Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 315 of 320
Found at i:100913869 original size:5 final size:6
Alignment explanation
Indices: 100913854--100913912 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
100913844 AATTATATGT
* ** **
100913854 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTAGA TTTAGA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA
100913904 TTTTTA TTT
1 TTTTTA TTT
100913913 ATTAAATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
6 39 0.83
7 7 0.15
8 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:100917630 original size:13 final size:14
Alignment explanation
Indices: 100917612--100917641 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
100917602 TTATTTGATT
100917612 ATTAAAAAA-TTTA
1 ATTAAAAAATTTTA
100917625 ATTAAAAAATTTTA
1 ATTAAAAAATTTTA
100917639 ATT
1 ATT
100917642 TGGAGTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTAAAAAATTTTA
Found at i:100917892 original size:21 final size:21
Alignment explanation
Indices: 100917866--100917908 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
100917856 ATCATCACGA
100917866 TACTACTAAATTGGCTGAAAT
1 TACTACTAAATTGGCTGAAAT
100917887 TACTACTAAATTGGCTGAAAT
1 TACTACTAAATTGGCTGAAAT
100917908 T
1 T
100917909 GAATTATCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (21 bp):
TACTACTAAATTGGCTGAAAT
Found at i:100919618 original size:21 final size:21
Alignment explanation
Indices: 100919592--100919646 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
100919582 ACAGTGGTGG
*
100919592 CGGTGAGATTAGTTACTGTAA
1 CGGTGAGATTAGATACTGTAA
* * *
100919613 CGGTGAGATTGGATATTGTAG
1 CGGTGAGATTAGATACTGTAA
100919634 CGGTGAGATTAGA
1 CGGTGAGATTAGA
100919647 AACAGCGGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.07, G:0.35, T:0.31
Consensus pattern (21 bp):
CGGTGAGATTAGATACTGTAA
Found at i:100923047 original size:12 final size:13
Alignment explanation
Indices: 100923028--100923053 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100923018 GATTGAGTAC
100923028 CAAAAAAATTAAG
1 CAAAAAAATTAAG
100923041 CAAAAAAATTAAG
1 CAAAAAAATTAAG
100923054 GGTTCATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
CAAAAAAATTAAG
Found at i:100923398 original size:13 final size:13
Alignment explanation
Indices: 100923376--100923408 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
100923366 CTTGGAACCG
100923376 CCGA-TTTTTTTA
1 CCGATTTTTTTTA
100923388 CCGATTTTTTTTA
1 CCGATTTTTTTTA
*
100923401 CCAATTTT
1 CCGATTTT
100923409 AGTGAGAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.58
Consensus pattern (13 bp):
CCGATTTTTTTTA
Found at i:100923686 original size:12 final size:12
Alignment explanation
Indices: 100923669--100923695 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
100923659 GCAACCCAAG
100923669 GGGAAGGGGAAA
1 GGGAAGGGGAAA
100923681 GGGAAGGGGAAA
1 GGGAAGGGGAAA
100923693 GGG
1 GGG
100923696 GAGAAGAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (12 bp):
GGGAAGGGGAAA
Found at i:100925361 original size:38 final size:36
Alignment explanation
Indices: 100925310--100925383 Score: 130
Period size: 38 Copynumber: 2.0 Consensus size: 36
100925300 ATTGCAGTTG
100925310 TATTTTTATATTGATTTGATTCTATGTTATAATGATTC
1 TATTTTTATATTGATTTGATTCTAT-TTATAAT-ATTC
100925348 TATTTTTATATTGATTTGATTCTATTTATAATATTC
1 TATTTTTATATTGATTTGATTCTATTTATAATATTC
100925384 ATAGAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 4 0.11
37 7 0.19
38 25 0.69
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.59
Consensus pattern (36 bp):
TATTTTTATATTGATTTGATTCTATTTATAATATTC
Found at i:100925362 original size:17 final size:16
Alignment explanation
Indices: 100925325--100925363 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
100925315 TTATATTGAT
100925325 TTGATTCTATGTTATA
1 TTGATTCTATGTTATA
* *
100925341 ATGATTCTATTTTTATA
1 TTGATTCTA-TGTTATA
100925358 TTGATT
1 TTGATT
100925364 TGATTCTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.59
Consensus pattern (16 bp):
TTGATTCTATGTTATA
Found at i:100925370 original size:22 final size:22
Alignment explanation
Indices: 100925310--100925374 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
100925300 ATTGCAGTTG
100925310 TATTTTTATATTGATTTGATTC
1 TATTTTTATATTGATTTGATTC
*
100925332 TA-TGTTATA---A--TGATTC
1 TATTTTTATATTGATTTGATTC
100925348 TATTTTTATATTGATTTGATTC
1 TATTTTTATATTGATTTGATTC
100925370 TATTT
1 TATTT
100925375 ATAATATTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
16 8 0.23
17 6 0.17
18 1 0.03
20 1 0.03
21 6 0.17
22 13 0.37
ACGTcount: A:0.25, C:0.05, G:0.09, T:0.62
Consensus pattern (22 bp):
TATTTTTATATTGATTTGATTC
Found at i:100928382 original size:17 final size:17
Alignment explanation
Indices: 100928360--100928396 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
100928350 TTTAAGAGTT
100928360 TATCTTAGATAGAATGA
1 TATCTTAGATAGAATGA
100928377 TATCTTAGATAGAATGA
1 TATCTTAGATAGAATGA
100928394 TAT
1 TAT
100928397 TAAAAAGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (17 bp):
TATCTTAGATAGAATGA
Found at i:100929335 original size:29 final size:29
Alignment explanation
Indices: 100929275--100929342 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
100929265 ACAATTAGTC
100929275 CTAAATTTTGAAATTAAAAAAGTAGAAAGA
1 CTAAATTTTGAAATT-AAAAAGTAGAAAGA
* * *
100929305 CTAAATTTTTAGAATT-AAAAGTATAATGA
1 CTAAATTTTGA-AATTAAAAAGTAGAAAGA
100929334 CTAAATTTT
1 CTAAATTTT
100929343 AATTTTATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 20 0.59
30 10 0.29
31 4 0.12
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.35
Consensus pattern (29 bp):
CTAAATTTTGAAATTAAAAAGTAGAAAGA
Found at i:100929995 original size:21 final size:21
Alignment explanation
Indices: 100929971--100930013 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
100929961 TATTGGCTCT
100929971 TATTTTAAATTA-ATTTTAAAA
1 TATTTT-AATTATATTTTAAAA
*
100929992 TATTTTAATTATATTTTTAAA
1 TATTTTAATTATATTTTAAAA
100930013 T
1 T
100930014 TATCAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTAATTATATTTTAAAA
Found at i:100931630 original size:34 final size:31
Alignment explanation
Indices: 100931583--100931645 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 31
100931573 AAATCATTTG
100931583 AATTTAGAAAATTTAAAAACATATAATAAATAA
1 AATTTAGAAAATTTAAAAAC-TATAA-AAATAA
*
100931616 AATTCTAGAAAATTTAATAACTATAAAAAT
1 AATT-TAGAAAATTTAAAAACTATAAAAAT
100931646 GTTTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 9 0.32
34 15 0.54
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (31 bp):
AATTTAGAAAATTTAAAAACTATAAAAATAA
Found at i:100933912 original size:7 final size:6
Alignment explanation
Indices: 100933878--100933911 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
100933868 GAATTCAATT
*
100933878 AAAAA- AAAAGG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
100933912 ATTTCCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:100936707 original size:30 final size:33
Alignment explanation
Indices: 100936647--100936707 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
100936637 TCTACTAAAA
*
100936647 AAAATGAGCAAATTAGTTCCTGTATGTTACATC
1 AAAATGAGCAAACTAGTTCCTGTATGTTACATC
*
100936680 AAAA-GAGCAAACTAG-TCCT-TCTGTTACA
1 AAAATGAGCAAACTAGTTCCTGTATGTTACA
100936708 AGTTCTATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 4 0.15
32 10 0.38
33 4 0.15
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (33 bp):
AAAATGAGCAAACTAGTTCCTGTATGTTACATC
Found at i:100953630 original size:4 final size:4
Alignment explanation
Indices: 100953621--100953649 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
100953611 TATTTAAACG
100953621 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
100953650 AGGTATACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:100956795 original size:27 final size:31
Alignment explanation
Indices: 100956755--100956823 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 31
100956745 TTAGCCTCAA
*
100956755 GGTTC-AATTTGATACCT-AA-AT-TTTTTT
1 GGTTCAAATTAGATACCTGAACATGTTTTTT
*
100956782 GG-TCAAATTAGATACCTGAACTTGTTTTTT
1 GGTTCAAATTAGATACCTGAACATGTTTTTT
100956812 GGTTCAAATTAG
1 GGTTCAAATTAG
100956824 TATATGAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 2 0.06
27 13 0.37
28 2 0.06
29 1 0.03
30 8 0.23
31 9 0.26
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.45
Consensus pattern (31 bp):
GGTTCAAATTAGATACCTGAACATGTTTTTT
Found at i:100956812 original size:30 final size:30
Alignment explanation
Indices: 100956776--100956835 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
100956766 ATACCTAAAT
100956776 TTTTTTGG-TCAAATTAG-ATACCTGAACTTG
1 TTTTTTGGTTCAAATTAGTATA--TGAACTTG
100956806 TTTTTTGGTTCAAATTAGTATATGAACTTG
1 TTTTTTGGTTCAAATTAGTATATGAACTTG
100956836 ACTTCATAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 16 0.57
31 9 0.32
32 3 0.11
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (30 bp):
TTTTTTGGTTCAAATTAGTATATGAACTTG
Found at i:100962542 original size:21 final size:21
Alignment explanation
Indices: 100962494--100962545 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
100962484 ATCAATTTAA
*
100962494 TATT-TAATATTTTTAATTAT
1 TATTATAATATATTTAATTAT
100962514 T-TTA-AATATATTTACATT-T
1 TATTATAATATATTTA-ATTAT
100962533 TATTATAATATAT
1 TATTATAATATAT
100962546 AAATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 13 0.48
20 7 0.26
21 7 0.26
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATAATATATTTAATTAT
Found at i:100963540 original size:22 final size:22
Alignment explanation
Indices: 100963494--100963534 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
100963484 AATTTCAAAC
100963494 AAAAAATGTGAGATTAGATTTG
1 AAAAAATGTGAGATTAGATTTG
100963516 AAAAAAT-TGA-ATTAGATTT
1 AAAAAATGTGAGATTAGATTT
100963535 TCGAAATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 3 0.16
22 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (22 bp):
AAAAAATGTGAGATTAGATTTG
Found at i:100965267 original size:230 final size:230
Alignment explanation
Indices: 100964864--100965786 Score: 1774
Period size: 230 Copynumber: 4.0 Consensus size: 230
100964854 CATCAGTCAC
100964864 ATTAACCTTGAGAATCAAATAACAAATTTTAATAGTAACTAATCTCCTTGAGTATATTTGAATAA
1 ATTAACCTTGAGAATCAAATAACAAATTTTAATAGTAACTAATCTCCTTGAGTATATTTGAATAA
100964929 GTGTTTCAACACAATTTAAATTTAATCACCTTGTCTAGTGTCGTGGTTTCTTGTGTAGTAGCCTT
66 GTGTTTCAACACAATTTAAATTTAATCACCTTGTCTAGTGTCGTGGTTTCTTGTGTAGTAGCCTT
*
100964994 AACTGTCATGTCACTTTCTTCTGCACCAAAAGCTTGCAAGGGAAAATGCTCCTGAAAAGAAAAAA
131 AACTGTCATGTCACTTTCTTCTGCACTAAAAGCTTGCAAGGGAAAATGCTCCTGAAAAGAAAAAA
100965059 TAAAACCAATAAGCATGGAAAAAAATATCATTGAT
196 TAAAACCAATAAGCATGGAAAAAAATATCATTGAT
100965094 ATTAACCTTGAGAATCAAATAACAAATTTTAATAGTAACTAATCTCCTTGAGTATATTTGAATAA
1 ATTAACCTTGAGAATCAAATAACAAATTTTAATAGTAACTAATCTCCTTGAGTATATTTGAATAA
*
100965159 GTGTTTCAACGCAATTTAAATTTAATCACCTTGTCTAGTGTCGTGGTTTCTTGTGTAGTAGCCTT
66 GTGTTTCAACACAATTTAAATTTAATCACCTTGTCTAGTGTCGTGGTTTCTTGTGTAGTAGCCTT
100965224 AACTGTCATGTCACTTTCTTCTGCACTAAAAGCTTGCAAGGGAAAATGCTCCTGAAAAGAAAAAA
131 AACTGTCATGTCACTTTCTTCTGCACTAAAAGCTTGCAAGGGAAAATGCTCCTGAAAAGAAAAAA
100965289 TAAAACCAATAAGCATGGAAAAAAATATCATTGAT
196 TAAAACCAATAAGCATGGAAAAAAATATCATTGAT
100965324 ATTAACCTTGAGAATCAAATAACAAATTTTAATAGTAACTAATCTCCTTGAGTATATTTGAATAA
1 ATTAACCTTGAGAATCAAATAACAAATTTTAATAGTAACTAATCTCCTTGAGTATATTTGAATAA
*
100965389 GTGTTTCAACACAATTTAAATTTAATCACCTTGTCTAGTGTCGTGTTTTCTTGTGTAGTAGCCTT
66 GTGTTTCAACACAATTTAAATTTAATCACCTTGTCTAGTGTCGTGGTTTCTTGTGTAGTAGCCTT
100965454 AACTGTCATGTCACTTTCTTCTGCACTAAAAGCTTGCAAGGGAAAATGCTCCTGAAAAGAAAAAA
131 AACTGTCATGTCACTTTCTTCTGCACTAAAAGCTTGCAAGGGAAAATGCTCCTGAAAAGAAAAAA
100965519 TAAAACCAATAAGCATGGAAAAAAATATCATTGAT
196 TAAAACCAATAAGCATGGAAAAAAATATCATTGAT
100965554 ATTAACCTTGAGAATCAAATAACAAATTTTAATAGTAACTAATCTCCTTGAGTATATTTGAATAA
1 ATTAACCTTGAGAATCAAATAACAAATTTTAATAGTAACTAATCTCCTTGAGTATATTTGAATAA
* * **
100965619 GTGTTTCAACACAATTTAAATTTAATCACCTCGTCTAGTATTTTGGTTTCTTGTGTAGTAGCCTT
66 GTGTTTCAACACAATTTAAATTTAATCACCTTGTCTAGTGTCGTGGTTTCTTGTGTAGTAGCCTT
*
100965684 AACTGTCATGTCACTTTCTTCTGCACTAAAAGCTTGCAAGGGAAAATGCTTCTGAAAAGAAAAAA
131 AACTGTCATGTCACTTTCTTCTGCACTAAAAGCTTGCAAGGGAAAATGCTCCTGAAAAGAAAAAA
100965749 TAAAACCAATAAGCATGGAAAAAAATATCATTGAT
196 TAAAACCAATAAGCATGGAAAAAAATATCATTGAT
100965784 ATT
1 ATT
100965787 GTAATCTAGT
Statistics
Matches: 683, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
230 683 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (230 bp):
ATTAACCTTGAGAATCAAATAACAAATTTTAATAGTAACTAATCTCCTTGAGTATATTTGAATAA
GTGTTTCAACACAATTTAAATTTAATCACCTTGTCTAGTGTCGTGGTTTCTTGTGTAGTAGCCTT
AACTGTCATGTCACTTTCTTCTGCACTAAAAGCTTGCAAGGGAAAATGCTCCTGAAAAGAAAAAA
TAAAACCAATAAGCATGGAAAAAAATATCATTGAT
Found at i:100966982 original size:385 final size:385
Alignment explanation
Indices: 100966272--100967034 Score: 1526
Period size: 385 Copynumber: 2.0 Consensus size: 385
100966262 TTTCCTGCAC
100966272 AAAATGATGATAACTTTCCCAATCATAAAAAGATTCAGAAACTGATTCACATTCTTAGATGCATA
1 AAAATGATGATAACTTTCCCAATCATAAAAAGATTCAGAAACTGATTCACATTCTTAGATGCATA
100966337 TTTCTTTACACACCAGATAGAATGAATACAAAAAAATGTTACCTCTTTTTGTATAGCATGTTCAG
66 TTTCTTTACACACCAGATAGAATGAATACAAAAAAATGTTACCTCTTTTTGTATAGCATGTTCAG
100966402 TAATGGTCGAGACATTTTCTAATGGCAAGCTTTCCTACATTCAGATATAGAAGCTTATCATTTAA
131 TAATGGTCGAGACATTTTCTAATGGCAAGCTTTCCTACATTCAGATATAGAAGCTTATCATTTAA
100966467 TGAACCTTAATTTAATCATATTCAATGTTTTATTTTCTTAACTTTATAGAATAGCAAAACATTAC
196 TGAACCTTAATTTAATCATATTCAATGTTTTATTTTCTTAACTTTATAGAATAGCAAAACATTAC
100966532 AATTTTTAATGCAAATTATGTAGAAGAGATTGGAAGAAGCTAAAATCCTTTCTTAGGAAAACTGA
261 AATTTTTAATGCAAATTATGTAGAAGAGATTGGAAGAAGCTAAAATCCTTTCTTAGGAAAACTGA
100966597 ATACCTCCTGAGATACCTTCTTAGGTTTGGTTGAATGGCATGCTTCATCAAAAGATTCAT
326 ATACCTCCTGAGATACCTTCTTAGGTTTGGTTGAATGGCATGCTTCATCAAAAGATTCAT
100966657 AAAATGATGATAACTTTCCCAATCATAAAAAGATTCAGAAACTGATTCACATTCTTAGATGCATA
1 AAAATGATGATAACTTTCCCAATCATAAAAAGATTCAGAAACTGATTCACATTCTTAGATGCATA
100966722 TTTCTTTACACACCAGATAGAATGAATACAAAAAAATGTTACCTCTTTTTGTATAGCATGTTCAG
66 TTTCTTTACACACCAGATAGAATGAATACAAAAAAATGTTACCTCTTTTTGTATAGCATGTTCAG
100966787 TAATGGTCGAGACATTTTCTAATGGCAAGCTTTCCTACATTCAGATATAGAAGCTTATCATTTAA
131 TAATGGTCGAGACATTTTCTAATGGCAAGCTTTCCTACATTCAGATATAGAAGCTTATCATTTAA
100966852 TGAACCTTAATTTAATCATATTCAATGTTTTATTTTCTTAACTTTATAGAATAGCAAAACATTAC
196 TGAACCTTAATTTAATCATATTCAATGTTTTATTTTCTTAACTTTATAGAATAGCAAAACATTAC
100966917 AATTTTTAATGCAAATTATGTAGAAGAGATTGGAAGAAGCTAAAATCCTTTCTTAGGAAAACTGA
261 AATTTTTAATGCAAATTATGTAGAAGAGATTGGAAGAAGCTAAAATCCTTTCTTAGGAAAACTGA
100966982 ATACCTCCTGAGATACCTTCTTAGGTTTGGTTGAATGGCATGCTTCATCAAAA
326 ATACCTCCTGAGATACCTTCTTAGGTTTGGTTGAATGGCATGCTTCATCAAAA
100967035 AGTTTCCTTC
Statistics
Matches: 378, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
385 378 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (385 bp):
AAAATGATGATAACTTTCCCAATCATAAAAAGATTCAGAAACTGATTCACATTCTTAGATGCATA
TTTCTTTACACACCAGATAGAATGAATACAAAAAAATGTTACCTCTTTTTGTATAGCATGTTCAG
TAATGGTCGAGACATTTTCTAATGGCAAGCTTTCCTACATTCAGATATAGAAGCTTATCATTTAA
TGAACCTTAATTTAATCATATTCAATGTTTTATTTTCTTAACTTTATAGAATAGCAAAACATTAC
AATTTTTAATGCAAATTATGTAGAAGAGATTGGAAGAAGCTAAAATCCTTTCTTAGGAAAACTGA
ATACCTCCTGAGATACCTTCTTAGGTTTGGTTGAATGGCATGCTTCATCAAAAGATTCAT
Found at i:100971805 original size:8 final size:8
Alignment explanation
Indices: 100971792--100971816 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
100971782 CTATGAATAA
100971792 AATTATAG
1 AATTATAG
100971800 AATTATAG
1 AATTATAG
100971808 AATTATAG
1 AATTATAG
100971816 A
1 A
100971817 TTTAATCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (8 bp):
AATTATAG
Found at i:100976570 original size:4 final size:4
Alignment explanation
Indices: 100976563--100976593 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
100976553 TTATGTTGTT
100976563 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
100976594 TGGGCTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:100977185 original size:31 final size:31
Alignment explanation
Indices: 100977150--100977211 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
100977140 GTTGATGGAC
* *
100977150 TTAAATAAAAAC-TTCTGAATAGTTTAATGAT
1 TTAAATAAAAACTTTC-AAATAATTTAATGAT
100977181 TTAAATAAAAACTTTCAAATAATTTAATGAT
1 TTAAATAAAAACTTTCAAATAATTTAATGAT
100977212 CATTTTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (31 bp):
TTAAATAAAAACTTTCAAATAATTTAATGAT
Found at i:100977778 original size:15 final size:14
Alignment explanation
Indices: 100977756--100977788 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
100977746 TGATTTATGA
100977756 TTTTTTTTTT-ATT
1 TTTTTTTTTTAATT
100977769 TTTTTATTTTTAATT
1 TTTTT-TTTTTAATT
100977784 TTTTT
1 TTTTT
100977789 GTTGACACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 5 0.28
15 8 0.44
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTTAATT
Found at i:100978936 original size:18 final size:17
Alignment explanation
Indices: 100978910--100978943 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
100978900 CAATCGATAA
100978910 TTTAATTTTTTATTTAAT
1 TTTAATTTTTT-TTTAAT
*
100978928 TTTACTTTTTTTTTAA
1 TTTAATTTTTTTTTAA
100978944 AATTATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTAATTTTTTTTTAAT
Found at i:101000356 original size:15 final size:15
Alignment explanation
Indices: 101000331--101000383 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
101000321 TTAAATTTAG
*
101000331 CATTTAATTTTTCAA
1 CATTTATTTTTTCAA
*
101000346 TATTTATTTTTTCAA
1 CATTTATTTTTTCAA
*
101000361 CATTTA-TTTTT-AG
1 CATTTATTTTTTCAA
101000374 CATTTATTTT
1 CATTTATTTT
101000384 GGTCAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 7 0.21
14 8 0.24
15 18 0.55
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.62
Consensus pattern (15 bp):
CATTTATTTTTTCAA
Found at i:101001171 original size:22 final size:21
Alignment explanation
Indices: 101001131--101001172 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
101001121 TAGTCCCTAT
101001131 ATTTTTTATTTTCATAATTTA
1 ATTTTTTATTTTCATAATTTA
101001152 ATTTTTGTACTTTTCA-AATTT
1 ATTTTT-TA-TTTTCATAATTT
101001173 TCAAATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 7 0.37
23 6 0.32
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTTTTATTTTCATAATTTA
Found at i:101005740 original size:61 final size:61
Alignment explanation
Indices: 101005645--101005759 Score: 230
Period size: 61 Copynumber: 1.9 Consensus size: 61
101005635 GCATCATTTT
101005645 TGTTCATAGAATGTTTCTCCTACTGGCAACCATTAGAGATAATTGTGAAAAATGCCATATA
1 TGTTCATAGAATGTTTCTCCTACTGGCAACCATTAGAGATAATTGTGAAAAATGCCATATA
101005706 TGTTCATAGAATGTTTCTCCTACTGGCAACCATTAGAGATAATTGTGAAAAATG
1 TGTTCATAGAATGTTTCTCCTACTGGCAACCATTAGAGATAATTGTGAAAAATG
101005760 GGGAGTGGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (61 bp):
TGTTCATAGAATGTTTCTCCTACTGGCAACCATTAGAGATAATTGTGAAAAATGCCATATA
Found at i:101012717 original size:22 final size:23
Alignment explanation
