Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 25 of 373
Found at i:6973998 original size:17 final size:18
Alignment explanation
Indices: 6973968--6974004 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6973958 GTATTTTTTT
6973968 AAATTCAAAGAAAT-TTA
1 AAATTCAAAGAAATCTTA
6973985 AAATATCAAA-AAATCTTA
1 AAAT-TCAAAGAAATCTTA
6974003 AA
1 AA
6974005 TTTTAGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.27
Consensus pattern (18 bp):
AAATTCAAAGAAATCTTA
Found at i:6974005 original size:17 final size:16
Alignment explanation
Indices: 6973965--6974006 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
6973955 TATGTATTTT
6973965 TTTAAATTCAAAGAAA
1 TTTAAATTCAAAGAAA
6973981 TTTAAAATATCAAA-AAA
1 TTT-AAAT-TCAAAGAAA
6973998 TCTTAAATT
1 T-TTAAATT
6974007 TTAGATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.17
17 12 0.52
18 7 0.30
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (16 bp):
TTTAAATTCAAAGAAA
Found at i:6974773 original size:12 final size:12
Alignment explanation
Indices: 6974743--6974775 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
6974733 TATATATTTT
6974743 AAAATT-ATATA
1 AAAATTAATATA
6974754 AAAA-TAATATA
1 AAAATTAATATA
6974765 AAAATTAATAT
1 AAAATTAATAT
6974776 GAGCGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:6975341 original size:13 final size:13
Alignment explanation
Indices: 6975323--6975347 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6975313 TTAAAATTTA
6975323 TATTTATATTTTC
1 TATTTATATTTTC
6975336 TATTTATATTTT
1 TATTTATATTTT
6975348 ATTATTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTATATTTTC
Found at i:6975660 original size:19 final size:19
Alignment explanation
Indices: 6975636--6975676 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
6975626 TTTCTAATGA
6975636 AAACTTAGACAATATTAAT
1 AAACTTAGACAATATTAAT
6975655 AAACTTAGACAATATTAAT
1 AAACTTAGACAATATTAAT
6975674 AAA
1 AAA
6975677 ATAATATACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (19 bp):
AAACTTAGACAATATTAAT
Found at i:6977022 original size:13 final size:13
Alignment explanation
Indices: 6977006--6977030 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6976996 TATGACAAAC
6977006 TGATAATCTAAAG
1 TGATAATCTAAAG
6977019 TGATAATCTAAA
1 TGATAATCTAAA
6977031 ATGCTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (13 bp):
TGATAATCTAAAG
Found at i:6979902 original size:128 final size:128
Alignment explanation
Indices: 6979674--6979938 Score: 521
Period size: 128 Copynumber: 2.1 Consensus size: 128
6979664 TGGCATTTTG
*
6979674 TGCATCACTAATGCGATGGGTCTCTTAGGGCTTTTAGCAATTTTTTCTTGGTTGATTGGTGTTTA
1 TGCATCTCTAATGCGATGGGTCTCTTAGGGCTTTTAGCAATTTTTTCTTGGTTGATTGGTGTTTA
6979739 TTGTCAGGTTGATTTGATGATGGCAAAGCTAGGATGCAAATTTCAGCGATTTGATCAAGTTGA
66 TTGTCAGGTTGATTTGATGATGGCAAAGCTAGGATGCAAATTTCAGCGATTTGATCAAGTTGA
6979802 TGCATCTCTAATGCGATGGGTCTCTTAGGGCTTTTAGCAATTTTTTCTTGGTTGATTGGTGTTTA
1 TGCATCTCTAATGCGATGGGTCTCTTAGGGCTTTTAGCAATTTTTTCTTGGTTGATTGGTGTTTA
6979867 TTGTCAGGTTGATTTGATGATGGCAAAGCTAGGATGCAAATTTCAGCGATTTGATCAAGTTGA
66 TTGTCAGGTTGATTTGATGATGGCAAAGCTAGGATGCAAATTTCAGCGATTTGATCAAGTTGA
6979930 TGCATCTCT
1 TGCATCTCT
6979939 GGTTTGTTTT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 136 1.00
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.40
Consensus pattern (128 bp):
TGCATCTCTAATGCGATGGGTCTCTTAGGGCTTTTAGCAATTTTTTCTTGGTTGATTGGTGTTTA
TTGTCAGGTTGATTTGATGATGGCAAAGCTAGGATGCAAATTTCAGCGATTTGATCAAGTTGA
Found at i:6987281 original size:25 final size:25
Alignment explanation
Indices: 6987253--6987302 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
6987243 ACAGTATGTA
6987253 CATATAAATAAGTTATGTTCATATT
1 CATATAAATAAGTTATGTTCATATT
*
6987278 CATATAAATAAGTTATGTTTATATT
1 CATATAAATAAGTTATGTTCATATT
6987303 TGACAATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (25 bp):
CATATAAATAAGTTATGTTCATATT
Found at i:6990210 original size:28 final size:28
Alignment explanation
Indices: 6990168--6990233 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
6990158 GGTTTTAGAT
*
6990168 ATTAAATGTAGGGAAAATGCATTAAGAC
1 ATTAAATGTAAGGAAAATGCATTAAGAC
* *
6990196 ATTAAATGTAAGGAAAATGTATTAAGGC
1 ATTAAATGTAAGGAAAATGCATTAAGAC
6990224 ATTAAATGTA
1 ATTAAATGTA
6990234 GAGAAAAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.29
Consensus pattern (28 bp):
ATTAAATGTAAGGAAAATGCATTAAGAC
Found at i:7020565 original size:29 final size:29
Alignment explanation
Indices: 7020502--7020569 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
7020492 TAATCAACCG
*
7020502 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
7020531 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
7020560 CGCACACTTA
1 CGCACACTTA
7020570 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:7020739 original size:29 final size:29
Alignment explanation
Indices: 7020676--7020743 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
7020666 TAATCAACCG
7020676 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
7020705 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
7020734 CGCACACTTA
1 CGCACACTTA
7020744 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:7020886 original size:29 final size:30
Alignment explanation
Indices: 7020845--7020923 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
7020835 CTTAATAATC
7020845 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
* *
7020875 AACTCTCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
7020904 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
7020924 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 31 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:7020917 original size:174 final size:174
Alignment explanation
Indices: 7020391--7020892 Score: 950
Period size: 174 Copynumber: 2.9 Consensus size: 174
7020381 AACTCAAGGT
* *
7020391 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
7020456 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
7020521 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
7020565 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
7020630 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
7020695 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
7020739 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
7020804 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
7020869 ACTTTAAACTCTCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
7020893 TGTACAATTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 320 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:7022788 original size:13 final size:13
Alignment explanation
Indices: 7022748--7022798 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
7022738 TTAATAATGA
7022748 TATTTTAATTGATAT
1 TATTTTAATT--TAT
*
7022763 T-TTTTAAAATTAT
1 TATTTT-AATTTAT
7022776 TATTTTAATTTAT
1 TATTTTAATTTAT
*
7022789 AATTTTAATT
1 TATTTTAATT
7022799 GAAAACAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 19 0.61
14 8 0.26
15 4 0.13
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TATTTTAATTTAT
Found at i:7025001 original size:22 final size:21
Alignment explanation
Indices: 7024968--7025010 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
7024958 TAAAAGCCAT
7024968 TGAGAGATTATATAATAAAAGA
1 TGAGAGATTATAT-ATAAAAGA
*
7024990 TGAGA-ATATATATTTAAAAGA
1 TGAGAGAT-TATATATAAAAGA
7025011 AACTATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.30
Consensus pattern (21 bp):
TGAGAGATTATATATAAAAGA
Found at i:7025208 original size:112 final size:113
Alignment explanation
Indices: 7025086--7025311 Score: 427
Period size: 114 Copynumber: 2.0 Consensus size: 113
7025076 GTATATATAT
7025086 ATATATATATAGGAGTTTAAACAAACAAATTTAAAAGAAAATAGATAAATGTATG-TATATATAT
1 ATATATATATAGGAGTTTAAACAAACAAATTTAAAAGAAAATAGATAAATGTATGATATATATAT
7025150 ATAGTTACATGTATAGATGTATTTACATATAAATGAAAGTACAAATAA
66 ATAGTTACATGTATAGATGTATTTACATATAAATGAAAGTACAAATAA
*
7025198 ATATATATATAGGAGTTTAAACAAACAAATTTAAAAGAAAATAGATAGATGTATGTATATATATA
1 ATATATATATAGGAGTTTAAACAAACAAATTTAAAAGAAAATAGATAAATGTATG-ATATATATA
7025263 TATAGTTACATGTATAGATGTATTTACATATAAATGAAAGTACAAATAA
65 TATAGTTACATGTATAGATGTATTTACATATAAATGAAAGTACAAATAA
7025312 CAAACTAAAA
Statistics
Matches: 111, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
112 54 0.49
114 57 0.51
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.33
Consensus pattern (113 bp):
ATATATATATAGGAGTTTAAACAAACAAATTTAAAAGAAAATAGATAAATGTATGATATATATAT
ATAGTTACATGTATAGATGTATTTACATATAAATGAAAGTACAAATAA
Found at i:7025258 original size:56 final size:56
Alignment explanation
Indices: 7025085--7025264 Score: 143
Period size: 56 Copynumber: 3.2 Consensus size: 56
7025075 AGTATATATA
*
7025085 TATATATATATAGGAGTTTAAACAAACAAATTTAAAAGAAAATAGATAAATGTATG
1 TATATATATATAGGAGTTTAAACAAACAAATTTAAAAGAAAATAGATAGATGTATG
* * * * * *** * * * *** *
7025141 TATATATATATAGTTACATGT--ATAGATGTATTTACATA-TAAAT-GAAAGTACAAATA
1 TATATATATATAG-GA-GTTTAAACAAACAAATTTA-AAAGAAAATAGATAG-ATGTATG
*
7025197 AATATATATATAGGAGTTTAAACAAACAAATTTAAAAGAAAATAGATAGATGTATG
1 TATATATATATAGGAGTTTAAACAAACAAATTTAAAAGAAAATAGATAGATGTATG
7025253 TATATATATATA
1 TATATATATATA
7025265 TAGTTACATG
Statistics
Matches: 83, Mismatches: 33, Indels: 16
0.63 0.25 0.12
Matches are distributed among these distances:
54 2 0.02
55 6 0.07
56 66 0.80
57 7 0.08
58 2 0.02
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (56 bp):
TATATATATATAGGAGTTTAAACAAACAAATTTAAAAGAAAATAGATAGATGTATG
Found at i:7029677 original size:15 final size:15
Alignment explanation
Indices: 7029653--7029684 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7029643 CTAAAGGTGA
