Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 23 of 130
Found at i:6090181 original size:24 final size:24
Alignment explanation
Indices: 6090132--6090188 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
6090122 TTTATAAAAG
*
6090132 TAAAATCATTATATTTTTATATTAT
1 TAAAAT-ATTATATTTTTATAGTAT
*
6090157 TAAAATATTATTTTATTTA-AGTAT
1 TAAAATATTATATT-TTTATAGTAT
6090181 TAAAATAT
1 TAAAATAT
6090189 AAAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 19 0.66
25 10 0.34
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TAAAATATTATATTTTTATAGTAT
Found at i:6094061 original size:24 final size:24
Alignment explanation
Indices: 6094034--6094082 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
6094024 TGCTTGCAGG
*
6094034 GTAATTTGTGTTTTATATTTTTAA
1 GTAATTTGTGTTGTATATTTTTAA
6094058 GTAATTTGTGTTGTATATTTTTAA
1 GTAATTTGTGTTGTATATTTTTAA
6094082 G
1 G
6094083 CGTACTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.59
Consensus pattern (24 bp):
GTAATTTGTGTTGTATATTTTTAA
Found at i:6097452 original size:46 final size:46
Alignment explanation
Indices: 6097396--6097488 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
6097386 TCTATACTTC
*
6097396 ATATATATATACT-TATATATGTTACATATATCATACCCATTACAAT
1 ATATATATATA-TATATATATGTTACATACATCATACCCATTACAAT
*
6097442 ATATATATATATATATATATGTTACATACATCATGCCCATTACAAT
1 ATATATATATATATATATATGTTACATACATCATACCCATTACAAT
6097488 A
1 A
6097489 AGCAAACGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 1 0.02
46 43 0.98
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (46 bp):
ATATATATATATATATATATGTTACATACATCATACCCATTACAAT
Found at i:6100537 original size:21 final size:22
Alignment explanation
Indices: 6100513--6100569 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
6100503 TGATAAATTT
*
6100513 TTATAA-A-AATTATATTTTTAA
1 TTATAATATAATT-TATTTATAA
6100534 TTATTAATATTAATTTATTTATAA
1 TTA-TAATA-TAATTTATTTATAA
6100558 TTATAATATAAT
1 TTATAATATAAT
6100570 ATGTTTTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.10
22 7 0.23
23 6 0.19
24 11 0.35
25 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATAATATAATTTATTTATAA
Found at i:6100552 original size:24 final size:24
Alignment explanation
Indices: 6100520--6100566 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6100510 TTTTTATAAA
*
6100520 AATTATATTTTTAATTATTAATATT
1 AATTATATTTATAATTA-TAATATT
6100545 AATT-TATTTATAATTATAATAT
1 AATTATATTTATAATTATAATAT
6100567 AATATGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 11 0.52
25 4 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
AATTATATTTATAATTATAATATT
Found at i:6106713 original size:64 final size:64
Alignment explanation
Indices: 6106512--6106792 Score: 232
Period size: 64 Copynumber: 4.4 Consensus size: 64
6106502 AAGGCGTTTT
* * *
6106512 TAGCCAAAAACATC-TTTAATAATCCCCTCAACAAAATTTTT-TATATGGATTATTGAAGGTATT
1 TAGCCAAAAAC-GCATTTAATAATCCCCT-TA-AAAATTTTTATGTATGGATTATTGAAGGTATT
6106575 TA
63 TA
* ** * * * * * * ** *
6106577 TGGATAAAAATGCCTTTAATAATCTCCTTCAAAAGTTTT-TGTATGGATTATTAAAGGCGTTTT
1 TAGCCAAAAACGCATTTAATAATCCCCTTAAAAATTTTTATGTATGGATTATTGAAGGTATTTA
* * * *
6106640 TGGCTAAAAACGCATTCAATAATCCCCTTAATAAATTTTTATG-AGGGATTATTGAAGGTATTTA
1 TAGCCAAAAACGCATTTAATAATCCCCTTAA-AAATTTTTATGTATGGATTATTGAAGGTATTTA
* * * * *
6106704 TAGCCAAAAATGCCTTTAATAAT-CCCATAAAATTTTTTTTTGTATGGATTATTGAAGGTATTTT
1 TAGCCAAAAACGCATTTAATAATCCCCTTAAAA-ATTTTTATGTATGGATTATTGAAGGTA-TTT
*
6106768 T
64 A
*
6106769 TA-TCAAAAACGCATTTAATAATCC
1 TAGCCAAAAACGCATTTAATAATCC
6106793 TTCTCCAAAA
Statistics
Matches: 170, Mismatches: 39, Indels: 14
0.76 0.17 0.06
Matches are distributed among these distances:
62 2 0.01
63 65 0.38
64 75 0.44
65 28 0.16
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (64 bp):
TAGCCAAAAACGCATTTAATAATCCCCTTAAAAATTTTTATGTATGGATTATTGAAGGTATTTA
Found at i:6106792 original size:128 final size:128
Alignment explanation
Indices: 6106497--6106792 Score: 334
Period size: 128 Copynumber: 2.3 Consensus size: 128
6106487 GTTTGTGAAG
* * * * *
6106497 TATTCAAGGCGTTTTTAGCCAAAAACATC-TTTAATAATCCCCTCAACAAAATTTTTTATATGGA
1 TATTAAAGGAGTTTTTAGCTAAAAAC-GCATTTAATAATCCCCTCAACAAAATTTTTTATAGGGA
* * *
6106561 TTATTGAAGGTATTTATGGATAAAAATGCCTTTAATAATCTCCTTCAAAAGTTTTTGTATGGAT
65 TTATTGAAGGTATTTATAGACAAAAATGCCTTTAATAATCTCCATCAAAAGTTTTTGTATGGAT
* * * * *
6106625 TATTAAAGGCGTTTTTGGCTAAAAACGCATTCAATAATCCCCTTAA-TAAA-TTTTTATGAGGGA
1 TATTAAAGGAGTTTTTAGCTAAAAACGCATTTAATAATCCCCTCAACAAAATTTTTTAT-AGGGA
* *
6106688 TTATTGAAGGTATTTATAGCCAAAAATGCCTTTAATAATC-CCAT-AAAATTTTTTTTTGTATGG
65 TTATTGAAGGTATTTATAGACAAAAATGCCTTTAATAATCTCCATCAAAA---GTTTTTGTATGG
6106751 AT
127 AT
* * *
6106753 TATTGAAGGTATTTTTTATC-AAAAACGCATTTAATAATCC
1 TATTAAAGG-AGTTTTTAGCTAAAAACGCATTTAATAATCC
6106793 TTCTCCAAAA
Statistics
Matches: 143, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
125 4 0.03
126 10 0.07
127 45 0.31
128 78 0.55
129 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (128 bp):
TATTAAAGGAGTTTTTAGCTAAAAACGCATTTAATAATCCCCTCAACAAAATTTTTTATAGGGAT
TATTGAAGGTATTTATAGACAAAAATGCCTTTAATAATCTCCATCAAAAGTTTTTGTATGGAT
Found at i:6106808 original size:64 final size:62
Alignment explanation
Indices: 6106508--6106843 Score: 230
Period size: 64 Copynumber: 5.2 Consensus size: 62
6106498 ATTCAAGGCG
* *
6106508 TTTTTAGCCAAAAACATC-TTTAATAATCCCCTCAACAAAATTTTTTATATGGATTATTGAAGGT
1 TTTTTA-CCAAAAAC-GCATTTAATAATCCCCTC-A-AAAA-TTTTTGTATGGATTATTGAAGGT
6106572 AT
61 AT
** * * * * * * **
6106574 TTATGGA-TAAAAATGCCTTTAATAATCTCCTTCAAAAGTTTTTGTATGGATTATTAAAGGCGT
1 TT-TTTACCAAAAACGCATTTAATAATC-CCCTCAAAAATTTTTGTATGGATTATTGAAGGTAT
** * * * * *
6106637 TTTTGGCTAAAAACGCATTCAATAATCCCCTTAATAAATTTTTATGAGGGATTATTGAAGGTA-
1 TTTTTACCAAAAACGCATTTAATAATCCCCTCAA-AAATTTTTGT-ATGGATTATTGAAGGTAT
* * * * *
6106700 TTTATAGCCAAAAATGCCTTTAATAATCCCAT-AAAATTTTTTTTTGTATGGATTATTGAAGGTA
1 TTTTTA-CCAAAAACGCATTTAATAATCCCCTCAAAA---ATTTTTGTATGGATTATTGAAGGTA
6106764 T
62 T
* * * * * *
6106765 TTTTTATCAAAAACGCATTTAATAATCCTTCTCCAAAAATTTTTGAATAGATTATTAAAGGCAT
1 TTTTTACCAAAAACGCATTTAATAATCC-CCT-CAAAAATTTTTGTATGGATTATTGAAGGTAT
*
6106829 TTTTGACCAAAAACG
1 TTTTTACCAAAAACG
6106844 TCTTCAATAA
Statistics
Matches: 208, Mismatches: 48, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
