Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 127 of 216
Found at i:40220956 original size:23 final size:23
Alignment explanation
Indices: 40220926--40220974 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
40220916 CATAAGCTTG
40220926 AAGTTGGTCCTTAAGACTCATAT
1 AAGTTGGTCCTTAAGACTCATAT
40220949 AAGTTGGTCCTTAAGACTCATAT
1 AAGTTGGTCCTTAAGACTCATAT
40220972 AAG
1 AAG
40220975 AAAATCTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (23 bp):
AAGTTGGTCCTTAAGACTCATAT
Found at i:40221018 original size:13 final size:12
Alignment explanation
Indices: 40220999--40221030 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
40220989 AAAAAAGTAT
40220999 AAAAAATAAAGA
1 AAAAAATAAAGA
40221011 AAAGAAATAAAGA
1 AAA-AAATAAAGA
40221024 AAAAAAT
1 AAAAAAT
40221031 TGAAAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (12 bp):
AAAAAATAAAGA
Found at i:40223195 original size:13 final size:13
Alignment explanation
Indices: 40223177--40223255 Score: 104
Period size: 13 Copynumber: 6.1 Consensus size: 13
40223167 AGTTTAGCAT
40223177 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
40223190 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
** *
40223203 TGCAGTGGAAAAG
1 TGCTTTTGAAAAG
40223216 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
40223229 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
40223242 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
40223255 T
1 T
40223256 TTGGTTTAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 55 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:40227697 original size:25 final size:25
Alignment explanation
Indices: 40227669--40227727 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
40227659 CAACTCGAGA
* *
40227669 GAGCTTACCAATATTCAGTTCGTAT
1 GAGCTTACCAATACTCAGCTCGTAT
**
40227694 GAGCTTACCTTTACTCAGCTCGTAT
1 GAGCTTACCAATACTCAGCTCGTAT
40227719 GAGCTTACC
1 GAGCTTACC
40227728 GATTACAGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (25 bp):
GAGCTTACCAATACTCAGCTCGTAT
Found at i:40229268 original size:15 final size:15
Alignment explanation
Indices: 40229248--40229280 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
40229238 ATTGGTTGAG
40229248 TGTGGTTATACTATA
1 TGTGGTTATACTATA
40229263 TGTGGTTATACTATA
1 TGTGGTTATACTATA
40229278 TGT
1 TGT
40229281 ATAAAGCTAG
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:0.24, C:0.06, G:0.21, T:0.48
Consensus pattern (15 bp):
TGTGGTTATACTATA
Found at i:40234774 original size:23 final size:21
Alignment explanation
Indices: 40234748--40234793 Score: 74
Period size: 23 Copynumber: 2.1 Consensus size: 21
40234738 TTCAAAACGG
40234748 TACTTAATCCCTAAACACTTAAA
1 TACTTAATCCCT-AA-ACTTAAA
40234771 TACTTAATCCCTAAACTTAAA
1 TACTTAATCCCTAAACTTAAA
40234792 TA
1 TA
40234794 TTGTTGTACG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.39
22 2 0.09
23 12 0.52
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (21 bp):
TACTTAATCCCTAAACTTAAA
Found at i:40237993 original size:3 final size:3
Alignment explanation
Indices: 40237987--40238030 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
40237977 ATAGTAATAA
*
40237987 TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
40238031 ACTTTAGCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:40242422 original size:23 final size:23
Alignment explanation
Indices: 40242396--40242448 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
40242386 ATAAGTGCCA
*
40242396 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAACCGAAGCTAC
*
40242419 CACTGATATGTAACCGATGCTAC
1 CACTGATATGTAACCGAAGCTAC
*
40242442 CATTGAT
1 CACTGAT
40242449 CAATAACACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (23 bp):
CACTGATATGTAACCGAAGCTAC
Found at i:40248243 original size:825 final size:825
Alignment explanation
Indices: 40245000--40249126 Score: 7407
Period size: 824 Copynumber: 5.0 Consensus size: 825
40244990 TTGGAGGTAG
* *
40245000 TTATAGTTGAGGGTTCCATGTAAGGTCACATTAACGTGTTGGACTTTCCATTAAGCCATCATTAC
1 TTATAGTTGAGGGTTCCATGTAAGGTCATATTAACGTGTTGGGCTTTCCATTAAGCCATCATTAC
* * *
40245065 AGAACGCGTGGGATGGATGTCTTTGATGGGACGATGATGTATGTGATGGGACAAATCGTATCATT
66 AGAACGCGTGGGATGGATGCCTTTAATGGGACGATGATGTCTGTGATGGGACAAATCGTATCATT
* * *
40245130 TATTCTAATTTGATGGTATGGAGATGTTGAACCCATGTGGTATTTGCTGACCAACAACTTCATGT
131 TATTCTAATTTGATGGTATGGAGATGTTGAACCCACGTGGTATTTGGTGACCTACAACTTCATGT
* *
40245195 TCCCGATGAAGCTCAAGGACCTGAACGATGGATGGTATGTGCTTGTTCAAATAGTCTTTGTAAAG
196 TCCCGATGAAGCTCAAGGACCTGAACGACGGATAGTATGTGCTTGTTCAAATAGTCTTTGTAAA-
* * *
40245260 GGGATTGCAGATGACCTTCCAGTTTATTGTCAATTGTCTTACTGTTTGTGTGTTCTCTTCACTTG
260 GGG-TTACAGATGACCTTCCAGCTTATTGTCAATTGTCTTACTGTTTGTGTGTTCTCTTTACTTG
*
40245325 CCATGTATCTTGACACAGATGGGGGGTATAACAATATTTCCCCCTTTCGAGTTGAGAGGAAGGTT
324 CCATGTGTCTTGACACAGATGGGGGGTATAACAATATTTCCCCCTTTCGAGTTGAGAGGAAGGTT
* *
40245390 ATAAAGTGATCTTCCATGAGACACTCTAATTCATTAACTTTCTCTTTTACAGGTTGCTCCGGTTA
389 ATAAAGTGATCTTCCTTGAGACACTCTAATTCATTAACTTTCTCTTTTACAGGTTGCTCCGGTTG
* *
40245455 GTGACTTTGCTTTATAGTGAAACGTTATATCAAAAACTTTGAGATTCTGCAATAAATGTATTCTA
454 GTGACTTTGTTTTATAGTGAAACGTTATATCAAAACCTTTGAGATTCTGCAATAAATGTATTCTA
40245520 AGGATTGCGTTTCTAGGGAGTCGTGATAATGATGAACAATAGCTTTTTGGAAATGGTGGTGAGAT
519 AGGATTGCGTTTCTAGGGAGTCGTGATAATGATGAACAATAGCTTTTTGGAAATGGTGGTGAGAT
*
40245585 GCTATTAAATGTTGTTTGTCTTTCAAAACAGTGCATTTTGGGAAATAGGCCTATGTATTATGGGT
584 GCTATTAAATGTTGTTTGTCTTTCAAAACAGTGCGTTTTGGGAAATAGGCCTATGTATTATGGGT
40245650 TTTCTTCTTCGAAGTTGTATTGCCTTCTTTTCTATTTGAAATTTTTCCATCTTTTGTTGGTGATT
649 TTTCTTCTTCGAAGTTGTATTGCCTTCTTTTCTATTTGAAATTTTTCCATCTTTTGTTGGTGATT
* *
40245715 TTCTAGTCTTATTTGGTTTTCTGGGATGATTTCTACATCTTCAAAGTTTTCTTGCTTTGATTCGT
714 TTCTAGTCTTATTTGGTTTTCTGGGATGATTTCTGCATCTTCAAAGTTTTCTTGCTTCGATTCGT
*
40245780 TTCGCAGTTATTGTTTTTTGTTGTCATTGGTGTTATTTTTTTAACAT
779 TTCGCAGTTATTGTTCTTTGTTGTCATTGGTGTTATTTTTTTAACAT
40245827 TTATAGTTGAGGGTTCCATGTAAGGTCATATTAACGTGTTGGGCTTTCCATTAAGCCATCATTAC
1 TTATAGTTGAGGGTTCCATGTAAGGTCATATTAACGTGTTGGGCTTTCCATTAAGCCATCATTAC
40245892 AGAACGCGTGGGATGGATGCCTTTAATGGGACGATGATGTCTGTGATGGGACAAATCGTATCATT
66 AGAACGCGTGGGATGGATGCCTTTAATGGGACGATGATGTCTGTGATGGGACAAATCGTATCATT
40245957 TATTCTAATTTGATGGTATGGAGATGTTGAACCCACGTGGTATTTGGTGACCTACAACTTCATGT
131 TATTCTAATTTGATGGTATGGAGATGTTGAACCCACGTGGTATTTGGTGACCTACAACTTCATGT
40246022 TCCCGATGAAGCTCAAGGACCTGAACGACGGATAGTATGTGCTTGTTCAAATAGTCTTTGTAAAG
196 TCCCGATGAAGCTCAAGGACCTGAACGACGGATAGTATGTGCTTGTTCAAATAGTCTTTGTAAAG
* *
40246087 GGTTACAGATGACCTTCCAACTTATTGTCAATTGTCTTACTTTTTGTGTGTTCTCTTTACTTGCC
261 GGTTACAGATGACCTTCCAGCTTATTGTCAATTGTCTTACTGTTTGTGTGTTCTCTTTACTTGCC
* *
40246152 ATGTGTCTTGACACAGAT-GGGGGTATAACAATATTTCCCTCTTTCGAGTTGAGAAGAAGGTTAT
326 ATGTGTCTTGACACAGATGGGGGGTATAACAATATTTCCCCCTTTCGAGTTGAGAGGAAGGTTAT
* *
40246216 AAAGTGATCTTCATTGAGACACTCTAATTCATTAACTTTCTCTTTTACAGGTTGCTCCGGTTGGA
391 AAAGTGATCTTCCTTGAGACACTCTAATTCATTAACTTTCTCTTTTACAGGTTGCTCCGGTTGGT
* *
40246281 GACTTTGTTTTATAGTGAAACGTTATATCAAAACCTTTGAGATTTTGCCATAAATGTATTCTAAG
456 GACTTTGTTTTATAGTGAAACGTTATATCAAAACCTTTGAGATTCTGCAATAAATGTATTCTAAG
*
40246346 GATTGTGTTTCTAGGGAGTCGTGATAATGATGAACAATAGCTTTTTGGAAATGGTGGTGAGATGC
521 GATTGCGTTTCTAGGGAGTCGTGATAATGATGAACAATAGCTTTTTGGAAATGGTGGTGAGATGC
* *
40246411 TATTAAATGTTGTTTGTCTTTCAAAACAGTGCATTTTGGGAAATAGGCCTGTGTATTATGGGTTT
586 TATTAAATGTTGTTTGTCTTTCAAAACAGTGCGTTTTGGGAAATAGGCCTATGTATTATGGGTTT
40246476 TCTTCTTCGAAGTTGTATTGCCTTCTTTTCTATTTGAAATTTTTCCATCTTTTGTTGGTGATTTT
651 TCTTCTTCGAAGTTGTATTGCCTTCTTTTCTATTTGAAATTTTTCCATCTTTTGTTGGTGATTTT
* *
40246541 CTAGTCTTATTTGGTTTTCTGGGATGATTTCTACATCTTCAAAGTTTTCTTGCTTTGATTCGTTT
716 CTAGTCTTATTTGGTTTTCTGGGATGATTTCTGCATCTTCAAAGTTTTCTTGCTTCGATTCGTTT
40246606 CGCAGTTATTGTTCTTTGTTGTCATTGGTGTTATTTTTTTAACAT
781 CGCAGTTATTGTTCTTTGTTGTCATTGGTGTTATTTTTTTAACAT
40246651 TTATAGTTGAGGGTTCCATGTAAGGTCATATTAACGTGTTGGGCTTTCCATTAAGCCATCATTAC
1 TTATAGTTGAGGGTTCCATGTAAGGTCATATTAACGTGTTGGGCTTTCCATTAAGCCATCATTAC
40246716 AGAACGCGTGGGATGGATGCCTTTAATGGGACGATGATGTCTGTGATGGGACAAATCGTATCATT
66 AGAACGCGTGGGATGGATGCCTTTAATGGGACGATGATGTCTGTGATGGGACAAATCGTATCATT
40246781 TATTCTAATTTGATGGTATGGAGATGTTGAACCCACGTGGTATTTGGTGACCTACAACTTCATGT
131 TATTCTAATTTGATGGTATGGAGATGTTGAACCCACGTGGTATTTGGTGACCTACAACTTCATGT
40246846 TCCCGATGAAGCTCAAGGACCTGAACGACGGATAGTATGTGCTTGTTCAAATAGTCTTTGTAAAG
196 TCCCGATGAAGCTCAAGGACCTGAACGACGGATAGTATGTGCTTGTTCAAATAGTCTTTGTAAAG
* *
40246911 GGTTACAGATGACCTTCCAACTTATTGTCAATTGTCTTACTTTTTGTGTGTTCTCTTTACTTGCC
261 GGTTACAGATGACCTTCCAGCTTATTGTCAATTGTCTTACTGTTTGTGTGTTCTCTTTACTTGCC
*
40246976 ATGTGTCTTGACACAGAT-GGGGGTATAACAATATTTCCCCCTTTCGAGTTGAGAAGAAGGTTAT
326 ATGTGTCTTGACACAGATGGGGGGTATAACAATATTTCCCCCTTTCGAGTTGAGAGGAAGGTTAT
* *
40247040 AAAGTGATCTTCATTGAGACACTCTAATTCATTAACTTTCTCTTTTACAGGTTGCTCCGGTTGGA
391 AAAGTGATCTTCCTTGAGACACTCTAATTCATTAACTTTCTCTTTTACAGGTTGCTCCGGTTGGT
*
40247105 GACTTTGTTTTATAGTGAAACGTTATATCAAAACCTTTGAGATTCTGCCATAAATGTATTCTAAG
456 GACTTTGTTTTATAGTGAAACGTTATATCAAAACCTTTGAGATTCTGCAATAAATGTATTCTAAG
*
40247170 GATTGTGTTTCTAGGGAGTCGTGATAATGATGAACAATAGCTTTTTGGAAATGGTGGTGAGATGC
521 GATTGCGTTTCTAGGGAGTCGTGATAATGATGAACAATAGCTTTTTGGAAATGGTGGTGAGATGC
*
40247235 TATTAAATGTTGTTTGTCTTTCAAAACAATGCGTTTTGGGAAATAGGCCTATGTATTATGGGTTT
586 TATTAAATGTTGTTTGTCTTTCAAAACAGTGCGTTTTGGGAAATAGGCCTATGTATTATGGGTTT
40247300 TCTTCTTCGAAGTTGTATTGCCTTCTTTTCTATTTGAAATTTTTCCATCTTTTGTTGGTGATTTT
651 TCTTCTTCGAAGTTGTATTGCCTTCTTTTCTATTTGAAATTTTTCCATCTTTTGTTGGTGATTTT
*
40247365 CTAGTCTTATTTGGTTTTCTGGGATGATTTCTGCATCTTCAAAGTTTTCTTGCTTCGATTCATTT
716 CTAGTCTTATTTGGTTTTCTGGGATGATTTCTGCATCTTCAAAGTTTTCTTGCTTCGATTCGTTT
*
40247430 CACAGTTATTGTTCTTTGTTGTCATTGGTGTTATTTTTTTAACAT
781 CGCAGTTATTGTTCTTTGTTGTCATTGGTGTTATTTTTTTAACAT
40247475 TTATAGTTGAGGGTTCCATGTAAGGTCATATTAACGTGTTGGGCTTTCCATTAAGCCATCATTAC
1 TTATAGTTGAGGGTTCCATGTAAGGTCATATTAACGTGTTGGGCTTTCCATTAAGCCATCATTAC
*
40247540 AGAACGCGTGGGATGGATGCCTTTAATGGGACGATGATGTCTGTGATGGGACAAATCGTATCACT
66 AGAACGCGTGGGATGGATGCCTTTAATGGGACGATGATGTCTGTGATGGGACAAATCGTATCATT
*
40247605 TATTCTAATTTGATGGTATGGAGATGTTGAACTCACGTGGTATTTGGTGACCTACAACTTCATGT
131 TATTCTAATTTGATGGTATGGAGATGTTGAACCCACGTGGTATTTGGTGACCTACAACTTCATGT
* *
40247670 TCCCGATGAAGCTCAAGGACCTGAACGATGGATAGTATATGCTTGTTCAAATAGTCTTTGTAAAG
196 TCCCGATGAAGCTCAAGGACCTGAACGACGGATAGTATGTGCTTGTTCAAATAGTCTTTGTAAAG
* *
40247735 GGTTACAGATGACCTTCCAGCTTATTGTCAATTGTCTTACTGTTTGTTTGTTCTCTTTACTTACC
261 GGTTACAGATGACCTTCCAGCTTATTGTCAATTGTCTTACTGTTTGTGTGTTCTCTTTACTTGCC
* * *
40247800 ATGTTTCTTGACACAGATGGGGGGTATAACAATATTTCCCCATTTCGAGTCGAGAGGAAGGTTAT
326 ATGTGTCTTGACACAGATGGGGGGTATAACAATATTTCCCCCTTTCGAGTTGAGAGGAAGGTTAT
* * *
40247865 AAAGTGATCTTCCTTGAGACACTCTAATTCATTAACTTTCTCTTTTATAGGTTTCTCCGTTTGGT
391 AAAGTGATCTTCCTTGAGACACTCTAATTCATTAACTTTCTCTTTTACAGGTTGCTCCGGTTGGT
40247930 GACTTTGTTTTATAGTGAAACGTTATATCAAAACCTTTGAGATTCTGCAATAAATGTATTCTAAG
456 GACTTTGTTTTATAGTGAAACGTTATATCAAAACCTTTGAGATTCTGCAATAAATGTATTCTAAG
* *
40247995 GATTACGTTTCTAGGGAGTCGTGAGAATGATGAACAATAGCTTTTTGGAAATGGTGGTGAGATGC
521 GATTGCGTTTCTAGGGAGTCGTGATAATGATGAACAATAGCTTTTTGGAAATGGTGGTGAGATGC
*
40248060 TATTAAATGTTGTTTGTCTTTCAAAATAGTGCGTTTTGGGAAATAGGCCTATGTATTATGGGTTT
586 TATTAAATGTTGTTTGTCTTTCAAAACAGTGCGTTTTGGGAAATAGGCCTATGTATTATGGGTTT
* * *
40248125 TCTTCTTCGAAGTTGTATTGCCTCCTTTTTTATTTGAAATTTTTGCATCTTTTGTTGGTGATTTT
651 TCTTCTTCGAAGTTGTATTGCCTTCTTTTCTATTTGAAATTTTTCCATCTTTTGTTGGTGATTTT
*
40248190 CTAGTCTTATTTGGTTTTCCGGGATGATTTCTGCATCTTCAAAGTTTTCTTGCTTCGATTCGTTT
716 CTAGTCTTATTTGGTTTTCTGGGATGATTTCTGCATCTTCAAAGTTTTCTTGCTTCGATTCGTTT
40248255 CGCAGTTATTGTTCTTTGTTGTCATTGGTGTTATTTTTTTAACAT
781 CGCAGTTATTGTTCTTTGTTGTCATTGGTGTTATTTTTTTAACAT
* *
40248300 TTATAGTTGAGGGTTCCATGTAAGGTCACATTAATGTGTTGGGCTTTCCATTAAGCCATCATTAC
1 TTATAGTTGAGGGTTCCATGTAAGGTCATATTAACGTGTTGGGCTTTCCATTAAGCCATCATTAC
* * *
40248365 AGAACGTGTGGGATGGATGTCTTTAATGGGACGATGATGTCTGTGATGGGGCAAATCGTATCATT
66 AGAACGCGTGGGATGGATGCCTTTAATGGGACGATGATGTCTGTGATGGGACAAATCGTATCATT
40248430 TATTCTAATTTGATGGTATGGAGATGTTGAACCCACGTGGTATTTGGTGACCTACAACTTCATGT
