Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 203 of 211
Found at i:59823437 original size:16 final size:17
Alignment explanation
Indices: 59823397--59823429 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
59823387 ATACGAAAAA
*
59823397 AAAAATTTGAAGACACG
1 AAAATTTTGAAGACACG
59823414 AAAATTTTGAA-ACACG
1 AAAATTTTGAAGACACG
59823430 GAATTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (17 bp):
AAAATTTTGAAGACACG
Found at i:59823443 original size:20 final size:20
Alignment explanation
Indices: 59823418--59823460 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
59823408 GACACGAAAA
59823418 TTTTG-AAACACGGAATTTTT
1 TTTTGAAAACAC-GAATTTTT
59823438 TTTTGAAAACACGAATTTTT
1 TTTTGAAAACACGAATTTTT
59823458 TTT
1 TTT
59823461 AAATAATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (20 bp):
TTTTGAAAACACGAATTTTT
Found at i:59823606 original size:6 final size:6
Alignment explanation
Indices: 59823595--59823627 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
59823585 TAAAATAAAG
59823595 TAAAAT TAAAAT TAAAAT T-AAAT T-AAAT TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
59823628 ATATAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAAAT
Found at i:59823612 original size:12 final size:12
Alignment explanation
Indices: 59823595--59823627 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
59823585 TAAAATAAAG
59823595 TAAAATTAAAAT
1 TAAAATTAAAAT
59823607 TAAAATT-AAAT
1 TAAAATTAAAAT
59823618 T-AAATTAAAA
1 TAAAATTAAAA
59823628 ATATAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.25
11 8 0.40
12 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAATTAAAAT
Found at i:59823612 original size:22 final size:21
Alignment explanation
Indices: 59823584--59823650 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
59823574 TTAAAATTAT
59823584 TTAAAATAAAGTAAAATTAAAA
1 TTAAAATAAA-TAAAATTAAAA
*
59823606 TTAAAATTAAATTAAATTAAAA
1 TTAAAA-TAAATAAAATTAAAA
* *
59823628 ATATAAATACA-AAAATATAAAA
1 TTA-AAATAAATAAAAT-TAAAA
59823650 T
1 T
59823651 GCATGAAGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 4 0.11
22 26 0.70
23 7 0.19
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (21 bp):
TTAAAATAAATAAAATTAAAA
Found at i:59823628 original size:17 final size:18
Alignment explanation
Indices: 59823584--59823635 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
59823574 TTAAAATTAT
*
59823584 TTAAAA-TAAAGTA-AAA
1 TTAAAATTAAAATATAAA
59823600 TTAAAATTAAAAT-TAAA
1 TTAAAATTAAAATATAAA
59823617 TT-AAATTAAAAATATAAA
1 TTAAAATT-AAAATATAAA
59823635 T
1 T
59823636 ACAAAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 11 0.35
17 15 0.48
18 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
TTAAAATTAAAATATAAA
Found at i:59823954 original size:17 final size:17
Alignment explanation
Indices: 59823932--59823970 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
59823922 GCCTGCTTCT
59823932 TTTTTTTGCTTTGGGCA
1 TTTTTTTGCTTTGGGCA
*
59823949 TTTTTTTGCTTTGGGCC
1 TTTTTTTGCTTTGGGCA
59823966 TTTTT
1 TTTTT
59823971 GTTTCTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.03, C:0.13, G:0.21, T:0.64
Consensus pattern (17 bp):
TTTTTTTGCTTTGGGCA
Found at i:59824074 original size:12 final size:12
Alignment explanation
Indices: 59824057--59824081 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59824047 GCTGGTTGCT
59824057 GTGGGTCGGGTC
1 GTGGGTCGGGTC
59824069 GTGGGTCGGGTC
1 GTGGGTCGGGTC
59824081 G
1 G
59824082 GTTTGACCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.16, G:0.60, T:0.24
Consensus pattern (12 bp):
GTGGGTCGGGTC
Found at i:59824130 original size:10 final size:10
Alignment explanation
Indices: 59824117--59824175 Score: 58
Period size: 9 Copynumber: 6.5 Consensus size: 10
59824107 TTTTGTTTTT
59824117 TTCTTTCTTC
1 TTCTTTCTTC
59824127 TTC-TTCTTC
1 TTCTTTCTTC
59824136 TTCTTTC-T-
1 TTCTTTCTTC
59824144 TTCTTTCTT-
1 TTCTTTCTTC
59824153 TT-TTT-TTC
1 TTCTTTCTTC
* *
59824161 TTTTTTCCTC
1 TTCTTTCTTC
59824171 TTCTT
1 TTCTT
59824176 CTCTCGGATC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
7 2 0.05
8 12 0.29
9 16 0.38
10 12 0.29
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (10 bp):
TTCTTTCTTC
Found at i:59824320 original size:23 final size:23
Alignment explanation
Indices: 59824277--59824321 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
59824267 TCTCCTCTTT
*
59824277 TCTCTTTTTTTTGAAGCTTTTTC
1 TCTCTTTTTTTTGAAACTTTTTC
*
59824300 TCTCTTTTTTTTGAAATTTTTT
1 TCTCTTTTTTTTGAAACTTTTT
59824322 TTGGTAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.13, G:0.07, T:0.69
Consensus pattern (23 bp):
TCTCTTTTTTTTGAAACTTTTTC
Found at i:59824607 original size:59 final size:57
Alignment explanation
Indices: 59824516--59824703 Score: 184
Period size: 59 Copynumber: 3.2 Consensus size: 57
59824506 AGCAAAACTT
* * *
59824516 TTAGGGCA-AAAACATAATTTTGAGAAAATTTAGGGGTCAAAATGTAATTTCAAAAAG
1 TTAGGGGACAAAATATAATTTT-AAAAAATTTAGGGGTCAAAATGTAATTTCAAAAAG
* * * * * *
59824573 TTGGTGGGACAAAATGTAATTTTAAAAAATTTTA-GGGTTAAAATATAATTTTAGAAAAAT
1 TTAG-GGGACAAAATATAATTTTAAAAAA-TTTAGGGGTCAAAATGTAA-TTT-CAAAAAG
* * *
59824633 TTAGGGGTCAAAATATAATTTTCAAAAGTTTAGGGGTCAAAATGTAATTTC-AAAAG
1 TTAGGGGACAAAATATAATTTTAAAAAATTTAGGGGTCAAAATGTAATTTCAAAAAG
*
59824689 TTCAGGGGTCAAAAT
1 TT-AGGGGACAAAAT
59824704 GTATTTTTTT
Statistics
Matches: 106, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
56 6 0.06
57 15 0.14
58 27 0.25
59 50 0.47
60 8 0.08
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (57 bp):
TTAGGGGACAAAATATAATTTTAAAAAATTTAGGGGTCAAAATGTAATTTCAAAAAG
Found at i:59824615 original size:29 final size:29
Alignment explanation
Indices: 59824530--59824711 Score: 181
Period size: 29 Copynumber: 6.2 Consensus size: 29
59824520 GGCAAAAACA
*
59824530 TAATTTTGAGAAAATTTAGGGGTCAAAATG
1 TAATTTT-AAAAAATTTAGGGGTCAAAATG
* * * *
59824560 TAA-TTTCAAAAAGTTGGTGGGACAAAATG
1 TAATTTTAAAAAATTTAG-GGGTCAAAATG
* *
59824589 TAATTTTAAAAAATTTTA-GGGTTAAAATA
1 TAATTTTAAAAAA-TTTAGGGGTCAAAATG
*
59824618 TAATTTTAGAAAAATTTAGGGGTCAAAATA
1 TAATTTTA-AAAAATTTAGGGGTCAAAATG
* *
59824648 TAATTTTCAAAAGTTTAGGGGTCAAAATG
1 TAATTTTAAAAAATTTAGGGGTCAAAATG
* * *
59824677 TAA-TTTCAAAAGTTCAGGGGTCAAAATG
1 TAATTTTAAAAAATTTAGGGGTCAAAATG
*
59824705 TATTTTT
1 TAATTTT
59824712 TTTTAAAAAC
Statistics
Matches: 129, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
28 33 0.26
29 61 0.47
30 33 0.26
31 2 0.02
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (29 bp):
TAATTTTAAAAAATTTAGGGGTCAAAATG
Found at i:59824674 original size:88 final size:88
Alignment explanation
Indices: 59824509--59824687 Score: 238
Period size: 88 Copynumber: 2.0 Consensus size: 88
59824499 CAAACATAGC
* *
59824509 AAAACTTTTAGGGCAAAAACATAATTTTGAGAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGT
1 AAAAATTTTAGGGCAAAAACATAATTTTGAGAAAATTTAGGGGTCAAAATATAATTTCAAAAAGT
* *
59824574 TGGTGGGACAAAATGTAATTTTA
66 TAGTGGGACAAAATGTAATTTCA
** *
59824597 AAAAATTTTAGGGTTAAAATATAATTTT-AGAAAAATTTAGGGGTCAAAATATAATTTTC-AAAA
1 AAAAATTTTAGGGCAAAAACATAATTTTGAG-AAAATTTAGGGGTCAAAATATAA-TTTCAAAAA
*
59824660 GTTTAG-GGGTCAAAATGTAATTTCA
64 G-TTAGTGGGACAAAATGTAATTTCA
59824685 AAA
1 AAA
59824688 GTTCAGGGGT
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
87 2 0.03
88 71 0.89
89 7 0.09
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (88 bp):
AAAAATTTTAGGGCAAAAACATAATTTTGAGAAAATTTAGGGGTCAAAATATAATTTCAAAAAGT
TAGTGGGACAAAATGTAATTTCA
Found at i:59825215 original size:80 final size:75
Alignment explanation
Indices: 59824883--59826035 Score: 1274
Period size: 76 Copynumber: 14.9 Consensus size: 75
59824873 ACCTTGGTAT
* * * * ** *
59824883 GTGACTCGAGGCTCAACTCACCTCTAGCATTATAAGTTGATTTTT--GGAAAATAGAAATGT-AA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAAT-TAAA
*
59824945 AATACCTTAGC
65 AATACCTCAGC
* * * *
59824956 ATGACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTAATTTTT--AAAAAACAGAAATTTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAA-TT--A
* *
59825019 AGAAATACCTCGGT
63 A-AAATACCTCAGC
* *
59825033 ATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTAAAAAAACCAGAAATTCAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAATT--AA
59825096 AGAATTACCTCAGC
64 A-AA-TACCTCAGC
* * *
59825110 GTGACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAAAAAACAGAAATTA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT--AAAAAAAACAGAAATTA
*
59825175 AAAATACCTCAACGT
63 AAAATACCTC-A-GC
59825190 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAACAGAAATTA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-AAAAAAAACAGAAATTA
59825255 AAAATACCTCAGC
63 AAAATACCTCAGC
* * * *
59825268 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAATTGATTTTAAAAAAAAGACAGAAATTTAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAA-ACAGAAA-TT--
*
59825333 AAGAAATACCTCGGC
62 AA-AAATACCTCAGC
*
59825348 ATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT-AAAAAAACAGAAATTTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAA-TT--A
* *
59825410 AGAAATACATCGGC
63 A-AAATACCTCAGC
* *
59825424 ATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT-AAAAAAATAGAAATTGA
1 --GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAATT--
59825485 AAAGAATTACCTCAGC
62 AAA-AA-TACCTCAGC
* * *
59825501 ATGACCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAAATAGAAATTA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT--AAAAAAAACAGAAATTA
59825566 AAAATACCTCAGC
63 AAAATACCTCAGC
* *
59825579 GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAAAAATAGAAATT
1 --GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-AAAAAAAACAGAAATT
59825644 AAAAATACCTCAGC
62 AAAAATACCTCAGC
59825658 GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAAAAACAGAA
1 --GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT----AAAAAAAACAGAA
59825723 ATTAAAAATACCTCAGC
59 ATTAAAAATACCTCAGC
* * *
59825740 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTAAAAAAAAGACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAA-ACAGAAATTAAA
*
59825805 AATACCTCAGA
65 AATACCTCAGC
* ** *
59825816 GTGACCCGAGGCTCAACTTACCTCTCTTATTATGAGTTGATTTTTAAAAAAAGACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAA-ACAGAAATTAAA
*
59825881 AATATCTCAGC
65 AATACCTCAGC
* * * * *
59825892 GTGACCCGAGGCTCAACTTACCTCTCGTATTATGAGTTGA-TTTAAAAAAAAGATAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAA-ACAGAAATTAAA
*
59825956 AATACCTCAAC
65 AATACCTCAGC
* * *
59825967 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAATAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAAAAAACAGAAATTAAA
