Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 23 of 153
Found at i:7943911 original size:2 final size:2
Alignment explanation
Indices: 7943906--7943935 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7943896 TCTCTATTTT
7943906 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
7943936 TTGCAAATAA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:7946844 original size:21 final size:21
Alignment explanation
Indices: 7946818--7946857 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7946808 GATGTTTAGA
7946818 GTTTGAGATTTAAGATTTGGG
1 GTTTGAGATTTAAGATTTGGG
*
7946839 GTTTGAGGTTTAAGATTTG
1 GTTTGAGATTTAAGATTTG
7946858 AGATTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.45
Consensus pattern (21 bp):
GTTTGAGATTTAAGATTTGGG
Found at i:7947201 original size:29 final size:31
Alignment explanation
Indices: 7947169--7947226 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
7947159 TAAAATTGAA
7947169 AAAAAAATAAAAAT-GATTTT-AATTTTATT
1 AAAAAAATAAAAATAGATTTTAAATTTTATT
* *
7947198 AAAAATATAAAAATATATTTTAAATTTTA
1 AAAAAAATAAAAATAGATTTTAAATTTTA
7947227 AATTTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.52
30 5 0.20
31 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (31 bp):
AAAAAAATAAAAATAGATTTTAAATTTTATT
Found at i:7955758 original size:17 final size:16
Alignment explanation
Indices: 7955717--7955776 Score: 61
Period size: 15 Copynumber: 3.8 Consensus size: 16
7955707 AATATATAAA
*
7955717 AATTCATAAAAATATAT
1 AATT-ATAAAAAAATAT
* *
7955734 AA-TCTAAAAACATAT
1 AATTATAAAAAAATAT
7955749 AAATTATAAAAAAATAT
1 -AATTATAAAAAAATAT
7955766 AATT-TAAAAAA
1 AATTATAAAAAA
7955777 TGTAAAGCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
15 17 0.46
16 7 0.19
17 13 0.35
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (16 bp):
AATTATAAAAAAATAT
Found at i:7958479 original size:86 final size:87
Alignment explanation
Indices: 7958312--7958527 Score: 260
Period size: 86 Copynumber: 2.4 Consensus size: 87
7958302 CAATTAGTTT
* *
7958312 GGGCTTAATTGCTTTTCTTGAAAAAGCTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCGAGTAC
1 GGGCTTAATTGCTTTT-TT-AAAAAGTTTGAGGG-CTTTTTGATGCATTTTGAAAGTTCAAGTAC
* * **
7958377 CCAATTGAGTCAAAAAAGAA-GTAG
63 CAAATTGAGTCAAAAAAAAACACAG
* *
7958401 GGGCTTAATTGCTTTTTT-TAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCT
1 GGGCTTAATTGCTTTTTTAAAAAGTTTGAGGG-CTTTTTGATGCATTTTGAAAGTTCAAGTACC-
*
7958465 AAATATGTG-CAAAAAAAAACACAG
64 AAAT-TGAGTCAAAAAAAAACACAG
7958489 GGGCTTAATTG-TTTTTTGAAAAAGTTTGAGGGCTTTTTG
1 GGGCTTAATTGCTTTTTT-AAAAAGTTTGAGGGCTTTTTG
7958528 CACCCTTAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
86 40 0.36
87 18 0.16
88 25 0.23
89 27 0.25
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (87 bp):
GGGCTTAATTGCTTTTTTAAAAAGTTTGAGGGCTTTTTGATGCATTTTGAAAGTTCAAGTACCAA
ATTGAGTCAAAAAAAAACACAG
Found at i:7967722 original size:34 final size:35
Alignment explanation
Indices: 7967678--7967744 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
7967668 CAGTAAAATA
* * *
7967678 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
*
7967712 TTTTCTGTAAAATGACTTACAGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTT
7967745 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
Found at i:7967731 original size:20 final size:20
Alignment explanation
Indices: 7967693--7967731 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7967683 CGTAAAATGA
**
7967693 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
7967713 TTTCTGTAAAATGACTTAC
1 TTTCTGGAAAATGACTTAC
7967732 AGGAAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:7972498 original size:24 final size:24
Alignment explanation
Indices: 7972471--7972543 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
7972461 TGCAATCGAT
*
7972471 AGGGTGAATAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
* *
7972495 AGGGTGAAGAGAGGAACAGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
7972519 AGGGTGAAGAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
7972543 A
1 A
7972544 ATGTCTTACC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.47, T:0.12
Consensus pattern (24 bp):
AGGGTGAAGAGAGGAGCTGTGGAA
Found at i:7975325 original size:17 final size:17
Alignment explanation
Indices: 7975303--7975335 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7975293 ATATTTTTTA
7975303 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
*
7975320 TTTTTATTCAAATATA
1 TTTTTAATCAAATATA
7975336 TACTTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:7975673 original size:16 final size:16
Alignment explanation
Indices: 7975649--7975718 Score: 52
Period size: 16 Copynumber: 4.3 Consensus size: 16
7975639 CCAATTTTTT
*
7975649 TAAAAAATATTTAATA
1 TAAAAAATATTAAATA
*
7975665 TAAACAATATTAAATA
1 TAAAAAATATTAAATA
** *
7975681 TATCAAATGAATTAGAT-
1 TAAAAAAT--ATTAAATA
* *
7975698 TAAATAATTTTAAATA
1 TAAAAAATATTAAATA
7975714 TAAAA
1 TAAAA
7975719 TTATCATTGA
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
15 5 0.13
16 23 0.59
17 5 0.13
18 6 0.15
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (16 bp):
TAAAAAATATTAAATA
Found at i:7993613 original size:21 final size:21
Alignment explanation
Indices: 7993587--7993627 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7993577 ATCTGCTCAA
* *
7993587 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
7993608 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
7993628 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:7997832 original size:13 final size:13
Alignment explanation
Indices: 7997814--7997841 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7997804 ACTAAAGCCC
7997814 AACAAGCATATTA
1 AACAAGCATATTA
7997827 AACAAGCATATTA
1 AACAAGCATATTA
7997840 AA
1 AA
7997842 ACCCAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AACAAGCATATTA
Found at i:8002694 original size:21 final size:21
Alignment explanation
Indices: 8002652--8002697 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
8002642 TATATAATAT
* *
8002652 TATTTATTTTAAAATGTTTTA
1 TATTTATTTTAAAATCTCTTA
**
8002673 TATTTATTTTAAGTTCTCTTA
1 TATTTATTTTAAAATCTCTTA
8002694 TATT
1 TATT
8002698 GTTTATTCGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (21 bp):
TATTTATTTTAAAATCTCTTA
Found at i:8009528 original size:23 final size:23
Alignment explanation
Indices: 8009496--8009539 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8009486 GCTACCATTT
8009496 TCTAAATAAAATAATAATAAACA
1 TCTAAATAAAATAATAATAAACA
* *
8009519 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
8009540 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAACA
Found at i:8010088 original size:15 final size:15
Alignment explanation
Indices: 8010064--8010114 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
8010054 TATAACTTTT
8010064 TTAAAATAATAAAAG
1 TTAAAATAATAAAAG
*
8010079 TTAAATTAATAAAA-
1 TTAAAATAATAAAAG
**
8010093 TATACAAATGTTAAAAG
1 T-TA-AAATAATAAAAG
8010110 TTAAA
1 TTAAA
8010115 TTTATCTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 1 0.03
15 17 0.59
16 10 0.34
17 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (15 bp):
TTAAAATAATAAAAG
Found at i:8014693 original size:25 final size:25
Alignment explanation
Indices: 8014664--8014714 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8014654 ATTTCATTTT
8014664 AGGTGATCAAAATGAATGCGCCTAA
1 AGGTGATCAAAATGAATGCGCCTAA
8014689 AGGTGATCAAAATGAATGCGCCTAA
1 AGGTGATCAAAATGAATGCGCCTAA
8014714 A
1 A
8014715 AGTTGAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (25 bp):
AGGTGATCAAAATGAATGCGCCTAA
Found at i:8019915 original size:14 final size:14
Alignment explanation
Indices: 8019888--8019927 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
8019878 TAATAAACTT
8019888 AAATTTAATAAAAA
1 AAATTTAATAAAAA
*
8019902 AAATTATAATAAAAG
1 AAATT-TAATAAAAA
*
8019917 AAACTTAATAA
1 AAATTTAATAA
8019928 TGTTAACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (14 bp):
