Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008577.1 Hibiscus syriacus cultivar Beakdansim tig00111506_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: 1329373
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:598804 original size:22 final size:22
Alignment explanation
Indices: 598752--598804 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
598742 ACAGGAGTTA
** *
598752 CAAGAGTTATTTGATTTAATTC
1 CAAGAGTTACATGATATAATTC
* * *
598774 CAGGGGTTACATGATATAATTT
1 CAAGAGTTACATGATATAATTC
598796 CAAGAGTTA
1 CAAGAGTTA
598805 TAACAGCTGA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (22 bp):
CAAGAGTTACATGATATAATTC
Found at i:608199 original size:2 final size:2
Alignment explanation
Indices: 608168--608227 Score: 79
Period size: 2 Copynumber: 30.5 Consensus size: 2
608158 TACATATTCA
* *
608168 AT AT A- AT AT AA AT A- AT AT AA AT AGT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
608209 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
608228 CACACACACA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
1 2 0.04
2 47 0.92
3 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:614700 original size:2 final size:2
Alignment explanation
Indices: 614693--614724 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
614683 AGTTATAGAA
614693 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
614725 ATGTGCCTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:616706 original size:2 final size:2
Alignment explanation
Indices: 616699--616723 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
616689 TATGCTACTT
616699 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
616724 TCTGTTTGGT
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:618345 original size:67 final size:67
Alignment explanation
Indices: 618237--618367 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 67
618227 CTGCGAGGAA
* * *
618237 TGTAAGTATTGTTGATTCTCCTTACTTGAAAATTGTTGTTGGCTATTCTATAGATATTTCTTTAA
1 TGTAAGTACTGTTGATTCTCCTTACTTGAAAAGTGTTGTTGGCTATTCTATAAATATTTCTTTAA
618302 AT
66 AT
618304 TGTAAGTACTGTTGATTCTCCTTACTTGAAAAGTGTTGTTGGCTATTCTATAAATATTTCTTTA
1 TGTAAGTACTGTTGATTCTCCTTACTTGAAAAGTGTTGTTGGCTATTCTATAAATATTTCTTTA
618368 TTTAGCTTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.48
Consensus pattern (67 bp):
TGTAAGTACTGTTGATTCTCCTTACTTGAAAAGTGTTGTTGGCTATTCTATAAATATTTCTTTAA
AT
Found at i:628468 original size:28 final size:30
Alignment explanation
Indices: 628414--628482 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 30
628404 TACATCAGAG
628414 TAATTATA-TTTAATAATATGAATATTTA-
1 TAATTATATTTTAATAATATGAATATTTAC
*
628442 TAATTATATTTTAAT-AT-TTAATAATTTAC
1 TAATTATATTTTAATAATATGAAT-ATTTAC
628471 T-ATTATATTTTA
1 TAATTATATTTTA
628483 TGTAAGCGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 4 0.11
28 26 0.70
29 7 0.19
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (30 bp):
TAATTATATTTTAATAATATGAATATTTAC
Found at i:637704 original size:34 final size:36
Alignment explanation
Indices: 637638--637706 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
637628 CTTTGATATC
637638 TTCTTCAATCACTATAGATATTAATGATTTTTTTTG
1 TTCTTCAATCACTATAGATATTAATGATTTTTTTTG
*
637674 TTCTTCAATCGCTATAGATA-T-ATGATTTTTTTT
1 TTCTTCAATCACTATAGATATTAATGATTTTTTTT
637707 CTCTATCGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 12 0.38
35 1 0.03
36 19 0.59
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.54
Consensus pattern (36 bp):
TTCTTCAATCACTATAGATATTAATGATTTTTTTTG
Found at i:643540 original size:18 final size:18
Alignment explanation
Indices: 643513--643556 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
643503 AATATCATTA
*
643513 ATTTTAATTTTGATGCTT
1 ATTTTTATTTTGATGCTT
*
643531 ATTTTTATTTTGATGTTT
1 ATTTTTATTTTGATGCTT
643549 ATTTTTAT
1 ATTTTTAT
643557 CATTGCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.68
Consensus pattern (18 bp):
ATTTTTATTTTGATGCTT
Found at i:644182 original size:22 final size:23
Alignment explanation
Indices: 644128--644173 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
644118 TATATTTTTT
* *
644128 AAATAAAATTATAATTTTATTAA
1 AAATATAATTATAATTTTAATAA
644151 AAATATAATTA-AATTTTAATAA
1 AAATATAATTATAATTTTAATAA
644173 A
1 A
644174 TGATTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATATAATTATAATTTTAATAA
Found at i:644192 original size:18 final size:18
Alignment explanation
Indices: 644124--644192 Score: 52
Period size: 18 Copynumber: 3.7 Consensus size: 18
644114 TAATTATATT
*
644124 TTTTAAATAAAATTA-TAA
1 TTTTAAA-AAAATAATTAA
644142 TTTTATTAAAAATATAATTAAA
1 TTTTA--AAAAA-ATAATT-AA
* *
644164 TTTT-AATAAATGATTAA
1 TTTTAAAAAAATAATTAA
644181 TTTTAAAAAAAT
1 TTTTAAAAAAAT
644193 TCTTATTATG
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
17 6 0.15
18 16 0.39
19 7 0.17
20 5 0.12
21 1 0.02
22 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (18 bp):
TTTTAAAAAAATAATTAA
Found at i:644317 original size:17 final size:18
Alignment explanation
Indices: 644295--644328 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
644285 TAAAATTATA
644295 ATTAATTTT-AATAAATG
1 ATTAATTTTAAATAAATG
644312 ATTAATTTTAAATAAAT
1 ATTAATTTTAAATAAAT
644329 CCTTATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTAATTTTAAATAAATG
Found at i:645559 original size:32 final size:32
Alignment explanation
Indices: 645523--645598 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
645513 TTAACTGGAT
*
645523 CCGAAAGTAATCCGAATCAAAACTAATCTAAA
1 CCGAAAGCAATCCGAATCAAAACTAATCTAAA
*
645555 CCGAAAGCAATCCGAATCGAAACTAATCTAAA
1 CCGAAAGCAATCCGAATCAAAACTAATCTAAA
645587 CCGAAAGCAATC
1 CCGAAAGCAATC
645599 TGAACTGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.47, C:0.25, G:0.12, T:0.16
Consensus pattern (32 bp):
CCGAAAGCAATCCGAATCAAAACTAATCTAAA
Found at i:645608 original size:16 final size:16
Alignment explanation
Indices: 645547--645599 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
645537 AATCAAAACT
645547 AATCTAAACCGAAAGC
1 AATCTAAACCGAAAGC
** *
645563 AATCCGAATCGAAA-C
1 AATCTAAACCGAAAGC
645578 TAATCTAAACCGAAAGC
1 -AATCTAAACCGAAAGC
645595 AATCT
1 AATCT
645600 GAACTGAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.47, C:0.25, G:0.11, T:0.17
Consensus pattern (16 bp):
AATCTAAACCGAAAGC
Found at i:646183 original size:17 final size:16
Alignment explanation
Indices: 646155--646225 Score: 72
Period size: 16 Copynumber: 4.3 Consensus size: 16
646145 TCAAACAATG
646155 AAAATT-ATTTAAATA
1 AAAATTAATTTAAATA
*
646170 ATAAATTAATTTAAAGA
1 A-AAATTAATTTAAATA
* *
646187 AATATAAATTTAAATA
1 AAAATTAATTTAAATA
*
646203 AATATTAAATTTATAATA
1 AAAATT-AATTTA-AATA
646221 AAAAT
1 AAAAT
646226 ATTAGAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
15 1 0.02
16 22 0.48
17 15 0.33
18 8 0.17
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (16 bp):
AAAATTAATTTAAATA
Found at i:648949 original size:16 final size:17
Alignment explanation
Indices: 648905--648951 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
648895 GTTTCTGAGA
648905 GAATTAGAATCTGTGAAG
1 GAATTAGAATCTGT-AAG
648923 GAATT-GAAATCTGT-AG
1 GAATTAG-AATCTGTAAG
648939 GAATTAGAATCTG
1 GAATTAGAATCTG
648952 AATCTGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 13 0.48
17 2 0.07
18 12 0.44
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.30
Consensus pattern (17 bp):
GAATTAGAATCTGTAAG
Found at i:653495 original size:2 final size:2
Alignment explanation
Indices: 653488--653534 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
653478 GTTGTAGCAA
653488 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
653530 -T AT AT
1 AT AT AT
653535 GATTATTCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:653539 original size:8 final size:7
Alignment explanation
Indices: 653488--653540 Score: 56
Period size: 8 Copynumber: 7.3 Consensus size: 7
653478 GTTGTAGCAA
653488 ATATA-T
1 ATATATT
653494 ATATA-T
1 ATATATT
653500 ATATATAT
1 ATATAT-T
653508 ATATATAT
1 ATATAT-T
653516 ATATATAT
1 ATATAT-T
653524 ATATATT
1 ATATATT
653531 ATATGATT
1 ATAT-ATT
653539 AT
1 AT
653541 TCATCATTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
