Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 345 of 378
Found at i:104060065 original size:16 final size:16
Alignment explanation
Indices: 104060044--104060083 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
104060034 TAGAGTTTAG
104060044 ATAATTTTAAATTCGA
1 ATAATTTTAAATTCGA
* *
104060060 ATAATTATAAATTTGA
1 ATAATTTTAAATTCGA
104060076 ATAATTTT
1 ATAATTTT
104060084 TTAACTCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (16 bp):
ATAATTTTAAATTCGA
Found at i:104071675 original size:26 final size:26
Alignment explanation
Indices: 104071639--104071748 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
104071629 TGATACAAAT
104071639 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
104071665 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
104071691 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
104071717 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
104071743 TGATAA
1 TGATAA
104071749 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:104076749 original size:14 final size:14
Alignment explanation
Indices: 104076730--104076756 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
104076720 TATTAAAGCA
104076730 ATAATTAAGAACAC
1 ATAATTAAGAACAC
104076744 ATAATTAAGAACA
1 ATAATTAAGAACA
104076757 AATCAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:104092154 original size:13 final size:13
Alignment explanation
Indices: 104092136--104092161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104092126 GCATCAAGAC
104092136 AAATAATATCATA
1 AAATAATATCATA
104092149 AAATAATATCATA
1 AAATAATATCATA
104092162 CCCCTGCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATAATATCATA
Found at i:104100137 original size:1 final size:1
Alignment explanation
Indices: 104100103--104100130 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
104100093 CACTGCATAG
104100103 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
104100131 AGTTTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:104112099 original size:25 final size:25
Alignment explanation
Indices: 104112065--104112115 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
104112055 GAACTATGAG
104112065 TAAATTTTTATTTTAGTCACTTAAT
1 TAAATTTTTATTTTAGTCACTTAAT
*
104112090 TAAATTTTTATTTTGGTCACTTAAT
1 TAAATTTTTATTTTAGTCACTTAAT
104112115 T
1 T
104112116 TAAAAAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (25 bp):
TAAATTTTTATTTTAGTCACTTAAT
Found at i:104119046 original size:19 final size:20
Alignment explanation
Indices: 104119022--104119066 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
104119012 TAAATCTAAG
104119022 AAATAACTAAAAAG-AAATA
1 AAATAACTAAAAAGAAAATA
* **
104119041 AAATAATTATTAAGAAAATA
1 AAATAACTAAAAAGAAAATA
104119061 AAATAA
1 AAATAA
104119067 GCAACTAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (20 bp):
AAATAACTAAAAAGAAAATA
Found at i:104119447 original size:16 final size:16
Alignment explanation
Indices: 104119426--104119460 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
104119416 ACTTTTTATA
*
104119426 TATTTTTTGAACTTTT
1 TATTTTTTAAACTTTT
*
104119442 TATTTTTTAAATTTTT
1 TATTTTTTAAACTTTT
104119458 TAT
1 TAT
104119461 AAATTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (16 bp):
TATTTTTTAAACTTTT
Found at i:104121474 original size:3 final size:3
Alignment explanation
Indices: 104121460--104121527 Score: 50
Period size: 3 Copynumber: 22.3 Consensus size: 3
104121450 TTCAATTTTG
* **
104121460 TAT TAT TCAT TAT TAT TGT TAT TAT TAT TAT TGC TAT T-T ATAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* *
104121506 CAT T-T TCAT CAT TAT TAT TAT T
1 TAT TAT T-AT TAT TAT TAT TAT T
104121528 GTTCATGCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
2 3 0.06
3 42 0.84
4 5 0.10
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:104121540 original size:19 final size:17
Alignment explanation
Indices: 104121499--104121546 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
104121489 ATTGCTATTT
104121499 ATATTATCATTTTCATC
1 ATATTATCATTTTCATC
*
104121516 ATTATTATTATTGTTCATGC
1 A-TATTATCATT-TTCAT-C
*
104121536 ATATTAACATT
1 ATATTATCATT
104121547 ATGATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 9 0.36
19 13 0.52
20 2 0.08
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.52
Consensus pattern (17 bp):
ATATTATCATTTTCATC
Found at i:104131178 original size:13 final size:13
Alignment explanation
Indices: 104131160--104131220 Score: 70
Period size: 13 Copynumber: 4.7 Consensus size: 13
104131150 CCAGTTTAGC
104131160 AATGCTTTTGAGA
1 AATGCTTTTGAGA
104131173 AATGCTTTTGAGA
1 AATGCTTTTGAGA
* * *
104131186 AGTGCTGTGGA-A
1 AATGCTTTTGAGA
104131198 AAGTGCTTTTGAGA
1 AA-TGCTTTTGAGA
*
104131212 AGTGCTTTT
1 AATGCTTTT
104131221 AAAAAATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 2 0.05
13 35 0.90
14 2 0.05
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (13 bp):
AATGCTTTTGAGA
Found at i:104131506 original size:12 final size:12
Alignment explanation
Indices: 104131459--104131517 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
104131449 TTAAGGTGAA
*
104131459 AAAAGAGAAGAC
1 AAAAGAGAAAAC
104131471 AAAAGAGAAAA-
1 AAAAGAGAAAAC
***
104131482 ATAAAGTTCAAAC
1 A-AAAGAGAAAAC
104131495 AAAAGAGAAAAC
1 AAAAGAGAAAAC
*
104131507 AAAACAGAAAA
1 AAAAGAGAAAA
104131518 GGTGAAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 1 0.03
12 35 0.95
13 1 0.03
ACGTcount: A:0.71, C:0.08, G:0.15, T:0.05
Consensus pattern (12 bp):
AAAAGAGAAAAC
Found at i:104132044 original size:2 final size:2
Alignment explanation
Indices: 104132037--104132069 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
104132027 GCTTTTATTT
104132037 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104132070 GCGTATATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104134874 original size:24 final size:24
Alignment explanation
Indices: 104134814--104134874 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
104134804 AAATTAGTAT
104134814 ATTATTTACAAATATCATTATATTAA
1 ATTATTTA-AAATATCATTATATT-A
104134840 ATTATTT-AAATATCATTTATCATT-
1 ATTATTTAAAATATCA-TTAT-ATTA
104134864 A-TATTTAAAAT
1 ATTATTTAAAAT
104134875 TTTAAACTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
23 5 0.16
24 13 0.41
25 4 0.12
26 10 0.31
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTATTTAAAATATCATTATATTA
Found at i:104136496 original size:2 final size:2
Alignment explanation
Indices: 104136489--104136530 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
104136479 TATTTAAGTG
104136489 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
104136531 GTATTTGTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:104144740 original size:21 final size:21
Alignment explanation
Indices: 104144711--104144750 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
104144701 AGTCGTATAA
*
104144711 TTTATAGTTAATATTGAAAAT
1 TTTACAGTTAATATTGAAAAT
104144732 TTTACAGTTAATATTGAAA
1 TTTACAGTTAATATTGAAA
104144751 TTAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (21 bp):
TTTACAGTTAATATTGAAAAT
Found at i:104144910 original size:18 final size:18
Alignment explanation
Indices: 104144887--104144946 Score: 72
Period size: 17 Copynumber: 3.4 Consensus size: 18
104144877 ATAAATTGTA
*
104144887 ATTGTAATTATATAATTT
1 ATTGTAATAATATAATTT
*
104144905 ATTGTAA-AATATAGTTT
1 ATTGTAATAATATAATTT
104144922 ATT-TAATAATATATATTT
1 ATTGTAATAATATA-ATTT
104144940 -TTGTAAT
1 ATTGTAAT
104144947 CTAATTCCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 3 0.08
17 19 0.53
18 14 0.39
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (18 bp):
ATTGTAATAATATAATTT
Found at i:104152785 original size:23 final size:24
Alignment explanation
Indices: 104152757--104152813 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
104152747 AATACTCTTA
104152757 AAAACCCAA-AC-CTATTAAAATTT
1 AAAACCCAATACTC-ATTAAAATTT
*
104152780 AAAACCCAATACTCATTAATATTT
1 AAAACCCAATACTCATTAAAATTT
104152804 AAAACCCAAT
1 AAAACCCAAT
104152814 TTGATGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 9 0.29
24 21 0.68
25 1 0.03