Indices: 101012692--101012735 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
101012682 GTACCAAAAA
* *
101012692 ATTAGAATTTTTTATTA-ATTTT
1 ATTAGAAATTTTGATTATATTTT
*
101012714 ATTATAAATTTTGATTATATTT
1 ATTAGAAATTTTGATTATATTT
101012736 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (23 bp):
ATTAGAAATTTTGATTATATTTT
Found at i:101018026 original size:21 final size:22
Alignment explanation
Indices: 101017983--101018030 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
101017973 AAACCACACC
*
101017983 AAAATAGTGACAAAAGAAAAGCA
1 AAAATAGTGA-AAAACAAAAGCA
*
101018006 AAAATAGTG-AAAACAACAGCA
1 AAAATAGTGAAAAACAAAAGCA
101018027 AAAA
1 AAAA
101018031 GCATCAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.61
23 9 0.39
ACGTcount: A:0.67, C:0.10, G:0.15, T:0.08
Consensus pattern (22 bp):
AAAATAGTGAAAAACAAAAGCA
Found at i:101018581 original size:11 final size:11
Alignment explanation
Indices: 101018565--101018590 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
101018555 TGCTTATACT
101018565 AAAAAAAATAA
1 AAAAAAAATAA
101018576 AAAAAAAATAA
1 AAAAAAAATAA
101018587 AAAA
1 AAAA
101018591 GGTGTAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:101020383 original size:26 final size:25
Alignment explanation
Indices: 101020344--101020393 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
101020334 AAAAATTATA
*
101020344 TTATCCTTTGGAAAACGACAACCCT
1 TTATCCTCTGGAAAACGACAACCCT
101020369 TTATCCCTCTGGAAAACGACAACCC
1 TTAT-CCTCTGGAAAACGACAACCC
101020394 AAGATCCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (25 bp):
TTATCCTCTGGAAAACGACAACCCT
Found at i:101021455 original size:25 final size:27
Alignment explanation
Indices: 101021422--101021476 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
101021412 ATGGTATAAT
* *
101021422 TTTGCTTTAATATTGA-CCATAAATTA
1 TTTGCTTTAATAATGATACATAAATTA
*
101021448 TTTG-TTTAATAATGATATATAAATTA
1 TTTGCTTTAATAATGATACATAAATTA
101021474 TTT
1 TTT
101021477 TTATCTCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.51
Consensus pattern (27 bp):
TTTGCTTTAATAATGATACATAAATTA
Found at i:101023927 original size:31 final size:31
Alignment explanation
Indices: 101023862--101023927 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
101023852 TGAAAACAAT
* * *
101023862 AATTCTACATTTTTTAAAAGGTTAATGGTTA
1 AATTCGACATTTTTTAAAAGGTTAATGATCA
*
101023893 AATTCGACTATTTTTTAAAA-GTTGATGATCA
1 AATTCGAC-ATTTTTTAAAAGGTTAATGATCA
101023924 AATT
1 AATT
101023928 TAGGTCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 19 0.63
32 11 0.37
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (31 bp):
AATTCGACATTTTTTAAAAGGTTAATGATCA
Found at i:101031873 original size:2 final size:2
Alignment explanation
Indices: 101031866--101031899 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
101031856 GTGTTTCCTT
*
101031866 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
101031900 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:101036773 original size:13 final size:13
Alignment explanation
Indices: 101036751--101036784 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
101036741 TAAACAATTT
*
101036751 AATTTATATTTTA
1 AATTTTTATTTTA
101036764 AATTTTTATTTTA
1 AATTTTTATTTTA
101036777 AATGTTTT
1 AAT-TTTT
101036785 TTGTAATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (13 bp):
AATTTTTATTTTA
Found at i:101037242 original size:18 final size:18
Alignment explanation
Indices: 101037215--101037255 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
101037205 AAGTAACACC
*
101037215 TAAA-ATAATTTGAGAAA
1 TAAAGATAATTTGAAAAA
101037232 TAAAGATAATTTGAAAAA
1 TAAAGATAATTTGAAAAA
101037250 TCAAAG
1 T-AAAG
101037256 TCTTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.59, C:0.02, G:0.12, T:0.27
Consensus pattern (18 bp):
TAAAGATAATTTGAAAAA
Found at i:101039417 original size:25 final size:25
Alignment explanation
Indices: 101039389--101039449 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
101039379 AAAAATAGAT
*
101039389 TTAAAAATATAATATAT-TAAACACA
1 TTAAAAATA-AATATATCTAAACAAA
* *
101039414 TT-AAAATAAATATTTCTCAACAAA
1 TTAAAAATAAATATATCTAAACAAA
101039438 TTAAAAATAAAT
1 TTAAAAATAAAT
101039450 TTAAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 6 0.19
24 14 0.45
25 11 0.35
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (25 bp):
TTAAAAATAAATATATCTAAACAAA
Found at i:101041004 original size:19 final size:21
Alignment explanation
Indices: 101040980--101041022 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
101040970 TTATATTTAT
101040980 AAAAAATT-A-TAAAATAATA
1 AAAAAATTAATTAAAATAATA
*
101040999 AAAAAATTAATTAAAATGATA
1 AAAAAATTAATTAAAATAATA
101041020 AAA
1 AAA
101041023 TTAAAGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 1 0.05
21 12 0.57
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAAAATTAATTAAAATAATA
Found at i:101048926 original size:104 final size:104
Alignment explanation
Indices: 101048816--101049023 Score: 380
Period size: 104 Copynumber: 2.0 Consensus size: 104
101048806 TTCATGTGAC
*
101048816 ATGTTATGTGTCATTATTTAATTATTTTGTTAGTTATGTTGGTTTTTAACAGTTCAAATTAAATA
1 ATGTTATGTGTCATTATTTAATTATTTTGTTAGTTATGGTGGTTTTTAACAGTTCAAATTAAATA
*
101048881 ATTTTTTAACAAAAAAATTAGTATACTCTTTGATCTAAT
66 ATTTTTTAACAAAAAAATCAGTATACTCTTTGATCTAAT
*
101048920 ATGTTATGTGTCATTATTTAATTATTTTGTTAGTTATGGTGGTTTTTAACAGTTTAAATTAAATA
1 ATGTTATGTGTCATTATTTAATTATTTTGTTAGTTATGGTGGTTTTTAACAGTTCAAATTAAATA
*
101048985 ATTTTTTAACAAAAAAATCAGTATACTTTTTGATCTAAT
66 ATTTTTTAACAAAAAAATCAGTATACTCTTTGATCTAAT
101049024 GGTCAAGATT
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 100 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (104 bp):
ATGTTATGTGTCATTATTTAATTATTTTGTTAGTTATGGTGGTTTTTAACAGTTCAAATTAAATA
ATTTTTTAACAAAAAAATCAGTATACTCTTTGATCTAAT
Found at i:101050663 original size:103 final size:104
Alignment explanation
Indices: 101050535--101050740 Score: 326
Period size: 104 Copynumber: 2.0 Consensus size: 104
101050525 TCATGAGTTG
*
101050535 TAACATTTAAAGTGTGCCTTGAGCCATTTACAA-GCTTAGACCAATTCATGAGTCGAGTTACTCA
1 TAACATGTAAAGTGTGCCTTGAGCCATTTACAACGCTTAGACCAATTCATGAGTCGAGTTACTCA
* *
101050599 CATAAGCTAAAAAACGTACCC-TAATTATGAGAGAATTTA
66 CATAAGCTAAAAAACATACCCAAAATT-TGAGAGAATTTA
* * *
101050638 TAACATGTAAAGTGTGCCTTTAGCCATTTACAACGCTTAGATCAATTCATGGGTCGAGTTACTCA
1 TAACATGTAAAGTGTGCCTTGAGCCATTTACAACGCTTAGACCAATTCATGAGTCGAGTTACTCA
*
101050703 CATAAGCTCAAAAACATACCCAAAATTTGAGAGAATTT
66 CATAAGCTAAAAAACATACCCAAAATTTGAGAGAATTT
101050741 GAACAAAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
103 31 0.33
104 59 0.63
105 4 0.04
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (104 bp):
TAACATGTAAAGTGTGCCTTGAGCCATTTACAACGCTTAGACCAATTCATGAGTCGAGTTACTCA
CATAAGCTAAAAAACATACCCAAAATTTGAGAGAATTTA
Found at i:101059016 original size:21 final size:20
Alignment explanation
Indices: 101058983--101059023 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
101058973 GAAATATTGA
* *
101058983 TAATTTTTTATTTAGAATTT
1 TAATTTTTAATTTAAAATTT
101059003 TAATTTTTAAATTTAAAATTT
1 TAATTTTT-AATTTAAAATTT
101059024 GGAATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TAATTTTTAATTTAAAATTT
Found at i:101063102 original size:13 final size:13
Alignment explanation
Indices: 101063079--101063115 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
101063069 TATTATTGTA
101063079 TTTTTAT-TTTAT
1 TTTTTATATTTAT
101063091 TTTTTATATTTAT
1 TTTTTATATTTAT
*
101063104 TTTATATATTTA
1 TTTTTATATTTA
101063116 ATACATATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTATATTTAT
Found at i:101065862 original size:52 final size:50
Alignment explanation
Indices: 101065795--101065956 Score: 163
Period size: 52 Copynumber: 3.3 Consensus size: 50
101065785 GGCAGCATGT
* * *
101065795 GAAATGTGATTTGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTTGGA
1 GAAATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGC-AT-CA
* * * *
101065847 GAAATGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCA
1 GAAATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCA
* * *
101065897 G---TGTGATATGTG-ATCCGTATAAGACCATGGCTGGGCTATGGCCTC-
1 GAAATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCA
**
101065942 GGTATGTGATATGTG
1 GAAATGTGATATGTG
101065957 ACTATGTGCA
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 26 0.28
47 11 0.12
48 11 0.12
50 2 0.02
51 1 0.01
52 41 0.44
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (50 bp):
GAAATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCA
Found at i:101068152 original size:20 final size:19
Alignment explanation
Indices: 101068129--101068167 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
101068119 GTTTAATGCA
101068129 ATTT-TTTTTGTAATAGATTT
1 ATTTATTTTT-TAATA-ATTT
101068149 ATTTATTTTTTAATAATTT
1 ATTTATTTTTTAATAATTT
101068168 TGAACCACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTTATTTTTTAATAATTT
Found at i:101068499 original size:21 final size:22
Alignment explanation
Indices: 101068473--101068514 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
101068463 CTCGAAGGTC
* *
101068473 AAAGTGATA-AAAATTAAAATT
1 AAAGTGAGAGAAAATAAAAATT
101068494 AAAGTGAGAGAAAATAAAAAT
1 AAAGTGAGAGAAAATAAAAAT
101068515 AAACATTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (22 bp):
AAAGTGAGAGAAAATAAAAATT
Found at i:101068517 original size:21 final size:21
Alignment explanation
Indices: 101068473--101068517 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