6 11 0.25
7 5 0.11
8 28 0.64
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (7 bp):
ATATATT
Found at i:662834 original size:183 final size:183
Alignment explanation
Indices: 662448--662834 Score: 611
Period size: 183 Copynumber: 2.1 Consensus size: 183
662438 ATTAAATTTT
* * * *
662448 AAATATTAAATATATTATATATAACATAT-AAGTTCAA-CCCAAATCATTTAAAACCCAATTAAT
1 AAATATTAAATATATTATATATAAAATATGGA-CT-AAGCCCAAACCATTTAAAACCCAATTAAT
**
662511 AATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAATTTT
64 AATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATT
*
662576 TTTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTAATTAAA
129 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAA
*
662631 AAATATTAAATATATTATATATAAAATATGGACTAAGCCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAAAATATGGACTAAGCCCAAACCATTTAAAACCCAATTAATAA
*
662696 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATCTAAAATTT
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAA-TTATATAAAATTT
662761 TTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
130 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTT-AATTAAA
* *
662815 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
662835 AATTAGAAAA
Statistics
Matches: 189, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
182 2 0.01
183 120 0.63
184 67 0.35
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAAAATATGGACTAAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAA
Found at i:664480 original size:181 final size:181
Alignment explanation
Indices: 664144--664615 Score: 694
Period size: 180 Copynumber: 2.6 Consensus size: 181
664134 GATCCAAATT
* * * * **
664144 AAAAATGTGTCGATCCAAAACGATATAACATGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGAAAAAACCGGTATCAAAATGATA
* * * * * *
664209 AAACCGGTAAAGCGCTATCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
664274 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATAC-TTTA
* *
664326 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGAAAAAATCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGAAAAAACCGGTATCAAAATGATA
* * *
664391 AAACCGGTAAAACGTTACCAGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* ** *
664455 GTGAATTTAAAAGAGAAGTAGTTTTAGCGCCTATAATGTGTCGATACTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
** * *
664506 AAAAAAATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGAAAAAACCGGTATCAAAATGATA
664571 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
664616 CGTAAGTACG
Statistics
Matches: 261, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
180 106 0.41
181 60 0.23
182 95 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGAAAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
Found at i:664559 original size:20 final size:19
Alignment explanation
Indices: 664536--664582 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
664526 CGATATAACA
664536 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
664556 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
664576 GGTAAAA
1 GGTAAAA
664583 CGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:664587 original size:17 final size:19
Alignment explanation
Indices: 664547--664587 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
664537 GTAAAAATAT
*
664547 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
664567 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
664584 GATA
1 GATA
664588 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:666532 original size:87 final size:87
Alignment explanation
Indices: 666426--666679 Score: 402
Period size: 87 Copynumber: 2.9 Consensus size: 87
666416 AAATATGTCA
* * * *
666426 ATATAAGCGCTACCTATTACATTATATAAACGTTACATAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
*
666491 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACATATTTTATT
* * *
666513 ATATAAGCGATATTTATTACATTATGTAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
* *
666578 TCTGTTAAATACATATTTTATT
66 CCCGTTAAATACATATTTTATT
666600 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
*
666665 CCGGTTAAATA-ATAT
66 CCCGTTAAATACATAT
666680 AACATAATCG
Statistics
Matches: 152, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 4 0.03
87 148 0.97
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (87 bp):
ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATACATATTTTATT
Found at i:666647 original size:23 final size:23
Alignment explanation
Indices: 666597--666641 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
666587 TACATATTTT
* *
666597 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
666620 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
666642 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:681375 original size:23 final size:23
Alignment explanation
Indices: 681340--681427 Score: 104
Period size: 23 Copynumber: 3.8 Consensus size: 23
681330 AAAATCTATT
* * *
681340 TTCAATTATGTTCATTTATTGTG
1 TTCATTTACGTTCGTTTATTGTG
* *
681363 TTCGTTTACGTTCGTTCATTTGTG
1 TTCATTTACGTTCGTTTA-TTGTG
*
681387 TTCATTAACGTTCGTTTATTGTG
1 TTCATTTACGTTCGTTTATTGTG
*
681410 TTCATTTATGTTCGTTTA
1 TTCATTTACGTTCGTTTA
681428 CATCCGTTCG
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 34 0.63
24 20 0.37
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (23 bp):
TTCATTTACGTTCGTTTATTGTG
Found at i:681389 original size:24 final size:24
Alignment explanation
Indices: 681358--681465 Score: 92
Period size: 24 Copynumber: 4.5 Consensus size: 24
681348 TGTTCATTTA
681358 TTGTGTTCGTTTACGTTCGTTCAT
1 TTGTGTTCGTTTACGTTCGTTCAT
* * *
681382 TTGTGTTCATTAACGTTCGTTTA-
1 TTGTGTTCGTTTACGTTCGTTCAT
* * * *
681405 TTGTGTTCATTTATGTTCGTTTAC
1 TTGTGTTCGTTTACGTTCGTTCAT
* ** * *
681429 ATCCGTTCGTTTATGTTCGTTCTT
1 TTGTGTTCGTTTACGTTCGTTCAT
*
681453 TTGTGCTCGTTTA
1 TTGTGTTCGTTTA
681466 TTATTTAAAT
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
23 21 0.31
24 46 0.69
ACGTcount: A:0.11, C:0.16, G:0.19, T:0.55
Consensus pattern (24 bp):
TTGTGTTCGTTTACGTTCGTTCAT
Found at i:681447 original size:47 final size:47
Alignment explanation
Indices: 681340--681449 Score: 112
Period size: 47 Copynumber: 2.3 Consensus size: 47
681330 AAAATCTATT
* * * ** **
681340 TTCAATTATGTTCATTTATTGTGTTCGTTTACGTTCGTTCATTTGTG
1 TTCATTTATGTTCGTTTATTGTGTTCATTTACGTTCGTTCACATCCG
* * * *
681387 TTCATTAACGTTCGTTTATTGTGTTCATTTATGTTCGTTTACATCCG
1 TTCATTTATGTTCGTTTATTGTGTTCATTTACGTTCGTTCACATCCG
*
681434 TTCGTTTATGTTCGTT
1 TTCATTTATGTTCGTT
681450 CTTTTGTGCT
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.15, C:0.15, G:0.16, T:0.55
Consensus pattern (47 bp):
TTCATTTATGTTCGTTTATTGTGTTCATTTACGTTCGTTCACATCCG
Found at i:682540 original size:15 final size:15
Alignment explanation
Indices: 682513--682565 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 15
682503 TATTTTAATA
*
682513 ATTAATTTAAAAATAT
1 ATTAAATTAAAAA-AT
682529 ATATAAA-TAAAAAAT
1 AT-TAAATTAAAAAAT
682544 ATTAAATTAAAAAATT
1 ATTAAATTAAAAAA-T
682560 ATTAAA
1 ATTAAA
682566 CAATATCATC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 4 0.12
15 11 0.33
16 15 0.45
17 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATTAAATTAAAAAAT
Found at i:682543 original size:17 final size:15
Alignment explanation
Indices: 682521--682565 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
682511 TAATTAATTT
682521 AAAAATATATATAAATA
1 AAAAATAT-TA-AAATA
*
682538 AAAAATATTAAATTA
1 AAAAATATTAAAATA
682553 AAAAATTATTAAA
1 AAAAA-TATTAAA
682566 CAATATCATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.35
16 9 0.35
17 8 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAATATTAAAATA
Found at i:683067 original size:23 final size:21
Alignment explanation
Indices: 683032--683075 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
683022 TTAATTATTT
683032 AAAAAATTAAATAAAAATATAA
1 AAAAAATTAAATAAAAA-ATAA
*
683054 AAAAACATTTAATAAAAAATAA
1 AAAAA-ATTAAATAAAAAATAA
683076 TTGTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAAATTAAATAAAAAATAA
Found at i:684267 original size:27 final size:27
Alignment explanation
