Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009618.1 Hibiscus syriacus cultivar Beakdansim tig00117007_pilon, 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: 1135495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:590426 original size:66 final size:66
Alignment explanation
Indices: 590320--590577 Score: 290
Period size: 66 Copynumber: 3.9 Consensus size: 66
590310 AGGGATAATA
* ** * * ** * *
590320 GTTTCAAGGGAAACCGTCTCAAGAGAGACATAATTTGTTTCAAGGGAAAGGATCTCAAAGTTGTA
1 GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAATCTCAAAATTTTA
590385 T
66 T
* *
590386 GTTTCAAGAGAAATTGTCTAAAGAGAGACAAAACTTGTTTCAAGGGAAACAATCTAAAAATTTTA
1 GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAATCTCAAAATTTTA
590451 -
66 T
* * *
590451 GATTTCAAGTA-AAATTGTC-C-AGAGAGACAAAACTTTGTTTCAAGAGTAACAATCTCAAATTT
1 G-TTTCAAG-AGAAATTGTCTCAAGAGAGACAAAAC-TTGTTTCAAGGGAAACAATCTCAAA--A
590513 TTTTAT
61 TTTTAT
* *
590519 GTTTCAAGAGAAAGTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACAATCTCAA
1 GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAA-CTTGTTTCAAGGGAAACAATCTCAA
590578 TGTTTAATCA
Statistics
Matches: 162, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
64 13 0.08
65 23 0.14
66 70 0.43
67 20 0.12
68 2 0.01
69 34 0.21
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (66 bp):
GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAATCTCAAAATTTTA
T
Found at i:591674 original size:13 final size:13
Alignment explanation
Indices: 591656--591681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
591646 TCATCATCAC
591656 CGCCAGATGGTTT
1 CGCCAGATGGTTT
591669 CGCCAGATGGTTT
1 CGCCAGATGGTTT
591682 GAAAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
CGCCAGATGGTTT
Found at i:593245 original size:59 final size:59
Alignment explanation
Indices: 593115--593235 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
593105 GGAGGGTTGG
* *
593115 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGTGACTAACAGGGTTTGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAACAGGGTTCGATAGGACAC
* **
593174 TTAGAGCCATATTATCGAGTTTTCCTTTTCATTGCGACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAACAGGGTTCGATAGGACAC
593233 TTA
1 TTA
593236 TTCATATATT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAACAGGGTTCGATAGGACAC
Found at i:596324 original size:59 final size:59
Alignment explanation
Indices: 596252--596366 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 59
596242 TTACTCAGAG
*
596252 CCATATTATCGAGTTTTCCTTTTCATTCCAACTAGGAGGGTTCGATAGAACACTTAGAA
1 CCATATTATCGAGTTTGCCTTTTCATTCCAACTAGGAGGGTTCGATAGAACACTTAGAA
*** * *
596311 CCATATTATCGAGTTTGCCTTTTCATTGTGACTAGGAGGGTTTGATAGGACACTTA
1 CCATATTATCGAGTTTGCCTTTTCATTCCAACTAGGAGGGTTCGATAGAACACTTA
596367 TCCATCTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (59 bp):
CCATATTATCGAGTTTGCCTTTTCATTCCAACTAGGAGGGTTCGATAGAACACTTAGAA
Found at i:597657 original size:8 final size:8
Alignment explanation
Indices: 597636--597692 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
597626 TTTTCTTTAT
597636 TTTTTTTC
1 TTTTTTTC
597644 ATTTTTTTTC
1 --TTTTTTTC
597654 TTTTTTCTC
1 TTTTTT-TC
*
597663 TTTGTTTC
1 TTTTTTTC
597671 -TTTTTTC
1 TTTTTTTC
*
597678 TTTTCTTC
1 TTTTTTTC
597686 TTCTTTT
1 TT-TTTT
597693 ATTTGATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 6 0.15
8 16 0.40
9 10 0.25
10 8 0.20
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:597659 original size:17 final size:16
Alignment explanation
Indices: 597637--597692 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 16
597627 TTTCTTTATT
597637 TTTTTTCATTTTTTTTC
1 TTTTTTC-TTTTTTTTC
*
597654 TTTTTTCTCTTTGTTTC
1 TTTTTTCT-TTTTTTTC
597671 TTTTTTCTTTTCTTCTTC
1 TTTTTTCTTTT-TT-TTC
597689 TTTT
1 TTTT
597693 ATTTGATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 4 0.12
17 23 0.68
18 7 0.21
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTC
Found at i:602331 original size:31 final size:29
Alignment explanation
Indices: 602283--602341 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
602273 ATTTCAAAAT
602283 TATAATTATGAAAAAAATATATTAATTTATA
1 TATAATTATGAAAAAAATAT-TT-ATTTATA
*
602314 TATATTTAT-AAATAAAATATTTATTTAT
1 TATAATTATGAAA-AAAATATTTATTTAT
602342 TTAGAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.23
30 5 0.19
31 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATGAAAAAAATATTTATTTATA
Found at i:604051 original size:3 final size:3
Alignment explanation
Indices: 604040--604105 Score: 80
Period size: 3 Copynumber: 21.7 Consensus size: 3
604030 TAATATTTAT
* * *
604040 TAA TAAA TAA TAA TAA TAA TTA TTA TTA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
604086 TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA T-AA TAA TA
604106 TTCAAATGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 2 0.03
3 51 0.88
4 5 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:604566 original size:113 final size:113
Alignment explanation
Indices: 604446--605461 Score: 1676
Period size: 113 Copynumber: 9.0 Consensus size: 113
604436 TAGAGTCATA
* *
604446 CAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
604511 TTATGAACTTTCTTTGGAAAAGTTGATCCATCAAGTGATGAATTTAAG
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
** * * *
604559 CAAAAGGTTGAACAAATTCCTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
604624 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
*
604672 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
604737 TTTTGAACTTTCTCTGGAAAAGCTT-ATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTTCTCTGGAAAAG-TTGATCCATCAAGTGATGGATTTGAG
* * *
604785 AAAAAGGTTGAACTAGCTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
604850 TTCTGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
*
604898 CAAAAGGCTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
604963 TTATGAACTTTCTCTGGAAATGTTGATCCATCTAGTGATGGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
*
605011 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
605076 TTATGAACTTTCTCTGGAAATGCTAATCCATCTAGTGATGGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
*
605124 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**
605189 TTATGAACTTTAACTGGAAAA-TCTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGT-TGATCCATCAAGTGATGGATTTGAG
605237 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
605302 TTATGAACTTTCTTTGGAAATGCTGATCCATCTAGTGATGGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
605350 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
605415 TTATGAACTTTCTCTAGAAATGATAATCCATCAAGTGATGGATTTGA
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGA
605462 ATCTTTTCTA
Statistics
Matches: 844, Mismatches: 55, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
112 2 0.00
113 841 1.00
114 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (113 bp):
CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
Found at i:606630 original size:19 final size:17
Alignment explanation
Indices: 606606--606654 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
606596 AAAATAAAAG
606606 AATAAATTGAATTTTCAAA
1 AATAAATTGAATTTTC--A
*
606625 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
606641 AATAAATTGAATTT
1 AATAAATTGAATTT
606655 AGAGAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 3 0.11
19 11 0.41
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:607012 original size:17 final size:17
Alignment explanation
Indices: 606992--607053 Score: 90
Period size: 17 Copynumber: 3.6 Consensus size: 17
606982 CTTGACCCTC
*
606992 TTTTTTTATTTTCTTCT
1 TTTTTTTATTTTTTTCT
*
607009 TTTTTTTCTTTTTTTCT
1 TTTTTTTATTTTTTTCT
607026 TTTTTTCT-TTTTTTTCT
1 TTTTTT-TATTTTTTTCT
607043 TTTTTTTATTT
1 TTTTTTTATTT
607054 CATTTTTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.02
17 39 0.95
18 1 0.02
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTTTTATTTTTTTCT
Found at i:607018 original size:25 final size:25
Alignment explanation
Indices: 606990--607053 Score: 101
Period size: 25 Copynumber: 2.5 Consensus size: 25
606980 ATCTTGACCC
606990 TCTTTTTTTATTTTCTTCTTTTTTT
1 TCTTTTTTTATTTTCTTCTTTTTTT
* *
607015 TCTTTTTTTCTTTTTTTCTTTTTTT
1 TCTTTTTTTATTTTCTTCTTTTTTT
607040 TCTTTTTTTTATTT
1 TC-TTTTTTTATTT
607054 CATTTTTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 25 0.71
26 10 0.29
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (25 bp):
TCTTTTTTTATTTTCTTCTTTTTTT
Found at i:607049 original size:9 final size:9
Alignment explanation
Indices: 607000--607049 Score: 77
Period size: 9 Copynumber: 5.8 Consensus size: 9
606990 TCTTTTTTTA
*
607000 TTTTCTTCT
1 TTTTTTTCT
607009 TTTTTTTC-
1 TTTTTTTCT
607017 TTTTTTTC-
1 TTTTTTTCT
607025 TTTTTTTCT
1 TTTTTTTCT
607034 TTTTTTTCT
1 TTTTTTTCT
607043 TTTTTTT
1 TTTTTTT
607050 ATTTCATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
8 16 0.41
9 23 0.59
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:607061 original size:1 final size:1
Alignment explanation
Indices: 606992--607049 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
606982 CTTGACCCTC
* * * * * * *
606992 TTTTTTTATTTTCTTCTTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
607050 ATTTCATTTT
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:607062 original size:8 final size:8
Alignment explanation
Indices: 606990--607048 Score: 82
Period size: 8 Copynumber: 7.1 Consensus size: 8
606980 ATCTTGACCC
606990 TCTTTTTT
1 TCTTTTTT
* *
606998 TATTTTCT
1 TCTTTTTT
607006 TCTTTTTTT
1 TC-TTTTTT
607015 TCTTTTTT
1 TCTTTTTT
607023 TCTTTTTT
1 TCTTTTTT
607031 TCTTTTTTT
1 TC-TTTTTT
607040 TCTTTTTT