131 TATTCTAATTTGATGGTATGGAGATGTTGAACCCACGTGGTATTTGGTGACCTACAACTTCATGT
*
40248495 TCCCGATGAAGCTCAAGGACCTGAACGACGGATAGTATGTGCTTGTCCAAATAGTCTTTGTAAAG
196 TCCCGATGAAGCTCAAGGACCTGAACGACGGATAGTATGTGCTTGTTCAAATAGTCTTTGTAAAG
* *
40248560 GGTTACAGATGACCTTCCAGCTTATTGTCAATTGTCTTACTGTTTGTGTGTTCTGTTTACTTACC
261 GGTTACAGATGACCTTCCAGCTTATTGTCAATTGTCTTACTGTTTGTGTGTTCTCTTTACTTGCC
* *
40248625 ATGTGTCTTGACACAGATGGGGGGTATAATAATATTTCCCCCTTTCGAGTCGAGAGGAAGGTTAT
326 ATGTGTCTTGACACAGATGGGGGGTATAACAATATTTCCCCCTTTCGAGTTGAGAGGAAGGTTAT
* * * ***
40248690 AAAGTGATCTTCCTTGAGACACTCTAATTTATTAACTTTCTCTTTTATAGGTTTCTCTATTTGGT
391 AAAGTGATCTTCCTTGAGACACTCTAATTCATTAACTTTCTCTTTTACAGGTTGCTCCGGTTGGT
40248755 GACTTTGTTTTATAGTGAAACGTTATATCAAAACCTTTGAGATTCTGCAATAAATGTATTCTAAG
456 GACTTTGTTTTATAGTGAAACGTTATATCAAAACCTTTGAGATTCTGCAATAAATGTATTCTAAG
* *
40248820 GATTACGTTTCTAGGGAGTCGTGAGAATGATGAACAATAGCTTTTTGGAAATGGTGGTGAGATGC
521 GATTGCGTTTCTAGGGAGTCGTGATAATGATGAACAATAGCTTTTTGGAAATGGTGGTGAGATGC
* *
40248885 TATTAAATGTTGTTTGTCTTTCAAAATAGTGCGTTTTGGAAAATAGGCCTATGTATTATGGGTTT
586 TATTAAATGTTGTTTGTCTTTCAAAACAGTGCGTTTTGGGAAATAGGCCTATGTATTATGGGTTT
* * *
40248950 TCTTCTTCGAAGTTGTATTGCCTCCATTTCTATTTGAAATTTTTGCATCTTTTGTTGGTGATTTT
651 TCTTCTTCGAAGTTGTATTGCCTTCTTTTCTATTTGAAATTTTTCCATCTTTTGTTGGTGATTTT
40249015 CTAGTCTTATTTGGTTTT-TCGGGATGATTTCTGCATCTTCAAAG-TTTCTTGCTTCGATTCGTT
716 CTAGTCTTATTTGGTTTTCT-GGGATGATTTCTGCATCTTCAAAGTTTTCTTGCTTCGATTCGTT
40249078 TCGCAGTTATTGTTCTTTGTTGTCATTGGTGTTATTTCTTTTAACAT
780 TCGCAGTTATTGTTCTTTGTTGTCATTGGTGTTATTT-TTTTAACAT
40249125 TT
1 TT
40249127 TTGTTAAAAA
Statistics
Matches: 3208, Mismatches: 89, Indels: 8
0.97 0.03 0.00
Matches are distributed among these distances:
824 1673 0.52
825 1283 0.40
826 3 0.00
827 249 0.08
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.40
Consensus pattern (825 bp):
TTATAGTTGAGGGTTCCATGTAAGGTCATATTAACGTGTTGGGCTTTCCATTAAGCCATCATTAC
AGAACGCGTGGGATGGATGCCTTTAATGGGACGATGATGTCTGTGATGGGACAAATCGTATCATT
TATTCTAATTTGATGGTATGGAGATGTTGAACCCACGTGGTATTTGGTGACCTACAACTTCATGT
TCCCGATGAAGCTCAAGGACCTGAACGACGGATAGTATGTGCTTGTTCAAATAGTCTTTGTAAAG
GGTTACAGATGACCTTCCAGCTTATTGTCAATTGTCTTACTGTTTGTGTGTTCTCTTTACTTGCC
ATGTGTCTTGACACAGATGGGGGGTATAACAATATTTCCCCCTTTCGAGTTGAGAGGAAGGTTAT
AAAGTGATCTTCCTTGAGACACTCTAATTCATTAACTTTCTCTTTTACAGGTTGCTCCGGTTGGT
GACTTTGTTTTATAGTGAAACGTTATATCAAAACCTTTGAGATTCTGCAATAAATGTATTCTAAG
GATTGCGTTTCTAGGGAGTCGTGATAATGATGAACAATAGCTTTTTGGAAATGGTGGTGAGATGC
TATTAAATGTTGTTTGTCTTTCAAAACAGTGCGTTTTGGGAAATAGGCCTATGTATTATGGGTTT
TCTTCTTCGAAGTTGTATTGCCTTCTTTTCTATTTGAAATTTTTCCATCTTTTGTTGGTGATTTT
CTAGTCTTATTTGGTTTTCTGGGATGATTTCTGCATCTTCAAAGTTTTCTTGCTTCGATTCGTTT
CGCAGTTATTGTTCTTTGTTGTCATTGGTGTTATTTTTTTAACAT
Found at i:40253993 original size:12 final size:12
Alignment explanation
Indices: 40253972--40254006 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
40253962 TGCTTCGCAA
*
40253972 CTTGCGCTTGCC
1 CTTGCTCTTGCC
40253984 CTTGCTCTTGCC
1 CTTGCTCTTGCC
*
40253996 CTTGGTCTTGC
1 CTTGCTCTTGC
40254007 GCATCACCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.37, G:0.23, T:0.40
Consensus pattern (12 bp):
CTTGCTCTTGCC
Found at i:40275625 original size:51 final size:50
Alignment explanation
Indices: 40275454--40275644 Score: 174
Period size: 51 Copynumber: 3.8 Consensus size: 50
40275444 TGAAAGTGAA
* * * *
40275454 AGTGATGGTCACGTGTGTAGTTCTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATAGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGA-AT
* * * *
40275504 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTGATA-GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAAT
* ** * * *
40275555 AGCT--TCGATCATGTTTGTAGTACTATGTACAGGCTGCTACGTGTATCGAAT
1 AG-TGATAG-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAAT
40275606 AGTGATAGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 AGTGATAGTCACATGTGTAGTACTATGTGCAGGCTACTA
40275645 TTTGAACCGA
Statistics
Matches: 108, Mismatches: 25, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
49 4 0.04
50 37 0.34
51 64 0.59
52 2 0.02
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
AGTGATAGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGAAT
Found at i:40279799 original size:43 final size:43
Alignment explanation
Indices: 40279740--40280712 Score: 635
Period size: 43 Copynumber: 22.7 Consensus size: 43
40279730 TCAATCGGCT
* * * *
40279740 ACACAGTGCACCATCAGATATACTAAAGTAACTATACTAGCAC
1 ACACAGTGCATCATCGGATATACTGAAGTAACTATACTGGCAC
* * *
40279783 ACACAGTGCATCATCAGATGA-A-TCGAAGTATCTATA-TCGGCAA
1 ACACAGTGCATCATCGGAT-ATACT-GAAGTAACTATACT-GGCAC
* **
40279826 ATACAGTGCATCATCAAATATACTGAAGTAACTATACTGGCAC
1 ACACAGTGCATCATCGGATATACTGAAGTAACTATACTGGCAC
* * * * * * ** *
40279869 ACATAGTGCATCATTGGATAAAC-CACAATATCTATACCAGTAC
1 ACACAGTGCATCATCGGATATACTGA-AGTAACTATACTGGCAC
* * * * * *
40279912 ATAAAGTGCATCATTGAATATACCGAAGTAACTATATTGGCAC
1 ACACAGTGCATCATCGGATATACTGAAGTAACTATACTGGCAC
* * * *
40279955 ACAAAGTGCATCATCGGATA-AATCGAAGTATCTATATTGGCAC
1 ACACAGTGCATCATCGGATATACT-GAAGTAACTATACTGGCAC
* ***
40279998 AAACAGTGCATCATCGGATATAAC-GAAGTAACTATACCAACAC
1 ACACAGTGCATCATCGGATAT-ACTGAAGTAACTATACTGGCAC
* * * * * * *
40280041 CCATAGTGCACCATCGGATAAACTGAATTATCTATACTAGCAC
1 ACACAGTGCATCATCGGATATACTGAAGTAACTATACTGGCAC
* * * ** * * *
40280084 ATACAATGCATCATTGGATATACCAAAGTAATTATACTTGCAG
1 ACACAGTGCATCATCGGATATACTGAAGTAACTATACTGGCAC
* * *
40280127 ACACAGTGCATCATCGGATAAACT-ACATTATCTATACTGGCAC
1 ACACAGTGCATCATCGGATATACTGA-AGTAACTATACTGGCAC
* * * * *
40280170 ATACAGTGTATCATCGAATATACTGAAGCAACTATACTAGCAC
1 ACACAGTGCATCATCGGATATACTGAAGTAACTATACTGGCAC
* * * * * * *
40280213 ACATAGTGCATCATTGGATAAACCGAAGTATCTATATTGACAC
1 ACACAGTGCATCATCGGATATACTGAAGTAACTATACTGGCAC
* * * * * * *
40280256 ATACAATGCTTCATCTGATATACCGAAGAAACTATACTAGCAC
1 ACACAGTGCATCATCGGATATACTGAAGTAACTATACTGGCAC
* * * * **
40280299 ACGCAATGCATCATCGGATA-AATCGAAGTATCTACGCTGGCAC
1 ACACAGTGCATCATCGGATATACT-GAAGTAACTATACTGGCAC
* * * * * *
40280342 ATATAGTGCATCATTGGATAAACTGAAGTATA-TTTACTGACAC
1 ACACAGTGCATCATCGGATATACTGAAGTA-ACTATACTGGCAC
* * *
40280385 ATACAGTGCATCATCGGATATACCGAAATAACTATACTGGCAC
1 ACACAGTGCATCATCGGATATACTGAAGTAACTATACTGGCAC
* * * ** * * *
40280428 ACACAGTGCATTATCGAATAAACCAAAGTATCTATATTGGCAT
1 ACACAGTGCATCATCGGATATACTGAAGTAACTATACTGGCAC
* * *
40280471 ATATAGTGCATCATTGGATATACTGAAGTATA-TATACTAGGCAC
1 ACACAGTGCATCATCGGATATACTGAAGTA-ACTATACT-GGCAC
* * * * ** *
40280515 ACA-A-TGCATCATCGAATAAATTGAA-TAATCTATATTAACAT
1 ACACAGTGCATCATCGGATATACTGAAGTAA-CTATACTGGCAC
* *
40280556 ATACAGTGCATCATCGGATATA-TCGAAGTAACTATATTGGCAC
1 ACACAGTGCATCATCGGATATACT-GAAGTAACTATACTGGCAC
** * * * * *
40280599 ACATGGTGCATCATCGAATAAATTGAAGTATCTATATTGGCAC
1 ACACAGTGCATCATCGGATATACTGAAGTAACTATACTGGCAC
* * * * *
40280642 ATACAATGCATTATCGGATAAACTGAAG-AATCTATACTAGCAC
1 ACACAGTGCATCATCGGATATACTGAAGTAA-CTATACTGGCAC
* **
40280685 ATACAGTGCATCATCAAATATACTGAAG
1 ACACAGTGCATCATCGGATATACTGAAG
40280713 CCTAATTGGA
Statistics
Matches: 706, Mismatches: 196, Indels: 56
0.74 0.20 0.06
Matches are distributed among these distances:
40 1 0.00
41 6 0.01
42 35 0.05
43 646 0.92
44 17 0.02
45 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (43 bp):
ACACAGTGCATCATCGGATATACTGAAGTAACTATACTGGCAC
Found at i:40280712 original size:86 final size:86
Alignment explanation
Indices: 40279742--40280712 Score: 793
Period size: 86 Copynumber: 11.3 Consensus size: 86
40279732 AATCGGCTAC
* * * *
40279742 ACAGTGCACCATC-AGATATACTAAAGTAACTATACTAGCACACACAGTGCATCATCAGATGAA-
1 ACAGTGCATCATCGA-ATATACTGAAGTAACTATACTAGCACACACAGTGCATCATCGGATAAAC
*
40279805 TCGAAGTATCTATA-TCGGCAAAT
65 T-GAAGTATCTATACT-GGCACAT
* * * *
40279828 ACAGTGCATCATCAAATATACTGAAGTAACTATACTGGCACACATAGTGCATCATTGGATAAAC-
1 ACAGTGCATCATCGAATATACTGAAGTAACTATACTAGCACACACAGTGCATCATCGGATAAACT
* * ** *
40279892 CACAATATCTATACCAGTACAT
66 GA-AGTATCTATACTGGCACAT
* * * * * *
40279914 AAAGTGCATCATTGAATATACCGAAGTAACTATATTGGCACACAAAGTGCATCATCGGATAAA-T
1 ACAGTGCATCATCGAATATACTGAAGTAACTATACTAGCACACACAGTGCATCATCGGATAAACT
* *
40279978 CGAAGTATCTATATTGGCACAA
66 -GAAGTATCTATACTGGCACAT
* * * * * *
40280000 ACAGTGCATCATCGGATATAAC-GAAGTAACTATACCAACACCCATAGTGCACCATCGGATAAAC
1 ACAGTGCATCATCGAATAT-ACTGAAGTAACTATACTAGCACACACAGTGCATCATCGGATAAAC
* *
40280064 TGAATTATCTATACTAGCACAT
65 TGAAGTATCTATACTGGCACAT
* * * ** * * *
40280086 ACAATGCATCATTGGATATACCAAAGTAATTATACTTGCAGACACAGTGCATCATCGGATAAACT
1 ACAGTGCATCATCGAATATACTGAAGTAACTATACTAGCACACACAGTGCATCATCGGATAAACT
*
40280151 -ACATTATCTATACTGGCACAT
66 GA-AGTATCTATACTGGCACAT
* * * * *
40280172 ACAGTGTATCATCGAATATACTGAAGCAACTATACTAGCACACATAGTGCATCATTGGATAAACC
1 ACAGTGCATCATCGAATATACTGAAGTAACTATACTAGCACACACAGTGCATCATCGGATAAACT
* *
40280237 GAAGTATCTATATTGACACAT
66 GAAGTATCTATACTGGCACAT
* * * * * *
40280258 ACAATGCTTCATCTG-ATATACCGAAGAAACTATACTAGCACACGCAATGCATCATCGGATAAA-
1 ACAGTGCATCATC-GAATATACTGAAGTAACTATACTAGCACACACAGTGCATCATCGGATAAAC
**
40280321 TCGAAGTATCTACGCTGGCACAT
65 T-GAAGTATCTATACTGGCACAT
* * * * * * *
40280344 ATAGTGCATCATTGGATAAACTGAAGTATA-TTTACT-GACACATACAGTGCATCATCGGATATA
1 ACAGTGCATCATCGAATATACTGAAGTA-ACTATACTAG-CACACACAGTGCATCATCGGATAAA
* * * *
40280407 CCGAAATAACTATACTGGCACAC
64 CTGAAGTATCTATACTGGCACAT
* * ** * * * * * * * *
40280430 ACAGTGCATTATCGAATAAACCAAAGTATCTATATTGGCATATATAGTGCATCATTGGATATACT
1 ACAGTGCATCATCGAATATACTGAAGTAACTATACTAGCACACACAGTGCATCATCGGATAAACT
*
40280495 GAAGTATATATACTAGGCAC--
66 GAAGTATCTATACT-GGCACAT
* * * * * * * *
40280515 ACAATGCATCATCGAATAAATTGAA-TAATCTATATTAACATATACAGTGCATCATCGGATATA-
1 ACAGTGCATCATCGAATATACTGAAGTAA-CTATACTAGCACACACAGTGCATCATCGGATAAAC
* * *
40280578 TCGAAGTAACTATATTGGCACAC
65 T-GAAGTATCTATACTGGCACAT
** * * * * * * * *
40280601 ATGGTGCATCATCGAATAAATTGAAGTATCTATATTGGCACATACAATGCATTATCGGATAAACT
1 ACAGTGCATCATCGAATATACTGAAGTAACTATACTAGCACACACAGTGCATCATCGGATAAACT
* *
40280666 GAAGAATCTATACTAGCACAT
66 GAAGTATCTATACTGGCACAT
*
40280687 ACAGTGCATCATCAAATATACTGAAG
1 ACAGTGCATCATCGAATATACTGAAG
40280713 CCTAATTGGA
Statistics
Matches: 709, Mismatches: 150, Indels: 52
0.78 0.16 0.06
Matches are distributed among these distances:
84 8 0.01
85 67 0.09
86 617 0.87
87 17 0.02
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (86 bp):
ACAGTGCATCATCGAATATACTGAAGTAACTATACTAGCACACACAGTGCATCATCGGATAAACT
GAAGTATCTATACTGGCACAT
Found at i:40283623 original size:30 final size:30
Alignment explanation
Indices: 40283589--40283673 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
40283579 TACCCACTTT
*
40283589 ACTTTTCCCTCAAAACTTTTACTCCTTCCC
1 ACTTTCCCCTCAAAACTTTTACTCCTTCCC
*
40283619 ACTTTCCCCCCAAAACTTTTACTCCTTCCC
1 ACTTTCCCCTCAAAACTTTTACTCCTTCCC
40283649 ACTTTCCCCTCAAAACTTTTACTCC
1 ACTTTCCCCTCAAAACTTTTACTCC
40283674 CCTCCCCTCT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.36
Consensus pattern (30 bp):
ACTTTCCCCTCAAAACTTTTACTCCTTCCC
Found at i:40294433 original size:26 final size:27
Alignment explanation
Indices: 40294395--40294451 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
40294385 ATATTTTCTT
40294395 AAATTTCTACCAGGAGCAAAATCATCA
1 AAATTTCTACCAGGAGCAAAATCATCA
* * *
40294422 AAATTT-TACCAGGGGTAAAATCGTCA
1 AAATTTCTACCAGGAGCAAAATCATCA
40294448 AAAT
1 AAAT
40294452 GTTGTTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (27 bp):
AAATTTCTACCAGGAGCAAAATCATCA
Found at i:40296493 original size:16 final size:15
Alignment explanation
Indices: 40296474--40296503 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
40296464 TCATAGCATA
40296474 ATTAATTTTAATTTAT
1 ATTAA-TTTAATTTAT
40296490 ATTAATTTAATTTA
1 ATTAATTTAATTTA
40296504 GGTTAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTAATTTAATTTAT
Found at i:40303295 original size:37 final size:38
Alignment explanation
Indices: 40303205--40303298 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 38
40303195 ATGCTCAGTG
* * * * * *
40303205 GAATTTGCTCGATTGAGCTTTATTTTAGTATATCTGTA
1 GAATTTGCTCGTTTGAGCTTCATCTTAGTATAACAGAA
* * *
40303243 GATTTTTCTCATTTGAGCTTCA-CTTAGTATAACAGAA
1 GAATTTGCTCGTTTGAGCTTCATCTTAGTATAACAGAA
