Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007850.1 Hibiscus syriacus cultivar Beakdansim tig00110209_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: 1775394
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:767278 original size:40 final size:40
Alignment explanation
Indices: 767223--767318 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
767213 CAACGGGGAA
767223 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGGAT
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGGAT
* * *
767263 ATCGCAACGCAAAAATGGCTATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGGAT
*
767303 ATCGCAGCGCGAAAAT
1 ATCGCAACGCGAAAAT
767319 TGCAATGCGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.39, C:0.24, G:0.23, T:0.15
Consensus pattern (40 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGGAT
Found at i:767378 original size:19 final size:19
Alignment explanation
Indices: 767337--767439 Score: 162
Period size: 19 Copynumber: 5.7 Consensus size: 19
767327 GAAATGAAAA
767337 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
767353 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
767370 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
767389 TCGCATTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
767408 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
767427 TCGCATTGCGATT
1 TCGCATTGCGATT
767440 CTCTCGTTGC
Statistics
Matches: 80, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
14 11 0.14
16 3 0.04
17 3 0.04
19 63 0.79
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:769074 original size:42 final size:42
Alignment explanation
Indices: 769028--769118 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
769018 CCTCTTCAAC
* * * * *
769028 GATGACAGTGGCCTCTCGAACGGTGGGGGGGGACTCTTGATG
1 GATGACAGGGGCCTCTCGAACGATGAGAGGGGACTCTTGAGG
* * *
769070 GATGATAGGGGCCTCTTGAACGATTAGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTCGAACGATGAGAGGGGACTCTTGAGG
769112 GATGACA
1 GATGACA
769119 AGTGAGTCGG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.22, C:0.16, G:0.40, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTCGAACGATGAGAGGGGACTCTTGAGG
Found at i:769080 original size:21 final size:21
Alignment explanation
Indices: 769056--769116 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
769046 AACGGTGGGG
* *
769056 GGGGACTCTTGATGGATGATA
1 GGGGACTCTTGAAGGATGAGA
* * *
769077 GGGGCCTCTTGAACGATTAGA
1 GGGGACTCTTGAAGGATGAGA
*
769098 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAAGGATGA
769117 CAAGTGAGTC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.39, T:0.25
Consensus pattern (21 bp):
GGGGACTCTTGAAGGATGAGA
Found at i:769482 original size:20 final size:20
Alignment explanation
Indices: 769457--769495 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
769447 GAAGAATAGT
*
769457 TTACTTTCATAACACGAAAC
1 TTACTTTCACAACACGAAAC
*
769477 TTACTTTCGCAACACGAAA
1 TTACTTTCACAACACGAAA
769496 ATGACTATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (20 bp):
TTACTTTCACAACACGAAAC
Found at i:769506 original size:20 final size:20
Alignment explanation
Indices: 769467--769535 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
769457 TTACTTTCAT
* * *
769467 AACACGAAACTTACTTTCGC
1 AACACGAAAATGACTATCGC
769487 AACACGAAAATGACTATCGC
1 AACACGAAAATGACTATCGC
* * * *
769507 AACGCGGAAATGGCTATCAC
1 AACACGAAAATGACTATCGC
*
769527 AACGCGAAA
1 AACACGAAA
769536 TGAAAATCGC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.16
Consensus pattern (20 bp):
AACACGAAAATGACTATCGC
Found at i:769552 original size:19 final size:19
Alignment explanation
Indices: 769530--769599 Score: 96
Period size: 19 Copynumber: 3.9 Consensus size: 19
769520 CTATCACAAC
769530 GCGAAATGAAAATCGCAAT
1 GCGAAATGAAAATCGCAAT
769549 GCGAAATGAAAATCGCAA-
1 GCGAAATGAAAATCGCAAT
*
769567 -CG--A-CAAAATCGCAAT
1 GCGAAATGAAAATCGCAAT
769582 GCGAAATGAAAATCGCAA
1 GCGAAATGAAAATCGCAA
769600 CGACAAAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
14 10 0.23
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 28 0.64
ACGTcount: A:0.49, C:0.19, G:0.20, T:0.13
Consensus pattern (19 bp):
GCGAAATGAAAATCGCAAT
Found at i:769576 original size:14 final size:14
Alignment explanation
Indices: 769557--769615 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
769547 ATGCGAAATG
769557 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
769571 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
769590 AAAATCGCAACGAC
1 AAAATCGCAACGAC
769604 AAAATCGCAACG
1 AAAATCGCAACG
769616 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:769631 original size:33 final size:33
Alignment explanation
Indices: 769538--769620 Score: 157
Period size: 33 Copynumber: 2.5 Consensus size: 33
769528 ACGCGAAATG
769538 AAAATCGCAATGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAATGCGAAATGAAAATCGCAACGAC
769571 AAAATCGCAATGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAATGCGAAATGAAAATCGCAACGAC
*
769604 AAAATCGCAACGCGAAA
1 AAAATCGCAATGCGAAA
769621 CACAAATCGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.11
Consensus pattern (33 bp):
AAAATCGCAATGCGAAATGAAAATCGCAACGAC
Found at i:769649 original size:19 final size:18
Alignment explanation
Indices: 769627--769723 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
769617 GAAACACAAA
769627 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTT-ATT
* *
769646 TCGCGTTGCGA-TTT-TG
1 TCGCATTGCGATTTTATT
769662 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTT-ATT
*
769679 TCGCATTGCGA-TTT-TG
1 TCGCATTGCGATTTTATT
769695 TCG--TTGCGATTTTTATT
1 TCGCATTGCGA-TTTTATT
769712 TCGCATTGCGAT
1 TCGCATTGCGAT
769724 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 21
0.71 0.06 0.24
Matches are distributed among these distances:
14 12 0.19
15 3 0.05
16 11 0.17
17 8 0.13
18 7 0.11
19 22 0.35
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (18 bp):
TCGCATTGCGATTTTATT
Found at i:769668 original size:14 final size:14
Alignment explanation
Indices: 769649--769707 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
769639 TTTCATTTCG
769649 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
769663 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
769680 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
769696 CGTTGCGATTTT
1 CGTTGCGATTTT
769708 TATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:769674 original size:33 final size:33
Alignment explanation
Indices: 769632--769723 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
769622 ACAAATCGCA
*
769632 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
769665 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
769698 TTGCGATTTTTATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
769724 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:769731 original size:19 final size:20
Alignment explanation
Indices: 769709--769751 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
769699 TGCGATTTTT
769709 ATTT-CGCATTGCGATAGCC
1 ATTTCCGCATTGCGATAGCC
* *
769728 ATTTCCGCGTTGCGATAGTC
1 ATTTCCGCATTGCGATAGCC
769748 ATTT
1 ATTT
769752 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (20 bp):
ATTTCCGCATTGCGATAGCC
Found at i:769742 original size:20 final size:20
Alignment explanation
Indices: 769717--769762 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
769707 TTATTTCGCA
769717 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
769737 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
769757 TTGCGA
1 TTGCGA
769763 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:770320 original size:18 final size:18
Alignment explanation
Indices: 770297--770344 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
770287 CGGGTCGATC
770297 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
770315 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
770333 AGGTGATGGCTC
1 AGGTGATGGCTC
770345 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:771686 original size:20 final size:20
Alignment explanation
Indices: 771638--771694 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
771628 AATAGTTTCT
**
771638 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACAC
*
771658 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACAC
**
771678 GAATTTGACTATCGCAA
1 GAAAATGACTATCGCAA
771695 TGAGAGAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (20 bp):
GAAAATGACTATCGCAACAC
Found at i:772174 original size:21 final size:22
Alignment explanation
Indices: 772142--772257 Score: 95
Period size: 20 Copynumber: 5.6 Consensus size: 22
772132 CGCTTTGAAA
* *
772142 ATCGCATTGCGATTATGT-ATT
1 ATCGCGTTGCGATTATGTCAGT
* *
772163 ATCTCGTTGCGA--AAGTCAGT
1 ATCGCGTTGCGATTATGTCAGT
*
772183 ATCGCGTTGCGA-AAT-TCAGT
1 ATCGCGTTGCGATTATGTCAGT
* *
772203 ATCGCGTTGCGATTTTGT-ATT
1 ATCGCGTTGCGATTATGTCAGT
772224 ATCGCGTTGCGA-TA-GTCAGT
1 ATCGCGTTGCGATTATGTCAGT
* *
772244 ATTGCATTGCGATT
1 ATCGCGTTGCGATT
772258 TTCCAAATTC
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
19 5 0.07
20 43 0.57
21 27 0.36
22 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (22 bp):
ATCGCGTTGCGATTATGTCAGT
Found at i:772227 original size:41 final size:41
Alignment explanation
Indices: 772182--772259 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
772172 CGAAAGTCAG
* *
772182 TATCGCGTTGCGAAATTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
* *
772223 TATCGCGTTGCGATAGTCAGTATTGCATTGCGATTTT
1 TATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTT
772260 CCAAATTCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (41 bp):
TATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
Found at i:772270 original size:41 final size:41
Alignment explanation
Indices: 772182--772277 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
772172 CGAAAGTCAG
* * * ** *
772182 TATCGCGTTGCGAAATTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCAAA
*
772223 TATCGCGTTGCGATAGTCAGTATTGCATTGCGATTTTCCAAA
1 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT-CAAA
772265 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
772278 TTACTTATTC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 45 0.96
42 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCAAA
