Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 92 of 444
Found at i:22070072 original size:34 final size:36
Alignment explanation
Indices: 22070001--22070087 Score: 99
Period size: 34 Copynumber: 2.5 Consensus size: 36
22069991 TTGAAATTTA
* **
22070001 TTTTAAATATATAATATAATATATTTTAATTTTAAT
1 TTTTAAATATATAATATAATATATTTGAATTAAAAT
*
22070037 TTTTAAA-ATATAAT-TTATATATTTGAATTAAAAT
1 TTTTAAATATATAATATAATATATTTGAATTAAAAT
*
22070071 TTATAAATA-ATTAATAT
1 TTTTAAATATA-TAATAT
22070088 TAATTGCTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
34 23 0.53
35 12 0.28
36 8 0.19
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (36 bp):
TTTTAAATATATAATATAATATATTTGAATTAAAAT
Found at i:22070550 original size:10 final size:10
Alignment explanation
Indices: 22070535--22070611 Score: 68
Period size: 10 Copynumber: 7.4 Consensus size: 10
22070525 TCATCCTATC
22070535 CAAATTCTCT
1 CAAATTCTCT
22070545 CAAATTCT-T
1 CAAATTCTCT
22070554 CCAAAAATTCTCT
1 -C--AAATTCTCT
22070567 CAAATTCT-T
1 CAAATTCTCT
22070576 CCAAAATTCTCT
1 -C-AAATTCTCT
**
22070588 CGTATTCTCT
1 CAAATTCTCT
*
22070598 CAAATTTTCT
1 CAAATTCTCT
22070608 CAAA
1 CAAA
22070612 GCTCTCTTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
9 2 0.04
10 35 0.64
11 8 0.15
12 9 0.16
13 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.01, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:22070595 original size:21 final size:22
Alignment explanation
Indices: 22070536--22070588 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
22070526 CATCCTATCC
22070536 AAATTCTCTCAAATTCTTCCAA
1 AAATTCTCTCAAATTCTTCCAA
22070558 AAATTCTCTCAAATTCTTCC-A
1 AAATTCTCTCAAATTCTTCCAA
22070579 AAATTCTCTC
1 AAATTCTCTC
22070589 GTATTCTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 11 0.35
22 20 0.65
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATTCTCTCAAATTCTTCCAA
Found at i:22070618 original size:31 final size:31
Alignment explanation
Indices: 22070560--22070618 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
22070550 TCTTCCAAAA
*
22070560 ATTCTCTCAAATTCTTCCAAAATTCTCTCGT
1 ATTCTCTCAAATTCTTCCAAAACTCTCTCGT
*
22070591 ATTCTCTCAAATT-TTCTCAAAGCTCTCT
1 ATTCTCTCAAATTCTTC-CAAAACTCTCT
22070619 TTAATTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.25, C:0.29, G:0.03, T:0.42
Consensus pattern (31 bp):
ATTCTCTCAAATTCTTCCAAAACTCTCTCGT
Found at i:22070814 original size:48 final size:49
Alignment explanation
Indices: 22070762--22070860 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 49
22070752 AGTGATAATT
**
22070762 TTAATATTTCAATAGTATTTAAT-ATTTTTTAAATTTATGCAATTTTAA
1 TTAATATTTCAATACAATTTAATAATTTTTTAAATTTATGCAATTTTAA
* **
22070810 TTAATTTTTCAATACAATTTAATAATTTTTTTCATTTATGCAATTTTAA
1 TTAATATTTCAATACAATTTAATAATTTTTTAAATTTATGCAATTTTAA
22070859 TT
1 TT
22070861 TTAATTTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 20 0.44
49 25 0.56
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (49 bp):
TTAATATTTCAATACAATTTAATAATTTTTTAAATTTATGCAATTTTAA
Found at i:22071829 original size:7 final size:7
Alignment explanation
Indices: 22071805--22071843 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
22071795 TAATCGTTTC
22071805 GTATTTA
1 GTATTTA
22071812 GT-TTTA
1 GTATTTA
*
22071818 ATATTTA
1 GTATTTA
22071825 GTATTTA
1 GTATTTA
22071832 GTATTTA
1 GTATTTA
22071839 GTATT
1 GTATT
22071844 ATGTATACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:22072503 original size:18 final size:18
Alignment explanation
Indices: 22072462--22072496 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22072452 GCCAAGTGCG
*
22072462 TATCCTAGCCCTTATATA
1 TATCCTAACCCTTATATA
22072480 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
22072497 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:22072947 original size:29 final size:29
Alignment explanation
Indices: 22072914--22073004 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
22072904 TATTCTTTCA
22072914 TTTAATAAAATAAAAGTTGTTTTTAATAT
1 TTTAATAAAATAAAAGTTGTTTTTAATAT
* * *
22072943 TTTAAT----TATAATTTACTCTTTT-ATAT
1 TTTAATAAAATAAAAGTT-GT-TTTTAATAT
*
22072969 TTGTAATAAAATAAAAGTTGTTTTTAGTAT
1 TT-TAATAAAATAAAAGTTGTTTTTAATAT
22072999 TTTAAT
1 TTTAAT
22073005 TATAATTTAC
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
25 6 0.13
26 7 0.15
27 8 0.17
29 14 0.30
30 6 0.13
31 6 0.13
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (29 bp):
TTTAATAAAATAAAAGTTGTTTTTAATAT
Found at i:22072964 original size:27 final size:27
Alignment explanation
Indices: 22072934--22073031 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
22072924 TAAAAGTTGT
22072934 TTTTAATATTT-TAATTATAATTTACTC
1 TTTT-ATATTTGTAATTATAATTTACTC
* * *
22072961 TTTTATATTTGTAATAAAATAAAAGTT-GT-
1 TTTTATATTTGTAAT----TATAATTTACTC
22072990 TTTTAGTATTT-TAATTATAATTTACTC
1 TTTTA-TATTTGTAATTATAATTTACTC
22073017 TTTTATATTTGTAAT
1 TTTTATATTTGTAAT
22073032 AGAATAAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
25 6 0.11
26 12 0.21
27 17 0.30
29 9 0.16
30 6 0.11
31 6 0.11
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (27 bp):
TTTTATATTTGTAATTATAATTTACTC
Found at i:22072981 original size:56 final size:56
Alignment explanation
Indices: 22072916--22073053 Score: 249
Period size: 56 Copynumber: 2.5 Consensus size: 56
22072906 TTCTTTCATT
22072916 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
*
22072972 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
* *
22073028 TAATAGAATAAAAGTTGTTTTGAATA
1 TAATAAAATAAAAGTTGTTTTTAATA
22073054 AGGAAATATT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 78 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (56 bp):
TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
Found at i:22076423 original size:126 final size:125
Alignment explanation
Indices: 22076133--22076521 Score: 448
Period size: 126 Copynumber: 3.1 Consensus size: 125
22076123 AATAGGAACT
* * * * *
22076133 ACTGTAGAAAAATAGCGTCCACATGAGAGCTTTTTTCAGTAAATTTGCTGAA-AGTGCATACTGC
1 ACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCT-AACAGTGCATCCTGC
* * *
22076197 ATGAAGCGTTTTTGATACTATTTTTTCAGAAAGGTCATT-TCACAATTATTTTTCAGATACC
65 TTGAAGCGTTTTTGATACTATTTTTTCAGAAACGTC-TTCTCAAAATTATTTTTCAGATACC
** * *
22076258 ACTGTATCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTAACAGTGCATCCTGCT
1 ACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCCTGCT
* * * * *
22076323 TAAAGCGTTTTTTACACTATTTTTTCATAAACGTCTTCTCAAAATTATTTTCTTAGATACC
66 TGAAGCGTTTTTGATACTATTTTTTCAGAAACGTCTTCTCAAAATTATTTT-TCAGATACC
* * *
22076384 ACTGTAGAAAAAAATCGTCCACGTGGGAG-TATTTTTCAGTAATTTTGCTGACAGTGCATCCTTC
1 ACTGTAGAAAAAAAGCGTCCACGTGGGAGCT-TTTTTCAGTAATTTTGCTAACAGTGCATCCTGC
* * * * * *
22076448 TTGAAGC-TTTTTGGATACTATTTCTTCAGAAACTTCTTCTTATAATTTTTTTTCCAGATACT
65 TTGAAGCGTTTTT-GATACTATTTTTTCAGAAACGTCTTCTCAAAATTATTTTT-CAGATACC
22076510 ACTG-A-AAAAAAA
1 ACTGTAGAAAAAAA
22076522 CCAAAAAATT
Statistics
Matches: 224, Mismatches: 34, Indels: 13
0.83 0.13 0.05
Matches are distributed among these distances:
124 11 0.05
125 103 0.46
126 110 0.49
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (125 bp):
ACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCCTGCT
TGAAGCGTTTTTGATACTATTTTTTCAGAAACGTCTTCTCAAAATTATTTTTCAGATACC
Found at i:22076734 original size:23 final size:23
Alignment explanation
Indices: 22076707--22076750 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22076697 ACAAAAGCCA
*
22076707 TAAACCCTAAAAAACCCTAACCC
1 TAAACCATAAAAAACCCTAACCC
*
22076730 TAAACCATAAAAAACCTTAAC
1 TAAACCATAAAAAACCCTAAC
22076751 TTACCCTAAC