AAATTTAATAAAAA
Found at i:8021272 original size:14 final size:17
Alignment explanation
Indices: 8021241--8021277 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
8021231 ATTATAAAGG
8021241 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
8021258 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
8021272 ATATTA
1 ATATTA
8021278 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:8021453 original size:14 final size:14
Alignment explanation
Indices: 8021427--8021477 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
8021417 GAAAACAAAA
8021427 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
8021441 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
8021455 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
8021470 G-AATAAAA
1 GAAATAAAA
8021478 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:8021488 original size:17 final size:16
Alignment explanation
Indices: 8021466--8021499 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8021456 AAGTTAAAAT
8021466 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
8021483 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
8021499 A
1 A
8021500 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:8022227 original size:9 final size:9
Alignment explanation
Indices: 8022199--8022240 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
8022189 GTAAGTATAA
8022199 TATTAGTAT
1 TATTAGTAT
8022208 TAATT--TAT
1 T-ATTAGTAT
8022216 TATTAGTAT
1 TATTAGTAT
*
8022225 TATTATTAT
1 TATTAGTAT
8022234 TATTAGT
1 TATTAGT
8022241 GGGAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
7 3 0.11
8 4 0.14
9 18 0.64
10 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (9 bp):
TATTAGTAT
Found at i:8022414 original size:22 final size:25
Alignment explanation
Indices: 8022371--8022447 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 25
8022361 TGAAAATGTG
* *
8022371 TGAATTTGTGAAATAATTATTG-AT
1 TGAATGTGTGAAATAATGATTGAAT
8022395 TGAATGTG-GAAA-AATGATTGAAT
1 TGAATGTGTGAAATAATGATTGAAT
* **
8022418 TGAAAGTGTGAGAAATTGTGATTGAAT
1 TG-AA-TGTGTGAAATAATGATTGAAT
8022445 TGA
1 TGA
8022448 GAATATATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 7 0.16
23 8 0.18
24 9 0.20
25 4 0.09
26 5 0.11
27 11 0.25
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (25 bp):
TGAATGTGTGAAATAATGATTGAAT
Found at i:8022419 original size:23 final size:24
Alignment explanation
Indices: 8022371--8022428 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
8022361 TGAAAATGTG
* *
8022371 TGAATTTGTGAAATAATTATTGAT
1 TGAATGTGTGAAATAATGATTGAT
8022395 TGAATGTG-GAAA-AATGATTGAAT
1 TGAATGTGTGAAATAATGATTG-AT
*
8022418 TGAAAGTGTGA
1 TGAATGTGTGA
8022429 GAAATTGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 7 0.24
23 13 0.45
24 9 0.31
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (24 bp):
TGAATGTGTGAAATAATGATTGAT
Found at i:8022650 original size:37 final size:39
Alignment explanation
Indices: 8022591--8022686 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
8022581 CGGATAGATT
* * * *
8022591 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
8022628 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
8022667 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
8022687 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:8047205 original size:11 final size:11
Alignment explanation
Indices: 8047189--8047213 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8047179 CCTCCTGATC
8047189 TAAATTATATA
1 TAAATTATATA
8047200 TAAATTATATA
1 TAAATTATATA
8047211 TAA
1 TAA
8047214 TCAGTGTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAATTATATA
Found at i:8052646 original size:48 final size:48
Alignment explanation
Indices: 8052588--8052682 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
8052578 AACATGAAAA
8052588 TAGTGCTTTCAATCCTGGTTATATTCAAATCAAAAATGAAAATATAGT
1 TAGTGCTTTCAATCCTGGTTATATTCAAATCAAAAATGAAAATATAGT
*
8052636 TAGTGTTTTCAATCCTGGTTATATTCAAATCAAAAATGAAAATATAG
1 TAGTGCTTTCAATCCTGGTTATATTCAAATCAAAAATGAAAATATAG
8052683 ACAAAACTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (48 bp):
TAGTGCTTTCAATCCTGGTTATATTCAAATCAAAAATGAAAATATAGT
Found at i:8053719 original size:13 final size:13
Alignment explanation
Indices: 8053698--8053738 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
8053688 CTCTTGCTTC
8053698 TTCCGTTTTCTTT
1 TTCCGTTTTCTTT
*
8053711 TTCCTTTTTTCTTT
1 TTCC-GTTTTCTTT
*
8053725 TTCAGTTTTCTTT
1 TTCCGTTTTCTTT
8053738 T
1 T
8053739 CGGTTTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.73
Consensus pattern (13 bp):
TTCCGTTTTCTTT
Found at i:8054503 original size:26 final size:25
Alignment explanation
Indices: 8054468--8054528 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
8054458 TTATATACTA
* *
8054468 TTTAGTTTAAGTCA-TTTATTTTAT
1 TTTATTTTAAATCAGTTTATTTTAT
*
8054492 ATGTTATTTTAAAATTAGTTTATTTTAT
1 -T-TTATTTT-AAATCAGTTTATTTTAT
8054520 TTTATTTTA
1 TTTATTTTA
8054529 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 2 0.07
26 13 0.43
27 5 0.17
28 10 0.33
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.64
Consensus pattern (25 bp):
TTTATTTTAAATCAGTTTATTTTAT
Found at i:8056358 original size:14 final size:14
Alignment explanation
Indices: 8056339--8056366 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8056329 ATCCACGAAG
8056339 CATGACTGGATTAT
1 CATGACTGGATTAT
8056353 CATGACTGGATTAT
1 CATGACTGGATTAT
8056367 AATCTAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (14 bp):
CATGACTGGATTAT
Found at i:8057800 original size:112 final size:111
Alignment explanation
Indices: 8057604--8057804 Score: 262
Period size: 112 Copynumber: 1.8 Consensus size: 111
8057594 TTTGAAACAG
* *
8057604 AAAATGGTATATGAACATGCTTCTTAAGAATACATAAAATATATGTTTCCCAAACACACCTTTTT
1 AAAATGGTATATGAACATACTTCTTAAGAATACATAAAATATATGTTTCCCAAACACACCTTGTT
* *
8057669 GGGTCTTGGTTGCATAAAACAAATGTTATCACAAGGAATAAGACTC
66 GGGTCATGGTTGCAGAAAACAAATGTTATCACAAGGAATAAGACTC
* * * *** *
8057715 AAAATGGTATATGGACATATTTCTTAAAGAATACTTAAAATAT-TCGCTTTCCCCCGCATACCTT
1 AAAATGGTATATGAACATACTTCTT-AAGAATACATAAAATATAT-G-TTTCCCAAACACACCTT
8057779 GTT-GGTCATGGTTGCAGAAAACAAAT
63 GTTGGGTCATGGTTGCAGAAAACAAAT
8057805 ATGGGTGCCA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
111 23 0.30
112 38 0.50
113 15 0.20
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (111 bp):
AAAATGGTATATGAACATACTTCTTAAGAATACATAAAATATATGTTTCCCAAACACACCTTGTT
GGGTCATGGTTGCAGAAAACAAATGTTATCACAAGGAATAAGACTC
Found at i:8061352 original size:26 final size:24
Alignment explanation
Indices: 8061294--8061358 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 24
8061284 ATATATAGAG
*
8061294 TATAATAAAATAATTAAAAAGAAT
1 TATAAAAAAATAATTAAAAAGAAT
*
8061318 TGACCAAAAAAATAATTAAAAAGAAAT
1 T-A-TAAAAAAATAATTAAAAAG-AAT
8061345 ATATAAAAAAATAA
1 -TATAAAAAAATAA
8061359 AATACGTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 1 0.03
25 1 0.03
26 27 0.79
27 4 0.12
28 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (24 bp):
TATAAAAAAATAATTAAAAAGAAT
Found at i:8069754 original size:26 final size:26
Alignment explanation
Indices: 8069725--8069776 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
8069715 TACTATAAAT
8069725 ATTAGATTGAGAA-CCCTATGTATTGA
1 ATTAGATTGAGAATCCC-ATGTATTGA
8069751 ATTAGATTGAGAATCCCATGTATTGA
1 ATTAGATTGAGAATCCCATGTATTGA
8069777 CTTAATGGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (26 bp):
ATTAGATTGAGAATCCCATGTATTGA
Found at i:8072432 original size:20 final size:20
Alignment explanation
Indices: 8072396--8072433 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8072386 TATGTTTGAA
*
8072396 ATGTTATGTTTTAGTTACTT
1 ATGTTATGTTCTAGTTACTT
8072416 ATGTTATCGTTCT-GTTAC
1 ATGTTAT-GTTCTAGTTAC
8072434 AAAGTGATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.55
Consensus pattern (20 bp):
ATGTTATGTTCTAGTTACTT
Found at i:8075271 original size:20 final size:20
Alignment explanation
