Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 42 of 410
Found at i:10644508 original size:150 final size:148
Alignment explanation
Indices: 10644117--10644547 Score: 537
Period size: 150 Copynumber: 2.9 Consensus size: 148
10644107 AAGCAGAAAT
* * *
10644117 TGAAAATACCTCAGCGTGC--CCTGAGGCTCAACTCACCTCCCACAATATGAGTTGA-TTTTTGA
1 TGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTGA
* * * **
10644179 AAAACAGAAGTTGAAAATACCTCAGCGTGACCTGAAGCTCAACTCATTTCTCGCAATATGAGTTG
66 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
10644244 ATTTTTTTAAACATAAAT
131 ATTTTTTTAAAAATAAAC
* * * * * * * *
10644262 TGAAAATACCTCGGCATGTGACCCGAGGTTCAACTCACCTCTAGCGACATGAATTGATTTTTTGA
1 TGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTGA
* * * *
10644327 AAAACATAAATTGAAAATATCTTAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
66 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
10644392 ATTTTTTTGAAAAATAGAAAC
131 ATTTTTTT-AAAAAT--AAAC
* * * *
10644413 T-AAAATTCCTCAGCGTGCGACCTGAGGCTCAACTTACATCTCGCAATATGATTTGATTTTTTGA
1 TGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTGA
* * *
10644477 CAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
66 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
10644542 AATTTT
131 ATTTTT
10644548 GAACACAAAA
Statistics
Matches: 238, Mismatches: 42, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
145 16 0.07
147 28 0.12
148 71 0.30
149 5 0.02
150 114 0.48
151 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (148 bp):
TGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTGA
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTAAAAATAAAC
Found at i:10656495 original size:22 final size:20
Alignment explanation
Indices: 10656465--10656526 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 20
10656455 AAAGGTATAT
*
10656465 ATATATACATAATATATAAA
1 ATATTTACATAATATATAAA
*
10656485 ATGCATTTACA-ATATGATGTTAAA
1 AT--ATTTACATA-AT-AT-ATAAA
10656509 ATATTTACATAATATATA
1 ATATTTACATAATATATA
10656527 CATACCATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 17 0.52
23 3 0.09
24 6 0.18
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (20 bp):
ATATTTACATAATATATAAA
Found at i:10656732 original size:47 final size:49
Alignment explanation
Indices: 10656641--10656732 Score: 109
Period size: 47 Copynumber: 1.9 Consensus size: 49
10656631 ATAATAAGGA
* * *
10656641 TAATATATATATATAAAATATACATGATATAGTATAAAATATATATAAC
1 TAATATATATATAAAAAATATACATGATATAGTACAAAACATATATAAC
* *
10656690 TAATA-ATAT-TAAAAAATATATATGGTATA-TACATAAACATATA
1 TAATATATATATAAAAAATATACATGATATAGTACA-AAACATATA
10656733 CGATATATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
46 3 0.08
47 25 0.68
48 4 0.11
49 5 0.14
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (49 bp):
TAATATATATATAAAAAATATACATGATATAGTACAAAACATATATAAC
Found at i:10657214 original size:19 final size:18
Alignment explanation
Indices: 10657190--10657225 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
10657180 AATATGTTCA
10657190 CAACAATAATAATAATAAG
1 CAACAATAAT-ATAATAAG
10657209 CAACAATAATATAATAA
1 CAACAATAATATAATAA
10657226 TAATATAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.64, C:0.11, G:0.03, T:0.22
Consensus pattern (18 bp):
CAACAATAATATAATAAG
Found at i:10657226 original size:24 final size:25
Alignment explanation
Indices: 10657195--10657245 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
10657185 GTTCACAACA
10657195 ATAATAATAATA-AGCAACAA-TAAT
1 ATAATAATAATATAGCAA-AACTAAT
10657219 ATAATAATAATATAGCAAAACTAAT
1 ATAATAATAATATAGCAAAACTAAT
10657244 AT
1 AT
10657246 TACAAATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (25 bp):
ATAATAATAATATAGCAAAACTAAT
Found at i:10659142 original size:104 final size:104
Alignment explanation
Indices: 10658862--10659147 Score: 328
Period size: 101 Copynumber: 2.8 Consensus size: 104
10658852 AAAATATATA
* * *
10658862 TATTGGTGCCGCCACATTTAGAGTTAGTACCAGAGAAATAATTTTTTTTTACTGATTTTGGTGCC
1 TATTGGTGCCACCACATTTAGAGTTGGCACCAGAGAAATAA-TTTTTTTTACTGATTTTGGTGCC
* * *** *
10658927 TTCACATAAAGAGGCGGCACTAAAAAATTCAAAAAACAGT
65 TCCACATGAAGAGGCAAAACTAAAAAATCCAAAAAACAGT
* *
10658967 TGTTGGTGCCGCCACATTTAGAGTTGGCACCAG-GAAAT--TTTTTTTTACTGATTTTGGTGCCT
1 TATTGGTGCCACCACATTTAGAGTTGGCACCAGAGAAATAATTTTTTTTACTGATTTTGGTGCCT
* * * *
10659029 CTACATGAAGAGGCAAAAGTGAAAAATCCAAAAAA-ATT
66 CCACATGAAGAGGCAAAACTAAAAAATCCAAAAAACAGT
* * ** ** *
10659067 TATTGGTGCCACTACATTTGGAGTTGGCATTAGAGAAATAAATTACTTTTACAGATTTTGGTGCC
1 TATTGGTGCCACCACATTTAGAGTTGGCACCAGAGAAAT-AATTTTTTTTACTGATTTTGGTGCC
10659132 TCCACATGAAGAGGCA
65 TCCACATGAAGAGGCA
10659148 GCACCAAAAA
Statistics
Matches: 154, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
100 29 0.19
101 55 0.36
104 40 0.26
105 30 0.19
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (104 bp):
TATTGGTGCCACCACATTTAGAGTTGGCACCAGAGAAATAATTTTTTTTACTGATTTTGGTGCCT
CCACATGAAGAGGCAAAACTAAAAAATCCAAAAAACAGT
Found at i:10659158 original size:104 final size:103
Alignment explanation
Indices: 10658805--10659158 Score: 349
Period size: 104 Copynumber: 3.4 Consensus size: 103
10658795 AAGAAAAAAA
* * * * ** * *
10658805 TTTATTGATTTTAGTGTCTCCACATGAAGAGGC-GACACC-CAAAATGTAAAATATATATATTGG
1 TTTACTGATTTTGGTGCCTCCACATGAAGAGGCAG-CACCAAAAAATCCAAAA-AAATTTATTGG
* *
10658868 TGCCGCCACATTTAGAGTTAGTACCAGAGAAATAATTTTTT
64 TGCCGCCACATTTAGAGTTGGCACCAGAGAAATAA-TTTTT
* * * * * * *
10658909 TTTACTGATTTTGGTGCCTTCACATAAAGAGGCGGCACTAAAAAATTCAAAAAACAGTTGTTGGT
1 TTTACTGATTTTGGTGCCTCCACATGAAGAGGCAGCACCAAAAAATCCAAAAAA-ATTTATTGGT
10658974 GCCGCCACATTTAGAGTTGGCACCAG-GAAAT--TTTTT
65 GCCGCCACATTTAGAGTTGGCACCAGAGAAATAATTTTT
* ** ***
10659010 TTTACTGATTTTGGTGCCTCTACATGAAGAGGCAAAAGTGAAAAATCCAAAAAAATTTATTGGTG
1 TTTACTGATTTTGGTGCCTCCACATGAAGAGGCAGCACCAAAAAATCCAAAAAAATTTATTGGTG
* * * ** **
10659075 CCACTACATTTGGAGTTGGCATTAGAGAAATAAATTACT
66 CCGCCACATTTAGAGTTGGCACCAGAGAAAT-AATTTTT
*
10659114 TTTACAGATTTTGGTGCCTCCACATGAAGAGGCAGCACCAAAAAA
1 TTTACTGATTTTGGTGCCTCCACATGAAGAGGCAGCACCAAAAAA
10659159 GAAACAAAAA
Statistics
Matches: 203, Mismatches: 40, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
100 29 0.14
101 55 0.27
104 78 0.38
105 41 0.20
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (103 bp):
TTTACTGATTTTGGTGCCTCCACATGAAGAGGCAGCACCAAAAAATCCAAAAAAATTTATTGGTG
CCGCCACATTTAGAGTTGGCACCAGAGAAATAATTTTT
Found at i:10659421 original size:49 final size:46
Alignment explanation
Indices: 10659365--10659471 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 46
10659355 TCCAAATAAG
* * **
10659365 AAAAGGTAAAACTACATTGTTTTGATAAATGTTTATCTTTTCTAAAGTT
1 AAAAGGTAAAACTACATTATTTTGATAAATATTTA-CTCAT-T-AAGTT
* **
10659414 AAAAGGTAAAATTATGTTATTTTGATAAATATTTACTCATTAAGTT
1 AAAAGGTAAAACTACATTATTTTGATAAATATTTACTCATTAAGTT
10659460 AAAAGGTAAAAC
1 AAAAGGTAAAAC
10659472 CATTATATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 16 0.32
47 1 0.02
48 3 0.06
49 30 0.60
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (46 bp):
AAAAGGTAAAACTACATTATTTTGATAAATATTTACTCATTAAGTT
Found at i:10663008 original size:16 final size:16
Alignment explanation
Indices: 10662976--10663032 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
10662966 AAAATGCAAC
*
10662976 AATTCAAATTAAAAAAT
1 AATTTAAATT-AAAAAT
10662993 AATTTAAATTAAAAAT
1 AATTTAAATTAAAAAT
* *
10663009 AATCTAAATTTAAAAT
1 AATTTAAATTAAAAAT
10663025 AATTTAAA
1 AATTTAAA
10663033 ACTAAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
16 27 0.75
17 9 0.25
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTTAAATTAAAAAT
Found at i:10663038 original size:16 final size:16
Alignment explanation
Indices: 10662988--10663043 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
10662978 TTCAAATTAA
10662988 AAAATAATTT-AAATT
1 AAAATAATTTAAAATT
* *
10663003 AAAAATAATCTAAATTT
1 -AAAATAATTTAAAATT
*
10663020 AAAATAATTTAAAACT
1 AAAATAATTTAAAATT
10663036 AAAATAAT
1 AAAATAAT
10663044 CCATCATCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
16 30 0.88
17 4 0.12
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATAATTTAAAATT
Found at i:10663407 original size:22 final size:22
Alignment explanation
Indices: 10663374--10663424 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10663364 TCCGAATCAA
* **
10663374 TTATTTTGTTGTTGTTTCACTG
1 TTATTTTATTGTCATTTCACTG
*
10663396 TTGTTTTATTGTCATTTCACTG
1 TTATTTTATTGTCATTTCACTG
10663418 TTATTTT
1 TTATTTT
10663425 GCTATCATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.12, C:0.10, G:0.14, T:0.65
Consensus pattern (22 bp):
TTATTTTATTGTCATTTCACTG
Found at i:10663432 original size:22 final size:22
Alignment explanation
Indices: 10663388--10663436 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
10663378 TTTGTTGTTG
* * *
10663388 TTTCACTGTTGTTTTATTGTCA
1 TTTCACTGTTATTTTACTATCA
*
10663410 TTTCACTGTTATTTTGCTATCA
1 TTTCACTGTTATTTTACTATCA
10663432 TTTCA
1 TTTCA
10663437 TTATTATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.57
Consensus pattern (22 bp):
TTTCACTGTTATTTTACTATCA
Found at i:10664791 original size:29 final size:29
Alignment explanation
Indices: 10664757--10664812 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
10664747 TGATTTTTTT
*
10664757 TTTAATAG-AATAGGGATTAAATTGATCCA
1 TTTAATAGTAA-AGGGACTAAATTGATCCA
*
10664786 TTTAATAGTAAAGGGACTAATTTGATC
1 TTTAATAGTAAAGGGACTAAATTGATC
10664813 TAGTCCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (29 bp):
TTTAATAGTAAAGGGACTAAATTGATCCA
