Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 19 of 141
Found at i:6107665 original size:24 final size:24
Alignment explanation
Indices: 6107595--6107666 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 24
6107585 NNNTATTCAC
* * *
6107595 TAATTATATTTATATTTAATATAATA
1 TAATAATATTTA-ATTTAAAAT-ATT
6107621 TAATAAT-TTT-A--TAAAATTATT
1 TAATAATATTTAATTTAAAA-TATT
6107642 TAATAATATTTAATTTAAAATATT
1 TAATAATATTTAATTTAAAATATT
6107666 T
1 T
6107667 TTAGTTTATC
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
21 13 0.34
22 4 0.11
23 2 0.05
24 5 0.13
25 8 0.21
26 6 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TAATAATATTTAATTTAAAATATT
Found at i:6131839 original size:16 final size:17
Alignment explanation
Indices: 6131808--6131840 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6131798 AACCACCTTC
6131808 CCTTATTCAGTGTTTCA
1 CCTTATTCAGTGTTTCA
*
6131825 CCTTATT-ATTGTTTCA
1 CCTTATTCAGTGTTTCA
6131841 ATCAAACCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.18, C:0.21, G:0.09, T:0.52
Consensus pattern (17 bp):
CCTTATTCAGTGTTTCA
Found at i:6133966 original size:16 final size:16
Alignment explanation
Indices: 6133947--6133977 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6133937 ATACAACTAA
*
6133947 ACTTAAATTAGAATAT
1 ACTTAAATAAGAATAT
6133963 ACTTAAATAAGAATA
1 ACTTAAATAAGAATA
6133978 AATATAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (16 bp):
ACTTAAATAAGAATAT
Found at i:6137825 original size:26 final size:25
Alignment explanation
Indices: 6137773--6137822 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
6137763 TGGTGTCTTA
6137773 ATTTTAAGTATTTTTTTATAAATTT
1 ATTTTAAGTATTTTTTTATAAATTT
*
6137798 ATTTTAAGT-TATTTTTTATAGATTT
1 ATTTTAAGTAT-TTTTTTATAAATTT
6137823 TATATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (25 bp):
ATTTTAAGTATTTTTTTATAAATTT
Found at i:6146276 original size:18 final size:18
Alignment explanation
Indices: 6146255--6146292 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6146245 TATATAGAGA
*
6146255 AAGTATAATAATAAAAAT
1 AAGTATAAAAATAAAAAT
6146273 AAGTATAAAAATAAAAAT
1 AAGTATAAAAATAAAAAT
6146291 AA
1 AA
6146293 CAATAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AAGTATAAAAATAAAAAT
Found at i:6146298 original size:18 final size:18
Alignment explanation
Indices: 6146259--6146298 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6146249 TAGAGAAAGT
* **
6146259 ATAATAATAAAAATAAGT
1 ATAAAAATAAAAATAACA
6146277 ATAAAAATAAAAATAACA
1 ATAAAAATAAAAATAACA
6146295 ATAA
1 ATAA
6146299 TTTCCTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
ATAAAAATAAAAATAACA
Found at i:6147479 original size:25 final size:26
Alignment explanation
Indices: 6147428--6147480 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
6147418 GTTGGTTTGC
6147428 TGGGCTAGGCTTAATGGGTTTAGGTT
1 TGGGCTAGGCTTAATGGGTTTAGGTT
6147454 TGGGCTAGG-TTAATAGGGTTTA-GTT
1 TGGGCTAGGCTTAAT-GGGTTTAGGTT
6147479 TG
1 TG
6147481 CTGGGCTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.17, C:0.06, G:0.38, T:0.40
Consensus pattern (26 bp):
TGGGCTAGGCTTAATGGGTTTAGGTT
Found at i:6148178 original size:29 final size:29
Alignment explanation
Indices: 6148140--6148214 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
6148130 TTTTTTATCA
*
6148140 ATTTACCGAAATGGGTCCGGTATTTTATT
1 ATTTACCGAAATGGGCCCGGTATTTTATT
*
6148169 ATTTATCGAAATGGGCCCGGTATTTTATT
1 ATTTACCGAAATGGGCCCGGTATTTTATT
*
6148198 ATTTACCGGAATGGGCC
1 ATTTACCGAAATGGGCC
6148215 ATTTTCCGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (29 bp):
ATTTACCGAAATGGGCCCGGTATTTTATT
Found at i:6148880 original size:11 final size:11
Alignment explanation
Indices: 6148860--6148911 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
6148850 GAAATTTGGA
* *
6148860 AGGAATTTGAT
1 AGGAAATTGAG
*
6148871 AGCAAATTGAG
1 AGGAAATTGAG
*
6148882 AGGAAATTTAG
1 AGGAAATTGAG
6148893 AGGAAATTGAG
1 AGGAAATTGAG
*
6148904 AGAAAATT
1 AGGAAATT
6148912 TGATAGGGAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.46, C:0.02, G:0.27, T:0.25
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:6148885 original size:22 final size:22
Alignment explanation
Indices: 6148860--6148917 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
6148850 GAAATTTGGA
6148860 AGGAATTTGATAGCAAATTGAG
1 AGGAATTTGATAGCAAATTGAG
* *
6148882 AGGAAATTT-AGAGGAAATTGAG
1 AGG-AATTTGATAGCAAATTGAG
*
6148904 AGAAAATTTGATAG
1 AG-GAATTTGATAG
6148918 GGATTAGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.45, C:0.02, G:0.28, T:0.26
Consensus pattern (22 bp):
AGGAATTTGATAGCAAATTGAG
Found at i:6156237 original size:45 final size:46
Alignment explanation
Indices: 6156156--6156242 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 46
6156146 GTAGCTTGAA
* *
6156156 GAGGGGCTATAAGCTTTAGGATTCAAATCACGGATACAAAGCAGTC
1 GAGGGGCTATAAGCTTTAGGAGTCAAATCACAGATACAAAGCAGTC
* *
6156202 GAGGGGCTATAAGC-TTAGGAGTCGAATCACAGATACGAAGC
1 GAGGGGCTATAAGCTTTAGGAGTCAAATCACAGATACAAAGC
6156243 GACTGCTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 23 0.62
46 14 0.38
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (46 bp):
GAGGGGCTATAAGCTTTAGGAGTCAAATCACAGATACAAAGCAGTC
Found at i:6160426 original size:23 final size:21
Alignment explanation
Indices: 6160381--6160423 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
6160371 TTTTTTACAC
6160381 TTTTTAAATTTTTAAAAATAA
1 TTTTTAAATTTTTAAAAATAA
6160402 TTTTTATAATTTTTAAAAATAA
1 TTTTTA-AATTTTTAAAAATAA
6160424 ATTAAATGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTTAAATTTTTAAAAATAA
Found at i:6161192 original size:22 final size:25
Alignment explanation
Indices: 6161150--6161197 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 25
6161140 CCTTTAATCT
6161150 TAGTATTTTAATTAAAATATATTTA
1 TAGTATTTTAATTAAAATATATTTA
6161175 TAGT-TTTTAA-T-AAATATATTTA
1 TAGTATTTTAATTAAAATATATTTA
6161197 T
1 T
6161198 TATATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.52
23 1 0.04
24 6 0.26
25 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
TAGTATTTTAATTAAAATATATTTA
Found at i:6161209 original size:27 final size:26
Alignment explanation
Indices: 6161169--6161219 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
6161159 AATTAAAATA
*
6161169 TATTTATAGTTTTTAATAAATATATT
1 TATTTATAATTTTTAATAAATATATT
*
6161195 TATTATATAATTTTTAATGAATATA
1 TATT-TATAATTTTTAATAAATATA
6161220 GCATAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (26 bp):
TATTTATAATTTTTAATAAATATATT
Found at i:6170448 original size:16 final size:16
Alignment explanation
Indices: 6170427--6170457 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6170417 TACCACATGA
6170427 TTAAAAATATATATTT
1 TTAAAAATATATATTT
*
6170443 TTAAAAATATTTATT
1 TTAAAAATATATATT
6170458 AAAATTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAAATATATATTT
Found at i:6170533 original size:39 final size:39
Alignment explanation
Indices: 6170490--6170611 Score: 99
Period size: 39 Copynumber: 3.1 Consensus size: 39
6170480 TTTTATTAAT
6170490 TTTATATAAAAAAGATAAAGCACATTCATAATAATATAA
1 TTTATATAAAAAAGATAAAGCACATTCATAATAATATAA
* * * * ** * * *
6170529 TTTATTTTATATAA-CTCTAG-ATTAATCAAAGATTAA-AT-A
1 TTTA-TATAAAAAAGATAAAGCA-CATTCATA-A-TAATATAA
6170568 TTTATATAAAAAAGATAAAGCACATTCATAATAATATAA
1 TTTATATAAAAAAGATAAAGCACATTCATAATAATATAA
6170607 TTTAT
1 TTTAT
6170612 TTTATATAAC
Statistics
Matches: 57, Mismatches: 18, Indels: 16
0.63 0.20 0.18
Matches are distributed among these distances:
37 3 0.05
38 10 0.18
39 31 0.54
40 10 0.18
41 3 0.05
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (39 bp):
TTTATATAAAAAAGATAAAGCACATTCATAATAATATAA
Found at i:6170578 original size:78 final size:79
Alignment explanation
Indices: 6170490--6170646 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 79