59826032 AATA
65 AATA
59826036 TTTCTCGAAA
Statistics
Matches: 968, Mismatches: 71, Indels: 79
0.87 0.06 0.07
Matches are distributed among these distances:
73 51 0.05
74 1 0.00
75 91 0.09
76 237 0.24
77 172 0.18
78 57 0.06
79 92 0.10
80 202 0.21
81 6 0.01
82 59 0.06
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (75 bp):
GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAACAGAAATTAAAA
ATACCTCAGC
Found at i:59825827 original size:391 final size:388
Alignment explanation
Indices: 59824882--59826035 Score: 1550
Period size: 391 Copynumber: 3.0 Consensus size: 388
59824872 TACCTTGGTA
* * * * *
59824882 TGTGACTCGAGGCTCAACTCACCTCTAGCATTATAAGTTGATTTTTG-----GAAAATAGAAATG
1 TGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAAAAACAGAAAT-
* * * *
59824942 T-AAAATACCTTAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTAATTTTTAAAAA
65 TAAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAA
*
59825006 ACAGAAATTTAAAAGAAATACCTCGGTA-TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
130 ACAGAAATTT-AAAGAAATACCTCGGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
59825070 TGATTTAAAAAAACCAGAAATTCAAAAGAATTACCTCAGCGTGACCTGAAGCTCAACTCACCTCT
194 TGATTTAAAAAAA-CAGAAATT-AAAAGAATTACCTCAGCGTGACCCGAAGCTCAACTCACCTCT
* *
59825135 CGCAATATGAGTTAATTTTTTGAAAAAAAAACAGAAATTAAAAATACCTCAACGTGTGACCCGAG
257 CGCAATATGAGTTGATTTTTTGAAAAAAAAATAGAAATTAAAAATACCTCAACGTGTGACCCGAG
* *
59825200 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAACAGAAATTAAAAATACCTC
322 GCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTTGAAAAAAAATAGAAATTAAAAATACCTC
59825265 AGC
386 AGC
* * *
59825268 -GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAATTGA-TTTT-AAAAAAAAGACAGAAATT
1 TGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAAAAACAGAAA-T
* *
59825330 TAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAAA
65 T--AA-AAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAA
* *
59825394 AAAACAGAAATTTAAAAGAAATACATCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATAT
127 AAAACAGAAATTT-AAAGAAATACCTCGGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* *
59825458 GAGTTGATTTAAAAAAATAGAAATTGAAAAGAATTACCTCAGCATGACCCGAAGCTCAACTCACC
190 GAGTTGATTTAAAAAAACAGAAATT-AAAAGAATTACCTCAGCGTGACCCGAAGCTCAACTCACC
*
59825523 TCTCGCAATATGAGTTGATTTTTTGAAAAAAAAATAGAAATTAAAAATACCTCAGCGTGTGACCC
254 TCTCGCAATATGAGTTGATTTTTTGAAAAAAAAATAGAAATTAAAAATACCTCAACGTGTGACCC
59825588 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAAAAATAGAAATTAAAAATACC
319 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAAAAATAGAAATTAAAAATACC
59825653 TCAGC
384 TCAGC
*
59825658 GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAAAAACAGAA
1 -TGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTG-AAAAAAAAAACAGAA
* *
59825723 ATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTAAAA
63 ATTAAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTT--AA
* * ** *
59825788 AAAAGACAGAAA-TT-AA-AAATACCTCAG-AGTGACCCGAGGCTCAACTTACCTCTCTTATTAT
126 AAAA-ACAGAAATTTAAAGAAATACCTCGGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* * *
59825849 GAGTTGATTTTTAAAAAAAGACAGAAATT-AAA-AA-TATCTCAGCGTGACCCGAGGCTCAACTT
190 GAGTTGA--TTT-AAAAAA-ACAGAAATTAAAAGAATTACCTCAGCGTGACCCGAAGCTCAACTC
* *
59825911 ACCTCTCGTATTATGAGTTGA---TTT-AAAAAAAAGATAGAAATTAAAAATACCTCAAC--GTG
251 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAA-ATAGAAATTAAAAATACCTCAACGTGTG
* * *
59825970 ACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTTTGAAAAAAAATAGAAATTAAAAA
315 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAAAAATAGAAATTAAAAA
59826034 TA
380 TA
59826036 TTTCTCGAAA
Statistics
Matches: 688, Mismatches: 52, Indels: 57
0.86 0.07 0.07
Matches are distributed among these distances:
384 4 0.01
385 64 0.09
386 37 0.05
387 8 0.01
388 34 0.05
389 1 0.00
390 40 0.06
391 247 0.36
392 188 0.27
393 15 0.02
394 10 0.01
395 18 0.03
396 22 0.03
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (388 bp):
TGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAAAAACAGAAATT
AAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAA
CAGAAATTTAAAGAAATACCTCGGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTAAAAAAACAGAAATTAAAAGAATTACCTCAGCGTGACCCGAAGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTGAAAAAAAAATAGAAATTAAAAATACCTCAACGTGTGACCCGAGGCTC
AACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAAAAATAGAAATTAAAAATACCTCAGC
Found at i:59832629 original size:17 final size:17
Alignment explanation
Indices: 59832574--59832858 Score: 178
Period size: 17 Copynumber: 15.9 Consensus size: 17
59832564 GATTCGATTG
* *
59832574 AAACACGAAAATCGTTGA
1 AAACACGAAAAT-TTTTA
*
59832592 AAACACGCAAATTTTTGA
1 AAACACGAAAATTTTT-A
*
59832610 AAACACGAAAATTTTAA
1 AAACACGAAAATTTTTA
59832627 AAACACGAAAATTTTTAA
1 AAACACGAAAATTTTT-A
* * *
59832645 AAACAAGACAATTTTTG
1 AAACACGAAAATTTTTA
*
59832662 AAACACGAGAACTTTTTTTTA
1 AAACACGA-AA---ATTTTTA
*
59832683 AAACA-TACAAATTTTTA
1 AAACACGA-AAATTTTTA
* *
59832700 AAACACGAAAATTTGTG
1 AAACACGAAAATTTTTA
* *
59832717 AAACACGAGAATTGTTGA
1 AAACACGAAAATT-TTTA
* *
59832735 AAACATGAAATTTTTTA
1 AAACACGAAAATTTTTA
59832752 AAACACGAAAATTTTTAGA
1 AAACACGAAAATTTTT--A
**
59832771 AAACACGAATTTTTTTTA
1 AAACACGAA-AATTTTTA
* *
59832789 AAATCACCG-GAATTTTTGG
1 AAA-CA-CGAAAATTTTT-A
* *
59832808 GAACACGAAGATTTTTGA
1 AAACACGAAAATTTTT-A
* * *
59832826 AAACATGAAGATTTTTG
1 AAACACGAAAATTTTTA
* *
59832843 AAACGCGAGAATTTTT
1 AAACACGAAAATTTTT
59832859 TGAAAACGCA
Statistics
Matches: 206, Mismatches: 46, Indels: 31
0.73 0.16 0.11
Matches are distributed among these distances:
17 86 0.42
18 86 0.42
19 14 0.07
20 10 0.05
21 10 0.05
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (17 bp):
AAACACGAAAATTTTTA
Found at i:59832630 original size:35 final size:34
Alignment explanation
Indices: 59832574--59832865 Score: 165
Period size: 35 Copynumber: 8.1 Consensus size: 34
59832564 GATTCGATTG
* *
59832574 AAACACGAAAATCGTTGAAAACACGCAAATTTTTGA
1 AAACACGAAAAT-TTTAAAAACACG-AAATTTTTGA
*
59832610 AAACACGAAAATTTTAAAAACACGAAAATTTTTAA
1 AAACACGAAAATTTTAAAAACACG-AAATTTTTGA
* * ** *
59832645 AAACAAGACAATTTTTGAAACACGAGAACTTTTTTTTA
1 AAACACGAAAATTTTAAAAACACGA-AA---TTTTTGA
* * *
59832683 AAACA-TACAAATTTTTAAAACACGAAAATTTGTG-
1 AAACACGA-AAATTTTAAAAACACG-AAATTTTTGA
* * * *
59832717 AAACACGAGAATTGTTGAAAACATGAAATTTTTTA
1 AAACACGAAAATT-TTAAAAACACGAAATTTTTGA
* *
59832752 AAACACGAAAATTTTTAGAAAACACGAATTTTTTTTA
1 AAACACGAAAA-TTTTA-AAAACACGAA-ATTTTTGA
* * ***
59832789 AAATCACCGGAATTTTTGGGAACACGAAGATTTTTGA
1 AAA-CA-CGAAAATTTTAAAAACACGAA-ATTTTTGA
* * ** *
59832826 AAACATGAAGATTTTTGAAACGCGAGAATTTTTTGA
1 AAACACGAAAATTTTAAAAACACGA-AA-TTTTTGA
59832862 AAAC
1 AAAC
59832866 GCAAAAAAAT
Statistics
Matches: 201, Mismatches: 39, Indels: 32
0.74 0.14 0.12
Matches are distributed among these distances:
34 17 0.08
35 81 0.40
36 37 0.18
37 28 0.14
38 33 0.16
39 5 0.02
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.30
Consensus pattern (34 bp):
AAACACGAAAATTTTAAAAACACGAAATTTTTGA
Found at i:59832708 original size:90 final size:90
Alignment explanation
Indices: 59832599--59832767 Score: 227
Period size: 90 Copynumber: 1.9 Consensus size: 90
59832589 TGAAAACACG
* *
59832599 CAAATTTTTGAAAACACGAAAATTT-TAAAAACACGAAAATTTTTAAAAACAAGACAA-TTTTTG
1 CAAATTTTTGAAAACACGAAAATTTGT-AAAACACGAAAATTGTTAAAAACAAGA-AATTTTTTA
*
59832662 AAACACGAGAACTTTTTTTTAAAACATA
64 AAACACGA-AAATTTTTTTTAAAACATA
* * * *
59832690 CAAATTTTT-AAAACACGAAAATTTGTGAAACACGAGAATTGTTGAAAACATGAAATTTTTTAAA
1 CAAATTTTTGAAAACACGAAAATTTGTAAAACACGAAAATTGTTAAAAACAAGAAATTTTTTAAA
59832754 ACACGAAAATTTTT
66 ACACGAAAATTTTT
59832768 AGAAAACACG
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
89 9 0.13
90 50 0.72
91 10 0.14
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.31
Consensus pattern (90 bp):
CAAATTTTTGAAAACACGAAAATTTGTAAAACACGAAAATTGTTAAAAACAAGAAATTTTTTAAA
ACACGAAAATTTTTTTTAAAACATA
Found at i:59832784 original size:18 final size:17
Alignment explanation
Indices: 59832574--59832865 Score: 198
Period size: 18 Copynumber: 16.2 Consensus size: 17
59832564 GATTCGATTG
**
59832574 AAACACGAAAATCGTTGA
1 AAACACG-AAATTTTTGA
59832592 AAACACGCAAATTTTTGA
1 AAACACG-AAATTTTTGA
* *
59832610 AAACACGAAAATTTTAA
1 AAACACGAAATTTTTGA
*
59832627 AAACACGAAAATTTTTAA
1 AAACACG-AAATTTTTGA
*
59832645 AAACAAGACAATTTTTG-
1 AAACACGA-AATTTTTGA
*
59832662 AAACACGAGAACTTTTTTTTA
1 AAACACGA-AA---TTTTTGA
59832683 AAACATAC-AAATTTTT-A
1 AAAC--ACGAAATTTTTGA
*
59832700 AAACACGAAAATTTGTG-
1 AAACACG-AAATTTTTGA
*
59832717 AAACACGAGAATTGTTGA
1 AAACACGA-AATTTTTGA
* *
59832735 AAACATGAAATTTTTTA
1 AAACACGAAATTTTTGA
59832752 AAACACGAAAATTTTTAGA
1 AAACACG-AAATTTTT-GA
* *
59832771 AAACACGAATTTTTTTTA
1 AAACACGAA-ATTTTTGA
* *
59832789 AAATCACCGGAATTTTTGG
1 AAA-CA-CGAAATTTTTGA
*
59832808 GAACACGAAGATTTTTGA
1 AAACACGAA-ATTTTTGA
*
59832826 AAACATGAAGATTTTTG-
1 AAACACGAA-ATTTTTGA
*
59832843 AAACGCGAGAATTTTTTGA
1 AAACACGA-AA-TTTTTGA
59832862 AAAC
1 AAAC
59832866 GCAAAAAAAT
Statistics
Matches: 220, Mismatches: 32, Indels: 43
0.75 0.11 0.15
Matches are distributed among these distances:
15 2 0.01
16 1 0.00
17 73 0.33
18 101 0.46
19 26 0.12
20 8 0.04
21 6 0.03
22 1 0.00
23 2 0.01
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.30
Consensus pattern (17 bp):
AAACACGAAATTTTTGA
Found at i:59833319 original size:6 final size:6
Alignment explanation
Indices: 59833308--59833340 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
59833298 TAAAATAAAG
59833308 TAAAAT TAAAAT TAAAAT T-AAAT T-AAAT TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
59833341 ATATAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAAAT
Found at i:59833325 original size:12 final size:12
Alignment explanation
Indices: 59833308--59833340 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
59833298 TAAAATAAAG
59833308 TAAAATTAAAAT
1 TAAAATTAAAAT
59833320 TAAAATT-AAAT
1 TAAAATTAAAAT
59833331 T-AAATTAAAA
1 TAAAATTAAAA
59833341 ATATAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.25
11 8 0.40
12 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAATTAAAAT
Found at i:59833325 original size:22 final size:21
Alignment explanation
Indices: 59833297--59833363 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
59833287 TTAAAATTAT
59833297 TTAAAATAAAGTAAAATTAAAA
1 TTAAAATAAA-TAAAATTAAAA
*
59833319 TTAAAATTAAATTAAATTAAAA
1 TTAAAA-TAAATAAAATTAAAA
* *
59833341 ATATAAATACA-AAAATATAAAA
1 TTA-AAATAAATAAAAT-TAAAA
59833363 T
1 T
