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 37 of 410
Found at i:9316396 original size:10 final size:10
Alignment explanation
Indices: 9316358--9316441 Score: 82
Period size: 10 Copynumber: 8.2 Consensus size: 10
9316348 ACATTTTTTT
9316358 TAATTTTT-A
1 TAATTTTTAA
9316367 TAATTTCTTAA
1 TAATTT-TTAA
9316378 TAAATTTTTAA
1 T-AATTTTTAA
*
9316389 TTATTTTTAA
1 TAATTTTTAA
*
9316399 -AATGTTTATA
1 TAATTTTTA-A
9316409 TAATTTTTAA
1 TAATTTTTAA
*
9316419 TGATTTTTATA
1 TAATTTTTA-A
*
9316430 TATTTTTTAA
1 TAATTTTTAA
9316440 TA
1 TA
9316442 TTTATAGATG
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
9 12 0.19
10 23 0.37
11 22 0.35
12 5 0.08
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:9316416 original size:20 final size:21
Alignment explanation
Indices: 9316331--9316441 Score: 77
Period size: 21 Copynumber: 5.2 Consensus size: 21
9316321 ACTATCATTA
*
9316331 TAATAATATTTATAATAACATTTT
1 TAATAATGTTTAT-AT-A-ATTTT
**
9316355 TTTTAAT-TTT-TATAATTTCT
1 TAATAATGTTTATATAATTT-T
* *
9316375 TAATAAATTTTTA-ATTATTTT
1 TAAT-AATGTTTATATAATTTT
9316396 TAA-AATGTTTATATAATTTT
1 TAATAATGTTTATATAATTTT
* * *
9316416 TAATGATTTTTATATATTTTT
1 TAATAATGTTTATATAATTTT
9316437 TAATA
1 TAATA
9316442 TTTATAGATG
Statistics
Matches: 70, Mismatches: 11, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
19 11 0.16
20 14 0.20
21 27 0.39
22 10 0.14
23 3 0.04
24 5 0.07
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TAATAATGTTTATATAATTTT
Found at i:9316807 original size:21 final size:21
Alignment explanation
Indices: 9316781--9316823 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9316771 ATTGATTGAT
* *
9316781 TTTTATATTTTAATCAATTTA
1 TTTTATATGTTAAACAATTTA
*
9316802 TTTTATATGTTAAACATTTTA
1 TTTTATATGTTAAACAATTTA
9316823 T
1 T
9316824 AAATAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTATATGTTAAACAATTTA
Found at i:9324538 original size:32 final size:32
Alignment explanation
Indices: 9324502--9324566 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
9324492 CCTATGAAGA
9324502 ATAAAAATACTAGTAATTATTGTCTTTCTATT
1 ATAAAAATACTAGTAATTATTGTCTTTCTATT
9324534 ATAAAAATACTAGTAATTATTGTCTTTCTATT
1 ATAAAAATACTAGTAATTATTGTCTTTCTATT
9324566 A
1 A
9324567 CTTAATCGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.46
Consensus pattern (32 bp):
ATAAAAATACTAGTAATTATTGTCTTTCTATT
Found at i:9326375 original size:18 final size:18
Alignment explanation
Indices: 9326352--9326390 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
9326342 CACCTAACTT
9326352 TTAAAAATTACATTATAG
1 TTAAAAATTACATTATAG
9326370 TTAAAAATTACATTATAG
1 TTAAAAATTACATTATAG
9326388 TTA
1 TTA
9326391 TTAAGGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (18 bp):
TTAAAAATTACATTATAG
Found at i:9326608 original size:2 final size:2
Alignment explanation
Indices: 9326595--9326628 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9326585 CAAAGAACCT
*
9326595 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9326629 ATGTTGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9336023 original size:7 final size:7
Alignment explanation
Indices: 9336011--9336037 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9336001 ATATATATTT
9336011 ATTATAA
1 ATTATAA
9336018 ATTATAA
1 ATTATAA
9336025 ATTATAA
1 ATTATAA
9336032 ATTATA
1 ATTATA
9336038 TTTATTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTATAA
Found at i:9342944 original size:17 final size:18
Alignment explanation
Indices: 9342922--9342956 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9342912 TTGGGACTCA
*
9342922 AAAATTTT-ATAAATATT
1 AAAATTTTCACAAATATT
9342939 AAAATTTTCACAAATATT
1 AAAATTTTCACAAATATT
9342957 TTACTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTTTCACAAATATT
Found at i:9345607 original size:21 final size:21
Alignment explanation
Indices: 9345574--9345635 Score: 85
Period size: 20 Copynumber: 3.0 Consensus size: 21
9345564 TTGTAAAAAA
9345574 TTATAAA-ATTTTGAATTTTT
1 TTATAAATATTTTGAATTTTT
9345594 TTATAAATATTTTGAA-TTTT
1 TTATAAATATTTTGAATTTTT
9345614 TTA-AAATTATTTTGTAATTTTT
1 TTATAAA-TATTTTG-AATTTTT
9345636 GTTGAGAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.08
20 21 0.55
21 10 0.26
22 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TTATAAATATTTTGAATTTTT
Found at i:9351656 original size:22 final size:22
Alignment explanation
Indices: 9351631--9351691 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
9351621 ATAACTTGTA
**
9351631 TAAAAAGTATTATTAAATCTAT
1 TAAAAAGTATTATTAAATAAAT
*
9351653 TAAAAAATATTATTAAATAAAT
1 TAAAAAGTATTATTAAATAAAT
9351675 T-AAAAGTATTATTAAAT
1 TAAAAAGTATTATTAAAT
9351692 TTTAAAGTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (22 bp):
TAAAAAGTATTATTAAATAAAT
Found at i:9359024 original size:20 final size:20
Alignment explanation
Indices: 9358999--9359037 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
9358989 TTTCTAATTA
9358999 AATTATTT-ATAATCATTTTT
1 AATTATTTAATAAT-ATTTTT
9359019 AATTATTTAATAATATTTT
1 AATTATTTAATAATATTTT
9359038 AATAATTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTATTTAATAATATTTTT
Found at i:9374145 original size:14 final size:14
Alignment explanation
Indices: 9374126--9374154 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9374116 AGATCAGTTC
9374126 TTTCAGCATTGAGA
1 TTTCAGCATTGAGA
9374140 TTTCAGCATTGAGA
1 TTTCAGCATTGAGA
9374154 T
1 T
9374155 AGTCTGTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (14 bp):
TTTCAGCATTGAGA
Found at i:9377841 original size:30 final size:30
Alignment explanation
Indices: 9377806--9377875 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
9377796 AATCAAAAAG
*
9377806 TAATTAAAAATCAATTAAATC-TTAATGAAA
1 TAATTAAAAATCAATTAAACCATTAAT-AAA
*
9377836 TAATTAAAAATCAATTAAGCCATTAATAAA
1 TAATTAAAAATCAATTAAACCATTAATAAA
9377866 TAATTAAAAA
1 TAATTAAAAA
9377876 GTAAATAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 32 0.86
31 5 0.14
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (30 bp):
TAATTAAAAATCAATTAAACCATTAATAAA
Found at i:9385939 original size:15 final size:15
Alignment explanation
Indices: 9385919--9385955 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
9385909 TTTACACTAC
*
9385919 AAAATATTTATTATT
1 AAAATATTTAATATT
9385934 AAAATA-TTAATATT
1 AAAATATTTAATATT
9385948 -AAATATTT
1 AAAATATTT
9385956 TCAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAAATATTTAATATT
Found at i:9386068 original size:25 final size:25
Alignment explanation
Indices: 9386013--9386069 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
9386003 TATTATTAAA
*
9386013 ATATTAAATAATTTATTAAAATAAT
1 ATATTATATAATTTATTAAAATAAT
* *
9386038 AAATTATATTATTTA-TAATAATAAT
1 ATATTATATAATTTATTAA-AATAAT
*
9386063 TTATTAT
1 ATATTAT
9386070 GTGACTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATATTATATAATTTATTAAAATAAT
Found at i:9386544 original size:15 final size:14
Alignment explanation
Indices: 9386519--9386561 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
9386509 ATATTTATAT
9386519 TATTTTTAATTTAA
1 TATTTTTAATTTAA
9386533 TATTTATTAATTTTATA
1 TATTT-TTAA-TTTA-A
9386550 TATTTTT-ATTTA
1 TATTTTTAATTTA
9386562 TTAAACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.35
15 5 0.19
16 6 0.23
17 6 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTTAATTTAA
Found at i:9386552 original size:17 final size:15
Alignment explanation
Indices: 9386511--9386562 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 15
9386501 TTTAAAATAT
9386511 ATTTATATTATTTTTA
1 ATTTATA-TATTTTTA
9386527 ATTTA-ATATTTATTA
1 ATTTATATATTT-TTA
9386542 ATTTTATATATTTTT-
1 A-TTTATATATTTTTA
9386557 ATTTAT
1 ATTTAT
9386563 TAAACTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 10 0.30
15 6 0.18
16 11 0.33
17 6 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTATATATTTTTA
Found at i:9393942 original size:14 final size:14
Alignment explanation
Indices: 9393903--9393945 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
9393893 ATTATATTTT
*
9393903 TAAAAAAATTATTTC
1 TAAAAAAATTA-ATC
9393918 TAAATAAAAATTAATC
1 T-AA-AAAAATTAATC
9393934 TAAAAAAATTAA
1 TAAAAAAATTAA
9393946 ATATGAGCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 9 0.36
15 3 0.12
16 5 0.20
17 8 0.32
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAAAAATTAATC
Found at i:9396771 original size:2 final size:2
Alignment explanation
Indices: 9396764--9396808 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
9396754 CTCCATCAAT
9396764 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9396806 TA T
1 TA T
9396809 TAATAATGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9399904 original size:42 final size:42
Alignment explanation
Indices: 9399756--9399911 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 42
9399746 CGTGTTTACT
* * *
9399756 TTTC-GTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAG
1 TTTCTGTTCAGCTCTCACGAGCTTCTGTTTAACTCTTATGGG
* * * * **
9399797 TTTCCGTTCAGCT-TTATTGAGCTTTTGTTTAACTCTTACAGG
1 TTTCTGTTCAGCTCTCA-CGAGCTTCTGTTTAACTCTTATGGG
* * * * * *
9399839 TTTCTGTTCAGCACTTACAAGCTTCCGTTCAACCCTTATGGG
1 TTTCTGTTCAGCTCTCACGAGCTTCTGTTTAACTCTTATGGG
* *
9399881 TTTCTGTTTAGCTCTCATGAGCTTCTGTTTA
1 TTTCTGTTCAGCTCTCACGAGCTTCTGTTTA
9399912 GCCATCGGGC
Statistics
Matches: 87, Mismatches: 25, Indels: 5
0.74 0.21 0.04
Matches are distributed among these distances:
41 6 0.07
42 78 0.90
43 3 0.03
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTCACGAGCTTCTGTTTAACTCTTATGGG
Found at i:9403100 original size:53 final size:53
Alignment explanation
Indices: 9403034--9403153 Score: 177
Period size: 53 Copynumber: 2.3 Consensus size: 53
9403024 ATAAGTGCGC
* *
9403034 CCGTTTAAGACCATAGCTGAGCTATGGCATCGGTGCAATGTGATAATATGACT
1 CCGTATAAGACCATAGCTGAGCTATGGCATCGGTACAATGTGATAATATGACT
* * * * *
9403087 CCGTATAAGACCATAGTTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGAGCTATGGCATCGGTACAATGTGATAATATGACT
9403140 CCGTATAAGACCAT
1 CCGTATAAGACCAT
9403154 GTTTGGAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGAGCTATGGCATCGGTACAATGTGATAATATGACT
Found at i:9403166 original size:53 final size:53
Alignment explanation
Indices: 9403034--9403184 Score: 162
Period size: 53 Copynumber: 2.8 Consensus size: 53
9403024 ATAAGTGCGC
* * * **
9403034 CCGTTTAAGACCATAGCT-GAGCTATGGCATCGGTGCAATGTGATAATATGACT
1 CCGTATAAGACCATAGTTGGA-ATATGGCATCGGTATAATGTGATAATATGACT
** * *
9403087 CCGTATAAGACCATAGTTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGTTGGAATATGGCATCGGTATAATGTGATAATATGACT
*
9403140 CCGTATAAGACCAT-GTTTGGAATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-TTGGAATATGGCATCGGTAT-A-ATGTGA
9403185 ACCGTGTAAG
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
52 1 0.01
53 75 0.89
54 2 0.02
55 6 0.07
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (53 bp):
CCGTATAAGACCATAGTTGGAATATGGCATCGGTATAATGTGATAATATGACT
Found at i:9404650 original size:41 final size:41
Alignment explanation
Indices: 9404573--9404650 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
9404563 ATTATGATAG
*
9404573 TCGGGCTTTGAGCCTAGCAAGCCTTATGCTGATGAATTTGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTATGCCGATGAATTTGA
* * *
9404614 TCGGGCTTTGTGCCTAGC-AGGCTTAGTGCCGGTGAAT
1 TCGGGCTTTGAGCCTAGCAAGCCTTA-TGCCGATGAAT
9404651 AAATATTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 6 0.19
41 26 0.81
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.31
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTATGCCGATGAATTTGA
Found at i:9404961 original size:35 final size:35
Alignment explanation
Indices: 9404895--9404961 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
9404885 ATTTAGCTTG
* *
9404895 TATATTCGGTCATATATGATGACATATTGAACATA
1 TATATTCGGCCATATATGATGACATAATGAACATA
* *
9404930 TATATTCGGCCATATGT-AGTGATATAATGAAC
1 TATATTCGGCCATATATGA-TGACATAATGAAC
9404962 CTTGTGTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 1 0.04
35 26 0.96
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (35 bp):
TATATTCGGCCATATATGATGACATAATGAACATA
Found at i:9405030 original size:50 final size:50
Alignment explanation
Indices: 9404949--9405045 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
9404939 CCATATGTAG
* *
9404949 TGATATAATGAACCTTGTGTATTCAGCTATACATGAAAGTATTTATGAGA
1 TGATATAATGAACCTTGTATATTCAGCTATACAGGAAAGTATTTATGAGA
* * * * *
9404999 TGATATAATGGATCTTGTATATTCGGTTATACAGGTAAGTATTTATG
1 TGATATAATGAACCTTGTATATTCAGCTATACAGGAAAGTATTTATG
9405046 TGGTGTTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (50 bp):
TGATATAATGAACCTTGTATATTCAGCTATACAGGAAAGTATTTATGAGA
Found at i:9407926 original size:18 final size:18
Alignment explanation
Indices: 9407903--9407939 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9407893 TATAGTTTGA
* *
9407903 TATTCGATTTATTTGAAT
1 TATTCGAGTTATTCGAAT
9407921 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
9407939 T
1 T
9407940 CGAAAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:9411834 original size:45 final size:45
Alignment explanation
Indices: 9411736--9411911 Score: 200
Period size: 45 Copynumber: 4.0 Consensus size: 45
9411726 TGAATTCATC
* *
9411736 CACCGGCATT-TCA-CCTGCTAGGCTCGAA-GCCCG-ATA-TCATTT
1 CACCGGCATTAT-AGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCT
* *
9411778 CACCGGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
* *
9411823 CACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCC
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
* * * * *
9411868 CACCGACATTATAACCTGCTAGGCTCAAACGCTCAAATAGTATC
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
9411912 GTACGATATT
Statistics
Matches: 117, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
42 11 0.09
43 15 0.13
44 5 0.04
45 85 0.73
46 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
Found at i:9412602 original size:34 final size:34
Alignment explanation
Indices: 9412559--9412625 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
9412549 CCGAATATGT
*
9412559 ATATTACCAAAATTCCTATGACTTAACCTTTAAA
1 ATATCACCAAAATTCCTATGACTTAACCTTTAAA
9412593 ATATCACCAAAATTCCTATGACTTAACCTTTAA
1 ATATCACCAAAATTCCTATGACTTAACCTTTAA
9412626 CCTTCATAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.34
Consensus pattern (34 bp):
ATATCACCAAAATTCCTATGACTTAACCTTTAAA
Found at i:9415501 original size:7 final size:7
Alignment explanation
Indices: 9415489--9415513 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9415479 TGGTGTCAAA
9415489 TTTAGGG
1 TTTAGGG
9415496 TTTAGGG
1 TTTAGGG
9415503 TTTAGGG
1 TTTAGGG
9415510 TTTA
1 TTTA
9415514 AAGATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:9423330 original size:33 final size:31
Alignment explanation
Indices: 9423281--9423423 Score: 119
Period size: 33 Copynumber: 4.4 Consensus size: 31
9423271 ATGGACCTTT
* * *
9423281 CCTTTTCTAATTGTACATC-CGAGGTGCACATT
1 CCTTTTC-AAGTGTACA-CACGAAGTGCACATA
*
9423313 CTCTTTTCAAGTCGTACACACGAAGTGTACATA
1 C-CTTTTCAAGT-GTACACACGAAGTGCACATA
*
9423346 CCCTTTTCAATTTGTACACACGAAGTGCACATAA
1 -CCTTTTCAA-GTGTACACACGAAGTGCACAT-A
* * *
9423380 CCTTTTCAAGTGTACACA-TATAGTGTACATTT
1 CCTTTTCAAGTGTACACACGA-AGTGCACA-TA
9423412 CCTTTTCAAGTG
1 CCTTTTCAAGTG
9423424 ATATACTCAA
Statistics
Matches: 93, Mismatches: 10, Indels: 16
0.78 0.08 0.13
Matches are distributed among these distances:
31 1 0.01
32 32 0.34
33 57 0.61
34 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (31 bp):
CCTTTTCAAGTGTACACACGAAGTGCACATA
Found at i:9423416 original size:32 final size:32
Alignment explanation
Indices: 9423315--9423423 Score: 130
Period size: 33 Copynumber: 3.3 Consensus size: 32
9423305 TGCACATTCT
*
9423315 CTTTTCAAGTCGTACACACGAAGTGTACATACC
1 CTTTTCAAGT-GTACACACGAAGTGTACATAAC
* *
9423348 CTTTTCAATTTGTACACACGAAGTGCACATAAC
1 CTTTTCAA-GTGTACACACGAAGTGTACATAAC
* **
9423381 CTTTTCAAGTGTACACA-TATAGTGTACATTTC
1 CTTTTCAAGTGTACACACGA-AGTGTACATAAC
9423413 CTTTTCAAGTG
1 CTTTTCAAGTG
9423424 ATATACTCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
31 1 0.02
32 28 0.42
33 36 0.55
34 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (32 bp):
CTTTTCAAGTGTACACACGAAGTGTACATAAC
Found at i:9423420 original size:65 final size:65
Alignment explanation
Indices: 9423278--9423420 Score: 168
Period size: 66 Copynumber: 2.2 Consensus size: 65
9423268 CTGATGGACC
* *
9423278 TTTCCTTTTCTAATTGTACATCCGAGGTGCACATTCTCTTTTCAAGTCGTACACACGAAGTGTAC
1 TTTCCTTTTC-AATTGTACATCCGAAGTGCACATACTCTTTTCAAGTCGTACACACGAAGTGTAC
9423343 A
65 A
** *
9423344 TACCCTTTTCAATTTGTACA-CACGAAGTGCACATAAC-CTTTTCAAGT-GTACACA-TATAGTG
1 TTTCCTTTTCAA-TTGTACATC-CGAAGTGCACAT-ACTCTTTTCAAGTCGTACACACGA-AGTG
9423405 TACA
62 TACA
9423409 TTTCCTTTTCAA
1 TTTCCTTTTCAA
9423421 GTGATATACT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
64 1 0.02
65 28 0.42
66 36 0.55
67 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (65 bp):
TTTCCTTTTCAATTGTACATCCGAAGTGCACATACTCTTTTCAAGTCGTACACACGAAGTGTACA
Found at i:9426680 original size:22 final size:23
Alignment explanation
Indices: 9426650--9426701 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
9426640 CTCAAAAATT
*
9426650 TAAAATTTTT-TAATTAAACCCC
1 TAAATTTTTTCTAATTAAACCCC
* * *
9426672 TAAATTTTTTCTCATTAAACTCT
1 TAAATTTTTTCTAATTAAACCCC
9426695 TAAATTT
1 TAAATTT
9426702 ATAAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAATTTTTTCTAATTAAACCCC
Found at i:9427104 original size:22 final size:22
Alignment explanation
Indices: 9427078--9427131 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
9427068 TTTAATTTTG
*
9427078 ATATAATTTAATTTATTTATTT
1 ATATAATTTAATTAATTTATTT
* * *
9427100 TTATAATTTCATTAATTTGTTT
1 ATATAATTTAATTAATTTATTT
*
9427122 ATATATTTTA
1 ATATAATTTA
9427132 CACCATTAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
ATATAATTTAATTAATTTATTT
Found at i:9429352 original size:22 final size:22
