Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 96 of 144
Found at i:22510479 original size:16 final size:16
Alignment explanation
Indices: 22510458--22510491 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22510448 TTACTAGAGG
* *
22510458 AATTCTTTTATTTCTC
1 AATTCTTTCACTTCTC
22510474 AATTCTTTCACTTCTC
1 AATTCTTTCACTTCTC
22510490 AA
1 AA
22510492 GCTAGTATCT
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:0.24, C:0.24, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTCTTTCACTTCTC
Found at i:22514812 original size:23 final size:23
Alignment explanation
Indices: 22514786--22514967 Score: 149
Period size: 23 Copynumber: 8.4 Consensus size: 23
22514776 AGTGCTGGGC
22514786 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
22514809 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
*
22514828 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
22514848 ATCAGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACAAAGTGCT-A
*
22514872 TAACAGAGAGTACACAAA--G-T-
1 -AACAGAGAGCACACAAAGTGCTA
*
22514892 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
22514912 ATCAGAGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
22514935 ATCAGAGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
22514958 ATCAGAGAGC
1 AACAGAGAGC
22514968 GCGCTAGTGT
Statistics
Matches: 129, Mismatches: 14, Indels: 32
0.74 0.08 0.18
Matches are distributed among these distances:
16 20 0.16
18 6 0.05
19 2 0.02
20 1 0.01
21 3 0.02
22 1 0.01
23 81 0.63
24 1 0.01
25 14 0.11
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:22514878 original size:25 final size:23
Alignment explanation
Indices: 22514831--22514967 Score: 162
Period size: 23 Copynumber: 6.2 Consensus size: 23
22514821 ACAAAGTACT
22514831 GAGCACACAAAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAATCAGA
*
22514854 GAGCACACACAGTGCTAATAACAGA
1 GAGCACACAAAGTGCTAAT--CAGA
* *
22514879 GAGTACACAAA--G-T-A-C--T
1 GAGCACACAAAGTGCTAATCAGA
22514895 GAGCACACAAAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAATCAGA
*
22514918 GAGCACACGAAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAATCAGA
*
22514941 GAGCACACGAAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAATCAGA
22514964 GAGC
1 GAGC
22514968 GCGCTAGTGT
Statistics
Matches: 98, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
16 10 0.10
18 2 0.02
19 1 0.01
20 1 0.01
21 2 0.02
22 1 0.01
23 68 0.69
25 13 0.13
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (23 bp):
GAGCACACAAAGTGCTAATCAGA
Found at i:22514880 original size:64 final size:63
Alignment explanation
Indices: 22514788--22514953 Score: 259
Period size: 64 Copynumber: 2.7 Consensus size: 63
22514778 TGCTGGGCAA
22514788 CAGAGAGCACACAAAGTGCT-A-AACAGAGAGTACACAAAGTACTGAGCACACAAAGTGCTAAT
1 CAGAGAGCACAC-AAGTGCTAATAACAGAGAGTACACAAAGTACTGAGCACACAAAGTGCTAAT
22514850 CAGAGAGCACACACAGTGCTAATAACAGAGAGTACACAAAGTACTGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACA-AGTGCTAATAACAGAGAGTACACAAAGTACTGAGCACACAAAGTGCTAAT
* *
22514914 CAGAGAGCACACGAAGTGCTAAT--CAGAGAGCACACGAAGT
1 CAGAGAGCACAC-AAGTGCTAATAACAGAGAGTACACAAAGT
22514954 GCTAATCAGA
Statistics
Matches: 98, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
61 1 0.01
62 33 0.34
63 1 0.01
64 62 0.63
65 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (63 bp):
CAGAGAGCACACAAGTGCTAATAACAGAGAGTACACAAAGTACTGAGCACACAAAGTGCTAAT
Found at i:22514918 original size:39 final size:40
Alignment explanation
Indices: 22514854--22514930 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
22514844 GCTAATCAGA
* *
22514854 GAGCACACACAGTGCTAATAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAT-ACAGAGAGCACACAAAGTACT
*
22514895 GAGCACACAAAGTGCTAAT-CAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAATACAGAGAGCACACAAAGT
22514931 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 15 0.45
41 18 0.55
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (40 bp):
GAGCACACAAAGTGCTAATACAGAGAGCACACAAAGTACT
Found at i:22518102 original size:40 final size:38
Alignment explanation
Indices: 22518034--22518112 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 38
22518024 AAAAGGGAAA
22518034 ACTTATGACTCGATAAAGCAAAAGATTGTTTGAAAGTAAG
1 ACTTATGACTCGATAAAGCAAAAGATTGTTT-AAAG-AAG
* * * **
22518074 ACTTATGACTCGGTGAAGCATACTATTGTTTAAAGAAG
1 ACTTATGACTCGATAAAGCAAAAGATTGTTTAAAGAAG
22518112 A
1 A
22518113 AGATTTATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 4 0.12
39 4 0.12
40 26 0.76
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.29
Consensus pattern (38 bp):
ACTTATGACTCGATAAAGCAAAAGATTGTTTAAAGAAG
Found at i:22518238 original size:14 final size:14
Alignment explanation
Indices: 22518219--22518252 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
22518209 TATTATTGTT
22518219 GTTTTGTAGATTTC
1 GTTTTGTAGATTTC
22518233 GTTTTGTAGATTTC
1 GTTTTGTAGATTTC
22518247 GTTTTG
1 GTTTTG
22518253 GCTGGTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.12, C:0.06, G:0.24, T:0.59
Consensus pattern (14 bp):
GTTTTGTAGATTTC
Found at i:22518837 original size:23 final size:23
Alignment explanation
Indices: 22518806--22518877 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 23
22518796 TTAATCTCTC
*
22518806 AAATTAAATGTCAAACTCCCCAA
1 AAATAAAATGTCAAACTCCCCAA
22518829 AAATAAAAT-T--AACT-CCC--
1 AAATAAAATGTCAAACTCCCCAA
*
22518846 AAATTAAATGTCAAACTCCCCAA
1 AAATAAAATGTCAAACTCCCCAA
22518869 AAATAAAAT
1 AAATAAAAT
22518878 TAACTTACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
17 8 0.20
18 1 0.03
19 3 0.08
20 8 0.20
21 3 0.08
22 1 0.03
23 16 0.40
ACGTcount: A:0.53, C:0.22, G:0.03, T:0.22
Consensus pattern (23 bp):
AAATAAAATGTCAAACTCCCCAA
Found at i:22518844 original size:20 final size:20
Alignment explanation
Indices: 22518819--22518882 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
22518809 TTAAATGTCA
22518819 AACTCCCCAAAAATAAAATT
1 AACTCCCCAAAAATAAAATT
*
22518839 AACT-CCC--AAATTAAATGT
1 AACTCCCCAAAAATAAAAT-T
22518857 CAAACTCCCCAAAAATAAAATT
1 --AACTCCCCAAAAATAAAATT
22518879 AACT
1 AACT
22518883 TACAACCCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
17 8 0.22
18 1 0.03
19 3 0.08
20 12 0.33
21 3 0.08
22 1 0.03
23 8 0.22
ACGTcount: A:0.52, C:0.25, G:0.02, T:0.22
Consensus pattern (20 bp):
AACTCCCCAAAAATAAAATT
Found at i:22518894 original size:45 final size:40
Alignment explanation
Indices: 22518794--22518882 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
22518784 AAAATAAAAT
*
22518794 AATTAATCTCTCAAATTAAATGTCAAACTCCCCAAAAATAA
1 AATTAA-CTCCCAAATTAAATGTCAAACTCCCCAAAAATAA
22518835 AATTAACTCCCAAATTAAATGTCAAACTCCCCAAAAATAA
1 AATTAACTCCCAAATTAAATGTCAAACTCCCCAAAAATAA
22518875 AATTAACT
1 AATTAACT
22518883 TACAACCCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 41 0.87
41 6 0.13
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.26
Consensus pattern (40 bp):
AATTAACTCCCAAATTAAATGTCAAACTCCCCAAAAATAA
Found at i:22520015 original size:14 final size:14
Alignment explanation
Indices: 22519998--22520050 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
22519988 AAGTCAACAA
*
22519998 TCAATGGTCAACGG
1 TCAATAGTCAACGG
* *
22520012 TCAACAGTCAACTG
1 TCAATAGTCAACGG
*
22520026 CCAACT-GTCAACGG
1 TCAA-TAGTCAACGG
22520040 TCAATAGTCAA
1 TCAATAGTCAA
22520051 TGGGTCAGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
13 1 0.03
14 29 0.97
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (14 bp):
TCAATAGTCAACGG
Found at i:22526789 original size:26 final size:25
Alignment explanation
Indices: 22526759--22526807 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
22526749 TCGAATGCTT
*
22526759 ATATAATAAAATAATTATAATTTTCA
1 ATATAA-AAAATAAATATAATTTTCA
* *
22526785 ATATAAAAATTAAATATGATTTT
1 ATATAAAAAATAAATATAATTTT
22526808 TCATGTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
ATATAAAAAATAAATATAATTTTCA
Found at i:22529214 original size:21 final size:21
Alignment explanation
Indices: 22529190--22529233 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
22529180 AATTTATATT
22529190 TAAAAGAAATTATAAAAAATA
1 TAAAAGAAATTATAAAAAATA
* *
22529211 TAAAATAAATTATAAAGAATA
1 TAAAAGAAATTATAAAAAATA
22529232 TA
1 TA
22529234 TAAATGAAGT
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:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (21 bp):
TAAAAGAAATTATAAAAAATA
Found at i:22529224 original size:12 final size:11
Alignment explanation
Indices: 22529147--22529226 Score: 53
Period size: 11 Copynumber: 7.1 Consensus size: 11
22529137 TTCTCTCAAC
22529147 AAAAATTATAA
1 AAAAATTATAA
*
22529158 AAAAA-TAAAA
1 AAAAATTATAA
22529168 TAAAAATT-TAA
1 -AAAAATTATAA
22529179 AAATTTATATT-TAA
1 AAA---A-ATTATAA
22529193 AAGAAATTAT-A
1 AA-AAATTATAA
22529204 AAAAA-TATAA
1 AAAAATTATAA
22529214 AATAAATTATAA
1 AA-AAATTATAA
22529226 A
1 A
22529227 GAATATATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 21
0.71 0.03 0.27
Matches are distributed among these distances:
9 3 0.05
10 13 0.23
11 21 0.38
12 9 0.16
13 1 0.02
14 8 0.14
15 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:22530847 original size:39 final size:39
Alignment explanation
Indices: 22530803--22530893 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 39
22530793 TGGGACAAGT
* *
22530803 CTCTTCCAAGAGGTAT-GTCCAATATGAAAAGGGTTGTGA
1 CTCTTCCAAAAGGTATCATCCAATATG-AAAGGGTTGTGA
* *
22530842 CTCTT-CAAAAGGTGTCCATCCAATTTGAAAGGGTTGTGA
1 CTCTTCCAAAAGGTAT-CATCCAATATGAAAGGGTTGTGA
22530881 CTCTT-CAAAAGGT
1 CTCTTCCAAAAGGT
22530894 GTCCATTGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 8 0.17
39 30 0.65
40 8 0.17
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (39 bp):
CTCTTCCAAAAGGTATCATCCAATATGAAAGGGTTGTGA
Found at i:22530894 original size:39 final size:40
Alignment explanation
Indices: 22530820--22530899 Score: 144
Period size: 39 Copynumber: 2.0 Consensus size: 40
22530810 AAGAGGTATG
22530820 TCCAATATGAAAAGGGTTGTGACTCTTCAAAAGGTGTCCA
1 TCCAATATGAAAAGGGTTGTGACTCTTCAAAAGGTGTCCA
*
22530860 TCCAATTTG-AAAGGGTTGTGACTCTTCAAAAGGTGTCCA
1 TCCAATATGAAAAGGGTTGTGACTCTTCAAAAGGTGTCCA
22530899 T
1 T
22530900 TGATTGCATA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 31 0.79
40 8 0.21
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (40 bp):
TCCAATATGAAAAGGGTTGTGACTCTTCAAAAGGTGTCCA
Found at i:22537672 original size:30 final size:30
Alignment explanation
Indices: 22537600--22537672 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
22537590 GATTAAATCA
*
22537600 AAATTAAAGTTTCGAGTATACATTTGAACC
1 AAATTAAAGTTTCGAGTATACAATTGAACC
* *
22537630 ACAATTAGAGTTTC-A-TATGTACAATTGCACC
1 A-AATTAAAGTTTCGAGTA--TACAATTGAACC
22537661 AAATTAAAGTTT
1 AAATTAAAGTTT
22537673 ATGTATATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.06
30 12 0.33
31 22 0.61
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (30 bp):
AAATTAAAGTTTCGAGTATACAATTGAACC
Found at i:22538951 original size:20 final size:21