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:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (23 bp):
TAAACCATAAAAAACCCTAACCC
Found at i:22077253 original size:9 final size:9
Alignment explanation
Indices: 22077239--22077269 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22077229 TAAAAGAATA
22077239 GAGTTATTC
1 GAGTTATTC
*
22077248 GAGTTAATC
1 GAGTTATTC
22077257 GAGTTATTC
1 GAGTTATTC
22077266 GAGT
1 GAGT
22077270 CAACTCGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (9 bp):
GAGTTATTC
Found at i:22077337 original size:9 final size:9
Alignment explanation
Indices: 22077320--22077356 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22077310 TGAGTTTTCG
22077320 AATTCGAAT
1 AATTCGAAT
*
22077329 AACTCGAAT
1 AATTCGAAT
22077338 AATTCGAAT
1 AATTCGAAT
22077347 AATTCGAAT
1 AATTCGAAT
22077356 A
1 A
22077357 TCAAACGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22096676 original size:50 final size:51
Alignment explanation
Indices: 22096599--22096727 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
22096589 GACCATGGCA
* *
22096599 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
22096650 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
22096700 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
22096728 CTAATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 48 0.67
51 24 0.33
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:22096741 original size:31 final size:31
Alignment explanation
Indices: 22096703--22096788 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
22096693 ACAAATGACA
*
22096703 AGTGAAAAGTGGTAGCTTCAGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
*
22096734 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
*
22096765 AGTGAATAGTGGTAGCTTCGGCTA
1 AGTGAAAAGTGGTAGCTTCGGCTA
22096789 AAAGTGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
Found at i:22097007 original size:10 final size:10
Alignment explanation
Indices: 22096992--22097019 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
22096982 ATGCTATGGC
22096992 ATCAGTGATT
1 ATCAGTGATT
22097002 ATCAGTGATT
1 ATCAGTGATT
22097012 ATCAGTGA
1 ATCAGTGA
22097020 AATTCAGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (10 bp):
ATCAGTGATT
Found at i:22101095 original size:48 final size:48
Alignment explanation
Indices: 22101025--22101123 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
22101015 TCTAAGGGCA
22101025 TTTTTTTTTCAAACTTTAGGGTTGAATTTTGGTTGTATTAAAGCCACT
1 TTTTTTTTTCAAACTTTAGGGTTGAATTTTGGTTGTATTAAAGCCACT
22101073 TTTTTTTTTCAAACTTTAGGGTTGAATTTTGGTTGTATTAAAGCCACT
1 TTTTTTTTTCAAACTTTAGGGTTGAATTTTGGTTGTATTAAAGCCACT
22101121 TTT
1 TTT
22101124 GTTGTCAAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.52
Consensus pattern (48 bp):
TTTTTTTTTCAAACTTTAGGGTTGAATTTTGGTTGTATTAAAGCCACT
Found at i:22104939 original size:14 final size:14
Alignment explanation
Indices: 22104920--22104948 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22104910 CTCACTAGAA
22104920 GCCACATAGAATTC
1 GCCACATAGAATTC
22104934 GCCACATAGAATTC
1 GCCACATAGAATTC
22104948 G
1 G
22104949 TATACTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (14 bp):
GCCACATAGAATTC
Found at i:22106725 original size:2 final size:2
Alignment explanation
Indices: 22106718--22106751 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
22106708 CGGTTAATTT
22106718 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22106752 GTAAAATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22107562 original size:31 final size:29
Alignment explanation
Indices: 22107522--22107591 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
22107512 ATGCTAAAAT
22107522 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTATGA--TAATGTGCAATTG
* * * *
22107553 TATATATGAACTTTGATATTGTGCAATTT
1 TATACATGAACTATGATAATGTGCAATTG
22107582 TATACATGAA
1 TATACATGAA
22107592 ATTTTGATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 20 0.59
31 14 0.41
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (29 bp):
TATACATGAACTATGATAATGTGCAATTG
Found at i:22110061 original size:2 final size:2
Alignment explanation
Indices: 22110054--22110088 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
22110044 TTTTAAACTT
22110054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22110089 TATTTGTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22112015 original size:18 final size:18
Alignment explanation
Indices: 22111992--22112026 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22111982 TGAAATTGTC
*
22111992 GTTTTAGTAAACTAAAAT
1 GTTTTAGTAAAATAAAAT
*
22112010 GTTTTATTAAAATAAAA
1 GTTTTAGTAAAATAAAA
22112027 GTGATCCGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (18 bp):
GTTTTAGTAAAATAAAAT
Found at i:22112890 original size:17 final size:16
Alignment explanation
Indices: 22112868--22112902 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
22112858 TTTATATATT
22112868 ATAATTAAAATTTATAA
1 ATAATTAAAATTTA-AA
*
22112885 ATAATTAATATTTAAA
1 ATAATTAAAATTTAAA
22112901 AT
1 AT
22112903 TTATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAATTAAAATTTAAA
Found at i:22115894 original size:43 final size:43
Alignment explanation
Indices: 22115846--22115933 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
22115836 ATGATAGTGG
22115846 ATGATAATGATAACATCTACTTAGTTTTATTAAGGAAGATGAT
1 ATGATAATGATAACATCTACTTAGTTTTATTAAGGAAGATGAT
22115889 ATGATAATGATAACATCTACTTAGTTTTATTAAGGAAGATGAT
1 ATGATAATGATAACATCTACTTAGTTTTATTAAGGAAGATGAT
22115932 AT
1 AT
22115934 AATTAATTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (43 bp):
ATGATAATGATAACATCTACTTAGTTTTATTAAGGAAGATGAT
Found at i:22117813 original size:19 final size:19
Alignment explanation
Indices: 22117776--22117814 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22117766 GTAAGAATGT
*
22117776 TATATTTTGTAAATGTCAA
1 TATATTTTGTAAATATCAA
**
22117795 TATATTTTGTTTATATCAA
1 TATATTTTGTAAATATCAA
22117814 T
1 T
22117815 TGTTCATGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TATATTTTGTAAATATCAA
Found at i:22121360 original size:30 final size:29
Alignment explanation
Indices: 22121317--22121380 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
22121307 CAAGTAGGCG
22121317 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
22121346 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
22121376 AAGCT
1 AAGCT
22121381 TCCGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:22131803 original size:21 final size:21
Alignment explanation
Indices: 22131765--22131804 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22131755 AGTTACATGA
*
22131765 GCGTGCGGAGTAATCACACAG
1 GCGTGCGGAGTAACCACACAG
* *
22131786 GCGTGCGTAGTAGCCACAC
1 GCGTGCGGAGTAACCACAC
22131805 GATCATGTCC
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:0.25, C:0.28, G:0.33, T:0.15
Consensus pattern (21 bp):
GCGTGCGGAGTAACCACACAG
Found at i:22145316 original size:23 final size:24
Alignment explanation
Indices: 22145285--22145341 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
22145275 TTTATCATAT
*
22145285 CAAATCATAAAAA-AAAATAGATA
1 CAAAACATAAAAAGAAAATAGATA
*
22145308 CAAAACATAAAAAGAAACTAGATA
1 CAAAACATAAAAAGAAAATAGATA
22145332 CAAAAGCATA
1 CAAAA-CATA
22145342 CTGAAATCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 12 0.40
24 14 0.47
25 4 0.13
ACGTcount: A:0.67, C:0.12, G:0.07, T:0.14
Consensus pattern (24 bp):
CAAAACATAAAAAGAAAATAGATA
Found at i:22154583 original size:29 final size:29
Alignment explanation
