Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 48 of 54
Found at i:11401050 original size:15 final size:15
Alignment explanation
Indices: 11401030--11401059 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11401020 TTTATCGCTC
11401030 AATTTTTCCTGATAA
1 AATTTTTCCTGATAA
11401045 AATTTTTCCTGATAA
1 AATTTTTCCTGATAA
11401060 TCAGTTAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (15 bp):
AATTTTTCCTGATAA
Found at i:11403846 original size:21 final size:21
Alignment explanation
Indices: 11403822--11403873 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
11403812 TCTTTATGAG
*
11403822 GTATCGATATTGAAGAGGGTA
1 GTATCGATACTGAAGAGGGTA
11403843 GTATCGATACTGAAGAGGGTA
1 GTATCGATACTGAAGAGGGTA
11403864 GTATCGATAC
1 GTATCGATAC
11403874 CCTAGGTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (21 bp):
GTATCGATACTGAAGAGGGTA
Found at i:11404651 original size:23 final size:23
Alignment explanation
Indices: 11404624--11404676 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
11404614 TATGGCACTA
11404624 CGGTGCAATTCTAAGCGGCACTTT
1 CGGTGCAATTCTAAGCGGCA-TTT
* *
11404648 -GGTGCAATTCTACGTGGCATTT
1 CGGTGCAATTCTAAGCGGCATTT
11404670 CGGTGCA
1 CGGTGCA
11404677 TTTATACGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (23 bp):
CGGTGCAATTCTAAGCGGCATTT
Found at i:11404684 original size:23 final size:23
Alignment explanation
Indices: 11404616--11404684 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
11404606 ACATTTTATA
** * *
11404616 TGGCACTACGGTGCAATTCTAAG
1 TGGCACTTTGGTGCAATTATACG
* *
11404639 CGGCACTTTGGTGCAATTCTACG
1 TGGCACTTTGGTGCAATTATACG
*
11404662 TGGCA-TTTCGGTGCATTTATACG
1 TGGCACTTT-GGTGCAATTATACG
11404685 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 3 0.08
23 35 0.92
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (23 bp):
TGGCACTTTGGTGCAATTATACG
Found at i:11406165 original size:83 final size:83
Alignment explanation
Indices: 11406022--11406203 Score: 238
Period size: 83 Copynumber: 2.2 Consensus size: 83
11406012 AAATACTCTT
** * * * *
11406022 TATCACGACATTTGTTGGAAAAATGCCACTATGAACGAACCCTCTTACAGTGTTTGTATAAAAAC
1 TATCACGACATTTGTTGGAAAAACACCACTATAAACGAACCCTATTACAGCGTTTATATAAAAAC
* *
11406087 GCCACTAAAGTACTAATC
66 ACCACTAAAGTAATAATC
***
11406105 TATCACGACATTTGTTGGAAAAACACCACTATAAACGAACCCTATTGTGGCGTTTATATAAAAAC
1 TATCACGACATTTGTTGGAAAAACACCACTATAAACGAACCCTATTACAGCGTTTATATAAAAAC
* *
11406170 ACCGCTAAAGTAATATTC
66 ACCACTAAAGTAATAATC
*
11406188 TATCACGACGTTTGTT
1 TATCACGACATTTGTT
11406204 TAAGAAACGC
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 85 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (83 bp):
TATCACGACATTTGTTGGAAAAACACCACTATAAACGAACCCTATTACAGCGTTTATATAAAAAC
ACCACTAAAGTAATAATC
Found at i:11409180 original size:2 final size:2
Alignment explanation
Indices: 11409173--11409228 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
11409163 CATATTTTTC
11409173 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11409215 AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT A
11409229 CAAAATTGTG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11413481 original size:20 final size:20
Alignment explanation
Indices: 11413451--11413606 Score: 91
Period size: 20 Copynumber: 7.7 Consensus size: 20
11413441 GTTTCCAGAT
*
11413451 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* ** *
11413471 TCGCATTGCGATT-TTCCAAA
1 TCGCAATGCGATTCTGAC-TA
** *
11413491 TTCGCGTTGCGATTTTCCGACTA
1 -TCGCAATGCGA--TTCTGACTA
* * *
11413514 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTCTG-ACTA
* *
11413534 TCGTAATGCGATTATGACTA
1 TCGCAATGCGATTCTGACTA
* *
11413554 TCGCAACGAGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* * *
11413574 TCGCAACGCGATGCTAACTA
1 TCGCAATGCGATTCTGACTA
11413594 TCGCAATGCGATT
1 TCGCAATGCGATT
11413607 TTCAAAGCGC
Statistics
Matches: 101, Mismatches: 28, Indels: 14
0.71 0.20 0.10
Matches are distributed among these distances:
19 3 0.03
20 74 0.73
21 11 0.11
22 9 0.09
23 3 0.03
24 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (20 bp):
TCGCAATGCGATTCTGACTA
Found at i:11413523 original size:22 final size:22
Alignment explanation
Indices: 11413466--11413524 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
11413456 ACGCGATTCT
11413466 GACTATCGCATTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
* * *
11413488 AAAT-TCGCGTTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
*
11413509 GACTATCGCAATGCGA
1 GACTATCGCATTGCGA
11413525 ATATGTAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
GACTATCGCATTGCGATTTTCC
Found at i:11413805 original size:22 final size:22
Alignment explanation
Indices: 11413780--11413822 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11413770 GGCGACATCC
11413780 ATCCCCATCTCCGACGAAATCA
1 ATCCCCATCTCCGACGAAATCA
11413802 ATCCCCATCTCCGACGAAATC
1 ATCCCCATCTCCGACGAAATC
11413823 CGTCTATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.42, G:0.09, T:0.19
Consensus pattern (22 bp):
ATCCCCATCTCCGACGAAATCA
Found at i:11414245 original size:20 final size:20
Alignment explanation
Indices: 11414220--11414272 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
11414210 CGATTTTAGT
11414220 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
* **
11414240 TTCGCGTTGTGATAGTCATT
1 TTCGCGTTGCGATAGTCAAA
*
11414260 TTCGTGTTGCGAT
1 TTCGCGTTGCGAT
11414273 TTTCATTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.40
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:11414278 original size:20 final size:20
Alignment explanation
Indices: 11414255--11414295 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11414245 GTTGTGATAG
11414255 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
11414275 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
11414295 T
1 T
11414296 AAGTTTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.56
Consensus pattern (20 bp):
TCATTTTCGTGTTGCGATTT
Found at i:11414302 original size:20 final size:20
Alignment explanation
Indices: 11414259--11414302 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
11414249 TGATAGTCAT
* *
11414259 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
11414279 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
11414299 TTTC
1 TTTC
11414303 AAAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:11414499 original size:27 final size:25
Alignment explanation
Indices: 11414443--11414501 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
11414433 TATTGTTCTG
*
11414443 GATATATCTTTACAGTGTAGTTTTT
1 GATATATCTTCACAGTGTAGTTTTT
11414468 GATATATCTTCACAGTGTAGTTTTT
1 GATATATCTTCACAGTGTAGTTTTT
*
11414493 GGTATATCT
1 GATATATCT
11414502 AACTTGGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (25 bp):
GATATATCTTCACAGTGTAGTTTTT
Found at i:11416078 original size:18 final size:18
Alignment explanation
Indices: 11416055--11416104 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
11416045 TTTACTCGTA
*
11416055 ATTTCAGTTAGATTAACC
1 ATTTCACTTAGATTAACC
11416073 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
11416091 ATTTCACTTAGATT
1 ATTTCACTTAGATT
11416105 GCTTAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:11416279 original size:20 final size:20
Alignment explanation
Indices: 11416254--11416299 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
11416244 GTTTACTTTT
11416254 GCAACGCAAAAATGACTATC
1 GCAACGCAAAAATGACTATC
* **
11416274 GCAACGCGAATTTGACTATC
1 GCAACGCAAAAATGACTATC
11416294 GCAACG
1 GCAACG
11416300 AAAGAATCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (20 bp):
GCAACGCAAAAATGACTATC
Found at i:11416386 original size:18 final size:19
Alignment explanation
Indices: 11416342--11416388 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
11416332 GCGATTCTCT
*
11416342 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCA
11416362 CGTTGCGATAGTCA-TTCA
1 CGTTGCGATAGTCATTTCA
*
11416380 TGTTGCGAT
1 CGTTGCGAT
11416389 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 11 0.44
20 14 0.56
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCA
Found at i:11416977 original size:42 final size:42
Alignment explanation
Indices: 11416868--11416978 Score: 100
Period size: 42 Copynumber: 2.6 Consensus size: 42
11416858 CCCGACTCAC
* * * *
11416868 CTGTCATCGTTTAAGAGGCCTC-CCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGTCTCTCCC-ACCGTTCAAGAGGCCA
* ** * *
11416910 CTATCATCCCTCATGA-GTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGT-CTCTCCCACCGTTCAAGAGGCCA
*
11416952 CTGTCATCGTTGAAGAGGTCTCTCCCA
1 CTGTCATCGTTCAAGAGGTCTCTCCCA
11416979 ACATTCTAGA
Statistics
Matches: 51, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
41 1 0.02
42 45 0.88
43 5 0.10
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.25
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGGTCTCTCCCACCGTTCAAGAGGCCA
Found at i:11418404 original size:14 final size:14
Alignment explanation
Indices: 11418367--11418428 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
11418357 TTGGTTGTTT
*
11418367 AATTGATTTATAAA
1 AATTGATTTGTAAA
11418381 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
11418395 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
11418410 TATTGATATGTAAA
1 AATTGATTTGTAAA
11418424 TAATT
1 -AATT
11418429 CTTATTTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:11418552 original size:20 final size:20
Alignment explanation
Indices: 11418527--11418579 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
11418517 AGGTACACTT
* *
11418527 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACACAAAA
* *
11418547 TCGCAATGCGAAAGACAAAA
1 TCGCAACGCGAAACACAAAA
11418567 TCGCAACGCGAAA
1 TCGCAACGCGAAA
11418580 TTCAATTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.26, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAACACAAAA
Found at i:11418648 original size:20 final size:20
Alignment explanation
Indices: 11418623--11418947 Score: 379
Period size: 20 Copynumber: 16.9 Consensus size: 20
11418613 GCGATTTTCT
* *
11418623 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
11418643 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
11418663 CGTTGCGATACTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
11418683 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
11418703 CGTTGCGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCG
*
11418717 CGTTGCGATAGTCAAA-TAG
1 CGTTGCGATAGTCAAATTCG
*
11418736 CCGTTGCGATAATCAAATTCG
1 -CGTTGCGATAGTCAAATTCG
11418757 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
11418777 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
