Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 17 of 135
Found at i:4639269 original size:6 final size:5
Alignment explanation
Indices: 4639259--4639333 Score: 51
Period size: 6 Copynumber: 13.6 Consensus size: 5
4639249 TTATAATAAT
* *
4639259 ATTAA ATTTAA ATTAA ATTAAA ATTAAA ATTAAA ATTGAA TTTAA AATAA
1 ATTAA A-TTAA ATTAA ATT-AA ATT-AA ATT-AA ATT-AA ATTAA ATTAA
* *
4639309 ATTTAAA ATTAA AATAA ATTTA ATT
1 A-TT-AA ATTAA ATTAA ATTAA ATT
4639334 TCAAAATGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
5 26 0.45
6 29 0.50
7 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:4639275 original size:11 final size:11
Alignment explanation
Indices: 4639259--4639334 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
4639249 TTATAATAAT
4639259 ATTAAATTTAA
1 ATTAAATTTAA
*
4639270 ATTAAATTAAA
1 ATTAAATTTAA
*
4639281 ATTAAAATTAAA
1 ATT-AAATTTAA
*
4639293 ATTGAATTTAA
1 ATTAAATTTAA
*
4639304 AATAAATTTAAA
1 ATTAAATTT-AA
*
4639316 ATTAAA-ATAA
1 ATTAAATTTAA
*
4639326 ATTTAATTT
1 ATTAAATTT
4639335 CAAAATGGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
10 7 0.13
11 28 0.53
12 18 0.34
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:4639701 original size:52 final size:51
Alignment explanation
Indices: 4639639--4639802 Score: 172
Period size: 52 Copynumber: 3.4 Consensus size: 51
4639629 GCTATCCAAC
4639639 CTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGTTTTATCTAGCT
1 CTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATG-TTTATCTAGCT
* * *
4639691 CTTACTTCAATTTC-AGAGAGAT---AAA-G--A-TT--TG-CTATCCAAC-
1 CTTACTTCAATTTCAAGAG-GATAGGAAATGATATTTGATGTTTATCTAGCT
*
4639731 CTTACTTCAATTTCAAGAGGATAGGAAATGATGTTTGATGCTTTATCTAGCT
1 CTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATG-TTTATCTAGCT
4639783 CTTACTTCAATTTCAGAGAG
1 CTTACTTCAATTTCA-AGAG
4639803 ATAAAGACTT
Statistics
Matches: 90, Mismatches: 7, Indels: 29
0.71 0.06 0.23
Matches are distributed among these distances:
40 17 0.19
41 10 0.11
43 5 0.06
44 1 0.01
45 2 0.02
46 1 0.01
47 2 0.02
48 1 0.01
49 5 0.06
51 10 0.11
52 32 0.36
53 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (51 bp):
CTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGTTTATCTAGCT
Found at i:4639737 original size:92 final size:92
Alignment explanation
Indices: 4639585--4640138 Score: 704
Period size: 92 Copynumber: 6.0 Consensus size: 92
4639575 GTAGGTTTGA
* * * * * *
4639585 TGCTTCACCTAACTCTTACTTCAATTTCAGAGAG-CTAAAGATTTGCTATCCAACCTTACTTCAA
1 TGCTTCATCTTACTCTTACTTCAATTTCAGAGAGAC-AAAGACTTGTTATCCAGCTTTACTTCAA
* *
4639649 TTTCAAGAGGATAGG-AAATGATATTTGA
65 TTTCAAGAGGATAGGAAAATGAT-GTTGG
* * * * * * *
4639677 TGTTTTATC-TAGCTCTTACTTCAATTTCAGAGAGATAAAGATTTGCTATCCAACCTTACTTCAA
1 TGCTTCATCTTA-CTCTTACTTCAATTTCAGAGAGACAAAGACTTGTTATCCAGCTTTACTTCAA
*
4639741 TTTCAAGAGGATAGG-AAATGATGTTTGA
65 TTTCAAGAGGATAGGAAAATGATG-TTGG
* * *
4639769 TGCTTTATC-TAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCATCTTTACTTCAA
1 TGCTTCATCTTA-CTCTTACTTCAATTTCAGAGAGACAAAGACTTGTTATCCAGCTTTACTTCAA
* *
4639833 TTTCAAGAGGATAGGGAAAAGGAGGTTGG
65 TTTCAAGAGGATA-GGAAAATGATGTTGG
* * * *
4639862 TGCTTCATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAAT
1 TGCTTCATCTTACTCTTACTTCAATTTCAGAGAGACAAAGACTTGTTATCCAGCTTTACTTCAAT
*
4639927 TTCAAGGGGATAGGAAAATGATGTTGG
66 TTCAAGAGGATAGGAAAATGATGTTGG
* * * *
4639954 TGCTTCATCTTATTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAAT
1 TGCTTCATCTTACTCTTACTTCAATTTCAGAGAGACAAAGACTTGTTATCCAGCTTTACTTCAAT
4640019 TTCAAGAGGATAGGAAAATGATGTTGG
66 TTCAAGAGGATAGGAAAATGATGTTGG
* * * * *
4640046 TGCTTCATCTTATTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTTAAT
1 TGCTTCATCTTACTCTTACTTCAATTTCAGAGAGACAAAGACTTGTTATCCAGCTTTACTTCAAT
4640111 TTCAAGAGGATAGGAAAATGATGTTGG
66 TTCAAGAGGATAGGAAAATGATGTTGG
4640138 T
1 T
4640139 TGATCTAATC
Statistics
Matches: 428, Mismatches: 28, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
91 1 0.00
92 348 0.81
93 71 0.17
94 8 0.02
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (92 bp):
TGCTTCATCTTACTCTTACTTCAATTTCAGAGAGACAAAGACTTGTTATCCAGCTTTACTTCAAT
TTCAAGAGGATAGGAAAATGATGTTGG
Found at i:4640093 original size:277 final size:276
Alignment explanation
Indices: 4639571--4640138 Score: 714
Period size: 277 Copynumber: 2.1 Consensus size: 276
4639561 TGCATTCTCA
* * * *
4639571 AAAAGTAGGTTTGATGCTTCACCTAACTCTTACTTCAATTTCAGAGAGCTAAAGATTTGCTATCC
1 AAAAGGAGG-TTGGTGCTTCACCTAACTCTTACTTCAATTTCAGAGAGCTAAAGACTTGATATCC
* * *
4639636 AACCTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGTTTTATCTAGCTCTTACTTCAA
65 AACCTTACTTCAATTTCAAGAGGATAGGAAATGATAGTTGATGCTTCATCTAGCTCTTACTTCAA
* *
4639701 TTTCAGAGAGATAAAGATTTGCTATCCAACCTTACTTCAATTTCAAGAGGATAGGAAATGATGTT
130 TTTCAGAGAGACAAAGACTTGCTATCCAACCTTACTTCAATTTCAAGAGGATAGGAAATGATGTT
* * *
4639766 TGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCATCTTTACTTC
195 TGATGCTTCATCTAGCTCTTACTTCAATTTCAGAGAGACAAAGACTTGTTATCCAGCTTTACTTC
4639831 AATTTCAAGAGGATAGGG
260 AATTTCAAGAGGATA-GG
* * * * *
4639849 AAAAGGAGGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAGGGAC-GAAGGCTTGATATCC
1 AAAAGGAGGTTGGTGCTTCACCTAACTCTTACTTCAATTTCAGAGAG-CTAAAGACTTGATATCC
* * * * *
4639913 AGCTTTACTTCAATTTCAAGGGGATAGGAAAATGAT-GTTGGTGCTTCATCTTA-TTCTTACTTC
65 AACCTTACTTCAATTTCAAGAGGATAGG-AAATGATAGTTGATGCTTCATC-TAGCTCTTACTTC
* * * * * *
4639976 AATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGAT
128 AATTTCAGAGAGACAAAGACTTGCTATCCAACCTTACTTCAATTTCAAGAGGATAGG-AAATGAT
* * * * *
4640041 G-TTGGTGCTTCATCTTA-TTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTA
192 GTTTGATGCTTCATC-TAGCTCTTACTTCAATTTCAGAGAGACAAAGACTTGTTATCCAGCTTTA
*
4640104 CTTTAATTTCAAGAGGATAGG
256 CTTCAATTTCAAGAGGATAGG
* *
4640125 AAAATGATGTTGGT
1 AAAAGGAGGTTGGT
4640139 TGATCTAATC
Statistics
Matches: 249, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
276 14 0.06
277 207 0.83
278 28 0.11
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (276 bp):
AAAAGGAGGTTGGTGCTTCACCTAACTCTTACTTCAATTTCAGAGAGCTAAAGACTTGATATCCA
ACCTTACTTCAATTTCAAGAGGATAGGAAATGATAGTTGATGCTTCATCTAGCTCTTACTTCAAT
TTCAGAGAGACAAAGACTTGCTATCCAACCTTACTTCAATTTCAAGAGGATAGGAAATGATGTTT
GATGCTTCATCTAGCTCTTACTTCAATTTCAGAGAGACAAAGACTTGTTATCCAGCTTTACTTCA
ATTTCAAGAGGATAGG
Found at i:4652285 original size:28 final size:28
Alignment explanation
Indices: 4652254--4652313 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
4652244 AAAACGAGAC
4652254 TTTTGAA-TACCCGGGGGCAAAATGGTAA
1 TTTTGAACT-CCCGGGGGCAAAATGGTAA
** *
4652282 TTTTGAACTCTTGTGGGCAAAATGGTAA
1 TTTTGAACTCCCGGGGGCAAAATGGTAA
4652310 TTTT
1 TTTT
4652314 TCGAAAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (28 bp):
TTTTGAACTCCCGGGGGCAAAATGGTAA
Found at i:4652459 original size:29 final size:30
Alignment explanation
Indices: 4652418--4652609 Score: 162
Period size: 30 Copynumber: 6.4 Consensus size: 30
4652408 GTTTGAGGGT
* *
4652418 AAAATGATAAATTTTGGTAAA-TTCGGGGTTA
1 AAAATG-T-AATTTTGGAAAAGTTCGGGGTTC
* *
4652449 AAAATGGAATTTTAG-AAAGTTCAGGGG-TC
1 AAAATGTAATTTTGGAAAAGTTC-GGGGTTC
**
4652478 AAAATGTAATTTTGGAAAAGTTTTGGGTTC
1 AAAATGTAATTTTGGAAAAGTTCGGGGTTC
*
4652508 AAAATGTAATTTTGGAAAAGTTTAGGGGTT-
1 AAAATGTAATTTTGGAAAAG-TTCGGGGTTC
* *
4652538 AAAATGTAATTTTTGAAAAGTTTTGGGGTT-
1 AAAATGTAATTTTGGAAAAG-TTCGGGGTTC
* * ** *
4652568 AAATTGTAAGTTTGG-AAAGTTTTGGGATC
1 AAAATGTAATTTTGGAAAAGTTCGGGGTTC
*
4652597 AAAATATAATTTT
1 AAAATGTAATTTT
4652610 TGGACAGTTT
Statistics
Matches: 136, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
28 10 0.07
29 41 0.30
30 72 0.53
31 13 0.10
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTCGGGGTTC
Found at i:4652467 original size:59 final size:57
Alignment explanation
Indices: 4652354--4652550 Score: 198
Period size: 59 Copynumber: 3.3 Consensus size: 57
4652344 TTGGACATCC
* * * **
4652354 AGGGGTAAAATGGTAGTTTTGGTAAAATCAGGGTCAAAAATGGAAAGTTGGAAAGTTT
1 AGGGGTAAAAT-GTAATTTTGGTAAATTCAGGGTTAAAAATGGAATTTTGGAAAGTTT
* * *
4652412 -GAGGGTAAAATGATAAATTTTGGTAAATTCGGGGTTAAAAATGGAATTTTAGAAAGTTC
1 AG-GGGTAAAATG-T-AATTTTGGTAAATTCAGGGTTAAAAATGGAATTTTGGAAAGTTT
* ** * *
4652471 AGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGTTCAAAATGTAATTTTGGAAAAGTTT
1 AGGGGT-AAAATGTAATTTTGGTAAA-TTCAGGGTTAAAAATGGAATTTTGG-AAAGTTT
4652531 AGGGGTTAAAATGTAATTTT
1 AGGGG-TAAAATGTAATTTT
4652551 TGAAAAGTTT
Statistics
Matches: 116, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
57 2 0.02
58 21 0.18
59 61 0.53
60 31 0.27
61 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (57 bp):
AGGGGTAAAATGTAATTTTGGTAAATTCAGGGTTAAAAATGGAATTTTGGAAAGTTT
Found at i:4652535 original size:60 final size:58
Alignment explanation
Indices: 4652401--4652609 Score: 217
Period size: 59 Copynumber: 3.5 Consensus size: 58
4652391 AAATGGAAAG
* ** *
4652401 TTGGAAAGTTT-GAGGGT-AAAATGATAAATTTTGGTAAA-TTCGGGGTTAAAAATGGAATT
1 TTGGAAAGTTTAG-GGGTCAAAATG-T-AATTTTGGAAAAGTTTTGGGTT-AAAATGTAATT
* *
4652460 TTAGAAAGTTCAGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGTTCAAAATGTAATT
1 TTGGAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGTT-AAAATGTAATT
* * * *
4652519 TTGGAAAAGTTTAGGGGTTAAAATGTAATTTTTGAAAAGTTTTGGGGTTAAATTGTAAGT
1 TTGG-AAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTT-GGGTTAAAATGTAATT
* * *
4652579 TTGGAAAGTTTTGGGATCAAAATATAATTTT
1 TTGGAAAGTTTAGGGGTCAAAATGTAATTTT
4652610 TGGACAGTTT
Statistics
Matches: 128, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
58 11 0.09
59 57 0.45
60 55 0.43
61 5 0.04
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.37
Consensus pattern (58 bp):
TTGGAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGTTAAAATGTAATT
Found at i:4652619 original size:30 final size:29
Alignment explanation
Indices: 4652449--4652624 Score: 163
Period size: 30 Copynumber: 5.9 Consensus size: 29
4652439 TTCGGGGTTA
* * ** *
4652449 AAAATGGAATTTTAGAAAGTTCAGGGGTC
1 AAAATGTAATTTTGGAAAGTTTTGGGATC
*
4652478 AAAATGTAATTTTGGAAAAGTTTTGGGTTC
1 AAAATGTAATTTTGG-AAAGTTTTGGGATC
* * *
4652508 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGG-AAAGTTTTGGGATC
* * *
4652538 AAAATGTAATTTTTGAAAAGTTTTGGGGTT
1 AAAATGTAA-TTTTGGAAAGTTTTGGGATC
* *
4652568 AAATTGTAAGTTTGGAAAGTTTTGGGATC
1 AAAATGTAATTTTGGAAAGTTTTGGGATC
* * *
4652597 AAAATATAATTTTTGGACAGTTTAGGGA
1 AAAATGTAA-TTTTGGAAAGTTTTGGGA
