Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_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: 4652821
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 23
Found at i:1313342 original size:20 final size:20
Alignment explanation
Indices: 1313308--1313391 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 20
1313298 TTTGTCCCTT
**
1313308 TTTCTTTTTGATTTTTGTTC
1 TTTCTTTTTTCTTTTTGTTC
*
1313328 TTTCTTTTTTC-TTTTGTTT
1 TTTCTTTTTTCTTTTTGTTC
* *
1313347 TCTTCTTTTTTGCTTCTTTTTTT
1 T-TTCTTTTTT-CTT-TTTGTTC
*
1313370 TTGTTTTTTTTCTTTTTGTTC
1 TT-TCTTTTTTCTTTTTGTTC
1313391 T
1 T
1313392 GATTGAATCT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
19 8 0.15
20 18 0.35
21 7 0.13
22 5 0.10
23 14 0.27
ACGTcount: A:0.01, C:0.12, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTCTTTTTTCTTTTTGTTC
Found at i:1313352 original size:24 final size:23
Alignment explanation
Indices: 1313306--1313380 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 23
1313296 TTTTTGTCCC
*
1313306 TTTTTCTTTTTGATTTTTGTTCTTTCT
1 TTTTTC-TTTTG--TTTTCTTCTTT-T
1313333 TTTTTCTTTTGTTTTCTTCTTTT
1 TTTTTCTTTTGTTTTCTTCTTTT
* * *
1313356 TTGCTTCTTTTTTTTTGTT-TTTT
1 TT-TTTCTTTTGTTTTCTTCTTTT
1313379 TT
1 TT
1313381 CTTTTTGTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
23 9 0.21
24 23 0.53
26 5 0.12
27 6 0.14
ACGTcount: A:0.01, C:0.11, G:0.07, T:0.81
Consensus pattern (23 bp):
TTTTTCTTTTGTTTTCTTCTTTT
Found at i:1313387 original size:29 final size:29
Alignment explanation
Indices: 1313333--1313391 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
1313323 TGTTCTTTCT
1313333 TTTTTCTTTTGTTTTCTTCTTTTTTGCTTC
1 TTTTTCTTTTGTTTTCTTCTTTTTTG-TTC
*
1313363 TTTTT-TTTTGTTTT-TTTTCTTTTTGTTC
1 TTTTTCTTTTGTTTTCTTCT-TTTTTGTTC
1313391 T
1 T
1313392 GATTGAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 7 0.26
29 15 0.56
30 5 0.19
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (29 bp):
TTTTTCTTTTGTTTTCTTCTTTTTTGTTC
Found at i:1317882 original size:17 final size:18
Alignment explanation
Indices: 1317846--1317919 Score: 51
Period size: 18 Copynumber: 4.0 Consensus size: 18
1317836 TGTTAGAGGG
*
1317846 AAAAAATGAATAAATGAA
1 AAAAAATGAATAAATAAA
*
1317864 AAAAAATGAA-GAATAAA
1 AAAAAATGAATAAATAAA
* * * *
1317881 AATAAGTAAAAAAAATAAA
1 AAAAAAT-GAATAAATAAA
*
1317900 AGGAAAAATAAATAAATAAA
1 A--AAAAATGAATAAATAAA
1317920 TAAATGAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
17 10 0.23
18 12 0.28
19 7 0.16
20 10 0.23
21 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (18 bp):
AAAAAATGAATAAATAAA
Found at i:1317912 original size:16 final size:16
Alignment explanation
Indices: 1317875--1317915 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
1317865 AAAAATGAAG
*
1317875 AATAAA-AATAAGTAAA
1 AATAAATAA-AAGGAAA
1317891 AA-AAATAAAAGGAAA
1 AATAAATAAAAGGAAA
1317906 AATAAATAAA
1 AATAAATAAA
1317916 TAAATAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (16 bp):
AATAAATAAAAGGAAA
Found at i:1317943 original size:2 final size:2
Alignment explanation
Indices: 1317936--1317960 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1317926 AAATATTAAA
1317936 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
1317961 AATGAGTAAA
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:1318866 original size:36 final size:37
Alignment explanation
Indices: 1318785--1318888 Score: 129
Period size: 36 Copynumber: 2.8 Consensus size: 37
1318775 GTGATTGTGG
* * *
1318785 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAATAAAACTCT
* * *
1318822 ATCTTATTTTTAGGAGTTTGAATC-TAATAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAATAAAACTCT
* *
1318858 ATCCTATTTTTAAGAGTTTAAATCTTAATAA
1 ATCCTATTTTTAGGAGTTTAAATCATAATAA
1318889 GACGAAAAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 30 0.53
37 27 0.47
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCATAATAAAACTCT
Found at i:1321790 original size:2 final size:2
Alignment explanation
Indices: 1321783--1321808 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1321773 ACATGTGCGT
1321783 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
1321809 TGGTACCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1329237 original size:33 final size:33
Alignment explanation
Indices: 1329195--1329286 Score: 184
Period size: 33 Copynumber: 2.8 Consensus size: 33
1329185 TTGACAAGTT
1329195 GAAATTTCATCTTGGTTGGTGGCCAACTTATTG
1 GAAATTTCATCTTGGTTGGTGGCCAACTTATTG
1329228 GAAATTTCATCTTGGTTGGTGGCCAACTTATTG
1 GAAATTTCATCTTGGTTGGTGGCCAACTTATTG
1329261 GAAATTTCATCTTGGTTGGTGGCCAA
1 GAAATTTCATCTTGGTTGGTGGCCAA
1329287 ACTTTGAACA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.38
Consensus pattern (33 bp):
GAAATTTCATCTTGGTTGGTGGCCAACTTATTG
Found at i:1334004 original size:2 final size:2
Alignment explanation
Indices: 1333999--1334066 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
1333989 TATGTGTGTG
1333999 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
1334041 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
1334067 CGCGAAGAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1335360 original size:9 final size:8
Alignment explanation
Indices: 1335341--1335392 Score: 59
Period size: 9 Copynumber: 5.9 Consensus size: 8
1335331 CCGGTCTGAC
1335341 CCGACCTGA
1 CCGACC-GA
1335350 CCGACTCGA
1 CCGAC-CGA
1335359 CCGACCGA
1 CCGACCGA
1335367 CCCGACCGA
1 -CCGACCGA
1335376 CCGACCCGA
1 CCGA-CCGA
1335385 CCCGACCG
1 -CCGACCG
1335393 TTGATCGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.18
9 27 0.69
10 5 0.13
ACGTcount: A:0.21, C:0.52, G:0.23, T:0.04
Consensus pattern (8 bp):
CCGACCGA
Found at i:1335365 original size:4 final size:4
Alignment explanation
Indices: 1335341--1335392 Score: 59
Period size: 4 Copynumber: 11.8 Consensus size: 4
1335331 CCGGTCTGAC
1335341 CCGA CCTGA CCGA CTCGA CCGA CCGA CCCGA CCGA CCGA CCCGA CCCGA
1 CCGA CC-GA CCGA C-CGA CCGA CCGA -CCGA CCGA CCGA -CCGA -CCGA
1335390 CCG
1 CCG
1335393 TTGATCGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
4 23 0.52
5 21 0.48
ACGTcount: A:0.21, C:0.52, G:0.23, T:0.04
Consensus pattern (4 bp):
CCGA
Found at i:1335366 original size:13 final size:13
Alignment explanation
Indices: 1335338--1335392 Score: 83
Period size: 13 Copynumber: 4.1 Consensus size: 13
1335328 GAACCGGTCT
1335338 GACCCGACCTGACC
1 GACCCGACC-GACC
*
1335352 GACTCGACCGACC
1 GACCCGACCGACC
1335365 GACCCGACCGACC
1 GACCCGACCGACC
1335378 GACCCGACCCGACC
1 GACCCGA-CCGACC
1335392 G
1 G
1335393 TTGATCGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
13 23 0.61
14 15 0.39
ACGTcount: A:0.22, C:0.51, G:0.24, T:0.04
Consensus pattern (13 bp):
GACCCGACCGACC
Found at i:1342549 original size:19 final size:19
Alignment explanation
Indices: 1342498--1342569 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
1342488 AGTGGCTGAA
*
1342498 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTTTG
*
1342518 AACTGGTTTTGACCGGTTTG
1 AACCGG-TTTGACCGGTTTG
*
1342538 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTTTG
*
1342557 AACCGGTCTGACC
1 AACCGGTTTGACC
1342570 CGACCGACCC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
19 24 0.52
20 15 0.33
21 7 0.15
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.31
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTTG
Found at i:1342551 original size:9 final size:9
Alignment explanation
Indices: 1342499--1342569 Score: 61
Period size: 10 Copynumber: 7.3 Consensus size: 9
1342489 GTGGCTGAAA
1342499 ACCGGTTTG
1 ACCGGTTTG
*
1342508 ACCAGTTTTG
1 ACC-GGTTTG
*
1342518 AACTGGTTTTG
1 -ACCGG-TTTG
1342529 ACCGGTTTG
1 ACCGGTTTG
1342538 AACCGGTTTG
1 -ACCGGTTTG
*
1342548 ACCGGTCTG
1 ACCGGTTTG
*
1342557 AACCGGTCTG
1 -ACCGGTTTG
1342567 ACC
1 ACC
1342570 CGACCGACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
9 18 0.35
10 28 0.54
11 6 0.12
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.31
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:1342580 original size:9 final size:9
Alignment explanation
Indices: 1342566--1342597 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
1342556 GAACCGGTCT
1342566 GACCCGACC
1 GACCCGACC
1342575 GACCCGACC
1 GACCCGACC
1342584 GACCCGACCC
1 GACCCGA-CC
1342594 GACC
1 GACC
1342598 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.22, C:0.56, G:0.22, T:0.00
Consensus pattern (9 bp):
GACCCGACC
Found at i:1342581 original size:5 final size:5
Alignment explanation
Indices: 1342566--1342597 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
1342556 GAACCGGTCT
1342566 GACCC GA-CC GACCC GA-CC GACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACC
1342598 GTTGACCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 8 0.32
5 17 0.68
ACGTcount: A:0.22, C:0.56, G:0.22, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:1346900 original size:12 final size:12
Alignment explanation
Indices: 1346885--1346931 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
1346875 ATTTTTTTCC
1346885 TTTATTTTCTCT
1 TTTATTTTCTCT
* *
1346897 TTTATTTATTTAT
1 TTTATTT-TCTCT
1346910 TTTATTTTCTTCT
1 TTTATTTTC-TCT
1346923 TTT-TTTTCT
1 TTTATTTTCT
1346932 TCAAGCAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
11 1 0.03
12 13 0.45
13 15 0.52
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTATTTTCTCT
Found at i:1350494 original size:19 final size:19
Alignment explanation
Indices: 1350470--1350507 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1350460 GCCACTTTAT
1350470 GAATTAATAGGTATGCATC
1 GAATTAATAGGTATGCATC
1350489 GAATTAATAGGTATGCATC
1 GAATTAATAGGTATGCATC
1350508 TTTCATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
GAATTAATAGGTATGCATC
Found at i:1354074 original size:19 final size:19
Alignment explanation
Indices: 1354050--1354094 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
1354040 TATGAATGGA
*
1354050 TAAAATGCAATGTGAAAAG
1 TAAAATGCAATGTAAAAAG
1354069 TAAAATGCAATGTAAAAAG
1 TAAAATGCAATGTAAAAAG
1354088 TAAAATG
1 TAAAATG
1354095 TATAAGCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (19 bp):
TAAAATGCAATGTAAAAAG
