Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 16 of 163
Found at i:4490440 original size:19 final size:19
Alignment explanation
Indices: 4490416--4490462 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
4490406 CTAAACAATG
*
4490416 TTAACAGATCAAACAAGTC
1 TTAACAGATCAAACAAATC
*
4490435 TTAACAGATCAAACAAATG
1 TTAACAGATCAAACAAATC
4490454 TTAACAGAT
1 TTAACAGAT
4490463 AAAAATGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (19 bp):
TTAACAGATCAAACAAATC
Found at i:4503595 original size:34 final size:35
Alignment explanation
Indices: 4503556--4503639 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 35
4503546 GATTTACTCA
*
4503556 TATTATTTTTAATTTTTTAAAAATATT-TATATTT
1 TATTATTTTTAATTTTTTAAAAATATTATACATTT
* * *
4503590 TATTA-TTTTAA--TATTAATAATCTTATACATTT
1 TATTATTTTTAATTTTTTAAAAATATTATACATTT
4503622 T-TTATTTATTAATTTTTT
1 TATTATTT-TTAATTTTTT
4503640 TATATAATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
31 13 0.32
32 9 0.22
33 10 0.25
34 5 0.12
35 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (35 bp):
TATTATTTTTAATTTTTTAAAAATATTATACATTT
Found at i:4512290 original size:2 final size:2
Alignment explanation
Indices: 4512283--4512320 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
4512273 AATATTATTT
* *
4512283 TA TA TA TA TA TA TA TA TA CA TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4512321 AATCTTTGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4520396 original size:117 final size:115
Alignment explanation
Indices: 4520265--4520694 Score: 646
Period size: 117 Copynumber: 3.7 Consensus size: 115
4520255 TGGATACCCG
* * * * *
4520265 GGGGCAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCAAGGGTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC-GGGGTA
4520330 AAATGGTAATTTTTGGTGAAATCGGGGTTAAGAATGAAATTTTGGAAAGTTC
65 AAATGGTAATTTTTGGTGAAATCGGGGTTAA-AATGAAATTTTGGAAAGTTC
* * *
4520382 GGGGTAAAGTGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGATA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGG-TA
* *
4520447 AAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTA
65 AAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGAAATTTTGGAAAG-TTC
* * * *
4520499 GGGTTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAGAATAGAATTTTGGAAAGTTCGGGGTAA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGTAA
*
4520564 AATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGAAATTTTGGAAAGTTC
66 AATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGAAATTTTGGAAAGTTC
* *
4520615 GAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTTAAAATGGAATTTTGGAAAGTTCGGGGTA
1 G-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGTA
4520680 AAAT-GTAATTTTTGG
65 AAATGGTAATTTTTGG
4520695 ACTGTTTGGG
Statistics
Matches: 283, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
116 63 0.22
117 220 0.78
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (115 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGTAA
AATGGTAATTTTTGGTGAAATCGGGGTTAAAATGAAATTTTGGAAAGTTC
Found at i:4520429 original size:58 final size:58
Alignment explanation
Indices: 4520265--4520694 Score: 639
Period size: 58 Copynumber: 7.4 Consensus size: 58
4520255 TGGATACCCG
* * *
4520265 GGGGCAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* * * *
4520323 AAGGGTGAAATGGTAATTTTTGGTGAAATCGGGGTTAAGAATGAAATTTTGGAAAGTTC
1 -GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* * *
4520382 GGGGTAAAGTGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
*
4520440 GGGGATAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTA
1 GGGG-TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTC
* * * *
4520499 GGGTTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAGAATAGAATTTTGGAAAGTTC
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* *
4520557 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGAAATTTTGGAAAGTTC
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* *
4520615 GAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTTAAAATGGAATTTTGGAAAGTTC
1 G-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
4520674 GGGGTAAAAT-GTAATTTTTGG
1 GGGGTAAAATGGTAATTTTTGG
4520695 ACTGTTTGGG
Statistics
Matches: 335, Mismatches: 32, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
57 11 0.03
58 168 0.50
59 156 0.47
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
Found at i:4520705 original size:28 final size:27
Alignment explanation
Indices: 4520617--4520705 Score: 65
Period size: 29 Copynumber: 3.1 Consensus size: 27
4520607 GAAAGTTCGA
*
4520617 GGGTAAAATGGTAATTTTTGG-TGAAATTG
1 GGGTAAAAT-GTAATTTTTGGATG--TTTG
* * *
4520646 GGGTTTAAAATGGAA-TTTTGGAAAGTTCG
1 GGG--TAAAATGTAATTTTTGG-ATGTTTG
4520675 GGGTAAAATGTAATTTTTGGACTGTTTG
1 GGGTAAAATGTAATTTTTGGA-TGTTTG
4520703 GGG
1 GGG
4520706 ACCCTATAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
27 10 0.21
28 13 0.28
29 14 0.30
30 3 0.06
31 7 0.15
ACGTcount: A:0.28, C:0.02, G:0.33, T:0.37
Consensus pattern (27 bp):
GGGTAAAATGTAATTTTTGGATGTTTG
Found at i:4521943 original size:15 final size:15
Alignment explanation
Indices: 4521923--4521952 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4521913 ATTATTATGA
4521923 TTATTAATAATATTT
1 TTATTAATAATATTT
*
4521938 TTATTAATGATATTT
1 TTATTAATAATATTT
4521953 ATGAAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTATTAATAATATTT
Found at i:4522546 original size:36 final size:37
Alignment explanation
Indices: 4522482--4522551 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
4522472 GTTTGGGGTG
4522482 TTTGGGCCAATTGGGCCTTGTATGTTGGA-TTTGAGT
1 TTTGGGCCAATTGGGCCTTGTATGTTGGACTTTGAGT
4522518 TTTGGGCCCAATTGGG-CTATGTAT-TTGGACTTTG
1 TTTGGG-CCAATTGGGCCT-TGTATGTTGGACTTTG
4522552 GACATTTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
36 13 0.42
37 18 0.58
ACGTcount: A:0.14, C:0.13, G:0.31, T:0.41
Consensus pattern (37 bp):
TTTGGGCCAATTGGGCCTTGTATGTTGGACTTTGAGT
Found at i:4522600 original size:17 final size:16
Alignment explanation
Indices: 4522578--4522649 Score: 58
Period size: 17 Copynumber: 4.3 Consensus size: 16
4522568 TTTCTTTTTT
4522578 TTAAATTTATAA-TAATA
1 TTAAATTTA-AATTAA-A
4522595 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
* *
4522611 TTAAAATTAAAATTGAAT
1 TT-AAATTTAAATT-AAA
*
4522629 TTAAA-ATAAATTTAAA
1 TTAAATTTAAA-TTAAA
4522645 TTAAA
1 TTAAA
4522650 ATAAATTGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 15 0.33
17 27 0.59
18 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:4522610 original size:11 final size:11
Alignment explanation
Indices: 4522595--4522662 Score: 59
Period size: 11 Copynumber: 6.2 Consensus size: 11
4522585 TATAATAATA
4522595 TTAAATTTAAA-
1 TTAAA-TTAAAT
4522606 TTAAATTAAAAT
1 TTAAATT-AAAT
* *
4522618 TAAAATTGAAT
1 TTAAATTAAAT
*
4522629 TTAAAATAAAT
1 TTAAATTAAAT
4522640 TTAAATTAAA-
1 TTAAATTAAAT
* *
4522650 ATAAATTGAAT
1 TTAAATTAAAT
4522661 TT
1 TT
4522663 CAAAGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
10 10 0.22
11 29 0.64
12 6 0.13
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:4522611 original size:5 final size:5
Alignment explanation
Indices: 4522594--4522661 Score: 55
Period size: 5 Copynumber: 12.6 Consensus size: 5
4522584 TTATAATAAT
* *
4522594 ATTAA ATTTAA ATTAA ATTAAA ATTAAA ATTGAA TTTAA AATAA ATTTAA
1 ATTAA A-TTAA ATTAA ATT-AA ATT-AA ATT-AA ATTAA ATTAA A-TTAA
* *
4522644 ATTAA AATAA ATTGA ATT
1 ATTAA ATTAA ATTAA ATT
4522662 TCAAAGTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
5 28 0.54
6 24 0.46
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:4522645 original size:28 final size:28
Alignment explanation
Indices: 4522579--4522656 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
4522569 TTCTTTTTTT
* *
4522579 TAAATTTATAA-TAATATTAAATTTAAAT
1 TAAATTTA-AATTAAAATTAAATTTAAAA
* *
4522607 TAAATTAAAATTAAAATTGAATTTAAAA
1 TAAATTTAAATTAAAATTAAATTTAAAA
4522635 TAAATTTAAATTAAAA-TAAATT
1 TAAATTTAAATTAAAATTAAATT
4522657 GAATTTCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
27 7 0.16
28 36 0.84
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (28 bp):
TAAATTTAAATTAAAATTAAATTTAAAA
Found at i:4523243 original size:75 final size:74
Alignment explanation
Indices: 4523017--4523851 Score: 1303
Period size: 75 Copynumber: 11.1 Consensus size: 74
4523007 TGATGCTCTG
* * * * *
4523017 TCTTGCTTTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGA
1 TCTTGCTCTTACTTCAATTTC--AGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGC
4523082 GGATAGGAAAAGA
63 GGATAGGAAAA-A
* * *
4523095 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGG
4523160 ATAGGAAATAA
65 ATAGGAAA-AA
* * *
4523171 TCTTGCTCTTACTTCAATTTCAGAGAT-AAGACGTGATATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGCGG
*
4523235 ATAGGAAATGA
65 ATAGGAAA-AA
* * *
4523246 TCTTGCTCTTACTTCAATTTCAGATATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCGAA
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
*
4523311 TAGGCAAAGA
66 TAGG-AAAAA
*
4523321 TCTCGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
4523386 TAGGAAAAGA
66 TAGGAAAA-A