101068463 CTCGAAGGTC
* *
101068473 AAAGTGATAAAAATTAAAATT
1 AAAGTGAGAAAAATTAAAAAT
101068494 AAAGTGAGAGAAAA-TAAAAAT
1 AAAGTGAGA-AAAATTAAAAAT
101068515 AAA
1 AAA
101068518 CATTAAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (21 bp):
AAAGTGAGAAAAATTAAAAAT
Found at i:101075843 original size:21 final size:20
Alignment explanation
Indices: 101075805--101075843 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
101075795 TACAACATCT
**
101075805 TAACATAAGTAATTAAAATA
1 TAACATAAGTAAACAAAATA
101075825 TAACATAAGGTAAACAAAA
1 TAACATAA-GTAAACAAAA
101075844 GTTACTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (20 bp):
TAACATAAGTAAACAAAATA
Found at i:101078735 original size:12 final size:12
Alignment explanation
Indices: 101078616--101078738 Score: 122
Period size: 12 Copynumber: 10.2 Consensus size: 12
101078606 AGGACCTGCT
*
101078616 AAAGAAGAGAAG
1 AAAGAAGAAAAG
*
101078628 AAGGAAGGAAAA-
1 AAAGAA-GAAAAG
*
101078640 AAGGAAGAAAAG
1 AAAGAAGAAAAG
*
101078652 AAAGAGGAAAAG
1 AAAGAAGAAAAG
* * *
101078664 AAACAGGAGAAG
1 AAAGAAGAAAAG
*
101078676 AAAGAAGAGAAG
1 AAAGAAGAAAAG
* *
101078688 AAGGAAGAGAAG
1 AAAGAAGAAAAG
*
101078700 AAAGAGGAAAAG
1 AAAGAAGAAAAG
101078712 AAAGAAGAAAAG
1 AAAGAAGAAAAG
*
101078724 AAGGAAGAAAAG
1 AAAGAAGAAAAG
101078736 AAA
1 AAA
101078739 TAAATTTAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
11 5 0.05
12 85 0.90
13 4 0.04
ACGTcount: A:0.67, C:0.01, G:0.33, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAAAG
Found at i:101078737 original size:48 final size:48
Alignment explanation
Indices: 101078616--101078737 Score: 174
Period size: 48 Copynumber: 2.5 Consensus size: 48
101078606 AGGACCTGCT
101078616 AAAGAAGAGAAGAAGGAAGGAAAA-AAGGAAGAAAAGAAAGAGGAAAAG
1 AAAGAAGAGAAGAAGGAA-GAAAAGAAGGAAGAAAAGAAAGAGGAAAAG
* * * * *
101078664 AAACAGGAGAAGAAAGAAGAGAAGAAGGAAGAGAAGAAAGAGGAAAAG
1 AAAGAAGAGAAGAAGGAAGAAAAGAAGGAAGAAAAGAAAGAGGAAAAG
*
101078712 AAAGAAGAAAAGAAGGAAGAAAAGAA
1 AAAGAAGAGAAGAAGGAAGAAAAGAA
101078738 ATAAATTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 4 0.06
48 59 0.94
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (48 bp):
AAAGAAGAGAAGAAGGAAGAAAAGAAGGAAGAAAAGAAAGAGGAAAAG
Found at i:101078738 original size:36 final size:36
Alignment explanation
Indices: 101078633--101078738 Score: 142
Period size: 36 Copynumber: 3.0 Consensus size: 36
101078623 AGAAGAAGGA
* * *
101078633 AGGAAAA-AAGGAAGAAAAGAAAGAGGAAAAGAAAC
1 AGGAAAAGAAAGAAGAAAAGAAGGAAGAAAAGAAAC
* * * *
101078668 AGGAGAAGAAAGAAGAGAAGAAGGAAGAGAAGAAAG
1 AGGAAAAGAAAGAAGAAAAGAAGGAAGAAAAGAAAC
101078704 AGGAAAAGAAAGAAGAAAAGAAGGAAGAAAAGAAA
1 AGGAAAAGAAAGAAGAAAAGAAGGAAGAAAAGAAA
101078739 TAAATTTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
35 6 0.10
36 54 0.90
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.00
Consensus pattern (36 bp):
AGGAAAAGAAAGAAGAAAAGAAGGAAGAAAAGAAAC
Found at i:101078845 original size:6 final size:7
Alignment explanation
Indices: 101078828--101078854 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
101078818 GTATGCTCTG
101078828 TTTTTTC
1 TTTTTTC
101078835 TTTTTTC
1 TTTTTTC
101078842 TTTTTTC
1 TTTTTTC
101078849 TTTTTT
1 TTTTTT
101078855 GGTGGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:101079969 original size:28 final size:28
Alignment explanation
Indices: 101079922--101080003 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
101079912 TATACTTTAT
* *
101079922 TTAAACAAATCATTATATTATTTTTGTAA
1 TTAAATAAATCCTTA-ATTATTTTTGTAA
* * *
101079951 TTAACTAAATTCTTAATTATTTTTGTAG
1 TTAAATAAATCCTTAATTATTTTTGTAA
101079979 TTAAATAAATCCTTAATTTATTTTT
1 TTAAATAAATCCTTAA-TTATTTTT
101080004 ACTTATTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 26 0.58
29 19 0.42
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (28 bp):
TTAAATAAATCCTTAATTATTTTTGTAA
Found at i:101080409 original size:41 final size:42
Alignment explanation
Indices: 101080352--101080432 Score: 121
Period size: 41 Copynumber: 1.9 Consensus size: 42
101080342 TTTTTATTCA
101080352 TATTAATCTCAAAACTTGAA-AA-ATTTTCTCAATTTAACTTG
1 TATTAATCTCAAAACTT-AACAATATTTTCTCAATTTAACTTG
*
101080393 TATTAATCTCAAAACTTAACAATTTTTTTCTCAATTTAAC
1 TATTAATCTCAAAACTTAACAA-TATTTTCTCAATTTAAC
101080433 CCCTAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
40 2 0.06
41 19 0.53
43 15 0.42
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.43
Consensus pattern (42 bp):
TATTAATCTCAAAACTTAACAATATTTTCTCAATTTAACTTG
Found at i:101092390 original size:156 final size:154
Alignment explanation
Indices: 101092106--101092572 Score: 621
Period size: 156 Copynumber: 3.0 Consensus size: 154
101092096 TCAAGACTAT
* ** *
101092106 GTCACAATTCAATGATCTTGCTTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAGAAAATGCTG
1 GTCACAAGTCAATGATCCAGATTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAG-AAATGCTG
* * *
101092171 GACCTGAGGCCATGTCTTCCAATCCAAAGGCTGAATTACCCAATGTTTCATCTGGTCGTTCAGTT
65 GACCTGCGGCCATGTCTTTCAA-CCAAAGGCTGAATTACCCAATGTTTCATCTGGTCATTCAGTT
*
101092236 GAAGCATGTGAATCCACTGGTCTACA
129 GAAGCATGTGCATCCACTGGTCTACA
* **
101092262 GTCACAAGTCAATGGTCCAGATTTTTTCTTGAATCCCCAGAAAAGTATTGCTAGAGAAGATGCTG
1 GTCACAAGTCAATGATCCAGATTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAGAA-ATGCTG
* * * *
101092327 CACCTGCGGCCAGGTCTTTTAACCGAAAGGCTGAATCACCCAATGGTTT-ATCTGGTCATTCAGT
65 GACCTGCGGCCATGTCTTTCAACC-AAAGGCTGAATTACCCAAT-GTTTCATCTGGTCATTCAGT
* * * * *
101092391 TGAAGCACGTGCTTACACTGGGCTACC
128 TGAAGCATGTGCATCCACTGGTCTACA
* ** *
101092418 GTTACAAGTCAATGATCTTGATTTTTTCTTGAATCCCCAGAAAAGTAGCACTAGAGATAATGCTG
1 GTCACAAGTCAATGATCCAGATTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAGA-AATGCTG
* *
101092483 GACCTGCGGCCATGTCATTCAACCCAAGGTCTGAATTACCCAATGTTTCATCTGGTCATTCAGTT
65 GACCTGCGGCCATGTCTTTCAACCAAAGG-CTGAATTACCCAATGTTTCATCTGGTCATTCAGTT
*
101092548 GAAGCATGTGCATCCACGGGTCTAC
129 GAAGCATGTGCATCCACTGGTCTAC
101092573 TATTGCAGCA
Statistics
Matches: 267, Mismatches: 38, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
155 12 0.04
156 250 0.94
157 5 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (154 bp):
GTCACAAGTCAATGATCCAGATTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAGAAATGCTGG
ACCTGCGGCCATGTCTTTCAACCAAAGGCTGAATTACCCAATGTTTCATCTGGTCATTCAGTTGA
AGCATGTGCATCCACTGGTCTACA
Found at i:101108580 original size:19 final size:19
Alignment explanation
Indices: 101108556--101108596 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
101108546 AAAATTTAAA
*
101108556 AAAAAAATTGAA-AAATATT
1 AAAAAAATTCAACAAAT-TT
101108575 AAAAAAATTCAACAAATTT
1 AAAAAAATTCAACAAATTT
101108594 AAA
1 AAA
101108597 TGCTCATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAAAATTCAACAAATTT
Found at i:101113632 original size:4 final size:4
Alignment explanation
Indices: 101113623--101113690 Score: 127
Period size: 4 Copynumber: 17.0 Consensus size: 4
101113613 TCATTAGTTC
*
101113623 CATA CATA CATA CAAA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
101113671 CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA
101113691 AAGTGTTGTT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 62 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:101115027 original size:125 final size:125
Alignment explanation
Indices: 101114872--101115125 Score: 490
Period size: 125 Copynumber: 2.0 Consensus size: 125
101114862 CTTTGGTCCA
*
101114872 ATAAATAAACTTCTTTGAAATTTTGGGTAAATTGCCCTCAAGGTCATTAAACTATTAGTAAATTT
1 ATAAATAAACTTCTTTGAAATTTTGGGTAAATTGCACTCAAGGTCATTAAACTATTAGTAAATTT
101114937 ACATTTTGATCACTTATCTTCAAAAAGTTACATAATGGTCACTATGAAACAACTTTGAAC
66 ACATTTTGATCACTTATCTTCAAAAAGTTACATAATGGTCACTATGAAACAACTTTGAAC
101114997 ATAAATAAACTTCTTTGAAATTTTGGGTAAATTGCACTCAAGGTCATTAAACTATTAGTAAATTT
1 ATAAATAAACTTCTTTGAAATTTTGGGTAAATTGCACTCAAGGTCATTAAACTATTAGTAAATTT
*
101115062 ACGTTTTGATCACTTATCTTCAAAAAGTTACATAATGGTCACTATGAAACAACTTTGAAC
66 ACATTTTGATCACTTATCTTCAAAAAGTTACATAATGGTCACTATGAAACAACTTTGAAC
101115122 ATAA
1 ATAA
101115126 GGAATATGCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 127 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (125 bp):
ATAAATAAACTTCTTTGAAATTTTGGGTAAATTGCACTCAAGGTCATTAAACTATTAGTAAATTT
ACATTTTGATCACTTATCTTCAAAAAGTTACATAATGGTCACTATGAAACAACTTTGAAC
Found at i:101120321 original size:26 final size:28
Alignment explanation
Indices: 101120293--101120352 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
101120283 TAAATTTTGA
101120293 TTTAA-TAGTGTAATGTTATATATAAAT
1 TTTAATTAGTGTAATGTTATATATAAAT
** *
101120320 TTTAATTTTTGTAATTTTATATATAAAAT
1 TTTAATTAGTGTAATGTTATATAT-AAAT
101120349 TTTA
1 TTTA
101120353 GTTTGATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.18
28 15 0.54
29 8 0.29
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (28 bp):
TTTAATTAGTGTAATGTTATATATAAAT
Found at i:101126260 original size:28 final size:28
Alignment explanation
Indices: 101126205--101126259 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
101126195 TAAAATATAT
**
101126205 AATTAAAAAATTAATATTTTTTATTTTA
1 AATTAAAAAATTAATATTTAGTATTTTA
101126233 AATTAAAAAATTAATATTTAAGTATTT
1 AATTAAAAAATTAATATTT-AGTATTT
101126260 ATGGTAGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
AATTAAAAAATTAATATTTAGTATTTTA
Found at i:101137298 original size:61 final size:61
Alignment explanation
Indices: 101137177--101137300 Score: 162
Period size: 61 Copynumber: 2.0 Consensus size: 61
101137167 ATCTTTAATC
* * *