Indices: 684237--684292 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
684227 AAAGCAAGCA
684237 AACTCCGGGCTTCTTTCAAACGGAGGT
1 AACTCCGGGCTTCTTTCAAACGGAGGT
*
684264 AACTCCGGGCTTCTTTCAAATGGAGGT
1 AACTCCGGGCTTCTTTCAAACGGAGGT
684291 AA
1 AA
684293 AGAGAGGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (27 bp):
AACTCCGGGCTTCTTTCAAACGGAGGT
Found at i:688019 original size:2 final size:2
Alignment explanation
Indices: 688014--688045 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
688004 ATATATATAT
688014 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
688046 GTTGGAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:690731 original size:30 final size:30
Alignment explanation
Indices: 690674--690737 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
690664 GTTTTATTTT
* *
690674 TTATATTATATAGTTTAGATAACATATATA
1 TTATATTATATAGTATACATAACATATATA
* *
690704 TTATATT-TATAGTAATACATAATATATATG
1 TTATATTATATAGT-ATACATAACATATATA
690734 TTAT
1 TTAT
690738 CTAAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (30 bp):
TTATATTATATAGTATACATAACATATATA
Found at i:693295 original size:20 final size:20
Alignment explanation
Indices: 693270--693310 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
693260 TTAATTTAGT
*
693270 TGATATTATTGTTGGTACAA
1 TGATATTATTGTTGATACAA
693290 TGATATTATTGTTGATACAA
1 TGATATTATTGTTGATACAA
693310 T
1 T
693311 ACACGATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (20 bp):
TGATATTATTGTTGATACAA
Found at i:695191 original size:39 final size:41
Alignment explanation
Indices: 695139--695222 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 41
695129 ATTTTATATT
* * *
695139 AATATATTAATTATAAC-ATAAAGTATA-AAATATTATAAA
1 AATAAATTAATTATAACAATAAAATATATAAATATTACAAA
* * *
695178 AATAAATTTATTATATCAATAAAATATATAAATTTTACAAA
1 AATAAATTAATTATAACAATAAAATATATAAATATTACAAA
695219 AATA
1 AATA
695223 TTTATTTTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 14 0.38
40 9 0.24
41 14 0.38
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (41 bp):
AATAAATTAATTATAACAATAAAATATATAAATATTACAAA
Found at i:695271 original size:20 final size:22
Alignment explanation
Indices: 695243--695288 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
695233 TTTAAAAAAT
*
695243 AAAAGAAAAT-T-TAATGAATA
1 AAAAGAAAATATATAAGGAATA
*
695263 AAAATAAAATATATAAGGAATA
1 AAAAGAAAATATATAAGGAATA
695285 AAAA
1 AAAA
695289 ATTATAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 1 0.05
22 12 0.55
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.22
Consensus pattern (22 bp):
AAAAGAAAATATATAAGGAATA
Found at i:699891 original size:25 final size:25
Alignment explanation
Indices: 699857--699917 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 25
699847 ATAACATGTA
* *
699857 TTTTATAATATATTTCTAAGATAAG
1 TTTTAAAATATATTTCCAAGATAAG
699882 TTTTAAAATATATATTTCCAAGATAAG
1 TTTT-AAA-ATATATTTCCAAGATAAG
*
699909 TTCTAAAAT
1 TTTTAAAAT
699918 TTAATATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 6 0.19
26 5 0.16
27 20 0.65
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (25 bp):
TTTTAAAATATATTTCCAAGATAAG
Found at i:699904 original size:27 final size:27
Alignment explanation
Indices: 699864--699917 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
699854 GTATTTTATA
* *
699864 ATATATTTCTAAGATAAGTTTTAAAAT
1 ATATATTTCCAAGATAAGTTCTAAAAT
699891 ATATATTTCCAAGATAAGTTCTAAAAT
1 ATATATTTCCAAGATAAGTTCTAAAAT
699918 TTAATATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (27 bp):
ATATATTTCCAAGATAAGTTCTAAAAT
Found at i:702126 original size:23 final size:23
Alignment explanation
Indices: 702100--702149 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
702090 AAAACGTTAT
*
702100 ATAAAAACATAGAAAAACATGCC
1 ATAAAAACATAGAAAAACATGAC
* * *
702123 ATAAAATCATAGGAAGACATGAC
1 ATAAAAACATAGAAAAACATGAC
702146 ATAA
1 ATAA
702150 GAGCATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.16
Consensus pattern (23 bp):
ATAAAAACATAGAAAAACATGAC
Found at i:702156 original size:23 final size:23
Alignment explanation
Indices: 702100--702156 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
702090 AAAACGTTAT
* *
702100 ATAAAAACATAGAAAAACATGCC
1 ATAAAAGCATAGAAAAACATGAC
* * *
702123 ATAAAATCATAGGAAGACATGAC
1 ATAAAAGCATAGAAAAACATGAC
*
702146 ATAAGAGCATA
1 ATAAAAGCATA
702157 ATTATTAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.16
Consensus pattern (23 bp):
ATAAAAGCATAGAAAAACATGAC
Found at i:707860 original size:34 final size:34
Alignment explanation
Indices: 707817--707892 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
707807 TCTGTTGTGG
* *
707817 TTTCATCTTTACATAAATGAGGATATTTGGGTGC
1 TTTCATCTTTACATAAACGAGGATATTTGGGTGA
707851 TTTCATCTTTACATAAACGAGGATATTTGGGTGA
1 TTTCATCTTTACATAAACGAGGATATTTGGGTGA
707885 TTTCATCT
1 TTTCATCT
707893 GGCCAAAGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.42
Consensus pattern (34 bp):
TTTCATCTTTACATAAACGAGGATATTTGGGTGA
Found at i:708728 original size:200 final size:202
Alignment explanation
Indices: 708366--708770 Score: 796
Period size: 200 Copynumber: 2.0 Consensus size: 202
708356 TGTGTTGAAC
708366 TTGCGGAGCAATTTGCACCAAGCAGTCAATGGTTCATTCAGGTATGTTTTACCTTCCATCGGAAA
1 TTGCGGAGCAATTTGCACCAAGCAGTCAATGGTTCATTCAGGTATGTTTTACCTTCCATCGGAAA
708431 ATTAGTTTCTTAGCTTAGAATGTAGCCATTCCTGATAATTCTTATTTGACAGACTATGAATAAAG
66 ATTAGTTTCTTAGCTTAGAATGTAGCCATTCCTGATAATTCTTATTTGACAGACTATGAATAAAG
708496 TGTTTGAGCATGCGGGATATCTGGTCAATATTAAGGTAGCACACAATTTGATGCGGTTGATTGCT
131 TGTTTGAGCATGCGGGATATCTGGTCAATATTAAGGTAGCACACAATTTGATGCGGTTGATTGCT
708561 GAGGGAT
196 GAGGGAT
708568 TTGCGGAGCAATTTGCACCAAGCAGTCAATGGTTCATTCAGGTATGTTTTACCTTCCATCGGAAA
1 TTGCGGAGCAATTTGCACCAAGCAGTCAATGGTTCATTCAGGTATGTTTTACCTTCCATCGGAAA
708633 A-TAGTTTCTTAGCTTAGAATGTAGCCATT-CTGATAATTCTTATTTGACAGACTATGAATAAAG
66 ATTAGTTTCTTAGCTTAGAATGTAGCCATTCCTGATAATTCTTATTTGACAGACTATGAATAAAG
708696 TGTTTGAGCATGCGGGATATCTGGTCAATATTAAGGTAGCACACAATTTGATGCGGTTGATTGCT
131 TGTTTGAGCATGCGGGATATCTGGTCAATATTAAGGTAGCACACAATTTGATGCGGTTGATTGCT
708761 GAGGGAT
196 GAGGGAT
708768 TTG
1 TTG
708771 GAGAAGATGA
Statistics
Matches: 203, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
200 109 0.54
201 28 0.14
202 66 0.33
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (202 bp):
TTGCGGAGCAATTTGCACCAAGCAGTCAATGGTTCATTCAGGTATGTTTTACCTTCCATCGGAAA
ATTAGTTTCTTAGCTTAGAATGTAGCCATTCCTGATAATTCTTATTTGACAGACTATGAATAAAG
TGTTTGAGCATGCGGGATATCTGGTCAATATTAAGGTAGCACACAATTTGATGCGGTTGATTGCT
GAGGGAT
Found at i:716708 original size:2 final size:2
Alignment explanation
Indices: 716701--716731 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
716691 GTGTAACTGG
716701 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
716732 ATAATTAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:723297 original size:17 final size:19
Alignment explanation
Indices: 723275--723312 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
723265 TATACTTTTT
*
723275 ATTTT-ATT-TTTTTGAAA
1 ATTTTAATTATTTTTAAAA
723292 ATTTTAATTATTTTTAAAA
1 ATTTTAATTATTTTTAAAA
723311 AT
1 AT
723313 AAATCTAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 3 0.17
19 10 0.56
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTTAATTATTTTTAAAA
Found at i:725738 original size:25 final size:25
Alignment explanation
Indices: 725709--725761 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
725699 CTATATTCAG
*
725709 CATGATTGATAATACCATAACTTGT
1 CATGATTGATAATACCATAACTTAT
725734 CATGATTGATAATACCATAACTTAT
1 CATGATTGATAATACCATAACTTAT
725759 CAT
1 CAT
725762 TTTAATGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (25 bp):
CATGATTGATAATACCATAACTTAT
Found at i:727549 original size:14 final size:14
Alignment explanation
Indices: 727530--727571 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
727520 TTCCAGGCAT
*
727530 CCGAGGCCATCTGA
1 CCGAGGCCATCCGA
727544 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
727558 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
727572 AAGTATCCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.21, C:0.40, G:0.29, T:0.10
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:727607 original size:14 final size:14