4523396 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
*
4523461 TAGGCAAAGA
66 TAGG-AAAAA
*
4523471 TCTCGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
4523536 TAGGAAAAGA
66 TAGGAAAA-A
4523546 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
*
4523611 TAGGCAAAGA
66 TAGG-AAAAA
* *
4523621 TCTCGCTCTTACTTCAATTTCAAAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
4523686 TAGGAAAAGA
66 TAGGAAAA-A
4523696 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
4523761 TAGGAAAAGA
66 TAGGAAAA-A
*
4523771 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGA
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
**
4523836 TAGGAATGA
66 TAGGAAAAA
4523845 TCTTGCT
1 TCTTGCT
4523852 GCGGTCTGAT
Statistics
Matches: 717, Mismatches: 30, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
74 18 0.03
75 578 0.81
76 99 0.14
77 2 0.00
78 20 0.03
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (74 bp):
TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGA
TAGGAAAAA
Found at i:4524402 original size:22 final size:22
Alignment explanation
Indices: 4524374--4524423 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
4524364 TTGGACAATA
4524374 TGGAAAAGAATGGGATTAAATT
1 TGGAAAAGAATGGGATTAAATT
4524396 TGGAAAAGAATGGGATTAAATT
1 TGGAAAAGAATGGGATTAAATT
4524418 TGGAAA
1 TGGAAA
4524424 TTTATTGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.28, T:0.26
Consensus pattern (22 bp):
TGGAAAAGAATGGGATTAAATT
Found at i:4535156 original size:59 final size:59
Alignment explanation
Indices: 4535048--4535444 Score: 550
Period size: 59 Copynumber: 6.8 Consensus size: 59
4535038 GAAGGAATGA
* * * * ** *
4535048 TGAAATCGGGGTTGAAAAAGGGACTTTTGGATA-CTCGGGGGCAAAATGGTAATTTTTGG
1 TGAAATCGGGGTT-AAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
** * *
4535107 TGAAATCAAGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTGAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
* * *
4535166 TGAAATCGGGATTAAAAATGGAATTTTGGAAAGTTT-GAGGGTAAAATGATAATTTTTAG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG-GGGTAAAATGGTAATTTTTGG
* *
4535225 TGAAATCGGGGTTAAGAATGGAATTTTGGAAAG-TTCGGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
* *
4535283 TGAAATCGAGGTTAAAAATAGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
* * *
4535342 TAAAATCGGGGTTAAGAATGGAATTTTGGAAAGTTCA-GGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
*
4535400 TGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAA
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAA
4535445 TACAATTTCT
Statistics
Matches: 298, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
58 121 0.41
59 177 0.59
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (59 bp):
TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
Found at i:4535298 original size:117 final size:117
Alignment explanation
Indices: 4535085--4535444 Score: 555
Period size: 117 Copynumber: 3.1 Consensus size: 117
4535075 TGGATACTCG
* ** * * * *
4535085 GGGGCAAAATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAGAATGGAATTTTGGAAAG-TTCGGGGTA
4535150 AAATGGTAATTTTTGGTGAAATCG-GGATTAAAAATGGAATTTTGGAAAGTTT-
65 AAATGGTAATTTTTGGTGAAATCGAGG-TTAAAAATGGAATTTTGGAAAGTTTA
* *
4535202 GAGGGTAAAATGATAATTTTTAGTGAAATCGGGGTTAAGAATGGAATTTTGGAAAGTTCGGGGTA
1 G-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAGAATGGAATTTTGGAAAGTTCGGGGTA
*
4535267 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATAGAATTTTGGAAAGTTTA
65 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTA
* *
4535320 GGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAGAATGGAATTTTGGAAAGTTCAGGGTAA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAGAATGGAATTTTGGAAAGTTCGGGGTAA
4535385 AATGGTAATTTTTGGTGAAATC-AGGGTTAAAAATGGAATTTTGGAAAGTTTA
66 AATGGTAATTTTTGGTGAAATCGA-GGTTAAAAATGGAATTTTGGAAAGTTTA
4535437 GGGGTAAA
1 GGGGTAAA
4535445 TACAATTTCT
Statistics
Matches: 224, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
116 1 0.00
117 173 0.77
118 50 0.22
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.33
Consensus pattern (117 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAGAATGGAATTTTGGAAAGTTCGGGGTAA
AATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTA
Found at i:4535722 original size:162 final size:163
Alignment explanation
Indices: 4535526--4535873 Score: 504
Period size: 162 Copynumber: 2.1 Consensus size: 163
4535516 AGGCATCCAG
* * * * *
4535526 CAGTCAAGGGACTAAATTGTAAGTCTTAAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGT
1 CAGTCAAAGGATTAAATTGAAAATCTTAAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGT
* *
4535591 TGATTT-AGGGATTAAATTAAAACAAATTAAAAATAACA-AGGG-CTAAATGCACAAATAAGCCA
66 TGATTTAAGGG-TTAAATTAAAACAAATTAAAAA-AACATAGGGACTAAATACACAAATAAACCA
* *
4535653 AAAAGTGACACGTGGCAGCCTCTGGTGCAATCAAA
129 AAAAATGACACGTGGCAGCCTATGGTGCAATCAAA
* *
4535688 CAGTCAAAGGATTAAATTGAAAATCTTGAAAAATTCTCGGGTCAATTTTGTAATTAAATAAAAGT
1 CAGTCAAAGGATTAAATTGAAAATCTTAAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGT
* * * *
4535753 TTATTTAAGGGTTAAATTAAAACAAATTAAAAAAAGATAGGGACTAGATACAGAAATAAACCAAA
66 TGATTTAAGGGTTAAATTAAAACAAATTAAAAAAACATAGGGACTAAATACACAAATAAACCAAA
* *
4535818 AAATGACACGTGGCAGCCTATGGTGTAGTCAAA
131 AAATGACACGTGGCAGCCTATGGTGCAATCAAA
4535851 CAGTCAAAGGATTAAATTGAAAA
1 CAGTCAAAGGATTAAATTGAAAA
4535874 GCAATTAAAA
Statistics
Matches: 166, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
161 3 0.02
162 89 0.54
163 74 0.45
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.26
Consensus pattern (163 bp):
CAGTCAAAGGATTAAATTGAAAATCTTAAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGT
TGATTTAAGGGTTAAATTAAAACAAATTAAAAAAACATAGGGACTAAATACACAAATAAACCAAA
AAATGACACGTGGCAGCCTATGGTGCAATCAAA
Found at i:4535914 original size:162 final size:161
Alignment explanation
Indices: 4535526--4535946 Score: 432
Period size: 162 Copynumber: 2.6 Consensus size: 161
4535516 AGGCATCCAG
* * * * * ** *
4535526 CAGTCAAGGGACTAAATTG-TAAGTCTTAAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAG
1 CAGTCAAAGGATTAAATTGAAAAG-CTT-AAAAATTCTCGGGTCAATTTTAAAAATAAATAAAAG
* *
4535590 TTGATTTAGGGATTAAATTAAAACAAATTAAAAATAACAAGGGCTAAATGCACAAATAAGCCAAA
64 TTGATTTAGGGATTAAATTAAAACAAATTAAAAATAACAAGGGCTAAATACACAAATAAACCAAA
* *
4535655 AAGTGACACGTGGCAGCCTCTGGTGCAATCAAA
129 AAATGACACGTGGCAGCCTATGGTGCAATCAAA
* ** *
4535688 CAGTCAAAGGATTAAATTGAAAATCTTGAAAAATTCTCGGGTCAATTTTGTAATTAAATAAAAGT
1 CAGTCAAAGGATTAAATTGAAAAGCTT-AAAAATTCTCGGGTCAATTTTAAAAATAAATAAAAGT
* * * *
4535753 TTATTTAAGGG-TTAAATTAAAACAAATTAAAAA-AAGATAGGGACTAGATACAGAAATAAACCA
65 TGATTT-AGGGATTAAATTAAAACAAATTAAAAATAACA-AGGG-CTAAATACACAAATAAACCA
* *
4535816 AAAAATGACACGTGGCAGCCTATGGTGTAGTCAAA
127 AAAAATGACACGTGGCAGCCTATGGTGCAATCAAA
*
4535851 CAGTCAAAGGATTAAATTGAAAAGCAATT-AAAATTACT-GGG-C-ATATTTAAAAATAATTAAA
1 CAGTCAAAGGATTAAATTGAAAAGC--TTAAAAATT-CTCGGGTCAAT-TTTAAAAATAAATAAA
* * *
4535912 AGTATGA--AAAGGACTAAATTAAAACAAA--AAAAATA
62 AGT-TGATTTAGGGATTAAATTAAAACAAATTAAAAATA
4535947 CGGAAGGACC
Statistics
Matches: 222, Mismatches: 26, Indels: 24
0.82 0.10 0.09
Matches are distributed among these distances:
159 5 0.02
160 4 0.02
161 19 0.09
162 102 0.46
163 88 0.40
164 2 0.01
165 2 0.01
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.25
Consensus pattern (161 bp):
CAGTCAAAGGATTAAATTGAAAAGCTTAAAAATTCTCGGGTCAATTTTAAAAATAAATAAAAGTT
GATTTAGGGATTAAATTAAAACAAATTAAAAATAACAAGGGCTAAATACACAAATAAACCAAAAA
ATGACACGTGGCAGCCTATGGTGCAATCAAA
Found at i:4536738 original size:25 final size:26
Alignment explanation
Indices: 4536700--4536763 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 26
4536690 TATAAAAAAT
* *
4536700 TTATTACTATTATTAATTATT-ATGA
1 TTATTAATAATATTAATTATTAATGA
*
4536725 TTATTAATAATATT-TTTATTAATGA
1 TTATTAATAATATTAATTATTAATGA
* *
4536750 -TATTTATAAAATTA
1 TTATTAATAATATTA
4536764 TAACTGACCA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 16 0.50
25 16 0.50
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (26 bp):
TTATTAATAATATTAATTATTAATGA
Found at i:4536745 original size:15 final size:15
Alignment explanation
Indices: 4536725--4536754 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4536715 ATTATTATGA
4536725 TTATTAATAATATTT
1 TTATTAATAATATTT
*
4536740 TTATTAATGATATTT
1 TTATTAATAATATTT
4536755 ATAAAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTATTAATAATATTT
Found at i:4537391 original size:36 final size:39
Alignment explanation
Indices: 4537341--4537419 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 39
4537331 GTGTAATGGG
4537341 TTTGAGGTGTTTGGG-CCAATTGGGCCT-TGTATGTTGGA-
1 TTTGAGGTGTTTGGGCCCAATTGGG-CTATGTAT-TTGGAC
4537379 TTTGA-GT-TTTGGGCCCAATTGGGCTATGTATTTGGAC
1 TTTGAGGTGTTTGGGCCCAATTGGGCTATGTATTTGGAC
4537416 TTTG
1 TTTG
4537420 GACATTTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
36 13 0.34
37 20 0.53
38 5 0.13
ACGTcount: A:0.14, C:0.11, G:0.33, T:0.42
Consensus pattern (39 bp):
TTTGAGGTGTTTGGGCCCAATTGGGCTATGTATTTGGAC
Found at i:4537476 original size:11 final size:11
Alignment explanation
Indices: 4537461--4537528 Score: 59
Period size: 11 Copynumber: 6.2 Consensus size: 11
4537451 TATAATAATA