1 TCTTTTTT
607048 T
1 T
607049 TATTTCATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
8 30 0.67
9 15 0.33
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (8 bp):
TCTTTTTT
Found at i:610553 original size:14 final size:15
Alignment explanation
Indices: 610534--610562 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
610524 AAATTTATGA
610534 AATAAATG-AAAAAT
1 AATAAATGTAAAAAT
610548 AATAAATGTAAAAAT
1 AATAAATGTAAAAAT
610563 GTAAAGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAATGTAAAAAT
Found at i:614376 original size:15 final size:15
Alignment explanation
Indices: 614353--614383 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
614343 TGCAATGAAT
614353 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
614368 AATGCATGTATGCAA
1 AATGAATGTATGCAA
614383 A
1 A
614384 TGGTATTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:617039 original size:18 final size:16
Alignment explanation
Indices: 617010--617062 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 16
617000 GATGAATAAT
617010 TTAAAT-TTTAAATTA
1 TTAAATATTTAAATTA
*
617025 TTAAGCATATTTAAAATA
1 TTAA--ATATTTAAATTA
617043 TTAAATA-TTAAGATTA
1 TTAAATATTTAA-ATTA
617059 TTAA
1 TTAA
617063 TTTCAAAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 8 0.25
16 10 0.31
17 2 0.06
18 12 0.38
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (16 bp):
TTAAATATTTAAATTA
Found at i:620286 original size:3 final size:3
Alignment explanation
Indices: 620280--620365 Score: 109
Period size: 3 Copynumber: 28.0 Consensus size: 3
620270 TTTCCATCAT
* * * * *
620280 TTA TTA TTA TTA TTA TTA TTA TTA TTCT TTA TTC TTC TTC TTC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
620326 TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
620366 AATAATAATA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
3 72 0.94
4 5 0.06
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:627654 original size:17 final size:19
Alignment explanation
Indices: 627618--627660 Score: 72
Period size: 17 Copynumber: 2.4 Consensus size: 19
627608 AAAGAAAAGA
627618 AAAAAGAAAAAGAGAGATG
1 AAAAAGAAAAAGAGAGATG
627637 AAAAAGAAAAA-A-AGATG
1 AAAAAGAAAAAGAGAGATG
627654 AAAAAGA
1 AAAAAGA
627661 TAAGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 12 0.50
18 1 0.04
19 11 0.46
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAAAGAAAAAGAGAGATG
Found at i:627658 original size:11 final size:11
Alignment explanation
Indices: 627640--627685 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
627630 AGAGATGAAA
627640 AAGAAAAAAAG
1 AAGAAAAAAAG
* * *
627651 ATGAAAAAGAT
1 AAGAAAAAAAG
627662 AAGAAAAAAAG
1 AAGAAAAAAAG
*
627673 AAGAATAAAAG
1 AAGAAAAAAAG
627684 AA
1 AA
627686 ATTGAATCAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (11 bp):
AAGAAAAAAAG
Found at i:629091 original size:40 final size:39
Alignment explanation
Indices: 628967--629095 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
628957 CCATGTGGGG
* * ***
628967 CATTTTGAAAGCTCATATCAAAAAGAAGTAAATGTTGGGG
1 CATTTTGAAAGCTCACATCAACAAGAAGT-AATGTTGAAA
* * * *
629007 CATTTTGAAAGCTCACATCATCAAAAAGAAAGTGTTGAAT
1 CATTTTGAAAGCTCACATCAACAAGAAGTAA-TGTTGAAA
*
629047 CATTTTGAAAGCTCACATCAGCAAGAAGTAATGTTGAACA
1 CATTTTGAAAGCTCACATCAACAAGAAGTAATGTTGAA-A
629087 CATTTTGAA
1 CATTTTGAA
629096 CGTTCGTATC
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
39 9 0.12
40 66 0.88
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (39 bp):
CATTTTGAAAGCTCACATCAACAAGAAGTAATGTTGAAA
Found at i:630811 original size:42 final size:42
Alignment explanation
Indices: 630756--630837 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
630746 TATTGCTTTG
* *
630756 TAAATCCTTCGGGTCATCAGTAAGTCTTTCAAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGCCTTTCAAGCAAGATGCT
* *
630798 TAAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATG
1 TAAATCCTTCGGGTCATCAGTAAGCCTTTCAAGCAAGATG
630838 ATAAGACCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATCAGTAAGCCTTTCAAGCAAGATGCT
Found at i:631059 original size:42 final size:42
Alignment explanation
Indices: 630983--631064 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
630973 GAGATTAAAG
* *
630983 TAAATCCTTCGAGTCATCAATAAGTCTTTAGAGCATGATGCT
1 TAAATCCTTCGAGTCATCAATAAGCCTTTAGAGCAAGATGCT
* *** *
631025 TAAATCCTTCGGGTCATTTGTAAGCCTTTCGAGCAAGATG
1 TAAATCCTTCGAGTCATCAATAAGCCTTTAGAGCAAGATG
631065 ATAGGACCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (42 bp):
TAAATCCTTCGAGTCATCAATAAGCCTTTAGAGCAAGATGCT
Found at i:631217 original size:228 final size:226
Alignment explanation
Indices: 630755--631320 Score: 911
Period size: 228 Copynumber: 2.5 Consensus size: 226
630745 TTATTGCTTT
630755 GTAAATCCTTCGGGTCATCAGTAAGTCTTTCA-AGCATGATGCTTAAATCCTTCGGGTCATCTGT
1 GTAAATCCTTCGGGTCATCAGTAAGTCTTT-AGAGCATGATGCTTAAATCCTTCGGGTCATCTGT
*
630819 AAGCCTTTCGAGCAAGATGATAAGACCTTCGAGCCATCCATAAGACCTTCAGTGCTGGATGTTTT
65 AAGCCTTTCGAGCAAGATGAT-AGACCTTCGAGCCATCCATAAGACCTTCAGTGCTGAATGTTTT
*
630884 CAACATTTCCATTGTTTGATTCACGACATTTTGAATCAACAATGTATTGCTTGAGAAAGTTTCAC
129 CAACATTTCCATTGTTTGATTCACGACATTTCGAATCAACAATGTATTGCTTGAGAAAGTTTCAC
* *
630949 TCAAAATAGTAATTTGTTTCACTCGAGATTAAA
194 TCAAAATAGCAATTTGTCTCACTCGAGATTAAA
* * *
630982 GTAAATCCTTCGAGTCATCAATAAGTCTTTAGAGCATGATGCTTAAATCCTTCGGGTCATTTGTA
1 GTAAATCCTTCGGGTCATCAGTAAGTCTTTAGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
631047 AGCCTTTCGAGCAAGATGATAGGACCTTC-AGTCCATCCATAAGACCTTTCAGTGCTGAATGTTT
66 AGCCTTTCGAGCAAGATGATA-GACCTTCGAG-CCATCCATAAGACC-TTCAGTGCTGAATGTTT
** *
631111 TCAACATTTCTGTTGTTTGATTCACGACATTTCGAATCAACAATGTCTTGCTTGAGAAAGTTTCA
128 TCAACATTTCCATTGTTTGATTCACGACATTTCGAATCAACAATGTATTGCTTGAGAAAGTTTCA
*
631176 CTCGAAATAGCAATTTGTCTCACTCGAGATTAAA
193 CTCAAAATAGCAATTTGTCTCACTCGAGATTAAA
* * * * * *
631210 TTAAATCCTTCGGGTCACCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTGGGTCATCTATA
1 GTAAATCCTTCGGGTCATCAGTAAGTCTTTAGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
631275 AGCCTTTCGAGCAAGATGATTAGACCTTCGAGCCATCCATAAGACC
66 AGCCTTTCGAGCAAGATGA-TAGACCTTCGAGCCATCCATAAGACC
631321 ATCGGGTAGG
Statistics
Matches: 313, Mismatches: 20, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
226 4 0.01
227 101 0.32
228 204 0.65
229 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (226 bp):
GTAAATCCTTCGGGTCATCAGTAAGTCTTTAGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
AGCCTTTCGAGCAAGATGATAGACCTTCGAGCCATCCATAAGACCTTCAGTGCTGAATGTTTTCA
ACATTTCCATTGTTTGATTCACGACATTTCGAATCAACAATGTATTGCTTGAGAAAGTTTCACTC
AAAATAGCAATTTGTCTCACTCGAGATTAAA
Found at i:631257 original size:42 final size:42
Alignment explanation
Indices: 631210--631292 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
631200 CGAGATTAAA
* * *
631210 TTAAATCCTTCGGGTCACCTGTAAGTCTTTCGAGCATGATGC
1 TTAAATCCTTCGGGTCACCTATAAGCCTTTCGAGCAAGATGC
* *
631252 TTAAATCCTTTGGGTCATCTATAAGCCTTTCGAGCAAGATG
1 TTAAATCCTTCGGGTCACCTATAAGCCTTTCGAGCAAGATG
631293 ATTAGACCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (42 bp):
TTAAATCCTTCGGGTCACCTATAAGCCTTTCGAGCAAGATGC
Found at i:631992 original size:3 final size:3
Alignment explanation
Indices: 631986--632032 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
631976 TTCCATCCTT
*
631986 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
632033 AATAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 40 0.98
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:638521 original size:3 final size:3
Alignment explanation
Indices: 638504--638549 Score: 67
Period size: 3 Copynumber: 15.0 Consensus size: 3
638494 AATTTTTAAC
638504 AAT AAT GAA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
638550 TAAAACCCAG
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:641510 original size:92 final size:92
Alignment explanation
Indices: 641353--641531 Score: 295
Period size: 92 Copynumber: 1.9 Consensus size: 92
641343 GTGTTCATCC
* * *
641353 TGTTTCCCAAACATCACACAAGGCAAGTCTTATGATTCCCTAAGTTATAGGGTTTCTAAGTGAAA
1 TGTTTCCCAAACATCACACAAGGCAAGTCTTATGATACCCTAAGTTATAAGGTTTCTAAATGAAA
641418 TTTCACATTTTTAATAATGTTCCGTCT
66 TTTCACATTTTTAATAATGTTCCGTCT
* *
641445 TGTTTCTCGAACATCACACAAGGCAAGTCTTATGATACCCTAAGTTATAAGGTTTCTAAATGAAA
1 TGTTTCCCAAACATCACACAAGGCAAGTCTTATGATACCCTAAGTTATAAGGTTTCTAAATGAAA
* *
641510 TTTCATATTTTTAATATTGTTC
66 TTTCACATTTTTAATAATGTTC
641532 TCACTTGATA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (92 bp):
TGTTTCCCAAACATCACACAAGGCAAGTCTTATGATACCCTAAGTTATAAGGTTTCTAAATGAAA
TTTCACATTTTTAATAATGTTCCGTCT
Found at i:641794 original size:18 final size:20
Alignment explanation
Indices: 641750--641798 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
641740 TGCGTATGGG
*
641750 GAGTATCGATACTTAGCCAT
1 GAGTATCGATACTTACCCAT
* *
641770 TATTATCGATAC-T-CCCAT
1 GAGTATCGATACTTACCCAT
641788 GAGTATCGATA
1 GAGTATCGATA
641799 GAAAATTTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 13 0.54
19 1 0.04
20 10 0.42
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (20 bp):
GAGTATCGATACTTACCCAT
Found at i:653987 original size:14 final size:14
Alignment explanation
Indices: 653968--653997 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
653958 GAGCTACAAC
653968 TGTCCTAACTACCT
1 TGTCCTAACTACCT
*
653982 TGTCCTAACTGCCT
1 TGTCCTAACTACCT
653996 TG
1 TG
653998 ATAACTTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.33, G:0.13, T:0.37
Consensus pattern (14 bp):
TGTCCTAACTACCT
Found at i:656564 original size:302 final size:302
Alignment explanation
Indices: 656018--656622 Score: 1059
Period size: 302 Copynumber: 2.0 Consensus size: 302
656008 GTGTATCCCA