40303280 GAATTTGCTCGTTTGAGCT
1 GAATTTGCTCGTTTGAGCT
40303299 ACTTTTAGTA
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
37 27 0.61
38 17 0.39
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (38 bp):
GAATTTGCTCGTTTGAGCTTCATCTTAGTATAACAGAA
Found at i:40305370 original size:33 final size:33
Alignment explanation
Indices: 40305286--40305363 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
40305276 TACTCTCTGT
40305286 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGAA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGAA
* *
40305319 TTGGTGTGTCGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGAA
*
40305352 TTGGTGTATTGG
1 TTGGTGTGTTGG
40305364 AGGGATTGGC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.15, C:0.08, G:0.35, T:0.42
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGAA
Found at i:40310046 original size:37 final size:37
Alignment explanation
Indices: 40309996--40310088 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 37
40309986 AGTATATCTG
* * *
40309996 TAGATTTTACTCATTTGAGCTCCA-TTTAGTATAACAA
1 TAGAATTTGCTCATTTGAGCTCCACTCT-GTATAACAA
* *
40310033 TAGAATTTGCTCATTTGAACTTCACTCTGTATAACAA
1 TAGAATTTGCTCATTTGAGCTCCACTCTGTATAACAA
* * *
40310070 TAAAATTTGGTCGTTTGAG
1 TAGAATTTGCTCATTTGAG
40310089 TTACTTTCAG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
37 44 0.96
38 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (37 bp):
TAGAATTTGCTCATTTGAGCTCCACTCTGTATAACAA
Found at i:40310812 original size:23 final size:23
Alignment explanation
Indices: 40310759--40310814 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
40310749 TTTCAACTTT
* * *
40310759 CTTAATTAAGCTTTAATAAATCA
1 CTTAATTAAGCCTGAATAAACCA
*
40310782 -TTAATTAAGCCTGATTAAACCA
1 CTTAATTAAGCCTGAATAAACCA
40310804 CTTAATTAAGC
1 CTTAATTAAGC
40310815 ATAACCTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (23 bp):
CTTAATTAAGCCTGAATAAACCA
Found at i:40319746 original size:20 final size:20
Alignment explanation
Indices: 40319721--40319826 Score: 59
Period size: 20 Copynumber: 5.3 Consensus size: 20
40319711 TAAATGCGTT
40319721 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* ** * * *
40319741 CAGGGGCACGTATGTGCAAT
1 CAGGGGTACCAAAGTACAAA
** *
40319761 CAGGGGTACTGAAGTACGAA
1 CAGGGGTACCAAAGTACAAA
* ** * * *
40319781 CAGGGATACGTATGTGCAAT
1 CAGGGGTACCAAAGTACAAA
*
40319801 TAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
*
40319821 TAGGGG
1 CAGGGG
40319827 CACGTATGTG
Statistics
Matches: 59, Mismatches: 27, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.35, C:0.16, G:0.32, T:0.17
Consensus pattern (20 bp):
CAGGGGTACCAAAGTACAAA
Found at i:40319764 original size:40 final size:40
Alignment explanation
Indices: 40319720--40319921 Score: 262
Period size: 40 Copynumber: 5.1 Consensus size: 40
40319710 GTAAATGCGT
* *
40319720 TCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAA
1 TCAGGGGTACCGAAGTACGAACAGGGGCACGTATGTGCAA
* **
40319760 TCAGGGGTACTGAAGTACGAACAGGGATACGTATGTGCAA
1 TCAGGGGTACCGAAGTACGAACAGGGGCACGTATGTGCAA
* * * *
40319800 TTAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAA
1 TCAGGGGTACCGAAGTACGAACAGGGGCACGTATGTGCAA
* * *
40319840 TCAGGGGTACTGAAGTATGAATAGGGGCACGTATGTGCAA
1 TCAGGGGTACCGAAGTACGAACAGGGGCACGTATGTGCAA
* * *
40319880 TCA-GGGTGCCGAAGTACGAACAGGAGCACGCATGTGCAA
1 TCAGGGGTACCGAAGTACGAACAGGGGCACGTATGTGCAA
40319919 TCA
1 TCA
40319922 TTCAATAATT
Statistics
Matches: 139, Mismatches: 23, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 33 0.24
40 106 0.76
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.18
Consensus pattern (40 bp):
TCAGGGGTACCGAAGTACGAACAGGGGCACGTATGTGCAA
Found at i:40319841 original size:80 final size:80
Alignment explanation
Indices: 40319720--40319921 Score: 298
Period size: 80 Copynumber: 2.5 Consensus size: 80
40319710 GTAAATGCGT
40319720 TCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACTGAAGTACGAACAGG
1 TCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACTGAAGTACGAACAGG
*
40319785 GATACGTATGTGCAA
66 GACACGTATGTGCAA
* * * *
40319800 TTAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGGTACTGAAGTATGAATAGG
1 TCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACTGAAGTACGAACAGG
*
40319865 GGCACGTATGTGCAA
66 GACACGTATGTGCAA
* * * * *
40319880 TCA-GGGTGCCGAAGTACGAACAGGAGCACGCATGTGCAATCA
1 TCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAATCA
40319922 TTCAATAATT
Statistics
Matches: 109, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
79 33 0.30
80 76 0.70
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.18
Consensus pattern (80 bp):
TCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACTGAAGTACGAACAGG
GACACGTATGTGCAA
Found at i:40319845 original size:20 final size:20
Alignment explanation
Indices: 40319741--40319885 Score: 93
Period size: 20 Copynumber: 7.2 Consensus size: 20
40319731 AAAGTACAAA
*
40319741 CAGGGGCACGTATGTGCAAT
1 CAGGGGTACGTATGTGCAAT
* *
40319761 CAGGGGTAC-TGAAGTACGAA-
1 CAGGGGTACGT-ATGTGC-AAT
*
40319781 CAGGGATACGTATGTGCAAT
1 CAGGGGTACGTATGTGCAAT
* ** * *
40319801 TAGGGGTACCAAAGTACAAAT
1 CAGGGGTACGTATGTGC-AAT
*
40319822 -AGGGGCACGTATGTGCAAT
1 CAGGGGTACGTATGTGCAAT
* *
40319841 CAGGGGTACTGAAGTATG-AAT
1 CAGGGGTAC-GTA-TGTGCAAT
*
40319862 -AGGGGCACGTATGTGCAAT
1 CAGGGGTACGTATGTGCAAT
40319881 CAGGG
1 CAGGG
40319886 TGCCGAAGTA
Statistics
Matches: 92, Mismatches: 23, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
18 3 0.03
19 11 0.12
20 64 0.70
21 11 0.12
22 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.34, T:0.20
Consensus pattern (20 bp):
CAGGGGTACGTATGTGCAAT
Found at i:40324228 original size:469 final size:469
Alignment explanation
Indices: 40323350--40324291 Score: 1830
Period size: 469 Copynumber: 2.0 Consensus size: 469
40323340 GTGTCCACCG
40323350 GCCACTCAAGCTAAGGCTAGAAAACGATAGGAAAAGTCTAATGAGATAGCTTATTGCTATATGCT
1 GCCACTCAAGCTAAGGCTAGAAAACGATAGGAAAAGTCTAATGAGATAGCTTATTGCTATATGCT
40323415 GGCAAGCGTATTCAATACTCTGTATAAGCAACTAGAGAGTTGTAAGACTGCTAAAGCAATTCTAG
66 GGCAAGCGTATTCAATACTCTGTATAAGCAACTAGAGAGTTGTAAGACTGCTAAAGCAATTCTAG
*
40323480 ATAAGCTAGAAGACATGTTCGGAGGCCAAGTTACCTTTGCTCGACAGTCTCTTATAACTAGCTTG
131 ATAAGCTAGAAGACATGTTCGGAGGCCAAGTTACCTTTGCTCGACAGTCTCTCATAACTAGCTTG
*
40323545 ATGAATGCCTAGCAAAATACTGGCAAATCGGTCAATCTTTGAGAACACTACGGCACCTTTCAACT
196 ATGAATGCCCAGCAAAATACTGGCAAATCGGTCAATCTTTGAGAACACTACGGCACCTTTCAACT
*
40323610 GATCAAACAAATCATCAATACGAGGCAATGGATATTTATTCTTGATTGTAACTTTTTTGAGCTAA
261 AATCAAACAAATCATCAATACGAGGCAATGGATATTTATTCTTGATTGTAACTTTTTTGAGCTAA
*
40323675 CGGTAATCAATGCATAACCTCAATAATCTGTCTTTTTTCTTAACAAACAGAACCGGTGCACCCCA
326 CGGTAATCAATGCATAACCTCAATAATCCGTCTTTTTTCTTAACAAACAGAACCGGTGCACCCCA
40323740 ATATGAAAAACTAGGTCAAGCAAAACCCCTATCAATCAATTCTTGCAACTGTGCTTTCAACTCTT
391 ATATGAAAAACTAGGTCAAGCAAAACCCCTATCAATCAATTCTTGCAACTGTGCTTTCAACTCTT
40323805 TTAACTCTGTAGGA
456 TTAACTCTGTAGGA
40323819 GCCACTCAAGCTAAGGCTAGAAAACGATAGGAAAAGTCTAATGAGATAGCTTATTGCTATATGCT
1 GCCACTCAAGCTAAGGCTAGAAAACGATAGGAAAAGTCTAATGAGATAGCTTATTGCTATATGCT
* *
40323884 GGCAAGCGTGTTCAATACTCTGTTTAAGCAACTAGAGAGTTGTAAGACTGCTAAAGCAATTCTAG
66 GGCAAGCGTATTCAATACTCTGTATAAGCAACTAGAGAGTTGTAAGACTGCTAAAGCAATTCTAG
40323949 ATAAGCTAGAAGACATGTTCGGAGGCCAAGTTACCTTTGCTCGACAGTCTCTCATAACTAGCTTG
131 ATAAGCTAGAAGACATGTTCGGAGGCCAAGTTACCTTTGCTCGACAGTCTCTCATAACTAGCTTG
40324014 ATGAATGCCCAGCAAAATACTGGCAAATCGGTCAATCTTTGAGAACACTACGGCACCTTTCAACT
196 ATGAATGCCCAGCAAAATACTGGCAAATCGGTCAATCTTTGAGAACACTACGGCACCTTTCAACT
40324079 AATCAAACAAATCATCAATACGAGGCAATGGATATTTATTCTTGATTGTAACTTTTTTGAGCTAA
261 AATCAAACAAATCATCAATACGAGGCAATGGATATTTATTCTTGATTGTAACTTTTTTGAGCTAA
40324144 CGGTAATCAATGCATAACCTCAATAATCCGTCTTTTTTCTTAACAAACAGAACCGGTGCACCCCA
326 CGGTAATCAATGCATAACCTCAATAATCCGTCTTTTTTCTTAACAAACAGAACCGGTGCACCCCA
40324209 ATATGAAAAACTAGGTCAAGCAAAACCCCTATCAATCAATTCTTGCAACTGTGCTTTCAACTCTT
391 ATATGAAAAACTAGGTCAAGCAAAACCCCTATCAATCAATTCTTGCAACTGTGCTTTCAACTCTT
40324274 TTAACTCTGTAGGA
456 TTAACTCTGTAGGA
40324288 GCCA
1 GCCA
40324292 TTCTATATAG
Statistics
Matches: 467, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
469 467 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (469 bp):
GCCACTCAAGCTAAGGCTAGAAAACGATAGGAAAAGTCTAATGAGATAGCTTATTGCTATATGCT
GGCAAGCGTATTCAATACTCTGTATAAGCAACTAGAGAGTTGTAAGACTGCTAAAGCAATTCTAG
ATAAGCTAGAAGACATGTTCGGAGGCCAAGTTACCTTTGCTCGACAGTCTCTCATAACTAGCTTG
ATGAATGCCCAGCAAAATACTGGCAAATCGGTCAATCTTTGAGAACACTACGGCACCTTTCAACT
AATCAAACAAATCATCAATACGAGGCAATGGATATTTATTCTTGATTGTAACTTTTTTGAGCTAA
CGGTAATCAATGCATAACCTCAATAATCCGTCTTTTTTCTTAACAAACAGAACCGGTGCACCCCA
ATATGAAAAACTAGGTCAAGCAAAACCCCTATCAATCAATTCTTGCAACTGTGCTTTCAACTCTT
TTAACTCTGTAGGA
Found at i:40327806 original size:25 final size:25
Alignment explanation
Indices: 40327778--40327873 Score: 115
Period size: 25 Copynumber: 3.8 Consensus size: 25
40327768 AGCTCTTCCA
40327778 AGCCATATAATC-GGAAGCTCATATG
1 AGCCATAT-ATCAGGAAGCTCATATG
* *
40327803 AGCCATATATCGGGAAGCTCATGTG
1 AGCCATATATCAGGAAGCTCATATG
* * *
40327828 AGCAATTTATCAGGAAGCTCATAAG
1 AGCCATATATCAGGAAGCTCATATG
40327853 AGCCA-AGTATCAGGAAGCTCA
1 AGCCATA-TATCAGGAAGCTCA
40327874 AGAGAGCTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
24 3 0.05
25 58 0.95
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (25 bp):
AGCCATATATCAGGAAGCTCATATG
Found at i:40332694 original size:3 final size:3
Alignment explanation
Indices: 40332688--40332721 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
40332678 TAGTAGTAGT
*
40332688 AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
40332722 TAGACTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:40334887 original size:26 final size:26
Alignment explanation
Indices: 40334857--40334909 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
40334847 CATATATATA
40334857 ATATTTATAAATAATTAGTATTTGGT
1 ATATTTATAAATAATTAGTATTTGGT
40334883 ATATTTATAAATAATTAGTATTTGGT
1 ATATTTATAAATAATTAGTATTTGGT
40334909 A
1 A
40334910 CACAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (26 bp):
ATATTTATAAATAATTAGTATTTGGT
Found at i:40334918 original size:26 final size:26
Alignment explanation
Indices: 40334863--40334918 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
40334853 TATAATATTT
* ***
40334863 ATAAATAATTAGTATTTGGTATATTT
1 ATAAATAATTAGTATTTGGTACACAA
40334889 ATAAATAATTAGTATTTGGTACACAA
1 ATAAATAATTAGTATTTGGTACACAA
40334915 ATAA
1 ATAA
40334919 TATATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.41
Consensus pattern (26 bp):
ATAAATAATTAGTATTTGGTACACAA
Found at i:40335099 original size:24 final size:23
Alignment explanation
Indices: 40335070--40335117 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
40335060 GGTAAATTAA
*
40335070 AAATTTATTTTAAAAAATTAGGAT
1 AAATTTA-TATAAAAAATTAGGAT
*
40335094 AAATTTATATAGAAAATTAGGAT
1 AAATTTATATAAAAAATTAGGAT
40335117 A
1 A
40335118 GCTTATCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (23 bp):
AAATTTATATAAAAAATTAGGAT
Found at i:40336008 original size:22 final size:21
Alignment explanation
Indices: 40335983--40336023 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
40335973 TATAAAAATA
* *
40335983 TAAAAATAATTATTATATTTTT
1 TAAAAAAAATT-TAATATTTTT
40336005 TAAAAAAAATTTAATATTT
1 TAAAAAAAATTTAATATTT
40336024 CCTACTCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAAAAAAATTTAATATTTTT
Found at i:40338919 original size:11 final size:11
Alignment explanation
Indices: 40338903--40338933 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
40338893 TCCTCTCTCA
40338903 AATTTCCTTTC
1 AATTTCCTTTC
*
40338914 AATTTCCTCTC
1 AATTTCCTTTC
40338925 AATTTCCTT
1 AATTTCCTT
40338934 CAAAATTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.19, C:0.29, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTTCCTTTC
Found at i:40338945 original size:22 final size:21
Alignment explanation
Indices: 40338896--40338948 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
40338886 AAACTAATCC
40338896 TCTCTCAAATTTCCTTTCAATT
1 TCTCTC-AATTTCCTTTCAATT
40338918 TCCTCTCAATTTCC-TTCAAAATT
