Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010424.1 Kokia drynarioides strain JFW-HI SEQ_125311, whole genome shotgun sequence
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: 88240
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.35
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:1455 original size:30 final size:30
Alignment explanation
Indices: 1419--1749 Score: 288
Period size: 30 Copynumber: 11.2 Consensus size: 30
1409 GGTCCCTAAA
1419 CTTCCAAAAATCCCATTTTTAACCCCGAAC
1 CTTCCAAAAATCCCATTTTTAACCCCGAAC
* *
1449 CTTCCAAAAATTACCA-TTTTACCCCCGAA-
1 CTTCCAAAAA-TCCCATTTTTAACCCCGAAC
*
1478 CTTCCAAAAATCCCATTTTTAACCTCGAAC
1 CTTCCAAAAATCCCATTTTTAACCCCGAAC
* * * *
1508 CTTCCAAAATTACCA-TTTT-ACCCCTAAA
1 CTTCCAAAAATCCCATTTTTAACCCCGAAC
* *
1536 CTTCCAAAAATCTCATTTTTAACCCCAAAC
1 CTTCCAAAAATCCCATTTTTAACCCCGAAC
* *
1566 CTTCCAAAAATTACCA-TTTT-ACCCTTGAA-
1 CTTCCAAAAA-TCCCATTTTTAACCC-CGAAC
* *
1595 CTTCCAAAAATCTCATTTTTAACCTCGAAC
1 CTTCCAAAAATCCCATTTTTAACCCCGAAC
* * * *
1625 CTTCTAAAAATTACCA-TTTT-ACCCCCAAA
1 CTTCCAAAAA-TCCCATTTTTAACCCCGAAC
* * *
1654 CTTCCAAAAAGTCTCATTTTTTTATCCCGAAC
1 CTTCCAAAAA-TCCCA-TTTTTAACCCCGAAC
* * *
1686 CTTCCAAAAATTACCA-TTTT-ACCCCCAAA
1 CTTCCAAAAA-TCCCATTTTTAACCCCGAAC
* * *
1715 CTTCCAAAATTCCCATTTTTGACTCCGAAC
1 CTTCCAAAAATCCCATTTTTAACCCCGAAC
1745 CTTCC
1 CTTCC
1750 CCAAAACTAC
Statistics
Matches: 238, Mismatches: 47, Indels: 32
0.75 0.15 0.10
Matches are distributed among these distances:
28 29 0.12
29 87 0.37
30 89 0.37
31 14 0.06
32 19 0.08
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.31
Consensus pattern (30 bp):
CTTCCAAAAATCCCATTTTTAACCCCGAAC
Found at i:1473 original size:29 final size:30
Alignment explanation
Indices: 1419--1765 Score: 294
Period size: 29 Copynumber: 11.7 Consensus size: 30
1409 GGTCCCTAAA
*
1419 CTTCCAAAAA-TCCCATTTTTAACCCCGAAC
1 CTTCCAAAAATTACCATTTTT-ACCCCGAAC
1449 CTTCCAAAAATTACCA-TTTTACCCCCGAA-
1 CTTCCAAAAATTACCATTTTTA-CCCCGAAC
* *
1478 CTTCCAAAAA-TCCCATTTTTAACCTCGAAC
1 CTTCCAAAAATTACCATTTTT-ACCCCGAAC
* *
1508 CTTCC-AAAATTACCA-TTTTACCCCTAAA
1 CTTCCAAAAATTACCATTTTTACCCCGAAC
*
1536 CTTCCAAAAA-T-CTCATTTTTAACCCCAAAC
1 CTTCCAAAAATTAC-CATTTTT-ACCCCGAAC
*
1566 CTTCCAAAAATTACCA-TTTTACCCTTGAA-
1 CTTCCAAAAATTACCATTTTTACCC-CGAAC
*
1595 CTTCCAAAAA-T-CTCATTTTTAACCTCGAAC
1 CTTCCAAAAATTAC-CATTTTT-ACCCCGAAC
* * *
1625 CTTCTAAAAATTACCA-TTTTACCCCCAAA
1 CTTCCAAAAATTACCATTTTTACCCCGAAC
* *
1654 CTTCCAAAAAGT-CTCATTTTTTTATCCCGAAC
1 CTTCCAAAAATTAC-CA--TTTTTACCCCGAAC
* *
1686 CTTCCAAAAATTACCA-TTTTACCCCCAAA
1 CTTCCAAAAATTACCATTTTTACCCCGAAC
* *
1715 CTTCC-AAAATTCCCATTTTTGACTCCGAAC
1 CTTCCAAAAATTACCATTTTT-ACCCCGAAC
* *
1745 CTTCCCCAAAACTACCATTTT
1 CTT-CCAAAAATTACCATTTT
1766 GCCCCCGTAC
Statistics
Matches: 257, Mismatches: 32, Indels: 54
0.75 0.09 0.16
Matches are distributed among these distances:
27 2 0.01
28 31 0.12
29 95 0.37
30 79 0.31
31 12 0.05
32 37 0.14
33 1 0.00
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.31
Consensus pattern (30 bp):
CTTCCAAAAATTACCATTTTTACCCCGAAC
Found at i:1491 original size:59 final size:59
Alignment explanation
Indices: 1416--1771 Score: 498
Period size: 59 Copynumber: 6.0 Consensus size: 59
1406 GAAGGTCCCT
1416 AAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCC
1 AAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCC
* * *
1475 GAACTTCCAAAAATCCCATTTTTAACCTCGAACCTTCC-AAAATTACCATTTTACCCCT
1 AAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCC
* * **
1533 AAACTTCCAAAAATCTCATTTTTAACCCCAAACCTTCCAAAAATTACCATTTTACCCTT
1 AAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCC
* * * *
1592 GAACTTCCAAAAATCTCATTTTTAACCTCGAACCTTCTAAAAATTACCATTTTACCCCC
1 AAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCC
* * *
1651 AAACTTCCAAAAAGTCTCATTTTTTTATCCCGAACCTTCCAAAAATTACCATTTTACCCCC
1 AAACTTCCAAAAA-TCCCA-TTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCC
* * * * * *
1712 AAACTTCCAAAATTCCCATTTTTGACTCCGAACCTTCCCCAAAACTACCATTTTGCCCCC
1 AAACTTCCAAAAATCCCATTTTTAACCCCGAACCTT-CCAAAAATTACCATTTTACCCCC
1772 GTACATCCGA
Statistics
Matches: 266, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
58 53 0.20
59 135 0.51
60 29 0.11
61 49 0.18
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.31
Consensus pattern (59 bp):
AAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCC
Found at i:2640 original size:39 final size:39
Alignment explanation
Indices: 2586--2663 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
2576 GGCGACTCCC
2586 ATTATTTATCAATTTTGAAAATGA-TTTTTTTCGAGACA
1 ATTATTTATCAATTTTGAAAATGATTTTTTTTCGAGACA
2624 NATTATTTATCAATTTTGAAAATGATTTTTTTTCGAGACA
1 -ATTATTTATCAATTTTGAAAATGATTTTTTTTCGAGACA
2664 CGTCGTTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
39 24 0.63
40 14 0.37
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.47
Consensus pattern (39 bp):
ATTATTTATCAATTTTGAAAATGATTTTTTTTCGAGACA
Found at i:3333 original size:138 final size:138
Alignment explanation
Indices: 3085--3361 Score: 527
Period size: 138 Copynumber: 2.0 Consensus size: 138
3075 TAGAAGACAT
**
3085 TCATCTTCCCTCAGTTGACCATTCAGCCCCAATCTAGTCATCTCCCTACCCTACTTATTCTACTC
1 TCATCTTCCCTCACCTGACCATTCAGCCCCAATCTAGTCATCTCCCTACCCTACTTATTCTACTC
*
3150 CTCTCAGGTTCCTCTTTTCTCCCTTTTTCTTCATTGTTTATGAACTTTAAAATGGCATGGAATCC
66 CGCTCAGGTTCCTCTTTTCTCCCTTTTTCTTCATTGTTTATGAACTTTAAAATGGCATGGAATCC
3215 ATTACTAG
131 ATTACTAG
3223 TCATCTTCCCTCACCTGACCATTCAGCCCCAATCTAGTCATCTCCCTACCCTACTTATTCTACTC
1 TCATCTTCCCTCACCTGACCATTCAGCCCCAATCTAGTCATCTCCCTACCCTACTTATTCTACTC
3288 CGCTCAGGTTCCTCTTTTCTCCCTTTTTCTTCATTGTTTATGAACTTTAAAATGGCATGGAATCC