11418797 CGTTGCGATAGACAAATTTG
1 CGTTGCGATAGTCAAATTCG
* *
11418817 CGTTGCGATAGACAAATTTG
1 CGTTGCGATAGTCAAATTCG
*
11418837 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
11418857 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
11418877 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* * * *
11418891 AGTTGCGATAATCAGACTCG
1 CGTTGCGATAGTCAAATTCG
11418911 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
11418931 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
11418948 GAATGTGTAA
Statistics
Matches: 263, Mismatches: 28, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
14 23 0.09
16 2 0.01
18 2 0.01
19 1 0.00
20 233 0.89
21 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:11418709 original size:94 final size:94
Alignment explanation
Indices: 11418583--11418885 Score: 410
Period size: 94 Copynumber: 3.2 Consensus size: 94
11418573 CGCGAAATTC
* * * *
11418583 AATTTGCGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
*
11418648 CGATAATCAAATTCGCGTTGCGATACTCA
66 CGATAATCAAATTCGCGTTGCGATAGTCA
*
11418677 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATAGCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
11418742 CGATAATCAAATTCGCGTTGCGATAGTCA
66 CGATAATCAAATTCGCGTTGCGATAGTCA
* * *
11418771 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTT-GCGTTGCGATAGACAAATT
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT-------TTTCTCGTTGCGATAGTCAAATA
** * * *
11418835 TGCGTTGCGATAGTCATATTCGTGTTGCGATAGTCA
59 CCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCA
11418871 AATTCGCGTTGCGAT
1 AATTCGCGTTGCGAT
11418886 TTTTGAGTTG
Statistics
Matches: 188, Mismatches: 14, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
94 123 0.65
100 62 0.33
101 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (94 bp):
AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
CGATAATCAAATTCGCGTTGCGATAGTCA
Found at i:11418896 original size:94 final size:94
Alignment explanation
Indices: 11418623--11418947 Score: 325
Period size: 94 Copynumber: 3.4 Consensus size: 94
11418613 GCGATTTTCT
* * *
11418623 CGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCGCGTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTG
** * * * * * *
11418688 CGATAGTCAAATTCGCG-TTG-CGATTTTCT
66 CGATTTTCGAGTT-GCGATAGACAAATTT-G
*
11418717 CGTTGCGATAGTCAAA-TAGCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
1 CGTTGCGATAGTCAAATTCG-CGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
*
11418781 GCGATAGTCAAATTCGCGTTGCGATAGACAAATTTG
65 GCGAT--T----TTCGAGTTGCGATAGACAAATTTG
* * * * *
11418817 CGTTGCGATAGACAAATTTGCGTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTG
* * * *
11418882 CGATTTTTGAGTTGCGATA-ATCAGACTCG
66 CGATTTTCGAGTTGCGATAGA-CAAATTTG
*
11418911 CGTTGCGATAGTCAAATTCGCGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAAT
11418948 GAATGTGTAA
Statistics
Matches: 193, Mismatches: 27, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
93 1 0.01
94 114 0.59
98 1 0.01
99 3 0.02
100 67 0.35
101 7 0.04
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (94 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTG
CGATTTTCGAGTTGCGATAGACAAATTTG
Found at i:11419174 original size:140 final size:140
Alignment explanation
Indices: 11418918--11419187 Score: 522
Period size: 140 Copynumber: 1.9 Consensus size: 140
11418908 TCGCGTTGCG
11418918 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
*
11418983 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATTTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
11419048 AATACACATA
131 AATACACATA
11419058 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
*
11419123 TAGCAATGTTCAAACTCAAGTTACTAATACATGTCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
11419188 TACAATGTTT
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 128 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:11419270 original size:18 final size:18
Alignment explanation
Indices: 11419247--11419281 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11419237 AAGTCCGTTG
*
11419247 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
11419265 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
11419282 GCCTTTTTCT
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:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:11421337 original size:14 final size:15
Alignment explanation
Indices: 11421318--11421354 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
11421308 TCCCGTGGCA
11421318 TTTTCTTCGGGGA-C
1 TTTTCTTCGGGGATC
*
11421332 TTTTCTTCGGGGATT
1 TTTTCTTCGGGGATC
11421347 TTTTCTTC
1 TTTTCTTC
11421355 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.05, C:0.19, G:0.22, T:0.54
Consensus pattern (15 bp):
TTTTCTTCGGGGATC
Found at i:11421578 original size:24 final size:24
Alignment explanation
Indices: 11421551--11421597 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
11421541 ATCATAAAAA
11421551 TCCGAGTATTGACCAAGATCAAAG
1 TCCGAGTATTGACCAAGATCAAAG
*
11421575 TCCGGGTATTGACCAAGATCAAA
1 TCCGAGTATTGACCAAGATCAAA
11421598 TTTCGAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
TCCGAGTATTGACCAAGATCAAAG
Found at i:11422465 original size:20 final size:20
Alignment explanation
Indices: 11422419--11422489 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
11422409 AAAATCAGTG
* *
11422419 TTGCGACAGTCAGAATCGCA
1 TTGCGATAGTCATAATCGCA
11422439 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCATAATCGCA
* *
11422459 TTGCGAT-TTACATATTCGCA
1 TTGCGATAGT-CATAATCGCA
11422479 TTGCGATAGTC
1 TTGCGATAGTC
11422490 GGAAAATCGC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCATAATCGCA
Found at i:11424287 original size:17 final size:18
Alignment explanation
Indices: 11424242--11424281 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
11424232 GTTTATGAGA
*
11424242 GAATTAGAATCTGTGAAG
1 GAATTAGAATCTGTCAAG
11424260 GAATTAGAATCTGTCAA-
1 GAATTAGAATCTGTCAAG
11424277 GAATT
1 GAATT
11424282 GAAATCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (18 bp):
GAATTAGAATCTGTCAAG
Found at i:11424914 original size:37 final size:38
Alignment explanation
Indices: 11424856--11424930 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 38
11424846 TTTTCACTAT
11424856 AAACCCGAACCCGACCCGACCCAAATATCACACTTAAA
1 AAACCCGAACCCGACCCGACCCAAATATCACACTTAAA
** *
11424894 AAACCCG-ACCCGACTTGACCCGAATATCACACTTAAA
1 AAACCCGAACCCGACCCGACCCAAATATCACACTTAAA
11424931 CCCGACCCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 27 0.79
38 7 0.21
ACGTcount: A:0.40, C:0.37, G:0.09, T:0.13
Consensus pattern (38 bp):
AAACCCGAACCCGACCCGACCCAAATATCACACTTAAA
Found at i:11428701 original size:26 final size:25
Alignment explanation
Indices: 11428646--11428703 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
11428636 AACTATTTTA
*
11428646 AAAAAAAACAATTAAATATTATTTT
1 AAAAAAAACAATTAAATATTAATTT
* *
11428671 AAAAAAAACAATTATGATTTTAATTT
1 AAAAAAAACAATTA-AATATTAATTT
*
11428697 GAAAAAA
1 AAAAAAA
11428704 TTGGTGATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (25 bp):
AAAAAAAACAATTAAATATTAATTT
Found at i:11431114 original size:41 final size:40
Alignment explanation
Indices: 11431069--11431444 Score: 222
Period size: 41 Copynumber: 9.2 Consensus size: 40
11431059 ACTAAATATA
* *
11431069 TAGCGGTGCTTGTATACAAACACCACTAAAGTACGAGCCTT
1 TAGCGGCG-TTGTATACAAACACCACTAAAGTACGAGTCTT
** * * * *
11431110 TAGCGAGATTTGTATAAAAACGCCACTAAAGCACGAGTATAT
1 TAGCG-GCGTTGTATACAAACACCACTAAAGTACGAGTCT-T
* * * * * *
11431152 TAGTGGGGTTTGTGCTTA-AATCGCCACTAAAGTATGAGTCTT
1 TAGCGGCG-TTGT--ATACAAACACCACTAAAGTACGAGTCTT
* * * *
11431194 TAGCGGCATTTGTATAAAAACACCACAAAAGTATGAGTCTT
1 TAGCGGC-GTTGTATACAAACACCACTAAAGTACGAGTCTT
* *
11431235 TAGCGGCGTTTTATACAAACACCGCTAAAGTACGAGTCTT
1 TAGCGGCGTTGTATACAAACACCACTAAAGTACGAGTCTT
* * ** * *
11431275 TAGCAGTG-TACATACAAAAATGCCACTAAAGTATGAGTCTT
1 TAGCGGCGTTGTATACAAACA--CCACTAAAGTACGAGTCTT
* * *
11431316 TGGCGGCGTTTGTATACAAACGA-CACTAAAGTAC-AATATT
1 TAGCGGCG-TTGTATACAAAC-ACCACTAAAGTACGAGTCTT
* * * * *
11431356 TAGCGGCGTT-TATATAAAAATGCCTCTAAAGTACAAGTATT
1 TAGCGGCGTTGTATACAAACA--CCACTAAAGTACGAGTCTT
* * ** * *
11431397 TAGCGGCATTTGTGCTTTAAACTCCACTAAAGTACAAGTCTT
1 TAGCGGC-GTTGT-ATACAAACACCACTAAAGTACGAGTCTT
11431439 TAGCGG
1 TAGCGG
11431445 TGTTTGTACA
Statistics
Matches: 260, Mismatches: 56, Indels: 37
0.74 0.16 0.10
Matches are distributed among these distances:
37 1 0.00
38 7 0.03
39 11 0.04
40 56 0.22
41 104 0.40
42 45 0.17
43 28 0.11
44 8 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (40 bp):
TAGCGGCGTTGTATACAAACACCACTAAAGTACGAGTCTT
Found at i:11431358 original size:81 final size:82
Alignment explanation
Indices: 11431069--11431550 Score: 312
Period size: 81 Copynumber: 5.9 Consensus size: 82
11431059 ACTAAATATA
* * * ** * * * *
11431069 TAGCGGTGCTTGTATACAAAC-ACCACTAAAGTACGAGCCTTTAGCGAG-ATTTGTATAAAAACG
1 TAGCGGCGTTTGTATACAAACGA-CACTAAAGTACAAGTATTTAGCG-GTGTTTATACAAAAATG
* *
11431132 CCACTAAAGCACGAGTATAT
64 CCACTAAAGTATGAGTAT-T
* * * * * ** * ** * * **
11431152 TAGTGGGGTTTGTGCTTA-AATCGCCACTAAAGTATGAGTCTTTAGCGGCATTTGTATAAAAACA
1 TAGCGGCGTTTGT--ATACAAACGACACTAAAGTACAAGTATTTAGCGGTGTTTATACAAAAATG
* *
11431216 CCACAAAAGTATGAGTCTT
64 CCACTAAAGTATGAGTATT
* * * * **
11431235 TAGCGGCGTTT-TATACAAAC-ACCGCTAAAGTACGAGTCTTTAGCAGTGTACATACAAAAATGC
1 TAGCGGCGTTTGTATACAAACGA-CACTAAAGTACAAGTATTTAGCGGTGTTTATACAAAAATGC
*
11431298 CACTAAAGTATGAGTCTT
65 CACTAAAGTATGAGTATT
* * *
11431316 TGGCGGCGTTTGTATACAAACGACACTAAAGTACAA-TATTTAGCGGCGTTTATATAAAAATGCC
1 TAGCGGCGTTTGTATACAAACGACACTAAAGTACAAGTATTTAGCGGTGTTTATACAAAAATGCC
* **
11431380 TCTAAAGTACAAGTATT
66 ACTAAAGTATGAGTATT
* * ** ** * * *
11431397 TAGCGGCATTTGTGCTTTAAACTCCACTAAAGTACAAGTCTTTAGCGGTGTTTGTACAAAAATGT
1 TAGCGGCGTTTGT-ATACAAACGACACTAAAGTACAAGTATTTAGCGGTGTTTATACAAAAATGC
*
11431462 CACTAAACTAT-AGTATT
65 CACTAAAGTATGAGTATT
* * * * * ** * *
11431479 TAGCGGTGTTTATATAAAAACGCCACTAAAGTACAAGTATTTATCGGCATTTGTTCAAAAAATGC
1 TAGCGGCGTTTGTATACAAACGACACTAAAGTACAAGTATTTAGCGGTGTTTATAC-AAAAATGC
11431544 CACTAAA
65 CACTAAA
11431551 AATGCAGCTA
Statistics
Matches: 317, Mismatches: 71, Indels: 23
0.77 0.17 0.06
Matches are distributed among these distances:
80 2 0.01
81 140 0.44
82 69 0.22
83 52 0.16
84 52 0.16
85 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (82 bp):
TAGCGGCGTTTGTATACAAACGACACTAAAGTACAAGTATTTAGCGGTGTTTATACAAAAATGCC
ACTAAAGTATGAGTATT
Found at i:11431428 original size:42 final size:41
Alignment explanation
Indices: 11431169--11431550 Score: 225
Period size: 41 Copynumber: 9.3 Consensus size: 41
11431159 GTTTGTGCTT