Found at i:772338 original size:21 final size:22
Alignment explanation
Indices: 772286--772338 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
772276 ATTTACTTAT
772286 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
* **
772307 TAGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
772328 TCGCATTGCGA
1 TCGCATTGCGA
772339 TAGTCATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:773748 original size:12 final size:11
Alignment explanation
Indices: 773726--773759 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
773716 TTATGAAACA
773726 AAATAAAATAT
1 AAATAAAATAT
773737 AAATATAAATAT
1 AAATA-AAATAT
773749 AAATAATAATA
1 AAATAA-AATA
773760 CATATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATAAAATAT
Found at i:773793 original size:23 final size:23
Alignment explanation
Indices: 773767--773825 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
773757 ATACATATAA
*
773767 TATATATAATATGTTTTCAAAA-C
1 TATAT-TAATATCTTTTCAAAATC
773790 TATATTATATATCTTTTCAAAATC
1 TATATTA-ATATCTTTTCAAAATC
773814 TATATCTAATAT
1 TATAT-TAATAT
773826 ATATTATCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 2 0.06
23 18 0.56
24 10 0.31
25 2 0.06
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (23 bp):
TATATTAATATCTTTTCAAAATC
Found at i:773920 original size:44 final size:45
Alignment explanation
Indices: 773860--773959 Score: 116
Period size: 44 Copynumber: 2.2 Consensus size: 45
773850 ATACAATTCG
* *
773860 TTTTCAAAAACTTTATATATTAG-ATTAAAAAATATATATTATA-TA
1 TTTTCAAAAACATTATATAAT-GTATTAAAAAA-ATATATTATATTA
* * *
773905 TTTTCAAAAA-ATTATATAATGTTTTCAAAAACTATATTATATTA
1 TTTTCAAAAACATTATATAATGTATTAAAAAAATATATTATATTA
773949 TTTTCAAAAAC
1 TTTTCAAAAAC
773960 TATAGTGTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
43 10 0.21
44 27 0.57
45 10 0.21
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (45 bp):
TTTTCAAAAACATTATATAATGTATTAAAAAAATATATTATATTA
Found at i:773943 original size:25 final size:24
Alignment explanation
Indices: 773860--773975 Score: 95
Period size: 23 Copynumber: 5.0 Consensus size: 24
773850 ATACAATTCG
*
773860 TTTTCAAAAACTTTA-TATAT-TA
1 TTTTCAAAAACTATATTATATATA
** *
773882 GATT-AAAAAATATA-TATTATATA
1 TTTTCAAAAACTATATTA-TATATA
* *
773905 TTTTCAAAAAAT-TA-TATA-ATG
1 TTTTCAAAAACTATATTATATATA
773926 TTTTCAAAAACTATATTATAT-TA
1 TTTTCAAAAACTATATTATATATA
773949 TTTTCAAAAACTATAGTGTATATATA
1 TTTTCAAAAACTATA-T-TATATATA
773975 T
1 T
773976 ATATATATTA
Statistics
Matches: 76, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
21 23 0.30
22 9 0.12
23 28 0.37
24 8 0.11
25 5 0.07
26 3 0.04
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (24 bp):
TTTTCAAAAACTATATTATATATA
Found at i:773958 original size:67 final size:68
Alignment explanation
Indices: 773821--773948 Score: 181
Period size: 67 Copynumber: 1.9 Consensus size: 68
773811 ATCTATATCT
*
773821 AATATATATTATCTATATTTTCAAAAATCATACAATTCGTTTTCAAAAACTTTATATATTAGATT
1 AATATATATTA-CTATATTTTCAAAAATCATACAATTCGTTTTCAAAAACTATATATATTAGATT
773886 AAAA
65 AAAA
* *
773890 AATATATATTA-TATATTTTCAAAAAATTATATAA-T-GTTTTCAAAAACTATATTATATTA
1 AATATATATTACTATATTTTC-AAAAATCATACAATTCGTTTTCAAAAACTATA-TATATTA
773949 TTTTCAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
66 15 0.28
67 17 0.31
68 11 0.20
69 11 0.20
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (68 bp):
AATATATATTACTATATTTTCAAAAATCATACAATTCGTTTTCAAAAACTATATATATTAGATTA
AAA
Found at i:773990 original size:32 final size:31
Alignment explanation
Indices: 773937--773996 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 31
773927 TTTCAAAAAC
**
773937 TATATTATATTAT-TTTCAAAAACTATAGTG
1 TATATTATATTATATTAAAAAAACTATAGTG
773967 TATATATATATATATATTAAAAAAACTATA
1 TATAT-TATAT-TATATTAAAAAAACTATA
773997 TATTTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 5 0.20
31 5 0.20
32 3 0.12
33 12 0.48
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (31 bp):
TATATTATATTATATTAAAAAAACTATAGTG
Found at i:774021 original size:50 final size:50
Alignment explanation
Indices: 773942--774038 Score: 126
Period size: 50 Copynumber: 1.9 Consensus size: 50
773932 AAAACTATAT
* *
773942 TATATTATTTTCAAAAACTATAGTGTATATATATATATATATTAAAAAAAC
1 TATATTATTTTCAAAAACTACAGTCTATATATATATATATA-TAAAAAAAC
* *
773993 TATA-TATTTTCAAAAACTACA-TACTATATATATTTATGTATAAAAA
1 TATATTATTTTCAAAAACTACAGT-CTATATATATATATATATAAAAA
774039 TATTATACTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 7 0.17
50 30 0.73
51 4 0.10
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (50 bp):
TATATTATTTTCAAAAACTACAGTCTATATATATATATATATAAAAAAAC
Found at i:784688 original size:31 final size:31
Alignment explanation
Indices: 784650--784724 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
784640 TGTGACTTCT
784650 AAAGGTCATGGATGAAAATGGAACATTGATA
1 AAAGGTCATGGATGAAAATGGAACATTGATA
784681 AAAGGTCATGGATGAAAATGGAACATTGATA
1 AAAGGTCATGGATGAAAATGGAACATTGATA
*
784712 AAAGCTCATGGAT
1 AAAGGTCATGGAT
784725 CACCAGTGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.44, C:0.08, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGTCATGGATGAAAATGGAACATTGATA
Found at i:790031 original size:20 final size:19
Alignment explanation
Indices: 790006--790067 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
789996 ATGCACATGC
790006 AGTTTCGAAACTTTGAAGAA
1 AGTTTCGAAACTTTG-AGAA
* *
790026 AGTTTCAAAAGTTTTGAGAA
1 AGTTTCGAAA-CTTTGAGAA
* *
790046 AGTTTTGAAACTTTGTGAA
1 AGTTTCGAAACTTTGAGAA
790065 AGT
1 AGT
790068 ATCAAAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
19 10 0.29
20 21 0.60
21 4 0.11
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.35
Consensus pattern (19 bp):
AGTTTCGAAACTTTGAGAA
Found at i:793215 original size:45 final size:45
Alignment explanation
Indices: 793166--793377 Score: 325
Period size: 45 Copynumber: 4.7 Consensus size: 45
793156 TATTTATTAT
* * *
793166 TTTCATTTAGGTCATCCTTTCATGCCTTTAATGCACCATTATGCA
1 TTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
793211 TTTCATTTATGACATCATTTCATGCCTTTAATGCACCGTTATTCA
1 TTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * * *
793256 TTTCATTTATGGCATCCTTTCATGCCTTTCATGCATCGTTATACA
1 TTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
793301 TTTCATTTATGACATCTTTTCATGCCTTTAATGCACCGTTATGTA
1 TTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGCA
793346 TTTCATTTATGACATCCTTTCATGCCTTTAAT
1 TTTCATTTATGACATCCTTTCATGCCTTTAAT
793378 CTTTTATTTT
Statistics
Matches: 150, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 150 1.00
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (45 bp):
TTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:793542 original size:56 final size:56
Alignment explanation
Indices: 793458--793753 Score: 459
Period size: 56 Copynumber: 5.3 Consensus size: 56
793448 AACTCTATAG
** *
793458 TTTGCACACGTAGT-CCCATACGGAAATTCATAAACTTATTATAAATTTCTTAGTT
1 TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
* * * *
793513 TTTGCACACATATTACCCATACGAAAATTCATAAACTTATTATGAATTTCTTAGTT
1 TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
* *
793569 TTTACACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTGGTT
1 TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
*
793625 TTTGCACACACATTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
1 TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
* * *
793681 TTTGCACACACAATGTCCATACGGAAATTCATAAACTTACTATGAATTTCTTAGTT
1 TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
*
793737 TTTGTACACACAGTGCC
1 TTTGCACACACAGTGCC
793754 ATTTGGTAAT
Statistics
Matches: 221, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
55 12 0.05
56 209 0.95
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (56 bp):
TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
Found at i:794125 original size:22 final size:22
Alignment explanation
Indices: 794100--794168 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
794090 CATGGTATTA
794100 ATACTTCTATACTATGGTACCG
1 ATACTTCTATACTATGGTACCG
* * *
794122 ATACCTT-TCT-CT-TAGTATCG
1 ATA-CTTCTATACTATGGTACCG
* *
794142 ATACTACTACACTATGGTACCG
1 ATACTTCTATACTATGGTACCG
794164 ATACT
1 ATACT
794169 CCCTTTCGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
19 2 0.06
20 10 0.29
21 4 0.11
22 16 0.46
23 3 0.09
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.36
Consensus pattern (22 bp):
ATACTTCTATACTATGGTACCG
Found at i:797052 original size:21 final size:20
Alignment explanation
Indices: 797028--797066 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
797018 CTAAGTCATA
*
797028 GAATTAGTGAAACATATAAAT
1 GAATAAGTGAAAC-TATAAAT
*
797049 GAATAATTGAAACTATAA
1 GAATAAGTGAAACTATAA
797067 CTACTTAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (20 bp):
GAATAAGTGAAACTATAAAT
Found at i:797409 original size:21 final size:21
Alignment explanation
Indices: 797384--797519 Score: 79
Period size: 21 Copynumber: 6.8 Consensus size: 21
797374 ATAGAATTTT
797384 TCCCGAAGGACCACATATATG
1 TCCCGAAGGACCACATATATG
*
797405 TCCCGAAGGACCAC-TCT-T-
1 TCCCGAAGGACCACATATATG
* *
797423 T----AAGGATCACATATATA
1 TCCCGAAGGACCACATATATG
* * * *
797440 TTCCAAAGGACCAAATATGTG
1 TCCCGAAGGACCACATATATG
* * *
797461 TCCCGAAGAACCGCATACATG
1 TCCCGAAGGACCACATATATG
* * ** *
797482 TTCCAAAGGATTACATATATA
1 TCCCGAAGGACCACATATATG
*
797503 TCTCGAAGGACCACATA
1 TCCCGAAGGACCACATA
797520 GAACCCTCGA
Statistics
Matches: 81, Mismatches: 27, Indels: 14
0.66 0.22 0.11
Matches are distributed among these distances:
14 8 0.10
15 2 0.02
16 1 0.01
17 1 0.01
18 1 0.01
19 1 0.01
20 2 0.02
21 65 0.80
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (21 bp):
TCCCGAAGGACCACATATATG
Found at i:809982 original size:2 final size:2
Alignment explanation
Indices: 809933--809968 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
809923 AAATGCATGA
809933 AT AT 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 AT AT
809969 GCACACACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:812708 original size:15 final size:15
Alignment explanation
Indices: 812688--812795 Score: 61
Period size: 15 Copynumber: 7.6 Consensus size: 15
812678 ATTATCGATG
812688 AATTTTTATAGAAAT
1 AATTTTTATAGAAAT
**
812703 AATTTTTATTTAAAT
1 AATTTTTATAGAAAT
* *
812718 -A-TATTATCG--AT
1 AATTTTTATAGAAAT