Indices: 8075246--8075285 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8075236 CGTAAAATGA
*
8075246 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
8075266 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
8075286 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:8075275 original size:34 final size:35
Alignment explanation
Indices: 8075231--8075297 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
8075221 CAGTAAAATA
* *
8075231 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
8075265 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
8075298 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:8076282 original size:21 final size:21
Alignment explanation
Indices: 8076258--8076299 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
8076248 CAGATTAAAA
8076258 CCTCGAAAACTTCAAGGATTT
1 CCTCGAAAACTTCAAGGATTT
*
8076279 CCTCGAAAATTTCAAGGATTT
1 CCTCGAAAACTTCAAGGATTT
8076300 GATTTCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (21 bp):
CCTCGAAAACTTCAAGGATTT
Found at i:8086229 original size:432 final size:417
Alignment explanation
Indices: 8085433--8086273 Score: 1153
Period size: 432 Copynumber: 2.0 Consensus size: 417
8085423 GTCAATCTAT
* ** * * * * *
8085433 TAGTAAGGATTCAGATGCCTGTGATGAACTGGGTGGCATAATAAGGAAGATGGAGCCTAGTTTGG
1 TAGTAAGGATTCAGATGCCAGTGATGAACAAGGCGGCATAATAAAGAAGATGGAACCTACTTTGA
8085498 AACATGGAGATAGTGGTCTTTCTAAAGTAGGCTTACAGCCTGCCTTACAGACAGGTGAGATTCCA
66 AACATGGAGATAGTGGTCTTTCTAAAGTAGGCTTACAGCCTGCCTTACAGACAGGTGAGATTCCA
* * ** *
8085563 GGAAAATTATCTGGGTTGGAAGGTGATGTGTTGGGAGATCATGGCGATGTCTCTCAAACACATAA
131 GGAAAATTATCTGGGTTGAAAGGTGATGTATCAGGAGATCATGGAGATGTCTCTCAAACACATAA
* * * *
8085628 ATTTGACCCCTCTGTTGATGGGGCATTGAAAGCTCCAAATATAAGAAATACTGACTTATCTGAGA
196 ATTTGACCCCTCTATTGATAGGGCATTGAAAGCTCCAAACATAAGAAATACTGACTTACCTGAGA
* * * *
8085693 GAGAGGAGTCTAAAGATGGTGAAGAAATTGTTGTTAACGAGAATCAAGTGGAAGTTTCGGTTGAT
261 GAGAGGAGTCTAAAGATGGTGAACAAATTGTTGCTAACGAAAATCAAGTGGAAGCTTCGGTTGAT
* * * * *
8085758 CAATTTGTGGATAACAGGGAACAGGTAGATAACTTTGCTTCTGGGTCTCAAACTGATATTGTGAT
326 CAATTAGTGGATAACAGGGAACAGGCAGATAAATTTGCTTCTGGGTCACAAACTGATACTGTGAT
8085823 TCCCTCTGTGAAAAACACCTGTGCCAG
391 TCCCTCTGTGAAAAACACCTGTGCCAG
*
8085850 TAGTAAGGATTCAGATGCCAGTGATGAACAAGGCGGCATAATAAAGCAGATGGAACCTACTTTGA
1 TAGTAAGGATTCAGATGCCAGTGATGAACAAGGCGGCATAATAAAGAAGATGGAACCTACTTTGA
* *
8085915 AACATGGAGATTGTGGTCTTTCTGAAGTAGACGGCAGCTTACAGCCTGCCTTACAGACAGGTGAG
66 AACATGGAGATAGTGGTCTTTCTAAAGT--A--G--GCTTACAGCCTGCCTTACAGACAGGTGAG
* *
8085980 ATTCCAGGAAAGTTTTCTGGGTTGAAAGGTGATGTATCAGGAGATCATTTGTTGGTTGAAGATGT
125 ATTCCAGGAAAATTATCTGGGTTGAAAGGTGATGTATCAGGAGATCA-----T-G--G-AGATGT
* * * * * * *
8086045 TTCTCAATCACATGAATTTGAGCCCTCTATTGATAGGGCATTGGAAGTTCCAAACATGAGAAATA
181 CTCTCAAACACATAAATTTGACCCCTCTATTGATAGGGCATTGAAAGCTCCAAACATAAGAAATA
*
8086110 CTGACTTACCTGAGAGAGATGAGTCTAAAGATGGTGAACAAATTGTTGCTAATC-AAAATCAAGT
246 CTGACTTACCTGAGAGAGAGGAGTCTAAAGATGGTGAACAAATTGTTGCTAA-CGAAAATCAAGT
8086174 GGAAGCTTCGGTTGATCAATTAGTGGATAACAGGGAACAGGCAGATAAATTTGCTTCTGGGTCAC
310 GGAAGCTTCGGTTGATCAATTAGTGGATAACAGGGAACAGGCAGATAAATTTGCTTCTGGGTCAC
** *
8086239 AAGTTGATACTGTGATTCCCTCTGTGCAAAACACC
375 AAACTGATACTGTGATTCCCTCTGTGAAAAACACC
8086274 CGTTCTAGTA
Statistics
Matches: 366, Mismatches: 42, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
417 82 0.22
419 1 0.00
421 1 0.00
423 70 0.19
428 1 0.00
429 1 0.00
431 1 0.00
432 208 0.57
433 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (417 bp):
TAGTAAGGATTCAGATGCCAGTGATGAACAAGGCGGCATAATAAAGAAGATGGAACCTACTTTGA
AACATGGAGATAGTGGTCTTTCTAAAGTAGGCTTACAGCCTGCCTTACAGACAGGTGAGATTCCA
GGAAAATTATCTGGGTTGAAAGGTGATGTATCAGGAGATCATGGAGATGTCTCTCAAACACATAA
ATTTGACCCCTCTATTGATAGGGCATTGAAAGCTCCAAACATAAGAAATACTGACTTACCTGAGA
GAGAGGAGTCTAAAGATGGTGAACAAATTGTTGCTAACGAAAATCAAGTGGAAGCTTCGGTTGAT
CAATTAGTGGATAACAGGGAACAGGCAGATAAATTTGCTTCTGGGTCACAAACTGATACTGTGAT
TCCCTCTGTGAAAAACACCTGTGCCAG
Found at i:8097151 original size:15 final size:18
Alignment explanation
Indices: 8097133--8097169 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
8097123 AATATTTTAT
8097133 ATTT-AAAATAA-A-ATA
1 ATTTAAAAATAATATATA
8097148 ATTTAAAAATAATATATA
1 ATTTAAAAATAATATATA
8097166 ATTT
1 ATTT
8097170 TTTAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.21
16 7 0.37
17 1 0.05
18 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTAAAAATAATATATA
Found at i:8101067 original size:21 final size:21
Alignment explanation
Indices: 8101043--8101083 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8101033 TTGCATCAAG
8101043 ATAACAAA-AAATGTTCAAAAA
1 ATAA-AAAGAAATGTTCAAAAA
*
8101064 ATAAAAAGAAATTTTCAAAA
1 ATAAAAAGAAATGTTCAAAA
8101084 CTTTAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (21 bp):
ATAAAAAGAAATGTTCAAAAA
Found at i:8102370 original size:21 final size:21
Alignment explanation
Indices: 8102345--8102388 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8102335 ATTGGGCTGT
* *
8102345 TACACTCCACCTGTTTTGGAG
1 TACACTCCACCTGCTGTGGAG
8102366 TACACTCCACCTGCTGTGGAG
1 TACACTCCACCTGCTGTGGAG
8102387 TA
1 TA
8102389 TTGCTCGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
TACACTCCACCTGCTGTGGAG
Found at i:8108298 original size:27 final size:27
Alignment explanation
Indices: 8108260--8108314 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
8108250 GTTGAAGTTG
* *
8108260 ATTAGTGGGTCGATCAATAATATTATC
1 ATTAGTGGGTCGATAAATAATAATATC
8108287 ATTAGTGGGTCGATAAATAATAATATC
1 ATTAGTGGGTCGATAAATAATAATATC
8108314 A
1 A
8108315 CTTATCTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (27 bp):
ATTAGTGGGTCGATAAATAATAATATC
Found at i:8124459 original size:24 final size:23
Alignment explanation
Indices: 8124427--8124499 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
8124417 ATTGATTATA
8124427 ATTAAAATAT-ATATTATTTTAAAT
1 ATTAAAATATAATA-T-TTTTAAAT
*
8124451 ATTATAATATAATATTTTTAAAT
1 ATTAAAATATAATATTTTTAAAT
* *
8124474 AAT-AATTA-AAGTATTTTTAATAT
1 ATTAAAATATAA-TATTTTTAA-AT
8124497 ATT
1 ATT
8124500 CCTTTTATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 2 0.05
22 12 0.29
23 14 0.34
24 10 0.24
25 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
ATTAAAATATAATATTTTTAAAT
Found at i:8124473 original size:23 final size:23
Alignment explanation
Indices: 8124435--8124499 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
8124425 TAATTAAAAT
*
8124435 ATATATTA-TTTTAAATATTATA
1 ATATAATATTTTTAAATATTATA
8124457 ATATAATATTTTTAAATA--ATA
1 ATATAATATTTTTAAATATTATA
8124478 AT-TAAAGTATTTTTAATATATT
1 ATAT-AA-TATTTTTAA-ATATT
8124500 CCTTTTATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
20 1 0.03
21 7 0.19
22 16 0.44
23 12 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
ATATAATATTTTTAAATATTATA
Found at i:8124490 original size:21 final size:21
Alignment explanation
Indices: 8124435--8124498 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
8124425 TAATTAAAAT
*
8124435 ATATATTATTTTAAATATTATA
1 ATATAATATTTTAAATA-TATA
8124457 ATATAATATTTTTAAATA-ATA
1 ATATAATA-TTTTAAATATATA
*
8124478 AT-TAAAGTATTTTTAATATAT
1 ATAT-AA-TATTTTAAATATAT
8124499 TCCTTTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
20 1 0.03
21 15 0.42
22 11 0.31
23 9 0.25
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATATAATATTTTAAATATATA
Found at i:8148225 original size:11 final size:11
Alignment explanation
Indices: 8148209--8148233 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8148199 AGAATATATA
8148209 AATATAAAAAT
1 AATATAAAAAT
8148220 AATATAAAAAT
1 AATATAAAAAT
8148231 AAT
1 AAT
8148234 TTTGGTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:8151933 original size:13 final size:13
Alignment explanation
Indices: 8151915--8151942 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8151905 TTTTTATAAC
8151915 GTAATATATTCGG
1 GTAATATATTCGG
8151928 GTAATATATTCGG
1 GTAATATATTCGG
8151941 GT
1 GT
8151943 CAGGCCAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (13 bp):