** * *
11431169 AAATCGCCACTAAAGTATGAGTCTTTAGCGGCATTTGTATAA
1 AAAT-GCCACTAAAGTACAAGTATTTAGCGGCATTTATATAA
** * ** * * *
11431211 AAACACCACAAAAGTATGAGTCTTTAGCGGCGTTT-TATAC
1 AAATGCCACTAAAGTACAAGTATTTAGCGGCATTTATATAA
** * * * * ** ** *
11431251 AAACACCGCTAAAGTACGAGTCTTTAGCAGTGTACATACAA
1 AAATGCCACTAAAGTACAAGTATTTAGCGGCATTTATATAA
** * * * * *
11431292 AAATGCCACTAAAGTATGAGTCTTTGGCGGCGTTTGTATAC
1 AAATGCCACTAAAGTACAAGTATTTAGCGGCATTTATATAA
* * *
11431333 AAACGACACTAAAGTACAA-TATTTAGCGGCGTTTATATAA
1 AAATGCCACTAAAGTACAAGTATTTAGCGGCATTTATATAA
* * * *
11431373 AAATGCCTCTAAAGTACAAGTATTTAGCGGCATTTGTGCTTTA
1 AAATGCCACTAAAGTACAAGTATTTAGCGGCATTTAT--ATAA
* * ** * *
11431416 AACT-CCACTAAAGTACAAGTCTTTAGCGGTGTTTGTACAA
1 AAATGCCACTAAAGTACAAGTATTTAGCGGCATTTATATAA
* * * **
11431456 AAATGTCACTAAACTA-TAGTATTTAGCGGTGTTTATATAA
1 AAATGCCACTAAAGTACAAGTATTTAGCGGCATTTATATAA
* * *
11431496 AAACGCCACTAAAGTACAAGTATTTATCGGCATTTGT-TCAAA
1 AAATGCCACTAAAGTACAAGTATTTAGCGGCATTTATAT--AA
11431538 AAATGCCACTAAA
1 AAATGCCACTAAA
11431551 AATGCAGCTA
Statistics
Matches: 267, Mismatches: 65, Indels: 16
0.77 0.19 0.05
Matches are distributed among these distances:
40 103 0.39
41 114 0.43
42 45 0.17
43 5 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (41 bp):
AAATGCCACTAAAGTACAAGTATTTAGCGGCATTTATATAA
Found at i:11431486 original size:40 final size:41
Alignment explanation
Indices: 11431287--11431550 Score: 183
Period size: 40 Copynumber: 6.4 Consensus size: 41
11431277 GCAGTGTACA
* ** * * *
11431287 TACAAAAATGCCACTAAAGTATGAGTCTTTGGCGGCGTTTG
1 TACAAAAATGCCACTAAACTACAAGTATTTAGCGGTGTTTG
* * * * * * *
11431328 TATACAAACGACACTAAAGTACAA-TATTTAGCGGCGTTTA
1 TACAAAAATGCCACTAAACTACAAGTATTTAGCGGTGTTTG
* * * **
11431368 TATAAAAATGCCTCTAAAGTACAAGTATTTAGCGGCATTTG
1 TACAAAAATGCCACTAAACTACAAGTATTTAGCGGTGTTTG
* * * * *
11431409 TGCTTTAAACT-CCACTAAAGTACAAGTCTTTAGCGGTGTTTG
1 TAC--AAAAATGCCACTAAACTACAAGTATTTAGCGGTGTTTG
* * *
11431451 TACAAAAATGTCACTAAACTA-TAGTATTTAGCGGTGTTTA
1 TACAAAAATGCCACTAAACTACAAGTATTTAGCGGTGTTTG
* * * * **
11431491 TATAAAAACGCCACTAAAGTACAAGTATTTATCGGCATTTG
1 TACAAAAATGCCACTAAACTACAAGTATTTAGCGGTGTTTG
*
11431532 TTCAAAAAATGCCACTAAA
1 TAC-AAAAATGCCACTAAA
11431551 AATGCAGCTA
Statistics
Matches: 174, Mismatches: 43, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
40 70 0.40
41 57 0.33
42 43 0.25
43 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (41 bp):
TACAAAAATGCCACTAAACTACAAGTATTTAGCGGTGTTTG
Found at i:11431547 original size:123 final size:124
Alignment explanation
Indices: 11431122--11431550 Score: 365
Period size: 123 Copynumber: 3.5 Consensus size: 124
11431112 GCGAGATTTG
* * * ** *
11431122 TATAAAAACGCCACTAAAGCACGAGTATATTAGTGGGGTTTGTGCT--TAAATCGCCACTAAAGT
1 TATAAAAACGCCACTAAAGTACAAGTAT-TTAGCGGCATTTGTGCTAAAAAAT-GCCACTAAAGT
** * * * * * * *
11431185 ATGAGTCTTTAGCGGCATTTGTATAAAAAC-ACCACAAAAGTATGAGTCTTTAGCGGCGTTT-
64 ACAAGTCTTTAGCGGCGTTTGTACAAAAACGA-CACTAAACTA-CAATATTTAGCGGCGTTTA
* * * * * * *
11431246 TATACAAACACCGCTAAAGTACGAGTCTTTA---GCA-GTGTACATACAAAAATGCCACTAAAGT
1 TATAAAAACGCCACTAAAGTACAAGTATTTAGCGGCATTTGTGC-TA-AAAAATGCCACTAAAGT
** * * * *
11431307 ATGAGTCTTTGGCGGCGTTTGTATACAAACGACACTAAAGTACAATATTTAGCGGCGTTTA
64 ACAAGTCTTTAGCGGCGTTTGTACAAAAACGACACTAAACTACAATATTTAGCGGCGTTTA
* * ** *
11431368 TATAAAAATGCCTCTAAAGTACAAGTATTTAGCGGCATTTGTGCTTTAAACT-CCACTAAAGTAC
1 TATAAAAACGCCACTAAAGTACAAGTATTTAGCGGCATTTGTGCTAAAAAATGCCACTAAAGTAC
* * * * * *
11431432 AAGTCTTTAGCGGTGTTTGTACAAAAATGTCACTAAACTATAGTATTTAGCGGTGTTTA
66 AAGTCTTTAGCGGCGTTTGTACAAAAACGACACTAAACTACAATATTTAGCGGCGTTTA
* *
11431491 TATAAAAACGCCACTAAAGTACAAGTATTTATCGGCATTTGTTC-AAAAAATGCCACTAAA
1 TATAAAAACGCCACTAAAGTACAAGTATTTAGCGGCATTTGTGCTAAAAAATGCCACTAAA
11431551 AATGCAGCTA
Statistics
Matches: 247, Mismatches: 47, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
119 4 0.02
120 2 0.01
121 15 0.06
122 76 0.31
123 115 0.47
124 27 0.11
125 4 0.02
126 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (124 bp):
TATAAAAACGCCACTAAAGTACAAGTATTTAGCGGCATTTGTGCTAAAAAATGCCACTAAAGTAC
AAGTCTTTAGCGGCGTTTGTACAAAAACGACACTAAACTACAATATTTAGCGGCGTTTA
Found at i:11434054 original size:15 final size:15
Alignment explanation
Indices: 11434034--11434087 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
11434024 GATGAATAAA
11434034 AAATATTATATATTC
1 AAATATTATATATTC
* *
11434049 AAATATTCTCA-ATTAAA
1 AAATATTAT-ATATT--C
11434066 AAATATTATATATTC
1 AAATATTATATATTC
11434081 AAATATT
1 AAATATT
11434088 CTCAATTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 18 0.58
16 2 0.06
17 11 0.35
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATATTATATATTC
Found at i:11434066 original size:32 final size:32
Alignment explanation
Indices: 11434030--11434094 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
11434020 ATGAGATGAA
11434030 TAAAAAATATTATATATTCAAATATTCTCAAT
1 TAAAAAATATTATATATTCAAATATTCTCAAT
11434062 TAAAAAATATTATATATTCAAATATTCTCAAT
1 TAAAAAATATTATATATTCAAATATTCTCAAT
11434094 T
1 T
11434095 GTTGGCCAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (32 bp):
TAAAAAATATTATATATTCAAATATTCTCAAT
Found at i:11434405 original size:20 final size:20
Alignment explanation
Indices: 11434368--11434406 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11434358 ACTCTCCAAT
* *
11434368 TTTAATTTTTGATCAAAATA
1 TTTAATGTTAGATCAAAATA
*
11434388 TTTAATGTTAGATGAAAAT
1 TTTAATGTTAGATCAAAAT
11434407 CGTTAGTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (20 bp):
TTTAATGTTAGATCAAAATA
Found at i:11435787 original size:42 final size:42
Alignment explanation
Indices: 11435732--11435937 Score: 259
Period size: 42 Copynumber: 4.8 Consensus size: 42
11435722 GAGAGAAAGT
* *
11435732 ATGTTGATACAACTCCCTATGTGATGAAATCAAGCGAAGATA
1 ATGTTGATCCAACTCCCTATGTGATGGAATCAAGCGAAGATA
* * *
11435774 AAGTTGATCCAACTCCCTATGTGATGAAATCAAGCGAAGATG
1 ATGTTGATCCAACTCCCTATGTGATGGAATCAAGCGAAGATA
* **
11435816 ATGATGATCCAACTTTCTATGTGATGGAATCAAGCGAAGATA
1 ATGTTGATCCAACTCCCTATGTGATGGAATCAAGCGAAGATA
* * * *
11435858 TTGTTGCTGATCCAACTCCTTATTTGATGGAATCAAGCGAAGATG
1 ATG-T--TGATCCAACTCCCTATGTGATGGAATCAAGCGAAGATA
* *
11435903 ATGTTGATCCAACTCCTTATGTAATGGAATCAAGC
1 ATGTTGATCCAACTCCCTATGTGATGGAATCAAGC
11435938 AAAAAGAAAG
Statistics
Matches: 142, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
42 106 0.75
44 1 0.01
45 35 0.25
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (42 bp):
ATGTTGATCCAACTCCCTATGTGATGGAATCAAGCGAAGATA
Found at i:11435964 original size:87 final size:86
Alignment explanation
Indices: 11435732--11435975 Score: 280
Period size: 87 Copynumber: 2.8 Consensus size: 86
11435722 GAGAGAAAGT
* * * *
11435732 ATGTTGATACAACTCCCTATGTGATGAAATCAAGCGAAGATAAA-G-TTGATCCAACTCCCTATG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCAAGCGAAGATAAAGGTTTGATCCAACTCCTTATG
*
11435795 TGATGAAATCAAGCGAAGATG
66 TGATGGAATCAAGCGAAGATG
* * **
11435816 ATGATGATCCAACT-TTCTATGTGATGGAATCAAGCGAAGAT-ATTGTTGCTGATCCAACTCCTT
1 ATGTTGATCCAACTCCT-TATGTGATGGAATCAAGCGAAGATAAAGGTT--TGATCCAACTCCTT
*
11435879 ATTTGATGGAATCAAGCGAAGATG
63 ATGTGATGGAATCAAGCGAAGATG
* * * * * *
11435903 ATGTTGATCCAACTCCTTATGTAATGGAATCAAGCAAAAAGAAAGGTATTGGTCCATCTCCTTAT
1 ATGTTGATCCAACTCCTTATGTGATGGAATCAAGCGAAGATAAAGGT-TTGATCCAACTCCTTAT
11435968 GTGATGGA
65 GTGATGGA
11435976 CAAGTCTGGT
Statistics
Matches: 132, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
83 1 0.01
84 36 0.27
85 1 0.01
87 89 0.67
88 4 0.03
89 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (86 bp):
ATGTTGATCCAACTCCTTATGTGATGGAATCAAGCGAAGATAAAGGTTTGATCCAACTCCTTATG
TGATGGAATCAAGCGAAGATG
Found at i:11435975 original size:45 final size:42
Alignment explanation
Indices: 11435735--11435975 Score: 175
Period size: 42 Copynumber: 5.6 Consensus size: 42
11435725 AGAAAGTATG
* * * *
11435735 TTGATACAACTCCCTATGTGATGAAATCAAGCGAAGATA-A-A
1 TTGATCCAACTCCTTATGTGATGGAATCAAGCAAAGA-AGATA
* * * *
11435776 GTTGATCCAACTCCCTATGTGATGAAATCAAGCGAAGATGATGA
1 -TTGATCCAACTCCTTATGTGATGGAATCAAGCAAAGAAGAT-A
* * * *
11435820 -TGATCCAACT-TTCTATGTGATGGAATCAAGCGAAGATATTGTTG
1 TTGATCCAACTCCT-TATGTGATGGAATCAAGCAAAGA-A--GATA
* * * * *
11435864 CTGATCCAACTCCTTATTTGATGGAATCAAGCGAAGATGATG
1 TTGATCCAACTCCTTATGTGATGGAATCAAGCAAAGAAGATA
* *
11435906 TTGATCCAACTCCTTATGTAATGGAATCAAGCAAAAAGAAAGGTA
1 TTGATCCAACTCCTTATGTGATGGAATCAAGC--AAAG-AAGATA
* *
11435951 TTGGTCCATCTCCTTATGTGATGGA
1 TTGATCCAACTCCTTATGTGATGGA
11435976 CAAGTCTGGT
Statistics
Matches: 165, Mismatches: 22, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
42 101 0.61
44 4 0.02
45 59 0.36
46 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (42 bp):
TTGATCCAACTCCTTATGTGATGGAATCAAGCAAAGAAGATA
Found at i:11440352 original size:14 final size:14
Alignment explanation
Indices: 11440333--11440364 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11440323 GTAAAAAATG
11440333 TAAAGAATGAAAAA
1 TAAAGAATGAAAAA
*
11440347 TAAAGAATGAATAA
1 TAAAGAATGAAAAA
11440361 TAAA
1 TAAA
11440365 AAAAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (14 bp):
TAAAGAATGAAAAA
Found at i:11449263 original size:8 final size:8
Alignment explanation
Indices: 11449250--11449274 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11449240 GGCAAGAACA
11449250 CCCAAAAC
1 CCCAAAAC
11449258 CCCAAAAC
1 CCCAAAAC
11449266 CCCAAAAC
1 CCCAAAAC
11449274 C
1 C
11449275 TATTCCGCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (8 bp):
CCCAAAAC
Found at i:11454931 original size:23 final size:23
Alignment explanation
Indices: 11454905--11454973 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
11454895 CACCACAACC
* *
11454905 CGTATAATTACACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
11454928 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
11454951 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
11454974 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:11455180 original size:103 final size:100
Alignment explanation
Indices: 11454989--11455196 Score: 353
Period size: 103 Copynumber: 2.0 Consensus size: 100
11454979 TAATGTCCAT
* * * *
11454989 AAGGACCACATATCATTCCTTAAGAATCATATACATATAGGGATTAAGTATGTGTCTCACTAGAC
1 AAGGAACACATATCATTCCTTAAGAATCATATACATATAAGGATCAAGTATGTGTCTCACCAGAC
11455054 TTCACACATGTTCCAAAGAATACATATATGTCCCG
66 TTCACACATGTTCCAAAGAATACATATATGTCCCG
11455089 AAGGAACACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGAACACATATCATTCCTTAAGAATCATATACATAT---AAGGATCAAGTATGTGTCTCACCA
11455154 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
63 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
11455192 AAGGA
