1 ATAATTATTTTTAAATGTATAATTATC
9194924 ATAATT-TTTTTAAAT-TATAATTAT
1 ATAATTATTTTTAAATGTATAATTAT
9194948 TTTTAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 9 0.39
27 6 0.26
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
ATAATTATTTTTAAATGTATAATTATC
Found at i:9194945 original size:16 final size:18
Alignment explanation
Indices: 9194924--9194965 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
9194914 TGTAATTATC
9194924 ATAATT-TTTTTAAAT-T
1 ATAATTATTTTTAAATGT
9194940 ATAATTATTTTTAAATGT
1 ATAATTATTTTTAAATGT
9194958 ATAATTAT
1 ATAATTAT
9194966 CACAACTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATAATTATTTTTAAATGT
Found at i:9196223 original size:19 final size:19
Alignment explanation
Indices: 9196199--9196236 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9196189 CAGATCTGTA
9196199 ACTTTCTCTCCTTCTGTTC
1 ACTTTCTCTCCTTCTGTTC
9196218 ACTTTCTCTCCTTCTGTTC
1 ACTTTCTCTCCTTCTGTTC
9196237 CCATATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.37, G:0.05, T:0.53
Consensus pattern (19 bp):
ACTTTCTCTCCTTCTGTTC
Found at i:9199017 original size:18 final size:17
Alignment explanation
Indices: 9198991--9199026 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9198981 TTTGGTTATA
9198991 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
9199009 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
9199026 T
1 T
9199027 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:9199795 original size:26 final size:26
Alignment explanation
Indices: 9199747--9199796 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
9199737 TCACAATTAT
*
9199747 GTAAACATTATTAAAATCAAATAATA
1 GTAAACATTATCAAAATCAAATAATA
*
9199773 GTAAA-ATTATCAAATATCTAATAA
1 GTAAACATTATCAAA-ATCAAATAA
9199797 AATAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (26 bp):
GTAAACATTATCAAAATCAAATAATA
Found at i:9201370 original size:14 final size:14
Alignment explanation
Indices: 9201351--9201377 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9201341 GAAATATTTT
9201351 GTAACAAACAAATA
1 GTAACAAACAAATA
9201365 GTAACAAACAAAT
1 GTAACAAACAAAT
9201378 GGTGAATGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (14 bp):
GTAACAAACAAATA
Found at i:9206338 original size:25 final size:25
Alignment explanation
Indices: 9206266--9206354 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 25
9206256 TACATGTATG
* *
9206266 CTCATACGAGCT--ATAAACAGTAAG
1 CTCATACGAGCTGAAT-AACAGGAAC
* * **
9206290 CTCTTTCGAGCTGAATAATGGGAAC
1 CTCATACGAGCTGAATAACAGGAAC
* *
9206315 CTCATGCGAGCTGAATAACAGGAAG
1 CTCATACGAGCTGAATAACAGGAAC
*
9206340 CTCATAAGAGCTGAA
1 CTCATACGAGCTGAA
9206355 ATCGGTGACC
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
24 10 0.20
25 38 0.76
26 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (25 bp):
CTCATACGAGCTGAATAACAGGAAC
Found at i:9213809 original size:25 final size:25
Alignment explanation
Indices: 9213755--9213812 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
9213745 AAGCTCTTTC
**
9213755 AAGCTGAATAACGGGAACCTCATGC
1 AAGCTGAATAACGGGAACCTCATAA
* *
9213780 GAGCTGAATAACGGGAAGCTCATAA
1 AAGCTGAATAACGGGAACCTCATAA
9213805 AAGCTGAA
1 AAGCTGAA
9213813 ATCAGTGACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.16
Consensus pattern (25 bp):
AAGCTGAATAACGGGAACCTCATAA
Found at i:9217077 original size:98 final size:98
Alignment explanation
Indices: 9216908--9217200 Score: 541
Period size: 98 Copynumber: 3.0 Consensus size: 98