62 9 0.04
63 53 0.25
64 106 0.51
65 28 0.13
66 6 0.03
67 6 0.03
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (62 bp):
TTTTTACCAAAAACGCATTTAATAATCCCCTCAAAAATTTTTGTATGGATTATTGAAGGTAT
Found at i:6106818 original size:128 final size:126
Alignment explanation
Indices: 6106497--6106869 Score: 328
Period size: 128 Copynumber: 2.9 Consensus size: 126
6106487 GTTTGTGAAG
* * * * *
6106497 TATTCAAGGCGTTTTTAGCCAAAAACATC-TTTAATAATCCCCTCAACAAAATTTTTTATATGGA
1 TATTAAAGGAGTTTTTAGCTAAAAAC-GCATTTAATAATCCCCTCAA-AAAA-TTTTTA-ATAGA
* ** * *
6106561 TTATTGAAGGTATTTATGGATAAAAATGCCTTTAATAATCTCCTTCAAAA---GTTTTTGTATGG
62 TTATTGAAGGTATTTATAGCCAAAAATGCCTTTAATAATC-CCAT-AAAATTTTTTTTTGTATGG
6106623 AT
125 AT
* * * * *
6106625 TATTAAAGGCGTTTTTGGCTAAAAACGCATTCAATAATCCCCTTAATAAATTTTT-ATGAGGGAT
1 TATTAAAGGAGTTTTTAGCTAAAAACGCATTTAATAATCCCCTCAAAAAATTTTTAAT-A--GAT
6106689 TATTGAAGGTATTTATAGCCAAAAATGCCTTTAATAATCCCATAAAATTTTTTTTTGTATGGAT
63 TATTGAAGGTATTTATAGCCAAAAATGCCTTTAATAATCCCATAAAATTTTTTTTTGTATGGAT
* * * * *
6106753 TATTGAAGGTATTTTTTATC-AAAAACGCATTTAATAATCCTTCTCCAAAAATTTTTGAATAGAT
1 TATTAAAGG-AGTTTTTAGCTAAAAACGCATTTAATAATCC-CCTCAAAAAATTTTT-AATAGAT
* * * * * * * *
6106817 TATTAAAGGCATTT-TTGACCAAAAACGTCTTCAATAATGCCATACAATTTTTT
63 TATTGAAGGTATTTATAG-CCAAAAATGCCTTTAATAATCCCATAAAATTTTTT
6106870 ATTAGCCAAT
Statistics
Matches: 202, Mismatches: 31, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
124 2 0.01
125 4 0.02
126 8 0.04
127 45 0.22
128 123 0.61
129 17 0.08
130 1 0.00
131 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (126 bp):
TATTAAAGGAGTTTTTAGCTAAAAACGCATTTAATAATCCCCTCAAAAAATTTTTAATAGATTAT
TGAAGGTATTTATAGCCAAAAATGCCTTTAATAATCCCATAAAATTTTTTTTTGTATGGAT
Found at i:6106982 original size:43 final size:43
Alignment explanation
Indices: 6106902--6106984 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
6106892 GAGCCTATAT
* * *
6106902 TGATGGTTATGTTAATAACAATCAATATGTAACATATTTACAC
1 TGATAGTTACGTTAATAACAATCAATATATAACATATTTACAC
** *
6106945 TGATAGTTACGTTAATAACCGTCAATATATAATATATTTA
1 TGATAGTTACGTTAATAACAATCAATATATAACATATTTA
6106985 TATTAACAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (43 bp):
TGATAGTTACGTTAATAACAATCAATATATAACATATTTACAC
Found at i:6107738 original size:53 final size:53
Alignment explanation
Indices: 6107681--6107786 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
6107671 CTAAAAATAC
* * *
6107681 TCTAATAAATTTTTTATGAGATTTGAGTTACTATTTTTAACAATCTCTATATT
1 TCTAATAAATTGTTTATGAGATTTGAGTTACTATTCTCAACAATCTCTATATT
6107734 TCTAATAAATTGTTTATGAGATTTGAGTTACTATTCTCAACAATCTCTATATT
1 TCTAATAAATTGTTTATGAGATTTGAGTTACTATTCTCAACAATCTCTATATT
6107787 AACTCAAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.48
Consensus pattern (53 bp):
TCTAATAAATTGTTTATGAGATTTGAGTTACTATTCTCAACAATCTCTATATT
Found at i:6108661 original size:15 final size:16
Alignment explanation
Indices: 6108629--6108663 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
6108619 TTTGAGTTAC
*
6108629 TATTCTTAATATATTA
1 TATTCTTAATAAATTA
6108645 TATTCTTAA-AAATTA
1 TATTCTTAATAAATTA
6108660 TATT
1 TATT
6108664 AATAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTCTTAATAAATTA
Found at i:6111343 original size:17 final size:17
Alignment explanation
Indices: 6111302--6111344 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
6111292 TACAAACAAC
* *
6111302 AAACAAGAAAAAAAATG
1 AAACAAAAAAAAAAAAG
**
6111319 AAGGAAAAAAAAAAAAG
1 AAACAAAAAAAAAAAAG
6111336 AAACAAAAA
1 AAACAAAAA
6111345 GTAAAAAGGA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.02
Consensus pattern (17 bp):
AAACAAAAAAAAAAAAG
Found at i:6112014 original size:22 final size:22
Alignment explanation
Indices: 6111988--6112037 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
6111978 AAATTTTATT
*
6111988 CGAATCGAACCCGAATAATTTA
1 CGAATAGAACCCGAATAATTTA
6112010 CGAATAGAACCCGAATAATTTA
1 CGAATAGAACCCGAATAATTTA
6112032 CGAATA
1 CGAATA
6112038 CTAATGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (22 bp):
CGAATAGAACCCGAATAATTTA
Found at i:6115815 original size:3 final size:3
Alignment explanation
Indices: 6115799--6115852 Score: 90
Period size: 3 Copynumber: 17.3 Consensus size: 3
6115789 CTTTGGACTA
6115799 ATT ATT ATCGT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6115846 ATT ATT A
1 ATT ATT A
6115853 AAAAGGAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 46 0.94
5 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:6116579 original size:23 final size:21
Alignment explanation
Indices: 6116545--6116586 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
6116535 GCATGTTTTC
6116545 TTTTTTCATTTTATCTTTTATT
1 TTTTTTCATTTTAT-TTTTATT
6116567 TTTTATTCATTTTATTTTTA
1 TTTT-TTCATTTTATTTTTA
6116587 GATTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTCATTTTATTTTTATT
Found at i:6116592 original size:23 final size:22
Alignment explanation
Indices: 6116545--6116592 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
6116535 GCATGTTTTC
*
6116545 TTTTTTCATTTTATCTTTTATT
1 TTTTTTCATTTTATCTTTTAAT
6116567 TTTTATTCATTTTAT-TTTTAGAT
1 TTTT-TTCATTTTATCTTTTA-AT
6116590 TTT
1 TTT
6116593 CTTTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTTCATTTTATCTTTTAAT
Found at i:6116622 original size:15 final size:14
Alignment explanation
Indices: 6116602--6116634 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
6116592 TCTTTTATTA
6116602 TTATTGTTGTTGTT
1 TTATTGTTGTTGTT
6116616 GTTATTGTTGTTGTT
1 -TTATTGTTGTTGTT
6116631 TTAT
1 TTAT
6116635 CTTTAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.09, C:0.00, G:0.21, T:0.70
Consensus pattern (14 bp):
TTATTGTTGTTGTT
Found at i:6116775 original size:18 final size:18
Alignment explanation
Indices: 6116746--6116789 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
6116736 TTATAAATCG
*
6116746 ATTTTTATAAAA-AATTT
1 ATTTTAATAAAATAATTT
*
6116763 ATTATTAATAAAATATTTT
1 ATT-TTAATAAAATAATTT
6116782 ATTTTAAT
1 ATTTTAAT
6116790 CATACCTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 13 0.57
19 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATAAAATAATTT
Found at i:6129424 original size:3 final size:3
Alignment explanation
Indices: 6129408--6129460 Score: 88