66 CGCTCAGGTTCCTCTTTTCTCCCTTTTTCTTCATTGTTTATGAACTTTAAAATGGCATGGAATCC
3353 ATTACTAG
131 ATTACTAG
3361 T
1 T
3362 TGTAAACCTC
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 136 1.00
ACGTcount: A:0.20, C:0.32, G:0.09, T:0.39
Consensus pattern (138 bp):
TCATCTTCCCTCACCTGACCATTCAGCCCCAATCTAGTCATCTCCCTACCCTACTTATTCTACTC
CGCTCAGGTTCCTCTTTTCTCCCTTTTTCTTCATTGTTTATGAACTTTAAAATGGCATGGAATCC
ATTACTAG
Found at i:4807 original size:23 final size:23
Alignment explanation
Indices: 4774--4817 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4764 CAAGAATAGT
4774 TGTTTTCATGGCTTTCAACACGC
1 TGTTTTCATGGCTTTCAACACGC
* * *
4797 TGTTTTGATGGTTTTCGACAC
1 TGTTTTCATGGCTTTCAACAC
4818 CAAAGGCGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.43
Consensus pattern (23 bp):
TGTTTTCATGGCTTTCAACACGC
Found at i:13997 original size:57 final size:58
Alignment explanation
Indices: 13912--14045 Score: 162
Period size: 58 Copynumber: 2.3 Consensus size: 58
13902 ATCATTATTC
* ** *
13912 ACATTTTGACAACATAAATATGTGCATT-AAGAGACATTATAACAACAACTATAAATT
1 ACATTTAGACAACATAAATATGCACATTAAAGAAACATTATAACAACAACTATAAATT
* * * * * *
13969 ACATTTGGACAGCATAAATATGCACATTAAAGAAACATTTTGACAGCAGCTATAAATT
1 ACATTTAGACAACATAAATATGCACATTAAAGAAACATTATAACAACAACTATAAATT
*
14027 ACATTAAGACAACATAAAT
1 ACATTTAGACAACATAAAT
14046 GTAGAAATAA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
57 24 0.38
58 40 0.62
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (58 bp):
ACATTTAGACAACATAAATATGCACATTAAAGAAACATTATAACAACAACTATAAATT
Found at i:15407 original size:17 final size:18
Alignment explanation
Indices: 15369--15404 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
15359 AAATGTGTAA
15369 TTAATTTAAAATTTTCAT
1 TTAATTTAAAATTTTCAT
15387 TTAA-TTAAAATTTT-AT
1 TTAATTTAAAATTTTCAT
15403 TT
1 TT
15405 TAAACTCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 10 0.56
18 4 0.22
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAATTTAAAATTTTCAT
Found at i:20658 original size:28 final size:28
Alignment explanation
Indices: 20603--20780 Score: 198
Period size: 28 Copynumber: 6.4 Consensus size: 28
20593 AGGGGTTTTT
* *
20603 TAGAGACATTTAGTAACT-GTGGTCTTCG
1 TAGAGACATTCAGTAA-TAGTAGTCTTCG
* * *
20631 TAGAAACATTCATTAATAGT-GATTTTCG
1 TAGAGACATTCAGTAATAGTAG-TCTTCG
20659 TAGAGACATTCAGTAATAGTAGTCTTCG
1 TAGAGACATTCAGTAATAGTAGTCTTCG
20687 TAGAGACATTCAGTAATAGTAGTCTTCG
1 TAGAGACATTCAGTAATAGTAGTCTTCG
* * *
20715 TAGAGACATTTAATATTAGTAGTCTTCG
1 TAGAGACATTCAGTAATAGTAGTCTTCG
* * * * * *
20743 TAGAGACACTCAATAACAATGGTCTTTG
1 TAGAGACATTCAGTAATAGTAGTCTTCG
20771 TAGAGACATT
1 TAGAGACATT
20781 TTGCTTTGCC
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 2 0.02
28 126 0.98
29 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (28 bp):
TAGAGACATTCAGTAATAGTAGTCTTCG
Found at i:23258 original size:3 final size:3
Alignment explanation
Indices: 23217--23243 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
23207 TTTGATTATT
23217 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
23244 ACTCACCTAT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:28542 original size:26 final size:28
Alignment explanation
Indices: 28513--28572 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
28503 TAAAATGATT
28513 ATATAAAAAATT-TT-AATAAATAAAA-A
1 ATATAAAAAATTATTAAAT-AATAAAATA
* *
28539 ATATATAAAATTATTAAATATTAAAATA
1 ATATAAAAAATTATTAAATAATAAAATA
28567 ATATAA
1 ATATAA
28573 TATAAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 11 0.39
27 8 0.29
28 9 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
ATATAAAAAATTATTAAATAATAAAATA
Found at i:29819 original size:55 final size:52
Alignment explanation
Indices: 29719--29856 Score: 136
Period size: 55 Copynumber: 2.5 Consensus size: 52
29709 ATCCAAATTT
*
29719 TAAAAAATTCAAAGAAATATATAACAATACATAAATATTTTCAAAAAAAAAAGATA
1 TAAAAAATT-AAA-AAATATATAA-AATACAAAAATATTTTC-AAAAAAAAAGATA
* *
29775 -AAAAAATTAAAAAATATATAAAATA-AAAAATGATTTTTGGCAAAAAATAATATA
1 TAAAAAATTAAAAAATATATAAAATACAAAAAT-A-TTTT--CAAAAAAAAAGATA
**
29829 TAAAATTTTAAAAAATATATTAAAATAC
1 TAAAAAATTAAAAAATATA-TAAAATAC
29857 TTAATTTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
51 5 0.07
52 5 0.07
53 14 0.20
54 14 0.20
55 25 0.36
56 7 0.10
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (52 bp):
TAAAAAATTAAAAAATATATAAAATACAAAAATATTTTCAAAAAAAAAGATA
Found at i:29860 original size:21 final size:22
Alignment explanation
Indices: 29816--29860 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
29806 GATTTTTGGC
*
29816 AAAAAATAATATATAAAATTTT
1 AAAAAATAATATATAAAATCTT
29838 AAAAAAT-ATAT-TAAAATACTT
1 AAAAAATAATATATAAAAT-CTT
29859 AA
1 AA
29861 TTTTTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 7 0.33
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAAATAATATATAAAATCTT
Found at i:29867 original size:55 final size:57
Alignment explanation
Indices: 29772--29898 Score: 127
Period size: 55 Copynumber: 2.3 Consensus size: 57
29762 AAAAAAAAAG
* *
29772 ATAAAAAAATTAAAAAATATATAAAATAAAAAATGATTTTTGGCAAA-AA-ATAATA
1 ATAATAAATTTAAAAAATATATAAAATAAAAAATGATTTTTGGCAAATAATATAATA
* *** * **
29827 TATAA-AATTTTAAAAAATATATTAAAATACTTAAT-TTTTTTTTCAAATAATATAATA
1 -ATAATAAATTTAAAAAATATA-TAAAATAAAAAATGATTTTTGGCAAATAATATAATA
29884 ATAATAAATTTAAAA
1 ATAATAAATTTAAAA
29899 TTAATATTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
55 23 0.40
56 20 0.34
57 15 0.26
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (57 bp):
ATAATAAATTTAAAAAATATATAAAATAAAAAATGATTTTTGGCAAATAATATAATA
Found at i:30314 original size:25 final size:24
Alignment explanation
Indices: 30281--30329 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