101137177 TTTATTTACTTATTAGAAATCAATTTAATTTTGATATCTGAATTAATATATTAATTAATTT
1 TTTATTTACTTACTAGAAATCAATTTAATTTTGATATCTGAATTAATATATGAATCAATTT
* * *
101137238 TTTATTTACTTACTAGAAATCAATTTAATTTT-AGTATTTGAATGT-ATATGTGGATCAATTT
1 TTTATTTACTTACTAGAAATCAATTTAATTTTGA-TATCTGAAT-TAATATATGAATCAATTT
101137299 TT
1 TT
101137301 GGTTTGAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
60 1 0.02
61 53 0.96
62 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.52
Consensus pattern (61 bp):
TTTATTTACTTACTAGAAATCAATTTAATTTTGATATCTGAATTAATATATGAATCAATTT
Found at i:101139757 original size:123 final size:123
Alignment explanation
Indices: 101139535--101139761 Score: 303
Period size: 123 Copynumber: 1.8 Consensus size: 123
101139525 TTAGTTTTTC
* * * * * *
101139535 TCTTTAAGCTTCTTTGTGTTTTTTGAGTTTGATAGTTTATTAAAATTTGGTGTATAGTGTCAAAA
1 TCTTTAAGCTTCTTTGTGCTTCTTGAGTTTGATAGTTTATTAAAACTTGCTGTATAATGGCAAAA
* *
101139600 GGCAATCAACTAGCATAGTTTTAGAGTAAATTGCATTGTTTGTTAAAATTGTTCATAT
66 GGCAATCAACCAGCATAGTTCTAGAGTAAATTGCATTGTTTGTTAAAATTGTTCATAT
* *
101139658 TCTTTAAGCTTCTTTGTGCTTCTT-AGTTTGGTAGTTTATTAAAACTTGCTTTATAATGGCAGAA
1 TCTTTAAGCTTCTTTGTGCTTCTTGAGTTTGATAGTTTATTAAAACTTGCTGTATAATGGCA-AA
* * ** *
101139722 CGGTAATCAACCAGTGTAGTTCTAGAGTAATTTGCATTGT
65 AGGCAATCAACCAGCATAGTTCTAGAGTAAATTGCATTGT
101139762 AAGTGGCTAA
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
122 31 0.35
123 57 0.65
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.44
Consensus pattern (123 bp):
TCTTTAAGCTTCTTTGTGCTTCTTGAGTTTGATAGTTTATTAAAACTTGCTGTATAATGGCAAAA
GGCAATCAACCAGCATAGTTCTAGAGTAAATTGCATTGTTTGTTAAAATTGTTCATAT
Found at i:101141045 original size:32 final size:32
Alignment explanation
Indices: 101141000--101141067 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
101140990 TTTGATCCTT
101141000 TAAA-TCATCAGTTTTGTTCTAAAAACAACTA
1 TAAACTCATCAGTTTTGTTCTAAAAACAACTA
101141031 TAAACTCATCAGTTTTGTTCTAAAAACAACTA
1 TAAACTCATCAGTTTTGTTCTAAAAACAACTA
101141063 TAAAC
1 TAAAC
101141068 CTTATTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.34
Consensus pattern (32 bp):
TAAACTCATCAGTTTTGTTCTAAAAACAACTA
Found at i:101155456 original size:9 final size:9
Alignment explanation
Indices: 101155442--101155466 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
101155432 CAATGCTATT
101155442 AAAATTTTA
1 AAAATTTTA
101155451 AAAATTTTA
1 AAAATTTTA
101155460 AAAATTT
1 AAAATTT
101155467 AAATTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AAAATTTTA
Found at i:101167845 original size:50 final size:51
Alignment explanation
Indices: 101167784--101167912 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
101167774 GATCATGGCA
101167784 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
101167835 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
101167885 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
101167913 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:101167926 original size:31 final size:31
Alignment explanation
Indices: 101167888--101168067 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
101167878 ACAAATGACA
*
101167888 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
101167919 AGTGAAAAGTGGTAGCTTCTACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
101167950 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* *
101167981 AGTAAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
101168012 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
101168043 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
101168068 AAGTGACAAG
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 2 0.01
31 133 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:101168162 original size:47 final size:46
Alignment explanation
Indices: 101168092--101168215 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
101168082 AAGTGATTTC
* * *
101168092 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTAGGATATGGCATCGGTGAGATATATGATA
* * *
101168138 CTGTATAAGACCATATCTAGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTAGGATATGGCATCGGTGAGATATATGATA
* * *
101168185 CGTGTAAGACCATAGCTAGGCTATGGCATCG
1 CGTATAAGACCATATCTAGGATATGGCATCG
101168216 ATATATGAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 27 0.40
47 40 0.60
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTAGGATATGGCATCGGTGAGATATATGATA
Found at i:101168249 original size:42 final size:43
Alignment explanation
Indices: 101168186--101168300 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
101168176 TATGTGATTC
* *
101168186 GTGTAAGACCATAGCTAGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
101168228 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
101168270 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
101168301 GAAAACGAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:101171326 original size:25 final size:27
Alignment explanation
Indices: 101171293--101171343 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
101171283 AAGCCATGAA
101171293 AGTACG-AAATGCATATAAAT-TATAG
1 AGTACGAAAATGCATATAAATATATAG
* *
101171318 AGTATGAAAATGTATATAAATATATA
1 AGTACGAAAATGCATATAAATATATA
101171344 CATATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 13 0.59
27 4 0.18
ACGTcount: A:0.51, C:0.04, G:0.14, T:0.31
Consensus pattern (27 bp):
AGTACGAAAATGCATATAAATATATAG
Found at i:101173035 original size:21 final size:23
Alignment explanation
Indices: 101172996--101173052 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
101172986 GTTTTAAAGT
* *
101172996 TTGGGCTCAGGTAGTTTTA-GG-A
1 TTGGGCT-AGGTTGGTTTAGGGTA
101173018 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
101173041 TTGGGCTAGGTT
1 TTGGGCTAGGTT
101173053 AGTTGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 9 0.29
22 9 0.29
23 13 0.42
ACGTcount: A:0.14, C:0.07, G:0.40, T:0.39
Consensus pattern (23 bp):
TTGGGCTAGGTTGGTTTAGGGTA
Found at i:101173822 original size:128 final size:129
Alignment explanation
Indices: 101173505--101174118 Score: 1079
Period size: 128 Copynumber: 4.8 Consensus size: 129
101173495 TGCCATCGTC
* * * * * *
101173505 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
* * *
101173570 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAT
66 TTCCTACCAATATAGGAAGATAGGA-C--CTATTTTCGATCTACTTCACGCCAATACATGAAGAC
101173635 AA
128 AA
101173637 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
101173702 TTCCTACCAATATAGGAAGATAGGACCTATTTTCGATCTACTTCACGCCAATACATGAAGACAA
66 TTCCTACCAATATAGGAAGATAGGACCTATTTTCGATCTACTTCACGCCAATACATGAAGACAA
101173766 -ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
*
101173830 TTCCTACCAATATAGGAAGATAGGATCTATTTTCGATCTACTTCACGCCAATACATGAAGACAA
66 TTCCTACCAATATAGGAAGATAGGACCTATTTTCGATCTACTTCACGCCAATACATGAAGACAA
101173894 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
*
101173959 TTCCTACCAATATAGGAAGATAGGATCTA-TTTCGATCTACTTCACGCCAATACATGAAGACAA
66 TTCCTACCAATATAGGAAGATAGGACCTATTTTCGATCTACTTCACGCCAATACATGAAGACAA
*
101174022 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
101174087 TTCCTACCAATATAGGAAGATAGGACCTATTT
66 TTCCTACCAATATAGGAAGATAGGACCTATTT
101174119 ACGCCTAGTG
Statistics
Matches: 468, Mismatches: 12, Indels: 7
0.96 0.02 0.01
Matches are distributed among these distances:
128 253 0.54
129 131 0.28
131 1 0.00
132 83 0.18
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (129 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
TTCCTACCAATATAGGAAGATAGGACCTATTTTCGATCTACTTCACGCCAATACATGAAGACAA
Found at i:101173969 original size:257 final size:257
Alignment explanation
Indices: 101173505--101174118 Score: 1077
Period size: 257 Copynumber: 2.4 Consensus size: 257
101173495 TGCCATCGTC
* * * * * *
101173505 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
* * *
101173570 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAT
66 TTCCTACCAATATAGGAAGATAGGA--T-CTATTTTCGATCTACTTCACGCCAATACATGAAGAC
101173635 AAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCC
128 AAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCC
101173700 ACTTCCTACCAATATAGGAAGATAGGACCTATTTTCGATCTACTTCACGCCAATACATGAAGACA
193 ACTTCCTACCAATATAGGAAGATAGGACCTA-TTTCGATCTACTTCACGCCAATACATGAAGACA
101173765 A
257 A
101173766 -ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
101173830 TTCCTACCAATATAGGAAGATAGGATCTATTTTCGATCTACTTCACGCCAATACATGAAGACAAG
66 TTCCTACCAATATAGGAAGATAGGATCTATTTTCGATCTACTTCACGCCAATACATGAAGACAAG
101173895 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCACT
131 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCACT
*
101173960 TCCTACCAATATAGGAAGATAGGATCTATTTCGATCTACTTCACGCCAATACATGAAGACAA
196 TCCTACCAATATAGGAAGATAGGACCTATTTCGATCTACTTCACGCCAATACATGAAGACAA
*
101174022 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
*
101174087 TTCCTACCAATATAGGAAGATAGGACCTATTT
66 TTCCTACCAATATAGGAAGATAGGATCTATTT
101174119 ACGCCTAGTG
Statistics
Matches: 340, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
256 34 0.10
257 223 0.66
258 1 0.00
260 82 0.24
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (257 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTATTTTCGATCTACTTCACGCCAATACATGAAGACAAG
ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTTGATCCACT
TCCTACCAATATAGGAAGATAGGACCTATTTCGATCTACTTCACGCCAATACATGAAGACAA
Found at i:101186007 original size:37 final size:35
Alignment explanation
Indices: 101185959--101186049 Score: 92
Period size: 37 Copynumber: 2.5 Consensus size: 35
101185949 AATATAAAGA
*