Alignment explanation
Indices: 727588--727620 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
727578 CCGAGAGCAT
727588 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
727602 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
727616 ACGAG
1 CCGAG
727621 CTATGCGAGG
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:0.24, C:0.39, G:0.30, T:0.06
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:727654 original size:33 final size:33
Alignment explanation
Indices: 727612--727685 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
727602 CCGAGGCCAT
* *
727612 CCGAACGAGCTATGCG-AGGACATCCGAGAGCAA
1 CCGAGCGAGCTATACGAAGGA-ATCCGAGAGCAA
*
727645 TCGAGCGAGCTATACGAAGGAATCCGAGAGCAA
1 CCGAGCGAGCTATACGAAGGAATCCGAGAGCAA
727678 CCGAGCGA
1 CCGAGCGA
727686 AGATACTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
33 32 0.89
34 4 0.11
ACGTcount: A:0.34, C:0.26, G:0.31, T:0.09
Consensus pattern (33 bp):
CCGAGCGAGCTATACGAAGGAATCCGAGAGCAA
Found at i:730043 original size:32 final size:33
Alignment explanation
Indices: 729998--730062 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
729988 TTGAAATAAA
* *
729998 ATTAATTAATGAAATAATATTTATTTAT-TTTT
1 ATTAATTAATGAAATAACATCTATTTATATTTT
** *
730030 ATTAATTTTTGAAATTACATCTATTTATATTTT
1 ATTAATTAATGAAATAACATCTATTTATATTTT
730063 GAAGACTGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (33 bp):
ATTAATTAATGAAATAACATCTATTTATATTTT
Found at i:735710 original size:47 final size:47
Alignment explanation
Indices: 735641--735732 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
735631 TACATTGTTT
735641 AATGCTTACCATCAATGTGCTGTTGACATGAACATTAAACTTTGTAA
1 AATGCTTACCATCAATGTGCTGTTGACATGAACATTAAACTTTGTAA
735688 AATGCTTACCATCAATGTGCTGTTGACATGAACATTAAACTTTGT
1 AATGCTTACCATCAATGTGCTGTTGACATGAACATTAAACTTTGT
735733 TTAACCTTGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (47 bp):
AATGCTTACCATCAATGTGCTGTTGACATGAACATTAAACTTTGTAA
Found at i:737852 original size:20 final size:20
Alignment explanation
Indices: 737820--737866 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
737810 CTATATACCA
737820 GGTAAAAATATGATAAAACC
1 GGTAAAAATATGATAAAACC
737840 GGTAACAAA-ATGATAAAACC
1 GGTAA-AAATATGATAAAACC
737860 GGTAAAA
1 GGTAAAA
737867 CGTTACCGGA
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 (20 bp):
GGTAAAAATATGATAAAACC
Found at i:737954 original size:181 final size:183
Alignment explanation
Indices: 737608--738081 Score: 666
Period size: 182 Copynumber: 2.6 Consensus size: 183
737598 GATCCAAATT
* * * * *
737608 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATTAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * * *
737672 AAAACCGGTCAAGCGCTATCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
737737 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTT-TA
130 CGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAAA
* *
737790 AAAAATGTATCGATCCAAAACTATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
737855 AAACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
737919 GTGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATACTTTAAA
131 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAAA
* * * *
737972 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
738037 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
738082 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
181 64 0.25
182 196 0.75
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (183 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAAA
Found at i:739556 original size:18 final size:18
Alignment explanation
Indices: 739535--739571 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
739525 GTAATTGGAG
739535 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
739553 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
739571 T
1 T
739572 ATATATTTCG
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:739579 original size:24 final size:24
Alignment explanation
Indices: 739527--739573 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
739517 TTTCATATGT
* *
739527 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
739551 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
739574 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:739872 original size:39 final size:39
Alignment explanation
Indices: 739829--739915 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
739819 TCCGATGCTC
***
739829 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATACAATGCCAAGCAAAAGGAA
* *
739868 ATCAAAATTCAAATCTCATACAATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATACAATGCCAAGCAAAAGGAA
739907 ATCAAAATC
1 ATCAAAATC
739916 TACAACTTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.49, C:0.21, G:0.13, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATACAATGCCAAGCAAAAGGAA
Found at i:746874 original size:54 final size:53
Alignment explanation
Indices: 746808--747220 Score: 188
Period size: 54 Copynumber: 7.5 Consensus size: 53
746798 TACATCTATA
746808 ATAATAAATTATTTAAAATAAATCAATTTATATTTTAAAATAAATAAATTCAT
1 ATAATAAATTATTTAAAATAAATCAATTTATATTTTAAAATAAATAAATTCAT
* ** *
746861 ACTAATAAATTATTTAAAATAAATCAATCTATATAACTACAAT-AATAAA-TCA-
1 A-TAATAAATTATTTAAAATAAATCAATTTATAT-TTTAAAATAAATAAATTCAT
** * ** * *
746913 ATCAAT--A-T-TTTAAAATAAATCAATATT-TACTAATAAATTATTTAAAAT-AA
1 AT-AATAAATTATTTAAAATAAATCAAT-TTATA-TTTTAAAATAAATAAATTCAT
** *
746963 ATCAATCTA-TATTTTAAAATAAATCAATTCATGCTAATAAATTATTTAAAATAAATCAA-TCTA
1 AT-AATAAATTA-TTTAAAATAAATCAA-T--T--T-AT--A-T-TTTAAAATAAATAAATTC-A
747026 T
53 T
* * * ** * * * *
747027 ACAACTACAA-TAATAAATCAATCTATACAA-ATAAATTATTTAAAATAAAT-CAGTCTAT
1 ATAA-TA-AATTATTTAA--AATAAAT-CAATTTATA-T-TTTAAAATAAATAAATTC-AT
** * *
747085 ATAAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
1 AT-AATAAATTATTTAAAATAAATCAATTTATATTTTAAAATAAATAAATTCAT
** * *
747139 ATTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAATCCAT
1 A-TAATAAATTATTTAAAATAAATCAATTTATATTTTAAAATAAATAAATTCAT
747193 ATAAATAAATTATTTAAAATAAATCAAT
1 AT-AATAAATTATTTAAAATAAATCAAT
747221 CCATACAAAT
Statistics
Matches: 285, Mismatches: 40, Indels: 69
0.72 0.10 0.18
Matches are distributed among these distances:
48 23 0.08
49 8 0.03
50 8 0.03
51 1 0.00
52 6 0.02
53 5 0.02
54 143 0.50
55 13 0.05
56 9 0.03
57 3 0.01
58 30 0.11
59 2 0.01
60 2 0.01
61 1 0.00
62 3 0.01
63 11 0.04
64 6 0.02
65 3 0.01
66 5 0.02
67 3 0.01
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (53 bp):
ATAATAAATTATTTAAAATAAATCAATTTATATTTTAAAATAAATAAATTCAT
Found at i:746909 original size:80 final size:80
Alignment explanation
Indices: 746824--746974 Score: 252
Period size: 80 Copynumber: 1.9 Consensus size: 80
746814 AATTATTTAA
**
746824 AATAAATCAATTTATATTTTAAAATAAAT-AA-ATTCATACTAATAAATTATTTAAAATAAATCA
1 AATAAATCAATCAATATTTTAAAATAAATCAATATT--TACTAATAAATTATTTAAAATAAATCA
746887 ATCTATATAACTACAAT
64 ATCTATATAACTACAAT
746904 AATAAATCAATCAATATTTTAAAATAAATCAATATTTACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCAATATTTTAAAATAAATCAATATTTACTAATAAATTATTTAAAATAAATCAAT
746969 CTATAT
66 CTATAT
746975 TTTAAAATAA
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
80 62 0.93
81 2 0.03
82 3 0.04
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.38
Consensus pattern (80 bp):
AATAAATCAATCAATATTTTAAAATAAATCAATATTTACTAATAAATTATTTAAAATAAATCAAT
CTATATAACTACAAT
Found at i:746933 original size:18 final size:17
Alignment explanation
Indices: 746907--746968 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 17
746897 CTACAATAAT
*
746907 AAATCAATCAATATTTTA
1 AAATAAATCAATA-TTTA
746925 AAATAAATCAATATTTA
1 AAATAAATCAATATTTA
*
746942 CTAATAAAT---TATTTA
1 -AAATAAATCAATATTTA
746957 AAATAAATCAAT
1 AAATAAATCAAT
746969 CTATATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 7 0.19
15 6 0.16
17 5 0.14
18 19 0.51
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATAAATCAATATTTA
Found at i:746950 original size:22 final size:20
Alignment explanation
Indices: 746903--746990 Score: 59
Period size: 18 Copynumber: 4.8 Consensus size: 20
746893 ATAACTACAA
