Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 43 of 325
Found at i:10598550 original size:22 final size:22
Alignment explanation
Indices: 10598511--10598568 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
10598501 AATAATGGAG
10598511 TAACTT-ACTTATAAAATATAC
1 TAACTTAACTTATAAAATATAC
** *
10598532 TAACTTAACTTATCGAATATAT
1 TAACTTAACTTATAAAATATAC
**
10598554 TAACGAAACTTATAA
1 TAACTTAACTTATAA
10598569 TTGAGTAAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (22 bp):
TAACTTAACTTATAAAATATAC
Found at i:10599471 original size:2 final size:2
Alignment explanation
Indices: 10599466--10599497 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10599456 ATATGCATTA
10599466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10599498 GCGTGACTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10599558 original size:47 final size:47
Alignment explanation
Indices: 10599489--10599580 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
10599479 TATATATATA
* * *
10599489 TATATATATGCGTGACTTAAATGAAGCTAAACCTGCTAATAATGGCG
1 TATATATATGCATGACTTAAATGAAACCAAACCTGCTAATAATGGCG
10599536 TATATATATGCATGACTTAAATGAAACCAAACCTGCTAATAATGG
1 TATATATATGCATGACTTAAATGAAACCAAACCTGCTAATAATGG
10599581 TTAATTTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (47 bp):
TATATATATGCATGACTTAAATGAAACCAAACCTGCTAATAATGGCG
Found at i:10608566 original size:31 final size:30
Alignment explanation
Indices: 10608509--10608575 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
10608499 TCAACAGACC
**
10608509 AATGACTTAAATAAAACTTTTGAATAGCTT
1 AATGACTTAAATAAAACTTTCAAATAGCTT
*
10608539 AATGACTTAAATGAAAACTTTCAAATAGTTT
1 AATGACTTAAAT-AAAACTTTCAAATAGCTT
*
10608570 AGTGAC
1 AATGAC
10608576 CAAATTGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (30 bp):
AATGACTTAAATAAAACTTTCAAATAGCTT
Found at i:10618279 original size:250 final size:250
Alignment explanation
Indices: 10617838--10618346 Score: 982
Period size: 250 Copynumber: 2.0 Consensus size: 250
10617828 TCAACCAAAT
*
10617838 AACTTCTTTACAAGCCTCAATAATCGCCATGTACTCAGCTTCAGTGGTAGAAAAAGCGACTGTAG
1 AACTTCTTTACAAGCCTCAATAATCGCCATGTACTCAACTTCAGTGGTAGAAAAAGCGACTGTAG
10617903 TTTGCAAAGTGGCTTTCCAACTGATTGCACAACCTCCGATTGTAAAGACATAACCTGTGAGAGAT
66 TTTGCAAAGTGGCTTTCCAACTGATTGCACAACCTCCGATTGTAAAGACATAACCTGTGAGAGAT
*
10617968 TTTCTTCTATCAAGGTCTCTAGCAAAATCAGCATCAACATACCCAATGACTCTATCTCTAGTTCT
131 TTTCTTCTATCAAGGTCTCTAGCAAAATCAGCATCAACATACCCAATGACTCCATCTCTAGTTCT
*
10618033 TCTAAACTATAAGCAGACATCAGTAGTACCTCGTAAGTATCTTAAAAATCCACTG
196 TCCAAACTATAAGCAGACATCAGTAGTACCTCGTAAGTATCTTAAAAATCCACTG
10618088 AACTTCTTTACAAGCCTCAATAATCGCCATGTACTCAACTTCAGTGGTAGAAAAAGCGACTGTAG
1 AACTTCTTTACAAGCCTCAATAATCGCCATGTACTCAACTTCAGTGGTAGAAAAAGCGACTGTAG
10618153 TTTGCAAAGTGGCTTTCCAACTGATTGCACAACCTCCGATTGTAAAGACATAACCTGTGAGAGAT
66 TTTGCAAAGTGGCTTTCCAACTGATTGCACAACCTCCGATTGTAAAGACATAACCTGTGAGAGAT
10618218 TTTCTTCTATCAAGGTCTCTAGCAAAATCAGCATCAACATACCCAATGACTCCATCTCTAGTTCT
131 TTTCTTCTATCAAGGTCTCTAGCAAAATCAGCATCAACATACCCAATGACTCCATCTCTAGTTCT
10618283 TCCAAACTATAAGCAGACATCAGTAGTACCTCGTAAGTATCTTAAAAATCCACTG
196 TCCAAACTATAAGCAGACATCAGTAGTACCTCGTAAGTATCTTAAAAATCCACTG
*
10618338 AACTGCTTT
1 AACTTCTTT
10618347 CCAGTGTTCT
Statistics
Matches: 255, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
250 255 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (250 bp):
AACTTCTTTACAAGCCTCAATAATCGCCATGTACTCAACTTCAGTGGTAGAAAAAGCGACTGTAG
TTTGCAAAGTGGCTTTCCAACTGATTGCACAACCTCCGATTGTAAAGACATAACCTGTGAGAGAT
TTTCTTCTATCAAGGTCTCTAGCAAAATCAGCATCAACATACCCAATGACTCCATCTCTAGTTCT
TCCAAACTATAAGCAGACATCAGTAGTACCTCGTAAGTATCTTAAAAATCCACTG
Found at i:10619008 original size:23 final size:23
Alignment explanation
Indices: 10618955--10618999 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10618945 TTTTTTTGAT
10618955 ACTGTAAAACCCTCTGGTTGTTA
1 ACTGTAAAACCCTCTGGTTGTTA
10618978 ACTGTAAAACCCTCTGGTTGTT
1 ACTGTAAAACCCTCTGGTTGTT
10619000 GTATGTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (23 bp):
ACTGTAAAACCCTCTGGTTGTTA
Found at i:10622181 original size:28 final size:28
Alignment explanation
Indices: 10622148--10622213 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
10622138 GATTCGGGTC
10622148 ATTTAATTTTAACATTTTTTGTTAAAAA-
1 ATTTAATTTTAA-ATTTTTTGTTAAAAAT
* *
10622176 ATTTAATTATAATTTTTTTGTTAAAAAT
1 ATTTAATTTTAAATTTTTTGTTAAAAAT
10622204 ATTTAATTTT
1 ATTTAATTTT
10622214 GTGTACTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 14 0.41
28 20 0.59
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (28 bp):
ATTTAATTTTAAATTTTTTGTTAAAAAT
Found at i:10624881 original size:21 final size:21
Alignment explanation
Indices: 10624856--10624895 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10624846 GACAATTTCA
*
10624856 TATATGCCTTTTATTAATTTT
1 TATATGCCTTTTATAAATTTT
**
10624877 TATATTTCTTTTATAAATT
1 TATATGCCTTTTATAAATT
10624896 ATTAAATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (21 bp):
TATATGCCTTTTATAAATTTT
Found at i:10624910 original size:20 final size:21
Alignment explanation
Indices: 10624863--10624910 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10624853 TCATATATGC
* * *
10624863 CTTTTATTAATTTTTATATTT
1 CTTTTATAAATTATTAAATTT
10624884 CTTTTATAAATTATTAAATTT
1 CTTTTATAAATTATTAAATTT
10624905 -TTTTAT
1 CTTTTAT
10624911 TTTTTACACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
CTTTTATAAATTATTAAATTT
Found at i:10626104 original size:10 final size:11
Alignment explanation
Indices: 10626081--10626120 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
10626071 CTAATTTAAT
*
10626081 ATAAAATCAAA
1 ATAAAATAAAA
10626092 ATAAAAT-AAA
1 ATAAAATAAAA
10626102 AT-AAATAAAA
1 ATAAAATAAAA
10626112 ATAAAATAA
1 ATAAAATAA
10626121 GATTTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.15
10 10 0.37
11 13 0.48
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:10626109 original size:4 final size:5
Alignment explanation
Indices: 10626081--10626120 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
10626071 CTAATTTAAT
10626081 ATAAA ATCAAA ATAAA ATAAA AT-AA ATAAAA ATAAA ATAA
1 ATAAA AT-AAA ATAAA ATAAA ATAAA AT-AAA ATAAA ATAA
10626121 GATTTTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.12
5 19 0.59
6 9 0.28
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:10626767 original size:26 final size:28
Alignment explanation
Indices: 10626736--10626791 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
10626726 AGATCTACTT
**
10626736 AAAATAAAAATATTAAATT-TAA-ATTA
1 AAAATAAAAATAGAAAATTATAATATTA
*
10626762 AAAATAGAAATAGAAAATTATAATATTA
1 AAAATAAAAATAGAAAATTATAATATTA
10626790 AA
1 AA
10626792 TATTTAGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 16 0.64
27 3 0.12
28 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (28 bp):
AAAATAAAAATAGAAAATTATAATATTA
Found at i:10627271 original size:18 final size:18
Alignment explanation
Indices: 10627235--10627282 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
10627225 ATATTTTTAA
*
10627235 ATTTTTTTATAATTCATATT
1 ATTTTTCTA-AATTCATA-T
10627255 ATTTTTCTAAATT-ATAT
1 ATTTTTCTAAATTCATAT
*
10627272 ATATTTCTAAA
1 ATTTTTCTAAA
10627283 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 11 0.42
18 3 0.12
19 4 0.15
20 8 0.31
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTCTAAATTCATAT
Found at i:10632873 original size:2 final size:2
Alignment explanation
Indices: 10632866--10632897 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10632856 TGCCAATGGA
10632866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10632898 TTAGAAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10633650 original size:19 final size:19
Alignment explanation
Indices: 10633625--10633672 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
10633615 ATTACAAAAT
*
10633625 AAATCAAAATAATTTTTAA
1 AAATCAAAATAATTTATAA
*
10633644 AATTCAAAAT-ATTTATAA
1 AAATCAAAATAATTTATAA
10633662 AAAT-AAAATAA
1 AAATCAAAATAA
10633673 AATTTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
19 9 0.36
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATCAAAATAATTTATAA
Found at i:10634746 original size:72 final size:72
Alignment explanation
Indices: 10634608--10634747 Score: 158
Period size: 72 Copynumber: 1.9 Consensus size: 72
10634598 AGACACGGGG
* * * *
10634608 TTATATTGGGTAAGACCCTAGCTAAGAGACGCTATAACATCATAGATAGTTCACCAGGATAGTAA
1 TTATATTGGGTAAGACCCTAGCTAAGAGACGCTACAACATCATAGATAGTTCAACAGGACACTAA
10634673 ACACGTA
66 ACACGTA
* ** * * *
10634680 TTATATTGTGTAAGACTTTAGTTGAA-AGACGCTACGACATCATAGATAG-TCTAATAGGACACT
1 TTATATTGGGTAAGACCCTAGCT-AAGAGACGCTACAACATCATAGATAGTTC-AACAGGACACT
10634743 AAACA
64 AAACA
10634748 TGGGATAGTC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
71 2 0.04
72 52 0.93
73 2 0.04
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (72 bp):
TTATATTGGGTAAGACCCTAGCTAAGAGACGCTACAACATCATAGATAGTTCAACAGGACACTAA
ACACGTA
Found at i:10634754 original size:27 final size:27
Alignment explanation
Indices: 10634724--10634784 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
10634714 CGACATCATA
*
10634724 GATAGTCTAATAGGACACTAAACATGG
1 GATAGTCTAATAGGACACTAAACACGG
* *
10634751 GATAGTCTGATGGGACACTAAACACGG
1 GATAGTCTAATAGGACACTAAACACGG
*
10634778 TATAGTC
1 GATAGTC
10634785 CGTTGGGCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (27 bp):
GATAGTCTAATAGGACACTAAACACGG
Found at i:10634791 original size:27 final size:27
Alignment explanation
Indices: 10634736--10634791 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