6170480 TTTTATTAAT
6170490 TTTATATAAAAAAGATAAAGCACATTCATAATAATATAATTTATTTTATATAACTCTAGATTAAT
1 TTTATATAAAAAAGATAAAGCACATTCATAATAATATAATTTATTTTATATAACTCTAGATTAAT
6170555 CAA-AGATTAAATA
66 CAAGAGATTAAATA
6170568 TTTATATAAAAAAGATAAAGCACATTCATAATAATATAATTTATTTTATATAACTCTAGATTAAT
1 TTTATATAAAAAAGATAAAGCACATTCATAATAATATAATTTATTTTATATAACTCTAGATTAAT
6170633 CAAGAGATTAAATA
66 CAAGAGATTAAATA
6170647 ATCGTATAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 68 0.87
79 10 0.13
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (79 bp):
TTTATATAAAAAAGATAAAGCACATTCATAATAATATAATTTATTTTATATAACTCTAGATTAAT
CAAGAGATTAAATA
Found at i:6175672 original size:15 final size:15
Alignment explanation
Indices: 6175652--6175692 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
6175642 CTTTCTTTAT
**
6175652 TAATATTTCTATCTA
1 TAATATTTAAATCTA
6175667 TAATATTTAAATCTA
1 TAATATTTAAATCTA
6175682 TAATATTTAAA
1 TAATATTTAAA
6175693 GTGGAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (15 bp):
TAATATTTAAATCTA
Found at i:6180395 original size:2 final size:2
Alignment explanation
Indices: 6180388--6180413 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6180378 CTTTCTCAAT
6180388 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
6180414 AAGCTGGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6188397 original size:31 final size:32
Alignment explanation
Indices: 6188338--6188402 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
6188328 GGTAAATTAC
6188338 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
6188370 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
6188401 AA
1 AA
6188403 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:6204300 original size:28 final size:26
Alignment explanation
Indices: 6204269--6204329 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
6204259 AAAATAAAAT
6204269 AAAATATTATGAAATTTTTTTATTTACC
1 AAAATATT-T-AAATTTTTTTATTTACC
* *
6204297 AAAATATTTTAATTTTTTTATTTATC
1 AAAATATTTAAATTTTTTTATTTACC
6204323 AAAATAT
1 AAAATAT
6204330 ACAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 22 0.71
27 1 0.03
28 8 0.26
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (26 bp):
AAAATATTTAAATTTTTTTATTTACC
Found at i:6204754 original size:25 final size:27
Alignment explanation
Indices: 6204726--6204786 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 27
6204716 TTTTTTTGGT
6204726 ATATTTTGATAAAT-AAAAAA-TTATA
1 ATATTTTGATAAATAAAAAAAGTTATA
* *
6204751 ATATATTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGATAAAT-AAAAAAAGTTATA
6204779 ATATTTTG
1 ATATTTTG
6204787 GTTATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 12 0.40
27 6 0.20
28 12 0.40
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.39
Consensus pattern (27 bp):
ATATTTTGATAAATAAAAAAAGTTATA
Found at i:6204780 original size:28 final size:29
Alignment explanation
Indices: 6204734--6204788 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
6204724 GTATATTTTG
6204734 ATAAATAAAAAATTATAATATATTGGTAA
1 ATAAATAAAAAATTATAATATATTGGTAA
* *
6204763 ATAAA-AAAAAGTTATAATATTTTGGT
1 ATAAATAAAAAATTATAATATATTGGT
6204789 TATTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (29 bp):
ATAAATAAAAAATTATAATATATTGGTAA
Found at i:6212030 original size:18 final size:18
Alignment explanation
Indices: 6212009--6212076 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
6211999 TGTATGTCAT
6212009 ATTATAAAAATTTTAAAA
1 ATTATAAAAATTTTAAAA
*
6212027 ATTATAAAAATATTCAAAA
1 ATTATAAAAAT-TTTAAAA
6212046 ATTA-AAAAA---TAAAA
1 ATTATAAAAATTTTAAAA
*
6212060 ATTATATAAAATGTTAA
1 ATTATA-AAAATTTTAA
6212077 TAGAATTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
14 8 0.19
15 1 0.02
16 4 0.10
18 16 0.38
19 13 0.31
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (18 bp):
ATTATAAAAATTTTAAAA
Found at i:6213305 original size:29 final size:31
Alignment explanation
Indices: 6213259--6213320 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 31
6213249 ATCCTAAAAT
* *
6213259 ATTTTTAAAAT-AGTTTTTTTATTTT-TTAA
1 ATTTTTAAAATAAATTTTTATATTTTATTAA
6213288 ATTTTTAAAATAAATTTTTGATATTTTATTAA
1 ATTTTTAAAATAAATTTTT-ATATTTTATTAA
6213320 A
1 A
6213321 AAATGGGCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 11 0.39
30 6 0.21
31 6 0.21
32 5 0.18
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (31 bp):
ATTTTTAAAATAAATTTTTATATTTTATTAA
Found at i:6214308 original size:16 final size:17
Alignment explanation
Indices: 6214276--6214310 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
6214266 ATATATTTTT
6214276 TATTTTTAAAATTTAAAA
1 TATTTTTAAAA-TTAAAA
6214294 TATTTTTAAAA-TAAAA
1 TATTTTTAAAATTAAAA
6214310 T
1 T
6214311 TTTGCTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTTTTAAAATTAAAA
Found at i:6216412 original size:39 final size:39
Alignment explanation
Indices: 6216358--6216436 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
6216348 AATTTGAACT
6216358 TTGTTTTTCGATCGAATATTTTAGCTTGTTCAGCTTTAA
1 TTGTTTTTCGATCGAATATTTTAGCTTGTTCAGCTTTAA
* *
6216397 TTGTTTTTCGATCGAATATTTTAGCTTTTTTAGCTTTAA
1 TTGTTTTTCGATCGAATATTTTAGCTTGTTCAGCTTTAA
6216436 T
1 T
6216437 CATTGTCTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54
Consensus pattern (39 bp):
TTGTTTTTCGATCGAATATTTTAGCTTGTTCAGCTTTAA
Found at i:6222070 original size:21 final size:20
Alignment explanation
Indices: 6222048--6222087 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
6222038 GTTTGGATTT
6222048 TTTTTATG--TAATATTGGTG
1 TTTTTATGATTAAT-TTGGTG
6222067 TTTTTATGATTAATTTGGTG
1 TTTTTATGATTAATTTGGTG
6222087 T
1 T
6222088 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 7 0.37
21 4 0.21
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (20 bp):
TTTTTATGATTAATTTGGTG
Found at i:6223945 original size:5 final size:5
Alignment explanation
Indices: 6223935--6223975 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
6223925 TACATAATAC
6223935 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
6223976 ATCCAGCATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:6225532 original size:19 final size:20
Alignment explanation
Indices: 6225489--6225532 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6225479 AATATTTTGC
6225489 TTTTTGAAAATTATTCTGAA
1 TTTTTGAAAATTATTCTGAA
* * *
6225509 CTTTTGAAATTTATT-TTAA
1 TTTTTGAAAATTATTCTGAA
6225528 TTTTT
1 TTTTT
6225533 TTATAATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTTTGAAAATTATTCTGAA
Found at i:6229528 original size:3 final size:3
Alignment explanation
Indices: 6229516--6229557 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
6229506 AACATAAACA
6229516 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6229558 ATTCACTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6231120 original size:279 final size:280
Alignment explanation
Indices: 6230620--6231179 Score: 1113
Period size: 279 Copynumber: 2.0 Consensus size: 280
6230610 AAGTGAATCA
6230620 ATTCATACATTAAAAGGAGTGGATTTAAATTTTTAGTAATTTCACAATTGAATTATAATTCATTT
1 ATTCATACATTAAAAGGAGTGGATTTAAATTTTTAGTAATTTCACAATTGAATTATAATTCATTT
6230685 AATGAGTTATATTAATTAACTTGATCATTAAAATAATAATATAAATGAATTATTTGTGATCTTTC
66 AATGAGTTATATTAATTAACTTGATCATTAAAATAATAATATAAATGAATTATTTGTGATCTTTC
6230750 AATTGAGTTGATGGTAAGCACGTAGTTGAAAATATTTTTGGAGGACGAAATTAAATTATATAATT
131 AATTGAGTTGATGGTAAGCACGTAGTTGAAAATATTTTTGGAGGACGAAATTAAATTATATAATT
6230815 TAAGATAATAAAAATGTAATTTTATTATTTTAATAATCTATATTTTTATAATTTTTAAATGATTA
196 TAAGATAATAAAAATGTAATTTTATTATTTTAATAATCTATATTTTTATAATTTTTAAATGATTA
6230880 AATCAAAA-TTTATCATTTT
261 AATCAAAATTTTATCATTTT
6230899 ATTCATACATTAAAAGGAGTGGATTTAAATTTTTAGTAATTTCACAATTGAATTATAATTCATTT
1 ATTCATACATTAAAAGGAGTGGATTTAAATTTTTAGTAATTTCACAATTGAATTATAATTCATTT
6230964 AATGAGTTATATTAATTAACTTGATCATTAAAATAATAATATAAATGAATTATTTGTGATCTTTC