4537461 TTAAATTTAAA-
1 TTAAA-TTAAAT
4537472 TTAAATTCAAAT
1 TTAAATT-AAAT
* *
4537484 TAAAATTGAAT
1 TTAAATTAAAT
*
4537495 TTAAAATAAAT
1 TTAAATTAAAT
4537506 TTAAATTAAA-
1 TTAAATTAAAT
* *
4537516 ATAAATTGAAT
1 TTAAATTAAAT
4537527 TT
1 TT
4537529 CAAAGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
10 10 0.22
11 29 0.64
12 6 0.13
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:4537477 original size:5 final size:5
Alignment explanation
Indices: 4537460--4537527 Score: 55
Period size: 5 Copynumber: 12.6 Consensus size: 5
4537450 TTATAATAAT
* *
4537460 ATTAA ATTTAA ATTAA ATTCAA ATTAAA ATTGAA TTTAA AATAA ATTTAA
1 ATTAA A-TTAA ATTAA ATT-AA ATT-AA ATT-AA ATTAA ATTAA A-TTAA
* *
4537510 ATTAA AATAA ATTGA ATT
1 ATTAA ATTAA ATTAA ATT
4537528 TCAAAGTAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 28 0.55
6 23 0.45
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:4537495 original size:28 final size:28
Alignment explanation
Indices: 4537464--4537517 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
4537454 AATAATATTA
*
4537464 AATTTAAATTAAATTCAAATTAAAATTG
1 AATTTAAAATAAATTCAAATTAAAATTG
*
4537492 AATTTAAAATAAATTTAAATTAAAAT
1 AATTTAAAATAAATTCAAATTAAAAT
4537518 AAATTGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
AATTTAAAATAAATTCAAATTAAAATTG
Found at i:4537505 original size:16 final size:16
Alignment explanation
Indices: 4537486--4537528 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
4537476 ATTCAAATTA
4537486 AAATTGAATTTAAAAT
1 AAATTGAATTTAAAAT
* *
4537502 AAATTTAAATTAAAAT
1 AAATTGAATTTAAAAT
4537518 AAATTGAATTT
1 AAATTGAATTT
4537529 CAAAGTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (16 bp):
AAATTGAATTTAAAAT
Found at i:4539994 original size:2 final size:2
Alignment explanation
Indices: 4539987--4540012 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4539977 AAGATGCATG
4539987 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
4540013 CACTTACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4540855 original size:16 final size:16
Alignment explanation
Indices: 4540834--4540864 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4540824 CCCTAAAATA
*
4540834 ATTTTTTTTAATTTAG
1 ATTTTTTATAATTTAG
4540850 ATTTTTTATAATTTA
1 ATTTTTTATAATTTA
4540865 TAAAATTTTA
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:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
ATTTTTTATAATTTAG
Found at i:4545475 original size:1 final size:1
Alignment explanation
Indices: 4545469--4545495 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
4545459 TTAATTTATT
4545469 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
4545496 ACATTAGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:4545770 original size:4 final size:4
Alignment explanation
Indices: 4545763--4545792 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
4545753 CAAGCACATT
4545763 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
4545793 CATCAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:4548701 original size:85 final size:85
Alignment explanation
Indices: 4548558--4548725 Score: 318
Period size: 85 Copynumber: 2.0 Consensus size: 85
4548548 TAACAATAGT
4548558 TGTCGAAACCACCTCAGGAACGGGGCTTCGAAAAAAAAAGTCAATCATTAATTTTGAAACAAAAA
1 TGTCGAAACCACCTCAGGAACGGGGCTTCGAAAAAAAAAGTCAATCATTAATTTTGAAACAAAAA
*
4548623 GGGAAATGGGAGTCGCCAGC
66 GGGAAATGAGAGTCGCCAGC
*
4548643 TGTCGAAACCACCTCGGGAACGGGGCTTCGAAAAAAAAAGTCAATCATTAATTTTGAAACAAAAA
1 TGTCGAAACCACCTCAGGAACGGGGCTTCGAAAAAAAAAGTCAATCATTAATTTTGAAACAAAAA
4548708 GGGAAATGAGAGTCGCCA
66 GGGAAATGAGAGTCGCCA
4548726 CCAATCTTTT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (85 bp):
TGTCGAAACCACCTCAGGAACGGGGCTTCGAAAAAAAAAGTCAATCATTAATTTTGAAACAAAAA
GGGAAATGAGAGTCGCCAGC
Found at i:4549916 original size:29 final size:29
Alignment explanation
Indices: 4549884--4550034 Score: 91
Period size: 29 Copynumber: 5.2 Consensus size: 29
4549874 AAATGGTAAT
4549884 TTTTGGTAAAATCGGGGTTAAAAATGAGA
1 TTTTGGTAAAATCGGGGTTAAAAATGAGA
* * * * *
4549913 TTTT-GCAAAGTTTGGGGGT-AAAATGATAA
1 TTTTGGTAAA-ATCGGGGTTAAAAATGA-GA
* *
4549942 TTTTGGTGAAATCGGGGTTAAAAATGAGG
1 TTTTGGTAAAATCGGGGTTAAAAATGAGA
* *
4549971 TTTT-G-AAGAGTTTGAGGG-T-AAAATG-GTAA
1 TTTTGGTAA-A-ATCG-GGGTTAAAAATGAG--A
* *
4550000 TTTTGGTAAAATCGAGGTTAAAAATGGGA
1 TTTTGGTAAAATCGGGGTTAAAAATGAGA
4550029 TTTTGG
1 TTTTGG
4550035 AAAGTTCAGG
Statistics
Matches: 89, Mismatches: 19, Indels: 28
0.65 0.14 0.21
Matches are distributed among these distances:
27 2 0.02
28 21 0.24
29 42 0.47
30 21 0.24
31 3 0.03
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (29 bp):
TTTTGGTAAAATCGGGGTTAAAAATGAGA
Found at i:4549960 original size:58 final size:59
Alignment explanation
Indices: 4549867--4550123 Score: 324
Period size: 58 Copynumber: 4.4 Consensus size: 59
4549857 TTGGATGCTC
* *
4549867 GGGGGTGAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGAGATTTTGCAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGAGATTTTGGAAAGTTT
* * *
4549926 GGGGGTAAAATGATAA-TTTTGGTGAAATCGGGGTTAAAAATGAGGTTTT-GAAGAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGAGATTTTGGAA-AGTTT
* * * *
4549984 GAGGGTAAAATGGTAA-TTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGAGATTTTGGAAAGTTT
* * * * *
4550042 AGGAGTAAAATGGTAATTTTTTGTGAAATCGGGGTTAAATAT-AGGATTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGA-GATTTTGGAAAGTTT
* *
4550101 AGGGGTAAAATGGTAGTTTTTGG
1 GGGGGTAAAATGGTAATTTTTGG
4550124 AAGTTTTAGG
Statistics
Matches: 170, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
57 2 0.01
58 96 0.56
59 72 0.42
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.34
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGAGATTTTGGAAAGTTT
Found at i:4550060 original size:29 final size:29
Alignment explanation
Indices: 4549984--4550061 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
4549974 TGAAGAGTTT
4549984 GAGGGTAAAATGGTAATTTTGGTAAAATC
1 GAGGGTAAAATGGTAATTTTGGTAAAATC
* * *
4550013 GAGGTTAAAAATGG-GATTTTGG-AAAGTTC
1 GAGGGT-AAAATGGTAATTTTGGTAAA-ATC
4550042 -AGGAGTAAAATGGTAATTTT
1 GAGG-GTAAAATGGTAATTTT
4550062 TTGTGAAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
28 13 0.32
29 20 0.50
30 7 0.17
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (29 bp):
GAGGGTAAAATGGTAATTTTGGTAAAATC
Found at i:4550122 original size:30 final size:30
Alignment explanation
Indices: 4550029--4550134 Score: 78
Period size: 30 Copynumber: 3.6 Consensus size: 30
4550019 AAAAATGGGA
* * *
4550029 TTTTGGAAAGTTCAGGAGTAAAATGGTAATT
1 TTTTGGAAAGTTTAGGGGTAAAATGGT-AGT
* * * *
4550060 TTTTGTGAAA---TCGGGGTTAAAT-ATAGGA
1 TTTTG-GAAAGTTTAGGGGTAAAATGGTA-GT
4550088 TTTTGGAAAGTTTAGGGGTAAAATGGTAGT
1 TTTTGGAAAGTTTAGGGGTAAAATGGTAGT
4550118 TTTTGG-AAGTTTTAGGG
1 TTTTGGAAAG-TTTAGGG
4550135 TCAAAAATGG
Statistics
Matches: 57, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
27 5 0.09
28 6 0.11
29 11 0.19
30 24 0.42
31 7 0.12
32 4 0.07
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.38
Consensus pattern (30 bp):
TTTTGGAAAGTTTAGGGGTAAAATGGTAGT
Found at i:4550127 original size:29 final size:29
Alignment explanation
Indices: 4550088--4550163 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
4550078 AAATATAGGA
*
4550088 TTTTGGAAAGTTTAGGGGT-AAAATGGTAGT
1 TTTTGG-AAGTTTAGGGGTAAAAATGG-AAT
4550118 TTTTGGAAGTTTTA-GGGTCAAAAATGGAAT
1 TTTTGGAAG-TTTAGGGGT-AAAAATGGAAT
*
4550148 TTTAGGAAGTTT-GGGG
1 TTTTGGAAGTTTAGGGG
4550164 ACTAGAGAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
29 13 0.32
30 20 0.50
31 7 0.17
ACGTcount: A:0.29, C:0.01, G:0.33, T:0.37
Consensus pattern (29 bp):
TTTTGGAAGTTTAGGGGTAAAAATGGAAT
Found at i:4550150 original size:59 final size:58
Alignment explanation
Indices: 4549868--4550163 Score: 216
Period size: 58 Copynumber: 5.1 Consensus size: 58
4549858 TGGATGCTCG
* * * * * *
4549868 GGGGTGAAATGGTAA-TTTTTGGTAAAATCGGGGTTAAAAATGAGATTTTGCAAAGTTTG
1 GGGGTAAAATGGTAAGTTTTT-GTGAAATCAGGGTCAAAAATG-GATTTTGGAAAGTTTA
* * * * *
4549927 GGGGTAAAATGATAA-TTTTGGTGAAATCGGGGTTAAAAATGAGGTTTT-GAAGAGTTT-
1 GGGGTAAAATGGTAAGTTTTTGTGAAATCAGGGTCAAAAATG-GATTTTGGAA-AGTTTA
* * * *
4549984 GAGGGTAAAATGGTAA-TTTTGGTAAAATC-GAGGTTAAAAATGGGATTTTGGAAAGTTCA
1 G-GGGTAAAATGGTAAGTTTTTGTGAAATCAG-GGTCAAAAAT-GGATTTTGGAAAGTTTA
* * * * *
4550043 GGAGTAAAATGGTAATTTTTTGTGAAATCGGGGTTAAATATAGGATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAAGTTTTTGTGAAATCAGGGTCAAAAAT-GGATTTTGGAAAGTTTA
* *
4550102 GGGGTAAAATGGT-AGTTTTTG-GAAGTTTTAGGGTCAAAAATGGAATTTTAGG-AAGTTT-
1 GGGGTAAAATGGTAAGTTTTTGTGAA--ATCAGGGTCAAAAATGG-ATTTT-GGAAAGTTTA
4550160 GGGG
1 GGGG
4550164 ACTAGAGAGT
Statistics
Matches: 202, Mismatches: 23, Indels: 25
0.81 0.09 0.10
Matches are distributed among these distances:
57 7 0.03
58 101 0.50
59 91 0.45
60 3 0.01
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.34
Consensus pattern (58 bp):
GGGGTAAAATGGTAAGTTTTTGTGAAATCAGGGTCAAAAATGGATTTTGGAAAGTTTA
Found at i:4552099 original size:17 final size:17
Alignment explanation
Indices: 4552077--4552112 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4552067 GTAAATGGAC