1 T-CTCTCAATTTCCTTTC--AATT
40338941 TCTCTCAA
1 TCTCTCAA
40338949 ATCCATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 3 0.11
22 15 0.54
23 10 0.36
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (21 bp):
TCTCTCAATTTCCTTTCAATT
Found at i:40340162 original size:7 final size:7
Alignment explanation
Indices: 40340150--40340175 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
40340140 TAGTCGATTG
40340150 GTATTTA
1 GTATTTA
40340157 GTATTTA
1 GTATTTA
40340164 GTATTTA
1 GTATTTA
40340171 GTATT
1 GTATT
40340176 ATGTGTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:40340784 original size:18 final size:18
Alignment explanation
Indices: 40340757--40340796 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
40340747 CAGGTGCGTT
*
40340757 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
40340775 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
40340793 TCCT
1 TCCT
40340797 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:40341264 original size:45 final size:45
Alignment explanation
Indices: 40341215--40341302 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
40341205 ATATTTTGAA
* *
40341215 TATTTTGATATTATTTTATGTAATAAAATAGAAATTTTTTTGAGT
1 TATTTTGATATTATTTAATGTAATAAAATAGAAATTTATTTGAGT
*
40341260 TATTTTGATATTATTTAATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTAATGTAATAAAATAGAAATTTATTTGA
40341303 TGTAATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (45 bp):
TATTTTGATATTATTTAATGTAATAAAATAGAAATTTATTTGAGT
Found at i:40341298 original size:25 final size:25
Alignment explanation
Indices: 40341270--40341445 Score: 233
Period size: 25 Copynumber: 7.3 Consensus size: 25
40341260 TATTTTGATA
*
40341270 TTATTTAATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
40341295 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
40341320 TTA-TTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
40341344 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
* ** *
40341369 TTTTTTGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
40341388 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
40341414 TT-TTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
40341438 TTATTTGA
1 TTATTTGA
40341446 GTTATTTTGA
Statistics
Matches: 132, Mismatches: 10, Indels: 18
0.82 0.06 0.11
Matches are distributed among these distances:
19 1 0.01
20 8 0.06
21 5 0.04
22 1 0.01
23 1 0.01
24 53 0.40
25 62 0.47
26 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:40341331 original size:24 final size:24
Alignment explanation
Indices: 40341277--40341442 Score: 191
Period size: 24 Copynumber: 7.0 Consensus size: 24
40341267 ATATTATTTA
40341277 ATGTAATAAAATAGAAGTTTATTTG
1 ATGTAATAAAATAGAAGTTTA-TTG
40341302 ATGTAATAAAATAGAAGTTTATTG
1 ATGTAATAAAATAGAAGTTTATTG
40341326 ATGTAATAAAATAGAAGTTTATTTG
1 ATGTAATAAAATAGAAGTTTA-TTG
* *
40341351 ATGTAATAAAATAGAAATTTTTTTG
1 ATGTAATAAAATAG-AAGTTTATTG
** *
40341376 A-GT--T-ATTTTG-A-TATTATTTG
1 ATGTAATAAAATAGAAGT-TTA-TTG
*
40341396 ATGTAATAAAATAGAAGTTTTTTG
1 ATGTAATAAAATAGAAGTTTATTG
40341420 ATGTAATAAAATAGAAGTTTATT
1 ATGTAATAAAATAGAAGTTTATT
40341443 TGAGTTATTT
Statistics
Matches: 120, Mismatches: 11, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.01
19 3 0.03
20 4 0.03
21 5 0.04
22 1 0.01
23 1 0.01
24 54 0.45
25 45 0.38
26 6 0.05
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (24 bp):
ATGTAATAAAATAGAAGTTTATTG
Found at i:40341340 original size:94 final size:93
Alignment explanation
Indices: 40341232--40341479 Score: 288
Period size: 94 Copynumber: 2.6 Consensus size: 93
40341222 ATATTATTTT
* *
40341232 ATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTAATGTAATAAAATAGAAGT-T
1 ATGTAATAAAATAGAAGTTTATTTGAGTTATTTTGATATTATTT-ATGTAATAAAATAGAA-TAT
40341296 TATTTGATGTAATAAAATAGAAGTTTATTG
64 TATTTGATGTAATAAAATAGAAGTTTATTG
** * * * * * ** *
40341326 ATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATT-TTTTTG-AGTTATTTTG-AT
1 ATGTAATAAAATAGAAGTTTATTTGA-GT--T-ATTTTGATATTATTTATGTAATAAAATAGAAT
*
40341388 ATTATTTGATGTAATAAAATAGAAGTTTTTTG
62 ATTATTTGATGTAATAAAATAGAAGTTTATTG
40341420 ATGTAATAAAATAGAAGTTTATTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGA
1 ATGTAATAAAATAGAAGTTTATTTGAGTTATTTTGATATTATTT-ATGTAATAAAATAGA
40341480 TGGCACGTTC
Statistics
Matches: 122, Mismatches: 23, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
90 7 0.06
91 4 0.03
92 2 0.02
93 8 0.07
94 81 0.66
95 7 0.06
96 2 0.02
97 4 0.03
98 7 0.06
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.45
Consensus pattern (93 bp):
ATGTAATAAAATAGAAGTTTATTTGAGTTATTTTGATATTATTTATGTAATAAAATAGAATATTA
TTTGATGTAATAAAATAGAAGTTTATTG
Found at i:40341433 original size:69 final size:70
Alignment explanation
Indices: 40341323--40341479 Score: 289
Period size: 69 Copynumber: 2.3 Consensus size: 70
40341313 TAGAAGTTTA
*
40341323 TTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGAT
1 TTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTATTTGAGTTATTTTGAT
40341388 ATTAT
66 ATTAT
*
40341393 TTGATGTAATAAAATAGAAGTTT-TTTGATGTAATAAAATAGAAGTTTATTTGAGTTATTTTGAT
1 TTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTATTTGAGTTATTTTGAT
40341457 ATTAT
66 ATTAT
40341462 TTGATGTAATAAAATAGA
1 TTGATGTAATAAAATAGA
40341480 TGGCACGTTC
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
69 62 0.73
70 23 0.27
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (70 bp):
TTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTATTTGAGTTATTTTGAT
ATTAT
Found at i:40344046 original size:123 final size:123
Alignment explanation
Indices: 40343827--40344051 Score: 387
Period size: 123 Copynumber: 1.8 Consensus size: 123
40343817 CCCAAACATG
* *
40343827 CTACTATAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTATAGCAAAAGCGCATCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCAGC
**
40343892 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTAATCAGAAACGTCAAAAAAAATATTTCTTCCATGAC
* * *
40343950 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAGTAGCATCCAGC
1 CTACTATAGCAAAAGCGCATCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCAGC
40344015 TAGAAGCGATTTTATACTATTTAATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTAATCAGAAACGTCAA
40344052 CTCGAAATTT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 95 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (123 bp):
CTACTATAGCAAAAGCGCATCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCAGC
TAGAAGCGATTTTATACTATTTAATCAGAAACGTCAAAAAAAATATTTCTTCCATGAC
Found at i:40345586 original size:36 final size:36
Alignment explanation
Indices: 40345543--40345638 Score: 106
Period size: 36 Copynumber: 2.6 Consensus size: 36
40345533 TAATATATGT
* *
40345543 GTGGAATTGAAATGAATAT-TGACTTGAAAATGGAAAA
1 GTGGAATTGAATTGAAT-TGTGA-TTGAAAATGAAAAA
*
40345580 GT-GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAA
1 GTGGAA--TTGAATTGAATTGTGATTGAAAATGAAAAA
*
40345617 GTGGAATTGAATTGAAATGTGA
1 GTGGAATTGAATTGAATTGTGA
40345639 ATTTGGAGAC
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
36 18 0.35
37 17 0.33
38 16 0.31
ACGTcount: A:0.42, C:0.01, G:0.26, T:0.31
Consensus pattern (36 bp):
GTGGAATTGAATTGAATTGTGATTGAAAATGAAAAA
Found at i:40347539 original size:10 final size:10
Alignment explanation
Indices: 40347511--40347540 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
40347501 ATAACCTGCA
40347511 CAAAACATAC
1 CAAAACATAC
40347521 CAAATACATAC
1 CAAA-ACATAC
40347532 CAAAACATA
1 CAAAACATA
40347541 TCATTTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (10 bp):
CAAAACATAC
Found at i:40348442 original size:20 final size:20
Alignment explanation
Indices: 40348417--40348477 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
40348407 TGCTGTACAA
*
40348417 AGGCACCGTAGTGCAAACAG
1 AGGCACCGAAGTGCAAACAG
*
40348437 AGGCACCAAAGTGCAAACAG
1 AGGCACCGAAGTGCAAACAG
*
40348457 AGAGCACAGAAGTGCTAAACA
1 AG-GCACCGAAGTGC-AAACA
40348478 ATTAATTGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 20 0.57
21 10 0.29
22 5 0.14
ACGTcount: A:0.43, C:0.23, G:0.26, T:0.08
Consensus pattern (20 bp):
AGGCACCGAAGTGCAAACAG
Found at i:40352999 original size:14 final size:15
Alignment explanation
Indices: 40352980--40353008 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
40352970 CCGAAAATAC
40352980 AAAATAATA-AAAAT
1 AAAATAATACAAAAT
40352994 AAAATAATACAAAAT
1 AAAATAATACAAAAT
40353009 CCTCTCTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAATACAAAAT
Found at i:40353784 original size:44 final size:44
Alignment explanation
Indices: 40353721--40353842 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 44
40353711 ACTTGATGCG
* * * *
40353721 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTAT-TACTTTA
1 ATCCACTCCACTGCAACTTCAGGGAGATAAGAT-TATCGACTTCA
* * *
40353765 ATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCCACTCCACTGCAACTTCAGGGAGATAAGATTATCGACTTCA
**
40353809 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 ATCCACTCCACTGCAACTTCAGGGAGATAAGATT
40353843 TGCCATCTTC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 3 0.05
44 63 0.95
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
ATCCACTCCACTGCAACTTCAGGGAGATAAGATTATCGACTTCA
Found at i:40353984 original size:128 final size:128
Alignment explanation
Indices: 40353833--40354317 Score: 817
Period size: 128 Copynumber: 3.8 Consensus size: 128
40353823 AACTTCAGGG
* *
40353833 AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * *
40353898 ACCTACTCCACTGCTGACCAGGTAGATAGGACTTGTGGCTTAAATATGCTTCCTTACTCTTGA
66 ACCTACTCCACTACTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGA
** *
40353961 AGATAAGATTTACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
*
40354026 ACCTACTCCACTACTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGATTCCTTACTCTTGA
66 ACCTACTCCACTACTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGA
* * * * *
40354089 AGATAAGATTCGTCGTCTTTGATCTGCTCTGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCA
1 AGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* *
40354154 ACCTACTCCACTGCTGACCAGGGCGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGA
66 ACCTACTCCACTACTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGA
*
40354217 AGATAAGATTCGTCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
40354282 ACCTACTCCACTACTGACCAGGGAGATAGGACTTGT
66 ACCTACTCCACTACTGACCAGGGAGATAGGACTTGT
40354318 AATTTCACCG
Statistics
Matches: 335, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 335 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (128 bp):
AGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
ACCTACTCCACTACTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGA
Found at i:40356437 original size:15 final size:15
Alignment explanation
Indices: 40356417--40356452 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
40356407 TCCTTTACCT
* *
40356417 TTTTTTTCATTTTGA
1 TTTTTTTCATCTAGA
40356432 TTTTTTTCATCTAGA
1 TTTTTTTCATCTAGA
40356447 TTTTTT
1 TTTTTT
40356453 CTTTTCTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.72
Consensus pattern (15 bp):
TTTTTTTCATCTAGA
Found at i:40356508 original size:19 final size:19
Alignment explanation
Indices: 40356486--40356522 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
40356476 TTTCTCTCAT
* *
40356486 TTTTTATTTTTATTTTTTA
1 TTTTGATTTTGATTTTTTA
40356505 TTTTGATTTTGATTTTTT
1 TTTTGATTTTGATTTTTT
40356523 TTTGGAAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (19 bp):
TTTTGATTTTGATTTTTTA
Found at i:40356521 original size:13 final size:13
Alignment explanation
Indices: 40356484--40356514 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
40356474 TTTTTCTCTC
*
40356484 ATTTTTTATTTTT
1 ATTTTTTATTTTG
40356497 ATTTTTTATTTTG
1 ATTTTTTATTTTG
40356510 ATTTT
1 ATTTT
40356515 GATTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (13 bp):
ATTTTTTATTTTG
Found at i:40363500 original size:24 final size:25
Alignment explanation
Indices: 40363473--40363521 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
40363463 CCCTTTCAGC
*