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAACCCAATACTCATTAAAATTT
Found at i:104152844 original size:2 final size:2
Alignment explanation
Indices: 104152835--104152868 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
104152825 ATTTTTTATG
*
104152835 AT AT -T AT AT AT AT AT AT AT AT AT AG AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104152869 ATAAATTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:104153707 original size:23 final size:21
Alignment explanation
Indices: 104153652--104153729 Score: 111
Period size: 21 Copynumber: 3.6 Consensus size: 21
104153642 ACATAAGTGT
*
104153652 CTGAAACGACACACGAGGTGC
1 CTGATACGACACACGAGGTGC
* *
104153673 TTGATATGACACACGAGGTGC
1 CTGATACGACACACGAGGTGC
104153694 CTGATACGACACACGAGGTGC
1 CTGATACGACACACGAGGTGC
104153715 CTGAAATACGACACA
1 CTG--ATACGACACA
104153730 TAAAGTGCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
21 40 0.80
23 10 0.20
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (21 bp):
CTGATACGACACACGAGGTGC
Found at i:104153737 original size:23 final size:21
Alignment explanation
Indices: 104153640--104153739 Score: 74
Period size: 21 Copynumber: 4.6 Consensus size: 21
104153630 TCAGTATACA
* *
104153640 ACACATAAGTGTCTGAAACGAC
1 ACACA-AAGTGCCTGATACGAC
* * * *
104153662 ACACGAGGTGCTTGATATGAC
1 ACACAAAGTGCCTGATACGAC
* *
104153683 ACACGAGGTGCCTGATACGAC
1 ACACAAAGTGCCTGATACGAC
* *
104153704 ACACGAGGTGCCTGAAATACGAC
1 ACACAAAGTGCCTG--ATACGAC
*
104153727 ACATAAAGTGCCT
1 ACACAAAGTGCCT
104153740 AATCGGCAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
21 44 0.68
22 4 0.06
23 17 0.26
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (21 bp):
ACACAAAGTGCCTGATACGAC
Found at i:104154061 original size:44 final size:44
Alignment explanation
Indices: 104154008--104154099 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
104153998 CAGAAGTAAC
* * * *
104154008 AGTAGCAGTACGACTCACATGGTGCCTCATCGATTCGAA-GTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTC-AAGGTCGA
**
104154052 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
104154096 AGTA
1 AGTA
104154100 TCCCTGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:104155409 original size:25 final size:25
Alignment explanation
Indices: 104155381--104155432 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
104155371 TTTGGCTTGA
**
104155381 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
104155406 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
104155431 CA
1 CA
104155433 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:104156920 original size:20 final size:20
Alignment explanation
Indices: 104156883--104156923 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
104156873 TTTTTAAGTC
** *
104156883 ATTTTAAAGGAAATTTTAAA
1 ATTTTAAAACAAAGTTTAAA
104156903 ATTTTAAAACAAAGTTTAAA
1 ATTTTAAAACAAAGTTTAAA
104156923 A
1 A
104156924 ATAAAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (20 bp):
ATTTTAAAACAAAGTTTAAA
Found at i:104156928 original size:63 final size:64
Alignment explanation
Indices: 104156857--104156979 Score: 203
Period size: 64 Copynumber: 1.9 Consensus size: 64
104156847 TAGATTTCGA
*
104156857 AAAAATAAAAATATG-TTTTTTAAGTCATTTTAAAGGAAATTTTAAAATTTTAAAACAAAGTTT
1 AAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTT
* * *
104156920 AAAAATAAAAATTTGTTTTTTTAAGTTATTTTAAAGGAAAGTTTAAATTTTTAAAACAAA
1 AAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAA
104156980 ATTTTGAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
63 14 0.25
64 41 0.75
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (64 bp):
AAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTT
Found at i:104160777 original size:54 final size:53
Alignment explanation
Indices: 104160719--104160850 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 53
104160709 GGGATTTAGA
* * *
104160719 GGAAGTAAAAGTTTTAGGGGAAAATAAAA-GAAAAATTTTTGTAGGGGGTTTTGG
1 GGAAGTAAAAGTTTTAGGGGAAAATAAAAGGAAAAA-TATT-TAGGAGGTTTGGG
* * *
104160773 GGAAGTAAAAGTTTTTGGTAGAAAGTAAAAGGAAAAATATTTAGGAGGTTTGGG
1 GGAAGTAAAAGTTTTAGG-GGAAAATAAAAGGAAAAATATTTAGGAGGTTTGGG
**
104160827 GGAAAGTAAATTTTTTGAGGGGAA
1 GG-AAGTAAAAGTTTT-AGGGGAA
104160851 GTAAAAGTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
54 30 0.47
55 26 0.41
56 8 0.12
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (53 bp):
GGAAGTAAAAGTTTTAGGGGAAAATAAAAGGAAAAATATTTAGGAGGTTTGGG
Found at i:104160861 original size:19 final size:20
Alignment explanation
Indices: 104160821--104160864 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
104160811 ATTTAGGAGG
**
104160821 TTTG-GGGGAAAGTAAATTT
1 TTTGAGGGGAAAGTAAAAGT
104160840 TTTGAGGGG-AAGTAAAAGT
1 TTTGAGGGGAAAGTAAAAGT
104160859 TTTGAG
1 TTTGAG
104160865 AAAAAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (20 bp):
TTTGAGGGGAAAGTAAAAGT
Found at i:104160921 original size:74 final size:74
Alignment explanation
Indices: 104160771--104160924 Score: 181
Period size: 74 Copynumber: 2.1 Consensus size: 74
104160761 AGGGGGTTTT
* *
104160771 GGGGAAGTAAAAGTTTTTGGTAGAAAGTAAAAGGAAAAATATTTAGGAGGTTTGGGGGAAAGTAA
1 GGGGAAGTAAAAGTTTTTGGAAAAAAGTAAAAGGAAAAATATTTAGGAGGTTTGGGGGAAAGTAA
* *
104160836 ATTTTTTGA
66 ATATTTGGA
* *
104160845 GGGGAAGTAAAAG-TTTTGAGAAAAAAGTAAAAAGGAAAAA-AGTTTTGGGGGGTTT-GGGGAAA
1 GGGGAAGTAAAAGTTTTTG-GAAAAAAGT-AAAAGGAAAAATA--TTTAGGAGGTTTGGGGGAAA
*
104160907 TTAAA-ATTTGGA
62 GTAAATATTTGGA
104160919 GGGGAA
1 GGGGAA
104160925 AGAAAAAGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
73 5 0.07
74 32 0.46
75 22 0.32
76 10 0.14
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (74 bp):
GGGGAAGTAAAAGTTTTTGGAAAAAAGTAAAAGGAAAAATATTTAGGAGGTTTGGGGGAAAGTAA
ATATTTGGA
Found at i:104161790 original size:12 final size:11
Alignment explanation
Indices: 104161764--104161803 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
104161754 GAGACCATTA
*
104161764 TTTTTCTTTTC
1 TTTTTTTTTTC
104161775 TTTTTTTTTTC
1 TTTTTTTTTTC
104161786 TTTTTTTCTTTCC
1 TTTTTTT-TTT-C
104161799 TTTTT
1 TTTTT
104161804 GGGCCTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 17 0.65
12 3 0.12
13 6 0.23
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:104161883 original size:111 final size:113
Alignment explanation
Indices: 104161692--104161900 Score: 341
Period size: 111 Copynumber: 1.9 Consensus size: 113
104161682 GCTCGATTGG
**
104161692 GGGCCTATTTAAATTTTATTCTCTCTTGGGCTGTTCAAAGCCCACCCGATTTTGGTCTATTTGAG
1 GGGCCTATTTAAATTTTATTCTCTCTTGGGCCATTCAAAGCCCACCCGATTTTGGTCTATTTGAG
*
104161757 ACCATTATTTTTCTTTTCTTTTTTTT-TTCTTTTTTTCTTTCCTTTTT
66 ACCATTACTTTTCTTTTCTTTTTTTTCTTCTTTTTTTCTTTCCTTTTT
* * *
104161804 GGGCCTATTTAAATTTT-TTTTCTCTTGGGCCATTCGAAGCCCATCCGATTTTGGTCTATTTGAG
1 GGGCCTATTTAAATTTTATTCTCTCTTGGGCCATTCAAAGCCCACCCGATTTTGGTCTATTTGAG
*
104161868 ACCTTTACTTTTCTTTTCTTTTTTTTCTTCTTT
66 ACCATTACTTTTCTTTTCTTTTTTTTCTTCTTT
104161901 CCTTTTTGGG
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
111 66 0.74
112 23 0.26
ACGTcount: A:0.13, C:0.20, G:0.12, T:0.54
Consensus pattern (113 bp):
GGGCCTATTTAAATTTTATTCTCTCTTGGGCCATTCAAAGCCCACCCGATTTTGGTCTATTTGAG
ACCATTACTTTTCTTTTCTTTTTTTTCTTCTTTTTTTCTTTCCTTTTT
Found at i:104162517 original size:143 final size:146
Alignment explanation
Indices: 104162317--104162604 Score: 438
Period size: 143 Copynumber: 2.0 Consensus size: 146
104162307 AATAGTTTAA
* *
104162317 AAATGAGAAAGTTTAGATTTTGAAAAAATAAAAATATGTTTTTTAATTATTTTAAAGGAAAGTTT
1 AAATGAGAAAGTTTAAATTTTG-AAAAATAAAAATATGTTTTTTAATTATTTAAAAGGAAAGTTT
*
104162382 AAAATTTTAAAACAAAGTTTTGA-TTTTTTTAACTACTTCAAAGTAAAAGCTTTAATCTTTAAGA
65 AAAATTTTAAAACAAAGTTTTGATTTTTTTTAACTACTTCAAAGTAAAAGATTTAATCTTTAAGA
104162446 AAAATAGTATTTTTTTC
130 AAAATAGTATTTTTTTC
* * *
104162463 AAATGAGAAAGTTTAAATTTTG-AAAA-AAAAATCTTTTTTTTAGTTATTTAAAAGGAAAGTTTA
1 AAATGAGAAAGTTTAAATTTTGAAAAATAAAAATATGTTTTTTAATTATTTAAAAGGAAAGTTTA
* * **
104162526 AATTTTTAAAACAAAGTTTTGATTTTTTTTTAACTACTTCAAAGTAAAATATTTAATCTTTACTA
66 AAATTTTAAAACAAAGTTTTGA-TTTTTTTTAACTACTTCAAAGTAAAAGATTTAATCTTTAAGA
*
104162591 AAAATAGTGTTTTT
130 AAAATAGTATTTTT
104162605 GTAACACCCC