Indices: 22154563--22154621 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
22154553 TTTTTTAATC
22154563 TAAATCTAG-AGGCACTAAATTTCTGAATA
1 TAAATCTAGAAGG-ACTAAATTTCTGAATA
* *
22154592 TAAATGTAGAAGGACTAAA-TTCTAAATA
1 TAAATCTAGAAGGACTAAATTTCTGAATA
22154620 TA
1 TA
22154622 CAAAATGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 10 0.37
29 14 0.52
30 3 0.11
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.31
Consensus pattern (29 bp):
TAAATCTAGAAGGACTAAATTTCTGAATA
Found at i:22156498 original size:6 final size:6
Alignment explanation
Indices: 22156487--22156521 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
22156477 TAAAATATGA
22156487 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
22156522 AGGTTAGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:22159614 original size:16 final size:16
Alignment explanation
Indices: 22159595--22159639 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
22159585 CTTAATTAAT
22159595 TAATTATTATATTATA
1 TAATTATTATATTATA
* *
22159611 TAATTATTATTTTATT
1 TAATTATTATATTATA
*
22159627 TAAATTATAATAT
1 T-AATTATTATAT
22159640 GAATTATAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATTATTATATTATA
Found at i:22159794 original size:3 final size:3
Alignment explanation
Indices: 22159786--22159814 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22159776 AGATAATATT
22159786 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
22159815 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22167358 original size:16 final size:15
Alignment explanation
Indices: 22167333--22167368 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
22167323 TTTTCTTAAT
22167333 TTATTAATTATTATA
1 TTATTAATTATTATA
*
22167348 TTATATAATTATTATT
1 TTAT-TAATTATTATA
22167364 TTATT
1 TTATT
22167369 TAAATTATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTAATTATTATA
Found at i:22167528 original size:3 final size:3
Alignment explanation
Indices: 22167520--22167563 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
22167510 AAATAAAAAG
22167520 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
22167564 TATATTATGA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22172953 original size:17 final size:17
Alignment explanation
Indices: 22172906--22172958 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
22172896 AGAAATAGAG
* *
22172906 AAAGAAACAGAGAAGTAA
1 AAAGAAAGAGAGGAG-AA
* *
22172924 AAACAAAG-TAGGAGAA
1 AAAGAAAGAGAGGAGAA
22172940 AAAGAAAGAGAGGAGAA
1 AAAGAAAGAGAGGAGAA
22172957 AA
1 AA
22172959 TTAGGGTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 9 0.32
17 13 0.46
18 6 0.21
ACGTcount: A:0.66, C:0.04, G:0.26, T:0.04
Consensus pattern (17 bp):
AAAGAAAGAGAGGAGAA
Found at i:22173233 original size:30 final size:28
Alignment explanation
Indices: 22173178--22173234 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
22173168 AATTGTAGAA
*
22173178 TAAATTGTAAATTTTGAATAATAGGGAC
1 TAAATTGTAAAATTTGAATAATAGGGAC
22173206 TAAATTGTGAAAAATTTGAA-AATTAGGGA
1 TAAATTGT--AAAATTTGAATAA-TAGGGA
22173235 TTTAAGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 8 0.32
29 2 0.08
30 15 0.60
ACGTcount: A:0.46, C:0.02, G:0.19, T:0.33
Consensus pattern (28 bp):
TAAATTGTAAAATTTGAATAATAGGGAC
Found at i:22173637 original size:24 final size:24
Alignment explanation
Indices: 22173610--22173656 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
22173600 ATTGAAATGG
22173610 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
22173634 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
22173657 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:22174571 original size:2 final size:2
Alignment explanation
Indices: 22174564--22174604 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
22174554 TGGTTGGTTT
*
22174564 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22174605 GTGTTTGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:22175840 original size:9 final size:9
Alignment explanation
Indices: 22175815--22175865 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
22175805 ATTCAATACT
*
22175815 TTAATTCAG
1 TTAATTCGG
*
22175824 TTGATTCGG
1 TTAATTCGG
*
22175833 TTATTTCGG
1 TTAATTCGG
*
22175842 TTAATTCGA
1 TTAATTCGG
*
22175851 TTACTTCGG
1 TTAATTCGG
22175860 TTAATT
1 TTAATT
22175866 TTATACTTAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.49
Consensus pattern (9 bp):
TTAATTCGG
Found at i:22176525 original size:3 final size:3
Alignment explanation
Indices: 22176517--22176566 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
22176507 GATTTGAAAC
22176517 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22176565 TA
1 TA
22176567 CAATATTTAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22180552 original size:2 final size:2
Alignment explanation
Indices: 22180545--22180590 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
22180535 ACTTGTTGAT
22180545 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22180587 TA TA
1 TA TA
22180591 CATTTAAGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22183325 original size:20 final size:20
Alignment explanation
Indices: 22183300--22183339 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22183290 TAGTAACTTT
22183300 TAAATAATTTAAT-CAACAAA
1 TAAATAA-TTAATCCAACAAA
22183320 TAAATAATTAATCCAACAAA
1 TAAATAATTAATCCAACAAA
22183340 GGTGAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAATAATTAATCCAACAAA
Found at i:22183896 original size:23 final size:23
Alignment explanation
Indices: 22183870--22183917 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
22183860 GGACATAGAG
22183870 TAAAA-TTATCTTTTAAAGAATAT
1 TAAAATTTATCTTTTAAA-AATAT
* *
22183893 TAAAATTTTTCTTTTTAAAATAT
1 TAAAATTTATCTTTTAAAAATAT
22183916 TA
1 TA
22183918 TTTTATAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (23 bp):
TAAAATTTATCTTTTAAAAATAT
Found at i:22191608 original size:19 final size:19
Alignment explanation
Indices: 22191584--22191672 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
22191574 AATCATATCT
**
22191584 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
22191603 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
22191621 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
22191638 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
22191657 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22191673 GTTGAAGATT
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 33 0.51
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22191639 original size:35 final size:36
Alignment explanation
Indices: 22191596--22191666 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
22191586 TAAGATTATA
22191596 TATCATATCTAAGATTGCA-ATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
22191631 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
22191667 CATATCGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 19 0.54
36 16 0.46
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:22194202 original size:2 final size:2
Alignment explanation
Indices: 22194168--22194194 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22194158 TCAATAAAAT
22194168 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
22194195 GCATATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22206656 original size:19 final size:20
Alignment explanation
Indices: 22206632--22206674 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
22206622 GTCTTTCATA
*
22206632 TTTTAGT-ATTTTAAGCTAC
1 TTTTAGTAATTTTAAGATAC
*
22206651 TTTTAGTAATTTTTAGATAC
1 TTTTAGTAATTTTAAGATAC
22206671 TTTT
1 TTTT