40363473 TTTT-ACACGACTTTTCTCATTATA
1 TTTTAACACAACTTTTCTCATTATA
*
40363497 TTTTGAACATAACTTTTCTCATTAT
1 TTTT-AACACAACTTTTCTCATTAT
40363522 TAAAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
26 17 0.81
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (25 bp):
TTTTAACACAACTTTTCTCATTATA
Found at i:40364214 original size:8 final size:8
Alignment explanation
Indices: 40364203--40364228 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
40364193 TAAAAATTAT
40364203 AATTCTAA
1 AATTCTAA
40364211 AATTCTAA
1 AATTCTAA
40364219 AATTCTAA
1 AATTCTAA
40364227 AA
1 AA
40364229 AGCTCTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTCTAA
Found at i:40368043 original size:23 final size:23
Alignment explanation
Indices: 40368017--40368135 Score: 127
Period size: 23 Copynumber: 5.2 Consensus size: 23
40368007 ATAAGTGCCA
*
40368017 CACTAATATGTAGCCAAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
*
40368040 CACTGATATGTAGCC-ATAGCTAC
1 CACTAATATGTAGCCGA-AGCTAC
* *
40368063 CATTGAA-ATGTAGCCGAGGCTAC
1 CACT-AATATGTAGCCGAAGCTAC
* *
40368086 CACTGATATGTAGCCGTAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
*
40368109 CATTGAAT-TGTAGCCGAAGCTAC
1 CACT-AATATGTAGCCGAAGCTAC
40368132 CACT
1 CACT
40368136 GATCAATAAC
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
22 2 0.03
23 73 0.92
24 4 0.05
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (23 bp):
CACTAATATGTAGCCGAAGCTAC
Found at i:40368091 original size:46 final size:46
Alignment explanation
Indices: 40368024--40368138 Score: 194
Period size: 46 Copynumber: 2.5 Consensus size: 46
40368014 CCACACTAAT
*
40368024 ATGTAGCCAAAGCTACCACTGATATGTAGCCATAGCTACCATTGAA
1 ATGTAGCCGAAGCTACCACTGATATGTAGCCATAGCTACCATTGAA
* *
40368070 ATGTAGCCGAGGCTACCACTGATATGTAGCCGTAGCTACCATTGAA
1 ATGTAGCCGAAGCTACCACTGATATGTAGCCATAGCTACCATTGAA
*
40368116 TTGTAGCCGAAGCTACCACTGAT
1 ATGTAGCCGAAGCTACCACTGAT
40368139 CAATAACACT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGATATGTAGCCATAGCTACCATTGAA
Found at i:40368399 original size:18 final size:17
Alignment explanation
Indices: 40368364--40368402 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
40368354 ATTTTCTTTC
40368364 CACATTCAATATTAATT
1 CACATTCAATATTAATT
40368381 CACATATCACATA-TAATT
1 CACAT-TCA-ATATTAATT
40368399 CACA
1 CACA
40368403 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 12 0.60
19 3 0.15
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAATATTAATT
Found at i:40369800 original size:13 final size:13
Alignment explanation
Indices: 40369782--40369816 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
40369772 AATTATTTAA
40369782 ATTTTAA-ATTATT
1 ATTTTAACA-TATT
40369795 ATTTTAACATATT
1 ATTTTAACATATT
40369808 ATTTTAACA
1 ATTTTAACA
40369817 AGTGGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 20 0.95
14 1 0.05
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTAACATATT
Found at i:40371758 original size:26 final size:26
Alignment explanation
Indices: 40371723--40371774 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
40371713 AAATGAAAAG
* *
40371723 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
40371749 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
40371775 TTCAGTGGTG
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:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:40371761 original size:70 final size:72
Alignment explanation
Indices: 40371612--40371762 Score: 243
Period size: 72 Copynumber: 2.1 Consensus size: 72
40371602 TCATTGGTGG
* *
40371612 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
40371677 GAGGGGT
66 GAGGGGT
***
40371684 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
40371747 GAGGGGT
66 GAGGGGT
40371754 TGCTAAGTG
1 TGCTAAGTG
40371763 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 20 0.27
71 24 0.32
72 30 0.41
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:40378488 original size:71 final size:72
Alignment explanation
Indices: 40378355--40378506 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
40378345 TCATTGGTGG
* *
40378355 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
40378420 GAGGGGT
66 GAGGGGT
***
40378427 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
40378491 GAGGGGT
66 GAGGGGT
40378498 TGCTAAGTG
1 TGCTAAGTG
40378507 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:40381332 original size:42 final size:41
Alignment explanation
Indices: 40381273--40381414 Score: 155
Period size: 43 Copynumber: 3.4 Consensus size: 41
40381263 TTCCTCGAGG
* * *
40381273 GGTTGCTAAGTGTTGATTCCCTGAATTATTGACTTTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGA-TTTAAAGGT
40381315 GGTTGCTAAGTGCTGATTCCACCGTATCT-TTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGATT-T-AAAGGT
* * *
40381358 GGTTGCTATGTGCTGATTCCCCGTATCACTGAATTT-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTG-ATTTAAAGGT
40381399 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
40381415 ATCCACCGAG
Statistics
Matches: 86, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
40 4 0.05
41 15 0.17
42 30 0.35
43 31 0.36
44 6 0.07
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTTAAAGGT
Found at i:40381371 original size:43 final size:43
Alignment explanation
Indices: 40381273--40381422 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 43
40381263 TTCCTCGAGG
* * * * * *
40381273 GGTTGCTAAGTGTTGATTCC-CTGAATTATTGACTTTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCACTGAATTTAAAGGT
**
40381315 GGTTGCTAAGTGCTGATTCCACCGTATCTTTG-ATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCACTGAATT-T-AAAGGT
*
40381358 GGTTGCTATGTGCTGATTCC-CCGTATCACTGAATTT-AAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCACTGAATTTAAAGGT
*
40381399 GGTTGCTAAGTGCTGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
40381423 AGTAACGGAA
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
40 4 0.04
41 18 0.20
42 34 0.37
43 30 0.33
44 5 0.05
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.35
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCACTGAATTTAAAGGT
Found at i:40383367 original size:26 final size:27
Alignment explanation
Indices: 40383338--40383395 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
40383328 GAATGAAAAA
**
40383338 AAATCAACAAATAGGTT-GCAATTAAT
1 AAATCAACAAATAGGTTAAAAATTAAT
* * *
40383364 AAATTAATAGATAGGTTAAAAATTAAT
1 AAATCAACAAATAGGTTAAAAATTAAT
40383391 AAATC
1 AAATC
40383396 TGTTAATGAG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATCAACAAATAGGTTAAAAATTAAT
Found at i:40386320 original size:40 final size:38
Alignment explanation
Indices: 40386270--40386370 Score: 130
Period size: 40 Copynumber: 2.6 Consensus size: 38
40386260 CGAGTATTAT
* * *
40386270 AATTATAATTACCATAATTATAATAATGTTTGACCGAAAA
1 AATTATAATTACAATAATTATAATAATATTCGACC--AAA
* * *
40386310 AATTACAATTACAATAATTATAATAATATTCGATCATA
1 AATTATAATTACAATAATTATAATAATATTCGACCAAA
40386348 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
40386371 CAAGGATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 24 0.44
40 30 0.56
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCGACCAAA
Found at i:40388494 original size:25 final size:25
Alignment explanation
Indices: 40388460--40388517 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
40388450 TTTAGAGTTT
40388460 ATTTTATATAAATTATAGTTTTTT-TA
1 ATTTTATATAAATTA-A-TTTTTTATA
*
40388486 ATTTT-TATATATTAATTTTTTATA
1 ATTTTATATAAATTAATTTTTTATA
40388510 A-TTTATAT
1 ATTTTATAT
40388518 TTTTTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 9 0.31
24 7 0.24
25 8 0.28
26 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
ATTTTATATAAATTAATTTTTTATA
Found at i:40388519 original size:16 final size:15
Alignment explanation
Indices: 40388483--40388538 Score: 80
Period size: 15 Copynumber: 3.7 Consensus size: 15
40388473 TATAGTTTTT
40388483 TTAA-TTTTTATATA
1 TTAATTTTTTATATA
40388497 TTAATTTTTTATA-A
1 TTAATTTTTTATATA
40388511 TTTATATTTTTTATATA
1 -TTA-ATTTTTTATATA
40388528 TTAATTTTTTA
1 TTAATTTTTTA
40388539 ACATTTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.13
15 19 0.50
16 13 0.34
17 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTAATTTTTTATATA
Found at i:40391053 original size:307 final size:307
Alignment explanation
Indices: 40390496--40391106 Score: 755
Period size: 307 Copynumber: 2.0 Consensus size: 307
40390486 TGTTGCGTCA
* * *
40390496 AACTACCACTGACAATACAATTCTACAGCTCAGGGCGCACAAGTGATCAACATGGGTTTGTATTC
1 AACTACCACTGACAATACAATTCTACAACTCAGGGCACACAAGTGATCAACATGGGTTTATATTC
* *
40390561 GCCACTATATCAATTTTTTGATATTTAACGGGTCAACAGATGTACTGATTAATGGATAACCTATT
66 GCCACTATATCAATTGTTTGATATTTAACGGGTCAACAAATGTACTGATTAATGGATAACCTATT
* ** **
40390626 TCATTTTCTAGGTAGGGTACGAACTTTTCCGAAACCAGTTCCGTGAAATGTTGGAAAACTTATGG
131 TCATTTCCTAGACAGGGTACGAACTTGCCCGAAACCAGTTCCGTGAAATGTTGGAAAACTTATGG
*** * *
40390691 GTTGTTAACGATGCAAGTAGGAGCTACCTATCCAACATAACCTTTGATCAGTGGACACAATCATA
196 GCCATTAACGATGCAAGTAGGAGCTACCAATCCAACATAACCTTCGATCAGTGGACACAATCATA
* *
40390756 TGATGGGGGTCTACGATATGGGCACT-TGACAACAGACCTGGCGGTCG
261 TAATGGGGGTCTACGATATGGGCA-TATGACAACAGACCTAGCGGTCG
* * *
40390803 AACTACCACTGATAGTACAATTCTACAACTCAGTGCACACAAGTGATCAACATGGGTTTATATTC
1 AACTACCACTGACAATACAATTCTACAACTCAGGGCACACAAGTGATCAACATGGGTTTATATTC
* * * *
40390868 GTCATTATATCAATTGTTTGATATTTAATC-GGTCAGA-AAATGTTCTGATTAGTGGATAACCTA
66 GCCACTATATCAATTGTTTGATATTTAA-CGGGTCA-ACAAATGTACTGATTAATGGATAACCTA
* * * * ** **
40390931 TTT-ACTTTCCTCGACAGGGTATGAGCTTGCCCGACACCTTTTTTGTGAAATGTTGGAAAACTTA
129 TTTCA-TTTCCTAGACAGGGTACGAACTTGCCCGAAACCAGTTCCGTGAAATGTTGGAAAACTTA
** * * * *
40390995 TGGGCCATTAACGATGCGGGT-GCGATCTACCAATCCAACATACCCTTCGATTAGTGGACGCAAT
193 TGGGCCATTAACGATGCAAGTAG-GAGCTACCAATCCAACATAACCTTCGATCAGTGGACACAAT
* * * * *
40391059 CGTATAATTGGGGTCTATGATATTGGCATATGACAATAGACCTAGCGG
257 CATATAATGGGGGTCTACGATATGGGCATATGACAACAGACCTAGCGG
40391107 AATGCATCAA
Statistics
Matches: 256, Mismatches: 43, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
306 3 0.01
307 251 0.98
308 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (307 bp):
AACTACCACTGACAATACAATTCTACAACTCAGGGCACACAAGTGATCAACATGGGTTTATATTC
GCCACTATATCAATTGTTTGATATTTAACGGGTCAACAAATGTACTGATTAATGGATAACCTATT
TCATTTCCTAGACAGGGTACGAACTTGCCCGAAACCAGTTCCGTGAAATGTTGGAAAACTTATGG
GCCATTAACGATGCAAGTAGGAGCTACCAATCCAACATAACCTTCGATCAGTGGACACAATCATA
TAATGGGGGTCTACGATATGGGCATATGACAACAGACCTAGCGGTCG
Found at i:40393236 original size:19 final size:18
Alignment explanation
Indices: 40393212--40393262 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
40393202 CATATATTGA
*
40393212 TTCTTCTTTTTTCTTTTCT
1 TTCTTCTTTTTT-TTTCCT
40393231 TTCTTCTTTTATTTTTCCT
1 TTCTTCTTTT-TTTTTCCT
40393250 TT-TTCCTTTTTTT
1 TTCTT-CTTTTTTT
40393263 AATAGGAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.17
19 22 0.76
20 2 0.07
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (18 bp):
TTCTTCTTTTTTTTTCCT
Found at i:40394338 original size:69 final size:69
Alignment explanation
Indices: 40394227--40394368 Score: 284
Period size: 69 Copynumber: 2.1 Consensus size: 69
40394217 CACCTTAGTA
40394227 ATGCTTCAAGCATTGTCCATTAACCTTGAATGTAACCCTTATTCTTAGGTCTTTAACAACAACAA
1 ATGCTTCAAGCATTGTCCATTAACCTTGAATGTAACCCTTATTCTTAGGTCTTTAACAACAACAA
40394292 CACC
66 CACC
40394296 ATGCTTCAAGCATTGTCCATTAACCTTGAATGTAACCCTTATTCTTAGGTCTTTAACAACAACAA
1 ATGCTTCAAGCATTGTCCATTAACCTTGAATGTAACCCTTATTCTTAGGTCTTTAACAACAACAA
40394361 CACC
66 CACC
40394365 ATGC
1 ATGC
40394369 GAATACACTT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (69 bp):
ATGCTTCAAGCATTGTCCATTAACCTTGAATGTAACCCTTATTCTTAGGTCTTTAACAACAACAA
CACC
Found at i:40413393 original size:31 final size:31
Alignment explanation
Indices: 40413336--40413395 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
40413326 ACCTCTTCAC
*
40413336 TTTCCTCCCAAAACTTTTATTCCCTCCCACT
1 TTTCCTCCCAAAACTTTTACTCCCTCCCACT
* *
40413367 TTTCC-CCCATAACTTTTGCTCTCCTCCCA
1 TTTCCTCCCAAAACTTTTACTC-CCTCCCA
40413396 TCCCATCCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.17, C:0.43, G:0.02, T:0.38