*
656018 TTAATGATGCCTAAAAATTGATACATCACTTTAAAATTTGGGAATGAAAGAAAAATAAATGTTCA
1 TTAATGATGCCTAAAAATTGATACATCACTTTAAAATTTGGGAATGAAAGAAAAACAAATGTTCA
* * *
656083 ACTATTTAAATTTATCGAGAAAAGGTTGTTATAGCTTTTAAGATCTGATCTCGATATTTGTAAAT
66 ACTATTTAAATTTAACGAGAAAAGGCTGTTATAGCTTTTAAGATCTGATCTCGATATTTGCAAAT
*
656148 AACCGAACATTCTTTACCTTTCTAAAACGACTTGGTAATCTTAATTTAATTTATTTGAGTTCTTT
131 AACCGAACATTCTTTACCTTTCTAAAACGACTTGGTAATCTTAATTTAATTTATTTGAGTGCTTT
* *
656213 TGAACATTATTAAATTCACATCTTTGTTTTATGGGATCAAAAATCAAATTAAGTTTGAATTTGTA
196 TGAACATTATTAAATTCACATCTTTGTTTGATGGGATCAAAAATCAAATTAAGTTCGAATTTGTA
*
656278 AAGTTCATTGCAAAGACATTAATTAATCGACTAGGAACCGTT
261 AAGTTCATTGCAAAGACATTAATTAATAGACTAGGAACCGTT
* * *
656320 TTAATGATGCCTAAAAATTGATCCATCACTTTAAAATTTGGGAATGGAAGAAAAACAAATGTTCG
1 TTAATGATGCCTAAAAATTGATACATCACTTTAAAATTTGGGAATGAAAGAAAAACAAATGTTCA
* *
656385 ACTATTTAAATTTAACGAGAAAATGCTGTTATAGCTTTTATGATCT-AGTCTCGATATTTGCAAA
66 ACTATTTAAATTTAACGAGAAAAGGCTGTTATAGCTTTTAAGATCTGA-TCTCGATATTTGCAAA
*
656449 TAACCGAACATTCTTTATCTTTCTAAAACGACTTGGTAATCTTAATTTAATTTATTTGAGTGCTT
130 TAACCGAACATTCTTTACCTTTCTAAAACGACTTGGTAATCTTAATTTAATTTATTTGAGTGCTT
656514 TTGAACATTATTAAATTCACATCTTTGTTTGATGGGATCAAAAATCAAATTAAGTTCGAATTTGT
195 TTGAACATTATTAAATTCACATCTTTGTTTGATGGGATCAAAAATCAAATTAAGTTCGAATTTGT
*
656579 AAAGTTCATTGCAAAGACATTAATTAATAGACTAGGTACCGTT
260 AAAGTTCATTGCAAAGACATTAATTAATAGACTAGGAACCGTT
656622 T
1 T
656623 CAGGGCGTTG
Statistics
Matches: 287, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
301 1 0.00
302 286 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (302 bp):
TTAATGATGCCTAAAAATTGATACATCACTTTAAAATTTGGGAATGAAAGAAAAACAAATGTTCA
ACTATTTAAATTTAACGAGAAAAGGCTGTTATAGCTTTTAAGATCTGATCTCGATATTTGCAAAT
AACCGAACATTCTTTACCTTTCTAAAACGACTTGGTAATCTTAATTTAATTTATTTGAGTGCTTT
TGAACATTATTAAATTCACATCTTTGTTTGATGGGATCAAAAATCAAATTAAGTTCGAATTTGTA
AAGTTCATTGCAAAGACATTAATTAATAGACTAGGAACCGTT
Found at i:664122 original size:22 final size:21
Alignment explanation
Indices: 664097--664162 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
664087 CACCAATAAG
664097 TCTTTCGAGCATGATGCTTAAA
1 TCTTTCGAGCATGATG-TTAAA
* * * *
664119 TCTTTAGGGCCATCA-G-TAAG
1 TCTTTCGAG-CATGATGTTAAA
664139 TCTTTCGAGCATGATGATTAAA
1 TCTTTCGAGCATGATG-TTAAA
664161 TC
1 TC
664163 CTTAAGGTAA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
19 4 0.12
20 11 0.34
22 13 0.41
23 4 0.12
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (21 bp):
TCTTTCGAGCATGATGTTAAA
Found at i:664142 original size:42 final size:42
Alignment explanation
Indices: 664083--664162 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
664073 TAAGTCCTTC
*
664083 GGGCCACCAATAAGTCTTTCGAGCATGATGCTTAAATCTTTA
1 GGGCCACCAATAAGTCTTTCGAGCATGATGATTAAATCTTTA
* *
664125 GGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATC
1 GGGCCACCAATAAGTCTTTCGAGCATGATGATTAAATC
664163 CTTAAGGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (42 bp):
GGGCCACCAATAAGTCTTTCGAGCATGATGATTAAATCTTTA
Found at i:664222 original size:13 final size:13
Alignment explanation
Indices: 664204--664228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
664194 TGAAGTAAAC
664204 CCATCAGTAAGTG
1 CCATCAGTAAGTG
664217 CCATCAGTAAGT
1 CCATCAGTAAGT
664229 CTTTCGAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:664271 original size:20 final size:20
Alignment explanation
Indices: 664246--664312 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
664236 GTATAATGAT
664246 TAAGTCCTTCGAGCCATCAG
1 TAAGTCCTTCGAGCCATCAG
* *
664266 TAAGTCTTTCGAG-CATGATG
1 TAAGTCCTTCGAGCCATCA-G
*
664286 ATGAAGTCCTTCGGGCCATCAG
1 -T-AAGTCCTTCGAGCCATCAG
664308 TAAGT
1 TAAGT
664313 TTTTCGAGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
19 4 0.11
20 17 0.45
21 2 0.05
22 11 0.29
23 4 0.11
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (20 bp):
TAAGTCCTTCGAGCCATCAG
Found at i:664298 original size:22 final size:21
Alignment explanation
Indices: 664224--664298 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
664214 GTGCCATCAG
* *
664224 TAAGTCTTTCGAGTATAATGA
1 TAAGTCCTTCGAGCATAATGA
*
664245 TTAAGTCCTTCGAGCCATCA-G-
1 -TAAGTCCTTCGAG-CATAATGA
* *
664266 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATAATGA
664287 TGAAGTCCTTCG
1 T-AAGTCCTTCG
664299 GGCCATCAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 4 0.09
20 13 0.30
21 1 0.02
22 22 0.51
23 3 0.07
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (21 bp):
TAAGTCCTTCGAGCATAATGA
Found at i:664341 original size:42 final size:42
Alignment explanation
Indices: 664216--664342 Score: 184
Period size: 42 Copynumber: 3.0 Consensus size: 42
664206 ATCAGTAAGT
* *
664216 GCCATCAGTAAGTCTTTCGAG-TATAATGATTAAGTCCTTCGA
1 GCCATCAGTAAGTCTTTCGAGCT-TGATGATTAAGTCCTTCGG
* *
664258 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCTTGATGATTAAGTCCTTCGG
* *
664300 GCCATCAGTAAGTTTTTCGAGCTTGATGATTAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCTTGATGATTAAGTCCTTCGG
664342 G
1 G
664343 TAATTTGTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (42 bp):
GCCATCAGTAAGTCTTTCGAGCTTGATGATTAAGTCCTTCGG
Found at i:664929 original size:53 final size:53
Alignment explanation
Indices: 664844--665068 Score: 353
Period size: 53 Copynumber: 4.2 Consensus size: 53
664834 AGAATCCCAC
*
664844 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* *
664897 CAGAAGATTGTTCGAGTTCTACTCCCTAAAGCAAGAGGGAACGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * *
664950 CAGAAGATTATTCTAGCTCTACTCCCTGAAGCAAGAGGGAGCGAACCTGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* *
665003 CAGAAGACTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGCTAGT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCG-TAGG
665057 C-GAAGATTGTTC
1 CAGAAGATTGTTC
665069 AAAGAAGAGG
Statistics
Matches: 155, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
53 151 0.97
54 4 0.03
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
Found at i:667183 original size:21 final size:22
Alignment explanation
Indices: 667124--667184 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 22
667114 ATATAAGTTT
667124 ATATATTATA-TACT-TGTATTC
1 ATATATTATATTA-TGTGTATTC
* * *
667145 ATATTTTAGTATAATGTGTA-TG
1 ATATATTA-TATTATGTGTATTC
667167 ATATATTATATTATGTGT
1 ATATATTATATTATGTGT
667185 GTTAAATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 16 0.50
22 11 0.34
23 5 0.16
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.52
Consensus pattern (22 bp):
ATATATTATATTATGTGTATTC
Found at i:690552 original size:48 final size:48
Alignment explanation
Indices: 690486--690579 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
690476 AAATAAAATA
*
690486 AAATAAAGAAGTATATTGTAAAAAGAATATTTCCCTACTTAATTTTGT
1 AAATAAAGAAGTAAATTGTAAAAAGAATATTTCCCTACTTAATTTTGT
* *
690534 AAATAAAGGAA-TAAATTGTAAAAAGAATATTTCTCTCCTTAATTTT
1 AAATAAA-GAAGTAAATTGTAAAAAGAATATTTCCCTACTTAATTTT
690580 TCCTTTTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
48 39 0.93
49 3 0.07
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.37
Consensus pattern (48 bp):
AAATAAAGAAGTAAATTGTAAAAAGAATATTTCCCTACTTAATTTTGT
Found at i:691883 original size:13 final size:13
Alignment explanation
Indices: 691865--691891 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
691855 TTTTGATGGA
691865 TGTAGCATGGTCT
1 TGTAGCATGGTCT
691878 TGTAGCATGGTCT
1 TGTAGCATGGTCT
691891 T
1 T
691892 CATGGTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (13 bp):
TGTAGCATGGTCT
Found at i:699893 original size:15 final size:15
Alignment explanation
Indices: 699874--699929 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
699864 TAATGGGGGT
* *
699874 AAGAAGACAACGTCT
1 AAGAAGAAAACGTCA
*
699889 AAGAAGAAAACATCA
1 AAGAAGAAAACGTCA
699904 AAGAAGAAAACGTCA
1 AAGAAGAAAACGTCA
699919 AAGAAGGAAAA
1 AAGAA-GAAAA
699930 AGAAAGCATC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 31 0.86
16 5 0.14
ACGTcount: A:0.61, C:0.12, G:0.20, T:0.07
Consensus pattern (15 bp):
AAGAAGAAAACGTCA
Found at i:702020 original size:84 final size:85
Alignment explanation
Indices: 701914--702093 Score: 274
Period size: 84 Copynumber: 2.1 Consensus size: 85
701904 AATGATGTGT
* * *
701914 GCTTCAATGACATACAATGTAAGCCATACATGCATGTTATAAATTTATGACACACAAATGTGTGT
1 GCTTCAATGACACACAATGTAAGCCATACATGCATGTAATAAATTTATGACACACAAATGTGAGT
701979 CA-ACTTCATTTATGACAGGG
66 CATA-TTCATTTATGACAGGG
* * *
701999 GCTT-AATGACACGCAATGTAAGTCATACATGCGTGTAATAAATTTATGACACACAAATGTGAGT
1 GCTTCAATGACACACAATGTAAGCCATACATGCATGTAATAAATTTATGACACACAAATGTGAGT
*
702063 CATATTCATTTATGACGGGG
66 CATATTCATTTATGACAGGG
702083 GCTTCAATGAC
1 GCTTCAATGAC
702094 GCTCAATGAG
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
84 75 0.87
85 11 0.13
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (85 bp):
GCTTCAATGACACACAATGTAAGCCATACATGCATGTAATAAATTTATGACACACAAATGTGAGT
CATATTCATTTATGACAGGG
Found at i:702116 original size:13 final size:13
Alignment explanation
Indices: 702098--702153 Score: 76
Period size: 13 Copynumber: 4.3 Consensus size: 13
702088 AATGACGCTC
702098 AATGAGCGTCATA
1 AATGAGCGTCATA
*
702111 AATGAGCATCATA
1 AATGAGCGTCATA
* *
702124 AATGTGTGTCATA
1 AATGAGCGTCATA
*
702137 AATGAGTGTCATA
1 AATGAGCGTCATA
702150 AATG
1 AATG
702154 TTCGTCATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (13 bp):
AATGAGCGTCATA
Found at i:702134 original size:26 final size:26
Alignment explanation
Indices: 702104--702162 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
702094 GCTCAATGAG
702104 CGTCATAAATGAGCATCATAAATGTGT
1 CGTCATAAATGAGCATCATAAATGT-T
**
702131 -GTCATAAATGAGTGTCATAAATGTT