10634726 TAGTCTAATA
* *
10634736 GGACACTAAACATGGGATAGTCTGATG
1 GGACACTAAACACGGGATAGTCCGATG
* *
10634763 GGACACTAAACACGGTATAGTCCGTTG
1 GGACACTAAACACGGGATAGTCCGATG
10634790 GG
1 GG
10634792 CTAGTAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.21
Consensus pattern (27 bp):
GGACACTAAACACGGGATAGTCCGATG
Found at i:10636799 original size:12 final size:12
Alignment explanation
Indices: 10636778--10636824 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
10636768 AGGTTTCCGA
*
10636778 AAATGGAAATGG
1 AAATGTAAATGG
*
10636790 AAATGTAAATGA
1 AAATGTAAATGG
* *
10636802 AAATGAAAACGG
1 AAATGTAAATGG
10636814 AAATGTAAATG
1 AAATGTAAATG
10636825 ATCCATTTGC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.55, C:0.02, G:0.23, T:0.19
Consensus pattern (12 bp):
AAATGTAAATGG
Found at i:10636815 original size:24 final size:24
Alignment explanation
Indices: 10636776--10636825 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
10636766 ATAGGTTTCC
* *
10636776 GAAAATGGAAATGGAAATGTAAAT
1 GAAAATGAAAACGGAAATGTAAAT
10636800 GAAAATGAAAACGGAAATGTAAAT
1 GAAAATGAAAACGGAAATGTAAAT
10636824 GA
1 GA
10636826 TCCATTTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.02, G:0.24, T:0.18
Consensus pattern (24 bp):
GAAAATGAAAACGGAAATGTAAAT
Found at i:10637043 original size:26 final size:26
Alignment explanation
Indices: 10636973--10637045 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
10636963 TATTTTCTAG
*
10636973 AAATTTTACTAGGGGAAAAATCATCA
1 AAATTTTACTAGGGGTAAAATCATCA
* * *
10636999 AAATTTTACCAAGGCTAAAATCGA-CA
1 AAATTTTACTAGGGGTAAAATC-ATCA
*
10637025 AAATTTTGCTAGGGGTAAAAT
1 AAATTTTACTAGGGGTAAAAT
10637046 TGGGATGAGA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 37 0.97
27 1 0.03
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.27
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATCATCA
Found at i:10639403 original size:28 final size:27
Alignment explanation
Indices: 10639361--10639419 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 27
10639351 AACTGATAAC
10639361 ATTTACAAACTTTGGGAAACTTAGAAA
1 ATTTACAAACTTTGGGAAACTTAGAAA
10639388 ATTTAGCAAACTTTGGGAAACTTAGAAA
1 ATTTA-CAAACTTTGGGAAACTTAGAAA
10639416 ATTT
1 ATTT
10639420 TCCAACATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (27 bp):
ATTTACAAACTTTGGGAAACTTAGAAA
Found at i:10642854 original size:64 final size:64
Alignment explanation
Indices: 10642781--10642991 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
10642771 CTGGGCCAGA
*
10642781 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** * *
10642845 GCCCATTTCAAAATAC-ATGCAACATTAGTAAACATATGCAAGCCC--ATTTGGGTAATAGTGGT
1 GCCCATTTCAGATTACAAT--AA-ACT-G-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
10642907 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
10642918 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
10642982 GCCCATTTCA
1 GCCCATTTCA
10642992 AAATACATAC
Statistics
Matches: 101, Mismatches: 29, Indels: 34
0.62 0.18 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.25
65 5 0.05
66 2 0.02
67 9 0.09
68 5 0.05
69 5 0.05
70 9 0.09
71 2 0.02
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:10642993 original size:137 final size:137
Alignment explanation
Indices: 10642747--10643033 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
10642737 TATTGGGCCT
**
10642747 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
10642812 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAGTAAA
10642877 CATATGC
131 CATATGC
*
10642884 AAGCCCATTTGGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
10642949 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAGTAAA
10643014 CATATGC
131 CATATGC
10643021 AAGCCCATTTGGG
1 AAGCCCATTTGGG
10643034 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAGTAAA
CATATGC
Found at i:10644857 original size:26 final size:26
Alignment explanation
Indices: 10644821--10644956 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
10644811 CATGATATTC
10644821 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
10644847 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10644873 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10644899 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10644925 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10644951 TTATCA
1 TTATCA
10644957 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10649821 original size:29 final size:30
Alignment explanation
Indices: 10649752--10649821 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
10649742 CCGTTGATAT
*
10649752 TAGTTTCCAGGTACTATGTACCAGTGATTA
1 TAGTTTCCAAGTACTATGTACCAGTGATTA
* ***
10649782 CAGTTTCCAAGTACTATGTATTGGTG-TTA
1 TAGTTTCCAAGTACTATGTACCAGTGATTA
10649811 TAGTTTCCAAG
1 TAGTTTCCAAG
10649822 CACTCTATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 13 0.38
30 21 0.62
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.39
Consensus pattern (30 bp):
TAGTTTCCAAGTACTATGTACCAGTGATTA
Found at i:10649967 original size:19 final size:19
Alignment explanation
Indices: 10649943--10649980 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10649933 TTGTGTAATG
10649943 GTTAATATCTCAACAATTA
1 GTTAATATCTCAACAATTA
10649962 GTTAATATCTCAACAATTA
1 GTTAATATCTCAACAATTA
10649981 ATTCGGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (19 bp):
GTTAATATCTCAACAATTA
Found at i:10652510 original size:3 final size:3
Alignment explanation
Indices: 10652502--10652546 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
10652492 TACTCCAATT
10652502 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10652547 AAATTTCGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10653353 original size:45 final size:45
Alignment explanation
Indices: 10653295--10653401 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
10653285 GTAGTAGTAG
* * *
10653295 CAATAACAATAACAGTATTCAACACCCAAAGTG-CTGAATCTGTAA
1 CAATAACAGTAACAGTATTCAACACACAAAGTGTC-GAATCGGTAA
** * * *
10653340 CGGTAACAGTAACAGTATTCGACATAGAAAGTGTCGAATCGGTAA
1 CAATAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
10653385 CAATAACAGTAACAGTA
1 CAATAACAGTAACAGTA
10653402 ACAGTAGTCG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 50 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (45 bp):
CAATAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
Found at i:10657776 original size:35 final size:35
Alignment explanation
Indices: 10657737--10657836 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 35
10657727 TATTTGGCTG
*
10657737 CATGTGAGGTTATATTGAATTTGAATATTCAATTA
1 CATGTGAGGTTATATTGAATTTGAATATTCAATCA
* ** *
10657772 CATGTGAGTTTATATTGAATTTGTGTATTCAGTCA
1 CATGTGAGGTTATATTGAATTTGAATATTCAATCA
* * *
10657807 TATGTGAAGTTA-ACTTGAATTTGCATATTC
1 CATGTGAGGTTATA-TTGAATTTGAATATTC
10657837 GGCTATATGT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 1 0.02
35 53 0.98
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (35 bp):
CATGTGAGGTTATATTGAATTTGAATATTCAATCA
Found at i:10665046 original size:35 final size:35
Alignment explanation
Indices: 10664995--10665132 Score: 142
Period size: 35 Copynumber: 4.0 Consensus size: 35
10664985 ACATGGGTAA
*
10664995 GTACATGT-AAGCTTATATTGAACTTGTATATTCG
1 GTACATGTGAAGCTTATATTGAATTTGTATATTCG
*
10665029 GCTACATGTGAAG-TTATATTGAATTTGAATATTCG
1 G-TACATGTGAAGCTTATATTGAATTTGTATATTCG
* *
10665064 ATTACATGTG-AGTTTATATTGAATTTGTATATTCG
1 -GTACATGTGAAGCTTATATTGAATTTGTATATTCG
* * *
10665099 GTCATATGTGAAG-TTA-ACTTGAATGTGCATATTC
1 GT-ACATGTGAAGCTTATA-TTGAATTTGTATATTC
10665133 AACTATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
34 5 0.06
35 79 0.89
36 5 0.06
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (35 bp):
GTACATGTGAAGCTTATATTGAATTTGTATATTCG
Found at i:10665143 original size:70 final size:70
Alignment explanation
Indices: 10665007--10665160 Score: 188
Period size: 70 Copynumber: 2.2 Consensus size: 70
10664997 ACATGTAAGC
* * * *
10665007 TTATATTGAACTTGTATATTCGGCTACATGTGAAGTTATATTGAATTTGAATATTCGATTACATG
1 TTATATTGAATTTGTATATTCGGCTACATGTGAAGTTATATTGAATGTGAATATTCAACTACATG
10665072 TGAGT-
66 TGA-TA
* * *
10665077 TTATATTGAATTTGTATATTCGG-TCATATGTGAAGTTA-ACTTGAATGTGCATATTCAACTATA
1 TTATATTGAATTTGTATATTCGGCT-ACATGTGAAGTTATA-TTGAATGTGAATATTCAACTACA
10665140 TGTGATA
64 TGTGATA
*
10665147 TTCTATTGAATTTG
1 TTATATTGAATTTG
10665161 AACTATAGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
69 3 0.04
70 70 0.96
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (70 bp):
TTATATTGAATTTGTATATTCGGCTACATGTGAAGTTATATTGAATGTGAATATTCAACTACATG
TGATA
Found at i:10671633 original size:8 final size:8
Alignment explanation
Indices: 10671620--10671676 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
10671610 GATAGAATAT
10671620 ATATTATA
1 ATATTATA
10671628 ATATTATA
1 ATATTATA
10671636 ATATTA-A
1 ATATTATA
*
10671643 AT-CT-TA
1 ATATTATA
*
10671649 ATGTT-TA
1 ATATTATA
10671656 AGTATATATA
1 A-TAT-TATA
10671666 ATATTATA
1 ATATTATA
10671674 ATA
1 ATA
10671677 ATAAAACAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
6 4 0.10
7 7 0.17
8 23 0.56
9 4 0.10
10 3 0.07
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (8 bp):
ATATTATA
Found at i:10671712 original size:12 final size:11
Alignment explanation
Indices: 10671692--10671761 Score: 63
Period size: 12 Copynumber: 6.2 Consensus size: 11
10671682 ACAAAGAAAT
10671692 AAAAGAAAAGA
1 AAAAGAAAAGA
10671703 AAATAGAAAA-A
1 AAA-AGAAAAGA
10671714 AAAAG-AAAGA
1 AAAAGAAAAGA
* *
10671724 AACAGAGAAGCA