9216898 CTAAAAATAA
* *
9216908 TAAAGGAAATATTCCGAGTTTGGGATTTTGGAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
9216973 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
**
9217006 TAAAGGAAATATTTTGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
9217071 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
9217104 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
9217169 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
9217201 ATTTTATTGC
Statistics
Matches: 188, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 188 1.00
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:9221829 original size:19 final size:16
Alignment explanation
Indices: 9221791--9221823 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9221781 TCAATCGCAG
9221791 AAAAGAAGAAAAAACA
1 AAAAGAAGAAAAAACA
*
9221807 AAAAGAAGAAAGAACA
1 AAAAGAAGAAAAAACA
9221823 A
1 A
9221824 CAAAAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAGAAGAAAAAACA
Found at i:9226909 original size:15 final size:15
Alignment explanation
Indices: 9226884--9226920 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
9226874 GAAAAAGAAT
9226884 TAAATAGAGTAAAGGG
1 TAAA-AGAGTAAAGGG
9226900 TAAAAGAGTAAAGGG
1 TAAAAGAGTAAAGGG
9226915 TAAAAG
1 TAAAAG
9226921 TTTACTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.30, T:0.16
Consensus pattern (15 bp):
TAAAAGAGTAAAGGG
Found at i:9229605 original size:24 final size:24
Alignment explanation
Indices: 9229578--9229634 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
9229568 ATGATTTTTC
9229578 CAAGTGTATGGTAAAAATAAAATA
1 CAAGTGTATGGTAAAAATAAAATA
9229602 CAAGTGTATGGTAAAAATAAAATA
1 CAAGTGTATGGTAAAAATAAAATA
9229626 CAAGTGTAT
1 CAAGTGTAT
9229635 TACATTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.26
Consensus pattern (24 bp):
CAAGTGTATGGTAAAAATAAAATA
Found at i:9229919 original size:6 final size:6
Alignment explanation
Indices: 9229908--9229938 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
9229898 GGGGAGAAAG
*
9229908 AAAGAA AAAGAA AAAGAA AAAGAG AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A
9229939 GGAAAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:9230288 original size:22 final size:24
Alignment explanation
Indices: 9230263--9230307 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
9230253 ATATGGCAAA
9230263 GAATTAA-ATAGAAAAG-AAGTAT
1 GAATTAAGATAGAAAAGTAAGTAT
*
9230285 GAATTAAGTTAGAAAAGTAAGTA
1 GAATTAAGATAGAAAAGTAAGTA
9230308 AACTTAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.20, T:0.24
Consensus pattern (24 bp):
GAATTAAGATAGAAAAGTAAGTAT
Found at i:9230666 original size:37 final size:35
Alignment explanation
Indices: 9230625--9230718 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 35
9230615 TATATGTATG
*
9230625 GAATTTAATTGAATAT-TGACTTGAAAAATGGAAAAGT
1 GAATTTAATTGAAT-TGTGA-TTG-AAAATGAAAAAGT
*
9230662 GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAAGT
1 GAA-TTT-AATTGAATTGTGATTGAAAATGAAAAAGT
* *
9230699 GAAATTGAATTGAAATGTGA
1 G-AATTTAATTGAATTGTGA
9230719 ATTTGGAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
36 12 0.24
37 17 0.35
38 9 0.18
39 11 0.22
ACGTcount: A:0.44, C:0.01, G:0.22, T:0.33
Consensus pattern (35 bp):
GAATTTAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:9230910 original size:37 final size:39
Alignment explanation
Indices: 9230851--9230946 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
9230841 TGGATAGATT