Alignment explanation
Indices: 22538920--22538965 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
22538910 AGCAATTTAC
*
22538920 TTTTTTCTTTTAACTTTCCTT
1 TTTTTTCTTTTAACTTTCATT
**
22538941 TTTTTTC-TTTATTTTTCATT
1 TTTTTTCTTTTAACTTTCATT
22538961 TTTTT
1 TTTTT
22538966 GTTTCTCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTCTTTTAACTTTCATT
Found at i:22545963 original size:22 final size:23
Alignment explanation
Indices: 22545921--22545964 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
22545911 ATCCATCTTC
*
22545921 AATACAAAATTTGTTAAAAAATA
1 AATACAAAATTTGTCAAAAAATA
22545944 AATA-AAAATTT-TCAATAAAAT
1 AATACAAAATTTGTCAA-AAAAT
22545965 TTCAAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.16
22 12 0.63
23 4 0.21
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
AATACAAAATTTGTCAAAAAATA
Found at i:22546361 original size:27 final size:27
Alignment explanation
Indices: 22546301--22546368 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
22546291 TAGTGTCGTC
* * * *
22546301 TATCAGAGAGGACACAACTAGTGCGGCC
1 TATCAGTGAGG-CATAACTAGTGCCGCA
22546329 TATCAGTGAGGCATAACTAGTGCCGCA
1 TATCAGTGAGGCATAACTAGTGCCGCA
*
22546356 TGTCAGTGAGGCA
1 TATCAGTGAGGCA
22546369 CAATTGGTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 25 0.71
28 10 0.29
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.19
Consensus pattern (27 bp):
TATCAGTGAGGCATAACTAGTGCCGCA
Found at i:22548927 original size:21 final size:18
Alignment explanation
Indices: 22548893--22548940 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
22548883 AGAAAAAGGC
*
22548893 AAGATAAAAGAAAAGATAA
1 AAGAAAAAAGAAAAGA-AA
22548912 ATAGAAAAAAGGAAAAGAAA
1 A-AGAAAAAA-GAAAAGAAA
22548932 AAGAAAAAA
1 AAGAAAAAA
22548941 AGTTGTAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 9 0.35
20 10 0.38
21 7 0.27
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (18 bp):
AAGAAAAAAGAAAAGAAA
Found at i:22548941 original size:21 final size:20
Alignment explanation
Indices: 22548898--22548941 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
22548888 AAGGCAAGAT
22548898 AAAAGAAAAGATAAATAG-AAA
1 AAAAGAAAAGA-AAA-AGAAAA
*
22548919 AAAGGAAAAGAAAAAGAAAA
1 AAAAGAAAAGAAAAAGAAAA
22548939 AAA
1 AAA
22548942 GTTGTAGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 9 0.43
21 10 0.48
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (20 bp):
AAAAGAAAAGAAAAAGAAAA
Found at i:22548942 original size:20 final size:21
Alignment explanation
Indices: 22548898--22548940 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
22548888 AAGGCAAGAT
22548898 AAAA-GAAAAGATAAATAGAA
1 AAAAGGAAAAGATAAATAGAA
22548918 AAAAGGAAAAGA-AAA-AGAA
1 AAAAGGAAAAGATAAATAGAA
22548937 AAAA
1 AAAA
22548941 AGTTGTAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 7 0.32
21 7 0.32
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (21 bp):
AAAAGGAAAAGATAAATAGAA
Found at i:22560671 original size:17 final size:18
Alignment explanation
Indices: 22560649--22560689 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
22560639 ACTTAAAAAC
*
22560649 ATTAAAACA-AAACAAAT
1 ATTAAAAAATAAACAAAT
22560666 ATTAAAAAATAAACAAAT
1 ATTAAAAAATAAACAAAT
22560684 -TTAAAA
1 ATTAAAA
22560690 TACATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (18 bp):
ATTAAAAAATAAACAAAT
Found at i:22563945 original size:43 final size:43
Alignment explanation
Indices: 22563898--22564022 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
22563888 GCTGCTATAG
22563898 AATATGATCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAA
1 AATATGATCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAA
* * * *
22563941 AATATGATTTTTAGAGACGCTTTTCCCACAAATGCCACTAAAA
1 AATATGATCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAA
** * * **
22563984 ACCATGTTCTTTAGCGGCACTTTTTTCACAAACGCCACT
1 AATATGATCTTTAGCGGCGCTTTTCCCACAAACGCCACT
22564023 GACATTATCA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (43 bp):
AATATGATCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAA
Found at i:22567082 original size:41 final size:41
Alignment explanation
Indices: 22567037--22567236 Score: 240
Period size: 41 Copynumber: 4.9 Consensus size: 41
22567027 GGTGGTTAAT
* * *
22567037 CATAAGCGTCACTATTGCTCAGACTTTTAGCGGCGCTTGCC
1 CATAAGCGTCGCTATTGCTCTGACCTTTAGCGGCGCTTGCC
* * **
22567078 CATAAGCGTTGCTATTGATCTGACCTTTAGCGGCGCTCT-TT
1 CATAAGCGTCGCTATTGCTCTGACCTTTAGCGGCGCT-TGCC
* * * * * *
22567119 CATAAGCGTTGTTATTGCTCTGATCTTTAGCGGCACTTTCT
1 CATAAGCGTCGCTATTGCTCTGACCTTTAGCGGCGCTTGCC
*
22567160 CATAAGCGTCGCTATTGCTATGACCTTTAGCGGCGCTTGCC
1 CATAAGCGTCGCTATTGCTCTGACCTTTAGCGGCGCTTGCC
* *
22567201 CATAAGCGCCGCTATTGATCTGACCTTTAGCGGCGC
1 CATAAGCGTCGCTATTGCTCTGACCTTTAGCGGCGC
22567237 CGCTATTGCT
Statistics
Matches: 135, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 133 0.99
42 1 0.01
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.33
Consensus pattern (41 bp):
CATAAGCGTCGCTATTGCTCTGACCTTTAGCGGCGCTTGCC
Found at i:22567240 original size:27 final size:27
Alignment explanation
Indices: 22567206--22567260 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
22567196 TTGCCCATAA
*
22567206 GCGCCGCTATTGATCTGACCTTTAGCG
1 GCGCCGCTATTGATATGACCTTTAGCG
*
22567233 GCGCCGCTATTGCTATGACCTTTAGCG
1 GCGCCGCTATTGATATGACCTTTAGCG
22567260 G
1 G
22567261 AGCTTTCTCA
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:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (27 bp):
GCGCCGCTATTGATATGACCTTTAGCG
Found at i:22569341 original size:12 final size:12
Alignment explanation
Indices: 22569300--22569354 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
22569290 ATAGTATCTA
22569300 AACAACAAA-AAC
1 AACAA-AAATAAC
* *
22569312 AACTAAAATAGC
1 AACAAAAATAAC
*
22569324 AGCAAAAATAAC
1 AACAAAAATAAC
*
22569336 AAC-AAAACAAC
1 AACAAAAATAAC
22569347 AACAAAAA
1 AACAAAAA
22569355 CAAAAAAAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
11 13 0.38
12 21 0.62
ACGTcount: A:0.71, C:0.20, G:0.04, T:0.05
Consensus pattern (12 bp):
AACAAAAATAAC
Found at i:22569368 original size:42 final size:42
Alignment explanation
Indices: 22569300--22569457 Score: 201
Period size: 42 Copynumber: 3.7 Consensus size: 42
22569290 ATAGTATCTA
* * *
22569300 AACAACAAAAACAACTAAAATAGCAGCAAAAATAACAACAAAAC
1 AACAACAAAAACAA--AAAAAAGCAGCAAAAACAACAAAAAAAC
* *
22569344 AACAACAAAAACAAAAAAAAGCAGCAAAAACAACAATAAAAT
1 AACAACAAAAACAAAAAAAAGCAGCAAAAACAACAAAAAAAC
*
22569386 AATAACAAAAACAAAAAAAAGCAGCAAAAACAACAATAAAAAC
1 AACAACAAAAACAAAAAAAAGCAGCAAAAACAACAA-AAAAAC
* * *
22569429 AACATC-AAAACAAAAAAAAACAACAAAAA
1 AACAACAAAAACAAAAAAAAGCAGCAAAAA
22569458 ACCACACCAG
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
42 80 0.78
43 8 0.08
44 14 0.14
ACGTcount: A:0.73, C:0.18, G:0.04, T:0.05
Consensus pattern (42 bp):
AACAACAAAAACAAAAAAAAGCAGCAAAAACAACAAAAAAAC
Found at i:22569450 original size:18 final size:20
Alignment explanation
Indices: 22569339--22569456 Score: 80
Period size: 21 Copynumber: 5.8 Consensus size: 20
22569329 AAATAACAAC
*
22569339 AAAACAACAACAAAAACAAAA
1 AAAACAACAAC-AAAACAATA
* *
22569360 AAAAGCAGCAAAAACAACAAT-
1 AAAA-CAACAACAA-AACAATA
* * *
22569381 AAAATAATAACAAAAACAAAA
1 AAAACAACAAC-AAAACAATA
* *
22569402 AAAAGCAGCAAAAACAACAATA
1 AAAA-CAACAACAA-AACAATA
*
22569424 AAAACAACATCAAAACAA-A
1 AAAACAACAACAAAACAATA
22569443 AAAA-AACAACAAAA
1 AAAACAACAACAAAA
22569457 AACCACACCA
Statistics
Matches: 74, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
18 9 0.12
19 5 0.07
20 13 0.18
21 24 0.32
22 23 0.31
ACGTcount: A:0.75, C:0.17, G:0.03, T:0.04
Consensus pattern (20 bp):
AAAACAACAACAAAACAATA
Found at i:22576142 original size:94 final size:93
Alignment explanation
Indices: 22575981--22576172 Score: 258
Period size: 94 Copynumber: 2.1 Consensus size: 93
22575971 AAAATTATCT
* * * * * ** * **
22575981 CTGTTACTAGTATACGAAGCTGCTCACACTAAGTTGATGAGGGCTCGTAAGATATGTGGTACCTC
1 CTGTTACCAGTATACGAAGCTACTCACACTAAGCTAATGAGGACTCACAACATATACGGTACCTC
22576046 AGCCATCGATACAGTATCTATACATATAA
66 AGCCATCGATACAG-ATCTATACATATAA
*
22576075 CTGTTACCAGTATACGATGCTACTCACACTAAGCTAATGAGGACTCACAACATATACGGTACCTC
1 CTGTTACCAGTATACGAAGCTACTCACACTAAGCTAATGAGGACTCACAACATATACGGTACCTC
* *
22576140 AGCCATCGATATAGATCTGTACATATAA
66 AGCCATCGATACAGATCTATACATATAA
22576168 CTGTT
1 CTGTT
22576173 CCCAAACAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
93 18 0.21
94 67 0.79
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (93 bp):
CTGTTACCAGTATACGAAGCTACTCACACTAAGCTAATGAGGACTCACAACATATACGGTACCTC
AGCCATCGATACAGATCTATACATATAA
Found at i:22588665 original size:31 final size:31
Alignment explanation
Indices: 22588630--22588705 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
22588620 CCATTGAAAT
22588630 TTTTTGAAAATTTTAATTAAG-TTTCTCAAAA
1 TTTTTGAAAATTTT-ATTAAGTTTTCTCAAAA
* * *
22588661 TTTTT-AATATTCTTATTATGTTTTCTTAAAA
1 TTTTTGAAAATT-TTATTAAGTTTTCTCAAAA
22588692 TTTTTGAAAATTTT
1 TTTTTGAAAATTTT
22588706 CATGAATACA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
30 10 0.26
31 23 0.61
32 5 0.13
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (31 bp):
TTTTTGAAAATTTTATTAAGTTTTCTCAAAA
Found at i:22593852 original size:19 final size:19
Alignment explanation
Indices: 22593810--22593852 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22593800 TTAGATATCC
*
22593810 TTAAATTATGTTTCAGATT
1 TTAAATTATGTTTCAAATT
*
22593829 CTAAATTTAT-TTTCAAATT
1 TTAAA-TTATGTTTCAAATT
22593848 TTAAA
1 TTAAA
22593853 ATATTCTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (19 bp):
TTAAATTATGTTTCAAATT
Found at i:22597552 original size:31 final size:32
Alignment explanation
Indices: 22597492--22597561 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
22597482 TCGAGGGATT
22597492 TTTATTTAATTTTAATATTAATATGATTA-TA
1 TTTATTTAATTTTAATATTAATATGATTATTA
* * *
22597523 TTTATTTAATATTTAAT-TTTATTTTATTATTA
1 TTTATTTAAT-TTTAATATTAATATGATTATTA
*
22597555 TATATTT
1 TTTATTT
22597562 TGAAAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 19 0.58
32 14 0.42
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (32 bp):
TTTATTTAATTTTAATATTAATATGATTATTA
Found at i:22601349 original size:82 final size:81
Alignment explanation
Indices: 22601248--22601410 Score: 247
Period size: 82 Copynumber: 2.0 Consensus size: 81
22601238 TAGAGTTTAA
* *
22601248 CCTCCTAAAAATGATAAAATTTTAATTTAATCCTTTAAAAATTGCAT-TTTTTACTATCATAAAA
1 CCTCCTAAAAATGATAAAATTTTAATTTAATCCTCTAAAAATT--ATATTCTTACTATCATAAAA
22601312 ATTACAATTTAACTTCGG
64 ATTACAATTTAACTTCGG
* * * *
22601330 CCTCTTAAAAATGATAAAATTTTGATTTAATCCTCTGAAAATTATATTCTTACTATTATAAAAAT
1 CCTCCTAAAAATGATAAAATTTTAATTTAATCCTCTAAAAATTATATTCTTACTATCATAAAAAT
22601395 TACAATTTAACTTCGG
66 TACAATTTAACTTCGG
22601411 TTCTCTAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 2 0.03
81 33 0.45
82 39 0.53
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (81 bp):
