Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009021.1 Hibiscus syriacus cultivar Beakdansim tig00112411_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: 1242735
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:513086 original size:17 final size:17
Alignment explanation
Indices: 513064--513099 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
513054 AAAAATTTAA
513064 GAGCTCGATT-AAGACTC
1 GAGCTCGATTGAA-ACTC
513081 GAGCTCGATTGAAACTC
1 GAGCTCGATTGAAACTC
513098 GA
1 GA
513100 TTGAAGCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (17 bp):
GAGCTCGATTGAAACTC
Found at i:513117 original size:11 final size:11
Alignment explanation
Indices: 513082--513121 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
513072 TTAAGACTCG
513082 AGCTCGATTGA
1 AGCTCGATTGA
*
513093 AACTCGATTGA
1 AGCTCGATTGA
*
513104 AGCTCGATTCA
1 AGCTCGATTGA
513115 AGCTCGA
1 AGCTCGA
513122 CATTGCCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (11 bp):
AGCTCGATTGA
Found at i:520710 original size:2 final size:2
Alignment explanation
Indices: 520703--520727 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
520693 TTAAAATTCT
520703 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
520728 TTTTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:533158 original size:10 final size:10
Alignment explanation
Indices: 533120--533156 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
533110 AGTGAAACAA
533120 CTCAGCCCAG
1 CTCAGCCCAG
533130 CTCAGCCCAG
1 CTCAGCCCAG
533140 CTCAGCCGC-G
1 CTCAGCC-CAG
533150 CTCAGCC
1 CTCAGCC
533157 GCACCTGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 25 0.96
11 1 0.04
ACGTcount: A:0.16, C:0.51, G:0.22, T:0.11
Consensus pattern (10 bp):
CTCAGCCCAG
Found at i:535970 original size:21 final size:21
Alignment explanation
Indices: 535928--535970 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
535918 GCACCTTACC
** *
535928 CTATCGCAACACGATTTTCAA
1 CTATCGCAACACGAAATGCAA
*
535949 CTATCGCAACGCGAAATGCAA
1 CTATCGCAACACGAAATGCAA
535970 C
1 C
535971 GCGAATTTGC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.21
Consensus pattern (21 bp):
CTATCGCAACACGAAATGCAA
Found at i:539441 original size:30 final size:30
Alignment explanation
Indices: 539406--539468 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
539396 TTCAACATAG
539406 TATAAGGACATACTACAATCAAACATAAAT
1 TATAAGGACATACTACAATCAAACATAAAT
*
539436 TATAAGGACATACTACAATTAAACATAAAT
1 TATAAGGACATACTACAATCAAACATAAAT
539466 TAT
1 TAT
539469 CAATAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.27
Consensus pattern (30 bp):
TATAAGGACATACTACAATCAAACATAAAT
Found at i:540136 original size:2 final size:2
Alignment explanation
Indices: 540129--540163 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
540119 ATCTTATCTC
540129 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
540164 GGGTTCAAAG
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:540192 original size:21 final size:21
Alignment explanation
Indices: 540166--540210 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
540156 TATATATAGG
*
540166 GTTCAAAGTTTAAAATTTAAA
1 GTTCAAAGTTCAAAATTTAAA
* *
540187 GTTCAAGGTTCAAGATTTAAA
1 GTTCAAAGTTCAAAATTTAAA
540208 GTT
1 GTT
540211 TAGGATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (21 bp):
GTTCAAAGTTCAAAATTTAAA
Found at i:549584 original size:2 final size:2
Alignment explanation
Indices: 549577--549648 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
549567 TTTTTAAAAC
549577 AT AT AT AT AT AT A- 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
549618 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 A
549649 CCCCCACCCG
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:549872 original size:24 final size:24
Alignment explanation
Indices: 549845--549944 Score: 78
Period size: 24 Copynumber: 4.2 Consensus size: 24
549835 TATATCAAAA
549845 ATCAAAACATAAAT-CAGGTCAAGT
1 ATCAAAACA-AAATCCAGGTCAAGT
* * *
549869 ATCATATCAAAATCCAGGTTAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * * *
549893 ATCAGATCAGAATCCATGTC-AGAT
1 ATCAAAACAAAATCCAGGTCAAG-T
* * *
549917 ATCAAATCAGAATCCATGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
549941 ATCA
1 ATCA
549945 GATCAGAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
23 6 0.09
24 57 0.88
25 2 0.03
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:549949 original size:24 final size:24
Alignment explanation
Indices: 549862--549953 Score: 123
Period size: 24 Copynumber: 3.8 Consensus size: 24
549852 CATAAATCAG
* * *
549862 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAGAATCCAT
*
549886 GTTAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
*
549910 GTC-AGATATCAAATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
549934 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
549954 TCAAATCGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
23 2 0.03
24 55 0.93
25 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:554697 original size:12 final size:12
Alignment explanation
Indices: 554682--554720 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
554672 GGTCAAGTAT
554682 CATATCAGAATC
1 CATATCAGAATC
554694 CATATCAGATAT-
1 CATATCAGA-ATC
554706 CATATCAGAATC
1 CATATCAGAATC
554718 CAT
1 CAT
554721 GTCAAGTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (12 bp):
CATATCAGAATC
Found at i:554706 original size:24 final size:24
Alignment explanation
Indices: 554674--554740 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
554664 ATAAATCAGG
554674 TCAAGTATCATATCAGAATCCATA
1 TCAAGTATCATATCAGAATCCATA
*
554698 TC-AGATATCATATCAGAATCCATG
1 TCAAG-TATCATATCAGAATCCATA
*
554722 TCAAGTATCAAATCAGAAT
1 TCAAGTATCATATCAGAAT
554741 TCAAATCGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 35 0.90
25 2 0.05
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (24 bp):
TCAAGTATCATATCAGAATCCATA
Found at i:561087 original size:2 final size:2
Alignment explanation
Indices: 561080--561119 Score: 53
Period size: 2 Copynumber: 19.0 Consensus size: 2
561070 GAATCAATAC
*
561080 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AA ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A-T AT AT AT
561120 TAGTCATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 31 0.91
3 3 0.09
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:581072 original size:2 final size:2
Alignment explanation
Indices: 581065--581091 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
581055 TTATGTATCA
581065 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 A
581092 CAAGAAACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:595225 original size:142 final size:142
Alignment explanation
Indices: 594969--595247 Score: 468
Period size: 142 Copynumber: 2.0 Consensus size: 142
594959 CGCTTAGACT
* *
594969 CTATTTGTTTTTGGTTGAATATAACTCCATCTCTTTGATGTACATTGTTTTCTGCATGCACAGTG
1 CTATTTGATTTTGGTTGAATATAACTCCATCTCTTTGATGAACATTGTTTTCTGCATGCACAGTG
*
595034 CCTTGTAGAAATGTGTAAACGACCGAGCCTTTAAGTTGACACATTTCTACAAATGTTCATTTATA
66 CCATGTAGAAATGTGTAAACGACCGAGCCTTTAAGTTGACACATTTCTACAAATGTTCATTTATA
595099 TAAACGTCGTCG
131 TAAACGTCGTCG
* *
595111 CTATTTGATTTTGGTTGAATATAACTCCATCTCTTTGATGAACATTGTTTTGTGCATGCACGGTG
1 CTATTTGATTTTGGTTGAATATAACTCCATCTCTTTGATGAACATTGTTTTCTGCATGCACAGTG
* * * *
595176 TCATGTAGAAATGTGTGAATGATCGAGCCTTTAAGTTGACACATTTCTACAAATGTTCATTTATA
66 CCATGTAGAAATGTGTAAACGACCGAGCCTTTAAGTTGACACATTTCTACAAATGTTCATTTATA
*
595241 TGAACGT
131 TAAACGT
595248 TGTCCGATTT
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 127 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (142 bp):
CTATTTGATTTTGGTTGAATATAACTCCATCTCTTTGATGAACATTGTTTTCTGCATGCACAGTG
CCATGTAGAAATGTGTAAACGACCGAGCCTTTAAGTTGACACATTTCTACAAATGTTCATTTATA
TAAACGTCGTCG
Found at i:596506 original size:24 final size:24
Alignment explanation
Indices: 596479--596530 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
596469 TTATTTAGTG
596479 TAAAA-TG-ATTTAAGAATATATTTT
1 TAAAATTGCATTT-AGAA-ATATTTT
*
596503 TAAAATTGCATTTTGAAATATTTT
1 TAAAATTGCATTTAGAAATATTTT
596527 TAAA
1 TAAA
596531 CAAAATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 16 0.64
25 5 0.20
26 4 0.16
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (24 bp):
TAAAATTGCATTTAGAAATATTTT
Found at i:596709 original size:16 final size:16
Alignment explanation
Indices: 596688--596718 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
596678 TTATTTAGTG
596688 TAAAATGTAGATATTT
1 TAAAATGTAGATATTT
596704 TAAAATGTAGATATT
1 TAAAATGTAGATATT
596719 ATTACGCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (16 bp):
TAAAATGTAGATATTT
Found at i:604695 original size:21 final size:19
Alignment explanation
Indices: 604662--604704 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
604652 AACAGTATCA
604662 TGTTACAAAGTACACAAAAT
