Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 31 of 216
Found at i:8998787 original size:18 final size:18
Alignment explanation
Indices: 8998766--8998827 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
8998756 ATATATAGAT
8998766 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
8998784 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
8998803 ATATA-AAT-AGTTAT-A
1 ATATATAATAAGATATAA
8998818 ATA-ATAATAA
1 ATATATAATAA
8998828 TAATAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.16
16 3 0.08
17 3 0.08
18 17 0.45
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:8998818 original size:35 final size:33
Alignment explanation
Indices: 8998763--8998827 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
8998753 GAGATATATA
8998763 GATATATATAATAAGATATAAATATATAATAAGAT
1 GATATATATAATAAGATAT-AATA-ATAATAAGAT
*
8998798 GATATATATAA-ATAGTTATAATAATAATAA
1 GATATATATAATA-AGATATAATAATAATAA
8998828 TAATAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (33 bp):
GATATATATAATAAGATATAATAATAATAAGAT
Found at i:9002166 original size:6 final size:6
Alignment explanation
Indices: 9002155--9002185 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
9002145 AAGTCCTCAA
*
9002155 CCTGAC CCTGAC CCTGAC CCTCAC CCTGAC C
1 CCTGAC CCTGAC CCTGAC CCTGAC CCTGAC C
9002186 AGGTGCACCT
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:0.16, C:0.55, G:0.13, T:0.16
Consensus pattern (6 bp):
CCTGAC
Found at i:9002172 original size:12 final size:12
Alignment explanation
Indices: 9002149--9002185 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
9002139 TCTTTCAAGT
*
9002149 CCTCAACCTGAC
1 CCTCACCCTGAC
*
9002161 CCTGACCCTGAC
1 CCTCACCCTGAC
9002173 CCTCACCCTGAC
1 CCTCACCCTGAC
9002185 C
1 C
9002186 AGGTGCACCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.19, C:0.54, G:0.11, T:0.16
Consensus pattern (12 bp):
CCTCACCCTGAC
Found at i:9002523 original size:9 final size:9
Alignment explanation
Indices: 9002507--9002538 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
9002497 GCCTCCACCA
9002507 CCACCGCTG
1 CCACCGCTG
*
9002516 CCATCGCTG
1 CCACCGCTG
9002525 CCACCGCTG
1 CCACCGCTG
9002534 CCACC
1 CCACC
9002539 ACCTCCGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.12, C:0.56, G:0.19, T:0.12
Consensus pattern (9 bp):
CCACCGCTG
Found at i:9007359 original size:12 final size:12
Alignment explanation
Indices: 9007324--9007362 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9007314 TAAAGCATTT
*
9007324 TAAAATTAAAAT
1 TAAAATTAAAAA
9007336 TAAAATTAAAAAA
1 TAAAATT-AAAAA
*
9007349 TAAAAATAAAAA
1 TAAAATTAAAAA
9007361 TA
1 TA
9007363 TATATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAAATTAAAAA
Found at i:9014106 original size:13 final size:13
Alignment explanation
Indices: 9014088--9014113 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9014078 ATGTTTGTTG
9014088 GATTATTATGTAA
1 GATTATTATGTAA
9014101 GATTATTATGTAA
1 GATTATTATGTAA
9014114 TAATCACAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
GATTATTATGTAA
Found at i:9015455 original size:51 final size:51
Alignment explanation
Indices: 9015400--9015849 Score: 421
Period size: 51 Copynumber: 8.9 Consensus size: 51
9015390 GTGAAAGTGT
* *
9015400 TGGTCATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * * * * * *
9015451 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
* *
9015502 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTAAGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * ** * * * * *
9015553 TGGTCACGTGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
* * *
9015604 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
** * * * * *
9015655 TGGTCATATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA--TAA
* * *
9015706 TAGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-A
* * * *
9015756 TGATCACGTGTATAGTACTATGTGAAGGCTATTACGTGAACCG-TAAA-AA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* *
9015805 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 -TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
9015850 ATGATAATAG
Statistics
Matches: 318, Mismatches: 70, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
50 87 0.27
51 228 0.72
52 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (51 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
Found at i:9015532 original size:102 final size:102
Alignment explanation
Indices: 9015399--9015849 Score: 622
Period size: 102 Copynumber: 4.4 Consensus size: 102
9015389 AGTGAAAGTG
*
9015399 TTGGTCATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
9015464 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* *
9015501 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTAAGTGAATCGATAAATAATGGTCACGTGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
*
9015566 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* * *
9015603 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCATATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
* *
9015668 AGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* * * * * * *
9015705 TTAGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGATCACGTGTA
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTG
* ** * * **
9015768 TAGTACTATGTGAAGGCTATTACGTGAACCGTA-AA-AA
65 TAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCT
* * *
9015805 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
9015850 ATGATAATAG
Statistics
Matches: 314, Mismatches: 32, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
100 40 0.13
101 41 0.13
102 233 0.74
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
Found at i:9019993 original size:46 final size:46
Alignment explanation
Indices: 9019940--9020028 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
9019930 AAATTTTTGC
9019940 TGACGTGATATGTCAAGTTAGTGTTGTTTGTCATGTTAGCACCTGT
1 TGACGTGATATGTCAAGTTAGTGTTGTTTGTCATGTTAGCACCTGT
9019986 TGACGTGATATGTCAAGTTAGTGTTGTTTGTCATGTTAGCACC
1 TGACGTGATATGTCAAGTTAGTGTTGTTTGTCATGTTAGCACC
9020029 ACTAACAGTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.20, C:0.13, G:0.26, T:0.40
Consensus pattern (46 bp):
TGACGTGATATGTCAAGTTAGTGTTGTTTGTCATGTTAGCACCTGT
Found at i:9028430 original size:29 final size:29
Alignment explanation
Indices: 9028398--9028465 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
9028388 GGGTAGATTG
* * * * *
9028398 AAAGATTAAAGGTTTGAAGTTGGCTGGAT
1 AAAGATTAAAGATTTAAAATTGACTAGAT
*
9028427 AAAGATTCAAGATTTAAAATTGACTAGAT
1 AAAGATTAAAGATTTAAAATTGACTAGAT
*
9028456 AATGATTAAA
1 AAAGATTAAA
9028466 TTATTTTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (29 bp):
AAAGATTAAAGATTTAAAATTGACTAGAT
Found at i:9028502 original size:18 final size:18
Alignment explanation
Indices: 9028481--9028523 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
9028471 TTTTATATTG
9028481 TTAAAATTTGTAA-TTAGT
1 TTAAAATTTG-AACTTAGT
9028499 TT-AAATTTGAACTTTAGT
1 TTAAAATTTGAAC-TTAGT
9028517 TTAAAAT
1 TTAAAAT
9028524 CTGATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.09
17 7 0.32
18 9 0.41
19 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (18 bp):
TTAAAATTTGAACTTAGT
Found at i:9033532 original size:15 final size:16
Alignment explanation
Indices: 9033501--9033553 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
9033491 CGTATTTCGA
*
9033501 ATAAGTAAAAATATAT
1 ATAAATAAAAATATAT
9033517 ATAAATAAAAAT-TAT
1 ATAAATAAAAATATAT
* *
9033532 AAAAATAAAAATAAAT
1 ATAAATAAAAATATAT
9033548 A-AAATA
1 ATAAATA
9033554 TATTTATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 19 0.58
16 14 0.42
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
ATAAATAAAAATATAT
Found at i:9034017 original size:29 final size:29
Alignment explanation
Indices: 9033973--9034036 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
9033963 GGATATATTG
* *
9033973 AAAGATTGAAGGTTTGAAGTTGGCTAGAT
1 AAAGATTGAAGATTTGAAATTGGCTAGAT
*
9034002 AAAGATTGAAGATTTGAAATTGGCTGGAT
1 AAAGATTGAAGATTTGAAATTGGCTAGAT
9034031 AAAGAT
1 AAAGAT
9034037 CAAATTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.30
Consensus pattern (29 bp):
AAAGATTGAAGATTTGAAATTGGCTAGAT
Found at i:9040377 original size:11 final size:11
Alignment explanation
Indices: 9040361--9040386 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9040351 TTTCTTAATA
9040361 TTATTTAATTT
1 TTATTTAATTT
9040372 TTATTTAATTT
1 TTATTTAATTT
9040383 TTAT
1 TTAT
9040387 AATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTAATTT
Found at i:9041255 original size:59 final size:59
Alignment explanation
Indices: 9041190--9041310 Score: 206
Period size: 59 Copynumber: 2.1 Consensus size: 59
9041180 CATCATCGAT
*
9041190 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTCAATAAAATAGAAGTTC
1 TTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTCAATAAAATAGAAGTTC
* * *
9041249 TTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAATTATAAGTTC
1 TTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTCAATAAAATAGAAGTTC
9041308 TTT
1 TTT
9041311 CAATGTAGAC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.55
Consensus pattern (59 bp):
TTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTCAATAAAATAGAAGTTC
Found at i:9046375 original size:30 final size:30
Alignment explanation
Indices: 9046341--9046402 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
9046331 ACTTATTTTA
9046341 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
9046371 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
9046401 TT
1 TT
9046403 ACTTATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:9046545 original size:11 final size:12
Alignment explanation
Indices: 9046525--9046557 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9046515 ATAAAATTTT
*
9046525 AAAATTATAT-A
1 AAAATAATATAA
9046536 AAAATAATATAA
1 AAAATAATATAA
9046548 AAAATAATAT
1 AAAATAATAT
9046558 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:9051151 original size:23 final size:22
Alignment explanation
Indices: 9051096--9051149 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
9051086 ATATTATATC
*
9051096 AATATTAATA-TTTTTATTTAA
1 AATATTAAAATTTTTTATTTAA
*
9051117 AATTTTAAAATTTTTTATCTTAA
1 AATATTAAAATTTTTTAT-TTAA
9051140 AATAATTAAA
1 AAT-ATTAAA
9051150 TTCAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.30
22 7 0.26
23 7 0.26
24 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTAAAATTTTTTATTTAA
Found at i:9051385 original size:140 final size:140
Alignment explanation