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
143 54 0.42
144 4 0.03
145 50 0.39
146 21 0.16
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (146 bp):
AAATGAGAAAGTTTAAATTTTGAAAAATAAAAATATGTTTTTTAATTATTTAAAAGGAAAGTTTA
AAATTTTAAAACAAAGTTTTGATTTTTTTTAACTACTTCAAAGTAAAAGATTTAATCTTTAAGAA
AAATAGTATTTTTTTC
Found at i:104165647 original size:19 final size:20
Alignment explanation
Indices: 104165607--104165650 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
104165597 ATTTTGGGGG
**
104165607 TTTG-GGGGAAAGTAAATTT
1 TTTGAGGGGAAAGTAAAAGT
104165626 TTTGAGGGG-AAGTAAAAGT
1 TTTGAGGGGAAAGTAAAAGT
104165645 TTTGAG
1 TTTGAG
104165651 AATAAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (20 bp):
TTTGAGGGGAAAGTAAAAGT
Found at i:104165715 original size:75 final size:73
Alignment explanation
Indices: 104165561--104165717 Score: 212
Period size: 75 Copynumber: 2.1 Consensus size: 73
104165551 GGGTCTTAAA
*
104165561 GAAGTAAAAGTTTTTGGGAGAAAGTAAAAGGAAAAAATTTTGGGGGTTTGGGGGAAAGTAAATTT
1 GAAGTAAAAGTTTTTGGAAGAAAGTAAAAGGAAAAAATTTTGGGGGTTTGGGGGAAAGTAAATTT
*
104165626 TTTGAGGG
66 TTGGAGGG
* *
104165634 GAAGTAAAAG-TTTTGAGAATAAAGTAAAAAGGAAAAAAGTTTTAGGGGGTTT-GGGGAAATTAA
1 GAAGTAAAAGTTTTTG-GAAGAAAGT-AAAAGGAAAAAA-TTTT-GGGGGTTTGGGGGAAAGTAA
104165697 A-TTTTGGAGGG
62 ATTTTTGGAGGG
104165708 GAAAGTAAAA
1 G-AAGTAAAA
104165718 AGGTTTGGGG
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
72 5 0.07
73 17 0.23
74 22 0.29
75 23 0.31
76 8 0.11
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (73 bp):
GAAGTAAAAGTTTTTGGAAGAAAGTAAAAGGAAAAAATTTTGGGGGTTTGGGGGAAAGTAAATTT
TTGGAGGG
Found at i:104169805 original size:27 final size:28
Alignment explanation
Indices: 104169754--104169836 Score: 123
Period size: 27 Copynumber: 3.0 Consensus size: 28
104169744 CACTTTGTGC
104169754 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
104169783 TATTCTGGTGTGTTTGGGA-GATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
104169810 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
104169837 CTGGTGTGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 24 0.49
28 7 0.14
29 18 0.37
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.47
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:104170077 original size:22 final size:23
Alignment explanation
Indices: 104170040--104170084 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
104170030 GCTTTACTGA
104170040 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
104170063 TCAGGCAC-TTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
104170085 CTGATCAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:104175755 original size:4 final size:4
Alignment explanation
Indices: 104175746--104175776 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
104175736 TCTTTTCTCC
104175746 CTTT CTTT CTTT CTTT CTTT CCTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CT
104175777 CCCCTGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:104175758 original size:21 final size:21
Alignment explanation
Indices: 104175734--104175776 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
104175724 ACCTTAATTT
104175734 TTTCTTT-TCTCCCTTTCTTTC
1 TTTCTTTCT-TCCCTTTCTTTC
*
104175755 TTTCTTTCTTTCCTTTCTTTC
1 TTTCTTTCTTCCCTTTCTTTC
104175776 T
1 T
104175777 CCCCTGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTCTTTCTTCCCTTTCTTTC
Found at i:104177033 original size:24 final size:22
Alignment explanation
Indices: 104177006--104177063 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
104176996 TTAAGAAAAA
*
104177006 TAGTATTTTTTTAATTAAAAAGTT
1 TAGT-TTTTTTTAAATAAAAA-TT
*
104177030 TAGTTTTTTGTAAAATAAAAATT
1 TAGTTTTTT-TTAAATAAAAATT
104177053 T-GTTTTTTTTA
1 TAGTTTTTTTTA
104177064 GTTATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.07
22 7 0.23
23 8 0.27
24 13 0.43
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (22 bp):
TAGTTTTTTTTAAATAAAAATT
Found at i:104177094 original size:149 final size:145
Alignment explanation
Indices: 104176878--104177167 Score: 413
Period size: 149 Copynumber: 2.0 Consensus size: 145
104176868 AAAAAATGAG
104176878 AAAGTTTAGATTTTGCAAAAATAAAAAAATGTTTTTTTAGTTTTTAAAGGAAAGTTTAAATTTTT
1 AAAGTTTAGATTTTGCAAAAATAAAAAAATGTTTTTTTAGTTTTTAAAGGAAAGTTTAAATTTTT
* * * **
104176943 AAAATAAAATTTT-GATTTTTTTTTAAACTACTTCAAAGTAAAAGTTTTAATCTTTAAGAAAAAT
66 AAAACAAAATTTTAAACTTTTTTTT-AACTACTTCAAAGTAAAAACTTTAATCTTTAAGAAAAAT
104177007 AGTATTTTTTTAATTAA
130 AGT-TTTTTTTAATTAA
* * ** *
104177024 AAAGTTTAGTTTTTTG-TAAAATAAAAATTTGTTTTTTTTAGTTATTTTAATGGAAAGTTTAAAT
1 AAAGTTTAG-ATTTTGCAAAAATAAAAAAATG-TTTTTTTAG-T-TTTTAAAGGAAAGTTTAAAT
*
104177088 TTTTAAAACAAAATTTTAAACTTTTTTTTAACTACTTCAAAGTAAAAACTTTAATCTTTAATAAA
62 TTTTAAAACAAAATTTTAAACTTTTTTTTAACTACTTCAAAGTAAAAACTTTAATCTTTAAGAAA
104177153 AATAGTTTTTTTTAA
127 AATAGTTTTTTTTAA
104177168 AAAAGGAGAA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
146 21 0.16
147 14 0.11
148 10 0.08
149 74 0.58
150 9 0.07
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (145 bp):
AAAGTTTAGATTTTGCAAAAATAAAAAAATGTTTTTTTAGTTTTTAAAGGAAAGTTTAAATTTTT
AAAACAAAATTTTAAACTTTTTTTTAACTACTTCAAAGTAAAAACTTTAATCTTTAAGAAAAATA
GTTTTTTTTAATTAA
Found at i:104178831 original size:15 final size:15
Alignment explanation
Indices: 104178811--104178845 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
104178801 CATGGGCTAC
104178811 CTATGGATTAGAATG
1 CTATGGATTAGAATG
104178826 CTATGGATTAGAATG
1 CTATGGATTAGAATG
104178841 CTATG
1 CTATG
104178846 AATCGGGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (15 bp):
CTATGGATTAGAATG
Found at i:104187600 original size:18 final size:18
Alignment explanation
Indices: 104187558--104187591 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
104187548 CGAAGTCATG
104187558 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
104187576 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
104187592 TTATAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:104199259 original size:2 final size:2
Alignment explanation
Indices: 104199252--104199278 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
104199242 TTATTCTTAA
104199252 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
104199279 ATTCAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104200626 original size:12 final size:13
Alignment explanation
Indices: 104200589--104200623 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
104200579 AAATATTTGA
104200589 CTTGTTTTTAATT
1 CTTGTTTTTAATT
*
104200602 ATGTGTTTTTAATT
1 CT-TGTTTTTAATT
104200616 CTTGTTTT
1 CTTGTTTT
104200624 AATATTCCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (13 bp):
CTTGTTTTTAATT
Found at i:104206132 original size:15 final size:16
Alignment explanation
Indices: 104206112--104206144 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
104206102 TTTGGTTTAC
104206112 TGTAATGGAATAG-GT
1 TGTAATGGAATAGAGT
*
104206127 TGTAATTGAATAGAGT
1 TGTAATGGAATAGAGT
104206143 TG
1 TG
104206145 CAATAAGTAA
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:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:104206817 original size:14 final size:14
Alignment explanation
Indices: 104206798--104206828 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
104206788 ACAAACACAA
104206798 AAAAAATACAAAAT
1 AAAAAATACAAAAT
104206812 AAAAAATACAAAAT
1 AAAAAATACAAAAT
104206826 AAA
1 AAA
104206829 TTCACTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAATACAAAAT
Found at i:104207279 original size:28 final size:30
Alignment explanation
Indices: 104207233--104207292 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
104207223 AAAAGACTTG
104207233 AAAATTAAATATAACTTAACTTTAAT-TTTT
1 AAAATTAAATATAACTTAA-TTTAATATTTT
* *
104207263 AAAATTATAT-TAA-TTAATTTATTATTTT
1 AAAATTAAATATAACTTAATTTAATATTTT
104207291 AA
1 AA
104207293 CTATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 10 0.37
29 3 0.11
30 9 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (30 bp):
AAAATTAAATATAACTTAATTTAATATTTT
Found at i:104211906 original size:51 final size:51
Alignment explanation