101185959 ATATATAAGTATGTATATGATGTAAATATGCATAAAT
1 ATATATAAGTATGTATATGATG-AAATATG-AAAAAT
* * * *
101185996 ATATGTAAGTATATAAGAATTATGAAATATGAAAAAT
1 ATATATAAGTATGT-A-TATGATGAAATATGAAAAAT
*
101186033 ATATTTAAGTATGTATA
1 ATATATAAGTATGTATA
101186050 AGTACGTATA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
35 1 0.02
36 1 0.02
37 29 0.66
38 8 0.18
39 5 0.11
ACGTcount: A:0.48, C:0.01, G:0.13, T:0.37
Consensus pattern (35 bp):
ATATATAAGTATGTATATGATGAAATATGAAAAAT
Found at i:101198237 original size:3 final size:3
Alignment explanation
Indices: 101198229--101198268 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
101198219 ATTCCCACTC
101198229 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
101198269 CTTACCTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:101199565 original size:16 final size:16
Alignment explanation
Indices: 101199546--101199580 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
101199536 TTCTTTGTTC
101199546 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
101199562 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
101199578 TTT
1 TTT
101199581 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:101199604 original size:13 final size:13
Alignment explanation
Indices: 101199583--101199642 Score: 54
Period size: 13 Copynumber: 4.6 Consensus size: 13
101199573 TTTCTTTTAT
*
101199583 ATATAATAATATA
1 ATATTATAATATA
101199596 ATATTATAATATTA
1 ATATTATAATA-TA
101199610 ATTATTAATAATATA
1 A-TATT-ATAATATA
*
101199625 CT-TTATAAT-TA
1 ATATTATAATATA
101199636 AT-TTATA
1 ATATTATA
101199643 TATTTATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
11 8 0.20
12 5 0.12
13 12 0.29
14 4 0.10
15 6 0.15
16 6 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATTATAATATA
Found at i:101199605 original size:16 final size:16
Alignment explanation
Indices: 101199584--101199665 Score: 52
Period size: 16 Copynumber: 5.3 Consensus size: 16
101199574 TTCTTTTATA
101199584 TATAATAATATAATAT
1 TATAATAATATAATAT
101199600 TATAAT-AT-T-A-AT
1 TATAATAATATAATAT
*
101199612 TATTAATAATATACT-T
1 TA-TAATAATATAATAT
*
101199628 TATAATTAATTTATATAT
1 TATAA-TAATATA-ATAT
*
101199646 T-TATATAA-ATAATAA
1 TATA-ATAATATAATAT
101199661 TATAA
1 TATAA
101199666 AAATCTAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 21
0.66 0.06 0.27
Matches are distributed among these distances:
12 4 0.08
13 5 0.10
14 3 0.06
15 11 0.22
16 19 0.37
17 6 0.12
18 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAATAATATAATAT
Found at i:101199637 original size:19 final size:20
Alignment explanation
Indices: 101199613--101199664 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
101199603 AATATTAATT
101199613 ATTAATAATATACTT-TATA
1 ATTAATAATATACTTATATA
* *
101199632 ATTAATTTATATATTTATATA
1 ATTAA-TAATATACTTATATA
*
101199653 AATAATAATATA
1 ATTAATAATATA
101199665 AAAATCTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 5 0.19
20 14 0.52
21 8 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTAATAATATACTTATATA
Found at i:101199658 original size:21 final size:20
Alignment explanation
Indices: 101199620--101199658 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
101199610 ATTATTAATA
*
101199620 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
101199640 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
101199659 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:101206255 original size:23 final size:24
Alignment explanation
Indices: 101206220--101206266 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
101206210 AAAAAATAAT
**
101206220 TTAAAAATGATAAAACTATTCAAA
1 TTAAAAATGATAAAAAAATTCAAA
*
101206244 TTAAAAGT-ATAAAAAAATTCAAA
1 TTAAAAATGATAAAAAAATTCAAA
101206267 AAATTACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (24 bp):
TTAAAAATGATAAAAAAATTCAAA
Found at i:101212482 original size:3 final size:3
Alignment explanation
Indices: 101212474--101212500 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
101212464 AAGCATAAAC
101212474 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
101212501 CATTGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:101212639 original size:3 final size:3
Alignment explanation
Indices: 101212625--101212675 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
101212615 ACACTAGCAC
* * * * *
101212625 ATA ATT ATA ATA ATA GTA ATA CTA ATA ATA CTA ATA ATA TTA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
101212672 ATA A
1 ATA A
101212676 GGGTATTTGA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:101214389 original size:95 final size:95
Alignment explanation
Indices: 101214141--101214423 Score: 487
Period size: 95 Copynumber: 3.0 Consensus size: 95
101214131 GTAATCTCCG
* *
101214141 ATCTATTCCACTGTCAAACGCAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAC
1 ATCTATTCCACTGTCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT--C
101214206 AGGGAGGTAAAATCTGCCATCTTTGATCTTCA
64 AGGGAGGTAAAATCTGCCATCTTTGATCTTCA
*
101214238 ATCCATTCCAC-GTCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
1 ATCTATTCCACTGTCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
101214302 GGAGGTAAAATCTGCCATCTTTGATCTTCA
66 GGAGGTAAAATCTGCCATCTTTGATCTTCA
* *
101214332 ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
1 ATCTATTCCACTGTCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
*
101214397 GGAGGTAAAATCTGCCATCTTCGATCT
66 GGAGGTAAAATCTGCCATCTTTGATCT
101214424 GCTTCGCTGT
Statistics
Matches: 178, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
94 43 0.24
95 77 0.43
96 48 0.27
97 10 0.06
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (95 bp):
ATCTATTCCACTGTCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
GGAGGTAAAATCTGCCATCTTTGATCTTCA
Found at i:101214508 original size:44 final size:44
Alignment explanation
Indices: 101214406--101215179 Score: 617
Period size: 44 Copynumber: 17.9 Consensus size: 44
101214396 GGGAGGTAAA
* * * * * *
101214406 ATCTGCCATCTTCGATCTGCTTCGCTGTCAACTACAGGAAGGCAAG
1 ATCTGCTATCTTCGATCTACTTCAC-GCCAA-TATAGGAAGACAAG
* * * * *
101214452 ATCTACAATCTTCGATCTACTTCACGCCAATACATGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTCACGCCAATATAGGAAGACAAG
*
101214496 ATCTGCTTTCTTCGATCTACTATCTATCGCCACCAGTAT-GGAAGAC-AG
1 ATCTGCTATCTTCGATCTACT-TC-A-CGCCA--A-TATAGGAAGACAAG
101214544 A-CTGC-ATCTTCGATCTACTTCACG-CAATCAT---AAGACAA-
1 ATCTGCTATCTTCGATCTACTTCACGCCAAT-ATAGGAAGACAAG
* *
101214582 ATCTGCT-T-TTCGATCTACTTGC-CACC-ATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTT-CACGCCAATATAGGAAGACAAG
* * * *
101214623 ATCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAAGACAGG
1 ATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGGAAGACAAG
* * *
101214666 ACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACGCCAATATAGGAAGACAAG
* * * * *
101214710 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-ACGCCAATATAGGAAGACAAG
* * * *
101214755 ATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGGAAGACAAG
* * *
101214798 ATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACGCCAATATAGGAAGACAAG
*
101214842 ATCTGCTTTCTTCGATCTACTT--CGCCACCATAT-GGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACGCCA--ATATAGGAAGACAAG
* *
101214885 ATCTG--ATC-T-GATC-ACTTCTA--CCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTC-ACGCCAATATAGGAAGACAAG
* *
101214923 A-CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACGCCAATATAGGAAGACAAG
* * * * *
101214966 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-ACGCCAATATAGGAAGACAAG
* * * *
101215011 ATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGGAAGACAAG
* * *
101215054 ATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGA-AAG
1 ATCTGCTATCTTCGATCTACTTCACGCCAATATAGGAAGACAAG
* * * * *
101215097 ATCTG-TTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-ACGCCAATATAGGAAGACAAG
* *
101215141 ATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGA
1 ATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGGAAGA
101215180 TAGGACCTAT
Statistics
Matches: 590, Mismatches: 90, Indels: 99
0.76 0.12 0.13
Matches are distributed among these distances:
37 9 0.02
38 34 0.06
39 19 0.03
40 12 0.02
41 16 0.03
42 42 0.07
43 126 0.21
44 222 0.38
45 55 0.09
46 35 0.06
47 9 0.02
48 3 0.01
49 6 0.01
50 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTACTTCACGCCAATATAGGAAGACAAG
Found at i:101214754 original size:132 final size:131
Alignment explanation
Indices: 101214527--101215185 Score: 1088
Period size: 132 Copynumber: 5.2 Consensus size: 131
101214517 ATCTATCGCC
* *
101214527 ACCAGTAT-GGAAGACA-GACTGC-ATCTTCGATCTACTTCACG-CAAT-CAT-AAGACAA-ATC
1 ACCAATATAGGAAGATAGGACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
*
101214585 TGCTTT-T-CGATCTACTT-GCCACC-ATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCC
66 TGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
101214646 T
131 T
*
101214647 ACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
1 ACCAATATAGGAAGATAGGA-CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
101214712 CTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
65 CTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
101214777 CT
130 CT
*
101214779 ACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
1 ACCAATATAGGAAGATAGGA-CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
*
101214844 CTGCTTTCTTCGATCTACTTCGCCACC-ATAT-GGAAGACAAGATCTG-ATC-T-GAT-CACTT-
65 CTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
