Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 27 of 202
Found at i:7891780 original size:13 final size:14
Alignment explanation
Indices: 7891728--7891778 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
7891718 AAAAATTTTT
7891728 TAAAAATAAAATAA
1 TAAAAATAAAATAA
* **
7891742 -AAAAA-AAGTATTT
1 TAAAAATAA-AATAA
7891755 TAAAAATAAAATAA
1 TAAAAATAAAATAA
7891769 TAAAAATAAA
1 TAAAAATAAA
7891779 TATATTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
12 2 0.07
13 7 0.25
14 17 0.61
15 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAAAATAAAATAA
Found at i:7893482 original size:19 final size:19
Alignment explanation
Indices: 7893458--7893535 Score: 63
Period size: 19 Copynumber: 4.1 Consensus size: 19
7893448 TACTAAATTG
7893458 ATATTTAAAAATAATTATA
1 ATATTTAAAAATAATTATA
**
7893477 ATATTT-AATTTAAATT-TA
1 ATATTTAAAAAT-AATTATA
* * *
7893495 TTAATTAAAAA-AGTTGATA
1 ATATTTAAAAATAATT-ATA
7893514 TATATTTAAAAATAATTATA
1 -ATATTTAAAAATAATTATA
7893534 AT
1 AT
7893536 TTAATAGAAG
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
17 3 0.07
18 9 0.21
19 16 0.37
20 12 0.28
21 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATATTTAAAAATAATTATA
Found at i:7894676 original size:13 final size:13
Alignment explanation
Indices: 7894654--7894684 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7894644 GATTTTACCA
*
7894654 AAAATGTTTTACT
1 AAAATATTTTACT
7894667 AAAATATTTTACT
1 AAAATATTTTACT
7894680 AAAAT
1 AAAAT
7894685 TATGATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (13 bp):
AAAATATTTTACT
Found at i:7896377 original size:90 final size:90
Alignment explanation
Indices: 7896140--7896368 Score: 275
Period size: 90 Copynumber: 2.5 Consensus size: 90
7896130 TTTTATCTAC
* * * * * *
7896140 AAAAAATGTTGTGCATTCACAACCATCTGGTAGCGTATTAACCTACAACACTAGTGGTTCATCCA
1 AAAATATGTTGTGCTTTCACAACCATCTGGCAGCGTATTAACTTGCAACACTAGTGGTCCATCCA
** *
7896205 CCCATTTTCTGGCAGCTCTTATATG
66 CCCATTTTCAAGCAGCTCTCATATG
* * *
7896230 AAAATATGTTCTG-TATTCACAACCATCTGACAGCGTATTAACTTGCAACACTGGTGGTCCATCC
1 AAAATATGTTGTGCT-TTCACAACCATCTGGCAGCGTATTAACTTGCAACACTAGTGGTCCATCC
*
7896294 ACCGACA-TTT-AAGCAGCTCTCATTTG
65 ACC--CATTTTCAAGCAGCTCTCATATG
* *
7896320 CAAATATGTTGTGCTTTCACAACCATCTGGCAGTGTATTAACTTGCAAC
1 AAAATATGTTGTGCTTTCACAACCATCTGGCAGCGTATTAACTTGCAAC
7896369 TTTTGTGGTT
Statistics
Matches: 118, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
90 112 0.95
91 4 0.03
92 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (90 bp):
AAAATATGTTGTGCTTTCACAACCATCTGGCAGCGTATTAACTTGCAACACTAGTGGTCCATCCA
CCCATTTTCAAGCAGCTCTCATATG
Found at i:7897712 original size:28 final size:25
Alignment explanation
Indices: 7897656--7897712 Score: 60
Period size: 28 Copynumber: 2.2 Consensus size: 25
7897646 GAATTTGTAT
* *
7897656 AATTTAAAATATAATTATTACATAT
1 AATTTAAAATATAATAATTACATAA
*
7897681 AATTTAATAATAATATATAATTTCATAA
1 AATTTAA-AAT-ATA-ATAATTACATAA
7897709 AATT
1 AATT
7897713 CGTGATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 7 0.27
26 3 0.12
27 3 0.12
28 13 0.50
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
AATTTAAAATATAATAATTACATAA
Found at i:7897791 original size:91 final size:91
Alignment explanation
Indices: 7897643--7897831 Score: 274
Period size: 91 Copynumber: 2.1 Consensus size: 91
7897633 ATTATTATTT
* * *
7897643 TATGAATTTGTATAATTTAAAATATAATTATTACATATAATTTAATAATAATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATATAATTATTAAATATAATTTAATAATAATATATAATTTCATA
* *
7897708 AAATTCGTGATAAT-AAATTTTCTTA
66 AAATTCGTAATAATAAAATGTTCTTA
* *
7897733 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAGTGATATATAATTTCA
1 TATGAATTTATACAATTTAAAAT-A-TAATTATTAAATATAATTTAATAATAATATATAATTTCA
*
7897797 TAAAATTCTTAATAATAAAATGTTCTTA
64 TAAAATTCGTAATAATAAAATGTTCTTA
7897825 TATGAAT
1 TATGAAT
7897832 ATACTAAAAT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
90 21 0.24
91 47 0.53
92 20 0.23
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATATAATTATTAAATATAATTTAATAATAATATATAATTTCATA
AAATTCGTAATAATAAAATGTTCTTA
Found at i:7897809 original size:47 final size:46
Alignment explanation
Indices: 7897677--7897815 Score: 117
Period size: 47 Copynumber: 3.0 Consensus size: 46
7897667 TAATTATTAC
* * *
7897677 ATATAATTTAATAATAATATATAATTTCATAAAATTCGTGATAATAA
1 ATATAATTTAAT-ATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
7897724 AT-T--TTCTTATATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
7897768 ATATAATTTAATAGTGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATA-TGATATATAATTTCATAAAATTCTTAATAATAA
7897815 A
1 A
7897816 ATGTTCTTAT
Statistics
Matches: 68, Mismatches: 15, Indels: 18
0.67 0.15 0.18
Matches are distributed among these distances:
44 19 0.28
45 13 0.19
46 14 0.21
47 22 0.32
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (46 bp):
ATATAATTTAATATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:7898625 original size:6 final size:6
Alignment explanation
Indices: 7898614--7898638 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7898604 GTTTGAACAT
7898614 TTTAAA TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
7898639 ATAATTTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:7899090 original size:2 final size:2
Alignment explanation
Indices: 7899083--7899119 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
7899073 TGCAAAAGTA
*
7899083 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7899120 GGTATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7899232 original size:21 final size:20
Alignment explanation
Indices: 7899189--7899236 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
7899179 AATGTGTATT
* *
7899189 AATATATAAATATGTATACA
1 AATATAGAAATATATATACA
7899209 AATTATAGAAATATATATGA-A
1 AA-TATAGAAATATATAT-ACA
7899230 AATATAG
1 AATATAG
7899237 GTATGTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
21 16 0.67
22 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (20 bp):
AATATAGAAATATATATACA
Found at i:7899261 original size:12 final size:13
Alignment explanation
Indices: 7899244--7899272 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7899234 TAGGTATGTA
7899244 CAAATAATGCA-G
1 CAAATAATGCAGG
7899256 CAAATAATGCAGG
1 CAAATAATGCAGG
7899269 CAAA
1 CAAA
7899273 CAAATAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.14
Consensus pattern (13 bp):
CAAATAATGCAGG
Found at i:7905333 original size:21 final size:19
Alignment explanation
Indices: 7905309--7905355 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
7905299 AAGAAAGAAA
7905309 TATTTTCATAATAATATAATT
1 TATTTTCATAA-AATAT-ATT
7905330 TATTTT-ATAAAATATATT
1 TATTTTCATAAAATATATT
7905348 T-TTTTCAT
1 TATTTTCAT
7905356 CATCTTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 5 0.20
20 4 0.16
21 6 0.24
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTCATAAAATATATT
Found at i:7906171 original size:16 final size:16
Alignment explanation
Indices: 7906150--7906180 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7906140 TCTTAAAACT
*
7906150 AAAAAATTATTTTTAA
1 AAAAAATCATTTTTAA
7906166 AAAAAATCATTTTTA
1 AAAAAATCATTTTTA
7906181 GCCCTTTATA
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAAAATCATTTTTAA
Found at i:7910763 original size:19 final size:19
Alignment explanation
Indices: 7910739--7910858 Score: 68
Period size: 19 Copynumber: 6.3 Consensus size: 19
7910729 AGTGAGGGAA
*
7910739 ACTGGCACGTAAAGTGCAT
1 ACTGGCACATAAAGTGCAT
*
7910758 ACTGGCACATGAAGTGCATT
1 ACTGGCACATAAAGTGCA-T
*
7910778 ACTCGG-ACACAAAGTGCAT
1 ACT-GGCACATAAAGTGCAT
* * *
7910797 -CTTGACACACAAGGTGCAT
1 AC-TGGCACATAAAGTGCAT
* * * *
7910816 CCTGCCACATGAGGTGCAT
1 ACTGGCACATAAAGTGCAT
*
7910835 -CTTGGCGCAT-AAGTGCAT
1 AC-TGGCACATAAAGTGCAT
7910853 AACTGG
1 -ACTGG
7910859 TATACAAATC
Statistics
Matches: 81, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
18 10 0.12
19 53 0.65
20 16 0.20
21 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (19 bp):
ACTGGCACATAAAGTGCAT
Found at i:7914046 original size:2 final size:2
Alignment explanation
Indices: 7914039--7914103 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
7914029 GAATATTATA
7914039 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7914081 TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG T
7914104 TTTATTATTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:7917625 original size:28 final size:29
Alignment explanation
Indices: 7917569--7917641 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
7917559 TTTTTATAAC
*
7917569 ATTTAATAATTTT-T-AATAAATTATATAT
1 ATTT-ATAATTTTCTAAAGAAATTATATAT
7917597 ATTTATAATTTTCTAAAGAAATTAT-TAT
1 ATTTATAATTTTCTAAAGAAATTATATAT
7917625 ATTTTATTAA-TTTCTAA
1 A-TTTA-TAATTTTCTAA
7917642 TAAATTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 8 0.20
28 9 0.22
29 20 0.50
30 3 0.08
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (29 bp):
ATTTATAATTTTCTAAAGAAATTATATAT
Found at i:7918013 original size:30 final size:30
Alignment explanation
Indices: 7917970--7918043 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
7917960 CAATAAGTTT
* * * *
7917970 TTTTTATTAATTTTTATAGATTTTTTTATCA
1 TTTTAATT-ATTTTTATAGAATCTTCTATCA
*
7918001 TTTTAATTATTTTTATATAATCTTCTATCA
1 TTTTAATTATTTTTATAGAATCTTCTATCA
7918031 TTTCTAATT-TTTT
1 TTT-TAATTATTTT
7918044 ATAATATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 25 0.68
31 12 0.32
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (30 bp):