Indices: 9051133--9051398 Score: 453
Period size: 140 Copynumber: 1.9 Consensus size: 140
9051123 AAAATTTTTT
*
9051133 ATCTTAAAATAATTAAATTCAAATAAAAATCATTAATTTAATGTGACGTACAACATCAAGTGTTC
1 ATCTTAAAAAAATTAAATTCAAATAAAAATCATTAATTTAATGTGACGTACAACATCAAGTGTTC
9051198 CAAATTATAATAAACTTAGAAACATTTCTAAAAGGGTTAGCCTATATTAGATTATAAAATTATGA
66 CAAATTATAATAAACTTAGAAACATTTCTAAAAGGGTTAGCCTATATTAGATTATAAAATTATGA
9051263 AATTTGGGGC
131 AATTTGGGGC
* *
9051273 ATCTTAAAAAAATTAAATTCAAATAAAAATTATTAATTTAATGT-TCTGTACAACATCAAGTGTT
1 ATCTTAAAAAAATTAAATTCAAATAAAAATCATTAATTTAATGTGAC-GTACAACATCAAGTGTT
* * * *
9051337 CCAAGTTGTAATAAACTTAGAAACATTTCTAGAAGGGTTAGCCTATATTAGATTATGAAATT
65 CCAAATTATAATAAACTTAGAAACATTTCTAAAAGGGTTAGCCTATATTAGATTATAAAATT
9051399 TGGGGCAAAA
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
139 1 0.01
140 117 0.99
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (140 bp):
ATCTTAAAAAAATTAAATTCAAATAAAAATCATTAATTTAATGTGACGTACAACATCAAGTGTTC
CAAATTATAATAAACTTAGAAACATTTCTAAAAGGGTTAGCCTATATTAGATTATAAAATTATGA
AATTTGGGGC
Found at i:9053448 original size:18 final size:18
Alignment explanation
Indices: 9053411--9053454 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9053401 ATGCCAGGTG
* * *
9053411 TGTATCCTAGCCCTTTTA
1 TGTATCCTAACCCATATA
9053429 TGTATCCTAACCCATATA
1 TGTATCCTAACCCATATA
*
9053447 TGTTTCCT
1 TGTATCCT
9053455 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTATCCTAACCCATATA
Found at i:9053735 original size:21 final size:21
Alignment explanation
Indices: 9053711--9053751 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9053701 GATCCCCTAC
* * *
9053711 CGGAGGAACCATAATCCTCGT
1 CGGAGCAACCACAACCCTCGT
9053732 CGGAGCAACCACAACCCTCG
1 CGGAGCAACCACAACCCTCG
9053752 CTGAAAGCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.37, G:0.22, T:0.12
Consensus pattern (21 bp):
CGGAGCAACCACAACCCTCGT
Found at i:9055482 original size:3 final size:3
Alignment explanation
Indices: 9055474--9055521 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
9055464 TGATTCAGCG
* * * * *
9055474 TCA TCA TCA CCG TCA TCA TCA CCA TCA TCA TCA TCG TCG TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
9055522 CTTTCTCGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.27, C:0.38, G:0.06, T:0.29
Consensus pattern (3 bp):
TCA
Found at i:9055520 original size:12 final size:12
Alignment explanation
Indices: 9055472--9055518 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
9055462 TTTGATTCAG
9055472 CGTCATCATCAC
1 CGTCATCATCAC
9055484 CGTCATCATCAC
1 CGTCATCATCAC
* *
9055496 CATCATCATCAT
1 CGTCATCATCAC
*
9055508 CGTCGTCATCA
1 CGTCATCATCA
9055519 TCACTTTCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.26, C:0.38, G:0.09, T:0.28
Consensus pattern (12 bp):
CGTCATCATCAC
Found at i:9057010 original size:72 final size:72
Alignment explanation
Indices: 9056884--9057055 Score: 233
Period size: 72 Copynumber: 2.4 Consensus size: 72
9056874 AAATCATATT
** * *
9056884 TAAACAACTATTGATAAAACTA-ATTTAGTATAAATAAGTAGAACATAAAATCAATATACAAAGA
1 TAAACAACTATTGATAAAACTAGATTTAACATAAATAAATAGAACATAAAATCAATATACAAAAA
9056948 CCAAACA
66 CCAAACA
* * *
9056955 TAAACAACTATTAATAAAACTAGA-TTACACATAAATAAATAGAACATAAATTCAATATCCAAAA
1 TAAACAACTATTGATAAAACTAGATTTA-ACATAAATAAATAGAACATAAAATCAATATACAAAA
9057019 ACCAAACA
65 ACCAAACA
* *
9057027 TAAATAAATATTGATAAAACTAG-TTTAAC
1 TAAACAACTATTGATAAAACTAGATTTAAC
9057056 GTTGTTGTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
71 26 0.30
72 62 0.70
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.25
Consensus pattern (72 bp):
TAAACAACTATTGATAAAACTAGATTTAACATAAATAAATAGAACATAAAATCAATATACAAAAA
CCAAACA
Found at i:9057499 original size:18 final size:18
Alignment explanation
Indices: 9057478--9057543 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
9057468 CCCATCAATT
9057478 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
9057496 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
9057514 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
9057532 TGAACATCATTT
1 TGAACATCATTT
9057544 CTCATATTCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:9058728 original size:31 final size:31
Alignment explanation
Indices: 9058691--9058750 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
9058681 CCAAGAATTC
9058691 AAGAGAAGATAAATAAACAAACTTTTTTTTA
1 AAGAGAAGATAAATAAACAAACTTTTTTTTA
9058722 AAGAGAAGATAAATAAACAAACTTTTTTT
1 AAGAGAAGATAAATAAACAAACTTTTTTT
9058751 AACTATGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.32
Consensus pattern (31 bp):
AAGAGAAGATAAATAAACAAACTTTTTTTTA
Found at i:9059754 original size:11 final size:11
Alignment explanation
Indices: 9059738--9059762 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9059728 CTTAATGAAA
9059738 AGCAAATCAAC
1 AGCAAATCAAC
9059749 AGCAAATCAAC
1 AGCAAATCAAC
9059760 AGC
1 AGC
9059763 TTCAAAATAT
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:0.52, C:0.28, G:0.12, T:0.08
Consensus pattern (11 bp):
AGCAAATCAAC
Found at i:9059813 original size:19 final size:19
Alignment explanation
Indices: 9059767--9059815 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
9059757 AACAGCTTCA
*
9059767 AAATATTAAACAGAAGAAG
1 AAATATAAAACAGAAGAAG
*
9059786 AACTAATAAAACAGAAGAAG
1 AAAT-ATAAAACAGAAGAAG
9059806 AAATATAAAA
1 AAATATAAAA
9059816 GAAACTCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.67, C:0.06, G:0.12, T:0.14
Consensus pattern (19 bp):
AAATATAAAACAGAAGAAG
Found at i:9060642 original size:97 final size:97
Alignment explanation
Indices: 9060457--9060730 Score: 387
Period size: 97 Copynumber: 2.8 Consensus size: 97
9060447 CCTAAACGCC
* * * *
9060457 AAACCCTAATTTATTTAAGTTTTTCCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
1 AAACCTTAATTTATTTGAGTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
9060522 AAAATTTATAATTAATTTACTCAAGTAACCTT
66 AAAATTTATAATTAATTTACTCAAGTAACCTT
*
9060554 AAACCTTAATTTATTTGA-TTTTTCTTTAAAAACCCTTAACACTAAACCCTAATCTAATTTTTTT
1 AAACCTTAATTTATTTGAGTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
9060618 AAAAAATTT-TAATTAATTTACTCAAGTAACCTT
66 --AAAATTTATAATTAATTTACTCAAGTAACCTT
* * **
9060651 AAACCTTAATTTAATTGATTTTTTCTTTAAAAACTATAAACA-TGAAACCCTAATCTAA--TTTT
1 AAACCTTAATTTATTTGAGTTTTTCTTTAAAAACCCTAAACACT-AAACCCTAATCTAATTTTTT
* *
9060713 GAAAATTTTTAATTAATT
65 TAAAATTTATAATTAATT
9060731 AAATTAAGGA
Statistics
Matches: 162, Mismatches: 10, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
94 7 0.04
95 9 0.06
96 47 0.29
97 58 0.36
98 41 0.25
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.43
Consensus pattern (97 bp):
AAACCTTAATTTATTTGAGTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
AAAATTTATAATTAATTTACTCAAGTAACCTT
Found at i:9060841 original size:7 final size:7
Alignment explanation
Indices: 9060796--9060855 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
9060786 CCTGATCTTA
9060796 AAAACTCC
1 AAAAC-CC
9060804 AAAACCC
1 AAAACCC
*
9060811 -TAACCC
1 AAAACCC
*
9060817 TAAACCC
1 AAAACCC
* * *
9060824 TAAATCA
1 AAAACCC
9060831 AAAACCC
1 AAAACCC
*
9060838 AAAACCT
1 AAAACCC
9060845 AAAACCC
1 AAAACCC
9060852 AAAA
1 AAAA
9060856 TCCTAGAAGC
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
6 5 0.12
7 32 0.76
8 5 0.12
ACGTcount: A:0.55, C:0.35, G:0.00, T:0.10
Consensus pattern (7 bp):
AAAACCC
Found at i:9060860 original size:15 final size:15
Alignment explanation
Indices: 9060818--9060860 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
9060808 CCCTAACCCT
* *
9060818 AAACCCTAAAT-CAA
1 AAACCCAAAATCCTA
9060832 AAACCCAAAA-CCTA
1 AAACCCAAAATCCTA
9060846 AAACCCAAAATCCTA
1 AAACCCAAAATCCTA
9060861 GAAGCGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 21 0.84
15 4 0.16
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.12
Consensus pattern (15 bp):
AAACCCAAAATCCTA
Found at i:9062455 original size:18 final size:18
Alignment explanation
Indices: 9062432--9062466 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9062422 TGCATTTCCT
*
9062432 ATAATGTTTATCACGCTC
1 ATAATGCTTATCACGCTC
9062450 ATAATGCTTATCACGCT
1 ATAATGCTTATCACGCT
9062467 TATCAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (18 bp):
ATAATGCTTATCACGCTC
Found at i:9062750 original size:166 final size:164
Alignment explanation
Indices: 9062468--9062943 Score: 510
Period size: 166 Copynumber: 2.8 Consensus size: 164
9062458 TATCACGCTT
* *
9062468 ATCAAAACAAAATCAAGTAAAAAAAATAGAG---GACAACTTGCAATCCAAAATACCATAAAAGA
1 ATCAAAACAAAATCAAGTAAAAAAAA-AGAGAATGAGAACTTACAATCCAAAATACCATAAAAGA
* * * * * **
9062530 AAGTTGAATGTCAATATTCCCTTCCCAGTCAATAGTCTAAC-TGCTACCTTTTTCTTTCTTTGAC
65 AAGTTGAATGTTAGTATTCCTTTCCTAGTCAATAGTCT-ACTTGGTAAGTTTTTCTTTCTTTGAC
*
9062594 TCTACTCTCGTTTTTTCTATTATGTTTACCATGCTC
129 TCTACTCTCGTTTTCTCTATTATGTTTACCATGCTC
*
9062630 ATCAAAACAAAATCAAGTAAAAAAAAAGAGAATGAGAACTTTCAATCCAAAATATACCATAAAAG
1 ATCAAAACAAAATCAAGTAAAAAAAAAGAGAATGAGAACTTACAATCC-AAA-ATACCATAAAAG
9062695 AAAGTTGAATGTTAGTATTCCTTTCCTAGTCAATAGTCTACTTGGTAAGTTTTTCTTTGCCCCGT
64 AAAGTTGAATGTTAGTATTCCTTTCCTAGTCAATAGTCTACTTGGTAAGTTTTTC--T------T
* * * *
9062760 TCCTTTTCTCCGACTTTACTCTTGTTTTCTCTATTATGTTTATCATGTTC
121 T-C--TT-T--GACTCTACTCTCGTTTTCTCTATTATGTTTACCATGCTC
* * *
9062810 GTTAAAACAAAATCAAGTAAAAAAGAAAAAGAATAAAGATGACAACTTACAATCCAAAATACCAT
1 ATCAAAACAAAATCAAGTAAAAAA-AAAGAGAAT---GA-G--AACTTACAATCCAAAATACCAT
* *
9062875 AAAACGAAAGTTGAATGTTAGTATTCCTTTTCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTC
59 AAAA-GAAAGTTGAATGTTAGTATTCCTTTCCTAGTCAATAGTCTACTTGGTAAGTTTTTCTTTC
9062940 TTTG
123 TTTG
9062944 TCCCGTTCCT
Statistics
Matches: 266, Mismatches: 20, Indels: 46
0.80 0.06 0.14
Matches are distributed among these distances:
161 4 0.02
162 26 0.10
164 13 0.05
165 5 0.02
166 57 0.21
168 1 0.00
172 1 0.00
174 3 0.01
175 3 0.01
177 3 0.01
178 3 0.01
180 56 0.21
181 8 0.03
184 3 0.01
185 12 0.05
186 57 0.21
187 11 0.04
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (164 bp):
ATCAAAACAAAATCAAGTAAAAAAAAAGAGAATGAGAACTTACAATCCAAAATACCATAAAAGAA
AGTTGAATGTTAGTATTCCTTTCCTAGTCAATAGTCTACTTGGTAAGTTTTTCTTTCTTTGACTC
TACTCTCGTTTTCTCTATTATGTTTACCATGCTC
Found at i:9062917 original size:186 final size:182
Alignment explanation
Indices: 9062591--9062990 Score: 556
Period size: 180 Copynumber: 2.2 Consensus size: 182
9062581 TTCTTTCTTT
* *
9062591 GACTCTACTCTCGTTTTTTCTATTATGTTTACCATGCTCATCAAAACAAAATCAAGTAAAAAAAA
1 GACTCTACTCTTGTTTTCTCTATTATGTTTACCATGCTCATCAAAACAAAATCAAGTAAAAAAAA
* *
9062656 AGAGAATGAGAACTTTCAATCCAAAATATACCATAAAAGAAAGTTGAATGTTAGTATTCCTTTCC