812729 GAATTTTTATAGAAAT
1 -AATTTTTATAGAAAT
**
812745 AATTTTTATTTAAAT
1 AATTTTTATAGAAAT
* *
812760 -A-TATTATCG--AT
1 AATTTTTATAGAAAT
*
812771 GAATTTTTATATAAAT
1 -AATTTTTATAGAAAT
812787 AATTTTTAT
1 AATTTTTAT
812796 TTAAATATTT
Statistics
Matches: 68, Mismatches: 15, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
11 4 0.06
13 12 0.18
14 13 0.19
15 35 0.51
16 4 0.06
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (15 bp):
AATTTTTATAGAAAT
Found at i:812721 original size:42 final size:42
Alignment explanation
Indices: 812673--812803 Score: 253
Period size: 42 Copynumber: 3.1 Consensus size: 42
812663 ATAATAAAGT
812673 AATATATTATCGATGAATTTTTATAGAAATAATTTTTATTTA
1 AATATATTATCGATGAATTTTTATAGAAATAATTTTTATTTA
812715 AATATATTATCGATGAATTTTTATAGAAATAATTTTTATTTA
1 AATATATTATCGATGAATTTTTATAGAAATAATTTTTATTTA
*
812757 AATATATTATCGATGAATTTTTATATAAATAATTTTTATTTA
1 AATATATTATCGATGAATTTTTATAGAAATAATTTTTATTTA
812799 AATAT
1 AATAT
812804 TTAGAATTCA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.50
Consensus pattern (42 bp):
AATATATTATCGATGAATTTTTATAGAAATAATTTTTATTTA
Found at i:813383 original size:18 final size:18
Alignment explanation
Indices: 813342--813385 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
813332 TTTGTCTCGT
**
813342 AGGACCACTATGTCTTGA
1 AGGACCACTATGTCCCGA
813360 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
813378 ATGACCAC
1 AGGACCAC
813386 ATATAACAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (18 bp):
AGGACCACTATGTCCCGA
Found at i:814466 original size:55 final size:55
Alignment explanation
Indices: 814376--814506 Score: 192
Period size: 55 Copynumber: 2.4 Consensus size: 55
814366 TAACAGGGGG
* * * * * *
814376 TATCGATACACT-CGCAGTGCACCGATACACAAATGACATTCGATGTTTTGAGTA
1 TATCGATACACTCCTCAGTGTACCAATAAACAAATGACATTCAATGTTTTGACTA
*
814430 TATCGATACACTCCTCAGTGTACCAATAAACAAATGACATTCAATGTTTTGACTG
1 TATCGATACACTCCTCAGTGTACCAATAAACAAATGACATTCAATGTTTTGACTA
814485 TATCGATACACTCCTCAGTGTA
1 TATCGATACACTCCTCAGTGTA
814507 TCGATACATA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
54 12 0.17
55 57 0.83
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (55 bp):
TATCGATACACTCCTCAGTGTACCAATAAACAAATGACATTCAATGTTTTGACTA
Found at i:817233 original size:2 final size:2
Alignment explanation
Indices: 817228--817292 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
817218 AAATGCATGA
817228 AT AT AT AT AT 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 AT AT AT AT AT
817270 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
817293 CACATATCTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:823004 original size:2 final size:2
Alignment explanation
Indices: 822997--823032 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
822987 GTATTACATG
822997 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
823033 GGTTATAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:825439 original size:13 final size:13
Alignment explanation
Indices: 825405--825449 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
825395 CACCTTTTTT
825405 ATTTGCATTTAGC
1 ATTTGCATTTAGC
* *
825418 ATCTACATTTAGC
1 ATTTGCATTTAGC
825431 ATTTGCATTT-GC
1 ATTTGCATTTAGC
825443 A-TTGCAT
1 ATTTGCAT
825450 GTATTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 6 0.21
12 3 0.11
13 19 0.68
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.44
Consensus pattern (13 bp):
ATTTGCATTTAGC
Found at i:830756 original size:37 final size:37
Alignment explanation
Indices: 830697--830875 Score: 200
Period size: 37 Copynumber: 4.8 Consensus size: 37
830687 GGAGATTGGG
*
830697 GCAAAGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAA
1 GCAAA-TCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
*
830735 GAAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
1 GCAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
* * * * * *
830772 GCTAATCTATCATAAGCCTTCACTGAAGAGTAATAAA
1 GCAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
* * * *
830809 GTAAA-CCGTCTTAAGCTTTCACTGAAGAGTAGTGAA
1 GCAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
* *
830845 GCAAATCCAGT-TTAAGCCTTCTCAGAAGAGT
1 GCAAATCCA-TCTTAAGCCTTCACCGAAGAGT
830876 GTTGGAGTAA
Statistics
Matches: 117, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
36 29 0.25
37 83 0.71
38 5 0.04
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (37 bp):
GCAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
Found at i:830861 original size:73 final size:74
Alignment explanation
Indices: 830697--830875 Score: 209
Period size: 73 Copynumber: 2.4 Consensus size: 74
830687 GGAGATTGGG
* * * *
830697 GCAAAGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGAAAATCCATCTTAAGCCTTCACCGAA
1 GCAAA-TCCATCTTAAGCCTTCACAGAAGAGTAATAAAGAAAATCCATCTTAAGCCTTCACCGAA
830762 GAGTAGTGAA
65 GAGTAGTGAA
* * * * * * * *
830772 GCTAATCTATCATAAGCCTTCACTGAAGAGTAATAAAGTAAA-CCGTCTTAAGCTTTCACTGAAG
1 GCAAATCCATCTTAAGCCTTCACAGAAGAGTAATAAAGAAAATCCATCTTAAGCCTTCACCGAAG
830836 AGTAGTGAA
66 AGTAGTGAA
*
830845 GCAAATCCAGT-TTAAGCCTTCTCAGAAGAGT
1 GCAAATCCA-TCTTAAGCCTTCACAGAAGAGT
830876 GTTGGAGTAA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
73 52 0.59
74 32 0.36
75 4 0.05
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (74 bp):
GCAAATCCATCTTAAGCCTTCACAGAAGAGTAATAAAGAAAATCCATCTTAAGCCTTCACCGAAG
AGTAGTGAA
Found at i:831313 original size:55 final size:55
Alignment explanation
Indices: 831252--832112 Score: 426
Period size: 55 Copynumber: 15.8 Consensus size: 55
831242 TGAGGAAAAT
* * **
831252 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAACGAACCCGTAAGAA
1 GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAA
* * * *
831307 GAAGATTGTTCAAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGCA
1 GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAA
* * * **
831362 GAAGGTTGTTCGAGTTCCATACTCCCTGAAGAAAAAGGGAGCGAACCCGTTTTTA
1 GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAA
* ** * * * * * * **
831417 GAAGATTGTTCGAG-TCTTATACTCTATGAATAAATAGGGAAC-ATACACGATTGCT
1 GAAGATTGTTCGAGTTC-CATACTCCCTAAAGAAAGAGGGAGCGA-ACCCGTTTGAA
* * * * * * * * **
831472 GAAGATTGTTTGAG-TCTCATACTCTCTGAAGGAATAGGGAGCAAACACGATTGTT
1 GAAGATTGTTCGAGTTC-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAA
* ** * * * * **
831527 GAAGATTGTTCGAG-TCTTATACTCTCC-GCAGGAACAGGGAGC-AGACACGATTGTT
1 GAAGATTGTTCGAGTTC-CATACTC-CCTAAAGAAAGAGGGAGCGA-ACCCGTTTGAA
* * * * * * * **
831582 GAAGATTGTTCAAG-TCTTATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTT
1 GAAGATTGTTCGAGTTC-CATACTCCCTAAAGAAAGAGGGAGCGA-ACCCGTTTGAA
* * * * * * * ** * *
831637 GAAGATTGTTCGAG-TCTTATACTCTCTGAAGGAATAGGGAGAGGATACGATTGTTA
1 GAAGATTGTTCGAGTTC-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG-AA
* * * * * * * **
831693 -AAGATTGTTCGAG-TCTTATACTCTCTGAAGGAATAGGGAGCGAACACGATTGTT
1 GAAGATTGTTCGAGTTC-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAA
* * * * * * * * *
831747 GAAGATTGTTTGTG-TCTTATACTCTCTGAAGGAATAGGGAGC-ATACAC-TATT-ATT
1 GAAGATTGTTCGAGTTC-CATACTCCCTAAAGAAAGAGGGAGCGA-ACCCGT-TTGA-A
* * * * * * * *
831802 GAAGATTGTTCGAG-TCTTATACTCTCTGAAGGAATAGGGAG-AAGACAC-TATTGCA
1 GAAGATTGTTCGAGTTC-CATACTCCCTAAAGAAAGAGGGAGCGA-ACCCGT-TTGAA
* * * **
831857 GAAGATT-TTCAAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTCA
1 GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAA
* *
831911 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAA
1 GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAA
* * * * **
831966 GAAGA-TGTTCGAGTTCTATACTCCCTAAAGAAATAGGGGGCGAACTCGTTTTCA
1 GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAA
*
832020 GAAGATT-TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG--T-AA
1 GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAA
* *
832071 GAAGA-TGTTTGAGTTTCATACT-CCTAAAG-AAGAGGGAGCGAA
1 GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAA
832113 GAGGGAGCGA
Statistics
Matches: 696, Mismatches: 90, Indels: 46
0.84 0.11 0.06
Matches are distributed among these distances:
49 13 0.02
50 8 0.01
51 18 0.03
52 1 0.00
54 132 0.19
55 521 0.75
56 3 0.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (55 bp):
GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAA
Found at i:831481 original size:110 final size:109
Alignment explanation
Indices: 831251--832064 Score: 608
Period size: 110 Copynumber: 7.4 Consensus size: 109
831241 GTGAGGAAAA
* * * * * *
831251 TGAAGATTGTTCGAGT-TCTATACTCCCTAAAGAAAGAGGGAACGAACCCGTAAG-AAGAAGATT
1 TGAAGATTGTTCGAGTCT-TATACTCCCTGAAGAAATAGGGAGCGAACACGT-TGTTAGAAGATT
* * * * * * *
831314 GTTCAAGT-TCCATACTC-CTTAAAGAAAGAAGGAGCGAACCCGTTTGC
64 GTTCGAGTCT-TATACTCTC-TGAAGAAATAGGGAGC-AACACGATTGC
* * * * * *
831361 AGAAGGTTGTTCGAGT-TCCATACTCCCTGAAGAAAAAGGGAGCGAACCCGTTTTTAGAAGATTG
1 TGAAGATTGTTCGAGTCT-TATACTCCCTGAAGAAATAGGGAGCGAACACGTTGTTAGAAGATTG
* * *
831425 TTCGAGTCTTATACTCTATGAATAAATAGGGAACATACACGATTGC
65 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCA-ACACGATTGC
* * * * *
831471 TGAAGATTGTTTGAGTCTCATACTCTCTGAAGGAATAGGGAGCAAACACGATTGTT-GAAGATTG
1 TGAAGATTGTTCGAGTCTTATACTCCCTGAAGAAATAGGGAGCGAACACG-TTGTTAGAAGATTG
* * * * *
831535 TTCGAGTCTTATACTCTCCGCAGGAACAGGGAGCAGACACGATTGT
65 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCA-ACACGATTGC
* *
831581 TGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTT-GAAGATT
1 TGAAGATTGTTCGAGTCTTATACTCCCTGAAGAAATAGGGAGCGA-ACACG-TTGTTAGAAGATT
* * *
831644 GTTCGAGTCTTATACTCTCTGAAGGAATAGGGAG-AGGATACGATTGT
64 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCA--ACACGATTGC
* * *
831691 TAAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGAACACGATTGTT-GAAGATTG
1 TGAAGATTGTTCGAGTCTTATACTCCCTGAAGAAATAGGGAGCGAACACG-TTGTTAGAAGATTG
* * * * **
831755 TTTGTGTCTTATACTCTCTGAAGGAATAGGGAGCATACACTATTAT
65 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCA-ACACGATTGC
* * * * *
831801 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAG-AAGACACTATTG-CAGAAGATT
1 TGAAGATTGTTCGAGTCTTATACTCCCTGAAGAAATAGGGAGCGA-ACAC-GTTGTTAGAAGATT
* * * * * *
831864 -TTCAAGT-TCTATACTCCCTAAAGAAAGAGGGAGCGAAC-CCATTTTC
64 GTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGC-AACACGA-TTGC
* * * * * *
831910 AGAAGATTGTTCGAGT-TCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTT-TGAAGAAGA-T