66 AATGAGTTATATTAATTAACTTGATCATTAAAATAATAATATAAATGAATTATTTGTGATCTTTC
6231029 AATTGAGTTGATGGTAAGCACGTAGTTGAAAATATTTTTGGAGGACGAAATTAAATTATATAATT
131 AATTGAGTTGATGGTAAGCACGTAGTTGAAAATATTTTTGGAGGACGAAATTAAATTATATAATT
6231094 TAAGATAATAAAAATGTAATTTTATTATTTTAATAATCTATATTTTTATAATTTTTAAATGATTA
196 TAAGATAATAAAAATGTAATTTTATTATTTTAATAATCTATATTTTTATAATTTTTAAATGATTA
6231159 AATCAAAATTTTATCATTTT
261 AATCAAAATTTTATCATTTT
6231179 A
1 A
6231180 GGGGGCCAAA
Statistics
Matches: 280, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
279 268 0.96
280 12 0.04
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (280 bp):
ATTCATACATTAAAAGGAGTGGATTTAAATTTTTAGTAATTTCACAATTGAATTATAATTCATTT
AATGAGTTATATTAATTAACTTGATCATTAAAATAATAATATAAATGAATTATTTGTGATCTTTC
AATTGAGTTGATGGTAAGCACGTAGTTGAAAATATTTTTGGAGGACGAAATTAAATTATATAATT
TAAGATAATAAAAATGTAATTTTATTATTTTAATAATCTATATTTTTATAATTTTTAAATGATTA
AATCAAAATTTTATCATTTT
Found at i:6238061 original size:154 final size:155
Alignment explanation
Indices: 6237781--6238091 Score: 615
Period size: 154 Copynumber: 2.0 Consensus size: 155
6237771 CAATTCTAGA
6237781 TTTTTTTAAATATTGATTTTGGTTTCTTTTGATTTTATTTCAACAAAATGACTTTATTTTATGGC
1 TTTTTTTAAATATTGATTTTGGTTTCTTTTGATTTTATTTCAACAAAATGACTTTATTTTATGGC
6237846 TTTTTAAACATTATTTGATAAAGCTCCAAAAAATTTTCAATAATATTTCTAAAAATTTAATAATT
66 TTTTTAAACATTATTTGATAAAGCTCCAAAAAATTTTCAATAATATTTCTAAAAATTTAATAATT
6237911 TTAAGTAAAT-AAAAATAATAACTT
131 TTAAGTAAATAAAAAATAATAACTT
6237935 TTTTTTTAAATATTGATTTTGGTTTCTTTTGATTTTATTTCAACAAAATGACTTTATTTTATGGC
1 TTTTTTTAAATATTGATTTTGGTTTCTTTTGATTTTATTTCAACAAAATGACTTTATTTTATGGC
6238000 TTTTTAAACATTATTTGATAAAGCTCCAAAAAATTTTCAATAATATTTCTAAAAATTTAATAATT
66 TTTTTAAACATTATTTGATAAAGCTCCAAAAAATTTTCAATAATATTTCTAAAAATTTAATAATT
6238065 TTAAGTAAATAAAAAATAATAACTT
131 TTAAGTAAATAAAAAATAATAACTT
6238090 TT
1 TT
6238092 ATATAGTATT
Statistics
Matches: 156, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
154 140 0.90
155 16 0.10
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (155 bp):
TTTTTTTAAATATTGATTTTGGTTTCTTTTGATTTTATTTCAACAAAATGACTTTATTTTATGGC
TTTTTAAACATTATTTGATAAAGCTCCAAAAAATTTTCAATAATATTTCTAAAAATTTAATAATT
TTAAGTAAATAAAAAATAATAACTT
Found at i:6239136 original size:33 final size:33
Alignment explanation
Indices: 6239094--6239160 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
6239084 GTTGACGATG
6239094 AAGCCCTTAAACCTAACTAAAAACCTAATTAAT
1 AAGCCCTTAAACCTAACTAAAAACCTAATTAAT
6239127 AAGCCCTTAAACCTAACTAAAAACCTAATTAAT
1 AAGCCCTTAAACCTAACTAAAAACCTAATTAAT
6239160 A
1 A
6239161 CGCTAACTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.24
Consensus pattern (33 bp):
AAGCCCTTAAACCTAACTAAAAACCTAATTAAT
Found at i:6240638 original size:6 final size:6
Alignment explanation
Indices: 6240629--6240654 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6240619 TATATTGCTA
6240629 TTATTG TTATTG TTATTG TTATTG TT
1 TTATTG TTATTG TTATTG TTATTG TT
6240655 TATATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (6 bp):
TTATTG
Found at i:6244537 original size:15 final size:15
Alignment explanation
Indices: 6244519--6244558 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
6244509 GTAGCGGTGG
*
6244519 GTGCGGCGGCCGTGT
1 GTGCCGCGGCCGTGT
6244534 GTGCCGCGGCCGTGT
1 GTGCCGCGGCCGTGT
6244549 GTGCCGCGGC
1 GTGCCGCGGC
6244559 GGCGTTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.50, T:0.17
Consensus pattern (15 bp):
GTGCCGCGGCCGTGT
Found at i:6249128 original size:7 final size:7
Alignment explanation
Indices: 6249116--6249150 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
6249106 ATTGTCATTC
6249116 ATATAAA
1 ATATAAA
6249123 ATATAAA
1 ATATAAA
6249130 ATATAAA
1 ATATAAA
6249137 ATATAAA
1 ATATAAA
6249144 ATATAAA
1 ATATAAA
6249151 TATGATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATATAAA
Found at i:6249233 original size:17 final size:19
Alignment explanation
Indices: 6249186--6249234 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 19
6249176 GTTTTATAAA
6249186 TAATTTATATT-TTTAGAGT
1 TAATTTATATTATTTA-AGT
* *
6249205 TAATATAGATTATTT-A-T
1 TAATTTATATTATTTAAGT
6249222 TAATTTATATTAT
1 TAATTTATATTAT
6249235 AATTTAGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 12 0.48
18 1 0.04
19 9 0.36
20 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
TAATTTATATTATTTAAGT
Found at i:6249964 original size:18 final size:19
Alignment explanation
Indices: 6249941--6249983 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6249931 AGACCTAAAA
6249941 TAAAAAT-TAAAA-ATATTT
1 TAAAAATATAAAATA-ATTT
*
6249959 TAAAAATATAAATTAATTT
1 TAAAAATATAAAATAATTT
6249978 TAAAAA
1 TAAAAA
6249984 GCATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 14 0.64
20 1 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAAATATAAAATAATTT
Found at i:6250467 original size:148 final size:149
Alignment explanation
Indices: 6250199--6250495 Score: 587
Period size: 148 Copynumber: 2.0 Consensus size: 149
6250189 GTCACTAAAT
6250199 TATGGGTAAAATTTCATTTTGGTCACTAAACTATTCAAAAGTTTTTATTCAAGTAATTGAGTTGT
1 TATGGGTAAAATTTCATTTTGGTCACTAAACTATTCAAAAGTTTTTATTCAAGTAATTGAGTTGT
6250264 TAAGCTTTTTTTAAGAAAAAAGTTATACTAGCAAGCTTCAAGCGATGATTTGATGACATGTACAG
66 TAAGCTTTTTTTAAGAAAAAAGTTATACTAGCAAGCTTCAAGCGATGATTTGATGACATGTACAG
6250329 TGGATTAA-ACCCATCAAA
131 TGGATTAACACCCATCAAA
6250347 TATGGGTAAAATTTCATTTTGGTCACTAAACTATTCAAAAGTTTTTATTCAAGTAATTGAGTTGT
1 TATGGGTAAAATTTCATTTTGGTCACTAAACTATTCAAAAGTTTTTATTCAAGTAATTGAGTTGT
6250412 TAAGCTTTTTTTAAGAAAAAAGTTATACTAGCAAGCTTCAAGCGATGATTTGATGACATGTACAG
66 TAAGCTTTTTTTAAGAAAAAAGTTATACTAGCAAGCTTCAAGCGATGATTTGATGACATGTACAG
6250477 TGGATTAACACCCATCAAA
131 TGGATTAACACCCATCAAA
6250496 GAGTAATAGA
Statistics
Matches: 148, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
148 138 0.93
149 10 0.07
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (149 bp):
TATGGGTAAAATTTCATTTTGGTCACTAAACTATTCAAAAGTTTTTATTCAAGTAATTGAGTTGT
TAAGCTTTTTTTAAGAAAAAAGTTATACTAGCAAGCTTCAAGCGATGATTTGATGACATGTACAG
TGGATTAACACCCATCAAA
Found at i:6251388 original size:15 final size:15
Alignment explanation
Indices: 6251370--6251402 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6251360 AAACATCATT
6251370 ATTTTAGTAAATATA
1 ATTTTAGTAAATATA
6251385 ATTTTAGTAAATATA
1 ATTTTAGTAAATATA
6251400 ATT
1 ATT
6251403 ACTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
ATTTTAGTAAATATA
Found at i:6265171 original size:17 final size:19
Alignment explanation
Indices: 6265146--6265183 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
6265136 AATTGAGGCT
*
6265146 AAGAGAATATA-AAG-CTC
1 AAGAAAATATATAAGTCTC
6265163 AAGAAAATATATAAGTCTC
1 AAGAAAATATATAAGTCTC
6265182 AA
1 AA
6265184 CCTCTTAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 3 0.17
19 5 0.28
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (19 bp):
AAGAAAATATATAAGTCTC
Found at i:6268375 original size:25 final size:22
Alignment explanation
Indices: 6268346--6268393 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
6268336 CGGTATATCA
*
6268346 AATAATTCTCATATATATATATTTG
1 AATAA-TCTCAT-TATAGAT-TTTG
6268371 AATAATCTCATTATAGATTTTG
1 AATAATCTCATTATAGATTTTG
6268393 A
1 A
6268394 TCATATCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 6 0.27
24 6 0.27
25 5 0.23
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (22 bp):
AATAATCTCATTATAGATTTTG
Found at i:6268830 original size:15 final size:16
Alignment explanation
Indices: 6268812--6268844 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6268802 AATATAAATG
*
6268812 TAAT-ATATTTAAAAA
1 TAATAATATTGAAAAA
6268827 TAATAATATTGAAAAA
1 TAATAATATTGAAAAA
6268843 TA
1 TA
6268845 TGTGAATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
TAATAATATTGAAAAA
Found at i:6274436 original size:2 final size:2