Indices: 104211835--104211956 Score: 199
Period size: 51 Copynumber: 2.4 Consensus size: 51
104211825 CTAATCACAT
*
104211835 TTATCACTTGTTACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
104211886 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* * *
104211937 TTGTCGCTTGTCACTTATCA
1 TTATCACTTGTCACTGATCA
104211957 CTGATCAGAT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:104211938 original size:58 final size:58
Alignment explanation
Indices: 104211876--104212007 Score: 192
Period size: 58 Copynumber: 2.3 Consensus size: 58
104211866 CTAAAACTAC
* *
104211876 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTGTCACTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
* * * * *
104211934 CACTTGTCGCTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCATTTAT
1 CACTTGTCACTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
*
104211992 CACTTGTCACTGATCA
1 CACTTGTCACTTATCA
104212008 GAAGTACTCA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 64 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (58 bp):
CACTTGTCACTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:104211999 original size:51 final size:51
Alignment explanation
Indices: 104211838--104212007 Score: 187
Period size: 51 Copynumber: 3.2 Consensus size: 51
104211828 ATCACATTTA
* * * * *
104211838 TCACTTGTTACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTA
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCATTTATCACTTG
* *
104211889 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCGCTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCA-TT-T-A----TCACTTG
* *
104211947 TCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCATTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCATTTATCACTTG
*
104211998 TCACTGATCA
1 TCACTTATCA
104212008 GAAGTACTCA
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
51 53 0.52
52 1 0.01
53 1 0.01
54 1 0.01
55 1 0.01
56 1 0.01
57 2 0.02
58 42 0.41
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCATTTATCACTTG
Found at i:104218832 original size:51 final size:50
Alignment explanation
Indices: 104218773--104218877 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 50
104218763 TCCTTACTTG
104218773 AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAGA
1 AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATA-A
104218824 AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAA
1 AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAA
104218874 AATT
1 AATT
104218878 TCTCTTTTTG
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 5 0.09
51 49 0.91
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.40
Consensus pattern (50 bp):
AATTAATAATGTAATATATCATAATATACTTCCTATTGTTGACATAATAA
Found at i:104220886 original size:23 final size:23
Alignment explanation
Indices: 104220860--104220913 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
104220850 TAGATTTTTT
*
104220860 TTCTAAATATTATCATTAAAAAA
1 TTCTAAATATTATCACTAAAAAA
* *
104220883 TTCTAAATATTATTACTAAATAA
1 TTCTAAATATTATCACTAAAAAA
104220906 TTCTAAAT
1 TTCTAAAT
104220914 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (23 bp):
TTCTAAATATTATCACTAAAAAA
Found at i:104225558 original size:14 final size:14
Alignment explanation
Indices: 104225541--104225568 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
104225531 CAATTTATGC
104225541 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
104225555 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
104225569 CTTTAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTTATTTTTA
Found at i:104228418 original size:27 final size:27
Alignment explanation
Indices: 104228371--104228424 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
104228361 TTTAAAATTT
*
104228371 GAAAAAGTAAAAGATTAAATTCTTAAAA
1 GAAAAAGTAAAAAATTAAATTC-TAAAA
104228399 GAAAAA-TAAAAAAATT-AATTCTAAAA
1 GAAAAAGT-AAAAAATTAAATTCTAAAA
104228425 TTTAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.21
27 6 0.25
28 13 0.54
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (27 bp):
GAAAAAGTAAAAAATTAAATTCTAAAA
Found at i:104232718 original size:17 final size:18
Alignment explanation
Indices: 104232685--104232719 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
104232675 AAATTAGAGG
*
104232685 AGAATTTATGAGAGAAAA
1 AGAATTGATGAGAGAAAA
104232703 AGAATTGATG-GAGAAAA
1 AGAATTGATGAGAGAAAA
104232720 TTTGATGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.20
Consensus pattern (18 bp):
AGAATTGATGAGAGAAAA
Found at i:104233319 original size:11 final size:11
Alignment explanation
Indices: 104233303--104233327 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
104233293 TTTTTTTAAG
104233303 ACTAATATACT
1 ACTAATATACT
104233314 ACTAATATACT
1 ACTAATATACT
104233325 ACT
1 ACT
104233328 TTCGAGCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (11 bp):
ACTAATATACT
Found at i:104247745 original size:27 final size:26
Alignment explanation
Indices: 104247697--104247756 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
104247687 GCGAGGCTGC
*
104247697 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
104247724 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
104247750 CAGATAT
1 CAGATAT
104247757 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:104250332 original size:10 final size:10
Alignment explanation
Indices: 104250319--104250366 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
104250309 TTATTTTCAT
104250319 TTATCTTTAA
1 TTATCTTTAA
104250329 TTATCTTTAA
1 TTATCTTTAA
*
104250339 TTATCTTTAT
1 TTATCTTTAA
*
104250349 TTAT-TTGTAT
1 TTATCTT-TAA
104250359 TTATCTTT
1 TTATCTTT
104250367 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:104253728 original size:27 final size:23
Alignment explanation
Indices: 104253670--104253715 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
104253660 ATTTATGAAG
104253670 ATAAATCTGAATTTATATTTGAT
1 ATAAATCTGAATTTATATTTGAT
104253693 ATAAATCTGAATTTATATTTGAT
1 ATAAATCTGAATTTATATTTGAT
104253716 GATTATGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (23 bp):
ATAAATCTGAATTTATATTTGAT
Found at i:104256778 original size:15 final size:16
Alignment explanation
Indices: 104256740--104256771 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
104256730 CAACCCAACC
104256740 TTTAT-TTTTACTTAT
1 TTTATATTTTACTTAT
104256755 TTTATATTTT-CTTAT
1 TTTATATTTTACTTAT
104256770 TT
1 TT
104256772 CTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTATATTTTACTTAT
Found at i:104256783 original size:19 final size:20
Alignment explanation
Indices: 104256759--104256803 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
104256749 ACTTATTTTA
* *
104256759 TATTTTCTTATTTCTTA-TT
1 TATTTTATTATTTATTACTT
104256778 TATTTTATTATTTATTACTT
1 TATTTTATTATTTATTACTT
104256798 TATTTT
1 TATTTT
104256804 TGGATATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTTATTATTTATTACTT
Found at i:104259493 original size:29 final size:29
Alignment explanation
Indices: 104259460--104259533 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
104259450 GTGACGAGAT
104259460 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
104259489 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
104259518 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
104259534 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:104259549 original size:29 final size:29
Alignment explanation
Indices: 104259517--104259592 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
104259507 CTGGAAATAT
* *
104259517 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
104259546 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
104259575 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
104259593 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:104267367 original size:29 final size:29
Alignment explanation
Indices: 104267334--104267407 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
104267324 GTGACGAGAT
104267334 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
104267363 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