4652625 CCTACAGAGC
Statistics
Matches: 124, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
29 36 0.29
30 83 0.67
31 5 0.04
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAGTTTTGGGATC
Found at i:4653825 original size:18 final size:18
Alignment explanation
Indices: 4653804--4653838 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4653794 ATTATTATTA
4653804 TTATTATTATTAAAACCC
1 TTATTATTATTAAAACCC
*
4653822 TTATTATTATTGAAACC
1 TTATTATTATTAAAACC
4653839 GTTTTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (18 bp):
TTATTATTATTAAAACCC
Found at i:4653832 original size:3 final size:3
Alignment explanation
Indices: 4653755--4653815 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
4653745 TATTTAAACC
4653755 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4653803 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
4653816 AAACCCTTAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4653901 original size:12 final size:12
Alignment explanation
Indices: 4653875--4653909 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
4653865 TCAAAATAGT
4653875 TATTATTATTTAA
1 TATTATTA-TTAA
4653888 TATTATTATTAA
1 TATTATTATTAA
4653900 TATTATTATT
1 TATTATTATT
4653910 GAAGTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:4654464 original size:15 final size:16
Alignment explanation
Indices: 4654433--4654466 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4654423 GTAGGGTTAG
4654433 AATCGGGCCAAATTTGT
1 AATCGGGCC-AATTTGT
4654450 AATCGGGCC-ATTTGT
1 AATCGGGCCAATTTGT
4654465 AA
1 AA
4654467 ATGGATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (16 bp):
AATCGGGCCAATTTGT
Found at i:4654574 original size:6 final size:6
Alignment explanation
Indices: 4654563--4654652 Score: 57
Period size: 6 Copynumber: 15.8 Consensus size: 6
4654553 GGTTTCTCTT
* *
4654563 TTTAAA TTTAAA -AT-AA TATTAAA TTTAAA -TTAAA -TTAAA ATTAAA
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * * *
4654608 ATTAAA ATTGAA TTTAAA -ATAAA TTTAAA ATTAAA -ATAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
4654653 TTTCAAAATG
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
4 2 0.03
5 19 0.28
6 44 0.65
7 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:4654586 original size:17 final size:16
Alignment explanation
Indices: 4654564--4654661 Score: 106
Period size: 17 Copynumber: 5.8 Consensus size: 16
4654554 GTTTCTCTTT
4654564 TTAAATTTAAAATAATA
1 TTAAATTTAAAATAA-A
*
4654581 TTAAATTTAAATTAAA
1 TTAAATTTAAAATAAA
*
4654597 TTAAAATTAAAATTAAAA
1 TTAAATTTAAAA-T-AAA
*
4654615 TTGAATTTAAAATAAA
1 TTAAATTTAAAATAAA
*
4654631 TTTAAAATTAAAATAAA
1 -TTAAATTTAAAATAAA
*
4654648 TTTAATTTCAAAAT
1 TTAAATTT-AAAAT
4654662 GGTTTGGGCC
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
16 20 0.29
17 35 0.51
18 13 0.19
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (16 bp):
TTAAATTTAAAATAAA
Found at i:4654594 original size:11 final size:11
Alignment explanation
Indices: 4654580--4654655 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
4654570 TTAAAATAAT
4654580 ATTAAATTTAA
1 ATTAAATTTAA
*
4654591 ATTAAATTAAA
1 ATTAAATTTAA
*
4654602 ATTAAAATTAAA
1 ATT-AAATTTAA
*
4654614 ATTGAATTTAA
1 ATTAAATTTAA
*
4654625 AATAAATTTAAA
1 ATTAAATTT-AA
*
4654637 ATTAAA-ATAA
1 ATTAAATTTAA
*
4654647 ATTTAATTT
1 ATTAAATTT
4654656 CAAAATGGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
10 7 0.13
11 28 0.53
12 18 0.34
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:4654967 original size:32 final size:35
Alignment explanation
Indices: 4654910--4654987 Score: 101
Period size: 33 Copynumber: 2.3 Consensus size: 35
4654900 TATATTCAGA
*
4654910 TTAAAT-TAATTAATTAGGTTGGATTATTTT-TAT
1 TTAAATATATTTAATTAGGTTGGATTATTTTATAT
* *
4654943 TTGAATA-ATTTAATTGGGTT-GATTATTTTATAT
1 TTAAATATATTTAATTAGGTTGGATTATTTTATAT
4654976 TTAAATATATTT
1 TTAAATATATTT
4654988 TTTGAGTTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 9 0.24
33 25 0.66
34 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (35 bp):
TTAAATATATTTAATTAGGTTGGATTATTTTATAT
Found at i:4654997 original size:33 final size:32
Alignment explanation
Indices: 4654910--4654999 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 32
4654900 TATATTCAGA
4654910 TTAAATTAA-TTAATT-AGGTTGGATTATTTTTAT
1 TTAAA-TAATTTAATTGA-GTT-GATTATTTTTAT
* *
4654943 TTGAATAATTTAATTGGGTTGATTATTTTATAT
1 TTAAATAATTTAATTGAGTTGATTATTTT-TAT
*
4654976 TTAAATATATTT-TTTGAGTTGATT
1 TTAAATA-ATTTAATTGAGTTGATT
4655000 TATATATGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
32 12 0.25
33 32 0.67
34 4 0.08
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (32 bp):
TTAAATAATTTAATTGAGTTGATTATTTTTAT
Found at i:4656267 original size:14 final size:14
Alignment explanation
Indices: 4656231--4656260 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4656221 CTCGAACCCT
4656231 AAATCCAAAATATA
1 AAATCCAAAATATA
*
4656245 AAATCCAAAATCTA
1 AAATCCAAAATATA
4656259 AA
1 AA
4656261 CTTCAAACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATCCAAAATATA
Found at i:4656612 original size:18 final size:17
Alignment explanation
Indices: 4656589--4656622 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4656579 AATTTAAATT
4656589 TAATTAAATTACTTAAAA
1 TAATTAAATTA-TTAAAA
*
4656607 TAATTAATTTATTAAA
1 TAATTAAATTATTAAA
4656623 TTATAAACAA
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:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTAAATTATTAAAA
Found at i:4657285 original size:6 final size:6
Alignment explanation
Indices: 4657274--4657303 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4657264 CATTTATCTC
4657274 TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT
4657304 CGTTTATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:4657287 original size:18 final size:18
Alignment explanation
Indices: 4657266--4657303 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4657256 TATTTATTCA
4657266 TTTATCTCTATTTTTATT
1 TTTATCTCTATTTTTATT
* *
4657284 TTTATTTTTATTTTTATT
1 TTTATCTCTATTTTTATT
4657302 TT
1 TT
4657304 CGTTTATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTATCTCTATTTTTATT
Found at i:4659455 original size:17 final size:17
Alignment explanation
Indices: 4659433--4659474 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
4659423 TCTCTTGACT
*
4659433 TTTAACTTTTCATCTTC
1 TTTAACTTTTCATATTC
4659450 TTTAACTTTTCATATTC
1 TTTAACTTTTCATATTC
4659467 TTGTAACT
1 TT-TAACT
4659475 ACTTTTTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.21, C:0.19, G:0.02, T:0.57
Consensus pattern (17 bp):
TTTAACTTTTCATATTC
Found at i:4663292 original size:31 final size:31
Alignment explanation
Indices: 4663257--4663377 Score: 121
Period size: 31 Copynumber: 4.1 Consensus size: 31
4663247 TTGTTACCTT
*
4663257 AATTTGACACTTTTTTCTAATTTGGTATTTA
1 AATTTGACACTTTTTTCTAATTTGGTACTTA
* *
4663288 AATTT-----TTTTAGTCTAATTTAGTACTTA
1 AATTTGACACTTTT-TTCTAATTTGGTACTTA
* *
4663315 AATTTGACACTTTTTTCTAATTTGATACCTA
1 AATTTGACACTTTTTTCTAATTTGGTACTTA
*
4663346 AACTTGACACTTTTTT-T-ATGTTGGTACTTA
1 AATTTGACACTTTTTTCTAAT-TTGGTACTTA
4663376 AA
1 AA
4663378 CTTTTTGGGG
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
26 4 0.05
27 19 0.26
29 2 0.03
30 11 0.15
31 33 0.45
32 4 0.05
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (31 bp):
AATTTGACACTTTTTTCTAATTTGGTACTTA
Found at i:4663398 original size:89 final size:89
Alignment explanation
Indices: 4663245--4663435 Score: 208
Period size: 89 Copynumber: 2.1 Consensus size: 89
4663235 TTAATATAAC
* * * * ** *
4663245 ATTTGTTACCTTAATTTGACACTTTTTTCTAATTTGGTATTTAAATTTTTTTAGTCTAATTTAGT
1 ATTTGATACCTAAACTTGACACTTTTTTCTAATTTGGTACTTAAATTTTTGGAGTCTAAGTTAGT
* *
4663310 ACTTAAATTTGACACTTTTTTCTA
66 ACCTAAACTTGACACTTTTTTCTA
*
4663334 ATTTGATACCTAAACTTGACACTTTTTT-T-ATGTTGGTACTTAAACTTTTTGGGGT-TCAAGTT
1 ATTTGATACCTAAACTTGACACTTTTTTCTAAT-TTGGTACTTAAA-TTTTTGGAGTCT-AAGTT
* **
4663396 AGTACCTGAACTTGATTCTTTTTTCTA
63 AGTACCTAAACTTGACACTTTTTTCTA
*
4663423 ATTTGATGCCTAA
1 ATTTGATACCTAA
4663436 TATTTTTTTA
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
87 2 0.02
88 13 0.15
89 70 0.82
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (89 bp):
ATTTGATACCTAAACTTGACACTTTTTTCTAATTTGGTACTTAAATTTTTGGAGTCTAAGTTAGT
ACCTAAACTTGACACTTTTTTCTA
Found at i:4663693 original size:61 final size:59
Alignment explanation
Indices: 4663585--4663751 Score: 156
Period size: 60 Copynumber: 2.8 Consensus size: 59
4663575 ATAAATTTGG
* ** * * * *
4663585 TACCAAATTGAATCTAAAAAAAATTTAGGTAGCAAATTAGGAAAAAAAATGCCAAGTTCAGG
1 TACCAAATTG-A-GTAAAAAAAATTTAAATACCAAATTAAG-AAAAAAATGCCAAATTCAGA
* * *
4663647 TACCAAATT-AGGTAAAAAAAAGTTTAAATACCAAATTAAGAGAAAAATGTCAAATTTAGA
1 TACCAAATTGA-GTAAAAAAAA-TTTAAATACCAAATTAAGAAAAAAATGCCAAATTCAGA
* ** *
4663707 TACCAAATTGAGTAAAAAAAAATTAGGTATCAAATTAAGAAAAAA
1 TACCAAATTGAGTAAAAAAAATTTAAATACCAAATTAAGAAAAAA
4663752 TATCTAGTTC
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
59 19 0.22
60 44 0.51
61 15 0.17
62 9 0.10
ACGTcount: A:0.54, C:0.09, G:0.13, T:0.23
Consensus pattern (59 bp):
TACCAAATTGAGTAAAAAAAATTTAAATACCAAATTAAGAAAAAAATGCCAAATTCAGA
Found at i:4663954 original size:13 final size:13
Alignment explanation
Indices: 4663936--4663960 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4663926 AACACTTCAA
4663936 ATATAAATGTATT
1 ATATAAATGTATT
4663949 ATATAAATGTAT
1 ATATAAATGTAT
4663961 GAATTTGTTG
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATATAAATGTATT
Found at i:4664721 original size:17 final size:17
Alignment explanation
Indices: 4664695--4664736 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
4664685 ATATATAATG
4664695 TATATAATAAATAA-TAA
1 TATATAAT-AATAATTAA
*
4664712 TATATGATAATAATTAA
1 TATATAATAATAATTAA
4664729 TATATAAT
1 TATATAAT
4664737 GTACATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TATATAATAATAATTAA
Found at i:4664721 original size:20 final size:19
Alignment explanation
Indices: 4664684--4664734 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
4664674 TGGATCAATG
*
4664684 AATATATAATGTATATAATA
1 AATA-ATAATATATATAATA
4664704 AATAATAATATATGATAATA
1 AATAATAATATAT-ATAATA
*
4664724 ATTAAT-ATATA
1 AATAATAATATA
4664735 ATGTACATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (19 bp):
AATAATAATATATATAATA