1 CGTCATAAATGAGCATCATAAATGTT
702156 CGTCATA
1 CGTCATA
702163 GATTTATGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 1 0.03
26 28 0.97
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (26 bp):
CGTCATAAATGAGCATCATAAATGTT
Found at i:702160 original size:13 final size:13
Alignment explanation
Indices: 702104--702162 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
702094 GCTCAATGAG
**
702104 CGTCATAAATGAG
1 CGTCATAAATGTT
*
702117 CATCATAAATGTGT
1 CGTCATAAATGT-T
*
702131 -GTCATAAATGAGT
1 CGTCATAAATG-TT
702144 -GTCATAAATGTT
1 CGTCATAAATGTT
702156 CGTCATA
1 CGTCATA
702163 GATTTATGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.03
13 36 0.97
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (13 bp):
CGTCATAAATGTT
Found at i:704621 original size:16 final size:16
Alignment explanation
Indices: 704602--704652 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
704592 AATGGCATTC
704602 AAAAGAAAAATAGAAA
1 AAAAGAAAAATAGAAA
* *
704618 AAAAGAAAAGTCG-AA
1 AAAAGAAAAATAGAAA
*
704633 GAAAGAAAAA-AGGAAA
1 AAAAGAAAAATA-GAAA
704649 AAAA
1 AAAA
704653 ACCAAATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 11 0.41
16 16 0.59
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (16 bp):
AAAAGAAAAATAGAAA
Found at i:710396 original size:21 final size:21
Alignment explanation
Indices: 710372--710430 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
710362 TTTGTTCGGG
* *
710372 TTTAGCTTTTGGGTTTTAGGA
1 TTTAGATTTTGGATTTTAGGA
* *
710393 TTTAGATTTAGGATTTTAGGG
1 TTTAGATTTTGGATTTTAGGA
*
710414 TTTAAGGTTTTGGATTT
1 TTT-AGATTTTGGATTT
710431 GGGGTAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.19, C:0.02, G:0.27, T:0.53
Consensus pattern (21 bp):
TTTAGATTTTGGATTTTAGGA
Found at i:716059 original size:21 final size:20
Alignment explanation
Indices: 716008--716060 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
715998 TTTGAGTGAG
*
716008 GGTATCGATACCATATGAAT
1 GGTATCGATACCATATGAAC
*
716028 GGTATCAATACCATATGAAC
1 GGTATCGATACCATATGAAC
716048 GAGTATCGATACC
1 G-GTATCGATACC
716061 TTAAGGAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (20 bp):
GGTATCGATACCATATGAAC
Found at i:716597 original size:21 final size:23
Alignment explanation
Indices: 716571--716613 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
716561 TTTGATATGA
716571 GTATATGTGATAT-A-TGTTATT
1 GTATATGTGATATGATTGTTATT
*
716592 GTATATGTTATATGATTGTTAT
1 GTATATGTGATATGATTGTTAT
716614 GAATACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 1 0.05
23 6 0.32
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (23 bp):
GTATATGTGATATGATTGTTATT
Found at i:717093 original size:23 final size:24
Alignment explanation
Indices: 717060--717109 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
717050 TGTGTTATAT
* *
717060 GTGGTCTTTCGAGAC-ATTTCTAC
1 GTGGTCCTTCGAGACAAATTCTAC
717083 GTGGTCCTTCGAGACAAATTCTAC
1 GTGGTCCTTCGAGACAAATTCTAC
717107 GTG
1 GTG
717110 CCCCTAGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (24 bp):
GTGGTCCTTCGAGACAAATTCTAC
Found at i:717951 original size:66 final size:66
Alignment explanation
Indices: 717807--717939 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
717797 AAAGTCAATG
*
717807 TGACACCTTGGACTCAGATCCAGGTCGGATACGGGTTAGGGTGTTACATCATCTGCCACGTTAAT
1 TGACACCTTGGACTCAGATCCAGGTCAGATACGGGTTAGGGTGTTACATCATCTGCCACGTTAAT
717872 A
66 A
* * *
717873 TGACACCTTGGACTCAGATCCAGGTTAGATACGGGTTGGGGTGTTACATCATCTGCCATGTTAAT
1 TGACACCTTGGACTCAGATCCAGGTCAGATACGGGTTAGGGTGTTACATCATCTGCCACGTTAAT
717938 A
66 A
717939 T
1 T
717940 TCCACCCTGG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (66 bp):
TGACACCTTGGACTCAGATCCAGGTCAGATACGGGTTAGGGTGTTACATCATCTGCCACGTTAAT
A
Found at i:719442 original size:22 final size:22
Alignment explanation
Indices: 719415--719463 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
719405 ACCGTGTGCG
719415 TTTTGACTATCAATTTAATGCT
1 TTTTGACTATCAATTTAATGCT
719437 TTTTGACTATCAATTTAATGCT
1 TTTTGACTATCAATTTAATGCT
719459 TTTTG
1 TTTTG
719464 TTATTGTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.53
Consensus pattern (22 bp):
TTTTGACTATCAATTTAATGCT
Found at i:723047 original size:16 final size:16
Alignment explanation
Indices: 723026--723059 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
723016 TGTCTTTCCC
723026 TAACAATAATAAGGAT
1 TAACAATAATAAGGAT
723042 TAACAATAATAAGGAT
1 TAACAATAATAAGGAT
723058 TA
1 TA
723060 CATAGAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (16 bp):
TAACAATAATAAGGAT
Found at i:723906 original size:15 final size:15
Alignment explanation
Indices: 723886--723917 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
723876 AAGGAGGAGG
*
723886 AGGAGAATAAGAAGA
1 AGGAGAAGAAGAAGA
723901 AGGAGAAGAAGAAGA
1 AGGAGAAGAAGAAGA
723916 AG
1 AG
723918 AATTAAGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (15 bp):
AGGAGAAGAAGAAGA
Found at i:726960 original size:35 final size:33
Alignment explanation
Indices: 726916--726999 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 33
726906 TAGACATTAT
* *
726916 TTTAGCTACTTTTTAGTGCTCAATTAATGCACTA
1 TTTAGCTACTTTTTAATGCTC-ACTAATGCACTA
* *
726950 TTATAGCTACTTTTCAATGCTCACTAATGCACCA
1 TT-TAGCTACTTTTTAATGCTCACTAATGCACTA
*
726984 TTTCAACTACTTTTTA
1 TTT-AGCTACTTTTTA
727000 TATGTCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
33 1 0.02
34 24 0.57
35 17 0.40
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.43
Consensus pattern (33 bp):
TTTAGCTACTTTTTAATGCTCACTAATGCACTA
Found at i:729411 original size:23 final size:24
Alignment explanation
Indices: 729373--729430 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
729363 GATCCCTAAC
*
729373 AAACTAAAAATCCTAATTAAT-GA
1 AAACTAAAAATCCTAAATAATAGA
* * *
729396 ATATTAAAAATTCTAAATAATAGA
1 AAACTAAAAATCCTAAATAATAGA
729420 AAACTAAAAAT
1 AAACTAAAAAT
729431 ACTATGCAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 17 0.61
24 11 0.39
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.28
Consensus pattern (24 bp):
AAACTAAAAATCCTAAATAATAGA
Found at i:734997 original size:3 final size:3
Alignment explanation
Indices: 734989--735069 Score: 153
Period size: 3 Copynumber: 27.0 Consensus size: 3
734979 AGAAACTAAT
734989 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
*
735037 TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
735070 AATATATATT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:735081 original size:11 final size:11
Alignment explanation
Indices: 735065--735096 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
735055 TTATTATTAT
735065 TATTAAATATA
1 TATTAAATATA
735076 TATTAAATATA
1 TATTAAATATA
735087 TATATAAATA
1 TAT-TAAATA
735097 ATTAATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAAATATA
Found at i:736705 original size:90 final size:88
Alignment explanation
Indices: 736566--736730 Score: 195
Period size: 90 Copynumber: 1.9 Consensus size: 88
736556 TATTTAGTTT
* * * * * *
736566 TCAATATCAAAGAACAGTACAGTCTTAATACAACTGGATGTCCTGTTCTGGTATTTTAAAATTAA
1 TCAATATCAAAGAAAAGAACAGTCTTAAGACAACTAGAAGTCCTGTTCTGATATTTTAAAA-TAA
736631 ACAATATATTTTAAATTAATATTTA
65 ACAA-ATATTTTAAATTAATATTTA
* * * * * *
736656 TCAATATCAAAGAAAAGAACTGTCTTAAGGCACCTAGAAGTTCTTTTCTGATATTTTTAAATAAA
1 TCAATATCAAAGAAAAGAACAGTCTTAAGACAACTAGAAGTCCTGTTCTGATATTTTAAAATAAA
*
736721 TAAATATTTT
66 CAAATATTTT
736731 TTTATATAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
88 7 0.11
89 6 0.10
90 49 0.79
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (88 bp):
TCAATATCAAAGAAAAGAACAGTCTTAAGACAACTAGAAGTCCTGTTCTGATATTTTAAAATAAA
CAAATATTTTAAATTAATATTTA
Found at i:737263 original size:18 final size:18
Alignment explanation
Indices: 737215--737264 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
737205 TTCTTTTCAA
737215 ATTTTTA-TTTATTTATT
1 ATTTTTATTTTATTTATT
**
737232 ATTTTTATACTATTTA-T
1 ATTTTTATTTTATTTATT
737249 ATGTTTTATTTTATTT
1 AT-TTTTATTTTATTT
737265 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 10 0.37
18 17 0.63
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (18 bp):
ATTTTTATTTTATTTATT
Found at i:737286 original size:13 final size:15
Alignment explanation
Indices: 737255--737291 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
737245 TTATATGTTT
737255 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
737270 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
737283 TA-TTTATTT
1 TATTTTATTT
737292 TTCTGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:747921 original size:1 final size:1
Alignment explanation
Indices: 747917--747982 Score: 114
Period size: 1 Copynumber: 66.0 Consensus size: 1
747907 AAAAATGAAG
* *
747917 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
747982 A
1 A
747983 GGGGGGTCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:747983 original size:21 final size:20
Alignment explanation
Indices: 747905--747982 Score: 115
Period size: 19 Copynumber: 4.0 Consensus size: 20
747895 ATGCTTGAAG
* *
747905 AAAAAAATGAAGAAAAAAAA
1 AAAAAAAAGAAAAAAAAAAA
747925 AAAAAAAA-AAAAAAAAAAA
1 AAAAAAAAGAAAAAAAAAAA
*
747944 AAAAAAAA-AAAAAAAAAAG
1 AAAAAAAAGAAAAAAAAAAA
747963 AAAAAAAAGAAAAAAAAAAA
1 AAAAAAAAGAAAAAAAAAAA
747983 GGGGGGTCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 36 0.68
20 17 0.32
ACGTcount: A:0.94, C:0.00, G:0.05, T:0.01
Consensus pattern (20 bp):
AAAAAAAAGAAAAAAAAAAA
Found at i:749363 original size:83 final size:84
Alignment explanation
Indices: 749127--749605 Score: 790
Period size: 83 Copynumber: 5.7 Consensus size: 84
749117 AACTGGAACA
* *
749127 AAGATGAATGTGCTCAATAGCATCTTTTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