*
7029653 TTTTCTTTTTTTCAT
1 TTTTCATTTTTTCAT
7029668 TTTTCATTTTTTCAT
1 TTTTCATTTTTTCAT
7029683 TT
1 TT
7029685 CTATTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCATTTTTTCAT
Found at i:7030790 original size:50 final size:50
Alignment explanation
Indices: 7030715--7030891 Score: 266
Period size: 50 Copynumber: 3.5 Consensus size: 50
7030705 CCATGGCAAC
7030715 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
7030765 AAGTGATAAGT-AGTAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGA-TAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
7030815 AAGTGATAAATGATAGCTTCGGCTACACCTATCTGATCAGGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
7030865 CAAGTGAAAAGTGGTAGCTTCTGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
7030892 TTGATCAGTG
Statistics
Matches: 115, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
49 1 0.01
50 91 0.79
51 23 0.20
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:7030905 original size:31 final size:31
Alignment explanation
Indices: 7030867--7031015 Score: 208
Period size: 31 Copynumber: 4.8 Consensus size: 31
7030857 ACAAATGACA
* *
7030867 AGTGAAAAGTGGTAGCTTCTGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
7030898 AGTGAAAAGTGGTAGCTTCTGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
7030929 AGTGAAAAGTGGTAGCTCCGCCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
7030960 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
7030991 AGTGAATAGTGGTAACTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
7031016 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:7031185 original size:42 final size:43
Alignment explanation
Indices: 7031129--7031241 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 43
7031119 TGTGATTCGC
*
7031129 GTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGT
1 GTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGT
* *
7031171 GTAAGACCATAGCTGGGCTATGGCA-CCATTATGTGAAGATGT
1 GTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGT
* **
7031213 GTAAGACCATAGTTGAACTATGGCATCGA
1 GTAAGACCATAGCTGGGCTATGGCATCGA
7031242 GAAAACGAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 2 0.03
42 58 0.94
43 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (43 bp):
GTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGT
Found at i:7036029 original size:8 final size:7
Alignment explanation
Indices: 7036008--7036066 Score: 52
Period size: 7 Copynumber: 8.1 Consensus size: 7
7035998 ATGTTTAGCA
7036008 TTTA-TT
1 TTTATTT
7036014 TTTATTT
1 TTTATTT
7036021 TTCTATTT
1 TT-TATTT
7036029 TTTATTT
1 TTTATTT
7036036 TGTT-TTT
1 T-TTATTT
7036043 TGTT-TTT
1 T-TTATTT
7036050 ATTTATTT
1 -TTTATTT
7036058 ATTTATTT
1 -TTTATTT
7036066 T
1 T
7036067 CTTCTTTCTT
Statistics
Matches: 48, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
6 4 0.08
7 23 0.48
8 21 0.44
ACGTcount: A:0.14, C:0.02, G:0.03, T:0.81
Consensus pattern (7 bp):
TTTATTT
Found at i:7038450 original size:3 final size:3
Alignment explanation
Indices: 7038437--7038541 Score: 65
Period size: 3 Copynumber: 35.7 Consensus size: 3
7038427 ATTAATTGGA
* * * * *
7038437 TAT TTT TAT TAT TAT T-G TATT TAT TAT TAT TGT TGT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * **
7038482 T-T T-T TAT TGT TAC TAT TAT TAT TACA TAT TAT TAT TCG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
*
7038526 TAT TTT TA- TAT TAT TA
1 TAT TAT TAT TAT TAT TA
7038542 CCAGTATTAA
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
2 7 0.09
3 66 0.86
4 4 0.05
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:7038668 original size:19 final size:19
Alignment explanation
Indices: 7038629--7038695 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 19
7038619 CCATTATCAC
7038629 TATTATTTTCCT-TTA-TCAT
1 TATTATTTT-CTATTACT-AT
7038648 TATTATTTTCTATTACTAT
1 TATTATTTTCTATTACTAT
* *
7038667 TAATATATTAT-TATTACTTT
1 T-AT-TATTTTCTATTACTAT
*
7038687 TTTTATTTT
1 TATTATTTT
7038696 ATTATTATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 7 0.17
19 16 0.40
20 12 0.30
21 5 0.12
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTATTTTCTATTACTAT
Found at i:7038815 original size:20 final size:20
Alignment explanation
Indices: 7038780--7038817 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7038770 TATTTTCTAC
*
7038780 TTATTATTGTATTATTACTA
1 TTATTATTGTAGTATTACTA
*
7038800 TTATTATTGTCGTATTAC
1 TTATTATTGTAGTATTAC
7038818 AAAACTAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (20 bp):
TTATTATTGTAGTATTACTA
Found at i:7039825 original size:203 final size:205
Alignment explanation
Indices: 7039433--7039848 Score: 665
Period size: 203 Copynumber: 2.0 Consensus size: 205
7039423 AATCCTTCCT
* * *
7039433 TATATGTAACCGATTTTCGAACCTGTTTTTCTGATTTTCGTAGACCAAAATCGTTGTTTTGATTA
1 TATACGTAACCGATTTTCGAACCCGTTTTTCTGATTTTCATAGACCAAAATCGTTGTTTTGATTA
* ** *
7039498 ATCAATCTATTTATTGAAAAACAACCACTTTTTGAGGTGACTCGATCACACCTCGTCAAAAAGGA
66 ATCAATCTATTTATTGAAAAACAACCAC---TTCAGAAGACTCGATCACACCTCGTCAAAAAGAA
* **
7039563 CTGATGGCGAGTCTTGTTTCTTTTTTCTTTTCAAAAATCAAAGTCAACCCCATTTTAAAAAATGG
128 CTGATGGCGACTCTTGTTTCTTTTTTCTTTTCAAAAATCAAAGTCAACCCCATTTTAAAAAATAA
*
7039628 TTTCCACAATATA
193 TTTCAACAATATA
*
7039641 TATACGTAACCGATTTTCGGACCCGTTTTTCTGATTTTCATAGACCAAAATCGTTGTTTTGATTA
1 TATACGTAACCGATTTTCGAACCCGTTTTTCTGATTTTCATAGACCAAAATCGTTGTTTTGATTA
*
7039706 ATCAATCTATTTATTGAAAAACAACCAC-TCA-AAGACTCGATCACACCTCGTCAAAAAGAATTG
66 ATCAATCTATTTATTGAAAAACAACCACTTCAGAAGACTCGATCACACCTCGTCAAAAAGAACTG
*
7039769 ATGGCGACTCTTGTTTCTTTTTTCTTTTCAAAAATCAAAGTCAACCCCATTTTAAAATATAATTT
131 ATGGCGACTCTTGTTTCTTTTTTCTTTTCAAAAATCAAAGTCAACCCCATTTTAAAAAATAATTT
7039834 CAACAATATA
196 CAACAATATA
7039844 TATAC
1 TATAC
7039849 ATTAAACGTT
Statistics
Matches: 194, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
203 103 0.53
204 2 0.01
208 89 0.46
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (205 bp):
TATACGTAACCGATTTTCGAACCCGTTTTTCTGATTTTCATAGACCAAAATCGTTGTTTTGATTA
ATCAATCTATTTATTGAAAAACAACCACTTCAGAAGACTCGATCACACCTCGTCAAAAAGAACTG
ATGGCGACTCTTGTTTCTTTTTTCTTTTCAAAAATCAAAGTCAACCCCATTTTAAAAAATAATTT
CAACAATATA
Found at i:7042440 original size:102 final size:102
Alignment explanation
Indices: 7042256--7042460 Score: 304
Period size: 102 Copynumber: 2.0 Consensus size: 102
7042246 AGAGTGTCAC
*
7042256 ATCATTGAACTTTGATTATTTTTCGAAGTTCAAAGATTAAAATAAATCTAATTTTCAACGTCAAA
1 ATCATTGAACTTTGATTATTTTTCGAAGTTCAAAGATTAAAATAAATATAATTTTCAACGTCAAA
* * * *
7042321 TACTGAAGTGGATAAAAGAATATAGGTACCAAACTAG
66 TACTAAAGTAGACAAAAGAATATAGGAACCAAACTAG
* * * * *
7042358 ATCATTGAATTTTGATTATTTTTGGAAGTTTAAAGATTAAAATGAATATAATTGTT-AACTTCAA
1 ATCATTGAACTTTGATTATTTTTCGAAGTTCAAAGATTAAAATAAATATAATT-TTCAACGTCAA
7042422 ATACTAAAGTAGACAAAAGAATATAGGAACCAAACTAG
65 ATACTAAAGTAGACAAAAGAATATAGGAACCAAACTAG
7042460 A
1 A
7042461 CTTAGGGTGG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 90 0.98
103 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.33
Consensus pattern (102 bp):
ATCATTGAACTTTGATTATTTTTCGAAGTTCAAAGATTAAAATAAATATAATTTTCAACGTCAAA
TACTAAAGTAGACAAAAGAATATAGGAACCAAACTAG
Found at i:7045436 original size:106 final size:106
Alignment explanation
Indices: 7045266--7045466 Score: 357
Period size: 106 Copynumber: 1.9 Consensus size: 106
7045256 AAGCTTTAAG
*
7045266 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGA
7045331 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
* * *
7045372 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGA
*
7045437 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATCGCCTTATTTA
7045467 GAAAAATTTT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 90 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
Found at i:7046000 original size:18 final size:20
Alignment explanation
Indices: 7045961--7046004 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
7045951 AAATGTGCAT
7045961 AAATATATGTAAGTGTATAA
1 AAATATATGTAAGTGTATAA
7045981 AAAT-TATG-AAGTGTGA-AA
1 AAATATATGTAAGTGT-ATAA
7045999 AAATAT
1 AAATAT
7046005 GTTTAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
AAATATATGTAAGTGTATAA
Found at i:7046537 original size:30 final size:31
Alignment explanation
Indices: 7046468--7046537 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 31
7046458 ACAAAATACC
*
7046468 TATATATATATGTAATGAAATATGTGAACAAA
1 TATATA-ATATGTAATGAAATATATGAACAAA
**
7046500 TAT-TAATAT-TAATG-AATATATGATACATG
1 TATATAATATGTAATGAAATATATGA-ACAAA
7046529 TATATAATA
1 TATATAATA
7046538 ATAGAAACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 8 0.24
29 11 0.33
30 9 0.27
31 2 0.06
32 3 0.09
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.39
Consensus pattern (31 bp):
TATATAATATGTAATGAAATATATGAACAAA
Found at i:7047719 original size:21 final size:23
Alignment explanation
Indices: 7047680--7047736 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
7047670 GTTTTAAAAT
* *
7047680 TTGGGCTCAGGTAGTTTTA-GG-A
1 TTGGGCT-AGGTTGGTTTAGGGTA
7047702 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
7047725 TTGGGCTAGGTT
1 TTGGGCTAGGTT
7047737 AGTTGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 9 0.29
22 9 0.29
23 13 0.42
ACGTcount: A:0.14, C:0.07, G:0.40, T:0.39
Consensus pattern (23 bp):
TTGGGCTAGGTTGGTTTAGGGTA
Found at i:7048431 original size:132 final size:132
Alignment explanation
Indices: 7048196--7049251 Score: 1761
Period size: 132 Copynumber: 8.0 Consensus size: 132
7048186 GTCGATCGGC
* *
7048196 TTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTAC
1 TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTAC
* * * * * *