TTTTAATTATTTTTATAGAATCTTCTATCA
Found at i:7918106 original size:19 final size:18
Alignment explanation
Indices: 7918082--7918157 Score: 73
Period size: 19 Copynumber: 4.1 Consensus size: 18
7918072 TCGTAACATA
* *
7918082 TTAATAGTTTTTTTAATAT
1 TTAATAATTTTTATAAT-T
7918101 TTAATAATTTTTATAATT
1 TTAATAATTTTTATAATT
* *
7918119 TTAA-AAATTTTATGATAT
1 TTAATAATTTTTATAAT-T
*
7918137 TTAATAATTTTGATAGATT
1 TTAATAATTTTTATA-ATT
7918156 TT
1 TT
7918158 TTTTATAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
17 10 0.21
18 10 0.21
19 25 0.53
20 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TTAATAATTTTTATAATT
Found at i:7918111 original size:18 final size:18
Alignment explanation
Indices: 7918090--7918147 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
7918080 TATTAATAGT
7918090 TTTTTTAATATTTAATAA
1 TTTTTTAATATTTAATAA
*
7918108 TTTTTATAAT-TTTAAAAA
1 TTTTT-TAATATTTAATAA
* *
7918126 TTTTATGATATTTAATAA
1 TTTTTTAATATTTAATAA
7918144 TTTT
1 TTTT
7918148 GATAGATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 3 0.09
18 27 0.79
19 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTTTAATATTTAATAA
Found at i:7918165 original size:49 final size:51
Alignment explanation
Indices: 7918108--7918223 Score: 132
Period size: 49 Copynumber: 2.3 Consensus size: 51
7918098 TATTTAATAA
*
7918108 TTTTTATAATTTTAAAAATTTTATGATA-TTTAAT-AATTTT-G-ATAGATTT
1 TTTTTATAATTTTAAAAATTTTA-AATATTTTAATGAATTTTAGCATA-ATTT
* *
7918157 TTTTTATAAATTTCAAAATTTTAAATATTTTAATGAATTTTAGCTATAATTT
1 TTTTTATAATTTTAAAAATTTTAAATATTTTAATGAATTTTAGC-ATAATTT
* *
7918209 TTATAATAATTTTAA
1 TTTTTATAATTTTAA
7918224 TATTTTGGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
48 3 0.05
49 27 0.49
50 6 0.11
51 1 0.02
52 15 0.27
53 3 0.05
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (51 bp):
TTTTTATAATTTTAAAAATTTTAAATATTTTAATGAATTTTAGCATAATTT
Found at i:7918261 original size:10 final size:10
Alignment explanation
Indices: 7918095--7918252 Score: 50
Period size: 9 Copynumber: 15.7 Consensus size: 10
7918085 ATAGTTTTTT
7918095 TAATATTTA-A
1 TAAT-TTTATA
7918105 TAATTTT-TA
1 TAATTTTATA
7918114 TAATTTTA-A
1 TAATTTTATA
*
7918123 AAATTTTATGA
1 TAATTTTAT-A
7918134 T-A-TTTA-A
1 TAATTTTATA
7918141 TAATTTTGATA
1 TAATTTT-ATA
* * *
7918152 GATTTTTTTTA
1 TA-ATTTTATA
*
7918163 TAAATTTCA-A
1 T-AATTTTATA
*
7918173 -AATTTTAAA
1 TAATTTTATA
7918182 T-ATTTTA-A
1 TAATTTTATA
7918190 TGAATTTTAGCTA
1 T-AATTTTA--TA
7918203 TAATTTTTATAA
1 TAA-TTTTAT-A
7918215 TAATTTTA-A
1 TAATTTTATA
* * *
7918224 TATTTTGGTTTT
1 TAATTT--TATA
7918236 TAATTTTATA
1 TAATTTTATA
7918246 TAATTTT
1 TAATTTT
7918253 CTATCATTTC
Statistics
Matches: 110, Mismatches: 16, Indels: 44
0.65 0.09 0.26
Matches are distributed among these distances:
7 2 0.02
8 9 0.08
9 39 0.35
10 22 0.20
11 15 0.14
12 16 0.15
13 7 0.06
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (10 bp):
TAATTTTATA
Found at i:7918288 original size:18 final size:19
Alignment explanation
Indices: 7918265--7918301 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
7918255 ATCATTTCTA
7918265 AAAAAAATT-TAATATTTT
1 AAAAAAATTATAATATTTT
7918283 AAAAAAATTATAATATTTT
1 AAAAAAATTATAATATTTT
7918302 GATAACTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAAAAATTATAATATTTT
Found at i:7929094 original size:22 final size:23
Alignment explanation
Indices: 7929069--7929130 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
7929059 TTACAATAAA
7929069 TTCCAATTT-ATT-TGTGATAATT
1 TTCC-ATTTAATTGTGTGATAATT
*
7929091 TTCCCTTTGAATTGTGTGATAATT
1 TTCCATTT-AATTGTGTGATAATT
*
7929115 TTCCCTTTGAATTGTG
1 TTCCATTT-AATTGTG
7929131 CTATTTAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 3 0.08
22 4 0.11
23 3 0.08
24 26 0.72
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.52
Consensus pattern (23 bp):
TTCCATTTAATTGTGTGATAATT
Found at i:7929113 original size:24 final size:24
Alignment explanation
Indices: 7929081--7929130 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
7929071 CCAATTTATT
7929081 TGTGATAATTTTCCCTTTGAATTG
1 TGTGATAATTTTCCCTTTGAATTG
7929105 TGTGATAATTTTCCCTTTGAATTG
1 TGTGATAATTTTCCCTTTGAATTG
7929129 TG
1 TG
7929131 CTATTTAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.50
Consensus pattern (24 bp):
TGTGATAATTTTCCCTTTGAATTG
Found at i:7930279 original size:55 final size:55
Alignment explanation
Indices: 7930214--7930328 Score: 212
Period size: 55 Copynumber: 2.1 Consensus size: 55
7930204 AATTGCAGAT
*
7930214 ATCCAATTCAAATACCATTACCAACCGATTCATATACAAATCATGCTAATACACA
1 ATCCAATTCAAATACCATTACCAACCAATTCATATACAAATCATGCTAATACACA
*
7930269 ATCCAATTCAAATACCATTACCAACCAATTCATATACAAATCATGCTAATACTCA
1 ATCCAATTCAAATACCATTACCAACCAATTCATATACAAATCATGCTAATACACA
7930324 ATCCA
1 ATCCA
7930329 CAAAATAACA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.43, C:0.28, G:0.03, T:0.26
Consensus pattern (55 bp):
ATCCAATTCAAATACCATTACCAACCAATTCATATACAAATCATGCTAATACACA
Found at i:7930325 original size:28 final size:27
Alignment explanation
Indices: 7930241--7930325 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 27
7930231 TTACCAACCG
7930241 ATTCATATACAAATCATGCTAATACACA
1 ATTCATATACAAATCATGCTAATAC-CA
* *
7930269 ATCCA-ATTCAAATACCAT--TACCA-ACCA
1 ATTCATATACAAAT--CATGCTA--ATACCA
7930296 ATTCATATACAAATCATGCTAATACTCA
1 ATTCATATACAAATCATGCTAATAC-CA
7930324 AT
1 AT
7930326 CCACAAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
26 4 0.09
27 17 0.39
28 19 0.43
29 4 0.09
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (27 bp):
ATTCATATACAAATCATGCTAATACCA
Found at i:7941324 original size:22 final size:20
Alignment explanation
Indices: 7941299--7941338 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
7941289 AAAAAAACCC
7941299 ATAAAATTCTTAAAAGTTTTGA
1 ATAAAATTC-TAAAA-TTTTGA
7941321 ATAAAATTCTAAAATTTT
1 ATAAAATTCTAAAATTTT
7941339 CTAAAAAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (20 bp):
ATAAAATTCTAAAATTTTGA
Found at i:7941491 original size:16 final size:15
Alignment explanation
Indices: 7941458--7941495 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
7941448 GTAAATAGAT
7941458 TTTTTTA-G-TTTTA
1 TTTTTTATGATTTTA
7941471 TTTTTTATGATTTTA
1 TTTTTTATGATTTTA
7941486 TATTTTTATG
1 T-TTTTTATG
7941496 GGATTCTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.32
14 1 0.05
15 6 0.27
16 8 0.36
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (15 bp):
TTTTTTATGATTTTA
Found at i:7950685 original size:2 final size:2
Alignment explanation
Indices: 7950678--7950706 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7950668 TATTAGTAGC
7950678 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7950707 GTATGTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7955987 original size:13 final size:13
Alignment explanation
Indices: 7955969--7955993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7955959 TAAGTTATAT
7955969 GTGTGAAAATTTC
1 GTGTGAAAATTTC
7955982 GTGTGAAAATTT
1 GTGTGAAAATTT
7955994 GATAGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:7957732 original size:41 final size:41
Alignment explanation
Indices: 7957673--7957760 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
7957663 GGTTTAAAAC
* * * *
7957673 CTAGCAGGCTTAAGGCCGGTGAAGTTATTTGGACTTTATGT
1 CTAGCAGGCTTAAGGCCGGTGAAATAATTCGGACTTTAAGT
* *
7957714 TTAGCAGGCTT-TGTGCCGGTGAAATAATTCGGACTTTAAGT
1 CTAGCAGGCTTAAG-GCCGGTGAAATAATTCGGACTTTAAGT
7957755 CTAGCA
1 CTAGCA
7957761 AGCTAATTGC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (41 bp):
CTAGCAGGCTTAAGGCCGGTGAAATAATTCGGACTTTAAGT
Found at i:7962895 original size:29 final size:28
Alignment explanation
Indices: 7962848--7962929 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 28
7962838 ACGAGATGCA
* * *
7962848 AAAGTGCAAGTCAAAGTGGCAGACAATCC
1 AAAGTACAAGCCAAAGTGGCGGACAAT-C
*
7962877 AAAGTACAAGCCAAGGTGGCGGACAATC
1 AAAGTACAAGCCAAAGTGGCGGACAATC
*
7962905 TAAGTGA-AAGCCAAAGTGGCGGACA
1 AAAGT-ACAAGCCAAAGTGGCGGACA
7962930 GTCTAACTGC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 22 0.48
29 24 0.52
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.12
Consensus pattern (28 bp):
AAAGTACAAGCCAAAGTGGCGGACAATC
Found at i:7962918 original size:28 final size:28
Alignment explanation
Indices: 7962849--7962935 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
7962839 CGAGATGCAA
* * * *
7962849 AAGTGCAAGTCAAAGTGGCAGACAATCCA
1 AAGTGAAAGCCAAAGTGGCGGACAAT-CT
*
7962878 AAGT-ACAAGCCAAGGTGGCGGACAATCT
1 AAGTGA-AAGCCAAAGTGGCGGACAATCT
*
7962906 AAGTGAAAGCCAAAGTGGCGGACAGTCT
1 AAGTGAAAGCCAAAGTGGCGGACAATCT
7962934 AA
1 AA
7962936 CTGCGAACTG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 27 0.55
29 22 0.45
ACGTcount: A:0.39, C:0.20, G:0.28, T:0.14
Consensus pattern (28 bp):
AAGTGAAAGCCAAAGTGGCGGACAATCT
Found at i:7966412 original size:51 final size:52
Alignment explanation
Indices: 7966329--7966428 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 52
7966319 GGTACTTCTG
* * *
7966329 AAAACCAACATAATCATTTTAGTTATCAATAAATGTCATCTTCAAACAACTA
1 AAAACCAACATAATCACTTTAGTTATCAATAAATATCATCATCAAACAACTA
* *
7966381 AAAACCAACATAATC-CTTTAGTTATTAATAAATATCATCATCTAACAA
1 AAAACCAACATAATCACTTTAGTTATCAATAAATATCATCATCAAACAA
7966429 TCCAATCAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 28 0.65
52 15 0.35
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (52 bp):
AAAACCAACATAATCACTTTAGTTATCAATAAATATCATCATCAAACAACTA
Found at i:7969979 original size:25 final size:25