749192 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTGG
*
749211 AAGAAT-AAGGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
1 AAG-ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
*
749275 GAACCAATCATTGAGTTTGG
65 GAACCAATCATTGAATTTGG
*
749295 AAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
749359 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTGG
*
749378 AAGAAT-AAGGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
1 AAG-ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
*
749442 GAACCAATCATTGAGTTTGG
65 GAACCAATCATTGAATTTGG
*
749462 AAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CA
1 AAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACA
*
749525 GAACCAATCATTGAATGTGG
65 GAACCAATCATTGAATTTGG
*
749545 AAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGGTTGG
1 AAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-GGTTGG
749606 TAGGAATTAC
Statistics
Matches: 373, Mismatches: 14, Indels: 17
0.92 0.03 0.04
Matches are distributed among these distances:
83 202 0.54
84 169 0.45
85 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (84 bp):
AAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
AACCAATCATTGAATTTGG
Found at i:749416 original size:167 final size:167
Alignment explanation
Indices: 749127--749605 Score: 847
Period size: 167 Copynumber: 2.9 Consensus size: 167
749117 AACTGGAACA
* * *
749127 AAGATGAATGTGCTCAATAGCATCTTTTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
749192 AACCAATCATTGAATTTGGAAGAATAAGGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTT
65 AACCAATCATTGAATTTGGAAGAATAAGGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTT
749257 ATCTGATCTGGTTGGACAGAACCAATCATTGAGTTTGG
130 ATCTGATCTGGTTGGACAGAACCAATCATTGAGTTTGG
749295 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
749360 ACCAATCATTGAATTTGGAAGAATAAGGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
66 ACCAATCATTGAATTTGGAAGAATAAGGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
749425 TCTGATCTGGTTGGACAGAACCAATCATTGAGTTTGG
131 TCTGATCTGGTTGGACAGAACCAATCATTGAGTTTGG
749462 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
* **
749526 AACCAATCATTGAATGTGGAAG-ATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGT
65 AACCAATCATTGAATTTGGAAGAAT-AAGGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGT
749589 TATCTGATCTGGGTTGG
129 TATCTGATCT-GGTTGG
749606 TAGGAATTAC
Statistics
Matches: 302, Mismatches: 6, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
166 43 0.14
167 244 0.81
168 15 0.05
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (167 bp):
AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACCAATCATTGAATTTGGAAGAATAAGGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
TCTGATCTGGTTGGACAGAACCAATCATTGAGTTTGG
Found at i:750524 original size:114 final size:113
Alignment explanation
Indices: 750354--750997 Score: 878
Period size: 114 Copynumber: 5.6 Consensus size: 113
750344 GAAAAGGTTT
* *
750354 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCT
1 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCT
*** * * *** **
750419 TTT-ACCTGAATTCATCAAATTGATGGATTATTTTTTTCAGAGAAAGTTC
66 TTTGGTTTGAATTCATC-ATTTGATGGATCAACATTGCCAG-GAAAGTTC
* *
750468 ATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCT
1 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCT
*
750533 TTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTC
66 TTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGG-AAAGTTC
750582 ATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
1 ATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
*
750647 CCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGTCAGGAAGAGTTC
63 CCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAA-AGTTC
* *
750699 ATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
1 ATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
* * * * * *** *
750764 CCTTTT-ATCTGAATTCATCACTGGATGGATTATTTTTTCCAGAGAAAGTTC
63 CCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAG-GAAAGTTC
* *
750815 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTT
1 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCT
750880 TTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTC
66 TTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAA-AGTTC
* * *
750929 ATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATAAGAAGAACTTGTTCAACTT
1 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCT
750994 TTTG
66 TTTG
750998 CATAATTCTA
Statistics
Matches: 477, Mismatches: 44, Indels: 18
0.88 0.08 0.03
Matches are distributed among these distances:
113 56 0.12
114 200 0.42
115 10 0.02
116 46 0.10
117 165 0.35
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (113 bp):
ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCT
TTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAAGTTC
Found at i:751322 original size:3 final size:3
Alignment explanation
Indices: 751316--751408 Score: 168
Period size: 3 Copynumber: 30.7 Consensus size: 3
751306 TTTTTATCCA
751316 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
*
751362 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
751409 AATATATATT
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
3 84 0.97
4 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:751420 original size:11 final size:11
Alignment explanation
Indices: 751404--751435 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
751394 TTATTATTAT
751404 TATTAAATATA
1 TATTAAATATA
751415 TATTAAATATA
1 TATTAAATATA
751426 TATATAAATA
1 TAT-TAAATA
751436 ATTAATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAAATATA
Found at i:756406 original size:3 final size:3
Alignment explanation
Indices: 756385--756431 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
756375 TACAAATAGT
* * *
756385 ATA AT- ATA ATT AGA ATA ATA ATA ATA ATA ATA ATA AT- ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
756431 A
1 A
756432 AAAGGGACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:758203 original size:6 final size:6
Alignment explanation
Indices: 758192--758231 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
758182 AGGTGATAAC
758192 TAGGGA TAGGGA TAGGGA TAGGGA TAGGGA TAGGGA TAGG
1 TAGGGA TAGGGA TAGGGA TAGGGA TAGGGA TAGGGA TAGG
758232 AATGGGTAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.50, T:0.17
Consensus pattern (6 bp):
TAGGGA
Found at i:758303 original size:27 final size:27
Alignment explanation
Indices: 758263--758314 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
758253 TGTTCACTCG
*
758263 ACTCGACTAAAAAAGTATAAATCTTTC
1 ACTCGACTAAAAAAATATAAATCTTTC
** *
758290 ACTCGACTCGAAAAATATACATCTT
1 ACTCGACTAAAAAAATATAAATCTT
758315 CTACCTGACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
ACTCGACTAAAAAAATATAAATCTTTC
Found at i:758402 original size:19 final size:19
Alignment explanation
Indices: 758378--758438 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
758368 GACCCTATCC
758378 AAAATAATATATTTATTAA
1 AAAATAATATATTTATTAA
* *
758397 AAAATATTATTTTTATTCAA
1 AAAATAATATATTTATT-AA
758417 TAAAA-AA-ATATTTAATTAA
1 -AAAATAATATATTT-ATTAA
758436 AAA
1 AAA
758439 TAAAATAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.09
19 22 0.63
20 6 0.17
21 4 0.11
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATAATATATTTATTAA
Found at i:762955 original size:59 final size:59
Alignment explanation
Indices: 762819--762971 Score: 143
Period size: 59 Copynumber: 2.6 Consensus size: 59
762809 TGACTTTTTA
* *
762819 TGATTCGAAA-TGTCGTGAATCGA-GCAATAGGAAATATTAATCCCTTAAATGGGGAGTTAC
1 TGATTC-AAAGTGTTGTGAATC-ATGCAA-AGGAAATATTAATCCCTTAAATGGGCAGTTAC
** ** * * * *
762879 TGATTCGGAGTACTGTGAATCCTGCAAAGGAAATGTTAATCCCTTAAGTGTGGCA-TTGC
1 TGATTCAAAGTGTTGTGAATCATGCAAAGGAAATATTAATCCCTTAAATG-GGCAGTTAC
762938 TGATTCAAAGTGTTGTGAATCGAT-CAAAGGAAAT
1 TGATTCAAAGTGTTGTGAATC-ATGCAAAGGAAAT
762972 TACAAAACAT
Statistics
Matches: 74, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
59 52 0.70
60 22 0.30
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (59 bp):
TGATTCAAAGTGTTGTGAATCATGCAAAGGAAATATTAATCCCTTAAATGGGCAGTTAC
Found at i:763096 original size:42 final size:41
Alignment explanation
Indices: 762995--763100 Score: 106
Period size: 42 Copynumber: 2.6 Consensus size: 41
762985 GCCCGAAGGT
* * * * *
762995 CTTATGGATGGCCTAAAGGACTTATCATCTTACTCGAAATA
1 CTTATAGATGGCCTGAAGGACTTAGCATCATACTCGAAACA
* * * *
763036 CTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAACA
1 CTTATAGATGGCCTGAAGGACTT-AGCATCATACTCGAAACA
763078 CTTACT-GATGGCCTGAAGGACTT
1 CTTA-TAGATGGCCTGAAGGACTT
763101 TTGTTGATTT
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
41 18 0.35
42 32 0.63
43 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
CTTATAGATGGCCTGAAGGACTTAGCATCATACTCGAAACA
Found at i:763184 original size:286 final size:286
Alignment explanation
Indices: 762644--763201 Score: 773
Period size: 286 Copynumber: 2.0 Consensus size: 286
762634 CCTCGATTGA
* *
762644 GGCATTGCTGATTCGAAATGTTGTGAATGGAGCAAAGGAAATGTGAAAACATCATGCCAGAAGGT
1 GGCATTGCTGATTCGAAATGTTGTGAATCGAGCAAAGGAAATGTCAAAACATCATGCCAGAAGGT
* * *
762709 CTTAAGGACATCCAAGAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCTGAAGGATTTA
66 CTTAAGGACAGCCAAGAGGACTTATCATCTTACTCGAAAGACTTATAGATGACCCGAAGGATTTA
* * *
762774 AGCATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTTTTATGATTCGAAATGTCGTGAAT
131 AGCATCATGCTCGAAACACTTACTGATGGCCCGAAGGACTTTTTATGATTCGAAATGCCGTGAAT
* * * * * *
762839 CGAGCAATAGGAAATATTAATCCCTTAAATGGGGAGTTACTGATTCGGAGTACTGTGAATCCTGC