Period size: 3 Copynumber: 17.0 Consensus size: 3
6129398 CTTTGGCCTA
6129408 ATT ATT ATCGT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6129455 ATT ATT
1 ATT ATT
6129461 TATTTTACTA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 45 0.94
5 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6130265 original size:23 final size:23
Alignment explanation
Indices: 6130228--6130277 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6130218 CGATTGCAGG
*
6130228 TTTTTTATTTTCATTTTT-TTTAA
1 TTTTTTATTTGCATTTTTATTT-A
*
6130251 TTTTTTGTTTGCATTTTTATTTA
1 TTTTTTATTTGCATTTTTATTTA
6130274 TTTT
1 TTTT
6130278 ATTTTTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTTTATTTGCATTTTTATTTA
Found at i:6134553 original size:2 final size:2
Alignment explanation
Indices: 6134546--6134577 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6134536 TAGTAGTATT
6134546 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
6134578 ATTAGGACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6136360 original size:17 final size:17
Alignment explanation
Indices: 6136335--6136368 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6136325 GATACGATTT
*
6136335 CATATAAAGTAAAAATA
1 CATAAAAAGTAAAAATA
6136352 CATAAAAAGTAAAAATA
1 CATAAAAAGTAAAAATA
6136369 TTTAATAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (17 bp):
CATAAAAAGTAAAAATA
Found at i:6137632 original size:105 final size:104
Alignment explanation
Indices: 6137520--6137717 Score: 265
Period size: 104 Copynumber: 1.9 Consensus size: 104
6137510 CAAAAATACA
* *
6137520 TTCAATAAT-CAATTCTAAAATTTTTCAAGGGATTATTGAAGGTATTTTTTTGG-CCAAAACACC
1 TTCAATAATACAATTC-AAAATTTTTCAAGGGATTATTGAAGGCA--TTTTTGGTCAAAAACACC
*
6137583 TTTAATAATCCATTCCAAATTTTATTAGGGGCCAAAAACGCC
63 TTCAATAATCCATTCCAAATTTTATTAGGGGCCAAAAACGCC
** * *
6137625 TTCAATAATACCTTTCAAATTTTTTCAAGGGATTATTGAAGGCATTTTTGGTCAAAAATACCTTC
1 TTCAATAATACAATTCAAAATTTTTCAAGGGATTATTGAAGGCATTTTTGGTCAAAAACACCTTC
* * *
6137690 AATAATCCTTTTCAAATTTTTTTAGGGG
66 AATAATCCATTCCAAATTTTATTAGGGG
6137718 ATTATTAAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
103 7 0.09
104 35 0.43
105 35 0.43
106 4 0.05
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (104 bp):
TTCAATAATACAATTCAAAATTTTTCAAGGGATTATTGAAGGCATTTTTGGTCAAAAACACCTTC
AATAATCCATTCCAAATTTTATTAGGGGCCAAAAACGCC
Found at i:6137859 original size:62 final size:61
Alignment explanation
Indices: 6137624--6137885 Score: 226
Period size: 62 Copynumber: 4.2 Consensus size: 61
6137614 CCAAAAACGC
* * *
6137624 CTTCAATAATACCTTTC-AAATTTTTTCAAGGGATTATTGAAGGCATTTTTGGTC-AAAAATAC
1 CTTCAATAAT-CCTTTCTAAATTTTTT-AAGGGATTATTGAAAGCATTTTT-GACAAAAAATAT
* * * *
6137686 CTTCAATAATCCTTT-TCAAATTTTTTTAGGGGATTATTAAAAGCATTTTTGACCAAAAACAT
1 CTTCAATAATCCTTTCT-AAA-TTTTTTAAGGGATTATTGAAAGCATTTTTGACAAAAAATAT
* * * * * * *
6137748 CTTTAATAATTCATTCCAAATTTTGTTAGGGGGATTATT-AAAGACGTTTTTGACAAAAAATGT
1 CTTCAATAATCCTTTCTAAATTTT-TTA-AGGGATTATTGAAAG-CATTTTTGACAAAAAATAT
* * * *
6137811 CTTCAGTAATCCTTTCTAAATTTTTTGAAAGGATTATTGAATGCGTTTTTGACCAAAAAATAT
1 CTTCAATAATCCTTTCTAAATTTTTT-AAGGGATTATTGAAAGCATTTTTGA-CAAAAAATAT
* *
6137874 TTTTAATAATCC
1 CTTCAATAATCC
6137886 CATTCAAGTT
Statistics
Matches: 163, Mismatches: 26, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
61 11 0.07
62 80 0.49
63 72 0.44
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.40
Consensus pattern (61 bp):
CTTCAATAATCCTTTCTAAATTTTTTAAGGGATTATTGAAAGCATTTTTGACAAAAAATAT
Found at i:6141609 original size:2 final size:2
Alignment explanation
Indices: 6141602--6141640 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6141592 AAACACAAGC
6141602 AT AT 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 AT AT A
6141641 GATAGATAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6141645 original size:4 final size:4
Alignment explanation
Indices: 6141638--6141677 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
6141628 ATATATATAT
*
6141638 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ACAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
6141678 TTAGTTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.25, T:0.23
Consensus pattern (4 bp):
ATAG
Found at i:6142928 original size:27 final size:27
Alignment explanation
Indices: 6142855--6142930 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
6142845 ATAAATATAT
* *
6142855 TAATATATATT-TTTAATAAAAATATAT
1 TAATTTATATTATTTAATAAAAA-ATAA
**
6142882 TAATTT-TA--A-TTAATCTAAAATAA
1 TAATTTATATTATTTAATAAAAAATAA
6142905 TAATTTATATTATTTAATAAAAAATA
1 TAATTTATATTATTTAATAAAAAATA
6142931 TATATACTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
23 9 0.24
24 10 0.26
26 3 0.08
27 16 0.42
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
TAATTTATATTATTTAATAAAAAATAA
Found at i:6143779 original size:15 final size:16
Alignment explanation
Indices: 6143759--6143788 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6143749 TAATTTTTTA
6143759 AAAATTATTT-TAATC
1 AAAATTATTTATAATC
6143774 AAAATTATTTATAAT
1 AAAATTATTTATAAT
6143789 TGGTATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATTATTTATAATC
Found at i:6144049 original size:34 final size:34
Alignment explanation
Indices: 6144006--6144083 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
6143996 CAAATCATCT
* * *
6144006 TGGTGATCTTATCACCATAGTGATTAGATTACCA
1 TGGTAATCTTATCACCATAATGATTAGACTACCA
*
6144040 TGGTAATCTTATTACCATAATGATTAGACTACCA
1 TGGTAATCTTATCACCATAATGATTAGACTACCA
* *
6144074 CGTTAATCTT
1 TGGTAATCTT
6144084 GAAAATAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (34 bp):
TGGTAATCTTATCACCATAATGATTAGACTACCA
Found at i:6145200 original size:18 final size:18
Alignment explanation
Indices: 6145179--6145238 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
6145169 AACATTATTG
6145179 GAAGATGAAGAGTTCGTT
1 GAAGATGAAGAGTTCGTT
* * *
6145197 GAAGCAAGGAA-AGATCATT
1 GAAG--ATGAAGAGTTCGTT
6145216 GAAGATGAAGAGTTCGTT
1 GAAGATGAAGAGTTCGTT
6145234 GAAGA
1 GAAGA
6145239 AAAAACGAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 4 0.12
18 15 0.45
19 10 0.30
20 4 0.12
ACGTcount: A:0.40, C:0.07, G:0.32, T:0.22
Consensus pattern (18 bp):
GAAGATGAAGAGTTCGTT
Found at i:6146299 original size:33 final size:33