1 AAAAGAAAAG-A
*
10671736 AAATGAAAAAGA
1 AAAAG-AAAAGA
10671748 AAAAGAGAAAGA
1 AAAAGA-AAAGA
10671760 AA
1 AA
10671762 GAAAGGAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
9 3 0.06
10 7 0.15
11 11 0.23
12 22 0.47
13 4 0.09
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:10673076 original size:36 final size:36
Alignment explanation
Indices: 10673036--10673109 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
10673026 AGCTATTTAT
10673036 ATAGTAAGTATGAGAATTGAGATATTTGTAAAACAA
1 ATAGTAAGTATGAGAATTGAGATATTTGTAAAACAA
10673072 ATAGTAAGTATGAGAATTGAGATATTTGTAAAACAA
1 ATAGTAAGTATGAGAATTGAGATATTTGTAAAACAA
10673108 AT
1 AT
10673110 GAAATATGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (36 bp):
ATAGTAAGTATGAGAATTGAGATATTTGTAAAACAA
Found at i:10677013 original size:24 final size:24
Alignment explanation
Indices: 10676986--10677033 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
10676976 GGTACAAGCA
10676986 ATCATAGAGGATACTAAAGA-GGAT
1 ATCATAGAGGATAC-AAAGATGGAT
*
10677010 ATCATGGAGGATACAAAGATGGAT
1 ATCATAGAGGATACAAAGATGGAT
10677034 GAGGCAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.44, C:0.08, G:0.27, T:0.21
Consensus pattern (24 bp):
ATCATAGAGGATACAAAGATGGAT
Found at i:10685461 original size:45 final size:45
Alignment explanation
Indices: 10685372--10685461 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
10685362 TTGCTTCTCC
* * ***
10685372 TTTTTTTGTTGTTTCTTAGTTGTGGTTGCTTCTATGTTGTTTCCT
1 TTTTTTTGTTGTTTCTTAGTAGTGGTTGCTTCCATGTAACTTCCT
* **
10685417 TTTTTTTGTTGTTTCTTGGTAGTGGTTTTTTCCATGTAACTTCCT
1 TTTTTTTGTTGTTTCTTAGTAGTGGTTGCTTCCATGTAACTTCCT
10685462 CTATCTTTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.07, C:0.12, G:0.19, T:0.62
Consensus pattern (45 bp):
TTTTTTTGTTGTTTCTTAGTAGTGGTTGCTTCCATGTAACTTCCT
Found at i:10687489 original size:44 final size:44
Alignment explanation
Indices: 10687439--10687526 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
10687429 TCCATAAGGT
10687439 CTGCTAAGATAATTAGCAATAATATTGTCAGTGCCTTTGACATA
1 CTGCTAAGATAATTAGCAATAATATTGTCAGTGCCTTTGACATA
10687483 CTGCTAAGATAATTAGCAATAATATTGTCAGTGCCTTTGACATA
1 CTGCTAAGATAATTAGCAATAATATTGTCAGTGCCTTTGACATA
10687527 TAAAACCTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (44 bp):
CTGCTAAGATAATTAGCAATAATATTGTCAGTGCCTTTGACATA
Found at i:10690209 original size:19 final size:20
Alignment explanation
Indices: 10690170--10690209 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10690160 GGATTTGATG
* *
10690170 TTGATCATATTTTAAATATA
1 TTGATCATATTATAAACATA
10690190 TTGATCA-ATTATAAACATA
1 TTGATCATATTATAAACATA
10690209 T
1 T
10690210 GTGTATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (20 bp):
TTGATCATATTATAAACATA
Found at i:10691128 original size:114 final size:114
Alignment explanation
Indices: 10690928--10691156 Score: 431
Period size: 114 Copynumber: 2.0 Consensus size: 114
10690918 CTCGTTAATC
*
10690928 TCCCATAAGGAGATTAGTTCCTCATGGATCTCATAAACAACATAAACTTGGTTAAAAAGATAAAC
1 TCCCATAACGAGATTAGTTCCTCATGGATCTCATAAACAACATAAACTTGGTTAAAAAGATAAAC
*
10690993 ATGAATAATGAATCAAGAATAAAGTTTAAGACTAATCCTGATTTTGTAT
66 ATGAATAATGAATCAAGAATAAAGTTTAAGACTAATCCTGATATTGTAT
10691042 TCCCATAACGAGATTAGTTCCTCATGGATCTCATAAACAACATAAACTTGGTTAAAAAGATAAAC
1 TCCCATAACGAGATTAGTTCCTCATGGATCTCATAAACAACATAAACTTGGTTAAAAAGATAAAC
*
10691107 ATGAATAATGAATCAAGAATAAAGTTTAAGATTAATCCTGATATTGTAT
66 ATGAATAATGAATCAAGAATAAAGTTTAAGACTAATCCTGATATTGTAT
10691156 T
1 T
10691157 GATAATTATA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (114 bp):
TCCCATAACGAGATTAGTTCCTCATGGATCTCATAAACAACATAAACTTGGTTAAAAAGATAAAC
ATGAATAATGAATCAAGAATAAAGTTTAAGACTAATCCTGATATTGTAT
Found at i:10698085 original size:26 final size:26
Alignment explanation
Indices: 10698056--10698163 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
10698046 TGATACAAAT
*
10698056 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10698082 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10698108 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10698134 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10698160 TGAT
1 TGAT
10698164 GGGAATTTCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10699678 original size:26 final size:26
Alignment explanation
Indices: 10699649--10699701 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
10699639 TTTACAGTTT
10699649 TACCCCTAGTAGATAAATT-ACCGAAA
1 TACCCCTAG-AGATAAATTGACCGAAA
* *
10699675 TACCCCTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
10699701 T
1 T
10699702 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:10703787 original size:3 final size:3
Alignment explanation
Indices: 10703781--10703814 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
10703771 ATAGTAGTTA
10703781 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
10703815 AAGTTAGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:10708938 original size:53 final size:53
Alignment explanation
Indices: 10708795--10708911 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
10708785 CTTATAGCCA
* *
10708795 TTAATGTTCA-TATATTGGATTGTGTATAAATATATATTCTGTGTGCATAATT
1 TTAATTTTCATTATATTAGATTGTGTATAAATATATATTCTGTGTGCATAATT
10708847 TTAATTTTCATTATATTAGATTGTGTATAAATATATATTCTGTGTGCATAATT
1 TTAATTTTCATTATATTAGATTGTGTATAAATATATATTCTGTGTGCATAATT
10708900 TTAATTTTCATT
1 TTAATTTTCATT
10708912 GTTAATTCGG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 9 0.15
53 53 0.85
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (53 bp):
TTAATTTTCATTATATTAGATTGTGTATAAATATATATTCTGTGTGCATAATT
Found at i:10709089 original size:13 final size:13
Alignment explanation
Indices: 10709071--10709101 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
10709061 TTTAACCCAT
10709071 AATTTTTTAGTTA
1 AATTTTTTAGTTA
10709084 AATTTTTTAGTTA
1 AATTTTTTAGTTA
10709097 AATTT
1 AATTT
10709102 GATCATTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (13 bp):
AATTTTTTAGTTA
Found at i:10712837 original size:16 final size:16
Alignment explanation
Indices: 10712816--10712847 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10712806 TTATGCGGAA
10712816 CCATGTATGCAAACCC
1 CCATGTATGCAAACCC
*
10712832 CCATGTATGCGAACCC
1 CCATGTATGCAAACCC
10712848 TTATGAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.38, G:0.16, T:0.19
Consensus pattern (16 bp):
CCATGTATGCAAACCC
Found at i:10713024 original size:18 final size:18
Alignment explanation
Indices: 10713001--10713059 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
10712991 TGACCTCTTA
* *
10713001 CTATATATAATACGAACC
1 CTATATATTATGCGAACC
* *
10713019 CTATATCTTATGTGAACC
1 CTATATATTATGCGAACC
10713037 CTATATATTATGCGAACC
1 CTATATATTATGCGAACC
10713055 C-ATAT
1 CTATAT
10713060 GAAAACCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
17 4 0.11
18 31 0.89
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (18 bp):
CTATATATTATGCGAACC
Found at i:10713104 original size:58 final size:58
Alignment explanation
Indices: 10713039--10713258 Score: 266
Period size: 58 Copynumber: 3.8 Consensus size: 58
10713029 TGTGAACCCT
* *
10713039 ATATATTATGCGAACCCATATGAAAACCTTTATATGATTTAGTATGCGATCTCATACC
1 ATATATTATGCGAACCCATATGAAAACCCTTATATGATTTAGTATGCGATCTCTTACC
* ** * *
10713097 ATATATTATGCAAACCCATACAAAAACCTTTATATGATTTAGTATGCGATCTTTTACC
1 ATATATTATGCGAACCCATATGAAAACCCTTATATGATTTAGTATGCGATCTCTTACC
* * * * **
10713155 ATATATTATGCGAACTCATATGCAAACCCTTATATGACTTAGTATGTGATCTCTTATT
1 ATATATTATGCGAACCCATATGAAAACCCTTATATGATTTAGTATGCGATCTCTTACC
*
10713213 ATATATTATGTGAACCC-TAT-AATCAAGCCCTTATA-GATTTAGTATG
1 ATATATTATGCGAACCCATATGAA--AA-CCCTTATATGATTTAGTATG
10713259 AAAAACCCTA
Statistics
Matches: 139, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
56 1 0.01
57 3 0.02
58 127 0.91
59 8 0.06
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (58 bp):
ATATATTATGCGAACCCATATGAAAACCCTTATATGATTTAGTATGCGATCTCTTACC
Found at i:10713267 original size:24 final size:24
Alignment explanation
Indices: 10713240--10713414 Score: 101
Period size: 24 Copynumber: 7.4 Consensus size: 24
10713230 TATAATCAAG
* *
10713240 CCCTTATA-GATTTAGTATGAAAAA
1 CCCTTATATGATTTAATATG-CAAA
*
10713264 CCC-TATATGTTTTAATATGCAAA
1 CCCTTATATGATTTAATATGCAAA
* * *
10713287 CCCTAATATGATTTAGTATGCGAA
1 CCCTTATATGATTTAATATGCAAA
* *
10713311 CCCTTAT-GGATTTAATATGCGAA
1 CCCTTATATGATTTAATATGCAAA
** * **
10713334 CCCCCATACGA-TTATATATGTGAA
1 CCCTTATATGATTTA-ATATGCAAA
* * * *
10713358 CCTTTATGTGATTTATTATGCTAA
1 CCCTTATATGATTTAATATGCAAA
* * *
10713382 CCCTCA-AGTGATTTAGTATGCGAA
1 CCCTTATA-TGATTTAATATGCAAA
10713406 -CCTTATATG
1 CCCTTATATG
10713415 TGAACCCTAT
Statistics
Matches: 116, Mismatches: 28, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
23 38 0.33
24 75 0.65
25 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (24 bp):
CCCTTATATGATTTAATATGCAAA
Found at i:10713325 original size:47 final size:47
Alignment explanation
Indices: 10713240--10713411 Score: 147
Period size: 47 Copynumber: 3.7 Consensus size: 47
10713230 TATAATCAAG
* ** *
10713240 CCCTTATA-GATTTAGTATGAAAAACCCTATAT-GTTTTAATATGCAAA
1 CCCTAATATGATTTAGTATG-CGAACCCT-TATGGATTTAATATGCAAA
*
10713287 CCCTAATATGATTTAGTATGCGAACCCTTATGGATTTAATATGCGAA
1 CCCTAATATGATTTAGTATGCGAACCCTTATGGATTTAATATGCAAA
** * * * * *
10713334 CCCCCATACGATTATA-TATGTGAACCTTTATGTGATTTATTATGCTAA
1 CCCTAATATGATT-TAGTATGCGAACCCTTATG-GATTTAATATGCAAA
*
10713382 CCCTCAA-GTGATTTAGTATGCGAA-CCTTAT
1 CCCT-AATATGATTTAGTATGCGAACCCTTAT
10713412 ATGTGAACCC