66 AAAGAATGAGAACTTACAATCCAAAATATACCATAAAAGAAAGTTGAATGTTAGTATTCCTTTCC
* *
9062721 TAGTCAATAGTCTACTTGGTAAG-TT-TTTCTTTGCCCCGTTCCTTTTCTCC
131 TAGTCAATAGTCTAATTGGTAAGTTTCTTTCTTTGCCCCGTTCCTCTTCTCC
* * * * *
9062771 GACTTTACTCTTGTTTTCTCTATTATGTTTATCATGTTCGTTAAAACAAAATCAAGTAAAAAAGA
1 GACTCTACTCTTGTTTTCTCTATTATGTTTACCATGCTCATCAAAACAAAATCAAGTAAAAAA-A
9062836 AAAAGAATAAAGATGACAACTTACAATCC-AAA-ATACCATAAAACGAAAGTTGAATGTTAGTAT
65 AAAAGAAT---GA-G--AACTTACAATCCAAAATATACCATAAAA-GAAAGTTGAATGTTAGTAT
* *
9062899 TCCTTTTCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTCCCGTTCCTCTTCTCC
123 TCCTTTCCTAGTCAATAGTCTAATTGGTAAG--TTTCTTTCTTTGCCCCGTTCCTCTTCTCC
*
9062961 GGCTCTACTCTTGTTTTCTCTATTATGTTT
1 GACTCTACTCTTGTTTTCTCTATTATGTTT
9062991 TTTGCCTTTT
Statistics
Matches: 193, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
180 56 0.29
181 8 0.04
184 2 0.01
185 12 0.06
186 51 0.26
187 11 0.06
189 2 0.01
190 51 0.26
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.38
Consensus pattern (182 bp):
GACTCTACTCTTGTTTTCTCTATTATGTTTACCATGCTCATCAAAACAAAATCAAGTAAAAAAAA
AAAGAATGAGAACTTACAATCCAAAATATACCATAAAAGAAAGTTGAATGTTAGTATTCCTTTCC
TAGTCAATAGTCTAATTGGTAAGTTTCTTTCTTTGCCCCGTTCCTCTTCTCC
Found at i:9063710 original size:35 final size:35
Alignment explanation
Indices: 9063664--9064040 Score: 135
Period size: 35 Copynumber: 10.6 Consensus size: 35
9063654 CGAGATTTTT
*
9063664 TTTTTGAAAACACGAAAATTTTCAAAACATGAAAA
1 TTTTTGAAAACACGAAAATTTTCAAAACACGAAAA
* * ** *
9063699 TTTTTGAAAACACGAGGATTTTTGGAAATACGAAAA
1 TTTTTGAAAACACGA-AAATTTTCAAAACACGAAAA
* ** * *
9063735 TTTTAG-AAACATTAAAATTTTTAAAACACGACAA
1 TTTTTGAAAACACGAAAATTTTCAAAACACGAAAA
* *
9063769 CTTTTG-AAGCACGAGAAATTTATTCAAAACAC-AAAA
1 TTTTTGAAAACACGA-AAA-TT-TTCAAAACACGAAAA
* * ** *****
9063805 ATTTT-AAAACACGAACATTTTTTGAAACAATTTTTA
1 TTTTTGAAAACACGAA-AATTTTCAAAAC-ACGAAAA
* * *
9063841 TTTTT-ATTTTTAAACAAGAAAAATTTTTAAAACACGAGAA
1 TTTTTGA-----AAACACG-AAAATTTTCAAAACACGAAAA
* *
9063881 TTTTAG-AGACACGAAAATTCTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAATT-TTCAAAACACGAAAA
* * * * **
9063915 TTTTTGAGAACACGACAATTTTGAAATACGCGAATT
1 TTTTTGAAAACACGAAAATTTTCAAA-ACACGAAAA
* ** ** * *
9063951 TTTTTGAAAACCCG-ATTTTTTTGAAGCGCGAAAA
1 TTTTTGAAAACACGAAAATTTTCAAAACACGAAAA
** * * *
9063985 TTCGTG-AAACATGAGAATTGTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAATT-TTCAAAACACGAAAA
*
9064020 TTTTTG-AAACATGAAAATTTT
1 TTTTTGAAAACACGAAAATTTT
9064041 TTGAAAACAC
Statistics
Matches: 246, Mismatches: 75, Indels: 43
0.68 0.21 0.12
Matches are distributed among these distances:
33 5 0.02
34 67 0.27
35 81 0.33
36 60 0.24
37 9 0.04
40 6 0.02
41 16 0.07
42 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTCAAAACACGAAAA
Found at i:9063745 original size:53 final size:52
Alignment explanation
Indices: 9063664--9063818 Score: 163
Period size: 53 Copynumber: 2.9 Consensus size: 52
9063654 CGAGATTTTT
9063664 TTTTTGAAAACACGAAAATTTTCAAAACATGAAAATTTTTGAAAACACGAGGA
1 TTTTTGAAAACACGAAAATTTTCAAAACATGAAAATTTTT-AAAACACGAGGA
* * * **
9063717 TTTTTGGAAATACGAAAATTTT-AGAAACATTAAAATTTTTAAAACACGACAA
1 TTTTTGAAAACACGAAAATTTTCA-AAACATGAAAATTTTTAAAACACGAGGA
* * * *
9063769 CTTTTG-AAGCACGAGAAATTTATTCAAAACA-CAAAAATTTTAAAACACGA
1 TTTTTGAAAACACGA-AAA-TT-TTCAAAACATGAAAATTTTTAAAACACGA
9063819 ACATTTTTTG
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
51 6 0.07
52 19 0.22
53 54 0.62
54 7 0.08
55 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (52 bp):
TTTTTGAAAACACGAAAATTTTCAAAACATGAAAATTTTTAAAACACGAGGA
Found at i:9063825 original size:70 final size:69
Alignment explanation
Indices: 9063665--9063826 Score: 164
Period size: 70 Copynumber: 2.3 Consensus size: 69
9063655 GAGATTTTTT
* * * * ** *
9063665 TTTTGAAAACACGAAAATTTTCAAAACATGAAAATTTTTGAAAACACGAGGATTTTTGGAAATAC
1 TTTT-AAAACACGAAAATTTTTAAAACACGAAAACTTTTGAAAACACGAGAATTTTTCAAAACAC
*
9063730 GAAAA
65 AAAAA
** * *
9063735 TTTTAGAAACATTAAAATTTTTAAAACACGACAACTTTTG-AAGCACGAGAAATTTATTCAAAAC
1 TTTTA-AAACACGAAAATTTTTAAAACACGAAAACTTTTGAAAACACGAG-AATTT-TTCAAAAC
9063799 ACAAAAA
63 ACAAAAA
*
9063806 TTTTAAAACACGAACATTTTT
1 TTTTAAAACACGAAAATTTTT
9063827 TGAAACAATT
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
69 9 0.12
70 49 0.66
71 16 0.22
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (69 bp):
TTTTAAAACACGAAAATTTTTAAAACACGAAAACTTTTGAAAACACGAGAATTTTTCAAAACACA
AAAA
Found at i:9064116 original size:18 final size:18
Alignment explanation
Indices: 9064074--9064115 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
9064064 TGATCATGGG
*
9064074 AATTTTTGAAAACGTGAA
1 AATTTTTGAAAACGCGAA
9064092 AATTTTTG-AAACGCGAA
1 AATTTTTGAAAACGCGAA
*
9064109 AGTTTTT
1 AATTTTT
9064116 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (18 bp):
AATTTTTGAAAACGCGAA
Found at i:9064163 original size:19 final size:19
Alignment explanation
Indices: 9064141--9064187 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
9064131 CACGAATTTT
*
9064141 TTTTTTGAACACGA-GAAAA
1 TTTTTTGAAAAC-ATGAAAA
9064160 TTTTTTGAAAACATGAAAA
1 TTTTTTGAAAACATGAAAA
9064179 -TTTTTGAAA
1 TTTTTTGAAA
9064188 CACCGAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTTTTGAAAACATGAAAA
Found at i:9064182 original size:18 final size:18
Alignment explanation
Indices: 9064142--9064379 Score: 109
Period size: 18 Copynumber: 13.3 Consensus size: 18
9064132 ACGAATTTTT
*
9064142 TTTTTGAACACGA-GAAAA
1 TTTTTGAAAAC-ACGAAAA
*
9064160 TTTTTTGAAAACATGAAAA
1 -TTTTTGAAAACACGAAAA
9064179 TTTTTG-AAACACCG-AAA
1 TTTTTGAAAACA-CGAAAA
* *
9064196 -TCTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
** **
9064213 TTTTTGAAAACAATTATTA
1 TTTTTGAAAAC-ACGAAAA
* * *
9064232 TTTTTAAAAAAAACAAAAA
1 TTTTT-GAAAACACGAAAA
* *
9064251 TTTATG-AAACAC-AAGA
1 TTTTTGAAAACACGAAAA
*** *
9064267 TTTAAAAAAAAACACACAAAA
1 TTT--TTGAAAACAC-GAAAA
* * *
9064288 ATTTTCAAAACACTAAAA
1 TTTTTGAAAACACGAAAA
* **
9064306 TTTTTGAAAACATGAGGA
1 TTTTTGAAAACACGAAAA
9064324 TTTTT-AAAACACGCAAAA
1 TTTTTGAAAACACG-AAAA
9064342 -TTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
9064359 TTTTTG-AAATACG-AAA
1 TTTTTGAAAACACGAAAA
9064375 TTTTT
1 TTTTT
9064380 TTTTTAAAAT
Statistics
Matches: 167, Mismatches: 37, Indels: 33
0.70 0.16 0.14
Matches are distributed among these distances:
16 20 0.12
17 41 0.25
18 54 0.32
19 43 0.26
20 4 0.02
21 5 0.03
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:9064362 original size:35 final size:35
Alignment explanation
Indices: 9064156--9064363 Score: 98
Period size: 35 Copynumber: 5.8 Consensus size: 35
9064146 TGAACACGAG
* *
9064156 AAAATTTTTTGAAAACATGAAAATTTTTGAAACACC
1 AAAA-TTTTTGAAAACACGAAAATTTTTAAAACACC
* * * **
9064192 GAAA-TCTTGAAAACACGAAGATTTTTGAAAACAATT
1 AAAATTTTTGAAAACACGAAAATTTTT-AAAAC-ACC
** * * * * *
9064228 ATTATTTTTAAAAAAAACAAAAATTTATGAAACA-C
1 AAAATTTTT-GAAAACACGAAAATTTTTAAAACACC
* *** * * *
9064263 AAGATTTAAAAAAAAACACACAAAAATTTTCAAAACACT
1 AAAATTT---TTGAAA-ACACGAAAATTTTTAAAACACC
* **
9064302 AAAATTTTTGAAAACATGAGGATTTTTAAAACACGC
1 AAAATTTTTGAAAACACGAAAATTTTTAAAACAC-C
9064338 AAAA-TTTTGAAAACACGAAAATTTTT
1 AAAATTTTTGAAAACACGAAAATTTTT
9064364 GAAATACGAA
Statistics
Matches: 122, Mismatches: 40, Indels: 21
0.67 0.22 0.11
Matches are distributed among these distances:
34 19 0.16
35 44 0.36
36 13 0.11
37 11 0.09
38 29 0.24
39 6 0.05
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.29
Consensus pattern (35 bp):
AAAATTTTTGAAAACACGAAAATTTTTAAAACACC
Found at i:9064372 original size:17 final size:17
Alignment explanation
Indices: 9064280--9064379 Score: 78
Period size: 17 Copynumber: 5.8 Consensus size: 17
9064270 AAAAAAAAAC
* **
9064280 ACACAAAAATTTTCAAA
1 ACACGAAAATTTTTGAA
*
9064297 ACACTAAAATTTTTGAAA
1 ACACGAAAATTTTTG-AA
* ** *
9064315 ACATGAGGATTTTTAAA
1 ACACGAAAATTTTTGAA
9064332 ACACGCAAAA-TTTTGAAA
1 ACACG-AAAATTTTTG-AA
9064350 ACACGAAAATTTTTGAA
1 ACACGAAAATTTTTGAA
*
9064367 ATACG-AAATTTTT
1 ACACGAAAATTTTT
9064380 TTTTTAAAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
16 8 0.12
17 32 0.48
18 26 0.39
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (17 bp):
ACACGAAAATTTTTGAA
Found at i:9064380 original size:17 final size:18
Alignment explanation
Indices: 9063664--9064054 Score: 186
Period size: 17 Copynumber: 22.0 Consensus size: 18
9063654 CGAGATTTTT
9063664 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
9063682 -TTTTCAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
**
9063699 TTTTTGAAAACACGAGGA
1 TTTTTGAAAACACGAAAA
* *
9063717 TTTTTGGAAATACGAAAA
1 TTTTTGAAAACACGAAAA
* **
9063735 TTTTAG-AAACATTAAAA
1 TTTTTGAAAACACGAAAA
*
9063752 TTTTT-AAAACACGACAA
1 TTTTTGAAAACACGAAAA
* *
9063769 CTTTTG-AAGCACGAGAAA
1 TTTTTGAAAACACGA-AAA
*
9063787 TTTATTCAAAACAC-AAAA
1 TTT-TTGAAAACACGAAAA
* *
9063805 ATTTT-AAAACACGAACAT
1 TTTTTGAAAACACGAA-AA
*****
9063823 TTTTTG-AAACAATTTTTA
1 TTTTTGAAAAC-ACGAAAA
*
9063841 TTTTT-ATTTTTAAACAAGAAAAA
1 TTTTTGA-----AAACACG-AAAA
*
9063864 TTTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* *
9063881 TTTTAG-AGACACGAAAA
1 TTTTTGAAAACACGAAAA
*
9063898 TTCTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
9063915 TTTTTGAGAACACGACAA
1 TTTTTGAAAACACGAAAA
* **
9063933 -TTTTGAAATACGCGAATT
1 TTTTTGAAA-ACACGAAAA
* **
9063951 TTTTTGAAAACCCG-ATT
1 TTTTTGAAAACACGAAAA
* *
9063968 TTTTTG-AAGCGCGAAAA
1 TTTTTGAAAACACGAAAA
** * *
9063985 TTCGTG-AAACATGAGAA
1 TTTTTGAAAACACGAAAA
*
9064002 TTGTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
9064020 TTTTTG-AAACATGAAAA
1 TTTTTGAAAACACGAAAA
9064037 TTTTTTGAAAACAC-AAAA
1 -TTTTTGAAAACACGAAAA
9064055 AAAAAATTTT
Statistics
Matches: 275, Mismatches: 72, Indels: 52
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.04
17 125 0.45
18 104 0.38
19 17 0.06
20 5 0.02
22 1 0.00
23 11 0.04
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:9064389 original size:21 final size:22
Alignment explanation
Indices: 9064359--9064404 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9064349 AACACGAAAA
* *
9064359 TTTTTGAAATAC-GAAATTTTT
1 TTTTTAAAATACGGAAATTTCT
*
9064380 TTTTTAAAATGCGGAAATTTCT
1 TTTTTAAAATACGGAAATTTCT
9064402 TTT
1 TTT
9064405 GAAACACGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (22 bp):
TTTTTAAAATACGGAAATTTCT
Found at i:9064507 original size:11 final size:11
Alignment explanation
Indices: 9064491--9064516 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9064481 GAAACACGAA
9064491 TTTTTTTATTT
1 TTTTTTTATTT
9064502 TTTTTTTATTT
1 TTTTTTTATTT
9064513 TTTT
1 TTTT