Alignment explanation
Indices: 6146203--6146317 Score: 97
Period size: 33 Copynumber: 3.5 Consensus size: 33
6146193 ATGCTAATAT
* *
6146203 AATGGTGAACAAAATGAAAAAGTGAGTTTA-AGA
1 AATGGTGAACAGAATAAAAAAGTGAGTTTAGA-A
** **** * *
6146236 AATGGTGAGTAGAATGGGGAAGTTAATTTAGAA
1 AATGGTGAACAGAATAAAAAAGTGAGTTTAGAA
*
6146269 AATGGTGAGCAGAATAAAAAAGTGAGTTTAGAA
1 AATGGTGAACAGAATAAAAAAGTGAGTTTAGAA
* *
6146302 AGTGGTAAACAGAATA
1 AATGGTGAACAGAATA
6146318 TGGAAAATGG
Statistics
Matches: 63, Mismatches: 18, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
33 62 0.98
34 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.28, T:0.23
Consensus pattern (33 bp):
AATGGTGAACAGAATAAAAAAGTGAGTTTAGAA
Found at i:6146381 original size:39 final size:39
Alignment explanation
Indices: 6146324--6146434 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
6146314 AATATGGAAA
* * *
6146324 ATGGTAGTAAACAACATGCCAGTGATATTGGTAATGTAG
1 ATGGTAATGAACAGCATGCCAGTGATATTGGTAATGTAG
* *
6146363 ATGGTAATGAACAGCATGCCAGTGATGTTGGTAATGTAT
1 ATGGTAATGAACAGCATGCCAGTGATATTGGTAATGTAG
* * * *
6146402 ATGGTAATGAATAGCAAGCCAATGATTTTGGTA
1 ATGGTAATGAACAGCATGCCAGTGATATTGGTA
6146435 GTAAAAATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (39 bp):
ATGGTAATGAACAGCATGCCAGTGATATTGGTAATGTAG
Found at i:6148614 original size:25 final size:25
Alignment explanation
Indices: 6148583--6148635 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
6148573 GTTGAAAGTG
6148583 TGATGACATACAATTATTTCCATGA
1 TGATGACATACAATTATTTCCATGA
*
6148608 TGATGACATACAGTTATTTCCATGA
1 TGATGACATACAATTATTTCCATGA
6148633 TGA
1 TGA
6148636 GGGCCATAAC
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:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (25 bp):
TGATGACATACAATTATTTCCATGA
Found at i:6151423 original size:39 final size:40
Alignment explanation
Indices: 6151325--6151416 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
6151315 TATGTGAATG
* * * *
6151325 GACAAAAAAAGTTACCACGTCAGCATTAAATGTCGAGATA
1 GACAAAAAAAATTACCACATTAGCATTAAATGTCAAGATA
*
6151365 GATAAAAAAAATTACCACATTAGCATTAAATGTCCAAG-TA
1 GACAAAAAAAATTACCACATTAGCATTAAATGT-CAAGATA
6151405 -ACAAAAAAAATT
1 GACAAAAAAAATT
6151417 GTCACATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 11 0.24
40 31 0.69
41 3 0.07
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (40 bp):
GACAAAAAAAATTACCACATTAGCATTAAATGTCAAGATA
Found at i:6151442 original size:21 final size:21
Alignment explanation
Indices: 6151418--6151457 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6151408 AAAAAAATTG
* *
6151418 TCACATATACAAAGTCAACTA
1 TCACATAAAAAAAGTCAACTA
6151439 TCACATAAAAAAAGTCAAC
1 TCACATAAAAAAAGTCAAC
6151458 CTCCACATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.23, G:0.05, T:0.20
Consensus pattern (21 bp):
TCACATAAAAAAAGTCAACTA
Found at i:6152608 original size:2 final size:2
Alignment explanation
Indices: 6152603--6152627 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6152593 TGTGTGTGTG
6152603 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
6152628 CCATACGCAT
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:6154327 original size:24 final size:24
Alignment explanation
Indices: 6154297--6154359 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
6154287 AAATATATTT
*
6154297 ATAAATATACATGAAT-TTATACAAA
1 ATAAATATAC-T-AATAATATACAAA
6154322 AT-AATACTACTAATAATATACAAA
1 ATAAATA-TACTAATAATATACAAA
6154346 ATAAATATA-TAATA
1 ATAAATATACTAATA
6154360 TCTTAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 8 0.24
24 17 0.50
25 9 0.26
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.32
Consensus pattern (24 bp):
ATAAATATACTAATAATATACAAA
Found at i:6157450 original size:224 final size:224
Alignment explanation
Indices: 6157049--6157494 Score: 811
Period size: 224 Copynumber: 2.0 Consensus size: 224
6157039 TCATGACACT
*
6157049 TATGAAGTATCTTTCATCTTCAATGTTGCTGATTTATCGTCCTATTATGACTAGAATACTAGTTC
1 TATGAAGTATCTTTCATCTTCAATGTTGCTGATTTATCATCCTATTATGACTAGAATACTAGTTC
6157114 AGACTTGAGGACAAGTCTTTGCCAACTAGAAGAGATTGACACCGAAGGATTTACACATCATACAA
66 AGACTTGAGGACAAGTCTTTGCCAACTAGAAGAGATTGACACCGAAGGATTTACACATCATACAA
*
6157179 CTTGGGCTAATACTAAGGCAGACTTATCCAAGAATAAGATGGGCCTATCCTTGGTCTAAATCTAC
131 CTTGGACTAATACTAAGGCAGACTTATCCAAGAATAAGATGGGCCTATCCTTGGTCTAAATCTAC
6157244 TAAATAAATACAAAAATAAGATGGGCTGA
196 TAAATAAATACAAAAATAAGATGGGCTGA
*
6157273 TATGATGTATCTTTCATCTTCAATGTTGCTGATTTATCATCCTATTATGACTAGAATACTAGTTC
1 TATGAAGTATCTTTCATCTTCAATGTTGCTGATTTATCATCCTATTATGACTAGAATACTAGTTC
* *
6157338 AGACTTGAGGACAAGTCTTTGCCAACTAGAAGAGATTGACACCGAAGTATTTGCACATCATACAA
66 AGACTTGAGGACAAGTCTTTGCCAACTAGAAGAGATTGACACCGAAGGATTTACACATCATACAA
* *
6157403 CTTGGACTAATACTAAGGTAGACTTATCCAAGAATAAGATTGGCCTATCCTTGGTCTAAATCTAC
131 CTTGGACTAATACTAAGGCAGACTTATCCAAGAATAAGATGGGCCTATCCTTGGTCTAAATCTAC
* *
6157468 TAAATAAATATAAAAATAAGGTGGGCT
196 TAAATAAATACAAAAATAAGATGGGCT
6157495 AAAATATAAA
Statistics
Matches: 213, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
224 213 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (224 bp):
TATGAAGTATCTTTCATCTTCAATGTTGCTGATTTATCATCCTATTATGACTAGAATACTAGTTC
AGACTTGAGGACAAGTCTTTGCCAACTAGAAGAGATTGACACCGAAGGATTTACACATCATACAA
CTTGGACTAATACTAAGGCAGACTTATCCAAGAATAAGATGGGCCTATCCTTGGTCTAAATCTAC
TAAATAAATACAAAAATAAGATGGGCTGA
Found at i:6166886 original size:12 final size:12
Alignment explanation
Indices: 6166866--6166902 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6166856 TCCTTATTTG
*
6166866 CTTTATTCTTTT
1 CTTTCTTCTTTT
6166878 CTTTCTTCTTTT
1 CTTTCTTCTTTT
6166890 -TTTCTT-TTTT
1 CTTTCTTCTTTT
6166900 CTT
1 CTT
6166903 GGGCTCCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
10 4 0.17
11 8 0.35
12 11 0.48
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (12 bp):
CTTTCTTCTTTT
Found at i:6169375 original size:27 final size:27
Alignment explanation
Indices: 6169343--6169396 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
6169333 TTCTATACTG
6169343 TCTCATACTAATAATATATATTACTAT
1 TCTCATACTAATAATATATATTACTAT
6169370 TCTCATACTAATAATATATATTACTAT
1 TCTCATACTAATAATATATATTACTAT
6169397 GGTGAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (27 bp):
TCTCATACTAATAATATATATTACTAT