59833364 GCATGAAGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 4 0.11
22 26 0.70
23 7 0.19
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (21 bp):
TTAAAATAAATAAAATTAAAA
Found at i:59833341 original size:17 final size:18
Alignment explanation
Indices: 59833297--59833348 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
59833287 TTAAAATTAT
*
59833297 TTAAAA-TAAAGTA-AAA
1 TTAAAATTAAAATATAAA
59833313 TTAAAATTAAAAT-TAAA
1 TTAAAATTAAAATATAAA
59833330 TT-AAATTAAAAATATAAA
1 TTAAAATT-AAAATATAAA
59833348 T
1 T
59833349 ACAAAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 11 0.35
17 15 0.48
18 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
TTAAAATTAAAATATAAA
Found at i:59833861 original size:28 final size:29
Alignment explanation
Indices: 59833824--59833878 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
59833814 TTTTCAACAT
*
59833824 TTTTTTGTTTTTTCTTCTTCTT-TCTTTC
1 TTTTTTGTTTTTTCCTCTTCTTCTCTTTC
59833852 TTTTTTGTTTTTTCCTCTTCTTCTCTT
1 TTTTTTGTTTTTTCCTCTTCTTCTCTT
59833879 GGATCTAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (29 bp):
TTTTTTGTTTTTTCCTCTTCTTCTCTTTC
Found at i:59834264 original size:30 final size:29
Alignment explanation
Indices: 59834218--59834294 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
59834208 CAAAACTTCT
** *
59834218 GGGGTCAAAACATAATTTTGAGAAAATTTA
1 GGGGTCAAAATGTAATTTTCA-AAAATTTA
*
59834248 GGGGTCAAAATGTAA-TTTCAAAAGTTTA
1 GGGGTCAAAATGTAATTTTCAAAAATTTA
* *
59834276 TGGGTCAAAATGTATTTTT
1 GGGGTCAAAATGTAATTTT
59834295 TTTTTGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 20 0.50
29 7 0.17
30 13 0.32
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (29 bp):
GGGGTCAAAATGTAATTTTCAAAAATTTA
Found at i:59834971 original size:92 final size:92
Alignment explanation
Indices: 59834371--59834954 Score: 882
Period size: 92 Copynumber: 6.3 Consensus size: 92
59834361 ACTGTTTATA
* * * * * *
59834371 GTTATACATTGTCGAAATTGATTTGCATATGAATATAAGTTGCTGAATTGATTTGTATATGATTG
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
59834436 TACATTGCTGAAATTAATTTGTATATG
66 TACATTGCTGAAATTAATTTGTATATG
59834463 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* *
59834528 TACATTGCTTAAATTAATTTGTACATG
66 TACATTGCTGAAATTAATTTGTATATG
* * * *
59834555 GTTATACATTATTGAAATTGAATTGTATATGGATATAAGCTGCCGAATTGATTTGTATATAATTG
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
59834620 TACATTGCTGAAATTAATTTGTATATG
66 TACATTGCTGAAATTAATTTGTATATG
** * *
59834647 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCATATATGGTTG
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
59834712 TACATTGCTGAAATTAATTTGTATATG
66 TACATTGCTGAAATTAATTTGTATATG
* * *
59834739 GTTATACATTGTTGAAATTGAATTATATAAGGATATAAGTTGCCGAATTGATTTTTATATGATTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* * *
59834804 TATATTGTTGAAATTAATTTGTACATG
66 TACATTGCTGAAATTAATTTGTATATG
* * *
59834831 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCAAATTGATTCGTATATGGTTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
*
59834896 TACATTGCTGAATTTAATTTGTATATG
66 TACATTGCTGAAATTAATTTGTATATG
* ** *
59834923 ATTATACATTACTGAACTTG-ATTCGTATATGG
1 GTTATACATTGTTGAAATTGAATT-GTATATGG
59834955 TTGTACATTG
Statistics
Matches: 448, Mismatches: 43, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
91 3 0.01
92 445 0.99
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (92 bp):
GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
TACATTGCTGAAATTAATTTGTATATG
Found at i:59834979 original size:31 final size:31
Alignment explanation
Indices: 59834418--59834980 Score: 168
Period size: 31 Copynumber: 18.3 Consensus size: 31
59834408 AGTTGCTGAA
* * * *
59834418 TTGATTTGTATATGATTGTACATTGCTGAAA-
1 TTGATTCGTATATGGTTATACATTGC-CAAAT
* * **
59834449 TTAATTTGTATATGGTTATACATTGTTGAAA-
1 TTGATTCGTATATGGTTATACATTG-CCAAAT
* *
59834480 TTGAATT-GTATATGGATATA-AGTTGCCGAA-
1 TTG-ATTCGTATATGGTTATACA-TTGCCAAAT
* * *
59834510 TTGATTTGTATATGATTATACATTGCTTAAA-
1 TTGATTCGTATATGGTTATACATTGC-CAAAT
* * * ***
59834541 TTAATTTGTACATGGTTATACATTATTGAAA-
1 TTGATTCGTATATGGTTATACATT-GCCAAAT
* * *
59834572 TTGAATT-GTATATGGATATA-AGCTGCCGAA-
1 TTG-ATTCGTATATGGTTATACA-TTGCCAAAT
* ** * *
59834602 TTGATTTGTATATAATTGTACATTGCTGAAA-
1 TTGATTCGTATATGGTTATACATTGC-CAAAT
* * **
59834633 TTAATTTGTATATGGTTATACATTGTTGAAA-
1 TTGATTCGTATATGGTTATACATTG-CCAAAT
* *
59834664 TTGAATT-GTATATGGATATA-AGTTGCCGAA-
1 TTG-ATTCGTATATGGTTATACA-TTGCCAAAT
* * *
59834694 TTGATTCATATATGGTTGTACATTGCTGAAA-
1 TTGATTCGTATATGGTTATACATTGC-CAAAT
* * **
59834725 TTAATTTGTATATGGTTATACATTGTTGAAA-
1 TTGATTCGTATATGGTTATACATTG-CCAAAT
* * * *
59834756 TTGAATT-ATATAAGGATATA-AGTTGCCGAA-
1 TTG-ATTCGTATATGGTTATACA-TTGCCAAAT
** * * **
59834786 TTGATTTTTATATGATTATATATTGTTGAAA-
1 TTGATTCGTATATGGTTATACATTG-CCAAAT
* * * **
59834817 TTAATTTGTACATGGTTATACATTGTTGAAA-
1 TTGATTCGTATATGGTTATACATTG-CCAAAT
*
59834848 TTGAATT-GTATATGGATATA-AGTTGCCAAA-
1 TTG-ATTCGTATATGGTTATACA-TTGCCAAAT
**
59834878 TTGATTCGTATATGGTTATACATTGCTGAAT
1 TTGATTCGTATATGGTTATACATTGCCAAAT
* * * * ** *
59834909 TTAATTTGTATATGATTATACATTACTGAAC
1 TTGATTCGTATATGGTTATACATTGCCAAAT
*
59834940 TTGATTCGTATATGGTTGTACATTGCCAAAT
1 TTGATTCGTATATGGTTATACATTGCCAAAT
*
59834971 TTGGTTCGTA
1 TTGATTCGTA
59834981 CATGAATATA
Statistics
Matches: 408, Mismatches: 95, Indels: 58
0.73 0.17 0.10
Matches are distributed among these distances:
29 15 0.04
30 102 0.25
31 276 0.68
32 15 0.04
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.44
Consensus pattern (31 bp):
TTGATTCGTATATGGTTATACATTGCCAAAT
Found at i:59843230 original size:13 final size:13
Alignment explanation
Indices: 59843212--59843273 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
59843202 TTCTTCATTT
59843212 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
59843225 CTTTTGAAAATTG
1 CTTTTGAAAAGTG
**
59843238 -TTGCGGAAAAGTG
1 CTT-TTGAAAAGTG
* *
59843251 CTTCTGAGAAGTG
1 CTTTTGAAAAGTG
59843264 CTTTTGAAAA
1 CTTTTGAAAA
59843274 ATTTGAGTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 2 0.05
13 35 0.90
14 2 0.05
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:59844569 original size:53 final size:52
Alignment explanation
Indices: 59844512--59844612 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 52
59844502 TATTTTTTTC
* *
59844512 AAAACACGAAAAAATTTT-AAAACACGAGAATTTTAGAGACACGAAAATTCTTA
1 AAAACAC-AAAAAATTTTGAAAACACGACAATTTT-GAAACACGAAAATTCTTA
* *
59844565 AAAACACAAAAATTTTTGAAAACACGACAATTTTGAAACACGATAATT
1 AAAACACAAAAAATTTTGAAAACACGACAATTTTGAAACACGAAAATT
59844613 TTTTTTTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
52 21 0.49
53 22 0.51
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (52 bp):
AAAACACAAAAAATTTTGAAAACACGACAATTTTGAAACACGAAAATTCTTA
Found at i:59844596 original size:18 final size:18
Alignment explanation
Indices: 59844506--59845115 Score: 413
Period size: 18 Copynumber: 34.2 Consensus size: 18
59844496 GACAATTATT
*
59844506 TTTTTCAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
* *
59844525 ATTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* *
59844542 TTTTAG-AGACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
59844559 TTCTTAAAAACACAAAAA
1 TTTTTGAAAACACGAAAA
*
59844577 TTTTTGAAAACACGACAA
1 TTTTTGAAAACACGAAAA
*
59844595 -TTTTG-AAACACGATAATTTT
1 TTTTTGAAAACACGA-AA---A
**
59844615 TTTTTGAAAACACG-ATT
1 TTTTTGAAAACACGAAAA
*
59844632 TTTTTG-AAACGCGAAAA
1 TTTTTGAAAACACGAAAA
* * *
59844649 TTTGTG-AAATACGAGAA
1 TTTTTGAAAACACGAAAA
*
59844666 TTGTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
59844684 TTTTTGAAAACACAAAAA
1 TTTTTGAAAACACGAAAA
* *
59844702 TTTTTGAAATAC-TG-AAG
1 TTTTTGAAA-ACACGAAAA
59844719 TTTTTAGAAAACACGAAAAA
1 TTTTT-GAAAACACG-AAAA
* *
59844739 TTTTTTG--ATCATCG-GAA
1 -TTTTTGAAAACA-CGAAAA
*
59844756 TTTTTGAGAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
59844774 TTTTTG-AAACACGAAAG
1 TTTTTGAAAACACGAAAA
59844791 TTTTTAGAAAACACG--AA
1 TTTTT-GAAAACACGAAAA
*** * *
59844808 TTTTTTTTATCATCG-GAA
1 TTTTTGAAAACA-CGAAAA
59844826 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
***
59844844 TTTTTG-AAACACCTGAA
1 TTTTTGAAAACACGAAAA
* **
59844861 TTTTTGAAAACAGGATGA
1 TTTTTGAAAACACGAAAA
59844879 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
59844896 TTTTTGAAAACACAAAAA
1 TTTTTGAAAACACGAAAA
* *
59844914 TTTTTGAAAACACGGGAAT
1 TTTTTGAAAACAC-GAAAA
*
59844933 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
59844951 -TTTTG-AAACACCG-GAG
1 TTTTTGAAAACA-CGAAAA
*
59844967 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
**
59844985 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAAAA
59845002 TTTTCTGAAAACACGAAAA
1 TTTT-TGAAAACACGAAAA
* ** * *
59845021 ATTTTGAAAA-TTGGAAT
1 TTTTTGAAAACACGAAAA
* *
59845038 TTTTTGAAAATACGAGAATT
1 TTTTTGAAAACACGA-AA-A
*
59845058 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
59845076 TTTTTG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
59845093 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
59845112 TTTT
1 TTTT
59845116 CCGATTTTTA
Statistics
Matches: 456, Mismatches: 96, Indels: 78
0.72 0.15 0.12
Matches are distributed among these distances:
16 29 0.06
17 166 0.36
18 174 0.38
19 52 0.11
20 18 0.04
21 10 0.02
22 7 0.02
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:59844637 original size:38 final size:38
Alignment explanation
Indices: 59844577--59844651 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
59844567 AACACAAAAA
*
59844577 TTTTTGAAAACACGACAATTTTGAAACACGATAATTTT
1 TTTTTGAAAACACGACAATTTTGAAACACGAAAATTTT
*** *
59844615 TTTTTGAAAACACGATTTTTTTGAAACGCGAAAATTT
1 TTTTTGAAAACACGACAATTTTGAAACACGAAAATTT
59844652 GTGAAATACG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (38 bp):
TTTTTGAAAACACGACAATTTTGAAACACGAAAATTTT
Found at i:59845090 original size:37 final size:36
Alignment explanation
Indices: 59844506--59845115 Score: 354
Period size: 35 Copynumber: 17.1 Consensus size: 36
59844496 GACAATTATT
* * * *
59844506 TTTTTCAAAACACGAAAAAATTTT-AAAACACGAGAA
1 TTTTTGAAAACACG-AGAATTTTTGAAAACACGAAAA
* * * * * *
59844542 TTTTAG-AGACACGAAAATTCTTAAAAACACAAAAA
1 TTTTTGAAAACACGAGAATTTTTGAAAACACGAAAA
* *
59844577 TTTTTGAAAACACGACAA-TTTTG-AAACACGATAATTTT
1 TTTTTGAAAACACGAGAATTTTTGAAAACACGA-AA---A
** *
59844615 TTTTTGAAAACACGA-TTTTTTTG-AAACGCGAAAA
1 TTTTTGAAAACACGAGAATTTTTGAAAACACGAAAA
* * *
59844649 TTTGTG-AAATACGAGAATTGTTGAAAACACGAAAA
1 TTTTTGAAAACACGAGAATTTTTGAAAACACGAAAA
* * * *
59844684 TTTTTGAAAACACAAAAATTTTTGAAATAC-TG-AAG
1 TTTTTGAAAACACGAGAATTTTTGAAA-ACACGAAAA
* * *