22206675 TATTTAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (20 bp):
TTTTAGTAATTTTAAGATAC
Found at i:22208064 original size:3 final size:3
Alignment explanation
Indices: 22208056--22208088 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
22208046 TATTGGTAAG
22208056 TTA TTA TTA TTA TTA TT- TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22208089 CTATTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:22208076 original size:11 final size:11
Alignment explanation
Indices: 22208056--22208088 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
22208046 TATTGGTAAG
22208056 TTATTATTATTA
1 TTATT-TTATTA
22208068 TTATTTTATTA
1 TTATTTTATTA
22208079 TTATTTTATT
1 TTATTTTATT
22208089 CTATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:22210514 original size:16 final size:18
Alignment explanation
Indices: 22210488--22210520 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22210478 TCAAGTTATC
22210488 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
22210505 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
22210521 CCCAATTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:22212999 original size:40 final size:39
Alignment explanation
Indices: 22212831--22213001 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
22212821 AGAAATTGAA
* *
22212831 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
22212871 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
22212911 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
22212951 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
22212991 TGATATCCGGG
1 TGATATCCGGG
22213002 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:22221034 original size:40 final size:39
Alignment explanation
Indices: 22220866--22221036 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
22220856 AGAAATTGAA
* *
22220866 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
22220906 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
22220946 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
22220986 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
22221026 TGATATCCGGG
1 TGATATCCGGG
22221037 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:22234873 original size:144 final size:144
Alignment explanation
Indices: 22234613--22234907 Score: 554
Period size: 144 Copynumber: 2.0 Consensus size: 144
22234603 ATGAGTGTTT
*
22234613 TATACCCATATGGTGTGTTCGGATGGTCGAAGATGGTGTGTAGCAGTTGGGGATAGGATCATATG
1 TATACACATATGGTGTGTTCGGATGGTCGAAGATGGTGTGTAGCAGTTGGGGATAGGATCATATG
*
22234678 TTGTATCTGTTCTGTTCTGTTATAAATCTGTTTAAAATAAATCTGTCTAATATGCATTTAACTGC
66 TTGTATCTGTTCTGTTCTGTTATAAATCTGGTTAAAATAAATCTGTCTAATATGCATTTAACTGC
22234743 TTTAAGTTATTTGA
131 TTTAAGTTATTTGA
*
22234757 TATACACATATGGTGTGTTCGGATGGTCGAAGATGGTGTGTAGCAGTTGGGGGTAGGATCATATG
1 TATACACATATGGTGTGTTCGGATGGTCGAAGATGGTGTGTAGCAGTTGGGGATAGGATCATATG
*
22234822 TTGTATCTGTTCTGTTCTGTTATAAATCTGGTTATAATAAATCTGTCTAATATGCATTTAACTGC
66 TTGTATCTGTTCTGTTCTGTTATAAATCTGGTTAAAATAAATCTGTCTAATATGCATTTAACTGC
22234887 TTTAAGTTATTTGA
131 TTTAAGTTATTTGA
22234901 TATACAC
1 TATACAC
22234908 TGAGTTTCAA
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 147 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (144 bp):
TATACACATATGGTGTGTTCGGATGGTCGAAGATGGTGTGTAGCAGTTGGGGATAGGATCATATG
TTGTATCTGTTCTGTTCTGTTATAAATCTGGTTAAAATAAATCTGTCTAATATGCATTTAACTGC
TTTAAGTTATTTGA
Found at i:22235224 original size:15 final size:16
Alignment explanation
Indices: 22235204--22235236 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22235194 AGAAAAAATC
22235204 TTATTTCATTTTT-AT
1 TTATTTCATTTTTGAT
*
22235219 TTATTTTATTTTTGAT
1 TTATTTCATTTTTGAT
22235235 TT
1 TT
22235237 TATGTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TTATTTCATTTTTGAT
Found at i:22235976 original size:17 final size:17
Alignment explanation
Indices: 22235950--22235986 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
22235940 TTGTAGTGTG
22235950 TTTGAAAAAAACGTAA-
1 TTTGAAAAAAACGTAAC
22235966 TTTGAAAAAAACGTAAC
1 TTTGAAAAAAACGTAAC
22235983 TTTG
1 TTTG
22235987 CTTAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.30
Consensus pattern (17 bp):
TTTGAAAAAAACGTAAC
Found at i:22236625 original size:28 final size:30
Alignment explanation
Indices: 22236560--22236627 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 30
22236550 TTATTATTTC
22236560 TAAAATCGTGTTATTTAATCAGTCGAAAGTTT
1 TAAAA-CGTGTTATTTAAT-AGTCGAAAGTTT
22236592 TCAAAACGT-TTATTTAAT-G-CGAAAGCTTT
1 T-AAAACGTGTTATTTAATAGTCGAAAG-TTT
22236621 TAAAACG
1 TAAAACG
22236628 ATTTGTGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
28 12 0.35
29 5 0.15
31 9 0.26
32 4 0.12
33 4 0.12
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (30 bp):
TAAAACGTGTTATTTAATAGTCGAAAGTTT
Found at i:22237647 original size:15 final size:15
Alignment explanation
Indices: 22237627--22237655 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22237617 ATGGTTTAGT
22237627 CATGTGGCCCACACA
1 CATGTGGCCCACACA
22237642 CATGTGGCCCACAC
1 CATGTGGCCCACAC
22237656 GGCCCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.41, G:0.21, T:0.14
Consensus pattern (15 bp):
CATGTGGCCCACACA
Found at i:22239331 original size:13 final size:13
Alignment explanation
Indices: 22239313--22239338 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22239303 AATATTGTAT
22239313 GAAAAATTTTATC
1 GAAAAATTTTATC
22239326 GAAAAATTTTATC
1 GAAAAATTTTATC
22239339 AATTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
GAAAAATTTTATC
Found at i:22239823 original size:20 final size:22
Alignment explanation
Indices: 22239795--22239835 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
22239785 CTGTAAATTT
*
22239795 AAAGTTTA-TGATAG-GAAATG
1 AAAGGTTATTGATAGAGAAATG
22239815 AAAGGTTATTGATAGAGAAAT
1 AAAGGTTATTGATAGAGAAAT
22239836 CACTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (22 bp):
AAAGGTTATTGATAGAGAAATG
Found at i:22240567 original size:33 final size:33
Alignment explanation
Indices: 22240530--22240610 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
22240520 TGGTACAATT
** *
22240530 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATAATTTGTGTATACCATA
22240563 TGAAAAGGAAAGGTATAATTTGTGTATACCACT-
1 TGAAAAGGAAAGGTATAATTTGTGTATACCA-TA
*
22240596 TAAAAAGGAAAGGTA
1 TGAAAAGGAAAGGTA
22240611 CACTATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 42 0.98
34 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATAATTTGTGTATACCATA
Found at i:22240664 original size:33 final size:33
Alignment explanation
Indices: 22240627--22240724 Score: 88
Period size: 33 Copynumber: 3.0 Consensus size: 33
22240617 ATTTGTACAC
* ** *
22240627 TTGAAAAAGTTATGTGTACTTTGTGTGTACAAA
1 TTGAAAAAGGTATGTACACTTCGTGTGTACAAA
* * *
22240660 TTGAAAAGGGTATGTACACTTCGTGTGTACCAC
1 TTGAAAAAGGTATGTACACTTCGTGTGTACAAA
* * * * *
22240693 TTGAAAATGGAATGTGCACCTCGGGTGTACAA
1 TTGAAAAAGGTATGTACACTTCGTGTGTACAA
22240725 CTAGAAAAGG
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (33 bp):
TTGAAAAAGGTATGTACACTTCGTGTGTACAAA
Found at i:22240732 original size:33 final size:32
Alignment explanation
Indices: 22240651--22240736 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 32
22240641 TGTACTTTGT
* * * *
22240651 GTGTACAAATTGAAAAGGGTATGTACACTTCGT
1 GTGTACAACTTGAAAA-GGAATGTACACCTCGG
* *
22240684 GTGTACCACTTGAAAATGGAATGTGCACCTCGG
1 GTGTACAACTTGAAAA-GGAATGTACACCTCGG
*
22240717 GTGTACAACTAGAAAAGGAA
1 GTGTACAACTTGAAAAGGAA
22240737 AGGTCCATCA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 4 0.09
33 40 0.91