Found at i:6169663 original size:2 final size:2
Alignment explanation
Indices: 6169656--6169687 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6169646 CAGGACAGAG
6169656 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
6169688 TTCCTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6170278 original size:27 final size:27
Alignment explanation
Indices: 6170222--6170285 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
6170212 ATTCATTTAT
* * *
6170222 TAATAT-TAAACGAATATGTTTATGAA
1 TAATATATAAATGAATATATTCATGAA
6170248 -AATATATAAATGAATATATTCATGAA
1 TAATATATAAATGAATATATTCATGAA
*
6170274 TAATAAATAAAT
1 TAATATATAAAT
6170286 TATAACTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 5 0.16
26 17 0.53
27 10 0.31
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (27 bp):
TAATATATAAATGAATATATTCATGAA
Found at i:6172636 original size:10 final size:10
Alignment explanation
Indices: 6172621--6172650 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6172611 ATCAAACTTT
6172621 TATATTTTAA
1 TATATTTTAA
6172631 TATATTTTAA
1 TATATTTTAA
6172641 T-TATTTTAA
1 TATATTTTAA
6172650 T
1 T
6172651 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:6172647 original size:9 final size:9
Alignment explanation
Indices: 6172623--6172652 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
6172613 CAAACTTTTA
6172623 TATTTTAAT
1 TATTTTAAT
6172632 ATATTTTAAT
1 -TATTTTAAT
6172642 TATTTTAAT
1 TATTTTAAT
6172651 TA
1 TA
6172653 ATAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:6174747 original size:19 final size:19
Alignment explanation
Indices: 6174706--6174748 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6174696 AATTATTACC
*
6174706 TTAAACCCAAAGAATAATT
1 TTAAACCCAAAGAATAATA
*
6174725 TTAAA-CCAATGAATAAGTA
1 TTAAACCCAAAGAATAA-TA
6174744 TTAAA
1 TTAAA
6174749 AAAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (19 bp):
TTAAACCCAAAGAATAATA
Found at i:6175146 original size:16 final size:17
Alignment explanation
Indices: 6175120--6175157 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
6175110 ACAAAATTAC
6175120 AATATATAATTGAAAAA
1 AATATATAATTGAAAAA
*
6175137 AATA-ATAATT-TAAAA
1 AATATATAATTGAAAAA
6175152 AATATA
1 AATATA
6175158 CATATAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 7 0.37
17 4 0.21
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AATATATAATTGAAAAA
Found at i:6178158 original size:7 final size:7
Alignment explanation
Indices: 6178142--6178178 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
6178132 AGTAGGCTCA
6178142 TTTT-AT
1 TTTTGAT
6178148 TTTTGAT
1 TTTTGAT
6178155 TTTTGAT
1 TTTTGAT
6178162 TTTT-AT
1 TTTTGAT
6178168 ATTTTGAT
1 -TTTTGAT
6178176 TTT
1 TTT
6178179 ATATTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.21
7 20 0.71
8 2 0.07
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (7 bp):
TTTTGAT
Found at i:6178167 original size:20 final size:20
Alignment explanation
Indices: 6178142--6178193 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
6178132 AGTAGGCTCA
6178142 TTTTATTTTTGATTTT-TGAT
1 TTTTATTTTTGATTTTAT-AT
6178162 TTTTATATTTTGATTTTATAT
1 TTTTAT-TTTTGATTTTATAT
6178183 TTTATATTTTT
1 TTT-TATTTTT
6178194 TTTCTTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.21
21 19 0.66
22 4 0.14
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (20 bp):
TTTTATTTTTGATTTTATAT
Found at i:6178179 original size:13 final size:14
Alignment explanation
Indices: 6178141--6178185 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
6178131 AAGTAGGCTC
6178141 ATTTT-ATTTTTGAT
1 ATTTTGATTTTT-AT
6178155 -TTTTGATTTTTAT
1 ATTTTGATTTTTAT
6178168 ATTTTGA-TTTTAT
1 ATTTTGATTTTTAT
6178181 ATTTT
1 ATTTT
6178186 ATATTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (14 bp):
ATTTTGATTTTTAT
Found at i:6178191 original size:14 final size:13
Alignment explanation
Indices: 6178141--6178192 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 13
6178131 AAGTAGGCTC
6178141 ATTTTATTTTTGAT
1 ATTTTATTTTT-AT
6178155 -TTTTGATTTTTAT
1 ATTTT-ATTTTTAT
6178168 ATTTTGA-TTTTAT
1 ATTTT-ATTTTTAT
6178181 ATTTTATATTTT
1 ATTTTAT-TTTT
6178193 TTTTCTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.03
13 17 0.50
14 16 0.47
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (13 bp):
ATTTTATTTTTAT
Found at i:6178317 original size:10 final size:10
Alignment explanation
Indices: 6178300--6178379 Score: 56
Period size: 10 Copynumber: 7.9 Consensus size: 10
6178290 ACTTAGCTAT
6178300 TTATATATTA
1 TTATATATTA
*
6178310 TCATATA-TA
1 TTATATATTA
*
6178319 TGTATTTATTA
1 T-TATATATTA
6178330 TTATATATTA
1 TTATATATTA
* *
6178340 TAATTTATCTA
1 TTATATAT-TA
* *
6178351 TTATTTATTT
1 TTATATATTA
*
6178361 TTATTTATCTA
1 TTATATAT-TA
6178372 TTA-ATATT
1 TTATATATT
6178380 TTGATTTATC
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
9 4 0.07
10 36 0.64
11 16 0.29
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (10 bp):
TTATATATTA
Found at i:6178354 original size:21 final size:21
Alignment explanation
Indices: 6178322--6178421 Score: 111
Period size: 21 Copynumber: 5.0 Consensus size: 21
6178312 ATATATATGT
*
6178322 ATTTAT-TATTATATATTATA
1 ATTTATCTATTATATATTTTA
* *
6178342 ATTTATCTATTATTTATTTTT
1 ATTTATCTATTATATATTTTA
*
6178363 ATTTATCTATTA-ATATTTTG
1 ATTTATCTATTATATATTTTA
*
6178383 ATTTATCTTATTAT-TTTTTTA
1 ATTTATC-TATTATATATTTTA
6178404 A-TTATCTATTA-ATATTTT
1 ATTTATCTATTATATATTTT
6178422 TTTTTTTTGC
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.15
20 24 0.35
21 34 0.50
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (21 bp):
ATTTATCTATTATATATTTTA
Found at i:6178379 original size:41 final size:40
Alignment explanation
Indices: 6178321--6178419 Score: 130
Period size: 41 Copynumber: 2.5 Consensus size: 40
6178311 CATATATATG
6178321 TATTTAT-TATTATATATTATAATTTATC-TATTATTTATTTT
1 TATTTATCTATTA-ATATTATAATTTATCTTATTA-TT-TTTT
* *
6178362 TATTTATCTATTAATATTTTGATTTATCTTATTATTTTTT
1 TATTTATCTATTAATATTATAATTTATCTTATTATTTTTT
*
6178402 TAATTATCTATTAATATT
1 TATTTATCTATTAATATT
6178420 TTTTTTTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
40 21 0.40
41 22 0.42
42 10 0.19
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (40 bp):
TATTTATCTATTAATATTATAATTTATCTTATTATTTTTT