*
746903 TAATAAATCAATCAATATTT
1 TAATAAATAAATCAATATTT
746923 T-A-AAATAAATCAATA-TT
1 TAATAAATAAATCAATATTT
*
746940 TACT-AATAAAT---TATTT
1 TAATAAATAAATCAATATTT
* * *
746956 AAAATAAATCAATCTATATTT
1 -TAATAAATAAATCAATATTT
746977 T-A-AAATAAATCAAT
1 TAATAAATAAATCAAT
746991 TCATGCTAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 18
0.67 0.10 0.23
Matches are distributed among these distances:
15 2 0.04
16 2 0.04
17 5 0.10
18 35 0.67
19 2 0.04
20 1 0.02
21 5 0.10
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATAAATAAATCAATATTT
Found at i:746962 original size:32 final size:32
Alignment explanation
Indices: 746921--747252 Score: 161
Period size: 32 Copynumber: 10.5 Consensus size: 32
746911 CAATCAATAT
*
746921 TTTAAAATAAATCAATATTTACTAATAAATTA
1 TTTAAAATAAATCAATATATACTAATAAATTA
746953 TTTAAAATAAATC---A-AT-CT-AT--A-T-
1 TTTAAAATAAATCAATATATACTAATAAATTA
*
746975 TTTAAAATAAATCAAT-TCATGCTAATAAATTA
1 TTTAAAATAAATCAATAT-ATACTAATAAATTA
* *
747007 TTTAAAATAAATCAATCTATAC-AACTACA--A
1 TTTAAAATAAATCAATATATACTAA-TAAATTA
* *
747037 --T--AATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATATATACTAATAAATTA
* *
747065 TTTAAAATAAATCAGTCTATA-TAAATAAATTA
1 TTTAAAATAAATCAATATATACT-AATAAATTA
**
747097 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
1 TTTAAAATAAATCAAT--ATATACT--AATAAAT---T--A
* * * * * *
747138 TATTAATAAATTATTTAAAATA-AATCAATACA-TA
1 T-TT-A-AAATAAATCAATATATACT-AATAAATTA
747172 TTTTAAAATAAATCAATCCATATA--AATAAATTA
1 -TTTAAAATAAATCAAT--ATATACTAATAAATTA
** *
747205 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATATATACTAATAAATTA
747237 TTTAAAATAAATCAAT
1 TTTAAAATAAATCAAT
747253 CCATATTTTA
Statistics
Matches: 236, Mismatches: 24, Indels: 80
0.69 0.07 0.24
Matches are distributed among these distances:
22 13 0.06
23 1 0.00
24 1 0.00
26 24 0.10
27 6 0.03
28 5 0.02
29 1 0.00
30 6 0.03
31 3 0.01
32 128 0.54
33 4 0.02
34 9 0.04
35 3 0.01
36 9 0.04
39 1 0.00
40 5 0.02
41 3 0.01
42 5 0.02
43 1 0.00
44 8 0.03
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATATATACTAATAAATTA
Found at i:747070 original size:58 final size:54
Alignment explanation
Indices: 746924--747085 Score: 200
Period size: 54 Copynumber: 2.9 Consensus size: 54
746914 TCAATATTTT
* * **
746924 AAAATAAATCAATATTTACTAATAAATTATTTAAAATAAATCAATCTAT-ATTTT
1 AAAATAAATCAAT-TATACTAATAAATTATTTAAAATAAATCAATCTATAACTAC
*
746978 AAAATAAATCAATTCATGCTAATAAATTATTTAAAATAAATCAATCTATACAACTAC
1 AAAATAAATCAATT-ATACTAATAAATTATTTAAAATAAATCAATCTAT--AACTAC
* *
747035 AATAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAGTCTATA
1 AA-AATAAATCAAT-TATACTAATAAATTATTTAAAATAAATCAATCTATA
747086 TAAATAAATT
Statistics
Matches: 94, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
53 1 0.01
54 45 0.48
56 1 0.01
57 4 0.04
58 42 0.45
59 1 0.01
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.35
Consensus pattern (54 bp):
AAAATAAATCAATTATACTAATAAATTATTTAAAATAAATCAATCTATAACTAC
Found at i:747072 original size:14 final size:14
Alignment explanation
Indices: 747055--747108 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
747045 CAATCTATAC
747055 AAATAAATTATTTA
1 AAATAAATTATTTA
*
747069 AAATAAATCAGTCTATA
1 AAATAAATTA-T-T-TA
747086 TAAATAAATTATTTA
1 -AAATAAATTATTTA
747101 AAATAAAT
1 AAATAAAT
747109 CAATCCATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 17 0.50
15 3 0.09
16 2 0.06
17 3 0.09
18 9 0.26
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:747123 original size:22 final size:22
Alignment explanation
Indices: 747097--747141 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
747087 AAATAAATTA
747097 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
747119 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
747141 T
1 T
747142 AATAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:747148 original size:22 final size:22
Alignment explanation
Indices: 747095--747147 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
747085 ATAAATAAAT
747095 TATT-TAAAATAAATCAATCCA
1 TATTATAAAATAAATCAATCCA
*
747116 TATTTTAAAATAAATCAATCCA
1 TATTATAAAATAAATCAATCCA
747138 TATTAATAAA
1 TATT-ATAAA
747148 TTATTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 4 0.14
22 21 0.72
23 4 0.14
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (22 bp):
TATTATAAAATAAATCAATCCA
Found at i:747167 original size:22 final size:22
Alignment explanation
Indices: 747142--747188 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
747132 AATCCATATT
747142 AATAAAT-TATTTAAAATAAATC
1 AATAAATAT-TTTAAAATAAATC
*
747164 AATACATATTTTAAAATAAATC
1 AATAAATATTTTAAAATAAATC
747186 AAT
1 AAT
747189 CCATATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAATATTTTAAAATAAATC
Found at i:747193 original size:22 final size:22
Alignment explanation
Indices: 747151--747194 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
747141 TAATAAATTA
747151 TTTAAAATAAATCAATACATAT
1 TTTAAAATAAATCAATACATAT
*
747173 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
747195 AAATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:747202 original size:22 final size:22
Alignment explanation
Indices: 747153--747201 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
747143 ATAAATTATT
**
747153 TAAAATAAATCAATACATATTT
1 TAAAATAAATCAATACATATAA
*
747175 TAAAATAAATCAATCCATATAAA
1 TAAAATAAATCAATACATAT-AA
747198 TAAA
1 TAAA
747202 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:747212 original size:14 final size:14
Alignment explanation
Indices: 747195--747248 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
747185 CAATCCATAT
747195 AAATAAATTATTTA
1 AAATAAATTATTTA
* *
747209 AAATAAATCAATCCATA
1 AAATAAAT-TAT--TTA
747226 CAAATAAATTATTTA
1 -AAATAAATTATTTA
747241 AAATAAAT
1 AAATAAAT
747249 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 16 0.50
15 4 0.12
17 4 0.12
18 8 0.25
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:747253 original size:32 final size:32
Alignment explanation
Indices: 746975--747257 Score: 267
Period size: 32 Copynumber: 9.7 Consensus size: 32
746965 CAATCTATAT
* * *
746975 TTTAAAATAAATCAATTCATGCTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* * *
747007 TTTAAAATAAATCAATCTATACAACTACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
747037 --T--AATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* * *
747065 TTTAAAATAAATCAGTCTATATAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
747097 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
**
747119 TTTAAAATAAATCAATCCATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
747151 TTTAAAATAAATC-A---ATAC--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
747173 TTTAAAATAAATCAATCCATATAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
747205 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
747237 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
747258 TTTTAAAATA
Statistics
Matches: 208, Mismatches: 17, Indels: 52
0.75 0.06 0.19
Matches are distributed among these distances:
22 29 0.14
23 4 0.02
24 2 0.01
26 29 0.14
28 9 0.04
30 4 0.02
31 3 0.01
32 128 0.62
ACGTcount: A:0.54, C:0.11, G:0.01, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:747290 original size:86 final size:85
Alignment explanation
Indices: 746801--747302 Score: 422
Period size: 86 Copynumber: 6.0 Consensus size: 85
746791 TAATTTATAC
* *
746801 ATCTATA-ATAATAAATTATTTAAAATAAATCAATTTATATTTTAAAATAAATAAAT-TCATACT
1 ATCTATACA-AATAAATTATTTAAAATAAATCAA-TCATATTTTAAAATAAATCAATCT-ATACT
746864 AATAAATTATTTAAAATAAATCA
63 AATAAATTATTTAAAATAAATCA
* * * * *
746887 ATCTATATAACTACA--A--T--AATAAATCAATCAATATTTTAAAATAAATCAATATTTACTAA
1 ATCTATACAAATAAATTATTTAAAATAAATCAATC-ATATTTTAAAATAAATCAATCTATACTAA
746946 TAAATTATTTAAAATAAATCA
65 TAAATTATTTAAAATAAATCA
* * * *** *
746967 ATCTATATTTTAAAATAAATCAATTCATGCT-AATAAAT--TA-TTTAAAATAAATCAATCTATA
1 ATCTATA----CAAATAAAT-TATTTAAAATAAATCAATCATATTTTAAAATAAATCAATCTATA
*
747028 C-AACTACA--A--T--AATAAATCA
61 CTAA-TAAATTATTTAAAATAAATCA
* * * * * *
747047 ATCTATACAAATAAATTATTTAAAATAAATCAGTC-TA-TAT-AAATAAAT-TATTTAAAATAAA