30271 AGGGGAATTT
* *
30281 TTATTTTATTTAATATTAATATAA
1 TTATTTTATTTAAGATCAATATAA
30305 TTATATTTATTTAAGATCAATATAA
1 TTAT-TTTATTTAAGATCAATATAA
30330 AATTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTATTTTATTTAAGATCAATATAA
Found at i:30346 original size:18 final size:18
Alignment explanation
Indices: 30324--30366 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
30314 TTTAAGATCA
30324 ATATAAAATTTAAAATTATT
1 ATAT-AAATTTAAAATT-TT
**
30344 ATATATTTTTAAAATTTT
1 ATATAAATTTAAAATTTT
30362 ATATA
1 ATATA
30367 CTATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 10 0.48
20 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATAAATTTAAAATTTT
Found at i:38957 original size:29 final size:29
Alignment explanation
Indices: 38925--39135 Score: 103
Period size: 30 Copynumber: 7.2 Consensus size: 29
38915 ATAAGGAAAA
*
38925 AGGGGTTAAAATGAAATTTTAGAAAGTTT
1 AGGGGTTAAAATTAAATTTTAGAAAGTTT
* *
38954 AGGGGTTAAAA-T-AATTTTTGGAAG-TT
1 AGGGGTTAAAATTAAATTTTAGAAAGTTT
* * * *
38980 CGAGGGTTAAATTTGAATTTTTAGGAAGTTT
1 AG-GGGTTAAAATT-AAATTTTAGAAAGTTT
* * * * *
39011 AAGGG-TCAAATCCAAATTTTTGAGAAGTTC
1 AGGGGTTAAAAT-TAAATTTTAGA-AAGTTT
* * * *
39041 AAGGG-TCAAATCTAATTTTTTGGAAAG-TT
1 AGGGGTTAAAAT-TAA-ATTTTAGAAAGTTT
* * *
39070 CGAGGG-TCAAATCTAAATTTTTGGAAAGTTT
1 AG-GGGTTAAAAT-TAAA-TTTTAGAAAGTTT
* *
39101 AGGGGTTAAACTTAATTTTTAGAAAGTTT
1 AGGGGTTAAAATTAAATTTTAGAAAGTTT
39130 AGGGGT
1 AGGGGT
39136 CAAATCCAAA
Statistics
Matches: 142, Mismatches: 28, Indels: 24
0.73 0.14 0.12
Matches are distributed among these distances:
26 3 0.02
27 18 0.13
28 1 0.01
29 41 0.29
30 64 0.45
31 15 0.11
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (29 bp):
AGGGGTTAAAATTAAATTTTAGAAAGTTT
Found at i:39009 original size:30 final size:28
Alignment explanation
Indices: 38965--39184 Score: 156
Period size: 30 Copynumber: 7.4 Consensus size: 28
38955 GGGGTTAAAA
* * *
38965 TAATTTTTGGAAGTTCGAGGGTTAAATT
1 TAATTTTTGGAAGTTCAAGGGTCAAATC
*
38993 TGAATTTTTAGGAAGTTTAAGGGTCAAATCC
1 T-AATTTTT-GGAAGTTCAAGGGTCAAAT-C
*
39024 AAATTTTTGAGAAGTTCAAGGGTCAAATC
1 TAATTTTTG-GAAGTTCAAGGGTCAAATC
*
39053 TAATTTTTTGGAAAGTTCGAGGGTCAAATC
1 TAA-TTTTTGG-AAGTTCAAGGGTCAAATC
* * *
39083 TAAATTTTTGGAAAGTTTAGGGGTTAAA-C
1 T-AATTTTTGG-AAGTTCAAGGGTCAAATC
* * *
39112 TTAATTTTTAGAAAGTTTAGGGGTCAAATCC
1 -TAATTTTT-GGAAGTTCAAGGGTCAAAT-C
* * *
39143 AAATTTTTAGGAAGTTTGAA-GATCAAATTC
1 TAATTTTT-GGAAG-TTCAAGGGTCAAA-TC
*
39173 AAATTTTTGGAA
1 TAATTTTTGGAA
39185 AATTTGAGAG
Statistics
Matches: 160, Mismatches: 19, Indels: 25
0.78 0.09 0.12
Matches are distributed among these distances:
28 1 0.01
29 39 0.24
30 113 0.71
31 7 0.04
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.37
Consensus pattern (28 bp):
TAATTTTTGGAAGTTCAAGGGTCAAATC
Found at i:39061 original size:60 final size:58
Alignment explanation
Indices: 38966--39158 Score: 226
Period size: 60 Copynumber: 3.2 Consensus size: 58
38956 GGGTTAAAAT
* *
38966 AATTTTTGGAAGTTCGAGGGTTAAATTTGAATTTTTAGGAAGTTTAAGGGTCAAATCCA
1 AATTTTTGGAAGTTCAAGGGTTAAATCT-AATTTTTAGGAAGTTTAAGGGTCAAATCCA
* * ** *
39025 AATTTTTGAGAAGTTCAAGGGTCAAATCTAATTTTTTGGAAAGTTCGAGGGTCAAATCTA
1 AATTTTTG-GAAGTTCAAGGGTTAAATCTAATTTTTAGG-AAGTTTAAGGGTCAAATCCA
* * * *
39085 AATTTTTGGAAAGTTTAGGGGTTAAA-CTTAATTTTTAGAAAGTTTAGGGGTCAAATCCA
1 AATTTTTGG-AAGTTCAAGGGTTAAATC-TAATTTTTAGGAAGTTTAAGGGTCAAATCCA
39144 AATTTTTAGGAAGTT
1 AATTTTT-GGAAGTT
39159 TGAAGATCAA
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
59 47 0.42
60 66 0.58
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (58 bp):
AATTTTTGGAAGTTCAAGGGTTAAATCTAATTTTTAGGAAGTTTAAGGGTCAAATCCA
Found at i:39180 original size:119 final size:119
Alignment explanation
Indices: 38966--39199 Score: 298
Period size: 119 Copynumber: 2.0 Consensus size: 119
38956 GGGTTAAAAT
* * *
38966 AATTTTTGGAAGTTCGAGGGTTAAATTTGAATTTTTAGGAAGTTTAAGGGTCAAATCCAAATTTT
1 AATTTTTGGAAGTTAGAGGGTTAAACTTGAATTTTTAGAAAGTTTAAGGGTCAAATCCAAATTTT
* * * *
39031 TGAGAAGTTCAAGGGTCAAATCTAATTTTTTGGAAAGTTCGAGGGTCAAATCTA
66 TGAGAAGTTCAAGGATCAAATCTAAATTTTTGGAAAATTCGAGAGTCAAATCTA
*
39085 AATTTTTGGAAAGTTTAG-GGGTTAAACTT-AATTTTTAGAAAGTTTAGGGGTCAAATCCAAATT
1 AATTTTTGG-AAG-TTAGAGGGTTAAACTTGAATTTTTAGAAAGTTTAAGGGTCAAATCCAAATT
* *
39148 TTT-AGGAAGTTTGAA-GATCAAAT-TCAAATTTTTGGAAAATTTGAGAGTCAAA
64 TTTGA-GAAG-TTCAAGGATCAAATCT-AAATTTTTGGAAAATTCGAGAGTCAAA
39200 ACTTAAGTTT
Statistics
Matches: 100, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
118 2 0.02
119 78 0.78
120 17 0.17
121 3 0.03
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.36
Consensus pattern (119 bp):
AATTTTTGGAAGTTAGAGGGTTAAACTTGAATTTTTAGAAAGTTTAAGGGTCAAATCCAAATTTT
TGAGAAGTTCAAGGATCAAATCTAAATTTTTGGAAAATTCGAGAGTCAAATCTA
Found at i:39225 original size:119 final size:119
Alignment explanation
Indices: 38983--39241 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
38973 GGAAGTTCGA
* * *
38983 GGGTTAAATTTGAATTTTTAGGAAGTTTAAGGGTCAAATCCAAATTTTTGAGAAGTTCAAGGGTC
1 GGGTTAAAATT-AATTTTTAGAAAGTTTAAGGGTCAAATCCAAATTTTTGAGAAGTTCAAGGATC
* * * * * *
39048 AAATCTAATTTTTTGGAAAGTTCGAGGGTCAAATCTAAATTTTTGGAAAGTTTAG
65 AAATCTAAATTTTTGGAAAATTCGAGAGTCAAAACTAAAGTTTTAGAAAGTTTAG
* * *
39103 GGGTTAAACTTAATTTTTAGAAAGTTTAGGGGTCAAATCCAAATTTTT-AGGAAGTTTGAA-GAT
1 GGGTTAAAATTAATTTTTAGAAAGTTTAAGGGTCAAATCCAAATTTTTGA-GAAG-TTCAAGGAT
* * *
39166 CAAAT-TCAAATTTTTGGAAAATTTGAGAGTCAAAACTTAAGTTTTAGATAA-TTTGG
64 CAAATCT-AAATTTTTGGAAAATTCGAGAGTCAAAACTAAAGTTTTAGA-AAGTTTAG
*
39222 GGGTCAAAATATAATTTTTA
1 GGGTTAAAAT-TAATTTTTA
39242 AATAAAACAG
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 2 0.02
119 91 0.77
120 25 0.21