Alignment explanation
Indices: 6274429--6274453 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6274419 TCATTGGGAT
6274429 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 T
6274454 TGAAGATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6278895 original size:20 final size:21
Alignment explanation
Indices: 6278856--6278895 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6278846 TATATTAACT
* *
6278856 CTCAAAGCTGCTCTCTAAACC
1 CTCAAAGCAGCTCACTAAACC
6278877 CTCAAAGCAGCT-ACTAAAC
1 CTCAAAGCAGCTCACTAAAC
6278896 AAGGCAGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.35, C:0.35, G:0.10, T:0.20
Consensus pattern (21 bp):
CTCAAAGCAGCTCACTAAACC
Found at i:6290146 original size:3 final size:3
Alignment explanation
Indices: 6290138--6290195 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
6290128 CTTTATTACC
6290138 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
6290186 TAA TAA TAA T
1 TAA TAA TAA T
6290196 TTTTGGATAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6291618 original size:26 final size:26
Alignment explanation
Indices: 6291589--6291653 Score: 69
Period size: 30 Copynumber: 2.3 Consensus size: 26
6291579 TTATTTACTC
6291589 TATTAAAAAAATAAATTAATT-TTTT
1 TATTAAAAAAATAAATTAATTATTTT
*
6291614 ATATTATCTTAAATAATAAATTAATTATTTT
1 -TATTA----AAAAAATAAATTAATTATTTT
6291645 TATTAAAAA
1 TATTAAAAA
6291654 TTAATCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
26 8 0.25
30 20 0.62
31 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
TATTAAAAAAATAAATTAATTATTTT
Found at i:6291641 original size:21 final size:20
Alignment explanation
Indices: 6291616--6291671 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 20
6291606 AATTTTTTAT
6291616 ATTATCTTAAATAATAAATTA
1 ATTAT-TTAAATAATAAATTA
* *
6291637 ATTATTTTTATTAA-AAATTA
1 ATTA-TTTAAATAATAAATTA
*
6291657 ATCTATTTATATAAT
1 AT-TATTTAAATAAT
6291672 TAAAAATTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
20 14 0.52
21 12 0.44
22 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTATTTAAATAATAAATTA
Found at i:6291656 original size:20 final size:24
Alignment explanation
Indices: 6291631--6291679 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
6291621 CTTAAATAAT
6291631 AAATTAAT-TATTT-T-T-ATTAA
1 AAATTAATCTATTTATATAATTAA
6291651 AAATTAATCTATTTATATAATTAA
1 AAATTAATCTATTTATATAATTAA
6291675 AAATT
1 AAATT
6291680 GACAGACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.32
21 5 0.20
22 1 0.04
23 1 0.04
24 10 0.40
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATTAATCTATTTATATAATTAA
Found at i:6296534 original size:6 final size:6
Alignment explanation
Indices: 6296520--6296551 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
6296510 AAATCCTCCT
*
6296520 GCCAAA GCCACA GCCAAA GCCAAA GCCAAA GC
1 GCCAAA GCCAAA GCCAAA GCCAAA GCCAAA GC
6296552 TGAGAAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.44, C:0.38, G:0.19, T:0.00
Consensus pattern (6 bp):
GCCAAA
Found at i:6304201 original size:61 final size:62
Alignment explanation
Indices: 6304106--6304228 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 62
6304096 AATTATTATT
6304106 TTTATTTTATTCTTGTATAAATATAATTATTAAAAGCGAAATTATCATTTT-TTTTTGTATA
1 TTTATTTTATTCTTGTATAAATATAATTATTAAAAGCGAAATTATCATTTTATTTTTGTATA
6304167 TTTATTTTATTCTTGTATAAATATAATTATTAAAAGCGAAATTATCATTTTATTTTTGTATA
1 TTTATTTTATTCTTGTATAAATATAATTATTAAAAGCGAAATTATCATTTTATTTTTGTATA
6304229 AATATAATTA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 51 0.84
62 10 0.16
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.54
Consensus pattern (62 bp):
TTTATTTTATTCTTGTATAAATATAATTATTAAAAGCGAAATTATCATTTTATTTTTGTATA
Found at i:6306485 original size:12 final size:11
Alignment explanation
Indices: 6306466--6306495 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6306456 GATCTGTCGG
*
6306466 CCTTTTTTTTC
1 CCTTTTTTTTT
6306477 CCTTTTTTTTT
1 CCTTTTTTTTT
6306488 CCTTTTTT
1 CCTTTTTT
6306496 ATTATTTAAT
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
CCTTTTTTTTT
Found at i:6306549 original size:6 final size:6
Alignment explanation
Indices: 6306538--6306564 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6306528 CTCATCGAAC
6306538 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
6306565 ATAAATCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:6325805 original size:7 final size:7
Alignment explanation
Indices: 6325784--6325819 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
6325774 TTTTTAAATA
6325784 TAATATT
1 TAATATT
*
6325791 T-TTATT
1 TAATATT
6325797 TAATATT
1 TAATATT
6325804 TAATATT
1 TAATATT
6325811 TAATATT
1 TAATATT
6325818 TA
1 TA
6325820 GTAAAATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TAATATT
Found at i:6325809 original size:20 final size:18
Alignment explanation
Indices: 6325772--6325811 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
6325762 AAAATAGTTG
6325772 TTTTTTTAAATATAATAT
1 TTTTTTTAAATATAATAT
*
6325790 TTTTATTTAATATTTAATAT
1 TTTT-TTTAA-ATATAATAT
6325810 TT
1 TT
6325812 AATATTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 10 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTTTAAATATAATAT
Found at i:6326209 original size:406 final size:407
Alignment explanation
Indices: 6325457--6326269 Score: 1619
Period size: 406 Copynumber: 2.0 Consensus size: 407
6325447 TGCCAGTTTT
6325457 TAATAGTATAAATAGATGAAAATTTTAACAGAAATAACTAATTTGCGCTTTGTTTTAACATACAA
1 TAATAGTATAAATAGATGAAAATTTTAACAGAAATAACTAATTTGCGCTTTGTTTTAACATACAA
6325522 TGATTAATTTCTCCATTCTTTGAGTAGATGGGGAAATATGCAATCTGACTTTTAGTACGGGCGCC
66 TGATTAATTTCTCCATTCTTTGAGTAGATGGGGAAATATGCAATCTGACTTTTAGTACGGGCGCC
6325587 TCTATAATACTTTTACCCCAATGTGTAGTTGACCCCTATTCATTCTTTTAAAGGGTTTTGCGTAT
131 TCTATAATACTTTTACCCCAATGTGTAGTTGACCCCTATTCATTCTTTTAAAGGGTTTTGCGTAT
6325652 ATAAACATTAACATTATACATAGTTGTTAAAATTTGATTAGACTTAAAATGAGACCTAAAAGTTT
196 ATAAACATTAACATTATACATAGTTGTTAAAATTTGATTAGACTTAAAATGAGACCTAAAAGTTT
6325717 GTCCACACTCATTCATATTTATAAATTGTTAATCCAAACCCGTTTAAAATAGTTGTTTTTTTAAA
261 GTCCACACTCATTCATATTTATAAATTGTTAATCCAAACCCGTTTAAAATAGTTGTTTTTTTAAA
6325782 TATAATATTTTTATTTAATATTTAATATTTAATATTTAGTAAAATTGTGTTATTTTATTTTATTA
326 TATAATATTTTTATTTAATATTTAATATTTAATATTTAGTAAAATTGTGTTATTTTATTTTATTA
6325847 AATTAT-ACATAAACTA
391 AATTATAACATAAACTA
6325863 TAATAGTATAAATAGATGAAAATTTTAACAGAAATAACTAATTTGCGCTTTGTTTTAACATACAA
1 TAATAGTATAAATAGATGAAAATTTTAACAGAAATAACTAATTTGCGCTTTGTTTTAACATACAA
6325928 TGATTAATTTCTCCATTCTTTGAGTAGATGGGGAAATATGCAATCTGACTTTTAGTACGGGCGCC
66 TGATTAATTTCTCCATTCTTTGAGTAGATGGGGAAATATGCAATCTGACTTTTAGTACGGGCGCC
6325993 TCTATAATACTTTTACCCCAATGTGTAGTTGACCCCTATTCATTCTTTTAAAGGGTTTTGCGTAT
131 TCTATAATACTTTTACCCCAATGTGTAGTTGACCCCTATTCATTCTTTTAAAGGGTTTTGCGTAT
6326058 ATAAACATTAACATTATACATAGTTGTTAAAATTTGATTAGACTTAAAATGAGACCTAAAAGTTT
196 ATAAACATTAACATTATACATAGTTGTTAAAATTTGATTAGACTTAAAATGAGACCTAAAAGTTT
6326123 GTCCACACTCATTCATATTTATAAATTGTTAATCCAAACCCGTTTAAAATAGTTGTTTTTTTAAA
261 GTCCACACTCATTCATATTTATAAATTGTTAATCCAAACCCGTTTAAAATAGTTGTTTTTTTAAA
6326188 TATAATATTTTTATTTAATATTTAATATTTAATATTTAGTAAAATTGTGTTATTTTATTTTATTA
326 TATAATATTTTTATTTAATATTTAATATTTAATATTTAGTAAAATTGTGTTATTTTATTTTATTA
6326253 AATTATAACATAAACTA
391 AATTATAACATAAACTA
6326270 CTTGCCATGC
Statistics
Matches: 406, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
406 396 0.98
407 10 0.02
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.41
Consensus pattern (407 bp):
TAATAGTATAAATAGATGAAAATTTTAACAGAAATAACTAATTTGCGCTTTGTTTTAACATACAA
TGATTAATTTCTCCATTCTTTGAGTAGATGGGGAAATATGCAATCTGACTTTTAGTACGGGCGCC
TCTATAATACTTTTACCCCAATGTGTAGTTGACCCCTATTCATTCTTTTAAAGGGTTTTGCGTAT
ATAAACATTAACATTATACATAGTTGTTAAAATTTGATTAGACTTAAAATGAGACCTAAAAGTTT
GTCCACACTCATTCATATTTATAAATTGTTAATCCAAACCCGTTTAAAATAGTTGTTTTTTTAAA