7048261 CAATATAGAAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCT
66 CAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
*
7048326 GC
131 GT
* * * *
7048328 TTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCTTAC
1 TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTAC
* *
7048393 CAATATAGGAAGATAGGATCTGCTACATTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
66 CAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
7048458 GT
131 GT
* *
7048460 TTTCTGCGATTCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTA
1 TTTCTGCGA-TCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTA
* *
7048525 CCAGTATAGGAAGATAATATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
65 CCAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
*
7048590 TGC
130 TGT
* * * * *
7048593 TTTCTACGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTTCTAC
1 TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTAC
* *
7048658 CAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
66 CAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
7048723 GT
131 GT
* *
7048725 TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTTCTAC
1 TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTAC
* *
7048790 CAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
66 CAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
7048855 GT
131 GT
* *
7048857 TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCGTCGTCGATCTACTTCCTAC
1 TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTAC
*
7048922 CAATATAGGAAGATAAGATCTGCTACCTCCGATCTACTTCACGCCAATACATGAAGACAAGATCT
66 CAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
7048987 GT
131 GT
* *
7048989 TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCGTCGTCGATCTACTTCCTAC
1 TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTAC
7049054 CAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
66 CAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
7049119 GT
131 GT
* *
7049121 TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCGTCGTCGATCTACTTCCTAC
1 TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTAC
7049186 CAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
66 CAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
7049251 G
131 G
7049252 CTTTAATGAC
Statistics
Matches: 884, Mismatches: 39, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
132 760 0.86
133 124 0.14
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTAC
CAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
GT
Found at i:7060271 original size:21 final size:23
Alignment explanation
Indices: 7060232--7060288 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
7060222 GTTTTAAAAT
* *
7060232 TTGGGCTCAGGTAGTTTTA-GG-A
1 TTGGGCT-AGGTTGGTTTAGGGTA
7060254 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
7060277 TTGGGCTAGGTT
1 TTGGGCTAGGTT
7060289 AGTTGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 9 0.29
22 9 0.29
23 13 0.42
ACGTcount: A:0.14, C:0.07, G:0.40, T:0.39
Consensus pattern (23 bp):
TTGGGCTAGGTTGGTTTAGGGTA
Found at i:7069410 original size:26 final size:24
Alignment explanation
Indices: 7069374--7069428 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 24
7069364 GTAGCAGACA
*
7069374 AAAAATTTTAAAATATAATTAAAATT
1 AAAAATTTTAAAA-AT-ATTAAAAAT
*
7069400 AAAAATTTTAAAAATTTTAAAAAT
1 AAAAATTTTAAAAATATTAAAAAT
7069424 AAAAA
1 AAAAA
7069429 AAGAAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 12 0.44
25 2 0.07
26 13 0.48
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAAATTTTAAAAATATTAAAAAT
Found at i:7069422 original size:10 final size:9
Alignment explanation
Indices: 7069398--7069423 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7069388 ATAATTAAAA
7069398 TTAAAAATT
1 TTAAAAATT
7069407 TTAAAAATT
1 TTAAAAATT
7069416 TTAAAAAT
1 TTAAAAAT
7069424 AAAAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TTAAAAATT
Found at i:7074607 original size:52 final size:52
Alignment explanation
Indices: 7074539--7074655 Score: 146
Period size: 52 Copynumber: 2.2 Consensus size: 52
7074529 AGTGATATAT
*
7074539 GTATAAGACTATAGCTGGGCTATGACATCAGAAAACAAGTAATAAGTGAT-CC
1 GTATAAGACCATAGCTGGGCTATGACATCAGAAAA-AAGTAATAAGTGATCCC
* * * * *
7074591 GTATAAGACCATAGCTGGGCTATGGCATTAGAGAAAAGTGATAAGTGCTCCC
1 GTATAAGACCATAGCTGGGCTATGACATCAGAAAAAAGTAATAAGTGATCCC
* *
7074643 GTGTAAAACCATA
1 GTATAAGACCATA
7074656 TCCGAGATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 12 0.21
52 44 0.79
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (52 bp):
GTATAAGACCATAGCTGGGCTATGACATCAGAAAAAAGTAATAAGTGATCCC
Found at i:7075804 original size:21 final size:21
Alignment explanation
Indices: 7075780--7075821 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7075770 TTGGGCCTTG
*
7075780 TAGGCCCATATTAGGGACTTT
1 TAGGCCAATATTAGGGACTTT
7075801 TAGGCCAATATTAGGGACTTT
1 TAGGCCAATATTAGGGACTTT
7075822 ATCATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (21 bp):
TAGGCCAATATTAGGGACTTT
Found at i:7076442 original size:32 final size:33
Alignment explanation
Indices: 7076369--7076447 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 33
7076359 TGTACATTCC
* * *
7076369 TTTCCAGGTGGTACACACAAAATATACCTAACA
1 TTTCCAAGTTGTACACACAAAATATACATAACA
* * *
7076402 TTTCCAAG-TGTACACACAAAGTGTACATAACC
1 TTTCCAAGTTGTACACACAAAATATACATAACA
*
7076434 TTTTCAAGTTGTAC
1 TTTCCAAGTTGTAC
7076448 CATTTGGGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 26 0.68
33 12 0.32
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (33 bp):
TTTCCAAGTTGTACACACAAAATATACATAACA
Found at i:7089004 original size:22 final size:22
Alignment explanation
Indices: 7088957--7089004 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7088947 AAATGGTAGC
*
7088957 AAAATAATGAGAAAACAACAAG
1 AAAATAATGAGAAAACAACAAA
*
7088979 AAAATAAT-AGTAAAACAATAAA
1 AAAATAATGAG-AAAACAACAAA
7089001 AAAA
1 AAAA
7089005 GAGCAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.12
Consensus pattern (22 bp):
AAAATAATGAGAAAACAACAAA
Found at i:7090149 original size:11 final size:10
Alignment explanation
Indices: 7090131--7090205 Score: 64
Period size: 10 Copynumber: 7.4 Consensus size: 10
7090121 AAATTAAGAC
7090131 TAATTTTTAA
1 TAATTTTTAA
7090141 TATATTTTTAA
1 TA-ATTTTTAA
7090152 TAATTTCTT-A
1 TAATTT-TTAA
* *
7090162 TTAGTTTTAA
1 TAATTTTTAA
*
7090172 TAACTTTTAAA
1 TAA-TTTTTAA
**
7090183 TAATTTTCCA
1 TAATTTTTAA
7090193 TAATTTTT-A
1 TAATTTTTAA
7090202 TAAT
1 TAAT
7090206 GATTTGAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
9 7 0.13
10 26 0.49
11 20 0.38
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.57
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:7090201 original size:31 final size:31
Alignment explanation
Indices: 7090131--7090201 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
7090121 AAATTAAGAC
* *
7090131 TAATTTTTAATATATTTTTAATAATTTCTTA
1 TAATTTTTAATATATTTTAAATAATTTCTCA
* *
7090162 TTAGTTTTAATA-ACTTTTAAATAATTT-TCCA
1 TAATTTTTAATATA-TTTTAAATAATTTCT-CA
7090193 TAATTTTTA
1 TAATTTTTA
7090202 TAATGATTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (31 bp):
TAATTTTTAATATATTTTAAATAATTTCTCA
Found at i:7092381 original size:56 final size:56
Alignment explanation
Indices: 7092179--7092386 Score: 254
Period size: 56 Copynumber: 3.7 Consensus size: 56
7092169 TTCATACATA
* * * * * **
7092179 CATTTCATATAATGCCATGGGTCTTGACCACACGGTCTTACATACATACATTCAGT
1 CATTTCATATATTGCCATAGGTCTTAACCTCATGGTCTTACATACATTTATTCAGT
* * * * * *
7092235 CATATCATATATTGCCATAGGTTTTAACCTTATGATATTACTTACATTTATTCAGT
1 CATTTCATATATTGCCATAGGTCTTAACCTCATGGTCTTACATACATTTATTCAGT
* * * *
7092291 CATTTCATATCTTGCCATGGGTCTTAACCTCATGGTCTTACATACATTTATTTAGC
1 CATTTCATATATTGCCATAGGTCTTAACCTCATGGTCTTACATACATTTATTCAGT
*
7092347 CATTTCATATCTTGCCATAGGTCTTAACCTCATGGTCTTA
1 CATTTCATATATTGCCATAGGTCTTAACCTCATGGTCTTA
7092387 TAAATATTCA
Statistics
Matches: 128, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 128 1.00
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.39
Consensus pattern (56 bp):
CATTTCATATATTGCCATAGGTCTTAACCTCATGGTCTTACATACATTTATTCAGT
Found at i:7093089 original size:18 final size:18
Alignment explanation
Indices: 7093044--7093089 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
7093034 CTGAAGGAGT
7093044 TGAGAGTTAGTGGGTTAG
1 TGAGAGTTAGTGGGTTAG
* *
7093062 TGGGATTTAGT-GGTTAG
1 TGAGAGTTAGTGGGTTAG
7093079 TGAGAGGTTAG
1 TGAGA-GTTAG
7093090 GATAGATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (18 bp):
TGAGAGTTAGTGGGTTAG
Found at i:7120661 original size:18 final size:20
Alignment explanation
Indices: 7120622--7120671 Score: 77
Period size: 18 Copynumber: 2.6 Consensus size: 20
7120612 AAATCAAAAT
*
7120622 AAATTTCAAAATAATTTCTA
1 AAATTTCAAAATAATTTATA
7120642 AAATTT-AAAAT-ATTTATA
1 AAATTTCAAAATAATTTATA
7120660 AAATTTCAAAAT
1 AAATTTCAAAAT
7120672 TATATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 12 0.43
19 10 0.36
20 6 0.21
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATTTCAAAATAATTTATA
Found at i:7121374 original size:6 final size:6
Alignment explanation
Indices: 7121365--7121412 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
7121355 ATGTTCTGTA
* *
7121365 CTTTTT CTTTTT C-TTTT CCTTTT C--TTT CTTTTT ATTTTT C-TTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
7121409 CTTT
1 CTTT
7121413 CTTCCTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
4 4 0.11
5 10 0.28
6 22 0.61
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:7121393 original size:21 final size:21
Alignment explanation
Indices: 7121368--7121415 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