9064517 AAAAACGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:9065003 original size:1 final size:1
Alignment explanation
Indices: 9064999--9065087 Score: 61
Period size: 1 Copynumber: 89.0 Consensus size: 1
9064989 TTTTTCTTCC
* * * * * * * *
9064999 TTTTTTTTTCTTTCTTTTTTCTTTTTTTCTTTTTTCTTTTTCTTTTTTCTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * **
9065064 TCTTCTTTTTCTTCCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTT
9065088 CTGCTGGGCT
Statistics
Matches: 64, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:9065021 original size:7 final size:7
Alignment explanation
Indices: 9064998--9065072 Score: 88
Period size: 7 Copynumber: 11.0 Consensus size: 7
9064988 CTTTTTCTTC
9064998 CTTTTTT
1 CTTTTTT
9065005 -TTTCTTT
1 CTTT-TTT
9065012 CTTTTTT
1 CTTTTTT
9065019 CTTTTTTT
1 C-TTTTTT
9065027 CTTTTTT
1 CTTTTTT
9065034 C-TTTTT
1 CTTTTTT
9065040 CTTTTTT
1 CTTTTTT
9065047 C--TTTT
1 CTTTTTT
9065052 -TTTTTT
1 CTTTTTT
9065058 CTTTTTT
1 CTTTTTT
9065065 CTTCTTTT
1 CTT-TTTT
9065073 TCTTCCTTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 15
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.07
6 13 0.22
7 29 0.48
8 14 0.23
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
CTTTTTT
Found at i:9065058 original size:31 final size:31
Alignment explanation
Indices: 9064989--9065089 Score: 118
Period size: 31 Copynumber: 3.2 Consensus size: 31
9064979 TTGAACCCCC
9064989 TTTTTCTTCCTTTT-TTTTTCTTTCTTT-TTTCTT
1 TTTTTCTT--TTTTCTTTTTCTTT-TTTCTTT-TT
9065022 TTTTTCTTTTTTCTTTTTCTTTTTTCTTTTT
1 TTTTTCTTTTTTCTTTTTCTTTTTTCTTTTT
* * *
9065053 TTTTTCTTTTTTCTTCTT-TTTCTTCCTTTT
1 TTTTTCTTTTTTCTTTTTCTTTTTTCTTTTT
9065083 TTTTTCT
1 TTTTTCT
9065090 GCTGGGCTGC
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
30 17 0.27
31 26 0.41
32 12 0.19
33 8 0.13
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (31 bp):
TTTTTCTTTTTTCTTTTTCTTTTTTCTTTTT
Found at i:9065059 original size:46 final size:48
Alignment explanation
Indices: 9064988--9065089 Score: 140
Period size: 46 Copynumber: 2.2 Consensus size: 48
9064978 ATTGAACCCC
9064988 CTTTTTCTTCCTTTTTTTTTCTTTCTTTTTTCTT-TTTTTCTT-TTTT
1 CTTTTTCTTCCTTTTTTTTTCTTTCTTTTTTCTTCTTTTTCTTCTTTT
* *
9065034 CTTTTTCTT-TTTTCTTTTTTTTTTCTTTTTTCTTCTTTTTCTTCCTTTT
1 CTTTTTCTTCCTTT-TTTTTTCTTTCTTTTTTCTTCTTTTTCTT-CTTTT
9065083 -TTTTTCT
1 CTTTTTCT
9065090 GCTGGGCTGC
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
45 3 0.06
46 28 0.56
47 8 0.16
48 7 0.14
49 4 0.08
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (48 bp):
CTTTTTCTTCCTTTTTTTTTCTTTCTTTTTTCTTCTTTTTCTTCTTTT
Found at i:9065234 original size:11 final size:10
Alignment explanation
Indices: 9065217--9065246 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
9065207 CTTCTTTCCC
9065217 CTTTTTTTTT
1 CTTTTTTTTT
9065227 CTTTTTTTTT
1 CTTTTTTTTT
9065237 CTTTTTTTTT
1 CTTTTTTTTT
9065247 GTTGGGCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:9065293 original size:18 final size:18
Alignment explanation
Indices: 9065258--9065301 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9065248 TTGGGCTACT
* *
9065258 TTGGGCTTGCTGGGTCGGG
1 TTGGG-TTGCCGGATCGGG
9065277 TTGGGTTGCCGGATCGGG
1 TTGGGTTGCCGGATCGGG
*
9065295 TCGGGTT
1 TTGGGTT
9065302 AGACCCGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.02, C:0.16, G:0.50, T:0.32
Consensus pattern (18 bp):
TTGGGTTGCCGGATCGGG
Found at i:9065323 original size:20 final size:20
Alignment explanation
Indices: 9065285--9065348 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
9065275 GGTTGGGTTG
*
9065285 CCGGATCGGGTCGGGTTAGAC
1 CCGGGTCGGGTC-GGTTAGAC
9065306 CCGGGTCGGGTCGGTTAGAC
1 CCGGGTCGGGTCGGTTAGAC
*
9065326 CCGGGTCGGGTCGGTTTGAC
1 CCGGGTCGGGTCGGTTAGAC
9065346 CCG
1 CCG
9065349 ACTGTTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 30 0.73
21 11 0.27
ACGTcount: A:0.09, C:0.27, G:0.44, T:0.20
Consensus pattern (20 bp):
CCGGGTCGGGTCGGTTAGAC
Found at i:9065371 original size:3 final size:3
Alignment explanation
Indices: 9065365--9065426 Score: 79
Period size: 3 Copynumber: 19.0 Consensus size: 3
9065355 AAAATTTTTT
9065365 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTC TTC TTC TTC TTC TTCC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TTC TT-C
9065412 TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC
9065427 AAAACCGAGC
Statistics
Matches: 55, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 40 0.73
4 14 0.25
5 1 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:9065415 original size:22 final size:24
Alignment explanation
Indices: 9065365--9065426 Score: 92
Period size: 22 Copynumber: 2.6 Consensus size: 24
9065355 AAAATTTTTT
*
9065365 TTCTTCTTTCTTCTTCTCTCTTTCT
1 TTCTTC-TTCTTCTTCTCTCTTTCC
9065390 TTCTTCTTCTTCTTCT-TC-TTCC
1 TTCTTCTTCTTCTTCTCTCTTTCC
9065412 TTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTC
9065427 AAAACCGAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
22 18 0.50
23 2 0.06
24 10 0.28
25 6 0.17
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (24 bp):
TTCTTCTTCTTCTTCTCTCTTTCC
Found at i:9065805 original size:30 final size:30
Alignment explanation
Indices: 9065770--9065925 Score: 156
Period size: 30 Copynumber: 5.2 Consensus size: 30
9065760 GGGCCTAAAC
*
9065770 GTAATTTCGAGGAAGTTTAGGGGTAAAAAT
1 GTAATTTCGAGAAAGTTTAGGGGTAAAAAT
* * *
9065800 ATAATTTTGAGAAAGTTTAGGGGTTAAAAT
1 GTAATTTCGAGAAAGTTTAGGGGTAAAAAT
*
9065830 GTAATTTC-AAAAAGTTTAGGGGTAAAAAAT
1 GTAATTTCGAGAAAGTTTAGGGGT-AAAAAT
* * * *
9065860 GTAATTTTGA-AAACTTTTAAGGGTCAAAAT
1 GTAATTTCGAGAAA-GTTTAGGGGTAAAAAT
* * *
9065890 GTAATTTC-AAAAATTTTAGGGGTCAAAAT
1 GTAATTTCGAGAAAGTTTAGGGGTAAAAAT
*
9065919 GTGATTT
1 GTAATTT
9065926 TTTTATTTTT
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
29 36 0.34
30 62 0.58
31 9 0.08
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.35
Consensus pattern (30 bp):
GTAATTTCGAGAAAGTTTAGGGGTAAAAAT
Found at i:9065857 original size:29 final size:29
Alignment explanation
Indices: 9065782--9065925 Score: 153
Period size: 29 Copynumber: 4.9 Consensus size: 29
9065772 AATTTCGAGG
* * *
9065782 AAGTTTAGGGGTAAAAATATAATTTTGAGA
1 AAGTTTAGGGGTAAAAATGTAA-TTTCAAA
*
9065812 AAGTTTAGGGGTTAAAATGTAATTTCAAA
1 AAGTTTAGGGGTAAAAATGTAATTTCAAA
*
9065841 AAGTTTAGGGGTAAAAAATGTAATTTTGAAA
1 AAGTTTAGGGGT-AAAAATGTAA-TTTCAAA
** * *
9065872 ACTTTTAAGGGTCAAAATGTAATTTCAAA
1 AAGTTTAGGGGTAAAAATGTAATTTCAAA
* * *
9065901 AATTTTAGGGGTCAAAATGTGATTT
1 AAGTTTAGGGGTAAAAATGTAATTT
9065926 TTTTATTTTT
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
29 45 0.46
30 38 0.39
31 15 0.15
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (29 bp):
AAGTTTAGGGGTAAAAATGTAATTTCAAA
Found at i:9065858 original size:60 final size:59
Alignment explanation
Indices: 9065782--9065918 Score: 195
Period size: 60 Copynumber: 2.3 Consensus size: 59
9065772 AATTTCGAGG
* *
9065782 AAGTTTAGGGGTAAAAATATAATTTTGAGAAA-GTTTAGGGGTTAAAATGTAATTTCAAA
1 AAGTTTAGGGGTAAAAATATAATTTTGA-AAACGTTTAAGGGTCAAAATGTAATTTCAAA
* *
9065841 AAGTTTAGGGGTAAAAAATGTAATTTTGAAAACTTTTAAGGGTCAAAATGTAATTTCAAA
1 AAGTTTAGGGGT-AAAAATATAATTTTGAAAACGTTTAAGGGTCAAAATGTAATTTCAAA
* *
9065901 AATTTTAGGGGTCAAAAT
1 AAGTTTAGGGGTAAAAAT
9065919 GTGATTTTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
59 20 0.29
60 50 0.71
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (59 bp):
AAGTTTAGGGGTAAAAATATAATTTTGAAAACGTTTAAGGGTCAAAATGTAATTTCAAA
Found at i:9065956 original size:10 final size:9
Alignment explanation
Indices: 9065923--9065957 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
9065913 CAAAATGTGA
9065923 TTTTTTTAT
1 TTTTTTTAT
*
9065932 TTTTTGTAT
1 TTTTTTTAT
*
9065941 TTTTTTGAT
1 TTTTTTTAT
9065950 TTTTTTTA
1 TTTTTTTA
9065958 AAAAACAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:9066212 original size:74 final size:73
Alignment explanation
Indices: 9066121--9067013 Score: 843
Period size: 74 Copynumber: 11.6 Consensus size: 73
9066111 GCATCGGGGT
* *
9066121 GTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGGAAAA
1 GTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAA
9066186 TACCTCGAC
65 TACCTCGAC
* *
9066195 GTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTGAAAAA
1 GTGAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAA
9066260 TACCTCGAC
65 TACCTCGAC
*
9066269 GTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAC-GAAATTTAA
1 GTGAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAA-ACAGAAA-TT-G
*
9066333 AAGAAATACCTCGGCAT
60 AA-AAATACCTC-G-AC
* * *
9066350 GTGACCCAAGGCTCAACTCACCTCTCGC-ATCACGAGTTGATTTTTTG-AAAACAGAAATTTAAA
1 GTGA-CCGAGGCTCAACTCACCTCTCGCAAT-ATGAGTTGA-TTTTTGAAAAACAGAAATTGAAA
*
9066413 CGGAATACCTCGGCAT
63 ---AATACCTC-G-AC
* * *
9066429 GTGTCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTTTTAAAA
1 GTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA---TT-GAA
*
9066494 GAAATACCTCGGCAT
62 -AAATACCTC-G-AC
* * *
9066509 GTGTCCGAGGCTCAACTTACCTCTCGCAATATGAGTTGA-TTTTAAAATAACAGAAATTG-AAAA
1 GTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-AACAGAAATTGAAAAA
* *
9066572 TTCCT-TAGC
65 TACCTCGA-C
* * *
9066581 GTGCGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAGCAAAAATTGAAA
1 GT--GACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
9066646 AATACCTCGAC
63 AATACCTCGAC
* * *
9066657 GTGACTCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTGGAAAAATAGAAATTGAAAAA
1 GTGAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAA
9066722 TACCTCGAC
65 TACCTCGAC
* * * *
9066731 GTAACTCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAATAGAAATT-TAA
1 GTGAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAA
*
9066795 AATACCTCGGC
63 AATACCTCGAC
* ** * *
9066806 GTGACCCAAGGCTCAACTCATTTCTAGCAATATGAGTTGATTTTTTTTTTTG-CAAACAGAAATT
1 GTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTTGAAAAACAGAAATT
* *
9066870 -TAAAATACCTCAGCAT
59 GAAAAATACCTC-G-AC
* * *
9066886 GCGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAGAAACATA
1 GTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAC--AGAAA-TTG
9066951 AATTGAAAGTACCTC-AGC
60 AA---AAA-TACCTCGA-C
*
9066969 GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
1 GTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
9067014 TTTTTGAAAA
Statistics
Matches: 703, Mismatches: 64, Indels: 97
0.81 0.07 0.11
Matches are distributed among these distances:
71 1 0.00
72 2 0.00
73 1 0.00
74 217 0.31
75 86 0.12
76 60 0.09
77 19 0.03
78 67 0.10
79 56 0.08
80 101 0.14
81 42 0.06