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (32 bp):
GTGTACAACTTGAAAAGGAATGTACACCTCGG
Found at i:22248908 original size:29 final size:29
Alignment explanation
Indices: 22248875--22248938 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
22248865 AGGAAAAATA
22248875 GTTTTGGTTTTGGTTTTGTTTTTGTTTTT
1 GTTTTGGTTTTGGTTTTGTTTTTGTTTTT
** *
22248904 GTTTTTTTTTTTGTTTTGTTTTTGTTTTT
1 GTTTTGGTTTTGGTTTTGTTTTTGTTTTT
22248933 GCTTTT
1 G-TTTT
22248939 AATTTTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.00, C:0.02, G:0.19, T:0.80
Consensus pattern (29 bp):
GTTTTGGTTTTGGTTTTGTTTTTGTTTTT
Found at i:22249712 original size:35 final size:35
Alignment explanation
Indices: 22249649--22249735 Score: 142
Period size: 35 Copynumber: 2.5 Consensus size: 35
22249639 GATTTCACAT
**
22249649 CACCATTCACAAAAATC--TTGGTCAGGTTCATAA
1 CACCATTCACAAATCTCATTTGGTCAGGTTCATAA
22249682 CACCATTCACAAATCTCATTTGGTCAGGTTCATAA
1 CACCATTCACAAATCTCATTTGGTCAGGTTCATAA
22249717 CACCATTCACAAATCTCAT
1 CACCATTCACAAATCTCAT
22249736 CGTCAGATTC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
33 15 0.30
35 35 0.70
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.29
Consensus pattern (35 bp):
CACCATTCACAAATCTCATTTGGTCAGGTTCATAA
Found at i:22252146 original size:6 final size:6
Alignment explanation
Indices: 22252128--22252166 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
22252118 TGTGTACCGC
* *
22252128 TACTAT TACTGT TATTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
22252167 AGTGTATTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (6 bp):
TACTGT
Found at i:22252297 original size:18 final size:18
Alignment explanation
Indices: 22252274--22252317 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
22252264 TAAATAAAGG
22252274 TACTGAATAATTGACTGC
1 TACTGAATAATTGACTGC
* *
22252292 TACTGAATATTTGACTGT
1 TACTGAATAATTGACTGC
22252310 TACTGAAT
1 TACTGAAT
22252318 TACTGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTGACTGC
Found at i:22254132 original size:21 final size:22
Alignment explanation
Indices: 22254106--22254150 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
22254096 ATAATACAAG
22254106 AAATCAT-TAAAAA-ATCAACTA
1 AAATCATATAAAAACA-CAACTA
22254127 AAATCATATAAAAACACAACTA
1 AAATCATATAAAAACACAACTA
22254149 AA
1 AA
22254151 TCACTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 14 0.64
23 1 0.05
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (22 bp):
AAATCATATAAAAACACAACTA
Found at i:22254813 original size:146 final size:146
Alignment explanation
Indices: 22254544--22254827 Score: 419
Period size: 146 Copynumber: 1.9 Consensus size: 146
22254534 ATGGCAGCAT
* *
22254544 CCAACAATTGAATAGCAAAATAACAACAGTCAGCAATTGTCGAAAAACAACAAATGAATAGTAGC
1 CCAACAATTGAATAGCAAAATAACAACAGGCAGCAATTGTCGAAAAACAACAAATGAATAGCAGC
** *
22254609 AGCCAGCAGTTGCAGAGAAGTGCCAAGAAAAGTAGCAATTGTTTAGCAGCAACCAACAAATGAAT
66 AGCCAGCAGTTGCAGAGAAGTGCCAAGAAAAACAACAATTGTTTAGCAGCAACCAACAAATGAAT
22254674 AGCAAAATGACGGCAA
131 AGCAAAATGACGGCAA
* *** * *
22254690 CCAAGAATTGAATAGCAAAAT-AGTGCAGGCAGCAGTTGTCGGAAAAACAACGAATGAATAGCAG
1 CCAACAATTGAATAGCAAAATAACAACAGGCAGCAATTGTC-GAAAAACAACAAATGAATAGCAG
* *
22254754 CAGCCAGTAGTTGCAGAGAAGTGCCAAGAAAAACAACAATTGTTTAGCTA-CAACCAACAATTGA
65 CAGCCAGCAGTTGCAGAGAAGTGCCAAGAAAAACAACAATTGTTTAGC-AGCAACCAACAAATGA
22254818 ATAGCAAAAT
129 ATAGCAAAAT
22254828 TGCAGCAGCC
Statistics
Matches: 123, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
145 14 0.11
146 108 0.88
147 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (146 bp):
CCAACAATTGAATAGCAAAATAACAACAGGCAGCAATTGTCGAAAAACAACAAATGAATAGCAGC
AGCCAGCAGTTGCAGAGAAGTGCCAAGAAAAACAACAATTGTTTAGCAGCAACCAACAAATGAAT
AGCAAAATGACGGCAA
Found at i:22255828 original size:34 final size:34
Alignment explanation
Indices: 22255785--22255852 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
22255775 GGATTAAGTT
*
22255785 GAAGATATGGAGTGTTACAAGTGTAGCATAATGC
1 GAAGATATGGAGTGTTACAAATGTAGCATAATGC
22255819 GAAGATATGGAGTGTTACAAATGTAGCATAATGC
1 GAAGATATGGAGTGTTACAAATGTAGCATAATGC
22255853 CAACTTTACC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (34 bp):
GAAGATATGGAGTGTTACAAATGTAGCATAATGC
Found at i:22262328 original size:2 final size:2
Alignment explanation
Indices: 22262321--22262346 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22262311 ATCAAAGTTA
22262321 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
22262347 TGAAATGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22263074 original size:20 final size:20
Alignment explanation
Indices: 22263049--22263114 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
22263039 ATAATTATAA
22263049 TAAAATAACTTAAATATCAT
1 TAAAATAACTTAAATATCAT
* * *
22263069 TAAAATATA-ATAATTAT-AA
1 TAAAATA-ACTTAAATATCAT
22263088 TAAAATAACTTAAATATCAT
1 TAAAATAACTTAAATATCAT
22263108 TAAAATA
1 TAAAATA
22263115 TAATCTCGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 14 0.38
20 21 0.57
21 1 0.03
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAATAACTTAAATATCAT
Found at i:22263078 original size:39 final size:39
Alignment explanation
Indices: 22263035--22263118 Score: 168
Period size: 39 Copynumber: 2.2 Consensus size: 39
22263025 TTTATTTAAC
22263035 TATAATAATTATAATAAAATAACTTAAATATCATTAAAA
1 TATAATAATTATAATAAAATAACTTAAATATCATTAAAA
22263074 TATAATAATTATAATAAAATAACTTAAATATCATTAAAA
1 TATAATAATTATAATAAAATAACTTAAATATCATTAAAA
22263113 TATAAT
1 TATAAT
22263119 CTCGTTTGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (39 bp):
TATAATAATTATAATAAAATAACTTAAATATCATTAAAA
Found at i:22263080 original size:25 final size:25
Alignment explanation
Indices: 22263035--22263089 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
22263025 TTTATTTAAC
*
22263035 TATAATA--ATTATAATAAAATAACT
1 TATAATATCATTAAAATAAAATAA-T
*
22263059 TA-AATATCATTAAAATATAATAAT
1 TATAATATCATTAAAATAAAATAAT
22263083 TATAATA
1 TATAATA
22263090 AAATAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.15
24 5 0.19
25 17 0.65
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
TATAATATCATTAAAATAAAATAAT
Found at i:22268360 original size:18 final size:20
Alignment explanation
Indices: 22268323--22268362 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
22268313 ATATAATTTT
*
22268323 AAAATATATATAAACAATCA
1 AAAATATATAAAAACAATCA
22268343 AAAATAT-TAAAAAC-ATCA
1 AAAATATATAAAAACAATCA
22268361 AA
1 AA
22268363 TAAATATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 6 0.32
20 7 0.37
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATATATAAAAACAATCA
Found at i:22268563 original size:22 final size:22
Alignment explanation
Indices: 22268538--22268580 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22268528 TATACAAACA
22268538 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
22268560 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
22268581 AATAGGGAGA
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:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:22268584 original size:11 final size:11
Alignment explanation
Indices: 22268545--22268585 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
22268535 ACAATAACAA
22268545 CAAAATAGTAG
1 CAAAATAGTAG
* *
22268556 CAACATAATAG
1 CAAAATAGTAG
*
22268567 TAAAATAGTAG
1 CAAAATAGTAG
22268578 CAAAATAG
1 CAAAATAG
22268586 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:22271877 original size:18 final size:18
Alignment explanation
Indices: 22271851--22271885 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22271841 GAGTTAAACG
* *
22271851 AATCGAGTTATTTGAGTT