Found at i:1356371 original size:14 final size:15
Alignment explanation
Indices: 1356334--1356362 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1356324 TTTAAAATTC
1356334 TAAAAATTATTAAAA
1 TAAAAATTATTAAAA
1356349 TAAAAATTATTAAA
1 TAAAAATTATTAAA
1356363 TTACAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAAAAATTATTAAAA
Found at i:1356512 original size:29 final size:29
Alignment explanation
Indices: 1356439--1356602 Score: 143
Period size: 29 Copynumber: 5.6 Consensus size: 29
1356429 ATGCCAAAAA
* * **
1356439 TTTTATAAATTACAATAAATATCACAATTT
1 TTTTATAAATTACAATAAACAACA-AAACT
* *
1356469 CTTTTATAAATTACAATAAATAACATAACT
1 -TTTTATAAATTACAATAAACAACAAAACT
*
1356499 TTTTATAAATTACAATAAACACCAAAACT
1 TTTTATAAATTACAATAAACAACAAAACT
* * *
1356528 ATTTATAAATTAAAATAAACACCAAAACT
1 TTTTATAAATTACAATAAACAACAAAACT
* * *
1356557 ATGTATAAATTACAATCAAA-GA-AAAACT
1 TTTTATAAATTACAAT-AAACAACAAAACT
***
1356585 TACCATAAATTACAATAA
1 TTTTATAAATTACAATAA
1356603 TGGCTTGTAA
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
27 2 0.02
28 18 0.16
29 67 0.58
30 5 0.04
31 23 0.20
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (29 bp):
TTTTATAAATTACAATAAACAACAAAACT
Found at i:1357645 original size:63 final size:63
Alignment explanation
Indices: 1357529--1357652 Score: 144
Period size: 63 Copynumber: 2.0 Consensus size: 63
1357519 ACCTAAGGGA
* ** *
1357529 ACATCTTAAGGCCTGAGAGCCTACCCAAGATAGATTTCAGGGCCGTGGGGCCTACCAAAGAAC
1 ACATCTTAAGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCAAAGAAC
* * * *
1357592 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAAGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCAAAGA
1357653 GTCACATTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.16
Consensus pattern (63 bp):
ACATCTTAAGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCAAAGAAC
Found at i:1360477 original size:18 final size:18
Alignment explanation
Indices: 1360454--1360504 Score: 77
Period size: 17 Copynumber: 2.9 Consensus size: 18
1360444 AACGGTCAAA
1360454 GGTCAACGGGTCAGGTCG
1 GGTCAACGGGTCAGGTCG
* *
1360472 GGTCAAC-GGTCGGGCCG
1 GGTCAACGGGTCAGGTCG
1360489 GGTCAACGGGTCAGGT
1 GGTCAACGGGTCAGGT
1360505 TATGACCGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.16, C:0.24, G:0.45, T:0.16
Consensus pattern (18 bp):
GGTCAACGGGTCAGGTCG
Found at i:1365652 original size:19 final size:20
Alignment explanation
Indices: 1365598--1365657 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 20
1365588 ATAAAATTAA
*
1365598 ATAATTATTTAACAT-TTTAT
1 ATAATT-TTTAAAATATTTAT
**
1365618 ACTAATTTTTGCAATATTT-T
1 A-TAATTTTTAAAATATTTAT
*
1365638 ATAATTTTTAAAATAATTAT
1 ATAATTTTTAAAATATTTAT
1365658 GTGATATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
19 14 0.45
20 9 0.29
21 8 0.26
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAATTTTTAAAATATTTAT
Found at i:1365737 original size:18 final size:19
Alignment explanation
Indices: 1365689--1365739 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
1365679 ATAAATTTTT
*
1365689 TTTTACAATTTTAATAATA
1 TTTTAAAATTTTAATAATA
** *
1365708 TTTTTTATTTTTAATAA-A
1 TTTTAAAATTTTAATAATA
1365726 TTTTAAAATTTTAA
1 TTTTAAAATTTTAA
1365740 AAAAATAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAAAATTTTAATAATA
Found at i:1365807 original size:18 final size:19
Alignment explanation
Indices: 1365786--1365830 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
1365776 TTTTCAAACG
* *
1365786 TTTTTGATATTTCTTA-AA
1 TTTTTAATATTTATTATAA
1365804 TTTTTAATATTTATTATAA
1 TTTTTAATATTTATTATAA
1365823 -TTTTAATA
1 TTTTTAATA
1365831 ACATTTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTAATATTTATTATAA
Found at i:1367884 original size:16 final size:17
Alignment explanation
Indices: 1367863--1367899 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
1367853 AGTATATGAT
1367863 ATATAAA-ATAATAT-TA
1 ATATAAATAT-ATATGTA
1367879 ATATAAATATATATGTA
1 ATATAAATATATATGTA
1367896 ATAT
1 ATAT
1367900 TTGCATACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
ATATAAATATATATGTA
Found at i:1369821 original size:18 final size:17
Alignment explanation
Indices: 1369798--1369831 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1369788 GGGTTTTGTT
1369798 TAAAATATGATTAAATAG
1 TAAAAT-TGATTAAATAG
*
1369816 TAAAATTTATTAAATA
1 TAAAATTGATTAAATA
1369832 AATGAAGGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
TAAAATTGATTAAATAG
Found at i:1370288 original size:18 final size:18
Alignment explanation
Indices: 1370265--1370316 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
1370255 AAAGTCAATC
*
1370265 TTTGATTTTGAAAACTGT
1 TTTGATTTTGAAAAATGT
1370283 TTTGATTTTGAAAAATGT
1 TTTGATTTTGAAAAATGT
*
1370301 TTTAATTTTGAAAAAT
1 TTTGATTTTGAAAAAT
1370317 AAGCACAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (18 bp):
TTTGATTTTGAAAAATGT
Found at i:1378368 original size:31 final size:28
Alignment explanation
Indices: 1378320--1378387 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 28
1378310 ACAGGGGGTT
*
1378320 TTAATAAAAAGTGATT-AAGTAATAAAGAGA
1 TTAATAAAAAGTAATTAAAGTAA-AAA-A-A
*
1378350 TTAAATAAAAGGTAATTAAAGTAAAAAAA
1 TT-AATAAAAAGTAATTAAAGTAAAAAAA
1378379 TTAATAAAA
1 TTAATAAAA
1378388 TAGAGATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 7 0.21
29 3 0.09
30 3 0.09
31 15 0.44
32 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (28 bp):
TTAATAAAAAGTAATTAAAGTAAAAAAA
Found at i:1380164 original size:17 final size:17
Alignment explanation
Indices: 1380142--1380174 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1380132 AATATGATTC
1380142 GGCGAAAAATTAAAAGT
1 GGCGAAAAATTAAAAGT
*
1380159 GGCGAAAAATTCAAAG
1 GGCGAAAAATTAAAAG
1380175 ACAAGTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.24, T:0.15
Consensus pattern (17 bp):
GGCGAAAAATTAAAAGT
Found at i:1381714 original size:10 final size:11
Alignment explanation
Indices: 1381687--1381715 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1381677 AAACCGGTTT
1381687 AATCGGTTTTG
1 AATCGGTTTTG
1381698 AATCGGTTTTG
1 AATCGGTTTTG
1381709 -ATCGGTT
1 AATCGGTT
1381716 CGAACCGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.17, C:0.10, G:0.28, T:0.45
Consensus pattern (11 bp):
AATCGGTTTTG
Found at i:1381783 original size:17 final size:17
Alignment explanation
Indices: 1381761--1381797 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
1381751 ACAGGTCCCA
1381761 ACCCGACCCGACCGTTG
1 ACCCGACCCGACCGTTG
1381778 ACCCGACCCGACCGTTG
1 ACCCGACCCGACCGTTG
1381795 ACC
1 ACC
1381798 GTTGACCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.49, G:0.22, T:0.11
Consensus pattern (17 bp):
ACCCGACCCGACCGTTG
Found at i:1381797 original size:7 final size:7
Alignment explanation
Indices: 1381787--1381817 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
1381777 GACCCGACCC
1381787 GACCGTT
1 GACCGTT
1381794 GACCGTT
1 GACCGTT
1381801 GACCG-T
1 GACCGTT
1381807 GACCGTT
1 GACCGTT
1381814 GACC
1 GACC
1381818 TCCTTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.16, C:0.32, G:0.29, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:1381811 original size:13 final size:14
Alignment explanation
Indices: 1381787--1381817 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1381777 GACCCGACCC
1381787 GACCGTTGACCGTT
1 GACCGTTGACCGTT
1381801 GACCG-TGACCGTT
1 GACCGTTGACCGTT
1381814 GACC
1 GACC
1381818 TCCTTTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.16, C:0.32, G:0.29, T:0.23
Consensus pattern (14 bp):
GACCGTTGACCGTT
Found at i:1388927 original size:10 final size:11
Alignment explanation
Indices: 1388900--1388928 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1388890 GAAGCTGGAA
1388900 AACCGGTTTTG
1 AACCGGTTTTG
1388911 AACCGGTTTTG
1 AACCGGTTTTG
1388922 -ACCGGTT
1 AACCGGTT
1388929 CAAACCGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:1396080 original size:17 final size:18
Alignment explanation
Indices: 1396052--1396085 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1396042 GGATTTTGTT
1396052 TAAAATACGATTAAATAG
1 TAAAATACGATTAAATAG
1396070 TAAAATA-GATTAAATA
1 TAAAATACGATTAAATA
1396086 AATGGAGGTA
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:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (18 bp):
TAAAATACGATTAAATAG
Found at i:1398640 original size:2 final size:2
Alignment explanation
Indices: 1398633--1398658 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1398623 AATCCTGCAA
1398633 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
1398659 TGAGAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1412435 original size:9 final size:9
Alignment explanation
Indices: 1412421--1412446 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1412411 ACGGAGCACT
1412421 TAAACACAC
1 TAAACACAC
1412430 TAAACACAC
1 TAAACACAC
1412439 TAAACACA
1 TAAACACA
1412447 TTATTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.31, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAACACAC
Found at i:1417072 original size:19 final size:19
Alignment explanation
Indices: 1417050--1417095 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1417040 CATAATTATT
* *
1417050 AAAAATTAGAAAAATTTAG
1 AAAAATTAGAAAAATTAAA
* *
1417069 AAAATTTAGATAAATTAAA
1 AAAAATTAGAAAAATTAAA
1417088 AAAAATTA
1 AAAAATTA
1417096 ACTAATTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (19 bp):
AAAAATTAGAAAAATTAAA
Found at i:1417231 original size:22 final size:22
Alignment explanation
Indices: 1417199--1417246 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1417189 AGAAAATGTC
*
1417199 TTTTAACATATATTAAATAATT
1 TTTTAACATATATTAAAGAATT
* * *
1417221 TTTTAATATATTTTAAAGATTT
1 TTTTAACATATATTAAAGAATT
1417243 TTTT
1 TTTT
1417247 GGATTGAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTAACATATATTAAAGAATT
Found at i:1419484 original size:74 final size:75
Alignment explanation
Indices: 1419311--1419515 Score: 254
Period size: 74 Copynumber: 2.7 Consensus size: 75
1419301 TAAAACATCT
* * * * * * *
1419311 TAAATCCTAATTAAAACATTTAAAA-CTATTTAAACTAAAAATACCTAAAACAAAAATAATATTT
1 TAAAACCTAATTAAAATA-CTAAAACCTATTTAAACT-AAAATACTTAAAACAAAGAGAATATTA