* *
4552077 TTTGTAATTGGACTTTA
1 TTTGTAAATGGACATTA
4552094 TTTGTAAATGGACATTA
1 TTTGTAAATGGACATTA
4552111 TT
1 TT
4552113 AATTTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (17 bp):
TTTGTAAATGGACATTA
Found at i:4552850 original size:200 final size:195
Alignment explanation
Indices: 4552507--4553339 Score: 1256
Period size: 196 Copynumber: 4.2 Consensus size: 195
4552497 TTCATTGACC
* * *
4552507 TGGTATTCTTCTCTGTGTCTCATCAGGAAGATGACCGCGATCATCTG-TTTTAATTCGCTTCTTT
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGC---C-TC-GCTTGT--TTCGCTTCTCT
* * *
4552571 GGATCTCCTTAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTTATCAGGAAGCTAACCTTTTTA
59 GGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTA
* * *
4552636 TTTCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGC
124 TTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGC
*
4552701 GCTGAA-C
189 GCT-AAGT
*
4552708 TGGTATTCTTCTCTGTATCTCATTAGGAAGATGACCGCCTCGCTTGTTTTGATTCGCTTCTCTGG
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTG---T--TTCGCTTCTCTGG
* *
4552773 ATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
61 ATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATT
* * * * *
4552838 GCTTCAACCTGCTTATCAGTGTCTCATCAGGAAGCTGGGTTAGAAGATTGGCTCGTGTTGAGCGT
126 GCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGC
*
4552903 TGAGT
191 TAAGT
*
4552908 TGGTATTCTTTTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTCGCTTCTCTGGATCTC
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTCGCTTCTCTGGATCTC
*
4552973 CTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTTATCAGGAAGCTAACCTTTTTATTGCTTC
66 CTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTC
4553038 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTTGAGCGCTAAG
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTG-TTGAGCGCTAAG
4553103 T
195 T
* * *
4553104 TGGTGTTTTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTCGCTTCTTTGGATCTC
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTCGCTTCTCTGGATCTC
4553169 CTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTC
66 CTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTC
* *
4553234 GACCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGTTCGAAGATTTGCTCGTGTCTGAGTGCTAAG
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGT-TGAGCGCTAAG
4553299 T
195 T
* * *
4553300 TGGTGTTGTTCTCTGTATCTCATCAGGAAGATTACCGCCT
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCT
4553340 TACCATTTTG
Statistics
Matches: 585, Mismatches: 40, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
195 129 0.22
196 237 0.41
197 5 0.01
198 1 0.00
199 1 0.00
200 176 0.30
201 36 0.06
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (195 bp):
TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTCGCTTCTCTGGATCTC
CTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTC
GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGCTAAGT
Found at i:4564401 original size:86 final size:86
Alignment explanation
Indices: 4564266--4564447 Score: 328
Period size: 86 Copynumber: 2.1 Consensus size: 86
4564256 GTTCCCCAAT
* *
4564266 GGAGTCGCCAGCTGTCGAAATCACCTCGAAAACGGGGCTTCGAAAAAAAAAAGTCAATCATTAAT
1 GGAGTCGCCAACTGTCGAAACCACCTCGAAAACGGGGCTTCGAAAAAAAAAAGTCAATCATTAAT
4564331 TTTGAAACAAAAAGGGAAATG
66 TTTGAAACAAAAAGGGAAATG
*
4564352 GGAGTCGCCAACTGTCGAAACCACCTCGAGAACGGGGCTTCGAAAAAAAAAAGTCAATCATTAAT
1 GGAGTCGCCAACTGTCGAAACCACCTCGAAAACGGGGCTTCGAAAAAAAAAAGTCAATCATTAAT
4564417 TTTGAAACAAAAAGGGAAATG
66 TTTGAAACAAAAAGGGAAATG
*
4564438 GGAGTTGCCA
1 GGAGTCGCCA
4564448 CCTATCTTTT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 92 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (86 bp):
GGAGTCGCCAACTGTCGAAACCACCTCGAAAACGGGGCTTCGAAAAAAAAAAGTCAATCATTAAT
TTTGAAACAAAAAGGGAAATG
Found at i:4565593 original size:29 final size:29
Alignment explanation
Indices: 4565561--4565817 Score: 139
Period size: 29 Copynumber: 8.8 Consensus size: 29
4565551 AAATCGAGGT
* *
4565561 TAAAAATGGGATTTTGGAGAGTTCAGGGG
1 TAAAAATGGAATTTTGGAAAGTTCAGGGG
4565590 T-AAAATGGTAATTTTTGGTGAAA--TC-GGGG
1 TAAAAATGG-AA-TTTT-G-GAAAGTTCAGGGG
* *
4565619 TTAAAAATGGGATTTTGGAAAGTT-TGAGGG
1 -TAAAAATGGAATTTTGGAAAGTTCAG-GGG
* *
4565649 T-AAAATGGTAATTTTGGTGAAA--TCAAGGT
1 TAAAAATGG-AATTTT-G-GAAAGTTCAGGGG
* *
4565678 TAAAAATGGGATTTTGAAAAGTTC-GAGGG
1 TAAAAATGGAATTTTGGAAAGTTCAG-GGG
* *
4565707 T-AAAATGGTAATTTTGGTAAAATT-AGGGT
1 TAAAAATGG-AATTTTGG-AAAGTTCAGGGG
*
4565736 TAAAAATGGGATTTTGGAAAGTTC-GAGGG
1 TAAAAATGGAATTTTGGAAAGTTCAG-GGG
*
4565765 T-AAAATGGTAATTTTTGG-AAGTTTCA-AGG
1 TAAAAATGG-AA-TTTTGGAAAG-TTCAGGGG
*
4565794 TCAAAAATGGAATTTTGGGAAGTT
1 T-AAAAATGGAATTTTGGAAAGTT
4565818 TGGGGACTAG
Statistics
Matches: 177, Mismatches: 20, Indels: 62
0.68 0.08 0.24
Matches are distributed among these distances:
27 7 0.04
28 36 0.20
29 66 0.37
30 46 0.26
31 19 0.11
32 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (29 bp):
TAAAAATGGAATTTTGGAAAGTTCAGGGG
Found at i:4565595 original size:59 final size:59
Alignment explanation
Indices: 4565500--4565782 Score: 412
Period size: 58 Copynumber: 4.8 Consensus size: 59
4565490 TAAAATGCAA
* * * * *
4565500 GTTAAAAATGAGACTATGGAAAGTTCAAGGGCAAAATGGTAATTTTTGGTGAAATCGAG
1 GTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGAG
* *
4565559 GTTAAAAATGGGATTTTGGAGAGTTC-AGGGGTAAAATGGTAATTTTTGGTGAAATCGGG
1 GTTAAAAATGGGATTTTGGAAAGTTCGA-GGGTAAAATGGTAATTTTTGGTGAAATCGAG
* *
4565618 GTTAAAAATGGGATTTTGGAAAGTTTGAGGGTAAAATGGTAA-TTTTGGTGAAATCAAG
1 GTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGAG
* * *
4565676 GTTAAAAATGGGATTTTGAAAAGTTCGAGGGTAAAATGGTAA-TTTTGGTAAAAT-TAGG
1 GTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGA-G
4565734 GTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
1 GTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
4565783 AAGTTTCAAG
Statistics
Matches: 205, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
57 1 0.00
58 108 0.53
59 95 0.46
60 1 0.00
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (59 bp):
GTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGAG
Found at i:4565624 original size:30 final size:29
Alignment explanation
Indices: 4565532--4565779 Score: 119
Period size: 29 Copynumber: 8.5 Consensus size: 29
4565522 GTTCAAGGGC
*
4565532 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTT
* * **
4565562 AAAAATGG-GATTTTGGAGAGTTCAGGGG-T
1 -AAAATGGTAATTTTGGTGAAATC-GGGGTT
4565591 AAAATGGTAATTTTTGGTGAAATCGGGGTT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTT
* *
4565621 AAAAATGG-GATTTT-G-GAAAGTTTGAGGG-T
1 -AAAATGGTAATTTTGGTGAAA--TCG-GGGTT
**
4565650 AAAATGGTAATTTTGGTGAAATCAAGGTT
1 AAAATGGTAATTTTGGTGAAATCGGGGTT
* *
4565679 AAAAATGG-GATTTT-G-AAAAGTTCGAGGG-T
1 -AAAATGGTAATTTTGGTGAAA--TCG-GGGTT
* **
4565708 AAAATGGTAATTTTGGTAAAATTAGGGTT
1 AAAATGGTAATTTTGGTGAAATCGGGGTT
*
4565737 AAAAATGG-GATTTT-G-GAAAGTTCGAGGG-T
1 -AAAATGGTAATTTTGGTGAAA--TCG-GGGTT
4565766 AAAATGGTAATTTT
1 AAAATGGTAATTTT
4565780 TGGAAGTTTC
Statistics
Matches: 165, Mismatches: 27, Indels: 52
0.68 0.11 0.21
Matches are distributed among these distances:
27 10 0.06
28 36 0.22
29 57 0.35
30 40 0.24
31 22 0.13
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTT
Found at i:4565692 original size:58 final size:58
Alignment explanation
Indices: 4565492--4565817 Score: 406
Period size: 59 Copynumber: 5.6 Consensus size: 58
4565482 AAAAAATGTA
* * * * *
4565492 AAATGCAA-GTTAAAAATGAGACTATGGAAAGTTCAAGGGCAAAATGGTAATTTTTGGTG
1 AAAT-CAAGGTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAA-TTTTGGTG
* *
4565551 AAATCGAGGTTAAAAATGGGATTTTGGAGAGTTC-AGGGGTAAAATGGTAATTTTTGGTG
1 AAATCAAGGTTAAAAATGGGATTTTGGAAAGTTCGA-GGGTAAAATGGTAA-TTTTGGTG
** *
4565610 AAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTGGTG
1 AAATCAAGGTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTGGTG
* *
4565668 AAATCAAGGTTAAAAATGGGATTTTGAAAAGTTCGAGGGTAAAATGGTAATTTTGGTA
1 AAATCAAGGTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTGGTG
* * *
4565726 AAATTAGGGTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTG-G
1 AAATCAAGGTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTGGTG
* * * *
4565783 AAGTTTCAAGGTCAAAAATGGAATTTTGGGAAGTT
1 AA--ATCAAGGTTAAAAATGGGATTTTGGAAAGTT
4565818 TGGGGACTAG
Statistics
Matches: 237, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
57 2 0.01
58 116 0.49
59 118 0.50
60 1 0.00
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (58 bp):
AAATCAAGGTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTGGTG
Found at i:4565817 original size:117 final size:117
Alignment explanation
Indices: 4565500--4565817 Score: 419
Period size: 117 Copynumber: 2.7 Consensus size: 117
4565490 TAAAATGCAA
* * * * * *
4565500 GTTAAAAATGAGACTATGGAAAGTTCAAGGGCAAAATGGTAATTTTTGGTGAAATCGAGGTTAAA
1 GTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTT-GTGAAATCAAGGTTAAA
* *
4565565 AATGGGATTTT-GGAGAGTTCAGGGGTAAAATGGTAATTTTTGGTGAAATCGGG
65 AATGGGATTTTGGGA-AGTTCAGGGGTAAAATGGTAATTTTTGGTAAAATCAGG
* *
4565618 GTTAAAAATGGGATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTGGTGAAATCAAGGTTAAAA
1 GTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGTGAAATCAAGGTTAAAA
** *
4565683 ATGGGATTTTGAAAAGTTC-GAGGGTAAAATGGTAA-TTTTGGTAAAATTAGG
66 ATGGGATTTTGGGAAGTTCAG-GGGTAAAATGGTAATTTTTGGTAAAATCAGG
* *
4565734 GTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTG-GAAGTTTCAAGGTCAA
1 GTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGTGAA--ATCAAGGTTAA
*
4565798 AAATGGAATTTTGGGAAGTT
64 AAATGGGATTTTGGGAAGTT
4565818 TGGGGACTAG
Statistics
Matches: 176, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
115 3 0.02
116 60 0.34
117 72 0.41
118 41 0.23
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (117 bp):
GTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGTGAAATCAAGGTTAAAA
ATGGGATTTTGGGAAGTTCAGGGGTAAAATGGTAATTTTTGGTAAAATCAGG
Found at i:4567813 original size:16 final size:15
Alignment explanation
Indices: 4567792--4567823 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
4567782 TTCTAGTTAT
4567792 TTTAAATTTATTTAAA
1 TTTAAATTT-TTTAAA
4567808 TTTAAATTTTTTAAA
1 TTTAAATTTTTTAAA
4567823 T
1 T
4567824 GTATTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAAATTTTTTAAA
Found at i:4567828 original size:25 final size:25
Alignment explanation
Indices: 4567791--4567839 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
4567781 TTTCTAGTTA
*
4567791 TTTTAAATTTATTTAAATTTAAATT
1 TTTTAAATGTATTTAAATTTAAATT
4567816 TTTTAAATGTATTTAAATTTAAAT
1 TTTTAAATGTATTTAAATTTAAAT
4567840 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTTAAATGTATTTAAATTTAAATT
Found at i:4567838 original size:16 final size:16
Alignment explanation
Indices: 4567792--4567858 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
4567782 TTCTAGTTAT
**
4567792 TTTAAATTTATTTAAA
1 TTTAAATTTAAATAAA
**
4567808 TTTAAATTTTTTAAATGTA
1 TTTAAA---TTTAAATAAA
4567827 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
* *
4567843 TTTAAAATTAATTAAA
1 TTTAAATTTAAATAAA
4567859 ACTTAATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
16 28 0.70
19 12 0.30
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:4569505 original size:15 final size:17
Alignment explanation
Indices: 4569484--4569522 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
4569474 AAAAGTAATA
*
4569484 AAATTAATA-TATTAAT
1 AAATTAATATTATAAAT
4569500 -AATTAATATTATAAAT
1 AAATTAATATTATAAAT
4569516 AAATTAA
1 AAATTAA
4569523 AGTTAGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 8 0.40
16 6 0.30
17 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTAATATTATAAAT
Found at i:4569783 original size:30 final size:30
Alignment explanation
Indices: 4569734--4569807 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
4569724 TTTAATGATT
* * * *
4569734 TATATTTTTATAATTTTTAAAAAATTAAAT
1 TATAATTTTATTATATTTAAAAAATTAAAA
*
4569764 TA-AATCTTTATTATATTTAAAAAGTTAAAA
1 TATAAT-TTTATTATATTTAAAAAATTAAAA
4569794 TATAATTTTATTAT
1 TATAATTTTATTAT
4569808 TATTAATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 2 0.05
30 32 0.86
31 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TATAATTTTATTATATTTAAAAAATTAAAA
Found at i:4570356 original size:7 final size:7
Alignment explanation
Indices: 4570341--4570384 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
4570331 TGACTTTTTA
4570341 TATTATT
1 TATTATT
*
4570348 TATTTTT
1 TATTATT
4570355 TATTATT
1 TATTATT
4570362 TATTATT
1 TATTATT
*
4570369 TATTATA
1 TATTATT
*
4570376 TAATATT
1 TATTATT
4570383 TA
1 TA
4570385 AATTTATGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TATTATT
Found at i:4570358 original size:14 final size:14
Alignment explanation
Indices: 4570335--4570413 Score: 65
Period size: 14 Copynumber: 5.6 Consensus size: 14
4570325 CATCATTGAC
4570335 TTTTTATATTATTTA
1 TTTTT-TATTATTTA
4570350 TTTTTTATTATTTA
1 TTTTTTATTATTTA
* *
4570364 TTATTTATTATATA
1 TTTTTTATTATTTA
* * *
4570378 ATATTTA-AATTTA
1 TTTTTTATTATTTA
4570391 TGTTTTTA-TATTT-
1 T-TTTTTATTATTTA
4570404 TTTTTGTATT
1 TTTTT-TATT
4570414 TAAATTAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
12 4 0.08
13 7 0.13
14 37 0.70
15 5 0.09
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
TTTTTTATTATTTA
Found at i:4570366 original size:21 final size:20
Alignment explanation
Indices: 4570341--4570403 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
4570331 TGACTTTTTA
4570341 TATTATTTATTTTTTATTATT
1 TATTATTTATTTTTTA-TATT
* *
4570362 TATTATTTATTATATAATATT
1 TATTATTTATT-TTTTATATT
*
4570383 TA-AATTTATGTTTTTATATT
1 TATTATTTAT-TTTTTATATT
4570403 T
1 T
4570404 TTTTTGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 14 0.40
21 18 0.51
22 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTATTTATTTTTTATATT
Found at i:4581417 original size:16 final size:14
Alignment explanation
Indices: 4581387--4581421 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
4581377 TTTGACATTA
4581387 ATAAAATTTAAAAT
1 ATAAAATTTAAAAT
4581401 ATAACAATTTAAAA-
1 ATAA-AATTTAAAAT
4581415 ATAAAAT
1 ATAAAAT
4581422 ATAATGGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 8 0.40
15 9 0.45
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAAAATTTAAAAT
Found at i:4581652 original size:4 final size:4
Alignment explanation
Indices: 4581643--4581672 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
4581633 TGTTAGATCC
*
4581643 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
4581673 CCTTCCAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:4592490 original size:22 final size:22
Alignment explanation
Indices: 4592465--4592506 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4592455 ACTAAATATT
*
4592465 ATAAAA-AATAATTAAATAAATA
1 ATAAAATAA-AATAAAATAAATA
4592487 ATAAAATAAAATAAAATAAA
1 ATAAAATAAAATAAAATAAA
4592507 AATCTCTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAAATAAAATAAAATAAATA
Found at i:4592755 original size:15 final size:15
Alignment explanation
Indices: 4592735--4592767 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
4592725 AATACTTTAA
4592735 AAATTA-TAAAAATAT
1 AAATTACTAAAAAT-T
4592750 AAATTACTAAAAATT
1 AAATTACTAAAAATT
4592765 AAA
1 AAA
4592768 ATTTAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTACTAAAAATT
Found at i:4593255 original size:16 final size:16
Alignment explanation
Indices: 4593234--4593271 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4593224 TCGTAACATT
*
4593234 AAAAAATT-ATTTCATA
1 AAAAAATTAAATT-ATA
4593250 AAAAAATTAAATTATA
1 AAAAAATTAAATTATA
4593266 AAAAAA
1 AAAAAA
4593272 AAATATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAAATTAAATTATA
Found at i:4595348 original size:18 final size:18
Alignment explanation
Indices: 4595313--4595350 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4595303 TCAAAATTTT
*
4595313 ATTTTAATATTTTTATAC
1 ATTTTAATATTTTAATAC
4595331 ATTTTAAT-TTTATAATAC
1 ATTTTAATATTT-TAATAC
4595349 AT
1 AT
4595351 ATTTTATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTAATATTTTAATAC
Found at i:4596144 original size:105 final size:105
Alignment explanation
Indices: 4595991--4596204 Score: 277
Period size: 105 Copynumber: 2.0 Consensus size: 105
4595981 ACTATTTCGA
* * * * * * * *
4595991 TTAATTAATAATATTATAAAAATATAGAGATCAAGTTATGTTAAAAATTAAAATATAGAGATTAA
1 TTAATTAACAACAATATAAAAATATAGAGACCAAATTATATTAAAAATTAAAATATAAAGATCAA
* *
4596056 ATTTTAAATTTAGACATAATAAAAGGATTAAAACTAAAAT
66 ATCTCAAATTTAGACATAATAAAAGGATTAAAACTAAAAT
* *
4596096 TTAATTAACAACAATATAAAAATATAG-GCACCAAATTATATTAGAAATTAAATTATAAAGATCA
1 TTAATTAACAACAATATAAAAATATAGAG-ACCAAATTATATTAAAAATTAAAATATAAAGATCA
* * *
4596160 AATCTCAAATTTAGACATAATAGAGGGATTAAAATTAAAAT
65 AATCTCAAATTTAGACATAATAAAAGGATTAAAACTAAAAT
4596201 TTAA
1 TTAA
4596205 CCATTACTAA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
104 1 0.01
105 92 0.99
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (105 bp):
TTAATTAACAACAATATAAAAATATAGAGACCAAATTATATTAAAAATTAAAATATAAAGATCAA
ATCTCAAATTTAGACATAATAAAAGGATTAAAACTAAAAT
Found at i:4599353 original size:34 final size:34
Alignment explanation
Indices: 4599305--4599373 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
4599295 ACCTTTGGTG
*
4599305 TAGTTGAAGTTATTGAGTTGACGTGTTTGACTTT
1 TAGTTGAAGGTATTGAGTTGACGTGTTTGACTTT
4599339 TAGTTGAAGGTATTGAGTTGACGTGTTTGACTTT
1 TAGTTGAAGGTATTGAGTTGACGTGTTTGACTTT
4599373 T
1 T
4599374 TAATTACATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.20, C:0.06, G:0.28, T:0.46
Consensus pattern (34 bp):
TAGTTGAAGGTATTGAGTTGACGTGTTTGACTTT
Found at i:4616834 original size:29 final size:29
Alignment explanation
Indices: 4616797--4616860 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
4616787 CTAAAATTTG
* * *
4616797 AAAAGTATAAAAAATAAATTTTTGAAAAT
1 AAAAATATAAAAAATAAATTTCTAAAAAT
** *
4616826 AAAAATATAATGATTAAATTTCTAAAAAT
1 AAAAATATAAAAAATAAATTTCTAAAAAT
4616855 AAAAAT
1 AAAAAT
4616861 TTAATATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAAATATAAAAAATAAATTTCTAAAAAT
Found at i:4624868 original size:29 final size:28
Alignment explanation
Indices: 4624812--4624867 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
4624802 CGAATTTTAG
* *
4624812 GGTTTTTGACCTAAATAATACAAAAAAA