GTAATATATTCGG
Found at i:8152805 original size:3 final size:3
Alignment explanation
Indices: 8152799--8152824 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8152789 TATCTATTTT
8152799 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
8152825 GGGTTAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8154292 original size:55 final size:55
Alignment explanation
Indices: 8154219--8154339 Score: 147
Period size: 55 Copynumber: 2.2 Consensus size: 55
8154209 CCCTTCAAAC
8154219 CCTTTTACTTTCTCCCCAAAAATTTTACTTTTC-GCCAAACCCCCAAAAC-TTTTTT
1 CCTTTTACTTTCTCCCCAAAAATTTTAC--TTCAGCCAAACCCCCAAAACTTTTTTT
* * * * * *
8154274 CCTTTTATTTTTTTCCCAAAACTTTTACTTCATCCAAACCCCCTAAACTTTTTTT
1 CCTTTTACTTTCTCCCCAAAAATTTTACTTCAGCCAAACCCCCAAAACTTTTTTT
*
8154329 CCTTTTGCTTT
1 CCTTTTACTTT
8154340 TCCTCTTAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 3 0.05
54 14 0.25
55 39 0.70
ACGTcount: A:0.22, C:0.31, G:0.02, T:0.45
Consensus pattern (55 bp):
CCTTTTACTTTCTCCCCAAAAATTTTACTTCAGCCAAACCCCCAAAACTTTTTTT
Found at i:8159519 original size:15 final size:16
Alignment explanation
Indices: 8159498--8159554 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 16
8159488 TTCAAAAAAG
8159498 CTATTGTTTAGAATAA
1 CTATTGTTTAGAATAA
8159514 -TATTGTTTAAGGAATAA
1 CTATTGTTT-A-GAATAA
*
8159531 CTA-TGTTTAGAACAA
1 CTATTGTTTAGAATAA
*
8159546 CCATTGTTT
1 CTATTGTTT
8159555 GAAATATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 15 0.43
16 7 0.20
17 11 0.31
18 2 0.06
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (16 bp):
CTATTGTTTAGAATAA
Found at i:8164903 original size:20 final size:20
Alignment explanation
Indices: 8164874--8164925 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
8164864 TGGCGATGGT
*
8164874 GGTGGTGCGGTGGTGGG-CA
1 GGTGGCGCGGTGGTGGGCCA
*
8164893 CGGTGGCGCGGCGGTGGGCCA
1 -GGTGGCGCGGTGGTGGGCCA
8164914 GGTGGCGGCGGT
1 GGTGGC-GCGGT
8164926 AGGCTACTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.04, C:0.19, G:0.62, T:0.15
Consensus pattern (20 bp):
GGTGGCGCGGTGGTGGGCCA
Found at i:8165218 original size:29 final size:29
Alignment explanation
Indices: 8165168--8165340 Score: 104
Period size: 29 Copynumber: 5.9 Consensus size: 29
8165158 AAAGGGTGCA
* * *
8165168 AAAATTTTAGGGTCAAAGTGTAACTTTATG
1 AAAA-TTTAGGGTCAAAATGTAAATTTAGG
*
8165198 AAAATTTAGGGTGAAAATGTAAATTTAGG
1 AAAATTTAGGGTCAAAATGTAAATTTAGG
* * * * *
8165227 ATAGTTTAGGGGTTAAAATATAATTTTAGG
1 AAAATTTA-GGGTCAAAATGTAAATTTAGG
* * * *
8165257 AAAGTTTAGGGGTTAAAATATAATTTTA--
1 AAAATTTA-GGGTCAAAATGTAAATTTAGG
* *
8165285 AAAATTTTAGGAGTCAAAATATAATTTTA--
1 AAAA-TTTAGG-GTCAAAATGTAAATTTAGG
* *
8165314 AAAAGTTAGGGGTCAAAATAT-AATTTA
1 AAAATTTA-GGGTCAAAATGTAAATTTA
8165341 TATATATATA
Statistics
Matches: 125, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
27 5 0.04
28 18 0.14
29 53 0.42
30 49 0.39
ACGTcount: A:0.43, C:0.02, G:0.19, T:0.36
Consensus pattern (29 bp):
AAAATTTAGGGTCAAAATGTAAATTTAGG
Found at i:8165255 original size:30 final size:29
Alignment explanation
Indices: 8165229--8165339 Score: 161
Period size: 29 Copynumber: 3.8 Consensus size: 29
8165219 AATTTAGGAT
* *
8165229 AGTTTAGGGGTTAAAATATAATTTTAGGAA
1 AGTTTAGGGGTCAAAATATAATTTTA-AAA
*
8165259 AGTTTAGGGGTTAAAATATAATTTTAAAA
1 AGTTTAGGGGTCAAAATATAATTTTAAAA
* *
8165288 ATTTTAGGAGTCAAAATATAATTTTAAAA
1 AGTTTAGGGGTCAAAATATAATTTTAAAA
8165317 AG-TTAGGGGTCAAAATATAATTT
1 AGTTTAGGGGTCAAAATATAATTT
8165340 ATATATATAT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
28 20 0.27
29 29 0.39
30 26 0.35
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (29 bp):
AGTTTAGGGGTCAAAATATAATTTTAAAA
Found at i:8165282 original size:59 final size:57
Alignment explanation
Indices: 8165167--8165340 Score: 156
Period size: 59 Copynumber: 3.0 Consensus size: 57
8165157 CAAAGGGTGC
* * * * * * *
8165167 AAAAATTTTAGG-GTCAAAGTGTAACTTTATGAAAATTTA-GGGTGAAAATGTAAATTT
1 AAAAAGTTTAGGAGTCAAAATATAATTTTA-GAAAGTTTAGGGGTCAAAATAT-AATTT
* * * * *
8165224 AGGATAGTTTAGGGGTTAAAATATAATTTTAGGAAAGTTTAGGGGTTAAAATATAATTTT
1 A-AAAAGTTTAGGAGTCAAAATATAATTTTA-GAAAGTTTAGGGGTCAAAATATAA-TTT
* *
8165284 AAAAATTTTAGGAGTCAAAATATAATTTTAAAAAG-TTAGGGGTCAAAATATAATTT
1 AAAAAGTTTAGGAGTCAAAATATAATTTTAGAAAGTTTAGGGGTCAAAATATAATTT
8165340 A
1 A
8165341 TATATATATA
Statistics
Matches: 95, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
56 4 0.04
57 18 0.19
58 12 0.13
59 47 0.49
60 14 0.15
ACGTcount: A:0.43, C:0.02, G:0.19, T:0.36
Consensus pattern (57 bp):
AAAAAGTTTAGGAGTCAAAATATAATTTTAGAAAGTTTAGGGGTCAAAATATAATTT
Found at i:8165926 original size:55 final size:55
Alignment explanation
Indices: 8165853--8165973 Score: 156
Period size: 55 Copynumber: 2.2 Consensus size: 55
8165843 AATACTAAAC
8165853 CCTTTTACTTTCTCCCCAAAAATTTTACTTTCCCCCAAATCCCCA-AAAC-TTTTTT
1 CCTTTTACTTTCTCCCCAAAAATTTTAC-TTCCCCCAAA-CCCCATAAACTTTTTTT
* * * * *
8165908 CCTTTTATTTTTTTCCCAAAACTTTTACTTCCTCCAAACCCCATAAACTTTTTTT
1 CCTTTTACTTTCTCCCCAAAAATTTTACTTCCCCCAAACCCCATAAACTTTTTTT
*
8165963 CCTTTTGCTTT
1 CCTTTTACTTT
8165974 TCCTCTTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 5 0.09
54 13 0.23
55 39 0.68
ACGTcount: A:0.22, C:0.31, G:0.01, T:0.45
Consensus pattern (55 bp):
CCTTTTACTTTCTCCCCAAAAATTTTACTTCCCCCAAACCCCATAAACTTTTTTT
Found at i:8167801 original size:4 final size:4
Alignment explanation
Indices: 8167792--8167816 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8167782 GTTATTATTA
8167792 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
8167817 TTATCATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:8167980 original size:23 final size:22
Alignment explanation
Indices: 8167932--8167980 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
8167922 TTTTAAATAC
* *
8167932 ATTTATTTTATCATGTCATTTT
1 ATTTATTTTATCATGTCATATA
* *
8167954 ATTTATTTATATCCTTTCATATA
1 ATTTATTT-TATCATGTCATATA
8167977 ATTT
1 ATTT
8167981 TTAATTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTATTTTATCATGTCATATA
Found at i:8174145 original size:6 final size:6
Alignment explanation
Indices: 8174134--8174164 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
8174124 CTTTCTTATG
*
8174134 GTGTTT GTGTTT GTATTT GTGTTT GTGTTT G
1 GTGTTT GTGTTT GTGTTT GTGTTT GTGTTT G
8174165 GATTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.32, T:0.65
Consensus pattern (6 bp):
GTGTTT
Found at i:8174157 original size:18 final size:18
Alignment explanation
Indices: 8174134--8174169 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8174124 CTTTCTTATG
*
8174134 GTGTTTGTGTTTGTATTT
1 GTGTTTGTGTTTGGATTT
8174152 GTGTTTGTGTTTGGATTT
1 GTGTTTGTGTTTGGATTT
8174170 TAAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.31, T:0.64
Consensus pattern (18 bp):
GTGTTTGTGTTTGGATTT
Found at i:8182663 original size:20 final size:20
Alignment explanation
Indices: 8182638--8182677 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8182628 CGTAAAATAA
*
8182638 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
8182658 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
8182678 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:8182667 original size:34 final size:34
Alignment explanation
Indices: 8182624--8182689 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
8182614 AGTAAAATAT
*
8182624 TTTTCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCGTAAAATAATTTACTGGAAAATATTTTAC
*
8182657 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATAATTTACTGGAAAATATTTT
8182690 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 11 0.38
35 13 0.45
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (34 bp):
TTTTCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:8186896 original size:22 final size:22
Alignment explanation
Indices: 8186870--8186915 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
8186860 AAATTCAATG
**
8186870 TTCAATTTGGTACTTGAATTTT
1 TTCAATTTAATACTTGAATTTT
*
8186892 TTCAATTTAATACTTGAGTTTT