82 4 0.01
83 36 0.05
84 5 0.01
85 6 0.01
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (73 bp):
GTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAT
ACCTCGAC
Found at i:9066983 original size:163 final size:155
Alignment explanation
Indices: 9066082--9067040 Score: 697
Period size: 155 Copynumber: 6.2 Consensus size: 155
9066072 CAAAATTTTC
* * * * * * ** * *
9066082 TTTTTATTTGAAAAATAGAAATCGAAAATGCATCGGGGTGTGACCCGAGGCTCAACTCACCTCTC
1 TTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGCGACCTGAGGCTCAACTCACCTCTC
* * * * *
9066147 ACAATATGAGTTGA--TTTTTGAAAAACAGAAATTGGAAAATACCTC-GACGTGACTCAAGGCTC
66 GCAATATGAGCTGATTTTTTTGAAAAAGAGAAATT-TAAAATACCTCAG-CGTGACCCAAGGCTC
*
9066209 AACTCACCTCTCGCAATATGAGTT-A-
129 AACTCACCTCTAGCAATATGAGTTGAT
* * *
9066234 ---ATTTTTGAAAAACAGAAATTGAAAAATACCTC-G-ACGTGA-CTCGAGGCTCAACTCACCTC
1 TTTTTTTTTGAAAAACAGAAATTG-AAAATACCTCAGCATGCGACCT-GAGGCTCAACTCACCTC
* * *
9066293 TCGCAATATGAGTTGATTTTTTTGAAAATA-CGAAATTTAAAAGAAATACCTCGGCATGTGACCC
64 TCGCAATATGAGCTGATTTTTTTGAAAA-AGAGAAATTT---A-AAATACCTCAGC--GTGACCC
* *
9066357 AAGGCTCAACTCACCTCTCGC-ATCACGAGTTGA-
122 AAGGCTCAACTCACCTCTAGCAAT-ATGAGTTGAT
* * * *
9066390 ---TTTTTTG-AAAACAGAAATTTAAACGGAATACCTCGGCATGTGTCC-GAGGCTCAACTCACC
1 TTTTTTTTTGAAAAACAGAAA-TTGAA---AATACCTCAGCATGCGACCTGAGGCTCAACTCACC
* * * *
9066450 TCTCGCATTATGAGTTGA--TTTTTGAAAAACAGAAATTTTTAAAAGAAATACCTCGGCATGTG-
62 TCTCGCAATATGAGCTGATTTTTTTGAAAAAGAGAAA--TTT---A-AAATACCTCAGC--GTGA
* * * *
9066512 TCCGAGGCTCAACTTACCTCTCGCAATATGAGTTGA-
119 CCCAAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
* * * *
9066548 -----TTTTAAAATAACAGAAATTGAAAATTCCTTAGCGTGCGACCTGAGGCTCAACTCACCTCT
1 TTTTTTTTTGAAA-AACAGAAATTGAAAATACCTCAGCATGCGACCTGAGGCTCAACTCACCTCT
* * * * * *
9066608 CGCATTATGAGTTGA--TTTTTG-AAAAGCAAAAATTGAAAAATACCTC-GACGTGACTCGAGGC
65 CGCAATATGAGCTGATTTTTTTGAAAAAG-AGAAATT-TAAAATACCTCAG-CGTGACCCAAGGC
* *
9066669 TCAGCTCACCTCTCGCAATATGAGTTGA-
127 TCAACTCACCTCTAGCAATATGAGTTGAT
* * *
9066697 ----TTTTGGAAAAATAGAAATTGAAAAATACCTC-G-A--CGTAACTCGAGGCTCAACTCACCT
1 TTTTTTTTTGAAAAACAGAAATTG-AAAATACCTCAGCATGCG-ACCT-GAGGCTCAACTCACCT
* *
9066754 CTCGCAATATGAGCTGATTTTTTTGAAAAATAGAAATTTAAAATACCTCGGCGTGACCCAAGGCT
63 CTCGCAATATGAGCTGATTTTTTTGAAAAAGAGAAATTTAAAATACCTCAGCGTGACCCAAGGCT
**
9066819 CAACTCATTTCTAGCAATATGAGTTGATT
128 CAACTCACCTCTAGCAATATGAGTTGA-T
* *
9066848 TTTTTTTTTG-CAAACAGAAATTTAAAATACCTCAGCATGCGACCTGAGGCTCAACTCACCTCTC
1 TTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGCGACCTGAGGCTCAACTCACCTCTC
* * *
9066912 GCAATATGAGTTGATTTTTTTGAAAAACAGAGAAACATAAATTGAAAGTACCTCAGCGTGACCCG
66 GCAATATGAGCTGATTTTTTTG-AAAA-AGAG-AA-AT---TT-AAAATACCTCAGCGTGACCCA
* *
9066977 AGGCTCAACTCACCTCTCGCATTATGAGTTGAT
123 AGGCTCAACTCACCTCTAGCAATATGAGTTGAT
9067010 TTTTTTTTTGAAAAAACAGAAATTGAAAATA
1 TTTTTTTTTG-AAAAACAGAAATTGAAAATA
9067041 TAATTCTTGA
Statistics
Matches: 674, Mismatches: 73, Indels: 108
0.79 0.09 0.13
Matches are distributed among these distances:
146 2 0.00
147 4 0.01
148 70 0.10
149 107 0.16
150 61 0.09
151 6 0.01
152 1 0.00
153 22 0.03
154 31 0.05
155 134 0.20
156 21 0.03
157 25 0.04
158 47 0.07
159 62 0.09
160 4 0.01
161 1 0.00
162 13 0.02
163 46 0.07
164 17 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (155 bp):
TTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGCGACCTGAGGCTCAACTCACCTCTC
GCAATATGAGCTGATTTTTTTGAAAAAGAGAAATTTAAAATACCTCAGCGTGACCCAAGGCTCAA
CTCACCTCTAGCAATATGAGTTGAT
Found at i:9067031 original size:85 final size:83
Alignment explanation
Indices: 9066791--9067031 Score: 266
Period size: 83 Copynumber: 2.9 Consensus size: 83
9066781 AAATAGAAAT
* * ** *
9066791 TTAAAATACCTCGGCGTGACCCAAGGCTCAACTCATTTCTAGCAATATGAGTTGATTTTTTTTTT
1 TTAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTT
*
9066856 TG--CAAACAG-AAAT---
65 TGAAAAAACAGAAAATAAA
* *
9066869 TTAAAATACCTCAGCATGCGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTT
1 TTAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
*
9066931 TTGAAAAACAGAGAAACATAAA
64 TTGAAAAA-ACAGAAA-ATAAA
* *
9066953 TTGAAAGTACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTT
1 TT-AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
9067018 TGAAAAAACAGAAA
65 TGAAAAAACAGAAA
9067032 TTGAAAATAT
Statistics
Matches: 135, Mismatches: 14, Indels: 21
0.79 0.08 0.12
Matches are distributed among these distances:
76 8 0.06
78 16 0.12
79 3 0.02
80 36 0.27
81 2 0.01
83 37 0.27
84 2 0.01
85 18 0.13
86 13 0.10
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (83 bp):
TTAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTT
GAAAAAACAGAAAATAAA
Found at i:9067917 original size:12 final size:11
Alignment explanation
Indices: 9067902--9067976 Score: 91
Period size: 11 Copynumber: 6.6 Consensus size: 11
9067892 TTCATCTTAA
9067902 TTTTTTTTTGT
1 TTTTTTTTTGT
9067913 CTTTTTTTTTGT
1 -TTTTTTTTTGT
9067925 TTTTTTGTTT-T
1 TTTTTT-TTTGT
9067936 TTTGTCTTTTTGT
1 TTT-T-TTTTTGT
*
9067949 TTTTTTTGT-T
1 TTTTTTTTTGT
9067959 TTTTTTTTTGT
1 TTTTTTTTTGT
9067970 TTTTTTT
1 TTTTTTT
9067977 GTCTCTTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
10 9 0.16
11 22 0.39
12 19 0.34
13 6 0.11
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:9067927 original size:8 final size:8
Alignment explanation
Indices: 9067916--9067975 Score: 81
Period size: 8 Copynumber: 7.9 Consensus size: 8
9067906 TTTTTGTCTT
9067916 TTTTTTTG
1 TTTTTTTG
9067924 TTTTTTTG
1 TTTTTTTG
9067932 TTTTTTTG
1 TTTTTTTG
*
9067940 TCTTTTTG
1 TTTTTTTG
9067948 -TTTTTT-
1 TTTTTTTG
*
9067954 TTGTTTT-
1 TTTTTTTG
9067961 TTTTTTTG
1 TTTTTTTG
9067969 TTTTTTT
1 TTTTTTT
9067976 TGTCTCTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 16 0.35
8 30 0.65
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:9067988 original size:1 final size:1
Alignment explanation
Indices: 9067902--9067976 Score: 69
Period size: 1 Copynumber: 75.0 Consensus size: 1
9067892 TTCATCTTAA
* * * * * * * *
9067902 TTTTTTTTTGTCTTTTTTTTTGTTTTTTTGTTTTTTTGTCTTTTTGTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
9067967 TGTTTTTTTT
1 TTTTTTTTTT
9067977 GTCTCTTTTT
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:9067988 original size:16 final size:14
Alignment explanation
Indices: 9067902--9067976 Score: 82
Period size: 13 Copynumber: 5.3 Consensus size: 14
9067892 TTCATCTTAA
9067902 TTTTTTTTTGTCTTT
1 TTTTTTTTTGT-TTT
*
9067917 TTTTTTGTT-TTTT
1 TTTTTTTTTGTTTT
*
9067930 TGTTTTTTTGTCTTT
1 TTTTTTTTTGT-TTT
*
9067945 TTGTTTTTTT-TGTT
1 TT-TTTTTTTGTTTT
9067959 TTTTTTTTTGTTTT
1 TTTTTTTTTGTTTT
9067973 TTTT
1 TTTT
9067977 GTCTCTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
13 17 0.34
14 13 0.26
15 13 0.26
16 7 0.14
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTGTTTT
Found at i:9075406 original size:4 final size:4
Alignment explanation
Indices: 9075372--9075396 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9075362 GTGTACATGC
9075372 AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG A
9075397 CCAATGAATG
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:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:9077214 original size:18 final size:17
Alignment explanation
Indices: 9077175--9077587 Score: 192
Period size: 17 Copynumber: 23.3 Consensus size: 17
9077165 CGAGATTTTT
9077175 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
9077193 TTTTCAAAACACGAAAA
1 TTTTTAAAACACGAAAA
**
9077210 TTTTTGAAAACACGAGGA
1 TTTTT-AAAACACGAAAA
* *
9077228 TTTTTGGAAATACGAAAA
1 TTTTT-AAAACACGAAAA
*
9077246 -TTTTAGAAACATGAAAA
1 TTTTTA-AAACACGAAAA
*
9077263 TTTTTAAAACACGACAA
1 TTTTTAAAACACGAAAA
* * *
9077280 CTTTTGAAGCACGAGAAA
1 TTTTTAAAACACGA-AAA
9077298 TTTATTCAAAACAC-AAAA
1 TTT-TT-AAAACACGAAAA
** *
9077316 AATTTAAAACACGAACAT
1 TTTTTAAAACACGAA-AA
* *****
9077334 TTTTTGAAAAAATTTTTA
1 TTTTT-AAAACACGAAAA
*
9077352 TTTTTATTTTTAAACAAGAAAAA
1 TTTTTA-----AAACACG-AAAA
*
9077375 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAAAA
*
9077392 -TTTTAGAGACACGAAAA
1 TTTTTA-AAACACGAAAA
*
9077409 TTCTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
*
9077426 TTTTTGAGAACACGAAAA
1 TTTTT-AAAACACGAAAA
* * **
9077444 TTTTGAAATACGCGAATT
1 TTTTTAAA-ACACGAAAA
**
9077462 TTTTTGAAAAC-CTG-ATT
1 TTTTT-AAAACAC-GAAAA
* * *
9077479 TTTTTGAAGCGCGAAAA
1 TTTTTAAAACACGAAAA
** * * *
9077496 TTCGTGAAACATGAGAA
1 TTTTTAAAACACGAAAA
*
9077513 TTGTTGAAAACACGAAAA
1 TT-TTTAAAACACGAAAA
9077531 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
* *
9077549 TTTTTGAAACATGAAAA
1 TTTTTAAAACACGAAAA
9077566 TTTTTTGAAAACAC--AAA
1 -TTTTT-AAAACACGAAAA
9077583 TTTTT
1 TTTTT
9077588 TTTTTTGATC
Statistics
Matches: 295, Mismatches: 73, Indels: 56
0.70 0.17 0.13
Matches are distributed among these distances:
16 21 0.07
17 121 0.41
18 121 0.41
19 16 0.05
20 5 0.02
22 4 0.01
23 7 0.02
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:9077542 original size:36 final size:36
Alignment explanation
Indices: 9077175--9077896 Score: 258
Period size: 35 Copynumber: 19.8 Consensus size: 36
9077165 CGAGATTTTT
*
9077175 TTTTTGAAAACACGAAAA-TTTTCAAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
** * *
9077210 TTTTTGAAAACACGAGGATTTTTGGAAATACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
* * *
9077246 TTTTAG-AAACATGAAAATTTTT-AAAACACGACAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
* * *
9077280 CTTTTG-AAGCACGAGAAATTTATTCAAAACAC-AAAA
1 TTTTTGAAAACACGA-AAATTT-TTGAAAACACGAAAA
** * * *****
9077316 AATTT-AAAACACGAACATTTTTTGAAAAAATTTTTA
1 TTTTTGAAAACACGAA-AATTTTTGAAAACACGAAAA
* *
9077352 TTTTT-ATTTTTAAACAAGAAAAATTTTT-AAAACACGAGAA
1 TTTTTGA-----AAACACG-AAAATTTTTGAAAACACGAAAA
* * *
9077392 TTTTAG-AGACACGAAAATTCTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
* * **
9077426 TTTTTGAGAACACGAAAA-TTTTGAAATACGCGAATT
1 TTTTTGAAAACACGAAAATTTTTGAAA-ACACGAAAA
** * *
9077462 TTTTTGAAAAC-CTG-ATTTTTTTG-AAGCGCGAAAA
1 TTTTTGAAAACAC-GAAAATTTTTGAAAACACGAAAA
** * * *
9077496 TTCGTG-AAACATGAGAATTGTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
*
9077531 TTTTTGAAAACACGAAAATTTTTG-AAACATGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
* *** * * **
9077566 TTTTTTGAAAACAC-AAATTTTTTTTTTTGATCATGGGAA
1 -TTTTTGAAAACACGAAA---ATTTTTGAAAACACGAAAA
** *
9077605 TTTTTGAAAACGTGAAAATTTTTG-AAACACGAAAGTTTTT
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAA-----A
* * *
9077645 TTTTTAAAAAGAACACCAAAAATATTTTTTGAACACGA-GAAAA
1 TTTTT--GAA-AACA-C-GAAA-A-TTTTTGAAAAC-ACGAAAA
* *
9077688 TTTTTTGAAAACATGAAAAATTTTG-AAACACCG-AAA