Alignment explanation
Indices: 7969951--7970003 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
7969941 ATTTTTGAAT
*
7969951 TTGATAATGATTTTGTG-TTTTGTTA
1 TTGATAAT-AGTTTGTGATTTTGTTA
*
7969976 TTGATGATAGTTTGTGATTTTTGTTA
1 TTGATAATAGTTTGTGA-TTTTGTTA
7970002 TT
1 TT
7970004 TGTTGTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 7 0.29
26 10 0.42
ACGTcount: A:0.19, C:0.00, G:0.21, T:0.60
Consensus pattern (25 bp):
TTGATAATAGTTTGTGATTTTGTTA
Found at i:7970754 original size:43 final size:44
Alignment explanation
Indices: 7970648--7970761 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 44
7970638 ATGTGTTGTC
* *
7970648 ATGTAAAACCACGTCTGGGACGTTGGCATCGACTTGTGATTTAC
1 ATGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTAA
* ** *
7970692 GTGTAAGACCTTGTTTGGGACAG-TGGCATCGA-TATGTGA-TTAA
1 ATGTAAGACCACGTCTGGGAC-GTTGGCATCGACT-TGTGATTTAA
* *
7970735 ATGTAAGACCACATCTGGGACGATGGC
1 ATGTAAGACCACGTCTGGGACGTTGGC
7970762 GTTGTACGAA
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.02
43 24 0.43
44 30 0.54
45 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (44 bp):
ATGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTAA
Found at i:7971765 original size:45 final size:46
Alignment explanation
Indices: 7971698--7971821 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
7971688 CATATGACCT
*
7971698 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
7971741 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
7971787 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
7971822 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:7971804 original size:46 final size:45
Alignment explanation
Indices: 7971698--7971958 Score: 214
Period size: 37 Copynumber: 6.6 Consensus size: 45
7971688 CATATGACCT
*
7971698 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
7971741 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
7971787 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
7971824 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* *
7971861 CTTATCACTTTGTCTCTTGATCAGATAAGT-T---T---C--GCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
7971897 CTTATCACTTTGTCACTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
7971934 CTTATCACTTTGTCACTTGATCAGA
1 CTTATCACTTTGTCACTTGATCAGA
7971959 AGTACTCAAA
Statistics
Matches: 198, Mismatches: 9, Indels: 28
0.84 0.04 0.12
Matches are distributed among these distances:
35 1 0.01
36 30 0.15
37 93 0.47
38 1 0.01
40 2 0.01
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.11
46 34 0.17
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:7971825 original size:37 final size:37
Alignment explanation
Indices: 7971783--7971958 Score: 284
Period size: 37 Copynumber: 4.8 Consensus size: 37
7971773 AGCTGAAGCT
*
7971783 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
* *
7971820 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
*
7971857 ACCACTTATCACTTTGTCTCTTGATCAGATAAGT-T-
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
*
7971892 TCGCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
1 AC-CACTTATCACTTTGTCACTTGATCAGATAAGTGTA
7971930 ACCACTTATCACTTTGTCACTTGATCAGA
1 ACCACTTATCACTTTGTCACTTGATCAGA
7971959 AGTACTCAAA
Statistics
Matches: 129, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
35 1 0.01
36 32 0.25
37 95 0.74
38 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (37 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
Found at i:7971925 original size:73 final size:74
Alignment explanation
Indices: 7971783--7971958 Score: 300
Period size: 73 Copynumber: 2.4 Consensus size: 74
7971773 AGCTGAAGCT
* *
7971783 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAG
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCACTTATCACTTTGTCACTTGATCAG
7971848 ATAAGTGTA
66 ATAAGTGTA
* * *
7971857 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTTTCG-CACTTATCACTTTGTCACTTGATCAG
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCACTTATCACTTTGTCACTTGATCAG
7971921 ATAAGTGTA
66 ATAAGTGTA
7971930 ACCACTTATCACTTTGTCACTTGATCAGA
1 ACCACTTATCACTTTGTCACTTGATCAGA
7971959 AGTACTCAAA
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 62 0.65
74 34 0.35
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (74 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCACTTATCACTTTGTCACTTGATCAG
ATAAGTGTA
Found at i:7974834 original size:10 final size:10
Alignment explanation
Indices: 7974818--7974855 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
7974808 TAGTATTTAT
7974818 GAATTAGAAC
1 GAATTAGAAC
*
7974828 AAATTAGAAC
1 GAATTAGAAC
7974838 GAATTAGAAC
1 GAATTAGAAC
7974848 GAATTAGA
1 GAATTAGA
7974856 TTGATATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.53, C:0.08, G:0.18, T:0.21
Consensus pattern (10 bp):
GAATTAGAAC
Found at i:7977919 original size:76 final size:75
Alignment explanation
Indices: 7977788--7977934 Score: 267
Period size: 76 Copynumber: 1.9 Consensus size: 75
7977778 TTTAGGGACC
7977788 AATTTAAAACAAGGTCATAATTTGGAAATATCTGATGCAATTAACACAATTCTTGCTCTCTTAAA
1 AATTTAAAACAAGGTCATAATTTGGAAATATCTGATGCAATTAACACAATTCTTGCTCTCTTAAA
7977853 TGCTTCCCCA
66 TGCTTCCCCA
* *
7977863 AATTTCAAAACGAGGTCATAATTTGGGAATATCTGATGCAATTAACACAATTCTTGCTCTCTTAA
1 AATTT-AAAACAAGGTCATAATTTGGAAATATCTGATGCAATTAACACAATTCTTGCTCTCTTAA
7977928 ATGCTTC
65 ATGCTTC
7977935 TTTAGGATAA
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 5 0.07
76 64 0.93
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (75 bp):
AATTTAAAACAAGGTCATAATTTGGAAATATCTGATGCAATTAACACAATTCTTGCTCTCTTAAA
TGCTTCCCCA
Found at i:7981403 original size:97 final size:97
Alignment explanation
Indices: 7981285--7981572 Score: 429
Period size: 97 Copynumber: 3.0 Consensus size: 97
7981275 TAACAACTAC
* * *
7981285 TTATTTGA-TTTTTCCTTAAAAACCCTAAATACTAAACCCCAATGTAATTTTTTTAAAATTTATA
1 TTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATA
*
7981349 ATTAATTTACTCAAGTAACCCTAAACCTTAAT
66 ATTAATTTACTCAAGTAACCCTAAACCCTAAT
* *
7981381 TTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCT-ATTTTTTAAAAAATTTAT
1 TTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTT-TAAAATTTAT
7981445 AATTAATTTACTCAAGTAACCCTAAACCCTAAT
65 AATTAATTTACTCAAGTAACCCTAAACCCTAAT
* * *
7981478 TTATTTGATTTTTTCCTTAAAAACCATAAACATTAAACCCTAATCTAA-CTTTTTAAAATTTATA
1 TTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATA
* * * *
7981542 ATTAATTTAATTAAGAAACCCTAAATCCTAA
66 ATTAATTTACTCAAGTAACCCTAAACCCTAA
7981573 ACCCTTATTT
Statistics
Matches: 174, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
96 51 0.29
97 122 0.70
98 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (97 bp):
TTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATA
ATTAATTTACTCAAGTAACCCTAAACCCTAAT
Found at i:7981634 original size:16 final size:16
Alignment explanation
Indices: 7981599--7981640 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
7981589 TTTTTTCCTT
*
7981599 AAAACTCTAAAATCTA
1 AAAACTCTAAAATCCA
*
7981615 AAAACTCTAAAATCCC
1 AAAACTCTAAAATCCA
*
7981631 AAAACCCTAA
1 AAAACTCTAA
7981641 CTCTAATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAACTCTAAAATCCA
Found at i:7984126 original size:9 final size:9
Alignment explanation
Indices: 7984112--7984137 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7984102 GCTATAGTGC
7984112 TAACTAACT
1 TAACTAACT
7984121 TAACTAACT
1 TAACTAACT
7984130 TAACTAAC
1 TAACTAAC
7984138 ACTAAGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (9 bp):
TAACTAACT
Found at i:7987015 original size:2 final size:2
Alignment explanation
Indices: 7987008--7987039 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7986998 TATGCTTAAC
*
7987008 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7987040 TACCATCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7987701 original size:22 final size:22
Alignment explanation
Indices: 7987673--7987718 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
7987663 GATTAAGTAA
7987673 ATCACTAGGATCAACTCCCATT
1 ATCACTAGGATCAACTCCCATT
*
7987695 ATCACTAGGATTAACTCCCATT
1 ATCACTAGGATCAACTCCCATT
7987717 AT
1 AT
7987719 ATGATTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.30
Consensus pattern (22 bp):
ATCACTAGGATCAACTCCCATT
Found at i:7991215 original size:17 final size:18
Alignment explanation
Indices: 7991169--7991217 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
7991159 ACTGGAAAAC
*
7991169 ATGTATGTGAATGTATGT
1 ATGTATGTCAATGTATGT
*
7991187 ATGAAT-TCAATGTATGT
1 ATGTATGTCAATGTATGT
7991204 ATGTATGT-AATGTA
1 ATGTATGTCAATGTA
7991218 CGCTGCCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (18 bp):
ATGTATGTCAATGTATGT
Found at i:7992861 original size:24 final size:24
Alignment explanation
Indices: 7992821--7992874 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
7992811 AACTTTTCTA
7992821 TCAAAGTTATCAATAAA-TTTGAC
1 TCAAAGTTATCAATAAACTTTGAC
*
7992844 TTCAAA-TTTTCAAGTAAACTTTTGAC
1 -TCAAAGTTATCAA-TAAAC-TTTGAC
7992870 TCAAA
1 TCAAA
7992875 ATTTGTGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 6 0.23
24 9 0.35
25 5 0.19
26 6 0.23
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (24 bp):
TCAAAGTTATCAATAAACTTTGAC
Found at i:7993664 original size:16 final size:15
Alignment explanation
Indices: 7993638--7993685 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
7993628 CCATATGACA
7993638 TATTTTT-ATATTATT
1 TATTTTTAATATT-TT
7993653 TATTTTTAATATTTT