1 AATCAAGTTATTCGAGTT
22271869 AATCAAGTTATTCGAGT
1 AATCAAGTTATTCGAGT
22271886 CAACCCGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (18 bp):
AATCAAGTTATTCGAGTT
Found at i:22274474 original size:10 final size:9
Alignment explanation
Indices: 22274456--22274489 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
22274446 TTAAACAAAT
22274456 TTTAATTAA
1 TTTAATTAA
22274465 TTTAAGTTAA
1 TTTAA-TTAA
22274475 TTTAATCTAA
1 TTTAAT-TAA
22274485 TTTAA
1 TTTAA
22274490 ACATAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (9 bp):
TTTAATTAA
Found at i:22274489 original size:15 final size:16
Alignment explanation
Indices: 22274431--22274487 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
22274421 TAAGGTAATA
22274431 AATCTAATTTTAATCTT
1 AATCTAATTTTAAT-TT
* *
22274448 AAACAAATTTTAA-TT
1 AATCTAATTTTAATTT
* *
22274463 AATTTAA-GTTAATTT
1 AATCTAATTTTAATTT
22274478 AATCTAATTT
1 AATCTAATTT
22274488 AAACATAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
14 4 0.13
15 14 0.47
16 1 0.03
17 11 0.37
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (16 bp):
AATCTAATTTTAATTT
Found at i:22274808 original size:13 final size:14
Alignment explanation
Indices: 22274792--22274824 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22274782 GATAAATTGA
*
22274792 AAAAAT-AAGTGTT
1 AAAAATGAAGTATT
22274805 AAAAATGAAGTATT
1 AAAAATGAAGTATT
22274819 AAAAAT
1 AAAAAT
22274825 TTAAGTACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (14 bp):
AAAAATGAAGTATT
Found at i:22275320 original size:19 final size:20
Alignment explanation
Indices: 22275292--22275336 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
22275282 ATCATTCTTT
*
22275292 ATTAACCTAA-CTAATTAAA
1 ATTAACCTAACCTAATCAAA
*
22275311 ATTAATCTAACTCTAATCAAA
1 ATTAACCTAAC-CTAATCAAA
22275332 ATTAA
1 ATTAA
22275337 AACTCGAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
21 13 0.59
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTAACCTAACCTAATCAAA
Found at i:22278073 original size:12 final size:13
Alignment explanation
Indices: 22278051--22278081 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
22278041 TCCCTCTTCG
22278051 GTTTTTGTTTTTT
1 GTTTTTGTTTTTT
22278064 GTTTTT-TTTTTT
1 GTTTTTGTTTTTT
22278076 GTTTTT
1 GTTTTT
22278082 ATAAATGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (13 bp):
GTTTTTGTTTTTT
Found at i:22280527 original size:16 final size:16
Alignment explanation
Indices: 22280506--22280537 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22280496 AAAAGTTGTC
22280506 TAATTGTACTTGTTTA
1 TAATTGTACTTGTTTA
22280522 TAATTGTACTTGTTTA
1 TAATTGTACTTGTTTA
22280538 CCCTCATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.56
Consensus pattern (16 bp):
TAATTGTACTTGTTTA
Found at i:22282589 original size:3 final size:3
Alignment explanation
Indices: 22282513--22282573 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
22282503 ATTTTTATAA
*
22282513 TAT TAG TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22282560 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
22282574 GCTTATGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:22283244 original size:2 final size:2
Alignment explanation
Indices: 22283237--22283284 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
22283227 TTGTCTTATG
22283237 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22283279 TA TA TA
1 TA TA TA
22283285 ATTTTTAACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22285928 original size:30 final size:30
Alignment explanation
Indices: 22285893--22285972 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
22285883 CAAGAAAACT
*
22285893 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* *
22285923 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
* *
22285953 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
22285973 CGATACTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:22285932 original size:15 final size:15
Alignment explanation
Indices: 22285893--22285963 Score: 90
Period size: 15 Copynumber: 4.7 Consensus size: 15
22285883 CAAGAAAACT
22285893 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
22285908 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
22285923 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
22285938 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
22285953 GGATAAAGAAA
1 GAATAAAGAAA
22285964 CCCAAGATAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
14 1 0.02
15 45 0.96
16 1 0.02
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:22285972 original size:15 final size:15
Alignment explanation
Indices: 22285895--22285972 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
22285885 AGAAAACTGA
22285895 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
22285910 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
22285924 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
22285939 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
22285955 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
22285970 ATA
1 ATA
22285973 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:22288689 original size:46 final size:46
Alignment explanation
Indices: 22288636--22288804 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
22288626 TGAGCATCCA
22288636 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
22288682 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
22288729 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*
22288775 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
22288805 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.55
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:22288788 original size:93 final size:93
Alignment explanation
Indices: 22288629--22288799 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
22288619 GGATGGTTGA
* *
22288629 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22288694 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
22288722 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22288787 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
22288800 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:22290548 original size:3 final size:3
Alignment explanation
Indices: 22290540--22290607 Score: 95
Period size: 3 Copynumber: 22.7 Consensus size: 3
22290530 TAGATTTTCT
22290540 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTGA TGT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA
*
22290586 TT- TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
22290608 GGTTAGTACT
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 3 0.05
3 54 0.90
4 2 0.03
5 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22290718 original size:22 final size:23
Alignment explanation
Indices: 22290677--22290724 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
22290667 CAATCAAGTC
22290677 TTAGATTTAAAATAATATTACAA
1 TTAGATTTAAAATAATATTACAA
*
22290700 TTAGTTTTAAAA-AATATTACAA
1 TTAGATTTAAAATAATATTACAA
22290722 TTA
1 TTA
22290725 TTGAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
TTAGATTTAAAATAATATTACAA
Found at i:22290738 original size:21 final size:21
Alignment explanation
Indices: 22290685--22290734 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
22290675 TCTTAGATTT
*
22290685 AAAATAATATTACAATTAGTTTT
1 AAAA-AATATTACAATTAG-TTG
22290708 AAAAAATATTACAATTA-TTG
1 AAAAAATATTACAATTAGTTG
22290728 AAAAAAT
1 AAAAAAT
22290735 TATTGATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.35
22 13 0.50
23 4 0.15