Found at i:4664747 original size:20 final size:19
Alignment explanation
Indices: 4664684--4664739 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 19
4664674 TGGATCAATG
*
4664684 AATATATAATGTATATAATA
1 AATATATAATGTA-ATAATT
4664704 AATAATAATATATGATAATAATT
1 AAT-AT-ATA-ATG-TAATAATT
4664727 AATATATAATGTA
1 AATATATAATGTA
4664740 CATTATTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 5 0.16
22 5 0.16
23 11 0.35
24 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
AATATATAATGTAATAATT
Found at i:4665140 original size:2 final size:2
Alignment explanation
Indices: 4665133--4665169 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4665123 GCTCTATTGA
4665133 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4665170 ATTTATGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4672917 original size:56 final size:59
Alignment explanation
Indices: 4672840--4672969 Score: 151
Period size: 57 Copynumber: 2.3 Consensus size: 59
4672830 TTTTTTTTTT
* * * *
4672840 TAATTTAGTATCT-AAATTTTTTTGACCCAATTT-AGTA-CTGAACTTTACACT-TTTCC
1 TAATTTGGTACCTAAAATTTTTTGGACCCAATTTGA-TACCTGAACTTGACACTATTTCC
** *
4672896 TAATTTGGTACCTAAAATTTTTTGGGTCCAATTTGATACCTGAACTTGACATTATTTCC
1 TAATTTGGTACCTAAAATTTTTTGGACCCAATTTGATACCTGAACTTGACACTATTTCC
*
4672955 TAATTTGATACCTAA
1 TAATTTGGTACCTAA
4672970 GCTTGTTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
56 11 0.18
57 19 0.31
58 13 0.21
59 19 0.31
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (59 bp):
TAATTTGGTACCTAAAATTTTTTGGACCCAATTTGATACCTGAACTTGACACTATTTCC
Found at i:4675504 original size:26 final size:28
Alignment explanation
Indices: 4675448--4675504 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
4675438 AAAAGTTAAC
* *
4675448 AAAAATTTATATTATAATTAATTTTTAA
1 AAAAATTCATATTATAATTAATTTATAA
4675476 AAAAATTCATATTAT-A-TAATTTAATAA
1 AAAAATTCATATTATAATTAATTT-ATAA
4675503 AA
1 AA
4675505 GTTATGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.23
27 6 0.23
28 14 0.54
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
AAAAATTCATATTATAATTAATTTATAA
Found at i:4690804 original size:15 final size:17
Alignment explanation
Indices: 4690774--4690805 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4690764 TTGGATTGGC
4690774 CTTTTCGTTGTTTTTCT
1 CTTTTCGTTGTTTTTCT
4690791 CTTTTC-TT-TTTTTCT
1 CTTTTCGTTGTTTTTCT
4690806 TTTAATAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.00, C:0.19, G:0.06, T:0.75
Consensus pattern (17 bp):
CTTTTCGTTGTTTTTCT
Found at i:4695828 original size:3 final size:3
Alignment explanation
Indices: 4695820--4695857 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4695810 CTGAGTACAA
4695820 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4695858 ACATATGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4698087 original size:3 final size:3
Alignment explanation
Indices: 4698079--4698104 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4698069 ACTATATTAA
4698079 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
4698105 ATGCCTATTA
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:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4698702 original size:9 final size:9
Alignment explanation
Indices: 4698678--4698731 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
4698668 TATATATATA
4698678 TATATTTTT
1 TATATTTTT
4698687 ATATATTTTT
1 -TATATTTTT
4698697 CT-TATTTTT
1 -TATATTTTT
4698706 TATATTTATT
1 TATATTT-TT
*
4698716 TCTATTTTT
1 TATATTTTT
*
4698725 CATATTT
1 TATATTT
4698732 GTAATGTGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
8 1 0.03
9 19 0.50
10 18 0.47
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (9 bp):
TATATTTTT
Found at i:4698709 original size:28 final size:28
Alignment explanation
Indices: 4698678--4698731 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
4698668 TATATATATA
*
4698678 TATATTT-TTATATATTTTTCTTATTTTT
1 TATATTTATT-TATATTTTTCATATTTTT
*
4698706 TATATTTATTTCTATTTTTCATATTT
1 TATATTTATTTATATTTTTCATATTT
4698732 GTAATGTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (28 bp):
TATATTTATTTATATTTTTCATATTTTT
Found at i:4698721 original size:19 final size:19
Alignment explanation
Indices: 4698682--4698731 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
4698672 TATATATATA
4698682 TTTTTATATATTTTTCTTAT
1 TTTTTATAT-TTTTTCTTAT
4698702 TTTTTATATTTATTTC-TAT
1 TTTTTATATTT-TTTCTTAT
*
4698721 TTTTCATATTT
1 TTTTTATATTT
4698732 GTAATGTGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTATATTTTTTCTTAT
Found at i:4701208 original size:20 final size:20
Alignment explanation
Indices: 4701185--4701222 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4701175 TCTACACATG
* *
4701185 TGAATGTTGAATTGAAAAGA
1 TGAATGTTCAATTCAAAAGA
4701205 TGAATGTTCAATTCAAAA
1 TGAATGTTCAATTCAAAA
4701223 ACTTTCCCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (20 bp):
TGAATGTTCAATTCAAAAGA
Found at i:4708765 original size:37 final size:38
Alignment explanation
Indices: 4708690--4708768 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
4708680 TTTCCAGGAA
* * *
4708690 TTACAAAACAGTCCCTGCACTTTCAATTTTGACAGTTT
1 TTACAAAACAGTCCCTGAAATTCCAATTTTGACAGTTT
* *
4708728 TTACAAAACAGTCCCTGAAATTCCATTTTTG-TAGTTT
1 TTACAAAACAGTCCCTGAAATTCCAATTTTGACAGTTT
4708765 TTAC
1 TTAC
4708769 GATTTAGTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 9 0.25
38 27 0.75
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (38 bp):
TTACAAAACAGTCCCTGAAATTCCAATTTTGACAGTTT
Found at i:4711494 original size:14 final size:14
Alignment explanation
Indices: 4711472--4711515 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
4711462 GATGAGTTTA
4711472 ATTTATTTAATAAT
1 ATTTATTTAATAAT
* *
4711486 ATTTTTTTAATAAA
1 ATTTATTTAATAAT
*
4711500 ATTTATTAAATAAT
1 ATTTATTTAATAAT
4711514 AT
1 AT
4711516 CAACAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTATTTAATAAT
Found at i:4712719 original size:25 final size:24
Alignment explanation
Indices: 4712678--4712724 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
4712668 GTTTTGATTC
**
4712678 TTAAAAATAATTTTTTTTTAAACT
1 TTAAAAATAATAATTTTTTAAACT
4712702 TTAAAAATAAATAATTTTTTAAA
1 TTAAAAAT-AATAATTTTTTAAA
4712725 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TTAAAAATAATAATTTTTTAAACT
Found at i:4717601 original size:117 final size:117
Alignment explanation
Indices: 4717421--4717792 Score: 507
Period size: 117 Copynumber: 3.2 Consensus size: 117
4717411 TATGGATACC
* * ** * *
4717421 CGGGGGCAAAATGGTAA-TTTTGGTGTAATCGGGGTTAAAGGTGGAATCTTAAAAGATTCGGGGG
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATTCGGGGG
* * *
4717485 TAAAATGGTAGTTTTTGGTGAAATCAGAGTTTAAAACGGAA-TTTAGAAGCTT
66 TAAAATGGTAGTTTTTGGTGAAATC-GGGTTAAAAACGGAATTTTAGAAGATT
* * *
4717537 CGGGGGTAGAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTTTGGGGG
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATTCGGGGG
* *
4717602 TAAAATGGT-GATTTTTGGTGAAATCGGGGTCAAAACGGAATTTTAGAAGATT
66 TAAAATGGTAG-TTTTTGGTGAAATCGGGTTAAAAACGGAATTTTAGAAGATT
* * *
4717654 CGGGGGTAAAATGGTAATTCTTGGTGAAATCGGGGTCAAAAATAGAATTTTAGAAGATTCGGGGG
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATTCGGGGG
* * *
4717719 TAAAATGGTAATTTTTGGTGAAATCCGGGTTAAAAACGAAATTTTAGAAGTTT
66 TAAAATGGTAGTTTTTGGTGAAAT-CGGGTTAAAAACGGAATTTTAGAAGATT
*
4717772 CGGGGGTAAAATAGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
4717793 CGAAAAGATT
Statistics
Matches: 225, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
116 28 0.12
117 154 0.68
118 43 0.19
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.31
Consensus pattern (117 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATTCGGGGG
TAAAATGGTAGTTTTTGGTGAAATCGGGTTAAAAACGGAATTTTAGAAGATT
Found at i:4717610 original size:59 final size:59
Alignment explanation
Indices: 4717421--4717792 Score: 489
Period size: 59 Copynumber: 6.4 Consensus size: 59
4717411 TATGGATACC
* * *** * *
4717421 CGGGGGCAAAATGGTAA-TTTTGGTGTAATCGGGGTTAAAGGTGGAATCTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGATT
* * * * *
4717479 CGGGGGTAAAATGGTAGTTTTTGGTGAAATCAGAGTTTAAAACGGAA-TTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGATT
* * *
4717537 CGGGGGTAGAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGATT
* * *
4717596 TGGGGGTAAAATGGTGATTTTTGGTGAAATCGGGG-TCAAAACGGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGATT
* * **
4717654 CGGGGGTAAAATGGTAATTCTTGGTGAAATCGGGGTCAAAAATAGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGATT
* * *
4717713 CGGGGGTAAAATGGTAATTTTTGGTGAAATCCGGGTTAAAAACGAAATTTTAGAAGTTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGATT
*
4717772 CGGGGGTAAAATAGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
4717793 CGAAAAGATT
Statistics
Matches: 271, Mismatches: 40, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
58 116 0.43
59 155 0.57
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.31
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGATT
Found at i:4717790 original size:29 final size:29
Alignment explanation
Indices: 4717526--4717822 Score: 110
Period size: 29 Copynumber: 10.1 Consensus size: 29
4717516 TAAAACGGAA
* * *
4717526 TTTAGAAGCTTCGGGGGTAGAATGGTAAT
1 TTTAGAAGATTCGGGGGTAAAATAGTAAT
* ** * * *
4717555 TTTTGGTGAAATCGGGGTTAAAA-ATGGAAT
1 TTTAGAAG-ATTCGGGGGTAAAATA-GTAAT
* * * *
4717585 TTTAGAAGTTTTGGGGGTAAAATGGTGAT
1 TTTAGAAGATTCGGGGGTAAAATAGTAAT
* ** * * *
4717614 TTTTGGTGAAATC-GGGGTCAAAA-CGGAAT
1 TTTAGAAG-ATTCGGGGGT-AAAATAGTAAT
*
4717643 TTTAGAAGATTCGGGGGTAAAATGGTAAT
1 TTTAGAAGATTCGGGGGTAAAATAGTAAT
*
4717672 TCTTGGTGAA-A-TC-GGGGTCAAAAATAG-AAT
1 T-TT--AGAAGATTCGGGGGT--AAAATAGTAAT
*
4717702 TTTAGAAGATTCGGGGGTAAAATGGTAAT
1 TTTAGAAGATTCGGGGGTAAAATAGTAAT
* ** * * * *
4717731 TTTTGGTGAAATCCGGGTTAAAA-ACGAAAT
1 TTTAGAAG-ATTCGGGGGTAAAATA-GTAAT
*
4717761 TTTAGAAGTTTCGGGGGTAAAATAGTAAT
1 TTTAGAAGATTCGGGGGTAAAATAGTAAT
* *
4717790 TTTCGAAAAGATT-TGGGGTCAAAAT-GTAAT
1 TTT--AGAAGATTCGGGGGT-AAAATAGTAAT
4717820 TTT
1 TTT
4717823 TGGAAAATTT
Statistics
Matches: 189, Mismatches: 57, Indels: 43
0.65 0.20 0.15
Matches are distributed among these distances:
27 3 0.02
28 14 0.07
29 80 0.42
30 71 0.38
31 18 0.10
32 3 0.02
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (29 bp):
TTTAGAAGATTCGGGGGTAAAATAGTAAT
Found at i:4718088 original size:163 final size:162
