Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 35 of 77
Found at i:7155927 original size:22 final size:22
Alignment explanation
Indices: 7155902--7155943 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7155892 AAATTATCTT
* *
7155902 ATTTTTTGTTGATCAGTCAACA
1 ATTTTTTATTGATCAATCAACA
7155924 ATTTTTTATTGATCAATCAA
1 ATTTTTTATTGATCAATCAA
7155944 TTCTTTGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.48
Consensus pattern (22 bp):
ATTTTTTATTGATCAATCAACA
Found at i:7159282 original size:23 final size:22
Alignment explanation
Indices: 7159251--7159295 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
7159241 ACAGTTCTGC
7159251 TTTTTTTTA-ATATATTTGTTTA
1 TTTTTTTTATATAT-TTTGTTTA
*
7159273 TTTTTGTTTATTTATTTTGTTTA
1 TTTTT-TTTATATATTTTGTTTA
7159296 ATATATGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 12 0.60
24 3 0.15
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.76
Consensus pattern (22 bp):
TTTTTTTTATATATTTTGTTTA
Found at i:7161873 original size:105 final size:104
Alignment explanation
Indices: 7161665--7161874 Score: 357
Period size: 104 Copynumber: 2.0 Consensus size: 104
7161655 TCTGTACGAG
* * *
7161665 TGAAGCAGCACTGGTGCAGTCTCTTGTTTGAAGGTCAAGGGGGGCATTATGCCTGCCAGTTCAAT
1 TGAAGCAGCACTGGTGAAGTCTCTTGTTGGAAGGTCAAGGGGGCCATTATGCCTGCCAGTTCAAT
*
7161730 CTGTGGATTTTCTGGTACAGCCTTGGAAATCCACACAAA
66 CTGTGGATTTTCTGGTACAGCCTTCGAAATCCACACAAA
*
7161769 TGAAGCAGCACTGGTGAAGTTTCTTGTTGGAAGGTCAAGGGGGCCATTATGCCTGGCCAGTTCAA
1 TGAAGCAGCACTGGTGAAGTCTCTTGTTGGAAGGTCAAGGGGGCCATTATGCCT-GCCAGTTCAA
*
7161834 TCTGTTGATTTTCTGGTACAGCCTTCGAAATCCACACAAA
65 TCTGTGGATTTTCTGGTACAGCCTTCGAAATCCACACAAA
7161874 T
1 T
7161875 TTTGCGTTTT
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
104 50 0.51
105 49 0.49
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (104 bp):
TGAAGCAGCACTGGTGAAGTCTCTTGTTGGAAGGTCAAGGGGGCCATTATGCCTGCCAGTTCAAT
CTGTGGATTTTCTGGTACAGCCTTCGAAATCCACACAAA
Found at i:7162701 original size:15 final size:16
Alignment explanation
Indices: 7162683--7162712 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7162673 AATAATAATA
7162683 ATAATT-TTAAAAAAT
1 ATAATTATTAAAAAAT
7162698 ATAATTATTAAAAAA
1 ATAATTATTAAAAAA
7162713 AAAACAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAATTATTAAAAAAT
Found at i:7164233 original size:30 final size:31
Alignment explanation
Indices: 7164150--7164295 Score: 117
Period size: 29 Copynumber: 4.7 Consensus size: 31
7164140 ATCCTAAGTT
* *
7164150 TCTAAAACCCCCTAAAATCCAAAATCCCCTTAAAA
1 TCTAAAATCCCCTAAAATCC-AAA--CCC-AAAAA
* *
7164185 TCCAAAAT--CTTAAAATCCAAACCCAAAAA
1 TCTAAAATCCCCTAAAATCCAAACCCAAAAA
*
7164214 TCTAAAATCCCCT-AAATCCAAACCTCTAAAA
1 TCTAAAATCCCCTAAAATCCAAACC-CAAAAA
* *
7164245 T-TCGAAA-CCCCTAAAATCCAAACCCCAAAA
1 TCT-AAAATCCCCTAAAATCCAAACCCAAAAA
*
7164275 TC-CAAAT-CCCTAAAATCCAAA
1 TCTAAAATCCCCTAAAATCCAAA
7164296 ACCCTTAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
29 28 0.30
30 26 0.28
31 22 0.23
32 3 0.03
33 9 0.10
35 6 0.06
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (31 bp):
TCTAAAATCCCCTAAAATCCAAACCCAAAAA
Found at i:7164276 original size:45 final size:44
Alignment explanation
Indices: 7164158--7164362 Score: 184
Period size: 45 Copynumber: 4.5 Consensus size: 44
7164148 TTTCTAAAAC
*
7164158 CCCCTAAAATCCAAAATCCCCTTAAAATCCAAA-ATCTTAAAATCCAAA
1 CCCCTAAAATCC-AAA-CCCC--AAAATCCAAACCTC-TAAAATCCAAA
* * * *
7164206 -CCCAAAAATCTAAAATCCCCTAAATCCAAACCTCTAAAATTCGAAA
1 CCCCTAAAATC-CAAA-CCCCAAAATCCAAACCTCTAAAA-TCCAAA
7164252 CCCCTAAAATCCAAACCCCAAAATCCAAATCC-CTAAAATCCAAAA
1 CCCCTAAAATCCAAACCCCAAAATCCAAA-CCTCTAAAATCC-AAA
* * * *
7164297 CCCTTAAAATCCAAACCTCAAAATCCAAAATCTTTAAAATCCAAA
1 CCCCTAAAATCCAAACCCCAAAATCC-AAACCTCTAAAATCCAAA
* *
7164342 CCCAT-AAATCAAAACCCCAAA
1 CCCCTAAAATCCAAACCCCAAA
7164363 CCCTAAAACC
Statistics
Matches: 133, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
44 16 0.12
45 68 0.51
46 23 0.17
47 26 0.20
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (44 bp):
CCCCTAAAATCCAAACCCCAAAATCCAAACCTCTAAAATCCAAA
Found at i:7164298 original size:30 final size:30
Alignment explanation
Indices: 7164159--7164362 Score: 140
Period size: 30 Copynumber: 6.7 Consensus size: 30
7164149 TTCTAAAACC
7164159 CCCTAAAATCCAAAATCCCCTTAAAATCCAAAAT
1 CCCTAAAATCCAAAA-CCCC--AAAATCC-AAAT
* * *
7164193 -CTTAAAATCC-AAACCCAAAAATCTAAAAT
1 CCCTAAAATCCAAAACCCCAAAATC-CAAAT
* * *
7164222 CCCCT-AAATCC-AAACCTCTAAAATTCGAAAC
1 -CCCTAAAATCCAAAACC-CCAAAA-TCCAAAT
7164253 CCCTAAAATCC-AAACCCCAAAATCCAAAT
1 CCCTAAAATCCAAAACCCCAAAATCCAAAT
*
7164282 CCCTAAAATCCAAAACCCTTAAAATCCAAA-
1 CCCTAAAATCCAAAACCC-CAAAATCCAAAT
***
7164312 -CCTCAAAATCCAAAATCTTTAAAATCCAAA-
1 CCCT-AAAATCCAAAA-CCCCAAAATCCAAAT
7164342 CCC-ATAAAT-CAAAACCCCAAA
1 CCCTA-AAATCCAAAACCCCAAA
7164363 CCCTAAAACC
Statistics
Matches: 142, Mismatches: 16, Indels: 30
0.76 0.09 0.16
Matches are distributed among these distances:
28 4 0.03
29 35 0.25
30 52 0.37
31 37 0.26
32 5 0.04
33 9 0.06
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.18
Consensus pattern (30 bp):
CCCTAAAATCCAAAACCCCAAAATCCAAAT
Found at i:7164337 original size:16 final size:16
Alignment explanation
Indices: 7164162--7164341 Score: 121
Period size: 15 Copynumber: 11.7 Consensus size: 16
7164152 TAAAACCCCC
7164162 TAAAATCCAAAATCCCCT
1 TAAAATCCAAAAT--CCT
7164180 TAAAATCCAAAAT-CT
1 TAAAATCCAAAATCCT
*
7164195 TAAAATCC-AAA-CCC
1 TAAAATCCAAAATCCT
* * *
7164209 AAAAATCTAAAATCCCC
1 TAAAATCCAAAAT-CCT
7164226 T-AAATCC-AAA-CCT
1 TAAAATCCAAAATCCT
* * * *
7164239 CTAAAATTCGAAACCCC
1 -TAAAATCCAAAATCCT
*
7164256 TAAAATCC-AAA-CCC
1 TAAAATCCAAAATCCT
* *
7164270 CAAAATCC-AAATCCC
1 TAAAATCCAAAATCCT
*
7164285 TAAAATCCAAAACCCT
1 TAAAATCCAAAATCCT
7164301 TAAAATCC-AAA-CCT
1 TAAAATCCAAAATCCT
* *
7164315 CAAAATCCAAAATCTT
1 TAAAATCCAAAATCCT
7164331 TAAAATCCAAA
1 TAAAATCCAAA
7164342 CCCATAAATC
Statistics
Matches: 134, Mismatches: 16, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
13 2 0.01
14 34 0.25
15 40 0.30
16 40 0.30
17 5 0.04
18 13 0.10
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (16 bp):
TAAAATCCAAAATCCT
Found at i:7164374 original size:14 final size:15
Alignment explanation
Indices: 7164352--7164413 Score: 65
Period size: 14 Copynumber: 4.2 Consensus size: 15
7164342 CCCATAAATC
7164352 AAAACCCCAAACCCT
1 AAAACCCCAAACCCT
7164367 AAAA-CCCAAACCCT
1 AAAACCCCAAACCCT
* *
7164381 AAAATCTCCAAACTCT
1 AAAA-CCCCAAACCCT
* *
7164397 AAAA-TCAAAACCCT
1 AAAACCCCAAACCCT
7164411 AAA
1 AAA
7164414 CCTTCTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
14 25 0.61
15 4 0.10
16 12 0.29
ACGTcount: A:0.52, C:0.35, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAACCCCAAACCCT
Found at i:7173057 original size:21 final size:21
Alignment explanation
Indices: 7172991--7173057 Score: 89
Period size: 22 Copynumber: 3.1 Consensus size: 21
7172981 TGAGATTTGT
*
7172991 AAGACCTCCGGGCATAATCTC
1 AAGACCTCCGGGCATAATTTC
7173012 TAAGACCTCCGGGCATAACTTTC
1 -AAGACCTCCGGGCATAA-TTTC
* *
7173035 AAGACTTCCGAGCATAATTTC
1 AAGACCTCCGGGCATAATTTC
7173056 AA
1 AA
7173058 TTCACAGTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
21 6 0.15
22 32 0.78
23 3 0.07
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (21 bp):
AAGACCTCCGGGCATAATTTC
Found at i:7173385 original size:109 final size:111
Alignment explanation
Indices: 7173122--7173460 Score: 357
Period size: 110 Copynumber: 3.1 Consensus size: 111
7173112 ATCGATTCTG
* ** * * * **
7173122 TAAGACCT-TCAGACATAATTTTGATTTACGGTGTTATCTCGATCGATTCCTTATCTTTCAACTT
1 TAAGACCTCTTAGACATAATTTCAATTCACGATGTTATCTCGATCGATTCCTTATTTTTTGACTT
* *
7173186 ACGGTGTTATCCCAGTCGATTCTGTAAGACCTCCGAGTATGATTTC
66 ACGGTGTTATCCCAGTCGATTCTGTAAGACCTCCGGGCATGATTTC
* ** * *
7173232 TAAGA--TCTTAGGGCATAATTTTGATTCACGGTGTTATC-CTGATCGATTCCATATTTTTTGAC
1 TAAGACCTCTTA-GACATAATTTCAATTCACGATGTTATCTC-GATCGATTCCTTATTTTTTGAC
* * * * * *
7173294 TTGCGGTGTTATCCTAGTCG-TTTTGTAAGACATCTGGGCATGATTTT
64 TTACGGTGTTATCCCAGTCGATTCTGTAAGACCTCCGGGCATGATTTC
** **
7173341 TAAGACCTCTT-GACATAATTTCAATTCGTGATGTTATCTCGATCGATTTTTTATTTTTTGACTT
1 TAAGACCTCTTAGACATAATTTCAATTCACGATGTTATCTCGATCGATTCCTTATTTTTTGACTT
* * *
7173405 ACGATGTTATCCCAATCGATTCTGTAAGACCTCCGGGCATGATTCTG
66 ACGGTGTTATCCCAGTCGATTCTGTAAGACCTCCGGGCATGATT-TC
7173452 TAAGACCTC
1 TAAGACCTC
7173461 CGAGCATGAT
Statistics
Matches: 189, Mismatches: 32, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
108 1 0.01
109 85 0.45
110 89 0.47
111 14 0.07
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (111 bp):
TAAGACCTCTTAGACATAATTTCAATTCACGATGTTATCTCGATCGATTCCTTATTTTTTGACTT
ACGGTGTTATCCCAGTCGATTCTGTAAGACCTCCGGGCATGATTTC
Found at i:7173452 original size:23 final size:23
Alignment explanation
Indices: 7173422--7173479 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
7173412 TATCCCAATC
*
7173422 GATTCTGTAAGACCTCCGGGCAT
1 GATTCTGTAAGACCTCCGAGCAT
7173445 GATTCTGTAAGACCTCCGAGCAT
1 GATTCTGTAAGACCTCCGAGCAT
*
7173468 GATT-TCTAAGAC
1 GATTCTGTAAGAC
7173480 TTCTGGACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
22 7 0.21
23 26 0.79
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (23 bp):
GATTCTGTAAGACCTCCGAGCAT
Found at i:7173560 original size:133 final size:132
Alignment explanation
Indices: 7173315--7173599 Score: 354
Period size: 133 Copynumber: 2.2 Consensus size: 132
7173305 TCCTAGTCGT
* * * * * * *
7173315 TTTGTAAGACATCTGGGCATGATTTTTAAGACCTCTTGACATAATTTCAATTCGTGATGTTATCT
1 TTTGTAAGACCTCCGGGCATGATTTCTAAGACCTCTGGACATAATTTCAATTCGCGATATTATCC
** * * * * *
7173380 CGATCGATTTTTTATTTTTTGACTTACGATGTTATCCCAATCGATTCTGTAAGACCTCCGGGCAT
66 CGATCGATTCCTTATCTTTCGACTTACGATGTTATCCCAATCAATTCTGTAAGACCTCCAGACAT
7173445 GA
131 GA
* * *
7173447 TTCTGTAAGACCTCCGAGCATGATTTCTAAGACTTCTGGACATAATTTCGATTCGCGATATTATC
1 TT-TGTAAGACCTCCGGGCATGATTTCTAAGACCTCTGGACATAATTTCAATTCGCGATATTATC
** * *
7173512 CCGATCGATTCCTTATCTTTCGACTTGTGGTGTTATCCCAGTCAATTCTGTAAGACCTCCAGACA
65 CCGATCGATTCCTTATCTTTCGACTTACGATGTTATCCCAATCAATTCTGTAAGACCTCCAGACA
7173577 TGA
130 TGA
* *
7173580 TTTTTAAAACCTCCGGGCAT
1 TTTGTAAGACCTCCGGGCAT
7173600 AGTTTTGATT
Statistics
Matches: 128, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
132 17 0.13
133 111 0.87
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (132 bp):
TTTGTAAGACCTCCGGGCATGATTTCTAAGACCTCTGGACATAATTTCAATTCGCGATATTATCC
CGATCGATTCCTTATCTTTCGACTTACGATGTTATCCCAATCAATTCTGTAAGACCTCCAGACAT
GA
Found at i:7173581 original size:110 final size:109
Alignment explanation
Indices: 7173446--7173704 Score: 295
Period size: 110 Copynumber: 2.3 Consensus size: 109
7173436 TCCGGGCATG
* *
7173446 ATTCTGTAAGACCTCCGAGCATGATTTCTAAGACTTCTGGACATAATTTCGATTCGCGATATTAT
1 ATTCTGTAAGACCTCCGA-CATGATTTCTAAGACCTCCGGACATAATTTCGATTCGCGATATTAT
**
7173511 CCCGATCGATTCCTTATCTTTCGACTTGTGGTGTTATCCCAGTCA
65 CCCGATCGATTCCTTATCTTTCGACTTACGGTGTTATCCCAGTCA
* * * * * * *
7173556 ATTCTGTAAGACCTCCAGACATGATTTTTAAAACCTCCGGGCATAGTTTTGATTCGTGATGTTAT
1 ATTCTGTAAGACCTCC-GACATGATTTCTAAGACCTCCGGACATAATTTCGATTCGCGATATTAT
* * * * * *
7173621 CTCGATCGATTCTTTATTTTTTGACTTACGGTGTTATCTCAGTCG