Statistics
Matches: 101, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
46 3 0.03
47 57 0.56
48 40 0.40
49 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (47 bp):
CCCTAATATGATTTAGTATGCGAACCCTTATGGATTTAATATGCAAA
Found at i:10713407 original size:48 final size:48
Alignment explanation
Indices: 10713274--10713417 Score: 159
Period size: 47 Copynumber: 3.0 Consensus size: 48
10713264 CCCTATATGT
* ** *
10713274 TTTAATATGCAAACCCTAATATGATTTAGTATGCGAACCCTTATG-GA
1 TTTAATATGCGAACCCCCATATGATTTAGTATGCGAACCTTTATGTGA
* *
10713321 TTTAATATGCGAACCCCCATACGATTATA-TATGTGAACCTTTATGTGA
1 TTTAATATGCGAACCCCCATATGATT-TAGTATGCGAACCTTTATGTGA
* * *
10713369 TTTATTATGCTAACCCTCA-AGTGATTTAGTATGCGAACCTTATATGTGA
1 TTTAATATGCGAACCCCCATA-TGATTTAGTATGCGAACCTT-TATGTGA
10713418 ACCCTATATG
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
47 39 0.48
48 35 0.43
49 7 0.09
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (48 bp):
TTTAATATGCGAACCCCCATATGATTTAGTATGCGAACCTTTATGTGA
Found at i:10713551 original size:41 final size:41
Alignment explanation
Indices: 10713413--10713552 Score: 201
Period size: 41 Copynumber: 3.4 Consensus size: 41
10713403 GAACCTTATA
* * *
10713413 TGTGAACCCTATATGTGCAAACACTACATGCAAACTTTGTATG
1 TGTGAA-CCT-TATATGCAAACCCTACATGCAAACTCTGTATG
10713456 TGTGAACCTTATATGCAAACCCTACATGCAAACTCTGTATG
1 TGTGAACCTTATATGCAAACCCTACATGCAAACTCTGTATG
*
10713497 TGTGAACCTTATATGCAAACCCTACATGCAAACTCTGTAGG
1 TGTGAACCTTATATGCAAACCCTACATGCAAACTCTGTATG
*
10713538 TGAGAA-CTCTATATG
1 TGTGAACCT-TATATG
10713553 TGAAACCTGT
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
40 2 0.02
41 80 0.88
42 3 0.03
43 6 0.07
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (41 bp):
TGTGAACCTTATATGCAAACCCTACATGCAAACTCTGTATG
Found at i:10713567 original size:13 final size:14
Alignment explanation
Indices: 10713526--10713572 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
10713516 CCCTACATGC
*
10713526 AAACTCTGTAGGTG
1 AAACTCTGTATGTG
*
10713540 AGAACTCTATATGTG
1 A-AACTCTGTATGTG
10713555 AAAC-CTGTATGTG
1 AAACTCTGTATGTG
10713568 CAAAC
1 -AAAC
10713573 CCTAAATGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 8 0.29
14 8 0.29
15 12 0.43
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (14 bp):
AAACTCTGTATGTG
Found at i:10715233 original size:3 final size:3
Alignment explanation
Indices: 10715225--10718092 Score: 4547
Period size: 3 Copynumber: 959.3 Consensus size: 3
10715215 AGCATCTCGT
10715225 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10715273 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10715321 TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TGT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
10715365 TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGT- TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
*
10715410 TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA -TG TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10715454 TTA TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10715499 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10715547 TTA TTA TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TGT- TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
10715592 TTA TTA TTA TTA TTA TTA TGT- TT- TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
10715636 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10715684 TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10715729 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
10715774 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10715822 TTA TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TGT- TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
10715867 TTA TTA TTA TTA TGT- TTA TTA TTA TTA TTG TTA TTA TGT- TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
10715912 TTA TTA TTA TTA TGT- TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10715957 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716005 TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716052 -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716099 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716147 TTA TTA TTA TTA TTA TTA TTA TTA TTA TGT- TTA TGT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA TTA TTA TTA
10716192 TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716239 TTA TGT- TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716284 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10716331 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10716379 TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716427 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716475 TTA TTA TTA TTA TTA TTA TGT- TTA TGT- TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA
10716520 TTA TTA TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716565 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716613 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716661 TTA TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716706 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716754 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
10716799 TTA TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TGT- TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
10716844 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
10716889 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
10716937 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10716985 TTA TTA TGT- TTA TTA TGT- TTA TTA TGT- TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
10717030 TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TGT- TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
10717075 TTA TTA TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10717120 TTA TTA TTA -TA TTA TTA TTA TGT- TTA TTA TTA TGT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA
10717164 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10717212 TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10717257 TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10717302 TGT- TTA TTA TTA TGT- TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA
1 T-TA TTA TTA TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
10717347 TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10717392 TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TGT- TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
10717437 TTA TTA TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TGT- TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
10717482 TTA TTA TGT- TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10717527 TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGT- TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
10717572 TTA TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TGT- TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
10717617 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10717665 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10717712 TGT- TTA TTA TGT- TTA TTA TTA TGT- TTT TTA TTA TTA TTA TTA TTA
1 T-TA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
10717757 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10717805 TTA TTA TTA TGT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10717850 TTA TTA TTA TTA -TG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10717897 TTA TTA TTA TTA TTA TGT- TTA TTA TGT- TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
10717942 TTA TTA TTA TTA TTA TTA TTA TGT- TTA TTA TGT- TTA TTA TTA TGT-
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA T-TA
10717987 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10718035 TTA TGT- TTA TTA TGT- TTA TTA TTA TGT- TTA TTA TTA TGT- TTA TTA
1 TTA T-TA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA
10718080 TTA TGT- TTA TTA T
1 TTA T-TA TTA TTA T
10718093 GTTCCATTGA
Statistics
Matches: 2712, Mismatches: 12, Indels: 282
0.90 0.00 0.09
Matches are distributed among these distances:
2 84 0.03
3 2562 0.94
4 66 0.02
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10720666 original size:50 final size:49
Alignment explanation
Indices: 10720612--10720759 Score: 224
Period size: 50 Copynumber: 3.0 Consensus size: 49
10720602 ATGCACCTTG
*
10720612 CCACAAAGGCTTTATAGGTGACTTGCCATAGAGGCTTCCCAAATAAATCA
1 CCACAAAGGCTTTATAGG-GACTTGCCACAGAGGCTTCCCAAATAAATCA
*
10720662 CCACAAAGGCTTTATAAGGGACTCGCCACAGAGGCTTCCCAAATAAATCA
1 CCACAAAGGCTTTAT-AGGGACTTGCCACAGAGGCTTCCCAAATAAATCA
* * *
10720712 CCACAAAGGCTTTACGAGGGACTTGCAACAAAGGCTTCCCAAATAAAT
1 CCACAAAGGCTTTA-TAGGGACTTGCCACAGAGGCTTCCCAAATAAAT
10720760 AGCCACATAG
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
50 87 0.97
51 3 0.03
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (49 bp):
CCACAAAGGCTTTATAGGGACTTGCCACAGAGGCTTCCCAAATAAATCA
Found at i:10720671 original size:25 final size:25
Alignment explanation
Indices: 10720643--10720723 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
10720633 CTTGCCATAG
10720643 AGGCTTCCCAAATAAATCACCACAA
1 AGGCTTCCCAAATAAATCACCACAA
*** *** * * *
10720668 AGGCTTTATAAGGGACTCGCCACAG
1 AGGCTTCCCAAATAAATCACCACAA
10720693 AGGCTTCCCAAATAAATCACCACAA
1 AGGCTTCCCAAATAAATCACCACAA
10720718 AGGCTT
1 AGGCTT
10720724 TACGAGGGAC
Statistics
Matches: 38, Mismatches: 18, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.19
Consensus pattern (25 bp):
AGGCTTCCCAAATAAATCACCACAA