196 CGAGCAATAGAAAATATTAATCCCTCAAATGAGGAGTTACTGATTCGAAATACTGTGAATCCAGC
762904 AAAGGAAATGTTAATCCCTTAAGTGT
261 AAAGGAAATGTTAATCCCTTAAGTGT
* *
762930 GGCATTGCTGATTC-AAAGTGTTGTGAATCGATCAAAGGAAAT-TACAAAACATCATGCCCGAAG
1 GGCATTGCTGATTCGAAA-TGTTGTGAATCGAGCAAAGGAAATGT-CAAAACATCATGCCAGAAG
* ** *
762993 GTCTTATGGATGGCCTAA-AGGACTTATCATCTTACTCGAAATACTTATAGATGACCCGAAGGAT
64 GTCTTAAGGACAGCC-AAGAGGACTTATCATCTTACTCGAAAGACTTATAGATGACCCGAAGGAT
* *
763057 TTAAGCATCATGCTCGAAACACTTACTGATGGCCTGAAGGACTTTTGT-TGATTTGAAATGCCGT
128 TTAAGCATCATGCTCGAAACACTTACTGATGGCCCGAAGGACTTTT-TATGATTCGAAATGCCGT
* * * * * * **
763121 GAATCGAGCAATAGAAAATGTTGATCCCTCATATGAGGTGTTGCTGATTTGAAATGTTGTGAATC
192 GAATCGAGCAATAGAAAATATTAATCCCTCAAATGAGGAGTTACTGATTCGAAATACTGTGAATC
*
763186 GAGCAAAGGAAATGTT
257 CAGCAAAGGAAATGTT
763202 GAAAACATCC
Statistics
Matches: 237, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
285 4 0.02
286 230 0.97
287 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (286 bp):
GGCATTGCTGATTCGAAATGTTGTGAATCGAGCAAAGGAAATGTCAAAACATCATGCCAGAAGGT
CTTAAGGACAGCCAAGAGGACTTATCATCTTACTCGAAAGACTTATAGATGACCCGAAGGATTTA
AGCATCATGCTCGAAACACTTACTGATGGCCCGAAGGACTTTTTATGATTCGAAATGCCGTGAAT
CGAGCAATAGAAAATATTAATCCCTCAAATGAGGAGTTACTGATTCGAAATACTGTGAATCCAGC
AAAGGAAATGTTAATCCCTTAAGTGT
Found at i:763472 original size:57 final size:56
Alignment explanation
Indices: 763399--763760 Score: 284
Period size: 57 Copynumber: 6.6 Consensus size: 56
763389 CATAAAACCC
*
763399 CCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCTTTGGAAATAATCATCAAGAAA
1 CCCCTAAAAATCAGGCTTAGCTTCTTTAAAAATTCTTTGGAAATAA-CATCAAGAAA
* *
763456 CCCCTAGAAATCAGGCTTAG-TATCTTTAAAAATTCTTTGTAAATAATCATCAAGAAA
1 CCCCTAAAAATCAGGCTTAGCT-TCTTTAAAAATTCTTTGGAAATAA-CATCAAGAAA
* * * * *
763513 CCCCTGAAAATCAGGCTAAG-TT-TCTAAAAACTCGTCAT-G-AA-AACATCAAGAAA
1 CCCCTAAAAATCAGGCTTAGCTTCTTTAAAAATTC-T-TTGGAAATAACATCAAGAAA
* * * * * *
763566 CCCTTAAAAATTAGGCTTAGCGT-ATTCAAAACTCATTTGGAAATAAACATCAAGAAA
1 CCCCTAAAAATCAGGCTTAGCTTCTTTAAAAATTC-TTTGGAAAT-AACATCAAGAAA
* * * *
763623 GCCCTGAAAATCAGGCTTAACTTCTTTAAACTATT-TTT-G-AA-AACATCAAGAAA
1 CCCCTAAAAATCAGGCTTAGCTTCTTTAAA-AATTCTTTGGAAATAACATCAAGAAA
* * * * * *
763676 CCCCTAAAAATTAGGCTTAGATTATTTCACAATTCATTT-G-AA-CACATCAAGAAA
1 CCCCTAAAAATCAGGCTTAGCTTCTTTAAAAATTC-TTTGGAAATAACATCAAGAAA
* * ** *
763730 CCTCTGAAAATCAAACATAGCTTCTTTAAAA
1 CCCCTAAAAATCAGGCTTAGCTTCTTTAAAA
763761 TTCATATAGA
Statistics
Matches: 243, Mismatches: 50, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
52 3 0.01
53 61 0.25
54 51 0.21
55 15 0.06
56 4 0.02
57 103 0.42
58 4 0.02
59 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.28
Consensus pattern (56 bp):
CCCCTAAAAATCAGGCTTAGCTTCTTTAAAAATTCTTTGGAAATAACATCAAGAAA
Found at i:763584 original size:110 final size:110
Alignment explanation
Indices: 763446--763695 Score: 306
Period size: 110 Copynumber: 2.3 Consensus size: 110
763436 TGGAAATAAT
* * * * * * *
763446 CATCAAGAAACCCCTAGAAATCAGGCTTAGTATCTTTAAAAATTC-TTTGTAAATAATCATCAAG
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCAT-ATTAAAAACTCATTTGGAAATAAACATCAAG
* *
763510 AAACCCCTGAAAATCAGGC-TAAGTTTCTAAAAACTCGTCATGAAAA
65 AAACCCCTGAAAATCAGGCTTAA-CTTCTAAAAACTAGTCATGAAAA
* * *
763556 CATCAAGAAACCCTTAAAAATTAGGCTTAGCGTATTCAAAACTCATTTGGAAATAAACATCAAGA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCATATTAAAAACTCATTTGGAAATAAACATCAAGA
* ** * **
763621 AAGCCCTGAAAATCAGGCTTAACTTCTTTAAACTATTTTTGAAAA
66 AACCCCTGAAAATCAGGCTTAACTTCTAAAAACTAGTCATGAAAA
763666 CATCAAGAAACCCCTAAAAATTAGGCTTAG
1 CATCAAGAAACCCCTAAAAATTAGGCTTAG
763696 ATTATTTCAC
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
109 8 0.07
110 108 0.91
111 3 0.03
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (110 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGCATATTAAAAACTCATTTGGAAATAAACATCAAGA
AACCCCTGAAAATCAGGCTTAACTTCTAAAAACTAGTCATGAAAA
Found at i:765051 original size:15 final size:16
Alignment explanation
Indices: 765033--765066 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
765023 TTCTTCTTTA
*
765033 TTTCTTTTT-TTTGTT
1 TTTCTTTTTGTGTGTT
765048 TTTCTTTTTGTGTGTT
1 TTTCTTTTTGTGTGTT
765064 TTT
1 TTT
765067 TTTATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.82
Consensus pattern (16 bp):
TTTCTTTTTGTGTGTT
Found at i:766200 original size:21 final size:21
Alignment explanation
Indices: 766174--766217 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
766164 GTTGAGATGC
766174 AATGTATATAATG-TAATGTAA
1 AATGTATA-AATGCTAATGTAA
766195 AATGTATAAATGCTAATGTAA
1 AATGTATAAATGCTAATGTAA
766216 AA
1 AA
766218 ATGCACATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (21 bp):
AATGTATAAATGCTAATGTAA
Found at i:770517 original size:36 final size:36
Alignment explanation
Indices: 770476--770568 Score: 87
Period size: 42 Copynumber: 2.4 Consensus size: 36
770466 GGATTTAGGC
* *
770476 TTAGTTTGGTTGGGCTGTTTGGGTTCTGGTTGGGTT
1 TTAGTTTGGTTGGGCTATTTGGGTTCTAGTTGGGTT
*
770512 TTAGTTTAGTAGGGTTGGGGTTATTTGGGTTCTAGTTGGGTT
1 TTAG-TT--T--GGTT-GGGCTATTTGGGTTCTAGTTGGGTT
*
770554 TTAGGTTTAGTTGGG
1 TTA-GTTTGGTTGGG
770569 TTGAAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
36 4 0.09
37 5 0.11
38 3 0.07
39 1 0.02
40 1 0.02
41 4 0.09
42 27 0.59
43 1 0.02
ACGTcount: A:0.09, C:0.03, G:0.40, T:0.48
Consensus pattern (36 bp):
TTAGTTTGGTTGGGCTATTTGGGTTCTAGTTGGGTT
Found at i:772013 original size:18 final size:18
Alignment explanation
Indices: 771955--772006 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
771945 AAATCAGGTG
771955 ATTTTAATAAAATATTAT
1 ATTTTAATAAAATATTAT
771973 ATTTTAATAAAATATTAT
1 ATTTTAATAAAATATTAT
771991 ATTTTAATAAAATATT
1 ATTTTAATAAAATATT
772007 GAGTTTTGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTAATAAAATATTAT
Found at i:772812 original size:16 final size:15
Alignment explanation
Indices: 772791--772820 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
772781 AAACTTAATT
772791 AAAATAATTAAAATAA
1 AAAATAA-TAAAATAA
772807 AAAATAATAAAATA
1 AAAATAATAAAATA
772821 GTAAAAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAATAAAATAA
Found at i:772826 original size:16 final size:16
Alignment explanation
Indices: 772790--772858 Score: 50
Period size: 17 Copynumber: 4.1 Consensus size: 16
772780 TAAACTTAAT
772790 TAAAATAATTAAAATA
1 TAAAATAATTAAAATA
*
772806 AAAAATAA-TAAAATA
1 TAAAATAATTAAAATA
***
772821 GTAAAAATACCCAAAAATA
1 -T-AAAATA-ATTAAAATA
*
772840 TAAAGAAAATTAAAATA
1 TAAA-ATAATTAAAATA
772857 TA
1 TA
772859 CAAGGACTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
15 7 0.17
16 7 0.17
17 17 0.43
18 3 0.08
19 6 0.15
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.23
Consensus pattern (16 bp):
TAAAATAATTAAAATA
Found at i:774158 original size:3 final size:3
Alignment explanation
Indices: 774152--774196 Score: 63
Period size: 3 Copynumber: 14.0 Consensus size: 3
774142 TTGGATCATG
774152 TAA TAA TAA TAA TAA TAA GTTAA TCAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA --TAA T-AA TAA TAA TAA TAA TAA TAA
774197 ATATTATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 33 0.85
4 3 0.08
5 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:774834 original size:133 final size:133
Alignment explanation
Indices: 774542--774939 Score: 486
Period size: 133 Copynumber: 3.0 Consensus size: 133
774532 ATTAGGGCAT
* * * * * * * *
774542 ACTTGTTCTGTTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGGGATCTATTCTACTTTTTCT
1 ACTTGTTCTGTTGTCACTCAGGGAATATCAAATCTTTGAAAATAGGGATTTGTTCCACTTCTTCA
* * *
774607 GAAGGGAATATCAGATTTGGGGGA-GTTGATCGATT-TCACTATCACTCAGGGAAGATTGAATCT
66 GAAGGGAATATCAGATCTGGGGGATG-TGATCCATTCT-A-TATCACTCAGGGAAGATTAAATC-
774670 A-GGTAG
127 AGGGTAG
* *
774676 ACTTGTTCCGTTGAT-ACTCAGGGAATATTAAATCTTTGAAAATAGGGATTTGTTCCACTTCTTC
1 ACTTGTTCTGTTG-TCACTCAGGGAATATCAAATCTTTGAAAATAGGGATTTGTTCCACTTCTTC
* *
774740 GGAAGGAAATATCAGATCT-GGGGATGTGATCCATTCTGATATCACTCAGGGAAGATTAAATCAG
65 AGAAGGGAATATCAGATCTGGGGGATGTGATCCATTCT-ATATCACTCAGGGAAGATTAAATCAG
774804 GGTAG
129 GGTAG
* *
774809 ACTTGTTCTGTTGTCACTTAAGGAATATCAAATCTTTGAAAAGT-GGGATTTGTTCCACTTCTTC
1 ACTTGTTCTGTTGTCACTCAGGGAATATCAAATCTTTGAAAA-TAGGGATTTGTTCCACTTCTTC
* * * *
774873 AGAAGGGAATATCAGATCTGGGGGATGTGATCCATTCCTTTGTCACTCAGAGAAGATTTAATC-G
65 AGAAGGGAATATCAGATCTGGGGGATGTGATCCATT-CTATATCACTCAGGGAAGATTAAATCAG
774937 GGT
129 GGT
774940 TCGATTTGCT
Statistics
Matches: 231, Mismatches: 25, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
132 2 0.01
133 117 0.51
134 109 0.47
135 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (133 bp):
ACTTGTTCTGTTGTCACTCAGGGAATATCAAATCTTTGAAAATAGGGATTTGTTCCACTTCTTCA
GAAGGGAATATCAGATCTGGGGGATGTGATCCATTCTATATCACTCAGGGAAGATTAAATCAGGG
TAG
Found at i:787030 original size:16 final size:16
Alignment explanation
Indices: 787009--787039 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
786999 AACTTAATTA
*
787009 AAATAATTAAAATAAC
1 AAATAATAAAAATAAC
787025 AAATAATAAAAATAA
1 AAATAATAAAAATAA
787040 TAAAAAGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAATAAAAATAAC
Found at i:787037 original size:25 final size:25
Alignment explanation
Indices: 787003--787079 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
786993 GTAATAAACT
*
787003 TAATTAAAATAATTAAAATAACAAA
1 TAATAAAAATAATTAAAATAACAAA
* *
787028 TAATAAAAATAATAAAAAGAACAAA
1 TAATAAAAATAATTAAAATAACAAA
*
787053 AAATATAAAGA-ATATTAAAATATACAA
1 TAATA-AAA-ATA-ATTAAAATA-ACAA
787080 TGACTTAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
25 26 0.62
26 4 0.10
27 8 0.19
28 4 0.10
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.23