* * * *
9230851 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
9230888 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
9230927 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
9230947 TACTGGAGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:9235777 original size:85 final size:85
Alignment explanation
Indices: 9235574--9235933 Score: 477
Period size: 85 Copynumber: 4.3 Consensus size: 85
9235564 TCCCCGAGGA
* * * *
9235574 GTTGCTAAGTGCTGATTCC-CTGAAT-TATTGATTCT-AAAGGTGGTTGCTAAGTGCTGATTCCA
1 GTTGCTAAGTGCTGATTCCACCGTATAT-TTGATTGTGAAAGG-GGTTGCTATGTGCTGATTCC-
* * *
9235636 CCGTAT-ATTTGATTGTGAAAGG-G
63 CCGTATCA-CTGAATAT-AAAGGTG
* *
9235659 GTTGCTATGTGTTGATT-C-CCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCG
1 GTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCG
9235722 TATCACTGAATATAAAGGTG
66 TATCACTGAATATAAAGGTG
9235742 GTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCG
1 GTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCG
9235807 TATCACTGAATATAAAGGTG
66 TATCACTGAATATAAAGGTG
* * *
9235827 GTTTCTAAGTGCTGATTCCATCGTA-ACTTTGATTGTGAAAGGGGTTGTTATGTGCTGATTCCCC
1 GTTGCTAAGTGCTGATTCCACCGTATA-TTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
*
9235891 GTATCACTGAAT-TTAAGGTG
65 GTATCACTGAATATAAAGGTG
*
9235911 GTTGCTAAGTGCTGAATCCACCG
1 GTTGCTAAGTGCTGATTCCACCG
9235934 AGTAATGGAT
Statistics
Matches: 250, Mismatches: 18, Indels: 15
0.88 0.06 0.05
Matches are distributed among these distances:
82 5 0.02
83 27 0.11
84 61 0.24
85 157 0.63
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (85 bp):
GTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCG
TATCACTGAATATAAAGGTG
Found at i:9235801 original size:126 final size:127
Alignment explanation
Indices: 9235574--9235845 Score: 397
Period size: 126 Copynumber: 2.1 Consensus size: 127
9235564 TCCCCGAGGA
* * * * *
9235574 GTTGCTAAGTGCTGATTCCCTGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCACCG
1 GTTGCTAAGTGCTGATTCCCCGAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCG
*
9235639 TATATTTGATTGTGAAAGGGGTTGCTATGTGTTGATT-CCCGTATATTTGATTGTGAAAGGG
66 TATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATATTTGATTGTGAAAGGG
* *
9235700 GTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCG
1 GTTGCTAAGTGCTGATTCCCCGAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCG
* * *
9235765 TATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCA-CTGAATAT-AAAGGTG
66 TATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTAT-ATTTGATTGTGAAAGG-G
*
9235827 GTTTCTAAGTGCTGATTCC
1 GTTGCTAAGTGCTGATTCC
9235846 ATCGTAACTT
Statistics
Matches: 130, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
126 99 0.76
127 30 0.23
128 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.36
Consensus pattern (127 bp):
GTTGCTAAGTGCTGATTCCCCGAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCG
TATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATATTTGATTGTGAAAGGG
Found at i:9242725 original size:79 final size:79
Alignment explanation
Indices: 9242642--9242801 Score: 221
Period size: 79 Copynumber: 2.0 Consensus size: 79
9242632 AATCTCATCA
* *
9242642 AATCAATTATACTTAATATAATAATACAAAAGATCATAAAATCAACTTATATCTTCATGGATTAC
1 AATCAATTATACTTAATATAAGAATACAAAAGATCATAAAATCAACTCATATCTTCATGGATTAC
*
9242707 ATATCTCAATATAT
66 ATATCTCAACATAT
* * * * * * **
9242721 AATCAATTGTCCTTAATATAAGGATACAAAAGATCATAAACTTAGCTCATATCTTCATGGATTGT