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (21 bp):
AAAAAATATTACAATTAGTTG
Found at i:22296281 original size:34 final size:34
Alignment explanation
Indices: 22296217--22296281 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
22296207 TATTTGATAT
* *
22296217 TGAAACTGAAATGGGCTAAGGCTCAAACTACTAC
1 TGAAACTGAAATAGGCTAAGGCCCAAACTACTAC
* *
22296251 TGAAATTGAAATAGGCTTAA-GCCCAGACTAC
1 TGAAACTGAAATAGGC-TAAGGCCCAAACTAC
22296282 ATTTGACTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
34 23 0.88
35 3 0.12
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (34 bp):
TGAAACTGAAATAGGCTAAGGCCCAAACTACTAC
Found at i:22298983 original size:28 final size:27
Alignment explanation
Indices: 22298951--22299034 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
22298941 AACTGTGATC
22298951 ACGTGTGTAGTACTAAGTACAGGCTACT
1 ACGTGTGTAGTACTAAGT-CAGGCTACT
* * *
22298979 ACGTGTATCAG-A-T-GGTTAGG-T-C-
1 ACGTGTGT-AGTACTAAGTCAGGCTACT
22299001 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGT-CAGGCTACT
22299029 ACGTGT
1 ACGTGT
22299035 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (27 bp):
ACGTGTGTAGTACTAAGTCAGGCTACT
Found at i:22299068 original size:49 final size:49
Alignment explanation
Indices: 22298896--22299127 Score: 286
Period size: 49 Copynumber: 4.7 Consensus size: 49
22298886 TCTATTGTGA
* * * * *
22298896 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-T
* * * * * **
22298947 GATCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
22298996 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
22299046 TGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
22299095 GGTCGCATGTGTAGTACTATA-TGCAGGCTACTA
1 GGTCACATGTGTAGTACTA-AGTGCAGGCTACTA
22299128 TGCGTACCAG
Statistics
Matches: 158, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
49 77 0.49
50 45 0.28
51 36 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:22302451 original size:23 final size:21
Alignment explanation
Indices: 22302412--22302454 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
22302402 TGCGTAAACT
*
22302412 ATGAAATGATAAGTGTGAATG
1 ATGAAATGATAAATGTGAATG
22302433 ATGAAATGAAATAAATGTGAAT
1 ATGAAATG--ATAAATGTGAAT
22302455 AAAATGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
23 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (21 bp):
ATGAAATGATAAATGTGAATG
Found at i:22302598 original size:45 final size:45
Alignment explanation
Indices: 22302547--22302717 Score: 242
Period size: 45 Copynumber: 3.9 Consensus size: 45
22302537 TGTACAGTAA
* * *
22302547 TATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATAC
1 TATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAC
* *
22302592 TATTCAGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAATAC
1 TATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAC
*
22302637 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-
1 TATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT-AC
*
22302682 TA-TCAGG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTG
1 TATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTG
22302718 GATGAATTCG
Statistics
Matches: 117, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
42 10 0.09
43 18 0.15
44 4 0.03
45 84 0.72
46 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (45 bp):
TATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAC
Found at i:22307203 original size:33 final size:33
Alignment explanation
Indices: 22307161--22307226 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
22307151 TGAAAGGGTG
22307161 ATTCAAATACTGGAGGATGTGTTGAGGAGTTGT
1 ATTCAAATACTGGAGGATGTGTTGAGGAGTTGT
22307194 ATTCAAATACTGGAGGATGTGTTGAGGAGTTGT
1 ATTCAAATACTGGAGGATGTGTTGAGGAGTTGT
22307227 GTTATCGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.06, G:0.33, T:0.33
Consensus pattern (33 bp):
ATTCAAATACTGGAGGATGTGTTGAGGAGTTGT
Found at i:22316219 original size:47 final size:47
Alignment explanation
Indices: 22316168--22316274 Score: 142
Period size: 47 Copynumber: 2.3 Consensus size: 47
22316158 GATAAACTGT
* * * * *
22316168 CAGAATAGATATGAGTAGTCAAGCCACTATAATTGCAGTCAAGCTGC
1 CAGAACAGATATGAATAGTCAAGCCACCATAATTGCAGTCAAACTAC
* *
22316215 CAGAACAGATATGAATGGTCGAGCCACCATAATTGCAGTCAAACTAC
1 CAGAACAGATATGAATAGTCAAGCCACCATAATTGCAGTCAAACTAC
*
22316262 TAGAACAGATATG
1 CAGAACAGATATG
22316275 TGGCTAAACC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (47 bp):
CAGAACAGATATGAATAGTCAAGCCACCATAATTGCAGTCAAACTAC
Found at i:22318167 original size:18 final size:18
Alignment explanation
Indices: 22318144--22318207 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
22318134 ATCATTAAAT
22318144 TTAATAAATTATATATCA
1 TTAATAAATTATATATCA
* *
22318162 TTAAT-AATGATAATATTAAA
1 TTAATAAATTAT-ATA-T-CA
22318182 TTCAATAAATTATATATCA
1 TT-AATAAATTATATATCA
22318201 TTAATAA
1 TTAATAA
22318208 TGATAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 4 0.11
20 4 0.11
21 6 0.16
22 5 0.14
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (18 bp):
TTAATAAATTATATATCA
Found at i:22318191 original size:39 final size:39
Alignment explanation
Indices: 22318137--22318214 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
22318127 TTTCCATATC
*
22318137 ATTAAATTTAATAAATTATATATCATTAATAATGATAAT
1 ATTAAATTCAATAAATTATATATCATTAATAATGATAAT
22318176 ATTAAATTCAATAAATTATATATCATTAATAATGATAAT
1 ATTAAATTCAATAAATTATATATCATTAATAATGATAAT
22318215 TTAGGTTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (39 bp):
ATTAAATTCAATAAATTATATATCATTAATAATGATAAT
Found at i:22319797 original size:21 final size:21
Alignment explanation
Indices: 22319712--22319799 Score: 56
Period size: 21 Copynumber: 4.1 Consensus size: 21
22319702 TAGTTAAGTA
*
22319712 ATATTATTTATATTTATAAATAT
1 ATATTA-TTATATTTAAAAAT-T
* *
22319735 ATATTATTATACTT-AACA-T
1 ATATTATTATATTTAAAAATT
* **
22319754 -GATTATCTATACTTTTATCAATT
1 ATATTAT-TATA--TTTAAAAATT
22319777 ATATTATTATATTTAAAAATT
1 ATATTATTATATTTAAAAATT
22319798 AT
1 AT
22319800 CTAAATCTTA
Statistics
Matches: 48, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
18 5 0.10
19 5 0.10
21 14 0.29
22 8 0.17
23 11 0.23
24 5 0.10
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.52
Consensus pattern (21 bp):
ATATTATTATATTTAAAAATT
Found at i:22319817 original size:40 final size:42
Alignment explanation
Indices: 22319727--22319818 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 42
22319717 ATTTATATTT
* * *
22319727 ATAAATATATATTATTATACTTAACATGATTATCTATACTTTT
1 ATAAAT-TATATTATTATACTTAACATAATTATCTAAACTTTA
* *
22319770 ATCAATTATATTATTATATTTAA-A-AATTATCTAAA-TCTTA
1 ATAAATTATATTATTATACTTAACATAATTATCTAAACT-TTA
22319810 ATAAATTAT
1 ATAAATTAT
22319819 TTTAAATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 19 0.45
41 1 0.02
42 16 0.38
43 5 0.12
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.48
Consensus pattern (42 bp):
ATAAATTATATTATTATACTTAACATAATTATCTAAACTTTA
Found at i:22329008 original size:18 final size:19
Alignment explanation
Indices: 22328985--22329021 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22328975 TGATGGAAAT
22328985 TAATAA-CAAATTTGATTA
1 TAATAAGCAAATTTGATTA
22329003 TAATAAGCAAATTTGATTA
1 TAATAAGCAAATTTGATTA
22329022 CGGTGGGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (19 bp):
TAATAAGCAAATTTGATTA
Found at i:22336637 original size:15 final size:15
Alignment explanation
Indices: 22336617--22336647 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22336607 ACTGAATTTG
22336617 TGATACACACAATCA
1 TGATACACACAATCA
22336632 TGATACACACAATCA
1 TGATACACACAATCA
22336647 T
1 T