TATAATATTTTTATTTAATATTTAATATTTAATATTTAGTAAAATTGTGTTATTTTATTTTATTA
AATTATAACATAAACTA
Found at i:6326211 original size:7 final size:7
Alignment explanation
Indices: 6326190--6326225 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
6326180 TTTTTAAATA
6326190 TAATATT
1 TAATATT
*
6326197 T-TTATT
1 TAATATT
6326203 TAATATT
1 TAATATT
6326210 TAATATT
1 TAATATT
6326217 TAATATT
1 TAATATT
6326224 TA
1 TA
6326226 GTAAAATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TAATATT
Found at i:6326215 original size:20 final size:18
Alignment explanation
Indices: 6326178--6326217 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
6326168 AAAATAGTTG
6326178 TTTTTTTAAATATAATAT
1 TTTTTTTAAATATAATAT
*
6326196 TTTTATTTAATATTTAATAT
1 TTTT-TTTAA-ATATAATAT
6326216 TT
1 TT
6326218 AATATTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 10 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTTTAAATATAATAT
Found at i:6326743 original size:28 final size:29
Alignment explanation
Indices: 6326710--6326768 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
6326700 AATTATAATG
* *
6326710 AAATATA-TAATACATATTTATAAAATTA
1 AAATATAGTAATAAATAATTATAAAATTA
*
6326738 AAATATATGTCATAAATAATTATAAAATTA
1 AAATATA-GTAATAAATAATTATAAAATTA
6326768 A
1 A
6326769 TATAAGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 7 0.27
30 19 0.73
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (29 bp):
AAATATAGTAATAAATAATTATAAAATTA
Found at i:6328269 original size:22 final size:22
Alignment explanation
Indices: 6328244--6328286 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6328234 TACTGTCGTT
6328244 TTGCTATCATTTTATTATTATA
1 TTGCTATCATTTTATTATTATA
** *
6328266 TTGCTATTGTTTTATTGTTAT
1 TTGCTATCATTTTATTATTAT
6328287 TGGTTAGATA
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:0.21, C:0.07, G:0.09, T:0.63
Consensus pattern (22 bp):
TTGCTATCATTTTATTATTATA
Found at i:6328855 original size:30 final size:30
Alignment explanation
Indices: 6328797--6328870 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
6328787 ATATTGGGTA
* * ** *
6328797 TATATTATTTAAGTTATAAATTGTTTATTT
1 TATATTATTTAAGTAAAAAACCGCTTATTT
6328827 TATATTATTTAAGTAAAAAACCGCTTATTT
1 TATATTATTTAAGTAAAAAACCGCTTATTT
*
6328857 TA-A-TATTTACGTAA
1 TATATTATTTAAGTAA
6328871 TGATTGAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 10 0.26
29 1 0.03
30 27 0.71
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (30 bp):
TATATTATTTAAGTAAAAAACCGCTTATTT
Found at i:6329151 original size:12 final size:12
Alignment explanation
Indices: 6329136--6329174 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
6329126 TTAATGAATT
6329136 TTTAAAAATTTA
1 TTTAAAAATTTA
6329148 TTTACAAAA-TTA
1 TTTA-AAAATTTA
*
6329160 TTTTAAAATTTA
1 TTTAAAAATTTA
6329172 TTT
1 TTT
6329175 TTTGTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 4 0.17
12 16 0.67
13 4 0.17
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTAAAAATTTA
Found at i:6330979 original size:31 final size:31
Alignment explanation
Indices: 6330939--6331001 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
6330929 ATTTGATCAT
* *
6330939 TAAATTATTCAAAAGTTTTCATTTAAGTCAC
1 TAAACTATTCAAAAGTTATCATTTAAGTCAC
6330970 TAAACTATTCAAAAGTTATCATTTAAGTCAC
1 TAAACTATTCAAAAGTTATCATTTAAGTCAC
6331001 T
1 T
6331002 GGTTTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (31 bp):
TAAACTATTCAAAAGTTATCATTTAAGTCAC
Found at i:6334366 original size:29 final size:32
Alignment explanation
Indices: 6334311--6334375 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
6334301 TCTTTGCATA
6334311 CCCTTAAAAATTTAGAAAACTATTA-TTAAG-
1 CCCTTAAAAATTTAGAAAACTATTATTTAAGT
* * *
6334341 CCCTTAAAACTTTTGAAAA-TTTTATTTAAGT
1 CCCTTAAAAATTTAGAAAACTATTATTTAAGT
6334372 CCCT
1 CCCT
6334376 CATTTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 4 0.13
30 22 0.73
31 4 0.13
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (32 bp):
CCCTTAAAAATTTAGAAAACTATTATTTAAGT
Found at i:6337299 original size:46 final size:45
Alignment explanation
Indices: 6337216--6337305 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
6337206 CGAATATAAT
*
6337216 AAATATATATTTTTATTTTTATTTTTTAATTTTAAAATACTTTTA
1 AAATATATATTTTTATTTTTATTTTTTAATTTTAAAATAATTTTA
* * *
6337261 AAATATTTTTTTTTATTTTT-TTATTTTTATTTTAAAAATAATTTT
1 AAATATATATTTTTATTTTTATT-TTTTAATTTT-AAAATAATTTT
6337306 TTAATGTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
44 2 0.05
45 27 0.69
46 10 0.26
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (45 bp):
AAATATATATTTTTATTTTTATTTTTTAATTTTAAAATAATTTTA
Found at i:6337320 original size:45 final size:45
Alignment explanation
Indices: 6337226--6337320 Score: 104
Period size: 45 Copynumber: 2.1 Consensus size: 45
6337216 AAATATATAT
* * *
6337226 TTTTATTTTTATTTTTTAATTTTAAAATACTTTTAAAATATTTTT
1 TTTTATTTTTATTTTTTAATTTTAAAATAATTTTAAAATAGTTTA
* **
6337271 TTTTATTTTT-TTATTTTTATTTTAAAAATAATTTTTTAAT-GTTTA
1 TTTTATTTTTATT-TTTTAATTTT-AAAATAATTTTAAAATAGTTTA
6337316 TTTTA
1 TTTTA
6337321 AAAATAGGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 2 0.05
45 27 0.64
46 13 0.31
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (45 bp):
TTTTATTTTTATTTTTTAATTTTAAAATAATTTTAAAATAGTTTA
Found at i:6337323 original size:25 final size:26
Alignment explanation
Indices: 6337275--6337326 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
6337265 ATTTTTTTTT
* *
6337275 ATTTTTTTATTTTTATTTTAAAAATA
1 ATTTTTTAATGTTTATTTTAAAAATA
6337301 ATTTTTTAATGTTTATTTTAAAAATA
1 ATTTTTTAATGTTTATTTTAAAAATA
6337327 GGCAGACCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
ATTTTTTAATGTTTATTTTAAAAATA
Found at i:6348486 original size:14 final size:16
Alignment explanation
Indices: 6348467--6348498 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6348457 TTTGGTAAGG
6348467 TGGAAA-AA-AAAAAT
1 TGGAAAGAAGAAAAAT
6348481 TGGAAAGAAGAAAAAT
1 TGGAAAGAAGAAAAAT
6348497 TG
1 TG
6348499 AAGGGGTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (16 bp):
TGGAAAGAAGAAAAAT
Found at i:6351143 original size:41 final size:40
Alignment explanation
Indices: 6351036--6351154 Score: 127
Period size: 41 Copynumber: 3.0 Consensus size: 40
6351026 CTTCATTGGA
* * * *
6351036 TAATTCGAAGTAATAATTTGACATCCAGTGTCTCATCGGC
1 TAATCCGAAGTAATAATTTGACACCCAGTGTCTCACCGAC
* * * *
6351076 TAAACCGAAGT-A-AA-TTGGCACCCAGTGCCTCACCGAAT
1 TAATCCGAAGTAATAATTTGACACCCAGTGTCTCACCG-AC
*
6351114 TAATCCGAAGTAATAATTTGACACCCAGTGTCTCATCGAC
1 TAATCCGAAGTAATAATTTGACACCCAGTGTCTCACCGAC
6351154 T
1 T
6351155 CGAAGTCGAA
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
37 17 0.27
38 12 0.19
39 2 0.03
40 13 0.21
41 18 0.29
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (40 bp):
TAATCCGAAGTAATAATTTGACACCCAGTGTCTCACCGAC
Found at i:6351355 original size:24 final size:24
Alignment explanation
Indices: 6351310--6351356 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6351300 TATATATACC
6351310 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
6351334 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
6351357 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:6352152 original size:7 final size:8
Alignment explanation
Indices: 6352128--6352172 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
6352118 AACATTAATA
6352128 TATAATTT
1 TATAATTT
6352136 TATAATTT
1 TATAATTT
6352144 TATAATTT
1 TATAATTT
*
6352152 ATATAACTT
1 -TATAATTT
6352161 TA-AATTT
1 TATAATTT
6352168 TATAA
1 TATAA
6352173 ATATCTTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 6 0.18
8 20 0.61
9 7 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (8 bp):
TATAATTT
Found at i:6353155 original size:26 final size:28
Alignment explanation
Indices: 6353114--6353168 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