1 AATCAATTATACTTAATATAAGAATACAAAAGATCATAAAATCAACTCATATCTTCATGGATTAC
9242786 ATATCTCAACATAT
66 ATATCTCAACATAT
9242800 AA
1 AA
9242802 GGTAAATGGA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (79 bp):
AATCAATTATACTTAATATAAGAATACAAAAGATCATAAAATCAACTCATATCTTCATGGATTAC
ATATCTCAACATAT
Found at i:9245076 original size:2 final size:2
Alignment explanation
Indices: 9245069--9245109 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
9245059 TTATATTCAA
*
9245069 AC AC AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
9245110 TATATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.46, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9254789 original size:23 final size:24
Alignment explanation
Indices: 9254763--9254808 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
9254753 ATTGTACCAA
9254763 AATTTT-TTATTTAAT-ATATAATT
1 AATTTTATT-TTTAATGATATAATT
9254786 AATTTTAATTTTTAATGATATAA
1 AATTTT-ATTTTTAATGATATAA
9254809 AAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
AATTTTATTTTTAATGATATAATT
Found at i:9256804 original size:15 final size:15
Alignment explanation
Indices: 9256786--9256818 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9256776 AAGCCAAAAT
*
9256786 CAACAAAATCCCTAC
1 CAACAAAATCCATAC
9256801 CAACAAAATCCATAC
1 CAACAAAATCCATAC
9256816 CAA
1 CAA
9256819 TAGTTTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.36, G:0.00, T:0.12
Consensus pattern (15 bp):
CAACAAAATCCATAC
Found at i:9259253 original size:20 final size:21
Alignment explanation
Indices: 9259228--9259274 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
9259218 CAGCCTTTAT
9259228 GGCTCAACATA-GGTTGATGC
1 GGCTCAACATAGGGTTGATGC
* *
9259248 GGCTCAACATAGGGTTGCTGT
1 GGCTCAACATAGGGTTGATGC
9259269 GGCTCA
1 GGCTCA
9259275 GCACAAGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (21 bp):
GGCTCAACATAGGGTTGATGC
Found at i:9263603 original size:19 final size:16
Alignment explanation
Indices: 9263568--9263609 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 16
9263558 AGTTTTATGC
9263568 TTTATTTATTTTTTAT
1 TTTATTTATTTTTTAT
9263584 TTTATTTATTTAGATTTAT
1 TTTATTTATTT---TTTAT
9263603 TTTATTT
1 TTTATTT
9263610 TATTATGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.48
19 12 0.52
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTATTTATTTTTTAT
Found at i:9267561 original size:11 final size:11
Alignment explanation
Indices: 9267545--9267569 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9267535 CTTTTAAGAG
9267545 AAAATGAGTGA
1 AAAATGAGTGA
9267556 AAAATGAGTGA
1 AAAATGAGTGA
9267567 AAA
1 AAA
9267570 CAGAAAAATT
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:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (11 bp):
AAAATGAGTGA
Found at i:9273910 original size:20 final size:20
Alignment explanation
Indices: 9273880--9273936 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 20
9273870 ATTTTTGCAA
9273880 TTTAT-TTATTTATTTAAAC
1 TTTATATTATTTATTTAAAC
*
9273899 TTTATATTATTTATTTTAAAAT
1 TTTATATTATTTA-TTT-AAAC
*
9273921 TTTCTATTA-TTATTTA
1 TTTATATTATTTATTTA
9273937 TTTTAAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 6 0.18
20 10 0.30
21 6 0.18
22 11 0.33
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTATATTATTTATTTAAAC
Found at i:9273916 original size:21 final size:22
Alignment explanation
Indices: 9273880--9273942 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 22
9273870 ATTTTTGCAA
9273880 TTTAT-TTATTTA-TTTAAA-C