Alignment explanation
Indices: 4717910--4718233 Score: 415
Period size: 163 Copynumber: 2.0 Consensus size: 162
4717900 AAGGGATCAA
* *
4717910 TTTAAAAATCTTGAAAAATCT-CTGGACCAATTTTGTAATT-AAATAAAAGTCGATTTAAG-GAT
1 TTTAAAAACCTTGAAAAAT-TACTGGACCAATTTCGTAATTAAAAT-AAAGTCGATTT-AGTGAT
4717972 TAAATTAAAACAAATT-AAAATAAAAAGGACTAAATGCAGAAATAA-CCCAAAAAAAGTGACACG
63 TAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCC---AAAAGTGACACG
* *
4718035 TAGCAACCTCTGGTGCAGTCAAACAGTCAAAGGACTAG
125 TAGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAG
* * * * *
4718073 TTTATAAACCTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTGGTGATTAA
1 TTTAAAAACCTTGAAAAATTACTGGACCAATTTCGTAATTAAAATAAAGTCGATTTAGTGATTAA
* * * * * * *
4718138 ATTAAAACAAGTTAAAAATGAAAAGGACTAAATGCATAAATAATCCCATAAGTGACACGTGGTAG
66 ATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCCAAAAGTGACACGTAGCAA
4718203 CCTATGGTACAGTCAAACAGTCAAAGGACTA
131 CCTATGGTACAGTCAAACAGTCAAAGGACTA
4718234 AATTGAAAAG
Statistics
Matches: 140, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
162 45 0.32
163 61 0.44
164 31 0.22
165 3 0.02
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (162 bp):
TTTAAAAACCTTGAAAAATTACTGGACCAATTTCGTAATTAAAATAAAGTCGATTTAGTGATTAA
ATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCCAAAAGTGACACGTAGCAA
CCTATGGTACAGTCAAACAGTCAAAGGACTAG
Found at i:4719916 original size:6 final size:6
Alignment explanation
Indices: 4719900--4719941 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
4719890 TTAATTTTTT
4719900 TTTATAA TTTAAA TTTAAA TTTAAA TTTAAGA --TAAA TTTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA
4719942 ATCAATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
4 1 0.03
5 3 0.09
6 23 0.72
7 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:4719937 original size:11 final size:11
Alignment explanation
Indices: 4719909--4719951 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
4719899 TTTTATAATT
*
4719909 TAAATTTAAATT
1 TAAATTTAAA-A
*
4719921 TAAATTTAAGA
1 TAAATTTAAAA
4719932 TAAATTTAAAA
1 TAAATTTAAAA
*
4719943 TCAATTTAA
1 TAAATTTAA
4719952 CCTTTAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:4720327 original size:68 final size:68
Alignment explanation
Indices: 4720240--4720742 Score: 491
Period size: 68 Copynumber: 7.4 Consensus size: 68
4720230 AAGACTTCGC
*
4720240 TATCCAACTTTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGAC
1 TATCC-ACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGAC
4720305 GTGT
65 GTGT
* **
4720309 TATCCACTCTACTTCAATTTCAAGGGGATGATGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
1 TATCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACG
4720374 TGT
66 TGT
* *
4720377 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
1 TATCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACG
4720442 TGT
66 TGT
* ** ** *
4720445 TATCCACTCTACTTCAATTTCAAGGGGATGTGTTATCCACTCTT-CTTTAATTTCA-AGA-G--G
1 TATCCACTCTACTTCAATTTCAAGAGGA--TGACAT-TGCTCTTACTTCAATTTCAGAGATGAAG
*
4720505 --GTGA
63 ACGTGT
** * * * *
4720509 TAT-TGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTGTCCACTCTACTTCAATTTCA-AG--
1 TATCCACTC-TACTTCAATTTCA-AGAGGATGAC--ATTG--CTCT-TACTTCAATTTCAGAGAT
* *
4720570 G-GGATGTGT
59 GAAGACGTGT
* * *
4720579 TATCCACTCTTCTTTAATTTCAAGAGGGTGACATTGCTCTTACTTCAATTTCAGAGATGAAGACG
1 TATCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACG
4720644 TGT
66 TGT
* * ** *
4720647 TGTCCACTCTACTTCAATTTCAAGGGGATATGTTATCTACTCTT-CTTCAATTTCA-AGA-G--G
1 TATCCACTCTACTTCAATTTCAAGAGG--ATGACAT-TGCTCTTACTTCAATTTCAGAGATGAAG
*
4720707 ATGTGT
63 ACGTGT
4720713 TATCCACTCTACTTCAATTTCAAGAGGATG
1 TATCCACTCTACTTCAATTTCAAGAGGATG
4720743 TGTTATCCAC
Statistics
Matches: 365, Mismatches: 47, Indels: 49
0.79 0.10 0.11
Matches are distributed among these distances:
63 4 0.01
64 35 0.10
65 10 0.03
66 35 0.10
67 6 0.02
68 198 0.54
69 18 0.05
70 45 0.12
71 14 0.04
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (68 bp):
TATCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACG
TGT
Found at i:4720483 original size:33 final size:33
Alignment explanation
Indices: 4720305--4720773 Score: 377
Period size: 33 Copynumber: 14.0 Consensus size: 33
4720295 AGATGAAGAC
4720305 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
* * * *
4720338 GATG-T-TGCTCT-TACTTCAATTTCAGAGATGAAGAC
1 G-TGTTATCCACTCTACTTCAATTTCA-AG--G-GGAT
4720373 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
* * * * *
4720406 GACG-T-TGCTCT-TACTTCAATTTCAGAGATGAAGAC
1 G-TGTTATCCACTCTACTTCAATTTCA-AG--G-GGAT
4720441 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
* * *
4720474 GTGTTATCCACTCTTCTTTAATTTCAAGAGG--
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
* ** * *
4720505 GTGATAT-TGCTCTTACTTCAATTTCAGAGATGAAGAC
1 GTGTTATCCACTC-TACTTCAATTTCA-AG--G-GGAT
*
4720542 GTGTTGTCCACTCTACTTCAATTTCAAGGGGAT
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
* * *
4720575 GTGTTATCCACTCTTCTTTAATTTCAAGAGG--
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
** ** * *
4720606 GTGACAT-TGCTCTTACTTCAATTTCAGAGATGAAGAC
1 GTGTTATCCACTC-TACTTCAATTTCA-AG--G-GGAT
*
4720643 GTGTTGTCCACTCTACTTCAATTTCAAGGGGAT
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
* * * *
4720676 ATGTTATCTACTCTTCTTCAATTTCAAGAGGAT
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
*
4720709 GTGTTATCCACTCTACTTCAATTTCAAGAGGAT
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
4720742 GTGTTATCCACTCTACTTCAATTTCAAGGGGA
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGA
4720774 CGATGTTGAG
Statistics
Matches: 342, Mismatches: 62, Indels: 64
0.73 0.13 0.14
Matches are distributed among these distances:
30 6 0.02
31 59 0.17
32 16 0.05
33 156 0.46
34 12 0.04
35 10 0.03
36 16 0.05
37 61 0.18
38 6 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (33 bp):
GTGTTATCCACTCTACTTCAATTTCAAGGGGAT
Found at i:4720515 original size:101 final size:101
Alignment explanation
Indices: 4720373--4720773 Score: 598
Period size: 101 Copynumber: 4.0 Consensus size: 101
4720363 AGATGAAGAC
* *
4720373 GTGTTATCCACTCTACTTCAATTTCAAG-GGGATGACGTTGCTCTTACTTCAATTTCAGAGATGA
1 GTGTTATCCACTCTTCTTCAATTTCAAGAGGG-TGACATTGCTCTTACTTCAATTTCAGAGATGA
4720437 AGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
65 AGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
* *
4720474 GTGTTATCCACTCTTCTTTAATTTCAAGAGGGTGATATTGCTCTTACTTCAATTTCAGAGATGAA
1 GTGTTATCCACTCTTCTTCAATTTCAAGAGGGTGACATTGCTCTTACTTCAATTTCAGAGATGAA
*
4720539 GACGTGTTGTCCACTCTACTTCAATTTCAAGGGGAT
66 GACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
*
4720575 GTGTTATCCACTCTTCTTTAATTTCAAGAGGGTGACATTGCTCTTACTTCAATTTCAGAGATGAA
1 GTGTTATCCACTCTTCTTCAATTTCAAGAGGGTGACATTGCTCTTACTTCAATTTCAGAGATGAA
*
4720640 GACGTGTTGTCCACTCTACTTCAATTTCAAGGGGAT
66 GACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
* * ** * *
4720676 ATGTTATCTACTCTTCTTCAATTTCAAGAGGATGTGTTA-TCCACTCTACTTCAATTTCA-AGA-
1 GTGTTATCCACTCTTCTTCAATTTCAAGAGG--GTGACATTGCTCT-TACTTCAATTTCAGAGAT
*
4720738 G--GATGTGTTATCCACTCTACTTCAATTTCAAGGGGA
63 GAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGA
4720774 CGATGTTGAG
Statistics
Matches: 281, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
99 33 0.12
101 221 0.79
102 10 0.04
103 17 0.06
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (101 bp):
GTGTTATCCACTCTTCTTCAATTTCAAGAGGGTGACATTGCTCTTACTTCAATTTCAGAGATGAA
GACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
Found at i:4720600 original size:202 final size:199
Alignment explanation
Indices: 4720277--4720773 Score: 619
Period size: 202 Copynumber: 2.4 Consensus size: 199
4720267 GATGACATTG
* * *
4720277 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGATG
1 CTCTT-CTTCAATTTCA-AGA-G--GA-GTGATATCCACTCTACTTCAATTTCAAGAGGACG-TG
* * * *
4720342 -T-TGCTCT-TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAG-GG
59 TTATCCACTCTACTTCAATTTCA-AG--G-GGATGTGTTATCCACTCTACTTCAATTTCAAGAGG
*
4720403 GATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAA
120 G-TGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAA
*
4720468 GGGGATGTGTTATCCA
184 GGGGATATGTTATCCA
* **
4720484 CTCTTCTTTAATTTCAAGAGG-GTGATAT-TGCTCTTACTTCAATTTCAGAGATGAAGACGTGTT
1 CTCTTCTTCAATTTCAAGAGGAGTGATATCCACTC-TACTTCAATTTCA-AGA-G--GACGTGTT
* * *
4720547 GTCCACTCTACTTCAATTTCAAGGGGATGTGTTATCCACTCTTCTTTAATTTCAAGAGGGTGACA
61 ATCCACTCTACTTCAATTTCAAGGGGATGTGTTATCCACTCTACTTCAATTTCAAGAGGGTGACA
*
4720612 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTGTCCACTCTACTTCAATTTCAAGGGGATA
126 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATA
*
4720677 TGTTATCTA
191 TGTTATCCA
* *
4720686 CTCTTCTTCAATTTCAAGAGGATGTGTTATCCACTCTACTTCAATTTCAAGAGGATGTGTTATCC
1 CTCTTCTTCAATTTCAAGAGGA-GTGATATCCACTCTACTTCAATTTCAAGAGGACGTGTTATCC
4720751 ACTCTACTTCAATTTCAAGGGGA
65 ACTCTACTTCAATTTCAAGGGGA
4720774 CGATGTTGAG
Statistics
Matches: 256, Mismatches: 22, Indels: 31
0.83 0.07 0.10
Matches are distributed among these distances:
199 3 0.01
200 52 0.20
201 2 0.01
202 126 0.49
203 9 0.04
204 24 0.09
205 12 0.05
206 23 0.09
207 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (199 bp):
CTCTTCTTCAATTTCAAGAGGAGTGATATCCACTCTACTTCAATTTCAAGAGGACGTGTTATCCA
CTCTACTTCAATTTCAAGGGGATGTGTTATCCACTCTACTTCAATTTCAAGAGGGTGACATTGCT
CTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATATGTTA
TCCA
Found at i:4732806 original size:59 final size:59
Alignment explanation
Indices: 4732702--4733310 Score: 823
Period size: 59 Copynumber: 10.4 Consensus size: 59
4732692 TATGGATACC
* * ** * *
4732702 CGGGGGCAAAATAGTAA-TTTTGGT-ATAATCGGGGTTAAAGGTGGAATCTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGA-AATCGGGGTTAAAAATGGAATTTTAGAAGATT
* * *
4732760 CGGGGGTAAAATAGTAATTTTTGGTGAAATCGGGGTTTAAAATGGAA-TTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* * *
4732818 CGAGGGTAGAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* *
4732877 CGGGGGTAAAATGGTGATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* *
4732936 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTCAAAAATGGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* ** **
4732995 CGGGGGTAAAATGATAATCCTCAGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* *