CCTCCTAAAAATGATAAAATTTTAATTTAATCCTCTAAAAATTATATTCTTACTATCATAAAAAT
TACAATTTAACTTCGG
Found at i:22601420 original size:81 final size:80
Alignment explanation
Indices: 22601252--22601421 Score: 243
Period size: 81 Copynumber: 2.1 Consensus size: 80
22601242 GTTTAACCTC
* *
22601252 CTAAAAATGATAAAATTTTAATTTAATCCTTTAAAAATTGCATTTTTTACTATCATAAAAATTAC
1 CTAAAAATGATAAAATTTTAATTTAATCCTCTAAAAATT-CATTTCTTACTATCATAAAAATTAC
22601317 AATTTAACTTCGGCCT
65 AATTTAACTTCGGCCT
* * *
22601333 CTTAAAAATGATAAAATTTTGATTTAATCCTCTGAAAATT-ATATTCTTACTATTATAAAAATTA
1 C-TAAAAATGATAAAATTTTAATTTAATCCTCTAAAAATTCAT-TTCTTACTATCATAAAAATTA
*
22601397 CAATTTAACTTCGGTTCT
64 CAATTTAACTTCGG-CCT
22601415 CTAAAAA
1 CTAAAAA
22601422 AATTTTCTGA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
80 2 0.03
81 40 0.50
82 38 0.47
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (80 bp):
CTAAAAATGATAAAATTTTAATTTAATCCTCTAAAAATTCATTTCTTACTATCATAAAAATTACA
ATTTAACTTCGGCCT
Found at i:22605878 original size:2 final size:2
Alignment explanation
Indices: 22605818--22605862 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
22605808 AGTGAATCAA
*
22605818 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22605860 AT A
1 AT A
22605863 CAAAGAAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22608107 original size:19 final size:20
Alignment explanation
Indices: 22608083--22608121 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
22608073 CTAAACAAAC
22608083 AGCTTTT-AAAGAA-ATTTTT
1 AGCTTTTCAAA-AATATTTTT
22608102 AGCTTTTCAAAAATATTTTT
1 AGCTTTTCAAAAATATTTTT
22608122 CCTCAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (20 bp):
AGCTTTTCAAAAATATTTTT
Found at i:22608471 original size:13 final size:13
Alignment explanation
Indices: 22608453--22608493 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
22608443 ATTAAGCCAA
22608453 ATTTTTCAAAAAC
1 ATTTTTCAAAAAC
*
22608466 ATTTTTCAAAATC
1 ATTTTTCAAAAAC
*
22608479 ACTTTTTAAAAAAC
1 A-TTTTTCAAAAAC
22608493 A
1 A
22608494 CTTCTGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (13 bp):
ATTTTTCAAAAAC
Found at i:22608484 original size:14 final size:14
Alignment explanation
Indices: 22608454--22608496 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
22608444 TTAAGCCAAA
22608454 TTTTTCAAAAACA-
1 TTTTTCAAAAACAC
*
22608467 TTTTTCAAAATCAC
1 TTTTTCAAAAACAC
*
22608481 TTTTTAAAAAACAC
1 TTTTTCAAAAACAC
22608495 TT
1 TT
22608497 CTGAAAAGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTTTCAAAAACAC
Found at i:22608503 original size:27 final size:27
Alignment explanation
Indices: 22608454--22608509 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
22608444 TTAAGCCAAA
* * * *
22608454 TTTTTCAAAAACATTTTTCAAAATCAC
1 TTTTTAAAAAACACTTCTCAAAAGCAC
*
22608481 TTTTTAAAAAACACTTCTGAAAAGCAC
1 TTTTTAAAAAACACTTCTCAAAAGCAC
22608508 TT
1 TT
22608510 CTCAAAAGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.38
Consensus pattern (27 bp):
TTTTTAAAAAACACTTCTCAAAAGCAC
Found at i:22617458 original size:17 final size:18
Alignment explanation
Indices: 22617426--22617462 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
22617416 CCTGCATTGT
22617426 ATCTCCTTTGTGATAATG
1 ATCTCCTTTGTGATAATG
*
22617444 ATCTCC-TTGTTATAATG
1 ATCTCCTTTGTGATAATG
22617461 AT
1 AT
22617463 TTATGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (18 bp):
ATCTCCTTTGTGATAATG
Found at i:22618208 original size:20 final size:21
Alignment explanation
Indices: 22618183--22618229 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
22618173 CAAACACTAG
*
22618183 AAAATATTAA-CTTTTTCAAA
1 AAAATATTAATCATTTTCAAA
*
22618203 AAAATA--AATCATTTTCCAA
1 AAAATATTAATCATTTTCAAA
22618222 AAAATATT
1 AAAATATT
22618230 TTACTGACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.09
19 14 0.64
20 6 0.27
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATATTAATCATTTTCAAA
Found at i:22621432 original size:14 final size:14
Alignment explanation
Indices: 22621415--22621466 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
22621405 ATTTATGCTG
*
22621415 GCGGATTCTTACAT
1 GCGGATTCATACAT
*
22621429 GCGGATTCATAGAT
1 GCGGATTCATACAT
* *
22621443 ACGAATTCATACAT
1 GCGGATTCATACAT
*
22621457 GCGGAATCAT
1 GCGGATTCAT
22621467 TATGCGAACT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (14 bp):
GCGGATTCATACAT
Found at i:22627509 original size:5 final size:5
Alignment explanation
Indices: 22627473--22627508 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
22627463 TTTCCACACG
*
22627473 TCTTCT TCTTT TCTTT TCTTT TCTTT TCTTT ACTTT
1 TCTT-T TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
22627509 ATTATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (5 bp):
TCTTT
Found at i:22635838 original size:28 final size:28
Alignment explanation
Indices: 22635767--22635846 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
22635757 TTTTTCATAA
*
22635767 ATTTTATACTTTT-AAATAATTTTAATG
1 ATTTTATATTTTTAAAATAATTTTAATG
***
22635794 ATTTTATATTCAAAAAATAATTTTAATG
1 ATTTTATATTTTTAAAATAATTTTAATG
22635822 ATTTT-TAATTTTTAAAATATATTTT
1 ATTTTAT-ATTTTTAAAATA-ATTTT
22635847 TTGAATTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 10 0.23
28 28 0.65
29 5 0.12
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (28 bp):
ATTTTATATTTTTAAAATAATTTTAATG
Found at i:22636815 original size:29 final size:29
Alignment explanation
Indices: 22636783--22636843 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
22636773 TATTTGTTTC
* *
22636783 ATATTATATTTTAGTCATTTATGTTTAAA
1 ATATTATATTTTAATCACTTATGTTTAAA
*
22636812 ATATTATGTTTTAATCACTTATGTTTAAA
1 ATATTATATTTTAATCACTTATGTTTAAA
22636841 ATA
1 ATA
22636844 GGATTAAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (29 bp):
ATATTATATTTTAATCACTTATGTTTAAA
Found at i:22636818 original size:14 final size:15
Alignment explanation
Indices: 22636801--22636843 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
22636791 TTTTAGTCAT
22636801 TTATGTTTAAAATA-
1 TTATGTTTAAAATAC
*
22636815 TTATGTTT-TAATCAC
1 TTATGTTTAAAAT-AC
22636830 TTATGTTTAAAATA
1 TTATGTTTAAAATA
22636844 GGATTAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 3 0.12
14 9 0.38
15 9 0.38
16 3 0.12
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (15 bp):
TTATGTTTAAAATAC
Found at i:22637228 original size:18 final size:17
Alignment explanation
Indices: 22637205--22637247 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
22637195 GAATAATTTT
*
22637205 TTAATTAAATATATTTAA
1 TTAATTAAA-ATATTAAA
22637223 TTAATTGAAAATATTAAA
1 TTAATT-AAAATATTAAA
22637241 TTAATTA
1 TTAATTA
22637248 CAACTGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TTAATTAAAATATTAAA
Found at i:22637742 original size:22 final size:20
Alignment explanation
Indices: 22637692--22637743 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
22637682 TTTTAGTCGC
22637692 TTAATTATTAATTTTTTCGA
1 TTAATTATTAATTTTTTCGA
*
22637712 TGTAGTTATTAGATTTTTT-GAAA
1 T-TAATTATTA-ATTTTTTCG--A
22637735 TTAATTATT
1 TTAATTATT
22637744 TTAGTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 1 0.04
21 9 0.35
22 14 0.54
23 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (20 bp):
TTAATTATTAATTTTTTCGA
Found at i:22638270 original size:24 final size:24
Alignment explanation
Indices: 22638243--22638291 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
22638233 AAGAAAAAAG
22638243 AGAA-AGAAAGAAATAAGAAGGAGA
1 AGAATAGAAAG-AATAAGAAGGAGA
* *
22638267 AGAATGGAAAGAATGAGAAGGAGA
1 AGAATAGAAAGAATAAGAAGGAGA
22638291 A
1 A
22638292 AAAAATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.61, C:0.00, G:0.33, T:0.06
Consensus pattern (24 bp):
AGAATAGAAAGAATAAGAAGGAGA
Found at i:22638459 original size:18 final size:18
Alignment explanation
Indices: 22638436--22638470 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22638426 GGAAAAAAGG
22638436 TAAGTTTAATTAATTTTT
1 TAAGTTTAATTAATTTTT
**
22638454 TAAGTTTGGTTAATTTT
1 TAAGTTTAATTAATTTT
22638471 AAAATATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (18 bp):
TAAGTTTAATTAATTTTT
Found at i:22638552 original size:23 final size:23
Alignment explanation
Indices: 22638478--22638555 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
22638468 TTTAAAATAT
*
22638478 TTTAATTTGTTAGTTAATTTGATTA
1 TTTAATTT-TTA-TTGATTTGATTA
* * *
22638503 TTTTAAGTTTT-TTGTTTTGTTTAA
1 -TTTAATTTTTATTGATTTGATT-A
22638527 TTTAATTTTTAATTGATTTG-TTA
1 TTTAATTTTT-ATTGATTTGATTA
22638550 TTTAAT
1 TTTAAT
22638556 GTTATTATAG
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
23 24 0.56
24 3 0.07
25 9 0.21
26 7 0.16
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.65
Consensus pattern (23 bp):
TTTAATTTTTATTGATTTGATTA
Found at i:22638671 original size:20 final size:21
Alignment explanation
Indices: 22638630--22638672 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
22638620 TAATTTACTT
22638630 TAATTTAATTTTATTAGTTAG
1 TAATTTAATTTTATTAGTTAG
* *
22638651 TAATTTTATTTTGTT-GTTAG
1 TAATTTAATTTTATTAGTTAG
22638671 TA
1 TA
22638673 GTAGTAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (21 bp):
TAATTTAATTTTATTAGTTAG
Found at i:22640929 original size:45 final size:45
Alignment explanation
Indices: 22640830--22640918 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
22640820 GCTCATAAAG
* *
22640830 CCAAGGATATCAACCTCAGTTTGACGAGCCAACGCGATACTCAAA
1 CCAAGGATATCAACCTCAATTTGACGAGCCAACGCAATACTCAAA
* * *
22640875 CCAAAGATATCAACCTCAATTTGACGAGCCACCGTAATACTCAA
1 CCAAGGATATCAACCTCAATTTGACGAGCCAACGCAATACTCAA
22640919 GGGAAGGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.19
Consensus pattern (45 bp):
CCAAGGATATCAACCTCAATTTGACGAGCCAACGCAATACTCAAA
Found at i:22641230 original size:7 final size:7
Alignment explanation
Indices: 22641198--22641257 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
22641188 TTCATAACAT
22641198 TAAACCC
1 TAAACCC
*
22641205 TAAAACC
1 TAAACCC
*
22641212 TAAACCT
1 TAAACCC
22641219 TAAACCC
1 TAAACCC
*
22641226 TAAA-CT
1 TAAACCC
* *
22641232 TAAAATCA
1 T-AAACCC
*
22641240 TAAACCA
1 TAAACCC
22641247 TAAACCC
1 TAAACCC
22641254 TAAA
1 TAAA
22641258 TTTAAAACCA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 2 0.05
7 39 0.91
8 2 0.05
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:22641262 original size:28 final size:28
Alignment explanation
Indices: 22641205--22641278 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
22641195 CATTAAACCC
*
22641205 TAAAACC-TAAACCTTAAACCCTAAACT
1 TAAAACCATAAACCATAAACCCTAAACT
* *
22641232 TAAAATCATAAACCATAAACCCTAAATT
1 TAAAACCATAAACCATAAACCCTAAACT
*
22641260 TAAAACCATAAACCCTAAA
1 TAAAACCATAAACCATAAA
22641279 TTTAAAACAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 6 0.15
28 35 0.85
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.22
Consensus pattern (28 bp):
TAAAACCATAAACCATAAACCCTAAACT
Found at i:22641280 original size:21 final size:21
Alignment explanation
Indices: 22641241--22641286 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