Consensus pattern (25 bp):
TAATAAAAATAATTAAAATAACAAA
Found at i:789746 original size:86 final size:85
Alignment explanation
Indices: 789578--789746 Score: 187
Period size: 86 Copynumber: 2.0 Consensus size: 85
789568 CGAATTAGGA
** * * * * * *
789578 ATCCTTTAGTGGGAGGAGTAAATCAATTGAGGATTACTACTTGGCGTCATTCAATGAAAGGAGCA
1 ATCCTTTAAAGGGAAGAGAAAATCAATTCAGGATTACGACTTGGCATCATTCAAAGAAAGGAGCA
* *
789643 AGATAGTTCTTCTATTTGAC
66 AGATAGTTATTCGATTTGAC
* * * *
789663 ATCCTTTAAAGGGAAGAGAAAATCAATTCATTGATTACGACTTGGCATCCTTCAAAGAAATGAGT
1 ATCCTTTAAAGGGAAGAGAAAATCAATTCA-GGATTACGACTTGGCATCATTCAAAGAAAGGAGC
789728 AAGATCA-TTATTCGATTTG
65 AAGAT-AGTTATTCGATTTG
789747 GTATCGTTCG
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
85 25 0.37
86 42 0.62
87 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (85 bp):
ATCCTTTAAAGGGAAGAGAAAATCAATTCAGGATTACGACTTGGCATCATTCAAAGAAAGGAGCA
AGATAGTTATTCGATTTGAC
Found at i:792454 original size:20 final size:18
Alignment explanation
Indices: 792428--792481 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
792418 CAAAAAAATT
792428 ATTATTTTTTGTATTTATA
1 ATTATTTTTT-TATTTATA
* *
792447 ATTTATTTATTTATTTCTA
1 A-TTATTTTTTTATTTATA
*
792466 AATA-TTTTTTATTTAT
1 ATTATTTTTTTATTTAT
792482 TTATTTCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 10 0.34
18 2 0.07
19 9 0.31
20 8 0.28
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTATTTTTTTATTTATA
Found at i:793854 original size:2 final size:2
Alignment explanation
Indices: 793849--793880 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
793839 TATGTAATTG
793849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
793881 TCAACCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:808724 original size:21 final size:21
Alignment explanation
Indices: 808700--808739 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
808690 TAAATTTTTA
808700 TTTTGATTAAATTTAATATAT
1 TTTTGATTAAATTTAATATAT
808721 TTTTGATTAAATTTAATAT
1 TTTTGATTAAATTTAATAT
808740 GTTATTGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTGATTAAATTTAATATAT
Found at i:812046 original size:21 final size:21
Alignment explanation
Indices: 812012--812051 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
812002 ATTGTTCAAT
*
812012 TTTTTAGTAATTTAATTTTCA
1 TTTTTACTAATTTAATTTTCA
* *
812033 TTTTTACTATTTTATTTTT
1 TTTTTACTAATTTAATTTT
812052 TGTGTGTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (21 bp):
TTTTTACTAATTTAATTTTCA
Found at i:812174 original size:2 final size:2
Alignment explanation
Indices: 812167--812195 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
812157 CCATTTAATA
812167 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
812196 CCTGAGGGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:812433 original size:253 final size:239
Alignment explanation
Indices: 811955--812437 Score: 786
Period size: 253 Copynumber: 2.0 Consensus size: 239
811945 CGAACCGCTT
*
811955 TACCTGAGGGCTTAAGTTAGCTTGTTCATTCCCAACTCAATATATATATTGTTCAATTTTTTAGT
1 TACCTGAGGGCTTAAGTTAGCTTGTTCATTCCCAACTCAATATATATATTGTTCAATTTTTTAGC
*
812020 AATTTAATTTTCATTTTTACTATTTTATTTTTTGTGTGTTTTAGATTTTAAATTTAGAATAATGA
66 AATTTAATTTTCACTTTTACTATTTTATTTTTTGTGTGTTTTAGATTTTAAATTTAGAATAATGA
* *
812085 TTTTTTAATAAATAAATAAGCTCCTGAACTTTTTGATAATATATTTTTGTTATTATATTTTATTT
131 TTTTTTAATAAATAAACAAGCCCCTGAACTTTTTGATAATATATTTTTGTTATTATATTTTATTT
812150 GAAAATACCATTTAATAATATATATATATATATATATATATATA
196 GAAAATACCATTTAATAATATATATATATATATATATATATATA
812194 TACCTGAGGGCTTAAGTTAGCTTGTTCATTCCCCAACTCAATATATATATATAGTTCAATTTTTT
1 TACCTGAGGGCTTAAGTTAGCTTGTTCATT-CCCAACTCAATATATATAT-T-GTTCAA--TTTT
812259 TTAGCAATTTAATTTTCACTTTTACTATTTTTTATATTTTATAATTTGTGTGTTTTAGATTTTAA
61 TTAGCAATTTAATTTTCACTTTTACTA---TTT-TA--TT-T--TTTGTGTGTTTTAGATTTTAA
812324 ATTTAGAATAATGATTTTTTAATAAATAAACAAGCCCCTGAACTTTTTGATAATATATTTTTGTT
117 ATTTAGAATAATGATTTTTTAATAAATAAACAAGCCCCTGAACTTTTTGATAATATATTTTTGTT
* *
812389 ATTATATTTTATTTGAAAATGCCATTTAATTATATATATATATATATAT
182 ATTATATTTTATTTGAAAATACCATTTAATAATATATATATATATATAT
812438 TATTATCAGT
Statistics
Matches: 224, Mismatches: 6, Indels: 14
0.92 0.02 0.06
Matches are distributed among these distances:
239 30 0.13
240 19 0.08
241 1 0.00
242 6 0.03
244 29 0.13
247 3 0.01
248 2 0.01
250 2 0.01
251 1 0.00
253 131 0.58
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (239 bp):
TACCTGAGGGCTTAAGTTAGCTTGTTCATTCCCAACTCAATATATATATTGTTCAATTTTTTAGC
AATTTAATTTTCACTTTTACTATTTTATTTTTTGTGTGTTTTAGATTTTAAATTTAGAATAATGA
TTTTTTAATAAATAAACAAGCCCCTGAACTTTTTGATAATATATTTTTGTTATTATATTTTATTT
GAAAATACCATTTAATAATATATATATATATATATATATATATA
Found at i:812789 original size:138 final size:140
Alignment explanation
Indices: 812637--812897 Score: 384
Period size: 139 Copynumber: 1.9 Consensus size: 140
812627 GTTACAAAAC
*
812637 TTGTCACTATATAACATTTTTG-CACCAAAAAATAGGGAGAAAT-ATTTCTAATAGTATAAGTTT
1 TTGTCACTATATAACATTTTTGACACCAAAAAATACGGAGAAATGATTT-TAATAGTATAAGTTT
*
812700 TCATAATAATTAAAATATATAACTACAAA-AATAATTAATTACAAAAAACTTAAATTTTATTAAT
65 TCATAATAATTAAAATATATAACTAAAAATAATAATTAATTACAAAAAACTTAAATTTTATTAAT
812764 TACAATATATT
130 TACAATATATT
* * * * * *
812775 TTGTTACTATATAACATTTTTGACACTAAAAAATACGGTGAAATGGTTTTGATAGTATAATTTTT
1 TTGTCACTATATAACATTTTTGACACCAAAAAATACGGAGAAATGATTTTAATAGTATAAGTTTT
* * * *
812840 CATAATGATTAAAATATATAAGTAAAAATAATAATTTATTACAAAAAACTTGAATTTT
66 CATAATAATTAAAATATATAACTAAAAATAATAATTAATTACAAAAAACTTAAATTTT
812898 TTATTTAATG
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
138 21 0.19
139 57 0.53
140 30 0.28
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (140 bp):
TTGTCACTATATAACATTTTTGACACCAAAAAATACGGAGAAATGATTTTAATAGTATAAGTTTT
CATAATAATTAAAATATATAACTAAAAATAATAATTAATTACAAAAAACTTAAATTTTATTAATT
ACAATATATT
Found at i:815457 original size:14 final size:15
Alignment explanation
Indices: 815425--815476 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 15
815415 TGACCCGACC
**
815425 GAGTCAACTCGAACT
1 GAGTCAACTCGTTCT
815440 GAGTCAACTC-TTCT
1 GAGTCAACTCGTTCT
*
815454 GAGTCAACACGTT-T
1 GAGTCAACTCGTTCT
815468 GAGTCAACT
1 GAGTCAACT
815477 AGTTGACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (15 bp):
GAGTCAACTCGTTCT
Found at i:816593 original size:16 final size:17
Alignment explanation
Indices: 816567--816598 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
816557 GATATCCTGA
816567 TAAATCACCATGAATCT
1 TAAATCACCATGAATCT
816584 TAAA-CACCATGAATC
1 TAAATCACCATGAATC
816599 ATCATTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (17 bp):
TAAATCACCATGAATCT
Found at i:852406 original size:95 final size:95
Alignment explanation
Indices: 852240--852415 Score: 248
Period size: 95 Copynumber: 1.9 Consensus size: 95
852230 GATTCAATCA
*
852240 GTATCGGTACCCAAGCAATGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCAA
1 GTATCGGTACCCAAGCAATGTAGTATCAATACCATGGTAAGGGTATCGATACCAGGAAACATCAA
*
852305 ATCTAATTTTGGTATCGATATCGAATGAGG
66 AGCTAATTTTGGTATCGATATCGAATGAGG
* * ** *
852335 GTATCGGTA-CCATAGC-ATAGTATTATCAATACCATGGTGAGGGTATCGATACCAGGCTACTTC
1 GTATCGGTACCCA-AGCAAT-GTAGTATCAATACCATGGTAAGGGTATCGATACCAGGAAACATC
*
852398 GAAGCTAATTTTGGTATC
64 AAAGCTAATTTTGGTATC
852416 AATACTGGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
94 5 0.07
95 66 0.93
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (95 bp):
GTATCGGTACCCAAGCAATGTAGTATCAATACCATGGTAAGGGTATCGATACCAGGAAACATCAA
AGCTAATTTTGGTATCGATATCGAATGAGG
Found at i:852462 original size:95 final size:93
Alignment explanation
Indices: 852261--852481 Score: 230
Period size: 95 Copynumber: 2.3 Consensus size: 93
852251 CAAGCAATGT
* *
852261 AGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCAAATCTAATTTTGGTATCGATAT
1 AGTATCGATACCATGGT-AGGGTATCGATACCAGGAAACATCAAAGCTAATTTTGGTATCAATAT
** *
852326 CGAATGAGGGTATCGGTACCATAGCATAGT
65 CGAATGAGGGTATCAATACCATA-CATAGC
* * ** * *
852356 ATTATCAATACCATGGTGAGGGTATCGATACCAGGCTACTTCGAAGCTAATTTTGGTATCAATAC
1 AGTATCGATACCATGGT-AGGGTATCGATACCAGGAAACATCAAAGCTAATTTTGGTATCAATA-
* * *
852421 TGGAA-GGGGGTATCAATACCCTA-ATAGGGC
64 TCGAATGAGGGTATCAATACCATACATA--GC
*
852451 AGTATCGATACCATAGTAGGGGTATCGATAC
1 AGTATCGATACCATGGTA-GGGTATCGATAC
852482 TGAAGGGCTA
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
93 3 0.03
94 1 0.01
95 96 0.92
96 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (93 bp):
AGTATCGATACCATGGTAGGGTATCGATACCAGGAAACATCAAAGCTAATTTTGGTATCAATATC
GAATGAGGGTATCAATACCATACATAGC
Found at i:852477 original size:20 final size:20
Alignment explanation
Indices: 852427--852481 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
852417 ATACTGGAAG
* *
852427 GGGGTATCAATACCCTAATA
1 GGGGTATCGATACCATAATA
*
852447 GGGCAGTATCGATACCATAGTA
1 GGG--GTATCGATACCATAATA
852469 GGGGTATCGATAC
1 GGGGTATCGATAC
852482 TGAAGGGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (20 bp):
GGGGTATCGATACCATAATA
Found at i:852807 original size:18 final size:19
Alignment explanation
Indices: 852780--852826 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
852770 TAATATGAAT
* *
852780 TGTTTAATTGTTAA-AGTA
1 TGTTTTATTGTAAATAGTA
*
852798 TGTTTTATTGTAAATATTA
1 TGTTTTATTGTAAATAGTA
852817 TGTTTTATTG
1 TGTTTTATTG
852827 AATATATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (19 bp):
TGTTTTATTGTAAATAGTA
Found at i:852981 original size:45 final size:45
Alignment explanation
Indices: 852932--853194 Score: 359
Period size: 45 Copynumber: 5.9 Consensus size: 45
852922 GAATGTTATC
*
852932 GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGA
1 GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATGCTAGA
*