4733054 CGGGGGTAAAATGGTAATTCTTGGTGAAATCGGGGTAAAAAATGGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* ** *
4733113 CGGGGGTAAAATGATAATCCTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* * * *
4733172 C-GGGGTAAAATGGTAATTTTTGGTGAAATCCGGGTTAAAAACGGAATTTTAAAAGTTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* * ** * *
4733230 CGGGGGTAAAATAGTAA-TTTTCGAAAAGATTTGGGGTTAAAAATGGAATTTTAGAAGTTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAA-A-TCGGGGTTAAAAATGGAATTTTAGAAGATT
4733290 CGGGGGTAAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
4733311 CGAAAAGATT
Statistics
Matches: 492, Mismatches: 52, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
58 126 0.26
59 320 0.65
60 43 0.09
61 3 0.01
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.31
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
Found at i:4733271 original size:31 final size:31
Alignment explanation
Indices: 4733222--4733340 Score: 117
Period size: 31 Copynumber: 3.9 Consensus size: 31
4733212 ACGGAATTTT
4733222 AAAAGTTTCGGGGGTAAAATAGTAATTTTCG
1 AAAAGTTTCGGGGGTAAAATAGTAATTTTCG
* *
4733253 AAAAGATTT-GGGGTTAAAA-ATGGAATTTT--
1 AAAAG-TTTCGGGGGTAAAATA-GTAATTTTCG
* *
4733282 AGAAGTTTCGGGGGTAAAATGGTAATTTTCG
1 AAAAGTTTCGGGGGTAAAATAGTAATTTTCG
4733313 AAAAGATTT--GGGGTCAAAAT-GTAATTTT
1 AAAAG-TTTCGGGGGT-AAAATAGTAATTTT
4733341 TGGAAAATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
28 3 0.04
29 20 0.27
30 14 0.19
31 30 0.41
32 6 0.08
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (31 bp):
AAAAGTTTCGGGGGTAAAATAGTAATTTTCG
Found at i:4733347 original size:31 final size:30
Alignment explanation
Indices: 4733232--4733340 Score: 111
Period size: 30 Copynumber: 3.6 Consensus size: 30
4733222 AAAAGTTTCG
4733232 GGGGTAAAATAGTAATTTTCGAAAAGATTT
1 GGGGTAAAATAGTAATTTTCGAAAAGATTT
* *
4733262 GGGGTTAAAA-ATGGAATTTT--AGAAG-TTT
1 GGGG-TAAAATA-GTAATTTTCGAAAAGATTT
*
4733290 CGGGGGTAAAATGGTAATTTTCGAAAAGATTT
1 --GGGGTAAAATAGTAATTTTCGAAAAGATTT
4733322 GGGGTCAAAAT-GTAATTTT
1 GGGGT-AAAATAGTAATTTT
4733341 TGGAAAATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
28 3 0.05
29 16 0.25
30 22 0.34
31 21 0.32
32 3 0.05
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.34
Consensus pattern (30 bp):
GGGGTAAAATAGTAATTTTCGAAAAGATTT
Found at i:4733606 original size:163 final size:162
Alignment explanation
Indices: 4733428--4733751 Score: 442
Period size: 163 Copynumber: 2.0 Consensus size: 162
4733418 AAGGGATCAA
* *
4733428 TTTAAAAATCTTGAAAAATCT-CTGGACCAATTTTGTAATT-AAATAAAAGTCGATTTAAG-GAT
1 TTTAAAAACCTTGAAAAAT-TACTGGACCAATTTCGTAATTAAAAT-AAAGTCGATTT-AGTGAT
4733490 TAAATTAAAACAAATT-AAAATAAAAAGGACTAAATGCAGAAATAA-CCCAAAAAAAGTGACACG
63 TAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCC---AAAAGTGACACG
* *
4733553 TGGCAACCTCTGGTGCAGTCAAACAGTCAAAGGACTAG
125 TGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAG
* * * * *
4733591 TTTATAAACCTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTGGTGATTAA
1 TTTAAAAACCTTGAAAAATTACTGGACCAATTTCGTAATTAAAATAAAGTCGATTTAGTGATTAA
* * * *
4733656 ATTAAAACAAATTAAAAATGAAAAGGACTAAATGCATAAATAATCCCATAAGTGACACGTGGCAG
66 ATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCCAAAAGTGACACGTGGCAA
4733721 CCTATGGTACAGTCAAACAGTCAAAGGACTA
131 CCTATGGTACAGTCAAACAGTCAAAGGACTA
4733752 AATTGAAAAG
Statistics
Matches: 143, Mismatches: 13, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
162 47 0.33
163 62 0.43
164 31 0.22
165 3 0.02
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.26
Consensus pattern (162 bp):
TTTAAAAACCTTGAAAAATTACTGGACCAATTTCGTAATTAAAATAAAGTCGATTTAGTGATTAA
ATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCCAAAAGTGACACGTGGCAA
CCTATGGTACAGTCAAACAGTCAAAGGACTAG
Found at i:4735434 original size:6 final size:6
Alignment explanation
Indices: 4735420--4735461 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
4735410 AAATTTTTTT
4735420 TTTATAA TTTAAA TTTAAA TTTAAA TTTAAGA --TAAA TTTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA
4735462 ATCAATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
4 1 0.03
5 3 0.09
6 23 0.72
7 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:4735457 original size:11 final size:11
Alignment explanation
Indices: 4735429--4735471 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
4735419 TTTTATAATT
*
4735429 TAAATTTAAATT
1 TAAATTTAAA-A
*
4735441 TAAATTTAAGA
1 TAAATTTAAAA
4735452 TAAATTTAAAA
1 TAAATTTAAAA
*
4735463 TCAATTTAA
1 TAAATTTAA
4735472 CCTTTAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:4737354 original size:21 final size:20
Alignment explanation
Indices: 4737330--4737368 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4737320 CTATGCTCTG
4737330 TGTAATTTCGTCTTTTTTTTT
1 TGTAATTTCG-CTTTTTTTTT
* *
4737351 TGTAGTTTTGCTTTTTTT
1 TGTAATTTCGCTTTTTTT
4737369 ATGACATTGA
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:0.08, C:0.08, G:0.13, T:0.72
Consensus pattern (20 bp):
TGTAATTTCGCTTTTTTTTT
Found at i:4737750 original size:58 final size:57
Alignment explanation
Indices: 4737688--4737818 Score: 138
Period size: 58 Copynumber: 2.3 Consensus size: 57
4737678 GAAAAAATTG
* * *
4737688 AATAGTTGAGTGACTATTTTATAA-TTTCCATAGTTGGGTGACCAAAAATAAATTTACT
1 AATAGTTGAGTGACTATTTTATAACTTTCCATAGTTGGATGA-CAAAAA-AAAATCACT
* * * * * * *
4737746 AATAGTTAAGTCACCATTTTGTAACTTTTCATAGTTTGATGATAAAAAAAAATCACT
1 AATAGTTGAGTGACTATTTTATAACTTTCCATAGTTGGATGACAAAAAAAAATCACT
*
4737803 AATAGTTGGGTGACTA
1 AATAGTTGAGTGACTA
4737819 CTAATGTAGC
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
57 19 0.33
58 25 0.43
59 14 0.24
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (57 bp):
AATAGTTGAGTGACTATTTTATAACTTTCCATAGTTGGATGACAAAAAAAAATCACT
Found at i:4739370 original size:19 final size:19
Alignment explanation
Indices: 4739324--4739409 Score: 95
Period size: 19 Copynumber: 4.3 Consensus size: 19
4739314 TTATATATAT
4739324 ATTTTTAAAATATATTTTTTGAA
1 ATTTTTAAAAT-TA--TTTTG-A
4739347 ATTTTTATAAA-TATTTTGA
1 ATTTTTA-AAATTATTTTGA
*
4739366 ATTTTAAAAATTATTTTGA
1 ATTTTTAAAATTATTTTGA
4739385 ATTTTTGAAAATTATTTT-A
1 ATTTTT-AAAATTATTTTGA
4739404 ATTTTT
1 ATTTTT
4739410 TTGTAATTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
18 3 0.05
19 27 0.47
20 16 0.28
22 2 0.03
23 7 0.12
24 3 0.05
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTTTTAAAATTATTTTGA
Found at i:4739410 original size:20 final size:20
Alignment explanation
Indices: 4739324--4739409 Score: 97
Period size: 20 Copynumber: 4.3 Consensus size: 20
4739314 TTATATATAT
*
4739324 ATTTTTAAAATATATTTTTTGAA
1 ATTTTTAAAA-AT-TATTTTG-A
*
4739347 ATTTTTATAAA-TATTTTGA
1 ATTTTTAAAAATTATTTTGA
4739366 A-TTTTAAAAATTATTTTGA
1 ATTTTTAAAAATTATTTTGA
*
4739385 ATTTTTGAAAATTATTTT-A
1 ATTTTTAAAAATTATTTTGA
4739404 ATTTTT
1 ATTTTT
4739410 TTGTAATTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
18 8 0.14
19 18 0.32
20 21 0.37
22 1 0.02
23 9 0.16
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
ATTTTTAAAAATTATTTTGA
Found at i:4753063 original size:26 final size:26
Alignment explanation
Indices: 4753034--4753096 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
4753024 AATTTTCTTT
**
4753034 AATCGAATCGAGTGAGATGGAATTCG
1 AATCGAATCGAGTGAGATAAAATTCG
4753060 AATCGAATCGAGTGAGATAAAATTCG
1 AATCGAATCGAGTGAGATAAAATTCG
*
4753086 AATTGAATCGA
1 AATCGAATCGA
4753097 ATATATTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.24
Consensus pattern (26 bp):
AATCGAATCGAGTGAGATAAAATTCG
Found at i:4753459 original size:16 final size:16
Alignment explanation
Indices: 4753438--4753470 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4753428 AAGATTCAAT
4753438 ATAATTAAACAATTCA
1 ATAATTAAACAATTCA
4753454 ATAATTAAACAATTCA
1 ATAATTAAACAATTCA
4753470 A
1 A
4753471 CATTAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAATTAAACAATTCA
Found at i:4753579 original size:17 final size:15
Alignment explanation
Indices: 4753541--4753573 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4753531 ATTTGGTGAT
*
4753541 AAAGTGTGAAAAATA
1 AAAGTTTGAAAAATA
4753556 AAAGTTTGAAAAATA
1 AAAGTTTGAAAAATA
4753571 AAA
1 AAA
4753574 AAGTTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (15 bp):
AAAGTTTGAAAAATA
Found at i:4756378 original size:16 final size:16
Alignment explanation
Indices: 4756351--4756389 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
4756341 TAATTTCATA
4756351 TTAAAA-CATATAAAT
1 TTAAAACCATATAAAT
*
4756366 TTAAAACCATATAGAT
1 TTAAAACCATATAAAT
4756382 TTGAAAAC
1 TT-AAAAC
4756390 TTTTTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 10 0.48
17 5 0.24
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (16 bp):
TTAAAACCATATAAAT
Found at i:4760424 original size:12 final size:12
Alignment explanation
Indices: 4760407--4760459 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
4760397 TAAATGTACC
*
4760407 TTCTTCATTTTG
1 TTCTTCTTTTTG
*
4760419 TTCTTCTTTTTT
1 TTCTTCTTTTTG
*
4760431 TTATTCTTTTTG
1 TTCTTCTTTTTG
* *
4760443 TTCTTGTTCTTG
1 TTCTTCTTTTTG
4760455 TTCTT
1 TTCTT
4760460 GTTCGTAACT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.04, C:0.15, G:0.08, T:0.74
Consensus pattern (12 bp):
TTCTTCTTTTTG
Found at i:4764592 original size:62 final size:62
Alignment explanation
Indices: 4764495--4764618 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
4764485 TACATGATTT
4764495 ATCTTGGAATATATTGCAATGCTACATCACTTGATCTAAAGGCCACCAAATTATTATCGTTC
1 ATCTTGGAATATATTGCAATGCTACATCACTTGATCTAAAGGCCACCAAATTATTATCGTTC
4764557 ATCTTGGAATATATTGCAATGCTACATCACTTGATCTAAAGGCCACCAAATTATTATCGTTC
1 ATCTTGGAATATATTGCAATGCTACATCACTTGATCTAAAGGCCACCAAATTATTATCGTTC
4764619 TTCAAAAATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (62 bp):
ATCTTGGAATATATTGCAATGCTACATCACTTGATCTAAAGGCCACCAAATTATTATCGTTC
Found at i:4769469 original size:20 final size:22
Alignment explanation
Indices: 4769439--4769478 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4769429 ATCTGTTTTC
4769439 TTTTATATAATAA-AAAATTAT
1 TTTTATATAATAATAAAATTAT
4769460 TTTTAT-TAATAATAAAATT
1 TTTTATATAATAATAAAATT
4769479 TGCAAACCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTATATAATAATAAAATTAT
Found at i:4769942 original size:24 final size:25
Alignment explanation
Indices: 4769906--4769952 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
4769896 TTTGAGTGAT