1 GGTTTTTAACCTAAAAAATACAAAAAAA
4624840 GGTTTTTAACCTAAAAAATACAAAAAAA
1 GGTTTTTAACCTAAAAAATACAAAAAAA
4624868 ATCATACACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.27
Consensus pattern (28 bp):
GGTTTTTAACCTAAAAAATACAAAAAAA
Found at i:4625024 original size:21 final size:24
Alignment explanation
Indices: 4624977--4625024 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
4624967 AAAATATTTT
4624977 TTATAAGAATTGTAAAAAATAATA
1 TTATAAGAATTGTAAAAAATAATA
*
4625001 TTATAA-AATTG-AAAAATTAA-A
1 TTATAAGAATTGTAAAAAATAATA
4625022 TTA
1 TTA
4625025 AATATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 8 0.35
23 5 0.22
24 6 0.26
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (24 bp):
TTATAAGAATTGTAAAAAATAATA
Found at i:4625409 original size:26 final size:26
Alignment explanation
Indices: 4625354--4625409 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
4625344 ACAGCAAATT
* * * *
4625354 TTTGAAGAAGGAAAGGAAGCTAAAGT
1 TTTGAAGAAGAAAAAGAAACTAAAGG
4625380 TTTGAAGAAGAAAAAGAAAC-AGAAGG
1 TTTGAAGAAGAAAAAGAAACTA-AAGG
4625406 TTTG
1 TTTG
4625410 CATAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.48, C:0.04, G:0.29, T:0.20
Consensus pattern (26 bp):
TTTGAAGAAGAAAAAGAAACTAAAGG
Found at i:4628247 original size:26 final size:26
Alignment explanation
Indices: 4628198--4628247 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
4628188 TCTGTTTAAA
**
4628198 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTTATTTAATAAGGTTTATG
*
4628224 TTTGAATTTATTTAATGAGGTTTA
1 TTTGAATTTATTTAATAAGGTTTA
4628248 GCATATGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (26 bp):
TTTGAATTTATTTAATAAGGTTTATG
Found at i:4631562 original size:17 final size:17
Alignment explanation
Indices: 4631540--4631573 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4631530 CTTATAATAA
*
4631540 TTAAATAATATTTAAAT
1 TTAAATAAGATTTAAAT
4631557 TTAAATAAGATTTAAAT
1 TTAAATAAGATTTAAAT
4631574 GAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TTAAATAAGATTTAAAT
Found at i:4634384 original size:29 final size:28
Alignment explanation
Indices: 4634338--4634396 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
4634328 TAACTATTTG
**
4634338 AACTAATTAATTACATTATAAAAATAGTA
1 AACTAATTAAAAACATTATAAAAATA-TA
* *
4634367 AACTAATTAAAAATATTATAAGAATATA
1 AACTAATTAAAAACATTATAAAAATATA
4634395 AA
1 AA
4634397 GATCAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (28 bp):
AACTAATTAAAAACATTATAAAAATATA
Found at i:4635899 original size:22 final size:22
Alignment explanation
Indices: 4635855--4635911 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
4635845 ATATCCAAAC
***
4635855 AATAATAACAAAACCGTAACAA
1 AATAATAACAAAACAACAACAA
*
4635877 AATAATAACAAAACAACACCAA
1 AATAATAACAAAACAACAACAA
* *
4635899 AACAATGACAAAA
1 AATAATAACAAAA
4635912 ACAATGAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.67, C:0.19, G:0.04, T:0.11
Consensus pattern (22 bp):
AATAATAACAAAACAACAACAA
Found at i:4639353 original size:17 final size:16
Alignment explanation
Indices: 4639311--4639350 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4639301 TCGATTAAAT
* *
4639311 AAATAATTAAAAATAA
1 AAATTATTAAAAAGAA
4639327 AAATTATTAAAAAGAA
1 AAATTATTAAAAAGAA
4639343 AAATTATT
1 AAATTATT
4639351 TAATTCAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AAATTATTAAAAAGAA
Found at i:4649338 original size:11 final size:11
Alignment explanation
Indices: 4649324--4649355 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
4649314 ATGTTTTACC
4649324 TTATAATATTA
1 TTATAATATTA
4649335 TTATAATATTA
1 TTATAATATTA
*
4649346 TTATAGTATT
1 TTATAATATT
4649356 TAATTTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (11 bp):
TTATAATATTA
Found at i:4659629 original size:18 final size:18
Alignment explanation
Indices: 4659594--4659642 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
4659584 ACGAACACAT
*
4659594 TTGGCGAACTCATCTAAA
1 TTGGCGAGCTCATCTAAA
4659612 TTGGCGAGCTCA-CATAAA
1 TTGGCGAGCTCATC-TAAA
* *
4659630 GTGGTGAGCTCAT
1 TTGGCGAGCTCAT
4659643 TGATTTTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (18 bp):
TTGGCGAGCTCATCTAAA
Found at i:4665316 original size:3 final size:3
Alignment explanation
Indices: 4665308--4665342 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4665298 CTGATCCCTC
4665308 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4665343 ATTTTTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4666001 original size:18 final size:18
Alignment explanation
Indices: 4665974--4666013 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4665964 TCTTATTGTG
*
4665974 TTTTAATGTTTTGTTATT
1 TTTTAATGTTTTCTTATT
*
4665992 TTTTAGTGTTTTCTTATT
1 TTTTAATGTTTTCTTATT
4666010 TTTT
1 TTTT
4666014 TTACTTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.03, G:0.10, T:0.75
Consensus pattern (18 bp):
TTTTAATGTTTTCTTATT
Found at i:4666324 original size:35 final size:35
Alignment explanation
Indices: 4666283--4666355 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
4666273 AATTTAAGAG
*
4666283 TTTAATTTTAGGTTTTGGGTTTGAATTTAATAACT
1 TTTAATTTTAGGTTTTAGGTTTGAATTTAATAACT
* *
4666318 TTTAATTTTGGGTTTTAGTTTTGAATTTAATAACT
1 TTTAATTTTAGGTTTTAGGTTTGAATTTAATAACT
4666353 TTT
1 TTT
4666356 TTATATTAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.58
Consensus pattern (35 bp):
TTTAATTTTAGGTTTTAGGTTTGAATTTAATAACT
Found at i:4667174 original size:13 final size:14
Alignment explanation
Indices: 4667156--4667184 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4667146 TTATTTCATA
4667156 TTTTTA-AATTTTT
1 TTTTTATAATTTTT
4667169 TTTTTATAATTTTT
1 TTTTTATAATTTTT
4667183 TT
1 TT
4667185 GATTGAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTATAATTTTT
Found at i:4671596 original size:25 final size:25
Alignment explanation
Indices: 4671560--4671612 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
4671550 CGTCATTCTT
*
4671560 ATTGTAAGGAAAAAACTAATTTGTC
1 ATTGTAAAGAAAAAACTAATTTGTC
*
4671585 ATTGTAAAGAAAAATCTAATTTGTC
1 ATTGTAAAGAAAAAACTAATTTGTC
4671610 ATT
1 ATT
4671613 CTCTTATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (25 bp):
ATTGTAAAGAAAAAACTAATTTGTC
Found at i:4674600 original size:13 final size:13
Alignment explanation
Indices: 4674582--4674607 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4674572 TTTTATTTAA
4674582 CCTTATAGAATTT
1 CCTTATAGAATTT
4674595 CCTTATAGAATTT
1 CCTTATAGAATTT
4674608 AGAACTGCTG
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:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
CCTTATAGAATTT
Found at i:4691305 original size:2 final size:2
Alignment explanation
Indices: 4691298--4691334 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4691288 AATTATGAGC
4691298 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
4691335 AAAGAAGCAC
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:4700524 original size:31 final size:31
Alignment explanation
Indices: 4700428--4700525 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 31
4700418 ATTTAATTTT
4700428 TTTTGTCC-AATTTGGTA-CTCAAAC-TGATAC
1 TTTT-TCCTAATTTGGTACCT-AAACTTGATAC
* *
4700458 TTTTTGCTAATTTGGTACCTAAACTTGACAC
1 TTTTTCCTAATTTGGTACCTAAACTTGATAC
* * * *
4700489 TTTTTCCTGATTTGGTATCTAAAGTTGATAT
1 TTTTTCCTAATTTGGTACCTAAACTTGATAC
4700520 TTTTTC
1 TTTTTC
4700526 TTAAGTTGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
29 2 0.04
30 17 0.30
31 38 0.67
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.47
Consensus pattern (31 bp):
TTTTTCCTAATTTGGTACCTAAACTTGATAC
Found at i:4701056 original size:32 final size:28
Alignment explanation
Indices: 4700983--4701058 Score: 71
Period size: 32 Copynumber: 2.6 Consensus size: 28
4700973 ATTTAATAAA
* *
4700983 TTTAGGTACCAAATTGAATATAAAAAAT
1 TTTAGGTACCAAATTGAAAAAAAAAAAT
* **
4701011 CTTAGGTGTCAAATTAGAAAAAAAATATCAAT
1 TTTAGGTACCAAATT-GAAAAAAAA-A--AAT
4701043 TTTAGGTACCAAATTG
1 TTTAGGTACCAAATTG
4701059 GGTCCAAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
28 12 0.33
29 7 0.19
30 1 0.03
31 1 0.03
32 15 0.42
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (28 bp):
TTTAGGTACCAAATTGAAAAAAAAAAAT
Found at i:4701091 original size:59 final size:59
Alignment explanation
Indices: 4700980--4701171 Score: 185
Period size: 59 Copynumber: 3.3 Consensus size: 59
4700970 AACATTTAAT
* ** * * *
4700980 AAATTTAGGTACCAAATTGAATATAAAAAATCTTAGGTGTCAAATTAGAAAAAAAATATC
1 AAATTTAGGTACCAAATTGAGTCCAAAAAAT-TTAGATATCAAATTATAAAAAAAATATC
* * *
4701040 AATTTTAGGTACCAAATTGGGTCCAAAAAATTTAGATATCAAATTATAAAAAAAGTATC
1 AAATTTAGGTACCAAATTGAGTCCAAAAAATTTAGATATCAAATTATAAAAAAAATATC
* * * * * *
4701099 AAGTTCATGTACCAAATT-AGACCAAAAAAATTTAAATACCAAA-T-T-AAAAAAATATC
1 AAATTTAGGTACCAAATTGAGTCC-AAAAAATTTAGATATCAAATTATAAAAAAAATATC
* *
4701155 AAACTTAGATACCAAAT
1 AAATTTAGGTACCAAAT
4701172 ATTACATTAA
Statistics
Matches: 109, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
56 22 0.20
57 1 0.01
58 4 0.04
59 56 0.51
60 26 0.24
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (59 bp):
AAATTTAGGTACCAAATTGAGTCCAAAAAATTTAGATATCAAATTATAAAAAAAATATC
Found at i:4701632 original size:2 final size:2