1 TGTTACAAAGTACA-AAAAT
* *
604682 TGTTAACATAGTACAAAACT
1 TGTT-ACAAAGTACAAAAAT
604702 TGT
1 TGT
604705 ATAGCAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (19 bp):
TGTTACAAAGTACAAAAAT
Found at i:614007 original size:20 final size:20
Alignment explanation
Indices: 613982--614019 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
613972 TTTGGTTCAC
613982 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
614002 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
614020 AGAATAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:617324 original size:3 final size:3
Alignment explanation
Indices: 617316--617357 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
617306 TTAGAGAAAC
*
617316 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
617358 ATCCAACATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:645252 original size:65 final size:65
Alignment explanation
Indices: 645148--645279 Score: 178
Period size: 65 Copynumber: 2.0 Consensus size: 65
645138 TAAAAATCAT
* * ** *
645148 CAATTATTAAAGTGAAAGAGTGGAACCTAGAGTTGCTTATTGATTGACTGTGTAAGTAATGAGGA
1 CAATTATTAAAGTGAAAGAGTGGAACCTAGAGTTGCTTATTGATAGAATGTACAAGTAATAAGGA
*
645213 CAATTATTAAAGT-AGAAGAGTGGAA-CTTGAAGTTGCTTATTGATAGAATGTACAAGTAATAAG
1 CAATTATTAAAGTGA-AAGAGTGGAACCTAG-AGTTGCTTATTGATAGAATGTACAAGTAATAAG
645276 GA
64 GA
645278 CA
1 CA
645280 CATGTATAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
64 4 0.07
65 55 0.93
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.30
Consensus pattern (65 bp):
CAATTATTAAAGTGAAAGAGTGGAACCTAGAGTTGCTTATTGATAGAATGTACAAGTAATAAGGA
Found at i:648011 original size:20 final size:20
Alignment explanation
Indices: 647988--648048 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 20
647978 CATTTTACCC
647988 TAAAATAAAATGTTGAAATT
1 TAAAATAAAATGTTGAAATT
* *
648008 TAAAAT---ATTTTCAAA--
1 TAAAATAAAATGTTGAAATT
648023 -AAAATAAAATGTTGAAATT
1 TAAAATAAAATGTTGAAATT
648042 TAAAATA
1 TAAAATA
648049 TTTTCAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
14 5 0.16
17 14 0.45
20 12 0.39
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (20 bp):
TAAAATAAAATGTTGAAATT
Found at i:648063 original size:33 final size:34
Alignment explanation
Indices: 647989--648063 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
647979 ATTTTACCCT
647989 AAAATAAAATGTTGAAATTTAAAATATTTTCAAA
1 AAAATAAAATGTTGAAATTTAAAATATTTTCAAA
648023 AAAATAAAATGTTGAAATTTAAAATATTTTC-AA
1 AAAATAAAATGTTGAAATTTAAAATATTTTCAAA
648056 AAAATAAA
1 AAAATAAA
648064 TAATCAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 10 0.24
34 31 0.76
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (34 bp):
AAAATAAAATGTTGAAATTTAAAATATTTTCAAA
Found at i:658470 original size:2 final size:2
Alignment explanation
Indices: 658463--658582 Score: 240
Period size: 2 Copynumber: 60.0 Consensus size: 2
658453 ATCAATTCAG
658463 TA TA 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 TA TA
658505 TA TA 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 TA TA
658547 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
658583 AAGCAAATTC
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 118 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:665670 original size:2 final size:2
Alignment explanation
Indices: 665663--665700 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
665653 TGTCACATTA
665663 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
665701 TTCTATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:666607 original size:21 final size:21
Alignment explanation
Indices: 666576--666642 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
666566 CGATTTACAT
*
666576 ATTCGCATTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
* **
666597 GTTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATAGTCCAA
666618 ATT--CGTTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
*
666637 AATCGC
1 ATTCGC
666643 AACGACTAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 16 0.44
21 20 0.56
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (21 bp):
ATTCGCGTTGCGATAGTCCAA
Found at i:666635 original size:19 final size:20
Alignment explanation
Indices: 666583--666637 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
666573 CATATTCGCA
*
666583 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAATTC-CG
**
666604 TTGCGATTTTCCAAATT-CG
1 TTGCGATAGTCCAAATTCCG
666623 TTGCGATAGTCCAAA
1 TTGCGATAGTCCAAA
666638 ATCGCAACGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
21 14 0.48
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCCAAATTCCG
Found at i:674429 original size:29 final size:29
Alignment explanation
Indices: 674388--674455 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
674378 TTCTTTTCAC
674388 TTTTCCGTTCTCTTCCTCTATCCTGCTAT
1 TTTTCCGTTCTCTTCCTCTATCCTGCTAT
*
674417 TTTTCCGTTCTCTTCCTCTATCTTGCTAT
1 TTTTCCGTTCTCTTCCTCTATCCTGCTAT
674446 TTTTCCGTTC
1 TTTTCCGTTC
674456 AACCAAACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.06, C:0.32, G:0.07, T:0.54
Consensus pattern (29 bp):
TTTTCCGTTCTCTTCCTCTATCCTGCTAT
Found at i:674876 original size:16 final size:17
Alignment explanation
Indices: 674841--674877 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
674831 TATGGGATGA
674841 AAAAATAGTATTATTGT
1 AAAAATAGTATTATTGT
674858 AAAAAT-GTAATTATT-T
1 AAAAATAGT-ATTATTGT
674874 AAAA
1 AAAA
674878 TAATATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAATAGTATTATTGT
Found at i:688431 original size:94 final size:94
Alignment explanation
Indices: 688270--688457 Score: 376
Period size: 94 Copynumber: 2.0 Consensus size: 94
688260 GCAACCTAAG
688270 AATTTAGCTGAAAGGCTATGCTCCCTACAGTCCTCCGCTCTGCCAACTGAGCTAAGGTCGGCCAT
1 AATTTAGCTGAAAGGCTATGCTCCCTACAGTCCTCCGCTCTGCCAACTGAGCTAAGGTCGGCCAT
688335 GCTTGTGTTTCCCCATATGTAACAAAAAT
66 GCTTGTGTTTCCCCATATGTAACAAAAAT
688364 AATTTAGCTGAAAGGCTATGCTCCCTACAGTCCTCCGCTCTGCCAACTGAGCTAAGGTCGGCCAT
1 AATTTAGCTGAAAGGCTATGCTCCCTACAGTCCTCCGCTCTGCCAACTGAGCTAAGGTCGGCCAT
688429 GCTTGTGTTTCCCCATATGTAACAAAAAT
66 GCTTGTGTTTCCCCATATGTAACAAAAAT
688458 TAGTTACGTT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (94 bp):
AATTTAGCTGAAAGGCTATGCTCCCTACAGTCCTCCGCTCTGCCAACTGAGCTAAGGTCGGCCAT
GCTTGTGTTTCCCCATATGTAACAAAAAT
Found at i:693311 original size:20 final size:20
Alignment explanation
Indices: 693288--693327 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
693278 AATAATAGTT
693288 GAATGATCAAAACGAAACAA
1 GAATGATCAAAACGAAACAA
693308 GAATGATCAAAACGAAACAA
1 GAATGATCAAAACGAAACAA
693328 AATAATAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.15, G:0.15, T:0.10
Consensus pattern (20 bp):
GAATGATCAAAACGAAACAA
Found at i:705248 original size:31 final size:31
Alignment explanation
Indices: 705196--705257 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
705186 GTTGAAGGAC
*
705196 TAAAATCGAACCGATCAATAATGTTAGGGAT
1 TAAAATCAAACCGATCAATAATGTTAGGGAT
* * *
705227 TAAAATCAAACGGATCGATAATGTTATGGAT
1 TAAAATCAAACCGATCAATAATGTTAGGGAT
705258 CATGTACCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.27
Consensus pattern (31 bp):
TAAAATCAAACCGATCAATAATGTTAGGGAT
Found at i:710797 original size:30 final size:30
Alignment explanation
Indices: 710761--710819 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
710751 TTCAGCCACC
710761 TATACAATTAATCAATCAGAAATAATTTCA
1 TATACAATTAATCAATCAGAAATAATTTCA
710791 TATACAATTAATCAATCAGAAATAATTTC
1 TATACAATTAATCAATCAGAAATAATTTC
710820 TACTTCTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (30 bp):
TATACAATTAATCAATCAGAAATAATTTCA
Found at i:727894 original size:14 final size:15
Alignment explanation
Indices: 727875--727913 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
727865 CTCGATTAAG
727875 ATAATTTATTA-ATA
1 ATAATTTATTATATA
*
727889 ATAATTTATTATATT
1 ATAATTTATTATATA
*
727904 ACAATTTATT
1 ATAATTTATT
727914 CAAATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (15 bp):
ATAATTTATTATATA
Found at i:734837 original size:105 final size:103
Alignment explanation
Indices: 734655--734862 Score: 389
Period size: 105 Copynumber: 2.0 Consensus size: 103
734645 GAGTTTTGGT
734655 GTATGTTATTAACTTAAACTAGGCACAGCACAAAACGAGTGAATGAAGCAGTATGTCAAAATCTA
1 GTATGTTATTAACTTAAACTAGGCACAGCACAAAACGAGTGAATGAAGCAGTATGTCAAAATCTA
734720 ACAAGGGAAAAAAAAGCTCACAGCATTTAAATGAATATCA
66 ACAAGGG--AAAAAAGCTCACAGCATTTAAATGAATATCA
734760 GTATGTTATTAACTTAAACTAGGCACAGCACAAAACGAGTGAATGAAGCAGTATGTCAAAATCTA
1 GTATGTTATTAACTTAAACTAGGCACAGCACAAAACGAGTGAATGAAGCAGTATGTCAAAATCTA
*
734825 ACAAGGGAAAAAAGCTCACGGCATTTAAATGAATATCA
66 ACAAGGGAAAAAAGCTCACAGCATTTAAATGAATATCA
734863 ATAAAGTTTC
Statistics
Matches: 102, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
103 30 0.29
105 72 0.71
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (103 bp):
GTATGTTATTAACTTAAACTAGGCACAGCACAAAACGAGTGAATGAAGCAGTATGTCAAAATCTA