1 TGAAGATTGTTCGAGTCT-TATACTCCCTGAAGAAATAGGGAGCGAACACGTTGT-TAGAAGATT
* * * * * *
831972 GTTCGAGT-TCTATACTCCCTAAAGAAATAGGGGGCGAACTCGTTTTC
64 GTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGC-AACACGATTGC
* * *
832019 AGAAGATT-TTCGAGT-TCTATACTCCCTAAAGAAAGAGGGAGCGAAC
1 TGAAGATTGTTCGAGTCT-TATACTCCCTGAAGAAATAGGGAGCGAAC
832065 CCGTAAGAAG
Statistics
Matches: 598, Mismatches: 84, Indels: 46
0.82 0.12 0.06
Matches are distributed among these distances:
108 44 0.07
109 123 0.21
110 423 0.71
111 8 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (109 bp):
TGAAGATTGTTCGAGTCTTATACTCCCTGAAGAAATAGGGAGCGAACACGTTGTTAGAAGATTGT
TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAACACGATTGC
Found at i:831538 original size:165 final size:163
Alignment explanation
Indices: 831362--832068 Score: 711
Period size: 165 Copynumber: 4.3 Consensus size: 163
831352 CCCGTTTGCA
* * * *
831362 GAAGGTTGTTCGAGTTCCATACTCCCTGAAGAAAAAGGGAGCGAACCCGTTTTTAGAAGATTGTT
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTGTT-GAAGATTGTT
* * * * *
831427 CGAGTCTTATACTCTATGAATAAATAGGGAACATACACGATTGCTGAAGATTGTTTGAGTCTCAT
65 CGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACGATTGTTGAAGATTGTTCGAGTCTCAT
831492 ACTCTCTGAAGGAATAGGGAGCAAACACGATTGTT
130 ACTCTCTGAAGGAATAGGGAG-AAACACGATTGTT
* * * *
831527 GAAGATTGTTCGAG-TCTTATACTCTCC-GCAGGAACAGGGAGC-AGACACGATTGTTGAAGATT
1 GAAGATTGTTCGAGTTC-TATACTC-CCTGAAGAAAGAGGGAGCGA-ACCCG-TTGTTGAAGATT
* *
831589 GTTCAAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCT
62 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACGATTGTTGAAGATTGTTCGAGTCT
* * *
831654 TATACTCTCTGAAGGAATAGGGAGAGGATACGATTGTT
127 CATACTCTCTGAAGGAATAGGGAGA-AACACGATTGTT
* * * * *
831692 AAAGATTGTTCGAG-TCTTATACTCTCTGAAGGAATAGGGAGCGAACACGATTGTTGAAGATTGT
1 GAAGATTGTTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCGAACCCG-TTGTTGAAGATTGT
* * * * * *
831756 TTGTGTCTTATACTCTCTGAAGGAATAGGGAGCATACACTATTATTGAAGATTGTTCGAGTCTTA
64 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACGATTGTTGAAGATTGTTCGAGTCTCA
* **
831821 TACTCTCTGAAGGAATAGGGAGAAGACACTATTGCA
129 TACTCTCTGAAGGAATAGGGAGAA-ACACGATTGTT
* * *
831857 GAAGATT-TTCAAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATT-TTCAGAAGATTGT
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTGTT--GAAGATTGT
* * * * * * **
831920 TCGAGT-TCTATACTCCCTAAAGAAAGAAGGAGCGA-ACCCGTTTGAAGAAGA-TGTTCGAGT-T
64 TCGAGTCT-TATACTCTCTGAAGAAATAGGGAGC-ATACACGATTGTTGAAGATTGTTCGAGTCT
* * * * * *
831981 CTATACTCCCTAAAGAAATAGGGGGCGAACTCG-TT-TT
127 C-ATACTCTCTGAAGGAATAGGGAG-AAACACGATTGTT
*
832018 CAGAAGATT-TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGT
1 --GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGT
832069 AAGAAGATGT
Statistics
Matches: 459, Mismatches: 66, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
162 5 0.01
163 81 0.18
164 80 0.17
165 286 0.62
166 7 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (163 bp):
GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTGTTGAAGATTGTTC
GAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACGATTGTTGAAGATTGTTCGAGTCTCATA
CTCTCTGAAGGAATAGGGAGAAACACGATTGTT
Found at i:831913 original size:54 final size:54
Alignment explanation
Indices: 831855--832112 Score: 350
Period size: 54 Copynumber: 4.9 Consensus size: 54
831845 GACACTATTG
* *
831855 CAGAAGATTTTCAAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTT
1 CAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTT
* *
831909 CAGAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG
1 CAGAAGATT-TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTT
* * * * *
831964 AAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAATAGGGGGCGAACTCGTTTT
1 CAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTT
832018 CAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG---T
1 CAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTT
*
832069 AAGAAGATGTTT-GAGTT-TCATACT-CCTAAAG-AAGAGGGAGCGAA
1 CAGAAGAT-TTTCGAGTTCT-ATACTCCCTAAAGAAAGAGGGAGCGAA
832113 GAGGGAGCGA
Statistics
Matches: 184, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
49 13 0.07
50 8 0.04
51 18 0.10
52 3 0.02
54 94 0.51
55 48 0.26
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.24
Consensus pattern (54 bp):
CAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTT
Found at i:832115 original size:11 final size:11
Alignment explanation
Indices: 832099--832123 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
832089 TACTCCTAAA
832099 GAAGAGGGAGC
1 GAAGAGGGAGC
832110 GAAGAGGGAGC
1 GAAGAGGGAGC
832121 GAA
1 GAA
832124 CCGTAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.52, T:0.00
Consensus pattern (11 bp):
GAAGAGGGAGC
Found at i:834776 original size:24 final size:24
Alignment explanation
Indices: 834744--834795 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
834734 CGTTTCGACA
*
834744 ATGGGCATGTAATTCCAGCTGACG
1 ATGGCCATGTAATTCCAGCTGACG
834768 ATGGCCATGTAATTCCAGCTGACG
1 ATGGCCATGTAATTCCAGCTGACG
834792 ATGG
1 ATGG
834796 GCACGCACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (24 bp):
ATGGCCATGTAATTCCAGCTGACG
Found at i:835603 original size:29 final size:28
Alignment explanation
Indices: 835571--835626 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
835561 AAATTTCAAA
835571 TTAAT-ATTTATCTAAAATCTATAAATTAC
1 TTAATAATTTA-CTAAAATCTA-AAATTAC
*
835600 TTAATAATTTACTTAAATCTAAAATTA
1 TTAATAATTTACTAAAATCTAAAATTA
835627 AAATCAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 6 0.24
29 14 0.56
30 5 0.20
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.45
Consensus pattern (28 bp):
TTAATAATTTACTAAAATCTAAAATTAC
Found at i:848178 original size:15 final size:15
Alignment explanation
Indices: 848160--848199 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
848150 GTAAAGGGTA
848160 TGCCTTTGTAGGGAC
1 TGCCTTTGTAGGGAC
848175 TGCCTTTGTAGGGAC
1 TGCCTTTGTAGGGAC
848190 TGCCTTTGTA
1 TGCCTTTGTA
848200 CTATTGTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.12, C:0.20, G:0.30, T:0.38
Consensus pattern (15 bp):
TGCCTTTGTAGGGAC
Found at i:851857 original size:182 final size:182
Alignment explanation
Indices: 851537--852011 Score: 668
Period size: 182 Copynumber: 2.6 Consensus size: 182
851527 TGATCTAAAT
* * * * *
851537 TAAAAATGTATCAATCCATATCAATATAACA--TAAAAAATATCGATAAAATCGGTCA-CGAAAA
1 TAAAAATGTATCGATCCATAACGATATAACAGGT-AAAAATAT-GATAAAAACGGT-ATCGAAAT
* * * * *
851599 GACAATATCGGTAAAGCCCTACCGGATATATTGAACGTGTCGATACTTTAATATAAGGATCGACA
63 GATAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACA
851664 CTTTATGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCAATACTTTA
128 CTTTATGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCAATACTTTA
* *
851719 TAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCGGTATCGAAATGAT
1 TAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGATAAAAACGGTATCGAAATGAT
* * * *
851784 AAAACCGGTAAAGCGCTACCGGATATATTTAAAGTGTCGGTACTTTAATATAAGTATCGACTCTT
66 AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * * * *
851849 TGTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAGTGTCGATATTTTA
131 TATGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCAATACTTTA
* * *
851901 TAAAAATGTATCGATCCACAATGATATAACAGGTAAAAATATGATAAAAACGGTATCAAAATGAT
1 TAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGATAAAAACGGTATCGAAATGAT
* *
851966 AAAACCGGTAAGGAGCTACCGGATATATTGAAAGTGTCGATACTTT
66 AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTT
852012 CATAAGTACG
Statistics
Matches: 261, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
181 1 0.00
182 251 0.96
183 8 0.03
184 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
TAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGATAAAAACGGTATCGAAATGAT
AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
TATGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCAATACTTTA
Found at i:851955 original size:20 final size:19
Alignment explanation
Indices: 851932--851976 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
851922 TGATATAACA
851932 GGTAAAAATATGATAAAAAC
1 GGTAAAAA-ATGATAAAAAC
* *
851952 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAAAC
851972 GGTAA
1 GGTAA
851977 GGAGCTACCG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.20
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:854234 original size:21 final size:21
Alignment explanation
Indices: 854210--854253 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
854200 AAGACAATCA
854210 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
854231 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
854252 AG
1 AG
854254 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:854324 original size:33 final size:33
Alignment explanation
Indices: 854287--854352 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
854277 AAATAGATGG
*
854287 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
854320 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
854353 TCTTAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:856859 original size:200 final size:200
Alignment explanation
Indices: 856423--856965 Score: 921
Period size: 200 Copynumber: 2.7 Consensus size: 200
856413 ATGTAATAGG
* * *
856423 TAAAATTTATCGATCCTAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATG
1 TAAAAATTATCGATCCCAAAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATG
* *
856488 TAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACGACATGTATCGACACTTTTTAA
66 TAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTT-A
856553 ATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCGATA
130 ATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCGATA
856618 CATTTA
195 CATTTA
* * *
856624 TAAAAAGTATCGATCCCAAAAATATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAACG
1 TAAAAATTATCGATCCCAAAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATG
*
856689 TAACCGATATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAA
66 TAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAA
* * *
856754 TTTTGTATCAATACTTTTGGTCCAGAGTGAATGCCAAAAAGGGTGCAACCATAAAGTGTCGATAC
131 TTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCGATAC
856819 ATTTA