*
1419375 AAAATAATATTA
64 AAAATAATATCA
*
1419387 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACTTAAAACAAAGAGAATA-TAAA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACTTAAAACAAAGAGAATATTAAA
*
1419451 AATAATATCC
66 AATAATATCA
* *
1419461 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAAAACCTT-AAACAAAGA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATA-CTTAAAACAAAGA
1419516 TAAAATATAA
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
74 59 0.51
75 29 0.25
76 28 0.24
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.28
Consensus pattern (75 bp):
TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACTTAAAACAAAGAGAATATTAAA
AATAATATCA
Found at i:1425239 original size:24 final size:24
Alignment explanation
Indices: 1425211--1425261 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
1425201 TTATAATTCC
1425211 TGACCTGGATTTTGATCGGATACT
1 TGACCTGGATTTTGATCGGATACT
*
1425235 TGACCTGGATTTTGATCTGATACT
1 TGACCTGGATTTTGATCGGATACT
1425259 TGA
1 TGA
1425262 ACTTGATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.39
Consensus pattern (24 bp):
TGACCTGGATTTTGATCGGATACT
Found at i:1425269 original size:24 final size:24
Alignment explanation
Indices: 1425215--1425269 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
1425205 AATTCCTGAC
*
1425215 CTGGATTTTGATCGGATACTTGAC
1 CTGGATTTTGATCGGATACTTGAA
*
1425239 CTGGATTTTGATCTGATACTTGAA
1 CTGGATTTTGATCGGATACTTGAA
*
1425263 CTTGATT
1 CTGGATT
1425270 ATTTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (24 bp):
CTGGATTTTGATCGGATACTTGAA
Found at i:1431948 original size:20 final size:20
Alignment explanation
Indices: 1431923--1431991 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
1431913 TGTTTAGAGA
1431923 AAAATAAAATAAAATTACTG
1 AAAATAAAATAAAATTACTG
1431943 AAAATAAAAT-AAA-TA-T-
1 AAAATAAAATAAAATTACTG
*
1431959 --AATGAAATAAAATTCACTG
1 AAAATAAAATAAAATT-ACTG
*
1431978 AAAATAAAACAAAA
1 AAAATAAAATAAAA
1431992 AAATAACGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
14 7 0.18
15 3 0.08
16 1 0.03
17 2 0.05
18 3 0.08
19 3 0.08
20 10 0.26
21 10 0.26
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.22
Consensus pattern (20 bp):
AAAATAAAATAAAATTACTG
Found at i:1437037 original size:32 final size:31
Alignment explanation
Indices: 1436942--1437042 Score: 102
Period size: 31 Copynumber: 3.2 Consensus size: 31
1436932 CCGAAGAACC
* *
1436942 TAGGTAA-ACTGTCCATATGTTCCTTAGAACA
1 TAGGTAATACTGTCCATATG-TCCGTAAAACA
1436973 TAGGT-ATACTGTCCATATGTCTCG-AAAGACA
1 TAGGTAATACTGTCCATATGTC-CGTAAA-ACA
*
1437004 TAGGTAATTA-TGTCCATATGCTCCGTATAACA
1 TAGGTAA-TACTGTCCATATG-TCCGTAAAACA
1437036 TAGGTAA
1 TAGGTAA
1437043 ACCCTCGACT
Statistics
Matches: 60, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
30 5 0.08
31 26 0.43
32 23 0.38
33 6 0.10
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (31 bp):
TAGGTAATACTGTCCATATGTCCGTAAAACA
Found at i:1437303 original size:17 final size:16
Alignment explanation
Indices: 1437269--1437308 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
1437259 GCATGTTAAC
1437269 ACATACAATCATACAT
1 ACATACAATCATACAT
**
1437285 ACATACAATTCATGTAT
1 ACATACAA-TCATACAT
1437302 ACATACA
1 ACATACA
1437309 TTTAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.28
Consensus pattern (16 bp):
ACATACAATCATACAT
Found at i:1437658 original size:24 final size:20
Alignment explanation
Indices: 1437601--1437658 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
1437591 TTTCCCTTGA
*
1437601 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
*
1437621 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
1437644 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
1437659 CTACCCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:1437798 original size:64 final size:64
Alignment explanation
Indices: 1437646--1437800 Score: 188
Period size: 64 Copynumber: 2.4 Consensus size: 64
1437636 TCTTTAACAT
* * * * *
1437646 GTGCATCGATGCACTACCCATGCATCGATACATAAATCACCTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACTTCCTATGCATCGATACACAAATCACATTCGATGTTTCCATTTTAAGGGG
* ** *
1437710 GTGCATCGATGCAC-TCCTTATGCATCGATGCACAAATTGCATTCGATGTTTCCATTTTTAA-TG
1 GTGCATCGATGCACTTCC-TATGCATCGATACACAAATCACATTCGATGTTTCCA-TTTTAAGGG
1437773 G
64 G
*
1437774 GTGCATCGATGCACTTCCTGTGCATCG
1 GTGCATCGATGCACTTCCTATGCATCG
1437801 GTATATGTTG
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 2 0.03
64 67 0.86
65 9 0.12
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTTCCTATGCATCGATACACAAATCACATTCGATGTTTCCATTTTAAGGGG
Found at i:1441165 original size:31 final size:31
Alignment explanation
Indices: 1441115--1441208 Score: 109
Period size: 31 Copynumber: 3.1 Consensus size: 31
1441105 AGAGGTCATA
* *
1441115 AAGAACCTCGGT-AACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAAACTGTCCATATGTCCCG
* *
1441145 AAGAACCTAGGTAAACTGTCCATATGTTCCT
1 AAGAACCTAGGTAAACTGTCCATATGTCCCG
* * * *
1441176 TAGAACATAGGTATACTGTCCATATGTCTCG
1 AAGAACCTAGGTAAACTGTCCATATGTCCCG
1441207 AA
1 AA
1441209 AGACATAGGT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 11 0.21
31 41 0.79
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (31 bp):
AAGAACCTAGGTAAACTGTCCATATGTCCCG
Found at i:1441215 original size:31 final size:31
Alignment explanation
Indices: 1441115--1441232 Score: 100
Period size: 31 Copynumber: 3.8 Consensus size: 31
1441105 AGAGGTCATA
* * * *
1441115 AAGAACCTCGGTA-ACTGTCCATAGGTCCCG
1 AAGAACATAGGTATACTGTCCATATGTCTCG
* * *
1441145 AAGAACCTAGGTAAACTGTCCATATGT-TCCT
1 AAGAACATAGGTATACTGTCCATATGTCT-CG
*
1441176 TAGAACATAGGTATACTGTCCATATGTCTCG
1 AAGAACATAGGTATACTGTCCATATGTCTCG
1441207 AA-AGACATAGGTAATTA-TGTCCATAT
1 AAGA-ACATAGGT-A-TACTGTCCATAT
1441233 ATTCCGTATA
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
30 13 0.18
31 47 0.64
32 11 0.15
33 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (31 bp):
AAGAACATAGGTATACTGTCCATATGTCTCG
Found at i:1441247 original size:32 final size:31
Alignment explanation
Indices: 1441152--1441252 Score: 93
Period size: 31 Copynumber: 3.2 Consensus size: 31
1441142 CCGAAGAACC
* *
1441152 TAGGTAA-ACTGTCCATATGTTCCTTAGAACA
1 TAGGTAATACTGTCCATAT-TTCCGTAAAACA
*
1441183 TAGGT-ATACTGTCCATATGTCTCG-AAAGACA
1 TAGGTAATACTGTCCATATTTC-CGTAAA-ACA
*
1441214 TAGGTAATTA-TGTCCATATATTCCGTATAACA
1 TAGGTAA-TACTGTCCATAT-TTCCGTAAAACA
1441246 TAGGTAA
1 TAGGTAA
1441253 ACCCTCAACT
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
30 5 0.09
31 25 0.43
32 22 0.38
33 6 0.10
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (31 bp):
TAGGTAATACTGTCCATATTTCCGTAAAACA
Found at i:1441249 original size:63 final size:61
Alignment explanation
Indices: 1441124--1441252 Score: 154
Period size: 62 Copynumber: 2.1 Consensus size: 61
1441114 AAAGAACCTC
* * *
1441124 GGTAACTGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATATTCCGTAGAACATA
* * *
1441185 GGTATACTGTCCATATGTCTCGAA-AGACATAGGTAATTA-TGTCCATATATTCCGTATAACATA
1 GGTA-ACTGTCCATAGGTCCCGAAGA-ACATAGGTAA--ACTGTCCATATATTCCGTAGAACATA
1441248 GGTAA
1 GGTAA
1441253 ACCCTCAACT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
61 5 0.09
62 27 0.47
63 25 0.43
64 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (61 bp):
GGTAACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATATTCCGTAGAACATA
Found at i:1441992 original size:31 final size:31
Alignment explanation
Indices: 1441929--1442002 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
1441919 GGGGCCTGCG
* *
1441929 AGCCTACCCAAGACAATTCTCGGGGCCACAA
1 AGCCTACCCAAGACAAATCTCAGGGCCACAA
* *
1441960 AGGCTTACCCAAGA-AAATCTCAGGGCCGCAA
1 A-GCCTACCCAAGACAAATCTCAGGGCCACAA
1441991 AGCCTACCCAAG
1 AGCCTACCCAAG
1442003 GCTCGACTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 10 0.27
31 16 0.43
32 11 0.30
ACGTcount: A:0.34, C:0.34, G:0.20, T:0.12
Consensus pattern (31 bp):
AGCCTACCCAAGACAAATCTCAGGGCCACAA
Found at i:1443059 original size:28 final size:28
Alignment explanation
Indices: 1443019--1443179 Score: 277
Period size: 28 Copynumber: 5.8 Consensus size: 28
1443009 ACATTTTTTT
* *
1443019 ATAATTACGAAAATATCACCTTTTCGAA
1 ATAATTACCAAAATATCACTTTTTCGAA
*
1443047 ATAATTACCAAAATATCACTTTTTCAAA
1 ATAATTACCAAAATATCACTTTTTCGAA
1443075 ATAATTACCAAAATATCACTTTTTCGAA
1 ATAATTACCAAAATATCACTTTTTCGAA
*
1443103 ATAATTACCAAAATATCACTTTTTCAAA
1 ATAATTACCAAAATATCACTTTTTCGAA
1443131 ATAATTACCAAAATATCACTTTTTCGAA
1 ATAATTACCAAAATATCACTTTTTCGAA
*
1443159 ATAATTAACAAAATATCACTT
1 ATAATTACCAAAATATCACTT
1443180 GTTTAACAAT
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 126 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.35
Consensus pattern (28 bp):
ATAATTACCAAAATATCACTTTTTCGAA
Found at i:1445338 original size:25 final size:25
Alignment explanation
Indices: 1445304--1445355 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1445294 ACACGTATCT
1445304 CATCTACCAGGTCTGTAAAACTAGC
1 CATCTACCAGGTCTGTAAAACTAGC
1445329 CATCTACCAGGTCTGTAAAACTAGC
1 CATCTACCAGGTCTGTAAAACTAGC
1445354 CA
1 CA
1445356 CTCCGCTGCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (25 bp):
CATCTACCAGGTCTGTAAAACTAGC
Found at i:1446288 original size:31 final size:31
Alignment explanation
Indices: 1446228--1446301 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
1446218 GGGGCCTGCG
* *
1446228 AGCCTACCCAAGACAATTCTCGGGGCCACAA
1 AGCCTACCCAAGACAAATCTCAGGGCCACAA
*
1446259 AGGCTTACCCAAGA-AAATCTCAGGGCCACAA
1 A-GCCTACCCAAGACAAATCTCAGGGCCACAA
1446290 AGCCTACCCAAG
1 AGCCTACCCAAG
1446302 GCTCGACTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 10 0.26
31 17 0.45
32 11 0.29
ACGTcount: A:0.35, C:0.34, G:0.19, T:0.12
Consensus pattern (31 bp):
AGCCTACCCAAGACAAATCTCAGGGCCACAA
Found at i:1447356 original size:28 final size:28
Alignment explanation
Indices: 1447316--1447505 Score: 258
Period size: 28 Copynumber: 6.8 Consensus size: 28
1447306 ATATTTTTTT
*
1447316 ATAATTACGAAAATATCAAC-TTTTCGAA
1 ATAATTACCAAAATATC-ACTTTTTCGAA
* *
1447344 ATAATTACCAAAATATCAACCTTTTCCAA
1 ATAATTACCAAAATATC-ACTTTTTCGAA
*
1447373 ATAATTACCAAAATATCACTTTTTCAAA