59844719 TTTTTAGAAAACACGAAAAATTTTTTG--ATCATCG-GAA
1 TTTTT-GAAAACACG-AGAA-TTTTTGAAAACA-CGAAAA
* * *
59844756 TTTTTGAGAACACGAAAATTTTTG-AAACACGAAAG
1 TTTTTGAAAACACGAGAATTTTTGAAAACACGAAAA
*** * *
59844791 TTTTTAGAAAACAC--GAATTTTTTTTATCATCG-GAA
1 TTTTT-GAAAACACGAGAATTTTTGAAAACA-CGAAAA
* ***
59844826 TTTTTGAAAACACGAAAATTTTTG-AAACACCTGAA
1 TTTTTGAAAACACGAGAATTTTTGAAAACACGAAAA
*
59844861 TTTTTGAAAACAGGATG-ATTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGA-GAATTTTTGAAAACACGAAAA
* * * *
59844896 TTTTTGAAAACACAAAAATTTTTGAAAACACGGGAAT
1 TTTTTGAAAACACGAGAATTTTTGAAAACAC-GAAAA
* * * *
59844933 TTTTTGAAAACATGA-AAATTTTG-AAACACCG-GAG
1 TTTTTGAAAACACGAGAATTTTTGAAAACA-CGAAAA
**
59844967 TTTTTGAAAACACGA-AGATTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAGA-ATTTTTGAAAACACGAAAA
* * ** * *
59845002 TTTTCTGAAAACACGAAAAATTTTGAAAA-TTGGAAT
1 TTTT-TGAAAACACGAGAATTTTTGAAAACACGAAAA
* *
59845038 TTTTTGAAAATACGAGAATTTTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAGAA--TTTTTGAAAACACGAAAA
59845076 TTTTTG-AAACACGAGAATTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAGAATTTTTGAAAACACGAAAA
*
59845111 ATTTT
1 TTTTT
59845116 CCGATTTTTA
Statistics
Matches: 453, Mismatches: 84, Indels: 75
0.74 0.14 0.12
Matches are distributed among these distances:
33 7 0.02
34 66 0.15
35 182 0.40
36 101 0.22
37 54 0.12
38 43 0.09
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (36 bp):
TTTTTGAAAACACGAGAATTTTTGAAAACACGAAAA
Found at i:59845240 original size:18 final size:18
Alignment explanation
Indices: 59845217--59845318 Score: 57
Period size: 18 Copynumber: 5.4 Consensus size: 18
59845207 TTCGTTGCAT
59845217 TATTTTTGAAAACACGAA
1 TATTTTTGAAAACACGAA
59845235 TATTTTTTG-AAACACGAGAAA
1 TA-TTTTTGAAAACAC--G-AA
* *
59845256 AATTTTTGAAGACACGAA
1 TATTTTTGAAAACACGAA
* *
59845274 -AATTTCG-AAACACGGGAA
1 TATTTTTGAAAACAC--GAA
*
59845292 TTTTTTTTCGAAAACACGAA
1 -TATTTTT-GAAAACACGAA
*
59845312 AATTTTT
1 TATTTTT
59845319 TGAATATTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 21
0.67 0.11 0.22
Matches are distributed among these distances:
16 5 0.08
17 5 0.08
18 13 0.21
19 12 0.19
20 13 0.21
21 9 0.14
22 6 0.10
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (18 bp):
TATTTTTGAAAACACGAA
Found at i:59845302 original size:21 final size:22
Alignment explanation
Indices: 59845276--59845319 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
59845266 GACACGAAAA
**
59845276 TTTCG-AAACACGGGAATTTTT
1 TTTCGAAAACACGAAAATTTTT
59845297 TTTCGAAAACACGAAAATTTTT
1 TTTCGAAAACACGAAAATTTTT
59845319 T
1 T
59845320 GAATATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (22 bp):
TTTCGAAAACACGAAAATTTTT
Found at i:59845648 original size:9 final size:9
Alignment explanation
Indices: 59845634--59845695 Score: 52
Period size: 9 Copynumber: 6.1 Consensus size: 9
59845624 GCAAATTGAA
59845634 TCTTTTTTT
1 TCTTTTTTT
59845643 TCTTTTTCTCTTT
1 TC--TTT-T-TTT
*
59845656 TCTCTTTTT
1 TCTTTTTTT
59845665 TCTTTTTTT
1 TCTTTTTTT
59845674 TCCTTTTTTTT
1 T-C-TTTTTTT
59845685 TCTTCTTTTT
1 TCTT-TTTTT
59845695 T
1 T
59845696 TCTACTGGGC
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
9 16 0.36
10 9 0.20
11 13 0.30
12 1 0.02
13 5 0.11
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:59845663 original size:14 final size:13
Alignment explanation
Indices: 59845640--59845693 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
59845630 TGAATCTTTT
59845640 TTTTCTTTTTCTC
1 TTTTCTTTTTCTC
*
59845653 TTTTCTCTTTTTTC
1 TTTTCT-TTTTCTC
59845667 -TTT-TTTTTC-C
1 TTTTCTTTTTCTC
59845677 TTTT-TTTTTCTTC
1 TTTTCTTTTTC-TC
59845690 TTTT
1 TTTT
59845694 TTTCTACTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 1 0.03
11 13 0.37
12 1 0.03
13 14 0.40
14 6 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTCTC
Found at i:59845671 original size:7 final size:7
Alignment explanation
Indices: 59845638--59845695 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
59845628 ATTGAATCTT
59845638 TTTTTTC
1 TTTTTTC
59845645 TTTTTCTC
1 TTTTT-TC
*
59845653 TTTTCTC
1 TTTTTTC
59845660 TTTTTTC
1 TTTTTTC
59845667 TTTTTTTTCC
1 --TTTTTT-C
59845677 TTTTTT-
1 TTTTTTC
*
59845683 TTTCTTC
1 TTTTTTC
59845690 TTTTTT
1 TTTTTT
59845696 TCTACTGGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 5 0.12
7 18 0.43
8 12 0.29
9 6 0.14
10 1 0.02
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:59845671 original size:23 final size:22
Alignment explanation
Indices: 59845636--59845695 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
59845626 AAATTGAATC
59845636 TTTTTTTTC-TTTTTCT-CTTT
1 TTTTTTTTCTTTTTTCTCCTTT
*
59845656 TCTCTTTTTTCTTTTTTTTCCTTT
1 T-T-TTTTTTCTTTTTTCTCCTTT
59845680 TTTTTTCTTCTTTTTT
1 TTTTTT-TTCTTTTTT
59845696 TCTACTGGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 11 0.32
23 16 0.47
24 5 0.15
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTTTTCTTTTTTCTCCTTT
Found at i:59845696 original size:23 final size:25
Alignment explanation
Indices: 59845645--59845696 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
59845635 CTTTTTTTTC
*
59845645 TTTTTCTCTTTTCTCTTTTTTCTTT
1 TTTTTCTCTTTTCTCTTTCTTCTTT
*
59845670 TTTTTC-CTTTT-TTTTTCTTCTTT
1 TTTTTCTCTTTTCTCTTTCTTCTTT
59845693 TTTT
1 TTTT
59845697 CTACTGGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 14 0.56
24 5 0.20
25 6 0.24
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (25 bp):
TTTTTCTCTTTTCTCTTTCTTCTTT
Found at i:59845698 original size:31 final size:31
Alignment explanation
Indices: 59845634--59845695 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
59845624 GCAAATTGAA
59845634 TCTTTTTTTTCTTTTTCTCTTTTCTCTTTTT
1 TCTTTTTTTTCTTTTTCTCTTTTCTCTTTTT
*
59845665 TCTTTTTTTTCCTTTT-T-TTTTCTTCTTTTT
1 TCTTTTTTTTCTTTTTCTCTTTTC-TCTTTTT
59845695 T
1 T
59845696 TCTACTGGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 5 0.17
30 9 0.31
31 15 0.52
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (31 bp):
TCTTTTTTTTCTTTTTCTCTTTTCTCTTTTT
Found at i:59845854 original size:15 final size:15
Alignment explanation
Indices: 59845828--59845871 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
59845818 TTGGACAGGC
59845828 CTGCTG-TTTTTTTAG
1 CTGCTGCTTTTTTT-G
59845843 -TGCTGCTTTTTTTG
1 CTGCTGCTTTTTTTG
59845857 CTGCTGCTGTTTTTT
1 CTGCTGCT-TTTTTT
59845872 TTGGGCTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.23
15 14 0.54
16 6 0.23
ACGTcount: A:0.02, C:0.16, G:0.20, T:0.61
Consensus pattern (15 bp):
CTGCTGCTTTTTTTG
Found at i:59845996 original size:18 final size:19
Alignment explanation
Indices: 59845973--59846010 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
59845963 CGATTTTAAT
59845973 TTTTTTTCTTC-TTTCTTC
1 TTTTTTTCTTCGTTTCTTC
59845991 -TTTTTTCTTCGTTTCTTC
1 TTTTTTTCTTCGTTTCTTC
59846009 TT
1 TT
59846011 CCTCCTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 7 0.39
19 1 0.06
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTTTTCTTCGTTTCTTC
Found at i:59846122 original size:17 final size:18
Alignment explanation
Indices: 59846100--59846150 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
59846090 TTCCCCCTTT
59846100 TCTTTTTTC-TTCTTTGC
1 TCTTTTTTCTTTCTTTGC
*
59846117 TC-TTTTTCTTTCTTTTC
1 TCTTTTTTCTTTCTTTGC
59846134 TCTTTTTTTCTTT-TTTG
1 TC-TTTTTTCTTTCTTTG
59846151 TTGTTTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 6 0.21
17 11 0.38
18 3 0.10
19 9 0.31
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (18 bp):
TCTTTTTTCTTTCTTTGC
Found at i:59846502 original size:30 final size:30
Alignment explanation
Indices: 59846454--59846631 Score: 164
Period size: 30 Copynumber: 6.0 Consensus size: 30
59846444 TAATGGCAGC
* *
59846454 AAAACTTTTGGGGTCAAAATGTAATTTTTA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTTA
* * *
59846484 TAAAGTTTAGGAGTCAAAATGTAA-TTTCA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTTA
* * *
59846513 AGAAAGTTTAAGTGTCAAAATGTAA-TTTCA
1 A-AAAGTTTAGGGGTCAAAATGTAATTTTTA
* * ** *
59846543 AAATGTTTTGGGGTTGAAATGTAATTTTGA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTTA
* *
59846573 AAAAGTTTAGGGGTCAAAATAT-AGTTTTA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTTA
* *
59846602 GAAAAGTTTAAGGGTCAAAATGTATTTTTT
1 -AAAAGTTTAGGGGTCAAAATGTAATTTTT
59846632 TTAAACACAA
Statistics
Matches: 118, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
29 26 0.22
30 88 0.75
31 4 0.03
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (30 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTTA
Found at i:59846545 original size:13 final size:13
Alignment explanation
Indices: 59846497--59846548 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
59846487 AGTTTAGGAG
59846497 TCAAAATGTAATT
1 TCAAAATGTAATT
* *
59846510 TCAAGAAAGTTTAAGTG
1 TC-A-AAA-TGTAA-TT
59846527 TCAAAATGTAATT
1 TCAAAATGTAATT
59846540 TCAAAATGT
1 TCAAAATGT
59846549 TTTGGGGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 12 0.39
14 5 0.16
15 6 0.19
16 5 0.16
17 3 0.10
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (13 bp):
TCAAAATGTAATT
Found at i:59846590 original size:89 final size:89
Alignment explanation
Indices: 59846459--59846625 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 89
59846449 GCAGCAAAAC
* * *
59846459 TTTTGGGGTCAAAATGTAATTTTTATAAAGTTTAGGAGTCAAAATGTAATTTCAAG-AAAGTTTA
1 TTTTGGGGTCAAAATGTAATTTTGAAAAAGTTTAGGAGTCAAAATATAATTT-AAGAAAAGTTTA
*
59846523 AGTGTCAAAATGTAATTTCAAAATG
65 AGGGTCAAAATGTAATTTCAAAATG
** * * *
59846548 TTTTGGGGTTGAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATATAGTTTTAGAAAAGTTTAA
1 TTTTGGGGTCAAAATGTAATTTTGAAAAAGTTTAGGAGTCAAAATATAATTTAAGAAAAGTTTAA
59846613 GGGTCAAAATGTA
66 GGGTCAAAATGTA
59846626 TTTTTTTTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
88 2 0.03
89 66 0.97
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.37
Consensus pattern (89 bp):
TTTTGGGGTCAAAATGTAATTTTGAAAAAGTTTAGGAGTCAAAATATAATTTAAGAAAAGTTTAA
GGGTCAAAATGTAATTTCAAAATG
Found at i:59846629 original size:59 final size:57
Alignment explanation
Indices: 59846454--59846629 Score: 163
Period size: 59 Copynumber: 3.0 Consensus size: 57
59846444 TAATGGCAGC
* * * *
59846454 AAAACTTTTGGGGTCAAAATGTAATTTTTATAAAGTTTAGGAGTCAAAATGTAATTTCA
1 AAAAGTTTAGGGGTCAAAATGTAA-TTTTAAAAAGTTTAGG-GTCAAAATGTATTTTCA
* * * * * ** *
59846513 AGAAAGTTTAAGTGTCAAAATGTAATTTCAAAATGTTTTGGGGTTGAAATGTAATTTTGA
1 A-AAAGTTTAGGGGTCAAAATGTAATTTTAAAAAG-TTTAGGGTCAAAATGT-ATTTTCA
* *
59846573 AAAAGTTTAGGGGTCAAAATATAGTTTTAGAAAAGTTTAAGGGTCAAAATGTATTTT
1 AAAAGTTTAGGGGTCAAAATGTAATTTTA-AAAAGTTT-AGGGTCAAAATGTATTTT
59846630 TTTTAAACAC
Statistics