Found at i:10666315 original size:3 final size:3
Alignment explanation
Indices: 10666307--10666332 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10666297 ATCCCATTGC
10666307 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
10666333 GGAAATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10672556 original size:13 final size:14
Alignment explanation
Indices: 10672528--10672563 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
10672518 ACATTAAATT
10672528 TTTAATTTTTGTAA
1 TTTAATTTTTGTAA
10672542 TTTAATTTTTG-AA
1 TTTAATTTTTGTAA
10672555 TTTAGATTT
1 TTTA-ATTT
10672564 CATATTAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (14 bp):
TTTAATTTTTGTAA
Found at i:10673637 original size:2 final size:2
Alignment explanation
Indices: 10673630--10673655 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10673620 AATTGCATAG
10673630 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10673656 TTCTAATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10676713 original size:31 final size:31
Alignment explanation
Indices: 10676678--10676747 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
10676668 TAAAATTTTA
*
10676678 AATATAATAGCGAA-TGATATTTAAATAATTT
1 AATATAATAG-GAACTGATATTTAAATAATCT
* * *
10676709 AATATAATAGTAACTTATATTTAAATGATCT
1 AATATAATAGGAACTGATATTTAAATAATCT
10676740 AATATAAT
1 AATATAAT
10676748 GATATATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 2 0.06
31 32 0.94
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (31 bp):
AATATAATAGGAACTGATATTTAAATAATCT
Found at i:10679348 original size:8 final size:8
Alignment explanation
Indices: 10679335--10679364 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
10679325 AAATACCTTT
10679335 TTTTTTTA
1 TTTTTTTA
10679343 TTTTTTTA
1 TTTTTTTA
10679351 TTTTTTTTA
1 -TTTTTTTA
10679360 TTTTT
1 TTTTT
10679365 AAATTTCGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:10679348 original size:9 final size:9
Alignment explanation
Indices: 10679334--10679364 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
10679324 GAAATACCTT
10679334 TTTTTTTTA
1 TTTTTTTTA
10679343 -TTTTTTTA
1 TTTTTTTTA
10679351 TTTTTTTTA
1 TTTTTTTTA
10679360 TTTTT
1 TTTTT
10679365 AAATTTCGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:10679370 original size:17 final size:17
Alignment explanation
Indices: 10679334--10679370 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10679324 GAAATACCTT
**
10679334 TTTTTTTTATTTTTTTA
1 TTTTTTTTATTTTTAAA
10679351 TTTTTTTTATTTTTAAA
1 TTTTTTTTATTTTTAAA
10679368 TTT
1 TTT
10679371 CGTCAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTTTATTTTTAAA
Found at i:10691238 original size:20 final size:20
Alignment explanation
Indices: 10691215--10691252 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10691205 TATTCTTTTT
* *
10691215 ATTTTGATTTTATTTTATGA
1 ATTTTGAATTTAATTTATGA
10691235 ATTTTGAATTTAATTTAT
1 ATTTTGAATTTAATTTAT
10691253 TTAAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (20 bp):
ATTTTGAATTTAATTTATGA
Found at i:10692124 original size:14 final size:14
Alignment explanation
Indices: 10692105--10692131 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10692095 TAATTTTTTA
10692105 AAAAATCAAAAATT
1 AAAAATCAAAAATT
10692119 AAAAATCAAAAAT
1 AAAAATCAAAAAT
10692132 ACCTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATCAAAAATT
Found at i:10693012 original size:21 final size:20
Alignment explanation
Indices: 10692983--10693021 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10692973 CTATGCTATA
*
10692983 TATTATAAAAATAATATACC
1 TATTATAAAAAAAATATACC
10693003 TATTCATAAAAAAAATATA
1 TATT-ATAAAAAAAATATA
10693022 ATTTTTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
TATTATAAAAAAAATATACC
Found at i:10695610 original size:76 final size:76
Alignment explanation
Indices: 10695510--10695688 Score: 234
Period size: 76 Copynumber: 2.4 Consensus size: 76
10695500 TGATTTCAAT
* * * * *
10695510 TGTGTGCCCAACATTAGTCGGATAAACCAACAGTA-ATTTGCGCCCTACTCTAGTCGGATAAACT
1 TGTGTGCCTAGCATTAGTCGGATAAACCAACAG-AGATTTGCGCCCTACGCTAGTCGAATAAACC
10695574 GGCGAGATCGAA
65 GGCGAGATCGAA
* * * *
10695586 TGTGTGCCTAGCATTAGTCAGATAAACTAATAGAGATTTGCGCCCTGCGCTAGTCGAATAAACCG
1 TGTGTGCCTAGCATTAGTCGGATAAACCAACAGAGATTTGCGCCCTACGCTAGTCGAATAAACCG
*
10695651 GCGAGATTGAA
66 GCGAGATCGAA
* *
10695662 TGTGTGCTTAGCACTAGTCGGATAAAC
1 TGTGTGCCTAGCATTAGTCGGATAAAC
10695689 TGACAATTAC
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
75 1 0.01
76 88 0.99
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (76 bp):
TGTGTGCCTAGCATTAGTCGGATAAACCAACAGAGATTTGCGCCCTACGCTAGTCGAATAAACCG
GCGAGATCGAA
Found at i:10699028 original size:26 final size:26
Alignment explanation
Indices: 10698990--10699047 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
10698980 CATGATATTC
10698990 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10699016 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10699042 TTATCA
1 TTATCA
10699048 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10701078 original size:3 final size:3
Alignment explanation
Indices: 10701072--10701235 Score: 74
Period size: 3 Copynumber: 54.7 Consensus size: 3
10701062 TTTTTTTACA
* *
10701072 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
10701116 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
10701161 CA- TAT TAAT TAT T-T TCT AACG TAT TAT TAT TACT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
*
10701207 T-T CTAGT T-T TAT TAT TAT TAT TAA TAT TA
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TA
10701236 GTGTATGTAT
Statistics
Matches: 119, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 12 0.10
3 95 0.80
4 11 0.09
5 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:10701100 original size:23 final size:23
Alignment explanation
Indices: 10701074--10701119 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10701064 TTTTTACATA
10701074 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
10701097 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
10701120 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:10701259 original size:17 final size:16
Alignment explanation
Indices: 10701237--10701268 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10701227 TTAATATTAG
10701237 TGTATGTATATTATATA
1 TGTATGTATA-TATATA
10701254 TGTATGTATATATAT
1 TGTATGTATATATAT
10701269 TTATATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TGTATGTATATATATA
Found at i:10701358 original size:35 final size:35
Alignment explanation
Indices: 10701330--10701403 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 35
10701320 TATTTGCTTT
10701330 TTATATATT-TCATTA-TTATTTCTAATA-TTATTA
1 TTAT-TATTATCATTATTTATTTCTAATATTTATTA
*
10701363 TTATTATTAGTCATTATTTATTTCTAATATGTATATA
1 TTATTATTA-TCATTATTTATTTCTAATATTTAT-TA
10701400 TTAT
1 TTAT
10701404 GCAAATGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
32 4 0.11
33 4 0.11
34 6 0.17
35 12 0.34
36 3 0.09
37 6 0.17
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (35 bp):
TTATTATTATCATTATTTATTTCTAATATTTATTA
Found at i:10701511 original size:24 final size:23
Alignment explanation
Indices: 10701467--10701580 Score: 100
Period size: 22 Copynumber: 5.2 Consensus size: 23
10701457 TTTTCAATAT
10701467 TATATTTT-ATA-TATTA-T-TA
1 TATATTTTAATACTATTATTATA
*
10701486 TATATTTTAATATTATTAGTTATA
1 TATATTTTAATACTATTA-TTATA
* *
10701510 TATATTTTTATACTATTA-TATG
1 TATATTTTAATACTATTATTATA
* *
10701532 TATATTTATAATATTA-TATTGTA
1 TATATTT-TAATACTATTATTATA
*
10701555 TAT-TTCTAATACTATTATT-TA
1 TATATTTTAATACTATTATTATA
10701576 TATAT
1 TATAT
10701581 GTATGTATAT
Statistics
Matches: 77, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
19 8 0.10
20 3 0.04
21 17 0.22
22 19 0.25
23 12 0.16
24 18 0.23
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (23 bp):
TATATTTTAATACTATTATTATA
Found at i:10701547 original size:44 final size:44
Alignment explanation
Indices: 10701467--10701580 Score: 112
Period size: 44 Copynumber: 2.6 Consensus size: 44
10701457 TTTTCAATAT
*
10701467 TATA-TTTTATA-TATTATTATATATTTTAATATTATTAGT-TATA
1 TATATTTTTATACTATTATTATATATTTTAATAATATTA-TAT-TA
* *
10701510 TATATTTTTATACTATTA-TATGTATATTT-ATAATATTATATTG
1 TATATTTTTATACTATTATTATATAT-TTTAATAATATTATATTA
*
10701553 TATATTTCTAATACTATTATTTATATAT
1 TATATTT-TTATACTATTA-TTATATAT
10701581 GTATGTATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
43 13 0.22
44 32 0.54
45 8 0.14
46 6 0.10
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (44 bp):
TATATTTTTATACTATTATTATATATTTTAATAATATTATATTA
Found at i:10701556 original size:21 final size:21
Alignment explanation
Indices: 10701516--10701578 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
10701506 TATATATATT
*
10701516 TTTATACTATTATA-TGTATA
1 TTTATAATATTATATTGTATA
10701536 TTTATAATATTATATTGTATA
1 TTTATAATATTATATTGTATA
* *
10701557 TTTCTAATACTATTATT-TATA
1 TTTATAATATTA-TATTGTATA
10701578 T
1 T
10701579 ATGTATGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.34
21 21 0.55
22 4 0.11
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTATAATATTATATTGTATA
Found at i:10701605 original size:16 final size:17
Alignment explanation
Indices: 10701584--10701617 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10701574 TATATATGTA
10701584 TGTATATGTGTGT-GTG
1 TGTATATGTGTGTAGTG
*
10701600 TGTATATTTGTGTAGTG
1 TGTATATGTGTGTAGTG
10701617 T
1 T