1 TTCAATTTAATACTTGAATTTT
8186914 TT
1 TT
8186916 GTCCCAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.11, T:0.57
Consensus pattern (22 bp):
TTCAATTTAATACTTGAATTTT
Found at i:8191035 original size:14 final size:15
Alignment explanation
Indices: 8191010--8191044 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
8191000 TTTAATTTTC
8191010 AAAATTTCAAAAAAA
1 AAAATTTCAAAAAAA
*
8191025 AAAATTT-AAAAATA
1 AAAATTTCAAAAAAA
8191039 AAAATT
1 AAAATT
8191045 GCATTTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTCAAAAAAA
Found at i:8191074 original size:30 final size:30
Alignment explanation
Indices: 8191040--8191143 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 30
8191030 TTAAAAATAA
*
8191040 AAATTGCATTTTAACCCCTAAACTTTTC-CT
1 AAATTTCATTTTAACCCCTAAAC-TTTCACT
* * **
8191070 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTAACCCCTAAACTTTCACT
* *
8191100 AAATTTCA-CTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTA-ACCCCTAAACTTTCACT
8191130 AAATTTCATTTTAA
1 AAATTTCATTTTAA
8191144 TCCTAAATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
29 6 0.10
30 53 0.85
31 3 0.05
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AAATTTCATTTTAACCCCTAAACTTTCACT
Found at i:8215885 original size:100 final size:99
Alignment explanation
Indices: 8215777--8215965 Score: 324
Period size: 100 Copynumber: 1.9 Consensus size: 99
8215767 TTTATCAAAC
* *
8215777 ATATTTAAAAAAAGAAAAATGTTTTTTTAGAAATAAAAACAAATAATATTCTTAAAAACCAAATA
1 ATATTTAAAAAAAGAAAAATGTTTTTCTAGAAATAAAAACAAATAATATTCTTAAAAACCAAACA
8215842 AAAACTTAACCTTGGTTGAAACAAAATTATTTCT
66 AAAACTTAACCTTGGTTGAAACAAAATTATTTCT
* * *
8215876 ATATGTTAAAAAAATAAAAATGTTTTTCTAGAAATAAAAATAAATAATATTCTTAAAAATCAAAC
1 ATAT-TTAAAAAAAGAAAAATGTTTTTCTAGAAATAAAAACAAATAATATTCTTAAAAACCAAAC
8215941 AAAAACTTAACCTTGGTTGAAACAA
65 AAAAACTTAACCTTGGTTGAAACAA
8215966 TATATTTAGA
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 4 0.05
100 80 0.95
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (99 bp):
ATATTTAAAAAAAGAAAAATGTTTTTCTAGAAATAAAAACAAATAATATTCTTAAAAACCAAACA
AAAACTTAACCTTGGTTGAAACAAAATTATTTCT
Found at i:8218618 original size:45 final size:45
Alignment explanation
Indices: 8218512--8218625 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
8218502 ACACCATGGA
* *
8218512 TAAGACAATAGCTGAAAGATGCTATGGCATCATGATGGAAATGAG
1 TAAGACAATAGCTGAAAGACGCTATGGCATCATGATGAAAATGAG
* * * * * *
8218557 TAAGACCATGGTTGAAAGACGTTATGGCATCATGGT-AAACATGAT
1 TAAGACAATAGCTGAAAGACGCTATGGCATCATGATGAAA-ATGAG
*
8218602 TAAGACAATAGCTGAAAGATGCTA
1 TAAGACAATAGCTGAAAGACGCTA
8218626 CGATATCCTA
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
44 2 0.04
45 53 0.96
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (45 bp):
TAAGACAATAGCTGAAAGACGCTATGGCATCATGATGAAAATGAG
Found at i:8226978 original size:6 final size:7
Alignment explanation
Indices: 8226962--8226987 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8226952 GTACATGAGG
8226962 AAAATGA
1 AAAATGA
8226969 AAAATGA
1 AAAATGA
8226976 AAAATGA
1 AAAATGA
8226983 AAAAT
1 AAAAT
8226988 ATAAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (7 bp):
AAAATGA
Found at i:8228269 original size:21 final size:22
Alignment explanation
Indices: 8228228--8228274 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
8228218 TTTATGAAGG
*
8228228 GATAAATAAATTTTAAATTTAA
1 GATAAATAAATATTAAATTTAA
* *
8228250 GATAAAT-AATATTAACTTTAT
1 GATAAATAAATATTAAATTTAA
8228271 GATA
1 GATA
8228275 TTTAAAGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.40
Consensus pattern (22 bp):
GATAAATAAATATTAAATTTAA
Found at i:8229387 original size:14 final size:15
Alignment explanation
Indices: 8229362--8229390 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8229352 TAAATGTTAC
8229362 ATAAATTTATAAATT
1 ATAAATTTATAAATT
8229377 ATAAA-TTATAAATT
1 ATAAATTTATAAATT
8229391 CACAAATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAAATTTATAAATT
Found at i:8229697 original size:33 final size:36
Alignment explanation
Indices: 8229623--8229697 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 36
8229613 TAAAATGAGT
* * *
8229623 ATTAAATACATTATATTAAAATGATTTTGTAATATA
1 ATTAAATACATCATATTAAAATAATTTTATAATATA
*
8229659 A-TAAATA-ATCAT-TTAAAATAATTTTATATTA-A
1 ATTAAATACATCATATTAAAATAATTTTATAATATA
8229691 ATTAAAT
1 ATTAAAT
8229698 TATGTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
32 2 0.06
33 21 0.62
34 4 0.12
35 6 0.18
36 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (36 bp):
ATTAAATACATCATATTAAAATAATTTTATAATATA
Found at i:8236863 original size:38 final size:37
Alignment explanation
Indices: 8236815--8236934 Score: 152
Period size: 38 Copynumber: 3.2 Consensus size: 37
8236805 TTTTGATTTT
8236815 TGCTGTTAATGGTGCTCTGATTTTGATTTTGCTGTTAA
1 TGCTGTTAATGGTG-TCTGATTTTGATTTTGCTGTTAA
* *
8236853 TGTTGTTAATGGTGTTCTGATTTTGATTTTGCTCTTAA
1 TGCTGTTAATGGTG-TCTGATTTTGATTTTGCTGTTAA
* * *
8236891 TGCTGTTAATGGT-TGTGTTTTTTATTTTTGCTGTTAA
1 TGCTGTTAATGGTGTCTGATTTTGA-TTTTGCTGTTAA
*
8236928 TGGTGTT
1 TGCTGTT
8236935 CTGTTAATGT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
36 8 0.11
37 17 0.24
38 47 0.65
ACGTcount: A:0.14, C:0.07, G:0.23, T:0.55
Consensus pattern (37 bp):
TGCTGTTAATGGTGTCTGATTTTGATTTTGCTGTTAA
Found at i:8238662 original size:40 final size:40
Alignment explanation
Indices: 8238608--8238703 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
8238598 ATAAAATTTA
* *
8238608 TAATATACTATTTTAATATACTATTATAAATATACTT-TTT
1 TAATATAATGTTTTAATATACTATTATAAATATA-TTGTTT
* * *
8238648 TAATATATTGTTTTAATATACTGTTATAATTATATTGTTT
1 TAATATAATGTTTTAATATACTATTATAAATATATTGTTT
8238688 TAATATAATGTTTTAA
1 TAATATAATGTTTTAA
8238704 CTTTTAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
39 2 0.04
40 48 0.96
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (40 bp):
TAATATAATGTTTTAATATACTATTATAAATATATTGTTT
Found at i:8238689 original size:27 final size:27
Alignment explanation
Indices: 8238636--8238735 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
8238626 TACTATTATA
* *
8238636 AATATACTTTTTTAA-TATATTGTTTT
1 AATATACTGTTATAATTATATTGTTTT
8238662 AATATACTGTTATAATTATATTGTTTT
1 AATATACTGTTATAATTATATTGTTTT
* * * **
8238689 AATATAATGTTTTAACTTTTA-AATTTT
1 AATATACTGTTATAA-TTATATTGTTTT
*
8238716 AATATACTGTTATAAATATA
1 AATATACTGTTATAATTATA
8238736 CATTTAATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
26 16 0.26
27 41 0.67
28 4 0.07
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (27 bp):
AATATACTGTTATAATTATATTGTTTT
Found at i:8238700 original size:13 final size:13
Alignment explanation
Indices: 8238570--8238703 Score: 103
Period size: 13 Copynumber: 10.2 Consensus size: 13
8238560 ATTTTAAATG
8238570 TAATATACTGTTT
1 TAATATACTGTTT
*
8238583 TAATAATA-TATTGT
1 TAAT-ATACTGTT-T
* * *
8238597 T-ATAAAAT-TTA
1 TAATATACTGTTT
*
8238608 TAATATACTATTT
1 TAATATACTGTTT
*
8238621 TAATATACTATTAT
1 TAATATACTGTT-T
* *
8238635 AAATATACTTTTT
1 TAATATACTGTTT
*
8238648 TAATATATTGTTT
1 TAATATACTGTTT
*
8238661 TAATATACTGTTA
1 TAATATACTGTTT
*
8238674 TAATTATATTGTTT
1 TAA-TATACTGTTT
*
8238688 TAATATAATGTTT
1 TAATATACTGTTT
8238701 TAA
1 TAA
8238704 CTTTTAAATT
Statistics
Matches: 98, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
11 1 0.01
12 9 0.09
13 61 0.62
14 27 0.28
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:8241162 original size:9 final size:9
Alignment explanation
Indices: 8241148--8241184 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
8241138 AGTTGCAAAA
8241148 AGGACGATG
1 AGGACGATG
8241157 AGGACGATG
1 AGGACGATG
*
8241166 ACGACGATG
1 AGGACGATG
8241175 AGGACGATG
1 AGGACGATG
8241184 A
1 A
8241185 TGATGATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.41, T:0.11
Consensus pattern (9 bp):
AGGACGATG
Found at i:8241999 original size:25 final size:25
Alignment explanation
Indices: 8241965--8242012 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
8241955 TTAAGATTTG