Found at i:10723317 original size:8 final size:8
Alignment explanation
Indices: 10723306--10723352 Score: 94
Period size: 8 Copynumber: 5.9 Consensus size: 8
10723296 TATGTAAATA
10723306 TTTTTTTC
1 TTTTTTTC
10723314 TTTTTTTC
1 TTTTTTTC
10723322 TTTTTTTC
1 TTTTTTTC
10723330 TTTTTTTC
1 TTTTTTTC
10723338 TTTTTTTC
1 TTTTTTTC
10723346 TTTTTTT
1 TTTTTTT
10723353 TTTCACTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 39 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTTC
Found at i:10723371 original size:1 final size:1
Alignment explanation
Indices: 10723306--10723355 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
10723296 TATGTAAATA
* * * * *
10723306 TTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10723356 CACTTCACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:10726794 original size:102 final size:102
Alignment explanation
Indices: 10726631--10726820 Score: 258
Period size: 102 Copynumber: 1.9 Consensus size: 102
10726621 ACACACGACT
* * *
10726631 ATGTGCCTAGCCCGTGGAGCTCTCTGACTTGTTTAAAATTGAAAAATTTATCTTCAGTTTTCACA
1 ATGTGCCTAGCCCGTGGAGCTCTCTGACTTGTTTAAAATTGAAAAATTTAGCTCCAATTTTCACA
* *
10726696 -TGACCTTGGACACGCTCGTGTGTTCGAACACAAGGCC
66 CAG-CCTGGGACACGCTCGTGTGTTCGAACACAAGGCC
* * * *
10726733 ATGTGGCTCGCCCGTGGAGCTTTCTGACTTGTTTAATATTTG-AAAATTTAGCTCCAATTTTCAC
1 ATGTGCCTAGCCCGTGGAGCTCTCTGACTTGTTTAA-AATTGAAAAATTTAGCTCCAATTTTCAC
*
10726797 ACAGCCTGGGACACGGTCGTGTGT
65 ACAGCCTGGGACACGCTCGTGTGT
10726821 CCAGGCTGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
102 71 0.93
103 5 0.07
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33
Consensus pattern (102 bp):
ATGTGCCTAGCCCGTGGAGCTCTCTGACTTGTTTAAAATTGAAAAATTTAGCTCCAATTTTCACA
CAGCCTGGGACACGCTCGTGTGTTCGAACACAAGGCC
Found at i:10729486 original size:93 final size:93
Alignment explanation
Indices: 10729374--10729545 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10729364 CGCCCATAAG
* * *
10729374 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACTCA
10729439 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
10729467 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACTCA
10729532 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10729546 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10729542 original size:46 final size:46
Alignment explanation
Indices: 10729367--10729542 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
10729357 TGTAACCCGC
* *
10729367 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
10729413 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
*
10729463 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
10729506 CCATAAGTGAACTCGGACCCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
10729543 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:10735478 original size:21 final size:22
Alignment explanation
Indices: 10735436--10735495 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
10735426 TGCCAGAAGC
10735436 AAATAAAAAAAAAATAGTAATT-
1 AAATAAAAAAAAAATAG-AATTG
*
10735458 AAATAAAAACAAATATA-AATTG
1 AAATAAAAA-AAAAATAGAATTG
*
10735480 CAATAAAAATAAAAAT
1 AAATAAAAA-AAAAAT
10735496 GGCTAAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 4 0.12
22 22 0.69
23 6 0.19
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (22 bp):
AAATAAAAAAAAAATAGAATTG
Found at i:10738175 original size:91 final size:93
Alignment explanation
Indices: 10738002--10738175 Score: 217
Period size: 91 Copynumber: 1.9 Consensus size: 93
10737992 ATGCTATATT
* * * *
10738002 TGATACCTATACTTTCATAAAATATCCAATGTGTAACTTGAACTACCAATTTGTGTATTATTTGG
1 TGATACCTATACTTTCATAAAATATCCAATGTGGAACCTAAACTACCAATTTATGTATTATTTGG
* *
10738067 TACACGTGCTTTTATAAAATGTCTAATA
66 TACACGTACTTTCATAAAATGTCTAATA
* * * * *
10738095 TGATACCTGTA-TTTTA-AAAATATCCAATGTGGCACCTAAACTATCAATTTATTTATTATTTGG
1 TGATACCTATACTTTCATAAAATATCCAATGTGGAACCTAAACTACCAATTTATGTATTATTTGG
**
10738158 TACATTTACTTTCATAAA
66 TACACGTACTTTCATAAA
10738176 TGCCCAATGC
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
91 54 0.79
92 4 0.06
93 10 0.15
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (93 bp):
TGATACCTATACTTTCATAAAATATCCAATGTGGAACCTAAACTACCAATTTATGTATTATTTGG
TACACGTACTTTCATAAAATGTCTAATA
Found at i:10741013 original size:34 final size:34
Alignment explanation
Indices: 10740970--10741038 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
10740960 CTTGTACCAC
*
10740970 TACCTTGGTGACTGTTTCAAGCCATAAAGAGACT
1 TACCTTGGTGACTGTTTCAAGCCATAAAAAGACT
10741004 TACCTTGGTGACTGTTTCAAGCCATAAAAAGACT
1 TACCTTGGTGACTGTTTCAAGCCATAAAAAGACT
10741038 T
1 T
10741039 TTTCAAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (34 bp):
TACCTTGGTGACTGTTTCAAGCCATAAAAAGACT
Found at i:10743509 original size:24 final size:24
Alignment explanation
Indices: 10743482--10743538 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
10743472 AAACCTAATT
* * *
10743482 CTAATCAATGTCAAATATATTATG
1 CTAATAAATGTCAAATACATTATA
*
10743506 CTAATAAATGTTAAATACATTATA
1 CTAATAAATGTCAAATACATTATA
10743530 CTAATAAAT
1 CTAATAAAT
10743539 ATTAAATCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (24 bp):
CTAATAAATGTCAAATACATTATA
Found at i:10743543 original size:24 final size:24
Alignment explanation
Indices: 10743494--10743545 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
10743484 AATCAATGTC
* * *
10743494 AAATATATTATGCTAATAAATGTT
1 AAATACATTATACTAATAAATATT
10743518 AAATACATTATACTAATAAATATT
1 AAATACATTATACTAATAAATATT
10743542 AAAT
1 AAAT
10743546 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATACATTATACTAATAAATATT
Found at i:10744135 original size:45 final size:45
Alignment explanation
Indices: 10744084--10744175 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
10744074 ATGTTAGATT
*
10744084 AAAATTATTAATGTATTTATTTGGTTCATGTCCCAAAGTAGGAAG
1 AAAATTATTAATGTATTTATTCGGTTCATGTCCCAAAGTAGGAAG
*
10744129 AAAATTATTAATGTATTTATTCGGTTCATGTCCCAAAGTAGTAAG
1 AAAATTATTAATGTATTTATTCGGTTCATGTCCCAAAGTAGGAAG
10744174 AA
1 AA
10744176 TAAGGAGAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (45 bp):
AAAATTATTAATGTATTTATTCGGTTCATGTCCCAAAGTAGGAAG
Found at i:10763064 original size:18 final size:19
Alignment explanation
Indices: 10763030--10763066 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10763020 ATTAATTTTC
10763030 AAAATTCAAAATATTTATA
1 AAAATTCAAAATATTTATA
*
10763049 AAAATTCCAAAT-TTTATA
1 AAAATTCAAAATATTTATA
10763067 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTCAAAATATTTATA
Found at i:10763201 original size:3 final size:3
Alignment explanation
Indices: 10763193--10763245 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
10763183 CATAAGTATC
10763193 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10763241 TTA TT
1 TTA TT
10763246 TTTCTTTGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10763896 original size:156 final size:156
Alignment explanation
Indices: 10763612--10763917 Score: 533
Period size: 156 Copynumber: 2.0 Consensus size: 156
10763602 GTAGGGGTGG
*
10763612 GAGTGGATTCAAAAAAATAAAAAAAATTTTAAATTTTAAATTAATTTAATCGAGCTATTTGAGTC
1 GAGTGGATTCAAAAAAATAAAAAAAATTTTAAATTTTAAATTAATTGAATCGAGCTATTTGAGTC
* *
10763677 AACTCGAATAAGTAATTTAGGTTTCAAGTTTGAGTCTAGTTGAATTTGACAATTCGAATAATTCA
66 AACTCGAATAAGTAATTTAAGTTTCAAGTTTGAGTCGAGTTGAATTTGACAATTCGAATAATTCA
*
10763742 AATAATAGATTTGTGTAAATGAGTGA
131 AATAACAGATTTGTGTAAATGAGTGA
*
10763768 GAGTGGATTCAAAAAAATAAGAAAAAA-TTTAAATTTTAAATTAATTGAATCGAGTTATTTGAGT
1 GAGTGGATTCAAAAAAATAA-AAAAAATTTTAAATTTTAAATTAATTGAATCGAGCTATTTGAGT
* *
10763832 TAACTCGAATAAGTAATTTAAGTTTTAAGTTTGAGTCGAGTTGAATTTGACAATTCGAATAATTC
65 CAACTCGAATAAGTAATTTAAGTTTCAAGTTTGAGTCGAGTTGAATTTGACAATTCGAATAATTC
10763897 AAATAACAGATTTGTGTAAAT
130 AAATAACAGATTTGTGTAAAT
10763918 ATCTCTTTAT
Statistics
Matches: 142, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
156 136 0.96
157 6 0.04
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.36
Consensus pattern (156 bp):
GAGTGGATTCAAAAAAATAAAAAAAATTTTAAATTTTAAATTAATTGAATCGAGCTATTTGAGTC
AACTCGAATAAGTAATTTAAGTTTCAAGTTTGAGTCGAGTTGAATTTGACAATTCGAATAATTCA
AATAACAGATTTGTGTAAATGAGTGA
Found at i:10764007 original size:20 final size:21
Alignment explanation
Indices: 10763984--10764026 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10763974 ATTACAAAAT
*
10763984 AAAAAT-CAAAATAA-TTTTA
1 AAAAATCCAAAACAATTTTTA
10764003 AAAAATCCAAAACAATTTTTA
1 AAAAATCCAAAACAATTTTTA
10764024 AAA
1 AAA
10764027 TTTAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
21 8 0.38
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAATCCAAAACAATTTTTA
Found at i:10764008 original size:19 final size:19
Alignment explanation
Indices: 10763984--10764045 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
10763974 ATTACAAAAT
10763984 AAAAATCAAAATAATTTTA
1 AAAAATCAAAATAATTTTA
* *
10764003 AAAAATCCAAAACAATTTTT
1 AAAAAT-CAAAATAATTTTA
* *
10764023 AAAATTTAAAAT-ATTTATA
1 AAAAATCAAAATAATTT-TA
10764042 AAAA
1 AAAA
10764046 TTTCAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 4 0.11
19 15 0.43
20 16 0.46
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATCAAAATAATTTTA
Found at i:10764078 original size:16 final size:18
Alignment explanation
Indices: 10764060--10764093 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10764050 AAAATTTGTA
10764060 TTTTAAAAAAT-TATAAT
1 TTTTAAAAAATATATAAT
*
10764077 TTTTTAAAAATATATAA
1 TTTTAAAAAATATATAA
10764094 ATAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTAAAAAATATATAAT
Found at i:10775295 original size:3 final size:3