1 ATAATTACCAAAATATCACTTTTTCGAA
*
1447401 ATAATTTCCAAAATATCACTTTTT-GAA
1 ATAATTACCAAAATATCACTTTTTCGAA
**
1447428 ATAATTACCAAAATATCACTTTTTTTAAA
1 ATAATTACCAAAATATCAC-TTTTTCGAA
*
1447457 ATAATTACCAAAATATCACTTTTTTGAA
1 ATAATTACCAAAATATCACTTTTTCGAA
*
1447485 ATAATTAACAAAATATCACTT
1 ATAATTACCAAAATATCACTT
1447506 GTTTAACAAT
Statistics
Matches: 149, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
27 20 0.13
28 84 0.56
29 45 0.30
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.36
Consensus pattern (28 bp):
ATAATTACCAAAATATCACTTTTTCGAA
Found at i:1447386 original size:57 final size:56
Alignment explanation
Indices: 1447316--1447505 Score: 267
Period size: 57 Copynumber: 3.4 Consensus size: 56
1447306 ATATTTTTTT
* * **
1447316 ATAATTACGAAAATATCAAC-TTTTCGAAATAATTACCAAAATATCAACCTTTTCCAA
1 ATAATTACCAAAATATC-ACTTTTTCAAAATAATTACCAAAATATC-ACCTTTTTGAA
*
1447373 ATAATTACCAAAATATCACTTTTTCAAAATAATTTCCAAAATATCA-CTTTTTGAA
1 ATAATTACCAAAATATCACTTTTTCAAAATAATTACCAAAATATCACCTTTTTGAA
* *
1447428 ATAATTACCAAAATATCACTTTTTTTAAAATAATTACCAAAATATCACTTTTTTGAA
1 ATAATTACCAAAATATCAC-TTTTTCAAAATAATTACCAAAATATCACCTTTTTGAA
*
1447485 ATAATTAACAAAATATCACTT
1 ATAATTACCAAAATATCACTT
1447506 GTTTAACAAT
Statistics
Matches: 121, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
55 26 0.21
56 30 0.25
57 65 0.54
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.36
Consensus pattern (56 bp):
ATAATTACCAAAATATCACTTTTTCAAAATAATTACCAAAATATCACCTTTTTGAA
Found at i:1447402 original size:16 final size:16
Alignment explanation
Indices: 1447381--1447424 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 16
1447371 AAATAATTAC
1447381 CAAAATATCACTTTTT
1 CAAAATATCACTTTTT
*
1447397 CAAAATA--A--TTTC
1 CAAAATATCACTTTTT
1447409 CAAAATATCACTTTTT
1 CAAAATATCACTTTTT
1447425 GAAATAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 8
0.69 0.06 0.25
Matches are distributed among these distances:
12 10 0.45
14 2 0.09
16 10 0.45
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (16 bp):
CAAAATATCACTTTTT
Found at i:1448396 original size:17 final size:16
Alignment explanation
Indices: 1448362--1448401 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
1448352 GCATGTTAAC
1448362 ACATACAATCATACAT
1 ACATACAATCATACAT
**
1448378 ACATACAATTCATGTAT
1 ACATACAA-TCATACAT
1448395 ACATACA
1 ACATACA
1448402 TTTAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.28
Consensus pattern (16 bp):
ACATACAATCATACAT
Found at i:1448722 original size:20 final size:20
Alignment explanation
Indices: 1448694--1448731 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1448684 TTTCCCTTGA
1448694 AGTGCATCGATACATTCTAC
1 AGTGCATCGATACATTCTAC
* *
1448714 AGTGTATCGATGCATTCT
1 AGTGCATCGATACATTCT
1448732 TTAACATATG
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:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:1448818 original size:64 final size:64
Alignment explanation
Indices: 1448738--1448881 Score: 202
Period size: 64 Copynumber: 2.2 Consensus size: 64
1448728 TTCTTTAACA
* *
1448738 TATGCATCGATACACAAATCACATTCGATGTTTTCA-TTTTAAGGGGGTGTATCGATGCAC-TCC
1 TATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAA-GGGGTGCATCGATGCACTTCC
* ** *
1448801 TTATGCATCGATGCACAAATTGCATTCGATGTTTCCATTTTTAATGGGTGCATCGATGCACTTCC
1 -TATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGGGTGCATCGATGCACTTCC
1448866 TATGCATCGATACACA
1 TATGCATCGATACACA
1448882 TTGAACAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
64 62 0.87
65 9 0.13
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (64 bp):
TATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGGGTGCATCGATGCACTTCC
Found at i:1451222 original size:16 final size:16
Alignment explanation
Indices: 1451201--1451248 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
1451191 AAAGAAGTAT
1451201 AATAAAATAA-AAATTA
1 AATAAAATAATAAA-TA
1451217 AATAAACA-AATAAATA
1 AATAAA-ATAATAAATA
1451233 AATAAAATAACTAAAT
1 AATAAAATAA-TAAAT
1451249 TGGGATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.04
16 18 0.64
17 9 0.32
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAAATAATAAATA
Found at i:1451962 original size:24 final size:24
Alignment explanation
Indices: 1451935--1452049 Score: 72
Period size: 25 Copynumber: 4.6 Consensus size: 24
1451925 AAATCCTAAT
1451935 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
** ** *
1451959 TAAAATACCTAAAACAAAGATAAAA
1 TAAAATA-CTAAAACCTATTTAAAC
* * * *
1451984 TATAAA-AATAATATCCTAAAACTT-AAT
1 TA-AAATACTAA-AACCT---ATTTAAAC
1452011 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
1452035 TAAAATACCTAAAAC
1 TAAAATA-CTAAAAC
1452050 AATGATAAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 17
0.67 0.16 0.17
Matches are distributed among these distances:
23 3 0.05
24 19 0.29
25 24 0.36
26 10 0.15
27 8 0.12
28 2 0.03
ACGTcount: A:0.58, C:0.15, G:0.01, T:0.26
Consensus pattern (24 bp):
TAAAATACTAAAACCTATTTAAAC
Found at i:1452029 original size:76 final size:76
Alignment explanation
Indices: 1451849--1452061 Score: 313
Period size: 76 Copynumber: 2.8 Consensus size: 76
1451839 TAAAACATCT
* * * * *
1451849 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAACAAAAATAATAT-TT
1 TAAAACCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATA
*
1451912 AAAATAATATTA
65 AAAATAATATCA
*
1451924 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
*
1451989 AAATAATATCC
66 AAATAATATCA
* *
1452000 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAATGATAAAATA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATA
1452062 ATGTTTAAAA
Statistics
Matches: 127, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
74 5 0.04
75 52 0.41
76 70 0.55
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.28
Consensus pattern (76 bp):
TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
AAATAATATCA
Found at i:1453730 original size:2 final size:2
Alignment explanation
Indices: 1453723--1453748 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1453713 AATCCTGCAA
1453723 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
1453749 TGAGAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1470015 original size:41 final size:41
Alignment explanation
Indices: 1469947--1470034 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 41
1469937 TAAATGTCGG
* *
1469947 TAAATACTCGTTCTTTAGGGGCATTTTTATATAAACACCGC
1 TAAATACTCGTACTTTAGGAGCATTTTTATATAAACACCGC
* * *
1469988 TAAATACTCGTACTTTAGTAGCGTTTTTATATAAACATCGC
1 TAAATACTCGTACTTTAGGAGCATTTTTATATAAACACCGC
1470029 TAAATA
1 TAAATA
1470035 TTATACTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (41 bp):
TAAATACTCGTACTTTAGGAGCATTTTTATATAAACACCGC
Found at i:1470053 original size:40 final size:41
Alignment explanation
Indices: 1469947--1470109 Score: 125
Period size: 41 Copynumber: 4.0 Consensus size: 41
1469937 TAAATGTCGG
* * ** *
1469947 TAAATACTCGTTCTTTAGGGGCATTTTTATATAAACACCGC
1 TAAATACTCATACTTTAGTAGCGTTTTTATATAAACACCGC
* *
1469988 TAAATACTCGTACTTTAGTAGCGTTTTTATATAAACATCGC
1 TAAATACTCATACTTTAGTAGCGTTTTTATATAAACACCGC
* * * * *
1470029 TAAATA-TTATACTTTAGT-GACGTTTGTATACAAGCGCCGC
1 TAAATACTCATACTTTAGTAG-CGTTTTTATATAAACACCGC
* * * * * *
1470069 CAAAGACGCATACTTTAGT-GACATTTTTATACAAACGCCGC
1 TAAATACTCATACTTTAGTAG-CGTTTTTATATAAACACCGC
1470110 AATTTATAAG
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 29 0.29
41 71 0.70
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (41 bp):
TAAATACTCATACTTTAGTAGCGTTTTTATATAAACACCGC
Found at i:1472977 original size:21 final size:21
Alignment explanation
Indices: 1472947--1473005 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
1472937 TGATTTATTA
1472947 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
1472968 TTATGTATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
1472989 TTATGGATATCAAGTTT
1 TTATGGATTTCAAGTTT
1473006 ATTGGATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.53
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:1473265 original size:44 final size:44
Alignment explanation
Indices: 1473211--1473294 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
1473201 TTTTTCATTT
* * *
1473211 ACAAATGTCACTATATGACATAACATTTAGC-GATATTTTTTAGA
1 ACAAACGTCACTATATGACAGAACATTGAGCAG-TATTTTTTAGA
*
1473255 ACAAACGTCACTATATGTCAGAACATTGAGCAGTATTTTT
1 ACAAACGTCACTATATGACAGAACATTGAGCAGTATTTTT
1473295 GGGACAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (44 bp):
ACAAACGTCACTATATGACAGAACATTGAGCAGTATTTTTTAGA
Found at i:1476948 original size:28 final size:28
Alignment explanation
Indices: 1476904--1477062 Score: 98
Period size: 28 Copynumber: 5.5 Consensus size: 28
1476894 CTTTACTAAA
1476904 ATATTATTTAAATATATATATAATATTAT
1 ATATTA-TTAAATATATATATAATATTAT
*
1476933 -TCATTATTAAATATATA-AAAATTATTAT
1 AT-ATTATTAAATATATATATAA-TATTAT
* *
1476961 ATATTATTAAAATAAAAATATAATATCT-T
1 ATATTATT-AAATATATATATAATAT-TAT
* *
1476990 ATATTATATTATTATA-ATATAATTGATTAT
1 ATATTAT-TAAATATATATATAA-T-ATTAT
* *
1477020 -T-TTATATAATATTAAAAATATAATATTAT
1 ATATTAT-TAA-A-TATATATATAATATTAT
1477049 ATTATTA-TAAATAT
1 A-TATTATTAAATAT
1477063 TAATAAATAT
Statistics
Matches: 103, Mismatches: 11, Indels: 33
0.70 0.07 0.22
Matches are distributed among these distances:
27 3 0.03
28 39 0.38
29 36 0.35
30 15 0.15
31 7 0.07
32 3 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
ATATTATTAAATATATATATAATATTAT
Found at i:1477043 original size:31 final size:30
Alignment explanation
Indices: 1476921--1477073 Score: 112
Period size: 28 Copynumber: 5.2 Consensus size: 30
1476911 TTAAATATAT
1476921 ATATAA-TATTATTCATTAT-TAAATATATAAAA
1 ATATAATTATTA-T-ATTATAT-AATAT-TAAAA
*
1476953 AT-T-ATTA-TATATTAT-TAA-AATAAAA
1 ATATAATTATTATATTATATAATATTAAAA
* *
1476978 ATATAATATCTTATATTATAT--TATT-ATA
1 ATATAAT-TATTATATTATATAATATTAAAA
*
1477006 ATATAATTGATTATTTTATATAATATTAAAA
1 ATATAATT-ATTATATTATATAATATTAAAA
1477037 ATATAA-TATTATATTATTATAAATATTAATAA
1 ATATAATTATTATATTA-TAT-AATATTAA-AA
1477069 ATATA
1 ATATA
1477074 TTTTAAATAT
Statistics
Matches: 99, Mismatches: 8, Indels: 28
0.73 0.06 0.21
Matches are distributed among these distances:
25 7 0.07
26 2 0.02
27 5 0.05
28 26 0.26
29 19 0.19
30 12 0.12
31 19 0.19
32 9 0.09
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
ATATAATTATTATATTATATAATATTAAAA
Found at i:1477064 original size:12 final size:12
Alignment explanation
Indices: 1477047--1477099 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
1477037 ATATAATATT
1477047 ATATTATTATAA
1 ATATTATTATAA
1477059 ATATTA--ATAA
1 ATATTATTATAA
*
1477069 ATA-TATTTTAA
1 ATATTATTATAA
*
1477080 ATATTTTTATAA
1 ATATTATTATAA
*
1477092 ATAATATT
1 ATATTATT
1477100 TTGATGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
9 2 0.06
10 7 0.21
11 6 0.18
12 18 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATATTATTATAA
Found at i:1477067 original size:59 final size:57
Alignment explanation
Indices: 1476904--1477075 Score: 158
Period size: 57 Copynumber: 3.0 Consensus size: 57
1476894 CTTTACTAAA
* * * *
1476904 ATATTATTTAAATATATATATAATATTAT-TCATTATTAAATATATAA-AAATTATTAT
1 ATATTATTAAAATAAAAATATAATATTATATTATTA-TAAATAT-TAATAAATTATTAT
* *
1476961 ATATTATTAAAATAAAAATATAATATCTTATATTA-TATTATTA-TAATATAATTGATTAT
1 ATATTATTAAAATAAAAATATAATA--TTATATTATTATAAATATTAATA-AATT-ATTAT
*
1477020 -T-TTATATAATATTAAAAATATAATATTATATTATTATAAATATTAATAAATATATT
1 ATATTAT-TAA-AATAAAAATATAATATTATATTATTATAAATATTAATAAAT-TATT
1477076 TTAAATATTT
Statistics
Matches: 95, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
56 3 0.03
57 35 0.37
58 24 0.25
59 31 0.33
60 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (57 bp):
ATATTATTAAAATAAAAATATAATATTATATTATTATAAATATTAATAAATTATTAT
Found at i:1477072 original size:22 final size:22
Alignment explanation
Indices: 1476946--1477084 Score: 69
Period size: 21 Copynumber: 6.5 Consensus size: 22
1476936 TTATTAAATA
* *
1476946 TATAAAAATTATTAT-ATATTAT
1 TATAAATATTAATATAATA-TAT
** *
1476968 TA-AAATAAAAATATAATATCT
1 TATAAATATTAATATAATATAT
* *
1476989 TATATTATATTATTATAATATAAT
1 TATA-AATATTAATATAATAT-AT
* *
1477013 TGAT-TAT-TTTATAT-A-ATAT
1 T-ATAAATATTAATATAATATAT
* *
1477032 TAAAAATA-TAATATTATATTAT
1 TATAAATATTAATATAATA-TAT
1477054 TATAAATATTAATA-AATATAT
1 TATAAATATTAATATAATATAT
*
1477075 TTTAAATATT
1 TATAAATATT
1477085 TTTATAAATA
Statistics
Matches: 88, Mismatches: 18, Indels: 23
0.68 0.14 0.18
Matches are distributed among these distances:
18 1 0.01
19 10 0.11
20 3 0.03
21 26 0.30
22 24 0.27
23 20 0.23
24 2 0.02
25 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (22 bp):
TATAAATATTAATATAATATAT
Found at i:1477073 original size:24 final size:22
Alignment explanation
Indices: 1477023--1477080 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
1477013 TGATTATTTT
*
1477023 ATATAATATTAAAAATATAATA
1 ATATATTATTAAAAATATAATA
* *
1477045 TTATATTATTATAAATATTAATAA
1 ATATATTATTAAAAATA-TAAT-A
1477069 ATATATT-TTAAA
1 ATATATTATTAAA
1477081 TATTTTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 14 0.48
23 8 0.28
24 7 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATATTATTAAAAATATAATA
Found at i:1481796 original size:13 final size:13
Alignment explanation
Indices: 1481778--1481837 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
1481768 AACTGCAAAA
*
1481778 AAATAAAATATTT
1 AAATAAAATAATT
1481791 AAATAAAATAATT
1 AAATAAAATAATT
1481804 -AA-AAAATCAGA-T
1 AAATAAAAT-A-ATT
*
1481816 -AATACAATAATT
1 AAATAAAATAATT
1481828 AAATAAAATA
1 AAATAAAATA
1481838 CTAACAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
11 6 0.15
12 8 0.21
13 25 0.64
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:1490256 original size:214 final size:214
Alignment explanation
Indices: 1489605--1490314 Score: 1044
Period size: 208 Copynumber: 3.3 Consensus size: 214
1489595 ATTTTATGAA
* * * *
1489605 AAATACAAATTTAAGAATTAAATTGAACAAATATGAAATTACAAATT-AAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
* ** *
1489669 ACAACATACATTGATGAATGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
66 ACAA-ACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
* *
1489734 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGTCAATTAAAGAATATAAATAAATAATAA
130 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAA-AATATAAATAAGTAATAA
1489799 GTATGAGTCAATTTCAGATGC
194 GTATGAGTCAATTTCAGATGC
** * *
1489820 AAATATAATTTGGAGGACTAAATTAAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
*
1489885 AC-AACACA---A--AGGGATCAAATCGAAATAATTTTAAATTGTAAGGTTGAAATTAATAC-AA
66 ACAAACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAA
* * *
1489943 AAAGTACTAAATTATACCCACTTAAAAAGCTGTGGGCCAATTAAAAAATATAAATAAGTAATAAG
131 AAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATT-AAAAATATAAATAAGTAATAAG
** *
1490008 TATTTGTCAATTTCAGCTGC
195 TATGAGTCAATTTCAGATGC
* *
1490028 AAATATATTTTTAAGGATTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
* *
1490093 ACAATACACATTGATGAGGGATCAAATCGAAATAATTTTAAAGTGTGAGGTTTAAATTAATACAA
66 ACAA-ACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
*
1490158 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATT-AAAATAGAAATAAGTAATAAG
130 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAATATAAATAAGTAATAAG
* *
1490222 TATGGGTCAATTTCATATGC
195 TATGAGTCAATTTCAGATGC
* *
1490242 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAACTACAAATTAAAATTAAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1490307 AC-AACACA
66 ACAAACACA
1490315 AAAGGATGAA
Statistics
Matches: 443, Mismatches: 42, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
208 136 0.31
209 47 0.11
210 5 0.01
211 1 0.00
212 5 0.01
213 2 0.00
214 103 0.23
215 84 0.19
216 60 0.14
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.30
Consensus pattern (214 bp):
AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
ACAAACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAA
AAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAATATAAATAAGTAATAAGT
ATGAGTCAATTTCAGATGC
Found at i:1490411 original size:2 final size:2
Alignment explanation
Indices: 1490406--1490680 Score: 75
Period size: 2 Copynumber: 140.5 Consensus size: 2
1490396 AAATATAATT
* * *
1490406 TA TA TA TA TA TA TA TA -A TA TA -A GTT TA TA TA TA AA CTA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA
* **
1490448 TA TA T- TA TA AA CTA TA TA -A T- TA T- TA TA -A GC 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
* * * * *
1490486 TA AA T- TA TG TT TA TA TGA -A CTA TA TA TA TA AA CTA TG TA TA
1 TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA TA TA -TA TA TA TA
* * * * *
1490527 TA AA CTA TA TA TA TA TA TA TA TG TA TA AA CTA TA -A AA AA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
1490570 TA TA TA TA GT- TT TA TA AA CTA TA -A TT TA TA T- TA -A 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
* * * * *
1490610 TA TA TA TA TG TA TA AA CTA TA TA -A AA TA TA TA GTT TA TA AA T-
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA
*
1490652 TA TA -A TT TA TA T- TA -A TA TA GTA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T
1490681 GTATGTATAA
Statistics
Matches: 198, Mismatches: 43, Indels: 64
0.65 0.14 0.21
Matches are distributed among these distances:
1 19 0.10
2 166 0.84
3 13 0.07
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1490517 original size:28 final size:27
Alignment explanation
Indices: 1490471--1490550 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 27
1490461 ATATAATTAT
*
1490471 TATAAGCTATATATATAAATTATGTTTA
1 TATAAACTATATATATAAATTATG-TTA
* *
1490499 TATGAACTATATATATAAACTATG-TA
1 TATAAACTATATATATAAATTATGTTA
*
1490525 TATAAACTATATATATATATATATGT
1 TATAAACTATATATATAAAT-TATGT
1490551 ATAAACTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
26 19 0.43
27 4 0.09
28 21 0.48
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (27 bp):
TATAAACTATATATATAAATTATGTTA
Found at i:1490557 original size:38 final size:36
Alignment explanation
Indices: 1490536--1490698 Score: 111
Period size: 32 Copynumber: 4.8 Consensus size: 36
1490526 ATAAACTATA
1490536 TATATATATATATGTATAAACTA-TA-A-AAA-ATA
1 TATATATATATATGTATAAACTATTATATAAATATA
* * * *
1490568 TATATATATAGT-TTTATAAACTATAATTTATATTAATA
1 TATATATATA-TATGTATAAACTATTATATA-AAT-ATA
1490606 TATATATATATATGTATAAACTA-TATA-AAATATA
1 TATATATATATATGTATAAACTATTATATAAATATA
* *
1490640 TAGT-T-TATAAAT-TAT-AA-T-TTATATTAATATA
1 TA-TATATATATATGTATAAACTATTATATAAATATA
* *
1490671 GTATATATATGTATGTAT-AACTAATATA
1 -TATATATATATATGTATAAACTATTATA
1490699 AGTAATCTAT
Statistics
Matches: 101, Mismatches: 13, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
30 5 0.05
31 9 0.09
32 26 0.26
33 13 0.13
34 11 0.11
35 5 0.05
36 6 0.06
37 3 0.03
38 23 0.23
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.45
Consensus pattern (36 bp):
TATATATATATATGTATAAACTATTATATAAATATA
Found at i:1490561 original size:32 final size:32
Alignment explanation
Indices: 1490525--1490656 Score: 119
Period size: 32 Copynumber: 4.2 Consensus size: 32
1490515 AAACTATGTA
*
1490525 TATAAACTATATATATATATATATGTATAAAC
1 TATAAACTATATATATATATATATTTATAAAC
**
1490557 TATAAAAAATATATATATATAGT-TTTATAAAC
1 TATAAACTATATATATATATA-TATTTATAAAC
** * **
1490589 TATAATTTATAT-TA-ATATATATATATATATG
1 TATAAACTATATATATATATATATTTATA-AAC
* *
1490620 TATAAACTATATA-AAATATATAGTTTATAAAT
1 TATAAACTATATATATATATATA-TTTATAAAC
1490652 TATAA
1 TATAA
1490657 TTTATATTAA
Statistics
Matches: 80, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
29 1 0.01
30 10 0.12
31 14 0.17
32 49 0.61
33 6 0.08
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (32 bp):
TATAAACTATATATATATATATATTTATAAAC
Found at i:1490710 original size:70 final size:67
Alignment explanation
Indices: 1490523--1490710 Score: 215
Period size: 63 Copynumber: 2.7 Consensus size: 67
1490513 ATAAACTATG
* *
1490523 TATATAAACTATATATATATATATATGTATAAACTATAAAAAATATATATATATAGTTTTATAAA
1 TATATTAA-TATATATATATAT-TATGTATAAACTAT--ATAATA-AT-TATATAGTTTTATAAA
1490588 CTATAATT
60 CTATAATT
*
1490596 TATATTAATATATATATATA-TATGTATAAACTATATAA-AA-TATATAG-TTTATAAATTATAA
1 TATATTAATATATATATATATTATGTATAAACTATATAATAATTATATAGTTTTATAAACTATAA
1490657 TT
66 TT
1490659 TATATTAATATAGTATATATATGTATGTAT-AACTAATATAAGTAATCTATAT