65 CCCGATCGATTCCTTATCTTTCGACTTACGGTGTTATCCCAGTCA
* * *
7173666 ATTTTGTAAGACTTCCGGGCATGA-TTCTTAAGACCTCCG
1 ATTCTGTAAGACCTCC-GACATGATTTC-TAAGACCTCCG
7173705 ACCATGATTT
Statistics
Matches: 124, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
109 2 0.02
110 120 0.97
111 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (109 bp):
ATTCTGTAAGACCTCCGACATGATTTCTAAGACCTCCGGACATAATTTCGATTCGCGATATTATC
CCGATCGATTCCTTATCTTTCGACTTACGGTGTTATCCCAGTCA
Found at i:7173648 original size:243 final size:241
Alignment explanation
Indices: 7173203--7173721 Score: 707
Period size: 242 Copynumber: 2.1 Consensus size: 241
7173193 TATCCCAGTC
* * * * *
7173203 GATTCTGTAAGACCTCCGAGTATGATTTCTAAGATCTTAGGGCATAATTTTGATTCACGGTGTTA
1 GATTCTGTAAGACCTCCGAGCATGATTTCTAAGA-CTTAGGACATAATTTCGATTCACGATATTA
* * * * * * ** *
7173268 TCCTGATCGATTCCATATTTTTTGACTTGCGGTGTTATCCTAGTCGTTTTGTAAGACATCTGGGC
65 TCCCGATCGATTCCATATCTTTCGACTTGCGGTGTTATCCCAGTCATTCTGTAAGACATCCAGAC
* ** *
7173333 ATGATTTTTAAGACCTCTTGACATAATTTCAATTCGTGATGTTATCTCGATCGATTTTTTATTTT
130 ATGATTTTTAAAACCTCCGGACATAATTTCAATTCGTGATGTTATCTCGATCGATTCTTTATTTT
7173398 TTGACTTACGATGTTATCCCAATCGATTCTGTAAGACCTCCGGGCAT
195 TTGACTTACGATGTTATCCCAATCGATTCTGTAAGACCTCCGGGCAT
* *
7173445 GATTCTGTAAGACCTCCGAGCATGATTTCTAAGACTTCTGGACATAATTTCGATTCGCGATATTA
1 GATTCTGTAAGACCTCCGAGCATGATTTCTAAGACTT-AGGACATAATTTCGATTCACGATATTA
* * *
7173510 TCCCGATCGATTCCTTATCTTTCGACTTGTGGTGTTATCCCAGTCAATTCTGTAAGACCTCCAGA
65 TCCCGATCGATTCCATATCTTTCGACTTGCGGTGTTATCCCAGTC-ATTCTGTAAGACATCCAGA
* * **
7173575 CATGATTTTTAAAACCTCCGGGCATAGTTTTGATTCGTGATGTTATCTCGATCGATTCTTTATTT
129 CATGATTTTTAAAACCTCCGGACATAATTTCAATTCGTGATGTTATCTCGATCGATTCTTTATTT
* * * * *
7173640 TTTGACTTACGGTGTTATCTCAGTCGATTTTGTAAGACTTCCGGGCAT
194 TTTGACTTACGATGTTATCCCAATCGATTCTGTAAGACCTCCGGGCAT
*
7173688 GATTCT-TAAGACCTCCGACCATGATTTCTAAGAC
1 GATTCTGTAAGACCTCCGAGCATGATTTCTAAGAC
7173722 CTCCGAGCAT
Statistics
Matches: 242, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
241 3 0.01
242 120 0.50
243 119 0.49
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (241 bp):
GATTCTGTAAGACCTCCGAGCATGATTTCTAAGACTTAGGACATAATTTCGATTCACGATATTAT
CCCGATCGATTCCATATCTTTCGACTTGCGGTGTTATCCCAGTCATTCTGTAAGACATCCAGACA
TGATTTTTAAAACCTCCGGACATAATTTCAATTCGTGATGTTATCTCGATCGATTCTTTATTTTT
TGACTTACGATGTTATCCCAATCGATTCTGTAAGACCTCCGGGCAT
Found at i:7173697 original size:22 final size:22
Alignment explanation
Indices: 7173672--7173731 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
7173662 GTCGATTTTG
* *
7173672 TAAGACTTCCGGGCATGA-TTC
1 TAAGACCTCCGAGCATGATTTC
*
7173693 TTAAGACCTCCGACCATGATTTC
1 -TAAGACCTCCGAGCATGATTTC
7173716 TAAGACCTCCGAGCAT
1 TAAGACCTCCGAGCAT
7173732 AAATTTGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 30 0.91
23 3 0.09
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (22 bp):
TAAGACCTCCGAGCATGATTTC
Found at i:7173971 original size:15 final size:16
Alignment explanation
Indices: 7173953--7173982 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7173943 AATAATAATA
7173953 ATAATT-TTAAAAAAT
1 ATAATTATTAAAAAAT
7173968 ATAATTATTAAAAAA
1 ATAATTATTAAAAAA
7173983 AAGAAAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAATTATTAAAAAAT
Found at i:7173995 original size:14 final size:14
Alignment explanation
Indices: 7173978--7174018 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
7173968 ATAATTATTA
7173978 AAAAAAAGAAAGAG
1 AAAAAAAGAAAGAG
* *
7173992 AAAACAAGAAAAAG
1 AAAAAAAGAAAGAG
*
7174006 AAAAAAAAAAAGA
1 AAAAAAAGAAAGA
7174019 AAGTAGGGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAGAG
Found at i:7175535 original size:18 final size:19
Alignment explanation
Indices: 7175507--7175544 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
7175497 GTTTCTAAAA
7175507 CCCTCTAAAATCCAAAATC
1 CCCTCTAAAATCCAAAATC
7175526 CCCT-TAAAATCCAAAATC
1 CCCTCTAAAATCCAAAATC
7175544 C
1 C
7175545 TAAAATCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (19 bp):
CCCTCTAAAATCCAAAATC
Found at i:7175550 original size:15 final size:15
Alignment explanation
Indices: 7175511--7175617 Score: 65
Period size: 16 Copynumber: 6.7 Consensus size: 15
7175501 CTAAAACCCT
7175511 CTAAAATCCAAAATCCC
1 CTAAAATCCAAAAT--C
7175528 CTTAAAATCCAAAATC
1 C-TAAAATCCAAAATC
* *
7175544 CTAAAATCCGAAACC
1 CTAAAATCCAAAATC
* *
7175559 CTTAAAATTCGAAA-C
1 C-TAAAATCCAAAATC
* *
7175574 CTTTAAAAT-CTAAACC
1 C--TAAAATCCAAAATC
*
7175590 CTCAAAATCCAAAATTT
1 CT-AAAATCCAAAA-TC
7175607 CTAAAATCCAA
1 CTAAAATCCAA
7175618 GCCCTTAAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
14 1 0.01
15 24 0.32
16 35 0.46
17 3 0.04
18 13 0.17
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (15 bp):
CTAAAATCCAAAATC
Found at i:7175564 original size:31 final size:30
Alignment explanation
Indices: 7175511--7175626 Score: 108
Period size: 31 Copynumber: 3.7 Consensus size: 30
7175501 CTAAAACCCT
7175511 CTAAAATCCAAAATCCCCTTAAAATCCAAAATC
1 CTAAAATCC-AAA--CCCTTAAAATCCAAAATC
* *
7175544 CTAAAATCCGAAACCCTTAAAATTCGAAA-C
1 CTAAAATCC-AAACCCTTAAAATCCAAAATC
* * *
7175574 CTTTAAAATCTAAACCCTCAAAATCCAAAATTT
1 C--TAAAATCCAAACCCTTAAAATCCAAAA-TC
*
7175607 CTAAAATCCAAGCCCTTAAA
1 CTAAAATCCAAACCCTTAAA
7175627 TCAAAACCCC
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
30 2 0.03
31 46 0.68
32 7 0.10
33 13 0.19
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.23
Consensus pattern (30 bp):
CTAAAATCCAAACCCTTAAAATCCAAAATC
Found at i:7175566 original size:16 final size:16
Alignment explanation
Indices: 7175503--7175603 Score: 98
Period size: 16 Copynumber: 6.2 Consensus size: 16
7175493 CTAGGTTTCT
7175503 AAAACCCTCTAAAATCC
1 AAAACCCT-TAAAATCC
7175520 AAAATCCCCTTAAAATCC
1 AAAA--CCCTTAAAATCC
*
7175538 AAAATCC-TAAAATCC
1 AAAACCCTTAAAATCC
* *
7175553 GAAACCCTTAAAATTC
1 AAAACCCTTAAAATCC
* *
7175569 GAAACCTTTAAAAT-C
1 AAAACCCTTAAAATCC
* *
7175584 TAAACCCTCAAAATCC
1 AAAACCCTTAAAATCC
7175600 AAAA
1 AAAA
7175604 TTTCTAAAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
15 25 0.35
16 26 0.37
17 4 0.06
18 12 0.17
19 4 0.06
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.21
Consensus pattern (16 bp):
AAAACCCTTAAAATCC
Found at i:7175653 original size:14 final size:15
Alignment explanation
Indices: 7175629--7175661 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7175619 CCCTTAAATC
7175629 AAAACCCCAAACCAT
1 AAAACCCCAAACCAT
*
7175644 AAAA-CCCAAACCCT
1 AAAACCCCAAACCAT
7175658 AAAA
1 AAAA
7175662 TCTCCAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.58, C:0.36, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAACCCCAAACCAT
Found at i:7175670 original size:16 final size:15
Alignment explanation
Indices: 7175629--7175679 Score: 59
Period size: 16 Copynumber: 3.4 Consensus size: 15
7175619 CCCTTAAATC
* *
7175629 AAAACCCCAAACCAT
1 AAAATCCCAAACCCT
7175644 AAAA-CCCAAACCCT
1 AAAATCCCAAACCCT
*
7175658 AAAATCTCCAAACTCT
1 AAAATC-CCAAACCCT
7175674 AAAATC
1 AAAATC
7175680 AAAATCCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
14 13 0.41
15 5 0.16
16 14 0.44
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAATCCCAAACCCT
Found at i:7177035 original size:13 final size:13
Alignment explanation
Indices: 7177017--7177042 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7177007 AATAATTAAA
7177017 TAAAAATTAAAAT
1 TAAAAATTAAAAT
7177030 TAAAAATTAAAAT
1 TAAAAATTAAAAT
7177043 CGATAGATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAAAATTAAAAT
Found at i:7178002 original size:3 final size:3
Alignment explanation
Indices: 7177994--7178036 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
7177984 GCTCTTTATC
7177994 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7178037 GCCGCTTCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7178239 original size:19 final size:18
Alignment explanation
Indices: 7178202--7178240 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
7178192 TCAGAGAAAA
7178202 TTTTGGAAATATTAATTT
1 TTTTGGAAATATTAATTT
*
7178220 TTTTTGAAATATTAATTT
1 TTTTGGAAATATTAATTT
7178238 TTT
1 TTT
7178241 AATTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTTGGAAATATTAATTT
Found at i:7178851 original size:2 final size:2
Alignment explanation
Indices: 7178844--7178880 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
7178834 TTACATGGAT
7178844 TA TA TA TA TA TA TA TA TA TA TA TGA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA T
7178881 TCATTCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7181117 original size:7 final size:7
Alignment explanation
Indices: 7181105--7181145 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
7181095 CACATTTAAT
7181105 AAATTTA
1 AAATTTA
7181112 AAATTTA
1 AAATTTA
*
7181119 AAATTCA
1 AAATTTA
*
7181126 AAATTCA
1 AAATTTA
7181133 AAATTTA
1 AAATTTA
*
7181140 TAATTT
1 AAATTT
7181146 TTTCCCCTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATTTA
Found at i:7181129 original size:21 final size:21
Alignment explanation
Indices: 7181105--7181144 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7181095 CACATTTAAT
*
7181105 AAATTTAAAATTTAAAATTCA
1 AAATTCAAAATTTAAAATTCA
*
7181126 AAATTCAAAATTTATAATT
1 AAATTCAAAATTTAAAATT
7181145 TTTTCCCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTCAAAATTTAAAATTCA
Found at i:7181314 original size:26 final size:25
Alignment explanation
Indices: 7181276--7181325 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
7181266 TTTCTTATTT
7181276 GTTTGATTGTTCAACTCTACAAATTG
1 GTTTGATTGTTCAACT-TACAAATTG
*
7181302 GTTTGATCT-TTCAACTTGCAAATT
1 GTTTGAT-TGTTCAACTTACAAATT
7181326 AAAATTCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 14 0.64
27 1 0.05
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (25 bp):
GTTTGATTGTTCAACTTACAAATTG
Found at i:7183857 original size:27 final size:27
Alignment explanation
Indices: 7183821--7183885 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
7183811 GTATGGTAAG
7183821 AATAT-AATTTTAAATTCTAAATTAAA
1 AATATGAATTTTAAATTCTAAATTAAA
* * * *
7183847 AATATGAATTTAAAATTTTATATTAAG
1 AATATGAATTTTAAATTCTAAATTAAA
*
7183874 ATTATGAATTTT
1 AATATGAATTTT
7183886 TATTATAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (27 bp):
AATATGAATTTTAAATTCTAAATTAAA
Found at i:7184961 original size:80 final size:81
Alignment explanation
Indices: 7184805--7184973 Score: 243
Period size: 80 Copynumber: 2.1 Consensus size: 81
7184795 ATTTTATTAG
* *
7184805 AGGTTTATTTGTTAATTTCGAAACTATACTCGAATTAAGATCAAATTTAAGCATTCAGGTGGAAT
1 AGGTTTATTTGTTAATTTCGAAACTATACTCGAATTAAGATCAAATTTAAACATTCAGGTGAAAT
7184870 TTAATTGG-AAAAGAA
66 TTAATTGGAAAAAGAA
* *
7184885 AGGTTTATTT-TTCAATTTCTAAACTATAGTCGAATTAAGATCAAATTTAAACATTCAGGTGAAA
1 AGGTTTATTTGTT-AATTTCGAAACTATACTCGAATTAAGATCAAATTTAAACATTCAGGTGAAA
** *
7184949 TTTTCTTTGAAAAAAGAA
65 -TTTAATTGGAAAAAGAA
7184967 AGGTTTA
1 AGGTTTA
7184974 GACTTTGGTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 57 0.72
81 6 0.08
82 14 0.18
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (81 bp):
AGGTTTATTTGTTAATTTCGAAACTATACTCGAATTAAGATCAAATTTAAACATTCAGGTGAAAT
TTAATTGGAAAAAGAA
Found at i:7189942 original size:50 final size:52