8241965 ATTGTTTGTAATTAAATTCAAATTA
1 ATTGTTTGTAATTAAATTCAAATTA
8241990 ATTGTTTGTAATTAAATTCAAAT
1 ATTGTTTGTAATTAAATTCAAAT
8242013 AAGTAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (25 bp):
ATTGTTTGTAATTAAATTCAAATTA
Found at i:8242107 original size:16 final size:16
Alignment explanation
Indices: 8242082--8242115 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8242072 ATATAAATTC
8242082 AATAACAATTAATTTT
1 AATAACAATTAATTTT
* *
8242098 AATAAGAATTAGTTTT
1 AATAACAATTAATTTT
8242114 AA
1 AA
8242116 CTTTTAAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (16 bp):
AATAACAATTAATTTT
Found at i:8245173 original size:52 final size:52
Alignment explanation
Indices: 8245102--8245201 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
8245092 ATCAAGTGAC
* *
8245102 AAAGTGATAGGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGG
* *
8245154 AAAGTGATAAGTGATAGCTTCTGCTATACTTATCTGATCAAGAGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAA
8245202 AGTGATAAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGG
Found at i:8245225 original size:37 final size:37
Alignment explanation
Indices: 8245176--8245284 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
8245166 GATAGCTTCT
*
8245176 GCTATACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
8245213 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
8245250 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
8245285 ATTATACGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 12 0.18
36 4 0.06
37 52 0.76
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:8251409 original size:30 final size:31
Alignment explanation
Indices: 8251368--8251426 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
8251358 TGTAACTTTT
*
8251368 CAAAGTTTAGTGATTGTTTTGTTATTTTAAC
1 CAAAGTTTAGTGATTGTTGTGTTATTTTAAC
*
8251399 CAAA-TTTAGTGATTGTTGTGTTTTTTTA
1 CAAAGTTTAGTGATTGTTGTGTTATTTTA
8251427 CCCTAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.54
Consensus pattern (31 bp):
CAAAGTTTAGTGATTGTTGTGTTATTTTAAC
Found at i:8254698 original size:26 final size:26
Alignment explanation
Indices: 8254662--8254716 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
8254652 TCTGCTCTAC
8254662 AAGTTGTTTGCATGGTAATTGATAAA
1 AAGTTGTTTGCATGGTAATTGATAAA
8254688 AAGTTGTTTGCATGGTAATTGATAAA
1 AAGTTGTTTGCATGGTAATTGATAAA
8254714 AAG
1 AAG
8254717 AAATATCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (26 bp):
AAGTTGTTTGCATGGTAATTGATAAA
Found at i:8254726 original size:25 final size:26
Alignment explanation
Indices: 8254670--8254726 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
8254660 ACAAGTTGTT
*** *
8254670 TGCATGGTAATTGATAAAAAGTTGTT
1 TGCATGGTAATTGATAAAAAGAAATA
8254696 TGCATGGTAATTGATAAAAAGAAATA
1 TGCATGGTAATTGATAAAAAGAAATA
8254722 T-CATG
1 TGCATG
8254727 AATAACTTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (26 bp):
TGCATGGTAATTGATAAAAAGAAATA
Found at i:8260691 original size:20 final size:18
Alignment explanation
Indices: 8260647--8260694 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
8260637 TACAGTAGTG
* *
8260647 AGAAAACAATAAAATATT
1 AGAAAACAATAAAAAATA
8260665 AGCAAAACAATAAAAAATGCA
1 AG-AAAACAATAAAAAAT--A
8260686 AGAAAACAA
1 AGAAAACAA
8260695 CAGTTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.08
19 14 0.56
20 7 0.28
21 2 0.08
ACGTcount: A:0.69, C:0.10, G:0.08, T:0.12
Consensus pattern (18 bp):
AGAAAACAATAAAAAATA
Found at i:8266711 original size:2 final size:2
Alignment explanation
Indices: 8266704--8266728 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8266694 GGGCTCTTTG
8266704 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8266729 GCAAACTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8273817 original size:33 final size:32
Alignment explanation
Indices: 8273779--8273844 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 32
8273769 AGCATTCTCT
8273779 CTTTCCCTTTAGCAAATTAAGGTTAAGCCATG
1 CTTTCCCTTTAGCAAATTAAGGTTAAGCCATG
8273811 NCTTTCCCTTTAGCAAATTAAGGTTAAGCCATG
1 -CTTTCCCTTTAGCAAATTAAGGTTAAGCCATG
8273844 C
1 C
8273845 CTTACCTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.33
Consensus pattern (32 bp):
CTTTCCCTTTAGCAAATTAAGGTTAAGCCATG
Found at i:8300079 original size:20 final size:20
Alignment explanation
Indices: 8300043--8300081 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8300033 AATTTTTTAA
*
8300043 AAATATATTTATAATATAAT
1 AAATATATTAATAATATAAT
8300063 AAATATA-TAATACATATAA
1 AAATATATTAATA-ATATAA
8300082 ATTTAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATATTAATAATATAAT
Found at i:8304049 original size:2 final size:2
Alignment explanation
Indices: 8304042--8304083 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
8304032 TAAAAATGCA
8304042 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8304084 GGAGCGAGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8311071 original size:42 final size:42
Alignment explanation
Indices: 8311012--8311101 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
8311002 AACTTTTCGA
**
8311012 GATTTCCTGGCGCGTACCCTGACATCGCGTTGACGTGGACGC
1 GATTTCCTGGCGCGTACCCTGACATCGCGCCGACGTGGACGC
* *
8311054 GATTTCTTGGCGCGTACCCTGACATCGTGCCGACGTGGACGC
1 GATTTCCTGGCGCGTACCCTGACATCGCGCCGACGTGGACGC
*
8311096 AATTTC
1 GATTTC
8311102 GCGAAAAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.16, C:0.30, G:0.29, T:0.26
Consensus pattern (42 bp):
GATTTCCTGGCGCGTACCCTGACATCGCGCCGACGTGGACGC
Found at i:8315875 original size:5 final size:6
Alignment explanation
Indices: 8315836--8315897 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
8315826 ACAAAGGTTG
* * * *
8315836 ATTTTT -TTTTT CTATTT ACTTTTC ATTTTT -GTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT A-TTTTT ATTTTT ATTTTT ATTTTT ATTTTT
8315883 ATTTTT A-TTTT ATTT
1 ATTTTT ATTTTT ATTT
8315898 CACGAATCTG
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
5 14 0.31
6 27 0.60
7 4 0.09
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:8315875 original size:17 final size:17
Alignment explanation
Indices: 8315850--8315897 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
8315840 TTTTTTTCTA
8315850 TTTACTTTTCATTTTT-GT
1 TTTA-TTTT-ATTTTTAGT
*
8315868 TTTATTTTTATTTTTATT
1 TTTA-TTTTATTTTTAGT
8315886 TTTATTTTATTT
1 TTTATTTTATTT
8315898 CACGAATCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTATTTTATTTTTAGT
Found at i:8315881 original size:23 final size:24
Alignment explanation
Indices: 8315836--8315897 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
8315826 ACAAAGGTTG
* * *
8315836 ATTTTTTTTTTCTATTTACTTTTC
1 ATTTTTATTTTATTTTTACTTTTC
* *
8315860 ATTTTTGTTTTATTTTTA-TTTTT
1 ATTTTTATTTTATTTTTACTTTTC
8315883 ATTTTTATTTTATTT
1 ATTTTTATTTTATTT
8315898 CACGAATCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
23 18 0.55
24 15 0.45
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (24 bp):
ATTTTTATTTTATTTTTACTTTTC
Found at i:8317513 original size:106 final size:107
Alignment explanation
Indices: 8317328--8317526 Score: 305
Period size: 106 Copynumber: 1.9 Consensus size: 107
8317318 TAAGGTAATG
8317328 TTTCGCGTTTGGAAAATCGAGGATTCGTGCCCTAACATGTTGGGTTTCGATTTCTCGTTCAACCA
1 TTTCGCGTTTGGAAAATCGAGGATTCGTGCCCTAACATGTTGGGTTTCGATTTCTCGTTCAACCA
*
8317393 AATAGCCAAATATCCT-TTTAAACTTTACAAATGAGGCAATA
66 AATAGCCAAATATCCTCTTAAAACTTTACAAATGAGGCAATA
* * *
8317434 TTTCGCGTTTGGAAGATCG-GGAATAT-GTGCCCTAACGTGTTGGGTTTCGATTTCTCGTTCGAC
1 TTTCGCGTTTGGAAAATCGAGG-AT-TCGTGCCCTAACATGTTGGGTTTCGATTTCTCGTTCAAC
* *
8317497 TAAATGGCCAAATATCCTCTTAAAACTTTA
64 CAAATAGCCAAATATCCTCTTAAAACTTTA
8317527 AAGTACGGTT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
105 2 0.02
106 71 0.85
107 11 0.13
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (107 bp):
TTTCGCGTTTGGAAAATCGAGGATTCGTGCCCTAACATGTTGGGTTTCGATTTCTCGTTCAACCA
AATAGCCAAATATCCTCTTAAAACTTTACAAATGAGGCAATA
Found at i:8320687 original size:91 final size:93
Alignment explanation