Found at i:6178381 original size:20 final size:20
Alignment explanation
Indices: 6178321--6178422 Score: 109
Period size: 20 Copynumber: 5.0 Consensus size: 20
6178311 CATATATATG
*
6178321 TATTTAT-TATTATATATTAT
1 TATTTATCTATTA-ATATTTT
* *
6178341 AATTTATCTATTATTTATTTT
1 TATTTATCTATTA-ATATTTT
6178362 TATTTATCTATTAATATTTT
1 TATTTATCTATTAATATTTT
* *
6178382 GATTTATCTTATT-ATTTTTT
1 TATTTATC-TATTAATATTTT
*
6178402 TAATTATCTATTAATATTTT
1 TATTTATCTATTAATATTTT
6178422 T
1 T
6178423 TTTTTTTGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
19 4 0.06
20 38 0.55
21 27 0.39
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (20 bp):
TATTTATCTATTAATATTTT
Found at i:6178411 original size:40 final size:41
Alignment explanation
Indices: 6178324--6178421 Score: 130
Period size: 40 Copynumber: 2.4 Consensus size: 41
6178314 ATATATGTAT
* *
6178324 TTAT-TATTATATATTATAATTTATCTATTATTTATTTTTAT
1 TTATCTATTA-ATATTTTAATTTATCTATTATTTATTTTTAA
*
6178365 TTATCTATTAATATTTTGATTTATCTTATTA-TT-TTTTTAA
1 TTATCTATTAATATTTTAATTTATC-TATTATTTATTTTTAA
6178405 TTATCTATTAATATTTT
1 TTATCTATTAATATTTT
6178422 TTTTTTTTGC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
40 23 0.44
41 19 0.37
42 10 0.19
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (41 bp):
TTATCTATTAATATTTTAATTTATCTATTATTTATTTTTAA
Found at i:6179259 original size:11 final size:12
Alignment explanation
Indices: 6179240--6179276 Score: 58
Period size: 11 Copynumber: 3.1 Consensus size: 12
6179230 AATTGTTTAA
6179240 TATTTTTTATTT
1 TATTTTTTATTT
6179252 TA-TTTTTATTT
1 TATTTTTTATTT
6179263 TATTATTTTATTT
1 TATT-TTTTATTT
6179276 T
1 T
6179277 CTTTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.48
12 3 0.13
13 9 0.39
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:6179270 original size:19 final size:18
Alignment explanation
Indices: 6179240--6179276 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
6179230 AATTGTTTAA
6179240 TATTTTTTATTTTATTTT
1 TATTTTTTATTTTATTTT
6179258 TATTTTATTATTTTATTTT
1 TATTTT-TTATTTTATTTT
6179277 CTTTAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (18 bp):
TATTTTTTATTTTATTTT
Found at i:6179373 original size:58 final size:58
Alignment explanation
Indices: 6179294--6179507 Score: 288
Period size: 58 Copynumber: 3.7 Consensus size: 58
6179284 TAAAATTCAA
* * *
6179294 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAGGCTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
* *
6179352 AAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
* * **
6179410 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAA-TTTTCTTCGAAATTAAATTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT-GAAAATAAGCTTTCT
* * *
6179468 AAAAAA-ATATTGTGGGAAAAAATTGAAAGTATCAATTTTT
1 AAAAAATAT-TTTTGAGAAAAAGTTGAAAGTATCAATTTTT
6179508 TCTGTACAAA
Statistics
Matches: 140, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
57 8 0.06
58 128 0.91
59 4 0.03
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.37
Consensus pattern (58 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
Found at i:6181607 original size:19 final size:19
Alignment explanation
Indices: 6181583--6181620 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6181573 ATCGTGAGCC
6181583 TATGTTATATCAATGTGGG
1 TATGTTATATCAATGTGGG
*
6181602 TATGTTGTATCAATGTGGG
1 TATGTTATATCAATGTGGG
6181621 GATAATACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.29, T:0.42
Consensus pattern (19 bp):
TATGTTATATCAATGTGGG
Found at i:6191028 original size:41 final size:41
Alignment explanation
Indices: 6190983--6191195 Score: 211
Period size: 42 Copynumber: 5.1 Consensus size: 41
6190973 TTAATCGTCA
* **
6190983 AGGAGCAATTTA-TTTTCAAAAGTTATTGAGCCTCTGATTAG
1 AGGAGCTATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAG
* ** *
6191024 AGGAGCTTTGTTTATTTTTCAAAGT--TACAATGCCTCTGTTTAG
1 AGGAGC--TATTTATTTTTCAAAGTCGT-TGA-GCCTCTGATTAG
*
6191067 AGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCTATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
* *
6191108 AGGAGCTGTTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCTATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAG
*
6191150 AAGAG-T-TTTAGTTATTTTCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCTATTTA--T-TTTTCAAAGTCGTTGAGCCTCTGATTAG
6191192 AGGA
1 AGGA
6191196 ACCTCTTATT
Statistics
Matches: 145, Mismatches: 16, Indels: 21
0.80 0.09 0.12
Matches are distributed among these distances:
40 4 0.03
41 49 0.34
42 55 0.38
43 32 0.22
44 5 0.03
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (41 bp):
AGGAGCTATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
Found at i:6191243 original size:60 final size:58
Alignment explanation
Indices: 6191139--6191255 Score: 189
Period size: 60 Copynumber: 2.0 Consensus size: 58
6191129 AGTCGTTGAG
*
6191139 CCTCTGATTAGAAGAGTTTTAGTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAA
1 CCTCTGATTAGAAGAGCTTTAGTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAA
* *
6191197 CCTCTTATTAGAAGAGCTTTATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGA
1 CCTCTGATTAGAAGAGCTTTAGTTA-TTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGA
6191256 GCTTTATTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 22 0.41
59 5 0.09
60 27 0.50
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (58 bp):
CCTCTGATTAGAAGAGCTTTAGTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAA
Found at i:6191296 original size:41 final size:43
Alignment explanation
Indices: 6191197--6191429 Score: 251
Period size: 45 Copynumber: 5.4 Consensus size: 43
6191187 ATTAGAGGAA
* * *
6191197 CCTCTTATTAGAAGAGCTTTATTTACTTTTCAAAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCTTTATTTATTTTTC-AAAGTCGTTGAG
6191241 CCTCTGATTAGAGGAGCTTTATTTA-TTTTCAAAGTCG-TGAG
1 CCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAG
* * * * * *
6191282 TCTCTGATTAGAGGAGCATTGTTTATGTTTTTTAAAATTGTTGAG
1 CCTCTGATTAGAGGAGCTTTATTTA--TTTTTCAAAGTCGTTGAG
*
6191327 CCTCTAATTAGAGGAGCTTTATTTA-TTTTCAAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAG
* *
6191369 CCTCTGATTAGAGGAG-TATTGTTTATATTTTTCAAAGTTGTTGAG
1 CCTCTGATTAGAGGAGCT-TT-ATT-TATTTTTCAAAGTCGTTGAG
*
6191414 CCTGT-ACTTAGAGGAG
1 CCTCTGA-TTAGAGGAG