* * *
4769906 TTAACAAATAATACAAGTTTAAAAG
1 TTAACAAAAAATAAAAATTTAAAAG
4769931 TTAA-AAAAAATAAAAATTTAAA
1 TTAACAAAAAATAAAAATTTAAA
4769953 TGAAAGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (25 bp):
TTAACAAAAAATAAAAATTTAAAAG
Found at i:4770239 original size:29 final size:29
Alignment explanation
Indices: 4770200--4770261 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
4770190 AATTTATCTA
* * * *
4770200 TTTTATATCTAAGAGTTTAGTCCTTTTAT
1 TTTTATATCTAAGAATTTAATCATTTTAC
*
4770229 TTTTATTTCTAAGAATTTAATCATTTTAC
1 TTTTATATCTAAGAATTTAATCATTTTAC
4770258 TTTT
1 TTTT
4770262 CAAATTTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.58
Consensus pattern (29 bp):
TTTTATATCTAAGAATTTAATCATTTTAC
Found at i:4772151 original size:19 final size:20
Alignment explanation
Indices: 4772113--4772151 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4772103 CAAATAATAC
4772113 TAAAAATATTAATGATTATAT
1 TAAAAATATTAA-GATTATAT
*
4772134 TAAAAATTTTAA-ATTATA
1 TAAAAATATTAAGATTATA
4772152 AAATAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
TAAAAATATTAAGATTATAT
Found at i:4772408 original size:18 final size:18
Alignment explanation
Indices: 4772387--4772425 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4772377 AAATTCTAAA
4772387 AAAATTTAAAAAATAGAT
1 AAAATTTAAAAAATAGAT
* *
4772405 AAAATTTTATAAATAGAT
1 AAAATTTAAAAAATAGAT
4772423 AAA
1 AAA
4772426 GTGGGGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAATTTAAAAAATAGAT
Found at i:4775330 original size:25 final size:24
Alignment explanation
Indices: 4775285--4775343 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
4775275 ATCTTATTTG
4775285 ATATTTGATTCAAGTAAGAAATAAC
1 ATATTTGATTCAAGTAAGAAA-AAC
* *
4775310 ATATTTGTGTTCAAGT-TGAAAAAC
1 ATATTTG-ATTCAAGTAAGAAAAAC
*
4775334 AAAATTTGAT
1 -ATATTTGAT
4775344 AAATTTAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
24 4 0.14
25 17 0.61
26 7 0.25
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.36
Consensus pattern (24 bp):
ATATTTGATTCAAGTAAGAAAAAC
Found at i:4777706 original size:19 final size:20
Alignment explanation
Indices: 4777682--4777731 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
4777672 TATATTGTTG
4777682 TTTTGGTGTCTTTT-TACTA
1 TTTTGGTGTCTTTTATACTA
*
4777701 TTTTGGTTGCTGTTTTATACTA
1 TTTTGG-TG-TCTTTTATACTA
*
4777723 TTTTTGTGT
1 TTTTGGTGT
4777732 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 6 0.23
20 3 0.12
21 7 0.27
22 10 0.38
ACGTcount: A:0.10, C:0.08, G:0.18, T:0.64
Consensus pattern (20 bp):
TTTTGGTGTCTTTTATACTA
Found at i:4777739 original size:23 final size:21
Alignment explanation
Indices: 4777713--4777844 Score: 87
Period size: 23 Copynumber: 6.2 Consensus size: 21
4777703 TTGGTTGCTG
4777713 TTTTATACTATTTTTGTGTTATT
1 TTTTATACT-TTTTTG-GTTATT
* *
4777736 TTTTTTACTGTTTTGG-TACTT
1 TTTTATACTTTTTTGGTTA-TT
* *
4777757 TTTCAT--TGTTTTGGTTATT
1 TTTTATACTTTTTTGGTTATT
4777776 GTTTTATACTATTTTTGTGTTATT
1 -TTTTATACT-TTTTTG-GTTATT
* *
4777800 TTTTTTACTGTTTTGG-TACTT
1 TTTTATACTTTTTTGGTTA-TT
*
4777821 TTTTAT--TGTTTTGGTTATT
1 TTTTATACTTTTTTGGTTATT
4777840 GTTTT
1 -TTTT
4777845 CGTGTTGTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
19 20 0.22
20 17 0.19
21 15 0.17
22 11 0.12
23 21 0.23
24 6 0.07
ACGTcount: A:0.12, C:0.05, G:0.14, T:0.69
Consensus pattern (21 bp):
TTTTATACTTTTTTGGTTATT
Found at i:4777769 original size:64 final size:64
Alignment explanation
Indices: 4777701--4777844 Score: 252
Period size: 64 Copynumber: 2.2 Consensus size: 64
4777691 CTTTTTACTA
*
4777701 TTTTGGTTGCTGTTTTATACTATTTTTGTGTTATTTTTTTTACTGTTTTGGTACTTTTTCATTG
1 TTTTGGTTACTGTTTTATACTATTTTTGTGTTATTTTTTTTACTGTTTTGGTACTTTTTCATTG
* *
4777765 TTTTGGTTATTGTTTTATACTATTTTTGTGTTATTTTTTTTACTGTTTTGGTACTTTTTTATTG
1 TTTTGGTTACTGTTTTATACTATTTTTGTGTTATTTTTTTTACTGTTTTGGTACTTTTTCATTG
*
4777829 TTTTGGTTATTGTTTT
1 TTTTGGTTACTGTTTT
4777845 CGTGTTGTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 77 1.00
ACGTcount: A:0.11, C:0.06, G:0.15, T:0.68
Consensus pattern (64 bp):
TTTTGGTTACTGTTTTATACTATTTTTGTGTTATTTTTTTTACTGTTTTGGTACTTTTTCATTG
Found at i:4777824 original size:19 final size:19
Alignment explanation
Indices: 4777736--4777835 Score: 83
Period size: 19 Copynumber: 4.9 Consensus size: 19
4777726 TTGTGTTATT
4777736 TTTTTTACTGTTTTGGTAC
1 TTTTTTACTGTTTTGGTAC
* * *
4777755 TTTTTCATTGTTTTGGTTAT
1 TTTTTTACTGTTTTGG-TAC
* *
4777775 TGTTTTATACTATTTTTGTGTTATT
1 T-TTTT-TACT-GTTTTG-G-TA-C
4777800 TTTTTTACTGTTTTGGTAC
1 TTTTTTACTGTTTTGGTAC
*
4777819 TTTTTTATTGTTTTGGT
1 TTTTTTACTGTTTTGGT
4777836 TATTGTTTTC
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
19 30 0.45
20 5 0.08
21 5 0.08
22 7 0.11
23 9 0.14
24 8 0.12
25 2 0.03
ACGTcount: A:0.11, C:0.06, G:0.15, T:0.68
Consensus pattern (19 bp):
TTTTTTACTGTTTTGGTAC
Found at i:4777824 original size:33 final size:33
Alignment explanation
Indices: 4777710--4777813 Score: 115
Period size: 33 Copynumber: 3.2 Consensus size: 33
4777700 ATTTTGGTTG
4777710 CTGTTTTATACTATTTTTGTGTTATTTTTTTTA
1 CTGTTTTATACTATTTTTGTGTTATTTTTTTTA
* ** * **
4777743 CTGTTTTGGTAC--TTTTT-CATTGTTTTGGTTA
1 CTGTTTT-ATACTATTTTTGTGTTATTTTTTTTA
*
4777774 TTGTTTTATACTATTTTTGTGTTATTTTTTTTA
1 CTGTTTTATACTATTTTTGTGTTATTTTTTTTA
4777807 CTGTTTT
1 CTGTTTT
4777814 GGTACTTTTT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
30 3 0.06
31 15 0.28
32 10 0.19
33 22 0.42
34 3 0.06
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.68
Consensus pattern (33 bp):
CTGTTTTATACTATTTTTGTGTTATTTTTTTTA
Found at i:4777883 original size:21 final size:21
Alignment explanation
Indices: 4777859--4777900 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4777849 TTGTTTTTGC
* *
4777859 TGTTATTTTTGTTGCTGTTTT
1 TGTTATTTTTGCTGCTATTTT
4777880 TGTTATTTTTGCTGCTATTTT
1 TGTTATTTTTGCTGCTATTTT
4777901 GGTTGTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.69
Consensus pattern (21 bp):
TGTTATTTTTGCTGCTATTTT
Found at i:4777913 original size:33 final size:33
Alignment explanation
Indices: 4777829--4777913 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
4777819 TTTTTTATTG
* * *
4777829 TTTTGGTTATTGTTTTCGTGTTGTTTTTGCTGTTA
1 TTTTGGTTGTTGTTTT--TGTTATTTTTGCTGCTA
* *
4777864 TTTTTGTTGCTGTTTTTGTTATTTTTGCTGCTA
1 TTTTGGTTGTTGTTTTTGTTATTTTTGCTGCTA
*
4777897 TTTTGGTTGTTATTTTT
1 TTTTGGTTGTTGTTTTT
4777914 ATTGTTTGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 29 0.69
35 13 0.31
ACGTcount: A:0.06, C:0.06, G:0.20, T:0.68
Consensus pattern (33 bp):
TTTTGGTTGTTGTTTTTGTTATTTTTGCTGCTA
Found at i:4777918 original size:12 final size:12
Alignment explanation
Indices: 4777847--4777919 Score: 53
Period size: 12 Copynumber: 6.3 Consensus size: 12
4777837 ATTGTTTTCG
* *
4777847 TGTTGTTTTTGC
1 TGTTATTTTTGT
4777859 TGTTATTTTTGT
1 TGTTATTTTTGT
* *
4777871 TG--CTGTTT-T
1 TGTTATTTTTGT
*
4777880 TGTTATTTTTGC
1 TGTTATTTTTGT
* *
4777892 TGCTATTTTGGT
1 TGTTATTTTTGT
*
4777904 TGTTATTTTTAT
1 TGTTATTTTTGT
4777916 TGTT
1 TGTT
4777920 TGGATTTTAT
Statistics
Matches: 45, Mismatches: 13, Indels: 6
0.70 0.20 0.09
Matches are distributed among these distances:
9 3 0.07
10 4 0.09
11 4 0.09
12 34 0.76
ACGTcount: A:0.07, C:0.05, G:0.19, T:0.68
Consensus pattern (12 bp):
TGTTATTTTTGT
Found at i:4779482 original size:31 final size:28
Alignment explanation
Indices: 4779447--4779516 Score: 70
Period size: 31 Copynumber: 2.4 Consensus size: 28
4779437 TCAAGTTATC
* *
4779447 TAATTATTTTTATATTGATGTTTGAACTT
1 TAATTATTTTTACATTGA-GCTTGAACTT
* *
4779476 AATAATTGTTTCTACATTGAGCTTGAACTT
1 --TAATTATTTTTACATTGAGCTTGAACTT
4779506 TAA-TATTTTTA
1 TAATTATTTTTA
4779517 ATAATCAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 6 0.18
28 3 0.09
30 9 0.27
31 15 0.45
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (28 bp):
TAATTATTTTTACATTGAGCTTGAACTT
Found at i:4780460 original size:24 final size:22
Alignment explanation
Indices: 4780433--4780484 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
4780423 AGGTGGGGAA
4780433 TTTGGAGGGTGAGGGGTTAAGGTT
1 TTTGGA-GGTGA-GGGTTAAGGTT
* *
4780457 TTTGCGAGGTTAGGGTTAGGGTT
1 TTTG-GAGGTGAGGGTTAAGGTT
4780480 TTTGG
1 TTTGG
4780485 GGACGGTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 1 0.04
23 14 0.56
24 8 0.32
25 2 0.08
ACGTcount: A:0.13, C:0.02, G:0.46, T:0.38
Consensus pattern (22 bp):
TTTGGAGGTGAGGGTTAAGGTT
Found at i:4810914 original size:18 final size:18
Alignment explanation
Indices: 4810879--4810914 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4810869 GTTTATAATA
* *
4810879 TTTTATATTATGTTATTT
1 TTTTATATTATATAATTT
4810897 TTTTATATTATATAATTT
1 TTTTATATTATATAATTT
4810915 AAAACACATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATATTATATAATTT
Found at i:4813029 original size:23 final size:23
Alignment explanation
Indices: 4813003--4813150 Score: 226
Period size: 23 Copynumber: 6.3 Consensus size: 23
4812993 ACACTAGCGC
4813003 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
4813026 GCTCTCTGATTAGCA-TTGTGTGT
1 GCTCTCTGATTAGCACTT-TGTGT
*
4813049 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTTTGTGT
*
4813074 GCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTGATTAGCACTTTGTGT
4813097 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
* *
4813120 ACTCTCTGTTTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
4813143 GCTCTCTG
1 GCTCTCTG
4813151 TTGCCCAGCA
Statistics
Matches: 114, Mismatches: 7, Indels: 8
0.88 0.05 0.06
Matches are distributed among these distances:
22 2 0.02
23 91 0.80
25 20 0.18
26 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTTTGTGT
Found at i:4813087 original size:71 final size:69
Alignment explanation
Indices: 4813003--4813200 Score: 235
Period size: 71 Copynumber: 2.8 Consensus size: 69
4812993 ACACTAGCGC
* *
4813003 GCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGCA-TTGTGTGTGCTCTCTGTTATTAGCAC
1 GCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGCACTT-TGTGTACTCTCTG-T-TTAGCAC
4813067 TGTGTGT
63 TGTGTGT
*
4813074 GCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGCACTTTGTGTACTCTCTGTTTAGCACTTT
1 GCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGCACTTTGTGTACTCTCTGTTTAGCACTGT
4813139 GTGT
66 GTGT
* * *
4813143 GCTCTCTG-TTGCCCAGCACTT-ATGTGCTCTCTG-TTCAGTACTTCG-GTACTCTCTGTTT
1 GCTCTCTGATT----AGCACTTCGTGTGCTCTCTGATT-AGCACTTTGTGTACTCTCTGTTT