Matches: 91, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
59 47 0.52
60 44 0.48
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.37
Consensus pattern (57 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTAAAAAGTTTAGGGTCAAAATGTATTTTCA
Found at i:59849489 original size:10 final size:9
Alignment explanation
Indices: 59849475--59849621 Score: 68
Period size: 10 Copynumber: 15.8 Consensus size: 9
59849465 TTAGAATTTT
59849475 TAAAAATTA
1 TAAAAATTA
59849484 TAAAAA-TA
1 TAAAAATTA
59849492 TAAAAATTA
1 TAAAAATTA
*
59849501 CTAAAAATAA
1 -TAAAAATTA
59849511 TAAAAAATTA
1 T-AAAAATTA
*
59849521 TTTAAGAATTA
1 --TAAAAATTA
* **
59849532 T-GAAAGCA
1 TAAAAATTA
*
59849540 TAACAAACTA
1 TAA-AAATTA
59849550 TAAAAA-TA
1 TAAAAATTA
* *
59849558 TTTAAAACTA
1 -TAAAAATTA
**
59849568 TAAAAGCTA
1 TAAAAATTA
59849577 TTAAAAATTA
1 -TAAAAATTA
*
59849587 CAAAATATTA
1 TAAAA-ATTA
**
59849597 TAATGCATTA
1 TAA-AAATTA
59849607 TAAAAA-TA
1 TAAAAATTA
59849615 TAAAAAT
1 TAAAAAT
59849622 ATTTAGTAAA
Statistics
Matches: 104, Mismatches: 21, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
8 22 0.21
9 30 0.29
10 44 0.42
11 7 0.07
12 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:59853133 original size:22 final size:21
Alignment explanation
Indices: 59853101--59853161 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
59853091 AATAATAATA
59853101 TTATTATTTATATAAAATAAAT
1 TTATTA-TTATATAAAATAAAT
* *
59853123 TATATTATTATTTAAAA-ATAT
1 T-TATTATTATATAAAATAAAT
59853144 TT-TTA--ATATAAAATAAAT
1 TTATTATTATATAAAATAAAT
59853162 AAAATCACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 7 0.21
18 3 0.09
19 3 0.09
20 1 0.03
21 4 0.12
22 10 0.30
23 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATTATTATATAAAATAAAT
Found at i:59857771 original size:6 final size:6
Alignment explanation
Indices: 59857718--59857770 Score: 79
Period size: 6 Copynumber: 8.5 Consensus size: 6
59857708 GCTTTAAATC
*
59857718 TATCTA TATCTA TATCTA TATCTA TATCTA TATCTA TCTATCTA TATATA
1 TATCTA TATCTA TATCTA TATCTA TATCTA TATCTA --TATCTA TATCTA
59857768 TAT
1 TAT
59857771 AACATTATTC
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
6 38 0.86
8 6 0.14
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (6 bp):
TATCTA
Found at i:59858300 original size:29 final size:29
Alignment explanation
Indices: 59858258--59858335 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 29
59858248 AAGTTGTGGG
* * *
59858258 TTTAGTC-TCTATACTTTTATTTGATTAAT
1 TTTAGTCAT-TATACTTTTAATTGATCAAA
*
59858287 TTTAGTCATTATACATTTCGAATTGATCAAA
1 TTTAGTCATTATAC-TTT-TAATTGATCAAA
*
59858318 TTTAGTCATTGTACTTTT
1 TTTAGTCATTATACTTTT
59858336 TAAAATTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
29 12 0.30
30 7 0.17
31 21 0.52
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.53
Consensus pattern (29 bp):
TTTAGTCATTATACTTTTAATTGATCAAA
Found at i:59860290 original size:33 final size:33
Alignment explanation
Indices: 59860243--59860320 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
59860233 TAATTTTGAT
*
59860243 TATATAAATAAAATTTTAATTGTAATTCAAATA
1 TATATATATAAAATTTTAATTGTAATTCAAATA
* * * *
59860276 TGTATATATAAAATTTTAATTTTGATTCAATTA
1 TATATATATAAAATTTTAATTGTAATTCAAATA
*
59860309 TATATATTTAAA
1 TATATATATAAA
59860321 TAAATAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (33 bp):
TATATATATAAAATTTTAATTGTAATTCAAATA
Found at i:59860956 original size:2 final size:2
Alignment explanation
Indices: 59860951--59861037 Score: 174
Period size: 2 Copynumber: 43.5 Consensus size: 2
59860941 AAAAATGTGG
59860951 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
59860993 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
59861035 CT C
1 CT C
59861038 GTGAAGATGA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 85 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:59863427 original size:2 final size:2
Alignment explanation
Indices: 59863422--59863451 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
59863412 TGTCTCTCTA
*
59863422 TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
59863452 AGAGAGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:59863456 original size:2 final size:2
Alignment explanation
Indices: 59863451--59863480 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59863441 GTGTGTGTGT
59863451 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
59863481 CTTTGCTAGC
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:59868001 original size:34 final size:34
Alignment explanation
Indices: 59867922--59868003 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
59867912 GGTACATGAG
* * * **
59867922 TAATTACACCATACTAGATTGCTTGTCCAAGCAT
1 TAATTACACCACACTAAATTACTCATCCAAGCAT
* * *
59867956 TAACTAAACCACACTAAATTACTCATCTAAGCAT
1 TAATTACACCACACTAAATTACTCATCCAAGCAT
59867990 TAATTACACCACAC
1 TAATTACACCACAC
59868004 CAAGGCACCA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.28
Consensus pattern (34 bp):
TAATTACACCACACTAAATTACTCATCCAAGCAT
Found at i:59868958 original size:15 final size:15
Alignment explanation
Indices: 59868938--59868971 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
59868928 TTTGTCTTAA
59868938 TTAATTAATAAAAAC
1 TTAATTAATAAAAAC
* *
59868953 TTAATTAATTAAACC
1 TTAATTAATAAAAAC
59868968 TTAA
1 TTAA
59868972 AGTTAGTGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATTAATAAAAAC
Found at i:59876608 original size:21 final size:22
Alignment explanation
Indices: 59876582--59876623 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
59876572 TAACAATGTT
*
59876582 TAGAGAAT-ATAATTTTTTGTC
1 TAGAGAATCACAATTTTTTGTC
59876603 TAGAGAATCACAATTTTTTGT
1 TAGAGAATCACAATTTTTTGT
59876624 AATTACAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (22 bp):
TAGAGAATCACAATTTTTTGTC
Found at i:59879130 original size:30 final size:29
Alignment explanation
Indices: 59879096--59879156 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
59879086 CAGTGACTTG
**
59879096 AATTTTGGAATCTAAAATGTA-AATGGACTA
1 AATTTTGGAAAAT-AAATGTATAA-GGACTA
*
59879126 AATTTTTGAAAATAAATGTATAAGGACTA
1 AATTTTGGAAAATAAATGTATAAGGACTA
59879155 AA
1 AA
59879157 ATACAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.48, C:0.05, G:0.15, T:0.33
Consensus pattern (29 bp):
AATTTTGGAAAATAAATGTATAAGGACTA
Found at i:59879352 original size:33 final size:31
Alignment explanation
Indices: 59879291--59879353 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
59879281 ACTCTGTTTT
* *
59879291 TTTTTTCTCTTAATTTAGTACCACAACTTGA
1 TTTTTTCCCTTAATTTAGTACCAAAACTTGA
*
59879322 TTTTTTCCCTCTAATTTAGTATCTAAAACTTG
1 TTTTTTCCCT-TAATTTAGTA-CCAAAACTTG
59879354 TGAAACGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 9 0.33
32 10 0.37
33 8 0.30
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.49
Consensus pattern (31 bp):
TTTTTTCCCTTAATTTAGTACCAAAACTTGA
Found at i:59886392 original size:17 final size:17
Alignment explanation
Indices: 59886372--59886409 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
59886362 GTTATCAAAA
*
59886372 TAATAACAAT-AATAATT
1 TAATAA-AATAAATAAAT
59886389 TAATAAAATAAATAAAT
1 TAATAAAATAAATAAAT
59886406 TAAT
1 TAAT
59886410 CTTTTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
TAATAAAATAAATAAAT
Found at i:59893027 original size:20 final size:20
Alignment explanation
Indices: 59892998--59893042 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
59892988 TGTTACTATA
*
59892998 TTTTAGTTTTAGACTTTTAC
1 TTTTAATTTTAGACTTTTAC
* *
59893018 TTTTAATTTTAGATTTTTAT
1 TTTTAATTTTAGACTTTTAC
59893038 TTTTA
1 TTTTA
59893043 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTAATTTTAGACTTTTAC
Found at i:59907731 original size:24 final size:23
Alignment explanation
Indices: 59907696--59907754 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 23
59907686 AAAATAAAAT
59907696 ATTTATATTATTTTTAAT-TTAATA
1 ATTTATA-TATTTTTAATATTAA-A
*
59907720 ATTTAATATATTTTTTATATTAAA
1 ATTT-ATATATTTTTAATATTAAA
59907744 ATTTTATATAT
1 A-TTTATATAT
59907755 GGTCATCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 21 0.68
25 10 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTATATATTTTTAATATTAAA
Found at i:59915148 original size:22 final size:22
Alignment explanation
Indices: 59915123--59915214 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
59915113 AAATTCAATA
* *
59915123 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
59915145 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
*
59915167 TCAATTCCCTTCAAAATTTC-C
1 TCAATTCCCTTCAAAAATTCTC
* *
59915188 ATCAATTTCCTTCCAAAATTCTC
1 -TCAATTCCCTTCAAAAATTCTC
59915211 TCAA
1 TCAA
59915215 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:59915180 original size:44 final size:44
Alignment explanation
Indices: 59915123--59915214 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
59915113 AAATTCAATA
* * *
59915123 TCAATTTCTTTCAAAAATTCTC-TCAA-TTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTC-CATCAATTTCCTTCCAAAA-TTCTC
*
59915167 TCAATTCCCTTCAAAATTTCCATCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
59915211 TCAA
1 TCAA
59915215 ACTCTCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 30 0.71
45 11 0.26
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (44 bp):
TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
Found at i:59915230 original size:52 final size:51
Alignment explanation
Indices: 59915164--59915266 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
59915154 TTCAAAATTT
* *
59915164 CTCTCAATTCCCTT-CAAAATTTCC-ATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA--TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
59915216 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
59915267 TCCATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
51 7 0.16
52 29 0.64
53 9 0.20
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:59915255 original size:21 final size:22
Alignment explanation
Indices: 59915216--59915257 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
59915206 TTCTCTCAAA
59915216 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
59915238 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
59915258 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:59915363 original size:29 final size:30
Alignment explanation
Indices: 59915301--59915363 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
59915291 TAAATTTCAT
* *
59915301 TTTTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
*
59915331 TTTTTTAA-ATAATTTTAAAATTTTTAATA
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
59915360 TTTT