1 TATTTTTAATATTTT
7993668 TATTTTGTAATTATTTT
1 TATTTT-TAA-TATTTT
7993685 T
1 T
7993686 TAACTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 15 0.50
16 8 0.27
17 7 0.23
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
TATTTTTAATATTTT
Found at i:8006862 original size:12 final size:12
Alignment explanation
Indices: 8006845--8006870 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8006835 CGACGACGAC
8006845 GATGATGATGGT
1 GATGATGATGGT
8006857 GATGATGATGGT
1 GATGATGATGGT
8006869 GA
1 GA
8006871 ATCAAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.31
Consensus pattern (12 bp):
GATGATGATGGT
Found at i:8017267 original size:18 final size:16
Alignment explanation
Indices: 8017226--8017272 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
8017216 CTTACAAGTT
8017226 TATTTTTTGTTTTCAG
1 TATTTTTTGTTTTCAG
*
8017242 T-TTGTTTTGTTTTCTG
1 TATT-TTTTGTTTTCAG
8017258 CTATTATTTTGTTTT
1 -TATT-TTTTGTTTT
8017273 TATTTTGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 2 0.08
16 12 0.46
17 1 0.04
18 11 0.42
ACGTcount: A:0.09, C:0.06, G:0.13, T:0.72
Consensus pattern (16 bp):
TATTTTTTGTTTTCAG
Found at i:8021928 original size:78 final size:78
Alignment explanation
Indices: 8021775--8021931 Score: 280
Period size: 79 Copynumber: 2.0 Consensus size: 78
8021765 GACGTGATCG
8021775 ACTATTTTCAAATTTAACTGATTAATTGACTGATATAAGTCTTAATGAATCTAATCGAACTAACC
1 ACTATTTTCAAATTTAACTGATTAATTGACTGATATAAGTCTTAATGAATCTAATCGAACTAACC
8021840 TAATATTTTTTTT
66 TAATATTTTTTTT
8021853 ACTATTTTCAAATTTAACTGATTAATTGAC-GAATATATAGTCTTAATGAATCTAATCGAACTAA
1 ACTATTTTCAAATTTAACTGATTAATTGACTG-ATATA-AGTCTTAATGAATCTAATCGAACTAA
*
8021917 CTTAATATTTTTTTT
64 CCTAATATTTTTTTT
8021932 TGATTTCGTC
Statistics
Matches: 76, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
77 1 0.01
78 35 0.46
79 40 0.53
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (78 bp):
ACTATTTTCAAATTTAACTGATTAATTGACTGATATAAGTCTTAATGAATCTAATCGAACTAACC
TAATATTTTTTTT
Found at i:8023693 original size:21 final size:23
Alignment explanation
Indices: 8023667--8023712 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
8023657 TAAAGGATAT
*
8023667 TTAC-AAATTAAATC-TCTAAGA
1 TTACAAAATCAAATCTTCTAAGA
*
8023688 TTACAAAATCATATCTTCTAAGA
1 TTACAAAATCAAATCTTCTAAGA
8023711 TT
1 TT
8023713 GCATATCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 9 0.43
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (23 bp):
TTACAAAATCAAATCTTCTAAGA
Found at i:8023711 original size:23 final size:22
Alignment explanation
Indices: 8023667--8023725 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
8023657 TAAAGGATAT
* *
8023667 TTACAAATTAAATC-TCTAAGA
1 TTACAAATCATATCTTCTAAGA
8023688 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
* *
8023711 TTGCATATCATATCT
1 TTACAAATCATATCT
8023726 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.56
23 10 0.31
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:8024422 original size:44 final size:44
Alignment explanation
Indices: 8024374--8024556 Score: 124
Period size: 44 Copynumber: 4.2 Consensus size: 44
8024364 AGATTCGTCG
*
8024374 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
* * * * * ****
8024418 TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGA-CTGGTG
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
* * * * * *
8024461 GCTTAAATCTGCTTCC-CTACTATCTT-GGGAAGATAAGATTCGT-C-G
1 TCTTCAATCTGC-TCCACTACT-GCTTAGGG-AGACAGGA-TC-TACAA
**
8024506 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
8024550 TCTTCAA
1 TCTTCAA
8024557 CCTACTTCAC
Statistics
Matches: 101, Mismatches: 28, Indels: 20
0.68 0.19 0.13
Matches are distributed among these distances:
42 1 0.01
43 20 0.20
44 60 0.59
45 18 0.18
46 1 0.01
47 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.30
Consensus pattern (44 bp):
TCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
Found at i:8024545 original size:132 final size:132
Alignment explanation
Indices: 8024178--8024569 Score: 626
Period size: 131 Copynumber: 3.0 Consensus size: 132
8024168 CACTACAACT
* * * * *
8024178 TCAGGGAGATAAGG-TTGGTGGCTTAAATCTGCTTCACTACTACCTCGGGAAGATAAGACTCGCC
1 TCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACTATCTCGGGAAGATAAGATTCGTC
* * * *
8024242 GTCTTTGATCTGCTCCACTACTGCTCAGGGAGACAGGATATACAATCTTCAACCTAATCCACTAC
65 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGC
8024307 TGC
130 TGC
** *
8024310 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT-CCTACTATCTCAAGAAAATAAGATTCGTCG
1 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTATCTCGGGAAGATAAGATTCGTCG
*
8024374 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCT
8024439 GC
131 GC
*
8024441 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTATCTTGGGAAGATAAGATTCGTCG
1 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTATCTCGGGAAGATAAGATTCGTCG
*
8024506 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTTCACTGC
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGC
8024570 AAACTCAGAG
Statistics
Matches: 239, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
131 122 0.51
132 117 0.49
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (132 bp):
TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTATCTCGGGAAGATAAGATTCGTCG
TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCT
GC
Found at i:8024689 original size:89 final size:89
Alignment explanation
Indices: 8024566--8025031 Score: 524
Period size: 89 Copynumber: 5.2 Consensus size: 89
8024556 ACCTACTTCA
* * * * *
8024566 CTGCAAACTC-AGAGAGGTAAGGCTGGTGTTTTCGATCTACTTCACTGCCAGTATAGAAAGACAA
1 CTGCAAACTCAAG-GAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGAAAGACAA
* *
8024630 GATCTGCTTTTTTCAGTCTGCTCCG
65 GATCTGCTATCTTCAGTCTGCTCCG
* *
8024655 CTGCAAACTCATGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAATACA-AGAAGACAA
1 CTGCAAACTCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGA-AAGACAA
*
8024719 GATCTGCTATCTTCAGTCTGCACCG
65 GATCTGCTATCTTCAGTCTGCTCCG
* * * * *
8024744 CTGCAAACTCAAGGAGACAAGGCTGATGTCTTCGATCTGTTTTGCTGCCAGTACAGGAAGACAAG
1 CTGCAAACTCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGAAAGACAAG
* *
8024809 ATCTGATATCGTCAGTCTGCTCCG
66 ATCTGCTATCTTCAGTCTGCTCCG
* * * * * ** * * *
8024833 CTGCAAACTCAGGGAGGCAAGACTAGTGCCTTTGATCTAATTCACTGCCAATACA-AGAATACAA
1 CTGCAAACTCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGA-AAGACAA
* * * *
8024897 GATCTGTTATATTCAGTCTGCACTG
65 GATCTGCTATCTTCAGTCTGCTCCG
* * * * *
8024922 CTGTAAACTCAGGGAGACAAGGCCGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAAG
1 CTGCAAACTCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGAAAGACAAG
* **
8024987 ATCTGCTATCGTCAGTCTGCTCTA
66 ATCTGCTATCTTCAGTCTGCTCCG
*
8025011 CTGTAAACTCAAGGAGGCAAG
1 CTGCAAACTCAAGGAGGCAAG
8025032 ACTTGTAACT
Statistics
Matches: 313, Mismatches: 59, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
88 1 0.00
89 311 0.99
90 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (89 bp):
CTGCAAACTCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGAAAGACAAG
ATCTGCTATCTTCAGTCTGCTCCG
Found at i:8024851 original size:178 final size:178
Alignment explanation
Indices: 8024566--8025034 Score: 625
Period size: 178 Copynumber: 2.6 Consensus size: 178
8024556 ACCTACTTCA
** * * * * *
8024566 CTGCAAACTC-AGAGAGGTAAGGCTGGTGTTTTCGATCTACTTCACTGCCAGTATAGAAAGACAA
1 CTGCAAACTCAAG-GAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAA
* ** * * * * **
8024630 GATCTGCTTTTTTCAGTCTGCTCCGCTGCAAACTCATGGAGGCAAGGCTGGTGTCTTCGATCTGC
65 GATCTGCTATCGTCAGTCTGCTCCGCTGCAAACTCAAGGAGGCAAGACTAGTGCCTTCGATCTAA
* *
8024695 TTCGCTGCCAATACAAGAAGACAAGATCTGCTATCTTCAGTCTGCACCG
130 TTCACTGCCAATACAAGAAGACAAGATCTGCTATATTCAGTCTGCACCG
* * *
8024744 CTGCAAACTCAAGGAGACAAGGCTGATGTCTTCGATCTGTTTTGCTGCCAGTACAGGAAGACAAG
1 CTGCAAACTCAAGGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAAG
* * *
8024809 ATCTGATATCGTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAGACTAGTGCCTTTGATCTAAT
66 ATCTGCTATCGTCAGTCTGCTCCGCTGCAAACTCAAGGAGGCAAGACTAGTGCCTTCGATCTAAT
* * *
8024874 TCACTGCCAATACAAGAATACAAGATCTGTTATATTCAGTCTGCACTG
131 TCACTGCCAATACAAGAAGACAAGATCTGCTATATTCAGTCTGCACCG
* * *
8024922 CTGTAAACTCAGGGAGACAAGGCCGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAAG
1 CTGCAAACTCAAGGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAAG
** *
8024987 ATCTGCTATCGTCAGTCTGCTCTACTGTAAACTCAAGGAGGCAAGACT
66 ATCTGCTATCGTCAGTCTGCTCCGCTGCAAACTCAAGGAGGCAAGACT
8025035 TGTAACTTTA
Statistics
Matches: 253, Mismatches: 37, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
178 251 0.99
179 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (178 bp):
CTGCAAACTCAAGGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAAG
ATCTGCTATCGTCAGTCTGCTCCGCTGCAAACTCAAGGAGGCAAGACTAGTGCCTTCGATCTAAT
TCACTGCCAATACAAGAAGACAAGATCTGCTATATTCAGTCTGCACCG
Found at i:8025149 original size:45 final size:45
Alignment explanation
Indices: 8025090--8025222 Score: 180
Period size: 45 Copynumber: 3.0 Consensus size: 45
8025080 TTGGCTTTAA
8025090 TCTGCTCC-ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGC-CCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
* * **
8025135 TCTGCCCTACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTCAG
1 TCTGCCCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
* *
8025180 TCTGCTCTACTGCAACTTTAGGGAGATAAGATTCT-CCATCTTC
1 TCTGCCCTACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTC
8025223 TTCAATCCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
44 2 0.03
45 73 0.96
46 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (45 bp):
TCTGCCCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
Found at i:8025531 original size:24 final size:24
Alignment explanation
Indices: 8025499--8025554 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
8025489 CAGATTGCCC
*
8025499 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGCTCAAT
*
8025523 CCACTGTAATCTTTAAGGCTCAAT
1 CCACTGTAATCTTCAAGGCTCAAT
*
8025547 CTACTGTA
1 CCACTGTA
8025555 CTTTTGGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGCTCAAT
Found at i:8026534 original size:49 final size:49
Alignment explanation
Indices: 8026476--8026571 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
8026466 CTTTTTTTTT
* * * *
8026476 TCTTTTTTTATGACTCAAAGCGTCTTTTATGGGTTTTCACCTTGGTCTC
1 TCTTTTTTTAGGACTCAAAGCGCCCTTTATGAGTTTTCACCTTGGTCTC
* *
8026525 TCTTTTTTTAGGACTCAAAGCGCCCTTTGTGAGTTTTCATCTTGGTC
1 TCTTTTTTTAGGACTCAAAGCGCCCTTTATGAGTTTTCACCTTGGTC
8026572 ATTTTTCCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (49 bp):
TCTTTTTTTAGGACTCAAAGCGCCCTTTATGAGTTTTCACCTTGGTCTC
Found at i:8027521 original size:6 final size:6
Alignment explanation
Indices: 8027507--8027584 Score: 67
Period size: 6 Copynumber: 13.7 Consensus size: 6
8027497 GGCCTCTCCT
* * * * *
8027507 TTTTC- TTTTCA TTTTCT TTTTCC TTCTCT TTTTC- TTTTCT TTTTCCA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT-CA
8027554 ---TCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
8027585 TTTGAAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
3 2 0.03
4 1 0.02
5 10 0.16
6 47 0.77
7 1 0.02
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:8027572 original size:23 final size:23
Alignment explanation
Indices: 8027512--8027573 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
8027502 CTCCTTTTTC
* *
8027512 TTTTCATTTTCTTTTTCCTTCTCT
1 TTTTCATTTTCTTTTTCC-TATCA
8027536 TTTTC-TTTTCTTTTTCC-ATCA
1 TTTTCATTTTCTTTTTCCTATCA
*
8027557 TTTTCATTTTCATTTTC
1 TTTTCATTTTCTTTTTC
8027574 ATTTTCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.21
22 10 0.29
23 12 0.35
24 5 0.15
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTCATTTTCTTTTTCCTATCA
Found at i:8027621 original size:10 final size:9
Alignment explanation
Indices: 8027593--8027618 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8027583 TTTTTGAAAT
8027593 ATTTTTTTG
1 ATTTTTTTG
8027602 ATTTTTTTG
1 ATTTTTTTG
8027611 ATTTTTTT
1 ATTTTTTT
8027619 TGAAACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.81
Consensus pattern (9 bp):
ATTTTTTTG
Found at i:8032492 original size:14 final size:14
Alignment explanation
Indices: 8032454--8032491 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
8032444 GCTTTCTGTT
8032454 TTTA-TCTA-TTTA
1 TTTATTCTATTTTA
8032466 TTTATTCTATTTTA
1 TTTATTCTATTTTA
8032480 TTT-TTCTATTTT
1 TTTATTCTATTTT
8032492 TGCAAACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 4 0.17
13 13 0.54
14 7 0.29
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTCTATTTTA
Found at i:8038186 original size:28 final size:27
Alignment explanation
Indices: 8038142--8038195 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
8038132 ACTTCACTCG
*
8038142 AAAAAAAAGAAA-TAAAAAGTAAAAAGA
1 AAAAAAAAGAAAGAAAAAAG-AAAAAGA
*
8038169 AAAAGAAAAGAACGAAAAAAGAAAAAG
1 AAAA-AAAAGAAAGAAAAAAGAAAAAG
8038196 GAGAGACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 13 0.57
29 6 0.26
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.04
Consensus pattern (27 bp):
AAAAAAAAGAAAGAAAAAAGAAAAAGA
Found at i:8039251 original size:44 final size:44
Alignment explanation
Indices: 8039040--8039251 Score: 130
Period size: 44 Copynumber: 4.8 Consensus size: 44
8039030 AAATTACAAG
* * ** * *
8039040 TCCTATATCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
* * ** * **
8039084 TCTTATCTCCCTAAGTAGTAGTGGAATAGATAGAAGACGGT-GAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAG-A
* * * *
8039128 TCCTATCTTCCTAAG-A-TAGTAGGAAGCAAATTTAAGCCA-T-CAG-
1 TCCTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATTGTAGA
* * * *
8039171 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
* *
8039215 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
8039252 CAGCGAATCT
Statistics
Matches: 123, Mismatches: 34, Indels: 22
0.69 0.19 0.12
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 27 0.22
44 85 0.69
45 4 0.03
46 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
Found at i:8039276 original size:131 final size:131
Alignment explanation
Indices: 8039038--8039341 Score: 448
Period size: 131 Copynumber: 2.3 Consensus size: 131
8039028 TGAAATTACA
* *
8039038 AGTCCTATATCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTAGT
1 AGTCCTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* * * * *
8039103 AGTGGAATAGATAGAAGACGGTGAATCCTATCTTCCTAAGATAGTAGGAAGCAAATTTAAGCCA-
66 AGTGGAACAGATAGAAGACAGCGAATCCTATATTCCCAAGATAGTAGGAAGCAAATTTAAGCCAC
8039167 T
131 T
*
8039168 CAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 -AGTCCTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * * * *
8039233 TAGTGGAGCAGATCGAAGACAGCGAATCTTATATTCCCGAGATAGTAGGAAGTAGATTTAAGCCA
65 TAGTGGAACAGATAGAAGACAGCGAATCCTATATTCCCAAGATAGTAGGAAGCAAATTTAAGCCA
8039298 CT
130 CT
* *
8039300 AGTCCTATCTCCTTGAGCAATAGTGGAGTAGGTTGAAGATTG
1 AGTCCTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTG
8039342 AAGCCGCAAC
Statistics
Matches: 155, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 154 0.99
132 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (131 bp):
AGTCCTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
AGTGGAACAGATAGAAGACAGCGAATCCTATATTCCCAAGATAGTAGGAAGCAAATTTAAGCCAC
T
Found at i:8039395 original size:50 final size:50
Alignment explanation
Indices: 8039336--8039518 Score: 231
Period size: 50 Copynumber: 3.7 Consensus size: 50
8039326 AGTAGGTTGA
* *
8039336 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * * * ** * ** *
8039386 AGATTGAAGCTACAACGGTAAATCTTGCTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* *
8039436 AGATTGAAGCCACAACGGTGAATCTTACTTCCTTGGTGGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
*
8039486 AGATTGAAGCTACAACGGTGAATCTTACTTCCC
1 AGATTGAAGCCACAACGGTGAATCTTACTTCCC
8039519 CGACATTGTA
Statistics
Matches: 107, Mismatches: 26, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 107 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
Found at i:8039459 original size:100 final size:100
Alignment explanation
Indices: 8039335--8039526 Score: 321
Period size: 100 Copynumber: 1.9 Consensus size: 100
8039325 GAGTAGGTTG
*
8039335 AAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACA
* *
8039400 ACGGTAAATCTTGCTTCCCTGACATTGCAATTAAA
66 ACGGTAAATCTTACTTCCCCGACATTGCAATTAAA
* * *
8039435 AAGATTGAAGCCACAACGGTGAATCTTACTTCCTTGGTGGTGCAGTGGAACAGATTGAAGCTACA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACA
*
8039500 ACGGTGAATCTTACTTCCCCGACATTG
66 ACGGTAAATCTTACTTCCCCGACATTG
8039527 TAGTTAATTA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (100 bp):
AAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACA
ACGGTAAATCTTACTTCCCCGACATTGCAATTAAA
Found at i:8039635 original size:44 final size:44
Alignment explanation
Indices: 8039555--8039650 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
8039545 ATAGCAAATA
* **** * *
8039555 TTATCTCCCTGAGGTTGCAGTGGAGCGGGTTGAAGATACGAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATACGAATC
*
8039599 TTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATATGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATACGAATC
*
8039643 CTATCTCC
1 TTATCTCC
8039651 TAGAGCAGCA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATACGAATC
Found at i:8039792 original size:131 final size:132
Alignment explanation
Indices: 8039641--8039956 Score: 474
Period size: 131 Copynumber: 2.4 Consensus size: 132
8039631 AAGATATGAA
* *
8039641 TCCTATCT-CCTAGAGCAGCAGTGGAGTAAGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTA
1 TCCTATCTCCCT-GAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTA
8039705 GCGGAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGATAGTA-GGAAGCAGATTTAAGCCAC
65 GCGGAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCAC
8039769 CAG
130 CAG
*
8039772 TCCTATCTCCCTGAGCAGCAGTGGAATAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAG
* * * * * *
8039837 TGGAGTAGATCAAAGATGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACC
66 CGGAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACC
8039902 AG
131 AG
* * * * **
8039904 CCCTATCTCCTTAAGCAGTAGTGGAGTAGGTTGAAGATTACAGATCTTATCTC
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTC
8039957 TCTGAAGTTG
Statistics
Matches: 167, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
131 97 0.58
132 70 0.42
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (132 bp):
TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAG
CGGAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACC
AG
Found at i:8039853 original size:44 final size:44
Alignment explanation
Indices: 8039644--8039853 Score: 110
Period size: 44 Copynumber: 4.8 Consensus size: 44
8039634 ATATGAATCC
* *
8039644 TATCT-CCTAGAGCAGCAGTGGAGTA-AGTCGAAGATTGTAGATCT
1 TATCTCCCTA-AGCAGTAGTGGAGTAGA-TCAAAGATTGTAGATCT
* * * * **