6353104 ACTTGTAAAT
*
6353114 ATTATAATAAACTTCATAAATTTAATAA
1 ATTATAATAAACTTCATAAAATTAATAA
6353142 ATTATAA-AAA-TTCATAAAATTAATAA
1 ATTATAATAAACTTCATAAAATTAATAA
6353168 A
1 A
6353169 AACATGTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 16 0.62
27 3 0.12
28 7 0.27
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (28 bp):
ATTATAATAAACTTCATAAAATTAATAA
Found at i:6353160 original size:10 final size:9
Alignment explanation
Indices: 6353131--6353247 Score: 60
Period size: 9 Copynumber: 12.0 Consensus size: 9
6353121 TAAACTTCAT
6353131 AAATT-TAA
1 AAATTATAA
6353139 TAAATTATAA
1 -AAATTATAA
6353149 AAATTCAT-A
1 AAATT-ATAA
6353158 AAATTAATAAA
1 AAATT-AT-AA
*
6353169 AACATGTTTAA
1 AA-AT-TATAA
6353180 AATATT-TAA
1 AA-ATTATAA
*
6353189 AATTTTATAA
1 AA-ATTATAA
*
6353199 AAATATATTA
1 AAAT-TATAA
*
6353209 AAATTCTAAA
1 AAATTAT-AA
*
6353219 AAATGATAA
1 AAATTATAA
6353228 AAATTAATAA
1 AAATT-ATAA
6353238 AATATTATAA
1 AA-ATTATAA
6353248 TTTATATGAA
Statistics
Matches: 86, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
9 35 0.41
10 35 0.41
11 12 0.14
12 3 0.03
13 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.36
Consensus pattern (9 bp):
AAATTATAA
Found at i:6353201 original size:20 final size:20
Alignment explanation
Indices: 6353178--6353222 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
6353168 AAACATGTTT
*
6353178 AAAATAT-TTAAAATTTTATA
1 AAAATATATTAAAATTCTA-A
6353198 AAAATATATTAAAATTCTAA
1 AAAATATATTAAAATTCTAA
6353218 AAAAT
1 AAAAT
6353223 GATAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATATATTAAAATTCTAA
Found at i:6354084 original size:75 final size:76
Alignment explanation
Indices: 6353993--6354144 Score: 297
Period size: 75 Copynumber: 2.0 Consensus size: 76
6353983 TTTGTTCAAA
6353993 TTATATTTGACATAACAGTTAAACGATATTGATAGTAGTATCCTTTTGCTCACATTGTATCTGG-
1 TTATATTTGACATAACAGTTAAACGATATTGATAGTAGTATCCTTTTGCTCACATTGTATCTGGA
6354057 AACTATAAATT
66 AACTATAAATT
6354068 TTATATTTGACATAACAGTTAAACGATATTGATAGTAGTATCCTTTTGCTCACATTGTATCTGGA
1 TTATATTTGACATAACAGTTAAACGATATTGATAGTAGTATCCTTTTGCTCACATTGTATCTGGA
6354133 AACTATAAATT
66 AACTATAAATT
6354144 T
1 T
6354145 AACTAATAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 64 0.84
76 12 0.16
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (76 bp):
TTATATTTGACATAACAGTTAAACGATATTGATAGTAGTATCCTTTTGCTCACATTGTATCTGGA
AACTATAAATT
Found at i:6357855 original size:43 final size:42
Alignment explanation
Indices: 6357768--6357933 Score: 165
Period size: 43 Copynumber: 3.9 Consensus size: 42
6357758 GGCTCGTACA
* * * * *
6357768 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAC-AGATCG
1 ATGCC-ACATCCCAAACGTGGTCTTACACGAAAACACAAG-TCG
* *
6357811 ATGCCACTATCCCAGACAG-GGTCTTATACGAAAACACAAGTCG
1 ATGCCAC-ATCCCAAAC-GTGGTCTTACACGAAAACACAAGTCG
* *
6357854 ATGCCAACGTCCTAAACGTGGTCTTACACGAAAACACAAGTCG
1 ATGCC-ACATCCCAAACGTGGTCTTACACGAAAACACAAGTCG
* *
6357897 ATGCCAACGTCCCAAACGTGGTCTCACACGAAAACAC
1 ATGCC-ACATCCCAAACGTGGTCTTACACGAAAACAC
6357934 TTATAGGAAA
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
42 3 0.03
43 99 0.93
44 5 0.05
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (42 bp):
ATGCCACATCCCAAACGTGGTCTTACACGAAAACACAAGTCG
Found at i:6357920 original size:86 final size:86
Alignment explanation
Indices: 6357768--6357933 Score: 203
Period size: 86 Copynumber: 1.9 Consensus size: 86
6357758 GGCTCGTACA
* * * * *
6357768 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACAGATCGATGCCACTATCCCAGACAGGGT
1 ATGCCAACGTCCCAAACGTGGTCTTACACGAAAACACAGATCGATGCCACTATCCCAAACAGGGT
* *
6357833 CTTATACGAAAACACAAGTCG
66 CTCACACGAAAACACAAGTCG
* *
6357854 ATGCCAACGTCCTAAACGTGGTCTTACACGAAAACACA-AGTCGATGCCAAC-GTCCCAAAC-GT
1 ATGCCAACGTCCCAAACGTGGTCTTACACGAAAACACAGA-TCGATGCC-ACTATCCCAAACAG-
6357916 GGTCTCACACGAAAACAC
63 GGTCTCACACGAAAACAC
6357934 TTATAGGAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
85 2 0.03
86 64 0.94
87 2 0.03
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (86 bp):
ATGCCAACGTCCCAAACGTGGTCTTACACGAAAACACAGATCGATGCCACTATCCCAAACAGGGT
CTCACACGAAAACACAAGTCG
Found at i:6362772 original size:7 final size:7
Alignment explanation
Indices: 6362760--6362784 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6362750 GAATACAGAC
6362760 TGCATTT
1 TGCATTT
6362767 TGCATTT
1 TGCATTT
6362774 TGCATTT
1 TGCATTT
6362781 TGCA
1 TGCA
6362785 GCACCAGACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (7 bp):
TGCATTT
Found at i:6369991 original size:13 final size:13
Alignment explanation
Indices: 6369973--6370009 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
6369963 TCTTTATTGA
6369973 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
*
6369986 TTTTGAGAAGTGT
1 TTTTGAAAAGTGT
6369999 TTTTGAAAAGT
1 TTTTGAAAAGT
6370010 TTGGTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:6372106 original size:12 final size:12
Alignment explanation
Indices: 6372091--6372115 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6372081 AAAAAAATAT
6372091 TTTAATTATTCA
1 TTTAATTATTCA
6372103 TTTAATTATTCA
1 TTTAATTATTCA
6372115 T
1 T
6372116 CTTTTTTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTAATTATTCA
Found at i:6372809 original size:18 final size:18
Alignment explanation
Indices: 6372788--6372848 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
6372778 GATAAATAAA
6372788 AATTAACAATAAAATATC
1 AATTAACAATAAAATATC
* *
6372806 AATTAAGAATAATAAGA--
1 AATTAACAATAA-AATATC
* *
6372823 AATGAACATATAAAATTTC
1 AATTAACA-ATAAAATATC
6372842 AATTAAC
1 AATTAAC
6372849 TGGAATTCAG
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
17 8 0.25
18 15 0.47
19 9 0.28
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (18 bp):
AATTAACAATAAAATATC
Found at i:6372963 original size:29 final size:29
Alignment explanation
Indices: 6372894--6372966 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
6372884 AAGAAATCTG
* *
6372894 TATAGGGACTAAAATTGAATAAATTAAAA
1 TATAGAGATTAAAATTGAATAAATTAAAA
*
6372923 AATGCAGAGATTAAAATTG-ATCAAATTAAAA
1 TAT--AGAGATTAAAATTGAAT-AAATTAAAA
6372954 TATAGAGATTAAA
1 TATAGAGATTAAA
6372967 TTCATAACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
29 12 0.32
30 2 0.05
31 23 0.62
ACGTcount: A:0.55, C:0.04, G:0.14, T:0.27
Consensus pattern (29 bp):
TATAGAGATTAAAATTGAATAAATTAAAA
Found at i:6376032 original size:16 final size:16
Alignment explanation
Indices: 6376007--6376045 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6375997 AAATGCCATG
*
6376007 TATG-ATGTATGTATA
1 TATGTATGTATGCATA
6376022 TATGTATGTATGCATA
1 TATGTATGTATGCATA
*
6376038 TTTGTATG
1 TATGTATG
6376046 CTAGCCAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (16 bp):
TATGTATGTATGCATA
Found at i:6380905 original size:63 final size:63
Alignment explanation
Indices: 6380806--6380962 Score: 296
Period size: 63 Copynumber: 2.5 Consensus size: 63
6380796 GATAGGTTAA
*
6380806 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTGTGTC
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTC
*
6380869 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTC
6380932 TGTAAAAGCAGATTCCTCCTTATCTGCTTAT
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTAT
6380963 CTTAATCCTC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 92 1.00
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (63 bp):
TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTC
Found at i:6388515 original size:33 final size:33
Alignment explanation
Indices: 6388471--6388557 Score: 165
Period size: 33 Copynumber: 2.6 Consensus size: 33
6388461 ATACGTTTCG
6388471 CACTGTCTGAGCGGAGACTATTACTTTGCTTAC
1 CACTGTCTGAGCGGAGACTATTACTTTGCTTAC
*
6388504 CGCTGTCTGAGCGGAGACTATTACTTTGCTTAC
1 CACTGTCTGAGCGGAGACTATTACTTTGCTTAC