22336648 TAACAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (15 bp):
TGATACACACAATCA
Found at i:22339487 original size:19 final size:19
Alignment explanation
Indices: 22339456--22339493 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22339446 TTATGTGTCT
22339456 CAATCCATATTTCAATTCA
1 CAATCCATATTTCAATTCA
*
22339475 CAATCTCAT-TTTCATTTCA
1 CAATC-CATATTTCAATTCA
22339494 TATATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (19 bp):
CAATCCATATTTCAATTCA
Found at i:22339877 original size:11 final size:11
Alignment explanation
Indices: 22339861--22339890 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
22339851 CAAATAATCA
*
22339861 ATATATTCAAT
1 ATATATACAAT
22339872 ATATATACAAT
1 ATATATACAAT
22339883 ATATATAC
1 ATATATAC
22339891 CAATTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (11 bp):
ATATATACAAT
Found at i:22339884 original size:20 final size:17
Alignment explanation
Indices: 22339848--22339886 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
22339838 ATATATTTCA
22339848 ATTCAAATAATCAATAT
1 ATTCAAATAATCAATAT
22339865 ATTCAATATATATACAATAT
1 ATTCAA-ATA-AT-CAATAT
22339885 AT
1 AT
22339887 ATACCAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 2 0.11
20 8 0.42
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTCAAATAATCAATAT
Found at i:22343621 original size:26 final size:26
Alignment explanation
Indices: 22343592--22343699 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
22343582 TGGTACAAAT
22343592 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
22343618 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22343644 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
22343670 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22343696 TGAT
1 TGAT
22343700 GGGCATTTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:22345352 original size:27 final size:25
Alignment explanation
Indices: 22345296--22345453 Score: 174
Period size: 27 Copynumber: 6.0 Consensus size: 25
22345286 AGGAAGTGTC
*
22345296 CTGGTGGCTATGCCA-AATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTG-T
22345322 CTGGTGGCTCTGCCACATATATCTGT
1 CTGGTGGCTCTGCCACA-ATATCTGT
*
22345348 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAA-TATCTG-T
22345376 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTG-T
22345403 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG--T
* * *
22345430 CTGGTGACTTTGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
22345454 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
26 23 0.20
27 91 0.78
28 3 0.03
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (25 bp):
CTGGTGGCTCTGCCACAATATCTGT
Found at i:22345383 original size:54 final size:54
Alignment explanation
Indices: 22345292--22345453 Score: 249
Period size: 54 Copynumber: 3.0 Consensus size: 54
22345282 ATGGAGGAAG
22345292 TGTCCTGGTGGCTATGCCA-AATTATCTGATCTGGTGGCTCTGCCACATATATC
1 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
22345345 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
1 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
* * * * *
22345399 TGTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTTTGTCACA-ATATC
1 TGTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATC
22345452 TG
1 TG
22345454 GCAGCCTCGC
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
53 32 0.31
54 70 0.69
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
Found at i:22345410 original size:81 final size:79
Alignment explanation
Indices: 22345296--22345453 Score: 219
Period size: 81 Copynumber: 2.0 Consensus size: 79
22345286 AGGAAGTGTC
*
22345296 CTGGTGGCTATGCCAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGGCTAT
1 CTGGTGGCTATGCCAAATTATCTGATCTGGTGGCTCTGCCACA-ATATCTGTACCTGGTGACTAT
22345360 GCCACAATTATCTGAT
65 GCCACAA-TATCTGAT
* * * * *
22345376 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTTT
1 CTGGTGGCTATGCCAAAT-TATCTGATCTGGTGGCTCTGCCACAATATCTGTACCTGGTGACTAT
*
22345441 GTCACAATATCTG
65 GCCACAATATCTG
22345454 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 30 0.43
81 39 0.57
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (79 bp):
CTGGTGGCTATGCCAAATTATCTGATCTGGTGGCTCTGCCACAATATCTGTACCTGGTGACTATG
CCACAATATCTGAT
Found at i:22349690 original size:28 final size:26
Alignment explanation
Indices: 22349635--22349722 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 26
22349625 AGCATGGCTG
* *
22349635 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
22349661 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* * *
22349689 CCAGAACAAATATATGTGGTATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
22349716 CCAGAAC
1 CCAGAAC
22349723 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.09
27 32 0.59
28 17 0.31
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:22351341 original size:26 final size:26
Alignment explanation
Indices: 22351305--22351388 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
22351295 CATGAAATTC
*
22351305 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
22351331 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
22351357 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCTA
22351383 TTATCA
1 TTATCA
22351389 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 54 0.96
27 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:22354286 original size:18 final size:18
Alignment explanation
Indices: 22354263--22354305 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
22354253 CCGATTCTGC
22354263 TTTCAGCACGCTTTACCT
1 TTTCAGCACGCTTTACCT
22354281 TTTCAGCACGCTTTACCT
1 TTTCAGCACGCTTTACCT
*
22354299 CTTCAGC
1 TTTCAGC
22354306 TATCTTAGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.35, G:0.12, T:0.37
Consensus pattern (18 bp):
TTTCAGCACGCTTTACCT
Found at i:22362959 original size:71 final size:72
Alignment explanation
Indices: 22362877--22363038 Score: 238
Period size: 71 Copynumber: 2.3 Consensus size: 72
22362867 CATCATGTGT
* * * **
22362877 ACAAGAAAGCTACGAGACACCCTGTA-GTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
22362941 CATGTAG
66 CATGTAG
* * *
22362948 ACAAGAGAGCTACGTGA-AAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
22363012 CATGTAG
66 CATGTAG
22363019 ACAAGAGAGCTACGAGACAA
1 ACAAGAGAGCTACGAGACAA
22363039 ATCGGTTAGG
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
70 3 0.04
71 75 0.94
72 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (72 bp):
ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
CATGTAG
Found at i:22364775 original size:12 final size:12
Alignment explanation
Indices: 22364758--22364800 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
22364748 AGTACTACCT
22364758 CGGCCTCGACCA
1 CGGCCTCGACCA
22364770 CGGCCTCGACCA
1 CGGCCTCGACCA
22364782 CGGCCTCGACCA
1 CGGCCTCGACCA
22364794 CGGCCTC
1 CGGCCTC
22364801 TTCCCCGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.14, C:0.51, G:0.26, T:0.09
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:22366310 original size:28 final size:26
Alignment explanation
Indices: 22366255--22366342 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
22366245 AGCATGGCTG
* *
22366255 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
22366281 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
22366309 CCAGAACAGATATATGTGGTATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
22366336 CCAGAAC
1 CCAGAAC
22366343 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 5 0.09
27 33 0.60
28 17 0.31
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Done.