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (119 bp):
GGGTTAAAATTAATTTTTAGAAAGTTTAAGGGTCAAATCCAAATTTTTGAGAAGTTCAAGGATCA
AATCTAAATTTTTGGAAAATTCGAGAGTCAAAACTAAAGTTTTAGAAAGTTTAG
Found at i:39238 original size:90 final size:89
Alignment explanation
Indices: 38941--39241 Score: 219
Period size: 90 Copynumber: 3.4 Consensus size: 89
38931 TAAAATGAAA
* * * * * *
38941 TTTTAGAAAGTTTAGGGGTTAAA-ATAATTTTT-GG-AAGTTCGAGGGTTAAATTTGAATTTTTA
1 TTTTAGAAAGTTTAGGGGTCAAATATAATTTTTAGGAAAGTTCGAAGATCAAATCTAAATTTTT-
* * * *
39003 GG-AAGTTTAAGG-GTCAAA-TCCAAA
65 GGAAAATTT-AGGAGTAAAACT-TAAG
* * * * * * *
39027 TTTTTGAGAAGTTCAAGGGTCAAATCTAATTTTTTGGAAAGTTCGAGGGTCAAATCTAAATTTTT
1 TTTTAGA-AAGTTTAGGGGTCAAATATAATTTTTAGGAAAGTTCGAAGATCAAATCTAAATTTTT
* * * *
39092 GGAAAGTTTAGGGGTTAAACTTAAT
65 GGAAAATTTAGGAGTAAAACTTAAG
*
39117 TTTTAGAAAGTTTAGGGGTCAAATCCA-AATTTTTAGG-AAGTTTGAAGATCAAAT-TCAAATTT
1 TTTTAGAAAGTTTAGGGGTCAAAT--ATAATTTTTAGGAAAGTTCGAAGATCAAATCT-AAATTT
39179 TTGGAAAATTT-GAGAGTCAAAACTTAAG
63 TTGGAAAATTTAG-GAGT-AAAACTTAAG
*
39207 TTTTAGATAA-TTTGGGGGTCAAAATATAATTTTTA
1 TTTTAGA-AAGTTTAGGGGTC-AAATATAATTTTTA
39242 AATAAAACAG
Statistics
Matches: 176, Mismatches: 24, Indels: 26
0.78 0.11 0.12
Matches are distributed among these distances:
86 6 0.03
87 13 0.07
88 10 0.06
89 56 0.32
90 84 0.48
91 7 0.04
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (89 bp):
TTTTAGAAAGTTTAGGGGTCAAATATAATTTTTAGGAAAGTTCGAAGATCAAATCTAAATTTTTG
GAAAATTTAGGAGTAAAACTTAAG
Found at i:39241 original size:30 final size:30
Alignment explanation
Indices: 39174--39246 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
39164 ATCAAATTCA
* *
39174 AATTTTTGGAAAATTTGAGAGTCAAAACTT
1 AATTTTTAGATAATTTGAGAGTCAAAACTT
* * *
39204 AAGTTTTAGATAATTTGGGGGTCAAAA-TAT
1 AATTTTTAGATAATTTGAGAGTCAAAACT-T
*
39234 AATTTTTAAATAA
1 AATTTTTAGATAA
39247 AACAGGGGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
29 1 0.03
30 34 0.97
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.38
Consensus pattern (30 bp):
AATTTTTAGATAATTTGAGAGTCAAAACTT
Found at i:42602 original size:21 final size:21
Alignment explanation
Indices: 42576--42629 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
42566 GGAGTTTTTA
*
42576 GTATCGGTAGAGGTAAG-ACTT
1 GTATCGGTAGAAG-AAGCACTT
*
42597 GTATCGGTAGAAGAGGCACTT
1 GTATCGGTAGAAGAAGCACTT
42618 GTATCGGTAGAA
1 GTATCGGTAGAA
42630 CTGTCACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.30, C:0.11, G:0.33, T:0.26
Consensus pattern (21 bp):
GTATCGGTAGAAGAAGCACTT
Found at i:42637 original size:21 final size:21
Alignment explanation
Indices: 42593--42647 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
42583 TAGAGGTAAG
*
42593 ACTTGTATCGGTAGAAGAGGC
1 ACTTGTATCGGTAGAACAGGC
* *
42614 ACTTGTATCGGTAGAACTGTC
1 ACTTGTATCGGTAGAACAGGC
*
42635 ACTTGTATTGGTA
1 ACTTGTATCGGTA
42648 AAAATCTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (21 bp):
ACTTGTATCGGTAGAACAGGC
Found at i:46881 original size:18 final size:18
Alignment explanation
Indices: 46830--46881 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
46820 AAGAGTACGA
* *
46830 GAGAAAGAAAAAGAAATT
1 GAGAATGAAAAAGAAGTT
46848 GAGAATGAAAAAGAAGTT
1 GAGAATGAAAAAGAAGTT
*
46866 GAGATTGAAAAAGAAG
1 GAGAATGAAAAAGAAG
46882 ACGTTCAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (18 bp):
GAGAATGAAAAAGAAGTT
Found at i:59188 original size:22 final size:23
Alignment explanation
Indices: 59138--59190 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
59128 CATGTTTCAC
59138 ATATTTTAATTTATAAATCTACTT
1 ATATTTTAATTTATAAA-CTACTT
59162 -T-TTTTAATTTATTAAA-TA-TT
1 ATATTTTAATTTA-TAAACTACTT
59182 ATATTTTAA
1 ATATTTTAA
59191 ATTTTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 2 0.08
21 3 0.12
22 16 0.62
23 5 0.19
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
ATATTTTAATTTATAAACTACTT
Found at i:61730 original size:47 final size:47
Alignment explanation
Indices: 61653--61751 Score: 141
Period size: 47 Copynumber: 2.1 Consensus size: 47
61643 TTATTTGTAA
61653 TATTGTTCTTGTTGTTTAAATGAAAGACCAACTTATGTGA-TACCTGG
1 TATTGTTCTTGTTGTTTAAATGAAAGACCAACTTATGTGACTA-CTGG
*
61700 TATTGTTGTTGTT-TTTGAAATGGAAA-ACCAACTTATGTGACTACTGG
1 TATTGTTCTTGTTGTTT-AAAT-GAAAGACCAACTTATGTGACTACTGG
61747 TATTG
1 TATTG
61752 AGGTTATTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
46 3 0.06
47 39 0.81
48 6 0.12
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.41
Consensus pattern (47 bp):
TATTGTTCTTGTTGTTTAAATGAAAGACCAACTTATGTGACTACTGG
Found at i:61952 original size:20 final size:21
Alignment explanation
Indices: 61905--61958 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
61895 GAAGTTTTTT
*
61905 TTGTTTGATGTTTTAAATCGA
1 TTGTTTGATGTTTTAAATCAA
* * *
61926 TTCTTTGCT-TTTTGAATCAA
1 TTGTTTGATGTTTTAAATCAA
*
61946 TTGTTTGTTGTTT
1 TTGTTTGATGTTT
61959 AACTAAAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.17, C:0.07, G:0.17, T:0.59
Consensus pattern (21 bp):
TTGTTTGATGTTTTAAATCAA
Found at i:62182 original size:42 final size:42
Alignment explanation
Indices: 62123--62287 Score: 190
Period size: 42 Copynumber: 4.0 Consensus size: 42
62113 TGAGCTAGGT
* * * *
62123 TTGTTTGTTGTTTTAAATTTATTCTTTGCTTCTTTGAATTGA
1 TTGTTTGTTATTTTAAATTGAATCTTTGCTTCTTTGAATCGA
62165 TTGTTTGTTATTTTAAATTGAATCTTTGCTTCTTTGAATCGA
1 TTGTTTGTTATTTTAAATTGAATCTTTGCTTCTTTGAATCGA
* * * * ** *
62207 TTCTTTGTTATTTTAAATCGAATATTCGCTAATTTTAATCGA
1 TTGTTTGTTATTTTAAATTGAATCTTTGCTTCTTTGAATCGA
* *
62249 TT-TCTTGTTGTTTTAAATTGATTCTTTGCTTCTTT-AATC
1 TTGT-TTGTTATTTTAAATTGAATCTTTGCTTCTTTGAATC
62288 TATTCATTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
41 5 0.05