104267392 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
104267408 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:104267423 original size:29 final size:28
Alignment explanation
Indices: 104267391--104267465 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
104267381 CTGGAAATAT
* *
104267391 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
104267420 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
104267448 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
104267466 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:104267434 original size:58 final size:57
Alignment explanation
Indices: 104267334--104267465 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
104267324 GTGACGAGAT
* * * * * *
104267334 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
104267392 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
104267449 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
104267466 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:104270420 original size:96 final size:97
Alignment explanation
Indices: 104270256--104270439 Score: 280
Period size: 96 Copynumber: 1.9 Consensus size: 97
104270246 TTTTTAAGAA
* * * *
104270256 TGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATATCTCTTTGCGTCAAAAGGTTCG
1 TGTGTTGGGCTGAGTAACCGAGATGAGGTGCTTGACTGTCATATCTCTTCGCGTCAAAAGGTTCG
*
104270321 ATATGTTATTAAG-AAAAATAAAAATTAGGAG
66 ATATATTATTAAGCAAAAATAAAAATTAGGAG
* * *
104270352 TGTGTTGGGTTGAGTAACCGAGATGGGGTGCTTGACTGTCATCTCTCTTCGCGTCAAAAGGTTCG
1 TGTGTTGGGCTGAGTAACCGAGATGAGGTGCTTGACTGTCATATCTCTTCGCGTCAAAAGGTTCG
*
104270417 ATATATTCTTAAGCAAAAATAAA
66 ATATATTATTAAGCAAAAATAAA
104270440 TAAATATTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 69 0.88
97 9 0.12
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (97 bp):
TGTGTTGGGCTGAGTAACCGAGATGAGGTGCTTGACTGTCATATCTCTTCGCGTCAAAAGGTTCG
ATATATTATTAAGCAAAAATAAAAATTAGGAG
Found at i:104271092 original size:10 final size:10
Alignment explanation
Indices: 104271077--104271126 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
104271067 TAATTTTAGA
104271077 ATTTAT-TTT
1 ATTTATCTTT
104271086 CATTTATCTTT
1 -ATTTATCTTT
*
104271097 AATTATCTTT
1 ATTTATCTTT
104271107 ATTTAT-TTGT
1 ATTTATCTT-T
104271117 ATTTATCTTT
1 ATTTATCTTT
104271127 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:104277906 original size:18 final size:18
Alignment explanation
Indices: 104277883--104277986 Score: 63
Period size: 18 Copynumber: 5.8 Consensus size: 18
104277873 AAATTATCAC
104277883 TATTTTTATATATTATTA
1 TATTTTTATATATTATTA
*
104277901 TATTTTTCACATA-TATTA
1 TATTTTT-ATATATTATTA
*
104277919 TATATTTAT-TAATTATATA
1 TATTTTTATAT-ATTAT-TA
* * * *
104277938 TATATTTACATGTTATTT
1 TATTTTTATATATTATTA
* *
104277956 TA-TATTATAT-CTATTA
1 TATTTTTATATATTATTA
*
104277972 TAATTCTTATATATT
1 T-ATTTTTATATATT
104277987 TATATTACAT
Statistics
Matches: 65, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
16 6 0.09
17 8 0.12
18 31 0.48
19 19 0.29
20 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.60
Consensus pattern (18 bp):
TATTTTTATATATTATTA
Found at i:104277963 original size:44 final size:44
Alignment explanation
Indices: 104277911--104278029 Score: 132
Period size: 48 Copynumber: 2.6 Consensus size: 44
104277901 TATTTTTCAC
104277911 ATATATTATATATTTATTAATTATATATATAT-TTACATGTTATT
1 ATATATTATATATTTATT-ATTATATATATATATTACATGTTATT
* * * *
104277955 TTATATTATATCTATTATAATTCTTATATATTTATATTACATTTTATT
1 ATATATTATA--TATT-T-ATTATTATATATATATATTACATGTTATT
* *
104278003 ATATAATATATATTTATTTTTATATAT
1 ATATATTATATATTTATTATTATATAT
104278030 GTTATGTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
44 20 0.32
45 1 0.02
46 8 0.13
47 12 0.19
48 22 0.35
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (44 bp):
ATATATTATATATTTATTATTATATATATATATTACATGTTATT
Found at i:104286350 original size:15 final size:14
Alignment explanation
Indices: 104286304--104286370 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
104286294 GTTTGCAGGT
* * *
104286304 AAAATGTTTTCCGA
1 AAAATGATTTCTGG
*
104286318 AAAATGATTTCTGA
1 AAAATGATTTCTGG
*
104286332 AAAATAATTTCTTGG
1 AAAATGATTTC-TGG
104286347 AAAATGATTTCTGG
1 AAAATGATTTCTGG
104286361 AAAATGATTT
1 AAAATGATTT
104286371 ACTTTTCTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 35 0.74
15 12 0.26
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:104286815 original size:46 final size:46
Alignment explanation
Indices: 104286765--104286853 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 46
104286755 AGAAATTAAT
* *
104286765 AACATTATCCAAATT-CATAATTAGTATTACACCACATGATAACAAC
1 AACATTATCC-AATTGCATAACTAATATTACACCACATGATAACAAC
*
104286811 AACATTATCCAATTGCATAACTAATATTACACCATATGATAAC
1 AACATTATCCAATTGCATAACTAATATTACACCACATGATAAC
104286854 TAATATTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 4 0.10
46 35 0.90
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.29
Consensus pattern (46 bp):
AACATTATCCAATTGCATAACTAATATTACACCACATGATAACAAC
Found at i:104287887 original size:27 final size:30
Alignment explanation
Indices: 104287821--104287889 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 30
104287811 GTCAATCATT
*
104287821 TCAATATCCAACAAGCTTAAAACATAATAAAC
1 TCAATATCTAACAAGCTTAAAAC--AATAAAC
*
104287853 TCAATATCTAACAAGCTTGAAAC-AT-AA-
1 TCAATATCTAACAAGCTTAAAACAATAAAC
104287880 TCAATATCTA
1 TCAATATCTA
104287890 CAAAATCAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 10 0.29
28 2 0.06
29 2 0.06
32 21 0.60
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.26
Consensus pattern (30 bp):
TCAATATCTAACAAGCTTAAAACAATAAAC
Found at i:104290046 original size:3 final size:3
Alignment explanation
Indices: 104290038--104290134 Score: 194
Period size: 3 Copynumber: 32.3 Consensus size: 3
104290028 GGTTGAGTAG
104290038 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
104290086 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
104290134 T
1 T
104290135 TTTGTAATCA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:104293001 original size:20 final size:20
Alignment explanation
Indices: 104292964--104293003 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
104292954 CTTGGATTAG
*
104292964 ATTAAATTAATCTCTTTATT
1 ATTAAATTAATCTATTTATT
* *
104292984 ATTAAGTTAATTTATTTATT
1 ATTAAATTAATCTATTTATT
104293004 TTTATATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (20 bp):
ATTAAATTAATCTATTTATT
Found at i:104294108 original size:16 final size:16
Alignment explanation
Indices: 104294087--104294120 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
104294077 CCCTCTTATT
104294087 TATAATTATTGTTTAA
1 TATAATTATTGTTTAA
104294103 TATAATTATTGTTTAA
1 TATAATTATTGTTTAA
104294119 TA
1 TA
104294121 CGAGCATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TATAATTATTGTTTAA
Found at i:104298486 original size:143 final size:143
Alignment explanation
Indices: 104298242--104298827 Score: 765
Period size: 143 Copynumber: 4.1 Consensus size: 143
104298232 TGACTTTGAC
* * * * * *
104298242 CTGCTCTACTGCTACTTCAGAGAGATAAGATTCG---TAACTTGTAGCTTTAATCTGCTCCACCG
1 CTGCTCCACTGCAACTTCAGAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTG
* * * * * *
104298304 CAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCCGCTGTAACTCCAGAGAGATAAGGC
66 CAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGGC
104298369 TGGTGGCTTCAAT
131 TGGTGGCTTCAAT
* * *
104298382 CTACTCCACTGCAACTTTAGAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTATTCCACTG
1 CTGCTCCACTGCAACTTCAGAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTG
* * * * * * *
104298447 CAATGTCATGGAAATAAGATTCGCTGTCTTTAGTTTGCTCCACTACAACTTCA-AGGAGATAAAG
66 CAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGA-GAGATAAGG
*
104298511 CTGGTGGCTTTAAT
130 CTGGTGGCTTCAAT
* * *
104298525 CTGCTCCACTGCAACTTCA-AGAAGATAAGATCCGCCACAATTTGTAGCTTTAATCTGTTCTACT
1 CTGCTCCACTGCAACTTCAGA-AAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACT
*
104298589 GCAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACATT-AGGGAGATAAG