ACAAGGGAAAAAAGCTCACAGCATTTAAATGAATATCA
Found at i:736378 original size:2 final size:2
Alignment explanation
Indices: 736371--736404 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
736361 GTAATTTGTA
736371 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
736405 TTAATAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:736414 original size:3 final size:3
Alignment explanation
Indices: 736406--736470 Score: 60
Period size: 3 Copynumber: 22.0 Consensus size: 3
736396 TATATATATT
* * * * *
736406 TAA TAA TAA TAA T-A TTA TAT TAA AAA TAA TAT TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
736453 TAA TTT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
736471 ACGAAAAATT
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:736420 original size:18 final size:17
Alignment explanation
Indices: 736399--736470 Score: 90
Period size: 18 Copynumber: 4.1 Consensus size: 17
736389 ATATATATAT
736399 ATATATTTAATAATAATA
1 ATAT-TTTAATAATAATA
* * *
736417 ATATTATATTAAAAATA
1 ATATTTTAATAATAATA
736434 ATATTTATAATAATAATA
1 ATATTT-TAATAATAATA
736452 ATAATTTTAATAATAATA
1 AT-ATTTTAATAATAATA
736470 A
1 A
736471 ACGAAAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
17 15 0.33
18 27 0.59
19 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATTTTAATAATAATA
Found at i:736718 original size:76 final size:76
Alignment explanation
Indices: 736616--737709 Score: 2017
Period size: 76 Copynumber: 14.4 Consensus size: 76
736606 GAGGTCTTAA
* *
736616 AAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
736681 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
736692 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
736757 AGGCTTTTTGG
66 AGGCTTTTTGG
*
736768 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
736833 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
736844 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGATTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
736909 AGGCTTTTTGG
66 AGGCTTTTTGG
*
736920 AAACATCATGCACTGCAGGACTTACAGAAGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
736985 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
736996 AAACATCATGTACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAATATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
737061 AGGCTTTTTGG
66 AGGCTTTTTGG
737072 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
737137 AGGCTTTTTGG
66 AGGCTTTTTGG
*
737148 AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
737213 AGGCTTTTTGG
66 AGGCTTTTTGG
737224 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
737289 AGGTTTTTTGG
66 AGGCTTTTTGG
* *
737300 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGACTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
737365 AGGCTTTTTGG
66 AGGCTTTTTGG
*
737376 AAACATCATCCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
737441 AGGTTTTTTTGG
66 AGG-CTTTTTGG
737453 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
737518 AGGCTTTTTGT
66 AGGCTTTTTGG
737529 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
737594 AGGCTTTTTGG
66 AGGCTTTTTGG
737605 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
737670 AGGCTTTTTGG
66 AGGCTTTTTGG
737681 AAACATCATGCACTGCAGGACTTACAGAT
1 AAACATCATGCACTGCAGGACTTACAGAT
737710 ATGGGAAATA
Statistics
Matches: 988, Mismatches: 29, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
76 914 0.93
77 74 0.07
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:738038 original size:168 final size:165
Alignment explanation
Indices: 737713--738038 Score: 519
Period size: 168 Copynumber: 2.0 Consensus size: 165
737703 TACAGATATG
** * *
737713 GGAAATAGTTTACTAAGTAAGGAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTT
1 GGAAATAGTTTACTAAGTAAAAAACTAAGAAAATAGTTTTCTTACTTTTCAACAATTTCATTTTT
** *
737778 AGAAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGAT
66 AGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGAT
737843 TGGGTAACATGCCCCAATCTCAAGATAAGGCTATT
131 TGGGTAACATGCCCCAATCTCAAGATAAGGCTATT
737878 GGAAATAGTTTACTAAGTAAAAAAAACTAAGAAAATAGTTTTCTTACTTTTCAACAATTTCA-TT
1 GGAAATAGTTTACTAAGT--AAAAAACTAAGAAAATAGTTTTCTTACTTTTCAACAATTTCATTT
* **
737942 TTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTCTGTTTTTTGAAATAACATGT
64 TTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCA-T-TATTTTTCAAAATAACATGT
738007 TGATTGGGTAACATGCCCCAATCTCAAGATAA
127 TGATTGGGTAACATGCCCCAATCTCAAGATAA
738039 TGCTTATTTT
Statistics
Matches: 147, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
165 18 0.12
166 41 0.28
167 39 0.27
168 49 0.33
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (165 bp):
GGAAATAGTTTACTAAGTAAAAAACTAAGAAAATAGTTTTCTTACTTTTCAACAATTTCATTTTT
AGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGAT
TGGGTAACATGCCCCAATCTCAAGATAAGGCTATT
Found at i:738579 original size:22 final size:22
Alignment explanation
Indices: 738554--738630 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
738544 AATAAAGCTT
*
738554 TCATCTTTGAAAAGATAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
738576 TCATATTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
738598 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
738620 TCATCTTTGAA
1 TCATCTTTGAA
738631 GAATGTAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:739080 original size:54 final size:54
Alignment explanation
Indices: 738998--739159 Score: 261
Period size: 54 Copynumber: 3.0 Consensus size: 54
738988 AGAATAGCAG
* * *
738998 GTTCGTAAAACATTTGACAACTCATTCATCCTTTCCTGTTGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
* * *
739052 GTTCGTAAGACATTTGACAACACATTCATCCTTTCTTGTGGTTTCTGCTCAGAC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
*
739106 GTTCGTAAAACATTTTACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
739160 TTCTCAATCA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 98 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
Found at i:746388 original size:21 final size:21
Alignment explanation
Indices: 746362--746401 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
746352 AAAAGTAAGA
746362 ATACAAAATGGAAATGCATAG
1 ATACAAAATGGAAATGCATAG
*
746383 ATACAAAATGTAAATGCAT
1 ATACAAAATGGAAATGCAT
746402 GTATGAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.23
Consensus pattern (21 bp):
ATACAAAATGGAAATGCATAG
Found at i:746522 original size:31 final size:32
Alignment explanation
Indices: 746475--746537 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 32
746465 CAGTACATCA
*
746475 AACAAAACTTTTACATATAGGGGACAACTTTC
1 AACAAAACTTTTACATATAGGGAACAACTTTC
*
746507 AACAAAAC-TTTACATATAGGGAATAACTTTC
1 AACAAAACTTTTACATATAGGGAACAACTTTC
746538 TTATTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (32 bp):
AACAAAACTTTTACATATAGGGAACAACTTTC
Found at i:748464 original size:17 final size:18
Alignment explanation
Indices: 748437--748477 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
748427 TAATACCTGA
*
748437 ATAAAAA-AAT-ATTAAT
1 ATAAAAATAATAAGTAAT
748453 ATAAAAATAATAAGTAAT
1 ATAAAAATAATAAGTAAT
748471 A-AAAAAT
1 ATAAAAAT
748478 TTGAAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 9 0.41
18 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
ATAAAAATAATAAGTAAT
Found at i:748947 original size:27 final size:27
Alignment explanation
Indices: 748912--748965 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
748902 ATTTCAAAAT
748912 TATAATTATGAAAT-AAATATTAATTTA
1 TATAATTAT-AAATAAAATATTAATTTA
* *
748939 TATATTTATAAATAAAATATTTATTTA
1 TATAATTATAAATAAAATATTAATTTA
748966 GTTAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
TATAATTATAAATAAAATATTAATTTA
Found at i:749263 original size:3 final size:3
Alignment explanation
Indices: 749250--749287 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
749240 TATATAAATC
*
749250 ATA AAA ATA ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
749288 TTGTAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:749273 original size:20 final size:20
Alignment explanation
Indices: 749245--749285 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
749235 ATATTTATAT
*
749245 AAATCATAAAAATAATAATA
1 AAATAATAAAAATAATAATA
*
749265 AAATAATAATAATAATAATA
1 AAATAATAAAAATAATAATA
749285 A
1 A
749286 TATTGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATAATAAAAATAATAATA
Found at i:750632 original size:3 final size:3
Alignment explanation
Indices: 750624--750699 Score: 82
Period size: 3 Copynumber: 25.3 Consensus size: 3
750614 ATATATATAT
* * * *
750624 ATA ATA ATA ATAA ATA ATA ATA AT- ATT ATA TTA ATA ATA ATA TTT
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
750669 ATA ATA ATA ATA ATA ATT TTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
750700 ATGAAAAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.03
3 55 0.92
4 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
ATA