42 99 0.95
ACGTcount: A:0.21, C:0.10, G:0.12, T:0.57
Consensus pattern (42 bp):
TTGTTTGTTATTTTAAATTGAATCTTTGCTTCTTTGAATCGA
Found at i:62225 original size:21 final size:21
Alignment explanation
Indices: 62126--62276 Score: 94
Period size: 21 Copynumber: 7.2 Consensus size: 21
62116 GCTAGGTTTG
* *
62126 TTTGTTGTTTTAAATTTATTC
1 TTTGTTATTTTAAATTGATTC
* * *
62147 TTTGCTT-CTTTGAATTGATTG
1 TTTG-TTATTTTAAATTGATTC
*
62168 TTTGTTATTTTAAATTGAATC
1 TTTGTTATTTTAAATTGATTC
* * *
62189 TTTGCTT-CTTTGAATCGATTC
1 TTTG-TTATTTTAAATTGATTC
* * *
62210 TTTGTTATTTTAAATCGAATA
1 TTTGTTATTTTAAATTGATTC
* * *
62231 TTCGCTAATTTT-AATCGATT-
1 TTTG-TTATTTTAAATTGATTC
*
62251 TCTTGTTGTTTTAAATTGATTC
1 T-TTGTTATTTTAAATTGATTC
62273 TTTG
1 TTTG
62277 CTTCTTTAAT
Statistics
Matches: 99, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
20 10 0.10
21 78 0.79
22 11 0.11
ACGTcount: A:0.21, C:0.09, G:0.13, T:0.57
Consensus pattern (21 bp):
TTTGTTATTTTAAATTGATTC
Found at i:62332 original size:20 final size:19
Alignment explanation
Indices: 62269--62332 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
62259 TTTTAAATTG
*
62269 ATTCTTTGCTTCTTTAATCT
1 ATTCTTTG-TTGTTTAATCT
* *
62289 ATTCATTATTGTTTGAAT-T
1 ATTCTTTGTTGTTT-AATCT
62308 GATTCTTTGTTGTTTAACTCT
1 -ATTCTTTGTTGTTTAA-TCT
62329 ATTC
1 ATTC
62333 AAACTCCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
19 8 0.23
20 26 0.74
21 1 0.03
ACGTcount: A:0.19, C:0.14, G:0.09, T:0.58
Consensus pattern (19 bp):
ATTCTTTGTTGTTTAATCT
Found at i:62550 original size:21 final size:21
Alignment explanation
Indices: 62488--62599 Score: 82
Period size: 21 Copynumber: 5.3 Consensus size: 21
62478 TAAGTTAGGT
*
62488 TTGTTTGTTGTTTTAAATCGA
1 TTGTTTGTTGTTTTAAATCAA
* * * *
62509 TTATGTGCTT-CTTTGAATCAA
1 TTGTTTG-TTGTTTTAAATCAA
62530 TTGTTTGTTGTTTTAAATCAA
1 TTGTTTGTTGTTTTAAATCAA
* * ** * *
62551 TTCTTTGCTAATTTCAATCGA
1 TTGTTTGTTGTTTTAAATCAA
* *
62572 TTGCTTGTTGTTTTAAATAAA
1 TTGTTTGTTGTTTTAAATCAA
*
62593 TTCTTTG
1 TTGTTTG
62600 CTTCTTTAAT
Statistics
Matches: 64, Mismatches: 25, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
20 2 0.03
21 60 0.94
22 2 0.03
ACGTcount: A:0.22, C:0.10, G:0.14, T:0.54
Consensus pattern (21 bp):
TTGTTTGTTGTTTTAAATCAA
Found at i:62595 original size:42 final size:42
Alignment explanation
Indices: 62492--62601 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
62482 TTAGGTTTGT
* * * ** * *
62492 TTGTTGTTTTAAATCGATTATGTGCTTCTTTGAATCAATTGT
1 TTGTTGTTTTAAATCAATTCTTTGCTAATTTCAATCAATTGC
*
62534 TTGTTGTTTTAAATCAATTCTTTGCTAATTTCAATCGATTGC
1 TTGTTGTTTTAAATCAATTCTTTGCTAATTTCAATCAATTGC
*
62576 TTGTTGTTTTAAATAAATTCTTTGCT
1 TTGTTGTTTTAAATCAATTCTTTGCT
62602 TCTTTAATCT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.23, C:0.11, G:0.14, T:0.53
Consensus pattern (42 bp):
TTGTTGTTTTAAATCAATTCTTTGCTAATTTCAATCAATTGC
Found at i:62630 original size:20 final size:20
Alignment explanation
Indices: 62607--62656 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
62597 TTGCTTCTTT
*
62607 AATCTATTCATTATTGTTTG
1 AATCGATTCATTATTGTTTG
* *
62627 AATCGATTCTTTGTTGTTT-
1 AATCGATTCATTATTGTTTG
62646 AACTCGATTCA
1 AA-TCGATTCA
62657 GATTCCAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.50
Consensus pattern (20 bp):
AATCGATTCATTATTGTTTG
Found at i:62753 original size:323 final size:320
Alignment explanation
Indices: 62165--62871 Score: 988
Period size: 323 Copynumber: 2.2 Consensus size: 320
62155 TTTGAATTGA
* * * * *
62165 TTGTTTGTTATTTTAAATTGAATCTTTGCTTCTTTGAATCGATTCTTTGTTATTTTAAATCGAAT
1 TTGTTTGTTGTTTTAAATCGATTC-TTGCTTCTTTGAATCGATTGTTTGTTGTTTTAAATCGAAT
* * **
62230 ATTCGCTAATTTTAATCGATTTCTTGTTGTTTTAAATTGATTCTTTGCTTCTTTAATCTATTCAT
65 ATTCGCTAATTTCAATCGATTGCTTGTTGTTTTAAATAAATTCTTTGCTTCTTTAATCTATTCAT
* *
62295 TATTGTTTGAATTGATTCTTTGTTGTTTAACTCTATTCAAACTCCAACATAAATTCACTACTGAT
130 TATTGTTTGAATCGATTCTTTGTTGTTTAACTCGATTCAAACTCCAACATAAATTCACTACTGAT
* * ** *
62360 ATCCATTTGGTCCCTTATCAATACTTGCACAACATTTGTCCCTGGTCAATACTAACTTAAACTAT
195 ATCCATTTGATCACTTATCAATACTTGCACAACATTTGTCCCTCATCAACACTAACTTAAACTAT
* *
62425 TAGCTACTGCCTAAAAATATCAGCTCCAATAGACGA-CAAATGGGCCTCCACTATAAGTTAGGT
260 TAGCTACTGCCCAAAAA-ATCAGCTCCAATAGAC-ATCAAATGGACCTCCACTATAAGTT-GGT
* *
62488 TTGTTTGTTGTTTTAAATCGATTATGTGCTTCTTTGAATCAATTGTTTGTTGTTTTAAATC-AAT
1 TTGTTTGTTGTTTTAAATCGATTCT-TGCTTCTTTGAATCGATTGTTTGTTGTTTTAAATCGAA-
* *
62552 TCTTTGCTAATTTCAATCGATTGCTTGTTGTTTTAAATAAATTCTTTGCTTCTTTAATCTATTCA
64 TATTCGCTAATTTCAATCGATTGCTTGTTGTTTTAAATAAATTCTTTGCTTCTTTAATCTATTCA
* * * **
62617 TTATTGTTTGAATCGATTCTTTGTTGTTTAACTCGATTCAGATTCCAACATAAATTTACTGTTGA
129 TTATTGTTTGAATCGATTCTTTGTTGTTTAACTCGATTCAAACTCCAACATAAATTCACTACTGA
* *
62682 TATTCATTTGATCACTTATCAATACTTGCACAGA-ATTTGTCCCTCATCAACACTAACTTACACT
194 TATCCATTTGATCACTTATCAATACTTGCACA-ACATTTGTCCCTCATCAACACTAACTTAAACT
* * *
62746 ATTAGCTATTGCCCAAAAAATCAGCTCCAATAGACATCAGATGGACCTCCACTATAAGTTGTT
258 ATTAGCTACTGCCCAAAAAATCAGCTCCAATAGACATCAAATGGACCTCCACTATAAGTTGGT
* * * * *
62809 TTGTTTGTTGTTTTAAATGGATTCCTTGCTTATTTAAATCGTTTGTTTGCTGTTTTAAATCGA
1 TTGTTTGTTGTTTTAAATCGATT-CTTGCTTCTTTGAATCGATTGTTTGTTGTTTTAAATCGA
62872 TTTTTTTTCT
Statistics
Matches: 339, Mismatches: 39, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
321 55 0.16
322 42 0.12
323 241 0.71
324 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (320 bp):
TTGTTTGTTGTTTTAAATCGATTCTTGCTTCTTTGAATCGATTGTTTGTTGTTTTAAATCGAATA
TTCGCTAATTTCAATCGATTGCTTGTTGTTTTAAATAAATTCTTTGCTTCTTTAATCTATTCATT
ATTGTTTGAATCGATTCTTTGTTGTTTAACTCGATTCAAACTCCAACATAAATTCACTACTGATA
TCCATTTGATCACTTATCAATACTTGCACAACATTTGTCCCTCATCAACACTAACTTAAACTATT