7121358 TTCTGTACTT
*
7121368 TTTCTTTTTCTTTTCCTTTTC
1 TTTCTTTTTATTTTCCTTTTC
*
7121389 TTTCTTTTTATTTTTCTTTTC
1 TTTCTTTTTATTTTCCTTTTC
7121410 TTTCTT
1 TTTCTT
7121416 CCTTTTACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTCTTTTTATTTTCCTTTTC
Found at i:7121395 original size:27 final size:25
Alignment explanation
Indices: 7121372--7121421 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
7121362 GTACTTTTTC
*
7121372 TTTTTCTTTTCCTTTTCTTTCTTTTTA
1 TTTTTCTTTT-C-TTTCTTCCTTTTTA
7121399 TTTTTCTTTTCTTTCTTCCTTTT
1 TTTTTCTTTTCTTTCTTCCTTTT
7121422 ACTTCTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 1 0.05
27 10 0.45
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTCTTTTCTTTCTTCCTTTTTA
Found at i:7135813 original size:6 final size:6
Alignment explanation
Indices: 7135804--7135833 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
7135794 CATGTCTTCG
7135804 CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT
1 CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT
7135834 GTCTCTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CTCCCT
Found at i:7143853 original size:50 final size:50
Alignment explanation
Indices: 7143729--7143977 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
7143719 GATAATAACA
* * ** * *
7143729 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
7143780 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
7143830 TGCCAACGCCATGTCACAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
7143880 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
7143935 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
7143978 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:7143906 original size:100 final size:104
Alignment explanation
Indices: 7143728--7143977 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
7143718 TGATAATAAC
**
7143728 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
7143793 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
7143830 -TGCCAACGCCATGTCACAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
7143893 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
7143935 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7143978 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:7144093 original size:13 final size:13
Alignment explanation
Indices: 7144072--7144103 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7144062 GCTTGGATCA
*
7144072 TCATCAAATAAAT
1 TCATAAAATAAAT
7144085 TCATAAAATAAAT
1 TCATAAAATAAAT
7144098 TCATAA
1 TCATAA
7144104 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:7144348 original size:30 final size:30
Alignment explanation
Indices: 7144313--7144370 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7144303 CCTCGGCTCT
*
7144313 AACTTTTTCAAAATTAAAATTTTGCCCCTA
1 AACTTTTACAAAATTAAAATTTTGCCCCTA
* * *
7144343 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTAAAATTTTGCCCC
7144371 AAGGCTCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTAAAATTTTGCCCCTA
Found at i:7146049 original size:26 final size:27
Alignment explanation
Indices: 7146019--7146069 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
7146009 AAAGTAAACA
*
7146019 ATAAAACAA-TTTAAAATGAATAATAC
1 ATAAAACAAGTTTAAAATAAATAATAC
7146045 ATAAAACAAGTTTAAAATAAATAAT
1 ATAAAACAAGTTTAAAATAAATAAT
7146070 GTATAAAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (27 bp):
ATAAAACAAGTTTAAAATAAATAATAC
Found at i:7146149 original size:26 final size:27
Alignment explanation
Indices: 7146120--7146175 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
7146110 AAAGAATGAC
* *
7146120 ATATATGAA-TAATTTTAAAATAAATA
1 ATATATAAATTAATTTAAAAATAAATA
*
7146146 ATATATAAATTAATTTAAAAATAATTA
1 ATATATAAATTAATTTAAAAATAAATA
7146173 ATA
1 ATA
7146176 AGAAGTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
ATATATAAATTAATTTAAAAATAAATA
Found at i:7146307 original size:17 final size:17
Alignment explanation
Indices: 7146285--7146324 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
7146275 TGAAATATAT
*
7146285 AATATACAATAACTTAA
1 AATATAAAATAACTTAA
* *
7146302 AATATAAAATAATTTGA
1 AATATAAAATAACTTAA
7146319 AATATA
1 AATATA
7146325 TATATATAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (17 bp):
AATATAAAATAACTTAA
Found at i:7147817 original size:23 final size:24
Alignment explanation
Indices: 7147772--7147817 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
7147762 TATTACAAGA
**
7147772 AACACTAAAAAATAAATCCAATTT
1 AACACTAAAAAATAAATAAAATTT
*
7147796 AACACT-AAAAATATATAAAATT
1 AACACTAAAAAATAAATAAAATT
7147818 AGTTAAAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (24 bp):
AACACTAAAAAATAAATAAAATTT
Found at i:7150901 original size:16 final size:16
Alignment explanation
Indices: 7150877--7150918 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
7150867 AGAATTAGTT
7150877 ATATTAAAATTATTTA
1 ATATTAAAATTATTTA
* *
7150893 ATTTTAAAAATATTTA
1 ATATTAAAATTATTTA
7150909 ATATTAAAAT
1 ATATTAAAAT
7150919 AATAAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:7153433 original size:19 final size:21
Alignment explanation
Indices: 7153402--7153457 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 21
7153392 TATGAAAAAT
* *
7153402 TTTAAAGTGAATAAAA-CGGG
1 TTTAAAATAAATAAAAGCGGG
*
7153422 -TTAAAATAAATAACAAAGGGGG
1 TTTAAAATAAAT-A-AAAGCGGG
7153444 TTTAAAATAAATAA
1 TTTAAAATAAATAA
7153458 TGTATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 9 0.31
20 1 0.03
21 4 0.14
22 4 0.14
23 11 0.38
ACGTcount: A:0.54, C:0.04, G:0.18, T:0.25
Consensus pattern (21 bp):
TTTAAAATAAATAAAAGCGGG
Found at i:7153495 original size:24 final size:24
Alignment explanation
Indices: 7153422--7153501 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
7153412 ATAAAACGGG
* * *
7153422 TTAAAATAAATAA-CAAAGGGGGT
1 TTAAAATAAATAATAAAAGGAGAT
7153445 TTAAAATAAATAATGTATAAA--A-AT
1 TTAAAATAAATAA--TA-AAAGGAGAT
*
7153469 TTAAAATAAATAATAAAAGGAGCT
1 TTAAAATAAATAATAAAAGGAGAT
7153493 TTAAAATAA
1 TTAAAATAA
7153502 TATATGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
21 3 0.07
22 2 0.04
23 14 0.30
24 24 0.52
27 3 0.07
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.28
Consensus pattern (24 bp):
TTAAAATAAATAATAAAAGGAGAT
Found at i:7160761 original size:38 final size:38
Alignment explanation
Indices: 7160713--7160849 Score: 150
Period size: 38 Copynumber: 3.6 Consensus size: 38
7160703 TAACATTTTT
* *
7160713 TTGTAGATTCTCGGGTAATATAACGAGATCTAGCCTTA
1 TTGTAGATTCTCAGGTAATATAACGAGATCTAGCCTTG
** *
7160751 TTGTAGATTCTC-GAGTAATATAGTGAGATCTAGACTTG
1 TTGTAGATTCTCAG-GTAATATAACGAGATCTAGCCTTG
* * * *
7160789 TTGCAGATTCTTAGGTACTATAACGAGATCTACCACTTG
1 TTGTAGATTCTCAGGTAATATAACGAGATCTAGC-CTTG
* *
7160828 TCGTGGATTCTCAGGTAATATA
1 TTGTAGATTCTCAGGTAATATA
7160850 TAACATAGGT
Statistics
Matches: 80, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
37 1 0.01
38 57 0.71
39 22 0.28
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (38 bp):
TTGTAGATTCTCAGGTAATATAACGAGATCTAGCCTTG
Found at i:7163415 original size:18 final size:18
Alignment explanation
Indices: 7163392--7163431 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
7163382 TATAATTTTA
*
7163392 AAAAATA-TATAATACATC
1 AAAAATATTA-AAAACATC
7163410 AAAAATATTAAAAACATC
1 AAAAATATTAAAAACATC
7163428 AAAA
1 AAAA
7163432 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATATTAAAAACATC
Found at i:7163551 original size:30 final size:30
Alignment explanation
Indices: 7163515--7163573 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
7163505 CTTAACAAAC
*
7163515 AAATGTCTCTAAAATAATATCAAAATTAAG
1 AAATGTCTCTAAAATAATAACAAAATTAAG
*
7163545 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGTCTCTAAAATAATAACAAAATTAA
7163574 CAATAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAACAAAATTAAG
Found at i:7163631 original size:22 final size:22
Alignment explanation
Indices: 7163606--7163648 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7163596 TATCCAAACA
7163606 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
7163628 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
7163649 AAAAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:7166610 original size:19 final size:19
Alignment explanation
Indices: 7166561--7166611 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
7166551 ATTTAAGTAT
*
7166561 AATTTATAAAAATTAAAAA
1 AATTTTTAAAAATTAAAAA
* *
7166580 AATATATTTAAAAATTCAACA
1 AAT-T-TTTAAAAATTAAAAA
7166601 AATTTTTAAAA
1 AATTTTTAAAA
7166612 TTTCTCAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.37
20 2 0.07
21 15 0.56
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTTTTAAAAATTAAAAA
Found at i:7166673 original size:5 final size:5
Alignment explanation
Indices: 7166663--7166699 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
7166653 CTGTTAGCAC
7166663 GTGTA GTGTA GTGTA GTGTA GTGTA GTGTA GTGTA GT
1 GTGTA GTGTA GTGTA GTGTA GTGTA GTGTA GTGTA GT
7166700 TATTAGTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.41
Consensus pattern (5 bp):
GTGTA
Found at i:7169699 original size:23 final size:23
Alignment explanation
Indices: 7169672--7169715 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7169662 AATTTTAAGG
7169672 TTTATATATTTAATAAAAGAAAA
1 TTTATATATTTAATAAAAGAAAA
* *
7169695 TTTATATATTTTATAAGAGAA
1 TTTATATATTTAATAAAAGAA
7169716 TGTCATATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (23 bp):
TTTATATATTTAATAAAAGAAAA
Found at i:7169951 original size:61 final size:61
Alignment explanation
Indices: 7169876--7169991 Score: 205
Period size: 61 Copynumber: 1.9 Consensus size: 61