101214902 CT
130 CT
101214904 ACCAATATAGGAAGATAGGACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
1 ACCAATATAGGAAGATAGGACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
101214969 TGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
66 TGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
101215034 T
131 T
*
101215035 ACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGA-AAGAT
1 ACCAATATAGGAAGATAGGA-CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
101215099 CTG-TTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
65 CTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
101215163 CT
130 CT
101215165 ACCAATATAGGAAGATAGGAC
1 ACCAATATAGGAAGATAGGAC
101215186 CTATTTACGC
Statistics
Matches: 510, Mismatches: 9, Indels: 31
0.93 0.02 0.06
Matches are distributed among these distances:
120 7 0.01
121 8 0.02
122 2 0.00
123 4 0.01
124 88 0.17
125 30 0.06
126 23 0.05
127 13 0.03
128 11 0.02
129 8 0.02
130 113 0.22
131 40 0.08
132 163 0.32
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (131 bp):
ACCAATATAGGAAGATAGGACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
TGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
T
Found at i:101214933 original size:256 final size:262
Alignment explanation
Indices: 101214551--101215185 Score: 1120
Period size: 256 Copynumber: 2.5 Consensus size: 262
101214541 CAGACTGCAT
101214551 CTTCGATCTACTTCACG-CAAT-CAT-AAGACAA-ATCTGC-TT-TTCGATCTACTT-GCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
*
101214609 TATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTA
66 TATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGA-CTGCTA
101214674 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACC
130 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACC
101214739 AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGC
195 AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGC
101214804 TAC
260 TAC
101214807 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
101214872 TAT-GGAAGACAAGATCTG-ATC-T-GAT-CACTT-CTACCAATATAGGAAGATAGGACTGCTAT
66 TATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACTGCTAT
101214931 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
131 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
101214996 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
196 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
101215061 AC
261 AC
*
101215063 CTTCGATCTACTTCACGCCAATACATGAAGA-AAGATCTG-TTTCTGCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACC-
*
101215126 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGAC
65 ATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGAC
101215186 CTATTTACGC
Statistics
Matches: 363, Mismatches: 2, Indels: 23
0.94 0.01 0.06
Matches are distributed among these distances:
254 22 0.06
255 12 0.03
256 202 0.56
257 28 0.08
258 9 0.02
259 13 0.04
260 12 0.03
261 28 0.08
262 27 0.07
263 10 0.03
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (262 bp):
CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
TATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACTGCTAT
CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
AC
Found at i:101219870 original size:61 final size:62
Alignment explanation
Indices: 101219767--101219949 Score: 305
Period size: 61 Copynumber: 3.0 Consensus size: 62
101219757 CTAAACTCGA
* *
101219767 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAACG
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
* *
101219829 CGTA-TTTTGGATTTTAAGAAATTTATTGTATGTAATAAAATGTAATGTTAATGCATGAACG
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
* *
101219890 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGAATGAA
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAA
101219950 GAGATATGTG
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
61 57 0.50
62 56 0.50
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (62 bp):
CGTACTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:101223463 original size:21 final size:23
Alignment explanation
Indices: 101223424--101223480 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
101223414 GTTTTAAAGT
* *
101223424 TTGGGCTCAGGTAGTTTTA-GG-A
1 TTGGGCT-AGGTTGGTTTAGGGTA
101223446 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
101223469 TTGGGCTAGGTT
1 TTGGGCTAGGTT
101223481 AGTTGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 9 0.29
22 9 0.29
23 13 0.42
ACGTcount: A:0.14, C:0.07, G:0.40, T:0.39
Consensus pattern (23 bp):
TTGGGCTAGGTTGGTTTAGGGTA
Found at i:101225842 original size:30 final size:31
Alignment explanation
Indices: 101225774--101225843 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 31
101225764 ACCATGATTT
*
101225774 AAGTTTTATGAATATAATTGCACCAAATAAAAA
1 AAGTTTTATGAATATAATTACACCAAAT--AAA
* *
101225807 AAGTTTTATGAGTATAATTACACCAAAT-CA
1 AAGTTTTATGAATATAATTACACCAAATAAA
101225837 AAGTTTT
1 AAGTTTT
101225844 GGTATCAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 8 0.24
33 26 0.76
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (31 bp):
AAGTTTTATGAATATAATTACACCAAATAAA
Found at i:101230163 original size:16 final size:16
Alignment explanation
Indices: 101230142--101230176 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
101230132 ATATGCAGGA
101230142 AACGTGGCAACATGGC
1 AACGTGGCAACATGGC
*
101230158 AACGTGGCAACGTGGC
1 AACGTGGCAACATGGC
101230174 AAC
1 AAC
101230177 ATAATTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.26, G:0.31, T:0.11
Consensus pattern (16 bp):
AACGTGGCAACATGGC
Found at i:101247821 original size:28 final size:29
Alignment explanation
Indices: 101247780--101247858 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 29
101247770 TATTAGGAAC
101247780 GTACATAAAA-AATATATACATAAA-AAAT
1 GTACA-AAAATAATATATACATAAAGAAAT
* * * *
101247808 TTACAACAATAATATA-AAATAAAGATAT
1 GTACAAAAATAATATATACATAAAGAAAT
101247836 GTACAAAAATATATATATACATA
1 GTACAAAAATA-ATATATACATA
101247859 TGTACATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
27 9 0.22
28 22 0.55
29 5 0.12
30 4 0.10
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.28
Consensus pattern (29 bp):
GTACAAAAATAATATATACATAAAGAAAT
Found at i:101250400 original size:15 final size:15
Alignment explanation
Indices: 101250378--101250432 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
101250368 AAATATACAC
101250378 TAAT-ATAATAATAG
1 TAATAATAATAATAG
* *
101250392 TTATAATAATACTAG
1 TAATAATAATAATAG
* * *
101250407 CAATAGTAATAATTG
1 TAATAATAATAATAG
101250422 TAATAATAATA
1 TAATAATAATA
101250433 TATACACAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
14 3 0.10
15 28 0.90
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:101255246 original size:9 final size:10
Alignment explanation
Indices: 101255204--101255249 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
101255194 TAGTGATTTA
*
101255204 ATATAAATAT
1 ATATAATTAT
101255214 ATATAATTATT
1 ATATAATTA-T
*
101255225 ATTTAA-TAT
1 ATATAATTAT
101255234 ATATAATTA-
1 ATATAATTAT
101255243 ATATAAT
1 ATATAAT
101255250 ATTCGGGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 13 0.42
10 12 0.39
11 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
ATATAATTAT
Found at i:101255690 original size:31 final size:31
Alignment explanation
Indices: 101255655--101255714 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
101255645 TAGTCATAAC
*
101255655 ATTTTAGGTAATTTCTATTTTGATCACTCAT
1 ATTTTAGATAATTTCTATTTTGATCACTCAT
* *
101255686 ATTTTAGATTATTTTTATTTTGATCACTC
1 ATTTTAGATAATTTCTATTTTGATCACTC
101255715 TCTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.55
Consensus pattern (31 bp):
ATTTTAGATAATTTCTATTTTGATCACTCAT
Found at i:101256121 original size:29 final size:30
Alignment explanation
Indices: 101256056--101256136 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
101256046 AATCCCAAAA
* *
101256056 TTATACATGAACTATGGTTTAATATGTCATT
1 TTATACATGAACTTTGATTT-ATATGTCATT
*
101256087 GTATACATGAACTTTGATTT-TATG-CAATT
1 TTATACATGAACTTTGATTTATATGTC-ATT
*
101256116 TTATACATGAAATTTTGATTT
1 TTATACATG-AACTTTGATTT
101256137 GGTTCATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 1 0.02
29 15 0.35
30 10 0.23
31 17 0.40
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (30 bp):
TTATACATGAACTTTGATTTATATGTCATT
Found at i:101256145 original size:29 final size:28
Alignment explanation
Indices: 101256082--101256145 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
101256072 GTTTAATATG
* *
101256082 TCATTGTATACATGAACTTTGATTTTAT
1 TCATTTTATACATGAACTTTGATTTGAT
* * *
101256110 GCAATTTTATACATGAAATTTTGATTTGGT
1 TC-ATTTTATACATG-AACTTTGATTTGAT
101256140 TCATTT
1 TCATTT
101256146 AGTGTAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
28 1 0.04
29 15 0.54
30 12 0.43
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.50
Consensus pattern (28 bp):
TCATTTTATACATGAACTTTGATTTGAT
Found at i:101281940 original size:23 final size:23
Alignment explanation
Indices: 101281910--101281954 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
101281900 TGTAAACATT
* *
101281910 AAAAAAAAGGAAATAAAGAAATA
1 AAAAAAAAGAAAATAAAAAAATA
101281933 AAAAAAAAGAAAATAAAAAAAT
1 AAAAAAAAGAAAATAAAAAAAT
101281955 GCTTAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (23 bp):
AAAAAAAAGAAAATAAAAAAATA
Found at i:101281941 original size:14 final size:15
Alignment explanation
Indices: 101281924--101281953 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