10701618 ACAAAGTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (17 bp):
TGTATATGTGTGTAGTG
Found at i:10703619 original size:20 final size:20
Alignment explanation
Indices: 10703594--10703637 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10703584 ACTTGAGATA
10703594 AAAAATTG-GACTCGAGAACC
1 AAAAATTGAGAC-CGAGAACC
*
10703614 AAAAATTGAGACCGAGACCC
1 AAAAATTGAGACCGAGAACC
10703634 AAAA
1 AAAA
10703638 CTAGTTGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.50, C:0.20, G:0.18, T:0.11
Consensus pattern (20 bp):
AAAAATTGAGACCGAGAACC
Found at i:10705326 original size:15 final size:15
Alignment explanation
Indices: 10705284--10705326 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10705274 TACTTACTAT
* *
10705284 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
10705299 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
10705313 AAAATAAATAACTT
1 AAAATAAATAACTT
10705327 GAATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:10706406 original size:18 final size:16
Alignment explanation
Indices: 10706383--10706419 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
10706373 TTAATTTATT
10706383 TAATAATAATACTAATTA
1 TAATAATAAT-CTAA-TA
10706401 TAATAATAATCTAATA
1 TAATAATAATCTAATA
10706417 TAA
1 TAA
10706420 AACCATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 4 0.21
18 10 0.53
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATAATAATCTAATA
Found at i:10707924 original size:42 final size:42
Alignment explanation
Indices: 10707861--10707985 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 42
10707851 CTTCGTTTTC
** * *
10707861 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
10707904 T-GATGCCATAGCCCAGCTATGGTCTT--ACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
10707943 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
10707984 TC
1 TC
10707986 TCACTGATGC
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
39 2 0.03
40 35 0.49
41 8 0.11
42 25 0.35
43 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:10708011 original size:46 final size:47
Alignment explanation
Indices: 10707944--10708063 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 47
10707934 ATTCATATAT
* * *
10707944 CGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATATCT-CAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAT-TACAC
* * * * *
10707990 TGATGCCATATCCCGGATATGGTCTTATACAGTAGCATATATTACAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATTACAC
*
10708037 CGATGCCATATCCCAGATATGATCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
10708064 TACGGAAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
46 26 0.43
47 35 0.57
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATTACAC
Found at i:10708084 original size:7 final size:7
Alignment explanation
Indices: 10708072--10708100 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
10708062 TATACGGAAA
10708072 TCACTTG
1 TCACTTG
10708079 TCACTTG
1 TCACTTG
10708086 TCACTTG
1 TCACTTG
10708093 TCACTTG
1 TCACTTG
10708100 T
1 T
10708101 AGCCGAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:10708134 original size:31 final size:31
Alignment explanation
Indices: 10708099--10708247 Score: 237
Period size: 31 Copynumber: 4.8 Consensus size: 31
10708089 CTTGTCACTT
*
10708099 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
10708130 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
10708161 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
10708192 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
10708223 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
10708248 TGTCATTTGT
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 3 0.03
31 104 0.95
32 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:10708330 original size:50 final size:51
Alignment explanation
Indices: 10708229--10708351 Score: 178
Period size: 50 Copynumber: 2.4 Consensus size: 51
10708219 TCAGGTAGCT
* * *
10708229 GAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGAAGCC
*
10708280 GAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGTGAAGCC
1 GAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTGAAGCC
*
10708330 GAAGCTATCACTCATCACTTGT
1 GAAGCTATCACTTATCACTTGT
10708352 TGCCATGGTC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
50 43 0.66
51 22 0.34
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (51 bp):
GAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGAAGCC
Found at i:10711745 original size:22 final size:21
Alignment explanation
Indices: 10711709--10711749 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
10711699 CCAGTCCCAT
10711709 GCATCAGATAATAACAACATG
1 GCATCAGATAATAACAACATG
*
10711730 GCATGCAGTTAATAACAACA
1 GCAT-CAGATAATAACAACA
10711750 GTCAAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.20
Consensus pattern (21 bp):
GCATCAGATAATAACAACATG
Found at i:10713456 original size:31 final size:30
Alignment explanation
Indices: 10713421--10713522 Score: 116
Period size: 31 Copynumber: 3.3 Consensus size: 30
10713411 AATATTAAAT
10713421 TTAATTTAATATTTATCTTGATAGTATTTTA
1 TTAATTTAATATTTATCTTGATA-TATTTTA
* * * **
10713452 TTAATTTAATATTAAT-GTGAGATATTAAA
1 TTAATTTAATATTTATCTTGATATATTTTA
*
10713481 TTTGATTTAATATTTATCTTGATAATATTTTA
1 -TTAATTTAATATTTATCTTGAT-ATATTTTA
10713513 TTAATTTAAT
1 TTAATTTAAT
10713523 GTGAGTAATT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
29 5 0.09
30 18 0.32
31 27 0.48
32 6 0.11
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (30 bp):
TTAATTTAATATTTATCTTGATATATTTTA
Found at i:10718436 original size:15 final size:16
Alignment explanation
Indices: 10718416--10718445 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10718406 ACAAAAATTA
10718416 AAATTAAAAT-TAAAC
1 AAATTAAAATATAAAC
10718431 AAATTAAAATATAAA
1 AAATTAAAATATAAA
10718446 AATTAAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATTAAAATATAAAC
Found at i:10718436 original size:21 final size:23
Alignment explanation
Indices: 10718410--10718452 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
10718400 TAAAATACAA
10718410 AAATTAAAAT-T-AAAATTAAAC
1 AAATTAAAATATAAAAATTAAAC
10718431 AAATTAAAATATAAAAATTAAA
1 AAATTAAAATATAAAAATTAAA
10718453 TCCATAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 1 0.05
23 9 0.45
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (23 bp):
AAATTAAAATATAAAAATTAAAC
Found at i:10726027 original size:5 final size:5
Alignment explanation
Indices: 10726019--10726043 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10726009 ATTATTATAT
10726019 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
10726044 CATAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:10726584 original size:50 final size:50
Alignment explanation
Indices: 10726525--10726625 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
10726515 GTAGTCCAAC
10726525 TCTTAAACAAGTCTAATGGATAATAAATTTTGAGGCTTAATTAAAATCTT
1 TCTTAAACAAGTCTAATGGATAATAAATTTTGAGGCTTAATTAAAATCTT
*
10726575 TCTTAAACAAGTCTAATTGATAATAAATTTTGAGGCTTAATTAAAATCTT
1 TCTTAAACAAGTCTAATGGATAATAAATTTTGAGGCTTAATTAAAATCTT
10726625 T
1 T
10726626 GAGACTTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (50 bp):
TCTTAAACAAGTCTAATGGATAATAAATTTTGAGGCTTAATTAAAATCTT
Found at i:10726707 original size:22 final size:23
Alignment explanation
Indices: 10726659--10726717 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
10726649 ATATTTTTTA
*
10726659 AATAAAAATTTAAAAAAGACTTG
1 AATAAAAACTTAAAAAAGACTTG
**
10726682 AATAAAAA-TTAAAAAATTTCTT-
1 AATAAAAACTTAAAAAA-GACTTG
10726704 AATAAAAACTTAAA
1 AATAAAAACTTAAA
10726718 TCTATTCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 16 0.50
23 16 0.50
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (23 bp):
AATAAAAACTTAAAAAAGACTTG
Found at i:10738345 original size:48 final size:48
Alignment explanation
Indices: 10738274--10738372 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 48
10738264 GGCATAGGCA
* *
10738274 GTTAGGACATTCGTCATTTACTGTTCTTGCCAATATTTTTCCTACTTT
1 GTTAGGACATTCGTCATTTACTGTTCTTGCCAAAATGTTTCCTACTTT
10738322 GTTAGGACATTCGTCATTTACTGTTCTTGCCAAAATGTTTCCTACTTT
1 GTTAGGACATTCGTCATTTACTGTTCTTGCCAAAATGTTTCCTACTTT
10738370 GTT
1 GTT
10738373 TTCAAGAACT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.46
Consensus pattern (48 bp):
GTTAGGACATTCGTCATTTACTGTTCTTGCCAAAATGTTTCCTACTTT
Found at i:10742644 original size:13 final size:13
Alignment explanation
Indices: 10742626--10742650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10742616 TAATATTTTT
10742626 TTGTTTTTTATAA
1 TTGTTTTTTATAA
10742639 TTGTTTTTTATA
1 TTGTTTTTTATA
10742651 TATATTCTTT
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:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (13 bp):
TTGTTTTTTATAA
Found at i:10742696 original size:9 final size:8
Alignment explanation
Indices: 10742682--10742786 Score: 59
Period size: 9 Copynumber: 12.0 Consensus size: 8
10742672 TTGCGCATAT
10742682 TTATTTTAA
1 TTATTTT-A
10742691 TTATTTTA
1 TTATTTTA
10742699 TTATGTTT-
1 TTAT-TTTA
**
10742707 TTCATTCCA
1 TT-ATTTTA
*
10742716 ATATTATTA
1 TTATT-TTA
*
10742725 CTATTATTA
1 TTATT-TTA
10742734 TTATTCTTA
1 TTATT-TTA
10742743 TTATTCTTA
1 TTATT-TTA
*
10742752 TTATTATCA
1 TTATT-TTA
10742761 TTATTATTA
1 TTATT-TTA
*
10742770 CTATTATTA
1 TTATT-TTA
10742779 TTATTTTA
1 TTATTTTA
10742787 AAATTATTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
8 14 0.18
9 65 0.82
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.63