22641231 TTAAAATCAT
22641241 AAACCATAAACCCTAAATTTA
1 AAACCATAAACCCTAAATTTA
22641262 AAACCATAAACCCTAAATTTA
1 AAACCATAAACCCTAAATTTA
22641283 AAAC
1 AAAC
22641287 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCATAAACCCTAAATTTA
Found at i:22644301 original size:4 final size:4
Alignment explanation
Indices: 22644282--22644323 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
22644272 CATTACCTTG
* *
22644282 CTTT CTCT CCTT CTTT CTTT CTTT CTTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT C-TTT CTTT CTTT CTTT C
22644324 CCGTTTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
CTTT
Found at i:22644311 original size:13 final size:13
Alignment explanation
Indices: 22644295--22644322 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22644285 TCTCTCCTTC
22644295 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
22644308 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
22644321 TT
1 TT
22644323 CCCGTTTATT
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:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:22645790 original size:20 final size:17
Alignment explanation
Indices: 22645751--22645794 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 17
22645741 GGCACGTCCG
22645751 TATTTTTTTTAATATTA
1 TATTTTTTTTAATATTA
22645768 TATTTTGTTTTAATATTTAA
1 TATTTT-TTTTAATA-TT-A
22645788 TATTTTT
1 TATTTTT
22645795 ATACATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.25
18 8 0.33
19 3 0.12
20 7 0.29
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTTTTTTTAATATTA
Found at i:22646951 original size:20 final size:19
Alignment explanation
Indices: 22646914--22646950 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
22646904 AAAAGAATTG
22646914 CTATTTTCTGCTGTTTTTA
1 CTATTTTCTGCTGTTTTTA
22646933 CTATTTTGCTGCT-TTTTT
1 CTATTTT-CTGCTGTTTTT
22646951 TTGTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.08, C:0.16, G:0.11, T:0.65
Consensus pattern (19 bp):
CTATTTTCTGCTGTTTTTA
Found at i:22653554 original size:17 final size:18
Alignment explanation
Indices: 22653534--22653590 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 18
22653524 AAAACTTTAA
22653534 AAAAACCATA-AATATAT
1 AAAAACCATAGAATATAT
* *
22653551 AAAATCCA-AGAAAATAT
1 AAAAACCATAGAATATAT
*
22653568 TAAAACC-TAGAATATTAT
1 AAAAACCATAGAATA-TAT
22653586 AAAAA
1 AAAAA
22653591 ATAAAAAATC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 1 0.03
17 23 0.74
18 7 0.23
ACGTcount: A:0.63, C:0.11, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAACCATAGAATATAT
Found at i:22655580 original size:15 final size:16
Alignment explanation
Indices: 22655560--22655589 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22655550 ATGGAAATAA
22655560 ATTTTTTT-TCTTTCT
1 ATTTTTTTATCTTTCT
22655575 ATTTTTTTATCTTTC
1 ATTTTTTTATCTTTC
22655590 ACCATGCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTTTTATCTTTCT
Found at i:22664904 original size:14 final size:14
Alignment explanation
Indices: 22664885--22664911 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22664875 ATTCTCTCTT
22664885 AGATGAAAATGCTG
1 AGATGAAAATGCTG
22664899 AGATGAAAATGCT
1 AGATGAAAATGCT
22664912 TTTAGAAGAC
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:0.44, C:0.07, G:0.26, T:0.22
Consensus pattern (14 bp):
AGATGAAAATGCTG
Found at i:22669733 original size:5 final size:5
Alignment explanation
Indices: 22669723--22669753 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
22669713 ATAAGGGAAG
22669723 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
22669754 CTAATATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:22689752 original size:15 final size:15
Alignment explanation
Indices: 22689722--22689780 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
22689712 ATAATTTTTA
*
22689722 TTATTAATAAATATTT
1 TTATTAAT-TATATTT
22689738 TTATTAATTATATTT
1 TTATTAATTATATTT
*
22689753 TAATTAA-TA-A-TT
1 TTATTAATTATATTT
*
22689765 TTATAAATTATCATTT
1 TTATTAATTAT-ATTT
22689781 AAATTTATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 7 0.20
13 3 0.09
14 2 0.06
15 13 0.37
16 10 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATTAATTATATTT
Found at i:22689766 original size:27 final size:27
Alignment explanation
Indices: 22689720--22689795 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
22689710 CAATAATTTT
* * *
22689720 TATTATTAATAAATATTTTTATTAATTA
1 TATT-TTAATTAATAATTTTATAAATTA
22689748 TATTTTAATTAATAATTTTATAAATTA
1 TATTTTAATTAATAATTTTATAAATTA
* *
22689775 TCATTTAAATTTATAATTTTA
1 T-ATTTTAATTAATAATTTTA
22689796 CTTGATCACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 21 0.50
28 21 0.50
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (27 bp):
TATTTTAATTAATAATTTTATAAATTA
Found at i:22689795 original size:28 final size:27
Alignment explanation
Indices: 22689731--22689795 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 27
22689721 ATTATTAATA
* * *
22689731 AATATTTTTATTAATTATATTTTAATT
1 AATAATTTTATAAATTATATTTAAATT
22689758 AATAATTTTATAAATTATCATTTAAATT
1 AATAATTTTATAAATTAT-ATTTAAATT
*
22689786 TATAATTTTA
1 AATAATTTTA
22689796 CTTGATCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 16 0.48
28 17 0.52
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
AATAATTTTATAAATTATATTTAAATT
Found at i:22690677 original size:2 final size:2
Alignment explanation
Indices: 22690670--22690706 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
22690660 TGTCACCAAT
22690670 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
22690707 AAATACACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22696256 original size:18 final size:18
Alignment explanation
Indices: 22696233--22696272 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22696223 GTTAATATAA
*
22696233 TTTA-TTTAATATTACAAT
1 TTTATTTTAATAATA-AAT
22696251 TTTATTTTAATAATAAAT
1 TTTATTTTAATAATAAAT
22696269 TTTA
1 TTTA
22696273 ACAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATTTTAATAATAAAT
Found at i:22696286 original size:15 final size:16
Alignment explanation
Indices: 22696259--22696288 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22696249 ATTTTATTTT
22696259 AATAATAAATTTTAAC
1 AATAATAAATTTTAAC
22696275 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
22696289 ATGTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAC
Found at i:22696395 original size:13 final size:14
Alignment explanation
Indices: 22696366--22696395 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22696356 ATTACAATTT
22696366 ATAAATATTTGATA
1 ATAAATATTTGATA
22696380 ATAAATATTT-ATA
1 ATAAATATTTGATA
22696393 ATA
1 ATA
22696396 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (14 bp):
ATAAATATTTGATA
Found at i:22704284 original size:3 final size:3
Alignment explanation
Indices: 22704276--22704325 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
22704266 TGCTATGCAT
22704276 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22704324 TT
1 TT
22704326 GTTGTTGTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22704330 original size:3 final size:3
Alignment explanation
Indices: 22704324--22704350 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22704314 ATTATTATTA
22704324 TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG
22704351 GAAAAAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:22706644 original size:11 final size:9
Alignment explanation
Indices: 22706602--22706654 Score: 54
Period size: 9 Copynumber: 5.6 Consensus size: 9
22706592 AAAAACTACA
22706602 AAAATATTT
1 AAAATATTT
*
22706611 CAAATCAATTT
1 AAAAT--ATTT
22706622 AAAATATTT
1 AAAATATTT
22706631 AAAATATTT
1 AAAATATTT
22706640 ATAAA-ATTCT
1 A-AAATATT-T
22706650 AAAAT
1 AAAAT
22706655 TTATATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 24 0.65
10 5 0.14
11 8 0.22
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAATATTT
Found at i:22706654 original size:19 final size:18
Alignment explanation
Indices: 22706602--22706654 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
22706592 AAAAACTACA
*
22706602 AAAATATTTCAAATCAATTT
1 AAAATATTTAAAAT--ATTT
22706622 AAAATATTTAAAATATTT
1 AAAATATTTAAAATATTT
22706640 ATAAA-ATTCTAAAAT
1 A-AAATATT-TAAAAT
22706655 TTATATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.27
19 9 0.30
20 13 0.43
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATATTTAAAATATTT
Found at i:22707375 original size:21 final size:21
Alignment explanation
Indices: 22707341--22707394 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
22707331 AATTATTTTA
* *
22707341 TTTCACTTTCGGGTTAT-AGAT
1 TTTCAATTTTGGGTT-TCAGAT
* *
22707362 TTTGATTTTTGGGTTTCAGAT
1 TTTCAATTTTGGGTTTCAGAT
22707383 TTTCAATTTTGG
1 TTTCAATTTTGG
22707395 ATTTAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.17, C:0.09, G:0.20, T:0.54
Consensus pattern (21 bp):
TTTCAATTTTGGGTTTCAGAT
Found at i:22716445 original size:18 final size:18
Alignment explanation
Indices: 22716424--22716458 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22716414 TTTTAAATAT
22716424 AAAAATACTAAAA-AATTA
1 AAAAATA-TAAAACAATTA
22716442 AAAAATATAAAACAATT
1 AAAAATATAAAACAATT
22716459 CCAAGGGACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATATAAAACAATTA
Found at i:22723850 original size:29 final size:28
Alignment explanation
Indices: 22723813--22724247 Score: 148
Period size: 29 Copynumber: 15.0 Consensus size: 28
22723803 TTAGGTACTG
*
22723813 GGGGCAAAATGGTAATTTTGGGAAAGTTC
1 GGGGTAAAATGGTAATTTT-GGAAAGTTC
22723842 GGGGTAAAAT-GTAATTTTGG-AAGTTC
1 GGGGTAAAATGGTAATTTTGGAAAGTTC
* **
22723868 GGGGGTAAAATAGTAATTTTTGGAAA--AA
1 -GGGGTAAAATGGTAA-TTTTGGAAAGTTC
* * * *
22723896 GGGGTTAAAAAAGG-AATTTT-TAGAGGTTTG
1 GGGG-T-AAAATGGTAATTTTGGA-AAG-TTC
* * **
22723926 GGGGTAAAATGATAATTTTTAGAAAAATC
1 GGGGTAAAATGGTAA-TTTTGGAAAGTTC
* * *
22723955 AGGGTCAAAATAG-AATTTT-TAGAAGTTC
1 GGGGT-AAAATGGTAATTTTGGA-AAGTTC
22723983 GAGGGTAAAATGGTAATTTTTGGTGAAA-TT-
1 G-GGGTAAAATGGTAA-TTTT-G-GAAAGTTC
* * * * *
22724013 GAGGTCAAAAATAGAAATTTTGGACA-TCTG
1 GGGGT--AAAATGGTAATTTTGGAAAGT-TC
* * *
22724043 GGGGTAAAATGGTATTTTTTTTGAAAGTTTT
1 GGGGTAAAATGGTA--ATTTTGGAAAG-TTC
** * *
22724074 AAGGTCAAAAAT-GAAATTTTGG-AAGTTTA
1 GGGGT--AAAATGGTAATTTTGGAAAG-TTC
*
22724103 GGGGTAAAATGGTAATTTTTGAAAGTTTC
1 GGGGTAAAATGGTAATTTTGGAAAG-TTC
* *
22724132 GAGGTTAAAATGG-AATTTTTGAAAGTTC
1 G-GGGTAAAATGGTAATTTTGGAAAGTTC
*
22724160 AGGGGTAAAATGGTAATTTTTAGGAAA-ATC
1 -GGGGTAAAATGGTAA-TTTT-GGAAAGTTC
* *
22724190 GGGGTTAAAAATGG-AATTTTTGAAAGTTTG
1 GGGG-T-AAAATGGTAATTTTGGAAAG-TTC
*
22724220 GGGGTAAAAAT-GTAATTTTTGGACAGTT
1 GGGGT-AAAATGGTAA-TTTTGGAAAGTT
22724248 TAGGGACCTT
Statistics
Matches: 306, Mismatches: 56, Indels: 88
0.68 0.12 0.20
Matches are distributed among these distances:
26 7 0.02
27 27 0.09
28 71 0.23
29 91 0.30
30 73 0.24
31 26 0.08
32 5 0.02
33 6 0.02
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (28 bp):