Alignment explanation
Indices: 9429320--9429380 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 22
9429310 TATTATTTTT
9429320 ATATAAAATTAAAT-T-TAAAA
1 ATATAAAATTAAATATATAAAA
9429340 ATATAATATATTAAATATATAAAAA
1 ATATAA-A-ATTAAATATAT-AAAA
9429365 ATATTAAAA-TAAATAT
1 ATA-TAAAATTAAATAT
9429381 TTTTTAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
20 6 0.17
21 1 0.03
22 7 0.20
23 8 0.23
24 2 0.06
25 8 0.23
26 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATAAAATTAAATATATAAAA
Found at i:9433773 original size:18 final size:18
Alignment explanation
Indices: 9433750--9433789 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
9433740 TTTAATTTCC
9433750 TTTAT-ATATTTTAGAATT
1 TTTATAATATTTTA-AATT
9433768 TTTATAAATATTTTAAATT
1 TTTAT-AATATTTTAAATT
9433787 TTT
1 TTT
9433790 TTTGTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 7 0.35
20 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTATAATATTTTAAATT
Found at i:9434057 original size:13 final size:13
Alignment explanation
Indices: 9434039--9434067 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9434029 GATAATTATT
9434039 ATTTTTGGAATAA
1 ATTTTTGGAATAA
9434052 ATTTTTGGAATAA
1 ATTTTTGGAATAA
9434065 ATT
1 ATT
9434068 ACACCAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (13 bp):
ATTTTTGGAATAA
Found at i:9437853 original size:43 final size:43
Alignment explanation
Indices: 9437792--9437880 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
9437782 TTGACAAGAT
9437792 TAAGAAAAAAACAAAGCACAATAACTACTAAATAAGCATGAAA
1 TAAGAAAAAAACAAAGCACAATAACTACTAAATAAGCATGAAA
9437835 TAAGAAAAAAACAAAGCACAATAACTACTAAATAAGCATGAAA
1 TAAGAAAAAAACAAAGCACAATAACTACTAAATAAGCATGAAA
9437878 TAA
1 TAA
9437881 TTAACATAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.63, C:0.13, G:0.09, T:0.15
Consensus pattern (43 bp):
TAAGAAAAAAACAAAGCACAATAACTACTAAATAAGCATGAAA
Found at i:9449442 original size:15 final size:15
Alignment explanation
Indices: 9449385--9449447 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 15
9449375 ATTTAGCAGT
*
9449385 AAGGAGAAGAAAATAA
1 AAGGAGAAGAAAA-AG
*
9449401 AAGGA-AAGAAAGGAG
1 AAGGAGAAGAAA-AAG
9449416 AAGAGAAGGAAGAAAAAG
1 AAG-G-A-GAAGAAAAAG
9449434 AAGGAGAAGAAAAA
1 AAGGAGAAGAAAAA
9449448 AAGAAGGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
15 19 0.49
16 7 0.18
17 2 0.05
18 5 0.13
19 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.02
Consensus pattern (15 bp):
AAGGAGAAGAAAAAG
Found at i:9453531 original size:33 final size:32
Alignment explanation
Indices: 9453459--9453533 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
9453449 AGGAGTGGAG
*
9453459 TACTGCAGTGGATACGGGCCGGGGCAGTGCTA
1 TACTGCGGTGGATACGGGCCGGGGCAGTGCTA
* *
9453491 TAATGCGGTGGATATGGGCCGGGAG-AGGTGCTA
1 TACTGCGGTGGATACGGGCCGGG-GCA-GTGCTA
*
9453524 TGCTGCGGTG
1 TACTGCGGTG
9453534 TGTACGACCC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 21 0.58
33 15 0.42
ACGTcount: A:0.17, C:0.17, G:0.44, T:0.21
Consensus pattern (32 bp):
TACTGCGGTGGATACGGGCCGGGGCAGTGCTA
Found at i:9453698 original size:72 final size:72
Alignment explanation
Indices: 9453581--9453721 Score: 228
Period size: 72 Copynumber: 2.0 Consensus size: 72
9453571 GCCCCCCGAT
* *
9453581 GAGCCCGAGAAATTGTCATTGCCCGCAAAATCTGGATGATAAGAAGTATCAGCCGAAAGTGAATG
1 GAGCCCGAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
9453646 CGATGAC
66 CGATGAC
* * * *
9453653 GAGCCCGAGAAATAGTCATTGCCTGCCAAATCCGGATGATAAGAAGTATCAGTCGAATGTGAATG
1 GAGCCCGAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
9453718 CGAT
66 CGAT
9453722 CGCTCGGACT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (72 bp):
GAGCCCGAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
CGATGAC
Found at i:9455802 original size:22 final size:21
Alignment explanation
Indices: 9455774--9455815 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
9455764 TAGTACATAA
9455774 TGTTTTAAATATATTATTTAAG
1 TGTTTTAAATAT-TTATTTAAG
*
9455796 TGTTTTAAATATTTTTTTAA
1 TGTTTTAAATATTTATTTAA
9455816 TAAATAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TGTTTTAAATATTTATTTAAG
Found at i:9455866 original size:15 final size:14
Alignment explanation
Indices: 9455846--9455908 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
9455836 ACTTTATTCA
9455846 TATTTTTTCGTATAT
1 TATTTTTTC-TATAT
* *
9455861 TATTTTTT-AAAAT
1 TATTTTTTCTATAT
*
9455874 ATATTTTTTCCTATTT
1 -TATTTTTT-CTATAT
9455890 TATTTTTT-TATAT
1 TATTTTTTCTATAT
9455903 TATTTT
1 TATTTT
9455909 AGCAAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
13 13 0.33
14 8 0.21
15 16 0.41
16 2 0.05
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.70
Consensus pattern (14 bp):
TATTTTTTCTATAT
Found at i:9456057 original size:154 final size:145
Alignment explanation
Indices: 9455952--9456654 Score: 635
Period size: 145 Copynumber: 4.8 Consensus size: 145
9455942 ATGTAAGTGT
* * *
9455952 TTTTTTATACTAATTTAATAAATAACCCTGATTTT-G-ACATTTTTTCGTATTTTTTT-GTATCT
1 TTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCAC-TTTATTCGTATTTTTTTCGTATAT
* * * *
9456014 TATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCA
65 TATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATGTTTCA
9456079 AATGTATTATTTCAATA
130 AATGTATTATTT-AATA
* *
9456096 TTTTTTATATT-TTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
1 TTTTTTATATTAATTT-AATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
* * **
9456160 TATTTTTTAAAATATATTTTTTTCTTATTTTATTT-TTTATATTATTTTAGCAAAAAA-AATTCA
65 TATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATGTTTCA
* *
9456223 AATGTATTAATTAACTG
130 AATGTATTATTTAA-TA
* *
9456240 TTTCTTTATATTAAGGGTTTTTTACTAAATAACCCTGATTTT-GATACTTT-TTCGTAATTTTTT
1 TTT-TTTATATTAA------TTTAATAAATAACCCTGATTTTAG-CACTTTATTCGT-A----TT
* *
9456303 TATTTTCGTATATTATTTTTTAATATATATTATTTTCGT-TTTTATTTCTTTATATTATTTTAGT
53 T-TTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGC
* * *
9456367 ACATAATGCTTCAAATGTATTATTTAAGTA
117 AAAAAATGTTTCAAATGTATTATTTAA-TA
**
9456397 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
1 TTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
* * **
9456462 ATTTTTTAAAATATATTATTTT-G----GTA------T-T-TTATTTTAGCATAAAATCATTCAA
66 ATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATGTTTCAA
9456514 ATGTATTATTTAAGT-
131 ATGTATTATTTAA-TA
* * * * * **
9456529 TTTTTTATATTAATTTAATAAGTAA-CCTGACTTTGGCACCTTGTTCGTATTTTTTTATTTTCAA
1 TTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA----TTT-TTTTCGT
* * * * * * *
9456593 ATTTTATTTTTTTAATTATACTATTTTCATATTTTATTTTTTTATATTATTTTAACAAAAAA
61 ATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAA
9456655 CTCGTCACCA
Statistics
Matches: 459, Mismatches: 58, Indels: 79
0.77 0.10 0.13
Matches are distributed among these distances:
131 20 0.04
132 22 0.05
133 34 0.07
134 1 0.00
135 4 0.01
136 28 0.06
141 4 0.01
143 5 0.01
144 48 0.10
145 76 0.17
146 43 0.09
147 1 0.00
148 1 0.00
149 14 0.03
150 33 0.07
151 29 0.06
152 3 0.01
155 11 0.02
156 61 0.13
157 21 0.05
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (145 bp):
TTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
ATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATGTTTCAA
ATGTATTATTTAATA
Found at i:9456138 original size:298 final size:294
Alignment explanation
Indices: 9455591--9456496 Score: 1164
Period size: 301 Copynumber: 3.1 Consensus size: 294
9455581 AAGTAAAATA
* *
9455591 TTTTCGTATATTATTTTTTATATTATTTTAGC-AAAAATGTTTTAAATGTATTATG-TAA-GT-A
1 TTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTTAATGTAA
*
9455652 ---TTTTTTATATAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGTATCT
66 TGTTTTTTTATATAATTTAATAAATAACCCTGATTTTGACACTTTTTCGTATTTTTTTCGTATCT
* * *
9455714 T-TTTTTT-AAATATATTACTTTCGTATTATTTAATT-TTAAAACCCTTATTTTAGTACATAATG
131 TATTTTTTAAAATATATTATTTTCGTA-T-TTTATTTCTTAATA---TTATTTTAGTACATAATG
* * * **
9455776 TTTTAAATATATTATTTAAGTGTTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCACTTT
191 TTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTT
*
9455841 ATTCATA-TTTTTTCGTATATTATTTTTTAAAATATATT
256 ATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATT
*
9455879 TTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTATATTAT
1 TTTTCGTATTTTA-TTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGT-TA--AT
*
9455944 GTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTGATTTTGACATTTTTTCGTATTTTTTT-
62 GTAA-TGTTTTTTTATA-TAATTTAATAAATAACCCTGATTTTGACACTTTTTCGTATTTTTTTC
*
9456008 GTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAAT
125 GTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTAATATTATTTTAGTACATAAT
* *
9456073 GTTTCAAATGTATTATTTCAA-TATTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACT
190 GTTTCAAATGTATTATTT-AAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACT
9456137 TTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTT
254 TTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATA-TT
* ** *
9456179 TTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAA-AATTCAAATGTATTA-ATTAACTGT-
1 TTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTTAA-TGTA
* * * ** * *
9456241 TTCTTTATATTA-AGGGTTTTTTACTAAATAACCCTGATTTTGATACTTTTTCGTAATTTTTTTA
65 ATGTTT-TTTTATA---TAATTTAATAAATAACCCTGATTTTGACACTTTTTCGT-A----TTT-
* * *
9456305 TTTTCGTATATTATTTTTTAATATATATTATTTTCGT-TTTTATTTCTTTATATTATTTTAGTAC
120 TTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTAATATTATTTTAGTAC
*
9456369 ATAATGCTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG
185 ATAATGTTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG
9456434 CACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATT
250 CACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATT
*
9456479 ATTTTGGTATTTTATTTT
1 -TTTTCGTATTTTATTTT
9456497 AGCATAAAAT
Statistics
Matches: 548, Mismatches: 38, Indels: 51
0.86 0.06 0.08
Matches are distributed among these distances:
288 11 0.02
289 19 0.03
290 22 0.04
292 2 0.00
293 5 0.01
294 6 0.01
295 38 0.07
296 4 0.01
297 1 0.00
298 92 0.17
299 56 0.10
300 43 0.08
301 202 0.37
302 47 0.09
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (294 bp):
TTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTTAATGTAA
TGTTTTTTTATATAATTTAATAAATAACCCTGATTTTGACACTTTTTCGTATTTTTTTCGTATCT
TATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTAATATTATTTTAGTACATAATGTTTCA
AATGTATTATTTAAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCG
TATTTTTTTCGTATATTATTTTTTAAAATATATT
Found at i:9456166 original size:145 final size:145
Alignment explanation
Indices: 9455965--9456495 Score: 671
Period size: 145 Copynumber: 3.6 Consensus size: 145
9455955 TTTATACTAA
* *
9455965 TTTAATAAATAACCCTGATTTTG-ACATTTTTTCGTATTTTTTT-GTATCTTATTTTTTAAAATA
1 TTTAATAAATAACCCTGATTTTGCAC-TTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATA
* *
9456028 TATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTCA
65 TATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGATTCAAATGTATTATTT-A
9456093 A-TATTTTTTATATTTT
129 ACTATTTTTTATATTTT
* *
9456109 TTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATA
1 TTTAATAAATAACCCTGATTTT-GCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATA
* * * * ** *
9456174 TATTTTTTTCTTATTTTATTT-TTTATATTATTTTAGCA-AAAAAAATTCAAATGTATTAATTAA
65 TATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGATTCAAATGTATTATTTAA
*
9456237 CTGTTTCTTTATATTAAGGGTTT
130 CTATTT-TTTATA-T-----TTT
* *
9456260 TTTACTAAATAACCCTGATTTTGATACTTT-TTCGTAATTTTTTTATTTTCGTATATTATTTTTT
1 TTTAATAAATAACCCTGATTTTG-CACTTTATTCGT-A----TTT-TTTTCGTATATTATTTTTT
* *
9456324 AATATATATTATTTTCGT-TTTTATTTCTTTATATTATTTTAGTACATAATGCTTCAAATGTATT
59 AAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGATTCAAATGTATT
*
9456388 ATTTAAGTATTTTTTATATTTT
124 ATTTAACTATTTTTTATATTTT
9456410 TTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATA
1 TTTAATAAATAACCCTGATTTT-GCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATA
*
9456475 TATTATTTTGGTATTTTATTT
65 TATTATTTTCGTATTTTATTT
9456496 TAGCATAAAA
Statistics
Matches: 331, Mismatches: 33, Indels: 44
0.81 0.08 0.11
Matches are distributed among these distances:
143 2 0.01
144 42 0.13
145 73 0.22
146 52 0.16
150 36 0.11
151 34 0.10
155 12 0.04
156 56 0.17
157 24 0.07
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.57
Consensus pattern (145 bp):
TTTAATAAATAACCCTGATTTTGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATAT
ATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGATTCAAATGTATTATTTAAC
TATTTTTTATATTTT
Found at i:9456196 original size:17 final size:17
Alignment explanation
Indices: 9456174--9456208 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9456164 TTTTAAAATA
*
9456174 TATTTTTT-TCTTATTT
1 TATTTTTTATATTATTT
9456190 TATTTTTTATATTATTT
1 TATTTTTTATATTATTT
9456207 TA
1 TA
9456209 GCAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTTTTATATTATTT
Found at i:9456310 original size:17 final size:19
Alignment explanation
Indices: 9456288--9456322 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
9456278 TTTTGATACT
9456288 TTTTCGTA-ATT-TTTTTA
1 TTTTCGTATATTATTTTTA
9456305 TTTTCGTATATTATTTTT
1 TTTTCGTATATTATTTTT
9456323 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.71
Consensus pattern (19 bp):
TTTTCGTATATTATTTTTA
Found at i:9456336 original size:30 final size:28
Alignment explanation
Indices: 9456302--9456361 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
9456292 CGTAATTTTT
9456302 TTATTTTCGTATATTATTT-TTTAATATATA
1 TTATTTTCGT-TATTATTTCTTT-ATAT-TA
*
9456332 TTATTTTCGTTTTTATTTCTTTATATTA
1 TTATTTTCGTTATTATTTCTTTATATTA
9456360 TT
1 TT
9456362 TTAGTACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 4 0.14
29 11 0.39
30 13 0.46
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.68
Consensus pattern (28 bp):
TTATTTTCGTTATTATTTCTTTATATTA
Found at i:9456620 original size:30 final size:31
Alignment explanation
Indices: 9456584--9456642 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
9456574 CGTATTTTTT
9456584 TATTTTCAAATTTTATTTTTTTA-ATTATAC
1 TATTTTCAAATTTTATTTTTTTATATTATAC
*
9456614 TATTTTCATATTTTATTTTTTTATATTAT
1 TATTTTCAAATTTTATTTTTTTATATTAT
9456643 TTTAACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (31 bp):
TATTTTCAAATTTTATTTTTTTATATTATAC
Found at i:9456626 original size:131 final size:130
Alignment explanation
Indices: 9456376--9456628 Score: 280
Period size: 136 Copynumber: 1.9 Consensus size: 130
9456366 TACATAATGC
** * *
9456376 TTCAAATGTATTATTTAAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTA
1 TTCAAATGTATTATTTAAGTATTTTTTATATTAATTTAATAAATAACCCTGACTTTAGCACCTTA
** * *
9456441 TTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTGGTATTTTATTTTAGCATAAAA
66 TTCGTATTTTTTTCAAATATTATTTTTTAAAATATACTATTTT-GCA--TTATTTTAGCATAAAA
9456506 TCA
128 TCA
* * *
9456509 TTCAAATGTATTATTTAAGT-TTTTTTATATTAATTTAATAAGTAA-CCTGACTTTGGCACCTTG
1 TTCAAATGTATTATTTAAGTATTTTTTATATTAATTTAATAAATAACCCTGACTTTAGCACCTTA
* * *
9456572 TTCGTATTTTTTTATTTTCAAATTTTATTTTTTTAATTATACTATTTT-CA-TATTTTA
66 TTCGTA----TTT-TTTTCAAATATTATTTTTTAAAATATACTATTTTGCATTATTTTA
9456629 TTTTTTTATA
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
131 27 0.27
132 22 0.22
133 20 0.20
134 1 0.01
135 3 0.03
136 28 0.28
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (130 bp):
TTCAAATGTATTATTTAAGTATTTTTTATATTAATTTAATAAATAACCCTGACTTTAGCACCTTA
TTCGTATTTTTTTCAAATATTATTTTTTAAAATATACTATTTTGCATTATTTTAGCATAAAATCA
Found at i:9457099 original size:14 final size:14
Alignment explanation
Indices: 9457080--9457142 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
9457070 AAAAAATTAC
9457080 CTTTTTCTTTCCTT
1 CTTTTTCTTTCCTT
* *
9457094 CTTTTTCCTTCCCT
1 CTTTTTCTTTCCTT
*
9457108 CTTCTTCTTCTCCTTCT
1 CTTTTTCTT-TCC-T-T
9457125 CTTTTTCTTT--TT
1 CTTTTTCTTTCCTT
9457137 CTTTTT
1 CTTTTT
9457143 TCTTCTCTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 7 0.17
13 1 0.03
14 19 0.47
15 3 0.08
16 1 0.03
17 9 0.22
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
CTTTTTCTTTCCTT
Found at i:9457113 original size:17 final size:18
Alignment explanation
Indices: 9457091--9457137 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
9457081 TTTTTCTTTC
9457091 CTTCTTTTTCCTTC-CCT
1 CTTCTTTTTCCTTCTCCT
*
9457108 CTTCTTCTTCTCCTTCTCTT
1 CTTCTT-TT-TCCTTCTCCT
*
9457128 TTTCTTTTTC
1 CTTCTTTTTC
9457138 TTTTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 8 0.32
20 7 0.28
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTCTTTTTCCTTCTCCT
Found at i:9458788 original size:15 final size:15
Alignment explanation
Indices: 9458768--9458798 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9458758 TAATTTAATA
9458768 TTTTAATAATTAGAG
1 TTTTAATAATTAGAG
9458783 TTTTAATAATTAGAG
1 TTTTAATAATTAGAG
9458798 T
1 T
9458799 AATAATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (15 bp):
TTTTAATAATTAGAG
Found at i:9458804 original size:15 final size:15
Alignment explanation
Indices: 9458771--9458804 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9458761 TTTAATATTT
**
9458771 TAATAATTAGAGTTT
1 TAATAATTAGAGTAA
9458786 TAATAATTAGAGTAA
1 TAATAATTAGAGTAA
9458801 TAAT
1 TAAT
9458805 CAAATCGGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (15 bp):
TAATAATTAGAGTAA
Found at i:9461594 original size:2 final size:2
Alignment explanation
Indices: 9461587--9461619 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9461577 TAATTAAAAT
9461587 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 T
9461620 TATTACATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9479884 original size:22 final size:22
Alignment explanation
Indices: 9479835--9479888 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