Alignment explanation
Indices: 7189858--7190002 Score: 179
Period size: 51 Copynumber: 2.8 Consensus size: 52
7189848 TATAACCATA
* * *
7189858 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATT-TTCTCCTATAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTACAAGT
* * * * *
7189909 TAAACTTGCCTATTAA-AATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTACAAGT
*
7189960 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAAATCTTCT
1 CAAACTTACCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTCT
7190003 TTTGCAAGTC
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
50 19 0.24
51 37 0.47
52 19 0.24
53 4 0.05
ACGTcount: A:0.28, C:0.26, G:0.06, T:0.39
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTACAAGT
Found at i:7192690 original size:64 final size:63
Alignment explanation
Indices: 7192587--7192929 Score: 271
Period size: 64 Copynumber: 5.4 Consensus size: 63
7192577 ATTGTATGGC
* * * **
7192587 ATTATTGAAGGTGTTTTTGGCCAACAACACTTTCAATAATTCATTTAAAATATTTTGGAGAGGG
1 ATTATTGAAGGCGTTTTTGGCCAAAAACGCTTTCAATAATTCATACAAAATATTTTGGAG-GGG
* * * * *
7192651 ATTATTGAAGGCATTTTTGGTCAAAAACGCTTTCGATAATTCATACAATAA-AATTTGAAGGGG
1 ATTATTGAAGGCGTTTTTGGCCAAAAACGCTTTCAATAATTCATACAA-AATATTTTGGAGGGG
* * * ** * * * * *
7192714 ATTATTAAATGTGTTTTTATCAAAAAATGTCTTT-AATAATTCATTCAAAATTTTTTTTGAGGGG
1 ATTATTGAAGGCGTTTTTGGCCAAAAACG-CTTTCAATAATTCATACAAAA-TATTTTGGAGGGG
* * * * * *
7192778 ATTATTAAATGCATTTTTGGCCAAAAATG-TCTTCAATAATCCATAAAAAAATATTTTGGA-GGG
1 ATTATTGAAGGCGTTTTTGGCCAAAAACGCT-TTCAATAATTCAT-ACAAAATATTTTGGAGGGG
* * * * * * *
7192841 ATTATTGAAGACGTTTTTGTCCATAAACACTTTTAATAATCCATACAAAAAATTTTGTTGAGGGG
1 ATTATTGAAGGCGTTTTTGGCCAAAAACGCTTTCAATAATTCATACAAAATATTTTG--GAGGGG
* *
7192906 ATAATTAAAGGCGTTTTTGGCCAA
1 ATTATTGAAGGCGTTTTTGGCCAA
7192930 TCCACGAATT
Statistics
Matches: 217, Mismatches: 51, Indels: 21
0.75 0.18 0.07
Matches are distributed among these distances:
62 14 0.06
63 73 0.34
64 102 0.47
65 28 0.13
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (63 bp):
ATTATTGAAGGCGTTTTTGGCCAAAAACGCTTTCAATAATTCATACAAAATATTTTGGAGGGG
Found at i:7192842 original size:127 final size:127
Alignment explanation
Indices: 7192616--7192929 Score: 300
Period size: 127 Copynumber: 2.4 Consensus size: 127
7192606 GCCAACAACA
* * * * *
7192616 CTTTCAATAATTCATTTAAAATATTTTGGAGAGGGATTATTGAAGGCATTTTTGGTCAAAAACGC
1 CTTT-AATAATTCATTCAAAATTTTTTTGAG-GGGATTATTAAAGGCATTTTTGGCCAAAAACGC
* * * * *
7192681 TTTCGATAATTCATACAATAAAATTTGAAGGGGATTATTAAATG-TGTTTTTAT-CA-AAAAATG
64 TTTCAATAATCCATACAAAAAAATTTGAAGGGGATTATTAAA-GACGTTTTTATCCATAAAAA-C
7192743 T
127 T
* *
7192744 CTTTAATAATTCATTCAAAATTTTTTTTGAGGGGATTATTAAATGCATTTTTGGCCAAAAATG-T
1 CTTTAATAATTCATTCAAAA-TTTTTTTGAGGGGATTATTAAAGGCATTTTTGGCCAAAAACGCT
* * * *
7192808 CTTCAATAATCCATA-AAAAAATATTTTGGA-GGGATTATTGAAGACGTTTTTGTCCATAAACAC
65 -TTCAATAATCCATACAAAAAA-A-TTTGAAGGGGATTATTAAAGACGTTTTTATCCATAAAAAC
7192871 T
127 T
* * * * *
7192872 -TTTAATAATCCATACAAAAAATTTTGTTGAGGGGATAATTAAAGGCGTTTTTGGCCAA
1 CTTTAATAATTCATTC--AAAATTTTTTTGAGGGGATTATTAAAGGCATTTTTGGCCAA
7192930 TCCACGAATT
Statistics
Matches: 155, Mismatches: 22, Indels: 18
0.79 0.11 0.09
Matches are distributed among these distances:
126 7 0.05
127 87 0.56
128 53 0.34
129 8 0.05
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (127 bp):
CTTTAATAATTCATTCAAAATTTTTTTGAGGGGATTATTAAAGGCATTTTTGGCCAAAAACGCTT
TCAATAATCCATACAAAAAAATTTGAAGGGGATTATTAAAGACGTTTTTATCCATAAAAACT
Found at i:7193240 original size:12 final size:12
Alignment explanation
Indices: 7193213--7193252 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
7193203 TTTTTCTATG
7193213 TTTATATAAATCTA
1 TTTATATAAA--TA
7193227 TTTATATAAATA
1 TTTATATAAATA
*
7193239 TTCATATAAATA
1 TTTATATAAATA
7193251 TT
1 TT
7193253 CAATCTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 15 0.60
14 10 0.40
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTATATAAATA
Found at i:7197907 original size:138 final size:138
Alignment explanation
Indices: 7197630--7197895 Score: 328
Period size: 138 Copynumber: 1.9 Consensus size: 138
7197620 GTTTTTAGCC
*
7197630 AAAAATGCCTTCAATAATCCATAAATTATTCAAGGCATTTTAGCCAAAAACGCTTTCAATAATCC
1 AAAAATACCTTCAATAATCCATAAATTATTCAAGGCATTTTAGCCAAAAACGCTTTCAATAATCC
* * * * * *
7197695 CATTTCAATATTTTGCAAGGAATTTTTCAAGACATTTTTTTAGGCAAAAACGCCTTGAATATTCC
66 CAATTCAATATTTTGCAAGGAATTATTCAAGACATTTTTTTAGGCAAAAACACATTCAATAATCC
7197760 AAAAAAAA
131 AAAAAAAA
* * *
7197768 AAAAATACCTTGAATAATCCATGAATTATTCAAGGCTTTTTTAGCCAAAAACGCCTTT-AATAA-
1 AAAAATACCTTCAATAATCCATAAATTATTCAAGGC-ATTTTAGCCAAAAACG-CTTTCAATAAT
* * *
7197831 CCCAATTCGATATTTTGTAA-GAGATTATTCAATG-TA-TTTTTT-GGCTAAAAACACATTCAAT
64 CCCAATTCAATATTTTGCAAGGA-ATTATTCAA-GACATTTTTTTAGGC-AAAAACACATTCAAT
7197892 AATC
126 AATC
7197896 TCATTATAAA
Statistics
Matches: 110, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
136 3 0.03
137 23 0.21
138 59 0.54
139 21 0.19
140 4 0.04
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (138 bp):
AAAAATACCTTCAATAATCCATAAATTATTCAAGGCATTTTAGCCAAAAACGCTTTCAATAATCC
CAATTCAATATTTTGCAAGGAATTATTCAAGACATTTTTTTAGGCAAAAACACATTCAATAATCC
AAAAAAAA
Found at i:7198168 original size:435 final size:436
Alignment explanation
Indices: 7197344--7198169 Score: 1017
Period size: 435 Copynumber: 1.9 Consensus size: 436
7197334 TAAATGCCTA
* * *
7197344 AATAATCCACAAATTATTCAAGGCATATTTTTAGCCAGAAATACCTTCAATAATCCCTATTCAAT
1 AATAATCCACAAATTATTCAAGGCATATTTTTAGCCAAAAACACCTTCAATAATCCCAATTCAAT
* * * *
7197409 ATTTTGTAATGGATTATTCAAGGCATTTTTTTGGCTAAAAACGCCTTTAATAATCCTATCCTAAA
66 ATTTTGTAATGGATTATTCAAGGCATTTTTTTGGCTAAAAACACATTCAATAATCCTATCATAAA
* * * * *
7197474 AATTGAAGGGGATTATTTAAGCTATTTTCTAGGAAAAAATGCCTTGAATACTAAAAAAAAAAAAA
131 AATTGAAAGAGATTATTCAAGCTATTTTATAGGAAAAAACGCCTTGAATACTAAAAAAAAAAAAA
* * * **
7197539 TTGAGATTATTGAAGGTATTTTTGATAGAAAATACCTTCAATAATCCTTTTTGAATGAATAATTC
196 TTGAGATTATTGAAGGCATTTTTGACAGAAAACACCTTCAATAATCCCATTTGAATGAATAATTC
* * * *
7197604 GTAGGTTATTGAAGGCGTTTTTAGCCAAAAATGCCTTCAATAATCCATAAATTATTCAAGGCATT
261 GTAGGTTATTGAAGGCATTTTTAGCAAAAAATACATTCAATAATCCATAAATTATTCAAGGCATT
*
7197669 TTAGCCAAAAACGCTTTCAATAATCCCATTTCAATATTTTGCAAGGAATTTTTCAAGACATTTTT
326 TTAGCCAAAAACGCTTTCAATAATCCCATTTCAATATTTTGCAAGGAATTATTCAAGACATTTTT
7197734 TTAGGCAAAAACGCCTTGAATATTCCAAAAAAAAAAAAATACCTTG
391 TTAGGCAAAAACGCCTTGAATATTCCAAAAAAAAAAAAATACCTTG
** * * *
7197780 AATAATCCATGAATTATTCAAGGC-T-TTTTTAGCCAAAAACGCCTTTAATAA-CCCAATTCGAT
1 AATAATCCACAAATTATTCAAGGCATATTTTTAGCCAAAAACACCTTCAATAATCCCAATTCAAT
* * *
7197842 ATTTTGTAA-GAGATTATTCAATGTA-TTTTTTGGCTAAAAACACATTCAATAAT-CTCATTATA
66 ATTTTGTAATG-GATTATTCAAGGCATTTTTTTGGCTAAAAACACATTCAATAATCCT-ATCATA
* * * * *
7197904 AAAATTGAAAGAGATTATTCAAGGC-ATTTTATGGGCAAAAACGTCTTGAATATTCCAAAAAAAA
129 AAAATTGAAAGAGATTATTCAA-GCTATTTTATAGGAAAAAACGCCTTGAATACT-AAAAAAAAA
* *
7197968 AAAA-TGCTAGGATTATTGAAGGCGTTTTTGACAGAAAACGCCTTCAATAATCCCATTTGAATGA
192 AAAATTG--A-GATTATTGAAGGCATTTTTGACAGAAAACACCTTCAATAATCCCATTTGAATGA
* * * * * * * *
7198032 ATAATTTGTGGGTTATAT-AAGGCATTTTTGGCAAAAAATATATTGAATAATTCATGAATTATTT
254 ATAATTCGTAGGTTAT-TGAAGGCATTTTTAGCAAAAAATACATTCAATAATCCATAAATTATTC
** * * * *
7198096 AAGGTGTTTTTAGCTAGAAACGCTTTCAATAA-CCCAATTT-AATATTTTGGAAGGGATTATTCA
318 AAGG-CATTTTAGCCAAAAACGCTTTCAATAATCCC-ATTTCAATATTTTGCAAGGAATTATTCA
*
7198159 AGGCATTTTTT
381 AGACATTTTTT
7198170 GGCTAAAAAT
Statistics
Matches: 328, Mismatches: 52, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
431 2 0.01
432 74 0.23
433 44 0.13
434 23 0.07
435 135 0.41
436 50 0.15
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (436 bp):
AATAATCCACAAATTATTCAAGGCATATTTTTAGCCAAAAACACCTTCAATAATCCCAATTCAAT
ATTTTGTAATGGATTATTCAAGGCATTTTTTTGGCTAAAAACACATTCAATAATCCTATCATAAA
AATTGAAAGAGATTATTCAAGCTATTTTATAGGAAAAAACGCCTTGAATACTAAAAAAAAAAAAA
TTGAGATTATTGAAGGCATTTTTGACAGAAAACACCTTCAATAATCCCATTTGAATGAATAATTC
GTAGGTTATTGAAGGCATTTTTAGCAAAAAATACATTCAATAATCCATAAATTATTCAAGGCATT
TTAGCCAAAAACGCTTTCAATAATCCCATTTCAATATTTTGCAAGGAATTATTCAAGACATTTTT
TTAGGCAAAAACGCCTTGAATATTCCAAAAAAAAAAAAATACCTTG
Found at i:7198402 original size:294 final size:295
Alignment explanation
Indices: 7197767--7198512 Score: 1020
Period size: 294 Copynumber: 2.5 Consensus size: 295
7197757 TCCAAAAAAA
* *
7197767 AAAAAATACCTTGAATAATCCATGAATTATTCAAGGCTTTTTTAGCCAAAAACGCCTTT-AATAA
1 AAAAAATACCTTGAATAATCCATGAATTATTCAAGGCATTTTTAGCCAGAAACG-CTTTCAATAA
* * * *
7197831 CCCAATTCGATATTTTGTAAGAGATTATTCAATGTATTTTTTGGCTAAAAACACATTCAATAATC
65 CCCAATTCAATATTTTGTAAGGGATTATTCAAGGCATTTTTTGGCTAAAAACACATTCAATAATC
* * *
7197896 TCATTATAAAAATTGAAAGAGATTATTCAAGGCATTTTATGGGCAAAAACGTCTTGAATATTCCA
130 TCATCATAAAAATTGAAAGGGATTATTCAAGGCATTTTATAGGCAAAAACGTCTTGAATATT-C-
* *
7197961 AAAAAAAAAAATGCTAGGATTATTGAAGGCGTTTTTGACAGAAAACGCCTTCAATAATCCCATTT
193 AAAAAAAAAAATGCTAAGATTATTGAAGGCATTTTTGACAGAAAACGCCTTCAATAATCCCATTT
* * * *
7198026 GAATGAATAATTTGTGGGTTATATAAGGCATTTTTGGC
258 GAATGAATAATTCGTAGGTTATAGAAGGCATTTTTGAC
** * * ** *
7198064 AAAAAATATATTGAATAATTCATGAATTATTTAAGGTGTTTTTAGCTAGAAACGCTTTCAATAAC
1 AAAAAATACCTTGAATAATCCATGAATTATTCAAGGCATTTTTAGCCAGAAACGCTTTCAATAAC
* * *
7198129 CCAATTTAATATTTTGGAAGGGATTATTCAAGGCATTTTTTGGCTAAAAATA-ACTTCAATAATC
66 CCAATTCAATATTTTGTAAGGGATTATTCAAGGCATTTTTTGGCTAAAAACACA-TTCAATAATC
* * * * * * *
7198193 CCATCATAAAAATTGAAAGGGAATATTCAAGGTATTTTCTAGGTAAAAATG-CATTGAATATT-T
130 TCATCATAAAAATTGAAAGGGATTATTCAAGGCATTTTATAGGCAAAAACGTC-TTGAATATTCA
7198256 AAAAAAAAAATGCTAAGATTATTGAAGGCATTTTTGACAGAAAACGCCTTCAATAATCCTC-TTT
194 AAAAAAAAAATGCTAAGATTATTGAAGGCATTTTTGACAGAAAACGCCTTCAATAATCC-CATTT
* *
7198320 GAATGAATAATTCGTAGGTTATAGAAGGTATTTTTGAT
258 GAATGAATAATTCGTAGGTTATAGAAGGCATTTTTGAC
* *
7198358 AAAAAATACCTTGAATAATCCATGAATTATTCAAGACATTTTTAGCCAGAAACGTTTTCAATAAC
1 AAAAAATACCTTGAATAATCCATGAATTATTCAAGGCATTTTTAGCCAGAAACGCTTTCAATAAC
* * *
7198423 CCCATTCAATATTTTGTAAGGGATTATTTAAGGCGTTTTCTT-GCTAAAAACACATTCAATAATC
66 CCAATTCAATATTTTGTAAGGGATTATTCAAGGCATTTT-TTGGCTAAAAACACATTCAATAATC
*
7198487 TCATCATAAAAA-TGAAAAGGATTATT
130 TCATCATAAAAATTGAAAGGGATTATT
7198513 GAAGACGTTT
Statistics
Matches: 392, Mismatches: 51, Indels: 16
0.85 0.11 0.03
Matches are distributed among these distances:
293 12 0.03
294 212 0.54
295 4 0.01
296 6 0.02
297 158 0.40
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (295 bp):
AAAAAATACCTTGAATAATCCATGAATTATTCAAGGCATTTTTAGCCAGAAACGCTTTCAATAAC
CCAATTCAATATTTTGTAAGGGATTATTCAAGGCATTTTTTGGCTAAAAACACATTCAATAATCT
CATCATAAAAATTGAAAGGGATTATTCAAGGCATTTTATAGGCAAAAACGTCTTGAATATTCAAA
AAAAAAAATGCTAAGATTATTGAAGGCATTTTTGACAGAAAACGCCTTCAATAATCCCATTTGAA
TGAATAATTCGTAGGTTATAGAAGGCATTTTTGAC
Found at i:7198648 original size:294 final size:292
Alignment explanation
Indices: 7197767--7198614 Score: 935
Period size: 294 Copynumber: 2.9 Consensus size: 292
7197757 TCCAAAAAAA
* *
7197767 AAAAAATACCTTGAATAATCCATGAATTATTCAAGGCTTTTTTAGCCAAAAACGCCTTT-AATAA
1 AAAAAATACCTTGAATAATCCATGAATTATTCAAGGCATTTTTAGCCAGAAACG-CTTTCAATAA
* * * *
7197831 CCCAATTCGATATTTTGTAAGAGATTATTCAATGTATTTTTTGGCTAAAAACACATTCAATAATC