Alignment explanation
Indices: 10775287--10775393 Score: 92
Period size: 3 Copynumber: 35.3 Consensus size: 3
10775277 GTTTAATAGT
* *
10775287 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTG ATA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* ** **
10775333 ATA A-A TATA ATA GTA ATA ATA ATA AGC AGG ATA ATA ATA ATA A-A
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
10775377 TTT ATA ATAA ATA ATA A
1 ATA ATA AT-A ATA ATA A
10775394 ATAAAAAATA
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
2 2 0.02
3 76 0.90
4 6 0.07
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10777529 original size:82 final size:82
Alignment explanation
Indices: 10777392--10777556 Score: 303
Period size: 82 Copynumber: 2.0 Consensus size: 82
10777382 GTTCATTACA
*
10777392 GTATAAAAGAAAATTAGTTCTCTGGTGACTAGTGTTGGCCTTTCCAGTGATTCCTAGTAATGATT
1 GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTAATGATT
*
10777457 TAAATCTTGTAAATCAT
66 TAAATCTTATAAATCAT
*
10777474 GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTGATGATT
1 GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTAATGATT
10777539 TAAATCTTATAAATCAT
66 TAAATCTTATAAATCAT
10777556 G
1 G
10777557 GTAAGTGTCT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (82 bp):
GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTAATGATT
TAAATCTTATAAATCAT
Found at i:10779993 original size:18 final size:19
Alignment explanation
Indices: 10779970--10780005 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10779960 ATTGTTTTCA
10779970 TACCTT-TAGGTATATCAC
1 TACCTTGTAGGTATATCAC
10779988 TACCTTGTAGGTATATCA
1 TACCTTGTAGGTATATCA
10780006 TTAATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (19 bp):
TACCTTGTAGGTATATCAC
Found at i:10781053 original size:21 final size:21
Alignment explanation
Indices: 10781027--10781079 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
10781017 CGCTGTTTCT
*
10781027 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
10781048 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
*
10781069 AATTTCACCGC
1 AATCTCACCGC
10781080 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:10781405 original size:2 final size:2
Alignment explanation
Indices: 10781400--10781466 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
10781390 TAACTTTAAA
*
10781400 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10781442 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10781467 AAAGACCTCA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10781833 original size:21 final size:23
Alignment explanation
Indices: 10781783--10781833 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
10781773 TTTTTTGTTA
*
10781783 TGGGTTTGGGCTAGGGTTTAGTC
1 TGGGTTTGAGCTAGGGTTTAGTC
**
10781806 T-CATTTGAGCTA-GGTTTAGT-
1 TGGGTTTGAGCTAGGGTTTAGTC
10781826 TGGGTTTG
1 TGGGTTTG
10781834 TAATAGTAGG
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
20 1 0.05
21 12 0.55
22 8 0.36
23 1 0.05
ACGTcount: A:0.12, C:0.08, G:0.37, T:0.43
Consensus pattern (23 bp):
TGGGTTTGAGCTAGGGTTTAGTC
Found at i:10787776 original size:14 final size:14
Alignment explanation
Indices: 10787757--10787787 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10787747 TTGTGTGTTC
*
10787757 TTTATTTTATTTAT
1 TTTATTCTATTTAT
10787771 TTTATTCTATTTAT
1 TTTATTCTATTTAT
10787785 TTT
1 TTT
10787788 TCACAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTCTATTTAT
Found at i:10792228 original size:14 final size:14
Alignment explanation
Indices: 10792209--10792239 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10792199 TTGTGTGTTC
*
10792209 TTTATTTTATTTAT
1 TTTATTCTATTTAT
10792223 TTTATTCTATTTAT
1 TTTATTCTATTTAT
10792237 TTT
1 TTT
10792240 TTCACAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTCTATTTAT
Found at i:10793921 original size:19 final size:18
Alignment explanation
Indices: 10793897--10793940 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
10793887 TTCCGGAAAA
10793897 TACTTTCTAGAAAATGATT
1 TACTTTCT-GAAAATGATT
*
10793916 TACTTTTCTGGAAATGATT
1 TAC-TTTCTGAAAATGATT
10793935 TACTTT
1 TACTTT
10793941 TCTGGTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 15 0.65
20 5 0.22
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (18 bp):
TACTTTCTGAAAATGATT
Found at i:10793941 original size:19 final size:19
Alignment explanation
Indices: 10793908--10793945 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10793898 ACTTTCTAGA
10793908 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
10793927 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
10793946 TGTTTGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:10794050 original size:2 final size:2
Alignment explanation
Indices: 10794043--10794068 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10794033 TTGAGTTTAT
10794043 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
10794069 ATAAATTTAT
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):
TA
Found at i:10795657 original size:12 final size:12
Alignment explanation
Indices: 10795640--10795664 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10795630 GATTTTAAAT
10795640 AAAGCATAAAAA
1 AAAGCATAAAAA
10795652 AAAGCATAAAAA
1 AAAGCATAAAAA
10795664 A
1 A
10795665 GGAAGAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAGCATAAAAA
Found at i:10797384 original size:32 final size:32
Alignment explanation
Indices: 10797348--10797411 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
10797338 TTTTAATTTG
* *
10797348 AATTTCTTTTCTAGTCTCCAATATAATAAAAA
1 AATTTCTCTGCTAGTCTCCAATATAATAAAAA
10797380 AATTTCTCTGCTAGTCTCCAATATAATAAAAA
1 AATTTCTCTGCTAGTCTCCAATATAATAAAAA
10797412 GAACCCTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.38
Consensus pattern (32 bp):
AATTTCTCTGCTAGTCTCCAATATAATAAAAA
Found at i:10803726 original size:93 final size:93
Alignment explanation
Indices: 10803606--10803793 Score: 376
Period size: 93 Copynumber: 2.0 Consensus size: 93
10803596 GATTAAAATA
10803606 TATGTTAGGGTTAGGAAATTATCAATTTAGTGGCATTGTTGGTATAATTGGATCGGTGAAAATGG
1 TATGTTAGGGTTAGGAAATTATCAATTTAGTGGCATTGTTGGTATAATTGGATCGGTGAAAATGG
10803671 TCCCCACTTATTGATCTGGAACTCCTAT
66 TCCCCACTTATTGATCTGGAACTCCTAT
10803699 TATGTTAGGGTTAGGAAATTATCAATTTAGTGGCATTGTTGGTATAATTGGATCGGTGAAAATGG
1 TATGTTAGGGTTAGGAAATTATCAATTTAGTGGCATTGTTGGTATAATTGGATCGGTGAAAATGG
10803764 TCCCCACTTATTGATCTGGAACTCCTAT
66 TCCCCACTTATTGATCTGGAACTCCTAT
10803792 TA
1 TA
10803794 GGACTCAAGC
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 95 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (93 bp):
TATGTTAGGGTTAGGAAATTATCAATTTAGTGGCATTGTTGGTATAATTGGATCGGTGAAAATGG
TCCCCACTTATTGATCTGGAACTCCTAT
Found at i:10804057 original size:11 final size:11
Alignment explanation
Indices: 10804041--10804074 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10804031 ATATCAAATC
*
10804041 ATTAAGAATAA
1 ATTAAGAACAA
10804052 ATTAAGAACAA
1 ATTAAGAACAA
*
10804063 ATCAAGAACAA
1 ATTAAGAACAA
10804074 A
1 A
10804075 ATTAGATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.18
Consensus pattern (11 bp):
ATTAAGAACAA
Found at i:10806472 original size:41 final size:43
Alignment explanation
Indices: 10806408--10806487 Score: 128
Period size: 41 Copynumber: 1.9 Consensus size: 43
10806398 TGAAATTTCA
10806408 ATCAAAACTTTTAATTCTATTTTT-A-TTTTATTTTTTTCCAG
1 ATCAAAACTTTTAATTCTATTTTTAATTTTTATTTTTTTCCAG
* *
10806449 ATCAAAACTTTTAATTTTGTTTTTAATTTTTATTTTTTT
1 ATCAAAACTTTTAATTCTATTTTTAATTTTTATTTTTTT
10806488 AGGTACGCAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 22 0.63
42 1 0.03
43 12 0.34
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (43 bp):
ATCAAAACTTTTAATTCTATTTTTAATTTTTATTTTTTTCCAG
Found at i:10806603 original size:9 final size:9
Alignment explanation
Indices: 10806589--10806615 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
10806579 TCCCTTATAC
10806589 TATTATTTT
1 TATTATTTT
10806598 TATTATTTT
1 TATTATTTT
10806607 TATTATTTT
1 TATTATTTT
10806616 ATAGGGATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TATTATTTT
Found at i:10809489 original size:10 final size:10
Alignment explanation
Indices: 10809454--10809540 Score: 58
Period size: 10 Copynumber: 8.7 Consensus size: 10
10809444 CAACCCAATT
* *
10809454 TTTATTTTTC
1 TTTATTATTA
*
10809464 TTTATTTTTA
1 TTTATTATTA
10809474 -TT-TTATTA
1 TTTATTATTA
10809482 TTTATTA-TA
1 TTTATTATTA
10809491 TTATATTATATTA
1 TT-TA-T-TATTA
10809504 TTTATTA-TA
1 TTTATTATTA
*
10809513 GTATATTA-TA
1 -TTTATTATTA
10809523 TTATATTATTA
1 TT-TATTATTA
10809534 TTTATTA
1 TTTATTA
10809541 CTTTATTTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
8 5 0.08
9 11 0.17
10 34 0.53
11 6 0.09
12 4 0.06
13 4 0.06
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (10 bp):
TTTATTATTA
Found at i:10809492 original size:5 final size:5
Alignment explanation
Indices: 10809480--10809540 Score: 72
Period size: 5 Copynumber: 12.0 Consensus size: 5
10809470 TTTATTTTAT
*
10809480 TATT- TATTA TATTA TATTA TATTA TTTATTA TAGTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA --TATTA TATTA TATTA TATTA TATTA
10809531 TTATT- TATTA
1 -TATTA TATTA
10809541 CTTTATTTTC
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
4 8 0.16
5 33 0.66
6 4 0.08
7 5 0.10
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:10809497 original size:22 final size:22
Alignment explanation
Indices: 10809472--10809538 Score: 100
Period size: 22 Copynumber: 3.0 Consensus size: 22