AGCTACTGCCCAAAAAATCAGCTCCAATAGACATCAAATGGACCTCCACTATAAGTTGGT
Found at i:62858 original size:21 final size:21
Alignment explanation
Indices: 62808--62894 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 21
62798 TATAAGTTGT
* *
62808 TTTGTTTGTTGTTTTAAATGGA
1 TTTGTTTGCT-TTTTAAATCGA
**
62830 -TTCCTTGCTTATTTAAATCG-
1 TTTGTTTGCTT-TTTAAATCGA
62850 TTTGTTTGCTGTTTTAAATCGA
1 TTTGTTTGCT-TTTTAAATCGA
* *
62872 TTTTTTTTCTTCTTT-AATCGA
1 TTTGTTTGCTT-TTTAAATCGA
62893 TT
1 TT
62895 CATTATTGTT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
20 1 0.02
21 39 0.75
22 12 0.23
ACGTcount: A:0.17, C:0.10, G:0.14, T:0.59
Consensus pattern (21 bp):
TTTGTTTGCTTTTTAAATCGA
Found at i:63094 original size:280 final size:280
Alignment explanation
Indices: 62530--63218 Score: 775
Period size: 280 Copynumber: 2.5 Consensus size: 280
62520 TTTGAATCAA
* * * * * *
62530 TTGTTTGTTGTTTTAAATCAATTCTTTGCTAATTTCAATCGATTGCTTGTTGTTTTAAAT-AAAT
1 TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTAAATCGATTGTTTGTTGTTTTAAATCGATT
* * *
62594 TCTTTGCTTCTTTAATCTATTCATTATTGTTTGAATCGATTCTTTGTTGTTTAACTCGATTCAGA
66 TCTTTGCTTCTTTAATCGATTCATTATTGTTTGAATCGATTCTTTGTTCTTTAACTCGATTCAAA
* * * *
62659 TTCCAACATAAATTTACTGTTGATATTCATTTGATCACTTATCAATACTTGCACAGAATTTGTCC
131 CTCCAACATAAAATCACAGTTGATATTCATTTGATCACTTATCAATACTTGCACAGAATTTGTCC
* *
62724 CTCATCAACACTAACTTACACTATTAGCTATTGCCCAAAAAATCAGCTCCAATAGACATCAGATG
196 CTCATCAACACTAACTTACACTATTAGCTATTGCCCAAAAAATCAACTCCAATAGACATCAAATG
*
62789 GACCTCCACTATAAGTTGTT
261 GACCTCCACTATAAGTTGAT
* * * *
62809 TTGTTTGTTGTTTTAAATGGATTCCTTGCTTATTTAAATCGTTTGTTTGCTGTTTTAAATCGATT
1 TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTAAATCGATTGTTTGTTGTTTTAAATCGATT
* * *
62874 TTTTTTCTTCTTTAATCGATTCATTATTGTTTGAATCGTTTCTTTGTTCTTTAACTCGATTCAAA
66 TCTTTGCTTCTTTAATCGATTCATTATTGTTTGAATCGATTCTTTGTTCTTTAACTCGATTCAAA
* * * * *
62939 CTCTAACATAAAATCCCAGTTGATATTTATTTGGGTC-CTTATCAATACTTTCACA-ACATTTTT
131 CTCCAACATAAAATCACAGTTGATATTCATTT-GATCACTTATCAATACTTGCACAGA-A--TTT
* ** * * * * * *
63002 GT-CCT-ATCAATACTGGCTTACACTATTCGCTGTTGCCTATAAAGTCAACTCCAGTA-ACATCA
192 GTCCCTCATCAACACTAACTTACACTATTAGCTATTGCCCAAAAAATCAACTCCAATAGACATCA
63064 AATGCG-CCTCCACTATAAGTTAGAT
257 AATG-GACCTCCACTATAAGTT-GAT
* * * * * *
63089 TTGTTTTTTTGTTTTAAGTTGATTCTTTGCTTTTTTGAATAGATTGTTTGTTGTTTTAAATCGA-
1 TTG-TTTGTTGTTTTAAATCGATTCTTTGCTTATTTAAATCGATTGTTTGTTGTTTTAAATCGAT
* * * * * * *
63153 TTCTTTGCTTATTTCAACCGATACCTTATTGTTTTAAATTGATTCTTTGCTTCTTTAA-TCTATT
65 TTCTTTGCTTCTTT-AATCGATTCATTATTG-TTTGAATCGATTCTTTG-TTCTTTAACTCGATT
63217 CA
127 CA
63219 TTATTGTTTG
Statistics
Matches: 343, Mismatches: 56, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
279 77 0.22
280 162 0.47
281 70 0.20
282 26 0.08
283 8 0.02
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (280 bp):
TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTAAATCGATTGTTTGTTGTTTTAAATCGATT
TCTTTGCTTCTTTAATCGATTCATTATTGTTTGAATCGATTCTTTGTTCTTTAACTCGATTCAAA
CTCCAACATAAAATCACAGTTGATATTCATTTGATCACTTATCAATACTTGCACAGAATTTGTCC
CTCATCAACACTAACTTACACTATTAGCTATTGCCCAAAAAATCAACTCCAATAGACATCAAATG
GACCTCCACTATAAGTTGAT
Found at i:63133 original size:21 final size:22
Alignment explanation
Indices: 63097--63162 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 22
63087 ATTTGTTTTT
* *
63097 TTGTTTTAAGTTGATTCTTTGC
1 TTGTTTTAAATAGATTCTTTGC
* *
63119 TT-TTTTGAATAGATTGTTTG-
1 TTGTTTTAAATAGATTCTTTGC
*
63139 TTGTTTTAAATCGATTCTTTGC
1 TTGTTTTAAATAGATTCTTTGC
63161 TT
1 TT
63163 ATTTCAACCG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.83
22 4 0.11
ACGTcount: A:0.17, C:0.08, G:0.17, T:0.59
Consensus pattern (22 bp):
TTGTTTTAAATAGATTCTTTGC
Found at i:63145 original size:42 final size:42
Alignment explanation
Indices: 63097--63204 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 42
63087 ATTTGTTTTT
* * * * *** *
63097 TTGTTTTAAGTTGATTCTTTGCTTTTTTGAATAGATTGTTTG
1 TTGTTTTAAATTGATTCTTTGCTTATTTCAACAGATACCTTA
* *
63139 TTGTTTTAAATCGATTCTTTGCTTATTTCAACCGATACCTTA
1 TTGTTTTAAATTGATTCTTTGCTTATTTCAACAGATACCTTA
63181 TTGTTTTAAATTGATTCTTTGCTT
1 TTGTTTTAAATTGATTCTTTGCTT
63205 CTTTAATCTA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.19, C:0.11, G:0.14, T:0.56
Consensus pattern (42 bp):
TTGTTTTAAATTGATTCTTTGCTTATTTCAACAGATACCTTA
Found at i:63484 original size:20 final size:20
Alignment explanation
Indices: 63461--63499 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
63451 TTACTTCTTT
63461 AATCAATTCATTATTGTTTG
1 AATCAATTCATTATTGTTTG
* * *
63481 AATCGATTCTTTGTTGTTT
1 AATCAATTCATTATTGTTT
63500 ATTTTACTGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.54
Consensus pattern (20 bp):
AATCAATTCATTATTGTTTG
Found at i:63969 original size:44 final size:44
Alignment explanation
Indices: 63919--64110 Score: 138
Period size: 44 Copynumber: 4.3 Consensus size: 44
63909 AAAAAAAAAA
* ** *
63919 AATACAAACAAATCCATTTCTTTCATGCACATGCCATGCACTTT
1 AATACAAACAAATCCATTTCTGTCATGCACATGCCAAACAATTT
* * * ** *
63963 AATACAAATAAATACATTTCTGTCATGTACAAAAACCAAATAATTT
1 AATACAAACAAATCCATTTCTGTCATG--CACATGCCAAACAATTT
* * * **
64009 AATACAAACAAATCCATTTCTGTCATACACATG-AAAGATAATAA
1 AATACAAACAAATCCATTTCTGTCATGCACATGCCAA-ACAATTT
* * * *
64053 AATACAAAGAAAT-CAATT-TGTCATGTACAATAACCAAACAATTT
1 AATACAAACAAATCCATTTCTGTCATGCAC-AT-GCCAAACAATTT
*
64097 AATACAAATAAATC
1 AATACAAACAAATC
64111 TAAAACAATA
Statistics
Matches: 112, Mismatches: 29, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
42 8 0.07
43 8 0.07
44 60 0.54
45 2 0.02
46 34 0.30
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (44 bp):
AATACAAACAAATCCATTTCTGTCATGCACATGCCAAACAATTT