65 CCCAATTCAATATTTTGTAAGGGATTATTCAAGGCATTTTTTGGCTAAAAACACATTCAATAATC
* * * * *
7197896 TCATTATAAAAATTG-AAAGAGATTATTCAAGGCATTTTATGGGCAAAAACGTCTTGAATATTCC
130 TCATCATAAAAATTGAAAAG-GATTATTCAAGGCATTTTATAGGC-AAAATGCCTTGAATAATCC
* *
7197960 AAAAAAAAAAAATGCT-AGGATTATTGAAGGCGTTTTTGACAGAAAACGCCTTCAATAATCCCAT
193 --AAAAAAAAAATGCTAAGGATTATTGAAGGCATTTTTGACAGAAAACGCCTTCAATAATCCTA-
* * *
7198024 TTGAATGAATAATTTGTGGGTTATATAAGGCATTTTTGGC
255 TTGAATGAATAATTAGT-GGTTAT-TAAGGTATTTTTGAC
** * * ** *
7198064 AAAAAATATATTGAATAATTCATGAATTATTTAAGGTGTTTTTAGCTAGAAACGCTTTCAATAAC
1 AAAAAATACCTTGAATAATCCATGAATTATTCAAGGCATTTTTAGCCAGAAACGCTTTCAATAAC
* * *
7198129 CCAATTTAATATTTTGGAAGGGATTATTCAAGGCATTTTTTGGCTAAAAATA-ACTTCAATAATC
66 CCAATTCAATATTTTGTAAGGGATTATTCAAGGCATTTTTTGGCTAAAAACACA-TTCAATAATC
* * * * * * * **
7198193 CCATCATAAAAATTGAAAGGGAATATTCAAGGTATTTTCTAGGTAAAAATGCATTGAAT-ATTTA
130 TCATCATAAAAATTGAAAAGGATTATTCAAGGCATTTTATAGG-CAAAATGCCTTGAATAATCCA
*
7198257 AAAAAAAAATGCTAA-GATTATTGAAGGCATTTTTGACAGAAAACGCCTTCAATAATCCTCTTTG
194 AAAAAAAAATGCTAAGGATTATTGAAGGCATTTTTGACAGAAAACGCCTTCAATAATCCT-ATTG
* * *
7198321 AATGAATAATTCGTAGGTTATAGAAGGTATTTTTGAT
258 AATGAATAATTAGT-GGTTAT-TAAGGTATTTTTGAC
* *
7198358 AAAAAATACCTTGAATAATCCATGAATTATTCAAGACATTTTTAGCCAGAAACGTTTTCAATAAC
1 AAAAAATACCTTGAATAATCCATGAATTATTCAAGGCATTTTTAGCCAGAAACGCTTTCAATAAC
* * *
7198423 CCCATTCAATATTTTGTAAGGGATTATTTAAGGCGTTTTCTT-GCTAAAAACACATTCAATAATC
66 CCAATTCAATATTTTGTAAGGGATTATTCAAGGCATTTT-TTGGCTAAAAACACATTCAATAATC
* * * * *
7198487 TCATCATAAAAA-TGAAAAGGATTATTGAAGACGTTTT-T-GGCCAAATGCCTTCAATAATCCAC
130 TCATCATAAAAATTGAAAAGGATTATTCAAGGCATTTTATAGGCAAAATGCCTTGAATAATCCA-
* * * * ** * *
7198549 TTATAAAAAATTCTAAAGGAATTATTAAAGATATTTTTTACCAG-AAACACCTTCAATAATCCTA
194 -AAAAAAAAATGCT-AAGG-ATTATTGAAGGCATTTTTGA-CAGAAAACGCCTTCAATAATCCTA
7198613 TT
255 TT
7198615 CAATTTTTTA
Statistics
Matches: 461, Mismatches: 75, Indels: 32
0.81 0.13 0.06
Matches are distributed among these distances:
290 11 0.02
291 5 0.01
292 1 0.00
293 29 0.06
294 212 0.46
295 7 0.02
296 40 0.09
297 153 0.33
298 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (292 bp):
AAAAAATACCTTGAATAATCCATGAATTATTCAAGGCATTTTTAGCCAGAAACGCTTTCAATAAC
CCAATTCAATATTTTGTAAGGGATTATTCAAGGCATTTTTTGGCTAAAAACACATTCAATAATCT
CATCATAAAAATTGAAAAGGATTATTCAAGGCATTTTATAGGCAAAATGCCTTGAATAATCCAAA
AAAAAAATGCTAAGGATTATTGAAGGCATTTTTGACAGAAAACGCCTTCAATAATCCTATTGAAT
GAATAATTAGTGGTTATTAAGGTATTTTTGAC
Found at i:7202891 original size:15 final size:15
Alignment explanation
Indices: 7202873--7202902 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7202863 CTCTTTATTT
7202873 ATGTTTGTTTTATCA
1 ATGTTTGTTTTATCA
7202888 ATGTTTGTTTTATCA
1 ATGTTTGTTTTATCA
7202903 GATTTGGTAC
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:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
ATGTTTGTTTTATCA
Found at i:7203269 original size:55 final size:55
Alignment explanation
Indices: 7203180--7203283 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 55
7203170 TAATAAAAAA
* * *
7203180 ATTAAAACATATAAGTTTATATTGATAATTTCTAACCGTTAGTATAGGTGTATCC
1 ATTAAAACATATAAGTTTATACTGATAATCTCTAACCGTCAGTATAGGTGTATCC
* * * *
7203235 ATTAAAGCATATAA-TTCTATACTGATAGTCTCTAATCGTCGGTATAGGT
1 ATTAAAACATATAAGTT-TATACTGATAATCTCTAACCGTCAGTATAGGT
7203284 AAGAAAATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 2 0.05
55 39 0.95
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.38
Consensus pattern (55 bp):
ATTAAAACATATAAGTTTATACTGATAATCTCTAACCGTCAGTATAGGTGTATCC
Found at i:7206313 original size:19 final size:18
Alignment explanation
Indices: 7206275--7206313 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
7206265 CAGAGAAAAA
*
7206275 TTTTGAAATATTACTTTT
1 TTTTGAAATATTAATTTT
7206293 TTTTGAAATATTTAATTTT
1 TTTTGAAATA-TTAATTTT
7206312 TT
1 TT
7206314 AATGTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTTGAAATATTAATTTT
Found at i:7206447 original size:2 final size:2
Alignment explanation
Indices: 7206435--7206470 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
7206425 CTGCATGGGT
*
7206435 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7206471 ATCTTCATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:7207044 original size:6 final size:6
Alignment explanation
Indices: 7207033--7207074 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
7207023 TAATTGTTTT
* * *
7207033 ATTTGA ATTTGA ATTTGA ATTTAA ATTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
7207075 TTAATTTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:7207048 original size:12 final size:12
Alignment explanation
Indices: 7207033--7207076 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
7207023 TAATTGTTTT
*
7207033 ATTTGAATTTGA
1 ATTTGAATTTAA
7207045 ATTTGAATTTAA
1 ATTTGAATTTAA
*
7207057 ATTTAAATTTAA
1 ATTTGAATTTAA
7207069 ATTT-AATT
1 ATTTGAATT
7207077 AATTTATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 4 0.13
12 26 0.87
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
ATTTGAATTTAA
Found at i:7209351 original size:16 final size:16
Alignment explanation
Indices: 7209330--7209360 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7209320 TTGTTTTATA
7209330 TATATTAATATATATG
1 TATATTAATATATATG
*
7209346 TATATTTATATATAT
1 TATATTAATATATAT
7209361 ATAATCTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTAATATATATG
Found at i:7209688 original size:18 final size:18
Alignment explanation
Indices: 7209641--7209688 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
7209631 AATTTTAAAC
*
7209641 TATTAAATTTTTTTGAAA
1 TATTTAATTTTTTTGAAA
*
7209659 TATTTAAATTTTTTT-TAA
1 TATTT-AATTTTTTTGAAA
*
7209677 TTTTTAATTTTT
1 TATTTAATTTTT
7209689 GAAAATGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 7 0.27
18 10 0.38
19 9 0.35
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTTAATTTTTTTGAAA
Found at i:7212817 original size:49 final size:49
Alignment explanation
Indices: 7212730--7212835 Score: 128
Period size: 49 Copynumber: 2.2 Consensus size: 49
7212720 TTATATGTTT
* * *
7212730 TAATTTTTCTGACCTATACCGATGGTTAATGCCTGTCAGTATAGACTTG
1 TAATTTTTTTGACCTATACCGACGCTTAATGCCTGTCAGTATAGACTTG
* *
7212779 TAATTTTTTTTACCTATACCGACGCTTAGCAT-CC-GTCAGTATAGATTTG
1 TAATTTTTTTGACCTATACCGACGCTTA--ATGCCTGTCAGTATAGACTTG
7212828 T-ATTTTTT
1 TAATTTTTT
7212836 AAGTTTCTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
48 7 0.14
49 39 0.78
50 2 0.04
51 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (49 bp):
TAATTTTTTTGACCTATACCGACGCTTAATGCCTGTCAGTATAGACTTG
Found at i:7213079 original size:24 final size:22
Alignment explanation
Indices: 7213050--7213103 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
7213040 TTTTTAAAGT
*
7213050 TATATTTTTAATTATTAATATTAA
1 TATATTTTTAATCA-TAATA-TAA
* *
7213074 TTTATTTATAATCATAATATAA
1 TATATTTTTAATCATAATATAA
7213096 TATATTTT
1 TATATTTT
7213104 CATATAAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 9 0.36
23 5 0.20
24 11 0.44
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TATATTTTTAATCATAATATAA
Found at i:7217889 original size:281 final size:281
Alignment explanation
Indices: 7217386--7217950 Score: 1121
Period size: 281 Copynumber: 2.0 Consensus size: 281
7217376 ATTCCCAAAT
7217386 AACCCTTTAAAATCTCAAGCCCTTACAACTGATCTTAACATACATCAAAATGTCGCATTTGGAGA
1 AACCCTTTAAAATCTCAAGCCCTTACAACTGATCTTAACATACATCAAAATGTCGCATTTGGAGA
7217451 CTAAGAAAAATATTGAATATGTTTGATTTTCAAGGAATTCATGCTTTTAGAAAAGCTTGTGTTTC
66 CTAAGAAAAATATTGAATATGTTTGATTTTCAAGGAATTCATGCTTTTAGAAAAGCTTGTGTTTC
7217516 ATTTGTGAGCTTGCATGCCTCTTTCATTCCCTTTAAGGATTGGAACCTTTTGAATCAACATCGCT
131 ATTTGTGAGCTTGCATGCCTCTTTCATTCCCTTTAAGGATTGGAACCTTTTGAATCAACATCGCT
7217581 ATCTATAGAACTATTACATCCATTTGGAAAGAAAATCCTCACCTTTTTCATTTTTGATAGGGATC
196 ATCTATAGAACTATTACATCCATTTGGAAAGAAAATCCTCACCTTTTTCATTTTTGATAGGGATC
*
7217646 GCCAAATACTAAAACAAAAAA
261 GCCAAATACTAAAAAAAAAAA
7217667 AACCCTTTAAAATCTCAAGCCCTTACAACTGATCTTAACATACATCAAAATGTCGCATTTGGAGA
1 AACCCTTTAAAATCTCAAGCCCTTACAACTGATCTTAACATACATCAAAATGTCGCATTTGGAGA
7217732 CTAAGAAAAATATTGAATATGTTTGATTTTCAAGGAATTCATGCTTTTAGAAAAGCTTGTGTTTC
66 CTAAGAAAAATATTGAATATGTTTGATTTTCAAGGAATTCATGCTTTTAGAAAAGCTTGTGTTTC
7217797 ATTTGTGAGCTTGCATGCCTCTTTCATTCCCTTTAAGGATTGGAACCTTTTGAATCAACATCGCT
131 ATTTGTGAGCTTGCATGCCTCTTTCATTCCCTTTAAGGATTGGAACCTTTTGAATCAACATCGCT
7217862 ATCTATAGAACTATTACATCCATTTGGAAAGAAAATCCTCACCTTTTTCATTTTTGATAGGGATC
196 ATCTATAGAACTATTACATCCATTTGGAAAGAAAATCCTCACCTTTTTCATTTTTGATAGGGATC
7217927 GCCAAATACTAAAAAAAAAAA
261 GCCAAATACTAAAAAAAAAAA
7217948 AAC
1 AAC
7217951 TTTAAGTCCA
Statistics
Matches: 283, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
281 283 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (281 bp):
AACCCTTTAAAATCTCAAGCCCTTACAACTGATCTTAACATACATCAAAATGTCGCATTTGGAGA
CTAAGAAAAATATTGAATATGTTTGATTTTCAAGGAATTCATGCTTTTAGAAAAGCTTGTGTTTC
ATTTGTGAGCTTGCATGCCTCTTTCATTCCCTTTAAGGATTGGAACCTTTTGAATCAACATCGCT
ATCTATAGAACTATTACATCCATTTGGAAAGAAAATCCTCACCTTTTTCATTTTTGATAGGGATC
GCCAAATACTAAAAAAAAAAA
Found at i:7217999 original size:33 final size:33
Alignment explanation
Indices: 7217962--7218366 Score: 292
Period size: 33 Copynumber: 12.3 Consensus size: 33
7217952 TTAAGTCCAA
*
7217962 TTTATCTGTCCATTAATGAAGCTTTAAGCCTAG
1 TTTATCTGGCCATTAATGAAGCTTTAAGCCTAG
7217995 TTTATCTGGCCATTAATGAAGCTTTAAGCCTAG
1 TTTATCTGGCCATTAATGAAGCTTTAAGCCTAG
* * *
7218028 TTTATCTGGCCATCAATGATGCTTTAAACCTAG
1 TTTATCTGGCCATTAATGAAGCTTTAAGCCTAG
* * * * *
7218061 TTTATCTGACTATTAATGAGGCTTTAAACCCAG
1 TTTATCTGGCCATTAATGAAGCTTTAAGCCTAG
* * *
7218094 TTTATCTAGCC-TCAAATGAAGTTTTAAG-CTCAG
1 TTTATCTGGCCAT-TAATGAAGCTTTAAGCCT-AG
* * *
7218127 TTTATCTAGCTATTAATGAAGCTTTAAG-CTCAA
1 TTTATCTGGCCATTAATGAAGCTTTAAGCCT-AG
* * * *
7218160 TTTATCTGGCCATCAATGAGGCTTTAAACCCAG
1 TTTATCTGGCCATTAATGAAGCTTTAAGCCTAG
* * * * *
7218193 TTTATCTTGCC-TCAAATGAGGCTTTAAGCCCAA
1 TTTATCTGGCCAT-TAATGAAGCTTTAAGCCTAG
* *
7218226 TTTATCTGGCC-TCAAATGAAGATTTAAGCCTCA-
1 TTTATCTGGCCAT-TAATGAAGCTTTAAGCCT-AG
* * *
7218259 TTTATCTAGCCATCAATGATA--TTTAAGCCCAG
1 TTTATCTGGCCATTAATGA-AGCTTTAAGCCTAG
* * * * * *
7218291 TTTGTCTGGCC-TCAAATGAGGTTTTAAGCCCAA
1 TTTATCTGGCCAT-TAATGAAGCTTTAAGCCTAG
* ** *
7218324 TTTAGCTGGCC-TTCAAT-AAAATTTAAGCCCAG
1 TTTATCTGGCCATT-AATGAAGCTTTAAGCCTAG
*
7218356 TTTATTTGGCC
1 TTTATCTGGCC
7218367 CCAAAAAAAG
Statistics
Matches: 306, Mismatches: 53, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
31 2 0.01
32 45 0.15
33 254 0.83
34 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (33 bp):
TTTATCTGGCCATTAATGAAGCTTTAAGCCTAG
Found at i:7218060 original size:66 final size:66
Alignment explanation
Indices: 7217950--7218371 Score: 351
Period size: 66 Copynumber: 6.4 Consensus size: 66
7217940 AAAAAAAAAA
* * * * *
7217950 CTTTAAGTCCAATTTATCTGTCCAT-TAATGAAGCTTTAAGCCTAGTTTATCTGGCCATTAATGA
1 CTTTAAGCCCAGTTTATCTGGCC-TCAAATGAAGCTTTAAACCTAGTTTATCTGGCCATTAATGA
7218014 AG
65 AG
* * * *
7218016 CTTTAAGCCTAGTTTATCTGGCCATC-AATGATGCTTTAAACCTAGTTTATCTGACTATTAATGA
1 CTTTAAGCCCAGTTTATCTGGCC-TCAAATGAAGCTTTAAACCTAGTTTATCTGGCCATTAATGA
*
7218080 GG
65 AG
* * * * * *