Found at i:750672 original size:12 final size:12
Alignment explanation
Indices: 750602--750698 Score: 55
Period size: 12 Copynumber: 8.4 Consensus size: 12
750592 ATGTAATTTG
*
750602 TAATATATATATA
1 TAATATTTATA-A
*
750615 TATATATATATAA
1 TA-ATATTTATAA
*
750628 TAATA-ATA-AA
1 TAATATTTATAA
* *
750638 TAATAATAAT-A
1 TAATATTTATAA
* *
750649 TTATATTAATAA
1 TAATATTTATAA
750661 TAATATTTATAA
1 TAATATTTATAA
750673 TAATA---ATAA
1 TAATATTTATAA
750682 TAAT-TTTAATAA
1 TAATATTT-ATAA
750694 TAATA
1 TAATA
750699 AATGAAAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
9 8 0.12
10 7 0.10
11 13 0.19
12 27 0.39
13 5 0.07
14 9 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATATTTATAA
Found at i:758784 original size:16 final size:15
Alignment explanation
Indices: 758758--758787 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
758748 TTAATTAATC
758758 GAAATTATTAAATAT
1 GAAATTATTAAATAT
758773 GAAATATATTAAATA
1 GAAAT-TATTAAATA
758788 CATATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
GAAATTATTAAATAT
Found at i:759457 original size:29 final size:27
Alignment explanation
Indices: 759399--759465 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
759389 ATTTAAAATT
* *
759399 ATATTTTTTTATCAAAATATGTACTTA
1 ATATTTTTTTATCAAAATATATACTAA
* *
759426 ATATTTTTTTATTAAAATGTATACATAAA
1 ATATTTTTTTATCAAAATATATAC-T-AA
759455 ATATTTATTTT
1 ATATTT-TTTT
759466 TGTCTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 21 0.64
28 1 0.03
29 7 0.21
30 4 0.12
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (27 bp):
ATATTTTTTTATCAAAATATATACTAA
Found at i:759791 original size:2 final size:2
Alignment explanation
Indices: 759779--759824 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
759769 TCATACAAAT
759779 TA TA T- 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 TA TA
759820 TA TA T
1 TA TA T
759825 TTAATTCATT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:764075 original size:12 final size:13
Alignment explanation
Indices: 764058--764086 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
764048 AGTGGCCTAA
764058 AGATGGAGATG-G
1 AGATGGAGATGTG
764070 AGATGGAGATGTG
1 AGATGGAGATGTG
764083 AGAT
1 AGAT
764087 CAGAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.45, T:0.21
Consensus pattern (13 bp):
AGATGGAGATGTG
Found at i:765318 original size:22 final size:23
Alignment explanation
Indices: 765287--765365 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 23
765277 CAACTTATAA
765287 TCATAATTATTTATGTACTTTAC
1 TCATAATTATTTATGTACTTTAC
* * *
765310 TCAT-ATTATAATTAAGGT--TATAAA
1 TCATAATTAT--TT-ATGTACT-TTAC
765334 TCATAATTATTTATGTACTTTAC
1 TCATAATTATTTATGTACTTTAC
765357 TCAT-ATTAT
1 TCATAATTAT
765366 AATTAAGGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 15
0.67 0.09 0.23
Matches are distributed among these distances:
22 13 0.30
23 13 0.30
24 9 0.21
25 8 0.19
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.49
Consensus pattern (23 bp):
TCATAATTATTTATGTACTTTAC
Found at i:765337 original size:47 final size:47
Alignment explanation
Indices: 765281--765381 Score: 195
Period size: 47 Copynumber: 2.2 Consensus size: 47
765271 AAACAACAAC
765281 TTAT-AATCATAATTATTTATGTACTTTACTCATATTATAATTAAGG
1 TTATAAATCATAATTATTTATGTACTTTACTCATATTATAATTAAGG
765327 TTATAAATCATAATTATTTATGTACTTTACTCATATTATAATTAAGG
1 TTATAAATCATAATTATTTATGTACTTTACTCATATTATAATTAAGG
765374 TTATAAAT
1 TTATAAAT
765382 ATATTTTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 4 0.07
47 50 0.93
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.48
Consensus pattern (47 bp):
TTATAAATCATAATTATTTATGTACTTTACTCATATTATAATTAAGG
Found at i:772103 original size:17 final size:17
Alignment explanation
Indices: 772081--772113 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
772071 AAATCCTTAT
772081 AATTATAATTTTAATAA
1 AATTATAATTTTAATAA
772098 AATTATAATTTTAATA
1 AATTATAATTTTAATA
772114 TTTACGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTATAATTTTAATAA
Found at i:772757 original size:17 final size:17
Alignment explanation
Indices: 772731--772778 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
772721 TAAAATTATG
*
772731 ATTAAATTTAATAAATA
1 ATTAATTTTAATAAATA
*
772748 ATTAATTTTAAATAAATC
1 ATTAATTTT-AATAAATA
* *
772766 TTTACTTTTAATA
1 ATTAATTTTAATA
772779 TTTACATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTAATTTTAATAAATA
Found at i:772763 original size:18 final size:17
Alignment explanation
Indices: 772731--772764 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
772721 TAAAATTATG
772731 ATTAAATTTAATAAATA
1 ATTAAATTTAATAAATA
*
772748 ATTAATTTTAAATAAAT
1 ATTAAATTT-AATAAAT
772765 CTTTACTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTAAATTTAATAAATA
Found at i:773755 original size:17 final size:18
Alignment explanation
Indices: 773729--773770 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
773719 AAGATTAGAC
*
773729 TAATAAAATG-TTATGAT
1 TAATAAAATGCTTATAAT
*
773746 TAATATAATGCTTATAAT
1 TAATAAAATGCTTATAAT
773764 TAA-AAAA
1 TAATAAAA
773771 AACAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (18 bp):
TAATAAAATGCTTATAAT
Found at i:774166 original size:30 final size:30
Alignment explanation
Indices: 774130--774190 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
774120 ATGTGCAACG
774130 AAGCAGATTACAAGATAGTTTGATTCGTTT
1 AAGCAGATTACAAGATAGTTTGATTCGTTT
*
774160 AAGCAGATTACCAGATAGTTTGATTCGTTT
1 AAGCAGATTACAAGATAGTTTGATTCGTTT
774190 A
1 A
774191 TCACTTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (30 bp):
AAGCAGATTACAAGATAGTTTGATTCGTTT
Found at i:781211 original size:6 final size:6
Alignment explanation
Indices: 781200--781242 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
781190 GGAAAGGAGA
781200 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG A
781243 GGAGGAGGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:783196 original size:18 final size:18
Alignment explanation
Indices: 783173--783208 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
783163 CATGCATGCG
783173 CTTTGGAAATTTGAAAAT
1 CTTTGGAAATTTGAAAAT
783191 CTTTGGAAATTTGAAAAT
1 CTTTGGAAATTTGAAAAT
783209 TGCTTCTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (18 bp):
CTTTGGAAATTTGAAAAT
Found at i:784179 original size:4 final size:4
Alignment explanation
Indices: 784170--784262 Score: 154
Period size: 4 Copynumber: 23.8 Consensus size: 4
784160 TCACTGTTTC
* *
784170 CATA CATA CATA CATA CATA CATA C--A CATA CACA TATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
784216 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
784263 GCGCTTTGGA
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.02
4 81 0.98
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:796483 original size:21 final size:20
Alignment explanation
Indices: 796454--796492 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
796444 GCTGTCGACT
*
796454 TTGGTGGTGGAGTGTGATGAG
1 TTGGGGGTGGAGT-TGATGAG
*
796475 TTGGGGGTGGTGTTGATG
1 TTGGGGGTGGAGTTGATG
796493 GTGGTGGTGT
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:0.10, C:0.00, G:0.54, T:0.36
Consensus pattern (20 bp):
TTGGGGGTGGAGTTGATGAG
Found at i:798019 original size:33 final size:33
Alignment explanation
Indices: 797981--798053 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
797971 ATTTCATTAT
*
797981 TTATTTGTAA-TATTA-TTTTATTATTATTTTAA
1 TTATTT-TAATTATTACTTTAATTATTATTTTAA
*
798013 -TATATTTAATTATTACTTTAATTATTATTTTTA
1 TTAT-TTTAATTATTACTTTAATTATTATTTTAA
798046 TTATTTTA
1 TTATTTTA
798054 TCTTAGTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
31 6 0.17
32 7 0.20
33 19 0.54
34 3 0.09
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (33 bp):
TTATTTTAATTATTACTTTAATTATTATTTTAA
Found at i:798024 original size:21 final size:21
Alignment explanation
Indices: 797969--798053 Score: 93
Period size: 21 Copynumber: 3.9 Consensus size: 21
797959 ATTTAGTTAT
797969 TTATTTCATTATTTATTTGTAATA
1 TTATTT-ATTA-TTATTT-TAATA
797993 TTATTTTATTATTATTTTAATA
1 TTA-TTTATTATTATTTTAATA
*
798015 -TATTTAATTATTACTTTAATTA
1 TTATTT-ATTATTATTTTAA-TA
798037 TTATTT-TTATTATTTTA
1 TTATTTATTATTATTTTA
798054 TCTTAGTCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.05
21 24 0.44
22 7 0.13
23 11 0.20
24 7 0.13
25 3 0.05
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (21 bp):
TTATTTATTATTATTTTAATA
Found at i:798034 original size:12 final size:11
Alignment explanation
Indices: 797950--798051 Score: 81
Period size: 12 Copynumber: 9.3 Consensus size: 11
797940 ATATTGTAAT
797950 TTTAATT-TTA
1 TTTAATTATTA
*
797960 TTTAGTTATTTA
1 TTTAATTA-TTA
*
797972 TTTCATTATTTA
1 TTTAATTA-TTA
797984 TTTGTAA-TATTA
1 -TT-TAATTATTA
*
797996 TTTTATTATTA
1 TTTAATTATTA
798007 TTTTAA-TA-TA
1 -TTTAATTATTA
798017 TTTAATTATTA
1 TTTAATTATTA
798028 CTTTAATTATTA
1 -TTTAATTATTA
798040 TTT--TTATTA
1 TTTAATTATTA