Indices: 8320539--8320721 Score: 352
Period size: 92 Copynumber: 2.0 Consensus size: 93
8320529 CAGTCCAAGA
8320539 GTCCCAAATAAAAGACCCTTGGCCGAAATTTCCATATTAAAATAATTAGGAG-TTTTTTTTAGTT
1 GTCCCAAATAAAAGACCCTTGGCCGAAATTTCCATATTAAAATAATTAGGAGTTTTTTTTTAGTT
8320603 TTAGTTTTAGTGTTCTAATTAAATTAGG
66 TTAGTTTTAGTGTTCTAATTAAATTAGG
8320631 GTCCCAAATAAAAGACCCTTGGCCG-AATTTCCATATTAAAATAATTAGGAGTTTTTTTTTAGTT
1 GTCCCAAATAAAAGACCCTTGGCCGAAATTTCCATATTAAAATAATTAGGAGTTTTTTTTTAGTT
8320695 TTAGTTTTAGTGTTCTAATTAAATTAG
66 TTAGTTTTAGTGTTCTAATTAAATTAG
8320722 AAAAACATTT
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
91 26 0.29
92 64 0.71
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (93 bp):
GTCCCAAATAAAAGACCCTTGGCCGAAATTTCCATATTAAAATAATTAGGAGTTTTTTTTTAGTT
TTAGTTTTAGTGTTCTAATTAAATTAGG
Found at i:8321805 original size:15 final size:15
Alignment explanation
Indices: 8321785--8321815 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8321775 CCTTTTTAGA
8321785 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
8321800 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
8321815 A
1 A
8321816 AGAAAAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:8321924 original size:15 final size:15
Alignment explanation
Indices: 8321904--8321933 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8321894 TCTAATTGTC
*
8321904 GTATTTTTTTATTTT
1 GTATTTTTGTATTTT
8321919 GTATTTTTGTATTTT
1 GTATTTTTGTATTTT
8321934 TTATAATTTA
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:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (15 bp):
GTATTTTTGTATTTT
Found at i:8326660 original size:12 final size:12
Alignment explanation
Indices: 8326643--8326667 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8326633 TACATTTAAA
8326643 ATATATAATAGT
1 ATATATAATAGT
8326655 ATATATAATAGT
1 ATATATAATAGT
8326667 A
1 A
8326668 CGTATAAAAA
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
ATATATAATAGT
Found at i:8328701 original size:22 final size:25
Alignment explanation
Indices: 8328673--8328829 Score: 124
Period size: 25 Copynumber: 6.4 Consensus size: 25
8328663 CACTATTAAA
8328673 CAAAGAGCACTAAAGTGCT-AT-AT
1 CAAAGAGCACTAAAGTGCTAATAAT
* * *
8328696 -AGAGAGCACGAATGTGCTAATAAT
1 CAAAGAGCACTAAAGTGCTAATAAT
* ** *
8328720 CAAAGAGCACTAACGTATTAGTAAT
1 CAAAGAGCACTAAAGTGCTAATAAT
* * * *
8328745 CAGAGAGCACTGACGTGCTAGTAAT
1 CAAAGAGCACTAAAGTGCTAATAAT
* * *
8328770 CAGAGAGCACTGACGTGCTAATAAT
1 CAAAGAGCACTAAAGTGCTAATAAT
* *
8328795 CAGAA-AGCACTGACGTGCTAATAAT
1 CA-AAGAGCACTAAAGTGCTAATAAT
*
8328820 CAGAGAGCAC
1 CAAAGAGCAC
8328830 GCTAAACTCC
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
22 15 0.13
23 2 0.02
24 3 0.03
25 92 0.81
26 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (25 bp):
CAAAGAGCACTAAAGTGCTAATAAT
Found at i:8328728 original size:25 final size:24
Alignment explanation
Indices: 8328696--8328830 Score: 153
Period size: 25 Copynumber: 5.4 Consensus size: 24
8328686 AGTGCTATAT
*
8328696 AGAGAGCACGAATGTGCTAATAATC
1 AGAGAGCACG-ACGTGCTAATAATC
* * ** *
8328721 AAAGAGCACTAACGTATTAGTAATC
1 AGAGAGCAC-GACGTGCTAATAATC
*
8328746 AGAGAGCACTGACGTGCTAGTAATC
1 AGAGAGCAC-GACGTGCTAATAATC
8328771 AGAGAGCACTGACGTGCTAATAATC
1 AGAGAGCAC-GACGTGCTAATAATC
*
8328796 AGAAAGCACTGACGTGCTAATAATC
1 AGAGAGCAC-GACGTGCTAATAATC
8328821 AGAGAGCACG
1 AGAGAGCACG
8328831 CTAAACTCCC
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
24 1 0.01
25 95 0.99
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (24 bp):
AGAGAGCACGACGTGCTAATAATC
Found at i:8328763 original size:50 final size:50
Alignment explanation
Indices: 8328676--8328829 Score: 181
Period size: 50 Copynumber: 3.1 Consensus size: 50
8328666 TATTAAACAA
* * * *
8328676 AGAGCACTAAAGTGCT-AT-AT-AGAGAGCAC-GAATGTGCTAATAATCAA
1 AGAGCACTAACGTACTAATAATCAGAGAGCACTG-ACGTGCTAATAATCAG
* * *
8328723 AGAGCACTAACGTATTAGTAATCAGAGAGCACTGACGTGCTAGTAATCAG
1 AGAGCACTAACGTACTAATAATCAGAGAGCACTGACGTGCTAATAATCAG
* * *
8328773 AGAGCACTGACGTGCTAATAATCAGAAAGCACTGACGTGCTAATAATCAG
1 AGAGCACTAACGTACTAATAATCAGAGAGCACTGACGTGCTAATAATCAG
8328823 AGAGCAC
1 AGAGCAC
8328830 GCTAAACTCC
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
47 13 0.14
48 1 0.01
49 2 0.02
50 73 0.81
51 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (50 bp):
AGAGCACTAACGTACTAATAATCAGAGAGCACTGACGTGCTAATAATCAG
Found at i:8328788 original size:75 final size:72
Alignment explanation
Indices: 8328676--8328829 Score: 186
Period size: 75 Copynumber: 2.1 Consensus size: 72
8328666 TATTAAACAA
* *
8328676 AGAGCACTAAAGTGCTATATAGAGAGCACGAATGTGCTAATAATCA-AAGAGCACTAACGTATTA
1 AGAGCACTAAAGTGCTATATAGAGAGCACGAACGTGCTAATAATCAGAA-AGCACTAACGTACTA
*
8328740 GTAATCAG
65 ATAATCAG
* * * *
8328748 AGAGCACTGACGTGCTAGTAATCAGAGAGCACTG-ACGTGCTAATAATCAGAAAGCACTGACGTG
1 AGAGCACTAAAGTGCTA-T-AT-AGAGAGCAC-GAACGTGCTAATAATCAGAAAGCACTAACGTA
8328812 CTAATAATCAG
62 CTAATAATCAG
8328823 AGAGCAC
1 AGAGCAC
8328830 GCTAAACTCC
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
72 15 0.21
73 1 0.01
74 2 0.03
75 49 0.70
76 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (72 bp):
AGAGCACTAAAGTGCTATATAGAGAGCACGAACGTGCTAATAATCAGAAAGCACTAACGTACTAA
TAATCAG
Found at i:8331952 original size:13 final size:14
Alignment explanation
Indices: 8331911--8331952 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
8331901 AATCTAAGTC
* *
8331911 AAATAAAACAATTA
1 AAATAAAATAACTA
8331925 AAAT-AAATAACTA
1 AAATAAAATAACTA
8331938 AAATAAAATAA-TA
1 AAATAAAATAACTA
8331951 AA
1 AA
8331953 TCAAAGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATAACTA
Found at i:8340053 original size:23 final size:25
Alignment explanation
Indices: 8340003--8340059 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 25
8339993 AAAATTAAAT
*
8340003 AAATTACATAATTAATTTCATTTCA
1 AAATTACATAATTAATTTCATTTAA
8340028 AAATTAACAT-ATT-ATTT-ATTTAA
1 AAATT-ACATAATTAATTTCATTTAA
8340051 AAATGTACA
1 AAAT-TACA
8340060 CTATGAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 12 0.41
24 5 0.17
25 8 0.28
26 4 0.14
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATTACATAATTAATTTCATTTAA
Found at i:8340190 original size:7 final size:7
Alignment explanation
Indices: 8340178--8340203 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8340168 TAACCAATTT
8340178 AATTTTA
1 AATTTTA
8340185 AATTTTA
1 AATTTTA
8340192 AATTTTA
1 AATTTTA
8340199 AATTT
1 AATTT
8340204 ATATTTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:8340568 original size:31 final size:32
Alignment explanation
Indices: 8340507--8340569 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
8340497 CAGCAATTAA
*
8340507 TAATTTTTTTAAATTTAAAAAGCCTAAAAAAT
1 TAATTTTTTTAAATTTAAAAAGCATAAAAAAT
*
8340539 TAATTTTTTTAAA-TTAAAAAGTATTAAAAAA
1 TAATTTTTTTAAATTTAAAAAGCA-TAAAAAA
8340570 ATATAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 8 0.29
32 20 0.71
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (32 bp):
TAATTTTTTTAAATTTAAAAAGCATAAAAAAT
Found at i:8341288 original size:5 final size:6
Alignment explanation
Indices: 8341272--8341297 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8341262 TATATTTGAT
8341272 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
8341298 TATATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:8343596 original size:13 final size:14
Alignment explanation
Indices: 8343555--8343596 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
8343545 AATCCAAGTC
* *
8343555 AAATAAAACAATTA
1 AAATAAAATAACTA
8343569 AAAT-AAATAACTA
1 AAATAAAATAACTA
8343582 AAATAAAATAA-TA
1 AAATAAAATAACTA
8343595 AA
1 AA
8343597 TCAAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATAACTA
Found at i:8345364 original size:15 final size:15
Alignment explanation
Indices: 8345339--8345373 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8345329 GACTCTATTT
*
8345339 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
8345353 TAATTAATATTAAGA
1 TAATTAATATTAAGA