7218082 CTTTAAACCCAGTTTATCTAGCCTCAAATGAAG-TTTTAAGCTCAGTTTATCTAGCTATTAATGA
1 CTTTAAGCCCAGTTTATCTGGCCTCAAATGAAGCTTTAAACCT-AGTTTATCTGGCCATTAATGA
7218146 AG
65 AG
* * * * * *
7218148 CTTTAAGCTCAATTTATCTGGCCATC-AATGAGGCTTTAAACCCAGTTTATCTTGCC-TCAAATG
1 CTTTAAGCCCAGTTTATCTGGCC-TCAAATGAAGCTTTAAACCTAGTTTATCTGGCCAT-TAATG
*
7218211 AGG
64 AAG
* * * * *
7218214 CTTTAAGCCCAATTTATCTGGCCTCAAATGAAGATTTAAGCCTCA-TTTATCTAGCCATCAATGA
1 CTTTAAGCCCAGTTTATCTGGCCTCAAATGAAGCTTTAAACCT-AGTTTATCTGGCCATTAATGA
7218278 TA-
65 -AG
* * * * * * *
7218280 -TTTAAGCCCAGTTTGTCTGGCCTCAAATGAGGTTTTAAGCCCAATTTAGCTGGCC-TTCAAT-A
1 CTTTAAGCCCAGTTTATCTGGCCTCAAATGAAGCTTTAAACCTAGTTTATCTGGCCATT-AATGA
*
7218342 AA
65 AG
* * *
7218344 ATTTAAGCCCAGTTTATTTGGCCCCAAA
1 CTTTAAGCCCAGTTTATCTGGCCTCAAA
7218372 AAAAGTTTTA
Statistics
Matches: 293, Mismatches: 49, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
63 1 0.00
64 3 0.01
65 85 0.29
66 194 0.66
67 10 0.03
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (66 bp):
CTTTAAGCCCAGTTTATCTGGCCTCAAATGAAGCTTTAAACCTAGTTTATCTGGCCATTAATGAA
G
Found at i:7218121 original size:99 final size:99
Alignment explanation
Indices: 7217961--7218340 Score: 385
Period size: 99 Copynumber: 3.8 Consensus size: 99
7217951 TTTAAGTCCA
* * * * * *
7217961 ATTTATCTGTCCATTAATGAAGCTTTAAGCCTAGTTTATCTGGCCAT-TAATGAAGCTTTAAGCC
1 ATTTATCTGACCATCAATGAGGCTTTAAACCCAGTTTATCTGGCC-TCAAATGAAGCTTTAAGCC
* * *
7218025 TAGTTTATCTGGCCATCAATGATGCTTTAAACCT-
65 CAATTTATCTGGCCATCAATGAAGCTTTAAACCTC
* * * * *
7218059 AGTTTATCTGACTATTAATGAGGCTTTAAACCCAGTTTATCTAGCCTCAAATGAAGTTTTAAGCT
1 A-TTTATCTGACCATCAATGAGGCTTTAAACCCAGTTTATCTGGCCTCAAATGAAGCTTTAAGCC
* * * * *
7218124 CAGTTTATCTAGCTATTAATGAAGCTTT-AAGCTC
65 CAATTTATCTGGCCATCAATGAAGCTTTAAACCTC
* * *
7218158 AATTTATCTGGCCATCAATGAGGCTTTAAACCCAGTTTATCTTGCCTCAAATGAGGCTTTAAGCC
1 -ATTTATCTGACCATCAATGAGGCTTTAAACCCAGTTTATCTGGCCTCAAATGAAGCTTTAAGCC
* *
7218223 CAATTTATCTGGCC-TCAAATGAAGATTTAAGCCTC
65 CAATTTATCTGGCCATC-AATGAAGCTTTAAACCTC
** * * * *
7218258 ATTTATCT-AGCCATCAATGA-TATTTAAGCCCAGTTTGTCTGGCCTCAAATGAGGTTTTAAGCC
1 ATTTATCTGA-CCATCAATGAGGCTTTAAACCCAGTTTATCTGGCCTCAAATGAAGCTTTAAGCC
* *
7218321 CAATTTAGCTGGCCTTCAAT
65 CAATTTATCTGGCCATCAAT
7218341 AAAATTTAAG
Statistics
Matches: 237, Mismatches: 37, Indels: 16
0.82 0.13 0.06
Matches are distributed among these distances:
98 60 0.25
99 172 0.73
100 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (99 bp):
ATTTATCTGACCATCAATGAGGCTTTAAACCCAGTTTATCTGGCCTCAAATGAAGCTTTAAGCCC
AATTTATCTGGCCATCAATGAAGCTTTAAACCTC
Found at i:7219214 original size:23 final size:23
Alignment explanation
Indices: 7219169--7219214 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
7219159 TATCCTAATC
*
7219169 GATTCTGTAAGACCTCTGGGCAT
1 GATTCTGTAAGACCTCCGGGCAT
*
7219192 GATTCTGTAAGACCTCCGTGCAT
1 GATTCTGTAAGACCTCCGGGCAT
7219215 AAATTCGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (23 bp):
GATTCTGTAAGACCTCCGGGCAT
Found at i:7219415 original size:23 final size:23
Alignment explanation
Indices: 7219389--7219440 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
7219379 TATCTCAGTC
* *
7219389 GATTTTGTAAGACCTTCGGGCAT
1 GATTTTGTAAGACCTCCAGGCAT
*
7219412 GA-TTTCTAAGACCTCCAGGCAT
1 GATTTTGTAAGACCTCCAGGCAT
*
7219434 AATTTTG
1 GATTTTG
7219441 ATTCGCGATG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (23 bp):
GATTTTGTAAGACCTCCAGGCAT
Found at i:7219647 original size:22 final size:23
Alignment explanation
Indices: 7219601--7219649 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
7219591 ACGGTATTAT
*
7219601 CCTCCGGGCATGATTCTGTAAGA
1 CCTCCGGGCATGATTCTCTAAGA
7219624 CCTCCGGGCATGATT-TCTAAGA
1 CCTCCGGGCATGATTCTCTAAGA
7219646 CCTC
1 CCTC
7219650 TGAGCATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (23 bp):
CCTCCGGGCATGATTCTCTAAGA
Found at i:7219656 original size:22 final size:23
Alignment explanation
Indices: 7219601--7219656 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
7219591 ACGGTATTAT
* *
7219601 CCTCCGGGCATGATTCTGTAAGA
1 CCTCCGAGCATGATTCTCTAAGA
*
7219624 CCTCCGGGCATGATT-TCTAAGA
1 CCTCCGAGCATGATTCTCTAAGA
*
7219646 CCTCTGAGCAT
1 CCTCCGAGCAT
7219657 AAATTCGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (23 bp):
CCTCCGAGCATGATTCTCTAAGA
Found at i:7219754 original size:22 final size:22
Alignment explanation
Indices: 7219728--7219771 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7219718 GTCAATTCTG
*
7219728 TAAGACCTCCAGGCATGATTTC
1 TAAGACCTCCAGGCATAATTTC
*
7219750 TAAGACCTCCGGGCATAATTTC
1 TAAGACCTCCAGGCATAATTTC
7219772 GATTCGCGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (22 bp):
TAAGACCTCCAGGCATAATTTC
Found at i:7219766 original size:109 final size:109
Alignment explanation
Indices: 7219064--7219979 Score: 996
Period size: 110 Copynumber: 8.3 Consensus size: 109
7219054 TTTTGAGATT
** * ** * * * *
7219064 TGTAAGACCTCCGAACATGATTTCTAAAACCTCCAAGCATAAATTCAATTCGCGATGCTATCCTG
1 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCCCG
* * * * *
7219129 ATAGATTCTTTATCTTTTGACTTGTGATGTTATCCTAATCGATTC
66 ATCGATTCTTTATCTTTTGACTTGCGGTGTTATCC-AGTCAATTC
* * * *
7219174 TGTAAGACCTCTGGGCATGATTCTGTAAGACCTCCGTGCATAAATTCGATTCACGGTGTTATCCC
1 TGTAAGACCTCCGGGCATGATT-TCTAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCCC
* * * * *
7219239 AATCAATTCTTTATCTTTT-AATTGTGGTGTTATCACAGTCGATTC
65 GATCGATTCTTTATCTTTTGACTTGCGGTGTTATC-CAGTCAATTC
* * ** * * * *
7219284 TATAAGACCTCCGGGCATGATTTCTAAAACCTTTGGGCATAAATTTGATTTATGGTGTTATCCCG
1 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCCCG
* * * * *
7219349 ATCGATTTTTTATCTTTCGACTTGTGGTGTTATCTCAGTCGATTT
66 ATCGATTCTTTATCTTTTGACTTGCGGTGTTATC-CAGTCAATTC
* * * * *
7219394 TGTAAGACCTTCGGGCATGATTTCTAAGACCTCCAGGCATAATTTTGATTCGCGATGTTATCCCG
1 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCCCG
* * *
7219459 ATCAATTCTTTATCTTTTGACTTACGGTGTTATCCTAGTTAATTC
66 ATCGATTCTTTATCTTTTGACTTGCGGTGTTATCC-AGTCAATTC
* * * *
7219504 TGTAAGACCTCCGGGTATGATTTTTAAGACCTCCGGGCATAACTTCGATTCACGATGTTATCTCG
1 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCCCG
* * * * *
7219569 ATCGATTCTTTAT-TTTTTACTTACGGTATTATCCTCCGGGCATGATTC
66 ATCGATTCTTTATCTTTTGACTTGCGGTGTTA---TCCAGTCA--ATTC
* *
7219617 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCTGAGCATAAATTCGATTCACGATGTTATCCCG
1 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCCCG
*
7219682 ATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCAGTCAATTC
66 ATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCAGTCAATTC
* * * * *
7219726 TGTAAGACCTCCAGGCATGATTTCTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCTCG
1 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCCCG
*
7219791 ATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTTAATTC
66 ATCGATTCTTTATCTTTTGACTTGCGGTGTTAT-CCAGTCAATTC
* * ** * * *
7219836 TGTAAGACCTCCGAGCATGATTT-TGAAG-CGCTCCGGGCATAATTTTTATTCGCGGTGTTATCA
1 TGTAAGACCTCCGGGCATGATTTCT-AAGAC-CTCCGGGCATAAATTCGATTCACGATGTTATCC
* * *
7219899 CGATCGATTCTTTAT-TTTTGACTTGCGGTGTTATCCCAATTAATTT
64 CGATCGATTCTTTATCTTTTGACTTGCGGTGTTAT-CCAGTCAATTC
* *
7219945 TGTAAGACCTCTGGGCATGATTCTGTAAGACCTCC
1 TGTAAGACCTCCGGGCATGATT-TCTAAGACCTCC
7219980 AGGGATGATT
Statistics
Matches: 692, Mismatches: 98, Indels: 32
0.84 0.12 0.04
Matches are distributed among these distances:
109 211 0.30
110 328 0.47
111 60 0.09
112 3 0.00
113 76 0.11
114 14 0.02
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (109 bp):
TGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCCCG
ATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCAGTCAATTC
Found at i:7219975 original size:23 final size:22
Alignment explanation
Indices: 7219943--7220007 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
7219933 CCCAATTAAT
7219943 TTTGTAAGACCTCTGGGCATGA
1 TTTGTAAGACCTCTGGGCATGA
*
7219965 TTCTGTAAGACCTCCAGGG-ATGA
1 TT-TGTAAGACCT-CTGGGCATGA
*
7219988 TTTCTAAGACCT-TCGGGCAT
1 TTTGTAAGACCTCT-GGGCAT
7220008 AAATTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.08
22 13 0.36
23 16 0.44
24 4 0.11
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (22 bp):
TTTGTAAGACCTCTGGGCATGA
Found at i:7220102 original size:23 final size:23
Alignment explanation
Indices: 7220072--7220140 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
7220062 TATCCAGTTG
*
7220072 ATTCTGTAAGACCTCCGGACATA
1 ATTCTGTAAGACCTCCGGGCATA
*
7220095 ATTCTGTAAGACCTCCGGGCATG
1 ATTCTGTAAGACCTCCGGGCATA
*
7220118 ATT-TCTAAGACCTCCGGGCATA
1 ATTCTGTAAGACCTCCGGGCATA
7220140 A
1 A
7220141 ATTCGATTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 18 0.43
23 24 0.57
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (23 bp):
ATTCTGTAAGACCTCCGGGCATA
Found at i:7220122 original size:131 final size:130
Alignment explanation
Indices: 7219830--7220228 Score: 545
Period size: 132 Copynumber: 3.0 Consensus size: 130
7219820 TTATCCCAGT
* * *
7219830 TAATTCTGTAAGACCTCCGAGCATGATTT-TGAAG-CGCTCCGGGCATAATTTTTATTCGCGGTG
1 TAATTCTGTAAGACCTCCGGGCATGATTTCT-AAGAC-CTCCGGGCATAAATTTGATTCGC-GTG
* * * *
7219893 TTATCACGATCGATTCTTTAT-TTTTGACTTGCGGTGTTATCCCAATTAATTTTGTAAGACCTCT
63 TTATC-CGATCGATTCTTTATCTTTTGACTTGTGGTGTTAT-CCAGTTGATTCTGTAAGACCTCT
7219957 GGGCA
126 GGGCA
* *
7219962 TGATTCTGTAAGACCTCCAGGG-ATGATTTCTAAGACCTTCGGGCATAAATTTGATTCGCAGTGT
1 TAATTCTGTAAGACCTCC-GGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCGC-GTGT
* *
7220026 TATCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCAGTTGATTCTGTAAGACCTCCGGA
64 TATCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCAGTTGATTCTGTAAGACCTCTGGG
7220091 CA
129 CA
*
7220093 TAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCGCGATGTT
1 TAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCGCG-TGTT
** *
7220158 ATCCCGATCGATTCTTTATCTTTCAACTTGTGGTGTTATCTCAGTCGATTCTGTAAGACCTCTGG
65 AT-CCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATC-CAGTTGATTCTGTAAGACCTCTGG
7220223 GCA
128 GCA
7220226 TAA
1 TAA
7220229 ATTCGATTCG
Statistics
Matches: 239, Mismatches: 20, Indels: 15
0.87 0.07 0.05
Matches are distributed among these distances:
130 4 0.02
131 96 0.40
132 108 0.45
133 31 0.13
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (130 bp):
TAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCGCGTGTTA
TCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCAGTTGATTCTGTAAGACCTCTGGGCA
Found at i:7220274 original size:88 final size:88
Alignment explanation
Indices: 7220123--7220379 Score: 325
Period size: 88 Copynumber: 2.9 Consensus size: 88
7220113 GCATGATTTC
* *
7220123 TAAGACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTCAACTTG
1 TAAGACCTCTGGGCATAAATTCGATTCGCAATGTTATCCCGATCGATTCTTTATCTTTCAACTTG
* * *
7220188 TGGTGTTATCTCAGTCGATTCTG
66 TGGTGTTATCCCAATCAATTCTG
* * *
7220211 TAAGACCTCTGGGCATAAATTCGATTCGCAATGTTATCCCGATCGATTTTTTATTTTTTAACTTG
1 TAAGACCTCTGGGCATAAATTCGATTCGCAATGTTATCCCGATCGATTCTTTATCTTTCAACTTG
*
7220276 TGGTGTTATCCCAATTAATTCTG
66 TGGTGTTATCCCAATCAATTCTG
* * * * * * * * * *
7220299 TAAGACCTCTGGACATAAATTCGGTTCTCGATATTAGCTCGATCGATTCATTATTTTTCGACTTG
1 TAAGACCTCTGGGCATAAATTCGATTCGCAATGTTATCCCGATCGATTCTTTATCTTTCAACTTG