798049 TTT
1 TTT
798052 TATCTTAGTC
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
9 14 0.18
10 12 0.16
11 14 0.18
12 31 0.40
13 4 0.05
14 2 0.03
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
TTTAATTATTA
Found at i:800774 original size:14 final size:14
Alignment explanation
Indices: 800736--800774 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
800726 ATTTTAAATA
*
800736 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
800750 TTTTACATTTGCAT
1 ATTTACATTTGCAT
800764 ATTTACATTTG
1 ATTTACATTTG
800775 GAATCTTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:806590 original size:114 final size:114
Alignment explanation
Indices: 806305--806646 Score: 576
Period size: 114 Copynumber: 3.0 Consensus size: 114
806295 AAGTGCCATG
806305 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
806370 TGGTTTGGTATGAACCCCAAAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCC--AAAACCAATCATTGGATTTAAAAGATGAATT
806421 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
806486 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
* * * *
806535 TGCTTATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * *
806600 TGATTCGGTAGGAACCCCAAAACCGATCATTGGAATTAAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAA
806647 ATGCATGATC
Statistics
Matches: 216, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
114 133 0.62
116 83 0.38
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
Found at i:808914 original size:54 final size:52
Alignment explanation
Indices: 808766--808966 Score: 221
Period size: 54 Copynumber: 3.8 Consensus size: 52
808756 AGAAATCTTG
* * * *
808766 GCAGAAGCCACAGAAAATGATGAATGTGTTGTCAAACGCTTTATGAACGTCTGA
1 GCAGAAACCACAGAAAATGATGAATGTGTTGTCAAATGTTTTA-CAAC-TCTGA
* *
808820 GCAAAAACCACA-AGAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
1 GCAGAAACCACAGA-AAATGATGAATGTGTTGTCAAATGTTTTAC-AAC-TCTGA
* * *
808874 GCAGAAGCCACAGAAAATGATGAATGTGTTGTCAAGTGTTTTACATCTC-GA
1 GCAGAAACCACAGAAAATGATGAATGTGTTGTCAAATGTTTTACAACTCTGA
* *
808925 -CAGAAACCACAGGAAAA-GATGAATATATTGTCAAATGTTTTA
1 GCAGAAACCACA-GAAAATGATGAATGTGTTGTCAAATGTTTTA
808967 TGAACCAGTG
Statistics
Matches: 127, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
50 32 0.25
51 7 0.06
52 2 0.02
53 3 0.02
54 82 0.65
55 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (52 bp):
GCAGAAACCACAGAAAATGATGAATGTGTTGTCAAATGTTTTACAACTCTGA
Found at i:809367 original size:22 final size:22
Alignment explanation
Indices: 809338--809392 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
809328 ATCTACACTC
* *
809338 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTATT
*
809360 TTTAAAGATGACAGATTCTATT
1 TTCAAAGATGACAGATTCTATT
809382 TTCAAAGATGA
1 TTCAAAGATGA
809393 AAACTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTATT
Found at i:809991 original size:113 final size:113
Alignment explanation
Indices: 809793--810359 Score: 1053
Period size: 113 Copynumber: 5.0 Consensus size: 113
809783 TAGCAAAGAT
* *
809793 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAATTTCATAATAAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
809858 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
809906 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAATTTCATAATAAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
809971 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
810019 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
810084 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
810132 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
810197 AGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
810245 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCTG
* * *
810310 AAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGC
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
810359 T
1 T
810360 AGATTTCATC
Statistics
Matches: 446, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
113 370 0.83
114 76 0.17
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (113 bp):
TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:812100 original size:35 final size:34
Alignment explanation
Indices: 811992--812101 Score: 91
Period size: 35 Copynumber: 3.1 Consensus size: 34
811982 TATATTGTAG
* *
811992 TTTTAATT-TTATTTAGTTATTTTATTTCATTATTTA
1 TTTTAATTATTATTTAATTA--TTATTTTATTA-TTA
** *
812028 TTTGTAA-TATTATTTTTTTTATTATTTT-TAATATA
1 TTT-TAATTATTA-TTTAATTATTATTTTATTAT-TA
812063 TTTTAATTATTACTTTAATTATTATTTTATTATTA
1 TTTTAATTATTA-TTTAATTATTATTTTATTATTA
812098 TTTT
1 TTTT
812102 TATCTTAGTC
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
34 4 0.07
35 31 0.52
36 13 0.22
37 6 0.10
38 6 0.10
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (34 bp):
TTTTAATTATTATTTAATTATTATTTTATTATTA
Found at i:812102 original size:12 final size:12
Alignment explanation
Indices: 812008--812104 Score: 85
Period size: 12 Copynumber: 8.3 Consensus size: 12
811998 TTTTATTTAG
812008 TTATT-TTA-TT
1 TTATTATTATTT
*
812018 TCATTATTTATTT
1 TTATTA-TTATTT
* *
812031 GTAATATTATTT
1 TTATTATTATTT
*
812043 TTTTTATTATTT
1 TTATTATTATTT
*
812055 TTAATA-TATTT
1 TTATTATTATTT
* *
812066 TAATTATTACTT
1 TTATTATTATTT
*
812078 TAATTATTA-TT
1 TTATTATTATTT
812089 TTATTATTATTT
1 TTATTATTATTT
812101 TTAT
1 TTAT
812105 CTTAGTCTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
10 4 0.06
11 19 0.28
12 41 0.59
13 5 0.07
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:812103 original size:24 final size:23
Alignment explanation
Indices: 812013--812103 Score: 96
Period size: 24 Copynumber: 3.9 Consensus size: 23
812003 TTTAGTTATT
* *
812013 TTATTTCATTATTTATTTGTAATA
1 TTATTTTATTA-TTATTTTTAATA
*
812037 TTATTTTTTTTATTATTTTTAATA
1 TTA-TTTTATTATTATTTTTAATA
*
812061 -TATTTTAATTATTA-CTTTAATTA
1 TTATTTT-ATTATTATTTTTAA-TA
812084 TTATTTTATTATTATTTTTA
1 TTATTTTATTATTATTTTTA
812104 TCTTAGTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.16
23 17 0.30
24 24 0.43
25 6 0.11
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (23 bp):
TTATTTTATTATTATTTTTAATA
Found at i:812477 original size:126 final size:135
Alignment explanation
Indices: 812329--812654 Score: 395
Period size: 126 Copynumber: 2.5 Consensus size: 135
812319 TTTTAACATT
* *
812329 AAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTGATATTCTTAAATAAATAAATAT-C
1 AAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTGATATTCTTAAATAAATAAATATCC
*
812393 T-TACTTTTATAAA-T-TATA-T-CTA-TTTCTAAATAAATGTTTTAATTAATTATTTATTT-TT
66 TGTACTTTTATAAATTATATATTACTATTTTCTAAAAAAATGTTTT-ATTAATTATTTATTTATT
*
812451 -T-TTA
130 ATATCA
* *
812455 AAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCTTTTATGATATTCTTAAATAAATAAATATCC
1 AAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTGATATTCTTAAATAAATAAATATCC
** * * * *
812520 TGTTTTTTTATAAATTATATATTAATTATTTTTTAAAAAAATGTTTTTTTAGTTATTTATTTATT
66 TGTACTTTTATAAATTATATATT-ACTATTTTCTAAAAAAATGTTTTATTAATTATTTATTTATT
*
812585 AATATCG
130 -ATATCA
** *
812592 AAGAAAAGAGCTGTCTTAAAATACCTAGAAGTCATTTTCTGATATT-TCTAAATAAATAAATAT
1 AAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTGATATTCT-TAAATAAATAAATAT
812655 TTTATACATA
Statistics
Matches: 169, Mismatches: 18, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
126 59 0.35
127 2 0.01
128 10 0.06
129 1 0.01
130 4 0.02
131 1 0.01
133 15 0.09
134 18 0.11
136 2 0.01
137 57 0.34
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (135 bp):
AAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTGATATTCTTAAATAAATAAATATCC
TGTACTTTTATAAATTATATATTACTATTTTCTAAAAAAATGTTTTATTAATTATTTATTTATTA
TATCA
Found at i:813078 original size:3 final size:3
Alignment explanation
Indices: 813070--813267 Score: 123
Period size: 3 Copynumber: 66.0 Consensus size: 3
813060 ATGATAGGGA
* * * *
813070 TGG TGG TGG TGG TGG TGA TGG -GG ATGA TGG TGG TGA TGA TGG -GG
1 TGG TGG TGG TGG TGG TGG TGG TGG -TGG TGG TGG TGG TGG TGG TGG
* * * * *
813114 ATGG TGG TGG TGG TGA TGA TGG -GG ATGA TGG TGG CGG TGG TGC TGG
1 -TGG TGG TGG TGG TGG TGG TGG TGG -TGG TGG TGG TGG TGG TGG TGG
* * * * * * *
813160 TGA TGG TGG TGC TGG TGA TGG AGT TGG TTG TGG TGG TGA TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
* * * * * * * *
813208 TGG TGG TGA TGG AGT TGG TTG TGG TGG TGG TGG CGG TGC TGG TGA TGA
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
*
813256 TGG CGG TGG TGG
1 TGG TGG TGG TGG
813268 CGATTTCTCT
Statistics
Matches: 145, Mismatches: 44, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
2 6 0.04
3 135 0.93
4 4 0.03
ACGTcount: A:0.09, C:0.03, G:0.57, T:0.31
Consensus pattern (3 bp):
TGG
Found at i:813082 original size:24 final size:24
Alignment explanation
Indices: 813053--813179 Score: 134
Period size: 24 Copynumber: 5.4 Consensus size: 24
813043 GGTTACGACA
* * *
813053 GGTGGTAATGATAGGGATGGTGGT
1 GGTGGTGATGATGGGGATGATGGT