1 TTTATATTATTTATTTTAAATC
*
9273899 TTTATATTATTTATTTTAAAATT
1 TTTATATTATTTATTTT-AAATC
9273922 TTCTATTATTATTTATTTTAA
1 TT-TA-TATTATTTATTTTAA
9273943 GTTTTTCATA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 5 0.14
20 7 0.19
21 3 0.08
22 3 0.08
23 2 0.05
24 4 0.11
25 13 0.35
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTATATTATTTATTTTAAATC
Found at i:9273931 original size:25 final size:25
Alignment explanation
Indices: 9273901--9273968 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
9273891 ATTTAAACTT
9273901 TATATTATTTATTTTAAAATTTTC-
1 TATATTATTTATTTTAAAATTTTCA
**
9273925 TATTATTATTTATTTTAAGTTTTTCA
1 TA-TATTATTTATTTTAAAATTTTCA
**
9273951 TATATTATCCATTTTAAA
1 TATATTATTTATTTTAAA
9273969 CTATTATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 2 0.05
25 33 0.89
26 2 0.05
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.60
Consensus pattern (25 bp):
TATATTATTTATTTTAAAATTTTCA
Found at i:9277428 original size:65 final size:65
Alignment explanation
Indices: 9277346--9277520 Score: 237
Period size: 65 Copynumber: 2.7 Consensus size: 65
9277336 TATTCTATTA
* * ** * *
9277346 TTACCTTAATGAGGTAAAGCCATTTTAAAGAACTGTGCTATCTAAGTTTGCTTTAATGAA-CAGT
1 TTACCTTAAAGAGGTAAAGCCATTTTAAAGAAGTGTGCTATCTAAGTCCGCTTCAAAGAAGCA-T
9277410 G
65 G
*
9277411 TTACCTTAAAGAGGTAAAGCCACTTTT-AAGAAGTGTGCTATCTATGTCCGCTTCAAAGAAGCAT
1 TTACCTTAAAGAGGTAAAGCCA-TTTTAAAGAAGTGTGCTATCTAAGTCCGCTTCAAAGAAGCAT
9277475 G
65 G
* *
9277476 TTACCTTAAAGAGGTAAAGTCACTTTAAAGAAGTGTGCTATCTAA
1 TTACCTTAAAGAGGTAAAGCCATTTTAAAGAAGTGTGCTATCTAA
9277521 ATCCTCTTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
64 3 0.03
65 88 0.91
66 6 0.06
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (65 bp):
TTACCTTAAAGAGGTAAAGCCATTTTAAAGAAGTGTGCTATCTAAGTCCGCTTCAAAGAAGCATG
Found at i:9277536 original size:16 final size:16
Alignment explanation
Indices: 9277515--9277547 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9277505 GAAGTGTGCT
9277515 ATCTAAATCCTCTTTA
1 ATCTAAATCCTCTTTA
9277531 ATCTAAATCCTCTTTA
1 ATCTAAATCCTCTTTA
9277547 A
1 A
9277548 AGAAGTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (16 bp):
ATCTAAATCCTCTTTA
Found at i:9282475 original size:24 final size:23
Alignment explanation
Indices: 9282414--9282477 Score: 92
Period size: 25 Copynumber: 2.7 Consensus size: 23
9282404 TTCTGACCCA
9282414 CAGCTCGTGTGAGCATTCTGATT
1 CAGCTCGTGTGAGCATTCTGATT
*
9282437 CATAGCTCGTTTGAGCATTCTGATTT
1 C--AGCTCGTGTGAGCATTCTGA-TT
9282463 CAGCTCGTGTGAGCA
1 CAGCTCGTGTGAGCA
9282478 AACATTTACA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 1 0.03
24 13 0.36
25 19 0.53
26 3 0.08
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (23 bp):
CAGCTCGTGTGAGCATTCTGATT
Found at i:9291943 original size:6 final size:6
Alignment explanation
Indices: 9291910--9291957 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
9291900 AAACAGAAAC
* * * *
9291910 AAATAA AATTAA CATTAA AAACAA AAATAA AAATGAA AAATAA AAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AAATA
9291958 TTAAAACTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:9291956 original size:13 final size:13
Alignment explanation
Indices: 9291932--9291956 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9291922 CATTAAAAAC
9291932 AAAAATAAAAATG
1 AAAAATAAAAATG
9291945 AAAAATAAAAAT
1 AAAAATAAAAAT
9291957 ATTAAAACTA
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATG
Found at i:9309482 original size:51 final size:50
Alignment explanation
Indices: 9309425--9309585 Score: 217
Period size: 51 Copynumber: 3.3 Consensus size: 50
9309415 CGGATCACAT
*
9309425 TTATCACTTGTCACTTGTCACTGGTCAGATAAGTGTAGCTAAAGCTACCAT
1 TTATCACTTGTCACTTGTCACT-GTCAGATAAGTGTAGCTAAAGCTACCAC
* *
9309476 TTATCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAGTTACCAC
1 TTATCACTTGTCACTTGTCACTG-TCAGATAAGTGTAGCTAAAGCTACCAC
*
9309527 TTATCACTTGTCAC-TG--A---TCAGATAAATGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGTCAGATAAGTGTAGCTAAAGCTACCAC
*
9309571 TTAACACTTGTCACT
1 TTATCACTTGTCACT
9309586 GATCAGAAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
44 37 0.37
48 1 0.01
50 3 0.03
51 60 0.59
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.34
Consensus pattern (50 bp):
TTATCACTTGTCACTTGTCACTGTCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:9309485 original size:44 final size:44
Alignment explanation
Indices: 9309429--9309592 Score: 202
Period size: 44 Copynumber: 3.6 Consensus size: 44
9309419 TCACATTTAT
* *
9309429 CACTTGTCACTTGTCACTGGTCAGATAAGTGTAGCTAAAGCTACC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-C
* * *
9309474 ATTTATCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAGTTAC
1 ------CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
9309524 CACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
9309568 CACTTAACACTTGTCACTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
9309593 AGTATTCAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
44 64 0.61
50 1 0.01
51 40 0.38
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:9313427 original size:17 final size:17
Alignment explanation
Indices: 9313402--9313435 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9313392 ATTTGACACT
* *
9313402 TTTTTTCACTATCCAAA
1 TTTTCTCACTATACAAA
9313419 TTTTCTCACTATACAAA
1 TTTTCTCACTATACAAA
9313436 ATCAAAACCC
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:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTCTCACTATACAAA
Found at i:9315692 original size:15 final size:16
Alignment explanation
Indices: 9315672--9315705 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9315662 TTTTTTTTTC
9315672 TTAC-AATTTAGTCAT
1 TTACAAATTTAGTCAT
*
9315687 TTACAAATTTAGTTAT
1 TTACAAATTTAGTCAT
9315703 TTA
1 TTA
9315706 ATTGATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (16 bp):
TTACAAATTTAGTCAT
Found at i:9326119 original size:50 final size:50
Alignment explanation
Indices: 9326051--9326334 Score: 286
Period size: 50 Copynumber: 5.6 Consensus size: 50
9326041 TTTTCTGTAC
* * * ** *
9326051 TGCCAACGCCATATCCCAGATATGGTCTTACTTGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
9326101 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
9326151 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
9326201 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCCTAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-C-CT-CTCATCTC---GG
* * * * * *
9326257 TGCCAATGCCATATCTCAGACATGGTCTTACACT-GG--CTCACATATCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATCTCGG
* * *
9326305 TGTCGATGCCATGTCCCAGACATGGTCTTA
1 TGCCAACGCCATGTCCCAGACATGGTCTTA
9326335 TACGAGATCG
Statistics
Matches: 200, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
48 28 0.14
50 122 0.61
51 6 0.03
52 4 0.02
53 7 0.04
56 32 0.16
57 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:9326176 original size:100 final size:103