1 ATCTATACAAATAAATTATTTAAAATAAATCAATCATATTTTAAAATAAATCAATCTATACT-AA
*
747108 TCAATCCATATTTTAAAATAAATCA
65 TAAAT---TA-TTTAAAATAAATCA
* ** *
747133 ATCCATATTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAATCCATA-TAA
1 ATCTATACAAATAAATTATTTAAAATAAATCAAT-CATATTTTAAAATAAATCAATCTATACT-A
747197 ATAAATTATTTAAAATAAATCA
64 ATAAATTATTTAAAATAAATCA
*
747219 ATCCATACAAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAA
1 ATCTATACAAATAAATTATTTAAAATAAATCAAT-CATATTTTAAAATAAATCAATCTATACTAA
*
747284 TGAATTATTTAAAATAAAT
65 TAAATTATTTAAAATAAAT
747303 TATTTTAAAA
Statistics
Matches: 336, Mismatches: 45, Indels: 70
0.75 0.10 0.16
Matches are distributed among these distances:
75 10 0.03
76 23 0.07
77 6 0.02
79 1 0.00
80 79 0.24
81 2 0.01
82 2 0.01
84 8 0.02
85 2 0.01
86 164 0.49
87 8 0.02
88 2 0.01
89 2 0.01
90 22 0.07
91 5 0.01
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.36
Consensus pattern (85 bp):
ATCTATACAAATAAATTATTTAAAATAAATCAATCATATTTTAAAATAAATCAATCTATACTAAT
AAATTATTTAAAATAAATCA
Found at i:747305 original size:14 final size:15
Alignment explanation
Indices: 747286--747317 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
747276 TATACTAATG
747286 AATTA-TTTAAAATA
1 AATTATTTTAAAATA
747300 AATTATTTTAAAATA
1 AATTATTTTAAAATA
747315 AAT
1 AAT
747318 AAATCCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTATTTTAAAATA
Found at i:747331 original size:22 final size:22
Alignment explanation
Indices: 747237--747337 Score: 67
Period size: 22 Copynumber: 4.5 Consensus size: 22
747227 AAATAAATTA
*
747237 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATAAATCCATAT
* *
747259 TTTAAAATAAATCAATCTATACT
1 TTTAAAATAAATAAATCCATA-T
** * * ** **
747282 AATGAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-AAATCCA-TAT
747306 TTTAAAATAAATAAATCCATAT
1 TTTAAAATAAATAAATCCATAT
*
747328 TTTATAATAA
1 TTTAAAATAA
747338 TTTATTTTAA
Statistics
Matches: 57, Mismatches: 19, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
22 32 0.56
23 12 0.21
24 11 0.19
25 2 0.04
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATAAATCCATAT
Found at i:748218 original size:14 final size:14
Alignment explanation
Indices: 748199--748231 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
748189 CGACCATCAC
748199 CATTGAGTTCCTCA
1 CATTGAGTTCCTCA
748213 CATTGAGTTCCTCA
1 CATTGAGTTCCTCA
748227 CATTG
1 CATTG
748232 CTCTGAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.36
Consensus pattern (14 bp):
CATTGAGTTCCTCA
Found at i:748608 original size:26 final size:28
Alignment explanation
Indices: 748552--748608 Score: 64
Period size: 30 Copynumber: 2.0 Consensus size: 28
748542 GTTATTATTG
* *
748552 TTTAATTAATTAATTTTACTTTGGTCCAAC
1 TTTAATTAATTAATTTTA--TAGGTCAAAC
748582 TTTAATTAATTAATTTTA-AGGT-AAAC
1 TTTAATTAATTAATTTTATAGGTCAAAC
748608 T
1 T
748609 ACAAGTTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 4 0.16
27 3 0.12
30 18 0.72
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (28 bp):
TTTAATTAATTAATTTTATAGGTCAAAC
Found at i:749270 original size:20 final size:22
Alignment explanation
Indices: 749221--749278 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
749211 TAATTTTATT
* * *
749221 TTTATAACATATTTTTTTCATC
1 TTTATGACATATTTTTTTAATA
749243 TTTATGACAT-TTTTTTTAATA
1 TTTATGACATATTTTTTTAATA
*
749264 TTT-TGACACATTTTT
1 TTTATGACATATTTTT
749279 AATTGTTTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 5 0.16
21 17 0.55
22 9 0.29
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.60
Consensus pattern (22 bp):
TTTATGACATATTTTTTTAATA
Found at i:751664 original size:29 final size:29
Alignment explanation
Indices: 751622--751698 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 29
751612 CTTCCCAACA
751622 TAGGTCGCCATGCACTCC-GGACGACCTTG
1 TAGGTCGCCATGCACTCCTGG-CGACCTTG
751651 TAGGTCGCCATGCACTCCTGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
751680 TAGGTCGCCATGCACTCCT
1 TAGGTCGCCATGCACTCCT
751699 CCTGCTCCTC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 45 0.96
30 2 0.04
ACGTcount: A:0.16, C:0.35, G:0.26, T:0.23
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCTGGCGACCTTG
Found at i:751779 original size:14 final size:14
Alignment explanation
Indices: 751760--751791 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
751750 TCGAATGGCA
751760 TCGGTCGGATGCCC
1 TCGGTCGGATGCCC
*
751774 TCGGTCGGATGCCT
1 TCGGTCGGATGCCC
751788 TCGG
1 TCGG
751792 ATGCCCAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.31, G:0.38, T:0.25
Consensus pattern (14 bp):
TCGGTCGGATGCCC
Found at i:757676 original size:32 final size:31
Alignment explanation
Indices: 757637--757755 Score: 130
Period size: 32 Copynumber: 3.7 Consensus size: 31
757627 TGAAATTATT
*
757637 TTATTAAATTTTATTGAATTGTTATAAATTAA
1 TTATTAAATTTTATTGAATT-TTATAAAATAA
* * * *
757669 TAATTAAATATTATTGAAATTTATAAAATGA
1 TTATTAAATTTTATTGAATTTTATAAAATAA
**
757700 TTATTAAATTTTATCAAATTATTATAAAATAA
1 TTATTAAATTTTATTGAATT-TTATAAAATAA
* *
757732 TTATTAAATTATATTAAAATTTTA
1 TTATTAAATTTTATT-GAATTTTA
757756 CATTTATTAG
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
31 24 0.33
32 43 0.60
33 5 0.07
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (31 bp):
TTATTAAATTTTATTGAATTTTATAAAATAA
Found at i:757702 original size:21 final size:20
Alignment explanation
Indices: 757674--757729 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
757664 ATTAATAATT
757674 AAATATTATTGAAA-TTTATA
1 AAATATTATT-AAATTTTATA
757694 AAATGATTATTAAATTTTATCA
1 AAAT-ATTATTAAATTTTAT-A
* *
757716 AATTATTATAAAAT
1 AAATATTATTAAAT
757730 AATTATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 7 0.23
21 20 0.65
22 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (20 bp):
AAATATTATTAAATTTTATA
Found at i:757885 original size:56 final size:56
Alignment explanation
Indices: 757815--757928 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
757805 TATTATTTCA
757815 TAATTTTTAAAAATTCAATTACTGAAACAATAATTTAAATATAGTTTAATATCTTC
1 TAATTTTTAAAAATTCAATTACTGAAACAATAATTTAAATATAGTTTAATATCTTC
*
757871 TAATTTTTAGAAATTCAATTACTGAAACAATAATTTAAATATAGTTTAATATCTTC
1 TAATTTTTAAAAATTCAATTACTGAAACAATAATTTAAATATAGTTTAATATCTTC
757927 TA
1 TA
757929 GGGTAAAGTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (56 bp):
TAATTTTTAAAAATTCAATTACTGAAACAATAATTTAAATATAGTTTAATATCTTC
Found at i:759652 original size:35 final size:35
Alignment explanation
Indices: 759606--759683 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
759596 ATTATAATAT
759606 TACTATGTAGGAAGGCAACAATTTTAGGTAGTCTA
1 TACTATGTAGGAAGGCAACAATTTTAGGTAGTCTA
759641 TACTATGTAGGAAGGCAACAATTTTAGGTAGTCTA
1 TACTATGTAGGAAGGCAACAATTTTAGGTAGTCTA
*
759676 AACTATGT
1 TACTATGT
759684 CCTTTTACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (35 bp):
TACTATGTAGGAAGGCAACAATTTTAGGTAGTCTA
Found at i:765841 original size:22 final size:23
Alignment explanation
Indices: 765807--765850 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
765797 TTTTAATAAT
*
765807 TATGCATTCATGGTACGTTTTTC
1 TATGCATTCATGGCACGTTTTTC
* *
765830 TATG-ATTTATGGCATGTTTTT
1 TATGCATTCATGGCACGTTTTT
765851 TTTTGTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (23 bp):
TATGCATTCATGGCACGTTTTTC
Found at i:775784 original size:17 final size:17
Alignment explanation
Indices: 775762--775794 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
775752 AAGAATCTTA
775762 AAATATTTAATTAACTC
1 AAATATTTAATTAACTC
775779 AAATATTTAATTAACT
1 AAATATTTAATTAACT
775795 AACTAATTAA
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:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATTTAATTAACTC
Found at i:776865 original size:17 final size:18
Alignment explanation
Indices: 776831--776865 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
776821 CATCTTTCCC
776831 TTTCATTTGGCTTCATGTT
1 TTTCATTTGGC-TCATGTT
776850 TTTCATTTGG-TCATGT
1 TTTCATTTGGCTCATGT
776866 CCCATGCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.11, C:0.14, G:0.17, T:0.57
Consensus pattern (18 bp):
TTTCATTTGGCTCATGTT
Found at i:782699 original size:20 final size:20
Alignment explanation