* *
7220364 CGGTGTCATCCCAATC
66 TGGTGTTATCCCAATC
7220380 GTTTTGTGTT
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 146 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (88 bp):
TAAGACCTCTGGGCATAAATTCGATTCGCAATGTTATCCCGATCGATTCTTTATCTTTCAACTTG
TGGTGTTATCCCAATCAATTCTG
Found at i:7220611 original size:10 final size:10
Alignment explanation
Indices: 7220598--7220631 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
7220588 AATTATTATT
7220598 AAAAAAAGAA
1 AAAAAAAGAA
7220608 AAAAAAAGGAA
1 AAAAAAA-GAA
*
7220619 AAAAAAATAA
1 AAAAAAAGAA
7220629 AAA
1 AAA
7220632 GTAGGGTGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:7222050 original size:16 final size:16
Alignment explanation
Indices: 7222031--7222220 Score: 81
Period size: 16 Copynumber: 12.2 Consensus size: 16
7222021 CTAGGTTTCT
7222031 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
7222047 AAAATCTCCTAAAATCC
1 AAAA-CCCCTAAAATCC
* * *
7222064 AAAA-TCTTAAAATCT
1 AAAACCCCTAAAATCC
* *
7222079 GAAACCCCTAAAAATCT
1 AAAACCCCT-AAAATCC
* *
7222096 AAAA-TCCTAAAATCT
1 AAAACCCCTAAAATCC
* *
7222111 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
* *
7222127 -AAACCGCTTAAAGTCC
1 AAAACC-CCTAAAATCC
* * *
7222143 GAAACCTCTAAAATTC
1 AAAACCCCTAAAATCC
* * *
7222159 GAAATCCC--AAATCT
1 AAAACCCCTAAAATCC
* * *
7222173 TAAA-CTCTTAAAT-C
1 AAAACCCCTAAAATCC
*
7222187 AAAACCCC-AAAATTC
1 AAAACCCCTAAAATCC
* *
7222202 AAAATCCTTAAAATCC
1 AAAACCCCTAAAATCC
7222218 AAA
1 AAA
7222221 TCCTTAAATT
Statistics
Matches: 131, Mismatches: 32, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
13 2 0.02
14 14 0.11
15 40 0.31
16 45 0.34
17 30 0.23
ACGTcount: A:0.48, C:0.27, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:7222057 original size:17 final size:17
Alignment explanation
Indices: 7222037--7222129 Score: 81
Period size: 17 Copynumber: 5.8 Consensus size: 17
7222027 TTCTAAAACC
7222037 CCTAAAATCCAAAATCT
1 CCTAAAATCCAAAATCT
7222054 CCTAAAATCCAAAATCT
1 CCTAAAATCCAAAATCT
** *
7222071 --TAAAATCTGAAA-CC
1 CCTAAAATCCAAAATCT
*
7222085 CCTAAAAATCTAAAA--T
1 CCT-AAAATCCAAAATCT
*
7222101 CCTAAAATCTAAAATC-
1 CCTAAAATCCAAAATCT
*
7222117 CCTTAAATCCAAA
1 CCTAAAATCCAAA
7222130 CCGCTTAAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
14 1 0.02
15 21 0.33
16 15 0.23
17 27 0.42
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (17 bp):
CCTAAAATCCAAAATCT
Found at i:7222075 original size:32 final size:31
Alignment explanation
Indices: 7222037--7222129 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 31
7222027 TTCTAAAACC
*
7222037 CCTAAAATCCAAAATCTCCTAAAATCCAAAAT
1 CCTAAAATCTAAAATC-CCTAAAATCCAAAAT
* * * *
7222069 CTTAAAATCTGAAACCCCTAAAAATCTAAAAT
1 CCTAAAATCTAAAATCCCT-AAAATCCAAAAT
*
7222101 CCTAAAATCTAAAATCCCTTAAATCCAAA
1 CCTAAAATCTAAAATCCCTAAAATCCAAA
7222130 CCGCTTAAAG
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
31 11 0.22
32 39 0.78
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (31 bp):
CCTAAAATCTAAAATCCCTAAAATCCAAAAT
Found at i:7222101 original size:7 final size:7
Alignment explanation
Indices: 7222055--7222116 Score: 52
Period size: 7 Copynumber: 8.1 Consensus size: 7
7222045 CCAAAATCTC
7222055 CTAAAAT
1 CTAAAAT
*
7222062 CCAAAAT
1 CTAAAAT
7222069 CTTAAAAT
1 C-TAAAAT
**
7222077 CTGAAACCC
1 CT-AAA-AT
7222086 CTAAAAAT
1 CT-AAAAT
7222094 CTAAAAT
1 CTAAAAT
7222101 CCTAAAAT
1 -CTAAAAT
7222109 CTAAAAT
1 CTAAAAT
7222116 C
1 C
7222117 CCTTAAATCC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
7 21 0.48
8 18 0.41
9 5 0.11
ACGTcount: A:0.52, C:0.23, G:0.02, T:0.24
Consensus pattern (7 bp):
CTAAAAT
Found at i:7222137 original size:64 final size:65
Alignment explanation
Indices: 7222028--7222155 Score: 161
Period size: 64 Copynumber: 2.0 Consensus size: 65
7222018 ATCCTAGGTT
* *
7222028 TCTAAAACCCCTAAAATCCAAAATCTCCTAAAATCCAAAATCTTAAAATCTGAAACCCCTAAAAA
1 TCTAAAACCCCTAAAATCCAAAATCTCCTAAAATCCAAAAGCTTAAAATCCGAAACCCCTAAAAA
* * * * * *
7222093 TCTAAAA-TCCTAAAATCTAAAATC-CCTTAAATCCAAACCGCTTAAAGTCCGAAACCTCTAAAA
1 TCTAAAACCCCTAAAATCCAAAATCTCCTAAAATCCAAA-AGCTTAAAATCCGAAACCCCTAAAA
7222156 TTCGAAATCC
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 12 0.22
64 35 0.65
65 7 0.13
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (65 bp):
TCTAAAACCCCTAAAATCCAAAATCTCCTAAAATCCAAAAGCTTAAAATCCGAAACCCCTAAAAA
Found at i:7222272 original size:16 final size:16
Alignment explanation
Indices: 7222251--7222281 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7222241 ACCTCAAAAC
7222251 CCAAACCCTAAAATCT
1 CCAAACCCTAAAATCT
*
7222267 CCAAACTCTAAAATC
1 CCAAACCCTAAAATC
7222282 AAAACCTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.19
Consensus pattern (16 bp):
CCAAACCCTAAAATCT
Found at i:7226753 original size:15 final size:15
Alignment explanation
Indices: 7226733--7226761 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7226723 TACCAAGTCT
7226733 GATAAAACAAATATC
1 GATAAAACAAATATC
7226748 GATAAAACAAATAT
1 GATAAAACAAATAT
7226762 AGATTAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (15 bp):
GATAAAACAAATATC
Found at i:7238493 original size:63 final size:62
Alignment explanation
Indices: 7238420--7238685 Score: 234
Period size: 64 Copynumber: 4.2 Consensus size: 62
7238410 ATCCCCTTAA
* * * *
7238420 CAAAATTTTTTGTATGGATTATTGAAGGCATTTATGGACAAAAATGTCTTCAATAATCAACTC
1 CAAAATTTTTTGTATGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTCAATAATC-ACTT
* * * * * * *
7238483 CAAAATTTTTTATATAGATTATTAAAGGCGTTTTTGGTCGAAAATGCCTTTAATAATCCCTTT
1 CAAAATTTTTTGTATGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTCAATAATCAC-TT
* * * *
7238546 AATAAATTTTTATG-AAGGATTATTGAAGG-AGTTTTTGGTCAAACATGCCTTCAATAATCTTTC
1 CA-AAATTTTT-TGTATGGATTATTGAAGGCA-TTTTTGGTCAAAAATGCCTTCAATAATC--AC
7238609 TT
61 TT
* * * ** * *
7238611 TAAAATTTTTTGAATGGATTATTGAAGGCATTTGTGGTCAAAAACACATTTAATAATCACATT
1 CAAAATTTTTTGTATGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTCAATAATCAC-TT
7238674 C--AATTTTTTGTA
1 CAAAATTTTTTGTA
7238686 ATCTAATAGA
Statistics
Matches: 162, Mismatches: 32, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
61 10 0.06
62 2 0.01
63 55 0.34
64 89 0.55
65 5 0.03
66 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (62 bp):
CAAAATTTTTTGTATGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTCAATAATCACTT
Found at i:7238668 original size:64 final size:62
Alignment explanation
Indices: 7238421--7238654 Score: 240
Period size: 64 Copynumber: 3.7 Consensus size: 62
7238411 TCCCCTTAAC
* * * * **
7238421 AAAATTTTTTGTATGGATTATTGAAGGCATTTATGGACAAAAATGTCTTCAATAATCAACTCC
1 AAAATTTTTTGAATGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTCAATAATC-ACTTT
* * * * * *
7238484 AAAATTTTTT-ATATAGATTATTAAAGGCGTTTTTGGTCGAAAATGCCTTTAATAATCCCTTT
1 AAAATTTTTTGA-ATGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTCAATAATCACTTT
* *
7238546 AATAAATTTTTATGAA-GGATTATTGAAGG-AGTTTTTGGTCAAACATGCCTTCAATAATCTTTC
1 -A-AAATTTTT-TGAATGGATTATTGAAGGCA-TTTTTGGTCAAAAATGCCTTCAATAATC--AC
7238609 TTT
60 TTT
*
7238612 AAAATTTTTTGAATGGATTATTGAAGGCATTTGTGGTCAAAAA
1 AAAATTTTTTGAATGGATTATTGAAGGCATTTTTGGTCAAAAA
7238655 CACATTTAAT
Statistics
Matches: 140, Mismatches: 21, Indels: 19
0.78 0.12 0.11
Matches are distributed among these distances:
62 2 0.01
63 52 0.37
64 77 0.55
65 4 0.03
66 5 0.04
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.40
Consensus pattern (62 bp):
AAAATTTTTTGAATGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTCAATAATCACTTT
Found at i:7239258 original size:110 final size:110
Alignment explanation
Indices: 7239065--7239284 Score: 309
Period size: 110 Copynumber: 2.0 Consensus size: 110
7239055 ATAACTTACG
* *
7239065 GAGATATACCTACAGTTCAAGACCGTCAGTAAATGTATATTTGTTGGTGTAGCATCTGTTATGTA
1 GAGATATACCTACAGTTCAAGACCGTCAGTAAATGTATATCTGTTGGTATAGCATCTGTTATGTA
*
7239130 TTCCACTATTATACCTTTTACTAACGGTTAACA-CTCGTCAATATA
66 TTCCACTATTATACCTTTTACCAACGGTTAACACCT-GTCAATATA
* * * *
7239175 GAGATATACCTACAGTTCAAGATCGTCATTAAATGTATATCTGTTGGTATAGCATCTGTTGTGTG
1 GAGATATACCTACAGTTCAAGACCGTCAGTAAATGTATATCTGTTGGTATAGCATCTGTTATGTA
* * * *
7239240 TTCCA-TCGTTATAGCTTTTACCGATGGTTAACACCTGTCAATATA
66 TTCCACT-ATTATACCTTTTACCAACGGTTAACACCTGTCAATATA
7239285 AACTTATATG
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
109 1 0.01
110 94 0.97
111 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.37
Consensus pattern (110 bp):
GAGATATACCTACAGTTCAAGACCGTCAGTAAATGTATATCTGTTGGTATAGCATCTGTTATGTA
TTCCACTATTATACCTTTTACCAACGGTTAACACCTGTCAATATA
Found at i:7239563 original size:159 final size:159
Alignment explanation
Indices: 7239258--7239584 Score: 370
Period size: 159 Copynumber: 2.1 Consensus size: 159
7239248 TTATAGCTTT
* * * *
7239258 TACCGATGGTTAACACCTGTCAATATAAACTTATATGTTTTAATTTTTCTTGCCTATACTGACGG
1 TACCGATGGCTAACACCTGTCAATATAAACTTATATGTTGTAATTTTTCTTACCTATACTAACGG
** * * * *
7239323 TTAATGGTTGCCAGTATAGATGTGTAATTTTTTTATCTATACTGACGCTTAAAACCAATCAGTAT
66 TTAATGCCTACCAGTATAGATGTGAAATTTTCTTACCTATACTGACGCTTAAAACCAATCAGTAT
* *
7239388 AGATTTGAATATTTTAATTTTCTTGCATA
131 AGACTTGAATATTTTAATTTTCTTACATA
* * * * *
7239417 TACCGATGGCTAGCGCC-GTCAGTATAGACTTATATGTTGTAATTTTTCTTACTTATACTAACGG
1 TACCGATGGCTAACACCTGTCAATATAAACTTATATGTTGTAATTTTTCTTACCTATACTAACGG
** ** * **
7239481 TTAATGCCTATTAGTATAGACT-TGAAAATTTTCTTACCTATACTGACGCTTAGCATCTGTCAGT
66 TTAATGCCTACCAGTATAGA-TGTG-AAATTTTCTTACCTATACTGACGCTTAAAACCAATCAGT
* * *
7239545 ATAGACTTGTATTTTTTAATTTTCTTACTTA
129 ATAGACTTGAATATTTTAATTTTCTTACATA
*
7239576 TATCGATGG
1 TACCGATGG
7239585 TTAAAGACTG
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
158 58 0.42
159 80 0.58
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.42
Consensus pattern (159 bp):
TACCGATGGCTAACACCTGTCAATATAAACTTATATGTTGTAATTTTTCTTACCTATACTAACGG
TTAATGCCTACCAGTATAGATGTGAAATTTTCTTACCTATACTGACGCTTAAAACCAATCAGTAT
AGACTTGAATATTTTAATTTTCTTACATA
Found at i:7239597 original size:55 final size:55
Alignment explanation
Indices: 7239537--7239686 Score: 144
Period size: 55 Copynumber: 2.8 Consensus size: 55
7239527 CGCTTAGCAT
* **
7239537 CTGTCAGTATAGACTTGTATTTTTTAATTTTCTTACTTATATCGATGGTTAAAGA
1 CTGTCAGTATAGACTTGTATATTTTAATTTTCTTACTTATATCGACAGTTAAAGA
* * * * *
7239592 CTGTCAGTATAGAATTGTATACTTTAA-TTTCTTTACCTATACCGACAGTTAGAGA
1 CTGTCAGTATAGACTTGTATATTTTAATTTTC-TTACTTATATCGACAGTTAAAGA
* * ** * *
7239647 TTATTGGTATAGACTTATATGTTTTAATTTT-TTA-TTATAT
1 CTGTCAGTATAGACTTGTATATTTTAATTTTCTTACTTATAT
7239687 TTTATTGATA
Statistics
Matches: 75, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
53 4 0.05
54 7 0.09
55 61 0.81
56 3 0.04
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (55 bp):
CTGTCAGTATAGACTTGTATATTTTAATTTTCTTACTTATATCGACAGTTAAAGA
Found at i:7240303 original size:60 final size:60
Alignment explanation
Indices: 7240234--7240348 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 60
7240224 TTTTTTCCCA
*
7240234 AAAATGCCTTCAATAATT-GAAAAAAAATGGGAGGGGACTATTGAAAGCATTTTTTAGAAC
1 AAAACGCCTTCAATAATTAGAAAAAAAAT-GGAGGGGACTATTGAAAGCATTTTTTAGAAC
* *
7240294 AAAACGCCTTCAATAATTATAAAAAAAATGGAGGGGACTATTGAAGGCATTTTTT