Consensus pattern (8 bp):
TTATTTTA
Found at i:10742732 original size:3 final size:3
Alignment explanation
Indices: 10742717--10742783 Score: 89
Period size: 3 Copynumber: 22.3 Consensus size: 3
10742707 TTCATTCCAA
* * * *
10742717 TAT TAT TAC TAT TAT TAT TAT TCT TAT TAT TCT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
10742765 TAT TAC TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
10742784 TTAAAATTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10756436 original size:3 final size:3
Alignment explanation
Indices: 10756428--10756499 Score: 90
Period size: 3 Copynumber: 24.0 Consensus size: 3
10756418 ATAATTTTAA
* * * * *
10756428 AAT AAT AAT AGT AAT AGT AAT AAT AAT GAT AAT AAT AAA AAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
10756476 AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
10756500 GGAATGAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10757057 original size:3 final size:3
Alignment explanation
Indices: 10757049--10757073 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10757039 TGCTATTGCT
10757049 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
10757074 ATTTCCCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10768017 original size:1 final size:1
Alignment explanation
Indices: 10767969--10767997 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
10767959 TCCTGAAACC
10767969 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10767998 GAGAATCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10768857 original size:27 final size:27
Alignment explanation
Indices: 10768827--10768896 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
10768817 ATAATTAATC
* * *
10768827 TTTTACCTTTCATCTTCTTTTTTAACT
1 TTTTATCTTTCATCTTCCTTTTCAACT
*
10768854 TTTTATTTTTCATCTTCCTTTTCAACT
1 TTTTATCTTTCATCTTCCTTTTCAACT
10768881 TTTTATCTTTCATCTT
1 TTTTATCTTTCATCTT
10768897 TCTTCAACTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTTATCTTTCATCTTCCTTTTCAACT
Found at i:10770662 original size:2 final size:2
Alignment explanation
Indices: 10770655--10770680 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10770645 TTGTGTTATG
10770655 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10770681 TATCTAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10773396 original size:52 final size:53
Alignment explanation
Indices: 10773335--10773475 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 53
10773325 ATATGTGCGC
* **
10773335 CCGTTTAAGACCATAGCTGGGCTATGGCATCAGTGTAATGTGAT-ATGTG-TT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCAGTGTAACATGATAATGTGATT
*
10773386 CTCGTATAAGACCATAGCTGGGCTATGGCATCAGTGTGACATGATAATGTGATT
1 C-CGTATAAGACCATAGCTGGGCTATGGCATCAGTGTAACATGATAATGTGATT
* * *
10773440 CCGTATAAGACCATATCTGGGATATGGCATCGGTGT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCAGTGT
10773476 GTGGTGTGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 1 0.01
52 39 0.49
53 37 0.46
54 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCAGTGTAACATGATAATGTGATT
Found at i:10776188 original size:46 final size:46
Alignment explanation
Indices: 10775961--10776188 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
10775951 TTTGACATGA
* * * * *
10775961 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* *** *
10776007 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *
10776053 TGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
10776099 TGCCATTGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
10776145 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
10776189 AGAGCACACT
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 161 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:10778380 original size:11 final size:11
Alignment explanation
Indices: 10778321--10778386 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
10778311 ATATATACTA
*
10778321 AATAAAATAAT
1 AATAAAATATT
10778332 AAT-AAA-A-T
1 AATAAAATATT
10778340 AATAAAATATT
1 AATAAAATATT
*
10778351 ATTTAAAA-ATT
1 A-ATAAAATATT
10778362 AAATTAAAATATT
1 -AA-TAAAATATT
*
10778375 AATAAACTATT
1 AATAAAATATT
10778386 A
1 A
10778387 TTTATTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
8 4 0.09
9 4 0.09
10 4 0.09
11 17 0.38
12 13 0.29
13 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAAAATATT
Found at i:10780546 original size:2 final size:2
Alignment explanation
Indices: 10780539--10780575 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10780529 AACATAGCAA
10780539 AT AT 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 AT AT A
10780576 AGAAAATGAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10785509 original size:17 final size:18
Alignment explanation
Indices: 10785480--10785519 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
10785470 AATAACTTTT
10785480 AAAAGTAAAAACT-AAAA
1 AAAAGTAAAAACTGAAAA
10785497 ACAAAGT-AAAACTGAAAA
1 A-AAAGTAAAAACTGAAAA
10785515 AAAAG
1 AAAAG
10785520 AGAGAGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.72, C:0.07, G:0.10, T:0.10
Consensus pattern (18 bp):
AAAAGTAAAAACTGAAAA
Found at i:10786753 original size:30 final size:31
Alignment explanation
Indices: 10786719--10786778 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
10786709 AAGATCATTA
*
10786719 AAATATTTTTTTAAAA-TGATTAAAAATTGC
1 AAATATTCTTTTAAAATTGATTAAAAATTGC
*
10786749 AAATATTCTTTTAAAATTGTTTAAAAATTG
1 AAATATTCTTTTAAAATTGATTAAAAATTG
10786779 TGAATATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (31 bp):
AAATATTCTTTTAAAATTGATTAAAAATTGC
Found at i:10786823 original size:28 final size:28
Alignment explanation
Indices: 10786771--10786826 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
10786761 AAAATTGTTT
*
10786771 AAAAATTGTGAATATCATAATAAATTTA
1 AAAAATTGTGAAAATCATAATAAATTTA
*
10786799 AAAAATTGT-AAAATTATAATAAAATTTA
1 AAAAATTGTGAAAATCATAAT-AAATTTA
10786827 CAATATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (28 bp):
AAAAATTGTGAAAATCATAATAAATTTA
Found at i:10787122 original size:23 final size:22
Alignment explanation
Indices: 10787074--10787123 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
10787064 ATGTTTTTAC
* *
10787074 AATTTTTTTAATATTTTAAAAT
1 AATTTTTATAATATTTTAAAAA
10787096 AATTTTTATACATA-TTTAAATAA
1 AATTTTTATA-ATATTTTAAA-AA
10787119 AATTT
1 AATTT
10787124 AAAATTTGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
AATTTTTATAATATTTTAAAAA
Found at i:10788963 original size:2 final size:2
Alignment explanation
Indices: 10788956--10788992 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10788946 ATCTCTACAT
10788956 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
10788993 TGGTGAATTA
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:10789154 original size:18 final size:19
Alignment explanation
Indices: 10789112--10789154 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
10789102 AAATTATCTT
10789112 TAATTTTATAATTGTATTA
1 TAATTTTATAATTGTATTA
* *
10789131 -ATTTTTATATTTG-ATTA
1 TAATTTTATAATTGTATTA
10789148 TAATTTT
1 TAATTTT
10789155 GTGTATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TAATTTTATAATTGTATTA
Found at i:10789202 original size:14 final size:14
Alignment explanation
Indices: 10789162--10789203 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
10789152 TTTGTGTATT
10789162 TTTAAATTATCTTTA
1 TTTAAATTATC-TTA
*
10789177 ATT-AATTAATCTTA
1 TTTAAATT-ATCTTA
10789191 TTTAAATTATCTT
1 TTTAAATTATCTT
10789204 TAAACTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAAATTATCTTA
Found at i:10796149 original size:16 final size:16
Alignment explanation
Indices: 10796128--10796173 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
10796118 ATGTAATGAT
10796128 AGTCTGAGAAAAT-TC
1 AGTCTGAGAAAATCTC
*
10796143 GAGTCTGAAAAAATCTC
1 -AGTCTGAGAAAATCTC
*
10796160 AGTTTGAGAAAATC
1 AGTCTGAGAAAATC
10796174 AGAGCTCAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 24 0.92
17 2 0.08
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (16 bp):
AGTCTGAGAAAATCTC
Found at i:10798850 original size:19 final size:19
Alignment explanation
Indices: 10798815--10798872 Score: 98
Period size: 19 Copynumber: 2.9 Consensus size: 19
10798805 AGAATACAAG
10798815 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
10798836 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
10798855 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCA
10798873 CATCCCTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 28 0.76
20 1 0.03
21 8 0.22
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:10799334 original size:44 final size:45
Alignment explanation
Indices: 10799218--10800329 Score: 347
Period size: 44 Copynumber: 25.1 Consensus size: 45
10799208 GGAAGGCAAT
* * *
10799218 ATCTGCTATCTTTGATCTACTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
10799263 ATCTGTTGTCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * *
10799308 ATTTGCT-TCTTCAATCTGCTCCCCGTCTAATATAGAAATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
10799352 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * *
10799397 ATCTGTCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* * ** * * **
10799442 ATCTACTATGTCTTTAATCTGCTCTCCGTCGAATATGGAGATGCCAA
1 ATCT-GT-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
** * * * * *
10799489 ATCTACTATCTTC-AACTTG-TTCCC-TATAAACACAGGGATGCC--
1 ATCTGTTATCTTCGATC-TGCTCCCCGTCT-AATACAGAGATGCCAA
*** * * * * * * * *
10799531 ATGCTAAAATCTTCAATCTGTTTCGC-TGTAAGCACAG-GAATGTCAG