7169866 AGTAGTTACC
*
7169876 AAAATGAGAAAATGTGTATACCTTAAAGATCAAATCGTGAATTAAGCTAAATTTAGATACT
1 AAAATGAGAAAATGTGTATACCTTAAAGATCAAATCATGAATTAAGCTAAATTTAGATACT
* *
7169937 AAAATGAGAAAATGTGTATACTTTAAAGGTCAAATCATGAATTAAGCTAAATTTA
1 AAAATGAGAAAATGTGTATACCTTAAAGATCAAATCATGAATTAAGCTAAATTTA
7169992 ATTAATAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.30
Consensus pattern (61 bp):
AAAATGAGAAAATGTGTATACCTTAAAGATCAAATCATGAATTAAGCTAAATTTAGATACT
Found at i:7170771 original size:21 final size:22
Alignment explanation
Indices: 7170731--7170778 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
7170721 AAACATTTAA
7170731 TTATTTTATGGAATTAATAATTT
1 TTATTTTAT-GAATTAATAATTT
*
7170754 TTATTTTAT-AATTTATAATTT
1 TTATTTTATGAATTAATAATTT
7170775 TTAT
1 TTAT
7170779 ACTTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 15 0.62
23 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTATTTTATGAATTAATAATTT
Found at i:7170800 original size:5 final size:6
Alignment explanation
Indices: 7170750--7170802 Score: 52
Period size: 6 Copynumber: 8.2 Consensus size: 6
7170740 GGAATTAATA
* *
7170750 ATTTTT ATTTTAT AATTTATA ATTTTT ATACTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTT-T -ATTT-TT ATTTTT AT-TTTT ATTTTT ATTTTT ATTTTT
7170802 A
1 A
7170803 AAATTGATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 24 0.62
7 10 0.26
8 4 0.10
9 1 0.03
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (6 bp):
ATTTTT
Found at i:7173046 original size:3 final size:3
Alignment explanation
Indices: 7173038--7173081 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7173028 TATAATACTA
7173038 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7173082 GACCTTCTCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7174723 original size:38 final size:36
Alignment explanation
Indices: 7174535--7174841 Score: 188
Period size: 38 Copynumber: 8.2 Consensus size: 36
7174525 TAAACCTGTA
* * * *
7174535 TAAGGCAAC-TATAAAAAGGTTGGTATAGTTCTTGTC
1 TAAGGCAACTTTTAAAAAAGTTGGGATAG-ACTTGTC
* *
7174571 TAAGGCAACTTTTAAGAATAGTTGGGATAGA-TCCGTC
1 TAAGGCAACTTTTAA-AAAAGTTGGGATAGACT-TGTC
* * * *
7174608 TATGGCAACCTTT-AAAAGGTTGGGATAGGCCTTGTC
1 TAAGGCAACTTTTAAAAAAGTTGGGATA-GACTTGTC
* ** * * * *
7174644 TAAAGCAACCCTTAAAAAAAAATTGGTATAAACCTTATC
1 TAAGGCAA--CTTTTAAAAAAGTTGGGATAGA-CTTGTC
*
7174683 TAAAGCAACTTTTTAAAAAAGTTGGGATAGATCTTGTC
1 TAAGGCAAC-TTTTAAAAAAGTTGGGATAGA-CTTGTC
* * * * * *
7174721 TAAGGAAACCTTTAGGAAAGGTTGGGATAGACATGTT
1 TAAGGCAACTTTTA-AAAAAGTTGGGATAGACTTGTC
* * *
7174758 TAAGGCAACCTTTTAAAAATGTTAGAATAGACATTGTC
1 TAAGGCAA-CTTTTAAAAAAGTTGGGATAGAC-TTGTC
* * * *
7174796 TAAGGCAACCTTAAAAAAAGGTTGGGATATACTTGTT
1 TAAGGCAACTTTTAAAAAA-GTTGGGATAGACTTGTC
*
7174833 TAAAGCAAC
1 TAAGGCAAC
7174842 GCTAAAAAGG
Statistics
Matches: 204, Mismatches: 53, Indels: 27
0.72 0.19 0.10
Matches are distributed among these distances:
35 11 0.05
36 21 0.10
37 68 0.33
38 80 0.39
39 24 0.12
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (36 bp):
TAAGGCAACTTTTAAAAAAGTTGGGATAGACTTGTC
Found at i:7174769 original size:37 final size:36
Alignment explanation
Indices: 7174467--7174890 Score: 184
Period size: 38 Copynumber: 11.5 Consensus size: 36
7174457 GTCAATGCCG
* * * *
7174467 ACCTTTAAAATGGGTTGGTATAGACCTAGTC-AAGACCA
1 ACCTTTAAAA-AGGTTGGGATAGACAT-GTCTAAG-GCA
* ** * * *
7174505 ACCTTTGAAAAATGTTGTTATAAACCTGTATAAGGCA
1 ACCTTT-AAAAAGGTTGGGATAGACATGTCTAAGGCA
* * * *
7174542 A-CTATAAAAAGGTTGGTATAGTTCTTGTCTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAG-ACATGTCTAAGGCA
* * *
7174578 ACTTTTAAGAATA-GTTGGGATAGATC-CGTCTATGGCA
1 ACCTTTAA-AA-AGGTTGGGATAGA-CATGTCTAAGGCA
* * *
7174615 ACCTTT-AAAAGGTTGGGATAGGCCTTGTCTAAAGCA
1 ACCTTTAAAAAGGTTGGGATA-GACATGTCTAAGGCA
* ** * * * * *
7174651 ACCCTTAAAAAAAAATTGGTATAAACCTTATCTAAAGCA
1 A-CCTT-TAAAAAGGTTGGGATAGA-CATGTCTAAGGCA
* * * *
7174690 ACTTTTTAAAAAAGTTGGGATAGATCTTGTCTAAGGAA
1 AC-CTTTAAAAAGGTTGGGATAGA-CATGTCTAAGGCA
* *
7174728 ACCTTTAGGAAAGGTTGGGATAGACATGTTTAAGGCA
1 ACCTTTA-AAAAGGTTGGGATAGACATGTCTAAGGCA
* * *
7174765 ACCTTTTAAAAATGTTAGAATAGACATTGTCTAAGGCA
1 ACC-TTTAAAAAGGTTGGGATAGACA-TGTCTAAGGCA
* * * * *
7174803 ACCTTAAAAAAAGGTTGGGATATACTTGTTTAAAGCA
1 ACCTT-TAAAAAGGTTGGGATAGACATGTCTAAGGCA
* *
7174840 ACGC--TAAAAAGGTTGCGATAGATTC-T-TCTAAGGTA
1 AC-CTTTAAAAAGGTTGGGATAGA--CATGTCTAAGGCA
*
7174875 ACC-TTAAAAACGTTGG
1 ACCTTTAAAAAGGTTGG
7174891 TATTTATCTT
Statistics
Matches: 296, Mismatches: 67, Indels: 49
0.72 0.16 0.12
Matches are distributed among these distances:
34 2 0.01
35 58 0.20
36 27 0.09
37 72 0.24
38 106 0.36
39 31 0.10
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (36 bp):
ACCTTTAAAAAGGTTGGGATAGACATGTCTAAGGCA
Found at i:7174788 original size:75 final size:75
Alignment explanation
Indices: 7174683--7174841 Score: 203
Period size: 75 Copynumber: 2.1 Consensus size: 75
7174673 AAACCTTATC
* * * * **
7174683 TAAAGCAACTTTTTAAAAAAGTTGGGATAGATC-TTGTCTAAGGAAACCTTTAGGAAAGGTTGGG
1 TAAAGCAACCTTTTAAAAAAGTTAGAATAGA-CATTGTCTAAGGAAACCTTAAAAAAAGGTTGGG
7174747 ATAGACATGTT
65 ATAGACATGTT
* * *
7174758 TAAGGCAACCTTTTAAAAATGTTAGAATAGACATTGTCTAAGGCAACCTTAAAAAAAGGTTGGGA
1 TAAAGCAACCTTTTAAAAAAGTTAGAATAGACATTGTCTAAGGAAACCTTAAAAAAAGGTTGGGA
* *
7174823 TATACTTGTT
66 TAGACATGTT
7174833 TAAAGCAAC
1 TAAAGCAAC
7174842 GCTAAAAAGG
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
74 1 0.01
75 70 0.99
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (75 bp):
TAAAGCAACCTTTTAAAAAAGTTAGAATAGACATTGTCTAAGGAAACCTTAAAAAAAGGTTGGGA
TAGACATGTT
Found at i:7174837 original size:150 final size:150
Alignment explanation
Indices: 7174546--7174841 Score: 339
Period size: 150 Copynumber: 2.0 Consensus size: 150
7174536 AAGGCAACTA
* * * * * *
7174546 TAAAAAGGTTGGTATAGTTCTTGTCTAAGGCAACTTTTAAGAATAGTTGGGATAGATCCGTCTAT
1 TAAAAAAGTTGGGATAGATCTTGTCTAAGGAAACCTTTAAGAATAGTTGGGATAGATCCGTCTAA
* * * * *
7174611 GGCAACCTTTAAAAGGTTGGGATAGGCCTTGTCTAAAGCAACCCTTAAAAAAAAATTGGTATAAA
66 GGCAACCTTTAAAAGGTTAGAATAGACATTGTCTAAAGCAACCCTTAAAAAAAAATTGGGATAAA
7174676 CCTTATCTAAAGCAACTTTT
131 CCTTATCTAAAGCAACTTTT
* * *
7174696 TAAAAAAGTTGGGATAGATCTTGTCTAAGGAAACCTTTAGGAA-AGGTTGGGATAGA-CATGTTT
1 TAAAAAAGTTGGGATAGATCTTGTCTAAGGAAACCTTTAAGAATA-GTTGGGATAGATC-CGTCT
* * **
7174759 AAGGCAACCTTTTAAAAATGTTAGAATAGACATTGTCTAAGGCAA-CCTTAAAAAAAGGTTGGGA
64 AAGGCAACC-TTT-AAAAGGTTAGAATAGACATTGTCTAAAGCAACCCTTAAAAAAAAATTGGGA
* * *
7174823 TATA-CTTGTTTAAAGCAAC
127 TAAACCTTATCTAAAGCAAC
7174842 GCTAAAAAGG
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
149 2 0.02
150 72 0.60
151 22 0.18
152 25 0.21
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (150 bp):
TAAAAAAGTTGGGATAGATCTTGTCTAAGGAAACCTTTAAGAATAGTTGGGATAGATCCGTCTAA
GGCAACCTTTAAAAGGTTAGAATAGACATTGTCTAAAGCAACCCTTAAAAAAAAATTGGGATAAA
CCTTATCTAAAGCAACTTTT
Found at i:7179213 original size:13 final size:14
Alignment explanation
Indices: 7179195--7179223 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7179185 TGCATATTTG
7179195 AAAAAAAA-AGCCC
1 AAAAAAAACAGCCC
7179208 AAAAAAAACAGCCC
1 AAAAAAAACAGCCC
7179222 AA
1 AA
7179224 GGAAATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.69, C:0.24, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAGCCC
Found at i:7179338 original size:18 final size:18
Alignment explanation
Indices: 7179315--7179352 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7179305 AATAACCAAA
* *
7179315 AAATTAAATTTTATAAAT
1 AAATTAAAATTAATAAAT
7179333 AAATTAAAATTAATAAAT
1 AAATTAAAATTAATAAAT
7179351 AA
1 AA
7179353 CACATCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTAAAATTAATAAAT
Found at i:7187227 original size:29 final size:29
Alignment explanation
Indices: 7187184--7187247 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
7187174 ACCATAAAAT
* *
7187184 CCTAAACCTTAAAACCATACACCCTAAAG
1 CCTAAACCTTAAAACCATAAACCCTAAAC
7187213 CCTAAACTCTT-AAACCATAAACCCTAAAC
1 CCTAAAC-CTTAAAACCATAAACCCTAAAC
7187242 CCTAAA
1 CCTAAA
7187248 TATAGAAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 29 0.91
30 3 0.09
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (29 bp):
CCTAAACCTTAAAACCATAAACCCTAAAC
Found at i:7187242 original size:14 final size:14
Alignment explanation
Indices: 7187195--7187247 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
7187185 CTAAACCTTA
*
7187195 AAACCATACACCCT
1 AAACCATAAACCCT
*
7187209 AAAGCC-TAAACTCTT
1 AAA-CCATAAAC-CCT
7187224 AAACCATAAACCCT
1 AAACCATAAACCCT
*
7187238 AAACCCTAAA
1 AAACCATAAA
7187248 TATAGAAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.17
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:7187411 original size:7 final size:7
Alignment explanation
Indices: 7187401--7187444 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
7187391 GGCCAACTCT
*
7187401 TAAACCT
1 TAAACCC
*
7187408 TAAATCC
1 TAAACCC
7187415 TAAACCC
1 TAAACCC
7187422 TAAACCC
1 TAAACCC
7187429 TAAACACCC
1 T-AA-ACCC
7187438 TAAACCC
1 TAAACCC
7187445 ATTAGGCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
7 23 0.72
8 4 0.12
9 5 0.16
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:7187787 original size:130 final size:134
Alignment explanation
Indices: 7187554--7188144 Score: 343
Period size: 132 Copynumber: 4.4 Consensus size: 134
7187544 GGCATAGTGT
** * * * *
7187554 TGGACAAAGCTGACTCTTATTTAAGCGTTGCATTAAGCATGCATATCACAACCCTTATATAAAAA
1 TGGACAAAGCCAACTCTTATTTAAGCGTTGCATTAGGCATGCATATCCCAACCCTTATACAAAGA
** * * * *
7187619 GTTAACCT-AAGCGTATGTCGGCAAGTCTATCCCAACACTT-AG-G-A-AAATATA-TATCGTCT
66 GTT-GGCTAAAGCATAAGTCGGCAAGTCTACCCCAACACTTAAGTGCACAAA-AAAGTATCGTCT
7187678 TAGGAC