9479825 GTAAAAAAAA
*
9479835 TTATTGTTTTATTGTTGTTTTC
1 TTATTGTTTTACTGTTGTTTTC
** *
9479857 CCATTGTTTTACTGTTGTTTTT
1 TTATTGTTTTACTGTTGTTTTC
9479879 TTATTGTTTT
1 TTATTGTTTT
9479889 TCACTGTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.09, C:0.07, G:0.13, T:0.70
Consensus pattern (22 bp):
TTATTGTTTTACTGTTGTTTTC
Found at i:9481336 original size:21 final size:22
Alignment explanation
Indices: 9481311--9481355 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
9481301 TGTTTATAAA
*
9481311 TATTGTGTGGAAAATA-TATAT
1 TATTGTATGGAAAATATTATAT
* *
9481332 TATTGTATGTATAATATTATAT
1 TATTGTATGGAAAATATTATAT
9481354 TA
1 TA
9481356 ATTTGTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (22 bp):
TATTGTATGGAAAATATTATAT
Found at i:9485067 original size:14 final size:14
Alignment explanation
Indices: 9485050--9485077 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9485040 AATTTAAATT
9485050 TTTTAATTAATTAA
1 TTTTAATTAATTAA
9485064 TTTTAATTAATTAA
1 TTTTAATTAATTAA
9485078 AAATTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAATTAATTAA
Found at i:9486486 original size:14 final size:15
Alignment explanation
Indices: 9486456--9486487 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9486446 TCGGTTTTTA
9486456 TAAAATAGAAGAAAT
1 TAAAATAGAAGAAAT
9486471 TAAAATAGAA-AAAT
1 TAAAATAGAAGAAAT
9486485 TAA
1 TAA
9486488 TAATTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (15 bp):
TAAAATAGAAGAAAT
Found at i:9486605 original size:14 final size:14
Alignment explanation
Indices: 9486582--9486616 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
9486572 GCTTTGCATG
9486582 CACGAATTTT-CTA
1 CACGAATTTTGCTA
9486595 CACGCAATTTTGCTA
1 CACG-AATTTTGCTA
9486610 CACGAAT
1 CACGAAT
9486617 AAAACCCAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 9 0.45
15 7 0.35
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (14 bp):
CACGAATTTTGCTA
Found at i:9489850 original size:26 final size:24
Alignment explanation
Indices: 9489810--9489869 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
9489800 TTATTTTATT
* * *
9489810 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
9489834 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
9489860 AAATAAATAT
1 AAATAAATAT
9489870 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:9489881 original size:22 final size:22
Alignment explanation
Indices: 9489840--9489898 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
9489830 ATAATAAATC
* *
9489840 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
9489860 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
9489882 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
9489899 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:9490184 original size:2 final size:2
Alignment explanation
Indices: 9490177--9490230 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
9490167 ATCAGCTCTA
9490177 AT AT 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 AT AT AT
*
9490218 AA AT -T AT AT AT AT
1 AT AT AT AT AT AT AT
9490231 TTTTGACACA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
1 2 0.04
2 47 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9490647 original size:19 final size:19
Alignment explanation
Indices: 9490623--9490667 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
9490613 TAAATTTAAG
*
9490623 AATTTTTATAAATATTTTT
1 AATTTTTAAAAATATTTTT
*
9490642 AATTTTAAAAAATATTTTT
1 AATTTTTAAAAATATTTTT
*
9490661 GATTTTT
1 AATTTTT
9490668 TTTTGTAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTTTTAAAAATATTTTT
Found at i:9490995 original size:60 final size:62
Alignment explanation
Indices: 9490926--9491060 Score: 177
Period size: 62 Copynumber: 2.2 Consensus size: 62
9490916 TCTTCTAAGA
*
9490926 ATTTGATTATAAACTCTTC-TTCTCCT-TTTT-ACGTCTCAATCCAATTCGTTGGACTTCTTG
1 ATTTGATTATAAACTCTTCATT-TCCTGTTTTCACGTCTCAATCCAATTCGTTGGAATTCTTG
* * * * * *
9490986 ATTTGATTATAAACTTTTCATTTCTTGTTTTCATGTCTCGATTCAATTGGTTGGAATTCTTG
1 ATTTGATTATAAACTCTTCATTTCCTGTTTTCACGTCTCAATCCAATTCGTTGGAATTCTTG
9491048 ATTTGATTATAAA
1 ATTTGATTATAAA
9491061 AAGTTTACCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
60 21 0.32
61 6 0.09
62 38 0.58
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.49
Consensus pattern (62 bp):
ATTTGATTATAAACTCTTCATTTCCTGTTTTCACGTCTCAATCCAATTCGTTGGAATTCTTG
Found at i:9493212 original size:22 final size:23
Alignment explanation
Indices: 9493164--9493212 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
9493154 CAATCCTTTT
* *
9493164 ATTTTTATTTGTTCAAAATTGAT
1 ATTTCTATTTGTTCAAAATTGAC
9493187 ATTTCTATTT-TTC-AAATTGTAC
1 ATTTCTATTTGTTCAAAATTG-AC
9493209 ATTT
1 ATTT
9493213 TCACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 9 0.39
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (23 bp):
ATTTCTATTTGTTCAAAATTGAC
Found at i:9497328 original size:26 final size:25
Alignment explanation
Indices: 9497298--9497346 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
9497288 GGTTTCTCTA
*
9497298 TTATATTAAAATTTAAAATTTAATTC
1 TTATATCAAAA-TTAAAATTTAATTC
*
9497324 TTATATCAAAATTATAATTTAAT
1 TTATATCAAAATTAAAATTTAAT
9497347 ATTTTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (25 bp):
TTATATCAAAATTAAAATTTAATTC
Found at i:9499411 original size:19 final size:21
Alignment explanation
Indices: 9499378--9499417 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
9499368 TCTTTAAAAA
*
9499378 AAAAAAGAACCTAATA-GAAT
1 AAAAAAGAACATAATACGAAT
9499398 AAAAAAGAA-ATAATACGAAT
1 AAAAAAGAACATAATACGAAT
9499418 CATGCTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.68, C:0.07, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAAAAGAACATAATACGAAT
Found at i:9505673 original size:17 final size:16
Alignment explanation
Indices: 9505647--9505679 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
9505637 ATCATGTGTC
9505647 ATTTTTTTAAATATTT
1 ATTTTTTTAAATATTT
9505663 ATTTATTTTAAATATTT
1 ATTT-TTTTAAATATTT
9505680 TACTGTACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTTTAAATATTT
Found at i:9506046 original size:13 final size:14
Alignment explanation
Indices: 9506005--9506046 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
9505995 TGGGATGAAA
9506005 AAAAAATTTTAATT
1 AAAAAATTTTAATT
9506019 AAAAAAATTAATTAATT
1 -AAAAAATT--TTAATT
9506036 -AAAAATTTTAA
1 AAAAAATTTTAA
9506047 ACCTAAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.16
15 15 0.60
17 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAAAATTTTAATT
Found at i:9506046 original size:17 final size:15
Alignment explanation
Indices: 9506004--9506040 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 15
9505994 ATGGGATGAA
9506004 AAAAAAATTTTAATT
1 AAAAAAATTTTAATT
9506019 AAAAAAATTAATTAATT
1 AAAAAAATT--TTAATT
9506036 AAAAA
1 AAAAA
9506041 TTTTAAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.45
17 11 0.55
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAAAATTTTAATT
Found at i:9506877 original size:31 final size:29
Alignment explanation
Indices: 9506858--9506929 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
9506848 AAAATAATAG
**
9506858 CATAAGTGACTAAAACGTAACATTTCAAA
1 CATAAGTGACTAAAACGTAACAAATCAAA
9506887 CATAAGTGACTAAAACGTAACCTGAAA-CAAA
1 CATAAGTGACTAAAACGTAA-C--AAATCAAA
*
9506918 CAAAAGTGACTA
1 CATAAGTGACTA
9506930 TTTTTGTAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 20 0.54
30 1 0.03
31 15 0.41
32 1 0.03
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.19
Consensus pattern (29 bp):
CATAAGTGACTAAAACGTAACAAATCAAA
Found at i:9511344 original size:13 final size:13
Alignment explanation
Indices: 9511326--9511351 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9511316 AGTTAATATG
9511326 TTAAAAATATTAA
1 TTAAAAATATTAA
9511339 TTAAAAATATTAA
1 TTAAAAATATTAA
9511352 AAGGTTGAAG
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAAATATTAA
Found at i:9512146 original size:29 final size:29
Alignment explanation
Indices: 9512103--9512164 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
9512093 ATAATTTAAT
* *
9512103 AATTTTAATAGTTTTA-AATTTTTTAAAATA
1 AATTTTAATAATTTTATAA-ATTTTAAAA-A
9512133 AATTTT-ATAATTTTATAAATTTTAAAAA
1 AATTTTAATAATTTTATAAATTTTAAAAA
9512161 AATT
1 AATT
9512165 AATTAATTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.17
29 16 0.55
30 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
AATTTTAATAATTTTATAAATTTTAAAAA
Found at i:9513902 original size:2 final size:2
Alignment explanation
Indices: 9513897--9513923 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9513887 AAAAAAAAAA
9513897 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
9513924 ACATTCAAGT
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:9513979 original size:44 final size:44
Alignment explanation
Indices: 9513911--9514000 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 44
9513901 ATATATATAT
*