196 ATTTA
*
856824 TAAAAATTATCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATG
1 TAAAAATTATCGATCCCAAAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATG
* *
856889 TAACCGGTATAAATATACCAGTTTT-TGAGAGAATAGGTCTACAACATGTATCAACAC--TTTAA
66 TAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAA
856951 TTTTGTGTCGATACT
131 TTTTGTGTCGATACT
856966 AATTTAAATA
Statistics
Matches: 321, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
197 18 0.06
199 31 0.10
200 153 0.48
201 119 0.37
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (200 bp):
TAAAAATTATCGATCCCAAAAACATCGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATG
TAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAA
TTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCGATAC
ATTTA
Found at i:861387 original size:27 final size:27
Alignment explanation
Indices: 861332--861387 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
861322 CCGCCATCAC
*
861332 CACTTTGAACTTGAAACTCCATAGCAT
1 CACTTTGAACTTGAAACTCCACAGCAT
* *
861359 CACTTTGAACTTGAAAGTCCACAGTAT
1 CACTTTGAACTTGAAACTCCACAGCAT
861386 CA
1 CA
861388 AGATCTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (27 bp):
CACTTTGAACTTGAAACTCCACAGCAT
Found at i:861462 original size:8 final size:8
Alignment explanation
Indices: 861449--861523 Score: 52
Period size: 8 Copynumber: 9.2 Consensus size: 8
861439 TATTTATTAT
861449 TATTATAA
1 TATTATAA
861457 TATTAT--
1 TATTATAA
861463 TATTATAAA
1 TATTAT-AA
*
861472 TATTATTA
1 TATTATAA
861480 TA-TATATA
1 TATTATA-A
861488 TATTAT-A
1 TATTATAA
861495 TA-TATATA
1 TATTATA-A
861503 TATATATATA
1 TAT-TATA-A
861513 TATATATAA
1 TAT-TATAA
861522 TA
1 TA
861524 AAAAATACAA
Statistics
Matches: 56, Mismatches: 2, Indels: 17
0.75 0.03 0.23
Matches are distributed among these distances:
6 9 0.16
7 6 0.11
8 15 0.27
9 12 0.21
10 14 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TATTATAA
Found at i:861475 original size:23 final size:25
Alignment explanation
Indices: 861449--861521 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
861439 TATTTATTAT
861449 TATTATAATAT-TAT-TATTATAAA
1 TATTATAATATATATATATTATAAA
* *
861472 TATTATTATATATATATATTATATA
1 TATTATAATATATATATATTATAAA
861497 TA-TATATATATATATATATATATAA
1 TATTATA-ATATATATATAT-TATAA
861522 TAAAAAATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 10 0.24
24 6 0.14
25 22 0.52
26 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTATAATATATATATATTATAAA
Found at i:861478 original size:29 final size:32
Alignment explanation
Indices: 861443--861523 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 32
861433 TTGATTTATT
861443 TATTATTAT-TATAATATTAT-TAT-TATAAA
1 TATTATTATATATAATATTATATATATATAAA
*
861472 TATTATTATATATATATATTATATATATATATA
1 TATTATTATATATA-ATATTATATATATATAAA
861505 TATATATATATATATAATA
1 TAT-TAT-TATATATAATA
861524 AAAAATACAA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
29 9 0.20
30 4 0.09
31 7 0.16
32 3 0.07
33 8 0.18
34 6 0.13
35 8 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TATTATTATATATAATATTATATATATATAAA
Found at i:861485 original size:2 final size:2
Alignment explanation
Indices: 861466--861520 Score: 80
Period size: 2 Copynumber: 29.0 Consensus size: 2
861456 ATATTATTAT
*
861466 TA TA AA TA T- TA T- TA TA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
861505 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
861521 ATAAAAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:866955 original size:15 final size:15
Alignment explanation
Indices: 866935--866966 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
866925 ATCAATACCT
866935 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
866950 TTTTGCATACATTCA
1 TTTTGCATACATGCA
866965 TT
1 TT
866967 ATTCATTTCA
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:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:874304 original size:20 final size:19
Alignment explanation
Indices: 874276--874322 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
874266 ATTATGCTTG
874276 AAGAGAAAAAGAAAAGAAAGAA
1 AAGA-AAAAAG-AAAG-AAGAA
874298 AAGAAAAAAGAAAGAAGAA
1 AAGAAAAAAGAAAGAAGAA
874317 AA-AAAA
1 AAGAAAA
874323 GGGGGGGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.16
19 7 0.28
20 4 0.16
21 6 0.24
22 4 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (19 bp):
AAGAAAAAAGAAAGAAGAA
Found at i:874308 original size:16 final size:16
Alignment explanation
Indices: 874282--874323 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
874272 CTTGAAGAGA
874282 AAAAGAAAAGAAAGAA-
1 AAAA-AAAAGAAAGAAG
874298 AAGAAAAAAGAAAGAAG
1 AA-AAAAAAGAAAGAAG
874315 AAAAAAAAG
1 AAAAAAAAG
874324 GGGGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAGAAG
Found at i:875381 original size:115 final size:115
Alignment explanation
Indices: 875179--875500 Score: 574
Period size: 115 Copynumber: 2.8 Consensus size: 115
875169 CAAGTGTCGT
*
875179 AGACCCAATATCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACA
1 AGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACA
875244 GAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGG
66 GAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGG
875294 AGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACA
1 AGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACA
875359 GAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGG
66 GAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGG
* * *
875409 AGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGATA-GGAACCACA
1 AGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACA
* * *
875473 GAACCAATTATTGGAATTAAAAGATGAA
66 GAACCAATCATTGGATTTGAAAGATGAA
875501 CTACAGGATC
Statistics
Matches: 200, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
114 33 0.17
115 167 0.83
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (115 bp):
AGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACA
GAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGG
Found at i:876711 original size:123 final size:122
Alignment explanation
Indices: 876558--877023 Score: 571
Period size: 124 Copynumber: 3.9 Consensus size: 122
876548 TGATGGGTCA
* * *
876558 ACATTTCCAGAGAAAGTTTATAATAAGAAGAACTTATCTGAAG-AGGAAGAAGAAATTCACAATA
1 ACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATA
876622 AGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATT
66 AGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCA-T
* * *
876680 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 A-CATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAAT
* * * ** *
876745 GAGAAGAACTTGTTTAACCTTTTGTTCA-AATTC-ATCAC-----TTGATGGA-T--CA-
65 AAGAAGAGCTTGTTCAACCTTTTG--CATAATTCTATCACAGAAGCAGATAGATTAGCAT
* * *
876794 ACATTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTG-AGGAGGAAGAAGAAGTTCACAATG
1 ACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATA
876858 AGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCAT
66 AGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCAT
* * * *
876915 CAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAAAA
1 --ACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAA
* * * * *
876980 TAAGAAGAGCTTATTCAACCTTTGGAATGACTCTATCACAGAAG
64 TAAGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAG
877024 GAAATAGGTC
Statistics
Matches: 292, Mismatches: 34, Indels: 34
0.81 0.09 0.09
Matches are distributed among these distances:
110 2 0.01
111 5 0.02
112 48 0.16
113 36 0.12
114 1 0.00
116 2 0.01
117 5 0.02
118 2 0.01
119 5 0.02
120 2 0.01
122 1 0.00
123 75 0.26
124 101 0.35
125 5 0.02
126 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.26
Consensus pattern (122 bp):
ACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATA
AGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCAT
Found at i:876788 original size:236 final size:236
Alignment explanation
Indices: 876224--877002 Score: 1407
Period size: 236 Copynumber: 3.3 Consensus size: 236
876214 TACCAGATAG
876224 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
876289 AACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGA
66 AACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGA
876354 ACTTATCTGAAGAGGAAGAAGAAGTTCACAATAAGAAGAGCTTGTTCAACCTTTTGCATAATTCT
131 ACTTATCTGAAGAGGAAGAAGAAGTTCACAATAAGAAGAGCTTGTTCAACCTTTTGCATAATTCT
* *
876419 -TCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGATAG
196 ATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAA
876459 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
* *
876524 AACCTTTTGTTCAAATTCATCACTTGATGGGTCAACATTTCCAGAGAAAGTTTATAATAAGAAGA
66 AACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGA
*
876589 ACTTATCTGAAGAGGAAGAAGAAATTCACAATAAGAAGAGCTTGTTCAACCTTTTGCATAATTCT
131 ACTTATCTGAAGAGGAAGAAGAAGTTCACAATAAGAAGAGCTTGTTCAACCTTTTGCATAATTCT
876654 ATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAA
196 ATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAA
876695 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
876760 AACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGA
66 AACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGA
* *
876825 ACTTATCTGAGGAGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCATAATTCT
131 ACTTATCTGAAGAGGAAGAAGAAGTTCACAATAAGAAGAGCTTGTTCAACCTTTTGCATAATTCT
* * *
876890 ATCACAGAAGCAGATAGATTAGCATCAACCTTTCCAGAGAA
196 ATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAA
* * * * * *
876931 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAAAATAAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
876996 AACCTTT
66 AACCTTT
877003 GGAATGACTC
Statistics
Matches: 524, Mismatches: 19, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
235 192 0.37
236 332 0.63
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (236 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
AACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGA
ACTTATCTGAAGAGGAAGAAGAAGTTCACAATAAGAAGAGCTTGTTCAACCTTTTGCATAATTCT
ATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAA
Found at i:877040 original size:124 final size:123
Alignment explanation
Indices: 876790--877067 Score: 346
Period size: 124 Copynumber: 2.3 Consensus size: 123
876780 CACTTGATGG
* * * * * *