1 -TTTTTGAAAACACGAAAATTTTTGAAAACA-CGAAAA
* * ** * *
9077724 -TCTTGAAAACACGAAGATTTTTGAAAACAATTATTAT
1 TTTTTGAAAACACGAAAATTTTTGAAAAC-ACGA-AAA
* * * *
9077761 TTTTTAAAAAAACGAAAATTTATG-AAACAC-AAGA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
* * *
9077795 TTTTTAAAAAAAAAACAC-AAAAATTTTCAAAACACTG-AAA
1 TTTTT-----GAAAACACGAAAATTTTTGAAAACAC-GAAAA
**
9077835 TTTTTGAAAACACGAGGATTTTT-AAAACACGCAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACG-AAAA
*
9077871 -TTTTGGAAACACGAAAATTTTTGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAA
9077897 TACGAAATTA
Statistics
Matches: 498, Mismatches: 126, Indels: 125
0.66 0.17 0.17
Matches are distributed among these distances:
33 5 0.01
34 86 0.17
35 134 0.27
36 117 0.23
37 18 0.04
38 42 0.08
39 26 0.05
40 22 0.04
41 16 0.03
42 6 0.01
43 3 0.01
44 5 0.01
45 3 0.01
46 1 0.00
47 6 0.01
48 7 0.01
49 1 0.00
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (36 bp):
TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
Found at i:9077588 original size:18 final size:18
Alignment explanation
Indices: 9077175--9077896 Score: 258
Period size: 18 Copynumber: 39.5 Consensus size: 18
9077165 CGAGATTTTT
9077175 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
9077193 -TTTTCAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
**
9077210 TTTTTGAAAACACGAGGA
1 TTTTTGAAAACACGAAAA
* *
9077228 TTTTTGGAAATACGAAAA
1 TTTTTGAAAACACGAAAA
* *
9077246 TTTTAG-AAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
9077263 TTTTT-AAAACACGACAA
1 TTTTTGAAAACACGAAAA
* *
9077280 CTTTTG-AAGCACGAGAAA
1 TTTTTGAAAACACGA-AAA
*
9077298 TTTATTCAAAACAC-AAAA
1 TTT-TTGAAAACACGAAAA
** *
9077316 AATTT-AAAACACGAACAT
1 TTTTTGAAAACACGAA-AA
* *****
9077334 TTTTTGAAAAAATTTTTA
1 TTTTTGAAAACACGAAAA
*
9077352 TTTTT-ATTTTTAAACAAGAAAAA
1 TTTTTGA-----AAACACG-AAAA
*
9077375 TTTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* *
9077392 TTTTAG-AGACACGAAAA
1 TTTTTGAAAACACGAAAA
*
9077409 TTCTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
9077426 TTTTTGAGAACACGAAAA
1 TTTTTGAAAACACGAAAA
* **
9077444 -TTTTGAAATACGCGAATT
1 TTTTTGAAA-ACACGAAAA
**
9077462 TTTTTGAAAAC-CTG-ATT
1 TTTTTGAAAACAC-GAAAA
* *
9077479 TTTTTG-AAGCGCGAAAA
1 TTTTTGAAAACACGAAAA
** * *
9077496 TTCGTG-AAACATGAGAA
1 TTTTTGAAAACACGAAAA
*
9077513 TTGTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
9077531 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
9077549 TTTTTG-AAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
9077566 TTTTTTGAAAACAC-AAATTTT
1 -TTTTTGAAAACACGAAA---A
*** * * **
9077587 TTTTTTTGATCATGGGAA
1 TTTTTGAAAACACGAAAA
**
9077605 TTTTTGAAAACGTGAAAA
1 TTTTTGAAAACACGAAAA
*
9077623 TTTTTG-AAACACGAAAGTTTTT
1 TTTTTGAAAACACGAAA-----A
* *
9077645 TTTTTAAAAAGAACACCAAAAATA
1 TTTTT--GAA-AACA-C-GAAA-A
*
9077669 TTTTTTGAACACGA-GAAAA
1 -TTTTTGAAAAC-ACGAAAA
*
9077688 TTTTTTGAAAACATGAAAA
1 -TTTTTGAAAACACGAAAA
*
9077707 ATTTTG-AAACACCG-AAA
1 TTTTTGAAAACA-CGAAAA
* *
9077724 -TCTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
** * *
9077741 TTTTTGAAAACAATTATTAT
1 TTTTTGAAAAC-ACGA-AAA
* *
9077761 TTTTTAAAAAAACGAAAA
1 TTTTTGAAAACACGAAAA
* *
9077779 TTTATG-AAACAC-AAGA
1 TTTTTGAAAACACGAAAA
*
9077795 TTTTTAAAAAAAAAACAC-AAAA
1 TTTTT-----GAAAACACGAAAA
* *
9077817 ATTTTCAAAACACTG-AAA
1 TTTTTGAAAACAC-GAAAA
**
9077835 TTTTTGAAAACACGAGGA
1 TTTTTGAAAACACGAAAA
9077853 TTTTT-AAAACACGCAAAA
1 TTTTTGAAAACACG-AAAA
*
9077871 -TTTTGGAAACACGAAAA
1 TTTTTGAAAACACGAAAA
9077888 TTTTTGAAA
1 TTTTTGAAA
9077897 TACGAAATTA
Statistics
Matches: 515, Mismatches: 127, Indels: 124
0.67 0.17 0.16
Matches are distributed among these distances:
16 24 0.05
17 183 0.36
18 191 0.37
19 42 0.08
20 25 0.05
21 1 0.00
22 24 0.05
23 10 0.02
24 1 0.00
25 6 0.01
26 4 0.01
27 1 0.00
28 3 0.01
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:9077680 original size:20 final size:19
Alignment explanation
Indices: 9077655--9077696 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9077645 TTTTTAAAAA
9077655 GAACACCAAAAATATTTTTT
1 GAACACCAAAAA-ATTTTTT
* *
9077675 GAACACGAGAAAATTTTTT
1 GAACACCAAAAAATTTTTT
9077694 GAA
1 GAA
9077697 AACATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (19 bp):
GAACACCAAAAAATTTTTT
Found at i:9077821 original size:22 final size:22
Alignment explanation
Indices: 9077785--9077826 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9077775 AAAATTTATG
* *
9077785 AAACACAAGATTTTTAAAAAAA
1 AAACACAAAAATTTTAAAAAAA
*
9077807 AAACACAAAAATTTTCAAAA
1 AAACACAAAAATTTTAAAAA
9077827 CACTGAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.21
Consensus pattern (22 bp):
AAACACAAAAATTTTAAAAAAA
Found at i:9077901 original size:17 final size:17
Alignment explanation
Indices: 9077807--9077903 Score: 88
Period size: 17 Copynumber: 5.6 Consensus size: 17
9077797 TTTAAAAAAA
* **
9077807 AAACACAAAAATTTTCA
1 AAACACGAAAATTTTTG
9077824 AAACACTG-AAATTTTTG
1 AAACAC-GAAAATTTTTG
** *
9077841 AAAACACGAGGATTTTTA
1 -AAACACGAAAATTTTTG
*
9077859 AAACACGCAAAATTTTGG
1 AAACACG-AAAATTTTTG
9077877 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
*
9077894 AAATACGAAA
1 AAACACGAAA
9077904 TTATTTTTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
17 39 0.61
18 25 0.39
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.26
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:9077910 original size:18 final size:19
Alignment explanation
Indices: 9077859--9077910 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
9077849 AGGATTTTTA
*
9077859 AAACACGCAAA-ATTTTGG
1 AAACACGAAAATATTTTGG
9077877 AAACACGAAAAT-TTTT-G
1 AAACACGAAAATATTTTGG
* *
9077894 AAATACGAAATTATTTT
1 AAACACGAAAATATTTT
9077911 TTTTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (19 bp):
AAACACGAAAATATTTTGG
Found at i:9078543 original size:19 final size:19
Alignment explanation
Indices: 9078518--9078573 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
9078508 ATTGAACCCC
9078518 CTTTTTCTTCCTGTTTTCTT
1 CTTTTTCTTCCT-TTTTCTT
9078538 -TTTTTC-T--TTTTTCTT
1 CTTTTTCTTCCTTTTTCTT
*
9078553 CTTTTTCTTCCTTTTTTTT
1 CTTTTTCTTCCTTTTTCTT
9078572 CT
1 CT
9078574 GCTGGGCTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
15 7 0.23
16 7 0.23
17 1 0.03
18 1 0.03
19 15 0.48
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (19 bp):
CTTTTTCTTCCTTTTTCTT
Found at i:9078551 original size:15 final size:16
Alignment explanation
Indices: 9078531--9078561 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9078521 TTTCTTCCTG
9078531 TTTTCTT-TTTTTCTT
1 TTTTCTTCTTTTTCTT
9078546 TTTTCTTCTTTTTCTT
1 TTTTCTTCTTTTTCTT
9078562 CCTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTCTTCTTTTTCTT
Found at i:9078554 original size:10 final size:9
Alignment explanation
Indices: 9078531--9078573 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
9078521 TTTCTTCCTG
9078531 TTTTC-TTT
1 TTTTCTTTT
9078539 TTTTCTTTT
1 TTTTCTTTT
9078548 TTCTTCTTTT
1 TT-TTCTTTT
*
9078558 TCTTCCTTTT
1 T-TTTCTTTT
9078568 TTTTCT
1 TTTTCT
9078574 GCTGGGCTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 5 0.17
9 9 0.30
10 15 0.50
11 1 0.03
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:9078850 original size:3 final size:3
Alignment explanation
Indices: 9078844--9078889 Score: 56
Period size: 3 Copynumber: 14.0 Consensus size: 3
9078834 AAAATTTTTT
9078844 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTC TTC TTC TTC TTC TTC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TTC TTC
9078890 AAAACCGAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 28 0.70
4 11 0.28
5 1 0.03
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:9078870 original size:18 final size:17
Alignment explanation
Indices: 9078847--9078882 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
9078837 ATTTTTTTTC
9078847 TTCTTTCTTCTTCTCTCT
1 TTCTTTCTTCTTCT-TCT
9078865 TTCTTTCTTCTTCTTCT
1 TTCTTTCTTCTTCTTCT
9078882 T
1 T
9078883 CTTCTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTCTTTCTTCTTCTTCT
Found at i:9079328 original size:29 final size:29
Alignment explanation
Indices: 9079212--9079329 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
9079202 CAAACGCAGG
* * * *
9079212 AAAAGTTTTGGGGCCGAAACGTAATTTATA
1 AAAAGTTTAGGGGTCAAAATGTAATTT-TA
** * *
9079242 TGAAGTTTAGGGGTAAAAAATGTAAGTTTGA
1 AAAAGTTTAGGGGT-CAAAATGTAA-TTTTA
* *
9079273 GAAAGTTTAGGGGTCAAAATATAATTTTA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTA
*
9079302 AAAAGTTTAGGGGTCAAAATGTGATTTT
1 AAAAGTTTAGGGGTCAAAATGTAATTTT
9079330 TTTTATTTTT
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
29 29 0.41
30 18 0.26
31 20 0.29
32 3 0.04
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (29 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTA
Found at i:9083515 original size:11 final size:10
Alignment explanation
Indices: 9083486--9083530 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
9083476 AAAAAAGAAT
9083486 AGAAAAT-AA
1 AGAAAATAAA
9083495 AGAAAA-AAA
1 AGAAAATAAA
*
9083504 AGTAAATTAAA
1 AG-AAAATAAA
9083515 AGAAAATAAA
1 AGAAAATAAA
9083525 AGAAAA
1 AGAAAA
9083531 AAATTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 10 0.32
10 16 0.52
11 5 0.16
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (10 bp):
AGAAAATAAA
Found at i:9099726 original size:21 final size:21
Alignment explanation
Indices: 9099700--9099763 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
9099690 TTCGGGTGGA
*
9099700 TCAGCTCTTTTGAGCTTTTGT
1 TCAGCTCTTATGAGCTTTTGT
* *
9099721 TCAGCTCTTATGTGCTTCTGT
1 TCAGCTCTTATGAGCTTTTGT
9099742 TCAGCTCTTATGAGCTTTTGT
1 TCAGCTCTTATGAGCTTTTGT
9099763 T
1 T
9099764 GGCGTGTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.11, C:0.20, G:0.19, T:0.50
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTTTGT
Found at i:9100650 original size:30 final size:30
Alignment explanation
Indices: 9100614--9100782 Score: 257
Period size: 30 Copynumber: 5.6 Consensus size: 30
9100604 GTCTCATCCG
* * *
9100614 TGTGTGACATACGGCCAGGCGACACAGCCA
1 TGTGTGACACACGGCCATGCGACACGGCCA
9100644 TGTGTGACACACGGCCATGCGACACGGCCA
1 TGTGTGACACACGGCCATGCGACACGGCCA
9100674 TGTGTGACACACGGCCATGCGACACGGCCA
1 TGTGTGACACACGGCCATGCGACACGGCCA
* *
9100704 TGTGTGACACACGGCCATGCGACACGACCG
1 TGTGTGACACACGGCCATGCGACACGGCCA
* * *
9100734 TGTGTGACATACGACCATGCGACACGGCCG
1 TGTGTGACACACGGCCATGCGACACGGCCA
*
9100764 TGTGTGACACATGGCCATG
1 TGTGTGACACACGGCCATG
9100783 TAGGTTCAAA
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 128 1.00