1 TATATTAATATA-TATATATAT-TATGTATAAACT-ATATAA-TAAT-TATAT
1490711 GCATAAACTA
Statistics
Matches: 104, Mismatches: 3, Indels: 19
0.83 0.02 0.15
Matches are distributed among these distances:
63 27 0.26
64 15 0.14
65 4 0.04
66 14 0.13
67 1 0.01
68 5 0.05
70 19 0.18
72 12 0.12
73 7 0.07
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.44
Consensus pattern (67 bp):
TATATTAATATATATATATATTATGTATAAACTATATAATAATTATATAGTTTTATAAACTATAA
TT
Found at i:1490760 original size:7 final size:7
Alignment explanation
Indices: 1490750--1490822 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
1490740 TAATTTATAA
1490750 AAACCCT
1 AAACCCT
1490757 AAA-CCT
1 AAACCCT
*
1490763 TAACTCCT
1 AAAC-CCT
*
1490771 AAACTCT
1 AAACCCT
*
1490778 AAATCCT
1 AAACCCT
1490785 AAACCCT
1 AAACCCT
1490792 -AACTCCT
1 AAAC-CCT
**
1490799 AAACTAT
1 AAACCCT
**
1490806 AAACTAT
1 AAACCCT
1490813 AAACCCT
1 AAACCCT
1490820 AAA
1 AAA
1490823 TACTATGCAT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
6 8 0.15
7 35 0.67
8 9 0.17
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (7 bp):
AAACCCT
Found at i:1490794 original size:28 final size:27
Alignment explanation
Indices: 1490754--1490821 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 27
1490744 TTATAAAAAC
* *
1490754 CCTAAACCTTAACTCCTAAACTCTAAA
1 CCTAAACCCTAACTCCTAAACTATAAA
1490781 TCCTAAACCCTAACTCCTAAACTATAAA
1 -CCTAAACCCTAACTCCTAAACTATAAA
*
1490809 CTATAAACCCTAA
1 C-CTAAACCCTAA
1490822 ATACTATGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (27 bp):
CCTAAACCCTAACTCCTAAACTATAAA
Found at i:1490822 original size:14 final size:15
Alignment explanation
Indices: 1490750--1490810 Score: 67
Period size: 14 Copynumber: 4.3 Consensus size: 15
1490740 TAATTTATAA
1490750 AAAC-CCTAAAC-CT
1 AAACTCCTAAACTCT
*
1490763 TAACTCCTAAACTCT
1 AAACTCCTAAACTCT
*
1490778 AAA-TCCTAAACCCT
1 AAACTCCTAAACTCT
*
1490792 -AACTCCTAAACTAT
1 AAACTCCTAAACTCT
1490806 AAACT
1 AAACT
1490811 ATAAACCCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 5 0.13
14 26 0.67
15 8 0.21
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.25
Consensus pattern (15 bp):
AAACTCCTAAACTCT
Found at i:1490893 original size:43 final size:44
Alignment explanation
Indices: 1490845--1490927 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 44
1490835 ACAATAGTTA
*
1490845 ATATATGTAACCTATAGTATATATATATATATA-TATGTAAACT
1 ATATATGTAACCTATAGTATATATATATATAAACTATGTAAACT
* * *
1490888 ATATATGTAACTTATAGTATATGTATGTATAAACTATGTA
1 ATATATGTAACCTATAGTATATATATATATAAACTATGTA
1490928 TAGTATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 29 0.83
44 6 0.17
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (44 bp):
ATATATGTAACCTATAGTATATATATATATAAACTATGTAAACT
Found at i:1490984 original size:26 final size:26
Alignment explanation
Indices: 1490900--1490990 Score: 103
Period size: 26 Copynumber: 3.4 Consensus size: 26
1490890 ATATGTAACT
1490900 TATAGTATATGTATGTATAAACTATG
1 TATAGTATATGTATGTATAAACTATG
** **
1490926 TATAGTATATGTAAACTATATATGTAACT-
1 TATAGTATATGT-ATGTATA-AACT-A-TG
1490955 TATAGTATATGTATGTATAAACTATG
1 TATAGTATATGTATGTATAAACTATG
1490981 TATAGTATAT
1 TATAGTATAT
1490991 ATAAACTATA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
25 1 0.02
26 23 0.44
27 7 0.13
28 7 0.13
29 13 0.25
30 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (26 bp):
TATAGTATATGTATGTATAAACTATG
Found at i:1490988 original size:20 final size:20
Alignment explanation
Indices: 1490864--1491058 Score: 96
Period size: 20 Copynumber: 9.9 Consensus size: 20
1490854 ACCTATAGTA
*
1490864 TATA-TATATATATA-TATG
1 TATAGTATATATAAACTATG
* * *
1490882 TAAACTATATATGTAACTTATAG
1 TATAGTATATAT-AAAC-TAT-G
*
1490905 TATATGTATGTATAAACTATG
1 TATA-GTATATATAAACTATG
* *
1490926 TATAGTATATGTAAACTATA
1 TATAGTATATATAAACTATG
1490946 TAT-GTA-ACT-T--A-TA-G
1 TATAGTATA-TATAAACTATG
*
1490960 TATATGTATGTATAAACTATG
1 TATA-GTATATATAAACTATG
1490981 TATAGTATATATAAAC----
1 TATAGTATATATAAACTATG
*
1490997 TATA-TATATATAACCTATAG
1 TATAGTATATATAAACTAT-G
*
1491017 TATATGTATATATACAATCTATT
1 TATA-GTATATATA-AA-CTATG
1491040 TATATGT-TATATAAACTAT
1 TATA-GTATATATAAACTAT
1491059 ATATGTAACC
Statistics
Matches: 137, Mismatches: 16, Indels: 46
0.69 0.08 0.23
Matches are distributed among these distances:
14 3 0.02
15 12 0.09
16 9 0.07
17 1 0.01
18 5 0.04
19 12 0.09
20 38 0.28
21 12 0.09
22 20 0.15
23 15 0.11
24 10 0.07
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (20 bp):
TATAGTATATATAAACTATG
Found at i:1491006 original size:15 final size:16
Alignment explanation
Indices: 1490981--1491021 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
1490971 ATAAACTATG
1490981 TATAGTATATATAAAC
1 TATAGTATATATAAAC
*
1490997 TATA-TATATATAACC
1 TATAGTATATATAAAC
1491012 TATAGTATAT
1 TATAGTATAT
1491022 GTATATATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (16 bp):
TATAGTATATATAAAC
Found at i:1491009 original size:35 final size:39
Alignment explanation
Indices: 1490970--1491044 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 39
1490960 TATATGTATG
1490970 TATAAACTAT-GTATA-GTATATATA-AA-CTATATATA
1 TATAAACTATAGTATATGTATATATACAATCTATATATA
* *
1491005 TATAACCTATAGTATATGTATATATACAATCTATTTATA
1 TATAAACTATAGTATATGTATATATACAATCTATATATA
1491044 T
1 T
1491045 GTTATATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 9 0.26
36 5 0.15
37 9 0.26
38 2 0.06
39 9 0.26
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (39 bp):
TATAAACTATAGTATATGTATATATACAATCTATATATA
Found at i:1491019 original size:57 final size:55
Alignment explanation
Indices: 1490872--1491074 Score: 284
Period size: 55 Copynumber: 3.6 Consensus size: 55
1490862 TATATATATA
* *
1490872 TATA-TATATGTAAACTATATATGTAACTTATAGTATATGTATGTATAAACTATG
1 TATAGTATATATAAACTATATATGTAACCTATAGTATATGTATGTATAAACTATG
* *
1490926 TATAGTATATGTAAACTATATATGTAACTTATAGTATATGTATGTATAAACTATG
1 TATAGTATATATAAACTATATATGTAACCTATAGTATATGTATGTATAAACTATG
* * *
1490981 TATAGTATATATAAACTATATATATATAACCTATAGTATATGTATATATACAATCTATT
1 TATAGTATATATAAAC--TATATATGTAACCTATAGTATATGTATGTATA-AA-CTATG
1491040 TATATGT-TATATAAACTATATATGTAACCTATAGT
1 TATA-GTATATATAAACTATATATGTAACCTATAGT
1491075 TTATAAACAA
Statistics
Matches: 137, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
54 4 0.03
55 65 0.47
57 47 0.34
58 2 0.01
59 17 0.12
60 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.42
Consensus pattern (55 bp):
TATAGTATATATAAACTATATATGTAACCTATAGTATATGTATGTATAAACTATG
Found at i:1491026 original size:24 final size:22
Alignment explanation
Indices: 1491001--1491059 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
1490991 ATAAACTATA
*
1491001 TATATATAACCTATAGTATATG
1 TATATATAAACTATAGTATATG
*
1491023 TATATATACAATCTAT-TTATATG
1 TATATATA-AA-CTATAGTATATG
1491046 T-TATATAAACTATA
1 TATATATAAACTATA
1491060 TATGTAACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 4 0.12
21 2 0.06
22 14 0.44
23 8 0.25
24 4 0.12
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (22 bp):
TATATATAAACTATAGTATATG
Found at i:1491093 original size:21 final size:20
Alignment explanation
Indices: 1491069--1491159 Score: 58
Period size: 21 Copynumber: 4.3 Consensus size: 20
1491059 ATATGTAACC
1491069 TATAGTTTATAAACAATAGTT
1 TATA-TTTATAAACAATAGTT
**
1491090 TATA-TTAGTGTACTATATAGTT
1 TATATTTA-TAAAC-A-ATAGTT
* * * *
1491112 TATACCTTATAACCTATAGTA
1 TATA-TTTATAAACAATAGTT
*
1491133 TATAATTTATAAACTATAGTT
1 TAT-ATTTATAAACAATAGTT
1491154 TATATT
1 TATATT
1491160 AATGTATTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
19 3 0.06
20 6 0.11
21 29 0.54
22 11 0.20
23 2 0.04
24 3 0.06
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (20 bp):
TATATTTATAAACAATAGTT
Found at i:1491255 original size:65 final size:64
Alignment explanation
Indices: 1491176--1491381 Score: 197
Period size: 65 Copynumber: 3.2 Consensus size: 64
1491166 TTATATAGTT
* * *
1491176 TATATTAATGTTAATTATCTTAACTATAATTTATATTAATATAGTATATAGTTTATAAACTATAC
1 TATATTAATATTAATTAT-TTAACTATAATTTATATTAATATAATATATAATTTATAAACTATAC
* * * *
1491241 TATATTAATATTAATTATATTAATTATAGTTTATA--AATTATACTATATAATTTAT-AACAATA
1 TATATTAATATTAATTAT-TTAACTATAATTTATATTAA-TATAATATATAATTTATAAACTATA
*
1491303 GTG
64 --C
* * *
1491306 TATATTAATATTAATT-TTATAGACTATATTTTATATTAATATTAAT-TACAAATTATAAACTAT
1 TATATTAATATTAATTATT-TA-ACTATAATTTATATTAATA-TAATATATAATTTATAAACTAT
*
1491369 AT
63 AC
1491371 TATATTAATAT
1 TATATTAATAT
1491382 AAGTTAATAT
Statistics
Matches: 117, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
63 9 0.08
64 18 0.15
65 69 0.59
66 10 0.09
67 11 0.09
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (64 bp):
TATATTAATATTAATTATTTAACTATAATTTATATTAATATAATATATAATTTATAAACTATAC
Found at i:1491272 original size:43 final size:40
Alignment explanation
Indices: 1491198--1491288 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 40
1491188 AATTATCTTA
*
1491198 ACTATAATTTATATTAATATAGTATATAGTTTATAAACTAT
1 ACTAT-ATTAATATTAATATAGTATATAGTTTATAAACTAT
* *
1491239 ACTATATTAATATTAATTATATTAATTATAGTTTATAAATTAT
1 ACTATATTAATATTAA-TATAGT-A-TATAGTTTATAAACTAT
1491282 ACTATAT
1 ACTATAT
1491289 AATTTATAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 10 0.23
41 10 0.23
42 1 0.02
43 23 0.52
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.48
Consensus pattern (40 bp):
ACTATATTAATATTAATATAGTATATAGTTTATAAACTAT
Found at i:1491405 original size:130 final size:130
Alignment explanation
Indices: 1491170--1491408 Score: 301
Period size: 130 Copynumber: 1.8 Consensus size: 130
1491160 AATGTATTAT
* * * * **
1491170 ATAGTTTATATTAATGTTAATTATCTTAACTATAATTTATATTAATATAGTATATAGTTTATAAA
1 ATAGTGTATATTAATATTAATTATCTTAACTATAATTTATATTAATATAATATACAAATTATAAA
*
1491235 CTATACTATATTAATATTAATTATATTAATTATAGTTTATAAATTATACTATATAATTTATAACA
66 CTATACTATATTAATATTAATTATATTAATTATAGATTATAAATTATACTATATAATTTATAACA
*
1491300 ATAGTGTATATTAATATTAATT-T-TATAGACTATATTTTATATTAATATTAAT-TACAAATTAT
1 ATAGTGTATATTAATATTAATTATCT-TA-ACTATAATTTATATTAATA-TAATATACAAATTAT
*
1491362 AAACTATATTATATTAATA-TAAGTTAATATTAA-TATTA-ATTATAAAT