1 TTTT
59915364 CAACAATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTTAAGAAAATTTTAAAATTTTTAATA
Found at i:59915542 original size:24 final size:23
Alignment explanation
Indices: 59915510--59915554 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
59915500 AAAAAATTTT
59915510 CCTGGACCCCT-AACTCCTAAAAAG
1 CCTGGA-CCCTAAAC-CCTAAAAAG
*
59915534 CCTGTACCCTAAACCCTAAAA
1 CCTGGACCCTAAACCCTAAAA
59915555 CACATAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.36, C:0.38, G:0.09, T:0.18
Consensus pattern (23 bp):
CCTGGACCCTAAACCCTAAAAAG
Found at i:59928881 original size:18 final size:17
Alignment explanation
Indices: 59928858--59928900 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
59928848 GACTTTTATA
*
59928858 GTTATTATTATTGTTGTT
1 GTTATTATTATGGTT-TT
*
59928876 GTTATTTTTATGGTTTT
1 GTTATTATTATGGTTTT
59928893 -TTATTATT
1 GTTATTATT
59928901 TCATTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 7 0.32
17 2 0.09
18 13 0.59
ACGTcount: A:0.16, C:0.00, G:0.14, T:0.70
Consensus pattern (17 bp):
GTTATTATTATGGTTTT
Found at i:59929824 original size:15 final size:14
Alignment explanation
Indices: 59929800--59929829 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
59929790 GATTCCAAAG
59929800 ACATTTTAAAAAAA
1 ACATTTTAAAAAAA
59929814 ACATATTTAAAAAAA
1 ACAT-TTTAAAAAAA
59929829 A
1 A
59929830 AGGATCATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (14 bp):
ACATTTTAAAAAAA
Found at i:59931602 original size:10 final size:10
Alignment explanation
Indices: 59931587--59931611 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
59931577 TTTTGGGCTA
59931587 GGGTTTAGTT
1 GGGTTTAGTT
59931597 GGGTTTAGTT
1 GGGTTTAGTT
59931607 GGGTT
1 GGGTT
59931612 GTTTAGGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.44, T:0.48
Consensus pattern (10 bp):
GGGTTTAGTT
Found at i:59932121 original size:46 final size:46
Alignment explanation
Indices: 59932013--59932527 Score: 352
Period size: 46 Copynumber: 10.7 Consensus size: 46
59932003 CTTTAACGCT
* * *
59932013 AGGAAGATAAGATTCGCTGCCTACAACTTTAATCTGCTCCGCTGCAACGCCA
1 AGGAA-ATAAGATTCGCTGCCTTCAGCTTTAA--T-CT--ACTGCAACGCCA
59932065 AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCC-
1 AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCA
* * * * * *
59932110 AGAGAAATAAGATTTGTTGCCTTCAACCTTAATCTATTTCACTACAATGCCA
1 AG-GAAATAAGATTCGCTGCCTTCAGCTTTAATC----T-ACTGCAACGCCA
* * * ***
59932162 AGGAAATGAGATTCGTTGCCTTGAGCTTTAATCTACTATGACGCC-
1 AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCA
* * * * * * *
59932207 AGAGAAATGAGATTTGTTGTCTTCAGTTTTAATCTACTGTGAA-GCTA
1 AG-GAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTG-CAACGCCA
* ** ** *
59932254 GGGAAATAAGATTCGCTATCTTCAGCTTTAATCTACTGTGACGTCA
1 AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCA
* * * *
59932300 GGGAAATAAGATTTGTTGCCTTGAGCTTTAATCTGTTCCACTGCAACGCCA
1 AGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--ACTGCAACGCCA
* *
59932351 AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCTA
1 AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCA
* * * **
59932397 AGGAAATAAGATTTGCAGCCTTCAGCTTTAATCTATTCCACTACAACGATA
1 AGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--ACTGCAACGCCA
* * * * * **
59932448 AGGAAATGAGATTCTCTGCATTTAGCTATAATCTACTGTGACGCCA
1 AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCA
* * *
59932494 GGGAAATGAGATTCGCTGCCTTCAACTTTAATCT
1 AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCT
59932528 GTTCCACTGC
Statistics
Matches: 370, Mismatches: 72, Indels: 48
0.76 0.15 0.10
Matches are distributed among these distances:
45 5 0.01
46 215 0.58
47 3 0.01
48 4 0.01
49 3 0.01
50 1 0.00
51 132 0.36
52 7 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (46 bp):
AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCA
Found at i:59932162 original size:97 final size:97
Alignment explanation
Indices: 59932019--59932540 Score: 534
Period size: 97 Copynumber: 5.4 Consensus size: 97
59932009 CGCTAGGAAG
* * * * ** * *
59932019 ATAAGATTCGCTGCCTACAACTTTAATCTGCTCCGCTGCAACGCCAAGGAAATAAGATTCGCTGC
1 ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAATAAGATTCGCTGC
**
59932084 CTTCAGCTTTAATCTACTGCAACGCCAGAGAA
66 CTTCAGCTTTAATCTACTGTGACGCCAGAGAA
* * * * * *
59932116 ATAAGATTTGTTGCCTTCAACCTTAATCTATTTCACTACAATGCCAAGGAAATGAGATTCGTTGC
1 ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAATAAGATTCGCTGC
* *
59932181 CTTGAGCTTTAATCTACTATGACGCCAGAGAA
66 CTTCAGCTTTAATCTACTGTGACGCCAGAGAA
* * * ** * * * **
59932213 ATGAGATTTGTTGTCTTCAGTTTTAATCTA---CTGT-GAA-GCTAGGGAAATAAGATTCGCTAT
1 ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAATAAGATTCGCTGC
* *
59932273 CTTCAGCTTTAATCTACTGTGACGTCAGGGAA
66 CTTCAGCTTTAATCTACTGTGACGCCAGAGAA
* * *
59932305 ATAAGATTTGTTGCCTTGAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
1 ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAATAAGATTCGCTGC
* *
59932370 CTTCAGCTTTAATCTACTGCGACGCTA-AGGAA
66 CTTCAGCTTTAATCTACTGTGACGCCAGA-GAA
** ** * *
59932402 ATAAGATTTGCAGCCTTCAGCTTTAATCTATTCCACTACAACGATAAGGAAATGAGATTCTCTGC
1 ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAATAAGATTCGCTGC
* * * *
59932467 ATTTAGCTATAATCTACTGTGACGCCAGGGAA
66 CTTCAGCTTTAATCTACTGTGACGCCAGAGAA
* * * * * *
59932499 ATGAGATTCGCTGCCTTCAACTTTAATCTGTTCCACTGCAAC
1 ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAAC
59932541 TTTAGTTGTA
Statistics
Matches: 347, Mismatches: 71, Indels: 14
0.80 0.16 0.03
Matches are distributed among these distances:
92 70 0.20
93 2 0.01
94 2 0.01
95 2 0.01
96 2 0.01
97 269 0.78
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (97 bp):
ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAATAAGATTCGCTGC
CTTCAGCTTTAATCTACTGTGACGCCAGAGAA
Found at i:59932285 original size:143 final size:139
Alignment explanation
Indices: 59932059--59932527 Score: 432
Period size: 143 Copynumber: 3.3 Consensus size: 139
59932049 CTCCGCTGCA
* * * *
59932059 ACGCCA-AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCAGAGAAATAAGAT
1 ACGCCAGA-GAAATGAGATTCGCTGCCTTCAGCTTTAATCTACTGGAA-GCTAGGGAAATAAGAT
* * * *
59932123 TTGTTGCCTTCAACCTTAATCTATTTCACTACAATGCCAAGGAAATGAGATTCGTTGCCTTGAGC
64 TTGCTACCTTCAGCTTTAATCTATTTCACTACAA-G--AAGGAAATGAGATTCGTTGCCTTGAGC
59932188 TTTAATCTACTATG
126 TTTAATCTACTATG
* * * *
59932202 ACGCCAGAGAAATGAGATTTGTTGTCTTCAGTTTTAATCTACTGTGAAGCTAGGGAAATAAGATT
1 ACGCCAGAGAAATGAGATTCGCTGCCTTCAGCTTTAATCTACTG-GAAGCTAGGGAAATAAGATT
* * * * * *
59932267 CGCTATCTTCAGCTTTAATCTACTGTGACGT-C-AG--GGAAATAAGATTTGTTGCCTTGAGCTT
65 TGCTACCTTCAGCTTTAATCTA-TTTCAC-TACAAGAAGGAAATGAGATTCGTTGCCTTGAGCTT
* *
59932328 TAATCTGTTCCACTG
128 TAATC--TACTA-TG
* * *
59932343 CAACGCCA-AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCTAAGGAAATAAG
1 --ACGCCAGA-GAAATGAGATTCGCTGCCTTCAGCTTTAATCTACTG-GAAGCTAGGGAAATAAG
* *
59932407 ATTTGC-AGCCTTCAGCTTTAATCTATTCCACTACAACGATAAGGAAATGAGATTC-TCTGCATT
62 ATTTGCTA-CCTTCAGCTTTAATCTATTTCACTACAA-G--AAGGAAATGAGATTCGT-TGCCTT
* * *
59932470 TAGCTATAATCTACTGTG
122 GAGCTTTAATCTACTATG
* *
59932488 ACGCCAGGGAAATGAGATTCGCTGCCTTCAACTTTAATCT
1 ACGCCAGAGAAATGAGATTCGCTGCCTTCAGCTTTAATCT
59932528 GTTCCACTGC
Statistics
Matches: 262, Mismatches: 44, Indels: 40
0.76 0.13 0.12
Matches are distributed among these distances:
138 30 0.11
140 3 0.01
141 3 0.01
142 7 0.03
143 179 0.68
144 9 0.03
145 3 0.01
146 2 0.01
147 1 0.00
148 25 0.10
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (139 bp):
ACGCCAGAGAAATGAGATTCGCTGCCTTCAGCTTTAATCTACTGGAAGCTAGGGAAATAAGATTT
GCTACCTTCAGCTTTAATCTATTTCACTACAAGAAGGAAATGAGATTCGTTGCCTTGAGCTTTAA
TCTACTATG
Found at i:59932879 original size:24 final size:24
Alignment explanation
Indices: 59932822--59932879 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
59932812 TGAATTGCCC
* *
59932822 CCATTGTAATTTTCAAGGTTCAAT
1 CCATTGTAATCTTCAAGGTTAAAT
* * * *
59932846 CGACTATAATCTTCAATGTTAAAT
1 CCATTGTAATCTTCAAGGTTAAAT
59932870 CCATTGTAAT
1 CCATTGTAAT
59932880 TTTGGGACAT
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (24 bp):
CCATTGTAATCTTCAAGGTTAAAT
Found at i:59948382 original size:15 final size:15
Alignment explanation
Indices: 59948348--59948396 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
59948338 AATTAAGATT
*
59948348 GTAATAAAAATAATA
1 GTAATAAAAATGATA
* *
59948363 CTAATAAAAATGAGA
1 GTAATAAAAATGATA
*
59948378 GTAATAACAATGATA
1 GTAATAAAAATGATA
59948393 GTAA
1 GTAA
59948397 CAATAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.24
Consensus pattern (15 bp):
GTAATAAAAATGATA
Found at i:59948653 original size:15 final size:14
Alignment explanation
Indices: 59948599--59948654 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
59948589 TAACAATATA
59948599 GTAATAATAATAA-
1 GTAATAATAATAAG
59948612 GTACATAAATAATAAGG
1 GTA-AT-AATAATAA-G
59948629 GTAA-AATAATAATG
1 GTAATAATAATAA-G
59948643 GTAATAATAATA
1 GTAATAATAATA
59948655 TTAATTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
13 3 0.08
14 15 0.41
15 15 0.41
16 1 0.03
17 3 0.08
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (14 bp):
GTAATAATAATAAG
Found at i:59960535 original size:3 final size:3
Alignment explanation
Indices: 59960527--59960555 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
59960517 AGGCAACCCA
59960527 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
59960556 ACTTGGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:59961810 original size:26 final size:24
Alignment explanation
Indices: 59961781--59961832 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
59961771 TAATTTTTAA
* *
59961781 ATGTGTAGGATTAAATTAAAAAAATT
1 ATGTATAGAATTAAA-T-AAAAAATT
*
59961807 ATGTATATAATTAAATAAAAAATT
1 ATGTATAGAATTAAATAAAAAATT
59961831 AT
1 AT
59961833 ATATTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 10 0.43
25 1 0.04
26 12 0.52
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (24 bp):
ATGTATAGAATTAAATAAAAAATT
Found at i:59961826 original size:24 final size:25
Alignment explanation
Indices: 59961790--59961842 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
59961780 AATGTGTAGG
*
59961790 ATTAAATTAAAAAAATTATGTATATA
1 ATTAAATTAAAAAAATTATATAT-TA
59961816 ATTAAA-T-AAAAAATTATATATTA
1 ATTAAATTAAAAAAATTATATATTA
59961839 ATTA
1 ATTA
59961843 TGTCAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.23
24 13 0.50
25 1 0.04
26 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
ATTAAATTAAAAAAATTATATATTA
Found at i:59962465 original size:19 final size:19
Alignment explanation
Indices: 59962441--59962499 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 19