8039688 TATCTCCCTAAGCAGTAGCGGAGCAAATCAAAGA-CGGCGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATTGTAG-ATCT
* ** ***** *
8039732 TATCTTCCC-AAG-A-TAGTAGGAAGCAGATTTAAGCCACCAG-TCC
1 TATC-TCCCTAAGCAGTAGT-GG-AGTAGATCAAAGATTGTAGATCT
* * * * **
8039775 TATCTCCCTGAGCAGCAGTGGAATAGGTTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATTGTAGATCT
8039819 TATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGAT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGAT
8039854 GGCGAATCTT
Statistics
Matches: 120, Mismatches: 35, Indels: 22
0.68 0.20 0.12
Matches are distributed among these distances:
42 7 0.06
43 23 0.19
44 77 0.64
45 13 0.11
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATTGTAGATCT
Found at i:8040411 original size:129 final size:128
Alignment explanation
Indices: 8040181--8040545 Score: 606
Period size: 129 Copynumber: 2.8 Consensus size: 128
8040171 NNNNNNNNNN
8040181 ATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCC
1 ATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCC
** *
8040246 CTGAAGTTGCAGTGGAGCAGACAAAAGAAGTCAATCCTATCTCCCTAAAGTTGCAGTGGATCGG
66 CT-AAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGG
*
8040310 ATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCGCATCCAGTCTTATCTCC
1 ATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCC
*
8040375 CTAAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
66 CT-AAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGG
* *
8040439 ATTAAAACCACAGGTCTTATCTCTCTGAAGTTGCAGCAGAGCAGAT-GCATCCAGTCTTATCTCC
1 ATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCC
** * *
8040503 CTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCC
66 CTAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCC
8040546 TTGAGCAGCA
Statistics
Matches: 223, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
127 37 0.17
128 20 0.09
129 166 0.74
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (128 bp):
ATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCC
CTAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGG
Found at i:8040460 original size:44 final size:42
Alignment explanation
Indices: 8040183--8040484 Score: 221
Period size: 44 Copynumber: 7.0 Consensus size: 42
8040173 NNNNNNNNAT
* *
8040183 TAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 TAAAACCACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
*** * *
8040226 TCGCATC-CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TAAAACCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* ** * * * *
8040267 CAAAAGAAGTCAATCCTATCTCCCTAAAGTTGCAGTGGATCGGA
1 TAAAACCA--CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * *
8040311 TTAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGA
1 -TAAAACCACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
*** * * *
8040355 TCGCATC-CAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
1 TAAAACCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* ** * *
8040396 CAAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGA
1 TAAAA-CCA-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * **
8040440 TTAAAACCACAGGTCTTATCTCTCTGAAGTTGCAGCAGAGCAGA
1 -TAAAACCACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
8040484 T
1 T
8040485 GCATCCAGTC
Statistics
Matches: 193, Mismatches: 56, Indels: 20
0.72 0.21 0.07
Matches are distributed among these distances:
41 58 0.30
42 4 0.02
43 11 0.06
44 111 0.58
45 9 0.05
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (42 bp):
TAAAACCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
Found at i:8040653 original size:44 final size:45
Alignment explanation
Indices: 8040603--8040699 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
8040593 AGCAGTAGTG
* *
8040603 GAGCAGATCTAAGAAAC-CA-ATCCTATCTCTCTGAAATTGCAGTA
1 GAGCAGATCTAA-AAACACAGATCCTATCTCTCTGAAATTACAGAA
* * * *
8040647 GAGCAGA-GTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAA
1 GAGCAGATCTAAAAACACAGATCCTATCTCTCTGAAATTACAGAA
8040691 GAGCAGATC
1 GAGCAGATC
8040700 GCATCTAGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
42 3 0.07
43 5 0.12
44 35 0.81
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.23
Consensus pattern (45 bp):
GAGCAGATCTAAAAACACAGATCCTATCTCTCTGAAATTACAGAA
Found at i:8040672 original size:87 final size:86
Alignment explanation
Indices: 8040456--8040675 Score: 204
Period size: 87 Copynumber: 2.6 Consensus size: 86
8040446 CCACAGGTCT
* * **
8040456 TATCTCTCTGAAGTTGCAGCAGAGCAGA-T-GCATCCAG-TCTTATCTCCCTAAGCAGTAGTGGA
1 TATCTCTCTGAAATTGCAGTAGAGCAGAGTAAAATCCAGATCTTATCTCCCTAAGCAGTAGTGGA
8040518 GCAGACAGAAGAAACCAATCC
66 GCAGACAGAAGAAACCAATCC
* * * ** * *
8040539 TATCTC-CTTGAGCA--GCAGTAGAGTAG-GTTGAATATTGTAGACCTTATCTTCCTAAGCAGTA
1 TATCTCTC-TGA-AATTGCAGTAGAGCAGAG-T-AA-AATCCAGATCTTATCTCCCTAAGCAGTA
*
8040600 GTGGAGCAGATC-TAAGAAACCAATCC
61 GTGGAGCAGA-CAGAAGAAACCAATCC
*
8040626 TATCTCTCTGAAATTGCAGTAGAGCAGAGTAAAACCACAGATCTTATCTC
1 TATCTCTCTGAAATTGCAGTAGAGCAGAGTAAAATC-CAGATCTTATCTC
8040676 TCTGAAGTTA
Statistics
Matches: 103, Mismatches: 20, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
82 11 0.11
83 10 0.10
86 5 0.05
87 62 0.60
88 14 0.14
89 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (86 bp):
TATCTCTCTGAAATTGCAGTAGAGCAGAGTAAAATCCAGATCTTATCTCCCTAAGCAGTAGTGGA
GCAGACAGAAGAAACCAATCC
Found at i:8041498 original size:14 final size:14
Alignment explanation
Indices: 8041460--8041497 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
8041450 GCTTTCTGTT
8041460 TTTA-TCTA-TTTA
1 TTTATTCTATTTTA
8041472 TTTATTCTATTTTA
1 TTTATTCTATTTTA
8041486 TTT-TTCTATTTT
1 TTTATTCTATTTT
8041498 TGCAAACCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 4 0.17
13 13 0.54
14 7 0.29
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTCTATTTTA
Found at i:8042523 original size:26 final size:26
Alignment explanation
Indices: 8042489--8042568 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 26
8042479 ATCTTAAAAT
*
8042489 ATACGTATACTTATATATATTTTATA
1 ATACATATACTTATATATATTTTATA
*
8042515 ATACATATA-TGTAAATATATTTTATA
1 ATACATATACT-TATATATATTTTATA
* *
8042541 ATTTATATATACATATATAT-TTGTTATA
1 A--TACATATACTTATATATATT-TTATA
8042569 TTTTTGACAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.02
26 23 0.52
27 2 0.05
28 18 0.41
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (26 bp):
ATACATATACTTATATATATTTTATA
Found at i:8046512 original size:36 final size:36
Alignment explanation
Indices: 8046451--8046553 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 36
8046441 GGTTCAAGCC
* * * *
8046451 ATCCATTGGTAATATAGAATGTAAGAGATGCA-ACT
1 ATCCATTGATAATATAAAACGTAAGAAATGCATACT
* *
8046486 CATTCATTGATAATATAAAACATAAGAAAATGCATACT
1 -ATCCATTGATAATATAAAACGTAAG-AAATGCATACT
**
8046524 ATCCATTGACGATATAAAACGTAAGAAATG
1 ATCCATTGATAATATAAAACGTAAGAAATG
8046554 TGTAAAGCCC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
36 25 0.45
37 27 0.49
38 3 0.05
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.27
Consensus pattern (36 bp):
ATCCATTGATAATATAAAACGTAAGAAATGCATACT
Found at i:8048017 original size:2 final size:2
Alignment explanation
Indices: 8048010--8048042 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8048000 TGTGTTGCTA
8048010 AT AT AT AT 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 AT AT AT AT A
8048043 ATGATAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8049962 original size:2 final size:2
Alignment explanation
Indices: 8049955--8049991 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8049945 TAACTTATGT
8049955 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8049992 TAATTTCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8051132 original size:19 final size:19
Alignment explanation
Indices: 8051104--8051176 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
8051094 AAATTTTGAG
8051104 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
8051123 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
8051142 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
8051161 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
8051177 ATATATGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:8051155 original size:38 final size:38
Alignment explanation
Indices: 8051104--8051176 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
8051094 AAATTTTGAG
8051104 GATATACAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATACAATCTTAGATATGATATGCAATCTTAGATAT
*
8051142 GATATATAATCTTAGATATGATATGCAATCTTAGA
1 GATATACAATCTTAGATATGATATGCAATCTTAGA
8051177 ATATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (38 bp):
GATATACAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:8051996 original size:23 final size:25
Alignment explanation
Indices: 8051942--8051990 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
8051932 TATGTACATG
* *
8051942 TATATTTTTTTAACGGATATTTTCC
1 TATATTTTTTTAAAGAATATTTTCC
8051967 TATATTTTTTTAAAGAATATTTTC
1 TATATTTTTTTAAAGAATATTTTC
8051991 ATATTTATAT
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:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (25 bp):
TATATTTTTTTAAAGAATATTTTCC
Found at i:8053541 original size:13 final size:13
Alignment explanation
Indices: 8053523--8053547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8053513 AAAGAAAGAA
8053523 AAAAATAAAAAAT
1 AAAAATAAAAAAT
8053536 AAAAATAAAAAA
1 AAAAATAAAAAA
8053548 GAATTAGATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:8054633 original size:127 final size:125