129 TAGGAC
*** *
7187684 TGGACAAAGCCAACTCTTATTTAAGCGTTTTGTTTGGCATGCATATCCCAACCCTTATACAAAGA
1 TGGACAAAGCCAACTCTTATTTAAGCGTTGCATTAGGCATGCATATCCCAACCCTTATACAAAGA
* * *
7187749 GTTGGCTAAAGCATAAGTTGGCCAGTCTACCCCAACACTTCAAAAAGTGTCACCAAAAAAGTGTC
66 GTTGGCTAAAGCATAAGTCGGCAAGTCTACCCCAACACTT----AAGTG-CA-CAAAAAAGTATC
7187814 GTCTTAGGAC
125 GTCTTAGGAC
** * * * * *
7187824 TATACAAAAGCCAACTTTTATTCAAGCGTTGCCTTAGTCATACATATCCCAACCCTTATACAAAG
1 TGGAC-AAAGCCAACTCTTATTTAAGCGTTGCATTAGGCATGCATATCCCAACCCTTATACAAAG
* * * *
7187889 AGTTGGCCAAAGC---A-T-----AGTCTATCCCAACACTTAGTAAAATGTCGC-CACAAAAGTG
65 AGTTGGCTAAAGCATAAGTCGGCAAGTCTACCCCAACAC-T--T--AA-GT-GCACAAAAAAGTA
7187944 TCGTCTTAGGAC
123 TCGTCTTAGGAC
** * ** * * * *
7187956 TATACAAAAGCCAACTTTTATCCAAGCATTGCCTTAGGCATACATATACCAACCCTTATACAAAG
1 TGGAC-AAAGCCAACTCTTATTTAAGCGTTGCATTAGGCATGCATATCCCAACCCTTATACAAAG
* * * *
7188021 AGTTGGCCAAAGC---A-T-----AGTCTATCCCAACACTTAGGAAATGTTGC-CACAAAAGTGT
65 AGTTGGCTAAAGCATAAGTCGGCAAGTCTACCCCAACACTT----AA-G-TGCACAAAAAAGTAT
7188076 CGTCTTAGGAC
124 CGTCTTAGGAC
* * * * * *
7188087 TAGACAAAAACCAACTCTTATTCAAGCGTTGCTTTAGGTATACATATCCCAACCCTTA
1 TGGAC-AAAGCCAACTCTTATTTAAGCGTTGCATTAGGCATGCATATCCCAACCCTTA
7188145 GGAAAGTGTT
Statistics
Matches: 395, Mismatches: 45, Indels: 41
0.82 0.09 0.09
Matches are distributed among these distances:
129 3 0.01
130 85 0.22
131 80 0.20
132 127 0.32
133 5 0.01
134 3 0.01
135 4 0.01
136 1 0.00
137 1 0.00
138 2 0.01
139 2 0.01
140 19 0.05
141 63 0.16
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (134 bp):
TGGACAAAGCCAACTCTTATTTAAGCGTTGCATTAGGCATGCATATCCCAACCCTTATACAAAGA
GTTGGCTAAAGCATAAGTCGGCAAGTCTACCCCAACACTTAAGTGCACAAAAAAGTATCGTCTTA
GGAC
Found at i:7187952 original size:132 final size:131
Alignment explanation
Indices: 7187772--7188144 Score: 579
Period size: 132 Copynumber: 2.8 Consensus size: 131
7187762 TAAGTTGGCC
* * *
7187772 AGTCTACCCCAACACTTCA-AAAAGTGTCACCAAAAAAGTGTCGTCTTAGGACTATACAAAAGCC
1 AGTCTATCCCAACACTT-AGAAAA-TGTCGCCACAAAAGTGTCGTCTTAGGACTATACAAAAGCC
7187836 AACTTTTATTCAAGCGTTGCCTTAGTCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAG
64 AACTTTTATTCAAGCGTTGCCTTAGTCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAG
7187901 CAT
129 CAT
7187904 AGTCTATCCCAACACTTAGTAAAATGTCGCCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCA
1 AGTCTATCCCAACACTTAG-AAAATGTCGCCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCA
* * * *
7187969 ACTTTTATCCAAGCATTGCCTTAGGCATACATATACCAACCCTTATACAAAGAGTTGGCCAAAGC
65 ACTTTTATTCAAGCGTTGCCTTAGTCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
7188034 AT
130 AT
* * * *
7188036 AGTCTATCCCAACACTTAGGAAATGTTGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAACCAA
1 AGTCTATCCCAACACTTAGAAAATGTCGCCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCAA
* *
7188101 CTCTTATTCAAGCGTTGCTTTAGGT-ATACATATCCCAACCCTTA
66 CTTTTATTCAAGCGTTGCCTTA-GTCATACATATCCCAACCCTTA
7188145 GGAAAGTGTT
Statistics
Matches: 221, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
131 79 0.36
132 138 0.62
133 4 0.02
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (131 bp):
AGTCTATCCCAACACTTAGAAAATGTCGCCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCAA
CTTTTATTCAAGCGTTGCCTTAGTCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCA
T
Found at i:7188148 original size:91 final size:91
Alignment explanation
Indices: 7188040--7188235 Score: 304
Period size: 91 Copynumber: 2.2 Consensus size: 91
7188030 AAGCATAGTC
* *
7188040 TATCCCAACACTTAGGAAA-TGTTGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAACCAACTC
1 TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCGTCATAGGACTAGAC-AAAACCAACTC
* *
7188104 TTATTCAAGCGTTGCTTTAGGTATACA
65 TTATTCAAGCGTTACTTTAGGCATACA
* *
7188131 TATCCCAACCCTTAGGAAAGTGTTGCCCCAAAAGTGTCGTCATAGGACTAGACAAAGCCAACTCT
1 TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCGTCATAGGACTAGACAAAACCAACTCT
*
7188196 TATTTAAGCGTTACTTTAGGCATACA
66 TATTCAAGCGTTACTTTAGGCATACA
*
7188222 TATACCAACCCTTA
1 TATCCCAACCCTTA
7188236 TACAAAGAGT
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
91 65 0.68
92 31 0.32
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (91 bp):
TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCGTCATAGGACTAGACAAAACCAACTCT
TATTCAAGCGTTACTTTAGGCATACA
Found at i:7188369 original size:120 final size:120
Alignment explanation
Indices: 7188153--7188374 Score: 313
Period size: 120 Copynumber: 1.9 Consensus size: 120
7188143 TAGGAAAGTG
**
7188153 TTGCCCCAAAAGTGTCGTCATAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTACTTTAGGCA
1 TTGCCCCAAAAGTGTCGTCATAGGACTAGACAAAGCCAACTCTTATAAAAGCGTTACTTTAGGCA
*
7188218 TACATATACCAACCCTTATACAAAGAGTTGGCTAAAGTCCAGTCTATACCAACAC
66 TACATATACCAACACTTATACAAAGAGTTGGCTAAAGTCCAGTCTATACCAACAC
* ** *
7188273 TTGCCCCAAAAGTGTCGTCTTAGGACTAGACTTTTA-CCAACTCTTATAAAAGCGTTGCTTTAGG
1 TTGCCCCAAAAGTGTCGTCATAGGACTAGAC--AAAGCCAACTCTTATAAAAGCGTTACTTTAGG
* * * *
7188337 CTTGCATATCCCAACACTTAT-GAAAGAGTTGGCTAAAG
64 CATACATATACCAACACTTATACAAAGAGTTGGCTAAAG
7188375 CGTATTTTGC
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
120 46 0.52
121 42 0.47
122 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (120 bp):
TTGCCCCAAAAGTGTCGTCATAGGACTAGACAAAGCCAACTCTTATAAAAGCGTTACTTTAGGCA
TACATATACCAACACTTATACAAAGAGTTGGCTAAAGTCCAGTCTATACCAACAC
Found at i:7190290 original size:21 final size:21
Alignment explanation
Indices: 7190266--7190305 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7190256 AAGATATACT
*
7190266 TATATAAATATATATTAAAGA
1 TATATAAATATATAATAAAGA
*
7190287 TATATACATATATAATAAA
1 TATATAAATATATAATAAA
7190306 ATACATGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TATATAAATATATAATAAAGA
Found at i:7195232 original size:30 final size:30
Alignment explanation
Indices: 7195188--7195244 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
7195178 ACCAAGGAAG
*
7195188 CCTTGAGAACTAGTAGAAAAACCTTGAGCC
1 CCTTGAAAACTAGTAGAAAAACCTTGAGCC
* *
7195218 CCTTGAAAAGTAGTAGGAAAACCTTGA
1 CCTTGAAAACTAGTAGAAAAACCTTGA
7195245 AAACCTTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (30 bp):
CCTTGAAAACTAGTAGAAAAACCTTGAGCC
Found at i:7195252 original size:30 final size:30
Alignment explanation
Indices: 7195188--7195252 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
7195178 ACCAAGGAAG
* ***
7195188 CCTTGAGAACTAGTAGAAAAACCTTGAGCC
1 CCTTGAAAACTAGTAGAAAAACCTTGAAAA
* *
7195218 CCTTGAAAAGTAGTAGGAAAACCTTGAAAA
1 CCTTGAAAACTAGTAGAAAAACCTTGAAAA
7195248 CCTTG
1 CCTTG
7195253 TGGAGAAACA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (30 bp):
CCTTGAAAACTAGTAGAAAAACCTTGAAAA
Found at i:7200775 original size:15 final size:15
Alignment explanation
Indices: 7200755--7200862 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
7200745 TTTACGGAAA
7200755 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* ***
7200770 ATCAAATA-ATGAAA
1 ATCAAAGATATGGGT
7200784 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
7200800 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
7200814 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
7200830 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
7200844 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
7200860 ATC
1 ATC
7200863 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:7200790 original size:30 final size:30
Alignment explanation
Indices: 7200751--7200871 Score: 190
Period size: 30 Copynumber: 4.0 Consensus size: 30
7200741 CATATTTACG
*
7200751 GAAAA-TCAAAGATATGGGTATCAAATAAT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
7200780 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
*
7200810 GGAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
* *
7200840 GGAAAGTCAAAGATATGGGTATCGAGATATT
1 GAAAAGTCAAAGATATGGGTATC-AAATATT
7200871 G
1 G
7200872 GCATAATAAA
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 5 0.06
30 75 0.86
31 7 0.08
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.26
Consensus pattern (30 bp):
GAAAAGTCAAAGATATGGGTATCAAATATT
Found at i:7203765 original size:3 final size:3
Alignment explanation
Indices: 7203754--7203850 Score: 90
Period size: 3 Copynumber: 32.3 Consensus size: 3
7203744 ATTATTTTGT
*
7203754 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * * * *
7203799 TCT- TTA CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
7203844 TCA TTA T
1 TTA TTA T
7203851 ATTTATACCT
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
2 3 0.04
3 69 0.91
4 4 0.05
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:7204026 original size:36 final size:34
Alignment explanation
Indices: 7203986--7204054 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
7203976 CATATTTTCG
*
7203986 TATATTTTATAATTTGTATATACATATACTTATATC
1 TATATTTTATAATTT-T-TATAAATATACTTATATC
* *
7204022 TATATTTTCTAATTTTTATAAATATATTTATAT
1 TATATTTTATAATTTTTATAAATATACTTATAT
7204055 GTACATACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 15 0.50
35 1 0.03
36 14 0.47
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (34 bp):
TATATTTTATAATTTTTATAAATATACTTATATC
Found at i:7204174 original size:13 final size:13
Alignment explanation
Indices: 7204151--7204185 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
7204141 AATATCACTA
7204151 TTTACTTTTTTATT
1 TTTA-TTTTTTATT
7204165 TTTATTTTTTATT
1 TTTATTTTTTATT
*
7204178 ATTATTTT
1 TTTATTTT
7204186 CAAATTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:7208160 original size:15 final size:15
Alignment explanation
Indices: 7208140--7208247 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
7208130 TTTATGGAAA