6191430 TTTTGATCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 17
0.82 0.10 0.09
Matches are distributed among these distances:
41 27 0.17
42 38 0.24
43 7 0.04
44 35 0.22
45 54 0.34
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.41
Consensus pattern (43 bp):
CCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAG
Found at i:6191349 original size:144 final size:143
Alignment explanation
Indices: 6191074--6191341 Score: 366
Period size: 144 Copynumber: 1.9 Consensus size: 143
6191064 TAGAGGAGCA
* *
6191074 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTGTTTACTTTTCAAAAGTCGTTGAG
1 ATTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTATTTACTTTTCAAAAGTCGTTGAG
* *
6191139 CCTCTGATTAGAAGAGTTTTAGTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAACCTCTTA
66 CCTCTGATTAGAAGAGTTTTAGTTATTTTCAAAATCGTTGAGCCTCTAATTAGAGGAACCTCTTA
6191204 TTAGAAGAGCTTT
131 TTAGAAGAGCTTT
6191217 ATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTTA-TTTTC-AAAGTCG-T
1 ATTTACTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGC--TATTTACTTTTCAAAAGTCGTT
* * *
6191279 GAGTCTCTGATTAGAGGAGCATTGTTTATGTT-TTTT-AAAATTGTTGAGCCTCTAATTAGAGGA
63 GAGCCTCTGATTAGA--AG-AGT-TTTA-GTTATTTTCAAAATCGTTGAGCCTCTAATTAGAGGA
6191342 GCTTTATTTA
Statistics
Matches: 110, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
143 25 0.23
144 36 0.33
145 7 0.06
146 31 0.28
147 8 0.07
148 3 0.03
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (143 bp):
ATTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTATTTACTTTTCAAAAGTCGTTGAG
CCTCTGATTAGAAGAGTTTTAGTTATTTTCAAAATCGTTGAGCCTCTAATTAGAGGAACCTCTTA
TTAGAAGAGCTTT
Found at i:6191400 original size:86 final size:87
Alignment explanation
Indices: 6191223--6191429 Score: 310
Period size: 87 Copynumber: 2.4 Consensus size: 87
6191213 CTTTATTTAC
* * *
6191223 TTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTGAGTCTCTG
1 TTTTCAAAA-TTGTTGAGCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCGTGAGCCTCTG
6191288 ATTAGAGGAGCATTGTTTATG-T
65 ATTAGAGGAGCATTGTTTATGAT
*
6191310 TTTTTAAAATTGTTGAGCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTCTG
1 TTTTCAAAATTGTTGAGCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCG-TGAGCCTCTG
*
6191375 ATTAGAGGAGTATTGTTTAT-AT
65 ATTAGAGGAGCATTGTTTATGAT
* * *
6191397 TTTTCAAAGTTGTTGAGCCTGTACTTAGAGGAG
1 TTTTCAAAATTGTTGAGCCTCTAATTAGAGGAG
6191430 TTTTGATCAA
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
86 43 0.39
87 66 0.61
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (87 bp):
TTTTCAAAATTGTTGAGCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCGTGAGCCTCTGA
TTAGAGGAGCATTGTTTATGAT
Found at i:6191651 original size:19 final size:18
Alignment explanation
Indices: 6191627--6191666 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
6191617 TTTTGTTTTT
6191627 TTTATTTTATATTTTTATA
1 TTTATTTTATA-TTTTATA
6191646 TTTATTTTATATTTTATA
1 TTTATTTTATATTTTATA
6191664 TTT
1 TTT
6191667 TTTCTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATTTTATATTTTATA
Found at i:6191728 original size:12 final size:12
Alignment explanation
Indices: 6191698--6191751 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
6191688 ATTATTTATT
*
6191698 TATTTATTACTA
1 TATTTATTAATA
6191710 CTATTTATTAATA
1 -TATTTATTAATA
* *
6191723 TATTTATTTATT
1 TATTTATTAATA
6191735 TATTTATGTTAATA
1 TATTTA--TTAATA
6191749 TAT
1 TAT
6191752 ATTTATTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
12 16 0.47
13 11 0.32
14 7 0.21
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (12 bp):
TATTTATTAATA
Found at i:6191758 original size:4 final size:4
Alignment explanation
Indices: 6191689--6191741 Score: 54
Period size: 4 Copynumber: 13.0 Consensus size: 4
6191679 ATCTTATGTA
* * *
6191689 TTAT TTAT TTAT TTA- TTACT ACTAT TTAT TAAT ATAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTA-T -TTAT TTAT TTAT TTAT TTAT TTAT TTAT
6191738 TTAT
1 TTAT
6191742 GTTAATATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
3 3 0.08
4 34 0.85
5 1 0.03
6 2 0.05
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (4 bp):
TTAT
Found at i:6191790 original size:14 final size:13
Alignment explanation
Indices: 6191772--6191822 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
6191762 ACTTAGCTAT
*
6191772 TTATATATTATCA
1 TTATATATTATAA
*
6191785 -TATATATGTATTA
1 TTATATAT-TATAA
6191798 TTATATATTATAA
1 TTATATATTATAA
*
6191811 TTTATCTATTAT
1 -TTATATATTAT
6191823 TTATTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 7 0.22
13 8 0.25
14 17 0.53
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (13 bp):
TTATATATTATAA
Found at i:6191820 original size:21 final size:21
Alignment explanation
Indices: 6191796--6191895 Score: 89
Period size: 21 Copynumber: 4.9 Consensus size: 21
6191786 ATATATGTAT
*
6191796 TATTATATATTATAATTTATC
1 TATTATATATTTTAATTTATC
* *
6191817 TATTATTTATTTTTATTTATC
1 TATTATATATTTTAATTTATC
* *
6191838 TGTTA-ATATTTTGATTTATC
1 TATTATATATTTTAATTTATC
* * *
6191858 TGATTTTTTCTTTTAA-TTATC
1 T-ATTATATATTTTAATTTATC
*
6191879 TATTA-ATATTTTTATTT
1 TATTATATATTTTAATTT
6191896 GATTTTTATT
Statistics
Matches: 61, Mismatches: 15, Indels: 7
0.73 0.18 0.08
Matches are distributed among these distances:
19 6 0.10
20 19 0.31
21 30 0.49
22 6 0.10
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (21 bp):
TATTATATATTTTAATTTATC
Found at i:6191855 original size:41 final size:40
Alignment explanation
Indices: 6191796--6191912 Score: 112
Period size: 41 Copynumber: 2.8 Consensus size: 40
6191786 ATATATGTAT
* * *
6191796 TATTATATATTATAATTTATCTATTATTTATTTTTATTTATC
1 TATTA-ATATTTTGATTTATCTATTATTT-TTTTTAATTATC
*
6191838 TGTTAATATTTTGATTTATCTGATT-TTTTCTTTTAATTATC
1 TATTAATATTTTGATTTATCT-ATTATTTT-TTTTAATTATC
* *
6191879 TATTAATATTTTTATTTGAT-TTTTATTTCTTTTT
1 TATTAATATTTTGATTT-ATCTATTATTT-TTTTT
6191913 CTTTTTTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
40 3 0.05
41 50 0.79
42 10 0.16
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (40 bp):
TATTAATATTTTGATTTATCTATTATTTTTTTTAATTATC
Found at i:6192807 original size:5 final size:5
Alignment explanation
Indices: 6192797--6192903 Score: 98
Period size: 5 Copynumber: 20.8 Consensus size: 5
6192787 GTTTAATATT