1 AT-CTGTTATCTTCGATCTGCTCCCCGTCTAA-TACAGAG-ATGCCAA
* ** * * * *
10799577 ATCTGCTATGTCTTCGATCTG-TTTCC-TGTAGACAAAGGGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTA-ATACAGAGATGCCAA
* * * * * *
10799623 ATCTGCTATCTTC-AACTTGCTCTCTGAC-AATACAGAGACGCCAA
1 ATCTGTTATCTTCGATC-TGCTCCCCGTCTAATACAGAGATGCCAA
* * *
10799667 ATCT-TCTATCTTCGATCTGCTCTCTG-CCAATACAGAGATGCCAA
1 ATCTGT-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * *
10799711 ATCTATTATCTTCGATCTGCTCTCTG-CTAATACAGAGATGTCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
**** *
10799755 ATCTGTTATCTTCGATCTGCTATTTG-CCAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* ** * *
10799799 ATC----ATCTTAGA-CTTGCTTCAACG--TAA-ACACGTGGAAGCCAA
1 ATCTGTTATCTTCGATC-TGC-TCCCCGTCTAATACA-G-AGATGCCAA
* * * *
10799840 ATCAGTTATGTCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAA
1 ATCTGTTA--TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * *
10799887 ATCTGTCAGCTTTGATCTGCTCTCTG-CCAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
** * * * * *
10799931 ATCTACTATCTTCAATCTGCTCTCTG-CCAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * ** * * *
10799975 ATC----ATCTTAGA-CTTGCT-TCAATGTAA-ACACGTGGAAGCCAA
1 ATCTGTTATCTTCGATC-TGCTCCCCGTCTAATACA-G-AGATGCCAA
* * * * *
10800016 ATCAGCTATGTCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* ** * *
10800063 ATCTGTCATCTTTAATCTGCT-CTC-TACCAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGT-CTAATACAGAGATGCCAA
* * * *
10800107 ATCTGTTATCTTCGATCTACTCTCTG-CCAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * ** * * * *
10800151 ATC----ATCTTAGATTTGCTTCAACAT-AAACACATGA-AAGCCAA
1 ATCTGTTATCTTCGATCTGC-TCCCCGTCTAATACA-GAGATGCCAA
* * * * * *
10800192 ATCAGCTATGTCTTCAATCTACTCTCCGTCGAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *** * *
10800239 ATCAGTCATCTTCGATCTGCTCTTTG-CCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * *
10800283 ATATGTTGTCTTCGATCTGCTCTCTG-CCAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
10800327 ATC
1 ATC
10800330 ATCTTGGATT
Statistics
Matches: 807, Mismatches: 190, Indels: 141
0.71 0.17 0.12
Matches are distributed among these distances:
39 10 0.01
40 35 0.04
41 38 0.05
42 4 0.00
43 24 0.03
44 380 0.47
45 158 0.20
46 36 0.04
47 98 0.12
48 14 0.02
49 10 0.01
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:10799356 original size:89 final size:89
Alignment explanation
Indices: 10799232--10799398 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
10799222 GCTATCTTTG
* * *
10799232 ATCTACTCCCCGTCTAATACAGAGATGCCAAATCTGTTGTCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTACTCCCCGTCTAATACAGAAATGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
*
10799297 AGAGACGCCAAATTTGCTTCTTCA
66 AAAGACGCCAAATTTGCTTCTTCA
* * *
10799321 ATCTGCTCCCCGTCTAATATAGAAATGCCAAATCTGTTATCTCCGATTTGCTCCCCGTCTAATAC
1 ATCTACTCCCCGTCTAATACAGAAATGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
*
10799386 AAAGATGCCAAAT
66 AAAGACGCCAAAT
10799399 CTGTCATCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (89 bp):
ATCTACTCCCCGTCTAATACAGAAATGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
AAAGACGCCAAATTTGCTTCTTCA
Found at i:10799630 original size:46 final size:47
Alignment explanation
Indices: 10799540--10799631 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 47
10799530 CATGCTAAAA
* * *
10799540 TCTTCAATCTGTTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATG
1 TCTTCAATCTGTTTCGCTGTAAGCAAAGGAATGCCAAATCTGCTATG
* *
10799587 TCTTCGATCTGTTTC-CTGT-AGACAAAGGGATGCCAAATCTGCTAT
1 TCTTCAATCTGTTTCGCTGTAAG-CAAAGGAATGCCAAATCTGCTAT
10799632 CTTCAACTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
45 2 0.05
46 23 0.59
47 14 0.36
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (47 bp):
TCTTCAATCTGTTTCGCTGTAAGCAAAGGAATGCCAAATCTGCTATG
Found at i:10799881 original size:176 final size:176
Alignment explanation
Indices: 10799675--10800346 Score: 1024
Period size: 176 Copynumber: 3.8 Consensus size: 176
10799665 AAATCTTCTA
* * *
10799675 TCTTCGATCTGCTCTCTGCC-AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGCT
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTATCATCTTCGATCTGCTCTCTGCC
* * *
10799739 AATACAGAGATGTCAAATCTGTTATCTTCGATCTGCTATTTGCCAATACAGAGATGCCAAATCAT
66 AATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
*
10799804 CTTAGACTTGCTTCAACGTAAACACGTGGAAGCCAAATCAGTTATG
131 CTTAGACTTGCTTCAACGTAAACACGTGGAAGCCAAATCAGCTATG
* * *
10799850 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCAGCTTTGATCTGCTCTCTGCC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTATCATCTTCGATCTGCTCTCTGCC
** * *
10799915 AATACAGAGATGCCAAATCTACTATCTTCAATCTGCTCTCTGCCAATACAAAGATGCCAAATCAT
66 AATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
*
10799980 CTTAGACTTGCTTCAATGTAAACACGTGGAAGCCAAATCAGCTATG
131 CTTAGACTTGCTTCAACGTAAACACGTGGAAGCCAAATCAGCTATG
* ** *
10800026 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTTAATCTGCTCTCTACC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTATCATCTTCGATCTGCTCTCTGCC
*
10800091 AATACAGAGATGCCAAATCTGTTATCTTCGATCTACTCTCTGCCAATACAGAGATGCCAAATCAT
66 AATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
* * * *
10800156 CTTAGATTTGCTTCAACATAAACACATGAAAGCCAAATCAGCTATG
131 CTTAGACTTGCTTCAACGTAAACACGTGGAAGCCAAATCAGCTATG
* * * *
10800202 TCTTCAATCTACTCTCCGTCGAATACAGAGATGCCAAATC-AGTCATCTTCGATCTGCTCTTTGC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTA-TCATCTTCGATCTGCTCTCTGC
* * *
10800266 CAATACAGAGACGCCAAATATGTTGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCA
65 CAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCA
* *
10800331 TCTTGGATTTGCTTCA
130 TCTTAGACTTGCTTCA
10800347 GTATAAATAC
Statistics
Matches: 454, Mismatches: 41, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
175 19 0.04
176 435 0.96
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (176 bp):
TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTATCATCTTCGATCTGCTCTCTGCC
AATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
CTTAGACTTGCTTCAACGTAAACACGTGGAAGCCAAATCAGCTATG
Found at i:10801344 original size:7 final size:7
Alignment explanation
Indices: 10801332--10801392 Score: 74
Period size: 7 Copynumber: 9.0 Consensus size: 7
10801322 GGCCTCTCCA
10801332 TTTTTTC
1 TTTTTTC
10801339 TTTTTTC
1 TTTTTTC
10801346 TTTTTTC
1 TTTTTTC
10801353 TTTTTT-
1 TTTTTTC
*
10801359 TCTTTT-
1 TTTTTTC
10801365 TTTTTTC
1 TTTTTTC
10801372 TCTTTTTC
1 T-TTTTTC
*
10801380 TTTTCT-
1 TTTTTTC
10801386 TTTTTTC
1 TTTTTTC
10801393 CCCCTTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
6 15 0.32
7 25 0.53
8 7 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:10801350 original size:8 final size:8
Alignment explanation
Indices: 10801332--10801392 Score: 67
Period size: 8 Copynumber: 7.9 Consensus size: 8
10801322 GGCCTCTCCA
10801332 TTTTTTC-
1 TTTTTTCT
10801339 TTTTTTC-
1 TTTTTTCT
10801346 TTTTTTCT
1 TTTTTTCT
10801354 TTTTTTCT
1 TTTTTTCT
10801362 TTTTTT-T
1 TTTTTTCT
10801369 TTCTCTTT-T
1 TT-T-TTTCT
*
10801378 TCTTTTCT
1 TTTTTTCT
10801386 TTTTTTC
1 TTTTTTC
10801393 CCCCTTTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
7 20 0.42
8 23 0.48
9 5 0.10
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:10801368 original size:19 final size:20
Alignment explanation
Indices: 10801341--10801390 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
10801331 ATTTTTTCTT
*
10801341 TTTTCTTTTTTCTTTTTTTC
1 TTTTCTTTTTTCTCTTTTTC
10801361 TTTT-TTTTTTCTCTTTTTC
1 TTTTCTTTTTTCTCTTTTTC
10801380 TTTTCTTTTTT
1 TTTTCTTTTTT
10801391 TCCCCCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTCTTTTTTCTCTTTTTC
Found at i:10804028 original size:10 final size:10
Alignment explanation
Indices: 10804013--10804047 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
10804003 GAATGCAAAT
10804013 GATGCGATGA
1 GATGCGATGA
10804023 GATGCGATGA
1 GATGCGATGA
* *
10804033 GATGCTATTA
1 GATGCGATGA
10804043 GATGC
1 GATGC
10804048 AAATGCATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.29, C:0.11, G:0.34, T:0.26
Consensus pattern (10 bp):
GATGCGATGA
Found at i:10806602 original size:22 final size:21
Alignment explanation
Indices: 10806576--10806636 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
10806566 ATTAAATTTC
10806576 CAAGATTACAAGATCATATCTT
1 CAAGATTAC-AGATCATATCTT
* *
10806598 CAAGATTGCATATCATATC-T
1 CAAGATTACAGATCATATCTT
* *
10806618 -AAGATTGCATATCATATCT
1 CAAGATTACAGATCATATCT
10806637 AAGATTGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 18 0.50
20 1 0.03
21 9 0.25
22 8 0.22
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (21 bp):
CAAGATTACAGATCATATCTT
Found at i:10806623 original size:19 final size:19
Alignment explanation
Indices: 10806588--10806685 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
10806578 AGATTACAAG
10806588 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
10806609 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
10806628 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
10806645 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
10806664 ATCATATTTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
10806683 ATC
1 ATC
10806686 CTTAAAGATT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:10806630 original size:14 final size:15
Alignment explanation
Indices: 10806610--10806666 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