*
813077 GGTGGTGGTGATGGGGATGA---T
1 GGTGGTGATGATGGGGATGATGGT
*
813098 GGTGGTGATGATGGGGATGGTGGT
1 GGTGGTGATGATGGGGATGATGGT
813122 GGTGGTGATGATGGGGATGATGGT
1 GGTGGTGATGATGGGGATGATGGT
* * * * *
813146 GGCGGTGGTGCTGGTGATGGTGGT
1 GGTGGTGATGATGGGGATGATGGT
*
813170 GCTGGTGATG
1 GGTGGTGATG
813180 GAGTTGGTTG
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
21 19 0.22
24 66 0.78
ACGTcount: A:0.13, C:0.02, G:0.55, T:0.29
Consensus pattern (24 bp):
GGTGGTGATGATGGGGATGATGGT
Found at i:813117 original size:45 final size:45
Alignment explanation
Indices: 813053--813219 Score: 168
Period size: 45 Copynumber: 3.8 Consensus size: 45
813043 GGTTACGACA
* *
813053 GGTGGTAATGATAGGGATGGTGGTGGTGGTGGTGATGGGGATGAT
1 GGTGGTGATGATGGGGATGGTGGTGGTGGTGGTGATGGGGATGAT
*
813098 GGTGGTGATGATGGGGATGGTGGTGGTGGTGATGATGGGGATGAT
1 GGTGGTGATGATGGGGATGGTGGTGGTGGTGGTGATGGGGATGAT
* * * * * * *
813143 GGTGGCGGTGGTGCTGG-TGATGGTGGTGCTGGTGAT--GGA-GTT
1 GGTGGTGATGATG-GGGATGGTGGTGGTGGTGGTGATGGGGATGAT
* *
813185 GGT--TG-TGGTGGTGATGGTGGTGGTGGTGGTGATGG
1 GGTGGTGATGATGGGGATGGTGGTGGTGGTGGTGATGG
813220 AGTTGGTTGT
Statistics
Matches: 102, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 22 0.22
40 1 0.01
42 5 0.05
43 3 0.03
45 68 0.67
46 2 0.02
ACGTcount: A:0.12, C:0.02, G:0.56, T:0.31
Consensus pattern (45 bp):
GGTGGTGATGATGGGGATGGTGGTGGTGGTGGTGATGGGGATGAT
Found at i:813257 original size:39 final size:39
Alignment explanation
Indices: 813115--813258 Score: 150
Period size: 39 Copynumber: 3.8 Consensus size: 39
813105 ATGATGGGGA
* * * * * ** *
813115 TGGTGGTGGTGGTGATGATGGGGATGATGGTGGCGGTGG
1 TGGTGGTGATGGTGGTGCTGGTGATGATGGAGTTGGTTG
*
813154 TGCTGGTGATGGTGGTGCT-G-G-TGATGGAGTTGGTTG
1 TGGTGGTGATGGTGGTGCTGGTGATGATGGAGTTGGTTG
* *
813190 TGGTGGTGATGGTGGTGGTGGTGGTGATGGAGTTGGTTG
1 TGGTGGTGATGGTGGTGCTGGTGATGATGGAGTTGGTTG
* *
813229 TGGTGGTGGTGGCGGTGCTGGTGATGATGG
1 TGGTGGTGATGGTGGTGCTGGTGATGATGG
813259 CGGTGGTGGC
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
36 28 0.32
37 2 0.02
38 2 0.02
39 56 0.64
ACGTcount: A:0.08, C:0.03, G:0.56, T:0.33
Consensus pattern (39 bp):
TGGTGGTGATGGTGGTGCTGGTGATGATGGAGTTGGTTG
Found at i:813334 original size:21 final size:21
Alignment explanation
Indices: 813292--813335 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
813282 TTGAGGGTGG
* **
813292 CGATTGTGGTGGTGGTGAAGA
1 CGATTGTGGTGGCGACGAAGA
*
813313 CGATTGTGGTGGCGACGGAGA
1 CGATTGTGGTGGCGACGAAGA
813334 CG
1 CG
813336 GTGGAGATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.18, C:0.11, G:0.48, T:0.23
Consensus pattern (21 bp):
CGATTGTGGTGGCGACGAAGA
Found at i:819061 original size:229 final size:227
Alignment explanation
Indices: 818656--819104 Score: 799
Period size: 229 Copynumber: 2.0 Consensus size: 227
818646 GTAAATTATC
* * *
818656 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
818721 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
818786 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
818851 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
818884 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
818949 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
819014 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
819079 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
819105 GCAGTTTTAA
Statistics
Matches: 211, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
228 40 0.19
229 171 0.81
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:819193 original size:20 final size:19
Alignment explanation
Indices: 819170--819215 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
819160 CGATATACCA
819170 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
819190 GGTAACAAAATGATAAAACG
1 GGTAA-AAAATGATAAAACC
819210 GGTAAA
1 GGTAAA
819216 TTTAAAAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.54, C:0.09, G:0.20, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:819360 original size:20 final size:19
Alignment explanation
Indices: 819337--819383 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
819327 CGATATAACA
819337 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
819357 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
819377 GGTAAAA
1 GGTAAAA
819384 TGATACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:819385 original size:17 final size:18
Alignment explanation
Indices: 819341--819388 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
819331 ATAACAGGTA
819341 AAAATATGATAAAACCGGT
1 AAAA-ATGATAAAACCGGT
819360 AACAAAATGATAAAACCGGT
1 -A-AAAATGATAAAACCGGT
819380 -AAAATGATA
1 AAAAATGATA
819389 CCGGATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (18 bp):
AAAAATGATAAAACCGGT
Found at i:821665 original size:21 final size:22
Alignment explanation
Indices: 821618--821670 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
821608 AAGACAATCA
*
821618 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGATC
* *
821640 A-AGTCGTAGAGAAACTCGA-G
1 AGAGTCGAAGAGAAACTCGATC
821660 AGAGTCGAAGA
1 AGAGTCGAAGA
821671 TACATTCGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.30, T:0.15
Consensus pattern (22 bp):
AGAGTCGAAGAGAAACTCGATC
Found at i:821758 original size:33 final size:33
Alignment explanation
Indices: 821716--821781 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
821706 AAATAGATGG
*
821716 AGTGGTGAAAGAAGTA-GAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTATG-GGTGTTAAGGGGTGA
821749 AGTGGTGAAAGAAGTATGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTATGGGTGTTAAGGGGTGA
821782 TATTAAGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTATGGGTGTTAAGGGGTGA
Found at i:823600 original size:19 final size:19
Alignment explanation
Indices: 823576--823624 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
823566 AATGTCGAGT
823576 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
823595 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
823614 TATTTTTGTAT
1 TAATTTTGTAT
823625 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:824083 original size:199 final size:199
Alignment explanation
Indices: 823743--825110 Score: 2519
Period size: 199 Copynumber: 6.9 Consensus size: 199
823733 CAATATGGCC
* * * *
823743 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
823808 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
823873 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
823937 TGGAA
195 TGGAA
* *
823942 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
824007 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
824072 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
824137 TGGAA
195 TGGAA
*
824142 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
824207 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
824272 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
**
824337 TAAA
196 GGAA
824341 AACAAGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
824404 CAAAAGTATAATGTAATATGT-ATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
824468 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
**
824533 TAAA
196 GGAA
824537 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
824602 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTATAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* * *
824667 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTGTTTTCCCATAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
824732 GGAA
196 GGAA
824736 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
824801 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
**
824866 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
824931 GGAA
196 GGAA
**
824935 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
825000 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
825065 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
825111 CTAATTTAAA
Statistics
Matches: 1147, Mismatches: 18, Indels: 8
0.98 0.02 0.01
Matches are distributed among these distances:
196 141 0.12
197 55 0.05
198 55 0.05
199 813 0.71
200 83 0.07
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:824939 original size:594 final size:596
Alignment explanation
Indices: 823743--825110 Score: 2517
Period size: 594 Copynumber: 2.3 Consensus size: 596
823733 CAATATGGCC
* * *
823743 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCG-AAA
823808 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
64 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
823873 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
129 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
* *
823938 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
194 GAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
824003 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
259 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
* *