Alignment explanation
Indices: 8054286--8054685 Score: 694
Period size: 125 Copynumber: 3.2 Consensus size: 125
8054276 GATTCGTTAT
* *
8054286 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGTTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
*
8054351 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
*
8054411 TGTGGCTTTAATCTTTTTAACTGTAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
*
8054476 TTCCACTGCATTGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
8054536 TGTGGCTTTAATC-TTTTAACTGCAAATGTCGGTAGTAAACAAGATTCACCAATTTGGCTTTAAT
1 TGTGGCTTTAATCTTTTTAACTGC-AATGTCGG-AG-AAACAAGATTCACCAATTTGGCTTTAAT
* *
8054600 CTATTCCACTGCATCGCTTGGGGCGTAAGATTCGATGTTGTAGCTTTAATCAAGATTTACCGA
63 CTATTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
8054663 TGTGGCTTTAACTCTTTTTAACT
1 TGTGGCTTTAA-TCTTTTTAACT
8054686 AGTCGAACTA
Statistics
Matches: 261, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
124 9 0.03
125 141 0.54
126 2 0.01
127 99 0.38
128 2 0.01
129 8 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (125 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
Found at i:8055714 original size:13 final size:13
Alignment explanation
Indices: 8055696--8055721 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8055686 TAGATATTTC
8055696 ACCCTTTAAACTT
1 ACCCTTTAAACTT
8055709 ACCCTTTAAACTT
1 ACCCTTTAAACTT
8055722 GGTGTTTTCT
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:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
ACCCTTTAAACTT
Found at i:8056187 original size:21 final size:21
Alignment explanation
Indices: 8056161--8056207 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
8056151 GGTATAGCAG
8056161 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
8056182 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
8056203 GATCA
1 GATCA
8056208 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:8056311 original size:7 final size:7
Alignment explanation
Indices: 8056292--8056326 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
8056282 TTAGCCTCTC
8056292 CATTTTT
1 CATTTTT
8056299 -ACTTTTT
1 CA-TTTTT
8056306 CATTTTT
1 CATTTTT
8056313 CATTTTT
1 CATTTTT
8056320 CATTTTT
1 CATTTTT
8056327 TTCATCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 1 0.04
7 24 0.92
8 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:8057175 original size:6 final size:6
Alignment explanation
Indices: 8057166--8057210 Score: 81
Period size: 6 Copynumber: 7.3 Consensus size: 6
8057156 TTGACCTTTC
8057166 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTCTTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTT-TTT CTTTTT CT
8057211 CCTATTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 32 0.84
7 6 0.16
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:8057245 original size:17 final size:16
Alignment explanation
Indices: 8057223--8057279 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
8057213 TATTTTTGGC
8057223 TTTGATTGATTGATTTT
1 TTTGATT-ATTGATTTT
*
8057240 TTTGATTTTTGATTTT
1 TTTGATTATTGATTTT
* *
8057256 TTTTATT-TTGGTTTT
1 TTTGATTATTGATTTT
8057271 TTT-ATTATT
1 TTTGATTATT
8057280 TTTTTTGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 3 0.08
15 12 0.33
16 14 0.39
17 7 0.19
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.74
Consensus pattern (16 bp):
TTTGATTATTGATTTT
Found at i:8057253 original size:16 final size:15
Alignment explanation
Indices: 8057232--8057273 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
8057222 CTTTGATTGA
8057232 TTGATTTTTTTGATTT
1 TTGATTTTTTTGA-TT
*
8057248 TTGATTTTTTTTATT
1 TTGATTTTTTTGATT
*
8057263 TTGGTTTTTTT
1 TTGATTTTTTT
8057274 ATTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.79
Consensus pattern (15 bp):
TTGATTTTTTTGATT
Found at i:8057905 original size:273 final size:273
Alignment explanation
Indices: 8057412--8057929 Score: 874
Period size: 273 Copynumber: 1.9 Consensus size: 273
8057402 CTTGCATGTG
* *
8057412 AAAACTTTCTTTGGTACCAGATTTCTTTCATAAAGCCCTTTTGGGACGCAACTACGACAGAGAAC
1 AAAACCTTCTTTGGTACCAGATTTCTTTCATAAAGCCCTTTTGGGACGCAACTACGACAGAAAAC
*
8057477 TTTGGATCTTCCTCTTTAATCAGGATAAAATCCAACAACATCTTGAAGGGATGGAAACTCGACTT
66 TTTAGATCTTCCTCTTTAATCAGGATAAAATCCAACAACATCTTGAAGGGATGGAAACTCGACTT
* * *
8057542 CAAATGGGCAAAGCTATGCTGACTCAACAAGAGAGGCATTGCCCCGGCAAAAAATTGCGTCGTTC
131 CAAATGGGCAAAGCTATGCTGACTCAACAAGAGAGACATTACCCCAGCAAAAAATTGCGTCGTTC
* * *
8057607 GCACTGTAAATTTCTGACATCGTGCTGTTGTGCAGATTTTATTATAAGAATCGAGGAATACCCTG
196 ACACTGCAAATTTCTGACATCGTGCTATTGTGCAGATTTTATTATAAGAATCGAGGAATACCCTG
8057672 GTATGATCATACA
261 GTATGATCATACA
* *
8057685 AAAACCTTCTTTGGTACCAGATTTCTTTCATAGAGCCCTTTTGGGATGCAACTACGACAGAAAAC
1 AAAACCTTCTTTGGTACCAGATTTCTTTCATAAAGCCCTTTTGGGACGCAACTACGACAGAAAAC
* *
8057750 TTTAGATCTTCCTCTTTAATCAGGATAAAATCCAGCAACATCTTGAAGGGATGGAAACTTGACTT
66 TTTAGATCTTCCTCTTTAATCAGGATAAAATCCAACAACATCTTGAAGGGATGGAAACTCGACTT
* * *
8057815 CAAATGGGCAAAGCTATGCTGACTCAACGAGAGAGACATTACCCCAGCAAAGAATTGTGTCGTTC
131 CAAATGGGCAAAGCTATGCTGACTCAACAAGAGAGACATTACCCCAGCAAAAAATTGCGTCGTTC
* *
8057880 ACACTGCGAATTTCTGACATCGTGCTATTGTGCAGATTTTGTTATAAGAA
196 ACACTGCAAATTTCTGACATCGTGCTATTGTGCAGATTTTATTATAAGAA
8057930 GACAACTTTG
Statistics
Matches: 227, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
273 227 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (273 bp):
AAAACCTTCTTTGGTACCAGATTTCTTTCATAAAGCCCTTTTGGGACGCAACTACGACAGAAAAC
TTTAGATCTTCCTCTTTAATCAGGATAAAATCCAACAACATCTTGAAGGGATGGAAACTCGACTT
CAAATGGGCAAAGCTATGCTGACTCAACAAGAGAGACATTACCCCAGCAAAAAATTGCGTCGTTC
ACACTGCAAATTTCTGACATCGTGCTATTGTGCAGATTTTATTATAAGAATCGAGGAATACCCTG
GTATGATCATACA
Found at i:8059615 original size:19 final size:20
Alignment explanation
Indices: 8059586--8059634 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
8059576 CACTTCCTGA
* *
8059586 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
8059605 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
8059625 AAATG-AATGC
1 AAATGTAATGC
8059635 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:8061336 original size:5 final size:4
Alignment explanation
Indices: 8061304--8061367 Score: 53
Period size: 4 Copynumber: 16.0 Consensus size: 4
8061294 CAATCATAGC
* *
8061304 AAAT AAAT AAAT AAAT AAAT AAACT AAAGT AAA- AAA- AAA- AGAAC ACAT
1 AAAT AAAT AAAT AAAT AAAT AAA-T AAA-T AAAT AAAT AAAT A-AAT AAAT
*
8061352 AAAT AAAT ACAT AAAT
1 AAAT AAAT AAAT AAAT
8061368 GAACATAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
3 7 0.14
4 35 0.69
5 9 0.18
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:8061543 original size:10 final size:11
Alignment explanation
Indices: 8061512--8061554 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
8061502 CGTGAATTAC
*
8061512 AAAATATTTAT
1 AAAATATATAT
8061523 AAAATATATAT
1 AAAATATATAT
*
8061534 AAAAATATATTTT
1 -AAAATATA-TAT
8061547 AAAATATA
1 AAAATATA
8061555 AAGGATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 10 0.36
12 16 0.57
13 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAATATATAT
Found at i:8061585 original size:17 final size:17
Alignment explanation
Indices: 8061565--8061598 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8061555 AAGGATAAAT
*
8061565 AAATATGTATATATATA
1 AAATATGTACATATATA
*
8061582 AAATGTGTACATATATA
1 AAATATGTACATATATA
8061599 TTTAGGTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (17 bp):
AAATATGTACATATATA
Found at i:8062011 original size:3 final size:3
Alignment explanation
Indices: 8062003--8062114 Score: 113
Period size: 3 Copynumber: 37.3 Consensus size: 3
8061993 AAGCTATTAT
* *
8062003 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATG ATA AGTA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
* * *
8062048 ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA GATG ATA AT- ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* *
8062093 AAA ATA ATGA AGA A-A ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA A
8062115 AAATGCTAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
2 6 0.07
3 79 0.87
4 6 0.07
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:8062809 original size:13 final size:13
Alignment explanation
Indices: 8062791--8062815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8062781 AAAGAAAGAA
8062791 AAAAATAAAAAAT
1 AAAAATAAAAAAT
8062804 AAAAATAAAAAA
1 AAAAATAAAAAA
8062816 GAATTAGATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:8064140 original size:23 final size:25
Alignment explanation
Indices: 8064086--8064134 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
8064076 TATGTACATG
*
8064086 TATATTTTTTTAACGAATATTTTCC
1 TATATTTTTTTAAAGAATATTTTCC
8064111 TATATTTTTTTAAAGAATATTTTC
1 TATATTTTTTTAAAGAATATTTTC
8064135 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATTTTTTTAAAGAATATTTTCC
Found at i:8064929 original size:98 final size:98
Alignment explanation
Indices: 8064808--8065004 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
8064798 TAAAAAATAA
* * *
8064808 TAAAGGAAATATTCTGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
8064873 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
8064906 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGTCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
8064971 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
8065004 T
1 T
8065005 TTTATTGTAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:8071166 original size:98 final size:98