65 GCAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAAC-TTCAGAGAGATAAG
104298653 GCTGGTGGCTTCAAT
129 GCTGGTGGCTTCAAT
* * *
104298668 CTGCTCCACTACAACTTCAGGAAGATAAGA-TCTACCATAATTTGTAGCTTTAATCTGTTCCACT
1 CTGCTCCACTGCAACTTCAGAAAGATAAGATTC-GCCATAATTTGTAGCTTTAATCTGTTCCACT
*
104298732 GCAACGTCAAGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAG-GAAGATAAG
65 GCAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGAG-AGATAAG
*
104298796 GCTAGTGGCTTCAAT
129 GCTGGTGGCTTCAAT
* *
104298811 TTGCTCCACTGCTACTT
1 CTGCTCCACTGCAACTT
104298828 TAAGTAGATG
Statistics
Matches: 387, Mismatches: 48, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
140 29 0.07
142 6 0.02
143 350 0.90
144 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (143 bp):
CTGCTCCACTGCAACTTCAGAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTG
CAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGGC
TGGTGGCTTCAAT
Found at i:104299439 original size:65 final size:65
Alignment explanation
Indices: 104299327--104299452 Score: 182
Period size: 65 Copynumber: 1.9 Consensus size: 65
104299317 ATAATGATGG
* * * *
104299327 ATAAAAAAGAAATTGATTGAAAGCATAGCTTAAGACGACTAAGTTAATCAAAGATGGCAAATACA
1 ATAAAAAAGAAATTGATTGAAAGCATAGCTGAAGACGAATAAATTAATCAAAGATAGCAAATACA
* *
104299392 ATAAGAAAGAAATTGATTGAGAGCATAGCTCGAA-ACGAATAAATTAATCAAAGATAGCAAA
1 ATAAAAAAGAAATTGATTGAAAGCATAGCT-GAAGACGAATAAATTAATCAAAGATAGCAAA
104299453 CTATACTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 52 0.96
66 2 0.04
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (65 bp):
ATAAAAAAGAAATTGATTGAAAGCATAGCTGAAGACGAATAAATTAATCAAAGATAGCAAATACA
Found at i:104300231 original size:26 final size:26
Alignment explanation
Indices: 104300202--104300283 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
104300192 TGGTACAAAT
104300202 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
104300228 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
104300254 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
104300280 TGAT
1 TGAT
104300284 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:104302969 original size:1 final size:1
Alignment explanation
Indices: 104302959--104303071 Score: 82
Period size: 1 Copynumber: 113.0 Consensus size: 1
104302949 TAGCCTCTCC
* * * * * * * ** *
104302959 TTTTTCTTTTTTTTTTTTTCTTTTCTTTTCTTTTTTTGTTTTTTCTTTTCTTTTCATTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * *
104303024 TTCTTTTTATTTTTTTCTTTTTCTTTTTTCTTTTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
104303072 AAGGTGAAGT
Statistics
Matches: 81, Mismatches: 31, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 81 1.00
ACGTcount: A:0.03, C:0.11, G:0.01, T:0.86
Consensus pattern (1 bp):
T
Found at i:104302981 original size:20 final size:20
Alignment explanation
Indices: 104302958--104303060 Score: 129
Period size: 20 Copynumber: 5.0 Consensus size: 20
104302948 TTAGCCTCTC
104302958 CTTTTTCTTTTTTTTTTTTT
1 CTTTTTCTTTTTTTTTTTTT
*
104302978 C-TTTTCTTTTCTTTTTTTGT
1 CTTTTTCTTTT-TTTTTTTTT
104302998 -TTTTTCTTTTCTTTTCATTTTT
1 CTTTTTCTTTT-TTTT--TTTTT
*
104303020 CTTTTTCTTTTTATTTTTTT
1 CTTTTTCTTTTTTTTTTTTT
104303040 CTTTTTCTTTTTTCTTTTTTT
1 CTTTTTCTTTTTT-TTTTTTT
104303061 TTTATTTTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
19 9 0.12
20 40 0.55
21 7 0.10
22 7 0.10
23 10 0.14
ACGTcount: A:0.02, C:0.13, G:0.01, T:0.84
Consensus pattern (20 bp):
CTTTTTCTTTTTTTTTTTTT
Found at i:104303001 original size:32 final size:31
Alignment explanation
Indices: 104302959--104303071 Score: 133
Period size: 32 Copynumber: 3.6 Consensus size: 31
104302949 TAGCCTCTCC
*
104302959 TTTTTCTTTTTTTTTTTTTCTTTTCTTTTCTT
1 TTTTTCTTTTTATTTTTTTCTTTTCTTTT-TT
* * *
104302991 TTTTT-GTTTT-TTCTTTTCTTTTCATTTTTC
1 TTTTTCTTTTTATTTTTTTCTTTTC-TTTTTT
104303021 TTTTTCTTTTTATTTTTTTCTTTTTCTTTTTT
1 TTTTTCTTTTTATTTTTTTC-TTTTCTTTTTT
104303053 CTTTTT-TTTTTATTTTTTT
1 -TTTTTCTTTTTATTTTTTT
104303072 AAGGTGAAGT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
30 18 0.26
31 12 0.17
32 30 0.43
33 10 0.14
ACGTcount: A:0.03, C:0.11, G:0.01, T:0.86
Consensus pattern (31 bp):
TTTTTCTTTTTATTTTTTTCTTTTCTTTTTT
Found at i:104304654 original size:88 final size:81
Alignment explanation
Indices: 104304503--104304660 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
104304493 AGGAATATCC
* * *
104304503 AAAGAATAAAAGAATTTAAGAATAATTATTTATATGGTATGATCATGAATGAAGAATAAAAGAAT
1 AAAGAACAAAAGAATTTAAGAATAATTATCTATATGGTATGATAATGAATGAAGAATAAAAGAAT
104304568 ATTTGAAAGGAAGTCT
66 ATTTGAAAGGAAGTCT
*
104304584 AAAGAACAAAAGAATTTAAGAATAATTATCTATATAGGATGATTATGAATGAAATGGAAAGAATA
1 AAAGAACAAAAGAATTTAAGAATAATTATCTATAT-GG-T-ATGAT-AATG-AAT-G-AAGAATA
104304649 AAAGAATATTTG
59 AAAGAATATTTG
104304661 CTCAAAGTGA
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
81 33 0.50
82 2 0.03
83 1 0.02
84 4 0.06
85 3 0.05
86 3 0.05
87 1 0.02
88 19 0.29
ACGTcount: A:0.52, C:0.03, G:0.17, T:0.28
Consensus pattern (81 bp):
AAAGAACAAAAGAATTTAAGAATAATTATCTATATGGTATGATAATGAATGAAGAATAAAAGAAT
ATTTGAAAGGAAGTCT
Found at i:104307250 original size:131 final size:130
Alignment explanation
Indices: 104307082--104307316 Score: 325
Period size: 131 Copynumber: 1.8 Consensus size: 130
104307072 CTTTAAATTG
** * *
104307082 TTTTATTTTAAAATTTGTACTTTGATTTTTAAAAGGATATTCGGTTGTTT-AGATCCAACGAGAA
1 TTTTATTTTAAAATTTGTACTTTGAAATTTAAAAGGATATTCGGCTATTTAAG-TCCAACGAGAA
104307146 AAA-TCGAAACCCCGTAAGTTAGGGCACGA-CTTTCTCGAATTTCTAAACACGGAATATTGCTTT
65 AAACT-GAAACCCCGTAAGTTAGGGCACGATC-TTCTCGAATTTCTAAACACGGAATATTGCTTT
104307209 TAC
128 TAC
* * *
104307212 TTTTA-TTTAAAATTCATGTATTTTGAAATTTAAAAGGATGTTCGGCTATTTAAGTTCAACGAGA
1 TTTTATTTTAAAATT--TGTACTTTGAAATTTAAAAGGATATTCGGCTATTTAAGTCCAACGAGA
*
104307276 AAAACTGAAACCCCGTAAGTTAGGGTACGATCTTCTCGAAT
64 AAAACTGAAACCCCGTAAGTTAGGGCACGATCTTCTCGAAT
104307317 CTCCAAAATT
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
129 9 0.10
130 5 0.05
131 74 0.80
132 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (130 bp):
TTTTATTTTAAAATTTGTACTTTGAAATTTAAAAGGATATTCGGCTATTTAAGTCCAACGAGAAA
AACTGAAACCCCGTAAGTTAGGGCACGATCTTCTCGAATTTCTAAACACGGAATATTGCTTTTAC
Found at i:104307716 original size:3 final size:3
Alignment explanation
Indices: 104307702--104307763 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
104307692 TATATAAATA
*
104307702 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
104307750 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
104307764 AAGCAAGTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:104313895 original size:30 final size:31
Alignment explanation
Indices: 104313861--104313925 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
104313851 ACGTAATTAA
*
104313861 AAAAGTTATAAATTAA-TCACTAAATTATTC
1 AAAAGTTATAAATTAAGTCACTAAACTATTC
* * * *
104313891 AAAAGTTTTTATTTAAGTCAGTAAACTATTC
1 AAAAGTTATAAATTAAGTCACTAAACTATTC
104313922 AAAA
1 AAAA
104313926 ATTTTTATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (31 bp):
AAAAGTTATAAATTAAGTCACTAAACTATTC
Found at i:104313923 original size:31 final size:31
Alignment explanation
Indices: 104313873--104313943 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
104313863 AAGTTATAAA
* *
104313873 TTAA-TCACTAAATTATTCAAAAGTTTTTAT
1 TTAAGTCACTAAACTATTCAAAAATTTTTAT
*
104313903 TTAAGTCAGTAAACTATTCAAAAATTTTTAT
1 TTAAGTCACTAAACTATTCAAAAATTTTTAT
*
104313934 TAAAGTCACT
1 TTAAGTCACT
104313944 GAGTTGTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 4 0.11
31 31 0.89
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.42
Consensus pattern (31 bp):
TTAAGTCACTAAACTATTCAAAAATTTTTAT
Found at i:104317762 original size:24 final size:25
Alignment explanation
Indices: 104317735--104317783 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
104317725 AAATTTTCTG
104317735 AGATTCAAGAAGAGATTTTT-TTTT
1 AGATTCAAGAAGAGATTTTTCTTTT
* *
104317759 AGATTCAAGAGGGGATTTTTCTTTT
1 AGATTCAAGAAGAGATTTTTCTTTT
104317784 TTTTAAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (25 bp):
AGATTCAAGAAGAGATTTTTCTTTT
Found at i:104318260 original size:3 final size:3
Alignment explanation