9513911 ATATATATATATAACATTCAAGTCCATAATGAATAGATGTCTAA
1 ATATATATATATAACATTCAAGTCCATAATGAATAGATGTCCAA
*
9513955 ATATGTATATA-AACATTCAAAGTCCATAATGAATAGATGTCCAA
1 ATATATATATATAACATTC-AAGTCCATAATGAATAGATGTCCAA
9513999 AT
1 AT
9514001 TTATTTGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 7 0.16
44 36 0.84
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (44 bp):
ATATATATATATAACATTCAAGTCCATAATGAATAGATGTCCAA
Found at i:9514074 original size:16 final size:16
Alignment explanation
Indices: 9514055--9514085 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9514045 TTTAAATTAT
9514055 AAAAATTTTAAAAATG
1 AAAAATTTTAAAAATG
*
9514071 AAAACTTTTAAAAAT
1 AAAAATTTTAAAAAT
9514086 TGTAAAACAT
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:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (16 bp):
AAAAATTTTAAAAATG
Found at i:9524460 original size:31 final size:31
Alignment explanation
Indices: 9524422--9524487 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 31
9524412 CCAACTTAAG
9524422 AAAAGTGTCAAGTTT-AGGTATTAAATTAGGA-
1 AAAAGTGTCAAGTTTGA-GTATTAAATT-GGAC
9524453 AAAAGTGTCAAGTTTGAGTATTAAATTGGAC
1 AAAAGTGTCAAGTTTGAGTATTAAATTGGAC
9524484 AAAA
1 AAAA
9524488 AAATTTAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 3 0.09
31 29 0.88
32 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (31 bp):
AAAAGTGTCAAGTTTGAGTATTAAATTGGAC
Found at i:9530310 original size:29 final size:30
Alignment explanation
Indices: 9530244--9530312 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
9530234 ATTAATAAAC
* * * *
9530244 ATAAAATTACATTTTAATCTTTTTAAAATT
1 ATAAAATTACAATTTAATCATTTAAAAATA
*
9530274 ATAAAAATTA-AATTTATTCATTTAAAAATA
1 AT-AAAATTACAATTTAATCATTTAAAAATA
9530304 ATAAAATTA
1 ATAAAATTA
9530313 TAGGCTATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 19 0.58
31 7 0.21
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (30 bp):
ATAAAATTACAATTTAATCATTTAAAAATA
Found at i:9530713 original size:17 final size:18
Alignment explanation
Indices: 9530693--9530730 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
9530683 AATACATTTT
9530693 TTAAAAAAGT-AAATAAC
1 TTAAAAAAGTCAAATAAC
* *
9530710 TTAAAATAGTCAACTAAC
1 TTAAAAAAGTCAAATAAC
9530728 TTA
1 TTA
9530731 TTAAGACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (18 bp):
TTAAAAAAGTCAAATAAC
Found at i:9536380 original size:2 final size:2
Alignment explanation
Indices: 9536373--9536402 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9536363 AGCGGCATTC
9536373 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9536403 GATACTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9538833 original size:6 final size:6
Alignment explanation
Indices: 9538822--9538846 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9538812 ATCCAGGCTC
9538822 TCTCTT TCTCTT TCTCTT TCTCTT T
1 TCTCTT TCTCTT TCTCTT TCTCTT T
9538847 ATTATTATTA
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TCTCTT
Found at i:9540121 original size:46 final size:46
Alignment explanation
Indices: 9539848--9540121 Score: 397
Period size: 46 Copynumber: 6.0 Consensus size: 46
9539838 TTTGACATGA
* * * * * *
9539848 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
9539894 TGCCATGGTGTCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
9539940 TGCAATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
9539986 TGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9540032 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
9540078 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
9540122 AGAGCACACT
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 207 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:9550108 original size:44 final size:45
Alignment explanation
Indices: 9550013--9550127 Score: 144
Period size: 44 Copynumber: 2.6 Consensus size: 45
9550003 ACAAGACAGA
*
9550013 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCTTTGGAG
* *
9550059 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGG-TATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCT-TTGGAG
* **
9550103 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
9550128 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 34 0.56
46 26 0.43
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCTTTGGAG
Found at i:9555736 original size:132 final size:130
Alignment explanation
Indices: 9555528--9556013 Score: 473
Period size: 132 Copynumber: 3.7 Consensus size: 130
9555518 GACGAGATTC
* * *
9555528 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCGAAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAA
*
9555593 TAATCGAATATCCCTTC-AAACTTTCACTCATGCCTTTTAAAAATTCTTTAAAACGAAGGCAAAG
66 TAATCGAATATCCCTTCGAAA-TTTCACTCATG-CTTTTAAAAATCCTTTAAAACGAAGGCAAA-
9555657 TTT
128 TTT
* * * *
9555660 GATATTTGGCAATTTGCGGAGTCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTACTCAAAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAA
* * * ** *
9555725 TAATCAAATATCCCTTTCGAGATTTCACCCATGTCTTCCAAAAATCCTTCAAAACGAAGGCAATA
66 TAATCGAATATCCC-TTCGAAATTTCACTCATG-CTTTTAAAAATCCTTTAAAACGAAGGCAA-A
* *
9555790 CTC
128 TTT
* * * * * *
9555793 GGTGTTTGACAATTCG-GGAATCATGCCCTATCGTGCTGGGTTGTAATTTCTCGTTT-CTTCAAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGC-TCAAA
* * * * * *
9555856 ACAATCGAATAT-CCTTCGGAATTTCACTCACGTTTTCTAAAAACCCTTTAAAACGAAAG-AAAT
65 ATAATCGAATATCCCTTCGAAATTTCACTCATGCTTT-TAAAAATCCTTTAAAACGAAGGCAAAT
9555919 ATT
129 -TT
* * * * * *
9555922 CGATGTTTGGCGATTCG-GAGAA-CAGTGCCCTATCATGCTGGGTTGCAATTTCCCGTTTGTTCA
1 -GATATTTGGCAATTCGCG-GAATC-GTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCA
* * * *
9555985 AAATAATCGAGTGTCTCTTCGGAATTTCA
63 AAATAATCGAATATCCCTTCGAAATTTCA
9556014 TTCGTATTTT
Statistics
Matches: 293, Mismatches: 50, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
128 1 0.00
129 5 0.02
130 47 0.16
131 50 0.17
132 136 0.46
133 51 0.17
134 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (130 bp):
GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAA
TAATCGAATATCCCTTCGAAATTTCACTCATGCTTTTAAAAATCCTTTAAAACGAAGGCAAATTT
Found at i:9572530 original size:38 final size:33
Alignment explanation
Indices: 9572474--9572548 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 33
9572464 TTGTTTCAAG
9572474 TTTTTTTTAATTAATATTTTGATGATTTTTTAATTAT
1 TTTTTTTTAATTAATATTTT--T-A-TTTTTAATTAT
9572511 TTTTTATTTAA-TATATATTTTTATTTTTAATTAT
1 TTTTT-TTTAATTA-ATATTTTTATTTTTAATTAT
9572545 TTTT
1 TTTT
9572549 ATAAGCATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
34 15 0.42
35 1 0.03
36 1 0.03
37 7 0.19
38 12 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.71
Consensus pattern (33 bp):
TTTTTTTTAATTAATATTTTTATTTTTAATTAT
Found at i:9572533 original size:17 final size:15
Alignment explanation
Indices: 9572502--9572548 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
9572492 TTGATGATTT
9572502 TTTAATTATTTTTTA
1 TTTAATTATTTTTTA
9572517 TTTAATATATATTTTTA
1 TTTAAT-TAT-TTTTTA
9572534 TTTTTAATTATTTTT
1 --TTTAATTATTTTT
9572549 ATAAGCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.21
16 3 0.11
17 10 0.36
18 3 0.11
19 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTAATTATTTTTTA
Found at i:9572545 original size:16 final size:16
Alignment explanation
Indices: 9572500--9572550 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
9572490 TTTTGATGAT
9572500 TTTTTAATTATTTTT-
1 TTTTTAATTATTTTTA
*
9572515 TATTTAATATATATTTTTA
1 T-TTTTA-AT-TATTTTTA
9572534 TTTTTAATTATTTTTA
1 TTTTTAATTATTTTTA
9572550 T
1 T
9572551 AAGCATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 1 0.03
16 13 0.43
17 4 0.13
18 11 0.37
19 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTAATTATTTTTA
Found at i:9572914 original size:139 final size:138
Alignment explanation
Indices: 9572678--9572961 Score: 365
Period size: 139 Copynumber: 2.1 Consensus size: 138
9572668 GGAACCTCAA
* ** * *
9572678 ACTCAAGGATGTAATCGCAATTATCTAACCATCTAATGAAAGGAGCTAATATGCTAAAAATATTA
1 ACTCAAGGATGTAATCGCAACTATCTAACCATCTAACCAAAGGAACTAATATGCTAAAAACATTA
* * *
9572743 ATTTAAAAAAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATATGAGTCGAAGAGGAATCA
66 ATTTAAAAAAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATATAAGTAGAAAAGGAATCA
9572808 AACTCGAG
131 AACTCGAG
* * * *
9572816 ACTCAAGGATGTAATTGCAACTATTTAGCCATCTAACCAAA-GAACTAATATGTTAAAAACATTA
1 ACTCAAGGATGTAATCGCAACTATCTAACCATCTAACCAAAGGAACTAATATGCTAAAAACATTA
* * * *
9572880 A-TTAAAGATTTAAAAAGCTTGAAGCAACATGAAATAAAAGATATAAATGTAAGTAGAAAAGGAA
66 ATTTAAA-A--AAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATATAAGTAGAAAAGGAA
* *
9572944 TCAAGCTCGGG
128 TCAAACTCGAG
9572955 ACTCAAG
1 ACTCAAG
9572962 AATAAAAACA
Statistics
Matches: 125, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
136 5 0.04
137 22 0.18
138 35 0.28
139 63 0.50
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.23