Alignment explanation
Indices: 8071046--8071242 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
8071036 AAAAAAATAA
* * * *
8071046 TAAAGGAAATATTCTGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTCC
8071111 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
8071144 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGTCCTAACGTATTGGGTGTGATTCC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTCC
8071209 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
8071242 T
1 T
8071243 TTTATTGTAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTCC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:8078500 original size:18 final size:18
Alignment explanation
Indices: 8078478--8078524 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
8078468 GGAAATTATG
8078478 AAAAAAAAGAGTACGAAGT
1 AAAAAAAA-AGTACGAAGT
* *
8078497 AAAAAAAAATTTCGAAGT
1 AAAAAAAAAGTACGAAGT
8078515 ATAAAAAAAA
1 A-AAAAAAAA
8078525 AGAATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.68, C:0.04, G:0.13, T:0.15
Consensus pattern (18 bp):
AAAAAAAAAGTACGAAGT
Found at i:8079447 original size:5 final size:5
Alignment explanation
Indices: 8079437--8079464 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8079427 GAACGAGACA
8079437 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
8079465 TACAAGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:8079640 original size:12 final size:12
Alignment explanation
Indices: 8079623--8079647 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8079613 AAAAGAGAGG
8079623 GTTTGAAAAAGA
1 GTTTGAAAAAGA
8079635 GTTTGAAAAAGA
1 GTTTGAAAAAGA
8079647 G
1 G
8079648 ACGAGTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (12 bp):
GTTTGAAAAAGA
Found at i:8081369 original size:20 final size:20
Alignment explanation
Indices: 8081346--8081400 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
8081336 AGTTCAATTC
*
8081346 AGCTCAATTTTAGCTCAATG
1 AGCTCATTTTTAGCTCAATG
*
8081366 AGCTCGTTTTTAGCTCAATG
1 AGCTCATTTTTAGCTCAATG
8081386 AGCTCATTTTTAGCT
1 AGCTCATTTTTAGCT
8081401 TACTTTAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (20 bp):
AGCTCATTTTTAGCTCAATG
Found at i:8095160 original size:28 final size:26
Alignment explanation
Indices: 8095117--8095194 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
8095107 ATTTCATACC
* *
8095117 TTTTTT-TTTTT-GAATTTTTATGAA
1 TTTTTTATTTTTAAAATTTTGATGAA
*
8095141 CTTTTTATATTTTTAAAATTTTGATGTA
1 -TTTTT-TATTTTTAAAATTTTGATGAA
*
8095169 TTTTTTATTTTTATAA-TTT-ATGAA
1 TTTTTTATTTTTAAAATTTTGATGAA
8095193 TT
1 TT
8095195 ATTTGTTCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.13
25 8 0.18
26 11 0.24
27 10 0.22
28 10 0.22
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (26 bp):
TTTTTTATTTTTAAAATTTTGATGAA
Found at i:8095197 original size:27 final size:27
Alignment explanation
Indices: 8095133--8095198 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
8095123 TTTTTGAATT
*
8095133 TTTATGAACT-TTTTATATTTTTAAAA
1 TTTATGAATTATTTTATATTTTTAAAA
* *
8095159 TTT-TG-ATGTATTTTTTATTTTTATAA
1 TTTATGAAT-TATTTTATATTTTTAAAA
8095185 TTTATGAATTATTT
1 TTTATGAATTATTT
8095199 GTTCACAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 1 0.03
25 3 0.09
26 20 0.61
27 7 0.21
28 2 0.06
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.64
Consensus pattern (27 bp):
TTTATGAATTATTTTATATTTTTAAAA
Found at i:8095433 original size:20 final size:20
Alignment explanation
Indices: 8095410--8095461 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 20
8095400 TTTTAATTTT
*
8095410 AATTTTTTTATTTATTTAGG
1 AATTTTTTTACTTATTTAGG
8095430 AATTTTTTTACAACTTATTTAGG
1 AATTTTTTT---ACTTATTTAGG
8095453 -ATTTTTTTA
1 AATTTTTTTA
8095462 AATAATATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 9 0.32
22 8 0.29
23 10 0.36
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.62
Consensus pattern (20 bp):
AATTTTTTTACTTATTTAGG
Found at i:8096127 original size:20 final size:19
Alignment explanation
Indices: 8096099--8096141 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
8096089 TAATAATATG
*
8096099 TTTAGTTATTTGTT-TTTTAA
1 TTTAATTATTT-TTGTTTT-A
8096119 TTTAATTATTTTTGTTTTA
1 TTTAATTATTTTTGTTTTA
8096138 TTTA
1 TTTA
8096142 GTTTTTCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTAATTATTTTTGTTTTA
Found at i:8096444 original size:92 final size:94
Alignment explanation
Indices: 8096247--8096472 Score: 237
Period size: 92 Copynumber: 2.4 Consensus size: 94
8096237 TGTTAATTCT
* *
8096247 ATATACTATAATAAAACACATGTTGATAGTTCAAGTACTACATTATTAGACATTTTCAAAGTACA
1 ATATACCATAATAAAACACATATTGATAGTTCAAGTACTA-ATTATTAGACATTTTCAAAGTACA
*** *
8096312 AATGCTACATTGGGTATTTTACGAAAGTGC
65 AATGCTACATTAAATATTTTACGAAAGTAC
* *
8096342 ATATACCATAAGAAATCACATATTGATAGTTCAAGTACT-A-TATTAGACATTTTCAAAGTACAT
1 ATATACCATAATAAAACACATATTGATAGTTCAAGTACTAATTATTAGACATTTTCAAAGTACA-
* * *
8096405 ATAT-C-AGATTAAATATTTTATGAAAGTAT
65 A-ATGCTACATTAAATATTTTACGAAAGTAC
* * * *
8096434 GTGTATCATAATAAAACTA-ATATTAATAGTTCAAAGTAC
1 ATATACCATAATAAAAC-ACATATTGATAGTTC-AAGTAC
8096473 ATGTACTACA
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
92 63 0.57
93 10 0.09
94 2 0.02
95 35 0.32
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (94 bp):
ATATACCATAATAAAACACATATTGATAGTTCAAGTACTAATTATTAGACATTTTCAAAGTACAA
ATGCTACATTAAATATTTTACGAAAGTAC
Found at i:8097708 original size:15 final size:16
Alignment explanation
Indices: 8097689--8097726 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
8097679 TTGTGATTTA
8097689 ATTTTT-AT-ATTTTT
1 ATTTTTAATGATTTTT
8097703 ATTTTTAATGATTTTAT
1 ATTTTTAATGATTTT-T
8097720 ATTTTTA
1 ATTTTTA
8097727 TAAGAGGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 2 0.10
16 5 0.24
17 8 0.38
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTTAATGATTTTT
Found at i:8107768 original size:54 final size:54
Alignment explanation
Indices: 8107702--8107853 Score: 146
Period size: 54 Copynumber: 2.8 Consensus size: 54
8107692 GTCTCAACAG
* * * *
8107702 ATTATCCCGTGTTTAATGTCC-AGTTAGACTATTTTGTGTTTAACATCTCGTCGA
1 ATTATCCAGTGTTTAATGTCCTA-TTAGACTATCTCGTGTTTAACATCTCATCGA
* **
8107756 ATTATCCAGTGTTCAATGTCCTATTAGTTTATCTCGTGTTTAACATCTCATCGA
1 ATTATCCAGTGTTTAATGTCCTATTAGACTATCTCGTGTTTAACATCTCATCGA
* ** ** * *
8107810 ACTATCTCA-TGTTTAACATCCCGTTGGACTATCCCGTGTTTAAC
1 ATTATC-CAGTGTTTAATGTCCTATTAGACTATCTCGTGTTTAAC
8107854 TTCCCGTTAA
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
54 76 0.96
55 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (54 bp):
ATTATCCAGTGTTTAATGTCCTATTAGACTATCTCGTGTTTAACATCTCATCGA
Found at i:8107815 original size:27 final size:27
Alignment explanation
Indices: 8107785--8107897 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 27
8107775 CCTATTAGTT
*
8107785 TATCTCGTGTTTAACATCTCATCGAAC
1 TATCTCGTGTTTAACATCCCATCGAAC
* * * *
8107812 TATCTCATGTTTAACATCCCGTTGGAC
1 TATCTCGTGTTTAACATCCCATCGAAC
* * * **
8107839 TATCCCGTGTTTAACTTCCCGTTAAAC
1 TATCTCGTGTTTAACATCCCATCGAAC
* * **
8107866 TATCTCATATTTAACATCCCATTAAAC
1 TATCTCGTGTTTAACATCCCATCGAAC
8107893 TATCT
1 TATCT
8107898 ATGATGTCGT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.38
Consensus pattern (27 bp):
TATCTCGTGTTTAACATCCCATCGAAC
Found at i:8108026 original size:45 final size:45
Alignment explanation
Indices: 8107975--8108103 Score: 143
Period size: 45 Copynumber: 2.9 Consensus size: 45
8107965 ACTATCAAAG
* * *
8107975 GATGCCATAATGTCTTTCAGCCATCGTTTTACTCATTTTCA-TCAT
1 GATGCCATAGTGTCTTTCAGCTATGGTTTTACTCATTTTCATTC-T
** * * *
8108020 GATGCCATAGCATCTTTCAGCTATGGTCTTACTAATTTCCATTCT
1 GATGCCATAGTGTCTTTCAGCTATGGTTTTACTCATTTTCATTCT
* * *
8108065 GATGCTATAGTGCCTTTCAACTATGGTTTTACTCATTTT
1 GATGCCATAGTGTCTTTCAGCTATGGTTTTACTCATTTT
8108104 AGGCTTATAG
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
45 65 0.97
46 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (45 bp):
GATGCCATAGTGTCTTTCAGCTATGGTTTTACTCATTTTCATTCT
Found at i:8111777 original size:23 final size:23
Alignment explanation
Indices: 8111750--8111804 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
8111740 AAACTTATCC
8111750 TCTCTCAAATTTCC-TCTC-AATT
1 TCTCTCAAATTTCCTTC-CAAATT
8111772 TGCTCTCAAA-TTCCTTCCAAATT
1 T-CTCTCAAATTTCCTTCCAAATT
8111795 TCTCTCAAAT
1 TCTCTCAAAT
8111805 CCATATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (23 bp):
TCTCTCAAATTTCCTTCCAAATT
Found at i:8111799 original size:22 final size:21
Alignment explanation
Indices: 8111750--8111804 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
8111740 AAACTTATCC
8111750 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAA-TTCCTCTCAATT
8111772 TGCTCTCAAATTCCT-TCCAAATT
1 T-CTCTCAAATTCCTCT-C-AATT
8111795 TCTCTCAAAT
1 TCTCTCAAAT
8111805 CCATATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 1 0.03
22 16 0.53
23 13 0.43
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (21 bp):
TCTCTCAAATTCCTCTCAATT
Found at i:8111803 original size:11 final size:11
Alignment explanation
Indices: 8111750--8111804 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
8111740 AAACTTATCC
8111750 TCTCTCAAATT
1 TCTCTCAAATT
8111761 TCCTCTC-AATT
1 T-CTCTCAAATT
8111772 TGCTCTCAAATT
1 T-CTCTCAAATT
*
8111784 CCT-TCCAAATT
1 TCTCT-CAAATT
8111795 TCTCTCAAAT
1 TCTCTCAAAT
8111805 CCATATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.03
11 26 0.70
12 10 0.27
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (11 bp):
TCTCTCAAATT
Done.