GGGGTAAAATGGTAATTTTGGAAAGTTC
Found at i:22723992 original size:58 final size:57
Alignment explanation
Indices: 22723856--22724003 Score: 174
Period size: 57 Copynumber: 2.6 Consensus size: 57
22723846 TAAAATGTAA
* * * *
22723856 TTTTGGAAGTTCGGGGGTAAAAT-AGTAATTTTTGGAAAAAGGGGTTAAAAAAGGAAT
1 TTTTAGAAGTTCGGGGGTAAAATGA-TAATTTTTAGAAAAAAGGGTCAAAAAAGGAAT
* * *
22723913 TTTTAGAGGTTTGGGGGTAAAATGATAATTTTTAGAAAAATCAGGGTCAAAATA-GAAT
1 TTTTAGAAGTTCGGGGGTAAAATGATAATTTTTAGAAAAA--AGGGTCAAAAAAGGAAT
* *
22723971 TTTTAGAAGTTCGAGGGTAAAATGGTAATTTTT
1 TTTTAGAAGTTCGGGGGTAAAATGATAATTTTT
22724004 GGTGAAATTG
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
57 34 0.44
58 34 0.44
59 9 0.12
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (57 bp):
TTTTAGAAGTTCGGGGGTAAAATGATAATTTTTAGAAAAAAGGGTCAAAAAAGGAAT
Found at i:22724019 original size:58 final size:57
Alignment explanation
Indices: 22723812--22724241 Score: 279
Period size: 58 Copynumber: 7.4 Consensus size: 57
22723802 TTTAGGTACT
* *
22723812 GGGGGCAAAATGGTAA-TTTTGGGAAAGTTCGGGGT-AAAAT-GTAA-TTTTGGAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGGAAA-TT-GAGGTCAAAATAG-AATTTTTGGAAGTTC
* ** * * * * * *
22723868 GGGGGTAAAATAGTAATTTTT-GGAAAAAGGGGTTAAAAAAGGAATTTTTAGAGGTTT
1 GGGGGTAAAATGGTAATTTTTGGGAAATTGAGGTCAAAATA-GAATTTTTGGAAGTTC
* * * * * *
22723925 GGGGGTAAAATGATAATTTTTAGAAAAATCAGGGTCAAAATAGAATTTTTAGAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGGAAATTGA-GGTCAAAATAGAATTTTTGGAAGTTC
* *
22723983 GAGGGTAAAATGGTAATTTTTGGTGAAATTGAGGTCAAAAATAGAAATTTTGGACA--TC
1 GGGGGTAAAATGGTAATTTTTGG-GAAATTGAGGTC-AAAATAGAATTTTTGGA-AGTTC
* ** * * *
22724041 TGGGGGTAAAATGGTATTTTTTTTGAAAGTTTTAAGGTCAAAA-ATGAAATTTTGGAAGTTT
1 -GGGGGTAAAATGGTAATTTTTGGGAAA---TTGAGGTCAAAATA-GAATTTTTGGAAGTTC
* * * *
22724102 AGGGGTAAAATGGTAATTTTT--GAAAGTTTCGAGGTTAAAATGGAATTTTTGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGGAAA--TT-GAGGTCAAAATAGAATTTTTGGAAGTTC
* * * * * * * *
22724160 AGGGGTAAAATGGTAATTTTTAGGAAAATCGGGGTTAAAAATGGAATTTTTGAAAGTTT
1 GGGGGTAAAATGGTAATTTTT-GGGAAATTGAGG-TCAAAATAGAATTTTTGGAAGTTC
22724219 GGGGGTAAAAAT-GTAATTTTTGG
1 GGGGGT-AAAATGGTAATTTTTGG
22724242 ACAGTTTAGG
Statistics
Matches: 303, Mismatches: 47, Indels: 46
0.77 0.12 0.12
Matches are distributed among these distances:
54 5 0.02
55 4 0.01
56 21 0.07
57 36 0.12
58 100 0.33
59 86 0.28
60 40 0.13
61 11 0.04
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (57 bp):
GGGGGTAAAATGGTAATTTTTGGGAAATTGAGGTCAAAATAGAATTTTTGGAAGTTC
Found at i:22724052 original size:59 final size:59
Alignment explanation
Indices: 22723985--22724241 Score: 183
Period size: 59 Copynumber: 4.4 Consensus size: 59
22723975 AGAAGTTCGA
* *
22723985 GGGTAAAATGGTAATTTTTGGTGAAA-TTGAGGTCAAAAATAGAAATTTTGGACA-TCTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATTTAAGGTCAAAAAT-GAAATTTTGGA-AGTCTAG
** *
22724044 GGGTAAAATGGT-ATTTTTTTTGAAAGTTTTAAGGTCAAAAATGAAATTTTGGAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAA--TTTAAGGTCAAAAATGAAATTTTGGAAGTCTAG
* * * *
22724104 GGGTAAAATGGTAA-TTTT--TGAAAGTTTCGAGGT-TAAAATGGAATTTTTGAAAGT-TCAG
1 GGGTAAAATGGTAATTTTTGGTGAAA-TTT-AAGGTCAAAAAT-GAAATTTTGGAAGTCT-AG
* * *** * * * * *
22724162 GGGTAAAATGGTAATTTTTAG-GAAAATCGGGGTTAAAAATGGAATTTTTGAAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATTTAAGGTCAAAAAT-GAAATTTTGGAAGTCTAG
22724221 GGGTAAAAAT-GTAATTTTTGG
1 GGGT-AAAATGGTAATTTTTGG
22724242 ACAGTTTAGG
Statistics
Matches: 168, Mismatches: 16, Indels: 28
0.79 0.08 0.13
Matches are distributed among these distances:
57 9 0.05
58 52 0.31
59 53 0.32
60 40 0.24
61 14 0.08
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGTGAAATTTAAGGTCAAAAATGAAATTTTGGAAGTCTAG
Found at i:22724224 original size:177 final size:177
Alignment explanation
Indices: 22723903--22724228 Score: 394
Period size: 177 Copynumber: 1.8 Consensus size: 177
22723893 AAAGGGGTTA
* * *
22723903 AAAAAGGAATTTTTAGAGGTTTGGGGGTAAAATGATAATTTTTAGAAAAATCAGGGTCAAAATAG
1 AAAAAGGAAATTTTAGAAGTTTAGGGGTAAAATGATAATTTTTAGAAAAATCAGGGTCAAAATAG
* *
22723968 AATTTTTAGAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATTGAGGTCAAAAATAGAAATTT
66 AATTTTTAGAAGTTCGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTCAAAAATAGAAATTT
*
22724033 TGGACATCTGGGGGTAAAATGGTATTTTTTTTGAAAGTTTTAAGGTC
131 TGGAAATCTGGGGGTAAAATGGTATTTTTTTTGAAAGTTTTAAGGTC
* * * ** *
22724080 AAAAATGAAATTTTGGAAGTTTAGGGGTAAAATGGTAATTTTT-GAAAGTTTC-GAGGTTAAAAT
1 AAAAAGGAAATTTTAGAAGTTTAGGGGTAAAATGATAATTTTTAGAAA-AATCAG-GGTCAAAAT
* * * *
22724143 GGAATTTTT-GAAAGTTC-AGGGGTAAAATGGTAATTTTTAGG-AAAATCGGGGTTAAAAAT-GG
64 AGAATTTTTAG-AAGTTCGA-GGGTAAAATGGTAATTTTT-GGTAAAATCGAGGTCAAAAATAGA
* *
22724204 AATTTTTGAAAGTTTGGGGGTAAAA
126 AATTTTGGAAA-TCTGGGGGTAAAA
22724229 ATGTAATTTT
Statistics
Matches: 125, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
176 17 0.14
177 106 0.85
178 2 0.02
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (177 bp):
AAAAAGGAAATTTTAGAAGTTTAGGGGTAAAATGATAATTTTTAGAAAAATCAGGGTCAAAATAG
AATTTTTAGAAGTTCGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTCAAAAATAGAAATTT
TGGAAATCTGGGGGTAAAATGGTATTTTTTTTGAAAGTTTTAAGGTC
Found at i:22726194 original size:11 final size:12
Alignment explanation
Indices: 22726162--22726255 Score: 76
Period size: 11 Copynumber: 8.1 Consensus size: 12
22726152 TTTATATATT
22726162 TTAAATTTGAAAA
1 TTAAATTT-AAAA
22726175 -TAAATTTAAAA
1 TTAAATTTAAAA
*
22726186 TTAAA-TTAAAT
1 TTAAATTTAAAA
22726197 TTAAATTTAAAA
1 TTAAATTTAAAA
*
22726209 -TAAATTTAAATT
1 TTAAATTTAAA-A
22726221 TTAAA---ACAAA
1 TTAAATTTA-AAA
*
22726231 TTTAATCTTAAAA
1 TTAAAT-TTAAAA
22726244 -TAAATTTAAAA
1 TTAAATTTAAAA
22726255 T
1 T
22726256 GAGTTTGGGC
Statistics
Matches: 65, Mismatches: 6, Indels: 21
0.71 0.07 0.23
Matches are distributed among these distances:
10 5 0.08
11 32 0.49
12 20 0.31
13 7 0.11
14 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (12 bp):
TTAAATTTAAAA
Found at i:22726197 original size:17 final size:17
Alignment explanation
Indices: 22726161--22726253 Score: 125
Period size: 17 Copynumber: 5.4 Consensus size: 17
22726151 CTTTATATAT
22726161 TTTAAATTTGAAAATAAA
1 TTTAAATTT-AAAATAAA
* *
22726179 TTTAAAATTAAATTAAA
1 TTTAAATTTAAAATAAA
22726196 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
22726213 TTTAAATTTTAAAACAAA
1 TTTAAA-TTTAAAATAAA
22726231 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
22726248 TTTAAA
1 TTTAAA
22726254 ATGAGTTTGG
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
16 1 0.02
17 42 0.64
18 23 0.35
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:22726204 original size:23 final size:23
Alignment explanation
Indices: 22726175--22726221 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
22726165 AATTTGAAAA
22726175 TAAATTTAAAATTAAA-TTAAATT
1 TAAATTTAAAA-TAAATTTAAATT
22726198 TAAATTTAAAATAAATTTAAATT
1 TAAATTTAAAATAAATTTAAATT
22726221 T
1 T
22726222 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAATTTAAAATAAATTTAAATT
Found at i:22726219 original size:6 final size:6
Alignment explanation
Indices: 22726161--22726221 Score: 65
Period size: 6 Copynumber: 10.5 Consensus size: 6
22726151 CTTTATATAT
* *
22726161 TTTAAA TTTGAAA -ATAAA TTTAAA ATTAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
22726208 -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTT
22726222 TAAAACAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
5 12 0.26
6 31 0.67
7 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:22726225 original size:35 final size:34
Alignment explanation
Indices: 22726161--22726255 Score: 129
Period size: 35 Copynumber: 2.7 Consensus size: 34
22726151 CTTTATATAT
**
22726161 TTTAAATTTGAAAATAAATTTAAAATTAAATTAAA
1 TTTAAATTT-AAAATAAATTTAAAATTAAAACAAA
*
22726196 TTTAAATTTAAAATAAATTTAAATTTTAAAACAAA
1 TTTAAATTTAAAATAAATTTAAA-ATTAAAACAAA
22726231 TTT-AATCTTAAAATAAATTTAAAAT
1 TTTAAAT-TTAAAATAAATTTAAAAT
22726256 GAGTTTGGGC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
34 18 0.33
35 36 0.67
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (34 bp):
TTTAAATTTAAAATAAATTTAAAATTAAAACAAA
Found at i:22727100 original size:201 final size:200
Alignment explanation
Indices: 22726592--22728255 Score: 2064
Period size: 201 Copynumber: 8.2 Consensus size: 200
22726582 ACTTGGCCTT
* * * ** * * *
22726592 CTTCTCAGTATCTCATCAAGAAGATGACCTCATCACTTGTTTTGATCCACTTCTCTGTGTTTCAT
1 CTTCTCTGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * * * * *
22726657 CAGGAAGAGGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCAAACGACTTTATTGCTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* * *
22726722 CCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTTGAAGATTTGCTCATATCGAGCGTGAGTTT
131 CCTGCTTCTCAGTATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCACATCGAGC---A--TC
* * *
22726787 GATTTGGTCTT
190 GAGTTGGTATA
* * * ** *
22726798 CTTCTCAGTATCTCATCAAGAAGATGACTGCATCGTTTGTTTCAATCCGCTTCTCTATATCTCAT
1 CTTCTCTGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
*
22726863 CAGGAAGACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* *
22726928 CCTGCTTCTCAGTATCTCATTAGGAAGCTGAGGTTCGAAGATTTGCTCGCATCGAGCATCGAGTT
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTG-GGTTCGAAGATTTGCTCACATCGAGCATCGAGTT
22726993 GGTATA
195 GGTATA
* *
22726999 CTTCTCTGTATCTCATCAAGAAGATGATCGCCTCACTTGTTTTAATCCGCTTCTCTGTATCTCAT
1 CTTCTCTGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * *
22727064 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATTAAGAAGCTAACCATTTTATTGCTTTGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* * *
22727129 CCTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTTGAAGATTTGCTCGCATCGAGCGTCGAGTT
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTG-GGTTCGAAGATTTGCTCACATCGAGCATCGAGTT
22727194 GGTATA
195 GGTATA
* * *
22727200 CTTCTCTATATCTCATCAAGAAGATGATCACCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
1 CTTCTCTGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * *
22727265 TAGGAAGGCGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* * * *
22727330 CCTGCTTCTCAGTATCTCATCAGGAAGTTGGGTTCGAAGATTTGCTCACATCCAGCGTGGGTTTG
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACATCGAGC-----ATCG
* * *
22727395 ATTTGGTCTT
191 AGTTGGTATA
* * * * * *
22727405 CTTCTCAGTATCTCGTCAGGAAGTTGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCAT
1 CTTCTCTGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * *
22727470 CAAGAAGACGAATTTGTTCCACTTTTTAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* * * * *
22727535 CTTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTTACATCGAACAT-GGGTT
131 CCTGCTTCTCAGTATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCACATCGAGCATCGAG-T
* *
22727599 TGATTTGCTCTT
194 TG----G-TATA
* * * * * * *
22727611 CTTCTCAGTATCTCATCAGGAAGATGACCGCGTCATTTATTTCAATCTGCTTCTCTGTATCTAAT
1 CTTCTCTGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