Consensus pattern (31 bp):
TTTCCTCCCAAAACTTTTACTCCCTCCCACT
Found at i:40415132 original size:3 final size:3
Alignment explanation
Indices: 40415124--40415149 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
40415114 AGATACGATA
40415124 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
40415150 TGAATCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:40421607 original size:17 final size:17
Alignment explanation
Indices: 40421577--40421615 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
40421567 AATTGTTCTT
*
40421577 GAAAATTGTTA-TTTCA
1 GAAAATTGTCATTTTCA
40421593 GAAAAGTTGTCATTTTCA
1 GAAAA-TTGTCATTTTCA
40421611 GAAAA
1 GAAAA
40421616 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 5 0.25
18 10 0.50
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (17 bp):
GAAAATTGTCATTTTCA
Found at i:40422617 original size:24 final size:24
Alignment explanation
Indices: 40422585--40422633 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
40422575 TTAAAACCAA
*
40422585 CTATAACTCCCCACACTCTCATCC
1 CTATAACTCCCCACACTCCCATCC
40422609 CTATAACTCCCCACACTCCCATCC
1 CTATAACTCCCCACACTCCCATCC
40422633 C
1 C
40422634 ATTAAAAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.53, G:0.00, T:0.22
Consensus pattern (24 bp):
CTATAACTCCCCACACTCCCATCC
Found at i:40424841 original size:26 final size:27
Alignment explanation
Indices: 40424789--40424889 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 27
40424779 AAACACATCA
*
40424789 GGAAAGAAAGCCTTTGTGGCGTAATAT
1 GGAAAGAAAGCCTTTGTGGCGGAATAT
* *
40424816 -GAAAGAAAGCCTTTGTGGTGGGATAT
1 GGAAAGAAAGCCTTTGTGGCGGAATAT
* ** *
40424842 GGAAGGAATA-CCTTTGTGGCAAAATCT
1 GGAAAGAA-AGCCTTTGTGGCGGAATAT
* * *
40424869 GTAAGGAACGCCTTTGTGGCG
1 GGAAAGAAAGCCTTTGTGGCG
40424890 CACTCTTAAG
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
26 23 0.39
27 35 0.59
28 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.26
Consensus pattern (27 bp):
GGAAAGAAAGCCTTTGTGGCGGAATAT
Found at i:40429442 original size:40 final size:39
Alignment explanation
Indices: 40429387--40429504 Score: 112
Period size: 40 Copynumber: 3.0 Consensus size: 39
40429377 GGTGATTGGA
* *
40429387 TAAAAAACGTCGCTAAAAATTAAGCATTAGCGGCGTTTT
1 TAAAAAACGCCGCTAAAAATTAAGAATTAGCGGCGTTTT
* * * * * *
40429426 TCAAAAAATGCCGCTAAAGATCAAGTATTAGAGGTGCTTTT
1 T-AAAAAACGCCGCTAAAAATTAAGAATTAGCGGCG-TTTT
** *
40429467 TGGAAAACGCCGCTAAAAA-TGAGAATTAGCGGCGTTTT
1 TAAAAAACGCCGCTAAAAATTAAGAATTAGCGGCGTTTT
40429505 CCTAAAAGCG
Statistics
Matches: 61, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
38 4 0.07
39 11 0.18
40 41 0.67
41 5 0.08
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (39 bp):
TAAAAAACGCCGCTAAAAATTAAGAATTAGCGGCGTTTT
Found at i:40429614 original size:41 final size:41
Alignment explanation
Indices: 40429543--40429824 Score: 318
Period size: 41 Copynumber: 6.9 Consensus size: 41
40429533 CAACGTGTTT
* *
40429543 TCGGGGTTTTAGCAGCGTTTTTGAAAAAGCGTCGCTAATG-
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
40429583 TATGGGGCTTTAACGGCGTTTTTGAAGAAGCGCCGCTAATGC
1 T-CGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * **
40429625 TCGGGGTTTTAGTGGTGTTTTTAAAAAAGCGTTGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
40429666 AT-GGGGCTTTAGCGGCGATTTTGAAAAAGCACCGCTAATGC
1 -TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
40429707 TCGAAGGTTTTAGCGGTGTTTTTGAAGAAGTGCCGCTAATGC
1 TCG-GGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
40429749 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGTCGTTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
40429790 TTGGGGTTTTAGCGGCGTTTTT-AGAAAAGCGCCGC
1 TCGGGGTTTTAGCGGCGTTTTTGA-AAAAGCGCCGC
40429825 AAAAAACATT
Statistics
Matches: 197, Mismatches: 39, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
40 3 0.02
41 158 0.80
42 36 0.18
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.32
Consensus pattern (41 bp):
TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:40429769 original size:124 final size:125
Alignment explanation
Indices: 40429591--40429817 Score: 348
Period size: 124 Copynumber: 1.8 Consensus size: 125
40429581 TGTATGGGGC
* *
40429591 TTTAACGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGGTTTTAGTGGTGTTTTTAAAAAAGCG
1 TTTAACGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTAAAAAAGCG
*
40429656 TTGCTAATGCATGGGGCTTTAGCGGCGATTTT-GAAAAAGCACCGCTAATGCTCGAAGGT
66 TCGCTAATGCATGGGGCTTTAGCGGCGATTTTAGAAAAAGCACCGCTAATGCTCGAAGGT
* * * *
40429715 TTTAGCGGTGTTTTTGAAGAAGTGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTGAAAAAGCG
1 TTTAACGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTAAAAAAGCG
* * * *
40429780 TCGTTAATGCTTGGGGTTTTAGCGGCGTTTTTAGAAAA
66 TCGCTAATGCATGGGGCTTTAGCGGCGATTTTAGAAAA
40429818 GCGCCGCAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
124 86 0.95
125 5 0.05
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (125 bp):
TTTAACGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTAAAAAAGCG
TCGCTAATGCATGGGGCTTTAGCGGCGATTTTAGAAAAAGCACCGCTAATGCTCGAAGGT
Found at i:40430307 original size:15 final size:15
Alignment explanation
Indices: 40430249--40430309 Score: 54
Period size: 16 Copynumber: 4.1 Consensus size: 15
40430239 TTAAAGGCTT
40430249 GGGTTTAAGGTTTAG
1 GGGTTTAAGGTTTAG
* * *
40430264 AGG-TT-ATGTGTTAA
1 GGGTTTAAGGT-TTAG
*
40430278 GGGTTTAGGGTTTTAG
1 GGGTTTAAGG-TTTAG
40430294 GGGTTTAAGGTTTAG
1 GGGTTTAAGGTTTAG
40430309 G
1 G
40430310 TTTTAGATTA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
13 3 0.09
14 7 0.21
15 10 0.29
16 13 0.38
17 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (15 bp):
GGGTTTAAGGTTTAG
Found at i:40431705 original size:20 final size:20
Alignment explanation
Indices: 40431677--40431730 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
40431667 TTGTTACATA
40431677 AAAAATTATATAAAAATTTT
1 AAAAATTATATAAAAATTTT
* * **
40431697 AAAATTTATCTAATTATTTT
1 AAAAATTATATAAAAATTTT
* *
40431717 AAATATTATTTAAA
1 AAAAATTATATAAA
40431731 TTTTCAAAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAAATTATATAAAAATTTT
Found at i:40432066 original size:6 final size:6
Alignment explanation
Indices: 40432055--40432079 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
40432045 GAAAGATGAG
40432055 GCCGAT GCCGAT GCCGAT GCCGAT G
1 GCCGAT GCCGAT GCCGAT GCCGAT G
40432080 GAATTCGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (6 bp):
GCCGAT
Found at i:40433282 original size:26 final size:26
Alignment explanation
Indices: 40433250--40433303 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
40433240 AACAGAATTA
40433250 AATGTTTGGATCAGGAAACGAAAAAT
1 AATGTTTGGATCAGGAAACGAAAAAT
*
40433276 AATGTTTGGATCTGGAAACGAAAAAT
1 AATGTTTGGATCAGGAAACGAAAAAT
40433302 AA
1 AA
40433304 AATAAAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (26 bp):
AATGTTTGGATCAGGAAACGAAAAAT
Found at i:40435594 original size:19 final size:21
Alignment explanation
Indices: 40435556--40435594 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
40435546 CAGTGATATT
*
40435556 TTTTTATATATTGTTCTAAAG
1 TTTTTATATATTCTTCTAAAG
40435577 TTTTTATAT-TTCTT-TAAA
1 TTTTTATATATTCTTCTAAA
40435595 TTTGCATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTTATATATTCTTCTAAAG
Found at i:40439588 original size:23 final size:24
Alignment explanation
Indices: 40439535--40439590 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
40439525 CTAAAAGTAT
*
40439535 ATATTTAATAATAATTAATTTTTG
1 ATATTTAATAATAATTAATTTTTA
**
40439559 ATA-TTAATAATGTTTAA-TTTTA
1 ATATTTAATAATAATTAATTTTTA
40439581 ATATTTAATA
1 ATATTTAATA
40439591 TTTTTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.25
23 18 0.64
24 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATTTAATAATAATTAATTTTTA
Found at i:40439731 original size:42 final size:43
Alignment explanation
Indices: 40439670--40439767 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
40439660 GCGTTTGTGA
*
40439670 CATGACCTTTAGCGACGTTT-TTATCTAAA-CGCCACTAAAGGT
1 CATGACCTTTAGCGACGTTTGTGA-CTAAAGCGCCACTAAAGGT
* * * *
40439712 CATGATCTTTAGCGGCGTTTGTGAGTAAAGCGCCGCTAAAGGT
1 CATGACCTTTAGCGACGTTTGTGACTAAAGCGCCACTAAAGGT
40439755 CATGACCTTTAGC
1 CATGACCTTTAGC
40439768 AGTGTTTATT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 22 0.46
43 26 0.54
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
CATGACCTTTAGCGACGTTTGTGACTAAAGCGCCACTAAAGGT
Found at i:40441561 original size:3 final size:3
Alignment explanation
Indices: 40441553--40441584 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
40441543 TACTCTTTCC
40441553 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
40441585 AAGTTGGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:40446856 original size:17 final size:17
Alignment explanation
Indices: 40446804--40446860 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
40446794 TCCTGATTGG
* * *
40446804 TTTATTGATTTTTATCA
1 TTTATTTATTTTCATTA
* *
40446821 TTTTTTTATTTTTC-GTA
1 TTTATTTA-TTTTCATTA
40446838 TTTATTTATTTTCATTA
1 TTTATTTATTTTCATTA
40446855 TTTATT
1 TTTATT
40446861 AGATTAATGA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 5 0.16
17 22 0.71
18 4 0.13
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (17 bp):
TTTATTTATTTTCATTA
Found at i:40453475 original size:32 final size:32
Alignment explanation
Indices: 40453419--40453479 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
40453409 AAGAGCCTTT
* *
40453419 AAATCAATTTGAATAAAATCAAATCAAATTGA
1 AAATCAATCTGAATAAAATAAAATCAAATTGA
* *
40453451 AAATCAATCTGATTGAAATAAAATCAAAT
1 AAATCAATCTGAATAAAATAAAATCAAAT
40453480 CGAGATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.28
Consensus pattern (32 bp):
AAATCAATCTGAATAAAATAAAATCAAATTGA
Found at i:40456432 original size:82 final size:82
Alignment explanation
Indices: 40456341--40456742 Score: 501
Period size: 82 Copynumber: 5.0 Consensus size: 82
40456331 TCTTGAAAAA
* *
40456341 AATTATTTAATTAAATCTTGTTTAGG-AACAAAATCAAAATCGAATAAAATCTGTTAAACGGCGG
1 AATTATTTAATTAATTCTTGTTT-GGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCGG
40456405 GAATAAATCCCAAAATAG
65 GAATAAATCCCAAAATAG
* * *
40456423 AATTATTTAATTAAATCTTGTTTGGAAACAAAATC--AA---AATAAAATTTGTTAAACAGCGAG
1 AATTATTTAATTAATTCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCGGG
40456483 AATAAATCCCAAAATAG
66 AATAAATCCCAAAATAG
* * *
40456500 AATTATTTAATTAATTCTAGTTTGGAAACAAAATTAAAATCGAATAAAATCTGTTAAATAGCGGG
1 AATTATTTAATTAATTCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCGGG
**
40456565 AATAAATCCTGAAATAG
66 AATAAATCCCAAAATAG
* ** * * ** **
40456582 AATTATTCAATTAATTCTCATTTGGAAACAAAATCAACATCGAATAAAATCTATTAAATGGTAGG
1 AATTATTTAATTAATTCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCGGG
*
40456647 AATAAATCCCGAAATAG
66 AATAAATCCCAAAATAG
* * * * ***
40456664 AATTATTCAATTAATTCTTGTTTGGAAACAAAATCAAAATGGAATAAAATTTGTTGAACAATAGG
1 AATTATTTAATTAATTCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCGGG
*
40456729 AATAAATCTCAAAA
66 AATAAATCCCAAAA
40456743 CATATTTTAT
Statistics
Matches: 281, Mismatches: 33, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
77 69 0.25
79 2 0.01
80 2 0.01
81 2 0.01
82 206 0.73
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (82 bp):
AATTATTTAATTAATTCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCGGG
AATAAATCCCAAAATAG
Found at i:40456547 original size:159 final size:162
Alignment explanation
Indices: 40456341--40456742 Score: 510
Period size: 159 Copynumber: 2.5 Consensus size: 162
40456331 TCTTGAAAAA
* *
40456341 AATTATTTAATTAAATCTTGTTTAGG-AACAAAATCAAAATCGAATAAAATCTGTTAAACGGCGG
1 AATTATTTAATTAATTCTTGTTT-GGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCGG
* **
40456405 GAATAAATCCCAAAATAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATC-A-A-AATAAAA
65 GAATAAATCCCAAAATAGAATTATTCAATTAAATCTCATTTGGAAACAAAATCAACACAATAAAA
* *
40456467 TTTGTTAAACAGCG-A-GAATAAATCCCAAAATAG
130 TCTATTAAA-AG-GTAGGAATAAATCCCAAAATAG
* * *
40456500 AATTATTTAATTAATTCTAGTTTGGAAACAAAATTAAAATCGAATAAAATCTGTTAAATAGCGGG
1 AATTATTTAATTAATTCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCGGG
** *
40456565 AATAAATCCTGAAATAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAACATCGAATAAA
66 AATAAATCCCAAAATAGAATTATTCAATTAAATCTCATTTGGAAACAAAATCAACA-C-AATAAA
* *
40456630 ATCTATTAAATGGTAGGAATAAATCCCGAAATAG
129 ATCTATTAAAAGGTAGGAATAAATCCCAAAATAG
* * * * ***
40456664 AATTATTCAATTAATTCTTGTTTGGAAACAAAATCAAAATGGAATAAAATTTGTTGAACAATAGG
1 AATTATTTAATTAATTCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCGGG
*
40456729 AATAAATCTCAAAA
66 AATAAATCCCAAAA
40456743 CATATTTTAT
Statistics
Matches: 207, Mismatches: 28, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
158 2 0.01
159 103 0.50
160 1 0.00
161 1 0.00
162 1 0.00
163 2 0.01
164 97 0.47
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (162 bp):
AATTATTTAATTAATTCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCGGG
AATAAATCCCAAAATAGAATTATTCAATTAAATCTCATTTGGAAACAAAATCAACACAATAAAAT
CTATTAAAAGGTAGGAATAAATCCCAAAATAG
Found at i:40456959 original size:48 final size:50
Alignment explanation
Indices: 40456896--40457007 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 50
40456886 ATAATTATAA
* * ** *
40456896 ATATTGATATTAAATACAAGATCTGTAC-AAA-TAATATAAA-AAATATTT
1 ATATTTATATAAAATACAAGATCTAAACAAAACAAAT-TAAATAAATATTT
*
40456944 ATATTTATATAAAATACCAGATCTAAACAAAACAAATTAAATAAATATTT
1 ATATTTATATAAAATACAAGATCTAAACAAAACAAATTAAATAAATATTT
*
40456994 ATATTTATTTAAAA
1 ATATTTATATAAAA
40457008 CATCAGATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 23 0.43
49 7 0.13
50 24 0.44
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.36
Consensus pattern (50 bp):
ATATTTATATAAAATACAAGATCTAAACAAAACAAATTAAATAAATATTT
Found at i:40460324 original size:17 final size:17
Alignment explanation
Indices: 40460308--40460340 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
40460298 CGTTTGTTTA
40460308 ATTTTC-ATATTTATTT
1 ATTTTCTATATTTATTT
*
40460324 ATTTTCTTTATTTATTT
1 ATTTTCTATATTTATTT
40460341 TATATCATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTCTATATTTATTT
Found at i:40460333 original size:13 final size:13
Alignment explanation
Indices: 40460317--40460341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40460307 AATTTTCATA
40460317 TTTATTTATTTTC
1 TTTATTTATTTTC
40460330 TTTATTTATTTT
1 TTTATTTATTTT
40460342 ATATCATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTATTTTC
Found at i:40461827 original size:46 final size:45
Alignment explanation
Indices: 40461755--40461882 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 45
40461745 AGTGTGGAAT
* * * **
40461755 GTAGGTATGGTAATTCAGTAAAGAAAACCATACTGAGTTTTGGATC
1 GTAGGTATGGTATTTCAGT-AAGAAAACCATACTGAGTTGTGAAAA
40461801 GTAGGTATGGTATTTCAGTAATGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAA-GAAAACCATACTGAGTTGTGAAAA
* *
40461847 GTCGGTATGGTATTTCAGTGAAGAAAACCAGACTGA
1 GTAGGTATGGTATTTCAGT-AAGAAAACCATACTGA
40461883 TTTATAGCAT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 2 0.03
46 69 0.95
47 2 0.03
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (45 bp):
GTAGGTATGGTATTTCAGTAAGAAAACCATACTGAGTTGTGAAAA
Found at i:40468678 original size:46 final size:45
Alignment explanation
Indices: 40468606--40468733 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 45
40468596 AGTGTGGAAT
* * * **
40468606 GTAGGTATGGTAATTCAGTAAAGAAAACCATACTGAGTTTTGGATC
1 GTAGGTATGGTATTTCAGT-AAGAAAACCATACTGAGTTGTGAAAA
40468652 GTAGGTATGGTATTTCAGTAACGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAA-GAAAACCATACTGAGTTGTGAAAA
*
40468698 GTAGGTATGGTATTTCAGTGAAGAAAACCAGACTGA
1 GTAGGTATGGTATTTCAGT-AAGAAAACCATACTGA
40468734 TTTATAGCAT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
45 2 0.03
46 70 0.95
47 2 0.03
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (45 bp):
GTAGGTATGGTATTTCAGTAAGAAAACCATACTGAGTTGTGAAAA
Found at i:40471415 original size:51 final size:51
Alignment explanation
Indices: 40471339--40471441 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
40471329 ATTTCTCATA
40471339 TAACTAGCATGATACTCATCCATAAATTGACTTGTCAAGGTCACATAGGAC
1 TAACTAGCATGATACTCATCCATAAATTGACTTGTCAAGGTCACATAGGAC
*
40471390 TAACTAGCATGATACTCATCCATAAATTGACTTGTCAAGGTTACATAGGAC
1 TAACTAGCATGATACTCATCCATAAATTGACTTGTCAAGGTCACATAGGAC
40471441 T
1 T
40471442 TTTTGGCTTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (51 bp):
TAACTAGCATGATACTCATCCATAAATTGACTTGTCAAGGTCACATAGGAC
Found at i:40483828 original size:23 final size:23
Alignment explanation
Indices: 40483805--40483847 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
40483795 TATGAAATTA
40483805 AAATATAAAAATAT-ATAATTTT
1 AAATATAAAAATATGATAATTTT
* *
40483827 AATTTTAAAAATATGATAATT
1 AAATATAAAAATATGATAATT
40483848 GCTATTCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATATAAAAATATGATAATTTT
Found at i:40486691 original size:11 final size:11
Alignment explanation
Indices: 40486675--40486699 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
40486665 TAAGACCGAA
40486675 ATTTAAATTTC
1 ATTTAAATTTC
40486686 ATTTAAATTTC
1 ATTTAAATTTC
40486697 ATT
1 ATT
40486700 AATTACAATA
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTAAATTTC
Found at i:40488385 original size:23 final size:22
Alignment explanation
Indices: 40488359--40488420 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
40488349 AAATAGATGG
*
40488359 AAATTAAAACAATAATATATGAT
1 AAATTAAAACAATAATA-ATAAT
* **
40488382 AAATTTAAACAATGTTAATAAT
1 AAATTAAAACAATAATAATAAT
*
40488404 AAATTTAAAATAATAAT
1 AAA-TTAAAACAATAAT
40488421 TGAGCTTAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 7 0.23
23 23 0.77
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (22 bp):
AAATTAAAACAATAATAATAAT
Found at i:40490025 original size:85 final size:85
Alignment explanation
Indices: 40489911--40490197 Score: 247
Period size: 85 Copynumber: 3.2 Consensus size: 85
40489901 AACCTACTCC
* * * * * *
40489911 ACTGCAACTTCAGGGGGATAAGGTTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGAAAATAG
1 ACTGCAACTTCAGAGAGATAAGATCTGTAACTTTAATCTGCTCCACTGCAACTTTAGGAAAATAA
* *
40489976 GGTTTGCTATGATCTGCTGT
66 CGTTTGCTATGATCTGCTCT
* * * *
40489996 ACTGCAACTTCAAAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTACAACTTTAGG
1 ACTGCAACTTCAGAGAGATAAGATCTG-----TA-A-CTTTAATCTGCTCCACTGCAACTTTAGG
* * *
40490061 GAAATGAAATTCGTTAT-CT-TCAGTCTGCTCC
59 AAAAT--AA--CGTT-TGCTATGA-TCTGCTCT
* * *
40490092 ACTGCAACTTCAGAGAGATAAGA-CTTGTAACTTTAACCTGCTCTACTGCAACTTTAGGGAAATA
1 ACTGCAACTTCAGAGAGATAAGATC-TGTAACTTTAATCTGCTCCACTGCAACTTTAGGAAAATA
* *
40490156 ATGTTTGATATGATCTGCTCT
65 ACGTTTGCTATGATCTGCTCT
40490177 ACTGCAACTTCAGAGAGATAA
1 ACTGCAACTTCAGAGAGATAA
40490198 TATTTGCAAC
Statistics
Matches: 161, Mismatches: 25, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
84 1 0.01
85 54 0.34
86 2 0.01
87 2 0.01
89 28 0.17
90 3 0.02
91 3 0.02
92 28 0.17
94 1 0.01
95 3 0.02
96 35 0.22
97 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (85 bp):
ACTGCAACTTCAGAGAGATAAGATCTGTAACTTTAATCTGCTCCACTGCAACTTTAGGAAAATAA
CGTTTGCTATGATCTGCTCT
Found at i:40490170 original size:181 final size:181
Alignment explanation
Indices: 40489907--40490276 Score: 510
Period size: 181 Copynumber: 2.0 Consensus size: 181
40489897 CCTCAACCTA
* * ** *
40489907 CTCCACTGCAACTTCAGGGGGATAAGGTTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGAAA
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTTAACCTGCTCCACTGCAACTTCAGGAAA
* * * * *
40489972 ATAGGGTTTGCTATGATCTGCTGTACTGCAACTTCAAAGAGATAAGATCTGTAATTTATAGCTTC
66 ATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGCAACTTATAGCTTC
* * *
40490037 AATCTGTTCCACTACAACTTTAGGGAAATGAA-AT-TCGTTATCTTCAGTCTG
131 AATCTGTTCCACTACAACTTCAGAGAAAT-AAGATCT-GCTATCTTCAGTCTG
* * *
40490088 CTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTTAACCTGCTCTACTGCAACTTTAGGGAA
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTTAACCTGCTCCACTGCAACTTCAGGAAA
* * * * *
40490153 ATAATGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAATATTTGCAACTTATAGCTTG
66 ATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGCAACTTATAGCTTC
*
40490218 AATCTGTTCTACTACAACTTCAGAGAAATAAGATCTGCTATCTTCAGTCTG
131 AATCTGTTCCACTACAACTTCAGAGAAATAAGATCTGCTATCTTCAGTCTG
40490269 CTCCACTG
1 CTCCACTG
40490277 AGAGATAATA
Statistics
Matches: 165, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
180 2 0.01
181 162 0.98
182 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (181 bp):
CTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTTAACCTGCTCCACTGCAACTTCAGGAAA
ATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGCAACTTATAGCTTC
AATCTGTTCCACTACAACTTCAGAGAAATAAGATCTGCTATCTTCAGTCTG
Found at i:40490198 original size:41 final size:42
Alignment explanation
Indices: 40490084--40490203 Score: 118
Period size: 41 Copynumber: 2.8 Consensus size: 42
40490074 TTATCTTCAG
* * *
40490084 TCTGCTCCACTGCAACTTCAGAGAGATAA-GACTTGTAACTTTAA
1 TCTGCTCTACTGCAACTTCAGAGAGATAATG--TT-TGACTATAA
* * * * *
40490128 CCTGCTCTACTGCAACTTTAGGGAAATAATGTTTGA-TATGA
1 TCTGCTCTACTGCAACTTCAGAGAGATAATGTTTGACTATAA
*
40490169 TCTGCTCTACTGCAACTTCAGAGAGATAATATTTG
1 TCTGCTCTACTGCAACTTCAGAGAGATAATGTTTG
40490204 CAACTTATAG
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
41 33 0.53
42 2 0.03
43 2 0.03
44 24 0.39
45 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (42 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAATGTTTGACTATAA
Found at i:40490294 original size:87 final size:87
Alignment explanation
Indices: 40490189--40490363 Score: 350
Period size: 87 Copynumber: 2.0 Consensus size: 87
40490179 TGCAACTTCA
40490189 GAGAGATAATATTTGCAACTTATAGCTTGAATCTGTTCTACTACAACTTCAGAGAAATAAGATCT
1 GAGAGATAATATTTGCAACTTATAGCTTGAATCTGTTCTACTACAACTTCAGAGAAATAAGATCT
40490254 GCTATCTTCAGTCTGCTCCACT
66 GCTATCTTCAGTCTGCTCCACT
40490276 GAGAGATAATATTTGCAACTTATAGCTTGAATCTGTTCTACTACAACTTCAGAGAAATAAGATCT
1 GAGAGATAATATTTGCAACTTATAGCTTGAATCTGTTCTACTACAACTTCAGAGAAATAAGATCT
40490341 GCTATCTTCAGTCTGCTCCACT
66 GCTATCTTCAGTCTGCTCCACT
40490363 G
1 G
40490364 CAACTTTAGG
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (87 bp):
GAGAGATAATATTTGCAACTTATAGCTTGAATCTGTTCTACTACAACTTCAGAGAAATAAGATCT
GCTATCTTCAGTCTGCTCCACT
Found at i:40490407 original size:44 final size:44
Alignment explanation
Indices: 40490298--40490775 Score: 394
Period size: 44 Copynumber: 11.0 Consensus size: 44
40490288 TTGCAACTTA
* * * * * * *
40490298 TAGCTTGAATCTGTTCTACTACAACTTCAGAGAAATAAGATCTG
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* * * *
40490342 CTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTG
1 -TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* * ** * *
40490387 TAACTTCAACCTATTCCACTGTAACTTCAGGGAGATAAGGTTTG
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* * * * **
40490431 -A--TAT-GATTTGCTCTACTGCAACCTCAAAGAGATAAGATTTG
1 TAGCT-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* ** *
40490472 TAGCTTCAATCTACTCCACTATAACTTCAGGGAGATAGGATTTG
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* * * *
40490516 TAGTTTCAATTTGCTTCACTGCAACTTCAGGGAGATAAGGTTTG
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* * * * * *
40490560 TGGCTTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAAACTTG
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* * *
40490604 TAGTTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGATTTG
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* * * * **
40490648 TATCCTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGA--CA
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* * * * *
40490690 TAACTTCAATCTGTTCCATTGCAACTTTAGGGAGATAGGATTAT-
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TG
* **
40490734 TGGCTTTGATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
40490776 CGCCATAATG
Statistics
Matches: 331, Mismatches: 94, Indels: 17
0.75 0.21 0.04
Matches are distributed among these distances:
41 27 0.08
42 34 0.10
43 2 0.01
44 235 0.71
45 33 0.10
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