Alignment explanation
Indices: 4701627--4701655 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4701617 AAAGCATTGT
4701627 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4701656 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4719513 original size:14 final size:15
Alignment explanation
Indices: 4719459--4719530 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 15
4719449 GATTTAGTAT
* *
4719459 TTAATTTTGTAAGAC
1 TTAATTTTTTAATAC
**
4719474 TT-ATTTTTTCAGCAC
1 TTAATTTTTT-AATAC
*
4719489 TTAAATTTTTAATA-
1 TTAATTTTTTAATAC
* *
4719503 TTTATTTTTTAACAC
1 TTAATTTTTTAATAC
4719518 TTAATTTTTTAAT
1 TTAATTTTTTAAT
4719531 TTATTAAATA
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
14 17 0.40
15 20 0.47
16 6 0.14
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (15 bp):
TTAATTTTTTAATAC
Found at i:4719535 original size:27 final size:30
Alignment explanation
Indices: 4719474--4719530 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
4719464 TTTGTAAGAC
*
4719474 TTATTTTTTCAGCACTTAAATTTTTAATAT
1 TTATTTTTTCAACACTTAAATTTTTAATAT
*
4719504 TTATTTTTT-AACACTTAATTTTTTAAT
1 TTATTTTTTCAACACTTAAATTTTTAAT
4719531 TTATTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (30 bp):
TTATTTTTTCAACACTTAAATTTTTAATAT
Found at i:4721616 original size:26 final size:24
Alignment explanation
Indices: 4721577--4721629 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
4721567 TTACATGTTT
* *
4721577 TTTTTTTAAATTTACTAAATAATATA
1 TTTTTATAAATTTA-AAAAT-ATATA
*
4721603 TTTTTATAATTTTAAAAATATATA
1 TTTTTATAAATTTAAAAATATATA
4721627 TTT
1 TTT
4721630 GCTAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.33
25 4 0.17
26 12 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTTATAAATTTAAAAATATATA
Found at i:4721625 original size:22 final size:23
Alignment explanation
Indices: 4721579--4721625 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
4721569 ACATGTTTTT
4721579 TTTTTAAATTTACTAAATAATATA
1 TTTTTAAATTTA-TAAATAATATA
4721603 TTTTTATAATTT-TAAA-AATATA
1 TTTTTA-AATTTATAAATAATATA
4721625 T
1 T
4721626 ATTTGCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 6 0.27
25 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTTAAATTTATAAATAATATA
Found at i:4721923 original size:6 final size:6
Alignment explanation
Indices: 4721914--4721951 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
4721904 ATAATAAATT
4721914 TTATAA TTATAA TTATATGA TTATAA TTATAA TTATAA
1 TTATAA TTATAA TTATA--A TTATAA TTATAA TTATAA
4721952 ATATCACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 24 0.80
8 6 0.20
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TTATAA
Found at i:4721927 original size:14 final size:14
Alignment explanation
Indices: 4721910--4721951 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4721900 AATAATAATA
4721910 AATTTTATAATTAT
1 AATTTTATAATTAT
* *
4721924 AATTATATGATTAT
1 AATTTTATAATTAT
4721938 AA--TTATAATTAT
1 AATTTTATAATTAT
4721950 AA
1 AA
4721952 ATATCACAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
14 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
AATTTTATAATTAT
Found at i:4727486 original size:23 final size:23
Alignment explanation
Indices: 4727456--4727500 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4727446 CCCGTCCTCA
*
4727456 TATATTAGAAAAAGTGCAAATTT
1 TATATTAGAAAAAGTACAAATTT
4727479 TATATTAGAAAAAGTACAAATT
1 TATATTAGAAAAAGTACAAATT
4727501 AATCCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.33
Consensus pattern (23 bp):
TATATTAGAAAAAGTACAAATTT
Found at i:4731092 original size:23 final size:23
Alignment explanation
Indices: 4731062--4731106 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4731052 CCCGTCCTCA
*
4731062 TATATTAGAAAAAGTGCAAATTT
1 TATATTAGAAAAAGTACAAATTT
4731085 TATATTAGAAAAAGTACAAATT
1 TATATTAGAAAAAGTACAAATT
4731107 AATCCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.33
Consensus pattern (23 bp):
TATATTAGAAAAAGTACAAATTT
Found at i:4736104 original size:16 final size:17
Alignment explanation
Indices: 4736070--4736105 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4736060 AAATCAAGAG
*
4736070 TTTTACAAGATTTATTT
1 TTTTACAAGATTCATTT
*
4736087 TTTTACAATATTCATTT
1 TTTTACAAGATTCATTT
4736104 TT
1 TT
4736106 ATTTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTACAAGATTCATTT
Found at i:4736119 original size:19 final size:18
Alignment explanation
Indices: 4736084--4736123 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
4736074 ACAAGATTTA
*
4736084 TTTTTTTACAATATTCAT
1 TTTTTTTAAAATATTCAT
*
4736102 TTTTATTTAAAATTTTCAT
1 TTTT-TTTAAAATATTCAT
4736121 TTT
1 TTT
4736124 AAATTATGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTTTAAAATATTCAT
Found at i:4736719 original size:2 final size:2
Alignment explanation
Indices: 4736714--4736745 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4736704 TATAATTTTA
4736714 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4736746 GAGAATTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4736723 original size:25 final size:25
Alignment explanation
Indices: 4736673--4736727 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
4736663 ACGCGGTGTT
*
4736673 TATTTTTTAAATTTATTAAATAATA
1 TATTTTTTAAATTTAATAAATAATA
* *
4736698 TATTTTTATAATTTTAATATATATATA
1 TATTTTT-TAAATTTAATAAATA-ATA
4736725 TAT
1 TAT
4736728 ATATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.28
26 12 0.48
27 6 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TATTTTTTAAATTTAATAAATAATA
Found at i:4743265 original size:12 final size:12
Alignment explanation
Indices: 4743247--4743306 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 12
4743237 TTCACGAACA
4743247 AGCTCGTTTATT
1 AGCTCGTTTATT
* *
4743259 GGCTCGTTTATA
1 AGCTCGTTTATT
*
4743271 AGCTCATTTATT
1 AGCTCGTTTATT
* *
4743283 AACTCGTTTATG
1 AGCTCGTTTATT
*
4743295 A-CTCATTTATT
1 AGCTCGTTTATT
4743306 A
1 A
4743307 TTAATGATAT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
11 9 0.24
12 29 0.76
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (12 bp):
AGCTCGTTTATT
Found at i:4743303 original size:23 final size:24
Alignment explanation
Indices: 4743246--4743306 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
4743236 GTTCACGAAC
* **
4743246 AAGCTCGTTTATTGGCTCGTTTAT
1 AAGCTCATTTATTAACTCGTTTAT
4743270 AAGCTCATTTATTAACTCGTTTAT
1 AAGCTCATTTATTAACTCGTTTAT
*
4743294 GA-CTCATTTATTA
1 AAGCTCATTTATTA
4743307 TTAATGATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 11 0.33
24 22 0.67
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (24 bp):
AAGCTCATTTATTAACTCGTTTAT
Found at i:4743444 original size:12 final size:12
Alignment explanation
Indices: 4743395--4743446 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
4743385 TTATTTATTA
*
4743395 TTCATTAACATCG
1 TTCATGAACAT-G
4743408 TTCATGAACATG
1 TTCATGAACATG
*** *
4743420 TTCAACTATATG
1 TTCATGAACATG
4743432 TTCATGAACATG
1 TTCATGAACATG
4743444 TTC
1 TTC
4743447 TATTAAGTTA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (12 bp):
TTCATGAACATG
Found at i:4743531 original size:28 final size:28
Alignment explanation
Indices: 4743477--4743537 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
4743467 TTCGCGAGCA
* * *
4743477 TAAACAAACGAACATGAACACATAATTT
1 TAAATAAACGAACATGAACAAAAAATTT
*
4743505 TAAATAAATGAACATGAACAAAAAATTT
1 TAAATAAACGAACATGAACAAAAAATTT
*
4743533 AAAAT
1 TAAAT
4743538 TCTTAACAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.23
Consensus pattern (28 bp):
TAAATAAACGAACATGAACAAAAAATTT
Found at i:4753161 original size:6 final size:6
Alignment explanation
Indices: 4753150--4753174 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4753140 AATGATGTAT
4753150 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
4753175 GGTGGTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:4761620 original size:20 final size:21
Alignment explanation
Indices: 4761577--4761634 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
4761567 GCTTGAATCG
4761577 ATTTTTAT-TTTT-TTTAAAT
1 ATTTTTATATTTTATTTAAAT
*
4761596 ATTTTTATATTTTAATTAAAT
1 ATTTTTATATTTTATTTAAAT
* *
4761617 -TTTTAATAATTTATTTAA
1 ATTTTTATATTTTATTTAA
4761635 TTGAATCGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 8 0.24
20 19 0.58
21 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTTTATATTTTATTTAAAT
Found at i:4767755 original size:31 final size:32
Alignment explanation
Indices: 4767720--4767790 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
4767710 GTTATAAGAT
*
4767720 AGTCACTAAATTATTT-AAAAATTTTCATTTA
1 AGTCACTAAACTATTTGAAAAATTTTCATTTA
* * ** *
4767751 AGTCATTGAACTATTTGAAAGTTTTTTATTTA
1 AGTCACTAAACTATTTGAAAAATTTTCATTTA
4767783 AGTCACTA
1 AGTCACTA
4767791 GATTGGATTG
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
31 13 0.42
32 18 0.58
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (32 bp):
AGTCACTAAACTATTTGAAAAATTTTCATTTA
Found at i:4768263 original size:24 final size:24
Alignment explanation
Indices: 4768229--4768283 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
4768219 TGACATTCAA
*
4768229 AATTGTTTCATAAGAAAAAAATTG