1 AAAACGCCTTCAATAATTAGAAAAAAAATGGAGGGGACTATTGAAAGCATTTTTT
7240349 GCCAAAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
60 42 0.82
61 9 0.18
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (60 bp):
AAAACGCCTTCAATAATTAGAAAAAAAATGGAGGGGACTATTGAAAGCATTTTTTAGAAC
Found at i:7240771 original size:62 final size:61
Alignment explanation
Indices: 7240705--7240856 Score: 153
Period size: 62 Copynumber: 2.5 Consensus size: 61
7240695 AAATTAAAGG
* * * * * *
7240705 GGATTGGTCAAGGTATTTTTTGCCAGAAATGCCTTGAATAATCCCATTCAATTTTTTGTAAT
1 GGATTAGTCAAGGCATTTTTAGCCAAAAACGCCTTCAATAA-CCCATTCAATTTTTTGTAAT
* * * *
7240767 GGATTATTCAAGGCATTTTTAGCCAAAAACGTCTTCAATAACCCATTCAA-TTTTTGCAAG
1 GGATTAGTCAAGGCATTTTTAGCCAAAAACGCCTTCAATAACCCATTCAATTTTTTGTAAT
* * * *
7240827 GGATTATTCAAGACGTTTTATAGGCAAAAA
1 GGATTAGTCAAGGCATTTT-TAGCCAAAAA
7240857 TGATATTTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
60 25 0.33
61 18 0.24
62 33 0.43
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (61 bp):
GGATTAGTCAAGGCATTTTTAGCCAAAAACGCCTTCAATAACCCATTCAATTTTTTGTAAT
Found at i:7240855 original size:61 final size:62
Alignment explanation
Indices: 7240741--7240856 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 62
7240731 AAATGCCTTG
* * *
7240741 AATAATCCCATTCAATTTTTTGTAATGGATTATTCAAGGCATTTTTAGCCAAAAACGTCTTC
1 AATAATCCCATTCAATTTTTTGCAAGGGATTATTCAAGACATTTTTAGCCAAAAACGTCTTC
* *
7240803 AATAA-CCCATTCAA-TTTTTGCAAGGGATTATTCAAGACGTTTTATAGGCAAAAA
1 AATAATCCCATTCAATTTTTTGCAAGGGATTATTCAAGACATTTT-TAGCCAAAAA
7240857 TGATATTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 25 0.52
61 18 0.38
62 5 0.10
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (62 bp):
AATAATCCCATTCAATTTTTTGCAAGGGATTATTCAAGACATTTTTAGCCAAAAACGTCTTC
Found at i:7241777 original size:15 final size:15
Alignment explanation
Indices: 7241757--7241793 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7241747 GTACCAAGTC
7241757 TGATAAAACAAACAT
1 TGATAAAACAAACAT
*
7241772 TGATAAAACAAATAT
1 TGATAAAACAAACAT
*
7241787 AGATAAA
1 TGATAAA
7241794 GAGTTACACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (15 bp):
TGATAAAACAAACAT
Found at i:7251738 original size:24 final size:23
Alignment explanation
Indices: 7251709--7251758 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 23
7251699 ATTATATCAC
7251709 GTATGATTGACTTTGTGCTTATAT
1 GTATGA-TGACTTTGTGCTTATAT
7251733 G--T-ATGACTTTGTGCTTATAT
1 GTATGATGACTTTGTGCTTATAT
7251753 GTATGA
1 GTATGA
7251759 CTTCATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
20 18 0.78
21 1 0.04
22 2 0.09
23 1 0.04
24 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.22, T:0.48
Consensus pattern (23 bp):
GTATGATGACTTTGTGCTTATAT
Found at i:7251739 original size:20 final size:20
Alignment explanation
Indices: 7251716--7251761 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
7251706 CACGTATGAT
7251716 TGACTTTGTGCTTATATGTA
1 TGACTTTGTGCTTATATGTA
7251736 TGACTTTGTGCTTATATGTA
1 TGACTTTGTGCTTATATGTA
7251756 TGACTT
1 TGACTT
7251762 CATATTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.50
Consensus pattern (20 bp):
TGACTTTGTGCTTATATGTA
Found at i:7254363 original size:63 final size:62
Alignment explanation
Indices: 7254205--7254366 Score: 159
Period size: 63 Copynumber: 2.6 Consensus size: 62
7254195 AAACACTTTT
* * * *
7254205 AATAATCCCTTAGAAAAAATTGAATAGGGTTAGTT-AAGGCATTTATGGCCAAAAACGCCTTG
1 AATAATCCTTTACAAAATATTGAATGGGGTTA-TTGAAGGCATTTATGGCCAAAAACGCCTTG
* * * * * * * *
7254267 AATAATCCTCTT-CAATAT-TTAAAAGGGGATTATTGAAGGTATTTTTTTGTCAAAAATGCCTTG
1 AATAATCCT-TTACAAAATATTGAATGGGG-TTATTGAAGGCA-TTTATGGCCAAAAACGCCTTG
7254330 AATAATCCTTTACAAAATATTGAATGGGGTTATTGAA
1 AATAATCCTTTACAAAATATTGAATGGGGTTATTGAA
7254367 AATGTTTCTG
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
61 9 0.11
62 21 0.27
63 41 0.52
64 8 0.10
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (62 bp):
AATAATCCTTTACAAAATATTGAATGGGGTTATTGAAGGCATTTATGGCCAAAAACGCCTTG
Found at i:7257403 original size:27 final size:27
Alignment explanation
Indices: 7257341--7257408 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
7257331 TATTGTATGG
*
7257341 TAAGAATAT-AATTTTAAATTTTAAAT
1 TAAGAATATGAATTTAAAATTTTAAAT
* *
7257367 TAA-AATTATGCATTTAAAATTTTATAT
1 TAAGAA-TATGAATTTAAAATTTTAAAT
7257394 TAAGAATATGAATTT
1 TAAGAATATGAATTT
7257409 TTATTATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.06
26 6 0.17
27 25 0.71
28 2 0.06
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (27 bp):
TAAGAATATGAATTTAAAATTTTAAAT
Found at i:7261670 original size:25 final size:25
Alignment explanation
Indices: 7261642--7261690 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
7261632 TGACAAAGAC
* *
7261642 ATATCTATTTATAAAGAGTTTCTTA
1 ATATATATTTACAAAGAGTTTCTTA
7261667 ATATATATTTACAAAGAGTTTCTT
1 ATATATATTTACAAAGAGTTTCTT
7261691 TCTTACATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (25 bp):
ATATATATTTACAAAGAGTTTCTTA
Found at i:7270886 original size:28 final size:28
Alignment explanation
Indices: 7270854--7270907 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
7270844 AAAAGAACCC
7270854 ATTATTTAAAACTCCCATCTTTTCACCA
1 ATTATTTAAAACTCCCATCTTTTCACCA
7270882 ATTATTTAAAACTCCCATCTTTTCAC
1 ATTATTTAAAACTCCCATCTTTTCAC
7270908 ATTTACTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (28 bp):
ATTATTTAAAACTCCCATCTTTTCACCA
Found at i:7271234 original size:3 final size:3
Alignment explanation
Indices: 7271207--7271290 Score: 105
Period size: 3 Copynumber: 28.0 Consensus size: 3
7271197 ACGGTCGGAT
* * * * * *
7271207 CTG CTT CTG CTG TTG CTG TTG CTG CTG CTG CTG CTG CTG TTG TTG TTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
*
7271255 TTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
7271291 TGACTGTGAC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.00, C:0.26, G:0.32, T:0.42
Consensus pattern (3 bp):
CTG
Found at i:7271351 original size:6 final size:6
Alignment explanation
Indices: 7271340--7271368 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7271330 AGGAGTAGAA
7271340 TTAGGG TTAGGG TTAGGG TTAGGG TTAGG
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGG
7271369 ACTGGGATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.48, T:0.34
Consensus pattern (6 bp):
TTAGGG
Found at i:7271507 original size:6 final size:6
Alignment explanation
Indices: 7271496--7271614 Score: 87
Period size: 6 Copynumber: 19.3 Consensus size: 6
7271486 TGCTTGTTGC
* ** *
7271496 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTTT TGAAGT TGTTGT
1 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT
* * * * * * *
7271544 AAG-AGT AGAAATTGT TGCTGT TGGTGA TGCTGC TGCTGT TGCTGT TGCTGT
1 -TGCTGT TG---CTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT
*
7271595 TGCTGT TTCTGT TGCTGT TG
1 TGCTGT TGCTGT TGCTGT TG
7271615 TTGTAAGAGA
Statistics
Matches: 90, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
5 2 0.02
6 84 0.93
7 1 0.01
9 3 0.03
ACGTcount: A:0.08, C:0.13, G:0.32, T:0.47
Consensus pattern (6 bp):
TGCTGT
Found at i:7272351 original size:18 final size:18
Alignment explanation
Indices: 7272325--7272360 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7272315 TTATTTTGTA
*
7272325 AAAATTTAAAATATATAT
1 AAAACTTAAAATATATAT
7272343 AAAACTTAAAATATATAT
1 AAAACTTAAAATATATAT
7272361 TTTTGATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAACTTAAAATATATAT
Found at i:7273348 original size:6 final size:6
Alignment explanation
Indices: 7273337--7273363 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7273327 AATTTTATTC
7273337 TTTCCT TTTCCT TTTCCT TTTCCT TTT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTT
7273364 TTTTTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTCCT
Found at i:7276461 original size:6 final size:6
Alignment explanation
Indices: 7276450--7276489 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
7276440 ATAAAATGTA
7276450 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
7276490 AAACTCTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:7276910 original size:15 final size:18
Alignment explanation
Indices: 7276868--7276991 Score: 76
Period size: 18 Copynumber: 6.9 Consensus size: 18
7276858 CCTTTGTTCT
7276868 TGATACATTTGAGGTGAA
1 TGATACATTTGAGGTGAA
* *
7276886 AGATATATTTGA-G-G-A
1 TGATACATTTGAGGTGAA
* *
7276901 TGATACATTTGTGGTGGA
1 TGATACATTTGAGGTGAA
* * * * *
7276919 GGGTACATTTGTGATAAA
1 TGATACATTTGAGGTGAA
7276937 TGATACATTTGAGGT-AGA
1 TGATACATTTGAGGTGA-A
* *
7276955 TGATATATTTGAGGAGGTGCA
1 TGATACATTT---GAGGTGAA
*
7276976 GGATACATTTGAGGTG
1 TGATACATTTGAGGTG
7276992 GATAATAACC
Statistics
Matches: 80, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
15 10 0.12
16 2 0.03
17 3 0.04
18 51 0.64
21 14 0.17
ACGTcount: A:0.31, C:0.05, G:0.31, T:0.34
Consensus pattern (18 bp):
TGATACATTTGAGGTGAA
Found at i:7277384 original size:27 final size:27
Alignment explanation
Indices: 7277348--7277400 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
7277338 CATCACCATT
*
7277348 ACCATCACCATCATCA-TCTGAACTTAA
1 ACCACCACCATCATCACTCTG-ACTTAA
7277375 ACCACCACCATCATCACTCTGACTTA
1 ACCACCACCATCATCACTCTGACTTA
7277401 GTGTTGGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.34, C:0.38, G:0.04, T:0.25
Consensus pattern (27 bp):
ACCACCACCATCATCACTCTGACTTAA
Found at i:7280819 original size:25 final size:25
Alignment explanation
Indices: 7280772--7280818 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
7280762 TTTCAAAAAT
*
7280772 TAAAGTTTTCAAACTTATATTTTAA
1 TAAAGTTTTCAAACCTATATTTTAA
7280797 TAAA-TTTTCAAACCTATATTTT
1 TAAAGTTTTCAAACCTATATTTT
7280819 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (25 bp):
TAAAGTTTTCAAACCTATATTTTAA
Found at i:7281375 original size:20 final size:20
Alignment explanation
Indices: 7281350--7281391 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7281340 CCCCCAACAT
7281350 CCCACCACACCCAATCCCTC
1 CCCACCACACCCAATCCCTC
* * *
7281370 CCCACCCCATCCAATCTCTC
1 CCCACCACACCCAATCCCTC
7281390 CC
1 CC
7281392 TACGTGCCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.64, G:0.00, T:0.14
Consensus pattern (20 bp):
CCCACCACACCCAATCCCTC
Found at i:7282839 original size:23 final size:23
Alignment explanation
Indices: 7282813--7282862 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
7282803 AGTTGAATAA
7282813 AATTGAGACCTATTGATAATTTC
1 AATTGAGACCTATTGATAATTTC
* *
7282836 AATTGAGATCTATTGATTATTTC
1 AATTGAGACCTATTGATAATTTC
7282859 AATT
1 AATT
7282863 AACCTTATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (23 bp):
AATTGAGACCTATTGATAATTTC
Found at i:7283712 original size:18 final size:15
Alignment explanation
Indices: 7283691--7283729 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
7283681 ATGATAGGAT
7283691 AATTTATTTATTTATTA
1 AATTTATTT-TTT-TTA
*
7283708 AAATTATTTTTTTTA
1 AATTTATTTTTTTTA
7283723 AATTTAT
1 AATTTAT
7283730 ATAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 9 0.45
16 3 0.15
17 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
AATTTATTTTTTTTA
Found at i:7287697 original size:21 final size:19