6388537 CACTGTCTGAGCGGAGACTAT
1 CACTGTCTGAGCGGAGACTAT
6388558 CTCCTTTAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (33 bp):
CACTGTCTGAGCGGAGACTATTACTTTGCTTAC
Found at i:6390602 original size:19 final size:19
Alignment explanation
Indices: 6390575--6390642 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 19
6390565 GTAGGAAGTT
*
6390575 AACATATTTTTAAATCACA
1 AACAAATTTTTAAATCACA
*
6390594 AACAAA--TTTACATCACAA
1 AACAAATTTTTAAATCAC-A
* *
6390612 GTTAACATATTTTTAGATCACA
1 ---AACAAATTTTTAAATCACA
6390634 AACAAATTT
1 AACAAATTT
6390643 ACATCACAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
17 9 0.24
18 1 0.03
19 13 0.34
21 5 0.13
22 1 0.03
23 9 0.24
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (19 bp):
AACAAATTTTTAAATCACA
Found at i:6390608 original size:17 final size:17
Alignment explanation
Indices: 6390583--6390651 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
6390573 TTAACATATT
*
6390583 TTTAAATCACAAACAAA
1 TTTACATCACAAACAAA
*
6390600 TTTACATCACAAGTTAACATATT
1 TTTACATCAC-A---AACA-A-A
*
6390623 TTTAGATCACAAACAAA
1 TTTACATCACAAACAAA
6390640 TTTACATCACAA
1 TTTACATCACAA
6390652 GTTAACATAC
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
17 20 0.49
18 2 0.05
19 4 0.10
21 4 0.10
22 2 0.05
23 9 0.22
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.30
Consensus pattern (17 bp):
TTTACATCACAAACAAA
Found at i:6390625 original size:40 final size:40
Alignment explanation
Indices: 6390570--6390688 Score: 211
Period size: 40 Copynumber: 3.0 Consensus size: 40
6390560 TCTAAGTAGG
*
6390570 AAGTTAACATATTTTTAAATCACAAACAAATTTACATCAC
1 AAGTTAACATATTTTTAGATCACAAACAAATTTACATCAC
6390610 AAGTTAACATATTTTTAGATCACAAACAAATTTACATCAC
1 AAGTTAACATATTTTTAGATCACAAACAAATTTACATCAC
* *
6390650 AAGTTAACATACTTTTAGATCACAAACAAGTTTACATCA
1 AAGTTAACATATTTTTAGATCACAAACAAATTTACATCA
6390689 AACTAGGCAT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (40 bp):
AAGTTAACATATTTTTAGATCACAAACAAATTTACATCAC
Found at i:6390631 original size:23 final size:22
Alignment explanation
Indices: 6390600--6390674 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
6390590 CACAAACAAA
6390600 TTTACATCACAAGTTAACATATT
1 TTTACATCACAAGTTAACATA-T
* *
6390623 TTTAGATCAC-A---AACA-AA
1 TTTACATCACAAGTTAACATAT
6390640 TTTACATCACAAGTTAACATACT
1 TTTACATCACAAGTTAACATA-T
*
6390663 TTTAGATCACAA
1 TTTACATCACAA
6390675 ACAAGTTTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
17 9 0.22
18 2 0.05
19 4 0.10
21 4 0.10
22 2 0.05
23 20 0.49
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (22 bp):
TTTACATCACAAGTTAACATAT
Found at i:6397039 original size:27 final size:28
Alignment explanation
Indices: 6396989--6397045 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
6396979 GGACAACACA
6396989 AAAATCATGAAAAATATGAAAAAAT-AT
1 AAAATCATGAAAAATATGAAAAAATCAT
* *
6397016 AAAATCATG-AAATTATGGATAAAATCAT
1 AAAATCATGAAAAATAT-GAAAAAATCAT
6397044 AA
1 AA
6397046 CAATGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.23
27 16 0.62
28 4 0.15
ACGTcount: A:0.61, C:0.05, G:0.09, T:0.25
Consensus pattern (28 bp):
AAAATCATGAAAAATATGAAAAAATCAT
Found at i:6397757 original size:24 final size:25
Alignment explanation
Indices: 6397711--6397757 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
6397701 TATGATATTT
*
6397711 TTTTATATTTTATATGTTCAATTAC
1 TTTTATATTTTATATATTCAATTAC
* *
6397736 TTTTA-ATTTTATTTATTTAATT
1 TTTTATATTTTATATATTCAATT
6397758 GTTTATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (25 bp):
TTTTATATTTTATATATTCAATTAC
Found at i:6400020 original size:21 final size:22
Alignment explanation
Indices: 6399996--6400037 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
6399986 AACAATGTCG
6399996 TTTTGTGCA-AAA-TAATTTAAA
1 TTTTGTG-AGAAATTAATTTAAA
*
6400017 TTTTTTGAGAAATTAATTTAA
1 TTTTGTGAGAAATTAATTTAA
6400038 TTACATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 1 0.06
21 9 0.50
22 8 0.44
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (22 bp):
TTTTGTGAGAAATTAATTTAAA
Found at i:6400119 original size:9 final size:9
Alignment explanation
Indices: 6400105--6400134 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
6400095 AACGAAAGAG
6400105 TAATCAAAA
1 TAATCAAAA
6400114 TAATCAAAA
1 TAATCAAAA
6400123 TAATCAAAA
1 TAATCAAAA
6400132 TAA
1 TAA
6400135 AAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (9 bp):
TAATCAAAA
Found at i:6400140 original size:18 final size:18
Alignment explanation
Indices: 6400105--6400140 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6400095 AACGAAAGAG
**
6400105 TAATCAAAATAATCAAAA
1 TAATCAAAATAAAAAAAA
6400123 TAATCAAAATAAAAAAAA
1 TAATCAAAATAAAAAAAA
6400141 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.19
Consensus pattern (18 bp):
TAATCAAAATAAAAAAAA
Found at i:6403006 original size:22 final size:23
Alignment explanation
Indices: 6402964--6403006 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6402954 ATCATTTTTG
* *
6402964 TTATTATATCATGTTTTTAAATT
1 TTATTATATCACGGTTTTAAATT
6402987 TTATTATAT-ACGGTTTTAAA
1 TTATTATATCACGGTTTTAAA
6403007 CATATCGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (23 bp):
TTATTATATCACGGTTTTAAATT
Found at i:6404097 original size:17 final size:17
Alignment explanation
Indices: 6404075--6404108 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6404065 TAAGTTAGAT
* *
6404075 TAAAAAGAAAAAGAAAA
1 TAAAAACAAAAACAAAA
6404092 TAAAAACAAAAACAAAA
1 TAAAAACAAAAACAAAA
6404109 AGCAATGGAT
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:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (17 bp):
TAAAAACAAAAACAAAA
Found at i:6404968 original size:16 final size:17
Alignment explanation
Indices: 6404949--6404989 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
6404939 TTTTGTATTT
6404949 TATGTTTTTTTAT-ATA
1 TATGTTTTTTTATCATA
6404965 TATG-TTTTTTATCATA
1 TATGTTTTTTTATCATA
6404981 T-TGTTTTTT
1 TATGTTTTTT
6404990 AATTTTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (17 bp):
TATGTTTTTTTATCATA
Found at i:6404972 original size:15 final size:16
Alignment explanation
Indices: 6404949--6404990 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
6404939 TTTTGTATTT
6404949 TATGTTTTTTTAT-ATA
1 TATG-TTTTTTATCATA
6404965 TATGTTTTTTATCATA
1 TATGTTTTTTATCATA
6404981 T-TGTTTTTTA
1 TATGTTTTTTA
6404991 ATTTTTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.69
Consensus pattern (16 bp):
TATGTTTTTTATCATA
Found at i:6408855 original size:7 final size:7
Alignment explanation
Indices: 6408843--6408873 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
6408833 TAAACAATAC
6408843 AAAAAGA
1 AAAAAGA
6408850 AAAAAGA
1 AAAAAGA
6408857 AAAAAGA
1 AAAAAGA
6408864 AAAAAGA
1 AAAAAGA
6408871 AAA
1 AAA
6408874 TCTCAAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:6409136 original size:22 final size:22
Alignment explanation
Indices: 6409110--6409171 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
6409100 CAATAACAAC
*
6409110 AAAATAGTAGCAACATAAT-AG
1 AAAATAGTAGCAAAATAATGAG
* * * *
6409131 TGAAATTGTCGCAAAATAGTGAG
1 -AAAATAGTAGCAAAATAATGAG
6409154 AAAATAGTAGCAAAATAA
1 AAAATAGTAGCAAAATAA
6409172 CATATTTTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.53, C:0.08, G:0.18, T:0.21
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAATGAG
Found at i:6409157 original size:11 final size:11
Alignment explanation
Indices: 6409109--6409170 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
6409099 ACAATAACAA
6409109 CAAAATAGTAG
1 CAAAATAGTAG
* *
6409120 CAACATAATAG
1 CAAAATAGTAG
** * *
6409131 TGAAATTGTCG
1 CAAAATAGTAG
6409142 CAAAATAGTGAG
1 CAAAATAGT-AG
6409154 -AAAATAGTAG
1 CAAAATAGTAG
6409164 CAAAATA
1 CAAAATA
6409171 ACATATTTTT
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
10 2 0.05
11 34 0.92