10809462 TCTTTATTTT
*
10809472 TATTTTATTATTTATTATATTA
1 TATTATATTATTTATTATATTA
*
10809494 TATTATATTATTTATTATAGTA
1 TATTATATTATTTATTATATTA
10809516 TATTATATTATATTATTAT-TTA
1 TATTATATTAT-TTATTATATTA
10809538 T
1 T
10809539 TACTTTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 34 0.83
23 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (22 bp):
TATTATATTATTTATTATATTA
Found at i:10810903 original size:99 final size:99
Alignment explanation
Indices: 10810744--10810927 Score: 260
Period size: 99 Copynumber: 1.9 Consensus size: 99
10810734 ATAATTTTTT
* * *
10810744 TTAGGAATACGTTGGGCTGAGTAATTGGGGTAGGGTGCTTGGCTGTCATTTTTCTTCGCGTCAAA
1 TTAGGAATACGTTGGGCTGAGTAATCGGGGTAGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
* * *
10810809 AGGTTCGATACGTTCTTAAGAAAAATATAGTAAA
66 AGATTCAATACATTCTTAAGAAAAATATAGTAAA
* * * * *
10810843 TTAGGAGTATGTTGGGTTGAGTAATCGGGGTGGGGTGCTTGGCTGTTATCTCTCTTCGCGTCAAA
1 TTAGGAATACGTTGGGCTGAGTAATCGGGGTAGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
*
10810908 AGATTCAATATATTCTTAAG
66 AGATTCAATACATTCTTAAG
10810928 CAATAATAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
99 73 1.00
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.35
Consensus pattern (99 bp):
TTAGGAATACGTTGGGCTGAGTAATCGGGGTAGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
AGATTCAATACATTCTTAAGAAAAATATAGTAAA
Found at i:10812551 original size:9 final size:9
Alignment explanation
Indices: 10812537--10812563 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
10812527 TCCCTTATAC
10812537 TATTATTTT
1 TATTATTTT
10812546 TATTATTTT
1 TATTATTTT
10812555 TATTATTTT
1 TATTATTTT
10812564 ATAGGGATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TATTATTTT
Found at i:10819347 original size:18 final size:18
Alignment explanation
Indices: 10819324--10819362 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
10819314 ATAATCAAAG
*
10819324 CCAAAGAAACTTGATCCA
1 CCAAAGAAACGTGATCCA
*
10819342 CCAAAGAAGCGTGATCCA
1 CCAAAGAAACGTGATCCA
10819360 CCA
1 CCA
10819363 GGGCCGCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.31, G:0.15, T:0.13
Consensus pattern (18 bp):
CCAAAGAAACGTGATCCA
Found at i:10821227 original size:47 final size:48
Alignment explanation
Indices: 10821129--10821271 Score: 175
Period size: 48 Copynumber: 3.0 Consensus size: 48
10821119 AAATGGATGG
* *
10821129 ATTTAATTTTTATATCATTAAAAAGA-TTAAAAAAGTCAAATTTAATCA
1 ATTTAATTTTTATATCATTTAAAATATTTAAAAAA-TCAAATTTAATCA
* * * *
10821177 ATTTAATTTTTATATGATTTAAAA-ATTTAAAAATTTAAATTTAATTA
1 ATTTAATTTTTATATCATTTAAAATATTTAAAAAATCAAATTTAATCA
* *
10821224 ATTTAAATTTTATATTA-TTAAAATTATTTAAAAAATCAAATTTAATCA
1 ATTTAATTTTTATATCATTTAAAA-TATTTAAAAAATCAAATTTAATCA
10821272 GAGTTGACAC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
46 6 0.07
47 27 0.33
48 49 0.60
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.45
Consensus pattern (48 bp):
ATTTAATTTTTATATCATTTAAAATATTTAAAAAATCAAATTTAATCA
Found at i:10821228 original size:15 final size:15
Alignment explanation
Indices: 10821166--10821233 Score: 57
Period size: 15 Copynumber: 4.4 Consensus size: 15
10821156 TAAAAAAGTC
*
10821166 AAATTTAATCAATTT
1 AAATTTAATTAATTT
* * *
10821181 AATTTTTATATGATTT
1 AAATTTAAT-TAATTT
*
10821197 AAAAATTTAA-AAATTT
1 --AAATTTAATTAATTT
10821213 AAATTTAATTAATTT
1 AAATTTAATTAATTT
10821228 AAATTT
1 AAATTT
10821234 TATATTATTA
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
14 8 0.20
15 18 0.45
16 8 0.20
18 6 0.15
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (15 bp):
AAATTTAATTAATTT
Found at i:10824314 original size:43 final size:41
Alignment explanation
Indices: 10824243--10824412 Score: 119
Period size: 43 Copynumber: 4.0 Consensus size: 41
10824233 CGAAAAGCTC
* * * *
10824243 ATACAATGCCAACGTCCCAAACATGGTCTTACATGTAATCAA
1 ATACGATGCC-ACGTCCCAAACAGGGTCTTACACGGAATCAA
* *
10824285 ATATCGATGCCACTGTCCCAAATAGGGTCTTACACGGAATCAT
1 ATA-CGATGCCAC-GTCCCAAACAGGGTCTTACACGGAATCAA
** * * * *
10824328 ATACGATGCCAATATCCTAGACATGGTCTTACACGTAAATCTTAA
1 ATACGATGCC-ACGTCCCAAACAGGGTCTTACACG-GAATC--AA
* *
10824373 AT-CGATGCCAACGTCCCAGAC-GTGGTCTTACACGAAATCA
1 ATACGATGCC-ACGTCCCAAACAG-GGTCTTACACGGAATCA
10824413 CATATCTGAA
Statistics
Matches: 103, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 29 0.28
43 43 0.42
44 27 0.26
45 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (41 bp):
ATACGATGCCACGTCCCAAACAGGGTCTTACACGGAATCAA
Found at i:10826463 original size:21 final size:20
Alignment explanation
Indices: 10826417--10826463 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
10826407 TCAATCACTT
*
10826417 TAATATTAAATTAATTAAAT
1 TAATATTAAATTAATTAAAA
*
10826437 TAAATATTAAATCTTATTAAAA
1 T-AATATTAAAT-TAATTAAAA
10826459 TAATA
1 TAATA
10826464 GAATGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 14 0.61
22 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TAATATTAAATTAATTAAAA
Found at i:10843108 original size:23 final size:23
Alignment explanation
Indices: 10843082--10843126 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10843072 TGGGTATGTG
*
10843082 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
10843105 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
10843127 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:10851463 original size:35 final size:35
Alignment explanation
Indices: 10851418--10851563 Score: 177
Period size: 35 Copynumber: 4.0 Consensus size: 35
10851408 ATATTTTTTT
* * **
10851418 AACTCGGTATGGGA-AATGCCATACCTACATTTCTT
1 AACTCAGTAT-GGATAATACCATACCTACATTTCAC
10851453 AACTCAGTATGGATTTGATAATACCATACCTACATTTCAC
1 AACTCAGTAT-G----GATAATACCATACCTACATTTCAC
*
10851493 AGCTCAGTATGGATAATACCATACCTACATTTCAC
1 AACTCAGTATGGATAATACCATACCTACATTTCAC
*
10851528 AACTCAGTATGGATGATACCATACCTACATTTCAC
1 AACTCAGTATGGATAATACCATACCTACATTTCAC
10851563 A
1 A
10851564 CTTTGCCATG
Statistics
Matches: 99, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
35 69 0.70
39 3 0.03
40 27 0.27
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (35 bp):
AACTCAGTATGGATAATACCATACCTACATTTCAC
Found at i:10851480 original size:40 final size:36
Alignment explanation
Indices: 10851393--10851563 Score: 163
Period size: 35 Copynumber: 4.7 Consensus size: 36
10851383 TTTTCCTCAT
* *** *
10851393 TGAAATACCATACCTATATTTTTTTAACTCGGTATGG
1 TGAAATACCATACCTACA-TTTCACAACTCAGTATGG
* **
10851430 -GAAATGCCATACCTACATTTCTTAACTCAGTATGG
1 TGAAATACCATACCTACATTTCACAACTCAGTATGG
*
10851465 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-G
1 ---TGA-AATACCATACCTACATTTCACAACTCAGTATGG
10851504 -GATAATACCATACCTACATTTCACAACTCAGTATGG
1 TGA-AATACCATACCTACATTTCACAACTCAGTATGG
10851540 ATG--ATACCATACCTACATTTCACA
1 -TGAAATACCATACCTACATTTCACA
10851564 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 9, Indels: 18
0.81 0.06 0.12
Matches are distributed among these distances:
35 70 0.60
36 16 0.14
38 1 0.01
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (36 bp):
TGAAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:10857654 original size:46 final size:46
Alignment explanation
Indices: 10857592--10857819 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
10857582 TTTGACATGA
* * * * * * *
10857592 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
* ** * *
10857638 TACCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
10857684 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
10857730 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
10857776 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10857820 AGAGCACACT
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 164 0.98
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:10859771 original size:21 final size:21
Alignment explanation
Indices: 10859746--10859787 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10859736 ACATCTTTGA
*
10859746 TTTTCCCTTTTTTTTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
*
10859767 TTTTCTCTTTTTCTTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
10859788 CTTCCCCTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTCCCTTTTTCTTTCTTTC
Found at i:10860922 original size:42 final size:42
Alignment explanation
Indices: 10860863--10860960 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
10860853 ATGGGCAGAG
* * * * *
10860863 ACACGGGCATGTGTCTCAATCGTGTGTGCCACACAGCTTGGA
1 ACACGGGCGTGTGTCTCAATCGTATATACCACACAGCCTGGA
* * *
10860905 ACACGGGTGTGTGTCTCAGTCGTATATACCACACGGCCTGGA
1 ACACGGGCGTGTGTCTCAATCGTATATACCACACAGCCTGGA
10860947 ACACGGGCGTGTGT
1 ACACGGGCGTGTGT
10860961 TTTGGTCGTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (42 bp):
ACACGGGCGTGTGTCTCAATCGTATATACCACACAGCCTGGA
Found at i:10867048 original size:22 final size:22
Alignment explanation
Indices: 10867023--10867075 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
10867013 TTAGTTTAAT
*
10867023 ATGCTAAAAGTTACGTGCATAC
1 ATGCTAAAAGTTACATGCATAC
10867045 ATGCTAAAAGTTACATGCATAC
1 ATGCTAAAAGTTACATGCATAC
10867067 ATGCTAAAA
1 ATGCTAAAA
10867076 CTTATAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (22 bp):
ATGCTAAAAGTTACATGCATAC
Found at i:10868841 original size:75 final size:69
Alignment explanation
Indices: 10868753--10868948 Score: 223
Period size: 69 Copynumber: 2.8 Consensus size: 69
10868743 TTAGAATGAC
* *
10868753 ATAGCCCAACTATGGTCTTACATATATATATACACTTCCATGTTCCAACCATGGTCTTACGTATG
1 ATAGCCCAACTATGGTCTTACATA-A-ATAT----TTCCATGGTCCAACCATGGTCTTACGTATA
10868818 AAAAATTGCA
60 AAAAATTGCA
* * * *