ACGTcount: A:0.24, C:0.31, G:0.30, T:0.15
Consensus pattern (30 bp):
TGTGTGACACACGGCCATGCGACACGGCCA
Found at i:9100660 original size:17 final size:17
Alignment explanation
Indices: 9100614--9100722 Score: 98
Period size: 15 Copynumber: 7.1 Consensus size: 17
9100604 GTCTCATCCG
*
9100614 TGTGTGACATACGGCCA
1 TGTGTGACACACGGCCA
*
9100631 -G-GCGACACA--GCCA
1 TGTGTGACACACGGCCA
9100644 TGTGTGACACACGGCCA
1 TGTGTGACACACGGCCA
*
9100661 --TGCG--ACACGGCCA
1 TGTGTGACACACGGCCA
9100674 TGTGTGACACACGGCCA
1 TGTGTGACACACGGCCA
*
9100691 --TGCG--ACACGGCCA
1 TGTGTGACACACGGCCA
9100704 TGTGTGACACACGGCCA
1 TGTGTGACACACGGCCA
9100721 TG
1 TG
9100723 CGACACGACC
Statistics
Matches: 73, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
13 22 0.30
14 1 0.01
15 25 0.34
16 1 0.01
17 24 0.33
ACGTcount: A:0.24, C:0.31, G:0.30, T:0.15
Consensus pattern (17 bp):
TGTGTGACACACGGCCA
Found at i:9100670 original size:13 final size:13
Alignment explanation
Indices: 9100652--9100729 Score: 66
Period size: 13 Copynumber: 5.4 Consensus size: 13
9100642 CATGTGTGAC
9100652 ACACGGCCATGCG
1 ACACGGCCATGCG
*
9100665 ACACGGCCATGTGTG
1 ACACGGCCA--TGCG
9100680 ACACACGGCCATGCG
1 --ACACGGCCATGCG
*
9100695 ACACGGCCATGTGTG
1 ACACGGCCA--TGCG
9100710 ACACACGGCCATGCG
1 --ACACGGCCATGCG
9100725 ACACG
1 ACACG
9100730 ACCGTGTGTG
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
13 23 0.43
15 12 0.23
17 18 0.34
ACGTcount: A:0.24, C:0.35, G:0.29, T:0.12
Consensus pattern (13 bp):
ACACGGCCATGCG
Found at i:9101407 original size:21 final size:21
Alignment explanation
Indices: 9101381--9101422 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9101371 ATCCAATTGA
* *
9101381 ACGTAAGCTTGGGGCTATCGC
1 ACGTAAACTTGGGCCTATCGC
*
9101402 ACGTAAATTTGGGCCTATCGC
1 ACGTAAACTTGGGCCTATCGC
9101423 TTGTTAATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (21 bp):
ACGTAAACTTGGGCCTATCGC
Found at i:9101831 original size:15 final size:15
Alignment explanation
Indices: 9101811--9101841 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9101801 TCTTTAAATC
9101811 ATTCAAAAGAGTAAT
1 ATTCAAAAGAGTAAT
9101826 ATTCAAAAGAGTAAT
1 ATTCAAAAGAGTAAT
9101841 A
1 A
9101842 AATTGACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (15 bp):
ATTCAAAAGAGTAAT
Found at i:9104886 original size:18 final size:20
Alignment explanation
Indices: 9104838--9104886 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 20
9104828 TCTTTAGTTC
*
9104838 TTTTA-TTATTTAGGTAACT
1 TTTTAGTTATTTAGGTAAAT
**
9104857 TTTTAGAAATTTA-G-AAAT
1 TTTTAGTTATTTAGGTAAAT
9104875 TTTTAGTTATTT
1 TTTTAGTTATTT
9104887 TATATATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 13 0.54
19 6 0.25
20 5 0.21
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (20 bp):
TTTTAGTTATTTAGGTAAAT
Found at i:9110087 original size:129 final size:129
Alignment explanation
Indices: 9109857--9110117 Score: 396
Period size: 129 Copynumber: 2.0 Consensus size: 129
9109847 TTCCAAGAAG
* * *
9109857 CTTTATGATGACAGTTTTGGAAAAGCGTATGAATTTTATCAGAAAATTTAATCGATGTGACTCTA
1 CTTTATGATGACAGTTTTAGAAAAGCGTATGAATTCTATCAGAAAATTTAATCGATGGGACTCTA
** * *
9109922 TTCATGAAGTGTATTGAAACTTCACCTAACAACAACTCAATATCCTCCTCATCCACAGCCTATC
66 TTCACAAAGTGTATTAAAACTTCACCTAACAACAACTCAATATCCTCCTCATCAACAGCCTATC
* * *
9109986 CTTTATGATGATAGTTTTAGACAAGTGTATGAATTCTATCAGAAAATTTAATCGATGGGACTCTA
1 CTTTATGATGACAGTTTTAGAAAAGCGTATGAATTCTATCAGAAAATTTAATCGATGGGACTCTA
* * * *
9110051 TTCACAAAGTGTATTAAAACTTCATCTACCAGCAACTCAATATCCTCCTCATCAATAGCCTATC
66 TTCACAAAGTGTATTAAAACTTCACCTAACAACAACTCAATATCCTCCTCATCAACAGCCTATC
9110115 CTT
1 CTT
9110118 CCTCCATCCT
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 118 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (129 bp):
CTTTATGATGACAGTTTTAGAAAAGCGTATGAATTCTATCAGAAAATTTAATCGATGGGACTCTA
TTCACAAAGTGTATTAAAACTTCACCTAACAACAACTCAATATCCTCCTCATCAACAGCCTATC
Found at i:9117493 original size:19 final size:19
Alignment explanation
Indices: 9117469--9117507 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9117459 TCCGCAATCA
* *
9117469 TATTTCTAGATTTTCTTTT
1 TATTTCAAGATTTTATTTT
*
9117488 TATTTCAATATTTTATTTT
1 TATTTCAAGATTTTATTTT
9117507 T
1 T
9117508 CCCCGTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (19 bp):
TATTTCAAGATTTTATTTT
Found at i:9119764 original size:22 final size:23
Alignment explanation
Indices: 9119739--9119786 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9119729 CGAAAAGACA
* *
9119739 ATTTTG-TGTGCGTGTAAAAACC
1 ATTTTGCTGTACGTGCAAAAACC
*
9119761 ATTTTGCTTTACGTGCAAAAACC
1 ATTTTGCTGTACGTGCAAAAACC
9119784 ATT
1 ATT
9119787 AAGGACAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (23 bp):
ATTTTGCTGTACGTGCAAAAACC
Found at i:9121227 original size:44 final size:44
Alignment explanation
Indices: 9121163--9121252 Score: 155
Period size: 44 Copynumber: 2.0 Consensus size: 44
9121153 TTGTTGTTGC
*
9121163 TATCATCTTCTAAAAGAACTCCATCAAGAGTCCCTGGACTTTCT
1 TATCATCTTCTAAAAGAACTCCATCAAGAGTCCCTAGACTTTCT
9121207 TATCATCTTCTACAAA-AACTCCATCAAGAGTCCCTAGACTTTCT
1 TATCATCTTCTA-AAAGAACTCCATCAAGAGTCCCTAGACTTTCT
9121251 TA
1 TA
9121253 ACCTTGCTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 41 0.93
45 3 0.07
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (44 bp):
TATCATCTTCTAAAAGAACTCCATCAAGAGTCCCTAGACTTTCT
Found at i:9122622 original size:48 final size:48
Alignment explanation
Indices: 9122551--9122645 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
9122541 TGTAAAAAGT
*
9122551 CTAGTTCTGAAACAACCTCCACTCACGATAGTCTCACTTTGGAATAGA
1 CTAGTTCTGAAACAACCTCCACTCACGATAGTCTCACTTCGGAATAGA
*
9122599 CTAGTTTTGAAACAACCTCCACTCACGATAGTCTCACTTCGGAATAG
1 CTAGTTCTGAAACAACCTCCACTCACGATAGTCTCACTTCGGAATAG
9122646 GATCTTTTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (48 bp):
CTAGTTCTGAAACAACCTCCACTCACGATAGTCTCACTTCGGAATAGA
Found at i:9134051 original size:6 final size:6
Alignment explanation
Indices: 9134040--9134073 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
9134030 TATTTTATAG
*
9134040 TTTCTT TTTCTT TCTTTTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTT
9134074 GATTCGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:9134062 original size:9 final size:10
Alignment explanation
Indices: 9134040--9134071 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
9134030 TATTTTATAG
9134040 TTTCTTTTTC
1 TTTCTTTTTC
9134050 TTTCTTTTT-
1 TTTCTTTTTC
9134059 TTTCTTTTTC
1 TTTCTTTTTC
9134069 TTT
1 TTT
9134072 TTGATTCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:9147785 original size:22 final size:22
Alignment explanation
Indices: 9147736--9147784 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
9147726 ATATAGTGGA
9147736 ATTTTTATTTTGAGTTTAATTT
1 ATTTTTATTTTGAGTTTAATTT
*
9147758 ATTTTTATTTT-A-TCTTATTTT
1 ATTTTTATTTTGAGT-TTAATTT
9147779 ATTTTT
1 ATTTTT
9147785 TTCCAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 13 0.52
22 11 0.44
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (22 bp):
ATTTTTATTTTGAGTTTAATTT
Found at i:9153860 original size:9 final size:9
Alignment explanation
Indices: 9153846--9153880 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
9153836 TATAGAGTGG
9153846 CATGCTTCA
1 CATGCTTCA
9153855 CATGCTTCA
1 CATGCTTCA
* *
9153864 TATGTTTCA
1 CATGCTTCA
9153873 CATGCTTC
1 CATGCTTC
9153881 CATTTCAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.20, C:0.29, G:0.11, T:0.40
Consensus pattern (9 bp):
CATGCTTCA
Found at i:9163888 original size:43 final size:43
Alignment explanation
Indices: 9163827--9163915 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
9163817 CGATCAGGAC
9163827 GTTCTATCTCCAAAGAATCCATATTCCACCAGAATACCCATGT
1 GTTCTATCTCCAAAGAATCCATATTCCACCAGAATACCCATGT
9163870 GTTCTATCTCCAAAGAATCCATATTCCACCAGAATACCCATGT
1 GTTCTATCTCCAAAGAATCCATATTCCACCAGAATACCCATGT
9163913 GTT
1 GTT
9163916 TCAACTCTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.29
Consensus pattern (43 bp):
GTTCTATCTCCAAAGAATCCATATTCCACCAGAATACCCATGT
Found at i:9168853 original size:17 final size:17
Alignment explanation
Indices: 9168833--9168877 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
9168823 GCAGTCTCGG
*
9168833 TGAGCACATAGTGTTGA
1 TGAGCACACAGTGTTGA
* *
9168850 TGAGCTCACAGTGTTGG
1 TGAGCACACAGTGTTGA
*
9168867 TGAGCTCACAG
1 TGAGCACACAG
9168878 ATATGGTGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (17 bp):
TGAGCACACAGTGTTGA
Found at i:9168884 original size:17 final size:16
Alignment explanation
Indices: 9168850--9168929 Score: 63
Period size: 17 Copynumber: 4.8 Consensus size: 16
9168840 ATAGTGTTGA
*
9168850 TGAGCTCACAGTGTTGG
1 TGAGCTCACAGT-ATGG
9168867 TGAGCTCACAGATATGG
1 TGAGCTCACAG-TATGG
*
9168884 TGAGCTCATATTGT-TGG
1 TGAGCTCACA--GTATGG
* * *
9168901 TAAGCTTATAGATATGG
1 TGAGCTCACAG-TATGG
9168918 TGAGCTCACAGT
1 TGAGCTCACAGT
9168930 GTTGAAGTCT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
15 1 0.02
16 2 0.04
17 45 0.88
18 2 0.04
19 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (16 bp):
TGAGCTCACAGTATGG
Found at i:9168888 original size:34 final size:34
Alignment explanation
Indices: 9168850--9168933 Score: 123
Period size: 34 Copynumber: 2.5 Consensus size: 34
9168840 ATAGTGTTGA
*
9168850 TGAGCTCACAGTGTTGGTGAGCTCACAGATATGG
1 TGAGCTCACAGTGTTGGTAAGCTCACAGATATGG
* * * *
9168884 TGAGCTCATATTGTTGGTAAGCTTATAGATATGG
1 TGAGCTCACAGTGTTGGTAAGCTCACAGATATGG
9168918 TGAGCTCACAGTGTTG
1 TGAGCTCACAGTGTTG
9168934 AAGTCTGGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (34 bp):
TGAGCTCACAGTGTTGGTAAGCTCACAGATATGG
Found at i:9182729 original size:124 final size:124
Alignment explanation
Indices: 9182501--9182752 Score: 468
Period size: 124 Copynumber: 2.0 Consensus size: 124
9182491 ATGAAATATG
* *
9182501 AGCCCTCAAATAGAAATTCCAAATTACCATATTTTGTTACTCAAACTCAATGGTGAATGTTAAGT
1 AGCCCTCAAATAGAAATTCAAAATTACCATATTCTGTTACTCAAACTCAATGGTGAATGTTAAGT
*
9182566 ATGCATCAAACAAGGTATGCTCAATTTTCTACATATTTTTGATACATTTAGAGGATCAT
66 ATGCATCAAACAAGGTATGCTCAATTTTCAACATATTTTTGATACATTTAGAGGATCAT
9182625 AGCCCTCAAATAGAAATTCAAAATTACCATATTCTGTTACTCAAACTCAATGGTGAATGTTAAGT
1 AGCCCTCAAATAGAAATTCAAAATTACCATATTCTGTTACTCAAACTCAATGGTGAATGTTAAGT
*
9182690 ATGCATCAAACAAGGTATGCTCAATTTTCAACATTTTTTTGATACATTTAGAGGATCAT
66 ATGCATCAAACAAGGTATGCTCAATTTTCAACATATTTTTGATACATTTAGAGGATCAT
9182749 AGCC
1 AGCC
9182753 TCATAACCAA
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (124 bp):
AGCCCTCAAATAGAAATTCAAAATTACCATATTCTGTTACTCAAACTCAATGGTGAATGTTAAGT
ATGCATCAAACAAGGTATGCTCAATTTTCAACATATTTTTGATACATTTAGAGGATCAT