12 1 0.03
ACGTcount: A:0.52, C:0.10, G:0.18, T:0.21
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:6410460 original size:18 final size:19
Alignment explanation
Indices: 6410431--6410466 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6410421 GTAAAAAAAT
*
6410431 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
6410450 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
6410467 ATTTAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:6410813 original size:24 final size:24
Alignment explanation
Indices: 6410786--6410832 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6410776 ATTGAAATGG
6410786 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
6410810 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
6410833 GATATATATA
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:6410854 original size:21 final size:21
Alignment explanation
Indices: 6410803--6410856 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
6410793 TAGTATGTGA
* *
6410803 TGAATTTATTGA-ATTTATAT
1 TGAATATATTGATATATATAT
*
6410823 TGATTGA-ATTGATATATATAT
1 TGAAT-ATATTGATATATATAT
6410844 TGAATATATTGAT
1 TGAATATATTGAT
6410857 TATTTGAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (21 bp):
TGAATATATTGATATATATAT
Found at i:6411033 original size:41 final size:41
Alignment explanation
Indices: 6410989--6411123 Score: 138
Period size: 40 Copynumber: 3.4 Consensus size: 41
6410979 GACTTCGAGT
* *
6410989 CGATGAGACACTAGGTGTCAATTTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATC
* * *
6411030 CGATGATG-CACTGGGTGCCAA--T-TTACTTTGGTTTAA-C
1 CGATGA-GACACTGGGTGTCAATTTATTACTTCGGATTAATC
* *
6411067 CGATGAGACATTGGGTGTCAATTTATTACTTCGAATT-ATC
1 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATC
* *
6411107 CGATGAGGCACCGGGTG
1 CGATGAGACACTGGGTG
6411124 CCAAACTGGT
Statistics
Matches: 75, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
36 1 0.01
37 17 0.23
38 12 0.16
39 3 0.04
40 24 0.32
41 17 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (41 bp):
CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATC
Found at i:6413779 original size:18 final size:20
Alignment explanation
Indices: 6413756--6413796 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
6413746 AAAGTTGAAA
6413756 TTTAAATT-ATTTTTA-CTT
1 TTTAAATTAATTTTTAGCTT
6413774 TTTAAATTAAATTTTTAGCTT
1 TTTAAATT-AATTTTTAGCTT
6413795 TT
1 TT
6413797 GTTAGTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
20 7 0.35
21 5 0.25
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTAAATTAATTTTTAGCTT
Found at i:6415844 original size:16 final size:16
Alignment explanation
Indices: 6415811--6415852 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
6415801 ACCCATACCC
*
6415811 GAACTTGGAATGACCT
1 GAACTTGAAATGACCT
* *
6415827 GAATTTGAAATGATCT
1 GAACTTGAAATGACCT
6415843 GAACTTGAAA
1 GAACTTGAAA
6415853 CAACTCAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (16 bp):
GAACTTGAAATGACCT
Found at i:6420785 original size:17 final size:17
Alignment explanation
Indices: 6420763--6420796 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6420753 TGAAAAATCG
* *
6420763 GGAATATAAATTATAAT
1 GGAATACAAATAATAAT
6420780 GGAATACAAATAATAAT
1 GGAATACAAATAATAAT
6420797 TCAAACTTTG
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:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (17 bp):
GGAATACAAATAATAAT
Found at i:6427913 original size:2 final size:2
Alignment explanation
Indices: 6427898--6427935 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
6427888 AACTGTACCA
6427898 AT AT AT A- AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6427936 TTGTCAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6431848 original size:2 final size:2
Alignment explanation
Indices: 6431841--6431870 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6431831 AATTCAAAGA
6431841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6431871 TCATAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6441539 original size:31 final size:31
Alignment explanation
Indices: 6441501--6441561 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
6441491 TAACCCGTGT
*
6441501 GATGTCCATCATGAA-GATATCAAAGCCGTTA
1 GATGTCCATCA-CAAGGATATCAAAGCCGTTA
*
6441532 GATGTCCATCACAAGGATATCAGAGCCGTT
1 GATGTCCATCACAAGGATATCAAAGCCGTT
6441562 GATCTTGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (31 bp):
GATGTCCATCACAAGGATATCAAAGCCGTTA
Found at i:6442645 original size:3 final size:3
Alignment explanation
Indices: 6442630--6442662 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
6442620 AAACGGTGAA
*
6442630 CAT CAT CAC CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
6442663 TTATATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:6447860 original size:55 final size:55
Alignment explanation
Indices: 6447797--6447905 Score: 173
Period size: 55 Copynumber: 2.0 Consensus size: 55
6447787 TTGTCCACAC
* *
6447797 CCTTTCAAATTTCAGACAAACCTTCAAGCTTAAAAAAATAACTCAACCCATGAAT
1 CCTTTCAAATTTCAAACAAACCTTCAAGCATAAAAAAATAACTCAACCCATGAAT
* * *
6447852 CCTTTCAAATTTCAAACAGACCTTCAAGCATGAACAAATAACTCAACCCATGAA
1 CCTTTCAAATTTCAAACAAACCTTCAAGCATAAAAAAATAACTCAACCCATGAA
6447906 CGGTGTATCT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.43, C:0.27, G:0.06, T:0.24
Consensus pattern (55 bp):
CCTTTCAAATTTCAAACAAACCTTCAAGCATAAAAAAATAACTCAACCCATGAAT
Found at i:6457442 original size:20 final size:20
Alignment explanation
Indices: 6457414--6457467 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
6457404 TATCATCCTA
*
6457414 TCATTTTTTTCTTTCCAATT
1 TCATCTTTTTCTTTCCAATT
6457434 TCATCTTTTTCTTTCCAATT
1 TCATCTTTTTCTTTCCAATT
*
6457454 TCATCCTTTTCTTT
1 TCATCTTTTTCTTT
6457468 ATTTAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.63
Consensus pattern (20 bp):
TCATCTTTTTCTTTCCAATT
Found at i:6458677 original size:8 final size:8
Alignment explanation
Indices: 6458664--6458690 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6458654 GTATATATAA
6458664 TATATTTT
1 TATATTTT
6458672 TATATTTT
1 TATATTTT
6458680 TATATTTT
1 TATATTTT
6458688 TAT
1 TAT
6458691 GAAAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TATATTTT
Found at i:6459284 original size:12 final size:13
Alignment explanation
Indices: 6459258--6459286 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6459248 AAAGCAGAAA
6459258 AAAGAAAAAACAG
1 AAAGAAAAAACAG
6459271 AAAGAAAAAA-AG
1 AAAGAAAAAACAG
6459283 AAAG
1 AAAG
6459287 TTGTATTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.79, C:0.03, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAACAG
Found at i:6460258 original size:18 final size:20
Alignment explanation
Indices: 6460216--6460252 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
6460206 TAAGTGTTAA
6460216 CATTTATATACGATATATAT
1 CATTTATATACGATATATAT
6460236 CATTT-TATAC-ATATATA
1 CATTTATATACGATATATA
6460253 CAATTTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 5 0.29
20 5 0.29
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (20 bp):
CATTTATATACGATATATAT
Found at i:6463552 original size:3 final size:3
Alignment explanation
Indices: 6463544--6463568 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6463534 TTCTATATTG
6463544 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
6463569 GCATTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6464337 original size:4 final size:4
Alignment explanation
Indices: 6464328--6464389 Score: 124
Period size: 4 Copynumber: 15.5 Consensus size: 4
6464318 TTAATTATAA
6464328 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6464376 TATG TATG TATG TA
1 TATG TATG TATG TA
6464390 AACATCTCTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 58 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Done.