Indices: 782663--782700 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
782653 ATCATATTCC
**
782663 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
782683 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
782701 GTAAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:786966 original size:66 final size:66
Alignment explanation
Indices: 786891--787023 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
786881 ATTTTGAACA
786891 ATATCCCTCATACTTCGTATAAAAAATATTTAATTTTTATTACATATTTTATAAAATTAGAAAGT
1 ATATCCCTCATACTTCGTATAAAAAATATTTAATTTTTATTACATATTTTATAAAATTAGAAAGT
786956 T
66 T
786957 ATATCCCTCATACTTCGTATAAAAAATATTTAATTTTTATTACATATTTTATAAAATTAGAAAGT
1 ATATCCCTCATACTTCGTATAAAAAATATTTAATTTTTATTACATATTTTATAAAATTAGAAAGT
787022 T
66 T
787023 A
1 A
787024 AAAACAAATT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.44
Consensus pattern (66 bp):
ATATCCCTCATACTTCGTATAAAAAATATTTAATTTTTATTACATATTTTATAAAATTAGAAAGT
T
Found at i:787635 original size:19 final size:20
Alignment explanation
Indices: 787603--787642 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
787593 GTCCTTTCTA
787603 AAAATTTTAAATTTTATTAT
1 AAAATTTTAAATTTTATTAT
* *
787623 AAAA-TTTAGATTTTTTTAT
1 AAAATTTTAAATTTTATTAT
787642 A
1 A
787643 TTTTATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
AAAATTTTAAATTTTATTAT
Found at i:788742 original size:20 final size:21
Alignment explanation
Indices: 788711--788751 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
788701 AGTCATATCC
788711 ATTTAGATTAACAAAATTTAA
1 ATTTAGATTAACAAAATTTAA
788732 ATTTA-ATTAACAAAATTTAA
1 ATTTAGATTAACAAAATTTAA
788752 CGAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (21 bp):
ATTTAGATTAACAAAATTTAA
Found at i:791315 original size:2 final size:2
Alignment explanation
Indices: 791308--791332 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
791298 AAGGTAAAAC
791308 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
791333 TTTTTGGGTC
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:799863 original size:46 final size:44
Alignment explanation
Indices: 799813--799904 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 44
799803 TAATTATTTT
799813 TATTTTATTTAAATATATTATATTTTTAAAAACTTTATTTTTATAG
1 TATTTTATTTAAATATATTATATTTTT--AAACTTTATTTTTATAG
799859 TATTTTATTTAAATATATTATATTTTTAAACTTTATTTTTATAG
1 TATTTTATTTAAATATATTATATTTTTAAACTTTATTTTTATAG
799903 TA
1 TA
799905 CGTTTTCGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 19 0.41
46 27 0.59
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (44 bp):
TATTTTATTTAAATATATTATATTTTTAAACTTTATTTTTATAG
Found at i:800528 original size:22 final size:22
Alignment explanation
Indices: 800503--800546 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
800493 TTTATAAAAA
800503 ATAA-TAAAATAAAATAATATAT
1 ATAATTAAAA-AAAATAATATAT
* *
800525 ATAATTATAAAAAATCATATAT
1 ATAATTAAAAAAAATAATATAT
800547 TGTATGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
ATAATTAAAAAAAATAATATAT
Found at i:806335 original size:24 final size:24
Alignment explanation
Indices: 806299--806370 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
806289 ATTTAAATTT
806299 AAACTAATATTTAATATATTATCA-
1 AAAC-AATATTTAATATATTATCAG
** *
806323 AAACAATATTTTAATATCACAAACAG
1 AAACAATA-TTTAATAT-ATTATCAG
806349 AAACAATATTTAA-ATATTATCA
1 AAACAATATTTAATATATTATCA
806371 TGTCATAAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
23 8 0.21
24 14 0.36
25 9 0.23
26 8 0.21
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (24 bp):
AAACAATATTTAATATATTATCAG
Found at i:811003 original size:13 final size:14
Alignment explanation
Indices: 810981--811009 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
810971 TAGTGTTTAT
810981 ATTTT-TTTTTAAA
1 ATTTTATTTTTAAA
810994 ATTTTATTTTTAAA
1 ATTTTATTTTTAAA
811008 AT
1 AT
811010 AAAATGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTTATTTTTAAA
Found at i:811488 original size:10 final size:10
Alignment explanation
Indices: 811469--811497 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
811459 TTTTTAGTGG
811469 TTAA-TTTTT
1 TTAATTTTTT
811478 TTAATTTTTT
1 TTAATTTTTT
811488 TTAATTTTTT
1 TTAATTTTTT
811498 ATTATATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTAATTTTTT
Found at i:817193 original size:15 final size:15
Alignment explanation
Indices: 817156--817199 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
817146 GTCATATATA
*
817156 TTAATTGTTATATTTC
1 TTAATT-TTATAATTC
* *
817172 TTTATTTTTTAATTC
1 TTAATTTTATAATTC
817187 TTAATTTTATAAT
1 TTAATTTTATAAT
817200 AAAGATATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (15 bp):
TTAATTTTATAATTC
Found at i:817453 original size:13 final size:13
Alignment explanation
Indices: 817431--817465 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
817421 TTACTATTTT
*
817431 ATTA-ATTTTTGG
1 ATTATATTTTTGA
817443 ATTATATTTTTGA
1 ATTATATTTTTGA
817456 ATTATATTTT
1 ATTATATTTT
817466 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (13 bp):
ATTATATTTTTGA
Found at i:820047 original size:45 final size:45
Alignment explanation
Indices: 819983--820072 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
819973 TCCGAGTTTT
**
819983 GCATGAGAGACCGCAACGGTGACTGCACGGCTTGCTCCCATGGGG
1 GCATGAGAGACCGCAACGGTGACTGCACGGCTAACTCCCATGGGG
*
820028 GCATGAGAGACCGCAACGGTGCCTGCACGGCTAACTCCCATGGGG
1 GCATGAGAGACCGCAACGGTGACTGCACGGCTAACTCCCATGGGG
820073 TTCGTTCCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.21, C:0.30, G:0.34, T:0.14
Consensus pattern (45 bp):
GCATGAGAGACCGCAACGGTGACTGCACGGCTAACTCCCATGGGG
Found at i:820499 original size:5 final size:5
Alignment explanation
Indices: 820489--820540 Score: 59
Period size: 5 Copynumber: 10.4 Consensus size: 5
820479 TCCTCTTTCA
* * * * *
820489 TATAT TATAT TTTAT TGTAT TGTAT TGTAT TATAT TATAT TATAT TGTAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
820539 TA
1 TA
820541 AAATGAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:820509 original size:10 final size:10
Alignment explanation
Indices: 820489--820540 Score: 68
Period size: 10 Copynumber: 5.2 Consensus size: 10
820479 TCCTCTTTCA
*
820489 TATATTATAT
1 TATATTGTAT
*
820499 TTTATTGTAT
1 TATATTGTAT
*
820509 TGTATTGTAT
1 TATATTGTAT
*
820519 TATATTATAT
1 TATATTGTAT
820529 TATATTGTAT
1 TATATTGTAT
820539 TA
1 TA
820541 AAATGAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 36 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (10 bp):
TATATTGTAT
Found at i:821459 original size:12 final size:12
Alignment explanation
Indices: 821442--821467 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
821432 TCTTTTCAAA
821442 TCTTGCTCATGG
1 TCTTGCTCATGG
821454 TCTTGCTCATGG
1 TCTTGCTCATGG
821466 TC
1 TC
821468 ATGGAGGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.27, G:0.23, T:0.42
Consensus pattern (12 bp):
TCTTGCTCATGG
Found at i:821531 original size:33 final size:33
Alignment explanation
Indices: 821494--821603 Score: 175
Period size: 33 Copynumber: 3.3 Consensus size: 33
821484 CGGTGCGTAC
* *
821494 CCACCAGCTGGAGGGTATCCCCCTCAGGGCTAT
1 CCACCTGCTGGAGGGTATCCCCCTCAAGGCTAT
*
821527 CCACCTGCTGGAGGGTATCCCCCTCATGGCTAT
1 CCACCTGCTGGAGGGTATCCCCCTCAAGGCTAT
*
821560 CCACCTGCTGGAGGATATCCCCCTCAAGGCTAT
1 CCACCTGCTGGAGGGTATCCCCCTCAAGGCTAT
*
821593 CCACCGGCTGG
1 CCACCTGCTGG
821604 TTATCCCGGT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.17, C:0.37, G:0.25, T:0.20
Consensus pattern (33 bp):
CCACCTGCTGGAGGGTATCCCCCTCAAGGCTAT
Found at i:821957 original size:24 final size:24
Alignment explanation
Indices: 821927--821992 Score: 114
Period size: 24 Copynumber: 2.8 Consensus size: 24
821917 AACATCATGG
*
821927 TGGGAAATTTAAGCACGGGAAACA
1 TGGGAAATTCAAGCACGGGAAACA
*
821951 TGGGAAATTCAAGCACGGGAAGCA
1 TGGGAAATTCAAGCACGGGAAACA
821975 TGGGAAATTCAAGCACGG
1 TGGGAAATTCAAGCACGG
821993 AGGAGGGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.32, T:0.15
Consensus pattern (24 bp):
TGGGAAATTCAAGCACGGGAAACA
Found at i:829119 original size:2 final size:2
Alignment explanation
Indices: 829112--829146 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