7208140 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
7208155 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
7208169 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
7208185 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
7208199 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
7208215 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
7208229 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
7208245 ATC
1 ATC
7208248 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:7208169 original size:30 final size:30
Alignment explanation
Indices: 7208133--7208247 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
7208123 ATCCATATTT
*
7208133 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
7208163 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
7208193 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
7208223 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
7208248 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:7212342 original size:29 final size:29
Alignment explanation
Indices: 7212286--7212358 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
7212276 TTTTCTTACT
* * * *
7212286 AAAATATTATAATAAAAAAATAAAATACG
1 AAAATAGTATATTTAAAAAATAAAATACC
* *
7212315 AAAATAGTATATTTAAAAAATTATATACC
1 AAAATAGTATATTTAAAAAATAAAATACC
* *
7212344 AAAATGGTACATTTA
1 AAAATAGTATATTTA
7212359 GGGTGGTCAC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (29 bp):
AAAATAGTATATTTAAAAAATAAAATACC
Found at i:7212553 original size:27 final size:27
Alignment explanation
Indices: 7212486--7212553 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
7212476 GTGGAGGCAA
*
7212486 GCCAGAGGCGGCACTGCTGAAGCCTCT
1 GCCAGAGGCGGCACTGCTGAAGCCTAT
* * *
7212513 GGCAGAAGCAGCACTAG-TGAAGCCTAT
1 GCCAGAGGCGGCACT-GCTGAAGCCTAT
*
7212540 GCCATAGGCGGCAC
1 GCCAGAGGCGGCAC
7212554 CCACACCCTA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.29, G:0.32, T:0.13
Consensus pattern (27 bp):
GCCAGAGGCGGCACTGCTGAAGCCTAT
Found at i:7215211 original size:24 final size:25
Alignment explanation
Indices: 7215171--7215221 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
7215161 ATTCTTTTCA
*
7215171 TTTTATTTTTTGAATTTT-GAATTT
1 TTTTATTTTTTAAATTTTAGAATTT
*
7215195 TTTTA-TTTTTAACATTTTATAATTT
1 TTTTATTTTTTAA-ATTTTAGAATTT
7215220 TT
1 TT
7215222 AAATATTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.26
24 10 0.43
25 7 0.30
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (25 bp):
TTTTATTTTTTAAATTTTAGAATTT
Found at i:7217442 original size:22 final size:21
Alignment explanation
Indices: 7217403--7217468 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
7217393 GTTATTTTAA
*
7217403 TATTATTATTATT-GTATTTAT
1 TATTATTATTATTACTA-TTAT
* *
7217424 TATTATTGTTGTTACTATTA-
1 TATTATTATTATTACTATTAT
7217444 T-TTATTATTATTACTATTAT
1 TATTATTATTATTACTATTAT
7217464 TATTA
1 TATTA
7217469 CATATCATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 16 0.43
20 2 0.05
21 17 0.46
22 2 0.05
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.64
Consensus pattern (21 bp):
TATTATTATTATTACTATTAT
Found at i:7217505 original size:3 final size:3
Alignment explanation
Indices: 7217388--7217491 Score: 68
Period size: 3 Copynumber: 34.3 Consensus size: 3
7217378 TTGGACATTT
* * * *
7217388 TTA TTG TTA TT- TTA ATA TTA TTA TTA TT- GTA TTTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * * *
7217432 TTG TTA CTA TTA TTTA TTA TTA TTA CTA TTA TTA TTA CATA TCA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* *
7217479 TTC TTC TTA TTA T
1 TTA TTA TTA TTA T
7217492 GTTCTATATT
Statistics
Matches: 78, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
2 3 0.04
3 68 0.87
4 7 0.09
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:7217632 original size:19 final size:19
Alignment explanation
Indices: 7217593--7217651 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
7217583 CCATTATCAC
7217593 TATTATTTTCCT-TTA-TCAT
1 TATTATTTT-CTATTACT-AT
7217612 TATTATTTTCTATTACTAT
1 TATTATTTTCTATTACTAT
*
7217631 TAATATATTAT-TATTACTAT
1 T-AT-TATTTTCTATTACTAT
7217651 T
1 T
7217652 TTTTTATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 2 0.06
19 15 0.43
20 13 0.37
21 5 0.14
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTATTTTCTATTACTAT
Found at i:7217703 original size:26 final size:26
Alignment explanation
Indices: 7217660--7217709 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
7217650 TTTTTTTATT
*
7217660 TTTTTATTATCATTATTAACATATCA
1 TTTTTATTATCATCATTAACATATCA
* *
7217686 TTTTTATTTTTATCATTAACATAT
1 TTTTTATTATCATCATTAACATAT
7217710 TATTATGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTTATTATCATCATTAACATATCA
Found at i:7221465 original size:56 final size:54
Alignment explanation
Indices: 7221401--7221535 Score: 164
Period size: 56 Copynumber: 2.5 Consensus size: 54
7221391 GAAGTATCGG
7221401 GGATGGCACTTAGTGTGCGATACATCCAAAAC-GACACTTAGTATGCGAAGTAACAA
1 GGATGGCACTTAGTGTGCGATACATCCAAAACGGA-ACTTAGTATGC-AAG-AACAA
* * * * * *
7221457 GGATGGCACTTAGTGTGCGAAACGTCCAGAACGGAACTTAGTGTGCAAGATCGA
1 GGATGGCACTTAGTGTGCGATACATCCAAAACGGAACTTAGTATGCAAGAACAA
* *
7221511 GTATGGCACCTAGTGTGCGATACAT
1 GGATGGCACTTAGTGTGCGATACAT
7221536 TGAATATTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
54 24 0.35
55 3 0.04
56 39 0.57
57 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.22
Consensus pattern (54 bp):
GGATGGCACTTAGTGTGCGATACATCCAAAACGGAACTTAGTATGCAAGAACAA
Found at i:7221614 original size:32 final size:32
Alignment explanation
Indices: 7221578--7221674 Score: 97
Period size: 32 Copynumber: 3.0 Consensus size: 32
7221568 TGAGTATGAG
* * *
7221578 ATTGGTACGAGATGATACAGGTATCTATGGAA
1 ATTGGTACAAGATGATACAGGTATCTACGAAA
* * *
7221610 ATTGGTACAATATGGTACAGGTATGTACGAAA
1 ATTGGTACAAGATGATACAGGTATCTACGAAA
* * *
7221642 ATTGGTACAATAT-AGTACATGTATGTACGAAA
1 ATTGGTACAAGATGA-TACAGGTATCTACGAAA
7221674 A
1 A
7221675 ATCAATTGAG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (32 bp):
ATTGGTACAAGATGATACAGGTATCTACGAAA
Found at i:7227752 original size:56 final size:56
Alignment explanation
Indices: 7227668--7227882 Score: 263
Period size: 56 Copynumber: 3.8 Consensus size: 56
7227658 TTATATATGG
* *
7227668 CACTTAACGTGCGAAGTATTGGGGATGGCACTTAGTGTGCAATACATCCAGAACGG
1 CACTTAACGTGCGAAGTATCGGGGATGGCACTTAGTGTGCAATACATCCAGAACGA
7227724 CACTTAACGTGCGAAGTATCGGGGATGGCACTTAGTGTGCAATACATCCAGAACGA
1 CACTTAACGTGCGAAGTATCGGGGATGGCACTTAGTGTGCAATACATCCAGAACGA
** * * ** * *
7227780 CACTTAGTGTGCAAAGTAACAAGGATGGCACTTAGTGTACGAA-ACATCAAGAACGA
1 CACTTAACGTGCGAAGTATCGGGGATGGCACTTAGTGTGC-AATACATCCAGAACGA
** * * *
7227836 CACTTAGTGTGC-AAGGTATCGGGTATGGCACCTAGTGTGCGATACAT
1 CACTTAACGTGCGAA-GTATCGGGGATGGCACTTAGTGTGCAATACAT
7227883 TGAATATTAA
Statistics
Matches: 139, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
55 3 0.02
56 134 0.96
57 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (56 bp):
CACTTAACGTGCGAAGTATCGGGGATGGCACTTAGTGTGCAATACATCCAGAACGA
Found at i:7227763 original size:28 final size:28
Alignment explanation
Indices: 7227664--7227877 Score: 105
Period size: 28 Copynumber: 7.6 Consensus size: 28
7227654 ATAATTATAT
** * * *
7227664 ATGGCACTTAACGTGCGAAGTATTGGGG
1 ATGGCACTTAGTGTGCGAAGTATCGAGA
*
7227692 ATGGCACTTAGTGTGC-AA-TACATCCAGA
1 ATGGCACTTAGTGTGCGAAGT--ATCGAGA
* ** * *
7227720 ACGGCACTTAACGTGCGAAGTATCGGGG
1 ATGGCACTTAGTGTGCGAAGTATCGAGA
*
7227748 ATGGCACTTAGTGTGC-AA-TACATCCAGA
1 ATGGCACTTAGTGTGCGAAGT--ATCGAGA
* * * * * *
7227776 ACGACACTTAGTGTGCAAAGTAACAAGG
1 ATGGCACTTAGTGTGCGAAGTATCGAGA
* ** *
7227804 ATGGCACTTAGTGTACGAAACATCAAGA
1 ATGGCACTTAGTGTGCGAAGTATCGAGA
* * * *
7227832 ACGACACTTAGTGTGC-AAGGTATCGGGT
1 ATGGCACTTAGTGTGCGAA-GTATCGAGA
*
7227860 ATGGCACCTAGTGTGCGA
1 ATGGCACTTAGTGTGCGA
7227878 TACATTGAAT
Statistics
Matches: 134, Mismatches: 42, Indels: 19
0.69 0.22 0.10
Matches are distributed among these distances:
26 2 0.01
27 6 0.04
28 119 0.89
29 5 0.04
30 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.22
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAGTATCGAGA
Found at i:7227961 original size:32 final size:32
Alignment explanation
Indices: 7227925--7227998 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
7227915 TGAGTATGAG
* *
7227925 ATTGGTACGAGATGATACAGGTATCTACGAAA
1 ATTGGTACAAGATGATAAAGGTATCTACGAAA
* * * **
7227957 ATTGGTACAATATGGTAAAGGTATGTACGGGA
1 ATTGGTACAAGATGATAAAGGTATCTACGAAA
7227989 ATTGGTACAA
1 ATTGGTACAA
7227999 TATAGTACGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.27
Consensus pattern (32 bp):
ATTGGTACAAGATGATAAAGGTATCTACGAAA
Found at i:7230666 original size:28 final size:28
Alignment explanation
Indices: 7230605--7230669 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
7230595 TCAGTGTACG
* **
7230605 AAATATTGAGAATGGCACTTAATGTGTG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
7230633 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
7230661 AAATATTGA
1 AAATATTGA
7230670 ATGATTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:7230786 original size:39 final size:39
Alignment explanation
Indices: 7230742--7231069 Score: 421
Period size: 39 Copynumber: 8.7 Consensus size: 39
7230732 GACTTTATAA
*
7230742 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
7230781 TGGTGTTATATCCGGACTAAGTCCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
7230820 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
7230859 TGGTGTTATATTCGGGCTAAGTCCCGAAGGCA-T--T-C
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
7230894 --GTG------CCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