852977 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGA
1 GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATGCTAGA
* * * *
853022 GTTGAAATGCATATGGGTGCATTATCAACAGAAGAGCATGCTAAA
1 GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATGCTAGA
* * * *
853067 GTTGAAATGTATATGGGTACATTATCAATAGAAAAGTATACTA-C
1 GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATGCTAGA
* * * * *
853111 GTTGAAATGTATGTGGGTACATTATAAACAGAAAAGTATACTATA
1 GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATGCTAGA
* *
853156 GTTGAAATGCATATGGGTGCATTATCAATAGAAAA-TATG
1 GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATG
853195 ATATATTTTA
Statistics
Matches: 195, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
44 43 0.22
45 152 0.78
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.29
Consensus pattern (45 bp):
GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATGCTAGA
Found at i:852994 original size:90 final size:90
Alignment explanation
Indices: 852892--853176 Score: 333
Period size: 90 Copynumber: 3.2 Consensus size: 90
852882 TGAAAATACT
** * *
852892 AATGCATATGGGTGCACTATTGGCATG-AAAGAATGTTATCGTTGAAATGTATATGGGTACATTA
1 AATGCATATGGGTGCACTATTAACATGAAAAGTATGCTA-CGTTGAAATGTATATGGGTACATTA
*
852956 TCAACAGAAAAGTATGCTAGAGTTGA
65 TCAACAGAAAAGTATGCTAAAGTTGA
* * * * *
852982 AATGCATATGGGTGCATTATCAACA-GAAAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTA
1 AATGCATATGGGTGCACTATTAACATGAAAAGTATGCTA-CGTTGAAATGTATATGGGTACATTA
* *
853046 TCAACAGAAGAGCATGCTAAAGTTGA
65 TCAACAGAAAAGTATGCTAAAGTTGA
* * * * * * *
853072 AATGTATATGGGTACATTATCAATA-GAAAAGTATACTACGTTGAAATGTATGTGGGTACATTAT
1 AATGCATATGGGTGCACTATTAACATGAAAAGTATGCTACGTTGAAATGTATATGGGTACATTAT
* * *
853136 AAACAGAAAAGTATACTATAGTTGA
66 CAACAGAAAAGTATGCTAAAGTTGA
853161 AATGCATATGGGTGCA
1 AATGCATATGGGTGCA
853177 TTATCAATAG
Statistics
Matches: 166, Mismatches: 28, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
89 57 0.34
90 109 0.66
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (90 bp):
AATGCATATGGGTGCACTATTAACATGAAAAGTATGCTACGTTGAAATGTATATGGGTACATTAT
CAACAGAAAAGTATGCTAAAGTTGA
Found at i:858400 original size:22 final size:21
Alignment explanation
Indices: 858349--858418 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 21
858339 GCAAAAAATG
858349 GTATCGATACCATAG-A-AGA
1 GTATCGATACCATAGTATAGA
858368 GTATC-AGTACCATAGTATAGTA
1 GTATCGA-TACCATAGTATAG-A
* *
858390 GTATCGATACCATGGTATGGA
1 GTATCGATACCATAGTATAGA
858411 -TATCGATA
1 GTATCGATA
858419 TTGAGAAGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
18 1 0.02
19 13 0.30
20 9 0.20
21 3 0.07
22 17 0.39
23 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (21 bp):
GTATCGATACCATAGTATAGA
Found at i:860487 original size:10 final size:10
Alignment explanation
Indices: 860474--860504 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
860464 TTATATGTTA
860474 GTATATTGAT
1 GTATATTGAT
860484 GTATATTGAT
1 GTATATTGAT
*
860494 GTTTATTGAT
1 GTATATTGAT
860504 G
1 G
860505 GTTATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (10 bp):
GTATATTGAT
Found at i:860948 original size:19 final size:19
Alignment explanation
Indices: 860924--860964 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
860914 TGCAAAAATG
860924 GTATCGATACCATAGCATA
1 GTATCGATACCATAGCATA
* *
860943 GTATCGGTACCATAGTATA
1 GTATCGATACCATAGCATA
860962 GTA
1 GTA
860965 GTATCAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (19 bp):
GTATCGATACCATAGCATA
Found at i:860975 original size:22 final size:22
Alignment explanation
Indices: 860941--860982 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
860931 TACCATAGCA
**
860941 TAGTATCGGTACCATAGTATAG
1 TAGTATCAATACCATAGTATAG
*
860963 TAGTATCAATACCATGGTAT
1 TAGTATCAATACCATAGTAT
860983 GGGTATCGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (22 bp):
TAGTATCAATACCATAGTATAG
Found at i:861384 original size:54 final size:54
Alignment explanation
Indices: 861319--861702 Score: 597
Period size: 54 Copynumber: 7.1 Consensus size: 54
861309 TTACAAAATA
* *
861319 GGCACTGAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
861373 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATAAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
861427 GACACTAAGTGTGCATTTCTCGGAATTCATCCTATGTGGATGAATTACTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
861481 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
861535 AGCGCTAAGTGTGCATTTCACGGAATTCATCTTATGTGGATGAATAACCGTTTT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
**
861589 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
861643 GGCACCTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCATTTC
1 GGCA-CTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
861698 GGCAC
1 GGCAC
861703 AGTGTGTGTA
Statistics
Matches: 299, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
54 249 0.83
55 50 0.17
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:861835 original size:2 final size:2
Alignment explanation
Indices: 861828--861859 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
861818 AAGAATGATG
861828 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
861860 TGATTCCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:864521 original size:11 final size:11
Alignment explanation
Indices: 864481--864522 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
864471 TGTTTCATTC
864481 AAAT-ATTATA
1 AAATAATTATA
864491 AAATAATTA-A
1 AAATAATTATA
*
864501 ACAATTATTATA
1 A-AATAATTATA
864513 AAATAATTAT
1 AAATAATTAT
864523 TCTGAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 6 0.22
11 19 0.70
12 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATAATTATA
Found at i:864838 original size:21 final size:21
Alignment explanation
Indices: 864814--864859 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
864804 ACTTTACATG
864814 TATTTTAACCATGTTACCATA
1 TATTTTAACCATGTTACCATA
864835 TATTTTAACCATGTTACCATA
1 TATTTTAACCATGTTACCATA
864856 TATT
1 TATT
864860 AAAATGATAT
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:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (21 bp):
TATTTTAACCATGTTACCATA
Found at i:868526 original size:15 final size:15
Alignment explanation
Indices: 868506--868542 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
868496 ATGTCTCTGT
868506 CTGGTCATTAGTAAC
1 CTGGTCATTAGTAAC
868521 CTGGTCATTAGTAAC
1 CTGGTCATTAGTAAC
*
868536 CCGGTCA
1 CTGGTCA
868543 AAGTCCATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (15 bp):
CTGGTCATTAGTAAC
Found at i:875228 original size:13 final size:14
Alignment explanation
Indices: 875212--875240 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
875202 TATATAAAAG
875212 TTTTGTT-AAATTT
1 TTTTGTTAAAATTT
875225 TTTTGTTAAAATTT
1 TTTTGTTAAAATTT
875239 TT
1 TT
875241 ATAGCCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (14 bp):
TTTTGTTAAAATTT
Found at i:883769 original size:21 final size:23
Alignment explanation
Indices: 883729--883770 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
883719 AATTAAATCG
883729 AAAATACTTAGAAAATCATTTGT
1 AAAATACTTAGAAAATCATTTGT
*
883752 AAAAT-CTTA-AAACTCATTT
1 AAAATACTTAGAAAATCATTT
883771 AACCTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (23 bp):
AAAATACTTAGAAAATCATTTGT
Found at i:883948 original size:8 final size:8
Alignment explanation
Indices: 883932--883962 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
883922 TCCCCTTTAA
*
883932 AACATTTT
1 AACACTTT
883940 AACACTTT
1 AACACTTT
883948 AACACTTT
1 AACACTTT
883956 AACACTT
1 AACACTT
883963 CTCCCCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (8 bp):
AACACTTT
Found at i:883968 original size:42 final size:42
Alignment explanation
Indices: 883909--884029 Score: 179
Period size: 42 Copynumber: 3.1 Consensus size: 42
883899 ACTCCCCCTT
883909 ACTTTAACACTTCTCCCCTTTAAAACATTTTAACACTTTAAC
1 ACTTTAACACTTCTCCCCTTTAAAACATTTTAACACTTTAAC
883951 ACTTTAACACTTCTCCCCTTTAAAACATTTTAACACTTT---
1 ACTTTAACACTTCTCCCCTTTAAAACATTTTAACACTTTAAC
883990 A---T--CACTTCTCCCCTTTAAAACATTTTAACAC-TTAAC
1 ACTTTAACACTTCTCCCCTTTAAAACATTTTAACACTTTAAC
884026 ACTT
1 ACTT
884030 GTCCCCCTTT
Statistics
Matches: 73, Mismatches: 0, Indels: 15
0.83 0.00 0.17
Matches are distributed among these distances:
33 2 0.03
34 29 0.40
36 2 0.03
39 1 0.01
42 39 0.53
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (42 bp):
ACTTTAACACTTCTCCCCTTTAAAACATTTTAACACTTTAAC
Found at i:884039 original size:34 final size:34
Alignment explanation
Indices: 883940--884035 Score: 158
Period size: 34 Copynumber: 2.9 Consensus size: 34
883930 AAAACATTTT
*
883940 AACACTTTAACACTTTAACACTTCTCCCCTTTAA
1 AACATTTTAACACTTTAACACTTCTCCCCTTTAA
*
883974 AACATTTTAACACTTTATCACTTCTCCCCTTTAA
1 AACATTTTAACACTTTAACACTTCTCCCCTTTAA
*
884008 AACATTTTAACAC-TTAACACTTGTCCCC
1 AACATTTTAACACTTTAACACTTCTCCCC
884036 CTTTTTGTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 13 0.22
34 45 0.78
ACGTcount: A:0.31, C:0.31, G:0.01, T:0.36
Consensus pattern (34 bp):
AACATTTTAACACTTTAACACTTCTCCCCTTTAA
Found at i:886322 original size:23 final size:22
Alignment explanation
Indices: 886288--886366 Score: 97
Period size: 23 Copynumber: 3.6 Consensus size: 22
886278 CATGACCTTG
886288 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGG-A
* * *
886311 TGCATCGGTGCACCTTCATGG-
1 TGCATCGATGCACATTCAAGGA
* *
886332 TGTATCGATTCACATTCAAGGA
1 TGCATCGATGCACATTCAAGGA
886354 TGCATCGATGCAC
1 TGCATCGATGCAC
886367 TATTAGATGC
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 16 0.36
22 11 0.24
23 18 0.40
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Done.