59962431 TAGTAACTTG
59962441 TTTTATTAGATTTTAAAAT
1 TTTTATTAGATTTTAAAAT
**
59962460 TTTTA-T-GTATTTTTTAA-
1 TTTTATTAG-ATTTTAAAAT
59962477 TTTTATTAAGATTTTTAAAAT
1 TTTTATT-AGA-TTTTAAAAT
59962498 TT
1 TT
59962500 GTAAGATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
17 6 0.20
18 9 0.30
19 6 0.20
20 7 0.23
21 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTATTAGATTTTAAAAT
Found at i:59962498 original size:20 final size:20
Alignment explanation
Indices: 59962441--59962525 Score: 58
Period size: 19 Copynumber: 4.4 Consensus size: 20
59962431 TAGTAACTTG
59962441 TTTTATT-AGA-TTTTAAAA
1 TTTTATTAAGATTTTTAAAA
* *
59962459 -TTT-TTATGTATTTTT-TAA
1 TTTTATTAAG-ATTTTTAAAA
59962477 TTTTATTAAGATTTTTAAAA
1 TTTTATTAAGATTTTTAAAA
*
59962497 -TTT-GTAAGATTTACTTGAAAA
1 TTTTATTAAGATTT--TT-AAAA
59962518 TTTTATTA
1 TTTTATTA
59962526 TTTTTGGAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 17
0.68 0.08 0.23
Matches are distributed among these distances:
16 2 0.04
17 4 0.08
18 11 0.22
19 16 0.32
20 8 0.16
21 4 0.08
22 3 0.06
23 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (20 bp):
TTTTATTAAGATTTTTAAAA
Found at i:59962504 original size:18 final size:18
Alignment explanation
Indices: 59962451--59962508 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
59962441 TTTTATTAGA
*
59962451 TTTTAAAATTTTTATGTAT
1 TTTTAAAATTTTTAAG-AT
* *
59962470 TTTTTAATTTTATTAAGAT
1 TTTTAAAATTT-TTAAGAT
*
59962489 TTTTAAAATTTGTAAGAT
1 TTTTAAAATTTTTAAGAT
59962507 TT
1 TT
59962509 ACTTGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 8 0.25
19 20 0.62
20 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTTAAAATTTTTAAGAT
Found at i:59963705 original size:43 final size:43
Alignment explanation
Indices: 59963658--59963753 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 43
59963648 AAATGCCTTT
* * * *
59963658 AATAATTAAAATACTGGTAAGGCTCCATTCAATACCAAACTCC
1 AATAATTAAAATACCGATAAAGATCCATTCAATACCAAACTCC
* *
59963701 AATAATTAGAATACCGATAAAGATCCATTCAATATCAAACTCC
1 AATAATTAAAATACCGATAAAGATCCATTCAATACCAAACTCC
**
59963744 TTTAATTAAA
1 AATAATTAAA
59963754 TCTTTTATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (43 bp):
AATAATTAAAATACCGATAAAGATCCATTCAATACCAAACTCC
Found at i:59964211 original size:24 final size:21
Alignment explanation
Indices: 59964172--59964215 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
59964162 ATATTTATAT
59964172 ATTTTATATTTAAATTCAAATA
1 ATTTTATATTTAAATT-AAATA
*
59964194 ATTTTTTATTTAATAATTAAAT
1 ATTTTATATTT-A-AATTAAAT
59964216 TGAGCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 10 0.53
23 5 0.26
24 4 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTATATTTAAATTAAATA
Found at i:59964614 original size:18 final size:18
Alignment explanation
Indices: 59964587--59964624 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
59964577 TGAATTTTAC
*
59964587 AATTCGAATAACTCGAAT
1 AATTCAAATAACTCGAAT
*
59964605 AATTCAAATAATTCGAAT
1 AATTCAAATAACTCGAAT
59964623 AA
1 AA
59964625 CAAATTGATG
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:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:59964725 original size:21 final size:20
Alignment explanation
Indices: 59964692--59964742 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
59964682 TCTCTCTCAA
59964692 TAAAAATTACAAAAAGAATTT
1 TAAAAATT-CAAAAAGAATTT
*
59964713 TCAAAAATTC-AAAATAATTT
1 T-AAAAATTCAAAAAGAATTT
*
59964733 TTAAAATTCA
1 TAAAAATTCA
59964743 CATTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 2 0.08
22 7 0.27
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAAATTCAAAAAGAATTT
Found at i:59965863 original size:20 final size:20
Alignment explanation
Indices: 59965840--59965901 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 20
59965830 TAATAAAATA
59965840 AATTAAAAAAATTAACTCTT
1 AATTAAAAAAATTAACTCTT
* *
59965860 AATTCAAAGAAAATAAACGTAATT
1 AATT-AAA-AAAATTAAC-T-CTT
59965884 -ATCTAAAAAAATTAACTC
1 AAT-TAAAAAAATTAACTC
59965902 AATAGAAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
20 4 0.12
21 4 0.12
22 16 0.48
23 6 0.18
24 3 0.09
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.29
Consensus pattern (20 bp):
AATTAAAAAAATTAACTCTT
Found at i:59968995 original size:2 final size:2
Alignment explanation
Indices: 59968988--59969015 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
59968978 ATTAAAAACA
59968988 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
59969016 TCTGTTCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59973060 original size:11 final size:11
Alignment explanation
Indices: 59973030--59973067 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
59973020 TGACTTAATT
*
59973030 TAATATATAT-
1 TAATATATTTA
59973040 TAAT-TATTTA
1 TAATATATTTA
59973050 TAATATATTTA
1 TAATATATTTA
59973061 TAATATA
1 TAATATA
59973068 AAATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 4 0.16
10 8 0.32
11 13 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TAATATATTTA
Found at i:59977125 original size:56 final size:56
Alignment explanation
Indices: 59977027--59977161 Score: 180
Period size: 56 Copynumber: 2.4 Consensus size: 56
59977017 GGTATTTATG
* * **
59977027 ATCTTTTAGCAATTTGATTCCTAATGGGATATTATAGGATATTACTATGGAATATT
1 ATCTTTTAGCAATTTGATTCCTAATGAGATATTACAAAATATTACTATGGAATATT
* * * *
59977083 ATCTCTTAGCAATTTGATTCCTAATGAGATGTTACAAAATATTATTATGGTATATT
1 ATCTTTTAGCAATTTGATTCCTAATGAGATATTACAAAATATTACTATGGAATATT
* *
59977139 ATCTTTTGGTAATTTGATTCCTA
1 ATCTTTTAGCAATTTGATTCCTA
59977162 CGTAATTATT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (56 bp):
ATCTTTTAGCAATTTGATTCCTAATGAGATATTACAAAATATTACTATGGAATATT
Found at i:59996074 original size:23 final size:23
Alignment explanation
Indices: 59996032--59996075 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
59996022 GTAAAACCGA
*
59996032 ATAATTGTCACATGTTTATTACC
1 ATAATTGTCACATGTATATTACC
59996055 ATAATTG-CACATGTAATATTA
1 ATAATTGTCACATGT-ATATTA
59996076 TTAACCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (23 bp):
ATAATTGTCACATGTATATTACC
Found at i:59996821 original size:3 final size:3
Alignment explanation
Indices: 59996813--59996842 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
59996803 AGCAAATAGT
59996813 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
59996843 TTCAACGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:59999096 original size:19 final size:16
Alignment explanation
Indices: 59999066--59999113 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 16
59999056 AAAGTCATAT
59999066 ATATATATTATTAATAAA
1 ATATA-ATTATTAA-AAA
59999084 ATTATTAATTATTAAAAA
1 A-TA-TAATTATTAAAAA
59999102 ATATAATTATTA
1 ATATAATTATTA
59999114 CCAAAATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 9 0.32
17 2 0.07
18 5 0.18
19 10 0.36
20 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATAATTATTAAAAA
Found at i:60016209 original size:25 final size:25
Alignment explanation
Indices: 60016133--60016212 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
60016123 CAATTTACAA
60016133 CTCATATAAGCTTCCCT-ATAT-ACAG
1 CTCATATAAGCTT-CCTGAT-TCACAG
* ***
60016158 CTCATATGAGCTTCCTGATTTGTAG
1 CTCATATAAGCTTCCTGATTCACAG
* *
60016183 CTCGTATAAGCTTTCTGATTCACAG
1 CTCATATAAGCTTCCTGATTCACAG
60016208 CTCAT
1 CTCAT
60016213 GAGAGCATAT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 4 0.09
25 39 0.91
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (25 bp):
CTCATATAAGCTTCCTGATTCACAG
Found at i:60016243 original size:25 final size:26
Alignment explanation
Indices: 60016180--60016246 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
60016170 TCCTGATTTG
* *
60016180 TAGCTCGTATAAGC-TTTCTGATTCA
1 TAGCTCGTATGAGCATATCTGATTCA
* *
60016205 CAGCTCATGA-GAGCATAT-TGATTCA
1 TAGCTCGT-ATGAGCATATCTGATTCA
60016230 TAGCTCGTATGAGCATA
1 TAGCTCGTATGAGCATA
60016247 CATGAATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
24 1 0.03
25 29 0.88
26 3 0.09
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (26 bp):
TAGCTCGTATGAGCATATCTGATTCA
Found at i:60023490 original size:24 final size:24
Alignment explanation
Indices: 60023475--60023526 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
60023465 AATCAATGTC
60023475 AAATATATTATACTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
* *
60023499 AAATATATTATACTAATAAGTACT
1 AAATATATTATACTAATAAATGCT
60023523 AAAT
1 AAAT
60023527 CTACTAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:60041833 original size:18 final size:19
Alignment explanation
Indices: 60041790--60041833 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
60041780 AAGAAAAGAG
60041790 AATAATAAAATCACATAAT
1 AATAATAAAATCACATAAT
*
60041809 AAAAATAAAA-CA-ATAAAT
1 AATAATAAAATCACAT-AAT
60041827 AATAATA
1 AATAATA
60041834 GGGTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 11 0.50
19 9 0.41
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (19 bp):
AATAATAAAATCACATAAT
Found at i:60046397 original size:26 final size:26
Alignment explanation
Indices: 60046363--60046435 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
60046353 TGGCTATCCA
60046363 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAAAGGCTCTTCGT
* * *
60046388 GAGCTTCCTGATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAAAGGCTCTTCGT
* *
60046414 GAACTTCCTGATT-ATGGCTCTT
1 GAGCTTCCTGATTAAAGGCTCTT
60046436 ATGAACTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 10 0.25
26 30 0.75
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAGGCTCTTCGT
Found at i:60048377 original size:43 final size:43
Alignment explanation
Indices: 60048329--60048434 Score: 149
Period size: 43 Copynumber: 2.5 Consensus size: 43
60048319 TATCCCAGAT
* * * * *
60048329 ATGGTCTTAGATGTTATCACATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAAC
*
60048372 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAAC
*
60048415 ATGGTCTTACACGAAATCAC
1 ATGGTCTTACACGTAATCAC
60048435 TCCTTGAAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAAC
Found at i:60052387 original size:17 final size:18
Alignment explanation
Indices: 60052350--60052388 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
60052340 TTTTATAAAT
60052350 TGTGAAATTATATTGATA
1 TGTGAAATTATATTGATA
60052368 TGTG-AATTAATATTGA-A
1 TGTGAAATT-ATATTGATA
60052385 TGTG
1 TGTG
60052389 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (18 bp):
TGTGAAATTATATTGATA
Found at i:60052641 original size:23 final size:23
Alignment explanation
Indices: 60052614--60052785 Score: 202
Period size: 23 Copynumber: 7.5 Consensus size: 23