1 AATTGTATCATAAGAAAAAAATTG
*
4768253 AATTGTATCATGAGAAAAAAATTG
1 AATTGTATCATAAGAAAAAAATTG
4768277 AATTGTA
1 AATTGTA
4768284 GAAGAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.49, C:0.04, G:0.15, T:0.33
Consensus pattern (24 bp):
AATTGTATCATAAGAAAAAAATTG
Found at i:4775510 original size:22 final size:21
Alignment explanation
Indices: 4775461--4775511 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4775451 GAATCAATTA
*
4775461 TTTTGTTATTGTTTCACTGCT
1 TTTTGCTATTGTTTCACTGCT
* *
4775482 TTTTGCTATTGTTTCGCTGTT
1 TTTTGCTATTGTTTCACTGCT
4775503 GTTTTGCTA
1 -TTTTGCTA
4775512 CCATTCCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.08, C:0.14, G:0.18, T:0.61
Consensus pattern (21 bp):
TTTTGCTATTGTTTCACTGCT
Found at i:4783870 original size:15 final size:18
Alignment explanation
Indices: 4783841--4783877 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
4783831 TAATTAAAAG
4783841 AAAAAATCATAAATTT-T
1 AAAAAATCATAAATTTCT
4783858 AAAAAAT-AT-AATTTCT
1 AAAAAATCATAAATTTCT
4783874 AAAA
1 AAAA
4783878 TTTATAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 7 0.37
17 7 0.37
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAAATCATAAATTTCT
Found at i:4784515 original size:8 final size:8
Alignment explanation
Indices: 4784488--4784546 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 8
4784478 CACGACAAAT
4784488 AATTAAAA
1 AATTAAAA
*
4784496 AATTATATA
1 AATTA-AAA
4784505 AATTAAAA
1 AATTAAAA
4784513 AATTTAAAA
1 AA-TTAAAA
4784522 AATTCATAAA
1 AATT-A-AAA
4784532 AATTCAAAA
1 AATT-AAAA
4784541 AGATTA
1 A-ATTA
4784547 GCATATTAGC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
8 11 0.25
9 21 0.48
10 12 0.27
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (8 bp):
AATTAAAA
Found at i:4784524 original size:17 final size:17
Alignment explanation
Indices: 4784488--4784546 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
4784478 CACGACAAAT
*
4784488 AATTAAAAAA-TTATATA
1 AATTAAAAAATTTA-AAA
4784505 AATTAAAAAATTTAAAA
1 AATTAAAAAATTTAAAA
*
4784522 AATTCATAAAAATTCAAAA
1 AATT-A-AAAAATTTAAAA
4784541 AGATTA
1 A-ATTA
4784547 GCATATTAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
17 16 0.44
18 4 0.11
19 13 0.36
20 3 0.08
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (17 bp):
AATTAAAAAATTTAAAA
Found at i:4784540 original size:26 final size:26
Alignment explanation
Indices: 4784490--4784541 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
4784480 CGACAAATAA
*
4784490 TTAAAAAATTATATAAATTAAAAAAT
1 TTAAAAAATTATAAAAATTAAAAAAT
*
4784516 TTAAAAAATTCATAAAAATTCAAAAA
1 TTAAAAAATT-ATAAAAATTAAAAAA
4784542 GATTAGCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TTAAAAAATTATAAAAATTAAAAAAT
Found at i:4786986 original size:2 final size:2
Alignment explanation
Indices: 4786979--4787049 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
4786969 AACTTTAAAC
4786979 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4787021 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 A
4787050 GTATCTAAGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4791734 original size:24 final size:24
Alignment explanation
Indices: 4791702--4791752 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
4791692 TTCCCATGTG
* *
4791702 GACATTGCCATGTATGCAACTGTT
1 GACATTGCCACGTATGCAACTGCT
4791726 GACATTGCCACGTATGCAACTGCT
1 GACATTGCCACGTATGCAACTGCT
4791750 GAC
1 GAC
4791753 GTGGCATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (24 bp):
GACATTGCCACGTATGCAACTGCT
Found at i:4793294 original size:14 final size:15
Alignment explanation
Indices: 4793263--4793297 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4793253 AAAGTCTTAA
4793263 AAAAATAAATATTGT
1 AAAAATAAATATTGT
*
4793278 AAAAATAGATATT-T
1 AAAAATAAATATTGT
4793292 AAAAAT
1 AAAAAT
4793298 CTTAGTTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (15 bp):
AAAAATAAATATTGT
Found at i:4796067 original size:12 final size:12
Alignment explanation
Indices: 4796026--4796115 Score: 75
Period size: 12 Copynumber: 7.9 Consensus size: 12
4796016 GTTTTTTACT
*
4796026 TTTTTGATTGCTA
1 TTTTTG-TTGTTA
4796039 TTTTTG-TGTT-
1 TTTTTGTTGTTA
*
4796049 GTTTTGTTGTTA
1 TTTTTGTTGTTA
4796061 TTTTTGTTG---
1 TTTTTGTTGTTA
*
4796070 -TTTTGCTGTTA
1 TTTTTGTTGTTA
* *
4796081 TTTTTGCTGCTA
1 TTTTTGTTGTTA
*
4796093 TTTTGGTTGTTA
1 TTTTTGTTGTTA
4796105 TTTTTGTTGTT
1 TTTTTGTTGTT
4796116 TGGATGTTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
8 7 0.11
10 5 0.08
11 7 0.11
12 37 0.60
13 6 0.10
ACGTcount: A:0.07, C:0.04, G:0.20, T:0.69
Consensus pattern (12 bp):
TTTTTGTTGTTA
Found at i:4796070 original size:20 final size:20
Alignment explanation
Indices: 4796040--4796129 Score: 99
Period size: 20 Copynumber: 4.2 Consensus size: 20
4796030 TGATTGCTAT
4796040 TTTTGTGTTGTTTTGTTGTTA
1 TTTT-TGTTGTTTTGTTGTTA
*
4796061 TTTTTGTTGTTTTGCTGTTA
1 TTTTTGTTGTTTTGTTGTTA
*
4796081 TTTTTGCTGCTATTTTGGTTGTTA
1 TTTTTG-T--TGTTTT-GTTGTTA
* *
4796105 TTTTTGTTGTTTGGATGTTA
1 TTTTTGTTGTTTTGTTGTTA
4796125 TTTTT
1 TTTTT
4796130 ATGCGTTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
20 32 0.54
21 9 0.15
23 6 0.10
24 12 0.20
ACGTcount: A:0.07, C:0.03, G:0.21, T:0.69
Consensus pattern (20 bp):
TTTTTGTTGTTTTGTTGTTA
Found at i:4796104 original size:44 final size:42
Alignment explanation
Indices: 4796037--4796129 Score: 132
Period size: 44 Copynumber: 2.2 Consensus size: 42
4796027 TTTTGATTGC
* * * *
4796037 TATTTTTGTGTTGTTTTGTTGTTATTTTTGTTGTTTTGCTGT
1 TATTTTTGTGCTATTTTGTTGTTATTTTTGTTGTTTGGATGT
4796079 TATTTTTGCTGCTATTTTGGTTGTTATTTTTGTTGTTTGGATGT
1 TATTTTTG-TGCTATTTT-GTTGTTATTTTTGTTGTTTGGATGT
4796123 TATTTTT
1 TATTTTT
4796130 ATGCGTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 8 0.18
43 7 0.16
44 30 0.67
ACGTcount: A:0.08, C:0.03, G:0.20, T:0.69
Consensus pattern (42 bp):
TATTTTTGTGCTATTTTGTTGTTATTTTTGTTGTTTGGATGT
Found at i:4815196 original size:27 final size:28
Alignment explanation
Indices: 4815166--4815230 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 28
4815156 AATTTTTATA
*
4815166 ATTTTTATTTTAGATATTA-AAAAAATC
1 ATTTTTATTTTAGATACTATAAAAAATC
** *
4815193 A-TTTTA-GGTA-ATACTATTAAAAATC
1 ATTTTTATTTTAGATACTATAAAAAATC
4815218 ATTTTTATTTTAG
1 ATTTTTATTTTAG
4815231 TGATTCATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 7
0.68 0.15 0.17
Matches are distributed among these distances:
24 5 0.18
25 10 0.36
26 10 0.36
27 3 0.11
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (28 bp):
ATTTTTATTTTAGATACTATAAAAAATC
Found at i:4819148 original size:31 final size:29
Alignment explanation
Indices: 4819106--4819167 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 29
4819096 TTACAAAATG
4819106 GTCATTAAACTATTCAAAATTTTTAATTTAA
1 GTCATTAAACTATTCAAAA-TTTT-ATTTAA
* *
4819137 GTCATTGAACTATTTAAAATTTTATTTAA
1 GTCATTAAACTATTCAAAATTTTATTTAA
4819166 GT
1 GT
4819168 TGTTGGGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 8 0.28
30 4 0.14
31 17 0.59
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (29 bp):
GTCATTAAACTATTCAAAATTTTATTTAA
Found at i:4819451 original size:27 final size:29
Alignment explanation
Indices: 4819394--4819451 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
4819384 ATATAACATT
* *
4819394 AATAAAAGATATATAATTATTAAATATTA
1 AATAAAAGAAATATAATTATTAAAAATTA
*
4819423 AATAAAATAAATAT-ATT-TTAAAAATTA
1 AATAAAAGAAATATAATTATTAAAAATTA
4819450 AA
1 AA
4819452 AAGTAGTCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 11 0.42
28 3 0.12
29 12 0.46
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AATAAAAGAAATATAATTATTAAAAATTA
Found at i:4825687 original size:2 final size:2
Alignment explanation
Indices: 4825680--4825716 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4825670 ATATGATTTG
4825680 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
4825717 AAAGAATGTT
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:4825915 original size:23 final size:24
Alignment explanation
Indices: 4825889--4825934 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
4825879 AAAATTAAAT
4825889 TATAATTTTT-AA-GATAGTAAAAA
1 TATAATTTTTGAAGGATAG-AAAAA
4825912 TATAATTTTTGAAGGATAGAAAA
1 TATAATTTTTGAAGGATAGAAAA
4825935 TACATAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 6 0.29
25 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (24 bp):
TATAATTTTTGAAGGATAGAAAAA
Found at i:4825921 original size:24 final size:23
Alignment explanation
Indices: 4825889--4825934 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
4825879 AAAATTAAAT
*
4825889 TATAATTTTTAA-GATAGTAAAAA
1 TATAATTTTGAAGGATAG-AAAAA
4825912 TATAATTTTTGAAGGATAGAAAA
1 TATAA-TTTTGAAGGATAGAAAA
4825935 TACATAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (23 bp):
TATAATTTTGAAGGATAGAAAAA
Found at i:4830320 original size:16 final size:17
Alignment explanation
Indices: 4830295--4830327 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4830285 CCAATATTTA
4830295 TAAAAATAT-AAATTAT
1 TAAAAATATAAAATTAT
*
4830311 TAAAATTATAAAATTAT
1 TAAAAATATAAAATTAT
4830328 ATTTTAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAAATATAAAATTAT
Done.