829102 ATCCATATCA
829112 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
829147 GTTTCTTTCT
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:829901 original size:12 final size:12
Alignment explanation
Indices: 829883--829912 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
829873 CTCAATCAAC
829883 ATTTTAAATAAA
1 ATTTTAAATAAA
*
829895 CTTTTAAATAAA
1 ATTTTAAATAAA
829907 ATTTTA
1 ATTTTA
829913 TATCATCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTTTAAATAAA
Found at i:834723 original size:6 final size:6
Alignment explanation
Indices: 834712--834769 Score: 116
Period size: 6 Copynumber: 9.7 Consensus size: 6
834702 CCTTCCTCCC
834712 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA
834760 TTTCCA TTTC
1 TTTCCA TTTC
834770 TCTCTGCTAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.16, C:0.33, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTCCA
Found at i:835180 original size:2 final size:2
Alignment explanation
Indices: 835173--835197 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
835163 GAGTTATTAA
835173 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 A
835198 GTAGAAACAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:841467 original size:2 final size:2
Alignment explanation
Indices: 841456--841533 Score: 140
Period size: 2 Copynumber: 39.5 Consensus size: 2
841446 AAAGGAGCAT
*
841456 TA TA TA -A TA TA TA AA 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
841497 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
841534 GGGGTAGAGG
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 72 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:842340 original size:11 final size:11
Alignment explanation
Indices: 842324--842358 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
842314 CATAATTAAA
842324 TTAATTATTTT
1 TTAATTATTTT
*
842335 TTAATTATTAAT
1 TTAATTATT-TT
842347 TTAATTATTTT
1 TTAATTATTTT
842358 T
1 T
842359 AAATAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTAATTATTTT
Found at i:842350 original size:23 final size:23
Alignment explanation
Indices: 842315--842376 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
842305 CGAATTAATC
* *
842315 ATAATTAAATTAATTATTTTTTA
1 ATAATTAATTTAATTATTTTTAA
*
842338 ATTATTAATTTAATTATTTTTAA
1 ATAATTAATTTAATTATTTTTAA
*
842361 ATAATTAATTGAATTA
1 ATAATTAATTTAATTA
842377 AATAAAGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
ATAATTAATTTAATTATTTTTAA
Found at i:851384 original size:80 final size:77
Alignment explanation
Indices: 851284--851445 Score: 288
Period size: 80 Copynumber: 2.1 Consensus size: 77
851274 TTTATTTTTG
851284 AATTTGAACTTCATCTTCTTATACCTTTCAAATATATAATTATAACTAATTTATACTTGGTGTGT
1 AATTTGAACTTCATCTTCTTATACCTTTCAAATATATAATTATAACTAATTTATAC-T--TGTGT
851349 GCATTTCATTCTCAC
63 GCATTTCATTCTCAC
*
851364 AATTTGAACTTCATCTTCTTATACCTTTCAAATATGTAATTATAACTAATTTATACTTGTGTGCA
1 AATTTGAACTTCATCTTCTTATACCTTTCAAATATATAATTATAACTAATTTATACTTGTGTGCA
851429 TTTCATTCTCAC
66 TTTCATTCTCAC
851441 AATTT
1 AATTT
851446 ATAAAGGTTT
Statistics
Matches: 81, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
77 25 0.31
79 1 0.01
80 55 0.68
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (77 bp):
AATTTGAACTTCATCTTCTTATACCTTTCAAATATATAATTATAACTAATTTATACTTGTGTGCA
TTTCATTCTCAC
Found at i:853553 original size:29 final size:26
Alignment explanation
Indices: 853495--853544 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
853485 TCTATAACAG
853495 CTGATATATTCATATGAATCATTTGTT
1 CTGATATATTCATAT-AATCATTTGTT
853522 CTGATATATTCATAT-ATCATTTG
1 CTGATATATTCATATAATCATTTG
853545 CATTTTCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 8 0.35
27 15 0.65
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (26 bp):
CTGATATATTCATATAATCATTTGTT
Found at i:866402 original size:17 final size:18
Alignment explanation
Indices: 866377--866414 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
866367 ATAAAGTCCA
* *
866377 AAAATAAAA-TAAAGATT
1 AAAACAAAATTAAAGAAT
866394 AAAACAAAATTAAAGAAT
1 AAAACAAAATTAAAGAAT
866412 AAA
1 AAA
866415 TTTCAAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (18 bp):
AAAACAAAATTAAAGAAT
Found at i:872631 original size:19 final size:19
Alignment explanation
Indices: 872594--872631 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
872584 CCTTAATCTC
* *
872594 TAACTTAAAACTCTCAATT
1 TAACTTAAAACCCTAAATT
872613 TAACTTAAAACCCTAAATT
1 TAACTTAAAACCCTAAATT
872632 GATAACCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (19 bp):
TAACTTAAAACCCTAAATT
Found at i:874182 original size:19 final size:19
Alignment explanation
Indices: 874158--874197 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
874148 TGAATTCAAG
874158 TGAGTTTTGCACACAGGTC
1 TGAGTTTTGCACACAGGTC
874177 TGAGTTTTGCACACAGGTC
1 TGAGTTTTGCACACAGGTC
874196 TG
1 TG
874198 TACCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAGTTTTGCACACAGGTC
Found at i:885252 original size:27 final size:27
Alignment explanation
Indices: 885196--885252 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
885186 TTTTTCGGAT
* * ***
885196 AAAAAATCGGTTTTTAATCCGGTTTGA
1 AAAAAACCGGTTTTTAATACGGTAAAA
885223 AAAAAACCGGTTTTTAATACGGTAAAA
1 AAAAAACCGGTTTTTAATACGGTAAAA
885250 AAA
1 AAA
885253 TCGGTCGTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (27 bp):
AAAAAACCGGTTTTTAATACGGTAAAA
Found at i:891734 original size:32 final size:32
Alignment explanation
Indices: 891684--891745 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
891674 ACTCGTGAAA
*
891684 AAAAGACATTTATGGTATAAAAGGAATAACAG
1 AAAAGACAATTATGGTATAAAAGGAATAACAG
891716 AAAAGACAATTACT-GTATAAAAGGAATAAC
1 AAAAGACAATTA-TGGTATAAAAGGAATAAC
891746 TTGTCTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.21
Consensus pattern (32 bp):
AAAAGACAATTATGGTATAAAAGGAATAACAG
Found at i:899670 original size:30 final size:30
Alignment explanation
Indices: 899634--899690 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
899624 CTATATTAAA
* *
899634 TTTAGAATGTATAAGTATTGATCAAGGAGT
1 TTTAGAACGTACAAGTATTGATCAAGGAGT
* *
899664 TTTAGAACGTACAAGTGTTGTTCAAGG
1 TTTAGAACGTACAAGTATTGATCAAGG
899691 GATTTCAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (30 bp):
TTTAGAACGTACAAGTATTGATCAAGGAGT
Found at i:904627 original size:22 final size:21
Alignment explanation
Indices: 904602--904674 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 21
904592 TATTTATCCG
*
904602 TTTAGCATTCGAAACATGTTCA
1 TTTAACATTCGAAA-ATGTTCA
**
904624 TTTAACATTTATAAATATGTTCA
1 TTTAACA-TTCGAAA-ATGTTCA
*
904647 TTTAACGTTCGTGAAAATGTTCA
1 TTTAACATTC--GAAAATGTTCA
904670 TTTAA
1 TTTAA
904675 TGTTTGCAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
22 8 0.20
23 30 0.73
24 3 0.07
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (21 bp):
TTTAACATTCGAAAATGTTCA
Found at i:904647 original size:23 final size:23
Alignment explanation
Indices: 904612--904674 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
904602 TTTAGCATTC
*
904612 GAAACATGTTCATTTAACATTTAT
1 GAAA-ATGTTCATTTAACATTCAT
* *
904636 -AAATATGTTCATTTAACGTTCGT
1 GAAA-ATGTTCATTTAACATTCAT
904659 GAAAATGTTCATTTAA
1 GAAAATGTTCATTTAA
904675 TGTTTGCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 31 0.91
24 3 0.09
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (23 bp):
GAAAATGTTCATTTAACATTCAT
Found at i:905607 original size:21 final size:22
Alignment explanation
Indices: 905561--905607 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
905551 AATATAAAAT
*
905561 TAAAAAATTATATTTAAACATT
1 TAAAAAATTATATTTAAACATA
* *
905583 TAAAAGATTATATTTAACCA-A
1 TAAAAAATTATATTTAAACATA
905604 TAAA
1 TAAA
905608 GAAAATAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAAAAATTATATTTAAACATA
Found at i:909822 original size:9 final size:9
Alignment explanation
Indices: 909808--909832 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
909798 CAATCCAAAA
909808 AAAATCAGT
1 AAAATCAGT
909817 AAAATCAGT
1 AAAATCAGT
909826 AAAATCA
1 AAAATCA
909833 CTTCAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.12, G:0.08, T:0.20
Consensus pattern (9 bp):
AAAATCAGT
Done.