824068 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAA
324 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTGTTTTCCCAGAA
*
824133 TGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
389 TGAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
824198 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
454 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
**
824263 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCC
519 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCC
*
824328 AGAATGAATTAAA
584 AGAATGAATGAAA
*
824341 AACAAGGTGCACCCATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
1 AACAAGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAAACC
824405 AAAAGTATAATGTAATATGT-ATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
*
824469 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATG
824534 AAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-
195 AAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
* *
824598 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTATAATTATACCGGTTTTATG
260 AAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
824663 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTGTTTTCCCATAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTGTTTTCCCAGAAT
824728 GAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
390 GAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
824793 ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
455 ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
824858 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCA
520 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCA
*
824923 GAATGAATGGAA
585 GAATGAATGAAA
*
824935 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCGAAAC
825000 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
825065 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
130 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
825111 CTAATTTAAA
Statistics
Matches: 747, Mismatches: 19, Indels: 9
0.96 0.02 0.01
Matches are distributed among these distances:
594 445 0.60
595 104 0.14
596 81 0.11
597 89 0.12
598 28 0.04
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (596 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAAACC
AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGA
AAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
AACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTGTTTTCCCAGAATG
AATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAG
AATGAATGAAA
Found at i:826589 original size:18 final size:18
Alignment explanation
Indices: 826568--826635 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
826558 AGCGGTCGCA
826568 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
826586 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
826607 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
826628 GAAGATGA
1 GAAGATGA
826636 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:826592 original size:6 final size:6
Alignment explanation
Indices: 826568--826662 Score: 64
Period size: 6 Copynumber: 15.3 Consensus size: 6
826558 AGCGGTCGCA
* * * * * *
826568 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * *
826616 GAAGCT GGCGAT GAAGAT GATGACGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GA--A-GAT GAAGAT GAAGAT GAAGAT GA
826663 TGATCCAAAC
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
6 64 0.91
8 1 0.01
9 5 0.07
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:826603 original size:3 final size:3
Alignment explanation
Indices: 826583--826666 Score: 78
Period size: 3 Copynumber: 28.0 Consensus size: 3
826573 TGAAGCTGAC
* * * * * ** *
826583 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
826631 GAT GAT GAC GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
826667 CCAAACAAGT
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:826663 original size:12 final size:12
Alignment explanation
Indices: 826568--826666 Score: 72
Period size: 12 Copynumber: 8.0 Consensus size: 12
826558 AGCGGTCGCA
* *
826568 GAAGATGAAGCT
1 GAAGATGATGAT
* *
826580 GACGATGAAGAT
1 GAAGATGATGAT
*
826592 GACGATGATGAT
1 GAAGATGATGAT
* *
826604 GATGATGACGAT
1 GAAGATGATGAT
* **
826616 GAAGCTGGCGAT
1 GAAGATGATGAT
826628 GAAGATGATGACGAT
1 GAAGATGAT---GAT
*
826643 GATGATGATGAT
1 GAAGATGATGAT
826655 GAAGATGATGAT
1 GAAGATGATGAT
826667 CCAAACAAGT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
12 60 0.85
15 11 0.15
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.22
Consensus pattern (12 bp):
GAAGATGATGAT
Found at i:826666 original size:18 final size:18
Alignment explanation
Indices: 826571--826665 Score: 82
Period size: 18 Copynumber: 5.3 Consensus size: 18
826561 GGTCGCAGAA
* * *
826571 GATGAAGCTGACGATGAA
1 GATGAAGATGATGATGAT
*
826589 GATGACGATGATGATGAT
1 GATGAAGATGATGATGAT
* * * **
826607 GATGACGATGAAGCTGGC
1 GATGAAGATGATGATGAT
*
826625 GATGAAGATGATGACGAT
1 GATGAAGATGATGATGAT
* *
826643 GATGATGATGATGAAGAT
1 GATGAAGATGATGATGAT
826661 GATGA
1 GATGA
826666 TCCAAACAAG
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (18 bp):
GATGAAGATGATGATGAT
Found at i:828438 original size:184 final size:184
Alignment explanation
Indices: 828129--828840 Score: 1316
Period size: 184 Copynumber: 3.9 Consensus size: 184
828119 CTTTCAACAT
** * * * * *
828129 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
*
828194 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
828259 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
828313 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
828378 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
828443 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
828497 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
828562 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
828627 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
828681 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
* *
828746 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
828811 AATGTGTCGATACCATTGAAAAAAGTGTCG
131 AATGTGTCGATACGATTTAAAAAAGTGTCG
828841 GTAATTTGAA
Statistics
Matches: 516, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 516 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:831339 original size:25 final size:25
Alignment explanation
Indices: 831305--831369 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
831295 TTATCATTAA
831305 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
831330 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
831355 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
831370 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:831688 original size:23 final size:23
Alignment explanation
Indices: 831657--831720 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
831647 ATAGGTAAAC
*
831657 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
831680 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
831703 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
831721 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:831727 original size:23 final size:23
Alignment explanation
Indices: 831657--831729 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
831647 ATAGGTAAAC
* **
831657 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
831680 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
831703 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
831726 ATAT
1 ATAT
831730 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:832030 original size:25 final size:25
Alignment explanation
Indices: 831996--832046 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
831986 ACAACAAATC
*
831996 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
832021 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
832046 A
1 A
832047 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:832361 original size:18 final size:18
Alignment explanation
Indices: 832340--832376 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
832330 GTAATTGGAG
832340 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
832358 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
832376 T
1 T
832377 ATTTATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:832384 original size:24 final size:23
Alignment explanation
Indices: 832331--832381 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
832321 ATTTCATATG
*
832331 TAATTGGAGTTTGAATTTAAATT
1 TAATTTGAGTTTGAATTTAAATT
832354 TCAATTTGAGTTTGAATTTCAATATT
1 T-AATTTGAGTTTGAATTT-AA-ATT
832380 TA
1 TA
832382 TTTCGGCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 1 0.04
24 16 0.67
25 3 0.12
26 4 0.17
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (23 bp):
TAATTTGAGTTTGAATTTAAATT
Found at i:833082 original size:23 final size:23
Alignment explanation