8345368 TAATTA
1 TAATTA
8345374 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:8355438 original size:24 final size:23
Alignment explanation
Indices: 8355411--8355486 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
8355401 AGATATTTAT
*
8355411 ATTATTTATTTATATAATATATAA
1 ATTAATTATTTATATAATAT-TAA
** *
8355435 ATTAATTATAAAGTATATTATTAA
1 ATTAATTATTTA-TATAATATTAA
*
8355459 ATTAATTATATTATA-AATATTAT
1 ATTAATTAT-TTATATAATATTAA
8355482 ATTAA
1 ATTAA
8355487 GAAATAAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
23 11 0.26
24 23 0.55
25 8 0.19
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (23 bp):
ATTAATTATTTATATAATATTAA
Found at i:8355454 original size:12 final size:11
Alignment explanation
Indices: 8355425--8355468 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
8355415 TTTATTTATA
8355425 TAATATATAAAT
1 TAAT-TATAAAT
*
8355437 TAATTATAAAG
1 TAATTATAAAT
8355448 TATATTATTAAAT
1 TA-ATTA-TAAAT
8355461 TAATTATA
1 TAATTATA
8355469 TTATAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 10 0.36
12 12 0.43
13 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TAATTATAAAT
Found at i:8355480 original size:14 final size:17
Alignment explanation
Indices: 8355448--8355485 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
8355438 AATTATAAAG
8355448 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
8355465 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
8355479 TATATTA
1 TATATTA
8355486 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:8355722 original size:15 final size:17
Alignment explanation
Indices: 8355704--8355735 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8355694 CAGAATAGAA
8355704 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
8355719 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
8355736 GGGAAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Found at i:8356166 original size:18 final size:18
Alignment explanation
Indices: 8356143--8356185 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
8356133 ATGTGAGGTA
8356143 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
8356161 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
*
8356179 ATTATTA
1 AGTATTA
8356186 TGAGTGGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:8356186 original size:6 final size:6
Alignment explanation
Indices: 8356143--8356185 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
8356133 ATGTGAGGTA
* * *
8356143 AGTATT AATATT AGTATT AGTATT ATTATT AGTATT ATTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT A
8356186 TGAGTGGGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (6 bp):
AGTATT
Found at i:8369229 original size:162 final size:162
Alignment explanation
Indices: 8369030--8369350 Score: 538
Period size: 162 Copynumber: 2.0 Consensus size: 162
8369020 TCTGCAGGAA
**
8369030 GTGGAGTTTCAATCCTATATGTTGTTTGCTTAATCTCATCTGCATTGTTTTCTTCAGGAAAACAG
1 GTGGAGTTTCAATCCTATATGTTGTTTGCTTAATCTCATCTGCAGCGTTTTCTTCAGGAAAACAG
*
8369095 AACTGATGTGGATCAATTTTAGAACTTTTCTTCT-CAG-TTCCCTTTTTCTGGGGCAACAATGAA
66 AACTGATGTGGATCAATTTTAGAACTTTTCTT-TGCAGTTTCCC-TTTTCCGGGGCAACAATGAA
8369158 CCACCATTGACAGTACCAGCTAGCTTTGCAGGCG
129 CCACCATTGACAGTACCAGCTAGCTTTGCAGGCG
*
8369192 GTGGAGTTTCAGTCCTATATGTTGTTTGCTTAATCTCATCTGCAGCGTTTTCTTCAGGAAAACAG
1 GTGGAGTTTCAATCCTATATGTTGTTTGCTTAATCTCATCTGCAGCGTTTTCTTCAGGAAAACAG
* * *
8369257 ACCTGGTGTGGATCAATTTTAGAACTTTTCTTTGCAGTTTTCCTTTTCCGGGGCAACAATGAACC
66 AACTGATGTGGATCAATTTTAGAACTTTTCTTTGCAGTTTCCCTTTTCCGGGGCAACAATGAACC
*
8369322 ACCATTGACAGTACCATCTAGCTTTGCAG
131 ACCATTGACAGTACCAGCTAGCTTTGCAG
8369351 ATCTTCCTTC
Statistics
Matches: 149, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
161 1 0.01
162 144 0.97
163 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (162 bp):
GTGGAGTTTCAATCCTATATGTTGTTTGCTTAATCTCATCTGCAGCGTTTTCTTCAGGAAAACAG
AACTGATGTGGATCAATTTTAGAACTTTTCTTTGCAGTTTCCCTTTTCCGGGGCAACAATGAACC
ACCATTGACAGTACCAGCTAGCTTTGCAGGCG
Found at i:8374485 original size:16 final size:17
Alignment explanation
Indices: 8374466--8374502 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
8374456 TTTCTTTATT
8374466 TTTTCTTCAT-TTTC-CA
1 TTTTCTTC-TGTTTCTCA
8374482 TTTTCTTCTGTTTCTCA
1 TTTTCTTCTGTTTCTCA
8374499 TTTT
1 TTTT
8374503 GTTTTCCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.05
16 12 0.63
17 6 0.32
ACGTcount: A:0.08, C:0.22, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTCTTCTGTTTCTCA
Found at i:8374849 original size:10 final size:10
Alignment explanation
Indices: 8374834--8374865 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
8374824 AAACCAAGCC
8374834 ATAAATATTT
1 ATAAATATTT
*
8374844 ATAAATTTTT
1 ATAAATATTT
8374854 ATAAATATTT
1 ATAAATATTT
8374864 AT
1 AT
8374866 GGAGTGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATAAATATTT
Found at i:8376640 original size:46 final size:45
Alignment explanation
Indices: 8376573--8376816 Score: 296
Period size: 46 Copynumber: 5.6 Consensus size: 45
8376563 TTTGAGTACT
*
8376573 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
8376619 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
8376655 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
8376701 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTA-TTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTAC-ACTTA
* *
8376747 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
8376792 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
8376817 ATCATATGTA
Statistics
Matches: 176, Mismatches: 10, Indels: 27
0.83 0.05 0.13
Matches are distributed among these distances:
36 28 0.16
38 1 0.01
39 1 0.01
40 3 0.02
41 1 0.01
42 4 0.02
43 15 0.09
44 4 0.02
45 18 0.10
46 100 0.57
47 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:8376655 original size:36 final size:36
Alignment explanation
Indices: 8376609--8376681 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
8376599 GGTAGCATTA
8376609 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
8376645 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
8376681 G
1 G
8376682 TTAGCCTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:8376667 original size:82 final size:85
Alignment explanation
Indices: 8376573--8376816 Score: 320
Period size: 82 Copynumber: 2.8 Consensus size: 85
8376563 TTTGAGTACT
*
8376573 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
8376638 GATAAGTG-C-TA-TAC-TTA
65 GATAAGTGCCTTACTACATTA
* *
8376655 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGT
8376720 GATAAGTGGTAGCCTTAGCTACTATTA
65 GATAA---GT-GCCTTA-CTAC-ATTA
* * *
8376747 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
8376810 ATAAGTG
66 ATAAGTG
8376817 ATCATATGTA
Statistics
Matches: 143, Mismatches: 8, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
82 65 0.45
83 1 0.01
85 3 0.02
86 3 0.02
87 1 0.01
88 2 0.01
89 10 0.07
90 5 0.03
91 20 0.14
92 33 0.23
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (85 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCCTTACTACATTA
Found at i:8378797 original size:3 final size:3
Alignment explanation
Indices: 8378789--8378869 Score: 67
Period size: 3 Copynumber: 26.0 Consensus size: 3
8378779 AAAATAAAAC
* *
8378789 TAA TAA TAA TTAA TAA TGA TAA TAA TAG TAA TAA TAA TAA TAA TAAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* *
8378836 TGA TAA TACA TTAA -AA TAA TTAA -AA AAA TAA TAA
1 TAA TAA TA-A -TAA TAA TAA -TAA TAA TAA TAA TAA
8378870 GATTGCTAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
2 4 0.06
3 47 0.73
4 11 0.17
5 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:8379650 original size:14 final size:14
Alignment explanation
Indices: 8379631--8379657 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8379621 ATGTAAAAGA
8379631 TAAAATAAAATAAG
1 TAAAATAAAATAAG
8379645 TAAAATAAAATAA
1 TAAAATAAAATAA
8379658 ACAAGCAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
TAAAATAAAATAAG
Done.