10868828 ATAGCCCAGCTATGGTCTTACGTAAATATTTCCATGGTCCAACCATGTTCTTGCGTATAAAAAAT
1 ATAGCCCAACTATGGTCTTACATAAATATTTCCATGGTCCAACCATGGTCTTACGTATAAAAAAT
*
10868893 TGCC
66 TGCA
* * * *
10868897 ATAGCCCAATTATGGTCTTACGTAAACT-TTGCCATGGTCCAACTATGGTCTT
1 ATAGCCCAACTATGGTCTTACATAAA-TATTTCCATGGTCCAACCATGGTCTT
10868949 CTACATTTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
69 80 0.74
70 1 0.01
73 4 0.04
74 1 0.01
75 22 0.20
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (69 bp):
ATAGCCCAACTATGGTCTTACATAAATATTTCCATGGTCCAACCATGGTCTTACGTATAAAAAAT
TGCA
Found at i:10868848 original size:36 final size:35
Alignment explanation
Indices: 10868752--10868948 Score: 127
Period size: 33 Copynumber: 5.6 Consensus size: 35
10868742 ATTAGAATGA
*
10868752 CATAGCCCAACTATGGTCTTACATATATATATACACTT-C
1 CATAGCCCAACTATGGTCTTACGTATA-A-A-A-A-TTGC
* *
10868791 CAT-GTTCCAACCATGGTCTTACGTATGAAAAATTGC
1 CATAG-CCCAACTATGGTCTTACGTAT-AAAAATTGC
* * * *
10868827 AATAGCCCAGCTATGGTCTTACG--TAAATATTTC
1 CATAGCCCAACTATGGTCTTACGTATAAAAATTGC
* * * * *
10868860 CATGGTCCAACCATGTTCTTGCGTATAAAAAATTGC
1 CATAGCCCAACTATGGTCTTACGTAT-AAAAATTGC
* **
10868896 CATAGCCCAATTATGGTCTTACG--TAAACTTTGC
1 CATAGCCCAACTATGGTCTTACGTATAAAAATTGC
* *
10868929 CATGGTCCAACTATGGTCTT
1 CATAGCCCAACTATGGTCTT
10868949 CTACATTTTT
Statistics
Matches: 122, Mismatches: 29, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
33 47 0.39
34 2 0.02
35 3 0.02
36 43 0.35
37 2 0.02
38 2 0.02
39 22 0.18
40 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (35 bp):
CATAGCCCAACTATGGTCTTACGTATAAAAATTGC
Found at i:10868885 original size:69 final size:69
Alignment explanation
Indices: 10868788--10868948 Score: 225
Period size: 69 Copynumber: 2.3 Consensus size: 69
10868778 ATATATACAC
* * *
10868788 TTCCATGTTCCAACCATGGTCTTACGTATGAAAAATTGCAATAGCCCAGCTATGGTCTTACGTAA
1 TTCCATGGTCCAACCATGGTCTTACGTATAAAAAATTGCAATAGCCCAACTATGGTCTTACGTAA
10868853 A-TAT
66 ACT-T
* * * *
10868857 TTCCATGGTCCAACCATGTTCTTGCGTATAAAAAATTGCCATAGCCCAATTATGGTCTTACGTAA
1 TTCCATGGTCCAACCATGGTCTTACGTATAAAAAATTGCAATAGCCCAACTATGGTCTTACGTAA
10868922 ACTT
66 ACTT
* *
10868926 TGCCATGGTCCAACTATGGTCTT
1 TTCCATGGTCCAACCATGGTCTT
10868949 CTACATTTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
69 80 0.99
70 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (69 bp):
TTCCATGGTCCAACCATGGTCTTACGTATAAAAAATTGCAATAGCCCAACTATGGTCTTACGTAA
ACTT
Found at i:10871920 original size:23 final size:23
Alignment explanation
Indices: 10871890--10871944 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 23
10871880 AACTATGATG
10871890 ACTTAATTTAATTTTCATTTTGA
1 ACTTAATTTAATTTTCATTTTGA
10871913 ACTTAATTTAATTTTCATTTTGA
1 ACTTAATTTAATTTTCATTTTGA
10871936 ACTTCAATT
1 ACTT-AATT
10871945 ATTTAATCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 27 0.87
24 4 0.13
ACGTcount: A:0.31, C:0.11, G:0.04, T:0.55
Consensus pattern (23 bp):
ACTTAATTTAATTTTCATTTTGA
Found at i:10879244 original size:20 final size:19
Alignment explanation
Indices: 10879210--10879248 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
10879200 ATTCGTGATT
10879210 AAGTGTATGGTAATGGTAAA
1 AAGTGTATGGTAAT-GTAAA
10879230 AAGTGTATTGG-AATGTAAA
1 AAGTGTA-TGGTAATGTAAA
10879249 GAATATAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 10 0.56
21 3 0.17
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (19 bp):
AAGTGTATGGTAATGTAAA
Found at i:10888763 original size:96 final size:98
Alignment explanation
Indices: 10888639--10888843 Score: 276
Period size: 96 Copynumber: 2.1 Consensus size: 98
10888629 GTTTTTAAAT
* * ** *
10888639 TTTAGGG-TTTTAAGGAAAAAAATTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTA
1 TTTAGGGTTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
*
10888703 CT-AATTTT-AAAAAATTAGATTATGG-TTTAGTG
66 -TAAATTTTAAAAAAATTAGATTA-GGATTTAGGG
* *
10888735 TTTATGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
1 TTTAGGGTTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
10888799 TAAATTTTAAAAAAATTAGATTAGGATTTTAGGG
66 TAAATTTTAAAAAAATTAGATTAGGA-TTTAGGG
10888833 TTTAGGGTTTT
1 TTTAGGGTTTT
10888844 AGGTTATTTA
Statistics
Matches: 95, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
95 1 0.01
96 56 0.59
97 22 0.23
98 16 0.17
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (98 bp):
TTTAGGGTTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
TAAATTTTAAAAAAATTAGATTAGGATTTAGGG
Found at i:10889470 original size:126 final size:126
Alignment explanation
Indices: 10888932--10889455 Score: 843
Period size: 126 Copynumber: 4.2 Consensus size: 126
10888922 AAAAGCTTCT
* *
10888932 ACGTGGACGCTCTTTTACTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
10888997 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
10889058 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTTTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
10889123 ATAGTGTAAAAAATGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
*
10889184 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTAAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * *
10889249 ATAGTGGT-AAAAACGCTTCAAGTAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * **
10889310 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTAAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
10889375 ATAGTATCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
*
10889436 ACATGGACGCTCTTTTGCTA
1 ACGTGGACGCTCTTTTGCTA
10889456 TAGTGGTTTC
Statistics
Matches: 366, Mismatches: 30, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
125 1 0.00
126 363 0.99
127 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:10892655 original size:116 final size:116
Alignment explanation
Indices: 10892480--10893327 Score: 1480
Period size: 116 Copynumber: 7.3 Consensus size: 116
10892470 TTTATATTTT
* * * *
10892480 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTAGTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * * *
10892545 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACATTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
10892596 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10892661 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
10892712 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCGTTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
10892777 AAAATATAAAAGTAGATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
10892828 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCTATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
10892893 AAAATATAAAAGTAGATTACAATTACTTTATTTAAAACAACCTTTTCTCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
10892944 ATTACATGAAATAATATAAAAATATTCAAAATGTTGTCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * * *
10893009 AAAATATAAAAGTAGATTACAATTACTTTACTTAAAACAATCTTTTGTCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
10893060 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
10893125 AAAATATAAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATAT-AAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
10893177 ATTACATGAAATAATATAAAAATATTCAAAATGTTGTCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
10893242 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTCTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
10893293 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
10893328 TGTACAAATA
Statistics
Matches: 701, Mismatches: 30, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
116 591 0.84
117 110 0.16
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:10893739 original size:18 final size:18
Alignment explanation
Indices: 10893713--10893755 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
10893703 GACTAGAAAA
* *
10893713 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
10893731 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
10893749 AGGATAC
1 AGGATAC
10893756 GTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:10894291 original size:22 final size:22
Alignment explanation
Indices: 10894263--10894306 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
10894253 CACGTGCCAA
10894263 GCATTAGGATTTTGCAAGTATT
1 GCATTAGGATTTTGCAAGTATT
10894285 GCATTAGGATTTTGCAAGTATT
1 GCATTAGGATTTTGCAAGTATT
10894307 CATCCGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (22 bp):
GCATTAGGATTTTGCAAGTATT
Found at i:10894404 original size:7 final size:7
Alignment explanation
Indices: 10894394--10894420 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10894384 GTTAAATAAA
10894394 AAATACT
1 AAATACT
10894401 AAATACT
1 AAATACT
10894408 AAATACT
1 AAATACT
10894415 AAATAC
1 AAATAC
10894421 GAATCCACTA
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:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:10894405 original size:14 final size:14
Alignment explanation
Indices: 10894386--10894419 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10894376 AAATATTAGT
10894386 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
10894400 TAAATACTAAATAC
1 TAAATAAAAAATAC
10894414 TAAATA
1 TAAATA
10894420 CGAATCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:10895543 original size:15 final size:15
Alignment explanation
Indices: 10895523--10895553 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10895513 TTTTTATTTT
*
10895523 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
10895538 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
10895553 A
1 A
10895554 GCTTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Done.