Found at i:40490498 original size:129 final size:130
Alignment explanation
Indices: 40490312--40490559 Score: 302
Period size: 129 Copynumber: 1.9 Consensus size: 130
40490302 TTGAATCTGT
* * * * * * *
40490312 TCTACTACAACTTCAGAGAAATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAG
1 TCTACTACAACCTCAAAGAAATAAGATCTGCTAGCTTCAATCTACTCCACTACAACTTCAGGGAG
*
40490377 ATAAGACTTGTAACTTCAACCT-ATTCCACTGTAACTTCAGGGAGATAAGGTTTGATATGATTTG
66 ATAAGACTTGTAACTTCAACCTGATT-CACTGCAACTTCAGGGAGATAAGGTTTGATATGATTTG
40490441 C
130 C
* * * *
40490442 TCTACTGCAACCTCAAAGAGATAAGATTTG-TAGCTTCAATCTACTCCACTATAACTTCAGGGAG
1 TCTACTACAACCTCAAAGAAATAAGATCTGCTAGCTTCAATCTACTCCACTACAACTTCAGGGAG
* * ** ** *
40490506 ATAGGATTTGTAGTTTCAATTTGCTTCACTGCAACTTCAGGGAGATAAGGTTTG
66 ATAAGACTTGTAACTTCAACCTGATTCACTGCAACTTCAGGGAGATAAGGTTTG
40490560 TGGCTTTAGT
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
129 71 0.72
130 27 0.28
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (130 bp):
TCTACTACAACCTCAAAGAAATAAGATCTGCTAGCTTCAATCTACTCCACTACAACTTCAGGGAG
ATAAGACTTGTAACTTCAACCTGATTCACTGCAACTTCAGGGAGATAAGGTTTGATATGATTTGC
Found at i:40492042 original size:51 final size:50
Alignment explanation
Indices: 40491981--40492111 Score: 154
Period size: 51 Copynumber: 2.6 Consensus size: 50
40491971 TCAAATACCC
* * *
40491981 TTTGGTCTCAAAGCGCCCTTCGCGGGTTTTCACCTTGGCCTCTCCTTTTTT
1 TTTGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGACCTCT-CTTTTTT
* * *
40492032 TTTGGACTCAAAGCTCCCTTTGCGGGTTTTCGCCTTGATCTCTCTTTTTT
1 TTTGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGACCTCTCTTTTTT
*** * *
40492082 TCAAGACTCGAAGCGCCCTTTGTGGGTTTT
1 TTTGGACTCAAAGCGCCCTTTGCGGGTTTT
40492112 TGCCTTGGTC
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 31 0.46
51 37 0.54
ACGTcount: A:0.11, C:0.27, G:0.21, T:0.41
Consensus pattern (50 bp):
TTTGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGACCTCTCTTTTTT
Found at i:40492101 original size:50 final size:51
Alignment explanation
Indices: 40491987--40492118 Score: 158
Period size: 50 Copynumber: 2.6 Consensus size: 51
40491977 ACCCTTTGGT
* * * ***
40491987 CTCAAAGCGCCCTTCGCGGGTTTTCACCTTGGCCTCTCCTTTTTTTTTGGA
1 CTCAAAGCGCCCTTTGCGGGTTTTCGCCTTGACCTCTCCTTTTTTTCAAGA
* *
40492038 CTCAAAGCTCCCTTTGCGGGTTTTCGCCTTGATCTCT-CTTTTTTTCAAGA
1 CTCAAAGCGCCCTTTGCGGGTTTTCGCCTTGACCTCTCCTTTTTTTCAAGA
* * *
40492088 CTCGAAGCGCCCTTTGTGGGTTTTTGCCTTG
1 CTCAAAGCGCCCTTTGCGGGTTTTCGCCTTG
40492119 GTCCCTTCTC
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 37 0.54
51 32 0.46
ACGTcount: A:0.11, C:0.29, G:0.20, T:0.40
Consensus pattern (51 bp):
CTCAAAGCGCCCTTTGCGGGTTTTCGCCTTGACCTCTCCTTTTTTTCAAGA
Found at i:40501774 original size:32 final size:32
Alignment explanation
Indices: 40501722--40501784 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
40501712 TCATAAACTT
* * *
40501722 ATAAATTGATTACTTGAATTTAATAATTCATG
1 ATAAATTAATTAATTGAATTTAATAACTCATG
* *
40501754 ATAAATTAATTAATTTAATTTGATAACTCAT
1 ATAAATTAATTAATTGAATTTAATAACTCAT
40501785 ATTTTTTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (32 bp):
ATAAATTAATTAATTGAATTTAATAACTCATG
Found at i:40502155 original size:25 final size:25
Alignment explanation
Indices: 40502121--40502171 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
40502111 GAGATAAATA
40502121 AAGGATTGAGTATAAAATTTTTATC
1 AAGGATTGAGTATAAAATTTTTATC
40502146 AAGGATTGAGTATAAAATTTTTATC
1 AAGGATTGAGTATAAAATTTTTATC
40502171 A
1 A
40502172 TTTCGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (25 bp):
AAGGATTGAGTATAAAATTTTTATC
Found at i:40508870 original size:51 final size:50
Alignment explanation
Indices: 40508655--40508997 Score: 306
Period size: 51 Copynumber: 6.8 Consensus size: 50
40508645 TTTTTATCAT
* * *
40508655 TCGATACACGTAGTAGCTTTCACATAGTACTACACACGTGATCAATTTTA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTA
* *
40508705 -C-AGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTT-
1 TCGA-TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTA
* *
40508753 TACGGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTT-
1 T-C-GATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTA
* * * * * * *
40508805 CCGGTATC-CATAGTAGCCTTCACTTAGTACCACACATGTAACCATAGTTTA
1 TCGATA-CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AGTTTA
* * ** *
40508856 TCGATACACGTAGTAGCTTTCACACAGTACTACACACGTG-CTCAAAACTTC
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-C-AAGTTTA
* * * *
40508907 TCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA--AGTTTA
* *
40508958 TTGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
40508998 TTCATCGATA
Statistics
Matches: 236, Mismatches: 40, Indels: 33
0.76 0.13 0.11
Matches are distributed among these distances:
48 1 0.00
49 43 0.18
50 45 0.19
51 140 0.59
52 7 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTA
Found at i:40508885 original size:102 final size:102
Alignment explanation
Indices: 40508655--40508997 Score: 400
Period size: 102 Copynumber: 3.4 Consensus size: 102
40508645 TTTTTATCAT
* * * * * * *
40508655 TCGATACACGTAGTAGCTTTCACATAGTACTACACACGTGATC-AATTTTACAGT-TCACGTAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAACTTTCCGGTATCACATAGT
* * *
40508718 AGCCTTCACATAGTACTACACACGTGATCA-AGTTT-
66 AGCCTTCACTTAGTACTACACATGTGACCATAGTTTA
* * *
40508753 TACGGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTCCGGTATC-CAT
1 T-C-GATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAA-CTTTCCGGTATCACAT
* *
40508816 AGTAGCCTTCACTTAGTACCACACATGTAACCATAGTTTA
63 AGTAGCCTTCACTTAGTACTACACATGTGACCATAGTTTA
*
40508856 TCGATACACGTAGTAGCTTTCACACAGTACTACACACGTG-CTCAAAAC-TTCTCGGTA-CACAT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGAC-C-AAACTTTC-CGGTATCACAT
40508918 AGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTA
63 AGTAGCCTTCACTTAGTACTACACATGTGACCA-TAGTTTA
*
40508958 TTGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
40508998 TTCATCGATA
Statistics
Matches: 211, Mismatches: 21, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
98 1 0.00
99 35 0.17
100 4 0.02
101 43 0.20
102 122 0.58
103 6 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAACTTTCCGGTATCACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATAGTTTA
Found at i:40508940 original size:26 final size:26
Alignment explanation
Indices: 40508911--40508993 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
40508901 AACTTCTCGG
40508911 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* *
40508937 TACACAT-GT-GACCATT-ATTTATTGA-
1 TACACATAGTAG-CC-TTCACTTAGT-AC
* **
40508962 TACACGTAGTAGCCTTCACACAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
40508988 TACACA
1 TACACA
40508994 CGTGTTCATC
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:40508972 original size:153 final size:149
Alignment explanation
Indices: 40508656--40508996 Score: 341
Period size: 153 Copynumber: 2.3 Consensus size: 149
40508646 TTTTATCATT
* * * * * *
40508656 CGATACACGTAGTAGCTTTCACATAGTACTACACACGTGATCAATTTTACAGTTCACGTAGTAGC
1 CGATACACGTAGTAGCCTTCACATAGTACCACACACGTAACCAAGTTTACAGTACACGTAGTAGC
* * * *
40508721 CTTCACATAGTACTACACACGTGATCAAGTTTTACGGCTCACGTAGTAGCCTTCACATAGTACTA
66 CTTCACACAGTACTACACACGTGATCAACTTCTACGGCTCACATAGTAGCCTTCACATAGTACTA
*
40508786 CATACGTGACCAAAGCTTTC
131 CACACGTGACCAAA-CTTTC
* * * *
40508806 CGGTATC-CATAGTAGCCTTCACTTAGTACCACACATGTAACCATAGTTTATC-GATACACGTAG
1 CGATA-CACGTAGTAGCCTTCACATAGTACCACACACGTAACCA-AGTTTA-CAG-TACACGTAG
* * *
40508869 TAGCTTTCACACAGTACTACACACGTGCTCAAAACTTCT-CGG-TACACATAGTAGCCTTCACTT
62 TAGCCTTCACACAGTACTACACACGTGATC--AACTTCTACGGCT-CACATAGTAGCCTTCACAT
* * *
40508932 AGTACTACACATGTGACCATTA-TTTAT
124 AGTACTACACACGTGACCA-AACTTT-C
* * *
40508959 TGATACACGTAGTAGCCTTCACACAGTACTACACACGT
1 CGATACACGTAGTAGCCTTCACATAGTACCACACACGT
40508997 GTTCATCGAT
Statistics
Matches: 153, Mismatches: 28, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
150 33 0.22
151 7 0.05
152 41 0.27
153 66 0.43
154 6 0.04
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (149 bp):
CGATACACGTAGTAGCCTTCACATAGTACCACACACGTAACCAAGTTTACAGTACACGTAGTAGC
CTTCACACAGTACTACACACGTGATCAACTTCTACGGCTCACATAGTAGCCTTCACATAGTACTA
CACACGTGACCAAACTTTC
Found at i:40515778 original size:10 final size:10
Alignment explanation
Indices: 40515763--40515796 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
40515753 TAAAGTAAAT
40515763 GAAATAAAAA
1 GAAATAAAAA
40515773 GAAATAAAAA
1 GAAATAAAAA
**
40515783 GAAAGCAAAA
1 GAAATAAAAA
40515793 GAAA
1 GAAA
40515797 GGAAAGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (10 bp):
GAAATAAAAA
Found at i:40515810 original size:15 final size:15
Alignment explanation
Indices: 40515770--40515815 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
40515760 AATGAAATAA
40515770 AAAGAAATA-AAAAG
1 AAAGAAATAGAAAAG
*
40515784 AAAGCAAA-AGAAAGG
1 AAAG-AAATAGAAAAG
*
40515799 AAAGAAATAGAATAG
1 AAAGAAATAGAAAAG
40515814 AA
1 AA
40515816 GAGACGAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAGAAATAGAAAAG
Found at i:40515837 original size:11 final size:11
Alignment explanation
Indices: 40515821--40515845 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
40515811 TAGAAGAGAC
40515821 GAAACAGGGGA
1 GAAACAGGGGA
40515832 GAAACAGGGGA
1 GAAACAGGGGA
40515843 GAA
1 GAA
40515846 CGAAGAAAAA
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:0.48, C:0.08, G:0.44, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:40516518 original size:12 final size:12
Alignment explanation
Indices: 40516503--40516555 Score: 88
Period size: 12 Copynumber: 4.4 Consensus size: 12
40516493 GTGAGGTAAG
* *
40516503 TATTAATATTAG
1 TATTAGTATTAT
40516515 TATTAGTATTAT
1 TATTAGTATTAT
40516527 TATTAGTATTAT
1 TATTAGTATTAT
40516539 TATTAGTATTAT
1 TATTAGTATTAT
40516551 TATTA
1 TATTA
40516556 TTAAGATGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:40516558 original size:6 final size:6
Alignment explanation
Indices: 40516501--40516555 Score: 74
Period size: 6 Copynumber: 9.2 Consensus size: 6
40516491 ATGTGAGGTA
* * *
40516501 AGTATT AATATT AGTATT AGTATT ATTATT AGTATT ATTATT AGTATT
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
*
40516549 ATTATT A
1 AGTATT A
40516556 TTAAGATGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (6 bp):
AGTATT
Found at i:40516736 original size:23 final size:26
Alignment explanation
Indices: 40516710--40516758 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
40516700 ATTGCGGATT
40516710 AATTATTG-ATTGAAAA-GTG-GAAA
1 AATTATTGAATTGAAAATGTGAGAAA
40516733 AATTATTGAATTGAAAATGTGAGAAA
1 AATTATTGAATTGAAAATGTGAGAAA
40516759 TTGTGATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.35
24 8 0.35
25 3 0.13
26 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (26 bp):
AATTATTGAATTGAAAATGTGAGAAA
Found at i:40523487 original size:10 final size:10
Alignment explanation
Indices: 40523472--40523505 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
40523462 TAAAGTAAAT
40523472 GAAATAAAAA
1 GAAATAAAAA
40523482 GAAATAAAAA
1 GAAATAAAAA
**
40523492 GAAAGCAAAA
1 GAAATAAAAA
40523502 GAAA
1 GAAA
40523506 GGAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (10 bp):
GAAATAAAAA
Found at i:40524227 original size:6 final size:6
Alignment explanation
Indices: 40524210--40524258 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
40524200 ATGTGAGGTA
* * * *
40524210 AGTATT AATATT AGTATT AGTATT ATTATT AGTATT ATTATT ATTATT
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
40524258 A
1 A
40524259 AGATGAGTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (6 bp):
AGTATT
Found at i:40524233 original size:18 final size:18
Alignment explanation
Indices: 40524210--40524258 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
40524200 ATGTGAGGTA
*
40524210 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
40524228 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
*
40524246 ATTATTATTATTA
1 AGTATTATTATTA
40524259 AGATGAGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Done.