Alignment explanation
Indices: 7287658--7287701 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
7287648 ATATTTTTAC
7287658 TTTTTTATAAAATTTAAAT
1 TTTTTTATAAAATTTAAAT
*
7287677 TTTTTTATAATATTTCAAAAT
1 TTTTTTATAAAATTT--AAAT
7287698 TTTT
1 TTTT
7287702 AAAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.64
21 8 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTTATAAAATTTAAAT
Found at i:7287712 original size:10 final size:10
Alignment explanation
Indices: 7287670--7287743 Score: 53
Period size: 10 Copynumber: 7.5 Consensus size: 10
7287660 TTTTATAAAA
*
7287670 TTTAAATTTT
1 TTTAAAATTT
* *
7287680 TTTATAATAT
1 TTTAAAATTT
*
7287690 TTCAAAA-TT
1 TTTAAAATTT
7287699 TTTAAAATTT
1 TTTAAAATTT
* *
7287709 TTTAGAATTG
1 TTTAAAATTT
*
7287719 TTTAGAA-TT
1 TTTAAAATTT
*
7287728 TTTATGAATTT
1 TTTA-AAATTT
7287739 TTTAA
1 TTTAA
7287744 TTTTTTTGAG
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
9 12 0.24
10 32 0.64
11 6 0.12
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.58
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:7287717 original size:19 final size:19
Alignment explanation
Indices: 7287695--7287933 Score: 103
Period size: 20 Copynumber: 12.2 Consensus size: 19
7287685 AATATTTCAA
7287695 AATTTTTAAAATTTTTTAG
1 AATTTTTAAAATTTTTTAG
*
7287714 AATTGTTTAGAA-TTTTTATG
1 AATT-TTTAAAATTTTTTA-G
* *
7287734 AATTTTTTAATTTTTTTGAG
1 AATTTTTAAAATTTTTT-AG
* ** **
7287754 AAATTAAAAAAAATTTTAG
1 AATTTTTAAAATTTTTTAG
* *
7287773 TATTTTTTAATACTTTTTTTA-
1 -AATTTTTAA-A-ATTTTTTAG
*
7287794 AA---TTAAAATTTTTTTAT
1 AATTTTTAAAA-TTTTTTAG
*
7287811 AAATTTT-AAATATTTTTAG
1 AATTTTTAAAAT-TTTTTAG
* * * *
7287830 CATTTTAAAAAATTTTTAA
1 AATTTTTAAAATTTTTTAG
* * *
7287849 AATTTTTTAGAATTGTTTAA
1 AA-TTTTTAAAATTTTTTAG
** * *
7287869 AAAATTTAGAATTTTTTAT
1 AATTTTTAAAATTTTTTAG
7287888 AATTTTTAAAAGTTTTTTTTAG
1 AATTTTTAAAA---TTTTTTAG
*
7287910 ATTTTTTAAGAATTTTTTAG
1 AATTTTTAA-AATTTTTTAG
7287930 AATT
1 AATT
7287934 ATTTTTAGAA
Statistics
Matches: 160, Mismatches: 41, Indels: 37
0.67 0.17 0.16
Matches are distributed among these distances:
16 8 0.05
17 6 0.04
18 1 0.01
19 57 0.36
20 64 0.40
21 2 0.01
22 20 0.12
23 2 0.01
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (19 bp):
AATTTTTAAAATTTTTTAG
Found at i:7287750 original size:20 final size:18
Alignment explanation
Indices: 7287704--7287749 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
7287694 AAATTTTTAA
*
7287704 AATTTTTTAGAATTGTTT
1 AATTTTTTAGAATTTTTT
*
7287722 AGAATTTTTATGAATTTTTT
1 A-ATTTTTTA-GAATTTTTT
7287742 AATTTTTT
1 AATTTTTT
7287750 TGAGAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 9 0.39
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (18 bp):
AATTTTTTAGAATTTTTT
Found at i:7287827 original size:10 final size:9
Alignment explanation
Indices: 7287804--7287904 Score: 60
Period size: 10 Copynumber: 10.6 Consensus size: 9
7287794 AATTAAAATT
7287804 TTTTTATAAA
1 TTTTTA-AAA
7287814 -TTTTAAATA
1 TTTTTAAA-A
**
7287823 TTTTTAGCA
1 TTTTTAAAA
*
7287832 TTTTAAAAAA
1 TTTT-TAAAA
7287842 TTTTTAAAA
1 TTTTTAAAA
*
7287851 TTTTTTAGAA
1 -TTTTTAAAA
7287861 TTGTTTAAAA
1 TT-TTTAAAA
** *
7287871 AATTTAGAAT
1 TTTTTA-AAA
*
7287881 TTTTTATAA
1 TTTTTAAAA
7287890 TTTTTAAAA
1 TTTTTAAAA
7287899 GTTTTT
1 -TTTTT
7287905 TTTAGATTTT
Statistics
Matches: 68, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
8 2 0.03
9 30 0.44
10 36 0.53
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:7287835 original size:29 final size:29
Alignment explanation
Indices: 7287803--7287903 Score: 84
Period size: 29 Copynumber: 3.5 Consensus size: 29
7287793 AAATTAAAAT
* *
7287803 TTTTTTATAAATTTTAAATATTTTTAGCA
1 TTTTTTAAAAATTTTAAATATTTTTAGAA
*
7287832 -TTTTAAAAAATTTTTAAA-ATTTTTTAGAA
1 TTTTTTAAAAA-TTTTAAATA-TTTTTAGAA
* * *
7287861 TTGTTTAAAAAATTTAGAAT-TTTTTATAA
1 TTTTTTAAAAATTTTA-AATATTTTTAGAA
*
7287890 -TTTTTAAAAGTTTT
1 TTTTTTAAAAATTTT
7287904 TTTTAGATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
28 20 0.35
29 27 0.47
30 10 0.18
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (29 bp):
TTTTTTAAAAATTTTAAATATTTTTAGAA
Found at i:7287905 original size:20 final size:20
Alignment explanation
Indices: 7287803--7287933 Score: 74
Period size: 19 Copynumber: 6.6 Consensus size: 20
7287793 AAATTAAAAT
*
7287803 TTTTTTATAAATTTT-A-AA
1 TTTTTTATAATTTTTAAGAA
** *
7287821 TATTTTTAGCA-TTTTAAAAA
1 T-TTTTTATAATTTTTAAGAA
* * *
7287841 ATTTTTAAAATTTTTTAGAA
1 TTTTTTATAATTTTTAAGAA
* * **
7287861 TTGTTTAAAAAATTT-AGAA
1 TTTTTTATAATTTTTAAGAA
7287880 TTTTTTATAATTTTTAA-AA
1 TTTTTTATAATTTTTAAGAA
*
7287899 GTTTTTTTTAGATTTTTTAAGAA
1 -TTTTTTATA-A-TTTTTAAGAA
*
7287922 TTTTTTAGAATT
1 TTTTTTATAATT
7287934 ATTTTTAGAA
Statistics
Matches: 86, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
18 5 0.06
19 32 0.37
20 31 0.36
21 2 0.02
22 14 0.16
23 2 0.02
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTTATAATTTTTAAGAA
Found at i:7287908 original size:22 final size:22
Alignment explanation
Indices: 7287880--7287927 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7287870 AAATTTAGAA
*
7287880 TTTTTTATAATTTTTAA-AAGTT
1 TTTTTTAGAATTTTTAAGAA-TT
*
7287902 TTTTTTAGATTTTTTAAGAATT
1 TTTTTTAGAATTTTTAAGAATT
7287924 TTTT
1 TTTT
7287928 AGAATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTTTAGAATTTTTAAGAATT
Found at i:7295336 original size:2 final size:2
Alignment explanation
Indices: 7295329--7295353 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7295319 ATAAAGTAAA
7295329 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7295354 CACAGCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7303298 original size:12 final size:12
Alignment explanation
Indices: 7303279--7303345 Score: 52
Period size: 12 Copynumber: 5.9 Consensus size: 12
7303269 TAATGGTAAA
7303279 AATTTTATTAAT
1 AATTTTATTAAT
* *
7303291 ATTTTTATTAAA
1 AATTTTATTAAT
*
7303303 AATGTTATTAAT
1 AATTTTATTAAT
* *
7303315 AA-TATATCAA-
1 AATTTTATTAAT
7303325 AA-TTTATTAA-
1 AATTTTATTAAT
*
7303335 ATTTTTATTAA
1 AATTTTATTAA
7303346 ATTTCGCACA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
10 9 0.21
11 13 0.30
12 21 0.49
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (12 bp):
AATTTTATTAAT
Found at i:7303302 original size:24 final size:24
Alignment explanation
Indices: 7303275--7303346 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 24
7303265 TATTTAATGG
7303275 TAAAAATTTTATTAATATTTTTAT
1 TAAAAATTTTATTAATATTTTTAT
* * *
7303299 TAAAAATGTTATTAATA-ATATA-
1 TAAAAATTTTATTAATATTTTTAT
*
7303321 TCAAAA-TTTATTAA-ATTTTTAT
1 TAAAAATTTTATTAATATTTTTAT
7303343 TAAA
1 TAAA
7303347 TTTCGCACAC
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 1 0.03
21 10 0.26
22 8 0.21
23 3 0.08
24 16 0.42
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (24 bp):
TAAAAATTTTATTAATATTTTTAT
Found at i:7303400 original size:6 final size:6
Alignment explanation
Indices: 7303390--7303423 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
7303380 CAATCTATCG
*
7303390 ATTTTG ATTTTA ATTTTA ATTTTA ATTTTA ATTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTT
7303424 ACTTATTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (6 bp):
ATTTTA
Found at i:7307339 original size:22 final size:22
Alignment explanation
Indices: 7307313--7307360 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
7307303 TTCAAAATTA
7307313 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
7307335 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
7307357 ATAA
1 ATAA
7307361 TTATATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:7307368 original size:8 final size:8
Alignment explanation
Indices: 7307355--7307385 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
7307345 ATTTTTTAAA
7307355 ATATAATT
1 ATATAATT
7307363 ATATAATT
1 ATATAATT
7307371 ATATAATAT
1 ATATAAT-T
7307380 ATATAA
1 ATATAA
7307386 ATAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
ATATAATT
Found at i:7308786 original size:24 final size:24
Alignment explanation
Indices: 7308759--7308822 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
7308749 AGTAAATTTT
*
7308759 TTATTAAATTAAAATATTAAATAA
1 TTATTAAATTAAAATAATAAATAA
** * *
7308783 TTATTTTATTAATATAATATATAA
1 TTATTAAATTAAAATAATAAATAA
*
7308807 TTA-TAAAATAAAATAA
1 TTATTAAATTAAAATAA
7308823 ATTATATATA
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 9 0.29
24 22 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TTATTAAATTAAAATAATAAATAA
Found at i:7309041 original size:11 final size:10
Alignment explanation
Indices: 7309025--7309059 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
7309015 TTATCTTATT
*
7309025 AAAAAAGTAA
1 AAAAAAATAA
7309035 AAAAAAATAA
1 AAAAAAATAA
7309045 CAAAAAAATAA
1 -AAAAAAATAA
7309056 AAAA
1 AAAA
7309060 GCCAAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.86, C:0.03, G:0.03, T:0.09
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:7320135 original size:58 final size:57
Alignment explanation
Indices: 7320073--7320187 Score: 176
Period size: 57 Copynumber: 2.0 Consensus size: 57
7320063 GATAAATGGA
* * *
7320073 TTAGCTTCAATCATAAATCCTGGAACAGAGGTTTAATGGCACTAGGAGAGAAAATGCT
1 TTAGCTTCAATCACAAATCCTGAAACAGA-GATTAATGGCACTAGGAGAGAAAATGCT
* *
7320131 TTAGCTTTAATCACAAATCCTGAAACAGAGATTAATGGTACTAGGAGAGAAAATGCT
1 TTAGCTTCAATCACAAATCCTGAAACAGAGATTAATGGCACTAGGAGAGAAAATGCT
7320188 GTGGAAGACA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
57 26 0.50
58 26 0.50
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (57 bp):
TTAGCTTCAATCACAAATCCTGAAACAGAGATTAATGGCACTAGGAGAGAAAATGCT
Found at i:7320201 original size:58 final size:58
Alignment explanation
Indices: 7320080--7320206 Score: 139
Period size: 57 Copynumber: 2.2 Consensus size: 58
7320070 GGATTAGCTT
* * * * ***
7320080 CAATCATAAATCCTGGAACAGAGGTTTAATGGCACTAGGAGAGAAAATGCTTTAGCTT
1 CAATCACAAATCCTGAAACAGAGGATTAATGGCACTAGGAGAGAAAATGCTGTAGAGA
* * *
7320138 TAATCACAAATCCTGAAACAGA-GATTAATGGTACTAGGAGAGAAAATGCTGTGGAAGA
1 CAATCACAAATCCTGAAACAGAGGATTAATGGCACTAGGAGAGAAAATGCTGTAG-AGA
7320196 CAATCATCAAA
1 CAATCA-CAAA
7320207 AGACCATTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
57 28 0.50
58 24 0.43
59 4 0.07
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (58 bp):
CAATCACAAATCCTGAAACAGAGGATTAATGGCACTAGGAGAGAAAATGCTGTAGAGA
Found at i:7320590 original size:19 final size:19
Alignment explanation
Indices: 7320566--7320604 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
7320556 CTTACTGCTC
*
7320566 TTGTTCAATTTCTTGAAAT
1 TTGTTCAATTTCCTGAAAT
7320585 TTGTTCAATTTCCTGAAAT
1 TTGTTCAATTTCCTGAAAT
7320604 T
1 T
7320605 GCTAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (19 bp):
TTGTTCAATTTCCTGAAAT
Found at i:7323889 original size:8 final size:8
Alignment explanation
Indices: 7323876--7323911 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
7323866 AAATTGAGCA
7323876 AAAAAAAT
1 AAAAAAAT
7323884 -AAAAAAT
1 AAAAAAAT
7323891 AAAAAAAT
1 AAAAAAAT
7323899 AAAAAAAT
1 AAAAAAAT
7323907 AAAAA
1 AAAAA
7323912 GTTGTAGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Done.