Indices: 104318252--104318288 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
104318242 TGCATTTTAA
104318252 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
104318289 GTGTATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:104318390 original size:3 final size:3
Alignment explanation
Indices: 104318382--104318417 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
104318372 TGTATTTCTA
104318382 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
104318418 AATATGGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:104318546 original size:16 final size:15
Alignment explanation
Indices: 104318515--104318557 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
104318505 CCTTCATTCC
*
104318515 ATTATTATTATTACT
1 ATTATTATTTTTACT
104318530 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
104318546 ATCATTATTTTT
1 ATTATTATTTTT
104318558 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:104318681 original size:16 final size:16
Alignment explanation
Indices: 104318660--104318691 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
104318650 CTATTGTTAC
104318660 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
104318676 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
104318692 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:104318733 original size:11 final size:13
Alignment explanation
Indices: 104318703--104318734 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
104318693 TTATTATAAT
104318703 TTATTATTGTTAC
1 TTATTATTGTTAC
104318716 TTATTATT-TTAC
1 TTATTATTGTTAC
104318728 -TATTATT
1 TTATTATT
104318735 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:104318839 original size:12 final size:13
Alignment explanation
Indices: 104318804--104318841 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
104318794 TAGCACTACT
104318804 TTTATTACTATTA
1 TTTATTACTATTA
*
104318817 TTTAATA-TATTA
1 TTTATTACTATTA
104318829 TTT-TTACTATTA
1 TTTATTACTATTA
104318841 T
1 T
104318842 CGTCATATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 2 0.09
12 14 0.64
13 6 0.27
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATTACTATTA
Found at i:104318910 original size:22 final size:22
Alignment explanation
Indices: 104318873--104318940 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
104318863 TATTATGTTA
104318873 TTATATCTTTTACTATTATTATTG
1 TTATAT-TTTT-CTATTATTATTG
* * *
104318897 TTGTATTTTTCTATTATTGTTA
1 TTATATTTTTCTATTATTATTG
*
104318919 TTATATTTTTCT-TTATTTTTG
1 TTATATTTTTCTATTATTATTG
104318940 T
1 T
104318941 ATTTACTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.21
22 21 0.55
23 4 0.11
24 5 0.13
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (22 bp):
TTATATTTTTCTATTATTATTG
Found at i:104322861 original size:15 final size:14
Alignment explanation
Indices: 104322841--104322870 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
104322831 TTTACTTTCC
104322841 AGAGAG-GTAGAAA
1 AGAGAGAGTAGAAA
104322854 AGAGAGAGTAGAAA
1 AGAGAGAGTAGAAA
104322868 AGA
1 AGA
104322871 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.57, C:0.00, G:0.37, T:0.07
Consensus pattern (14 bp):
AGAGAGAGTAGAAA
Found at i:104327028 original size:51 final size:52
Alignment explanation
Indices: 104326973--104327102 Score: 209
Period size: 51 Copynumber: 2.6 Consensus size: 52
104326963 TGATACAAAT
104326973 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
*
104327024 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
104327076 TGATAAT--G--AGGTAAATGTT-CATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
104327103 GAATCATGTC
Statistics
Matches: 77, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
47 8 0.10
48 11 0.14
50 1 0.01
51 33 0.43
52 24 0.31
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
Found at i:104327042 original size:26 final size:25
Alignment explanation
Indices: 104326973--104327102 Score: 196
Period size: 26 Copynumber: 5.2 Consensus size: 25
104326963 TGATACAAAT
104326973 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
104326999 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
104327024 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
104327050 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
104327076 TGATAAT-G--AGGTAAATGTT-CA
1 TGATAATGGTTAGGTAAATGTTCCA
104327097 TGATAA
1 TGATAA
104327103 GAATCATGTC
Statistics
Matches: 101, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
21 8 0.08
22 11 0.11
24 1 0.01
25 25 0.25
26 56 0.55
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:104332846 original size:26 final size:26
Alignment explanation
Indices: 104332787--104332921 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
104332777 TGATACAAAT
104332787 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
104332812 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
104332838 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
104332864 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
104332890 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
104332916 TGATAA
1 TGATAA
104332922 GAATTCATGT
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:104339408 original size:39 final size:39
Alignment explanation
Indices: 104339354--104339433 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
104339344 ACTTGGTTTG
104339354 CTTGAGGACAAGCAAAAAGTTAAGTGTGGGAGTGGTGAT
1 CTTGAGGACAAGCAAAAAGTTAAGTGTGGGAGTGGTGAT
104339393 CTTGAGGACAAGCAAAAAGTTAAGTGTGGGAGTGGTGAT
1 CTTGAGGACAAGCAAAAAGTTAAGTGTGGGAGTGGTGAT
104339432 CT
1 CT
104339434 GCCATGATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.33, C:0.09, G:0.35, T:0.24
Consensus pattern (39 bp):
CTTGAGGACAAGCAAAAAGTTAAGTGTGGGAGTGGTGAT
Found at i:104344181 original size:19 final size:19
Alignment explanation
Indices: 104344157--104344193 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
104344147 ATCCCAAGAG
104344157 TGAGAACAATAGAAAAATT
1 TGAGAACAATAGAAAAATT
104344176 TGAGAACAATAGAAAAAT
1 TGAGAACAATAGAAAAAT
104344194 CAAAATTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.19
Consensus pattern (19 bp):
TGAGAACAATAGAAAAATT
Found at i:104346557 original size:6 final size:6
Alignment explanation
Indices: 104346546--104346577 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
104346536 TTGTTATTGA
104346546 TAGTGC TAGTGC TAGTGC TAGTGC TAGTGC TA
1 TAGTGC TAGTGC TAGTGC TAGTGC TAGTGC TA
104346578 TTAAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (6 bp):
TAGTGC
Found at i:104348676 original size:2 final size:2
Alignment explanation
Indices: 104348669--104348696 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
104348659 CCCTCACTTT
104348669 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
104348697 AAAGAGACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:104350232 original size:31 final size:27
Alignment explanation
Indices: 104350178--104350233 Score: 67
Period size: 30 Copynumber: 1.9 Consensus size: 27
104350168 AGTGGATTTT
*
104350178 TATAAAATTTATTTTTCACCTATATGA
1 TATAAAATTTATTTTTAACCTATATGA
104350205 TATAACAATTTCATATTTTAACACTATAT
1 TATAA-AATTT-AT-TTTTAAC-CTATAT
104350234 TTACTATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.21
28 5 0.21
29 2 0.08
30 6 0.25
31 6 0.25
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.46
Consensus pattern (27 bp):
TATAAAATTTATTTTTAACCTATATGA
Found at i:104354031 original size:17 final size:18
Alignment explanation
Indices: 104353993--104354031 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
104353983 TTAATAAATT
*
104353993 AATTTAAAAATATATATT
1 AATTTAAAAATATATATA
*
104354011 AATTTAAAAA-ATCTATA
1 AATTTAAAAATATATATA
104354028 AATT
1 AATT
104354032 AAACAACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTAAAAATATATATA
Found at i:104354440 original size:5 final size:5
Alignment explanation
Indices: 104354430--104354461 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
104354420 GCTTAGGTTT
*
104354430 TTTTC TTTTC TTTTC TTTTC TTCTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