4813201 GTTCCGTTTA
Statistics
Matches: 115, Mismatches: 6, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
68 2 0.02
69 21 0.18
70 16 0.14
71 67 0.58
72 9 0.08
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (69 bp):
GCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGCACTTTGTGTACTCTCTGTTTAGCACTGT
GTGT
Found at i:4813151 original size:23 final size:23
Alignment explanation
Indices: 4813003--4813200 Score: 204
Period size: 23 Copynumber: 8.5 Consensus size: 23
4812993 ACACTAGCGC
*
4813003 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
*
4813026 GCTCTCTGATTAGCA-TTGTGTGT
1 GCTCTCTGTTTAGCACTT-TGTGT
*
4813049 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTTTGTGT
* *
4813074 GCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
*
4813097 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
*
4813120 ACTCTCTGTTTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
* *
4813143 GCTCTCTGTTGCCCAGCAC-TTATGT
1 GCTCTCTGTT---TAGCACTTTGTGT
* * *
4813168 GCTCTCTGTTCAGTACTTCG-GT
1 GCTCTCTGTTTAGCACTTTGTGT
*
4813190 ACTCTCTGTTT
1 GCTCTCTGTTT
4813201 GTTCCGTTTA
Statistics
Matches: 151, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
22 18 0.12
23 93 0.62
25 34 0.23
26 6 0.04
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTTTGTGT
Found at i:4815786 original size:31 final size:31
Alignment explanation
Indices: 4815708--4815787 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
4815698 GACCTCTCAA
* * **
4815708 AAGTTTAAGTACCAACTTAAAAAAAAGTATC
1 AAGTTTAGGTACCAAATTAGGAAAAAGTATC
*
4815739 AAGTTTAGGTACCAAATTAGGAAAACGTATC
1 AAGTTTAGGTACCAAATTAGGAAAAAGTATC
* *
4815770 AAGTTTGGGTATCAAATT
1 AAGTTTAGGTACCAAATT
4815788 GGACCCAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (31 bp):
AAGTTTAGGTACCAAATTAGGAAAAAGTATC
Found at i:4816324 original size:18 final size:18
Alignment explanation
Indices: 4816301--4816355 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
4816291 CCATCAAGCC
4816301 ATCCATTTTTAGTGGACT
1 ATCCATTTTTAGTGGACT
*
4816319 ATCCA---TTA--GG-CC
1 ATCCATTTTTAGTGGACT
4816331 ATCCATTTTTAGTGGACT
1 ATCCATTTTTAGTGGACT
4816349 ATCCATT
1 ATCCATT
4816356 AGGCCACCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
15 6 0.21
17 2 0.07
18 13 0.45
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (18 bp):
ATCCATTTTTAGTGGACT
Found at i:4816355 original size:30 final size:30
Alignment explanation
Indices: 4816283--4816361 Score: 131
Period size: 30 Copynumber: 2.6 Consensus size: 30
4816273 AGCTGCTTGA
* * *
4816283 TGGACCATCCATCAAGCCATCCATTTTTAG
1 TGGACTATCCATTAGGCCATCCATTTTTAG
4816313 TGGACTATCCATTAGGCCATCCATTTTTAG
1 TGGACTATCCATTAGGCCATCCATTTTTAG
4816343 TGGACTATCCATTAGGCCA
1 TGGACTATCCATTAGGCCA
4816362 CCCGTTATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (30 bp):
TGGACTATCCATTAGGCCATCCATTTTTAG
Found at i:4818634 original size:11 final size:10
Alignment explanation
Indices: 4818604--4818634 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
4818594 TAGGTAAAAA
4818604 AAAATCCTTT
1 AAAATCCTTT
4818614 AAAATCCTTT
1 AAAATCCTTT
4818624 AAAATCTCTTT
1 AAAATC-CTTT
4818635 CTATAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAATCCTTT
Found at i:4820195 original size:70 final size:70
Alignment explanation
Indices: 4820122--4820252 Score: 167
Period size: 71 Copynumber: 1.9 Consensus size: 70
4820112 ATTTAAATTA
*
4820122 AAAAAAT-A-AAACGTAGTTTTCTTGCTACCCTTTGCCTCTTTAAATTTCCTTTTATTTTGCCCG
1 AAAAAATGATAAACGTAGTTTTCTTGCTACCCTTTGCCTCTTT-AATTTCCTTTAATTTTGCCCG
4820185 AACTTT
65 AACTTT
* * * * * * *
4820191 AAAAAATGATAGACTTAGTTTTCTTGCTCCCCTTTTCTTCTTTATTTTTCTTTAATTTTGCC
1 AAAAAATGATAAACGTAGTTTTCTTGCTACCCTTTGCCTCTTTAATTTCCTTTAATTTTGCC
4820253 TTAACTTTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
69 7 0.13
70 17 0.33
71 28 0.54
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (70 bp):
AAAAAATGATAAACGTAGTTTTCTTGCTACCCTTTGCCTCTTTAATTTCCTTTAATTTTGCCCGA
ACTTT
Found at i:4831371 original size:59 final size:59
Alignment explanation
Indices: 4831284--4831526 Score: 325
Period size: 59 Copynumber: 4.2 Consensus size: 59
4831274 GGGGTGAAAG
* *
4831284 GGTAA-TTTTGGTGAAA-TCGAGGTCAAAAATGGAATTTTGAAAAATTTGGGGTCAAAAT
1 GGTAATTTTTGGTGAAATTAG-GGTTAAAAATGGAATTTTGAAAAATTTGGGGTCAAAAT
* * *
4831342 GGTAATTTTTGATGAAATTGGGGTTAAAAATGGAATTTT-AGAAAATTTAGGGTC-AAAT
1 GGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGA-AAAATTTGGGGTCAAAAT
* *
4831400 GATAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAATTTGGGGTCAAAAT
1 GGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGAAAAATTTGGGGTCAAAAT
* * * * *
4831459 GATAATTTTTGGTGAAATTAGGGTTAAAAATGAAATTTTGGAAAGTTTGGGGTTAAAAT
1 GGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGAAAAATTTGGGGTCAAAAT
4831518 GG-AATTTTT
1 GGTAATTTTT
4831527 AGTAAGTTTT
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
58 65 0.39
59 100 0.60
60 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (59 bp):
GGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGAAAAATTTGGGGTCAAAAT
Found at i:4831445 original size:117 final size:117
Alignment explanation
Indices: 4831289--4831511 Score: 340
Period size: 117 Copynumber: 1.9 Consensus size: 117
4831279 GAAAGGGTAA
* *
4831289 TTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGAAAAATTTGGGGTCAAAATGGTAATTTTTGA
1 TTTTGGTGAAATAGAGGTCAAAAATGGAATTTTGAAAAATTTGGGGTCAAAATGATAATTTTTGA
* *
4831354 TGAAATTGGGGTTAAAAATGGAATTTTAGAAAATTTAGGGTCAAATGATAAT
66 TGAAATTAGGGTTAAAAATGAAATTTTAGAAAATTTAGGGTCAAATGATAAT
* *
4831406 TTTTGGTGAAATTAG-GGTTAAAAATGGAATTTTGGAAAATTTGGGGTCAAAATGATAATTTTTG
1 TTTTGGTGAAA-TAGAGGTCAAAAATGGAATTTTGAAAAATTTGGGGTCAAAATGATAATTTTTG
* * * *
4831470 GTGAAATTAGGGTTAAAAATGAAATTTTGGAAAGTTTGGGGT
65 ATGAAATTAGGGTTAAAAATGAAATTTTAGAAAATTTAGGGT
4831512 TAAAATGGAA
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
117 93 0.98
118 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (117 bp):
TTTTGGTGAAATAGAGGTCAAAAATGGAATTTTGAAAAATTTGGGGTCAAAATGATAATTTTTGA
TGAAATTAGGGTTAAAAATGAAATTTTAGAAAATTTAGGGTCAAATGATAAT
Found at i:4831526 original size:29 final size:29
Alignment explanation
Indices: 4831309--4831622 Score: 134
Period size: 29 Copynumber: 10.8 Consensus size: 29
4831299 ATCGAGGTCA
* * *
4831309 AAAATGGAA-TTTTGAAAAATTTGGGGTC
1 AAAATGGAATTTTTGGAAAGTTTGGGGTT
4831337 AAAATGGTAATTTTTGATGAAA--TTGGGGTT
1 AAAATGG-AATTTTTG--GAAAGTTTGGGGTT
* * *
4831367 AAAAATGGAA-TTTTAGAAAATTTAGGG-T
1 -AAAATGGAATTTTTGGAAAGTTTGGGGTT
* * *
4831395 CAAATGATAATTTTTGGTGAAA--TTAGGGTT
1 AAAATG-GAATTTTT-G-GAAAGTTTGGGGTT
* *
4831425 AAAAATGGAA-TTTTGGAAAATTTGGGGTC
1 -AAAATGGAATTTTTGGAAAGTTTGGGGTT
* *
4831454 AAAATGATAATTTTTGGTGAAA--TTAGGGTT
1 AAAATG-GAATTTTT-G-GAAAGTTTGGGGTT
*
4831484 AAAAAT-GAAATTTTGGAAAGTTTGGGGTT
1 -AAAATGGAATTTTTGGAAAGTTTGGGGTT
* * ** *
4831513 AAAATGGAATTTTTAGTAAGTTTTAAGGTC
1 AAAATGGAATTTTTGGAAAG-TTTGGGGTT
* * *
4831543 AATAT--AA-TTTTGAAAAAGTTAGGGGTT
1 AAAATGGAATTTTTG-GAAAGTTTGGGGTT
** ** *
4831570 AAAATATAATTTTTAAAAAGTTCTGGGGTC
1 AAAATGGAATTTTTGGAAAGTT-TGGGGTT
* *
4831600 AAAATGTAATTTTTGGTAAGTTT
1 AAAATGGAATTTTTGGAAAGTTT
4831623 TAAGGTTAAA
Statistics
Matches: 218, Mismatches: 39, Indels: 57
0.69 0.12 0.18
Matches are distributed among these distances:
27 30 0.14
28 28 0.13
29 67 0.31
30 64 0.29
31 22 0.10
32 7 0.03
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAAGTTTGGGGTT
Found at i:4831604 original size:30 final size:29
Alignment explanation
Indices: 4831500--4831699 Score: 120
Period size: 30 Copynumber: 6.9 Consensus size: 29
4831490 GAAATTTTGG
* ** *
4831500 AAAGTTTGGGGTTAAAATGGAATTTTTAG
1 AAAGTTTGGGGTCAAAATATAATTTTTAA
* ** *
4831529 TAAGTTTTAAGGTC--AATATAATTTTGAA
1 AAAG-TTTGGGGTCAAAATATAATTTTTAA
* *
4831557 AAAGTTAGGGGTTAAAATATAATTTTTAA
1 AAAGTTTGGGGTCAAAATATAATTTTTAA
* **
4831586 AAAGTTCTGGGGTCAAAATGTAATTTTTGG
1 AAAGTT-TGGGGTCAAAATATAATTTTTAA
* ** * * **
4831616 TAAGTTTTAAGGTTAAACTATAATTTAGAA
1 AAAG-TTTGGGGTCAAAATATAATTTTTAA
* *
4831646 AAAGTTTGGGAGTCAAAATGTAATTTTTAG
1 AAAGTTTGGG-GTCAAAATATAATTTTTAA
*
4831676 AAAGTTTTGGAGTC--AATATAATTT
1 AAAG-TTTGGGGTCAAAATATAATTT
4831700 CTGGACAGTT
Statistics
Matches: 124, Mismatches: 40, Indels: 15
0.69 0.22 0.08
Matches are distributed among these distances:
27 5 0.04
28 22 0.18
29 26 0.21
30 64 0.52
31 7 0.06
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (29 bp):
AAAGTTTGGGGTCAAAATATAATTTTTAA
Found at i:4831640 original size:60 final size:60
Alignment explanation
Indices: 4831566--4831683 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 60
4831556 AAAAGTTAGG
** * *
4831566 GGTTAAAATATAATTTTTAAAAAGTTCTGGG-GTCAAAATGTAATTTTTGGTAAGTTTTAA
1 GGTTAAAATATAATTTAGAAAAAGTT-TGGGAGTCAAAATGTAATTTTTAGAAAGTTTTAA
*
4831626 GGTTAAACTATAATTTAGAAAAAGTTTGGGAGTCAAAATGTAATTTTTAGAAAGTTTT
1 GGTTAAAATATAATTTAGAAAAAGTTTGGGAGTCAAAATGTAATTTTTAGAAAGTTTT
4831684 GGAGTCAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 4 0.08
60 48 0.92
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (60 bp):
GGTTAAAATATAATTTAGAAAAAGTTTGGGAGTCAAAATGTAATTTTTAGAAAGTTTTAA
Found at i:4834260 original size:18 final size:18
Alignment explanation
Indices: 4834233--4834267 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4834223 CTTTTGTTTT
4834233 TTTTACTTTTATATCGTG
1 TTTTACTTTTATATCGTG
* *
4834251 TTTTATTTTTATGTCGT
1 TTTTACTTTTATATCGT
4834268 CAATATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.09, G:0.11, T:0.66
Consensus pattern (18 bp):
TTTTACTTTTATATCGTG
Found at i:4838580 original size:3 final size:3
Alignment explanation
Indices: 4838572--4838603 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4838562 AAAGGGACCC
4838572 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4838604 ACAACAGTAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4843064 original size:24 final size:24
Alignment explanation
Indices: 4843013--4843067 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
4843003 TCTTTTAGTT
*
4843013 AAACTCTATTTATTTGTTTCAATT
1 AAACTCTATTTATTTGTTTCAATC
* * *
4843037 AAACTCTGTTTATTTGTTTGAGTC
1 AAACTCTATTTATTTGTTTCAATC
4843061 AAACTCT
1 AAACTCT
4843068 TATTACTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.49
Consensus pattern (24 bp):
AAACTCTATTTATTTGTTTCAATC