1 AAGGA
11455197 CTGCGTAGAC
Statistics
Matches: 101, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
100 37 0.37
103 64 0.63
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (100 bp):
AAGGAACACATATCATTCCTTAAGAATCATATACATATAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:11460673 original size:16 final size:16
Alignment explanation
Indices: 11460641--11460686 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
11460631 AATCAAATAG
*
11460641 TTTTT-AAATATAT-A
1 TTTTTAAAATATTTAA
11460655 TTTTTATAAA-ATTTAA
1 TTTTTA-AAATATTTAA
11460671 TTTTTAAAATATTTAA
1 TTTTTAAAATATTTAA
11460687 AATAATCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 16 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTAAAATATTTAA
Found at i:11463658 original size:4 final size:4
Alignment explanation
Indices: 11463649--11463683 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
11463639 ATGTATATGT
*
11463649 ATAA ATAA ATAA ATAA ATTA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
11463684 CATAGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAA
Found at i:11464380 original size:15 final size:15
Alignment explanation
Indices: 11464360--11464398 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
11464350 GAAAATCAAG
11464360 AATAAAGATTAAGAC
1 AATAAAGATTAAGAC
* *
11464375 AATAAAGACTAAGAT
1 AATAAAGATTAAGAC
11464390 AATAAAGAT
1 AATAAAGAT
11464399 AAATAAAGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.13, T:0.21
Consensus pattern (15 bp):
AATAAAGATTAAGAC
Found at i:11464425 original size:25 final size:26
Alignment explanation
Indices: 11464375--11464431 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
11464365 AGATTAAGAC
* *
11464375 AATAAAGACTAAGATAATAAAGAT-A
1 AATAAAGACTAAGAAAATAAACATAA
*
11464400 AATAAAGAC-AAGAAAGATGAACATAA
1 AATAAAGACTAAGAAA-ATAAACATAA
11464426 AATAAA
1 AATAAA
11464432 TAATTGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.19
25 15 0.56
26 7 0.26
ACGTcount: A:0.67, C:0.05, G:0.12, T:0.16
Consensus pattern (26 bp):
AATAAAGACTAAGAAAATAAACATAA
Found at i:11464841 original size:10 final size:10
Alignment explanation
Indices: 11464823--11464861 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
11464813 CCTAAATAGC
*
11464823 TAATGAATAA
1 TAATAAATAA
11464833 TAATAAATAA
1 TAATAAATAA
11464843 TAATAATAGTAA
1 TAATAA-A-TAA
11464855 TAATAAA
1 TAATAAA
11464862 ACTAAACATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 15 0.58
11 2 0.08
12 9 0.35
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (10 bp):
TAATAAATAA
Found at i:11465477 original size:34 final size:37
Alignment explanation
Indices: 11465433--11465534 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 37
11465423 TTTCGTTCTA
11465433 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
11465468 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
11465503 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
11465535 GTTCTACTAT
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.47
35 3 0.05
37 28 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:11465964 original size:18 final size:17
Alignment explanation
Indices: 11465925--11465967 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
11465915 ATTATATGGA
11465925 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
11465941 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
11465959 TATTATTAT
1 TATTATTAT
11465968 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:11466275 original size:23 final size:20
Alignment explanation
Indices: 11466222--11466276 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
11466212 TTTTATATAT
11466222 TTTTATTATTTTTATTATTA
1 TTTTATTATTTTTATTATTA
**
11466242 TTTTCGT-TTTTTATTCATTA
1 TTTTATTATTTTTATT-ATTA
11466262 TTATATATTATTTTT
1 TT-T-TATTATTTTT
11466277 TTTAAAAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 8 0.30
20 11 0.41
21 1 0.04
22 2 0.07
23 5 0.19
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTATTATTTTTATTATTA
Found at i:11466276 original size:25 final size:24
Alignment explanation
Indices: 11466206--11466278 Score: 60
Period size: 25 Copynumber: 3.0 Consensus size: 24
11466196 GTAATATATC
* *
11466206 TTATAATTTTATA-TATTTTTATTA
1 TTATTATTATATATTATTTTT-TTA
* *
11466230 TTTTTATTAT-TATTTTCGTTTTTTA
1 TTATTATTATATATTAT--TTTTTTA
11466255 TTCATTATTATATATTATTTTTTT
1 TT-ATTATTATATATTATTTTTTT
11466279 TAAAAACCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
23 2 0.05
24 9 0.24
25 11 0.29
26 11 0.29
27 5 0.13
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (24 bp):
TTATTATTATATATTATTTTTTTA
Found at i:11466279 original size:28 final size:27
Alignment explanation
Indices: 11466221--11466279 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
11466211 ATTTTATATA
*
11466221 TTTTTATTATTTTTATTATTATTTTCGT
1 TTTTTATTATTATTATTATTATTTTC-T
11466249 TTTTTATTCATTATTATATATTATTTT-T
1 TTTTTATT-ATTATTAT-TATTATTTTCT
11466277 TTT
1 TTT
11466280 AAAAACCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 12 0.43
29 7 0.25
30 9 0.32
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (27 bp):
TTTTTATTATTATTATTATTATTTTCT
Found at i:11466602 original size:23 final size:25
Alignment explanation
Indices: 11466552--11466603 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 25
11466542 ACTTACTTAA
*
11466552 TTTAT-TTATTTTATTTTTCCCTTG
1 TTTATCTTATTTTATTTTTACCTTG
11466576 --TATCTTA-TTT-TTTTTACCTTG
1 TTTATCTTATTTTATTTTTACCTTG
11466597 TTTATCT
1 TTTATCT
11466604 AACACATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
21 10 0.42
22 6 0.25
23 8 0.33
ACGTcount: A:0.13, C:0.13, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTATCTTATTTTATTTTTACCTTG
Found at i:11467660 original size:5 final size:5
Alignment explanation
Indices: 11467650--11467682 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
11467640 TCTTTTCATC
11467650 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
11467683 CATCACTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:11469075 original size:8 final size:8
Alignment explanation
Indices: 11469062--11469100 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
11469052 GAACATTTCA
*
11469062 TGCATTCT
1 TGCATTTT
11469070 TGCA-TTT
1 TGCATTTT
11469077 TGCATTTT
1 TGCATTTT
*
11469085 TGCCTTTT
1 TGCATTTT
11469093 TGCATTTT
1 TGCATTTT
11469101 CATCTACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:11471016 original size:22 final size:22
Alignment explanation
Indices: 11470991--11471061 Score: 115
Period size: 22 Copynumber: 3.2 Consensus size: 22
11470981 CCATCAATCT
*
11470991 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGTCAAACC
11471013 TTTGAGCATCAAATGTCAAACC
1 TTTGAGCATCAAATGTCAAACC
* *
11471035 TTTAAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGTCAAACC
11471057 TTTGA
1 TTTGA
11471062 CCAAACACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (22 bp):
TTTGAGCATCAAATGTCAAACC
Found at i:11472005 original size:202 final size:201
Alignment explanation
Indices: 11471652--11472558 Score: 1348
Period size: 202 Copynumber: 4.5 Consensus size: 201
11471642 GCTTTAGAGT
* * *
11471652 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAATAACTTCCCAATCTCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA-TT-TCAAT-TCAGAGCCAA
*
11471717 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGA
63 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
11471782 CCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATTTCAACTTCACACGAAGGATATTG
128 CCGCTGCTTGTCAACAA-AA-TTT-C-AT-TCAGAGCCAATTTCAACTTCACACGAAGGATATTG
11471847 GACTCCAGACAACG
188 GACTCCAGACAACG
11471861 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-A-AATTTC-ATTCAGAGCCAATTT
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCAATTCAGAGCCAATTT
* *
11471923 CAACTTCACAGCGAAGGATATTGGACTCCAGAC-ATGCAAGTTCAACTTCACGACGAAGGGACCG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
*
11471987 CTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATTTTAACTTCACACGAAGGATATTGGAC
131 CTGCTTGTCAACAA-AA-TTT-C-AT-TCAGAGCCAATTTCAACTTCACACGAAGGATATTGGAC
11472052 TCCAGACAACG
191 TCCAGACAACG
11472063 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AATTTC-ATTCAGAGCCAATTT
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCAATTCAGAGCCAATTT
11472126 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
11472191 CTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCA
131 CTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACA-CGAAGGATATTGGACTCCA
*
11472256 GACAATG
195 GACAACG
* * *
11472263 CAAGTTCAACTTCACGACGAAGGGACCGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA-TT-TCAAT-TCAGAGCCAA
*
11472328 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGA
63 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
* **
11472393 CCGCTGCTTGTTAACAAAATTTCATTCAGATTCAATTTCAACTTCACACGAAGGATATTGGA--C
128 CCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACACGAAGGATATTGGACTC
*
11472456 GAGACAAC-
193 CAGACAACG
* * * **
11472464 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAATTT--CAATT-CAGAGCCA
* *
11472529 ATTTCAACTTCAC-GCGGAGGATATTGGACT
62 ATTTCAACTTCACAACGAAGGATATTGGACT
11472559 TGGAACAATG
Statistics
Matches: 660, Mismatches: 26, Indels: 32
0.92 0.04 0.04
Matches are distributed among these distances:
199 22 0.03
200 68 0.10
201 57 0.09
202 186 0.28
203 102 0.15
204 62 0.09
205 119 0.18
206 2 0.00
207 2 0.00
208 1 0.00
209 39 0.06
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (201 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCAATTCAGAGCCAATTT
CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
CTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACACGAAGGATATTGGACTCCAG
ACAACG
Found at i:11472178 original size:100 final size:102
Alignment explanation
Indices: 11471652--11472558 Score: 1335
Period size: 100 Copynumber: 8.9 Consensus size: 102
11471642 GCTTTAGAGT
* * *
11471652 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAATAACTTCCCAATCTCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA-TT-TCAAT-TCAGAGCCAA
*
11471717 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATG
63 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
11471757 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA-TTT-CAAT-TCAGAGCCAA
11471822 TTTCAACTTCAC-ACGAAGGATATTGGACTCCAGACAACG
63 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
11471861 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-A-AATTTC-ATTCAGAGCCAATTT
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCAATTCAGAGCCAATTT
* *