Alignment explanation
Indices: 9326051--9326334 Score: 319
Period size: 100 Copynumber: 2.8 Consensus size: 103
9326041 TTTTCTGTAC
* * * *
9326051 TGCCAACGCCATATCCCAGATATGGTCTTACTTGGGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAACGCCATATCCCAGACATGGTCTTACAT-GGAGCTCTCATATCGGTGCCAATGCCATGTC
* * *
9326116 CCAGACATGGTCTTACGGGGGA-C-CT-CTCATCTC-GG
65 CCAGACATGGTCTTACAGGGGATCTCTCCTAATCTCAGA
* * * *
9326151 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAACGCCATATCCCAGACATGGTCTTACATG-GAGCTCTCATATCGGTGCCAATGCCATGTC
*
9326216 CCAGACATGGTCTTACATGGGATCTCTCCTAATCTCAATGA
65 CCAGACATGGTCTTACAGGGGATCTCTCCTAATCTC-A-GA
* * * * * *
9326257 TGCCAATGCCATATCTCAGACATGGTCTTACACT-G-GCTCACATATCGATGTCGATGCCATGTC
1 TGCCAACGCCATATCCCAGACATGGTCTTACA-TGGAGCTCTCATATCGGTGCCAATGCCATGTC
9326320 CCAGACATGGTCTTA
65 CCAGACATGGTCTTA
9326335 TACGAGATCG
Statistics
Matches: 154, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
99 1 0.01
100 75 0.49
101 1 0.01
102 2 0.01
103 7 0.05
104 36 0.23
105 1 0.01
106 30 0.19
107 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (103 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGGAGCTCTCATATCGGTGCCAATGCCATGTCC
CAGACATGGTCTTACAGGGGATCTCTCCTAATCTCAGA
Found at i:9332550 original size:27 final size:27
Alignment explanation
Indices: 9332515--9332577 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
9332505 TGAAAATTTA
*
9332515 TTATAAATTTAATTA-AAATTAAATATT
1 TTAT-AATTTAAGTACAAATTAAATATT
* *
9332542 TTAATAATTTAAGTACAATTTAATTATT
1 TT-ATAATTTAAGTACAAATTAAATATT
9332570 TTATAATT
1 TTATAATT
9332578 ATATTATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 17 0.55
28 14 0.45
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (27 bp):
TTATAATTTAAGTACAAATTAAATATT
Found at i:9336032 original size:26 final size:26
Alignment explanation
Indices: 9336003--9336054 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
9335993 GAGAGTAAGA
9336003 GTTCAATTAGAATTTTTAGAACAATT
1 GTTCAATTAGAATTTTTAGAACAATT
9336029 GTTCAATTAGAATTTTTAGAACAATT
1 GTTCAATTAGAATTTTTAGAACAATT
9336055 TAATAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (26 bp):
GTTCAATTAGAATTTTTAGAACAATT
Found at i:9341654 original size:18 final size:19
Alignment explanation
Indices: 9341625--9341669 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
9341615 CTTTCTTTAC
*
9341625 ATATTCTTTAAAAAATTTAT
1 ATATT-TTTAAAAAATATAT
9341645 A-ATTTTTAAAAAATATAT
1 ATATTTTTAAAAAATATAT
9341663 ATATTTT
1 ATATTTT
9341670 GGAATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 14 0.61
19 8 0.35
20 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATTTTTAAAAAATATAT
Found at i:9341703 original size:19 final size:20
Alignment explanation
Indices: 9341671--9341717 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
9341661 ATATATTTTG
9341671 GAATTTTTATAAA-TATTTTA
1 GAATTTTTATAAATTA-TTTA
9341691 -AATTTTTGA-AAATTATTTA
1 GAATTTTT-ATAAATTATTTA
9341710 GAATTTTT
1 GAATTTTT
9341718 TTTGTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (20 bp):
GAATTTTTATAAATTATTTA
Found at i:9345475 original size:7 final size:7
Alignment explanation
Indices: 9345463--9345501 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
9345453 CTCCTACTAC
9345463 ATTTATT
1 ATTTATT
9345470 ATTTATT
1 ATTTATT
9345477 ATTTATT
1 ATTTATT
9345484 ATTTATT
1 ATTTATT
9345491 ATTTATT
1 ATTTATT
9345498 ATTT
1 ATTT
9345502 CTAAGTCGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTATT
Done.