Found at i:4844215 original size:34 final size:34
Alignment explanation
Indices: 4844173--4844256 Score: 150
Period size: 34 Copynumber: 2.5 Consensus size: 34
4844163 AAAGTTAACA
4844173 AAAAAATCATATTATAATTAACAAAGTTTTAAAC
1 AAAAAATCATATTATAATTAACAAAGTTTTAAAC
* *
4844207 AAAAAATCATATTATAATTAACTAATTTTTAAAC
1 AAAAAATCATATTATAATTAACAAAGTTTTAAAC
4844241 AAAAAATCATATTATA
1 AAAAAATCATATTATA
4844257 TAATTTAATC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.35
Consensus pattern (34 bp):
AAAAAATCATATTATAATTAACAAAGTTTTAAAC
Found at i:4846248 original size:21 final size:22
Alignment explanation
Indices: 4846208--4846256 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
4846198 TAGCACGGAT
*
4846208 GTGTGTATGAGGATACACGAGC
1 GTGTGTATGAGGACACACGAGC
* *
4846230 GTGTGTTTGAGG-CACACGATC
1 GTGTGTATGAGGACACACGAGC
4846251 GTGTGT
1 GTGTGT
4846257 CCCTGTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.20, C:0.14, G:0.37, T:0.29
Consensus pattern (22 bp):
GTGTGTATGAGGACACACGAGC
Found at i:4849340 original size:24 final size:23
Alignment explanation
Indices: 4849279--4849343 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 23
4849269 ATTTTGAACT
* *
4849279 TTTAAATTAAATTTAAAATTAAA
1 TTTAAAATAAATTCAAAATTAAA
* * * *
4849302 TTTAGAATCACTTCAAATTTTAAA
1 TTTAAAATAAATTCAAA-ATTAAA
4849326 TTTAAAATAAATTCAAAA
1 TTTAAAATAAATTCAAAA
4849344 ATTTAATTCA
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (23 bp):
TTTAAAATAAATTCAAAATTAAA
Found at i:4849351 original size:24 final size:23
Alignment explanation
Indices: 4849279--4849351 Score: 65
Period size: 24 Copynumber: 3.1 Consensus size: 23
4849269 ATTTTGAACT
* * *
4849279 TTTAAATTAAATTTAAAATTAAA
1 TTTAAAATAAATTCAAAATTTAA
* * * *
4849302 TTTAGAATCACTTCAAATTTTAAA
1 TTTAAAATAAATTCAAAATTT-AA
4849326 TTTAAAATAAATTCAAAAATTTAA
1 TTTAAAATAAATTC-AAAATTTAA
4849350 TT
1 TT
4849352 CATAGTTTGG
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
23 14 0.38
24 17 0.46
25 6 0.16
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (23 bp):
TTTAAAATAAATTCAAAATTTAA
Found at i:4851729 original size:2 final size:2
Alignment explanation
Indices: 4851724--4851753 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4851714 TTCAAGTTAT
4851724 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4851754 GCAAATTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4855207 original size:51 final size:51
Alignment explanation
Indices: 4855088--4855274 Score: 223
Period size: 51 Copynumber: 3.6 Consensus size: 51
4855078 TTTCATTTAA
* ** ** *
4855088 TACTCACGATGACA-TATAGTTATCGGACCTCTTGTTCCATCTAGGAATTCATA
1 TACTCACGATGACACT-TAGTCATCGGACCT-TTAATCCATAAAGG-ATTCATT
* * **
4855141 TACTCACGATGACACTGAGTCATCGGACCTTTAATCCATCATTGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
* *
4855192 TACTCACGATGACACTTAGTCATCGAACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
*
4855243 TACTCACGATGACTCTTAGTCATCGGACCTTT
1 TACTCACGATGACACTTAGTCATCGGACCTTT
4855275 TCGTTTATAG
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
51 81 0.69
52 9 0.08
53 26 0.22
54 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
Found at i:4857156 original size:16 final size:17
Alignment explanation
Indices: 4857125--4857160 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
4857115 ATTTAACATT
*
4857125 AATTAAATTATTTAATA
1 AATTAAAATATTTAATA
4857142 AATTAAAAT-TTTAATA
1 AATTAAAATATTTAATA
4857158 AAT
1 AAT
4857161 AAATAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAAATATTTAATA
Found at i:4858332 original size:14 final size:12
Alignment explanation
Indices: 4858299--4858325 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4858289 GGGTTGTTAG
4858299 GAGGTTAGCAGA
1 GAGGTTAGCAGA
4858311 GAGGTTAGCAGA
1 GAGGTTAGCAGA
4858323 GAG
1 GAG
4858326 CAGTTAGTCT
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:0.33, C:0.07, G:0.44, T:0.15
Consensus pattern (12 bp):
GAGGTTAGCAGA
Found at i:4860297 original size:55 final size:55
Alignment explanation
Indices: 4860213--4860323 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
4860203 GGGATGGGAC
4860213 CCCTGCTAAAATCACGTGTGTTGGACATGCTACATTGACTGCGACTAATAAGGTT
1 CCCTGCTAAAATCACGTGTGTTGGACATGCTACATTGACTGCGACTAATAAGGTT
4860268 CCCTGCTAAAATCACGTGTGTTGGACATGCTACATTGACTGCGACTAATAAGGTT
1 CCCTGCTAAAATCACGTGTGTTGGACATGCTACATTGACTGCGACTAATAAGGTT
4860323 C
1 C
4860324 TTTTTTATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (55 bp):
CCCTGCTAAAATCACGTGTGTTGGACATGCTACATTGACTGCGACTAATAAGGTT
Found at i:4864045 original size:2 final size:2
Alignment explanation
Indices: 4864038--4864063 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4864028 ATGGAAAATA
4864038 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4864064 CAATAGAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4864559 original size:18 final size:18
Alignment explanation
Indices: 4864536--4864594 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
4864526 TTTCTCTCAC
4864536 TTTTATTTATTTTTAAAT
1 TTTTATTTATTTTTAAAT
4864554 TTTTATTTTTATTTTT--AT
1 TTTTA--TTTATTTTTAAAT
*
4864572 TTTTA-TGATTTTTTAAAT
1 TTTTATTTA-TTTTTAAAT
4864590 TTTTA
1 TTTTA
4864595 AAAAGAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
15 2 0.06
16 5 0.14
18 19 0.54
20 9 0.26
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTATTTATTTTTAAAT
Found at i:4864568 original size:5 final size:6
Alignment explanation
Indices: 4864541--4864577 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
4864531 CTCACTTTTA
4864541 TTTATT TTTAAATT TTTATT TTTATT TTTATT TTTAT
1 TTTATT TTT--ATT TTTATT TTTATT TTTATT TTTAT
4864578 GATTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 23 0.79
8 6 0.21
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:4867813 original size:20 final size:20
Alignment explanation
Indices: 4867788--4867825 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4867778 TAATTTTTAA
4867788 AAGTTTCGAGGTTAAAATGG
1 AAGTTTCGAGGTTAAAATGG
* *
4867808 AAGTTTTGGGGTTAAAAT
1 AAGTTTCGAGGTTAAAAT
4867826 AGAATTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (20 bp):
AAGTTTCGAGGTTAAAATGG
Found at i:4867834 original size:20 final size:20
Alignment explanation
Indices: 4867797--4867836 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4867787 AAAGTTTCGA
*
4867797 GGTTAAAATGGAAGTTTTGG
1 GGTTAAAATAGAAGTTTTGG
*
4867817 GGTTAAAATAGAATTTTTGG
1 GGTTAAAATAGAAGTTTTGG
4867837 AAGTTCGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.38
Consensus pattern (20 bp):
GGTTAAAATAGAAGTTTTGG
Found at i:4867838 original size:29 final size:29
Alignment explanation
Indices: 4867805--4868097 Score: 259
Period size: 29 Copynumber: 10.0 Consensus size: 29
4867795 GAGGTTAAAA
*
4867805 TGGAAGTTTTGGGGTTAAAATAGAATTTT
1 TGGAAGTTTTGGGGTTAAAATGGAATTTT
* * **
4867834 TGGAAG-TTCGAGGGTAAAAATATAATTTT
1 TGGAAGTTTTG-GGGTTAAAATGGAATTTT
* * **
4867863 TGGAAGTTTTAGGGTCAAAAATATAATTTT
1 TGGAAGTTTTGGGGT-TAAAATGGAATTTT
* * *
4867893 TAGAAG-TTTGGGGGTAAAATGTAATTTT
1 TGGAAGTTTTGGGGTTAAAATGGAATTTT
* * *
4867921 TGGAAATTTTAGGGTCAAAAATGGAATTTT
1 TGGAAGTTTTGGGGT-TAAAATGGAATTTT
* * * *
4867951 TAGAAG-TTTAGGGCTAAAATTGTAATTTT
1 TGGAAGTTTTGGGGTTAAAA-TGGAATTTT
*
4867980 TGGAAGTTTTAGGGTTTAAAATGGAATTTT
1 TGGAAGTTTT-GGGGTTAAAATGGAATTTT
* *
4868010 TAGAAGTTTTGGGGTCAAAATGGAATTTT
1 TGGAAGTTTTGGGGTTAAAATGGAATTTT
* *
4868039 TGAAAGTTTTAGGGTTAAAAATGGAATTTT
1 TGGAAGTTTTGGGGTT-AAAATGGAATTTT
** * *
4868069 TGGAAGTTCGGGGGTAAAAATGTAATTTT
1 TGGAAGTTTTGGGGTTAAAATGGAATTTT
4868098 CAAAAATTTC
Statistics
Matches: 216, Mismatches: 39, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
28 23 0.11
29 105 0.49
30 81 0.38
31 7 0.03
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (29 bp):
TGGAAGTTTTGGGGTTAAAATGGAATTTT
Found at i:4867885 original size:30 final size:30
Alignment explanation
Indices: 4867805--4868076 Score: 279
Period size: 30 Copynumber: 9.3 Consensus size: 30
4867795 GAGGTTAAAA
* * *
4867805 TGGAAGTTTTGGGGT-TAAAATAGAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTT
** **
4867834 TGGAAGTTCGAGGGT-AAAAATATAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTT
**
4867863 TGGAAGTTTTAGGGTCAAAAATATAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTT
* ** *
4867893 TAGAAGTTTGGGGGT--AAAATGTAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTT
*
4867921 TGGAAATTTTAGGGTCAAAAATGGAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTT
* * *
4867951 TAGAAG-TTTAGGG-CTAAAATTGTAATTTT
1 TGGAAGTTTTAGGGTC-AAAAATGGAATTTT
**
4867980 TGGAAGTTTTAGGGTTTAAAATGGAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTT
* *
4868010 TAGAAGTTTTGGGGTC-AAAATGGAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTT
* *
4868039 TGAAAGTTTTAGGGTTAAAAATGGAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTT
4868069 TGGAAGTT
1 TGGAAGTT
4868077 CGGGGGTAAA
Statistics
Matches: 203, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
28 24 0.12
29 86 0.42
30 93 0.46
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (30 bp):
TGGAAGTTTTAGGGTCAAAAATGGAATTTT
Found at i:4867891 original size:59 final size:59
Alignment explanation
Indices: 4867805--4868097 Score: 351
Period size: 59 Copynumber: 5.0 Consensus size: 59
4867795 GAGGTTAAAA
* * * * *
4867805 TGGAAGTTTTGGGGT-TAAAATAGAATTTTTGGAAGTTCGAGGGTAAAAATATAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTTTAGAAGTTCGAGGGTAAAAATGTAATTTT
** * *
4867863 TGGAAGTTTTAGGGTCAAAAATATAATTTTTAGAAGTTTGGGGGT-AAAATGTAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTTTAGAAGTTCGAGGGTAAAAATGTAATTTT
* * *
4867921 TGGAAATTTTAGGGTCAAAAATGGAATTTTTAGAAGTT-TAGGGCTAAAATTGTAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTTTAGAAGTTCGAGGG-TAAAAATGTAATTTT
** * * *
4867980 TGGAAGTTTTAGGGTTTAAAATGGAATTTTTAGAAGTTTTG-GGGTCAAAATGGAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTTTAGAAG-TTCGAGGGTAAAAATGTAATTTT
* * * *
4868039 TGAAAGTTTTAGGGTTAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTT
1 TGGAAGTTTTAGGGTCAAAAATGGAATTTTTAGAAGTTCGAGGGTAAAAATGTAATTTT
4868098 CAAAAATTTC
Statistics
Matches: 203, Mismatches: 26, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
57 3 0.01
58 65 0.32
59 130 0.64
60 5 0.02
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (59 bp):
TGGAAGTTTTAGGGTCAAAAATGGAATTTTTAGAAGTTCGAGGGTAAAAATGTAATTTT
Done.