63 AAACTATACTATATTAATATTAA-TT-ATATTAATTA-TAGATTATAAAT
1491409 AGTTTATTAA
Statistics
Matches: 94, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
128 1 0.01
129 6 0.06
130 75 0.80
131 12 0.13
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (130 bp):
ATAGTGTATATTAATATTAATTATCTTAACTATAATTTATATTAATATAATATACAAATTATAAA
CTATACTATATTAATATTAATTATATTAATTATAGATTATAAATTATACTATATAATTTATAACA
Found at i:1491423 original size:40 final size:44
Alignment explanation
Indices: 1491341--1491423 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 44
1491331 ATATTTTATA
1491341 TTAATATTAATTACAAATTATAAACTATATTATATTAATATAAG
1 TTAATATTAATTACAAATTATAAACTATATTATATTAATATAAG
** *
1491385 TTAATATTAA-TATTAATTATAAA-TA-GTT-TATTAATATAA
1 TTAATATTAATTACAAATTATAAACTATATTATATTAATATAA
1491424 ATTTAATAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 11 0.31
41 2 0.06
42 2 0.06
43 11 0.31
44 10 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (44 bp):
TTAATATTAATTACAAATTATAAACTATATTATATTAATATAAG
Found at i:1505070 original size:2 final size:2
Alignment explanation
Indices: 1505063--1505091 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1505053 TAGATCAATA
1505063 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1505092 GGGTTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1510969 original size:14 final size:14
Alignment explanation
Indices: 1510950--1510978 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1510940 TATTCCCATC
1510950 TACCAGGGGACACA
1 TACCAGGGGACACA
1510964 TACCAGGGGACACA
1 TACCAGGGGACACA
1510978 T
1 T
1510979 CTTGATGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.28, G:0.28, T:0.10
Consensus pattern (14 bp):
TACCAGGGGACACA
Found at i:1511267 original size:23 final size:23
Alignment explanation
Indices: 1511220--1511267 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1511210 AATAAAATAT
* * **
1511220 TAGGTAGCGTTTATATAATGTAA
1 TAGGTAACGCTTATATAATAAAA
1511243 TAGGTAACGCTTATATAATAAAA
1 TAGGTAACGCTTATATAATAAAA
1511266 TA
1 TA
1511268 AGTTAATTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATAAAA
Found at i:1511345 original size:71 final size:71
Alignment explanation
Indices: 1511268--1511507 Score: 169
Period size: 71 Copynumber: 3.2 Consensus size: 71
1511258 TAATAAAATA
1511268 AGTTAATTACTTAATTTGTTATTACAATATATTAGGTAAACGCCTAAAATGTTATCAAGGATAAT
1 AGTTAATTACTTAATTTGTTATTACAATATATTAGGTAAACGCCTAAAATGTTATCAAGGATAAT
1511333 ATAACC
66 ATAACC
* * * ** * * *
1511339 AGTTAATTACTAGAAATATTATTAATCACAATAACATATTAGGT-AGTGCTTATATAACGTAAT-
1 AGTTAATTACT--TAAT-TTGTT-ATTACAAT---ATATTAGGTAAACGCCTA-A-AATGTTATC
**
1511402 AGGTAGCGATTATATAATAAAAT
57 A---AG-GA-TA-AT-AT-AACC
* * *
1511425 ATGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAATGATAA
1 A-GTTAATTACTTAATTTGTTATTACAATATATTAGGTAAACGCCTAAAATGTTATCAAGGATAA
*
1511490 CATAACC
65 TATAACC
*
1511497 GGTTAATTACT
1 AGTTAATTACT
1511508 AGAAACATTA
Statistics
Matches: 124, Mismatches: 25, Indels: 40
0.66 0.13 0.21
Matches are distributed among these distances:
71 21 0.17
72 2 0.02
73 5 0.04
74 5 0.04
75 9 0.07
76 2 0.02
77 6 0.05
78 11 0.09
79 11 0.09
80 11 0.09
81 7 0.06
82 2 0.02
83 8 0.06
84 6 0.05
85 5 0.04
86 3 0.02
87 10 0.08
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (71 bp):
AGTTAATTACTTAATTTGTTATTACAATATATTAGGTAAACGCCTAAAATGTTATCAAGGATAAT
ATAACC
Found at i:1511383 original size:78 final size:78
Alignment explanation
Indices: 1511296--1511542 Score: 179
Period size: 78 Copynumber: 3.1 Consensus size: 78
1511286 TTATTACAAT
1511296 ATATTAGGTAAACGCCTAAAATGTTATCAAGGATAATATAACCAGTTAATTACTAGAAATATTAT
1 ATATTAGGTAAACGCCTAAAATGTTATCAAGGATAATATAACCAGTTAATTACTAGAAATATTAT
1511361 TAATCACAATAAC
66 TAATCACAATAAC
** * * * **
1511374 ATATTAGGT-AGTGCTTATATAACGTAAT-AGGTAGCGATTATATAATAAAATATGTTAATTACT
1 ATATTAGGTAAACGCCTA-A-AATGTTATCA---AG-GA-TA-AT-AT-AACCA-GTTAATTACT
* * *
1511437 --TAAT-TTGTT-ATTAC---AAC
55 AGAAATATTATTAATCACAATAAC
* * * * *
1511454 ATATTAGGTAAACGCCTAAAATGTTACCAATGATAACATAACCGGTTAATTACTAGAAACATTAT
1 ATATTAGGTAAACGCCTAAAATGTTATCAAGGATAATATAACCAGTTAATTACTAGAAATATTAT
* *
1511519 CAAGCACAATAAC
66 TAATCACAATAAC
1511532 ATATTAGGTAA
1 ATATTAGGTAA
1511543 CGTTTATATA
Statistics
Matches: 122, Mismatches: 27, Indels: 40
0.65 0.14 0.21
Matches are distributed among these distances:
71 10 0.08
72 2 0.02
73 4 0.03
74 4 0.03
75 5 0.04
76 2 0.02
77 6 0.05
78 25 0.20
79 11 0.09
80 14 0.11
81 7 0.06
82 2 0.02
83 6 0.05
84 6 0.05
85 5 0.04
86 3 0.02
87 10 0.08
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (78 bp):
ATATTAGGTAAACGCCTAAAATGTTATCAAGGATAATATAACCAGTTAATTACTAGAAATATTAT
TAATCACAATAAC
Found at i:1511404 original size:23 final size:23
Alignment explanation
Indices: 1511369--1511418 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1511359 ATTAATCACA
* * *
1511369 ATAACATATTAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGATTAT
*
1511392 ATAACGTAATAGGTAGCGATTAT
1 ATAACATAATAGGTAGCGATTAT
1511415 ATAA
1 ATAA
1511419 TAAAATATGT
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:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGATTAT
Found at i:1511489 original size:158 final size:158
Alignment explanation
Indices: 1511193--1512028 Score: 1276
Period size: 158 Copynumber: 5.3 Consensus size: 158
1511183 CATTTAATCG
* ** * * * *
1511193 GAAATATTATCAAATACAATAAAATATTAGGTAGCGTTTATATAATGTAATAGGTAACGCTTATA
1 GAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATA
* *
1511258 TAATAAAATAAGTTAATTACTTAATTTGTTATTACAATATATTAGGTAAACGCCTAAAATGTTAT
66 TAATAAAATAAGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTAC
* *
1511323 CAAGGATAATATAACCAGTTAATTACTA
131 CAAGGATAACATAACCGGTTAATTACTA
* * * * *
1511351 GAAATATTATTAATCACAATAACATATTAGGTAGTGCTTATATAACGTAATAGGTAGCGATTATA
1 GAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATA
*
1511416 TAATAAAATATGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTAC
66 TAATAAAATAAGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTAC
*
1511481 CAATGATAACATAACCGGTTAATTACTA
131 CAAGGATAACATAACCGGTTAATTACTA
* *
1511509 GAAACATTATCAAGCACAATAACATATTAGGTAACGTTTATATAACGTAATAGGTAGCGCTTATA
1 GAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATA
* * *
1511574 TAATAAAATATGTTAATTATTTAATTTGTTATTACAACATATTAGGTAACCGCCTAAAATGTTAC
66 TAATAAAATAAGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTAC
*
1511639 CAAGGATAACATAACCGATTAATTACTA
131 CAAGGATAACATAACCGGTTAATTACTA
* * * *
1511667 GAAGCATTATTAAACACAATAACATATTAGGTAGCGCTTATATAACGTAATATGTAGCGCTTATA
1 GAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATA
* * *
1511732 TAATAAAATAAATTAATTATTTAATTTGTTATTACAACATATTAGGTAAACGCCTAACATGTTAC
66 TAATAAAATAAGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTAC
* * *
1511797 TAAGGATGACATAACCGGTTAATTACTG
131 CAAGGATAACATAACCGGTTAATTACTA
* * *
1511825 GAAACATTATCAAGCAAAATAACATATTAGGTAACGCTTATATAACGTAATAGATAGCGCTTATA
1 GAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATA
* * *
1511890 TAATAAAATAGGTTAATTACTTAATTTGTTATTACAGCATATTAGGTAAACGCTTAAAATGTTAC
66 TAATAAAATAAGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTAC
* *
1511955 CAAGGATAACATAACCGGTTAATTATTG
131 CAAGGATAACATAACCGGTTAATTACTA
* *
1511983 GAAACATTATCAAGCATAATAACATATTAGGTAGCGCTGATATAAC
1 GAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAAC
1512029 AAAATAAGTA
Statistics
Matches: 619, Mismatches: 59, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
158 619 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (158 bp):
GAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATA
TAATAAAATAAGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTAC
CAAGGATAACATAACCGGTTAATTACTA
Found at i:1511553 original size:23 final size:23
Alignment explanation
Indices: 1511527--1511576 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1511517 ATCAAGCACA
* *
1511527 ATAACATATTAGGTAACGTTTAT
1 ATAACATAATAGGTAACGCTTAT
* *
1511550 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAACGCTTAT
1511573 ATAA
1 ATAA
1511577 TAAAATATGT
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:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAACGCTTAT
Found at i:1511711 original size:23 final size:23
Alignment explanation
Indices: 1511685--1511734 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
1511675 ATTAAACACA
*
1511685 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
1511708 ATAACGTAATATGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1511731 ATAA
1 ATAA
1511735 TAAAATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1511741 original size:23 final size:23
Alignment explanation
Indices: 1511697--1511741 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1511687 AACATATTAG
**
1511697 GTAGCGCTTATATAACGTAATAT
1 GTAGCGCTTATATAACAAAATAT
*
1511720 GTAGCGCTTATATAATAAAATA
1 GTAGCGCTTATATAACAAAATA
1511742 AATTAATTAT
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:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (23 bp):
GTAGCGCTTATATAACAAAATAT
Found at i:1511869 original size:23 final size:23
Alignment explanation
Indices: 1511843--1511892 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1511833 ATCAAGCAAA
* *
1511843 ATAACATATTAGGTAACGCTTAT
1 ATAACATAATAGATAACGCTTAT
* *
1511866 ATAACGTAATAGATAGCGCTTAT
1 ATAACATAATAGATAACGCTTAT
1511889 ATAA
1 ATAA
1511893 TAAAATAGGT
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:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGATAACGCTTAT
Found at i:1512332 original size:72 final size:74
Alignment explanation
Indices: 1512107--1512422 Score: 428
Period size: 73 Copynumber: 4.3 Consensus size: 74
1512097 AAAATTTAAA
* * ** **
1512107 CTACTTATTACATTAAAATACTTACC-AGTTTTTTTGAAGGTTGTTAATAATGTAAATTGT-AAA
1 CTACCTATTACATTAAAATACCTACCGA-TTTTTTTGAAGGTTACTAATAATGTAAACGGTAAAA
1512170 AAAATAGGCG
65 AAAATAGGCG
* *
1512180 CTACCTATTACATTAAAATACCTACCGATTTTTTTGAATGTTGCTAATAATGTAAACGGTAAAAA
1 CTACCTATTACATTAAAATACCTACCGATTTTTTTGAAGGTTACTAATAATGTAAACGGTAAAAA
*
1512245 AAATA-GTG
66 AAATAGGCG
*
1512253 CTACCTATTACATTAAAATACCTACCGATTTTTTTGAAGATTACTAATAATGTAAACGGT-AAAA