876790 ATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAGGAGGAAGAAGAAGTTCACA
1 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAGAAGAAAGAAGAAGTTCAAA
* * * * * * * *
876855 ATGAGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGC
66 ATAAGAAGAGCTTATTCAACCTTTGGAATAACTCTATCACAGAAGCAAATAGATCAAC
876913 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAA
1 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-AGAAGAAAGAAGAAGTTCAA
* * *
876978 AATAAGAAGAGCTTATTCAACCTTTGGAATGACTCTATCACAGAAGGAAATAGGTCAAC
65 AATAAGAAGAGCTTATTCAACCTTTGGAATAACTCTATCACAGAAGCAAATAGATCAAC
* *
877037 ATCATCC---CCAGCGGAAAGTTCATAATGAGAA
1 ATCAACCTTTCCAG-AGAAAGTTCATAATGAGAA
877068 AGAGAAGAAT
Statistics
Matches: 134, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
121 4 0.03
122 18 0.13
123 41 0.31
124 71 0.53
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (123 bp):
ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAGAAGAAAGAAGAAGTTCAAA
ATAAGAAGAGCTTATTCAACCTTTGGAATAACTCTATCACAGAAGCAAATAGATCAAC
Found at i:877252 original size:2 final size:2
Alignment explanation
Indices: 877237--877313 Score: 133
Period size: 2 Copynumber: 40.0 Consensus size: 2
877227 TTATTATTAT
877237 TA TA T- TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
877276 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
877314 ATAAAAAATA
Statistics
Matches: 72, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 3 0.04
2 69 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:879533 original size:30 final size:30
Alignment explanation
Indices: 879497--879554 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
879487 AGAACCGTCG
* *
879497 GTTCACACTGGTTTTGCCTGTTCCCAACCA
1 GTTCACACCGGTTTTGCCGGTTCCCAACCA
879527 GTTCACACCGGTTTTGCCGGTTCCCAAC
1 GTTCACACCGGTTTTGCCGGTTCCCAAC
879555 TGGTTCTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.16, C:0.34, G:0.19, T:0.31
Consensus pattern (30 bp):
GTTCACACCGGTTTTGCCGGTTCCCAACCA
Found at i:881901 original size:4 final size:4
Alignment explanation
Indices: 881892--881924 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
881882 AATCGAATCG
881892 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
881925 ATGGTTTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:885425 original size:64 final size:62
Alignment explanation
Indices: 885336--885545 Score: 201
Period size: 65 Copynumber: 3.3 Consensus size: 62
885326 TGCACTAAGA
* * * * *
885336 GTGCACCGATACATCAAGTGTATTCGATGTTTCAAAATAGCCAAAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATA-TCAAAGTGCATCGATGCATGG-TG
*
885400 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCATCAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATATCA-AAGTGCATCGATGCATGGT-
*
885464 T
62 G
* **
885465 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAA---AATATCAAAGTGCATCGATGCATGG--
885528 TG
61 TG
*
885530 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
885546 CTTTGAAAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 44 0.36
65 70 0.57
66 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (62 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATATCAAAGTGCATCGATGCATGGTG
Found at i:888157 original size:23 final size:23
Alignment explanation
Indices: 888122--888201 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 23
888112 GCATGACCCT
*
888122 GTGCACCGATGCACATTCAAGGA
1 GTGCATCGATGCACATTCAAGGA
* * *
888145 GTGCATCGGTGCACCTTC-ATG-
1 GTGCATCGATGCACATTCAAGGA
* *
888166 GTGTATCGATGTACATTCAAGGA
1 GTGCATCGATGCACATTCAAGGA
888189 -TGCATCGATGCAC
1 GTGCATCGATGCAC
888202 TGTTAGGTGT
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
21 14 0.32
22 15 0.34
23 15 0.34
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGGA
Found at i:888182 original size:44 final size:42
Alignment explanation
Indices: 888128--888219 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 42
888118 CCCTGTGCAC
*
888128 CGATGCACATTCAAGGAGTGCATCGGTGCACCT-TCATGGTGTAT
1 CGATGCACATTCAAGGA-TGCATCGATGCA-CTGTCA-GGTGTAT
* *
888172 CGATGTACATTCAAGGATGCATCGATGCACTGTTAGGTGTAT
1 CGATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGTAT
888214 CGATGC
1 CGATGC
888220 GTGAAGCACA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 14 0.33
43 13 0.30
44 16 0.37
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (42 bp):
CGATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGTAT
Found at i:892048 original size:22 final size:21
Alignment explanation
Indices: 892006--892045 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
891996 GAGTTTATTT
*
892006 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
892027 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
892046 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:894023 original size:18 final size:17
Alignment explanation
Indices: 893969--894017 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
893959 TTGGACCCTT
* *
893969 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
893987 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
894005 AGTGCATTCGATG
1 AGTGCA-TCGATG
894018 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:895054 original size:2 final size:2
Alignment explanation
Indices: 895047--895072 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
895037 GGTTATTAGA
895047 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
895073 TAAAACAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:902368 original size:15 final size:15
Alignment explanation
Indices: 902348--902378 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
902338 CAACAAATAG
902348 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
902363 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
902378 A
1 A
902379 TTTAGAATTT
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:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:902568 original size:20 final size:20
Alignment explanation
Indices: 902543--902589 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
902533 CATTCCCTGA
902543 TAATCTTTTATTCCCACTGG
1 TAATCTTTTATTCCCACTGG
*
902563 TAATCTTTTATTCTCACTGG
1 TAATCTTTTATTCCCACTGG
902583 TAATCTT
1 TAATCTT
902590 ACATTCCGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.49
Consensus pattern (20 bp):
TAATCTTTTATTCCCACTGG
Found at i:902595 original size:20 final size:20
Alignment explanation
Indices: 902552--902596 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
902542 ATAATCTTTT
**
902552 ATTCCCACTGGTAATCTTTT
1 ATTCCCACTGGTAATCTTAC
*
902572 ATTCTCACTGGTAATCTTAC
1 ATTCCCACTGGTAATCTTAC
902592 ATTCC
1 ATTCC
902597 GTAAACCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.27, G:0.09, T:0.42
Consensus pattern (20 bp):
ATTCCCACTGGTAATCTTAC
Found at i:903301 original size:18 final size:18
Alignment explanation
Indices: 903280--903314 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
903270 TATAAAATAT
903280 ATTTTTACTATAATTTAC
1 ATTTTTACTATAATTTAC
*
903298 ATTTTTATTATAATTTA
1 ATTTTTACTATAATTTA
903315 AATTGATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTTACTATAATTTAC
Found at i:909188 original size:61 final size:61
Alignment explanation
Indices: 909119--909256 Score: 231
Period size: 61 Copynumber: 2.3 Consensus size: 61
909109 AAAATTGTTG
*
909119 GTCAAACTTGTAGGTGCAATAAATGGCAATAGGAGAAATTAGTTGCCAAATTGGTTGCCAA
1 GTCAAACTTGCAGGTGCAATAAATGGCAATAGGAGAAATTAGTTGCCAAATTGGTTGCCAA
* * * *
909180 GTCAAACTTACAAGTGCAATAAATGGCAATAGGAGAAATTTGTTGTCAAATTGGTTGCCAA
1 GTCAAACTTGCAGGTGCAATAAATGGCAATAGGAGAAATTAGTTGCCAAATTGGTTGCCAA
909241 GTCAAACTTGCAGGTG
1 GTCAAACTTGCAGGTG
909257 ACGGTGCATC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 70 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27
Consensus pattern (61 bp):
GTCAAACTTGCAGGTGCAATAAATGGCAATAGGAGAAATTAGTTGCCAAATTGGTTGCCAA
Found at i:913514 original size:15 final size:15
Alignment explanation
Indices: 913494--913530 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
913484 ATATTTAGTT
913494 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCG
913509 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCG
913524 GGGCGGG
1 GGGCGGG
913531 TAAGGTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.05, C:0.19, G:0.70, T:0.05
Consensus pattern (15 bp):
GGGCGGGCGGATGCG
Found at i:914797 original size:415 final size:412
Alignment explanation
Indices: 914014--914841 Score: 1613
Period size: 415 Copynumber: 2.0 Consensus size: 412
914004 TTTTTCATAT
914014 GTTTTCTTCCCCATATCTATCTTCTCCGCCGCGCCGCTTCCCCTGCTTCTTCTCTAAACCACTGT
1 GTTTTCTTCCCCATATCTATCTTCTCCGCCGCGCCGCTTCCCCTGCTTCTTCTCTAAACCACTGT
914079 TTCAACAATTATTATTTGCTGGTTCCAAGTTAAGATTCTTTATCATTCATCTTAAAAGTAAATAG
66 TTCAACAATTATTATTTGCTGGTTCCAAGTTAAGATTCTTTATCATTCATCTTAAAAGTAAATAG
914144 CTTTATCGGTATCTATAAAACTTTGAGCATAAGTTGCAATATCAACTCTGATATCTTCTGTATGA
131 CTTTATCGGTATCTATAAAACTTTGAGCATAAGTTGCAATATCAACTCTGATATCTTCTGTATGA
914209 AAATAAAAAGATCCAAATTAGTACCACACTGATGTTTCTTCCCTCTTAGCTATGAAGCATCTTGG
196 AAATAAAAAGATCCAAATTAGTACCACACTGATGTTTCTTCCCTCTTAGCTATGAAGCATCTTGG
914274 ATGGAAATAAACTTAATAGTAATAGAGAAAGACTGGAAATAATATGTTCTTTTCGAGAAATTGTT
261 ATGGAAATAAACTTAATAGTAATAGAGAAAGACTGGAAATAATATGTTCTTTTCGAGAAATTGTT
914339 TCGTCCTATATTACTTGGCCTAGAGGGGTAGTGTCAAATATAGATATGTGAATGACAGTAGTATA
326 TCGTCCTATATTACTTGGCCTAGAGGGGTAGTGTCAAATATAGATATGTGAATGACAGTAGTATA
914404 CCTGAATTAAATGTTAGGTATA
391 CCTGAATTAAATGTTAGGTATA
914426 GTTTTCTTCCCCATATCTATCTTCTCCGCCGCGCCGCTTCCCCTGCTTCTTCTCTAAACCACTGT
1 GTTTTCTTCCCCATATCTATCTTCTCCGCCGCGCCGCTTCCCCTGCTTCTTCTCTAAACCACTGT
914491 TTCAACAATTATTATTTGCTGGTTCCAAGTTAAGATTCTTTATCATTCATCTTAAAAGTAAATAG
66 TTCAACAATTATTATTTGCTGGTTCCAAGTTAAGATTCTTTATCATTCATCTTAAAAGTAAATAG
914556 CTTTATCGGTATCTATAAAACTTTGAGCATAAGTTGCAAATATCAACCTCTCTGATATCTTCTGT
131 CTTTATCGGTATCTATAAAACTTTGAGCATAAGTTGC-AATATCAA---CTCTGATATCTTCTGT
914621 ATGAAAAT-AAAAGATCCAAATTAGTACCACACTGATGTTTCTTCCCTCTTAGCTATGAAGCATC
192 ATGAAAATAAAAAGATCCAAATTAGTACCACACTGATGTTTCTTCCCTCTTAGCTATGAAGCATC
914685 TTGGATGGAAATAAACTTAATAGTAATAGAGAAAGACTGGAAATAATATGTTCTTTTCGAGAAAT
257 TTGGATGGAAATAAACTTAATAGTAATAGAGAAAGACTGGAAATAATATGTTCTTTTCGAGAAAT
914750 TGTTTCGTCCTATATTACTTGGCCTAGAGGGGTAGTGTCAAATATAGATATGTGAATGACAGTAG
322 TGTTTCGTCCTATATTACTTGGCCTAGAGGGGTAGTGTCAAATATAGATATGTGAATGACAGTAG