Found at i:64023 original size:90 final size:88
Alignment explanation
Indices: 63919--64110 Score: 233
Period size: 90 Copynumber: 2.2 Consensus size: 88
63909 AAAAAAAAAA
* * * * * ** * *
63919 AATACAAACAAATCCATTTCTTTCATGCACATGCCATG-CACTTTAATACAAATAAATACATTTC
1 AATACAAACAAATCCATTTCTGTCATACACATG-AAAGACAATAAAATACAAAGAAAT-CAATT-
*
63983 TGTCATGTACAAAAACCAAATAATTT
63 TGTCATGTACAAAAACCAAACAATTT
*
64009 AATACAAACAAATCCATTTCTGTCATACACATGAAAGATAATAAAATACAAAGAAATCAATTTGT
1 AATACAAACAAATCCATTTCTGTCATACACATGAAAGACAATAAAATACAAAGAAATCAATTTGT
*
64074 CATGTACAATAACCAAACAATTT
66 CATGTACAAAAACCAAACAATTT
*
64097 AATACAAATAAATC
1 AATACAAACAAATC
64111 TAAAACAATA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
88 37 0.42
89 6 0.07
90 45 0.51
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (88 bp):
AATACAAACAAATCCATTTCTGTCATACACATGAAAGACAATAAAATACAAAGAAATCAATTTGT
CATGTACAAAAACCAAACAATTT
Found at i:64027 original size:46 final size:46
Alignment explanation
Indices: 63960--64110 Score: 157
Period size: 44 Copynumber: 3.4 Consensus size: 46
63950 TGCCATGCAC
*
63960 TTTAATACAAATAAATACATTTCTGTCATGTACAAAAACCAAATAA
1 TTTAATACAAATAAATCCATTTCTGTCATGTACAAAAACCAAATAA
* ** ** *
64006 TTTAATACAAACAAATCCATTTCTGTCATACACATGAA--AGATAA
1 TTTAATACAAATAAATCCATTTCTGTCATGTACAAAAACCAAATAA
** * * * *
64050 TAAAATACAAAGAAAT-CAATT-TGTCATGTACAATAACCAAACAA
1 TTTAATACAAATAAATCCATTTCTGTCATGTACAAAAACCAAATAA
64094 TTTAATACAAATAAATC
1 TTTAATACAAATAAATC
64111 TAAAACAATA
Statistics
Matches: 82, Mismatches: 20, Indels: 7
0.75 0.18 0.06
Matches are distributed among these distances:
42 11 0.13
43 4 0.05
44 35 0.43
46 32 0.39
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.28
Consensus pattern (46 bp):
TTTAATACAAATAAATCCATTTCTGTCATGTACAAAAACCAAATAA
Found at i:64317 original size:54 final size:54
Alignment explanation
Indices: 64219--64807 Score: 383
Period size: 54 Copynumber: 11.1 Consensus size: 54
64209 TTTAAGTATA
* ** * *
64219 TTGTGGCTGGCTGATTTAA-A-C-CTGCCTTATACTTACAAGATTTTCTAAATA
1 TTGTGGCTAGCTGATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATC
*
64270 TTGTGGCTAGCTGATTTAAGATCGCAACCTTATACTTACAAGATTTTCTTAATC
1 TTGTGGCTAGCTGATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATC
** * *
64324 TTGTGGCTCA-CCAATTTAAGATCACAACCTTATACTTACAAGATTTT-TCAAATC
1 TTGTGGCT-AGCTGATTTAAGATCGCAACCTTATACTTACAAGATTTTCT-GAATC
* * ** *
64378 TTGCGGTTCA-CTGATTTAAGAT--C-A---TAGCCTTATAAGATTTT-TCGAATC
1 TTGTGGCT-AGCTGATTTAAGATCGCAACCTTATACTTACAAGATTTTCT-GAATC
* * * * * *
64426 TTGTGGTTTG-TCGATTTAAGATCACAGCCTTATATTTTACAAGATTTTCTAAATC
1 TTGTGGCTAGCT-GATTTAAGATCGCAACCTTATA-CTTACAAGATTTTCTGAATC
* * * *
64481 TTGTGGCTCGCCT-ATTTATGATCGTAGCCTTATACTTACAAGATTTT-TCGAATC
1 TTGTGGCTAG-CTGATTTAAGATCGCAACCTTATACTTACAAGATTTTCT-GAATC
* * * ** * * **
64535 TTGTAGCTCGCCGATTTAAGATCATAACCTTATATTTACAAGAGTTTCCAAATC
1 TTGTGGCTAGCTGATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATC
*** * * * * * *
64589 TTGCAACTCG-TCGATTTAAGATCATC-GCCTTATATTTACAAGATTTTCCGCATC
1 TTGTGGCTAGCT-GATTTAAGATC-GCAACCTTATACTTACAAGATTTTCTGAATC
* * *
64643 TTGTGGCTTGCTGATTTAAGATCGCAACTTTATACTTACAAGATTTTCGGAATC
1 TTGTGGCTAGCTGATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATC
** * *
64697 TTGTGGCTCA-CCAATTTAAGATTGCAACCTTATACTTACATGATGTTT-TGAATC
1 TTGTGGCT-AGCTGATTTAAGATCGCAACCTTATACTTACAAGAT-TTTCTGAATC
* * ** * * * * *
64751 ATGCGATTTGCCGATTTAAAATC-CTAACCTTATACTTACAAGATTTCCAGAATC
1 TTGTGGCTAGCTGATTTAAGATCGC-AACCTTATACTTACAAGATTTTCTGAATC
64805 TTG
1 TTG
64808 CAGTTGCCGA
Statistics
Matches: 430, Mismatches: 79, Indels: 55
0.76 0.14 0.10
Matches are distributed among these distances:
47 1 0.00
48 37 0.09
50 1 0.00
51 19 0.04
52 2 0.00
53 8 0.02
54 314 0.73
55 46 0.11
56 1 0.00
57 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (54 bp):
TTGTGGCTAGCTGATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATC
Found at i:64364 original size:108 final size:108
Alignment explanation
Indices: 64243--64796 Score: 481
Period size: 108 Copynumber: 5.2 Consensus size: 108
64233 TTTAAACCTG
*
64243 CCTTATACTTACAAGATTTTCTAAATATTGTGGCTAGCTGATTTAAGATCGCAACCTTATACTTA
1 CCTTATACTTACAAGATTTTCTAAATCTTGTGGCTAGCTGATTTAAGATCGCAACCTTATACTTA
* * *
64308 CAAGA-TTTTCTTAATCTTGTGGCTCACCAATTTAAGATCACAA
66 CAAGATTTTTC-GAATCTTGTGGCTCGCCGATTTAAGATCACAA
* * **
64351 CCTTATACTTACAAGATTTT-TCAAATCTTGCGGTTCA-CTGATTTAAGAT--C-A---TAGCCT
1 CCTTATACTTACAAGATTTTCT-AAATCTTGTGGCT-AGCTGATTTAAGATCGCAACCTTATACT
* * * * *
64408 TATAAGATTTTTCGAATCTTGTGGTTTGTCGATTTAAGATCACAG
64 TACAAGATTTTTCGAATCTTGTGGCTCGCCGATTTAAGATCACAA
* * * * *
64453 CCTTATATTTTACAAGATTTTCTAAATCTTGTGGCTCGCCT-ATTTATGATCGTAGCCTTATACT
1 CCTTATA-CTTACAAGATTTTCTAAATCTTGTGGCTAG-CTGATTTAAGATCGCAACCTTATACT
* *
64517 TACAAGATTTTTCGAATCTTGTAGCTCGCCGATTTAAGATCATAA
64 TACAAGATTTTTCGAATCTTGTGGCTCGCCGATTTAAGATCACAA
* * * *** * * * *
64562 CCTTATATTTACAAGAGTTTCCAAATCTTGCAACTCG-TCGATTTAAGATCATC-GCCTTATATT
1 CCTTATACTTACAAGATTTTCTAAATCTTGTGGCTAGCT-GATTTAAGATC-GCAACCTTATACT
* * * * *
64625 TACAAGATTTTCCGCATCTTGTGGCTTGCTGATTTAAGATCGCAA
64 TACAAGATTTTTCGAATCTTGTGGCTCGCCGATTTAAGATCACAA
* ** ** *
64670 CTTTATACTTACAAGATTTTCGGAATCTTGTGGCTCA-CCAATTTAAGATTGCAACCTTATACTT
1 CCTTATACTTACAAGATTTTCTAAATCTTGTGGCT-AGCTGATTTAAGATCGCAACCTTATACTT
* * * ** * *
64734 ACATGATGTTTT-GAATCATGCGATTTGCCGATTTAAAATC-CTAA
65 ACAAGAT-TTTTCGAATCTTGTGGCTCGCCGATTTAAGATCAC-AA
64778 CCTTATACTTACAAGATTT
1 CCTTATACTTACAAGATTT
64797 CCAGAATCTT
Statistics
Matches: 355, Mismatches: 70, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
102 42 0.12
103 36 0.10
104 3 0.01
105 1 0.00
106 2 0.01
107 3 0.01
108 215 0.61