11471923 CAACTTCACAGCGAAGGATATTGGACTCCAGAC-ATG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACG
11471959 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA-TTT-CAAT-TCAGAGCCAA
*
11472024 TTTTAACTTCAC-ACGAAGGATATTGGACTCCAGACAACG
63 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
11472063 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AATTTC-ATTCAGAGCCAATTT
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCAATTCAGAGCCAATTT
11472126 CAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACG
11472163 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AATTTC-ATTCAGAGCCAATTT
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCAATTCAGAGCCAATTT
* *
11472226 CAACTTCACAGCGAAGGATATTGGACTCCAGACAATG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * *
11472263 CAAGTTCAACTTCACGACGAAGGGACCGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA-TT-TCAAT-TCAGAGCCAA
11472328 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
63 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * **
11472368 TAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTTAACAA-AATTTC-ATTCAGATTCAATTT
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCAATTCAGAGCCAATTT
*
11472431 CAACTTCAC-ACGAAGGATATTGGA--CGAGACAAC-
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * **
11472464 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAATTT--CAATT-CAGAGCCA
* *
11472529 ATTTCAACTTCAC-GCGGAGGATATTGGACT
62 ATTTCAACTTCACAACGAAGGATATTGGACT
11472559 TGGAACAATG
Statistics
Matches: 744, Mismatches: 35, Indels: 47
0.90 0.04 0.06
Matches are distributed among these distances:
96 35 0.05
97 10 0.01
98 69 0.09
99 61 0.08
100 191 0.26
101 13 0.02
102 41 0.06
103 30 0.04
104 135 0.18
105 159 0.21
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (102 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCAATTCAGAGCCAATTT
CAACTTCACAACGAAGGATATTGGACTCCAGACAACG
Found at i:11473149 original size:34 final size:35
Alignment explanation
Indices: 11473105--11473203 Score: 168
Period size: 34 Copynumber: 2.9 Consensus size: 35
11473095 TTTCGTTCTA
11473105 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
11473140 -TAGGATTCAAACTCCTAAAAATAGGAT--AATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
11473172 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
11473204 GTTCTACTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
32 5 0.08
34 54 0.90
36 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.27
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:11473915 original size:52 final size:55
Alignment explanation
Indices: 11473785--11473915 Score: 121
Period size: 57 Copynumber: 2.3 Consensus size: 55
11473775 TACTTTAATA
*
11473785 GTTTTTATATACATATTATTAAATATATATTCTTAATTATTTTTATTTGATTATTTC
1 GTTTTT-TATTCATATTA-TAAATATATATTCTTAATTATTTTTATTTGATTATTTC
* *
11473842 -TTTATTTATGTAATATCT-TATAATTTATATAT-TTATATTA-TTTTA-TT-ATTATTTC
1 GTTT-TTTAT-TCATAT-TATA-AATATATAT-TCTTA-ATTATTTTTATTTGATTATTTC
11473897 GTTTTTTATTCATATTATA
1 GTTTTTTATTCATATTATA
11473916 TATTATTATT
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
53 1 0.02
54 7 0.11
55 13 0.21
56 13 0.21
57 22 0.35
58 6 0.10
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (55 bp):
GTTTTTTATTCATATTATAAATATATATTCTTAATTATTTTTATTTGATTATTTC
Found at i:11473932 original size:28 final size:31
Alignment explanation
Indices: 11473871--11473931 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
11473861 ATAATTTATA
* *
11473871 TATTTATATTATTTTATTATTATTTCGTTTTT
1 TATTCATATTATTATATTATTATTTC-TTTTT
11473903 TATTCATATTA-TATATTATTATTT-TTTTT
1 TATTCATATTATTATATTATTATTTCTTTTT
11473932 AAAACCTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 5 0.19
31 12 0.44
32 10 0.37
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (31 bp):
TATTCATATTATTATATTATTATTTCTTTTT
Found at i:11474251 original size:26 final size:24
Alignment explanation
Indices: 11474199--11474252 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
11474189 TACTTACTTA
*
11474199 TTTAT-TTATTTTTTTTTCCCTTG
1 TTTATCTTATTTTTTTTTACCTTG
11474222 --TATCTTATTGTTTTCTTTACCTTG
1 TTTATCTTATT-TTTT-TTTACCTTG
11474246 TTTATCT
1 TTTATCT
11474253 AACACATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.20
23 4 0.16
24 8 0.32
26 5 0.20
ACGTcount: A:0.11, C:0.15, G:0.06, T:0.69
Consensus pattern (24 bp):
TTTATCTTATTTTTTTTTACCTTG
Found at i:11479965 original size:65 final size:64
Alignment explanation
Indices: 11479811--11479967 Score: 169
Period size: 65 Copynumber: 2.4 Consensus size: 64
11479801 AAATAGCCAG
* *
11479811 AGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATTATC
1 AGTGCATCGATGCATGGTTGGTGCATCGATACATCAAATGCATTCGATG-TTTCATAAAATTATC
* * **
11479876 AGTGCATC-AGTGCGTGGTAT-GTGCATCGATACATGAAATGCATTCGATG-TTCAATTTAATTC
1 AGTGCATCGA-TGCATGGT-TGGTGCATCGATACATCAAATGCATTCGATGTTTC-ATAAAATT-
11479938 AT-
62 ATC
*
11479940 GGTGCATCGATGCATGGATTGGTGCATC
1 AGTGCATCGATGCATGG-TTGGTGCATC
11479968 ACTTTGATAA
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
63 3 0.04
64 21 0.27
65 52 0.68
66 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (64 bp):
AGTGCATCGATGCATGGTTGGTGCATCGATACATCAAATGCATTCGATGTTTCATAAAATTATC
Found at i:11481030 original size:21 final size:21
Alignment explanation
Indices: 11481006--11481049 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11480996 CCAGAGGAGG
*
11481006 AGGAGGAGCACGAGAAGAGCT
1 AGGAGCAGCACGAGAAGAGCT
* *
11481027 AGGAGCAGCTCGTGAAGAGCT
1 AGGAGCAGCACGAGAAGAGCT
11481048 AG
1 AG
11481050 CTCCCAGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.41, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAGCT
Found at i:11482633 original size:23 final size:22
Alignment explanation
Indices: 11482603--11482682 Score: 99
Period size: 22 Copynumber: 3.6 Consensus size: 22
11482593 GCATGACTCT
11482603 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
11482625 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
11482647 GTGTATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
*
11482669 ATGCATCGATGCAC
1 GTGCATCGATGCAC
11482683 TGTTAGGTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 15 0.32
22 16 0.34
23 16 0.34
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:11482658 original size:44 final size:42
Alignment explanation
Indices: 11482607--11482701 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 42
11482597 GACTCTGTGC
* *
11482607 ATCGATGCACATTCAAGGCGTGCATCGGTGCACCT-TCATGGTGT
1 ATCGATGCACATTCAAGG-ATGCATCGATGCA-CTGTCA-GGTGT
*
11482651 ATCGATGCACATTCAAGGATGCATCGATGCACTGTTAGGTGT
1 ATCGATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGT
11482693 ATCGATGCA
1 ATCGATGCA
11482702 TGAAACACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 16 0.34
43 13 0.28
44 18 0.38
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (42 bp):
ATCGATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGT
Found at i:11482698 original size:20 final size:21
Alignment explanation
Indices: 11482607--11482701 Score: 86
Period size: 21 Copynumber: 4.4 Consensus size: 21
11482597 GACTCTGTGC
*
11482607 ATCGATGCACATTCAAGGCGTGC
1 ATCGATGCACATTCAA-G-GTGT
* * *
11482630 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGTGT
*
11482651 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACATTCAAGG-TGT
*
11482673 ATCGATGCAC-TGT-TAGGTGT
1 ATCGATGCACAT-TCAAGGTGT
11482693 ATCGATGCA
1 ATCGATGCA
11482702 TGAAACACAA
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.18
21 22 0.37
22 14 0.23
23 13 0.22
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (21 bp):
ATCGATGCACATTCAAGGTGT
Found at i:11489152 original size:39 final size:39
Alignment explanation
Indices: 11489098--11489173 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
11489088 AGACCCAAGT
*
11489098 CGAGGGTATTCACATCGAGCACCTCCCGTAGTAACCAGC
1 CGAGGGTATTCACATCGAGCACCTCACGTAGTAACCAGC
11489137 CGAGGGTATTCACATCGAGCACCTCACGTAGTAACCA
1 CGAGGGTATTCACATCGAGCACCTCACGTAGTAACCA
11489174 AGTCTTACGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (39 bp):
CGAGGGTATTCACATCGAGCACCTCACGTAGTAACCAGC
Found at i:11494143 original size:18 final size:17
Alignment explanation
Indices: 11494089--11494137 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
11494079 TTGAACCCTT
* *
11494089 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
11494107 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
11494125 AGTGCATTCGATG
1 AGTGCA-TCGATG
11494138 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:11494257 original size:65 final size:64
Alignment explanation
Indices: 11494085--11494268 Score: 203
Period size: 65 Copynumber: 2.8 Consensus size: 64
11494075 ACCGTTGAAC
* *
11494085 CCTTAGTGCATCGGTGCACTAAG-AGTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATA
1 CCTTAGTGCATCGGTGCA-T-GGTAGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATA
11494148 G
64 G
** * * *
11494149 CCAGAGTGTATCGATGCATGGCTAGTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAA-A
1 CCTTAGTGCATCGGTGCATGG-TAGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATA
*
11494213 T
64 G
* * *
11494214 CCTTAGTGCATCGGTGCATGGTATGCGCATCGACGCATGAAATGCATTCGATGTT
1 CCTTAGTGCATCGGTGCATGGTA-GTGCATCGATGCATCAAATGCATTCGATGTT
11494269 CAATTTAATT
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 44 0.44
65 50 0.51
66 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (64 bp):
CCTTAGTGCATCGGTGCATGGTAGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAG
Found at i:11494521 original size:21 final size:23
Alignment explanation
Indices: 11494481--11494522 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
11494471 AATTAAATCG
11494481 AATATTCTTAGAAACTCATTTGT
1 AATATTCTTAGAAACTCATTTGT
*
11494504 AATA-TCTTA-AAATTCATTT
1 AATATTCTTAGAAACTCATTT
11494523 AAACTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (23 bp):
AATATTCTTAGAAACTCATTTGT
Found at i:11494699 original size:24 final size:24
Alignment explanation
Indices: 11494667--11494714 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
11494657 TGCATGACTT
11494667 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
*
11494691 TGTACATAGATGTTTTATATATCA
1 TGTACATAGATGTTTTATACATCA
11494715 CCAGGAAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.44
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:11502382 original size:24 final size:24
Alignment explanation
Indices: 11502347--11502393 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11502337 GCATGACTTC
11502347 GTACATAGATGTTTTATACATCAT
1 GTACATAGATGTTTTATACATCAT
* *
11502371 GTACATATATGTTTTATATATCA
1 GTACATAGATGTTTTATACATCA