101281914 AAAAGGAAAT
101281924 AAAG-AAATAAAAAA
1 AAAGAAAATAAAAAA
101281938 AAAGAAAATAAAAAA
1 AAAGAAAATAAAAAA
101281953 A
1 A
101281954 TGCTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAGAAAATAAAAAA
Found at i:101281983 original size:21 final size:21
Alignment explanation
Indices: 101281957--101282000 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
101281947 AAAAAAATGC
101281957 TTAAAAAGTTTAGGGATTAGT
1 TTAAAAAGTTTAGGGATTAGT
101281978 TTAAAAAGTTTAGGGATTAGT
1 TTAAAAAGTTTAGGGATTAGT
101281999 TT
1 TT
101282001 GAGTTAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (21 bp):
TTAAAAAGTTTAGGGATTAGT
Found at i:101282574 original size:40 final size:41
Alignment explanation
Indices: 101282503--101282585 Score: 125
Period size: 40 Copynumber: 2.0 Consensus size: 41
101282493 TTAAAAATAT
* *
101282503 TTATATTAAAAAACACTACCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
101282544 TTATATTTAAAAAACAC-A-AATAAATATAATAAATATTTTA
1 TTATA-TTAAAAAACACTACAATAAATATAATAAATATTTTA
101282584 TT
1 TT
101282586 TTAGAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
40 22 0.56
41 6 0.15
42 11 0.28
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
Found at i:101285094 original size:45 final size:45
Alignment explanation
Indices: 101285030--101285118 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
101285020 GATAAGGGAG
*
101285030 TCAGAGACCATCAAGCAGTACTCTTATAGGATAATGGCCACAGTT
1 TCAGAGACCATCAAGCAGTACTCTGATAGGATAATGGCCACAGTT
101285075 TCAGAGACCATCAAGCAGTACTCTGATAGGATAATGGCCACAGT
1 TCAGAGACCATCAAGCAGTACTCTGATAGGATAATGGCCACAGT
101285119 CAACAACATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (45 bp):
TCAGAGACCATCAAGCAGTACTCTGATAGGATAATGGCCACAGTT
Found at i:101289472 original size:16 final size:16
Alignment explanation
Indices: 101289453--101289486 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
101289443 TAAATAACTT
*
101289453 ATTAAAAATTATAAAA
1 ATTAAAAATTAAAAAA
101289469 ATTAAAAATTAAAAAA
1 ATTAAAAATTAAAAAA
101289485 AT
1 AT
101289487 ATTAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTAAAAATTAAAAAA
Found at i:101291938 original size:16 final size:16
Alignment explanation
Indices: 101291914--101291944 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101291904 ATACGGACAA
*
101291914 CTTATGTGCATGAATT
1 CTTACGTGCATGAATT
101291930 CTTACGTGCATGAAT
1 CTTACGTGCATGAAT
101291945 CTGCATGAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (16 bp):
CTTACGTGCATGAATT
Found at i:101295604 original size:29 final size:30
Alignment explanation
Indices: 101295554--101295623 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 30
101295544 CATTTTTCCC
* *
101295554 TAAAATTATACTTTGATGTTT-AAAAATGA
1 TAAAATTATAATTTAATGTTTAAAAAATGA
* * *
101295583 TAAAATTTTAATTTAATTTTTAAAAAATTA
1 TAAAATTATAATTTAATGTTTAAAAAATGA
*
101295613 TAAAAATATAA
1 TAAAATTATAA
101295624 ATTTTTAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (30 bp):
TAAAATTATAATTTAATGTTTAAAAAATGA
Found at i:101302504 original size:13 final size:13
Alignment explanation
Indices: 101302486--101302524 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
101302476 TATTAACTCT
101302486 GTTAAATTTTTTG
1 GTTAAATTTTTTG
*
101302499 GTTAAATTTGTTG
1 GTTAAATTTTTTG
* *
101302512 GTTTAATATTTTG
1 GTTAAATTTTTTG
101302525 AAATAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (13 bp):
GTTAAATTTTTTG
Found at i:101307571 original size:11 final size:11
Alignment explanation
Indices: 101307555--101307581 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
101307545 TGATACTATC
101307555 ACAACTATTTA
1 ACAACTATTTA
101307566 ACAACTATTTA
1 ACAACTATTTA
101307577 ACAAC
1 ACAAC
101307582 GGAGATTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (11 bp):
ACAACTATTTA
Found at i:101308388 original size:3 final size:3
Alignment explanation
Indices: 101308375--101308405 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
101308365 TTACCACTAA
*
101308375 GCT GTT GCT GCT GCT GCT GCT GCT GCT GCT G
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT G
101308406 TGGAGTTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.35, T:0.35
Consensus pattern (3 bp):
GCT
Found at i:101317112 original size:14 final size:14
Alignment explanation
Indices: 101317075--101317112 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
101317065 CTCTCTCTCT
101317075 CTTTTCA-TTTTTA
1 CTTTTCATTTTTTA
**
101317088 CTTTTTTTTTTTTA
1 CTTTTCATTTTTTA
101317102 CTTTTCATTTT
1 CTTTTCATTTT
101317113 AAATTAAGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (14 bp):
CTTTTCATTTTTTA
Found at i:101320916 original size:18 final size:18
Alignment explanation
Indices: 101320876--101320916 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
101320866 ACAAGAAAAG
*
101320876 TGAAAAATAATTTTATAA
1 TGAAAAATAATATTATAA
101320894 T-AAAAAT-ATATTATAA
1 TGAAAAATAATATTATAA
101320910 TTGAAAA
1 -TGAAAA
101320917 TTCGACTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 8 0.40
17 7 0.35
18 5 0.25
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
TGAAAAATAATATTATAA
Found at i:101321914 original size:183 final size:182
Alignment explanation
Indices: 101321563--101321931 Score: 711
Period size: 183 Copynumber: 2.0 Consensus size: 182
101321553 CATTTAAGTC
*
101321563 ACTTTACTGTTAAAATCGTTGATGTGTAGCCTTCTTTGCTCGCACCGCTTGAATCAATTGAAGTT
1 ACTTTACTGTTAAAATCGTTGATGTGTAGCCTTCTTTGCTCGCACCGCTTCAATCAATTGAAGTT
101321628 TTTTTTTATAAAACAACTTTTTTGTCATGAATTTACGAATCAAAATTTAAACAACTTTCCTTTTC
66 TTTTTTTATAAAACAACTTTTTTGTCATGAATTTACGAATCAAAATTTAAACAACTTTCCTTTTC
*
101321693 CAATCTCCAACATTGACTGTCAGATCAACTTGGATATAATGTATGTTCTTCT
131 CAATCTCCAACATTGACTGTCAGATCAACTTAGATATAATGTATGTTCTTCT
101321745 ACTTTACTGTTAAAATCGTTGATGTGTAGCCTTCTTTGCTCGCACCGCTTCAATCAATTGAAGTT
1 ACTTTACTGTTAAAATCGTTGATGTGTAGCCTTCTTTGCTCGCACCGCTTCAATCAATTGAAGTT
101321810 TTTTTTTATAAAACAACTTTTTATGTCATGAATTTACGAATCAAAATTTAAACAACTTTCCTTTT
66 TTTTTTTATAAAACAACTTTTT-TGTCATGAATTTACGAATCAAAATTTAAACAACTTTCCTTTT
101321875 CCAATCTCCAACATTGACTGTCAGATCAACTTAGATATAATGTATGTTCTTCT
130 CCAATCTCCAACATTGACTGTCAGATCAACTTAGATATAATGTATGTTCTTCT
101321928 ACTT
1 ACTT
101321932 ATCTCGGGGT
Statistics
Matches: 184, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
182 86 0.47
183 98 0.53
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (182 bp):
ACTTTACTGTTAAAATCGTTGATGTGTAGCCTTCTTTGCTCGCACCGCTTCAATCAATTGAAGTT
TTTTTTTATAAAACAACTTTTTTGTCATGAATTTACGAATCAAAATTTAAACAACTTTCCTTTTC
CAATCTCCAACATTGACTGTCAGATCAACTTAGATATAATGTATGTTCTTCT
Found at i:101325211 original size:16 final size:15
Alignment explanation
Indices: 101325188--101325225 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
101325178 TGTATTTTGG
101325188 ATTTATAATTATTTT
1 ATTTATAATTATTTT
101325203 ATATTATAATTATTTT
1 AT-TTATAATTATTTT
101325219 ATTTATA
1 ATTTATA
101325226 TAATAATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTATAATTATTTT
Found at i:101328516 original size:2 final size:2
Alignment explanation
Indices: 101328509--101328533 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
101328499 AATGTTTTAT
101328509 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
101328534 GAAGCATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:101328941 original size:14 final size:12
Alignment explanation
Indices: 101328914--101328943 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
101328904 CCAAAAAATT
101328914 ATATAAACACAA
1 ATATAAACACAA
101328926 ATATAAACACAA
1 ATATAAACACAA
*
101328938 AAATAA
1 ATATAA
101328944 CTACGACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
ATATAAACACAA
Found at i:101329813 original size:50 final size:50
Alignment explanation
Indices: 101329755--101329855 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
101329745 AGAAAAAATC
101329755 AAATTTCGAACAATAATCATACAGATTCAACTTTAATTTAGTTTACATCT
1 AAATTTCGAACAATAATCATACAGATTCAACTTTAATTTAGTTTACATCT
101329805 AAATTTCGAACAATAATCATACAGATTCAACTTTAATTTAGTTTACATCT
1 AAATTTCGAACAATAATCATACAGATTCAACTTTAATTTAGTTTACATCT
101329855 A
1 A
101329856 CGCAGCAAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (50 bp):
AAATTTCGAACAATAATCATACAGATTCAACTTTAATTTAGTTTACATCT
Found at i:101330111 original size:26 final size:25
Alignment explanation
Indices: 101330064--101330112 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
101330054 ATATATATTT
**
101330064 TTAAAAATATTATTTATGTAAATTG
1 TTAAAAATATTATTTAAATAAATTG
*
101330089 TTAAAACATATTTTTTAAATAAAT
1 TTAAAA-ATATTATTTAAATAAAT
101330113 ATCATTACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (25 bp):
TTAAAAATATTATTTAAATAAATTG
Found at i:101332209 original size:32 final size:32
Alignment explanation
Indices: 101332168--101332233 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
101332158 TCCAAAAACA
101332168 TAAAATTACAAGAAAAATAGACTAAATTAACT
1 TAAAATTACAAGAAAAATAGACTAAATTAACT
101332200 TAAAATTACAAGAAAAATAGACTAAATTAACT
1 TAAAATTACAAGAAAAATAGACTAAATTAACT
101332232 TA
1 TA
101332234 CCAATTCAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (32 bp):
TAAAATTACAAGAAAAATAGACTAAATTAACT
Found at i:101344540 original size:3 final size:3
Alignment explanation
Indices: 101344532--101344561 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
101344522 TAATTTGCTG
*
101344532 TCA TCA TCA GCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
101344562 ACAGCCACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (3 bp):
TCA
Done.