914815 TATACCTGAATTAAATGTTAGGTATA
387 TATACCTGAATTAAATGTTAGGTATA
914841 G
1 G
914842 ATACTTGAAG
Statistics
Matches: 412, Mismatches: 0, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
412 167 0.41
413 8 0.02
415 213 0.52
416 24 0.06
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (412 bp):
GTTTTCTTCCCCATATCTATCTTCTCCGCCGCGCCGCTTCCCCTGCTTCTTCTCTAAACCACTGT
TTCAACAATTATTATTTGCTGGTTCCAAGTTAAGATTCTTTATCATTCATCTTAAAAGTAAATAG
CTTTATCGGTATCTATAAAACTTTGAGCATAAGTTGCAATATCAACTCTGATATCTTCTGTATGA
AAATAAAAAGATCCAAATTAGTACCACACTGATGTTTCTTCCCTCTTAGCTATGAAGCATCTTGG
ATGGAAATAAACTTAATAGTAATAGAGAAAGACTGGAAATAATATGTTCTTTTCGAGAAATTGTT
TCGTCCTATATTACTTGGCCTAGAGGGGTAGTGTCAAATATAGATATGTGAATGACAGTAGTATA
CCTGAATTAAATGTTAGGTATA
Found at i:915826 original size:37 final size:37
Alignment explanation
Indices: 915784--915857 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
915774 TAACTGTGGT
915784 TTACCTTTAATATATGACTTCCACAAAATTTCAAGGA
1 TTACCTTTAATATATGACTTCCACAAAATTTCAAGGA
**
915821 TTACCTTTAATATATGGTTTCCACAAAATTTCAAGGA
1 TTACCTTTAATATATGACTTCCACAAAATTTCAAGGA
915858 ATCACACTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (37 bp):
TTACCTTTAATATATGACTTCCACAAAATTTCAAGGA
Found at i:919568 original size:12 final size:12
Alignment explanation
Indices: 919551--919575 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
919541 ACTAAACCCA
919551 TTCTTCTTCTTT
1 TTCTTCTTCTTT
919563 TTCTTCTTCTTT
1 TTCTTCTTCTTT
919575 T
1 T
919576 GTTATTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTCTTCTTT
Found at i:921119 original size:15 final size:15
Alignment explanation
Indices: 921099--921168 Score: 77
Period size: 15 Copynumber: 4.7 Consensus size: 15
921089 ATTTTATTAG
* *
921099 TATGTGAATATGGTA
1 TATGTGAATATGTTC
*
921114 TATGTGAATGTGTTC
1 TATGTGAATATGTTC
*
921129 TATGTGAAAATGTTC
1 TATGTGAATATGTTC
* * *
921144 TAGGTGAATGTGTTT
1 TATGTGAATATGTTC
921159 TATGTGAATA
1 TATGTGAATA
921169 AATGATACTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.43
Consensus pattern (15 bp):
TATGTGAATATGTTC
Found at i:921133 original size:30 final size:30
Alignment explanation
Indices: 921099--921168 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
921089 ATTTTATTAG
*
921099 TATGTGAATATGGTATATGTGAATGTGTTC
1 TATGTGAATATGGTATAGGTGAATGTGTTC
* * * *
921129 TATGTGAAAATGTTCTAGGTGAATGTGTTT
1 TATGTGAATATGGTATAGGTGAATGTGTTC
921159 TATGTGAATA
1 TATGTGAATA
921169 AATGATACTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.43
Consensus pattern (30 bp):
TATGTGAATATGGTATAGGTGAATGTGTTC
Found at i:921295 original size:23 final size:23
Alignment explanation
Indices: 921269--921344 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
921259 GAGTCGAGTG
*
921269 TTCTATGCGGTCCTTCGTGACAA
1 TTCTATGCGGTCCTTCGAGACAA
*
921292 TTCTATGTGGTCCTTCGAGACAA
1 TTCTATGCGGTCCTTCGAGACAA
921315 TTCTATGCGGTCCTTCGAGACAA
1 TTCTATGCGGTCCTTCGAGACAA
*
921338 ATCTATG
1 TTCTATG
921345 TGGCACTTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (23 bp):
TTCTATGCGGTCCTTCGAGACAA
Found at i:921367 original size:24 final size:24
Alignment explanation
Indices: 921335--921390 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
921325 TCCTTCGAGA
*
921335 CAAA-TCTATGTGGCACTTCGGTG
1 CAAATTCTATGTAGCACTTCGGTG
*
921358 CATATTCTATGTAGCACTTCGGTG
1 CAAATTCTATGTAGCACTTCGGTG
921382 CAAATTCTA
1 CAAATTCTA
921391 CGCGGCAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (24 bp):
CAAATTCTATGTAGCACTTCGGTG
Found at i:921623 original size:51 final size:52
Alignment explanation
Indices: 921564--921670 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
921554 GTTTCTTGAA
921564 AATGTTAATCAAATGTTTTA-TTTTTTTATGCTCATTATGCCCCACTAAGTC
1 AATGTTAATCAAATGTTTTATTTTTTTTATGCTCATTATGCCCCACTAAGTC
* *
921615 AATGTTAATCAAATGTTTTATTTTTTTTATGCTCATTATGCCTCACTAATTC
1 AATGTTAATCAAATGTTTTATTTTTTTTATGCTCATTATGCCCCACTAAGTC
921667 AATG
1 AATG
921671 ACTTAGCGTG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 20 0.38
52 33 0.62
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (52 bp):
AATGTTAATCAAATGTTTTATTTTTTTTATGCTCATTATGCCCCACTAAGTC
Found at i:923368 original size:21 final size:20
Alignment explanation
Indices: 923344--923490 Score: 105
Period size: 21 Copynumber: 6.9 Consensus size: 20
923334 TCGAGAGTTC
923344 TATGTGGTCTTTCGGGACATA
1 TATGTGGTCTTT-GGGACATA
* * *
923365 TATGTGATCCATTGGAACATA
1 TATGTGGT-CTTTGGGACATA
*
923386 TATGTGGTCCTTTAGGACATA
1 TATGTGGT-CTTTGGGACATA
* *
923407 TATTTGGTCATTTGGAACATA
1 TATGTGGTC-TTTGGGACATA
* * *
923428 TATGTGGTCCTTAGGGAAAATTC
1 TATGTGGT-CTTTGGG-ACA-TA
* *
923451 TATGTGGCCATTCGGGACATA
1 TATGTGGTC-TTTGGGACATA
*
923472 TATGTGGTCCTTCGGGACA
1 TATGTGGT-CTTTGGGACA
923491 ATTCTAAGAG
Statistics
Matches: 99, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
20 1 0.01
21 75 0.76
22 10 0.10
23 13 0.13
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.35
Consensus pattern (20 bp):
TATGTGGTCTTTGGGACATA
Found at i:923404 original size:42 final size:41
Alignment explanation
Indices: 923344--923483 Score: 133
Period size: 42 Copynumber: 3.3 Consensus size: 41
923334 TCGAGAGTTC
*
923344 TATGTGGT-CTTTCGGGACATATATGTGATCCATTGGAACATA
1 TATGTGGTCCTTT-AGGACATATATGTG-TCCATTGGAACATA
*
923386 TATGTGGTCCTTTAGGACATATATTTGGT-CATTTGGAACATA
1 TATGTGGTCCTTTAGGACATATATGT-GTCCA-TTGGAACATA
* * * *
923428 TATGTGGTCC-TTAGGGAAAATTCTATGTGGCCATTCGGGACATA
1 TATGTGGTCCTTTA-GG-ACA-TATATGTGTCCATT-GGAACATA
923472 TATGTGGTCCTT
1 TATGTGGTCCTT
923484 CGGGACAATT
Statistics
Matches: 82, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
41 5 0.06
42 42 0.51
43 10 0.12
44 24 0.29
45 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.37
Consensus pattern (41 bp):
TATGTGGTCCTTTAGGACATATATGTGTCCATTGGAACATA
Found at i:923455 original size:23 final size:23
Alignment explanation
Indices: 923428--923507 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 23
923418 TTGGAACATA
*
923428 TATGTGGTCCTTAGGGAAAATTC
1 TATGTGGTCCTTCGGGAAAATTC
* *
923451 TATGTGG-CCATTCGGG-ACA-TA
1 TATGTGGTCC-TTCGGGAAAATTC
*
923472 TATGTGGTCCTTCGGGACAATTC
1 TATGTGGTCCTTCGGGAAAATTC
* *
923495 TAAGAGGTCCTTC
1 TATGTGGTCCTTC
923508 AGGATATCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
21 14 0.31
22 7 0.16
23 24 0.53
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (23 bp):
TATGTGGTCCTTCGGGAAAATTC
Found at i:923481 original size:44 final size:43
Alignment explanation
Indices: 923373--923496 Score: 137
Period size: 44 Copynumber: 2.9 Consensus size: 43
923363 TATATGTGAT
* * *
923373 CCATTGGAACATATATGTGGTCCTTTA-GG-ACA-TATATTTGG
1 CCATTGGAACATATATGTGGTCC-TTAGGGAAAATTCTATGTGG
*
923414 TCATTTGGAACATATATGTGGTCCTTAGGGAAAATTCTATGTGG
1 CCA-TTGGAACATATATGTGGTCCTTAGGGAAAATTCTATGTGG
* * *
923458 CCATTCGGGACATATATGTGGTCCTTCGGGACAATTCTA
1 CCATT-GGAACATATATGTGGTCCTTAGGGAAAATTCTA
923497 AGAGGTCCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
41 5 0.07
42 22 0.31
43 4 0.06
44 39 0.56
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (43 bp):
CCATTGGAACATATATGTGGTCCTTAGGGAAAATTCTATGTGG
Found at i:926509 original size:21 final size:20
Alignment explanation
Indices: 926467--926509 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
926457 GAAATATAAT
* * *
926467 CTGGATTAGTAGTATCGGTA
1 CTGGATGAGTAGTACCGATA
926487 CTGGATGAGTAAGTACCGATA
1 CTGGATGAGT-AGTACCGATA
926508 CT
1 CT
926510 ACAAGGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (20 bp):
CTGGATGAGTAGTACCGATA
Found at i:926642 original size:35 final size:35
Alignment explanation
Indices: 926603--926671 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
926593 ATTATCTTGG
*
926603 GGTATCGATACTAAAGT-GATAGTATCGATACCATA
1 GGTATCGATACCAAAGTGGA-AGTATCGATACCATA
*
926638 GGTATCGATACCAAGGTGGAAGTATCGATACCAT
1 GGTATCGATACCAAAGTGGAAGTATCGATACCAT
926672 TCTTGCAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 29 0.94
36 2 0.06
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (35 bp):
GGTATCGATACCAAAGTGGAAGTATCGATACCATA
Found at i:926654 original size:14 final size:15
Alignment explanation
Indices: 926624--926654 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
926614 TAAAGTGATA
926624 GTATCGATACCATAG
1 GTATCGATACCATAG
926639 GTATCGATACCA-AG
1 GTATCGATACCATAG
926653 GT
1 GT
926655 GGAAGTATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (15 bp):
GTATCGATACCATAG
Found at i:927525 original size:23 final size:22
Alignment explanation
Indices: 927458--927606 Score: 128
Period size: 21 Copynumber: 6.9 Consensus size: 22
927448 TGTCGAGGGT
* *
927458 TATATGTGGTCCTTCGAGAC-A
1 TATATGTGGTCCTTTGGGACAA
* ** *
927479 TATATGTGATTATTTGGAAC-A
1 TATATGTGGTCCTTTGGGACAA
*
927500 TATATGTGGTCCTTTGGGGC-A
1 TATATGTGGTCCTTTGGGACAA
* *
927521 TATATTTGGTCCTTTGGAAC-A
1 TATATGTGGTCCTTTGGGACAA
927542 TATATGTGGTCCTTAT-GGACAA
1 TATATGTGGTCCTT-TGGGACAA
* *
927564 TTCTATGTGGTCCTTAGGGACAA
1 -TATATGTGGTCCTTTGGGACAA
*
927587 TTCTATGTGGTCCTTTGGGA
1 -TATATGTGGTCCTTTGGGA
927607 TAATTCTATA
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
21 65 0.62
22 2 0.02
23 38 0.36
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (22 bp):
TATATGTGGTCCTTTGGGACAA
Found at i:927611 original size:23 final size:23
Alignment explanation
Indices: 927502--927631 Score: 126
Period size: 23 Copynumber: 5.8 Consensus size: 23
927492 TTGGAACATA
* *
927502 TATGTGGTCCTTTGGGGC-A-TA
1 TATGTGGTCCTTTGGGACAATTC
* * *
927523 TATTTGGTCCTTTGGAAC-A-TA
1 TATGTGGTCCTTTGGGACAATTC
927544 TATGTGGTCCTTAT-GGACAATTC
1 TATGTGGTCCTT-TGGGACAATTC
*
927567 TATGTGGTCCTTAGGGACAATTC
1 TATGTGGTCCTTTGGGACAATTC
*
927590 TATGTGGTCCTTTGGGATAATTC
1 TATGTGGTCCTTTGGGACAATTC
** *
927613 TATACGGTCCTTCGGGACA
1 TATGTGGTCCTTTGGGACA
927632 GCTTATATGG
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
21 32 0.35
22 2 0.02
23 58 0.63
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (23 bp):
TATGTGGTCCTTTGGGACAATTC
Found at i:928470 original size:13 final size:13
Alignment explanation
Indices: 928452--928476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
928442 TTCATTATGA
928452 AATATGAATTTTC
1 AATATGAATTTTC
928465 AATATGAATTTT
1 AATATGAATTTT
928477 TGTATGAGGG
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:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