11502394 CCAGGAAGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (24 bp):
GTACATAGATGTTTTATACATCAT
Found at i:11508769 original size:24 final size:24
Alignment explanation
Indices: 11508742--11508787 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11508732 TATATCAAAA
11508742 ATCAAAACATA-ATCCAGGTCAATT
1 ATCAAAACA-ACATCCAGGTCAATT
* *
11508766 ATCAGATCAACATCCAGGTCAA
1 ATCAAAACAACATCCAGGTCAA
11508788 GTATTCGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (24 bp):
ATCAAAACAACATCCAGGTCAATT
Found at i:11508797 original size:24 final size:24
Alignment explanation
Indices: 11508752--11508840 Score: 110
Period size: 24 Copynumber: 3.7 Consensus size: 24
11508742 ATCAAAACAT
*
11508752 AATCCAGGTCAATTA-TCAGATCA-
1 AATCCAGGTCAAGTATTC-GATCAG
11508775 ACATCCAGGTCAAGTATTCGATCAG
1 A-ATCCAGGTCAAGTATTCGATCAG
* *
11508800 AATCTAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATTCGATCAG
*
11508824 AATCCAGGTCAGGTATT
1 AATCCAGGTCAAGTATT
11508841 ATAATAGAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
23 1 0.02
24 53 0.93
25 3 0.05
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (24 bp):
AATCCAGGTCAAGTATTCGATCAG
Found at i:11513568 original size:15 final size:15
Alignment explanation
Indices: 11513548--11513584 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
11513538 AAATCAATAC
11513548 TAAAGATTAAGACAA
1 TAAAGATTAAGACAA
* *
11513563 TAAAGACTAAGATAA
1 TAAAGATTAAGACAA
11513578 TAAAGAT
1 TAAAGAT
11513585 AAATAAAGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.22
Consensus pattern (15 bp):
TAAAGATTAAGACAA
Found at i:11515639 original size:15 final size:15
Alignment explanation
Indices: 11515619--11515657 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
11515609 GAAAATCAAT
11515619 AATAAAGATTAAGAC
1 AATAAAGATTAAGAC
* *
11515634 AATAAAGACTAAGAT
1 AATAAAGATTAAGAC
11515649 AATAAAGAT
1 AATAAAGAT
11515658 AAATAAAGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.13, T:0.21
Consensus pattern (15 bp):
AATAAAGATTAAGAC
Found at i:11515934 original size:11 final size:11
Alignment explanation
Indices: 11515918--11515948 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
11515908 TCTCTCTCAT
11515918 AAAGAACTTGA
1 AAAGAACTTGA
11515929 AAAGAACTTGA
1 AAAGAACTTGA
11515940 AAAGAACTT
1 AAAGAACTT
11515949 AATTAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.16, T:0.19
Consensus pattern (11 bp):
AAAGAACTTGA
Found at i:11517919 original size:12 final size:12
Alignment explanation
Indices: 11517904--11517943 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
11517894 TTACGTTTGC
11517904 TTTTTTATTTAA
1 TTTTTTATTTAA
11517916 TTTTTTATTTAA
1 TTTTTTATTTAA
*
11517928 -TTTTTCTTTAA
1 TTTTTTATTTAA
11517939 TTTTT
1 TTTTT
11517944 AAAAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTATTTAA
Found at i:11517931 original size:11 final size:11
Alignment explanation
Indices: 11517905--11517944 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
11517895 TACGTTTGCT
11517905 TTTTTATTTAA
1 TTTTTATTTAA
11517916 TTTTTTATTTAA
1 -TTTTTATTTAA
*
11517928 TTTTTCTTTAA
1 TTTTTATTTAA
11517939 TTTTTA
1 TTTTTA
11517945 AAAAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTATTTAA
Found at i:11519123 original size:3 final size:3
Alignment explanation
Indices: 11519115--11519167 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
11519105 CAAAACTGGA
11519115 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11519163 AAT AA
1 AAT AA
11519168 ACAAACTGCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11528450 original size:22 final size:21
Alignment explanation
Indices: 11528425--11528471 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
11528415 GTACATTTCC
*
11528425 GGTAAAAAAGATTAATATTTTA
1 GGTAAAAAA-ATTAACATTTTA
**
11528447 GGTAATGAAATTAACATTTTA
1 GGTAAAAAAATTAACATTTTA
11528468 GGTA
1 GGTA
11528472 GCGTTCTACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (21 bp):
GGTAAAAAAATTAACATTTTA
Found at i:11528789 original size:15 final size:16
Alignment explanation
Indices: 11528758--11528793 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11528748 ATTGATTTGT
*
11528758 TTTTTTTTTAAATATA
1 TTTTTATTTAAATATA
11528774 TTTTTATTTAAA-ATA
1 TTTTTATTTAAATATA
11528789 TTTTT
1 TTTTT
11528794 GTTGACTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTATTTAAATATA
Found at i:11533604 original size:2 final size:2
Alignment explanation
Indices: 11533597--11533622 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11533587 GTAGGTATTA
11533597 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11533623 GCAAACAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11537023 original size:16 final size:16
Alignment explanation
Indices: 11536997--11537034 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
11536987 TCTACTAAAG
11536997 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
11537014 CATGTTGGGTAGATAT
1 CATGTTGGGTAGATAT
11537030 CATGT
1 CATGT
11537035 GAATAAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Found at i:11543495 original size:8 final size:8
Alignment explanation
Indices: 11543482--11543509 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
11543472 AGATTCTCCC
11543482 ATATGTAT
1 ATATGTAT
11543490 ATATGTAT
1 ATATGTAT
11543498 ATATGTAT
1 ATATGTAT
11543506 ATAT
1 ATAT
11543510 ATCTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:11547033 original size:8 final size:8
Alignment explanation
Indices: 11547008--11547072 Score: 69
Period size: 8 Copynumber: 7.9 Consensus size: 8
11546998 AAAAGAAGAA
11547008 GAAAAAAT
1 GAAAAAAT
11547016 GAGTAAAAAT
1 GA--AAAAAT
11547026 GAAAAAAT
1 GAAAAAAT
*
11547034 AAAAAAAT
1 GAAAAAAT
*
11547042 AAAAAAAT
1 GAAAAAAT
*
11547050 -AAAACAT
1 GAAAAAAT
11547057 GAAAAAAT
1 GAAAAAAT
11547065 GGAAAAAA
1 -GAAAAAA
11547073 AGAAGGGTTC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
7 6 0.12
8 29 0.58
9 7 0.14
10 8 0.16
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.12
Consensus pattern (8 bp):
GAAAAAAT
Found at i:11547045 original size:15 final size:16
Alignment explanation
Indices: 11547020--11547064 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 16
11547010 AAAAATGAGT
11547020 AAAAATGAAAAAATAA
1 AAAAATGAAAAAATAA
*
11547036 AAAAATAAAAAAAT-A
1 AAAAATGAAAAAATAA
*
11547051 AAACATGAAAAAAT
1 AAAAATGAAAAAAT
11547065 GGAAAAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.13
Consensus pattern (16 bp):
AAAAATGAAAAAATAA
Found at i:11548203 original size:55 final size:55
Alignment explanation
Indices: 11547996--11548313 Score: 378
Period size: 55 Copynumber: 5.9 Consensus size: 55
11547986 GATTTCCCAA
* * *
11547996 CAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACG
1 CAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
11548051 CAATTGATGAAGATTG-T-GGGTCTTATACTCCCTGAAGAAATAGGGGGGCAGACG
1 CAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATA-GGGGGCAGACG
* * * *
11548105 CAATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGATATAGGGGGCAGACA
1 CAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
11548158 CAATCGTTGAAGATCGTTCGAGTCTTATACTCTCTAAAGAAATAGGGGGCAGACG
1 CAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * *
11548213 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACA
1 CAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * * *
11548268 CGATTGTTGAAGA-TATTCGAGT-TCTATTCTCCCTGAAGAAAGAGGG
1 CAATTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGG
11548314 AGCGAACCCG
Statistics
Matches: 231, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
53 46 0.20
54 78 0.34
55 107 0.46
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (55 bp):
CAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
Found at i:11548314 original size:54 final size:53
Alignment explanation
Indices: 11547996--11548370 Score: 346
Period size: 54 Copynumber: 6.9 Consensus size: 53
11547986 GATTTCCCAA
*
11547996 CAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACG
1 CAATTGTTGAAGA-TGTTCGAGTCT-ATACTCTCTGAAGAAATAGGGAGCAGACG
* * * *
11548051 CAATTGATGAAGAT-TGT-GGGTCTTATACTCCCTGAAGAAATAGGGGGGCAGACG
1 CAATTGTTGAAGATGT-TCGAGTC-TATACTCTCTGAAGAAATA-GGGAGCAGACG
* * * * *
11548105 CAATTGATGAAGAT-TGT-GGGTCTTATACTCTCTGAAGATATAGGGGGCAGACA
1 CAATTGTTGAAGATGT-TCGAGTC-TATACTCTCTGAAGAAATAGGGAGCAGACG
* * *
11548158 CAATCGTTGAAGATCGTTCGAGTCTTATACTCTCTAAAGAAATAGGGGGCAGACG
1 CAATTGTTGAAGAT-GTTCGAGTC-TATACTCTCTGAAGAAATAGGGAGCAGACG
* *
11548213 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACA
1 CAATTGTTGAAGA-TGTTCGAGTCT-ATACTCTCTGAAGAAATAGGGAGCAGACG
* * * * * *
11548268 CGATTGTTGAAGATATTCGAGTTCTATTCTCCCTGAAGAAAGAGGGAGC-GAACC
1 CAATTGTTGAAGATGTTCGAG-TCTATACTCTCTGAAGAAATAGGGAGCAG-ACG
** ** * *
11548322 CGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGC
1 CAATTGTTGAAGATGTTCGAG-TCTATACTCTCTGAAGAAATAGGGAGC
11548371 GAACCAGTTA
Statistics
Matches: 281, Mismatches: 29, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
53 45 0.16
54 129 0.46
55 106 0.38
56 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (53 bp):
CAATTGTTGAAGATGTTCGAGTCTATACTCTCTGAAGAAATAGGGAGCAGACG
Found at i:11548474 original size:55 final size:55
Alignment explanation
Indices: 11548221--11548541 Score: 336
Period size: 54 Copynumber: 5.9 Consensus size: 55
11548211 CGCGATTGTT
* * * **
11548221 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATT-GTT
1 GAAGATTATTCGAGTTCT-ATACTCCCTGAAGAAATAGGGAGCGA-ACCCG-TTAGCA
* * * *
11548276 GAAGA-TATTCGAGTTCTATTCTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCGTTAGCA
* * *
11548330 GAAGA-TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCAGTTAGCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCGTTAGCA
*
11548384 GAAGATTCTT-GAGTTCTATACTCCCTGAA-ACAATAGGGAGCGAACCCGTTAGCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGA-AATAGGGAGCGAACCCGTTAGCA
***
11548438 GAAGATTATTCGAGTTCTATACTCCCTGAA-ACAATAGGGAGCGAACCCGTCCCCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGA-AATAGGGAGCGAACCCGTTAGCA
* * ** *
11548493 GAAGATTCTTCAAGTTCTATGTTCCCTGAA-ACGATAGGGAGCGAACCCG
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGA-AATAGGGAGCGAACCCG
11548542 ATTTTGAAGA
Statistics
Matches: 236, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
53 3 0.01
54 136 0.58
55 97 0.41
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (55 bp):
GAAGATTATTCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCGTTAGCA
Found at i:11548497 original size:109 final size:109
Alignment explanation
Indices: 11548283--11548541 Score: 344
Period size: 109 Copynumber: 2.4 Consensus size: 109