10806600 AGATTGCATA
10806610 TCATATCTAAGATTG
1 TCATATCTAAGATTG
10806625 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
10806644 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
10806661 -CATATC
1 TCATATC
10806667 ATATTTAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:10806652 original size:36 final size:37
Alignment explanation
Indices: 10806588--10806685 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
10806578 AGATTACAAG
10806588 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
10806628 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
*
10806664 ATCATATTTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
10806686 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:10806695 original size:17 final size:18
Alignment explanation
Indices: 10806599--10806695 Score: 71
Period size: 19 Copynumber: 5.3 Consensus size: 18
10806589 TCATATCTTC
10806599 AAGATTGCATATCATATCT-
1 AAGATTGCATATCA-AT-TA
10806618 AAGATTGCATATCATATCT-
1 AAGATTGCATATCA-AT-TA
10806637 AAGATTG--TATCATATCT-
1 AAGATTGCATATCA-AT-TA
*
10806654 AAGATTGCATATCATATTT
1 AAGATTGCATATCA-ATTA
*
10806673 AAGATTGCATATC-CTTA
1 AAGATTGCATATCAATTA
10806690 AAGATT
1 AAGATT
10806696 ATATTTCCAT
Statistics
Matches: 73, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
17 25 0.34
18 1 0.01
19 47 0.64
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.38
Consensus pattern (18 bp):
AAGATTGCATATCAATTA
Found at i:10806963 original size:29 final size:28
Alignment explanation
Indices: 10806920--10806976 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
10806910 ATTAGCCCCA
10806920 TTATTTCCCAATTTGGTACATAAACTTT
1 TTATTTCCCAATTTGGTACATAAACTTT
* *
10806948 TTATTGTCCCATTTTGGTACATGAACTTT
1 TTATT-TCCCAATTTGGTACATAAACTTT
10806977 GTACCGTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.47
Consensus pattern (28 bp):
TTATTTCCCAATTTGGTACATAAACTTT
Found at i:10807270 original size:20 final size:20
Alignment explanation
Indices: 10807247--10807324 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 20
10807237 TAGAAAGTTG
10807247 TAAAAATATAAAAAAATTGT
1 TAAAAATATAAAAAAATTGT
** *
10807267 TAAAAATCAT-TTAAAGTTG-
1 TAAAAAT-ATAAAAAAATTGT
* *
10807286 TAAAAAT-TATAATAATT-T
1 TAAAAATATAAAAAAATTGT
*
10807304 AAAAAACTATAAAAAAATTGT
1 TAAAAA-TATAAAAAAATTGT
10807325 AAGAATTGTG
Statistics
Matches: 43, Mismatches: 9, Indels: 11
0.68 0.14 0.17
Matches are distributed among these distances:
17 1 0.02
18 10 0.23
19 8 0.19
20 21 0.49
21 3 0.07
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
TAAAAATATAAAAAAATTGT
Found at i:10807402 original size:21 final size:20
Alignment explanation
Indices: 10807360--10807409 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
10807350 TTTAAAAAAA
*
10807360 TTACAATTTTTAGAATTTAT
1 TTACAATTTTTAGAATTCAT
10807380 TTACAAATTTTTA-ACATTCAT
1 TTAC-AATTTTTAGA-ATTCAT
10807401 TTAACAATT
1 TT-ACAATT
10807410 ATAAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.19
21 19 0.73
22 2 0.08
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (20 bp):
TTACAATTTTTAGAATTCAT
Found at i:10807541 original size:28 final size:28
Alignment explanation
Indices: 10807491--10807550 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
10807481 TTTAAAATTG
* * * *
10807491 TTTAAAAATTGTGAATATCATAAGAAAT
1 TTTAAAAATTCTAAAAATCATAAGAAAA
* *
10807519 TTTAAAAATTCTAAAAATTATAATAAAA
1 TTTAAAAATTCTAAAAATCATAAGAAAA
10807547 TTTA
1 TTTA
10807551 CAATTTTTCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (28 bp):
TTTAAAAATTCTAAAAATCATAAGAAAA
Found at i:10809467 original size:18 final size:19
Alignment explanation
Indices: 10809425--10809467 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
10809415 AAATTATCTT
10809425 TAATTTTATAATTGTATTA
1 TAATTTTATAATTGTATTA
* *
10809444 -ATTTTTATATTTG-ATTA
1 TAATTTTATAATTGTATTA
10809461 TAATTTT
1 TAATTTT
10809468 GTGTATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TAATTTTATAATTGTATTA
Found at i:10815769 original size:21 final size:21
Alignment explanation
Indices: 10815745--10815792 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
10815735 GTTGTTCTCC
*
10815745 GTCTTTCTGACTAAGTACTCT
1 GTCTTTCAGACTAAGTACTCT
10815766 GTCTTTCAGACTAAGTACTCT
1 GTCTTTCAGACTAAGTACTCT
10815787 GTCTTT
1 GTCTTT
10815793 AAGTGCTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (21 bp):
GTCTTTCAGACTAAGTACTCT
Found at i:10821277 original size:15 final size:15
Alignment explanation
Indices: 10821257--10821294 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
10821247 TAGAAGATGG
10821257 TAATGAAGGGTCTGA
1 TAATGAAGGGTCTGA
*
10821272 TAATGAAAGGTCTGA
1 TAATGAAGGGTCTGA
*
10821287 TAGTGAAG
1 TAATGAAG
10821295 ATTTGAGCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (15 bp):
TAATGAAGGGTCTGA
Found at i:10823657 original size:11 final size:11
Alignment explanation
Indices: 10823643--10823687 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
10823633 AGATAAATAT
10823643 TATTTTATTAA
1 TATTTTATTAA
*
10823654 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
10823667 TATTTTATTAT
1 TATTTTATTAA
10823678 TATTTTATTA
1 TATTTTATTA
10823688 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:10833080 original size:29 final size:29
Alignment explanation
Indices: 10833018--10833120 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
10833008 GTGACGAGAT
* * *
10833018 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
10833047 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
10833076 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
10833105 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
10833121 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:10842532 original size:40 final size:40
Alignment explanation
Indices: 10842487--10842616 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
10842477 CGGAATACAA
10842487 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
10842527 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * * *
10842567 CCGGATGTAGCCACTAGCAC-AGTTTCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGA-ATGCCTTCGGGTCTTAGC
10842607 CCGGATATAA
1 CCGGATATAA
10842617 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.03
40 74 0.97
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:10854478 original size:88 final size:88
Alignment explanation
Indices: 10854368--10854860 Score: 675
Period size: 88 Copynumber: 5.6 Consensus size: 88
10854358 AATCTCTACT
* ** *
10854368 AGCCTTAACCCCCTAAGCAGTAGGGCAACAGGCTAAAAATTACAGATATTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
* * * * *
10854433 AATGGAGTAAATCAAAGACGATA
66 AGTGGAGCAGATCGAAGACGGTA
* * * *
10854456 AGCCTTAACCCCCTAAGTAGTAGGGTAACAAGCTGGAAATTACAGATATTATCTCTCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
*
10854521 AGTGGAGCAGATCGAGGACGGTA
66 AGTGGAGCAGATCGAAGACGGTA
** * * *
10854544 AGCCTTAACCCCCTAAGCAGTAAAGAAACAGGCTGGAAATCACAGATCTTATCTCTCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
10854609 AGTGGAGCAGATTGAAGACAGTG
66 AGTGGAGCAGATCGAAGACGGTA
*
10854632 AGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
*
10854697 AGCGGAGCAGATCGAAGACGGTA
66 AGTGGAGCAGATCGAAGACGGTA
* * *
10854720 AGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCT-GAAAATACATATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
*
10854784 AGTGGAGCAAATCG-AGAACGGTA
66 AGTGGAGCAGATCGAAG-ACGGTA
* * * *
10854807 ATCCTTAACCCCTTAAGCAGTAGGGAAACAGGTTGGAAATTACAGATCTTATCT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCT
10854861 TTCTAAATAG
Statistics
Matches: 357, Mismatches: 46, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
86 2 0.01
87 75 0.21
88 280 0.78
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (88 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGTA
Found at i:10854560 original size:44 final size:44
Alignment explanation
Indices: 10854512--10854742 Score: 123
Period size: 44 Copynumber: 5.2 Consensus size: 44
10854502 TATTATCTCT
*
10854512 CTAAGCAGTAGTGGAGCAGATCGAGGACGGTAAGCCTTAACCCC
1 CTAAGCAGTAGTGGAGCAGATCGAGGACAGTAAGCCTTAACCCC
** * * * * * * * * *
10854556 CTAAGCAGTAAAGAAACAG-GC-TGGA-AATCACAGATCTTATCTCT
1 CTAAGCAGTAGTGGAGCAGATCGAGGACAGT-A-AG-CCTTAACCCC
* * *
10854600 CTAAGCAGTAGTGGAGCAGATTGAAGACAGTGAGCCTTAACCCC
1 CTAAGCAGTAGTGGAGCAGATCGAGGACAGTAAGCCTTAACCCC
* * * * * * * *
10854644 CTAAGCAGTAG-GGTAACA-AGC-TGGAAATTACAGATCTTATCTCC
1 CTAAGCAGTAGTGG-AGCAGATCGAGGACAGTA-AG-CCTTAACCCC
* * * *
10854688 CTAAGCAGTAGCGGAGCAGATCGAAGACGGTAAGCCTTAACCCT
1 CTAAGCAGTAGTGGAGCAGATCGAGGACAGTAAGCCTTAACCCC
10854732 CTAAGCAGTAG
1 CTAAGCAGTAG
10854743 GGTAACAGGC
Statistics
Matches: 127, Mismatches: 48, Indels: 24
0.64 0.24 0.12
Matches are distributed among these distances:
41 1 0.01
42 8 0.06
43 8 0.06
44 94 0.74
45 8 0.06
46 6 0.05
47 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (44 bp):
CTAAGCAGTAGTGGAGCAGATCGAGGACAGTAAGCCTTAACCCC
Found at i:10854922 original size:227 final size:228
Alignment explanation
Indices: 10854644--10855057 Score: 654
Period size: 227 Copynumber: 1.8 Consensus size: 228
10854634 CCTTAACCCC
* * * *
10854644 CTAAGCAGTAGGGTAACAAGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGAT
1 CTAAGCAGTAGGGAAACAAGCTGAAAATCACAGATCTTATCTCCATAAGCAGTAGCGGAGCAGAT
* *
10854709 CGAAGACGGTAAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCT-GAAAATACATATCTTATCT
66 CGAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAAATACATATCTTATCT
*
10854773 CCCTAAGCAGTAGTGGAGCAAATCGAGA-ACGGTAATCCTTAACCCCTTAAGCAGTAGGGAAACA
131 CCCTAAGCAGTAGTGGAGCAAATCGA-ATACGGTAAGCCTTAACCCCTTAAGCAGTAGGGAAACA
10854837 GGTTGGAAATTACAGATCTTATCTTTCTAAATAG
195 GGTTGGAAATTACAGATCTTATCTTTCTAAATAG
* * *
10854871 CTAAGCAGTAGGGAAAC-AGTTTGAAAATCACAGATCTTATCTCCATAAGCAGTAGTGGAGTAGA
1 CTAAGCAGTAGGGAAACAAG-CTGAAAATCACAGATCTTATCTCCATAAGCAGTAGCGGAGCAGA
* * *
10854935 TTGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACATATCTTATC
65 TCGAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAAATACATATCTTATC
* *
10855000 TCCTTAAGCAGTAGTGGAGCAGATCGAATACGGTAAGCCTTAACCCCTTAAGCAGTAG
130 TCCCTAAGCAGTAGTGGAGCAAATCGAATACGGTAAGCCTTAACCCCTTAAGCAGTAG
10855058 AGTAATAGGC
Statistics
Matches: 169, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
226 2 0.01
227 97 0.57
228 70 0.41
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (228 bp):
CTAAGCAGTAGGGAAACAAGCTGAAAATCACAGATCTTATCTCCATAAGCAGTAGCGGAGCAGAT
CGAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAAATACATATCTTATCT
CCCTAAGCAGTAGTGGAGCAAATCGAATACGGTAAGCCTTAACCCCTTAAGCAGTAGGGAAACAG
GTTGGAAATTACAGATCTTATCTTTCTAAATAG
Found at i:10854943 original size:315 final size:316
Alignment explanation
Indices: 10854556--10855154 Score: 943
Period size: 315 Copynumber: 1.9 Consensus size: 316
10854546 CCTTAACCCC
*
10854556 CTAAGCAGTAAAGAAACAGGCTGGAAATCACAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGAT
1 CTAAGCAGTAAAGAAACAGGCTGAAAATCACAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGAT
*
10854621 TGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGGAAATTACAGATCTTATCT
66 TGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAGAAATTACAGATCTTATCT
*
10854686 CCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTAAGCCTTAA-CCCTCTAAGCAGTAGGGTAACA
131 CCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTAAGCCTTAACCCCT-TAAGCAGTAGAGTAACA
* * * *
10854750 GGCTGAAAA-TACATATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAGAACGGTAATCCTTA
195 GGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAGAACGGTAAGCCTTA
*
10854814 ACCCCTTAAGCAGTAGGGAAACAGGTTGGAAATTACAGATCTTATCTTTCTAAATAG
260 ACCCCCTAAGCAGTAGGGAAACAGGTTGGAAATTACAGATCTTATCTTTCTAAATAG
** ** *
10854871 CTAAGCAGTAGGGAAACAGTTTGAAAATCACAGATCTTATCTC-CATAAGCAGTAGTGGAGTAGA
1 CTAAGCAGTAAAGAAACAGGCTGAAAATCACAGATCTTATCTCTC-TAAGCAGTAGTGGAGCAGA
* *
10854935 TTGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACATATCTTATC
65 TTGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAGAAATTACAGATCTTATC
* * * *
10855000 TCCTTAAGCAGTAGTGGAGCAGATCGAATACGGTAAGCCTTAACCCCTTAAGCAGTAGAGTAATA
130 TCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTAAGCCTTAACCCCTTAAGCAGTAGAGTAACA
* * * * *
10855065 GGCTAAAAATTATAGATCTTATCTCCTTAAGCAGTAGTGGAGTAGATCAAGGACGGTAAGCCTTA
195 GGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAGAACGGTAAGCCTTA
10855130 ACCCCCTAAGCAGTAGGGAAACAGG
260 ACCCCCTAAGCAGTAGGGAAACAGG
10855155 CTGAAAATGA
Statistics
Matches: 257, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
314 1 0.00
315 181 0.70
316 75 0.29
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (316 bp):
CTAAGCAGTAAAGAAACAGGCTGAAAATCACAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGAT
TGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAGAAATTACAGATCTTATCT
CCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTAAGCCTTAACCCCTTAAGCAGTAGAGTAACAG
GCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAGAACGGTAAGCCTTAA
CCCCCTAAGCAGTAGGGAAACAGGTTGGAAATTACAGATCTTATCTTTCTAAATAG
Found at i:10854986 original size:140 final size:139
Alignment explanation
Indices: 10854732--10855000 Score: 369
Period size: 140 Copynumber: 1.9 Consensus size: 139
10854722 CCTTAACCCT
* * *
10854732 CTAAGCAGTAGGGTAACAGGCTGAAAATACATATCTTATCTCCCTAAGCAGTAGTGGAGCAAATC
1 CTAAGCAGTAGGGAAACAGGCTGAAAATACAGATCTTATCTCCATAAGCAGTAGTGGAGCAAATC
* * * * *
10854797 GAGAACGGTAATCCTTAACCCCTTAAGCAGTAGGGAAACAGGTTGGAAATTACAGATCTTATCTT
66 GAGAACAGTAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTT
10854862 TCTAAATAG
131 TCTAAATAG
** * *
10854871 CTAAGCAGTAGGGAAACAGTTTGAAAATCACAGATCTTATCTCCATAAGCAGTAGTGGAGTAGAT
1 CTAAGCAGTAGGGAAACAGGCTGAAAAT-ACAGATCTTATCTCCATAAGCAGTAGTGGAGCAAAT
* * * *
10854936 TGA-AGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACATATCTTATC
65 CGAGA-ACAGTAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATC
10855000 T
129 T
10855001 CCTTAAGCAG
Statistics
Matches: 112, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
139 26 0.23
140 86 0.77
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (139 bp):
CTAAGCAGTAGGGAAACAGGCTGAAAATACAGATCTTATCTCCATAAGCAGTAGTGGAGCAAATC
GAGAACAGTAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTT
TCTAAATAG
Found at i:10855008 original size:44 final size:44
Alignment explanation
Indices: 10854960--10855101 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 44
10854950 CTTAACCCCC
10854960 TAAGCAGTAGGGTAACAGGCTAGAAATTACATATCTTATCTCCT
1 TAAGCAGTAGGGTAACAGGCTAGAAATTACATATCTTATCTCCT
* * * * * * *
10855004 TAAGCAGTAGTGG-AGCA-GATCG-AA-TACGGTAAGCCTTAACCCCT
1 TAAGCAGTAG-GGTAACAGGCTAGAAATTAC-AT-A-TCTTATCTCCT
* * * * *
10855048 TAAGCAGTAGAGTAATAGGCTAAAAATTATAGATCTTATCTCCT
1 TAAGCAGTAGGGTAACAGGCTAGAAATTACATATCTTATCTCCT
10855092 TAAGCAGTAG
1 TAAGCAGTAG
10855102 TGGAGTAGAT
Statistics
Matches: 71, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
41 3 0.04
42 3 0.04
43 5 0.07
44 51 0.72
45 5 0.07
46 2 0.03
47 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (44 bp):
TAAGCAGTAGGGTAACAGGCTAGAAATTACATATCTTATCTCCT
Found at i:10855039 original size:88 final size:87
Alignment explanation
Indices: 10854871--10855257 Score: 418
Period size: 88 Copynumber: 4.4 Consensus size: 87
10854861 TTCTAAATAG
** * *
10854871 CTAAGCAGTAGGGAAACAGTTTGAAAATCACAGATCTTATCTCCATAAGCAGTAGTGGAGTAGAT
1 CTAAGCAGTAGGGAAACAGGCTG-AAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGTAGAT
* * *
10854936 TGAAGACAGTGAGCCTTAACCCC
65 CGAAGACGGTAAGCCTTAACCCC
* * *
10854959 CTAAGCAGTAGGGTAACAGGCTAGAAATTACATATCTTATCTCCTTAAGCAGTAGTGGAGCAGAT
1 CTAAGCAGTAGGGAAACAGGCT-GAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGTAGAT
*
10855024 CGAATACGGTAAGCCTTAACCCC
65 CGAAGACGGTAAGCCTTAACCCC
* * * * * *
10855047 TTAAGCAGTAGAGTAATAGGCTAAAAATTATAGATCTTATCTCCTTAAGCAGTAGTGGAGTAGAT
1 CTAAGCAGTAGGGAAACAGGCT-GAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGTAGAT
10855112 C-AAGGACGGTAAGCCTTAACCCC
65 CGAA-GACGGTAAGCCTTAACCCC
* * * * *
10855135 CTAAGCAGTAGGGAAACAGGCTGAAAATGATAGACTACCCTATCTCCCTAAGCAGTAATGGAGTA
1 CTAAGCAGTAGGGAAACAGGCTG-AAATTACAGA-T--CTTATCTCCTTAAGCAGTAGTGGAGTA
* * *
10855200 -AGTTGAAGACGGTGAGCCTTATCCCC
62 GA-TCGAAGACGGTAAGCCTTAACCCC
* * *
10855226 CTAAGTAGTAAGGAAACAAGCTGAAGATTACA
1 CTAAGCAGTAGGGAAACAGGCTGAA-ATTACA
10855258 AATCATAAGC
Statistics
Matches: 254, Mismatches: 36, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
87 2 0.01
88 179 0.70
89 2 0.01
90 3 0.01
91 66 0.26
92 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (87 bp):
CTAAGCAGTAGGGAAACAGGCTGAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGTAGATC
GAAGACGGTAAGCCTTAACCCC
Found at i:10856565 original size:9 final size:10
Alignment explanation
Indices: 10856532--10856581 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
10856522 TATGTTTATA
10856532 TATTTTC-TT
1 TATTTTCATT
*
10856541 TATTTTCCTT
1 TATTTTCATT
10856551 TATTTTCATT
1 TATTTTCATT
*
10856561 T-TTTTGATT
1 TATTTTCATT
*
10856570 TTTATTTCATT
1 TAT-TTTCATT
10856581 T
1 T
10856582 GTCTTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 15 0.43
10 13 0.37
11 7 0.20
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (10 bp):
TATTTTCATT
Found at i:10868101 original size:195 final size:197
Alignment explanation
Indices: 10867638--10868197 Score: 604
Period size: 195 Copynumber: 2.9 Consensus size: 197
10867628 AAAGTCAACC
* * * * * *
10867638 AAACTCAGCTTTTCATCA-TAATTGGTGTTCCCAATTCCTTGAGTCTCTCTAACCACAATGACAA
1 AAACTCAACTCTTCAACACTAAATGGTGTTCCCAATTCCTT-AGTCTCCCTAATCACAATGACAA
* * *
10867702 CTTTATTTTTCTCC-CCAACCAGGAACCTTACCCATTCACATCAAAAATGATTTTAATAAAAAAG
65 CTTTATTTTTCTCCGCC-ACCAAGAATCTTACCCATTCACATCAAAAATAATTTTAATAAAAAAG
* * * * * * *
10867766 AAATTGGTAAGAAATGGAATCCACCAGATATGTTAATAAAAAAACAACTTGCTAATAGGAAGATC
129 AAATAGATAAGAAATGGAAGCCACCAAACATGTTAATAAAAAAACAACTTGATAACAGGAAGATC
10867831 GACA
194 GACA
* * * * * * * * *
10867835 AAACTCAGCTCTTTAACACTAATTGGTATTCCTAATTCCCTAGTCTCCTTAATCACAATGACGAT
1 AAACTCAACTCTTCAACACTAAATGGTGTTCCCAATTCCTTAGTCTCCCTAATCACAATGACAAC
* *
10867900 TTTATTTTTATCCGCCACCAAGAATCTTACCCATTCACATCAAAAA-AATTTT-TTATAAAAAGA
66 TTTATTTTTCTCCGCCACCAAGAATCTTACCCATTCACATCAAAAATAATTTTAATA-AAAAAGA
* * * * *
10867963 AATAGATAAGAAATGGAAGCCACCAAACATTTTAAT-AAAAAACAAGTTGATAACGGGAAGGTTG
130 AATAGATAAGAAATGGAAGCCACCAAACATGTTAATAAAAAAACAACTTGATAACAGGAAGATCG
*
10868027 ACC
195 ACA
* *
10868030 AAACTCAACTCTTCAACCCTAAATGGTGTTCCCAATTCCTTAGTCTCCCTAATCACAATAACAAC
1 AAACTCAACTCTTCAACACTAAATGGTGTTCCCAATTCCTTAGTCTCCCTAATCACAATGACAAC
* * **
10868095 TTTATTTTTCTTCGCCACCAA-ATATCTTACTCATTCACATCAAAAACGATTTTAAT----AAG-
66 TTTATTTTTCTCCGCCACCAAGA-ATCTTACCCATTCACATCAAAAATAATTTTAATAAAAAAGA
* * *
10868154 AATA-ACTAAGAAATGAAAGCCATCAAACATCTTAATAAAGAAAA
130 AATAGA-TAAGAAATGGAAGCCACCAAACATGTTAATAAA-AAAA
10868198 AAAAAGTAAA
Statistics
Matches: 306, Mismatches: 48, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