109 53 0.15
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (108 bp):
CCTTATACTTACAAGATTTTCTAAATCTTGTGGCTAGCTGATTTAAGATCGCAACCTTATACTTA
CAAGATTTTTCGAATCTTGTGGCTCGCCGATTTAAGATCACAA
Found at i:64442 original size:48 final size:48
Alignment explanation
Indices: 64358--64459 Score: 134
Period size: 48 Copynumber: 2.1 Consensus size: 48
64348 CAACCTTATA
* *
64358 CTTACAAGATTTTTCAAATCTTGCGGTTCACTGATTTAAGATCATAGC
1 CTTATAAGATTTTTCAAATCTTGCGGTTCACTGATTTAAGATCACAGC
* * **
64406 CTTATAAGATTTTTCGAATCTTGTGGTT-TGTCGATTTAAGATCACAGC
1 CTTATAAGATTTTTCAAATCTTGCGGTTCACT-GATTTAAGATCACAGC
64454 CTTATA
1 CTTATA
64460 TTTTACAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 1 0.02
48 46 0.98
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (48 bp):
CTTATAAGATTTTTCAAATCTTGCGGTTCACTGATTTAAGATCACAGC
Found at i:64768 original size:162 final size:159
Alignment explanation
Indices: 64297--64827 Score: 483
Period size: 162 Copynumber: 3.3 Consensus size: 159
64287 AAGATCGCAA
** * * *
64297 CCTTATACTTACAAGATTTTCTTAATCTTGTGGCTCACCAATTTAAGATCACAACCTTATACTTA
1 CCTTATACTTACAAGATTTTCCGAATCTTGTGGCTCGCCGATTTAAGATCGCAACCTTATACTTA
* * * *
64362 CAAGATTTTTCAAATCTTGCGGTTCACTGATTTAAGA-TCATAGCC-T-TA-TA-AGAT-TTTTC
66 CAAGATTTTTCGAATCTTGTGGCTCACCGATTTAAGATTCA-A-CCTTATATTACAGATGTTTT-
* *
64421 GAATCTTGTGGTTTGTCGATTTAAGATCA-CAG
128 GAATCTTGCGATTTGTCGATTTAAGATCATC-G
* ** * * * *
64453 CCTTATATTTTACAAGATTTTCTAAATCTTGTGGCTCGCCTATTTATGATCGTAGCCTTATACTT
1 CCTTATA-CTTACAAGATTTTCCGAATCTTGTGGCTCGCCGATTTAAGATCGCAACCTTATACTT
* *
64518 ACAAGATTTTTCGAATCTTGTAGCTCGCCGATTTAAGA-TCATAACCTTATATTTACAAGA-GTT
65 ACAAGATTTTTCGAATCTTGTGGCTCACCGATTTAAGATTC--AACCTTATA-TTAC-AGATGTT
** * * *
64581 TCCAAATCTTGCAACTCGTCGATTTAAGATCATCG
126 T-TGAATCTTGCGATTTGTCGATTTAAGATCATCG
* * * * *
64616 CCTTATATTTACAAGATTTTCCGCATCTTGTGGCTTGCTGATTTAAGATCGCAACTTTATACTTA
1 CCTTATACTTACAAGATTTTCCGAATCTTGTGGCTCGCCGATTTAAGATCGCAACCTTATACTTA
*
64681 CAAGA-TTTTCGGAATCTTGTGGCTCACCAATTTAAGATTGCAACCTTATACTTACATGATGTTT
66 CAAGATTTTTC-GAATCTTGTGGCTCACCGATTTAAGATT-CAACCTTATA-TTACA-GATGTTT
* * * * **
64745 TGAATCATGCGATTTGCCGATTTAAAATCCTAA
127 TGAATCTTGCGATTTGTCGATTTAAGATCATCG
** *
64778 CCTTATACTTACAAGA-TTTCCAGAATCTTGCAG-TTGCCGATTTAAGATCG
1 CCTTATACTTACAAGATTTTCC-GAATCTTGTGGCTCGCCGATTTAAGATCG
64828 AGACTTTCTC
Statistics
Matches: 306, Mismatches: 51, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
156 7 0.02
157 85 0.28
158 2 0.01
159 3 0.01
161 29 0.09
162 136 0.44
163 42 0.14
164 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (159 bp):
CCTTATACTTACAAGATTTTCCGAATCTTGTGGCTCGCCGATTTAAGATCGCAACCTTATACTTA
CAAGATTTTTCGAATCTTGTGGCTCACCGATTTAAGATTCAACCTTATATTACAGATGTTTTGAA
TCTTGCGATTTGTCGATTTAAGATCATCG
Found at i:65579 original size:16 final size:16
Alignment explanation
Indices: 65558--65621 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
65548 AGGAACCTCC
65558 GCTAGCTCACCACCTT
1 GCTAGCTCACCACCTT
*
65574 GCTAGCTCAGCATCC-T
1 GCTAGCTCACCA-CCTT
*
65590 GCTTA-CTCACCA-CTCC
1 GC-TAGCTCACCACCT-T
*
65606 GCTAGCTCGCCACCTT
1 GCTAGCTCACCACCTT
65622 CTTATTCATT
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
14 1 0.03
15 2 0.05
16 28 0.76
17 6 0.16
ACGTcount: A:0.17, C:0.44, G:0.14, T:0.25
Consensus pattern (16 bp):
GCTAGCTCACCACCTT
Found at i:66074 original size:31 final size:31
Alignment explanation
Indices: 66039--66104 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
66029 ATTTTATTAA
*
66039 ATGTATACGATTT-AATCAAAAT-TAATGTTTC
1 ATGTATAC-ATTTGAATCAAAATCGAA-GTTTC
*
66070 ATGTATACATTTGAATCACAATCGAAGTTTC
1 ATGTATACATTTGAATCAAAATCGAAGTTTC
66101 ATGT
1 ATGT
66105 GTATAATTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 4 0.13
31 25 0.81
32 2 0.06
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (31 bp):
ATGTATACATTTGAATCAAAATCGAAGTTTC
Found at i:67781 original size:36 final size:37
Alignment explanation
Indices: 67738--67816 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 37
67728 TTTTCTAATT
67738 TTTTATGGTTTTTAATAAATTACT-TG-TTTTTATAAA
1 TTTTATGG-TTTTAATAAATTACTATGATTTTTATAAA
* * *
67774 TTTTATGGTTTTAATTAATTTCTAATGATTTTTATGAA
1 TTTTATGGTTTTAATAAATTACT-ATGATTTTTATAAA
67812 TTTTA
1 TTTTA
67817 ATAAAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 13 0.35
36 8 0.22
37 2 0.05
38 14 0.38
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (37 bp):
TTTTATGGTTTTAATAAATTACTATGATTTTTATAAA
Found at i:84903 original size:26 final size:26
Alignment explanation
Indices: 84874--84926 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
84864 TGCGATGGCC
*
84874 AAGGACAATGCCTTCAATTTCCATGA
1 AAGGACAATGCCTTCAATTGCCATGA
84900 AAGGACAATGCCTTCAATTGCCATGA
1 AAGGACAATGCCTTCAATTGCCATGA
84926 A
1 A
84927 TGACATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (26 bp):
AAGGACAATGCCTTCAATTGCCATGA
Found at i:87782 original size:51 final size:51
Alignment explanation
Indices: 87721--87875 Score: 231
Period size: 51 Copynumber: 3.0 Consensus size: 51
87711 GAATCTATAA
*
87721 ACTCACGATGACACTTAGTCATCAGACCTTTAATCCATACAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCAGACCTTTAATCCATAAAGGATTCATTT
* * *
87772 ACTCACGATGACAGTTAGTCATCAGACCATTAATCCATAAAGGATTCATTC
1 ACTCACGATGACACTTAGTCATCAGACCTTTAATCCATAAAGGATTCATTT
* * *
87823 ACTCACAATAACACTTAGTCATC-GAACCTTTAATCCATATAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCAG-ACCTTTAATCCATAAAGGATTCATTT
87874 AC
1 AC
87876 GATGACAGTT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
50 1 0.01
51 92 0.99
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (51 bp):
ACTCACGATGACACTTAGTCATCAGACCTTTAATCCATAAAGGATTCATTT
Done.