22727676 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* *
22727741 CCAGCTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGATTTGCTCACATCGAGC-CCTGAGT
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGG-TTCGAAGATTTGCTCACATCGAGCATC-GAGT
22727805 TGGTATA
194 TGGTATA
* ** ** *
22727812 CTTCTCTGTATCTCATC-AGAAAGATAACCGTCC-CGTTTGTTTCAATCTACTTCTTTGTATCTC
1 CTTCTCTGTATCTCATCAAG-AAGATGACCG-CCTCACTTGTTTCAATCCGCTTCTCTGTATCTC
* **
22727875 ATCAGGAAGACGAATTTGGTCTAGGTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
64 ATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
** * *
22727940 GACCCACTTCTCAGTATCTCATCAGGATGCTGGGATTCGAAGATTTGCTCACATCGAGC-CCTGA
129 GACCTGCTTCTCAGTATCTCATCAGGAAGCTGGG-TTCGAAGATTTGCTCACATCGAGCATC-GA
22728004 GTTGGTATA
192 GTTGGTATA
* * ** * *
22728013 CTTCTCTATATCTCATC-AGAATGATAACCGTCC-CGTTTGTTTCAATCCGCTTCTTTATATCTC
1 CTTCTCTGTATCTCATCAAGAA-GATGACCG-CCTCACTTGTTTCAATCCGCTTCTCTGTATCTC
* * *
22728076 ATCAGAAAGACGAATTTGGTCCACTTCTTAGTATCTCATCAGAAAGCTAACCATTTTATTGCTTC
64 ATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
* * * * *
22728141 GACCTGCTTCTCAGTATCTCATTAGGAAGCTGGGATTCGAAGATTTGCTCTCATTGAGCCTTGAG
129 GACCTGCTTCTCAGTATCTCATCAGGAAGCTGGG-TTCGAAGATTTGCTCACATCGAGCATCGAG
22728206 TTGGTATA
193 TTGGTATA
* *
22728214 CTTCTCTGTATCTCATTAGGAAGATGACCGCCTCACTTGTTT
1 CTTCTCTGTATCTCATCAAGAAGATGACCGCCTCACTTGTTT
22728256 GTGGATAATC
Statistics
Matches: 1292, Mismatches: 144, Indels: 49
0.87 0.10 0.03
Matches are distributed among these distances:
200 29 0.02
201 741 0.57
202 5 0.00
203 1 0.00
205 154 0.12
206 360 0.28
207 2 0.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (200 bp):
CTTCTCTGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACATCGAGCATCGAGTTG
GTATA
Found at i:22728155 original size:813 final size:814
Alignment explanation
Indices: 22726579--22728190 Score: 2375
Period size: 813 Copynumber: 2.0 Consensus size: 814
22726569 TTTGGTTTCA
* **
22726579 TTGACTTGGCCTTCTTCTCAGTATCTCATCAAGAAGATGACCTCATCACTTGTTTTGATCCACTT
1 TTGACTTGGCCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCACTT
* * * * * *
22726644 CTCTGTGTTTCATCAGGAAGAGGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCAAACGAC
66 CTCTGTATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCAAACCAC
* * *
22726709 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTTGAAGATTTGCTCATAT
131 TTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACAT
* * * * * *
22726774 CGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACTGCATCGTTTGTT
196 CGAACATGAGTTTGATTTGCTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCATTTATT
* *
22726839 TCAATCCGCTTCTCTATATCTCATCAGGAAGACGAATTTGGTCTACTTCTCAGTATCTCATCAGG
261 TCAATCCGCTTCTCTATATCTAATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGG
* *
22726904 AAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATTAGGAAGCTGAGGTTCGAAGA
326 AAGCTAACCATTTTATTGCTTCGACCAGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGA
* * *
22726969 TTTGCTCGCATCGAGCATCGAGTTGGTATACTTCTCTGTATCTCATCAAGAAGATGATCGCCTCA
391 TTTGCTCACATCGAGCATCGAGTTGGTATACTTCTCTGTATCTCATCAAGAAGATAACCGCCTCA
* * *
22727034 CTTGTTTTAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
456 CTTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACGTCTCAGTATCTC
* * **
22727099 ATTAAGAAGCTAACCATTTTATTGCTTTGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTT
521 ATCAAGAAGCTAACCATTTTATTGCTTCGACCCACTTCTCAGTATCTCATCAGGAAGCTGAGGTT
* * * *
22727164 TGAAGATTTGCTCGCATCGAGCGTCGAGTTGGTATACTTCTCTATATCTCATCAAGAAGATGATC
586 CGAAGATTTGCTCACATCGAGCCTCGAGTTGGTATACTTCTCTATATCTCATCAAGAAGATGATA
* * * *
22727229 ACCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATTAGGAAGGCGAATTTGGTCCACTTCTCAA
651 ACCTCACTTGTTTCAATCCGCTTCTCTATATCTCATCAGAAAGACGAATTTGGTCCACTTCTCAA
* *
22727294 TATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTT
716 TATCTCATCAGAAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT
22727359 GGG-TTCGAAGATTTGCTCACATCCAGCGTGGGT
781 GGGATTCGAAGATTTGCTCACATCCAGCGTGGGT
* * * * * * *
22727392 TTGATTTGGTCTTCTTCTCAGTATCTCGTCAGGAAGTTGACCGCATCGCTTGTTTCAATCCGCTT
1 TTGACTTGGCCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCACTT
* *
22727457 CTCTGTATCTCATCAAGAAGACGAATTT-GTTCCACTT-TTTAGTATCTCATCAGGAAGCTAACC
66 CTCTGTATCTCATCAAGAAGACGAATTTGGTT-CACTTCTCT-GTATCTCATCAGGAAGCAAACC
* * * *
22727520 ATTTTATTGCTTCGACTTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTTAC
129 ACTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCAC
* * *
22727585 ATCGAACATGGGTTTGATTTGCTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCGTCATTTA
194 ATCGAACATGAGTTTGATTTGCTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCATTTA
* *
22727650 TTTCAATCTGCTTCTCTGTATCTAATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCA
259 TTTCAATCCGCTTCTCTATATCTAATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCA
22727715 GGAAGCTAACCATTTTATTGCTTCGACCAGCTTCTCAGTATCTCATCAGGAAGCTG-GGATTCGA
324 GGAAGCTAACCATTTTATTGCTTCGACCAGCTTCTCAGTATCTCATCAGGAAGCTGAGG-TTCGA
*
22727779 AGATTTGCTCACATCGAGC-CCTGAGTTGGTATACTTCTCTGTATCTCATC-AGAAAGATAACCG
388 AGATTTGCTCACATCGAGCATC-GAGTTGGTATACTTCTCTGTATCTCATCAAG-AAGATAACCG
** * * * *
22727842 TCC-CGTTTGTTTCAATCTACTTCTTTGTATCTCATCAGGAAGACGAATTTGGTCTAGGTCTCAG
451 -CCTCACTTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACGTCTCAG
* *
22727906 TATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCCACTTCTCAGTATCTCATCAGGATGCT
515 TATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCCACTTCTCAGTATCTCATCAGGAAGCT
22727971 G-GGATTCGAAGATTTGCTCACATCGAGCC-CTGAGTTGGTATACTTCTCTATATCTCATC-AG-
580 GAGG-TTCGAAGATTTGCTCACATCGAGCCTC-GAGTTGGTATACTTCTCTATATCTCATCAAGA
* *
22728032 A-ATGATAACCGTCCCGTTTGTTTCAATCCGCTTCTTTATATCTCATCAGAAAGACGAATTTGGT
643 AGATGATAACC-TCAC--TTGTTTCAATCCGCTTCTCTATATCTCATCAGAAAGACGAATTTGGT
* *
22728096 CCACTTCTTAGTATCTCATCAGAAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTC
705 CCACTTCTCAATATCTCATCAGAAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTC
*
22728161 ATTAGGAAGCTGGGATTCGAAGATTTGCTC
770 ATCAGGAAGCTGGGATTCGAAGATTTGCTC
22728191 TCATTGAGCC
Statistics
Matches: 713, Mismatches: 74, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
810 8 0.01
811 4 0.01
812 15 0.02
813 669 0.94
814 17 0.02
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (814 bp):
TTGACTTGGCCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCACTT
CTCTGTATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCAAACCAC
TTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACAT
CGAACATGAGTTTGATTTGCTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCATTTATT
TCAATCCGCTTCTCTATATCTAATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGG
AAGCTAACCATTTTATTGCTTCGACCAGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGA
TTTGCTCACATCGAGCATCGAGTTGGTATACTTCTCTGTATCTCATCAAGAAGATAACCGCCTCA
CTTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACGTCTCAGTATCTC
ATCAAGAAGCTAACCATTTTATTGCTTCGACCCACTTCTCAGTATCTCATCAGGAAGCTGAGGTT
CGAAGATTTGCTCACATCGAGCCTCGAGTTGGTATACTTCTCTATATCTCATCAAGAAGATGATA
ACCTCACTTGTTTCAATCCGCTTCTCTATATCTCATCAGAAAGACGAATTTGGTCCACTTCTCAA
TATCTCATCAGAAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT
GGGATTCGAAGATTTGCTCACATCCAGCGTGGGT
Found at i:22728408 original size:78 final size:78
Alignment explanation
Indices: 22728291--22728526 Score: 289
Period size: 78 Copynumber: 3.0 Consensus size: 78
22728281 ATCGGAGTAG
* * * * **
22728291 GAGATTGGTTGATGATGATCTACTCCAAGCTCGGAGTAAAAGGTCGGATGGTTGCAATCTGCCCC
1 GAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGTTGCAATCTGCCCC
22728356 AAACTCAGGGTAA
66 AAACTCAGGGTAA
* * * * *
22728369 GAGATTGATTGACGATGATCTGCCCCAGGCTTGGGGTAAAAGATCAAATGGCTGCAATCTGCCCC
1 GAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGTTGCAATCTGCCCC
* *
22728434 AGAC-CTAGAGTAA
66 AAACTC-AGGGTAA
*
22728447 GAGATTGGTTGATGATGATCTGTCCCAAGCTCGGGGTAAAAGATCAAATGGCTT-CAATCTGCCC
1 GAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGG-TTGCAATCTGCCC
*
22728511 CAAGCTC-GAGGTAA
65 CAAACTCAG-GGTAA
22728525 GA
1 GA
22728527 TATTAGAATC
Statistics
Matches: 132, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
77 2 0.02
78 128 0.97
79 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (78 bp):
GAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGTTGCAATCTGCCCC
AAACTCAGGGTAA
Found at i:22729031 original size:51 final size:49
Alignment explanation
Indices: 22728804--22729194 Score: 369
Period size: 51 Copynumber: 7.9 Consensus size: 49
22728794 TCCTTTCAAA
* * * * *
22728804 TCTTCGTGGTACTAGATCCGCCATTGTGG-GTTAGATCTTTCCCTTGTG
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCTG
* * * * *
22728852 TCTTCGTGGTATTGGATCTGCCG-T-CGTGACTTAGATCTTTCCCTTATT
1 TCTTCGTGGTACTGGATCCGCCGTTGCG-GTCTTAGATCTTTCCCTTCTG
* *
22728900 TCTTCGCGGTACTGGATCCGCCGTTACGGTCTTAGATCTTT-CCTGTCGTG
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCT-TC-TG
* * * * * *
22728950 TTTTTGTGGTAGTGGATCTGCCGTTACGGTCTTAGATCTTTCTCTTCTG
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCTG
* *
22728999 CATCTTTGTGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTTCCCTTCTG
1 --TCTTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCTG
* ** * * *
22729050 TATCTTTGTGGTACTGGATCTACCATTGCGATCTTAGATCTTTCCCTTGTG
1 --TCTTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCTG
* ** *
22729101 TCTTCGTGGTACTGGATCCGCTGTTGCGACCTTAGATCTTTCCCGTCGTG
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTC-TG
* * * *
22729151 TTTTTGTGGTACTGGATCCGCCGTCGCGG-CTTAGTTCTTTCCCT
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCT
22729195 GTCAAACCTG
Statistics
Matches: 289, Mismatches: 44, Indels: 19
0.82 0.12 0.05
Matches are distributed among these distances:
46 1 0.00
47 2 0.01
48 58 0.20
49 68 0.24
50 67 0.23
51 93 0.32
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (49 bp):
TCTTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCTG
Found at i:22730444 original size:18 final size:18
Alignment explanation
Indices: 22730421--22730476 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
22730411 TTCCTTATTC
*
22730421 TATTTTTGTTTTTCTTCT
1 TATTTTTGTCTTTCTTCT
*
22730439 TATTTTTCCTCTTTCTTCT
1 TATTTTT-GTCTTTCTTCT
*
22730458 TTTCTTTTG-CTTTCTTCT
1 TAT-TTTTGTCTTTCTTCT
22730476 T
1 T
22730477 TCTTTCTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 17 0.53
19 11 0.34
20 4 0.12
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.73
Consensus pattern (18 bp):
TATTTTTGTCTTTCTTCT
Found at i:22730488 original size:18 final size:18
Alignment explanation
Indices: 22730431--22730488 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
22730421 TATTTTTGTT
* *
22730431 TTTCTTCTTATTTTTCCTC
1 TTTCTTCTT-TCTTTCTTC
*
22730450 TTTCTTCTTTTCTTT-TGC
1 TTTCTTC-TTTCTTTCTTC
22730468 TTTCTTCTTTCTTTCTTC
1 TTTCTTCTTTCTTTCTTC
22730486 TTT
1 TTT