AATATGAATTTTC
Found at i:929459 original size:14 final size:14
Alignment explanation
Indices: 929437--929469 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
929427 TTGAATATTT
*
929437 ATAACATAAGAATC
1 ATAATATAAGAATC
929451 ATAATATAAGAATC
1 ATAATATAAGAATC
929465 ATAAT
1 ATAAT
929470 TAATATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (14 bp):
ATAATATAAGAATC
Found at i:929648 original size:41 final size:41
Alignment explanation
Indices: 929591--929668 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
929581 TATTAAATTC
929591 TTATAAATTCATCAATGATAATATATAAGTCAGGTAATTTT
1 TTATAAATTCATCAATGATAATATATAAGTCAGGTAATTTT
*
929632 TTATAAATTCATCAATGGTAATATATAAGTCAGGTAA
1 TTATAAATTCATCAATGATAATATATAAGTCAGGTAA
929669 ATGTCAAGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (41 bp):
TTATAAATTCATCAATGATAATATATAAGTCAGGTAATTTT
Found at i:929696 original size:16 final size:16
Alignment explanation
Indices: 929648--929703 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
929638 ATTCATCAAT
*
929648 GGTAATATATAAG-TCA
1 GGTAA-ATATCAGATCA
*
929664 GGTAAATGTCA-AGTCA
1 GGTAAATATCAGA-TCA
929680 GGTAAATATCAGATCA
1 GGTAAATATCAGATCA
*
929696 GGTCAATA
1 GGTAAATA
929704 ACAAGTCGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 4 0.12
16 28 0.85
17 1 0.03
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (16 bp):
GGTAAATATCAGATCA
Found at i:938857 original size:136 final size:128
Alignment explanation
Indices: 938149--939277 Score: 1931
Period size: 126 Copynumber: 8.9 Consensus size: 128
938139 AATCGGAAGT
*
938149 ACTATTCACATGAAGGCGCGTTCCC--GGGCGCGCTTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
938212 CA-TGCCCTATTATG-CACTCA-GTCCCTCTGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
938272 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
938337 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
938400 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCTTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
938465 CATTGCCCTATTATGTCACTCATATCCCTCGGGG--ACTAGATATATCAGTACCTA-TATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
938525 ACTATTCACATGAAGGTGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAA-ATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
938589 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
938652 ACTATTCACATGAAGGCGCGTT-CCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAAT-TGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
938715 CATTGCCCTATTATGTCACTCATGTCCCTCGGGAACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
938778 ACTATTCACATGAAGGCGCGTTTCGGGCGCGCGCGGGGGCGCGCC-TCCATTATTTCGTCAGAGA
1 ACTATTCACATGAAGGCGCG-TT------C-C-CGGGGGCGCGCCTTCCATTATTTCGTCAGAGA
938842 ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
57 ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
938907 TTATTTC
122 TTATTTC
*
938914 ACTATTCACATGAAGGTGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
938978 CA-TGCCCTATTATGTCACTCATGTCCCTCGGGGACA-TAG--ATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
939037 ACTATTCACATGAAGGCGCGTTCCCGGGGG-G-GCCTTCCATTATTT-TTC-GAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
939098 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
939161 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
939226 CATTGCCCTATTATGTCACTCATGTCCCCCGGGGACACTAGATATATCAGTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
939278 AATCAGGTAA
Statistics
Matches: 959, Mismatches: 17, Indels: 55
0.93 0.02 0.05
Matches are distributed among these distances:
120 15 0.02
121 36 0.04
122 17 0.02
123 70 0.07
124 94 0.10
125 103 0.11
126 231 0.24
127 68 0.07
128 201 0.21
129 1 0.00
135 24 0.03
136 99 0.10
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:940368 original size:21 final size:21
Alignment explanation
Indices: 940280--940373 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
940270 TATGGTATAA
*
940280 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
940301 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
940322 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
940343 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
940364 AACCCTGCGG
1 AACCCTGCGG
940374 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:940403 original size:21 final size:21
Alignment explanation
Indices: 940377--940424 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
940367 CCTGCGGAGA
*
940377 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
940398 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
940419 GGGCAT
1 TGGCAT
940425 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:942136 original size:31 final size:31
Alignment explanation
Indices: 942096--942166 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
942086 TTAATAATTC
* * * *
942096 TAAATAATAATATATATAAATATTATTTTAA
1 TAAAAAATAATATATACAAATAATATTATAA
* *
942127 TAAAAAATAATATTTACATATAATATTATAA
1 TAAAAAATAATATATACAAATAATATTATAA
942158 -AAAAAATAA
1 TAAAAAATAA
942167 CTATTTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 9 0.26
31 25 0.74
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAATAATATATACAAATAATATTATAA
Found at i:942187 original size:20 final size:18
Alignment explanation
Indices: 942146--942180 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
942136 ATATTTACAT
942146 ATAA-TATTATAAAAAAA
1 ATAACTATTATAAAAAAA
*
942163 ATAACTATTTTAAAAAAA
1 ATAACTATTATAAAAAAA
942181 TACTAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAACTATTATAAAAAAA
Found at i:946606 original size:36 final size:36
Alignment explanation
Indices: 946559--946630 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
946549 GAGTCCTCAT
946559 GGATTTTTTTAGTTATCTAAAGTAATCATAAAATTA
1 GGATTTTTTTAGTTATCTAAAGTAATCATAAAATTA
946595 GGATTTTTTTAGTTATCTAAAGTAATCATAAAATTA
1 GGATTTTTTTAGTTATCTAAAGTAATCATAAAATTA
946631 TCACATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (36 bp):
GGATTTTTTTAGTTATCTAAAGTAATCATAAAATTA
Found at i:947812 original size:2 final size:2
Alignment explanation
Indices: 947794--947863 Score: 56
Period size: 2 Copynumber: 35.0 Consensus size: 2
947784 ATACATCCAT
* * *
947794 TA TA TT TA TA AA TA TA TA TA TA TA TA GTA TA CT- TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA
*
947837 TA -A GTA -A TA CA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
947864 CTTATATCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
1 3 0.06
2 47 0.87
3 4 0.07
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:947834 original size:21 final size:21
Alignment explanation
Indices: 947806--947870 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
947796 TATTTATAAA
947806 TATATATATATATAGTATACT
1 TATATATATATATAGTATACT
*
947827 TATGTATATATA-AGTAATAC-
1 TATATATATATATAGT-ATACT
947847 -ATATATATATATA-TATACT
1 TATATATATATATAGTATACT
947866 TATAT
1 TATAT
947871 CTAGGGGTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 4 0.11
19 11 0.29
20 8 0.21
21 15 0.39
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (21 bp):
TATATATATATATAGTATACT
Found at i:949040 original size:30 final size:30
Alignment explanation
Indices: 949006--949075 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
948996 AAATTATTTT
949006 AAGATTAAAACTTAATTTTACACTTGAGTA
1 AAGATTAAAACTTAATTTTACACTTGAGTA
*
949036 AAGATTAAAATTTAATTTTACACTTGAGTA
1 AAGATTAAAACTTAATTTTACACTTGAGTA
*
949066 AGGATTAAAA
1 AAGATTAAAA
949076 ATGACATTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (30 bp):
AAGATTAAAACTTAATTTTACACTTGAGTA
Found at i:950499 original size:23 final size:22
Alignment explanation
Indices: 950453--950534 Score: 112
Period size: 23 Copynumber: 3.7 Consensus size: 22
950443 AGAACCCCAG
* *
950453 GGGGGTATCGATTCCCCTAC-A
1 GGGGGAATCGATTCCCCTTCAA
*
950474 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGATTCCCCTTC-AA
950497 GGGGGAATCGATTCCCCTTCAA
1 GGGGGAATCGATTCCCCTTCAA
*
950519 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
950535 TCTACACTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
21 17 0.31
22 17 0.31
23 20 0.37
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTTCAA
Found at i:956658 original size:15 final size:15
Alignment explanation
Indices: 956635--956666 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
956625 AACCCATTTA
956635 TATAATTTAATTACC
1 TATAATTTAATTACC
*
956650 TATACTTTAATTACC
1 TATAATTTAATTACC
956665 TA
1 TA
956667 GACTATCAAA
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:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATTTAATTACC
Found at i:957014 original size:32 final size:33
Alignment explanation
Indices: 956978--957055 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 33
956968 ATGATTAATG
* *
956978 ATGTATGTACATGTATATAAGTATATAT-ATGC
1 ATGTATGTACATATATACAAGTATATATGATGC
* * *
957010 ATGTATGTACATATATACGATTATTTATGATGC
1 ATGTATGTACATATATACAAGTATATATGATGC
957043 ATGTATGTACATA
1 ATGTATGTACATA
957056 AATGCATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 23 0.57
33 17 0.43
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (33 bp):
ATGTATGTACATATATACAAGTATATATGATGC
Found at i:957068 original size:2 final size:2
Alignment explanation
Indices: 957061--957095 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
957051 ACATAAATGC
957061 AT AT AT 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 AT AT AT A
957096 ATAATTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:957913 original size:16 final size:17
Alignment explanation
Indices: 957892--957930 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
957882 TGTAACTTAT
957892 AAGTCAGA-TAAATATC
1 AAGTCAGAGTAAATATC
957908 AAGTCA-AGTAAATATC
1 AAGTCAGAGTAAATATC
*
957924 AAATCAG
1 AAGTCAG
957931 TTCAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (17 bp):
AAGTCAGAGTAAATATC
Found at i:957962 original size:15 final size:15
Alignment explanation
Indices: 957940--957982 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
957930 GTTCAATAAT
957940 AAGTCGGTTCATTAC
1 AAGTCGGTTCATTAC
* * *
957955 AGGTCGGTTAATTGC
1 AAGTCGGTTCATTAC
957970 AAGTCAGGTTCAT
1 AAGTC-GGTTCAT
957983 AATAGGTCAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (15 bp):
AAGTCGGTTCATTAC
Done.