1 CTACCTATTACATTAAAATACCTACCGATTTTTTTGAAGGTTACTAATAATGTAAACGGTAAAAA
*
1512317 AAATA-GTG
66 AAATAGGCG
* * * *
1512325 TTACCTATTACATTAAAATACTTATCGGTTTTTTT-AAGGTTACTAATAATGTAAACGGTAAAAA
1 CTACCTATTACATTAAAATACCTACCGATTTTTTTGAAGGTTACTAATAATGTAAACGGT-AAAA
1512389 AAAATAGGCG
65 AAAATAGGCG
*
1512399 CTACCTATTACATTAAACTACCTA
1 CTACCTATTACATTAAAATACCTA
1512423 TTAGATATGT
Statistics
Matches: 219, Mismatches: 19, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
71 23 0.11
72 43 0.20
73 120 0.55
74 33 0.15
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (74 bp):
CTACCTATTACATTAAAATACCTACCGATTTTTTTGAAGGTTACTAATAATGTAAACGGTAAAAA
AAATAGGCG
Found at i:1512646 original size:21 final size:21
Alignment explanation
Indices: 1512620--1512675 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
1512610 TATGTTGAAA
1512620 GTATCGATACTTTATAAAAAC
1 GTATCGATACTTTATAAAAAC
1512641 GTATCGATACTTTATAAAAAC
1 GTATCGATACTTTATAAAAAC
1512662 GTATCGATACTTTA
1 GTATCGATACTTTA
1512676 CAATATAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (21 bp):
GTATCGATACTTTATAAAAAC
Found at i:1512646 original size:132 final size:134
Alignment explanation
Indices: 1512509--1512789 Score: 424
Period size: 133 Copynumber: 2.1 Consensus size: 134
1512499 CGCCTATAAA
*
1512509 GTATCGATACTTTATAAAAATATATCGATACTTTACAATATAACAGGT-AAAATATGACAAAACC
1 GTATCGATACTTTATAAAAACATATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACC
* * * *
1512573 AGTTTCATTATGAA-AAAACGGGTAAAGAGTTACCTGATATGTTGAAAGTATCGATAC-TTTATA
66 AGTTTCATTAT-AACAAAACCGATAAAGAGATACATGATATGTTGAAAGTATCGATACTTTTATA
1512636 AAAAC
130 AAAAC
* * *
1512641 GTATCGATACTTTATAAAAACGTATCGATACTTTACAATATAATATGTAAAAATATGACAAAACC
1 GTATCGATACTTTATAAAAACATATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACC
* *
1512706 ATTTTCATTATAACAAAACCGATAAAGAGATACATGATATGTTGAAAGTATCGATCCTTTTTATA
66 AGTTTCATTATAACAAAACCGATAAAGAGATACATGATATGTTGAAAGTATCGATAC-TTTTATA
*
1512771 AAAAT
130 AAAAC
1512776 GTATCGATACTTTA
1 GTATCGATACTTTA
1512790 CAATATAACA
Statistics
Matches: 134, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
132 46 0.34
133 64 0.48
135 24 0.18
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (134 bp):
GTATCGATACTTTATAAAAACATATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACC
AGTTTCATTATAACAAAACCGATAAAGAGATACATGATATGTTGAAAGTATCGATACTTTTATAA
AAAC
Found at i:1512788 original size:114 final size:114
Alignment explanation
Indices: 1512651--1512933 Score: 467
Period size: 114 Copynumber: 2.5 Consensus size: 114
1512641 GTATCGATAC
* * *
1512651 TTTATAAAAACGTATCGATACTTTACAATATAATATGTAAAAATATGACAAAACCATTTTCATTA
1 TTTATAAAAATGTATCGATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTA
*
1512716 TAACAAAACCGATAAAGAGATACATGATATGTTGAAAGTATCGATCCTT
66 TAACAAAACCGATAAAGAGATACATGATATGTTGAAAGTATCAATCCTT
1512765 TTTATAAAAATGTATCGATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTA
1 TTTATAAAAATGTATCGATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTA
* * * * *
1512830 TGATAAAACCGATAAAGTGTTACCTGATATGTTGAAAGTATCAATCCTT
66 TAACAAAACCGATAAAGAGATACATGATATGTTGAAAGTATCAATCCTT
**
1512879 TTTATAAAAATGTATCGATACTTTACAATATAACGGGTAAAAATATGACAAAACC
1 TTTATAAAAATGTATCGATACTTTACAATATAACATGTAAAAATATGACAAAACC
1512934 GGTAAAGAGC
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 158 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (114 bp):
TTTATAAAAATGTATCGATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTA
TAACAAAACCGATAAAGAGATACATGATATGTTGAAAGTATCAATCCTT
Found at i:1513884 original size:21 final size:21
Alignment explanation
Indices: 1513860--1513909 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
1513850 ATAAGTTTTA
1513860 AAAATTTGATGGTCAAAGTAG
1 AAAATTTGATGGTCAAAGTAG
*
1513881 AAAATTTGATGGTCAAAGTAT
1 AAAATTTGATGGTCAAAGTAG
1513902 AAAATTTG
1 AAAATTTG
1513910 GCAAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.32
Consensus pattern (21 bp):
AAAATTTGATGGTCAAAGTAG
Found at i:1518874 original size:54 final size:54
Alignment explanation
Indices: 1518778--1519460 Score: 443
Period size: 54 Copynumber: 12.8 Consensus size: 54
1518768 TGGAAAACAT
* * * * * *
1518778 GTTCACTCCCTATTCCTTCAGGGAGTAGA-AACTCGTACAATCTTTTGTC-TACGG
1 GTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCG-AAAATCTTTTG-CAAACGG
* *
1518832 GTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTTGAAAATCTTCTGCAAACGG
1 GTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTTTGCAAACGG
* * * *
1518886 GTTCGCTCCCACTTTCTTCAGGGAGCATAGAACTCGAAAATCTTTTGAAAACGT
1 GTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTTTGCAAACGG
* * * * *** * *
1518940 GTAT-GCTCCCTATTCCTTCAGAGAGTAT-GAGACTCAAACAATCTTCAACAATCGT
1 GT-TCGCTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAA-AATCTTTTGCAAACGG
* * * *** * *
1518995 G-TCTACTCCCT-ATTCTTTCAGAGAGTAT-GAGACTCGAATAATCTTCAACAATCGT
1 GTTC-GCTCCCTCTTTC-TTCAGGGAGTATAGA-ACTCGAA-AATCTTTTGCAAACGG
* * * *** *
1519050 G-TCTGCTCCCTATTT-TTCAGAGAGTATA-AGACTCGAACAAACTTCAACAATCGG
1 GTTC-GCTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAA-AATCTTTTGCAAACGG
* * * * * *
1519104 GTTCGTTCCCTCTTTC-TCTAGGGATTATGGAACTCGAATATCTTCTGCAAACGA
1 GTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAAAATCTTTTGCAAACGG
*
1519158 GTTCGCTCTCTCTTTC-TCTAGGGAGTATAGAACTCGAACAA--TTTT-CAAACGG
1 GTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAA-AATCTTTTGCAAACGG
*
1519210 GTTCGCTCCCTCTTTC-TCTAGGGAGTATAGAACTCGAACATC--TT-CAAACGG
1 GTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAAAATCTTTTGCAAACGG
* * * * *
1519261 GTTCGATCCCTCTTTCTTTAGGGAGTATAGAACTCGGATATC--TT-CACACGG
1 GTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTTTGCAAACGG
* * *
1519312 GTTCGCTCCCTCTTTC-TCTAGGGAGTATGGAACTC-AGACATCTCTT-CAAACGG
1 GTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGA-AAATCTTTTGCAAACGG
* * * * *
1519365 GTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATC--TT-CAAACGG
1 GTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTTTGCAAACGG
* * *
1519416 GTTCGCTCCCTCTCTC-TCTAGGGAGTATGGAACTCAAATAATCTT
1 GTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAA-AATCTT
1519461 CATTTGCTTC
Statistics
Matches: 526, Mismatches: 75, Indels: 56
0.80 0.11 0.09
Matches are distributed among these distances:
50 2 0.00
51 128 0.24
52 47 0.09
53 50 0.10
54 208 0.40
55 88 0.17
56 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (54 bp):
GTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTTTGCAAACGG
Found at i:1519004 original size:55 final size:55
Alignment explanation
Indices: 1518945--1519102 Score: 255
Period size: 55 Copynumber: 2.9 Consensus size: 55
1518935 AACGTGTATG
* *
1518945 CTCCCTATTCCTTCAGAGAGTATGAGACTCAAACAATCTTCAACAATCGTGTCTA
1 CTCCCTATTCTTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTA
* *
1519000 CTCCCTATTCTTTCAGAGAGTATGAGACTCGAATAATCTTCAACAATCGTGTCTG
1 CTCCCTATTCTTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTA
* *
1519055 CTCCCTATT-TTTCAGAGAGTATAAGACTCGAACAAACTTCAACAATCG
1 CTCCCTATTCTTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCG
1519103 GGTTCGTTCC
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
54 36 0.38
55 60 0.62
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (55 bp):
CTCCCTATTCTTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTA
Found at i:1519277 original size:51 final size:51
Alignment explanation
Indices: 1519101--1519450 Score: 468
Period size: 51 Copynumber: 6.7 Consensus size: 51
1519091 CTTCAACAAT
* * *
1519101 CGGGTTCGTTCCCTCTTTCTCTAGGGATTATGGAACTCGAATATCTTCTGCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATC-T-T-CAAA
* * * *
1519155 CGAGTTCGCTCTCTCTTTCTCTAGGGAGTATAGAACTCGAACAATTTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAC-ATCTTCAAA
*
1519207 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAA
* * * * * *
1519258 CGGGTTCGATCCCTCTTTCTTTAGGGAGTATAGAACTCGGATATCTTCACA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAA
1519309 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-AGACATCTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGA-ACA--TCTTCAAA
* * *
1519362 CGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAA
*
1519413 CGGGTTCGCTCCCTCTCTCTCTAGGGAGTATGGAACTC
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC
1519451 AAATAATCTT
Statistics
Matches: 263, Mismatches: 28, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
51 133 0.51
52 44 0.17
53 46 0.17
54 38 0.14
55 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.32
Consensus pattern (51 bp):
CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAA
Found at i:1519401 original size:155 final size:157
Alignment explanation
Indices: 1519101--1519461 Score: 507
Period size: 155 Copynumber: 2.3 Consensus size: 157
1519091 CTTCAACAAT
* *
1519101 CGGGTTCGTTCCCTCTTTCTCTAGGGATTATGGAACTCGAATATCTTCTGCAAACGAGTTCGCTC
1 CGGGTTCGATCCCTCTTTCTCTAGGGAGTATGGAACTCGAATATCTTCTGCAAACGAGTTCGCTC
* *
1519166 TCTCTTTCTCTAGGGAGTATAGAACTCGAACAATTTTCAAACGGGTTCGCTCCCTCTTTCTCTAG
66 CCTCTTTCTCTAGGGAGTATAGAACTCGAACAATTTTCAAACGGGTTCGCTCCCTCTTTCTCTAA
1519231 GGAGTATAGAACTCGAACATCTTCAAA
131 GGAGTATAGAACTCGAACATCTTCAAA
* * * * *
1519258 CGGGTTCGATCCCTCTTTCTTTAGGGAGTATAGAACTCGGATATC-T-T-CACACGGGTTCGCTC
1 CGGGTTCGATCCCTCTTTCTCTAGGGAGTATGGAACTCGAATATCTTCTGCAAACGAGTTCGCTC
* * *
1519320 CCTCTTTCTCTAGGGAGTATGGAACTC-AGAC-ATCTCTTCAAACGGGTTCGCTCCTTCTTTCTT
66 CCTCTTTCTCTAGGGAGTATAGAACTCGA-ACAAT-T-TTCAAACGGGTTCGCTCCCTCTTTCTC
*
1519383 TAAGGAGTATGGAACTCGAACATCTTCAAA
128 TAAGGAGTATAGAACTCGAACATCTTCAAA
* * *
1519413 CGGGTTCGCTCCCTCTCTCTCTAGGGAGTATGGAACTCAAATAATCTTC
1 CGGGTTCGATCCCTCTTTCTCTAGGGAGTATGGAACTCGAAT-ATCTTC
1519462 ATTTGCTTCA
Statistics
Matches: 179, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
153 3 0.02
154 41 0.23
155 90 0.50
156 4 0.02
157 41 0.23
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (157 bp):
CGGGTTCGATCCCTCTTTCTCTAGGGAGTATGGAACTCGAATATCTTCTGCAAACGAGTTCGCTC
CCTCTTTCTCTAGGGAGTATAGAACTCGAACAATTTTCAAACGGGTTCGCTCCCTCTTTCTCTAA
GGAGTATAGAACTCGAACATCTTCAAA
Done.