22730489 TTCCTTTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 7 0.21
18 13 0.39
19 11 0.33
20 2 0.06
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTCTTCTTTCTTTCTTC
Found at i:22730495 original size:18 final size:19
Alignment explanation
Indices: 22730443--22730495 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
22730433 TCTTCTTATT
* *
22730443 TTTCCTCTTTCTTCTTTTC
1 TTTCTTCTTTCTTCCTTTC
*
22730462 TTT-TGCTTTCTT-CTTTC
1 TTTCTTCTTTCTTCCTTTC
22730479 TTTCTTCTTT-TTCCTTT
1 TTTCTTCTTTCTTCCTTT
22730496 GTTCATTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 9 0.32
18 16 0.57
19 3 0.11
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTCTTCTTTCTTCCTTTC
Found at i:22730495 original size:25 final size:24
Alignment explanation
Indices: 22730431--22730491 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
22730421 TATTTTTGTT
*
22730431 TTTCTTCTTATT-TTTCCTCTTTC
1 TTTCTTCTTTTTCTTTCCTCTTTC
* * *
22730454 TTCTTTTCTTTTGCTTTCTTCTTTC
1 TT-TCTTCTTTTTCTTTCCTCTTTC
22730479 TTTCTTCTTTTTC
1 TTTCTTCTTTTTC
22730492 CTTTGTTCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 2 0.07
24 16 0.53
25 12 0.40
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTCTTCTTTTTCTTTCCTCTTTC
Found at i:22731271 original size:11 final size:11
Alignment explanation
Indices: 22731251--22731281 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
22731241 TCACCTTGAG
22731251 TTTTTCTCTCTC
1 TTTTT-TCTCTC
22731263 TTTTTTCTCTC
1 TTTTTTCTCTC
22731274 TTTTTTCT
1 TTTTTTCT
22731282 TTTTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTTCTCTC
Found at i:22736039 original size:28 final size:27
Alignment explanation
Indices: 22736002--22736070 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 27
22735992 ACTCGAGGGC
22736002 AAAATGGTAAATTTGGGAAAGATC-GGGGT
1 AAAAT-GT-AATTT-GGAAAGATCAGGGGT
* *
22736031 AAAATGTAATTTTGAAAGTTCAGGGGT
1 AAAATGTAATTTGGAAAGATCAGGGGT
22736058 AAAATGGTAATTT
1 AAAAT-GTAATTT
22736071 TAGAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 7 0.19
27 15 0.42
28 9 0.25
29 5 0.14
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.30
Consensus pattern (27 bp):
AAAATGTAATTTGGAAAGATCAGGGGT
Found at i:22736056 original size:27 final size:28
Alignment explanation
Indices: 22736002--22736421 Score: 105
Period size: 29 Copynumber: 14.5 Consensus size: 28
22735992 ACTCGAGGGC
**
22736002 AAAATGGTAAATTTGGGAAAGATCGGGGT
1 AAAATGGT-AATTTTAGAAAGATCGGGGT
*
22736031 AAAAT-GTAATTTT-GAAAGTTCAGGGGT
1 AAAATGGTAATTTTAGAAAGATC-GGGGT
* ***
22736058 AAAATGGTAATTTTAGAAAAAATCAATGT
1 AAAATGGTAATTTTAG-AAAGATCGGGGT
* * *
22736087 CAAAAATGG-AATTTT-TATAGCTCCGGGGGT
1 --AAAATGGTAATTTTAGAAAGAT-C-GGGGT
** * *
22736117 AAAA-AATAATTTTTGGAAAAATCGGGGT
1 AAAATGGTAA-TTTTAGAAAGATCGGGGT
* * * *
22736145 CAAAAATGG-AATTTTTGGAAGTTTGAGGGT
1 --AAAATGGTAATTTTAGAAAGATCG-GGGT
* * *
22736175 AAAATGGTAATTTTTGGTGAA-ATCGAGGT
1 AAAATGGTAA-TTTTAG-AAAGATCGGGGT
* *
22736204 CAAAAATGG-AATTTT-GGAAGTTCGAGGGT
1 --AAAATGGTAATTTTAGAAAGATCG-GGGT
* *
22736233 AAAATGGTAATTTTCA-AAAGTTTTGGGGT
1 AAAATGGTAATTTT-AGAAAG-ATCGGGGT
* * *
22736262 CAAAAATGG-AATTTT-GGAAGTTCAAGGGT
1 --AAAATGGTAATTTTAGAAAGATC-GGGGT
* * *
22736291 AAAATGGTAATTTTCA-AAAGTTTTAGGGTT
1 AAAATGGTAATTTT-AGAAAG--ATCGGGGT
* * *
22736321 AAAAATGG-AATTTTTGGAAGTTCGAGGGT
1 -AAAATGGTAATTTTAGAAAGATCG-GGGT
* **
22736350 AAAATGGTAATTTTAGAAAAATTAGGGT
1 AAAATGGTAATTTTAGAAAGATCGGGGT
* * *
22736378 CAAGAATGG-AATTTTTGAAAGTTCGAGAGT
1 -AA-AATGGTAATTTTAGAAAGATCG-GGGT
*
22736408 AAAATTGTAATTTT
1 AAAATGGTAATTTT
22736422 TAGGAAAATC
Statistics
Matches: 289, Mismatches: 59, Indels: 86
0.67 0.14 0.20
Matches are distributed among these distances:
26 7 0.02
27 32 0.11
28 67 0.23
29 86 0.30
30 64 0.22
31 33 0.11
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (28 bp):
AAAATGGTAATTTTAGAAAGATCGGGGT
Found at i:22736175 original size:117 final size:114
Alignment explanation
Indices: 22735994--22736479 Score: 412
Period size: 117 Copynumber: 4.2 Consensus size: 114
22735984 TTTTGGGTAC
* * * *
22735994 TCGAGGGCAAAATGGTAAATTTGGGAAAGATCGGGGT--AAAATGTAATTTTGAAAGTTC-AGGG
1 TCGAGGGTAAAATGGT-AATTTTGGAAAAATCGGGGTCAAAAATGGAATTTTGAAAGTTCGA-GG
*
22736056 GTAAAATGGTAATTTTAGAAAAAATCAATGTCAAAAATGGAATTTTTATAGCT
64 GTAAAATGGTAATTTTAGAAAAAATCAAGGTCAAAAATGGAATTTTTA-AG-T
* * ** * *
22736109 CCGGGGGTAAAA-AATAATTTTTGGAAAAATCGGGGTCAAAAATGGAATTTTTGGAAGTTTGAGG
1 TCGAGGGTAAAATGGTAA-TTTTGGAAAAATCGGGGTCAAAAATGGAA-TTTTGAAAGTTCGAGG
* *** * *
22736173 GTAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAGT
64 GTAAAATGGTAATTTTAGAAAAAATCAAGGTCAAAAATGGAATTTT-TAAGT
* * * * *
22736225 TCGAGGGTAAAATGGTAATTTT-CAAAAGTTTTGGGGTCAAAAATGGAATTTTGGAAGTTCAAGG
1 TCGAGGGTAAAATGGTAATTTTGGAAAA--ATCGGGGTCAAAAATGGAATTTTGAAAGTTCGAGG
*** * * *
22736289 GTAAAATGGTAATTTTCA-AAAGTTTTAGGGTTAAAAATGGAATTTTTGGAAGT
64 GTAAAATGGTAATTTT-AGAAAAAATCAAGGTCAAAAATGGAATTTTT--AAGT
* ** * *
22736342 TCGAGGGTAAAATGGTAATTTTAGAAAAATTAGGGTCAAGAATGGAATTTTTGAAAGTTCGAGAG
1 TCGAGGGTAAAATGGTAATTTTGGAAAAATCGGGGTCAAAAATGGAA-TTTTGAAAGTTCGAGGG
* * * * *
22736407 TAAAATTGTAATTTTTAG-GAAAATCAAGCTTAAAAATGGAATTTTGGAACGT
65 TAAAATGGTAA-TTTTAGAAAAAATCAAGGTCAAAAATGGAATTTT-TAA-GT
*
22736459 TTGAGGGTAAAAATGG-AATTT
1 TCGAGGGT-AAAATGGTAATTT
22736480 CTAAATAGTT
Statistics
Matches: 297, Mismatches: 55, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
113 2 0.01
114 17 0.06
115 13 0.04
116 89 0.30
117 159 0.54
118 17 0.06
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (114 bp):
TCGAGGGTAAAATGGTAATTTTGGAAAAATCGGGGTCAAAAATGGAATTTTGAAAGTTCGAGGGT
AAAATGGTAATTTTAGAAAAAATCAAGGTCAAAAATGGAATTTTTAAGT
Found at i:22736210 original size:59 final size:59
Alignment explanation
Indices: 22735994--22736479 Score: 396
Period size: 58 Copynumber: 8.4 Consensus size: 59
22735984 TTTTGGGTAC
* * * * * * *
22735994 TCGAGGGCAAAATGGTAAATTTGGGAAAGATCGGGGT--AAAATGTAA-TTTTGAAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGT
* * * *
22736050 TC-AGGGGTAAAATGGTAATTTTAGAAAAAATCAATGTCAAAAATGGAATTTTT--ATAGCT
1 TCGA-GGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGGA-AG-T
* * ** *
22736109 CCGGGGGTAAAA-AATAATTTTTGGAAAAATCGGGGTCAAAAATGGAATTTTTGGAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGT
* **
22736167 TTGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAA-TTTTGGAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGT
* * * *
22736225 TCGAGGGTAAAATGGTAA-TTTT-CAAAAGTTTTGGGGTCAAAAATGGAA-TTTTGGAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGAAAA--ATCGAGGTCAAAAATGGAATTTTTGGAAGT
* * * ** *
22736283 TCAAGGGTAAAATGGTAA-TTTT-CAAAAGTTTTAGGGTTAAAAATGGAATTTTTGGAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGAAAA-ATCGA-GGTCAAAAATGGAATTTTTGGAAGT
* * * *
22736342 TCGAGGGTAAAATGGTAA-TTTTAGAAAAAT-TAGGGTCAAGAATGGAATTTTTGAAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGA-GGTCAAAAATGGAATTTTTGGAAGT
* * * * *
22736400 TCGAGAGTAAAATTGTAATTTTTAGG-AAAATCAAGCTTAAAAATGGAA-TTTTGGAACGT
1 TCGAGGGTAAAATGGTAATTTTT-GGAAAAATCGAGGTCAAAAATGGAATTTTTGGAA-GT
*
22736459 TTGAGGGTAAAAATGG-AATTT
1 TCGAGGGT-AAAATGGTAATTT
22736480 CTAAATAGTT
Statistics
Matches: 355, Mismatches: 55, Indels: 37
0.79 0.12 0.08
Matches are distributed among these distances:
55 1 0.00
56 29 0.08
57 8 0.02
58 193 0.54
59 111 0.31
60 13 0.04
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (59 bp):
TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGT
Found at i:22736239 original size:175 final size:172
Alignment explanation
Indices: 22736031--22736455 Score: 414
Period size: 175 Copynumber: 2.4 Consensus size: 172
22736021 AGATCGGGGT
*
22736031 AAAATGTAATTTTGAAAGTTC-AGGGGTAAAATGGTAATTTTAGAAAAAATCAATGTCAAAAATG
1 AAAATGGAATTTTGAAAGTTCGA-GGGTAAAATGGTAATTTTAGAAAAAATCAA-GTCAAAAATG
* ** * *
22736095 GAATTTT-TATAGCTCCGGGGGTAAAA-AATAATTTTTGGAAAA-ATCGGGGTCAAAAATGGAAT
64 GAATTTTGGA-AG-TCCAAGGGTAAAATAATAA-TTTT-CAAAAGATCAGGGTCAAAAATGGAAT
* * **
22736157 TTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTGGTGAAATCGA-GGTCA
125 TTTTGGAAGTTCGAGGGTAAAATGGTAA-TTTTAGAAAAAT-GAGGGTCA
* *** ***
22736206 AAAATGGAATTTTGGAAGTTCGAGGGTAAAATGGTAATTTTCA-AAAGTTTTGGGGTCAAAAATG
1 AAAATGGAATTTTGAAAGTTCGAGGGTAAAATGGTAATTTT-AGAAA-AAATCAAGTCAAAAATG
* ** * * *
22736270 GAATTTTGGAAGTTCAAGGGTAAAATGGTAATTTTCAAAAGTTTTAGGGTTAAAAATGGAATTTT
64 GAATTTTGGAAGTCCAAGGGTAAAATAATAATTTTCAAAAG-ATCAGGGTCAAAAATGGAATTTT
*
22736335 TGGAAGTTCGAGGGTAAAATGGTAATTTTAGAAAAATTAGGGTCA
128 TGGAAGTTCGAGGGTAAAATGGTAATTTTAGAAAAATGAGGGTCA
* * * * *
22736380 AGAATGGAATTTTTGAAAGTTCGAGAGTAAAATTGTAATTTTTAG-GAAAATCAAGCTTAAAAAT
1 AAAATGGAA-TTTTGAAAGTTCGAGGGTAAAATGGTAA-TTTTAGAAAAAATCAAG-TCAAAAAT
22736444 GGAATTTTGGAA
63 GGAATTTTGGAA
22736456 CGTTTGAGGG
Statistics
Matches: 202, Mismatches: 36, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
173 5 0.02
174 38 0.19
175 151 0.75
176 8 0.04
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (172 bp):
AAAATGGAATTTTGAAAGTTCGAGGGTAAAATGGTAATTTTAGAAAAAATCAAGTCAAAAATGGA
ATTTTGGAAGTCCAAGGGTAAAATAATAATTTTCAAAAGATCAGGGTCAAAAATGGAATTTTTGG
AAGTTCGAGGGTAAAATGGTAATTTTAGAAAAATGAGGGTCA
Found at i:22738441 original size:18 final size:17
Alignment explanation
Indices: 22738403--22738478 Score: 91
Period size: 18 Copynumber: 4.4 Consensus size: 17
22738393 CTTTATATAT
* *
22738403 TTTAAATTTATAATAAT
1 TTTAAATTTAAAATAAA
22738420 TTTAAATTTAAAAATAAA
1 TTTAAATTT-AAAATAAA
*
22738438 TTTAAATTTTAAAACAAA
1 TTTAAA-TTTAAAATAAA
22738456 TTT-AATTTGAAAATAAA
1 TTTAAATTT-AAAATAAA
22738473 TTTAAA
1 TTTAAA
22738479 ATGAGTTTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
16 3 0.06
17 21 0.41
18 24 0.47
19 3 0.06
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:22739348 original size:30 final size:29
Alignment explanation
Indices: 22739312--22739669 Score: 330
Period size: 30 Copynumber: 12.0 Consensus size: 29
22739302 AGAGGTCCCC
* *
22739312 AAACTTTTCAAAAATTATATTTTGACCTCT
1 AAACTTTTCCAAAATTACATTTTGACC-CT
*
22739342 AAAC-TTTCTTAAAATTACATTTTGACCCCT
1 AAACTTTTC-CAAAATTACATTTTGA-CCCT
* * *
22739372 AAACTTTTCTAAAATCATATTTTGACCCCT
1 AAACTTTTCCAAAATTACATTTTGA-CCCT
** * *
22739402 AAACTTTTCCAAAATTATGTTTTAATGCCT
1 AAACTTTTCCAAAATTACATTTTGA-CCCT
22739432 AAA-TTTTCCAAAATTACATTTTGATCCCT
1 AAACTTTTCCAAAATTACATTTTGA-CCCT
* * *
22739461 AAAC-TTTCCTAAAATTACATTATAACCCCC
1 AAACTTTTCC-AAAATTACATTTTGA-CCCT
*
22739491 ACACTTTTCCAAAATTACATTTTGATCCCT
1 AAACTTTTCCAAAATTACATTTTGA-CCCT
* *
22739521 AAAC-TTTCTTAAAATTACATTTTGACCTTT
1 AAACTTTTC-CAAAATTACATTTTGACC-CT
* *
22739551 AAACTTTTCCAAAATTATATTTTGACTCTT
1 AAACTTTTCCAAAATTACATTTTGAC-CCT
* *
22739581 AAACTTTTCTAAAATTACATTTTAATGCCC-
1 AAACTTTTCCAAAATTACATTTTGA--CCCT
* *
22739611 AAACTTTTCCAAAATCATATTTTGACCCT
1 AAACTTTTCCAAAATTACATTTTGACCCT
* *
22739640 CAAACTTTTCCAAAATCATATTTTGACCCT
1 -AAACTTTTCCAAAATTACATTTTGACCCT
22739670 CGAACTTCTT
Statistics
Matches: 278, Mismatches: 36, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