Consensus pattern (138 bp):
ACTCAAGGATGTAATCGCAACTATCTAACCATCTAACCAAAGGAACTAATATGCTAAAAACATTA
ATTTAAAAAAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATATAAGTAGAAAAGGAATCA
AACTCGAG
Found at i:9572981 original size:139 final size:137
Alignment explanation
Indices: 9572723--9572995 Score: 325
Period size: 139 Copynumber: 2.0 Consensus size: 137
9572713 ATGAAAGGAG
*
9572723 CTAATATGCTAAAAATATTAATTTAAAAAAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAA
1 CTAATATGCTAAAAACATTAATTTAAAAAAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAA
* * * * ** ***
9572788 TATGAGTCGAAGAGGAATCAAACTCGAGACTCAAGGATGTAATTGCAACTATTTAGCCATCTAAC
66 TATAAGTAGAAAAGGAATCAAACTCGAGACTCAAGAATAAAAACACAACTATTTAGCCATCTAAC
9572853 CAAAGAA
131 CAAAGAA
* * * *
9572860 CTAATATGTTAAAAACATTAA-TTAAAGATTTAAAAAGCTTGAAGCAACATGAAATAAAAGATAT
1 CTAATATGCTAAAAACATTAATTTAAA-A--AAAAAAGCTTGAAGCAACATGAAATAAAAAATAC
* * * *
9572924 AAATGTAAGTAGAAAAGGAATCAAGCTCGGGACTCAAGAATAAAAACACTAAC-ATTTATCCATC
63 AAATATAAGTAGAAAAGGAATCAAACTCGAGACTCAAGAATAAAAACAC-AACTATTTAGCCATC
*
9572988 TAGCCAAA
127 TAACCAAA
9572996 ATTGAAAGCA
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
136 5 0.04
137 20 0.18
139 85 0.75
140 3 0.03
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (137 bp):
CTAATATGCTAAAAACATTAATTTAAAAAAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAA
TATAAGTAGAAAAGGAATCAAACTCGAGACTCAAGAATAAAAACACAACTATTTAGCCATCTAAC
CAAAGAA
Found at i:9573909 original size:15 final size:16
Alignment explanation
Indices: 9573889--9573928 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
9573879 CCGCAACAGT
9573889 AAAAAAAACTGAAAA-
1 AAAAAAAACTGAAAAC
*
9573904 AAAAAACACTGAAAAC
1 AAAAAAAACTGAAAAC
9573920 GAAAAAAAA
1 -AAAAAAAA
9573929 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
17 7 0.33
ACGTcount: A:0.78, C:0.10, G:0.07, T:0.05
Consensus pattern (16 bp):
AAAAAAAACTGAAAAC
Found at i:9573986 original size:27 final size:27
Alignment explanation
Indices: 9573955--9574024 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
9573945 ATGTTGGTGC
*
9573955 CAGAGGTGGCACCAGTGTTGCCTCTGG
1 CAGAGGCGGCACCAGTGTTGCCTCTGG
*
9573982 CAGAGGCGGCACCAATGTTGCCTCTGG
1 CAGAGGCGGCACCAGTGTTGCCTCTGG
*
9574009 CAGAGGCAGCACCAGT
1 CAGAGGCGGCACCAGT
9574025 TGTGTGGGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.20, C:0.29, G:0.34, T:0.17
Consensus pattern (27 bp):
CAGAGGCGGCACCAGTGTTGCCTCTGG
Found at i:9574411 original size:145 final size:146
Alignment explanation
Indices: 9574103--9574514 Score: 632
Period size: 145 Copynumber: 2.8 Consensus size: 146
9574093 ATAAGTAAAA
* * * * *
9574103 TATTTTCGTATATTATTT-TTTATATTATTTTAGCAAAAAAATGTTTCAAATGTATTATGTAAGT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAG-TACATAATGTTTCAAATGTATTATTTAAGT
* * *
9574167 GTTTTTTTATATTAATTTAATAAATAACCCTGATTTT-GACACTTTCTTCGTATTTTTTTCGTAT
65 -ATTTTTTATATTTATTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTATTTTTTTCGTAT
9574231 CTTATTTTTTAAAATATAT
128 CTTATTTTTTAAAATATAT
* *
9574250 TATTTTCATATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
* *
9574315 TTTTTTATATTTATTCAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTT-GTATCTT
66 TTTTTTATATTTATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
9574379 ATTTTTTAAAATATAT
131 ATTTTTTAAAATATAT
* *
9574395 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
* *
9574460 TTTTTTATATTTTTTTAATAAATAACCTTGATTTTAGCACTTTATTCGTATTTTT
66 TTTTTTATATTTATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTT
9574515 ATTTTCGTAA
Statistics
Matches: 243, Mismatches: 20, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
145 135 0.56
146 51 0.21
147 43 0.18
148 14 0.06
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (146 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
TTTTTTATATTTATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
ATTTTTTAAAATATAT
Found at i:9577697 original size:2 final size:2
Alignment explanation
Indices: 9577692--9577719 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9577682 TTATATACAA
9577692 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9577720 CGGCCCCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9581046 original size:45 final size:46
Alignment explanation
Indices: 9580940--9581199 Score: 382
Period size: 46 Copynumber: 5.7 Consensus size: 46
9580930 GGCAACCTGA
*
9580940 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
9580986 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
9581031 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
**
9581077 GTGTAAGACCATGGTTGAAAGATA-CATGGCAATGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
*** * *
9581122 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAAT
* * * *
9581168 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
9581200 TCATGTCAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 86 0.43
46 112 0.57
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
Found at i:9581095 original size:91 final size:92
Alignment explanation
Indices: 9580940--9581199 Score: 382
Period size: 91 Copynumber: 2.8 Consensus size: 92
9580930 GGCAACCTGA
*
9580940 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
9581005 AGATACCATGGCAACCTGATAT-AAAT
66 AGATACCATGGCAACCTGATATGAAAT
9581031 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
**
9581096 AGATA-CATGGCAATGTGATATGAAAT
66 AGATACCATGGCAACCTGATATGAAAT
*** * * * *
9581122 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGTAAGACCATGGTTGA
* *
9581186 AAGACACTATGGCA
65 AAGATACCATGGCA
9581200 TCATGTCAAA
Statistics
Matches: 154, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
90 15 0.10
91 133 0.86
92 6 0.04
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (92 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
AGATACCATGGCAACCTGATATGAAAT
Found at i:9581221 original size:91 final size:88
Alignment explanation
Indices: 9580890--9581222 Score: 344
Period size: 91 Copynumber: 3.7 Consensus size: 88
9580880 AGTGTGCTCT
* *
9580890 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG----AGTG--TAAGA
1 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATA-CATGGC-ACATGTATAAATGAATAAGA
9580948 CCATGGTTGAAAGATACCATGGCAAC
63 CCATGGTTGAAAGATACCATGGCAAC
* * **
9580974 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAATGTGTAAGA
1 CTGATAGAAAATGTGTAAGACCATGGTTGAAAGATA-CATGGC-ACATG-TATAAATGAATAAGA
9581039 CCATGGTTGAAAGATACCATGGCAAC
63 CCATGGTTGAAAGATACCATGGCAAC
*
9581065 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACATGGCA-ATGTGATATGAAATGAACAA
1 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACATGGCACA--TG-TAT-AAATGAATAA
9581128 GACCATGGTTGAAAGATACCATGGCAAC
61 GACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
9581156 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCA-AAGATAAATAAG
1 CTGATAGAAAATGTGTAAGACCATGGTTGAAAGATAC-ATGGCA-CATGT-ATAA-ATGAATAAG
9581220 ACC
62 ACC
9581223 GTGGATGGGA
Statistics
Matches: 217, Mismatches: 14, Indels: 29
0.83 0.05 0.11
Matches are distributed among these distances:
84 47 0.22
89 4 0.02
90 15 0.07
91 141 0.65
92 9 0.04
94 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (88 bp):
CTGATAGAAAATGTGTAAGACCATGGTTGAAAGATACATGGCACATGTATAAATGAATAAGACCA
TGGTTGAAAGATACCATGGCAAC
Found at i:9583727 original size:33 final size:34
Alignment explanation
Indices: 9583690--9583776 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 34
9583680 GAGTAAAACT
9583690 ATAATATATTATATAAAAATTTACA-TTTAAAAA
1 ATAATATATTATATAAAAATTTACATTTTAAAAA
* *
9583723 ATAATAT-TTCATACATAAAATTTTACATTTTAAGAA
1 ATAATATATT-AT--ATAAAAATTTACATTTTAAAAA
9583759 ATAATGATATT-TA-AAAAA
1 ATAAT-ATATTATATAAAAA
9583777 GGTGAATAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
32 2 0.04
33 13 0.29
34 1 0.02
35 12 0.27
36 13 0.29
37 2 0.04
38 2 0.04
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (34 bp):
ATAATATATTATATAAAAATTTACATTTTAAAAA
Found at i:9585522 original size:19 final size:19
Alignment explanation
Indices: 9585492--9585543 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
9585482 CATGCGGATG
**
9585492 TTTATAAATTTTTTTATAAT
1 TTTAT-AATTTTTAGATAAT
*
9585512 TTTATAATTTTTAGATATT
1 TTTATAATTTTTAGATAAT
9585531 TTTATAATTTTTA
1 TTTATAATTTTTA
9585544 AATTAGTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 24 0.83
20 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTATAATTTTTAGATAAT
Found at i:9585547 original size:8 final size:9
Alignment explanation
Indices: 9585502--9585547 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
9585492 TTTATAAATT
9585502 TTTTTATAA
1 TTTTTATAA
9585511 -TTTTATAA
1 TTTTTATAA
*
9585519 TTTTTAGATA
1 TTTTTATA-A
9585529 TTTTTATAA
1 TTTTTATAA
9585538 TTTTTA-AA
1 TTTTTATAA
9585546 TT
1 TT
9585548 AGTTGTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
8 12 0.36
9 13 0.39
10 8 0.24