Found at i:9195665 original size:65 final size:65
Alignment explanation
Indices: 9195557--9195690 Score: 225
Period size: 65 Copynumber: 2.1 Consensus size: 65
9195547 AATTTGAATT
*
9195557 GCTTCTGTTAATGTGTTTTTTGTATGGCAGATTCGGCATCTTGCAAAACCTTTGCCTTGGCTCCG
1 GCTTCTGTTAATGTGTTTTTTGTATGGCAGATTCGGCATCTTGCAAAACCTTTACCTTGGCTCCG
* *
9195622 GCTTCTGTTAGTGTGTTTTTTGTGTGGCAGATTCGGACA-CTTGCAAAACCTTTACCTTGGCTCC
1 GCTTCTGTTAATGTGTTTTTTGTATGGCAGATTCGG-CATCTTGCAAAACCTTTACCTTGGCTCC
9195686 G
65 G
9195687 GCTT
1 GCTT
9195691 AGCGAACAAC
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
65 63 0.97
66 2 0.03
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.40
Consensus pattern (65 bp):
GCTTCTGTTAATGTGTTTTTTGTATGGCAGATTCGGCATCTTGCAAAACCTTTACCTTGGCTCCG
Found at i:9207064 original size:31 final size:31
Alignment explanation
Indices: 9207029--9207097 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
9207019 CTTAAAAGTC
* **
9207029 CAGTGACTTAAAT-AAAATTTTTTGAATGGTT
1 CAGTGACTTAAATGAAAA-CTTTTGAATAATT
9207060 CAGTGACTTAAATGAAAACTTTTGAATAATT
1 CAGTGACTTAAATGAAAACTTTTGAATAATT
9207091 CAGTGAC
1 CAGTGAC
9207098 CAAATTGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (31 bp):
CAGTGACTTAAATGAAAACTTTTGAATAATT
Found at i:9211912 original size:13 final size:13
Alignment explanation
Indices: 9211894--9211931 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
9211884 CCTCTTCCTC
9211894 TAACTCTAACTCT
1 TAACTCTAACTCT
**
9211907 TAACTCGGACTCT
1 TAACTCTAACTCT
9211920 TAACTCTAACTC
1 TAACTCTAACTC
9211932 CTGTCCTTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.05, T:0.34
Consensus pattern (13 bp):
TAACTCTAACTCT
Found at i:9216607 original size:21 final size:22
Alignment explanation
Indices: 9216560--9216626 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
9216550 TTGACACAGA
*
9216560 ATTAAATTATATATTTTATAAT
1 ATTAAAATATATATTTTATAAT
*
9216582 ATTAAAATATA-ATTTTATCAT
1 ATTAAAATATATATTTTATAAT
* * *
9216603 TTTAATATTTTATATATTTATAAT
1 ATTAA-AATATATAT-TTTATAAT
9216627 TTTTAAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 13 0.36
22 14 0.39
23 2 0.06
24 7 0.19
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTAAAATATATATTTTATAAT
Found at i:9216628 original size:16 final size:16
Alignment explanation
Indices: 9216589--9216629 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
9216579 AATATTAAAA
9216589 TATAATTTTATCATTT
1 TATAATTTTATCATTT
9216605 TA-ATATTTTAT-ATATT
1 TATA-ATTTTATCAT-TT
9216621 TATAATTTT
1 TATAATTTT
9216630 TAAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.14
16 18 0.82
17 1 0.05
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TATAATTTTATCATTT
Found at i:9216642 original size:16 final size:16
Alignment explanation
Indices: 9216601--9216643 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
9216591 TAATTTTATC
* *
9216601 ATTTTAATATTTTATAT
1 ATTTTAAT-TTTTAAAA
9216618 ATTTATAATTTTTAAAA
1 ATTT-TAATTTTTAAAA
9216635 ATTTTAATT
1 ATTTTAATT
9216644 AAATTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.22
17 14 0.61
18 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTAATTTTTAAAA
Found at i:9216726 original size:30 final size:30
Alignment explanation
Indices: 9216692--9216787 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
9216682 ATCGCTAATT
9216692 TAAAATTTAATAAGTTATAAATAGCCTAAA
1 TAAAATTTAATAAGTTATAAATAGCCTAAA
* * * * * *
9216722 TAAAA--AAAGTACAATT-TTATTATCGCTAATT
1 TAAAATTTAA-TA-AGTTATAAATAGC-CTAA-A
9216753 TAAAATTTAATAAGTTATAAATAGCCTAAA
1 TAAAATTTAATAAGTTATAAATAGCCTAAA
9216783 TAAAA
1 TAAAA
9216788 AAAATTTTAT
Statistics
Matches: 47, Mismatches: 12, Indels: 14
0.64 0.16 0.19
Matches are distributed among these distances:
28 2 0.04
29 7 0.15
30 17 0.36
31 12 0.26
32 7 0.15
33 2 0.04
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.34
Consensus pattern (30 bp):
TAAAATTTAATAAGTTATAAATAGCCTAAA
Found at i:9216731 original size:61 final size:61
Alignment explanation
Indices: 9216666--9216790 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
9216656 TTTTTAAGAG
9216666 AAAGTACAATTTTATCATCGCTAATTTAAAATTTAATAAGTTATAAATAGCCTAAATAAAA
1 AAAGTACAATTTTATCATCGCTAATTTAAAATTTAATAAGTTATAAATAGCCTAAATAAAA
*
9216727 AAAGTACAATTTTATTATCGCTAATTTAAAATTTAATAAGTTATAAATAGCCTAAATAAAA
1 AAAGTACAATTTTATCATCGCTAATTTAAAATTTAATAAGTTATAAATAGCCTAAATAAAA
9216788 AAA
1 AAA
9216791 ATTTTATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.34
Consensus pattern (61 bp):
AAAGTACAATTTTATCATCGCTAATTTAAAATTTAATAAGTTATAAATAGCCTAAATAAAA
Found at i:9218373 original size:18 final size:19
Alignment explanation
Indices: 9218347--9218390 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
9218337 TACTCCCCTA
*
9218347 TTTACTTTCCCTC-AAACT
1 TTTACTTTCCCCCTAAACT
*
9218365 TTTATTTTCCCCCTAAACT
1 TTTACTTTCCCCCTAAACT
9218384 TTTACTT
1 TTTACTT
9218391 CTCACCACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTACTTTCCCCCTAAACT
Found at i:9218846 original size:115 final size:113
Alignment explanation
Indices: 9218509--9219060 Score: 851
Period size: 115 Copynumber: 4.9 Consensus size: 113
9218499 CAATAAGCAA
* * *
9218509 TAGCGGCGTTTTTTAAAAAGCGCTGCAAAAAACCTAATCC--AA--ACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
9218570 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
9218618 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
9218683 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
9218731 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCT
1 TAGCGGCGTTTTTGAGAAAGCGCCGC--AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCT
* *
9218796 TTGTGGATTTAGCGGTGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTT
64 TTGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* **
9218846 TAGCGGCGTTTTTGAGATAGCGCCGCAAAAAAACCTAATGTAAAACGACGCAGTTTTTGTGAGCT
1 TAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAG-TTTTGTGAGCT
* * *
9218911 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGAGCTT
64 TT-GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* * *
9218962 TAGCGGCGTTTTTGGGAAAGCGCCACAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* * *
9219027 CGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 -GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGC
9219061 AAAAAACCTA
Statistics
Matches: 411, Mismatches: 24, Indels: 11
0.92 0.05 0.02
Matches are distributed among these distances:
109 36 0.09
111 2 0.00
113 93 0.23
114 70 0.17
115 144 0.35
116 66 0.16
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (113 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
Found at i:9219045 original size:73 final size:73
Alignment explanation
Indices: 9218960--9219118 Score: 228
Period size: 73 Copynumber: 2.2 Consensus size: 73
9218950 TGCTCAGAGC
* * *
9218960 TTTAGCGGCGTTTTTGGGAAAGCGCCACAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
9219025 TTCGGGGA
66 TTCGGGGA
* * * * * *
9219033 TTTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACACCTTTTTTTGCGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
9219098 TTCGGGGA
66 TTCGGGGA
*
9219106 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
9219119 AATTGATTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
TTCGGGGA
Found at i:9219798 original size:14 final size:15
Alignment explanation
Indices: 9219772--9219809 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
9219762 CTACTATATA
9219772 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
9219787 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
9219801 TATGG-TTTA
1 TATGGATTTA
9219810 ATTAAGGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:9220356 original size:46 final size:47
Alignment explanation
Indices: 9220299--9220399 Score: 168
Period size: 47 Copynumber: 2.1 Consensus size: 47
9220289 TAAAATGAAA
*
9220299 TAAAAACACT-AAACTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAA-ACTAAAACTTTTAATTTTATCTAATTTTTATAAATATAACT
*
9220346 TAAAAAACTAAAATTTTTAATTTTATCTAATTTTTATAAATATAACT
1 TAAAAAACTAAAACTTTTAATTTTATCTAATTTTTATAAATATAACT
9220393 TAAAAAA
1 TAAAAAA
9220400 ACCTATGTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
46 3 0.06
47 48 0.94
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.45
Consensus pattern (47 bp):
TAAAAAACTAAAACTTTTAATTTTATCTAATTTTTATAAATATAACT
Found at i:9224691 original size:15 final size:15
Alignment explanation
Indices: 9224671--9224700 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9224661 GAGTTGAAAG
9224671 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
9224686 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
9224701 AGATGATCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:9225146 original size:43 final size:43
Alignment explanation
Indices: 9225043--9225179 Score: 159
Period size: 43 Copynumber: 3.2 Consensus size: 43
9225033 TGTTTTTAGC
* * * * *
9225043 GGCGTTTGTAATCAAAGCGTCGCTAAAGGTTTTTGATCTATAGT
1 GGCGTTTGTAGTAAAAGCGCCGCTAAA-GATCTTGATCTATAGT
* * *
9225087 GGCATTTGTGGTAAAAGCGCCGCTAAAGATCTTGAGCTATAGT
1 GGCGTTTGTAGTAAAAGCGCCGCTAAAGATCTTGATCTATAGT
* *
9225130 GGCGTTTGTTAG-AAAAGCGCCGCTAAAGATCCTGATCTATAGC
1 GGCGTTTG-TAGTAAAAGCGCCGCTAAAGATCTTGATCTATAGT
9225173 GGCGTTT
1 GGCGTTT
9225180 ATTTCTAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
43 55 0.70
44 24 0.30
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GGCGTTTGTAGTAAAAGCGCCGCTAAAGATCTTGATCTATAGT
Found at i:9225931 original size:5 final size:5
Alignment explanation
Indices: 9225921--9225947 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
9225911 AAAATTTTTT
9225921 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
9225948 CGAATGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:9233466 original size:3 final size:3
Alignment explanation
Indices: 9233458--9233488 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9233448 TTCTATTCTG
9233458 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9233489 TTCTGTGCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9235041 original size:26 final size:27
Alignment explanation
Indices: 9234988--9235051 Score: 112
Period size: 26 Copynumber: 2.4 Consensus size: 27
9234978 AATAAAAAAA
9234988 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAC-TTTTTTTATTT
9235016 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
9235042 ACCAAAATAT
1 ACCAAAATAT
9235052 AAAAAAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 21 0.58
28 15 0.42
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Done.