11548273 GTTGAAGATA
* * * *
11548283 TTCGAGTTCTATTCTCCCTGAAGA-AAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCT
1 TTCGAGTTCTATACTCCCTGAA-ACAATAGGGAGCGAACCCGTTAGAAGAAGATATTCGAGTTCT
* *
11548347 ATACTCCCTGAAGAAAGAGGGAGCGAACCAGTTAGCAGAAGATTC
65 ATACTCCCTGAAGAAAGAGGGAGCGAACCAGTCACCAGAAGATTC
*
11548392 TT-GAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCGTTAGCAGAAGATTATTCGAGTTCT
1 TTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCGTTAGAAGAAGA-TATTCGAGTTCT
* * *
11548456 ATACTCCCTGAA-ACAATAGGGAGCGAACCCGTCCCCAGAAGATTC
65 ATACTCCCTGAAGA-AAGAGGGAGCGAACCAGTCACCAGAAGATTC
* ** *
11548501 TTCAAGTTCTATGTTCCCTGAAACGATAGGGAGCGAACCCG
1 TTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCG
11548542 ATTTTGAAGA
Statistics
Matches: 132, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
107 1 0.01
108 44 0.33
109 53 0.40
110 34 0.26
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (109 bp):
TTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCGTTAGAAGAAGATATTCGAGTTCTA
TACTCCCTGAAGAAAGAGGGAGCGAACCAGTCACCAGAAGATTC
Found at i:11548803 original size:2 final size:2
Alignment explanation
Indices: 11548796--11548833 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11548786 GTAGGTATTA
11548796 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11548834 GCAAACAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11551649 original size:19 final size:19
Alignment explanation
Indices: 11551622--11551658 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11551612 GTGGCCACCA
11551622 GCAGAGGCCAGGAGGGGCG
1 GCAGAGGCCAGGAGGGGCG
* *
11551641 GCAGGGGCCAGGCGGGGC
1 GCAGAGGCCAGGAGGGGC
11551659 CACGCGAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.24, G:0.59, T:0.00
Consensus pattern (19 bp):
GCAGAGGCCAGGAGGGGCG
Found at i:11551872 original size:21 final size:20
Alignment explanation
Indices: 11551820--11551873 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
11551810 TTTAGTATAG
* *
11551820 TGTTATTTAAAATATTATTT
1 TGTTATCTAAAATGTTATTT
11551840 T-TTATC-AGAAATGTTAATTT
1 TGTTATCTA-AAATGTT-ATTT
11551860 TGTTATCTAAAATG
1 TGTTATCTAAAATG
11551874 AAAATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 1 0.04
19 10 0.36
20 6 0.21
21 10 0.36
22 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (20 bp):
TGTTATCTAAAATGTTATTT
Found at i:11558242 original size:14 final size:14
Alignment explanation
Indices: 11558223--11558258 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
11558213 TTTTTATTTA
*
11558223 TTTAATTTCAGTCC
1 TTTAATTTCAGTAC
*
11558237 TTTAATTTCATTAC
1 TTTAATTTCAGTAC
11558251 TTTAATTT
1 TTTAATTT
11558259 TCTATCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTAATTTCAGTAC
Found at i:11559347 original size:21 final size:21
Alignment explanation
Indices: 11559323--11559384 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
11559313 TACTTTTTCC
11559323 TAGGGTATCGATACTACATGA
1 TAGGGTATCGATACTACATGA
* * *
11559344 TA-GGTATCGGTAC-CCATTCA
1 TAGGGTATCGATACTACA-TGA
11559364 T-GTGGTATCGATACTACATGA
1 TAG-GGTATCGATACTACATGA
11559385 AGTAGTATCG
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
19 2 0.06
20 13 0.42
21 14 0.45
22 2 0.06
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (21 bp):
TAGGGTATCGATACTACATGA
Found at i:11559351 original size:20 final size:19
Alignment explanation
Indices: 11559326--11559384 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
11559316 TTTTTCCTAG
11559326 GGTATCGATACTACATGAT
1 GGTATCGATACTACATGAT
* *
11559345 AGGTATCGGTACCCATTCATG-T
1 -GGTATCGATA--C-TACATGAT
11559367 GGTATCGATACTACATGA
1 GGTATCGATACTACATGA
11559385 AGTAGTATCG
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
18 5 0.16
19 1 0.03
20 9 0.29
21 9 0.29
22 2 0.06
23 5 0.16
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (19 bp):
GGTATCGATACTACATGAT
Found at i:11559642 original size:21 final size:20
Alignment explanation
Indices: 11559614--11559669 Score: 89
Period size: 18 Copynumber: 2.9 Consensus size: 20
11559604 TGTTTAATGA
11559614 AAAAGATACCAATTGTTTAG
1 AAAAGATACCAATTGTTTAG
11559634 AAAAGGATACCAATTG-TTA-
1 AAAA-GATACCAATTGTTTAG
11559653 AAAAGATACCAATTGTT
1 AAAAGATACCAATTGTT
11559670 ACCAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.32
19 5 0.15
20 7 0.21
21 11 0.32
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (20 bp):
AAAAGATACCAATTGTTTAG
Found at i:11567085 original size:53 final size:53
Alignment explanation
Indices: 11567028--11567693 Score: 1076
Period size: 53 Copynumber: 12.5 Consensus size: 53
11567018 ATGCTCCCTA
* *
11567028 TTTCTTCAGGGAGTAGAACTCCAACAATAATCTTCCTACGGGTCCGCACTCTT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
*
11567081 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
11567135 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
*
11567188 TTTCTTCAGGGAGTAGAACTCGAACAATATTCTTCCTACGGG-CTCGCTCTCTT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCTT
* *
11567241 TTTCTTCAGGGAGTAGAACTCGAACAATATTCTTCCTACGGG-CTCGCTCTCTA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCTT
11567294 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTAT
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-T
*
11567349 TTT-TTCAGGGAGTAGAATTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
11567401 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
11567454 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
* *
11567508 TTTCTTCAGGGAGTAGAACTCGAACAATATTCTTCCTACGGG-CTCGCTCTCTA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCTT
* * *
11567561 TTTCTTCAGGGAGTAGAGCTCGAACAATATTCTTCCTACGGG-CTCGCTCTCTA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCTT
* *
11567614 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCAC-C-CTA
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
11567666 TTTCTTCAGGGAGTAGAACTCGAACAAT
1 TTTCTTCAGGGAGTAGAACTCGAACAAT
11567694 CTTCTGTTGC
Statistics
Matches: 587, Mismatches: 16, Indels: 22
0.94 0.03 0.04
Matches are distributed among these distances:
51 14 0.02
52 23 0.04
53 369 0.63
54 176 0.30
55 5 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (53 bp):
TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
Found at i:11567194 original size:160 final size:160
Alignment explanation
Indices: 11567028--11567693 Score: 1114
Period size: 160 Copynumber: 4.2 Consensus size: 160
11567018 ATGCTCCCTA
* *
11567028 TTTCTTCAGGGAGTAGAACTCCAACAATAATCTTCCTACGGG-TCCGCACTCTTTTTCTTCAGGG
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGCT-CGCTCTCTTTTTCTTCAGGG
11567092 AGTAAGAACTCGAACAATAATCTTCCTACGGG-TCCGCTCTCTATTTCTTCAGGGAGT-AGAACT
65 AGT-AGAACTCGAACAATAATCTTCCTACGGGCT-CGCTCTCTATTTCTTCAGGGAGTAAGAACT
11567155 CGAACAATAATCTTCCTACGGGTCCGCTCTCTT
128 CGAACAATAATCTTCCTACGGGTCCGCTCTCTT
*
11567188 TTTCTTCAGGGAGTAGAACTCGAACAATATTCTTCCTACGGGCTCGCTCTCTTTTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGCTCGCTCTCTTTTTCTTCAGGGA
*
11567253 GTAGAACTCGAACAATATTCTTCCTACGGGCTCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGA
66 GTAGAACTCGAACAATAATCTTCCTACGGGCTCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGA
11567318 ACAATAATCTTCCTACGGGTCCGCTCTCTAT
131 ACAATAATCTTCCTACGGGTCCGCTCTCT-T
*
11567349 TTT-TTCAGGGAGTAGAATTCGAACAATAATCTTCCTACGGG-TCCGCTCTCTTTTTCTTCAGGG
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGCT-CGCTCTCTTTTTCTTCAGGG
*
11567412 AGTAGAACTCGAACAATAATCTTCCTACGGG-TCCGCTCTCTTTTTCTTCAGGGAGTAAGAACTC
65 AGTAGAACTCGAACAATAATCTTCCTACGGGCT-CGCTCTCTATTTCTTCAGGGAGTAAGAACTC
11567476 GAACAATAATCTTCCTACGGGTCCGCTCTCTT
129 GAACAATAATCTTCCTACGGGTCCGCTCTCTT
* *
11567508 TTTCTTCAGGGAGTAGAACTCGAACAATATTCTTCCTACGGGCTCGCTCTCTATTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGCTCGCTCTCTTTTTCTTCAGGGA
* *
11567573 GTAGAGCTCGAACAATATTCTTCCTACGGGCTCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGA
66 GTAGAACTCGAACAATAATCTTCCTACGGGCTCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGA
* *
11567638 ACAATAATCTTCCTACGGGTCCAC-C-CTA
131 ACAATAATCTTCCTACGGGTCCGCTCTCTT
11567666 TTTCTTCAGGGAGTAGAACTCGAACAAT
1 TTTCTTCAGGGAGTAGAACTCGAACAAT
11567694 CTTCTGTTGC
Statistics
Matches: 481, Mismatches: 16, Indels: 20
0.93 0.03 0.04
Matches are distributed among these distances:
158 30 0.06
159 57 0.12
160 387 0.80
161 7 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (160 bp):
TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGCTCGCTCTCTTTTTCTTCAGGGA
GTAGAACTCGAACAATAATCTTCCTACGGGCTCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGA
ACAATAATCTTCCTACGGGTCCGCTCTCTT
Found at i:11567359 original size:213 final size:212
Alignment explanation
Indices: 11567028--11567693 Score: 1108
Period size: 213 Copynumber: 3.1 Consensus size: 212
11567018 ATGCTCCCTA
* *
11567028 TTTCTTCAGGGAGTAGAACTCCAACAATAATCTTCCTACGGGTCCGCACTCTTTTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
11567093 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGA
66 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGA
*
11567158 ACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAGAACTCGAACAATATTCTTC
131 ACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAGAACTCGAACAATAATCTTC
11567223 CTACGGGCTCGCTCTCTT
196 CTACGGG-TCGCTCTCTT
* *
11567241 TTTCTTCAGGGAGTAGAACTCGAACAATATTCTTCCTACGGG-CTCGCTCTCTATTTCTTCAGGG
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCTTTTTCTTCAGGG
* *
11567305 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTTTTCAGGGAGTAGAATTCG
65 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCG
11567370 AACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAGAACTCGAACAATAATCTT
130 AACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAGAACTCGAACAATAATCTT
11567435 CCTACGGGTCCGCTCTCTT
195 CCTACGGGT-CGCTCTCTT
11567454 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGG
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGG
* *
11567519 AGT-AGAACTCGAACAATATTCTTCCTACGGG-CTCGCTCTCTATTTCTTCAGGGAGTAGAGCTC
65 AGTAAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCTATTTCTTCAGGGAGTAGAACTC
* *
11567582 GAACAATATTCTTCCTACGGG-CTCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAAT
129 GAACAATAATCTTCCTACGGGTC-CGCTCTCTTTTTCTTCAGGGAGT-AGAACTCGAACAATAAT
* * *
11567646 CTTCCTACGGGTC-CACCCTA
192 CTTCCTACGGGTCGCTCTCTT
11567666 TTTCTTCAGGGAGTAGAACTCGAACAAT
1 TTTCTTCAGGGAGTAGAACTCGAACAAT
11567694 CTTCTGTTGC
Statistics
Matches: 428, Mismatches: 18, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
211 14 0.03
212 22 0.05
213 313 0.73
214 78 0.18
215 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (212 bp):
TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAACTCGA
ACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGAGTAGAACTCGAACAATAATCTTC
CTACGGGTCGCTCTCTT
Found at i:11569049 original size:22 final size:22
Alignment explanation
Indices: 11569019--11569099 Score: 100
Period size: 22 Copynumber: 3.9 Consensus size: 22
11569009 ATTTGTTTTG
*
11569019 TTTTGTTTTTCATTTTTTTTCA
1 TTTTTTTTTTCATTTTTTTTCA
11569041 TTTTTTTTTTCA-TTTTTTTCA
1 TTTTTTTTTTCATTTTTTTTCA
11569062 ---TTTTTTTCATTTTTTTT-A
1 TTTTTTTTTTCATTTTTTTTCA
*
11569080 TTTTTCATTTTCATTTTTTT
1 TTTTT-TTTTTCATTTTTTT
11569100 CTTTTTCATC
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.19
19 7 0.13
21 11 0.21
22 24 0.46
ACGTcount: A:0.10, C:0.09, G:0.01, T:0.80
Consensus pattern (22 bp):
TTTTTTTTTTCATTTTTTTTCA
Found at i:11569062 original size:31 final size:30
Alignment explanation
Indices: 11569005--11569099 Score: 106
Period size: 30 Copynumber: 3.1 Consensus size: 30
11568995 GAACCCCCCC
* *
11569005 TTTT-ATTTGTTTTGTTTTGTTTTTCATTTT
1 TTTTCATTTTTTTTATTTT-TTTTTCATTTT
11569035 TTTTCATTTTTTTT-TTCATTTTTTTCA-TTT
1 TTTTCATTTTTTTTATT--TTTTTTTCATTTT
11569065 TTTTCATTTTTTTTATTTTTCATTTTCATTTT
1 TTTTCATTTTTTTTATTTTT--TTTTCATTTT
11569097 TTT
1 TTT
11569100 CTTTTTCATC
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
29 3 0.05
30 23 0.40
31 23 0.40
32 8 0.14
ACGTcount: A:0.09, C:0.07, G:0.03, T:0.80
Consensus pattern (30 bp):
TTTTCATTTTTTTTATTTTTTTTTCATTTT
Found at i:11569077 original size:40 final size:39
Alignment explanation
Indices: 11569024--11569105 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 39
11569014 TTTTGTTTTG
*
11569024 TTTTTCATTTTTTTTCATTTTT-TTTTTCATTTTTTTCATT
1 TTTTTCATTTTTTTT-ATTTTTCATTTTCATTTTTTTC-TT
11569064 TTTTTCATTTTTTTTATTTTTCATTTTCATTTTTTTCTT
1 TTTTTCATTTTTTTTATTTTTCATTTTCATTTTTTTCTT
11569103 TTT
1 TTT
11569106 CATCTTCAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 11 0.28
40 29 0.73
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (39 bp):
TTTTTCATTTTTTTTATTTTTCATTTTCATTTTTTTCTT
Found at i:11569096 original size:18 final size:16
Alignment explanation
Indices: 11569041--11569090 Score: 73
Period size: 18 Copynumber: 3.0 Consensus size: 16
11569031 TTTTTTTTCA
11569041 TTTTTTTTTTCATTTT
1 TTTTTTTTTTCATTTT
11569057 TTTCATTTTTTTCATTTT
1 TTT--TTTTTTTCATTTT
*
11569075 TTTTATTTTTCATTTT
1 TTTTTTTTTTCATTTT
11569091 CATTTTTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 15 0.48
18 16 0.52
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTTTTCATTTT
Found at i:11569100 original size:9 final size:9
Alignment explanation
Indices: 11569024--11569084 Score: 77
Period size: 9 Copynumber: 6.3 Consensus size: 9
11569014 TTTTGTTTTG
11569024 TTTTTCATTT
1 TTTTTCA-TT
11569034 TTTTTCATTTTT
1 TTTTTCA---TT
11569046 TTTTTCATT
1 TTTTTCATT
11569055 TTTTTCATT
1 TTTTTCATT
11569064 TTTTTCATT
1 TTTTTCATT
*
11569073 TTTTTTATT
1 TTTTTCATT
11569082 TTT
1 TTT
11569085 CATTTTCATT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
9 31 0.65
10 7 0.15
12 10 0.21
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTCATT
Found at i:11569100 original size:31 final size:29
Alignment explanation
Indices: 11569024--11569105 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 29
11569014 TTTTGTTTTG
11569024 TTTTTCATTTTTTTTCATTTTTTTTTTCATT
1 TTTTTCA-TTTTTTTCATTTTTTTTTT-ATT
11569055 TTTTTCATTTTTTTCATTTTTTTTATT-TT
1 TTTTTCATTTTTTTCATTTTTTTT-TTATT
11569084 TCATTTTCATTTTTTTC-TTTTT
1 T--TTTTCATTTTTTTCATTTTT
11569106 CATCTTCAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
29 3 0.06
30 22 0.46
31 23 0.48
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (29 bp):
TTTTTCATTTTTTTCATTTTTTTTTTATT
Found at i:11569105 original size:9 final size:9
Alignment explanation
Indices: 11569024--11569105 Score: 56
Period size: 9 Copynumber: 8.2 Consensus size: 9
11569014 TTTTGTTTTG
11569024 TTTTTCATTT
1 TTTTTC-TTT
11569034 TTTTTCATTTTT
1 TTTTTC---TTT
*
11569046 TTTTTCATT
1 TTTTTCTTT
*
11569055 TTTTTCATT
1 TTTTTCTTT
11569064 TTTTTCATTT
1 TTTTTC-TTT
*
11569074 TTTTTATTTT
1 TTTTT-CTTT
*
11569084 TCATTTTCATT
1 T--TTTTCTTT
11569095 TTTTTCTTT
1 TTTTTCTTT
11569104 TT
1 TT
11569106 CATCTTCAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
9 26 0.44
10 17 0.29
11 3 0.05
12 13 0.22
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:11569113 original size:21 final size:21
Alignment explanation
Indices: 11569025--11569105 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
11569015 TTTGTTTTGT
*
11569025 TTTTCATTTTTTTTCATTTTTT
1 TTTTCATTTTTTTTC-TTTTTA
*
11569047 TTTTCA-TTTTTTTC-ATTT-
1 TTTTCATTTTTTTTCTTTTTA
*
11569065 TTTTCATTTTTTTTATTTTTCA
1 TTTTCATTTTTTTTCTTTTT-A
11569087 TTTTCA-TTTTTTTCTTTTT
1 TTTTCATTTTTTTTCTTTTT
11569106 CATCTTCAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
18 6 0.12
19 10 0.20
20 3 0.06
21 20 0.39
22 12 0.24
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTCATTTTTTTTCTTTTTA
Found at i:11575489 original size:187 final size:187
Alignment explanation
Indices: 11575245--11575618 Score: 748
Period size: 187 Copynumber: 2.0 Consensus size: 187
11575235 TCATCTCTTC
11575245 ATTTTCTCGAGTCGTACTCTTCATGGGATCTGGAATTGCACCTCCAAAATTGCCGGCGTATTTCA
1 ATTTTCTCGAGTCGTACTCTTCATGGGATCTGGAATTGCACCTCCAAAATTGCCGGCGTATTTCA
11575310 TCACCTTTGATGACGTCAGATGTCTTTAAATTGAATCTTGGGATCTCCATCTTCACTTTAACGCA
66 TCACCTTTGATGACGTCAGATGTCTTTAAATTGAATCTTGGGATCTCCATCTTCACTTTAACGCA
11575375 AAACAGTCTTCGTGTCTTTGTGAAAGATCTTCTCGTCCTTGGTATGATTGTATCTAT
131 AAACAGTCTTCGTGTCTTTGTGAAAGATCTTCTCGTCCTTGGTATGATTGTATCTAT
11575432 ATTTTCTCGAGTCGTACTCTTCATGGGATCTGGAATTGCACCTCCAAAATTGCCGGCGTATTTCA
1 ATTTTCTCGAGTCGTACTCTTCATGGGATCTGGAATTGCACCTCCAAAATTGCCGGCGTATTTCA
11575497 TCACCTTTGATGACGTCAGATGTCTTTAAATTGAATCTTGGGATCTCCATCTTCACTTTAACGCA
66 TCACCTTTGATGACGTCAGATGTCTTTAAATTGAATCTTGGGATCTCCATCTTCACTTTAACGCA
11575562 AAACAGTCTTCGTGTCTTTGTGAAAGATCTTCTCGTCCTTGGTATGATTGTATCTAT
131 AAACAGTCTTCGTGTCTTTGTGAAAGATCTTCTCGTCCTTGGTATGATTGTATCTAT
11575619 CTCTTGAGTC
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
187 187 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (187 bp):
ATTTTCTCGAGTCGTACTCTTCATGGGATCTGGAATTGCACCTCCAAAATTGCCGGCGTATTTCA
TCACCTTTGATGACGTCAGATGTCTTTAAATTGAATCTTGGGATCTCCATCTTCACTTTAACGCA
AAACAGTCTTCGTGTCTTTGTGAAAGATCTTCTCGTCCTTGGTATGATTGTATCTAT
Found at i:11580883 original size:18 final size:18
Alignment explanation
Indices: 11580857--11580891 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11580847 CCAGAATGTA
*
11580857 AAATAGGTATCGATACTC
1 AAATAGGTACCGATACTC
*
11580875 AAATGGGTACCGATACT
1 AAATAGGTACCGATACT
11580892 ACTTTACACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (18 bp):
AAATAGGTACCGATACTC
Found at i:11582822 original size:139 final size:138
Alignment explanation
Indices: 11582560--11583050 Score: 664
Period size: 139 Copynumber: 3.5 Consensus size: 138
11582550 AACTTTTCAA
*
11582560 AGAGAGTTCA-AATGAGAAGAACTCGTCTGATGAGGGAGAAGAAGTTCATAATGTGAAGAACTTG
1 AGAGAGTTCATAATGAGAAGAACTCGTCTGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
* *
11582624 TTCAACCTTAGCTCGATTCATCACATAAGGAGTTGAATCAGAAATACCTTACT-TGAGGGATCAA
66 TTCAACCTTAGCTCGATTCATCACATATGGAGTTGAAT-AAAAATACCTTACTCT-AGGGATCAA
*
11582688 CATTTCTAGT
129 CATTTCCAGT
* * * *
11582698 AGAGAATTCATAATGAGAAGAACTCAT-TCGATGAGGAAGAAGAAGATCATAATGAGAAGAACTT
1 AGAGAGTTCATAATGAGAAGAACTCGTCT-GATGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
11582762 GTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATAAACAATACCTTACTCTAGGGATCAA
65 GTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATAAA-AATACCTTACTCTAGGGATCAA
*
11582827 CATTTCCAAT
129 CATTTCCAGT
* * * *
11582837 GGAGAGTTCCTAATGAGAATAACTCGTCTGATGAGGGATAAGAAGTTCATAATGAGAAGAACTTG
1 AGAGAGTTCATAATGAGAAGAACTCGTCTGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
* * * * * * *
11582902 TTCAACCTTAGCTCGATTAATCACATATGAAGTTAAATCAATAACACCTCACTCGAGGGATCAAC
66 TTCAACCTTAGCTCGATTCATCACATATGGAGTTGAAT-AAAAATACCTTACTCTAGGGATCAAC
11582967 ATTTCCAGT
130 ATTTCCAGT
* * * * * * * *
11582976 GGAGAGTTCATAATGAGAATAACTCATCCGATAAGGGAGAAGAAGTTCATAAGGAGAAGAAGTTC
1 AGAGAGTTCATAATGAGAAGAACTCGTCTGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
11583041 TTCAACCTTA
66 TTCAACCTTA
11583051 TCTTGTTTCC
Statistics
Matches: 314, Mismatches: 33, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
138 12 0.04
139 298 0.95
140 4 0.01
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (138 bp):
AGAGAGTTCATAATGAGAAGAACTCGTCTGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATAAAAATACCTTACTCTAGGGATCAACA
TTTCCAGT
Found at i:11583033 original size:17 final size:18
Alignment explanation
Indices: 11583006--11583040 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
11582996 AACTCATCCG
11583006 ATAAGGGAGAAGAAGTTC
1 ATAAGGGAGAAGAAGTTC
11583024 ATAA-GGAGAAGAAGTTC
1 ATAAGGGAGAAGAAGTTC
11583041 TTCAACCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.46, C:0.06, G:0.31, T:0.17
Consensus pattern (18 bp):
ATAAGGGAGAAGAAGTTC
Found at i:11584619 original size:4 final size:4
Alignment explanation
Indices: 11584610--11584640 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
11584600 ACCTCTAATT
*
11584610 TTTA TTTA TTTA TTTA TTTA TTTA TGTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
11584641 TTATTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:11587547 original size:39 final size:39
Alignment explanation
Indices: 11587477--11587559 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
11587467 ATTTTAATAC
*
11587477 TTTA-ATAATATTATTATTTTAACAAATAATTAATATAA
1 TTTATATAATATTATTATTTTAACAAACAATTAATATAA
* * *
11587515 TTTATATATTATTCTTATTTTAATAAACAATTAATATAA
1 TTTATATAATATTATTATTTTAACAAACAATTAATATAA
11587554 TTTATA
1 TTTATA
11587560 ATAAATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 4 0.10
39 36 0.90
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (39 bp):
TTTATATAATATTATTATTTTAACAAACAATTAATATAA
Found at i:11587618 original size:33 final size:35
Alignment explanation
Indices: 11587580--11587660 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 35
11587570 ATTTGATAAA
*
11587580 ATATAATATTTTTAAT-A-ATTTTAT-TTAAATTT
1 ATATAATATTTTTAATAATATTTTATAATAAATTT
11587612 ATTATAA-ATATTTTAATAATATTTTATAATAAATTT
1 A-TATAATAT-TTTTAATAATATTTTATAATAAATTT
11587648 ATATAAATATTTT
1 ATAT-AATATTTT
11587661 AAATTTAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
32 3 0.07
33 12 0.29
34 1 0.02
35 10 0.24
36 13 0.32
37 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (35 bp):
ATATAATATTTTTAATAATATTTTATAATAAATTT
Done.