Indices: 833056--833119 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
833046 ATAGGTAAAC
*
833056 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
833079 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
833102 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
833120 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:833126 original size:23 final size:23
Alignment explanation
Indices: 833056--833128 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
833046 ATAGGTAAAC
* **
833056 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
833079 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
833102 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
833125 ATAT
1 ATAT
833129 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:833719 original size:29 final size:29
Alignment explanation
Indices: 833686--833745 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
833676 TGCCCCTGAA
833686 TTGCAGATCAAGAAACTTGGCCTTTAAGC
1 TTGCAGATCAAGAAACTTGGCCTTTAAGC
833715 TTGCAGATCAAGAAACTTGGCCTTTAAGC
1 TTGCAGATCAAGAAACTTGGCCTTTAAGC
833744 TT
1 TT
833746 TGCGGCGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (29 bp):
TTGCAGATCAAGAAACTTGGCCTTTAAGC
Found at i:834721 original size:2 final size:2
Alignment explanation
Indices: 834714--834769 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
834704 GAAGTTTGTA
834714 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
834756 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
834770 GATGGAACAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:838175 original size:42 final size:42
Alignment explanation
Indices: 838103--838192 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
838093 AGATTACCAC
* * * * *
838103 ATCAACAGCGATAACCTCTACTTTAGCATTGTGAACTGTCAT
1 ATCAACACCGATAACATCCACGTTAACATTGTGAACTGTCAT
838145 ATCAACACCGATAACATCCACGTTAACATTGTGAACTGTCAT
1 ATCAACACCGATAACATCCACGTTAACATTGTGAACTGTCAT
838187 ATCAAC
1 ATCAAC
838193 TCATAACAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (42 bp):
ATCAACACCGATAACATCCACGTTAACATTGTGAACTGTCAT
Found at i:842489 original size:21 final size:21
Alignment explanation
Indices: 842447--842489 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
842437 CCGATAAAAA
* *
842447 TTACCTAAAACATTATTATTT
1 TTACCCAAAACATAATTATTT
842468 TTACCCAAAACATCAATT-TTT
1 TTACCCAAAACAT-AATTATTT
842489 T
1 T
842490 AACATTTCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (21 bp):
TTACCCAAAACATAATTATTT
Found at i:851983 original size:23 final size:23
Alignment explanation
Indices: 851957--852001 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
851947 ATCAATTTAA
851957 TAAAAAAGAT-AAATTAAAATAAT
1 TAAAAAA-ATAAAATTAAAATAAT
**
851980 TAAACTAATAAAATTAAAATAA
1 TAAAAAAATAAAATTAAAATAA
852002 ATTATCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAAAAAATAAAATTAAAATAAT
Found at i:852340 original size:60 final size:60
Alignment explanation
Indices: 852227--852340 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
852217 TTATAGAGTG
** * * *
852227 TTGTTTTGTTGAGTCTTTCAACTGTTAAAAGTAACAAGATAGTCCTCCGACTATAAAACA
1 TTGTTTTGTTGAGTCCATCAACTATTAAAAGTAACAAAATAGTCCTCCAACTATAAAACA
* * *
852287 TTGTTTTGTTGAGTCCATCGACTATTAAAAGTTACAAAATGGTCAC-CCAACTAT
1 TTGTTTTGTTGAGTCCATCAACTATTAAAAGTAACAAAATAGTC-CTCCAACTAT
852341 TCATTTGTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
60 44 0.98
61 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (60 bp):
TTGTTTTGTTGAGTCCATCAACTATTAAAAGTAACAAAATAGTCCTCCAACTATAAAACA
Found at i:854539 original size:2 final size:2
Alignment explanation
Indices: 854532--854559 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
854522 TTATTAAATA
854532 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
854560 TTGTATCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:854816 original size:14 final size:14
Alignment explanation
Indices: 854799--854834 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
854789 TCAAAATTAC
*
854799 TTTTTAATAAATAA
1 TTTTAAATAAATAA
*
854813 TTTTAAATTAATAA
1 TTTTAAATAAATAA
854827 TTTTAAAT
1 TTTTAAAT
854835 TCTACTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTAAATAAATAA
Found at i:854846 original size:13 final size:14
Alignment explanation
Indices: 854808--854835 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
854798 CTTTTTAATA
854808 AATAATTTTAAATT
1 AATAATTTTAAATT
854822 AATAATTTTAAATT
1 AATAATTTTAAATT
854836 CTACTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATAATTTTAAATT
Found at i:868284 original size:2 final size:2
Alignment explanation
Indices: 868277--868509 Score: 204
Period size: 2 Copynumber: 120.0 Consensus size: 2
868267 AATGTCAAAT
868277 TA TA 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 TA TA
868319 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA -A GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * *
868360 TA -A TG TA TA CT- TA TA TA GTA TA TA TT TA TA T- TG TA TG CA TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
868401 AA TA TA -A TG TA TA T- TA TA TA TA TA CA TG CA TCA TA TCA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T-A TA TA
* *
868442 CA T- TCA TA TA TA T- TA TA T- TA TA TA CA TA -A TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
868481 TA TA TA TA TA TA TA CA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
868510 ATTGTTTCAA
Statistics
Matches: 188, Mismatches: 24, Indels: 38
0.75 0.10 0.15
Matches are distributed among these distances:
1 13 0.07
2 166 0.88
3 9 0.05
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:873206 original size:2 final size:2
Alignment explanation
Indices: 873199--873226 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
873189 ATTTTAAGCA
873199 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
873227 TTGCATCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:873830 original size:6 final size:6
Alignment explanation
Indices: 873819--874658 Score: 1393
Period size: 6 Copynumber: 144.2 Consensus size: 6
873809 ATATTATATA
873819 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT AT-AAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
873866 ATAAAT ATAAAT ATAAAAAT ATAAAT ATAAAT ATAAAT AT-AA- ATAAAT
1 ATAAAT ATAAAT AT--AAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
873914 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
873962 ATAAAT AT-AAT ATAAAT ATAAAT AT-AAT ATAAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT AT-AAAT ATAAAT ATAAAT
874009 ATAAAT ATAAAT ATAAAT AT-AAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874056 AT-AA- ATAAAT ATAAAT ATAAAT A-AAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874101 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874149 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874197 ATAAAT ATAAAT ATAAAT AT-AA- ATAAAT A-AAAT AT-AAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874241 ATAAAT ATAAAT ATAAAT ATAAAT AT-AA- ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874287 AT-AA- ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT AT-AAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874332 ATAAAT ATAAAT ATAAAAT ATAAAT A-AATAT AATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT AT-AAAT ATAAAT ATAA-AT -ATAAAT ATAAAT ATAAAT
874382 AT-AA- ATAAAT A-AATAT ATAAAT ATAAAT ATAAAT AT-AA- ATAAAT
1 ATAAAT ATAAAT ATAA-AT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874426 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT AT-AA- ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874472 ATAAAT ATAAAT ATAAAT AT-AA- ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874518 ATAAAT ATAAAT ATAAAT AT-AA- ATAAAT AT-AAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874563 AT-AAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874610 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
874658 A
1 A
874659 ATATGTGAGG
Statistics
Matches: 795, Mismatches: 0, Indels: 78
0.91 0.00 0.09
Matches are distributed among these distances:
4 20 0.03
5 94 0.12
6 657 0.83
7 16 0.02
8 8 0.01
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:875421 original size:21 final size:21
Alignment explanation
Indices: 875395--875441 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
875385 TTGTATGTTT
875395 CATTTTTCATTACTTAGAGAC
1 CATTTTTCATTACTTAGAGAC
875416 CATTTTTCATTACTTAGAGAC
1 CATTTTTCATTACTTAGAGAC
*
875437 TATTT
1 CATTT
875442 AGTTCACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (21 bp):
CATTTTTCATTACTTAGAGAC
Found at i:888743 original size:5 final size:6
Alignment explanation
Indices: 888714--888747 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
888704 ACAATTATAC
888714 AAAATT AAAATT AAAATT AAAATT -AAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
888748 ATAATATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Done.