60052604 AGTGTTATTG
*
60052614 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
60052637 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
60052660 ACCAGTGGTAGCTTCGGATACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
60052683 TTCAGTGGTAGATACGGCTACAC
1 ATCAGTGGTAGCTTCGGCTACAT
* *
60052706 ATCAGTGGTAGCTTCGGATAAAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
60052729 TTCAGTGGTAGCTACCGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
60052752 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
60052775 ATCAGT-GTAGC
1 ATCAGTGGTAGC
60052786 ACTTATGTGC
Statistics
Matches: 120, Mismatches: 29, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
22 5 0.04
23 115 0.96
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:60052669 original size:46 final size:46
Alignment explanation
Indices: 60052614--60052785 Score: 247
Period size: 46 Copynumber: 3.8 Consensus size: 46
60052604 AGTGTTATTG
* *
60052614 ATCAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGATACATTTCAGTGGTAGCTACGGCTACAT
* * *
60052660 ACCAGTGGTAGCTTCGGATACATTTCAGTGGTAGATACGGCTACAC
1 ATCAGTGGTAGCTTCGGATACATTTCAGTGGTAGCTACGGCTACAT
* * *
60052706 ATCAGTGGTAGCTTCGGATAAATTTCAGTGGTAGCTACCGCTACGT
1 ATCAGTGGTAGCTTCGGATACATTTCAGTGGTAGCTACGGCTACAT
* *
60052752 ATCAGTGGTAGCTTCGGCTACATATCAGT-GTAGC
1 ATCAGTGGTAGCTTCGGATACATTTCAGTGGTAGC
60052786 ACTTATGTGC
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 5 0.04
46 107 0.96
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGATACATTTCAGTGGTAGCTACGGCTACAT
Found at i:60056169 original size:15 final size:16
Alignment explanation
Indices: 60056151--60056184 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
60056141 CCAGATAATC
60056151 TCATTATTCTGA-ATT
1 TCATTATTCTGACATT
60056166 TCATTATTCTGACATT
1 TCATTATTCTGACATT
60056182 TCA
1 TCA
60056185 AATTGGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.50
Consensus pattern (16 bp):
TCATTATTCTGACATT
Found at i:60069818 original size:21 final size:22
Alignment explanation
Indices: 60069789--60069835 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
60069779 CAGAAGGAGT
*
60069789 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
60069811 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
60069832 GAGT
1 GAGT
60069836 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:60074607 original size:30 final size:30
Alignment explanation
Indices: 60074568--60074626 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
60074558 GGAGGTAGGA
*
60074568 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAA-ATTTAGGGGAAAAG
* *
60074599 TGGG-AGGGAGTAAAAATTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTAGGGGAAAA
60074627 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 10 0.40
31 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.19
Consensus pattern (30 bp):
TGGGAAGGGAATAAAAATTTAGGGGAAAAG
Found at i:60074929 original size:9 final size:9
Alignment explanation
Indices: 60074912--60074942 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
60074902 TCGAGTTGAT
60074912 TCGAATAAC
1 TCGAATAAC
*
60074921 TCGATTAAC
1 TCGAATAAC
60074930 TCGAATAAC
1 TCGAATAAC
60074939 TCGA
1 TCGA
60074943 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:60078675 original size:42 final size:42
Alignment explanation
Indices: 60078628--60078722 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
60078618 CTGTTACAGC
* *
60078628 CCAGGCCGTGTGAGTCACACGGGCAAGGACACGGGCATGTGT
1 CCAGGCCGTGTGAGTCACACGAGCAAGGACACGAGCATGTGT
* * *
60078670 CCAGGCCATGTGAGTCACACGAGCAGGGACACGAGCCTGTGT
1 CCAGGCCGTGTGAGTCACACGAGCAAGGACACGAGCATGTGT
*
60078712 CCAGGTCGTGT
1 CCAGGCCGTGT
60078723 AACTCACTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.21, C:0.27, G:0.36, T:0.16
Consensus pattern (42 bp):
CCAGGCCGTGTGAGTCACACGAGCAAGGACACGAGCATGTGT
Found at i:60086326 original size:126 final size:126
Alignment explanation
Indices: 60086172--60086690 Score: 699
Period size: 125 Copynumber: 4.1 Consensus size: 126
60086162 TTTGTTTTTA
* * * * * *
60086172 TTTCTACACTAGTT-TCAGAAAAATTAATTTTGAGAAGATGGTTCTGAAAAGATAATGTCAAAAA
1 TTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
* * *
60086236 CGCTTCAAGTAGGATGCACTATCAGTAAAATTACTGAAAATA-GCTCCCACGTGAACGCTCTT
65 CGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAA-AGGCTCCCACGTGGACGCTCTT
* *
60086298 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGT-ACAAAC
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAAC
** * ** *
60086362 GCTTCAAGTAGGATG-TTTGTCAACAAAATTACTGAAAAAAACTCCCACGTGGACACTCTT
66 GCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAGGCTCCCACGTGGACGCTCTT
* * *
60086422 TTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGGCGGTTCT-ATAAAAATAGTGTAAAAAA
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGA-AAAAATAGTGTCAAAAA
* * * *
60086486 CACTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAATGCTCTCATGTGGACGCTCTT
65 CGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAGGCTCCCACGTGGACGCTCTT
* * *
60086548 TTTCTACAATAGTTTTTGAAAAAATAATTTTGAGAAGATGGTTCTG-AAAAATAGTGTCAAAAAC
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAAC
* * *
60086612 GCTTCAAGCAGGATGCATTGTCAGCAAAATTACTGAAAAAGGCTCCCACGTGGATGCTCTT
66 GCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAGGCTCCCACGTGGACGCTCTT
60086673 TTTCTACAGTAGTTCTTG
1 TTTCTACAGTAGTTCTTG
60086691 CTTGGCCTTA
Statistics
Matches: 343, Mismatches: 44, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
123 2 0.01
124 88 0.26
125 126 0.37
126 126 0.37
127 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (126 bp):
TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAAC
GCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAGGCTCCCACGTGGACGCTCTT
Found at i:60089741 original size:21 final size:21
Alignment explanation
Indices: 60089712--60089764 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
60089702 TTTCGGCGGG
*
60089712 GGTTGTGGTTGCTCTGACGGA
1 GGTTGTGGTTGCTCTGACAGA
*
60089733 GGTTATGGTTGCTCTGACAGA
1 GGTTGTGGTTGCTCTGACAGA
60089754 GGTTGTGGTTG
1 GGTTGTGGTTG
60089765 TTCTAGTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.11, C:0.11, G:0.42, T:0.36
Consensus pattern (21 bp):
GGTTGTGGTTGCTCTGACAGA
Found at i:60090040 original size:18 final size:18
Alignment explanation
Indices: 60090014--60090057 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
60090004 GACTGTGAAA
* * *
60090014 AGGAAACATATAAGTGTT
1 AGGATACATATAAGGGCT
60090032 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
60090050 AGGATACA
1 AGGATACA
60090058 CACCTAGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:60093684 original size:20 final size:20
Alignment explanation
Indices: 60093659--60093743 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
60093649 GATTCGAGTT
*
60093659 AAACAACAAAGAATCAATTC
1 AAACAACAAACAATCAATTC
* *
60093679 AAACAATAAACAATCTATTC
1 AAACAACAAACAATCAATTC
* * * *
60093699 AAAGAATCAAAGAATCGATTTA
1 AAACAA-CAAACAATC-AATTC
*
60093721 AAACAACAAACAATCGATTC
1 AAACAACAAACAATCAATTC
60093741 AAA
1 AAA
60093744 GAAGCAACAA
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
20 27 0.55
21 15 0.31
22 7 0.14
ACGTcount: A:0.58, C:0.18, G:0.06, T:0.19
Consensus pattern (20 bp):
AAACAACAAACAATCAATTC
Found at i:60093730 original size:21 final size:21
Alignment explanation
Indices: 60093659--60093739 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
60093649 GATTCGAGTT
* * *
60093659 AAACAACAAAGAATC-AATTC
1 AAACAACAAACAATCGATTTA
* * *
60093679 AAACAATAAACAATCTATTCA
1 AAACAACAAACAATCGATTTA
* *
60093700 AAGA-ATCAAAGAATCGATTTA
1 AA-ACAACAAACAATCGATTTA
60093721 AAACAACAAACAATCGATT
1 AAACAACAAACAATCGATT
60093740 CAAAGAAGCA
Statistics
Matches: 46, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
20 14 0.30
21 31 0.67
22 1 0.02
ACGTcount: A:0.57, C:0.17, G:0.06, T:0.20
Consensus pattern (21 bp):
AAACAACAAACAATCGATTTA
Found at i:60093732 original size:42 final size:41
Alignment explanation
Indices: 60093665--60093746 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 41
60093655 AGTTAAACAA
* * *
60093665 CAAAGAATCAATTCAAACAATAAACAATCTATTCAAAGAAT
1 CAAAGAATCAATTAAAACAACAAACAATCGATTCAAAGAAT
*
60093706 CAAAGAATCGATTTAAAACAACAAACAATCGATTCAAAGAA
1 CAAAGAATC-AATTAAAACAACAAACAATCGATTCAAAGAA
60093747 GCAACAATGC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 9 0.25
42 27 0.75
ACGTcount: A:0.56, C:0.17, G:0.07, T:0.20
Consensus pattern (41 bp):
CAAAGAATCAATTAAAACAACAAACAATCGATTCAAAGAAT
Found at i:60094783 original size:24 final size:24
Alignment explanation
Indices: 60094762--60094818 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
60094752 AAGATTTAGT
*
60094762 ATTTATTAGTATAATATATTTAAC
1 ATTTATTAGCATAATATATTTAAC
*
60094786 ATTTATTAGCATAATATATCTAAC
1 ATTTATTAGCATAATATATTTAAC
*
60094810 ATTGATTAG
1 ATTTATTAG
60094819 AATTAGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAAC
Found at i:60107730 original size:15 final size:15
Alignment explanation
Indices: 60107706--60107735 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60107696 AAACGAAGAT
*
60107706 AACATCTTTTTTTTA
1 AACATATTTTTTTTA
60107721 AACATATTTTTTTTA
1 AACATATTTTTTTTA
60107736 CAAAAGAATG
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:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (15 bp):
AACATATTTTTTTTA
Found at i:60107828 original size:14 final size:14
Alignment explanation
Indices: 60107809--60107840 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
60107799 TAATAATGAG
60107809 AATACCAATTTTAT
1 AATACCAATTTTAT
60107823 AATACCAATTTTAT
1 AATACCAATTTTAT
60107837 AATA
1 AATA
60107841 ATAATATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (14 bp):
AATACCAATTTTAT
Found at i:60107844 original size:20 final size:20
Alignment explanation
Indices: 60107821--60107863 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
60107811 TACCAATTTT
60107821 ATAATACCAATTTTATAATA
1 ATAATACCAATTTTATAATA
* *
60107841 ATAATATCAATTTTATAGTA
1 ATAATACCAATTTTATAATA
60107861 ATA
1 ATA
60107864 TTGATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (20 bp):
ATAATACCAATTTTATAATA
Found at i:60108150 original size:18 final size:17
Alignment explanation
Indices: 60108123--60108156 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
60108113 CAAGGCATGA
*
60108123 AAGTACTAAAAATAAAAG
1 AAGTAATAAAAA-AAAAG
60108141 AAGTAATAAAAAAAAA
1 AAGTAATAAAAAAAAA
60108157 TTGAGGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.15
Consensus pattern (17 bp):
AAGTAATAAAAAAAAAG
Done.