28 3 0.01
29 40 0.14
30 217 0.78
31 17 0.06
32 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (29 bp):
AAACTTTTCCAAAATTACATTTTGACCCT
Found at i:22739405 original size:60 final size:60
Alignment explanation
Indices: 22739308--22739647 Score: 377
Period size: 60 Copynumber: 5.7 Consensus size: 60
22739298 CTCAAGAGGT
* * *
22739308 CCCC-AAACTTTTCAAAAATTATATTTTGACCTCTAAACTTTCTTAAAATTACATTTTGA
1 CCCCTAAACTTTTCCAAAATTATATTTTGACCCCTAAACTTTCTTAAAATTACATTTTAA
* * * **
22739367 CCCCTAAACTTTTCTAAAATCATATTTTGACCCCTAAACTTT-TCCAAAATTATGTTTTAA
1 CCCCTAAACTTTTCCAAAATTATATTTTGACCCCTAAACTTTCT-TAAAATTACATTTTAA
** * * * *
22739427 TGCCTAAA-TTTTCCAAAATTACATTTTGATCCCTAAACTTTCCTAAAATTACATTATAA
1 CCCCTAAACTTTTCCAAAATTATATTTTGACCCCTAAACTTTCTTAAAATTACATTTTAA
* * * * *
22739486 CCCCCACACTTTTCCAAAATTACATTTTGATCCCTAAACTTTCTTAAAATTACATTTTGA
1 CCCCTAAACTTTTCCAAAATTATATTTTGACCCCTAAACTTTCTTAAAATTACATTTTAA
** * *
22739546 CCTTTAAACTTTTCCAAAATTATATTTTGACTCTTAAACTTT-TCTAAAATTACATTTTAA
1 CCCCTAAACTTTTCCAAAATTATATTTTGACCCCTAAACTTTCT-TAAAATTACATTTTAA
* *
22739606 TGCCC-AAACTTTTCCAAAATCATATTTTGA-CCCTCAAACTTT
1 -CCCCTAAACTTTTCCAAAATTATATTTTGACCCCT-AAACTTT
22739648 TCCAAAATCA
Statistics
Matches: 234, Mismatches: 40, Indels: 13
0.82 0.14 0.05
Matches are distributed among these distances:
59 53 0.23
60 180 0.77
61 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.40
Consensus pattern (60 bp):
CCCCTAAACTTTTCCAAAATTATATTTTGACCCCTAAACTTTCTTAAAATTACATTTTAA
Found at i:22739565 original size:90 final size:90
Alignment explanation
Indices: 22739308--22739699 Score: 393
Period size: 90 Copynumber: 4.4 Consensus size: 90
22739298 CTCAAGAGGT
* * * *
22739308 CCCCAAACTTTTCAAAAATTATATTTTGA-CCTCTAAACTTTCTTAAAATTACATTTTGACCCCT
1 CCCCAAACTTTTCCAAAATTACATTTTAATCC-CTAAACTTTCTCAAAATTACATTTTGACCCCT
* *
22739372 AAACTTTTCTAAAATCATATTTTGAC
65 AAACTTTTCCAAAATTATATTTTGAC
* ** * * *
22739398 CCCTAAACTTTTCCAAAATTATGTTTTAATGCCTAAATTTTC-CAAAATTACATTTTGATCCCTA
1 CCCCAAACTTTTCCAAAATTACATTTTAATCCCTAAACTTTCTCAAAATTACATTTTGACCCCTA
* * *
22739462 AAC-TTTCCTAAAATTACATTATAAC
66 AACTTTTCC-AAAATTATATTTTGAC
* * * **
22739487 CCCCACACTTTTCCAAAATTACATTTTGATCCCTAAACTTTCTTAAAATTACATTTTGACCTTTA
1 CCCCAAACTTTTCCAAAATTACATTTTAATCCCTAAACTTTCTCAAAATTACATTTTGACCCCTA
22739552 AACTTTTCCAAAATTATATTTTGAC
66 AACTTTTCCAAAATTATATTTTGAC
* ** * * *
22739577 TCTTAAACTTTTCTAAAATTACATTTTAATGCCC-AAACTTT-TCCAAAATCATATTTTGA-CCC
1 CCCCAAACTTTTCCAAAATTACATTTTAAT-CCCTAAACTTTCT-CAAAATTACATTTTGACCCC
*
22739639 TCAAACTTTTCCAAAATCATATTTTGAC
64 T-AAACTTTTCCAAAATTATATTTTGAC
* * * * *
22739667 CCTCGAACTTCTT-TAAAATTTCATTTTCATCCC
1 CCCCAAACTT-TTCCAAAATTACATTTTAATCCC
22739700 AAATTTTTCG
Statistics
Matches: 250, Mismatches: 44, Indels: 17
0.80 0.14 0.05
Matches are distributed among these distances:
88 4 0.02
89 76 0.30
90 159 0.64
91 11 0.04
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.40
Consensus pattern (90 bp):
CCCCAAACTTTTCCAAAATTACATTTTAATCCCTAAACTTTCTCAAAATTACATTTTGACCCCTA
AACTTTTCCAAAATTATATTTTGAC
Found at i:22740507 original size:15 final size:15
Alignment explanation
Indices: 22740487--22740516 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22740477 TTTCGACAGC
22740487 TTCAATCACCATGTT
1 TTCAATCACCATGTT
22740502 TTCAATCACCATGTT
1 TTCAATCACCATGTT
22740517 ATCACTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
TTCAATCACCATGTT
Found at i:22742485 original size:11 final size:11
Alignment explanation
Indices: 22742469--22742494 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22742459 TTTTTTCTGA
22742469 AGAATTTAGAG
1 AGAATTTAGAG
22742480 AGAATTTAGAG
1 AGAATTTAGAG
22742491 AGAA
1 AGAA
22742495 CTAAAGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (11 bp):
AGAATTTAGAG
Found at i:22745280 original size:19 final size:19
Alignment explanation
Indices: 22745243--22745281 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
22745233 CTCACATGTC
*
22745243 AAAGTGAAAAATTATTTTT
1 AAAGTGAAAAATGATTTTT
22745262 AAAGTGAAAAAGTGATTTTT
1 AAAGTGAAAAA-TGATTTTT
22745282 GTGACCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (19 bp):
AAAGTGAAAAATGATTTTT
Found at i:22745394 original size:46 final size:44
Alignment explanation
Indices: 22745326--22745431 Score: 167
Period size: 46 Copynumber: 2.4 Consensus size: 44
22745316 AAAGGTGGAC
*
22745326 GATGTGATAGTTTATCTGCAAAAGTGGTGGCTTGTCCACAATATT
1 GATGTGATAGTTTATCTACAAAAGTGGTGGCTTGTCCACAAT-TT
* *
22745371 GAATGTGGTAGTATATCTACAAAAGTGGTGGCTTGTCCACAATTT
1 G-ATGTGATAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATTT
22745416 GATGTGATAGTTTATC
1 GATGTGATAGTTTATC
22745432 AGCATTACTG
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
44 13 0.24
45 4 0.07
46 38 0.69
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (44 bp):
GATGTGATAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATTT
Found at i:22745564 original size:19 final size:20
Alignment explanation
Indices: 22745523--22745565 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
22745513 GATGGGCAGG
*
22745523 ATTGTTTTAATAAAATTTAC
1 ATTGTTTTAATAAAATGTAC
* *
22745543 ATTGTTTT-ATGAAATGTGC
1 ATTGTTTTAATAAAATGTAC
22745562 ATTG
1 ATTG
22745566 ACTTGATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (20 bp):
ATTGTTTTAATAAAATGTAC
Found at i:22746728 original size:33 final size:32
Alignment explanation
Indices: 22746691--22746765 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 32
22746681 AAAATAAATG
*
22746691 AAATAAAAACAAGGAGAAAAGATTCGAAAATCA-
1 AAATAAAAACAA-G-GAAAAGATTCAAAAATCAC
*
22746724 AAATAATCTAACAAGGAAAAGATTCAAAAATCATC
1 AAATAA--AAACAAGGAAAAGATTCAAAAATCA-C
22746759 AAATAAA
1 AAATAAA
22746766 CAAACTTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
33 23 0.66
34 1 0.03
35 11 0.31
ACGTcount: A:0.63, C:0.11, G:0.11, T:0.16
Consensus pattern (32 bp):
AAATAAAAACAAGGAAAAGATTCAAAAATCAC
Found at i:22747375 original size:30 final size:30
Alignment explanation
Indices: 22747339--22747486 Score: 174
Period size: 30 Copynumber: 4.9 Consensus size: 30
22747329 GAGGTCCTTG
* *
22747339 AACTTTTCAAAAATCACATTTTGACCCTCA
1 AACTTTTCAAAAATTACATTTTAACCCTCA
* *
22747369 AACTTTTCCAAAATTATATTTTAACCCTCAA
1 AACTTTTCAAAAATTACATTTTAACCCTC-A
* * *
22747400 AATTTTTC-AAAATTACATTTTAGCCCTTA
1 AACTTTTCAAAAATTACATTTTAACCCTCA
22747429 AACTTTTCAAAAATTACATTTTAACCCTCA
1 AACTTTTCAAAAATTACATTTTAACCCTCA
** *
22747459 AGTTTTTTC-AAAATTATATTTTAACCCT
1 A-ACTTTTCAAAAATTACATTTTAACCCT
22747487 AAATGCTTCG
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
29 8 0.08
30 80 0.79
31 13 0.13
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.41
Consensus pattern (30 bp):
AACTTTTCAAAAATTACATTTTAACCCTCA
Found at i:22747436 original size:60 final size:60
Alignment explanation
Indices: 22747342--22747486 Score: 193
Period size: 60 Copynumber: 2.4 Consensus size: 60
22747332 GTCCTTGAAC
* * *
22747342 TTTTCAAAAATCACATTTT-GACCCTCAAACTTTTCCAAAATTATATTTTAACCCTCAAAAT
1 TTTTC-AAAATTACATTTTAG-CCCTCAAACTTTTCAAAAATTACATTTTAACCCTCAAAAT
* **
22747403 TTTTCAAAATTACATTTTAGCCCTTAAACTTTTCAAAAATTACATTTTAACCCTCAAGTT
1 TTTTCAAAATTACATTTTAGCCCTCAAACTTTTCAAAAATTACATTTTAACCCTCAAAAT
* *
22747463 TTTTCAAAATTATATTTTAACCCT
1 TTTTCAAAATTACATTTTAGCCCT
22747487 AAATGCTTCG
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
60 69 0.92
61 6 0.08
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.41
Consensus pattern (60 bp):
TTTTCAAAATTACATTTTAGCCCTCAAACTTTTCAAAAATTACATTTTAACCCTCAAAAT
Found at i:22747517 original size:90 final size:89
Alignment explanation
Indices: 22747334--22747495 Score: 218
Period size: 90 Copynumber: 1.8 Consensus size: 89
22747324 CCTAGGAGGT
* *
22747334 CCTTGAACTTTTCAAAAATCACATTTTGACCCTCAAACTTTTCCAAAATTATATTTTAACCCTCA
1 CCTTAAACTTTTCAAAAATCACATTTTAACCCTCAAACTTTTCCAAAATTATATTTTAACCCT-A
** * *
22747399 AAATTTTTCAAAATTACATTTTAGC
65 AAATGCTTCAAAACTACATTTTACC
* ** *
22747424 CCTTAAACTTTTCAAAAATTACATTTTAACCCTCAAGTTTTTTCAAAATTATATTTTAACCCT-A
1 CCTTAAACTTTTCAAAAATCACATTTTAACCCTCAAACTTTTCCAAAATTATATTTTAACCCTAA
22747488 AATGCTTC
66 AATGCTTC
22747496 GAGACTCCAT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
88 7 0.11
90 57 0.89
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (89 bp):
CCTTAAACTTTTCAAAAATCACATTTTAACCCTCAAACTTTTCCAAAATTATATTTTAACCCTAA
AATGCTTCAAAACTACATTTTACC
Found at i:22748905 original size:20 final size:21
Alignment explanation
Indices: 22748882--22748926 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
22748872 AAAAATAATG
* *
22748882 GTCAAAGTCAAC-GATCAATA
1 GTCAAAGTCAACAAATCAACA
22748902 GTC-AAGTCAACAAATCAACA
1 GTCAAAGTCAACAAATCAACA
22748922 GTCAA
1 GTCAA
22748927 TGGTTTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 8 0.38
20 12 0.57
21 1 0.05
ACGTcount: A:0.47, C:0.22, G:0.13, T:0.18
Consensus pattern (21 bp):
GTCAAAGTCAACAAATCAACA
Found at i:22756466 original size:93 final size:91
Alignment explanation
Indices: 22756334--22756508 Score: 210
Period size: 93 Copynumber: 1.9 Consensus size: 91
22756324 TAAGCCCCTG
* *
22756334 TTTTCTTTTTACATTCAATTGGGTACTTGAAATGCCAAAAT-ACATCAAAAAA-TCCCTCAAACA
1 TTTTCTTTTTACATTCAACTGGGTACTTGAAATGCCAAAATGA-AT-AAAAAAGACCCTCAAACA
22756397 TTGTCAAAAAACAAATTAAGCCCCTGCATT
64 TTGTC-AAAAA-AAATTAAGCCCCTGCATT
* * * * ** *
22756427 TTTTTTTTTTGCATTCAACTGGGTGCTTGAACTTTCAAAATGAATAAAAAAGACCCTCAAACTTT
1 TTTTCTTTTTACATTCAACTGGGTACTTGAAATGCCAAAATGAATAAAAAAGACCCTCAAACATT
*
22756492 TTCAAAAAAAATTAAGC
66 GTCAAAAAAAATTAAGC
22756509 ACTTGATATT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
91 9 0.13
92 11 0.16
93 49 0.70
94 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (91 bp):
TTTTCTTTTTACATTCAACTGGGTACTTGAAATGCCAAAATGAATAAAAAAGACCCTCAAACATT
GTCAAAAAAAATTAAGCCCCTGCATT
Found at i:22756726 original size:28 final size:29
Alignment explanation
Indices: 22756679--22756737 Score: 93
Period size: 28 Copynumber: 2.0 Consensus size: 29
22756669 AACTATAAAA
*
22756679 AATAAAAATGAATAAAATTTATTAAATATT
1 AATAAAAAT-AATAAAATTTATTAAAAATT
22756709 AATAAAAAT-ATAAAATTTATTAAAAATT
1 AATAAAAATAATAAAATTTATTAAAAATT
22756737 A
1 A
22756738 GATTTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 19 0.68
30 9 0.32
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AATAAAAATAATAAAATTTATTAAAAATT
Found at i:22756768 original size:10 final size:10
Alignment explanation
Indices: 22756746--22756810 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
22756736 TAGATTTTTA
*
22756746 ATAAAAAA-C
1 ATAAAAAATT
22756755 ATAAAAAATT
1 ATAAAAAATT
*
22756765 ATAAAAATTT
1 ATAAAAAATT
* ***
22756775 GTAAACTTTT
1 ATAAAAAATT
22756785 AT-AAAAATT
1 ATAAAAAATT
22756794 ATAAAAAAATT
1 AT-AAAAAATT
22756805 ATAAAA
1 ATAAAA
22756811 TGTATCAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
9 14 0.32
10 21 0.48
11 9 0.20
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (10 bp):
ATAAAAAATT
Done.