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:9587390 original size:26 final size:26
Alignment explanation
Indices: 9587356--9587410 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
9587346 TTTTAAAGTA
* *
9587356 AATAATAAAATGA-TTTAAAATGAAT
1 AATAATAAAACGAGTTTAAAATAAAT
*
9587381 AATACATAAAGCGAGTTTAAAATAAAT
1 AATA-ATAAAACGAGTTTAAAATAAAT
9587408 AAT
1 AAT
9587411 GTAGAAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.16
26 7 0.28
27 14 0.56
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (26 bp):
AATAATAAAACGAGTTTAAAATAAAT
Found at i:9593135 original size:9 final size:9
Alignment explanation
Indices: 9593121--9593145 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9593111 ACATAGTTTG
9593121 CATTTTATT
1 CATTTTATT
9593130 CATTTTATT
1 CATTTTATT
9593139 CATTTTA
1 CATTTTA
9593146 GTTCCTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
CATTTTATT
Found at i:9594996 original size:13 final size:14
Alignment explanation
Indices: 9594974--9595003 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
9594964 GTACATACTA
9594974 AAAGTGATAAAATT
1 AAAGTGATAAAATT
9594988 AAAGT-ATAAAATT
1 AAAGTGATAAAATT
9595001 AAA
1 AAA
9595004 TCCATAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (14 bp):
AAAGTGATAAAATT
Found at i:9599320 original size:3 final size:3
Alignment explanation
Indices: 9599314--9599348 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9599304 TAATAATTTT
9599314 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9599349 TAAGCGACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9605714 original size:54 final size:54
Alignment explanation
Indices: 9605651--9605757 Score: 214
Period size: 54 Copynumber: 2.0 Consensus size: 54
9605641 TATAATATAA
9605651 TTTCACATATGGAAACATTCAAACTTATTTTTTCTTTTTTCAATTAATGCAAAG
1 TTTCACATATGGAAACATTCAAACTTATTTTTTCTTTTTTCAATTAATGCAAAG
9605705 TTTCACATATGGAAACATTCAAACTTATTTTTTCTTTTTTCAATTAATGCAAA
1 TTTCACATATGGAAACATTCAAACTTATTTTTTCTTTTTTCAATTAATGCAAA
9605758 AGGTTAGGCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.45
Consensus pattern (54 bp):
TTTCACATATGGAAACATTCAAACTTATTTTTTCTTTTTTCAATTAATGCAAAG
Found at i:9607674 original size:11 final size:11
Alignment explanation
Indices: 9607658--9607683 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9607648 ACCATACTTC
9607658 GAAAAGTACAT
1 GAAAAGTACAT
9607669 GAAAAGTACAT
1 GAAAAGTACAT
9607680 GAAA
1 GAAA
9607684 GGAACAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.08, G:0.19, T:0.15
Consensus pattern (11 bp):
GAAAAGTACAT
Found at i:9610618 original size:10 final size:10
Alignment explanation
Indices: 9610603--9610628 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9610593 TTTTAACTCA
9610603 ACAAACTTTT
1 ACAAACTTTT
9610613 ACAAACTTTT
1 ACAAACTTTT
9610623 ACAAAC
1 ACAAAC
9610629 GTCTGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (10 bp):
ACAAACTTTT
Found at i:9610991 original size:2 final size:2
Alignment explanation
Indices: 9610984--9611020 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9610974 TGATATTAAT
9610984 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
9611021 TCGTGAAGAA
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:9611244 original size:24 final size:26
Alignment explanation
Indices: 9611217--9611271 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
9611207 ATTTAAATTA
9611217 ATAAA-ATAATTTT-AAAAATTTTAT
1 ATAAAGATAATTTTCAAAAATTTTAT
*
9611241 ATAAAGATATTTTTCAAAAATTTTAT
1 ATAAAGATAATTTTCAAAAATTTTAT
9611267 ATAAA
1 ATAAA
9611272 TTTAATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 5 0.18
25 7 0.25
26 16 0.57
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
ATAAAGATAATTTTCAAAAATTTTAT
Found at i:9612812 original size:19 final size:19
Alignment explanation
Indices: 9612777--9612815 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9612767 AATGGGTGAA
9612777 ATAACATTTCTAATTTTTT
1 ATAACATTTCTAATTTTTT
*
9612796 ATAA-ATTTCTATTTTTTT
1 ATAACATTTCTAATTTTTT
9612814 AT
1 AT
9612816 TTTTTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (19 bp):
ATAACATTTCTAATTTTTT
Found at i:9614850 original size:77 final size:78
Alignment explanation
Indices: 9614764--9614920 Score: 289
Period size: 77 Copynumber: 2.0 Consensus size: 78
9614754 CATATATATA
**
9614764 TATATATATATATGAACAAATAACCTGGTTTTGTTTAAGAA-TTAAGGGTGGGTTTGGATATGCG
1 TATATATATATATGAACAAATAACCTGGTTTTGTTTAAGAATTTAAGGGTGAATTTGGATATGCG
9614828 GTAAGGTGTAGTG
66 GTAAGGTGTAGTG
9614841 TATATATATATATGAACAAATAACCTGGTTTTGTTTAAGAATTTAAGGGTGAATTTGGATATGCG
1 TATATATATATATGAACAAATAACCTGGTTTTGTTTAAGAATTTAAGGGTGAATTTGGATATGCG
9614906 GTAAGGTGTAGTG
66 GTAAGGTGTAGTG
9614919 TA
1 TA
9614921 GTATGTTTAG
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
77 41 0.53
78 36 0.47
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.37
Consensus pattern (78 bp):
TATATATATATATGAACAAATAACCTGGTTTTGTTTAAGAATTTAAGGGTGAATTTGGATATGCG
GTAAGGTGTAGTG
Found at i:9615876 original size:31 final size:31
Alignment explanation
Indices: 9615805--9615876 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
9615795 AAAAAAACAA
*
9615805 TAATTTTTTTTTGAAAGGTTGACGGCTAAAT
1 TAATATTTTTTTGAAAGGTTGACGGCTAAAT
* * *
9615836 TCAA-CTTTTTTT-AAATGTTGATGGCCTAAAT
1 T-AATATTTTTTTGAAAGGTTGACGG-CTAAAT
9615867 TAATATTTTT
1 TAATATTTTT
9615877 ACTAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
30 12 0.35
31 20 0.59
32 2 0.06
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.49
Consensus pattern (31 bp):
TAATATTTTTTTGAAAGGTTGACGGCTAAAT
Found at i:9622406 original size:90 final size:90
Alignment explanation
Indices: 9622240--9622410 Score: 227
Period size: 90 Copynumber: 1.9 Consensus size: 90
9622230 CAGTTTATGA
* * * *
9622240 ATGAACCACAAGTGTTCCAAGTTAATACGCTGCCAGTATTTGTGAATACACAATAGGTTTGTAGA
1 ATGAACCACAAGTGTTCCAAGTTAATACACTGCCAGTAGTTATGAATACACAACAGGTTTGTAGA
9622305 CAAAATCTGCCAGTAAACATCATGG
66 CAAAATCTGCCAGTAAACATCATGG
* ** * * *
9622330 ATGAACCACCAGTGTTGTAGGTTAATACACTGCCAGTAGTTATGAATACACAACGGGTTTGTATA
1 ATGAACCACAAGTGTTCCAAGTTAATACACTGCCAGTAGTTATGAATACACAACAGGTTTGTAGA
*
9622395 TAAAAGT-TGCCAGTAA
66 CAAAA-TCTGCCAGTAA
9622411 GTTTGTGGAT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
90 68 0.99
91 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (90 bp):
ATGAACCACAAGTGTTCCAAGTTAATACACTGCCAGTAGTTATGAATACACAACAGGTTTGTAGA
CAAAATCTGCCAGTAAACATCATGG
Found at i:9622624 original size:38 final size:38
Alignment explanation
Indices: 9622558--9622653 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 38
9622548 GAATCAAATT
* * * * *
9622558 AACATTAACAATAGGTATGCTTATCATGTATTTAGTTC
1 AACAATAACAGTAGGCATGCTTAACATGTATTCAGTTC
* * * *
9622596 AATAGTAACAGTAGGCATGTTTAACATGTATTCAGTTT
1 AACAATAACAGTAGGCATGCTTAACATGTATTCAGTTC
*
9622634 AACAATAACGGTAGGCATGC
1 AACAATAACAGTAGGCATGC
9622654 AACCTACAGT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (38 bp):
AACAATAACAGTAGGCATGCTTAACATGTATTCAGTTC
Found at i:9622899 original size:9 final size:9
Alignment explanation
Indices: 9622885--9622954 Score: 95
Period size: 9 Copynumber: 7.8 Consensus size: 9
9622875 TAAGTATAAA
9622885 AATTAACCG
1 AATTAACCG
9622894 AATTAACCG
1 AATTAACCG
9622903 AATTAACCG
1 AATTAACCG
*
9622912 ATTTAACCG
1 AATTAACCG
* *
9622921 ATTTAAACG
1 AATTAACCG
* *
9622930 ATTTAACTG
1 AATTAACCG
9622939 AATTAACCG
1 AATTAACCG
9622948 AATTAAC
1 AATTAAC
9622955 AAAAAAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:9625681 original size:17 final size:18
Alignment explanation
Indices: 9625659--9625693 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
9625649 TAGAAGTTTG
9625659 TAAATTACAGC-AATAAA
1 TAAATTACAGCAAATAAA
9625676 TAAATTACAGCAAATAAA
1 TAAATTACAGCAAATAAA
9625694 AATATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (18 bp):
TAAATTACAGCAAATAAA
Found at i:9627282 original size:17 final size:18
Alignment explanation
Indices: 9627258--9627293 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9627248 TTTATATATT
*
9627258 ATTTTTTTGGTTAACCGA
1 ATTTTTTCGGTTAACCGA
9627276 ATTTTTTCGGTTAACCGA
1 ATTTTTTCGGTTAACCGA
9627294 CCTGTTTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (18 bp):
ATTTTTTCGGTTAACCGA
Found at i:9634259 original size:2 final size:2
Alignment explanation
Indices: 9634252--9634281 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9634242 GCTTATTATT
9634252 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9634282 AAAAGAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9636992 original size:19 final size:19
Alignment explanation
Indices: 9636965--9637002 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9636955 GCCACTTCCA
*
9636965 CCCATCGTAATCAAATTTG
1 CCCACCGTAATCAAATTTG
9636984 CCCACCGTAATCAAATTTG
1 CCCACCGTAATCAAATTTG
9637003 TTATTAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (19 bp):
CCCACCGTAATCAAATTTG
Done.