104354462 GCTTTTGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:104355744 original size:19 final size:19
Alignment explanation
Indices: 104355706--104355768 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
104355696 TAAATTAATC
***
104355706 ATATATTTATTTTGGATAA
1 ATATATTTATTTTATTTAA
104355725 ATATATTTATTTTATTTAAA
1 ATATATTTATTTTATTT-AA
* ** *
104355745 ATAAATAAATATTATTTAA
1 ATATATTTATTTTATTTAA
104355764 ATATA
1 ATATA
104355769 AATAGATTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATATATTTATTTTATTTAA
Found at i:104359502 original size:26 final size:27
Alignment explanation
Indices: 104359473--104359537 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 27
104359463 AACAGTTTTA
* *
104359473 AAAAAAAACTAAGTAAC-AAATAAATT
1 AAAAAAAACTAAATAACTAAATAAACT
* *
104359499 AAAAGAAA-TAAATAACTACATAAACT
1 AAAAAAAACTAAATAACTAAATAAACT
*
104359525 AAAATAAAC-AAAT
1 AAAAAAAACTAAAT
104359538 TCAATTGAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 7 0.22
26 25 0.78
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.18
Consensus pattern (27 bp):
AAAAAAAACTAAATAACTAAATAAACT
Found at i:104364354 original size:24 final size:25
Alignment explanation
Indices: 104364322--104364424 Score: 156
Period size: 24 Copynumber: 4.2 Consensus size: 25
104364312 CATGAAATTC
104364322 ATCATGAACATTTACCTAA-CCATT
1 ATCATGAACATTTACCTAACCCATT
104364346 ATCATGAACATTTACCTAACCCATT
1 ATCATGAACATTTACCTAACCCATT
* *
104364371 ATCATGGAATATTTACCTAATCCATT
1 ATCAT-GAACATTTACCTAACCCATT
*
104364397 GTCATGAACATTTACCTAA-CCATT
1 ATCATGAACATTTACCTAACCCATT
104364421 ATCA
1 ATCA
104364425 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
24 27 0.38
25 23 0.32
26 22 0.31
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCATGAACATTTACCTAACCCATT
Found at i:104364402 original size:51 final size:48
Alignment explanation
Indices: 104364322--104364424 Score: 161
Period size: 51 Copynumber: 2.1 Consensus size: 48
104364312 CATGAAATTC
104364322 ATCATGAACATTTACCTAACCATTATCATGAACATTTACCTAACCCATT
1 ATCATGAACATTTACCTAACCATTATCATGAACATTTACCTAA-CCATT
* *
104364371 ATCATGGAATATTTACCTAATCCATTGTCATGAACATTTACCTAACCATT
1 ATCAT-GAACATTTACCTAA-CCATTATCATGAACATTTACCTAACCATT
104364421 ATCA
1 ATCA
104364425 ATTTGTATCA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
49 5 0.10
50 22 0.44
51 23 0.46
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCATGAACATTTACCTAACCATTATCATGAACATTTACCTAACCATT
Found at i:104370037 original size:26 final size:26
Alignment explanation
Indices: 104370006--104370113 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
104369996 ATGAAATTCC
*
104370006 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
104370032 ATCATGGAACATTTACCTTACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
104370058 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
104370084 GTCATTGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104370110 ATCA
1 ATCA
104370114 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:104375634 original size:56 final size:56
Alignment explanation
Indices: 104375548--104375660 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
104375538 GAAAAATAGA
* *
104375548 TAGCTATCTATTTTTCCTCTGAAATCTCTAAGAAGAAGATGTCGAGTGGAGAGCCC
1 TAGCTATCTATTTTTCCTCTAAAATCTCTAAGAAGAAGACGTCGAGTGGAGAGCCC
104375604 TAGCTATCTATTTTTCCTCTAAAATCTCTAAGAAGAAGACGTCGAGTGGAGAGCCC
1 TAGCTATCTATTTTTCCTCTAAAATCTCTAAGAAGAAGACGTCGAGTGGAGAGCCC
104375660 T
1 T
104375661 TTGGATGGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (56 bp):
TAGCTATCTATTTTTCCTCTAAAATCTCTAAGAAGAAGACGTCGAGTGGAGAGCCC
Found at i:104378878 original size:46 final size:45
Alignment explanation
Indices: 104378828--104379003 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
104378818 TGGTTGAGCA
104378828 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
104378874 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
104378919 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
104378967 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104379004 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:104378984 original size:93 final size:93
Alignment explanation
Indices: 104378825--104378996 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
104378815 GGATGGTTGA
* * *
104378825 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
104378890 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
104378918 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
104378983 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
104378997 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:104383111 original size:17 final size:17
Alignment explanation
Indices: 104383089--104383122 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
104383079 TTTATTTCCC
*
104383089 ATATATTATTTATTTTA
1 ATATATTATTTACTTTA
*
104383106 ATATATTCTTTACTTTA
1 ATATATTATTTACTTTA
104383123 GATTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTACTTTA
Found at i:104383451 original size:26 final size:27
Alignment explanation
Indices: 104383422--104383478 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
104383412 TTTAAACTCC
*
104383422 TTTACATATTATTTATTTTAAA-TATT
1 TTTACATATTATTTACTTTAAACTATT
* *
104383448 TTTATATGTTATTTACTTTAAACTATT
1 TTTACATATTATTTACTTTAAACTATT
104383475 TTTA
1 TTTA
104383479 TTATATGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTACATATTATTTACTTTAAACTATT
Found at i:104383767 original size:25 final size:25
Alignment explanation
Indices: 104383729--104383787 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 25
104383719 ATATTATTTT
104383729 ATTGTTTTGAATATTAATGATTTTTAA
1 ATTGTTTT-AATATTAATGA-TTTTAA
* *
104383756 ATTGTTTT-ATATTATTTATTTTAA
1 ATTGTTTTAATATTAATGATTTTAA
104383780 ATTGTTTT
1 ATTGTTTT
104383788 TATAGTATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 14 0.47
25 8 0.27
27 8 0.27
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (25 bp):
ATTGTTTTAATATTAATGATTTTAA
Found at i:104383782 original size:24 final size:25
Alignment explanation
Indices: 104383750--104383805 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
104383740 TATTAATGAT
* *
104383750 TTTTAAATTG-TTTTATATTATTTA
1 TTTTAAATTGTTTTTATAGTATCTA
104383774 TTTTAAATTGTTTTTATAGTATCTA
1 TTTTAAATTGTTTTTATAGTATCTA
*
104383799 TTCTAAA
1 TTTTAAA
104383806 CCTTTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (25 bp):
TTTTAAATTGTTTTTATAGTATCTA
Found at i:104388490 original size:5 final size:5
Alignment explanation
Indices: 104388482--104388565 Score: 66
Period size: 5 Copynumber: 16.8 Consensus size: 5
104388472 TAAAAAAACA
* * * * *
104388482 AAAAG AAAAG AAAAG AAAAG AAAAC ACAAAA AAAAC AACAAA AAAAG -AAGG
1 AAAAG AAAAG AAAAG AAAAG AAAAG A-AAAG AAAAG AA-AAG AAAAG AAAAG
*
104388533 AAAA- AGAAAC AAAA- AAAAG AAAAG AAAAG AAAA
1 AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG AAAA
104388566 AGGAGAGGCC
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
4 8 0.12
5 49 0.74
6 9 0.14
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:104389889 original size:2 final size:2
Alignment explanation
Indices: 104389882--104389928 Score: 60
Period size: 2 Copynumber: 23.5 Consensus size: 2
104389872 TATAACAGTG
* *
104389882 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA -A TA TA CA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
104389924 TA TA T
1 TA TA T
104389929 TTAAAAATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 37 0.95
3 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:104394753 original size:20 final size:20
Alignment explanation
Indices: 104394687--104394753 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
104394677 GTATATATAT
*
104394687 ATAATAATAATGGT-ATAGTA
1 ATAATAAT-ATGATAATAGTA
* *
104394707 AAAATGATA--ATAATA-TA
1 ATAATAATATGATAATAGTA
*
104394724 TTAATGAATATGATAATAGTA
1 ATAAT-AATATGATAATAGTA
104394745 ATAATAATA
1 ATAATAATA
104394754 ACAGTTAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
17 6 0.17
18 6 0.17
19 1 0.03
20 16 0.46
21 6 0.17
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (20 bp):
ATAATAATATGATAATAGTA
Done.