7230925 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
7230964 TGGTGTTATATCTGAGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
7231003 TGGTGTTATATCCGGGCTAAAGTCCTGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
* *
7231042 TGGTATAATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
7231070 TATTCTTTGT
Statistics
Matches: 254, Mismatches: 21, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
27 20 0.08
28 1 0.00
30 1 0.00
31 1 0.00
33 6 0.02
35 1 0.00
36 1 0.00
38 1 0.00
39 203 0.80
40 19 0.07
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:7230909 original size:27 final size:27
Alignment explanation
Indices: 7230871--7230924 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
7230861 GTGTTATATT
7230871 CGGGCTAAGTCCCGAAGGCATTCGTGC
1 CGGGCTAAGTCCCGAAGGCATTCGTGC
7230898 CGGGCTAAGTCCCGAAGGCATTCGTGC
1 CGGGCTAAGTCCCGAAGGCATTCGTGC
7230925 TGGTGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.30, G:0.33, T:0.19
Consensus pattern (27 bp):
CGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:7230941 original size:66 final size:66
Alignment explanation
Indices: 7230831--7230959 Score: 249
Period size: 66 Copynumber: 2.0 Consensus size: 66
7230821 GGTGTTATAT
*
7230831 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATTCGGGCTAAGTCCCGAAGGCATTCGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGT
7230896 G
66 G
7230897 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTC
7230960 ATGCTGGTGT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.25
Consensus pattern (66 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGT
G
Found at i:7230983 original size:105 final size:105
Alignment explanation
Indices: 7230792--7231002 Score: 361
Period size: 105 Copynumber: 2.0 Consensus size: 105
7230782 GGTGTTATAT
* *
7230792 CCGGACTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGT
1 CCGGACTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCAT
* *
7230857 GCTGGTGTTATATTCGGGCTAAGTCCCGAAGGCATTCGTG
66 GCTGGTGTTATATTCGAGCTAAGCCCCGAAGGCATTCGTG
*
7230897 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCAT
1 CCGGACTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCAT
7230962 GCTGGTGTTATA-TCTGAGCTAAGCCCCGAAGGCATTCGTG
66 GCTGGTGTTATATTC-GAGCTAAGCCCCGAAGGCATTCGTG
7231002 C
1 C
7231003 TGGTGTTATA
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 2 0.02
105 98 0.98
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.27
Consensus pattern (105 bp):
CCGGACTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCAT
GCTGGTGTTATATTCGAGCTAAGCCCCGAAGGCATTCGTG
Found at i:7231013 original size:144 final size:145
Alignment explanation
Indices: 7230753--7231027 Score: 471
Period size: 144 Copynumber: 1.9 Consensus size: 145
7230743 GGTGTTATAT
* * *
7230753 CCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTGTTATATCCGGACTAAGTCCTGAAGGCATTCGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGACTAAGTCCCGAAGGCATTCAT
* * *
7230818 GCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATTCGGGCT-AAGTC
66 GCTGGTGTTATATCCGAGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTC
7230882 CCGAAGGCATTCGTG
131 CCGAAGGCATTCGTG
*
7230897 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGACTAAGTCCCGAAGGCATTCAT
*
7230962 GCTGGTGTTATATCTGAGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTC
66 GCTGGTGTTATATCCGAGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTC
7231027 C
131 C
7231028 TGCAGGCTTT
Statistics
Matches: 122, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
144 116 0.95
145 6 0.05
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (145 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGACTAAGTCCCGAAGGCATTCAT
GCTGGTGTTATATCCGAGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTC
CCGAAGGCATTCGTG
Found at i:7244292 original size:134 final size:133
Alignment explanation
Indices: 7244013--7244331 Score: 344
Period size: 134 Copynumber: 2.4 Consensus size: 133
7244003 TAGAGAAGCT
* ** *
7244013 GATTTAAGCCACTAGCCTTATCTCTTTG-AGCAGCAGTGGAGCAGACTGAAGATTACAGATCTTA
1 GATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGATTACAGATCTTA
* * * * * * *
7244077 TCTCCCTAAGCAGTAGTGGAACAAATCGAAGACGGTGAATCTTATCTTCCCGAGGTAGTAGGCAA
66 TCTCCCTAAGAAGCAGTGGAACAAATCAAAGACAGTGAACCTTATCTTCCCGAGGAAGCAGGCAA
*
7244142 GTA
131 GGA
* **
7244145 GATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAATATTGTAGATCTTA
1 GATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGATTACAGATCTTA
* * *
7244210 TCTTCCTGAAGAAGCAGT-GAAGCAGATCAAAGACAGTGAACCTTATC-T-CC-ATGAAGCA-GC
66 TCTCCCT-AAGAAGCAGTGGAA-CAAATCAAAGACAGTGAACCTTATCTTCCCGAGGAAGCAGGC
7244270 AATGGA
129 AA-GGA
* * * *
7244276 GCATATTTAAGCCACCAACCTTATCTCCCTGAAATGGCAGCGGAGCAGACTGAAGA
1 G---ATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGA
7244332 CAGCGATTCT
Statistics
Matches: 157, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
130 4 0.03
131 8 0.05
132 27 0.17
133 42 0.27
134 76 0.48
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (133 bp):
GATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGATTACAGATCTTA
TCTCCCTAAGAAGCAGTGGAACAAATCAAAGACAGTGAACCTTATCTTCCCGAGGAAGCAGGCAA
GGA
Found at i:7245066 original size:18 final size:17
Alignment explanation
Indices: 7245039--7245082 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
7245029 TATAAATGTG
* *
7245039 TATTTATTAAAAATATAT
1 TATTTTTTAAAAA-AAAT
7245057 TATTTTTTAAAAAAAAT
1 TATTTTTTAAAAAAAAT
7245074 TACTTTTTT
1 TA-TTTTTT
7245083 TTGGAATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTTTTAAAAAAAAT
Found at i:7248307 original size:26 final size:24
Alignment explanation
Indices: 7248239--7248339 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 24
7248229 CTATATGTTG
7248239 TTTTAAA-TTGTTATATA-TATTA
1 TTTTAAATTTGTTATATATTATTA
** *
7248261 -TTTATTTTTGCT-T-TATT-TTA
1 TTTTAAATTTGTTATATATTATTA
7248281 TTTTAAATTATGTTATATATTAATTA
1 TTTTAAATT-TGTTATATATT-ATTA
*
7248307 TTTTAAA-TTGTTTTATATTATCTA
1 TTTTAAATTTGTTATATATTAT-TA
*
7248331 CTTTAAATT
1 TTTTAAATT
7248340 GCTTCGTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
20 5 0.08
21 12 0.20
22 7 0.11
23 3 0.05
24 22 0.36
25 2 0.03
26 10 0.16
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTAAATTTGTTATATATTATTA
Found at i:7248585 original size:50 final size:48
Alignment explanation
Indices: 7248531--7248652 Score: 115
Period size: 50 Copynumber: 2.4 Consensus size: 48
7248521 ATATTATTAG
*
7248531 TTATATATATTTTTTACATTATCTTA-TGTACATATATTTTTC-ATACTATA
1 TTATATATATTTTTTACA-TATCATATTGT--ATATA-TTTTCAATACTATA
*
7248581 TTATATATCTATCCTTTTA-ATATCATATTGTATATATTTTCAATACTATA
1 TTATATA--TAT-TTTTTACATATCATATTGTATATATTTTCAATACTATA
* *
7248631 TTACATAGATTTTTTACCATAT
1 TTATATATATTTTTTA-CATAT
7248653 TATGTATCTC
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
47 5 0.08
48 2 0.03
49 9 0.15
50 26 0.43
51 6 0.10
52 7 0.12
53 5 0.08
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.53
Consensus pattern (48 bp):
TTATATATATTTTTTACATATCATATTGTATATATTTTCAATACTATA
Found at i:7250176 original size:47 final size:46
Alignment explanation
Indices: 7250058--7250188 Score: 131
Period size: 46 Copynumber: 2.8 Consensus size: 46
7250048 ATAATCTCAC
* * * * *
7250058 CCATAATGAACTCA-GAACGCAACTCAACGAGCTCAGCT-GTTCGCAT
1 CCATAATGAACT-AGGAACACAACTCAACGAGTTCGGATACTT-GCAT
*
7250104 CCATAATGAACTAGGAACACAACTCAATGAGTTCGGATACTTGCAT
1 CCATAATGAACTAGGAACACAACTCAACGAGTTCGGATACTTGCAT
* * * *
7250150 CCATAGGTGAACTCGGATCGCAACTCAACGAGTTCGGAT
1 CCATA-ATGAACTAGGAACACAACTCAACGAGTTCGGAT
7250189 GCCTCATAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
45 1 0.01
46 40 0.56
47 30 0.42
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTAGGAACACAACTCAACGAGTTCGGATACTTGCAT
Found at i:7261120 original size:15 final size:15
Alignment explanation
Indices: 7261072--7261125 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
7261062 TAAAGATAAC
*
7261072 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
7261086 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
7261101 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
7261116 AAGAAACCCA
1 AAGAAACCCA
7261126 ATATACGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 9 0.27
15 23 0.70
16 1 0.03
ACGTcount: A:0.59, C:0.19, G:0.15, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:7270759 original size:30 final size:30
Alignment explanation
Indices: 7270725--7270785 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
7270715 AATAACAAAA
7270725 AATTGTAAAAGCATTCAAC-ATCTTGATATT
1 AATTGTAAAAGCATTCAACAAT-TTGATATT
7270755 AATTGTAAAAGCATTCAACAATTTGATATT
1 AATTGTAAAAGCATTCAACAATTTGATATT
7270785 A
1 A
7270786 TGCAAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (30 bp):
AATTGTAAAAGCATTCAACAATTTGATATT
Found at i:7271840 original size:13 final size:13
Alignment explanation
Indices: 7271822--7271846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7271812 TTTAAGTAAA
7271822 TATTATATTATAT
1 TATTATATTATAT
7271835 TATTATATTATA
1 TATTATATTATA
7271847 ATAAAAGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:7272917 original size:20 final size:20
Alignment explanation
Indices: 7272892--7272942 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
7272882 ACTATGATTG
*
7272892 GAATTGGAAATATTGTAT-GT
1 GAATT-GAAATATTGGATAGT
7272912 GAATTGAAA-ATTGGATAGT
1 GAATTGAAATATTGGATAGT
*
7272931 AAATTGAAATAT
1 GAATTGAAATAT
7272943 GCAATGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 6 0.22
19 14 0.52
20 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (20 bp):
GAATTGAAATATTGGATAGT
Done.