190 1 0.00
191 31 0.10
192 5 0.02
193 4 0.01
194 1 0.00
195 121 0.40
196 47 0.15
197 75 0.25
198 21 0.07
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (197 bp):
AAACTCAACTCTTCAACACTAAATGGTGTTCCCAATTCCTTAGTCTCCCTAATCACAATGACAAC
TTTATTTTTCTCCGCCACCAAGAATCTTACCCATTCACATCAAAAATAATTTTAATAAAAAAGAA
ATAGATAAGAAATGGAAGCCACCAAACATGTTAATAAAAAAACAACTTGATAACAGGAAGATCGA
CA
Found at i:10878878 original size:54 final size:54
Alignment explanation
Indices: 10878814--10879021 Score: 224
Period size: 54 Copynumber: 3.9 Consensus size: 54
10878804 TTGGTAAGAT
* * *
10878814 AAGGATATCATGTAAGACCATGCCAAGGCACGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
10878868 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
10878923 AAAGG--CCCAATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACC-ATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
** * * *
10878976 AAGGATACCACATAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
10879022 AAAAAGGAAA
Statistics
Matches: 132, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 4 0.03
53 38 0.29
54 44 0.33
55 42 0.32
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:10878943 original size:55 final size:53
Alignment explanation
Indices: 10878822--10879010 Score: 206
Period size: 55 Copynumber: 3.5 Consensus size: 53
10878812 ATAAGGATAT
* * * **
10878822 CATGTAAGACCATGCCAAGGCACGGCATTGATAAGTTCTATAAGGCAAGGAAA
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGCCA
*
10878875 TCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCC-
1 -CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGCCA
* *
10878930 CAATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCA
1 C-ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGG---CCA
*
10878986 CA--TAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
10879011 ATGGTAAGTT
Statistics
Matches: 117, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
52 4 0.03
53 28 0.24
54 35 0.30
55 45 0.38
56 5 0.04
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (53 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGCCA
Found at i:10886962 original size:13 final size:14
Alignment explanation
Indices: 10886944--10886993 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
10886934 AATTTCTCTC
10886944 TTTTCTCTCTAT-G
1 TTTTCTCTCTATAG
**
10886957 TTTTCTCTC-ATCT
1 TTTTCTCTCTATAG
10886970 TTTTCTCTCTCGATAG
1 TTTTCTCTCT--ATAG
10886986 TTTTCTCT
1 TTTTCTCT
10886994 TTCGTATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 2 0.07
13 18 0.60
16 10 0.33
ACGTcount: A:0.08, C:0.26, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCTCTCTATAG
Found at i:10887429 original size:3 final size:3
Alignment explanation
Indices: 10887421--10887470 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
10887411 TACTATAATT
10887421 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
10887469 AT
1 AT
10887471 TACTATTGCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:10887484 original size:12 final size:11
Alignment explanation
Indices: 10887469--10887540 Score: 58
Period size: 12 Copynumber: 6.4 Consensus size: 11
10887459 CATCATCATC
*
10887469 ATTACTATTGCT
1 ATTACTATT-TT
10887481 ATTA-T-TTTT
1 ATTACTATTTT
10887490 ATTACTATTATT
1 ATTACTATT-TT
10887502 ATTACTATTTTT
1 ATTACTA-TTTT
* *
10887514 GTTATTATTATT
1 ATTACTATT-TT
*
10887526 ATTACTATTGT
1 ATTACTATTTT
10887537 ATTA
1 ATTA
10887541 TTACTATTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
9 5 0.10
10 3 0.06
11 10 0.20
12 29 0.59
13 2 0.04
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (11 bp):
ATTACTATTTT
Found at i:10887486 original size:3 final size:3
Alignment explanation
Indices: 10887480--10887556 Score: 68
Period size: 3 Copynumber: 26.3 Consensus size: 3
10887470 TTACTATTGC
* * * * *
10887480 TAT TAT TTT TAT TAC TAT TAT TAT TAC TAT TTT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
10887528 TAC TAT T-G TAT TAT TAC TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10887557 TCCATCTATA
Statistics
Matches: 57, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
2 3 0.05
3 54 0.95
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10887613 original size:15 final size:14
Alignment explanation
Indices: 10887587--10887627 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
10887577 TATTCTAGTA
*
10887587 CTATTATTATTTAT
1 CTATTTTTATTTAT
10887601 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
*
10887616 CTATTTATATTT
1 CTATTTTTATTT
10887628 CTGTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:10887626 original size:14 final size:15
Alignment explanation
Indices: 10887594--10887627 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10887584 GTACTATTAT
*
10887594 TATTTATCTAATTTT
1 TATTTATCTAATTTA
10887609 TATTTATCT-ATTTA
1 TATTTATCTAATTTA
10887623 TATTT
1 TATTT
10887628 CTGTTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:10887666 original size:26 final size:26
Alignment explanation
Indices: 10887637--10887690 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
10887627 TCTGTTATTA
10887637 TTATATTTTATGTATTA-TATCTCTAT
1 TTATA-TTTATGTATTAGTATCTCTAT
*
10887663 TTATATTTATGTATTAGTATCTTTAT
1 TTATATTTATGTATTAGTATCTCTAT
10887689 TT
1 TT
10887691 TACTATTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (26 bp):
TTATATTTATGTATTAGTATCTCTAT
Found at i:10887764 original size:41 final size:42
Alignment explanation
Indices: 10887711--10887805 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 42
10887701 ATTTTTTCTA
*
10887711 TATTATTATTATTAGCATTATATT-TAT-TTTTTTACTATTTT
1 TATTATTATTATTAACATTAT-TTCTATATTTTTTACTATTTT
*
10887752 TATTATCT-TTATTAACATTATTTCTATCATTTTTTACTATTAT
1 TATTAT-TATTATTAACATTATTTCTAT-ATTTTTTACTATTTT
*
10887795 CATTATTATTA
1 TATTATTATTA
10887806 CTTATTTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
40 2 0.04
41 21 0.46
42 2 0.04
43 21 0.46
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.62
Consensus pattern (42 bp):
TATTATTATTATTAACATTATTTCTATATTTTTTACTATTTT
Found at i:10893375 original size:2 final size:2
Alignment explanation
Indices: 10893368--10893394 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10893358 ATCTATATTA
10893368 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 A
10893395 ATAGTTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10894515 original size:11 final size:11
Alignment explanation
Indices: 10894484--10894508 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10894474 AATTTTATAA
10894484 AAATTATTTTT
1 AAATTATTTTT
10894495 AAATTATTTTT
1 AAATTATTTTT
10894506 AAA
1 AAA
10894509 CTTTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
AAATTATTTTT
Found at i:10895625 original size:7 final size:7
Alignment explanation
Indices: 10895613--10895648 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
10895603 TAAAACTACT
10895613 ACTTATC
1 ACTTATC
10895620 ACTTATC
1 ACTTATC
10895627 ACTTATC
1 ACTTATC
*
10895634 ACTTGTC
1 ACTTATC
*
10895641 ACTGATC
1 ACTTATC
10895648 A
1 A
10895649 GATAAGTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (7 bp):
ACTTATC
Found at i:10895661 original size:58 final size:58
Alignment explanation
Indices: 10895571--10895706 Score: 209
Period size: 58 Copynumber: 2.3 Consensus size: 58
10895561 CTAATCACAT
*
10895571 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACTACTTATCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCAC
* * *
10895629 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCGC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCAC
* * *
10895687 TTGTCGCTTGTCACTTATCA
1 TTATCACTTGTCACTGATCA
10895707 CTGATCAGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 71 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (58 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCAC
Found at i:10897880 original size:19 final size:20
Alignment explanation
Indices: 10897840--10897893 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
10897830 TTATAAATTT
10897840 TAAAAATTAAAAATAATATA
1 TAAAAATTAAAAATAATATA
**
10897860 TAAAAATTGAAAAATGTTATA
1 TAAAAATT-AAAAATAATATA
10897881 -AAAAATTTAAAAA
1 TAAAAA-TTAAAAA
10897894 AGTATTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (20 bp):
TAAAAATTAAAAATAATATA
Found at i:10898051 original size:15 final size:13
Alignment explanation
Indices: 10898023--10898047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10898013 TTATCGTATT
10898023 TTTTAAAATTTTA
1 TTTTAAAATTTTA
10898036 TTTTAAAATTTT
1 TTTTAAAATTTT
10898048 TTATAATTTA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAAAATTTTA
Found at i:10898093 original size:21 final size:21
Alignment explanation
Indices: 10898056--10898104 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
10898046 TTTTATAATT
*
10898056 TATATTTTTTTAGATTTTAAA
1 TATATTTTTTGAGATTTTAAA
**
10898077 TATATTTTTCTGA-ATTTTTTA
1 TATATTTTT-TGAGATTTTAAA
10898098 TATATTT
1 TATATTT
10898105 ATTTCTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (21 bp):
TATATTTTTTGAGATTTTAAA
Found at i:10908095 original size:20 final size:20
Alignment explanation
Indices: 10908067--10908115 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
10908057 ATTTATCCTT
* *
10908067 ATTTTATTTTATTCCAATTA
1 ATTTGATTTGATTCCAATTA
**
10908087 ATTTGATTTGATTTTAATTA
1 ATTTGATTTGATTCCAATTA
*
10908107 AATTGATTT
1 ATTTGATTT
10908116 AATTGCTCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (20 bp):
ATTTGATTTGATTCCAATTA
Done.