6192797 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTTTA TTTTA --TTA TTTTA TTATT-
1 TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TT-TTA
*
6192847 CTTTA TATTTA TTTTTA TTTTTA TTTTCA TTTTCA TTTTA TTTTA --TTA
1 TTTTA T-TTTA -TTTTA -TTTTA TTTT-A TTTT-A TTTTA TTTTA TTTTA
6192895 TTTTA TTTT
1 TTTTA TTTT
6192904 CTTTAAATAA
Statistics
Matches: 90, Mismatches: 2, Indels: 20
0.80 0.02 0.18
Matches are distributed among these distances:
3 6 0.07
4 2 0.02
5 43 0.48
6 38 0.42
7 1 0.01
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:6192821 original size:6 final size:6
Alignment explanation
Indices: 6192796--6192903 Score: 95
Period size: 6 Copynumber: 18.7 Consensus size: 6
6192786 TGTTTAATAT
*
6192796 TTTTTA -TTTTA -TTTTA -TTTTA TTTTTA TTTTTA -TTTTA TTATT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * * *
6192839 TTATTA TTCTTTA TATTTA TTTTTA TTTTTA TTTTCA TTTTCA -TTTTA
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
6192887 -TTTTA TTATTTTA TTTT
1 TTTTTA -T-TTTTA TTTT
6192904 CTTTAAATAA
Statistics
Matches: 89, Mismatches: 6, Indels: 14
0.82 0.06 0.13
Matches are distributed among these distances:
5 34 0.38
6 45 0.51
7 5 0.06
8 5 0.06
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:6192895 original size:58 final size:55
Alignment explanation
Indices: 6192798--6192908 Score: 170
Period size: 58 Copynumber: 2.0 Consensus size: 55
6192788 TTTAATATTT
*
6192798 TTTATTTTATTTTATTTTATTTTTATTTTTATTTTATTATTTTATTATTCTTTATA
1 TTTATTTTATTTTATTTTATTTTCATTTTTATTTTATTATTTTATT-TTCTTTATA
6192854 TTTATTTTTATTTTTATTTTCATTTTCA-TTTTATTTTATTATTTTATTTTCTTTA
1 TTTA-TTTTA-TTTTATTTT-ATTTTCATTTTTATTTTATTATTTTATTTTCTTTA
6192909 AATAAAATTC
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
56 4 0.08
57 12 0.24
58 29 0.57
59 6 0.12
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (55 bp):
TTTATTTTATTTTATTTTATTTTCATTTTTATTTTATTATTTTATTTTCTTTATA
Found at i:6192984 original size:59 final size:59
Alignment explanation
Indices: 6192921--6193135 Score: 251
Period size: 58 Copynumber: 3.7 Consensus size: 59
6192911 TAAAATTCAA
* * *
6192921 AAAAATATATTTTTGAGGAAAATTTGAAAGTATCAATTTTCCTTGAAAATAGGCTTTCT
1 AAAAATATATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAGGTTTTCT
* * *
6192980 AAAAA-ATATTTTTTGAG-AAAAATTGAAAGTATCAATTTTCTTTAAAAATAAGTTTTC-
1 AAAAATATA-TTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAGGTTTTCT
* * * * * *
6193037 AAAAATGA-ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTTGAATTTTTT
1 AAAAAT-ATATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAG-GTTTTCT
*
6193097 AAAAATATA-TTTTGAAAAAAAATTGAAAGTATCAATTTT
1 AAAAATATATTTTTGAGAAAAAATTGAAAGTATCAATTTT
6193136 TCCTATACAA
Statistics
Matches: 133, Mismatches: 16, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
57 13 0.10
58 66 0.50
59 47 0.35
60 7 0.05
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (59 bp):
AAAAATATATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAGGTTTTCT
Found at i:6193017 original size:27 final size:28
Alignment explanation
Indices: 6192987--6193076 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
6192977 TCTAAAAAAT
6192987 ATTTTTTGAGAAAAA-TTGAAAGTATCA
1 ATTTTTTGAGAAAAAGTTGAAAGTATCA
* * * * *
6193014 ATTTTCTTTAAAAATAAGTTTTCAAA-AATGA
1 ATTTT-TTGAGAAA-AAG--TTGAAAGTATCA
6193045 A-TTTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTTTTGAGAAAAAGTTGAAAGTATCA
6193072 ATTTT
1 ATTTT
6193077 CCTCGAAATT
Statistics
Matches: 46, Mismatches: 10, Indels: 13
0.67 0.14 0.19
Matches are distributed among these distances:
26 5 0.11
27 9 0.20
28 12 0.26
29 8 0.17
30 3 0.07
31 4 0.09
32 5 0.11
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.40
Consensus pattern (28 bp):
ATTTTTTGAGAAAAAGTTGAAAGTATCA
Found at i:6193052 original size:116 final size:117
Alignment explanation
Indices: 6192921--6193135 Score: 308
Period size: 116 Copynumber: 1.8 Consensus size: 117
6192911 TAAAATTCAA
* * * **
6192921 AAAAATATATTTTTGAGGAAAATTTGAAAGTATCAATTTTCCTTGAAAATAGGCTTTCTAAAAAA
1 AAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAGAATTTCTAAAAAA
* *
6192986 TATTTTTTG-AGAAAAATTGAAAGTATCAATTTTCTTTAAAAATAAGTTTTC
66 TATATTTTGAAAAAAAATTGAAAGTATCAATTTTCTTTAAAAATAAGTTTTC
* * * *
6193037 AAAAATGA-ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTTGAATTTTTTAAAA
1 AAAAAT-ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAGAATTTCTAAAAA
6193101 ATATATTTTGAAAAAAAATTGAAAGTATCAATTTT
65 ATATATTTTGAAAAAAAATTGAAAGTATCAATTTT
6193136 TCCTATACAA
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
116 62 0.72
117 24 0.28
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (117 bp):
AAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAGAATTTCTAAAAAA
TATATTTTGAAAAAAAATTGAAAGTATCAATTTTCTTTAAAAATAAGTTTTC
Found at i:6198849 original size:213 final size:212
Alignment explanation
Indices: 6198465--6198947 Score: 485
Period size: 213 Copynumber: 2.3 Consensus size: 212
6198455 AAGTTAAGAA
* * * * * *
6198465 TTAACATAAAACAGTGAGAATTATCATAAAATTAGTATTATCTAACGTAAAATAGTAAGAAGTAT
1 TTAACATAAAAAAGTGAGAATAATTATAAAATTAGTATCAT-TTATGTAAAATA-TAAGAAGTAT
* *
6198530 TCTTATACCTTAAGAAAAAATTTGTAATAATTCTAAACGTAATAAAAAGTAACAACAAACATAAA
64 TCGTATACCTTAAGAAAAAATTTGTAATAATTCTAAACATAATAAAAAGTAACAACAAACATAAA
* *
6198595 AAAAAAATATTGAAACATAATAAATTAATAACGTAAAAAAATCAGTATTATAAATAAAAAATAA-
129 AAAAAAATATTGAAACATAATAAATTAACAACATAAAAAAATCAGTATTATAAATAAAAAATAAT
*
6198659 TTCAATCAAAAAATA-AGTG
194 TTCAACCAAAAAATACA-TG
*
6198678 TTAACATAAAAAAGTGAGAATAATTATAAAATTGGTATCATTTGATGTAAAATATATTAGAAGTA
1 TTAACATAAAAAAGTGAGAATAATTATAAAATTAGTATCATTT-ATGTAAAATATA--AGAAGTA
** * * * * **
6198743 -TCGTATACCTTAAG-AAATTTTTTTGATAATTCTAAACATAATAAAAGGTAAGAACAAATGT-A
63 TTCGTATACCTTAAGAAAAAATTTGTAATAATTCTAAACATAATAAAAAGTAACAACAAACATAA
* *** * * * * *
6198805 AAAGATTTTATTGTAACATAAATATAAGTTGACATCAT-AAAAAATTATTATTATAAATAAAAAA
128 AAAAAAAATATTGAAACAT-AATA-AA-TTAACAACATAAAAAAATCAGTATTATAAATAAAAAA
* *
6198869 TAATTTTGAACCAAAAAGTACATG
190 TAA-TTTCAACCAAAAAATACATG
* * * * *
6198893 TTCACATAAAAAGGTAAGAATAATTGA-AAATTTAGAATCATTTAGTGTAAAATAT
1 TTAACATAAAAAAGTGAGAATAATT-ATAAAATTAGTATCATTTA-TGTAAAATAT
6198948 GTTACAATGT
Statistics
Matches: 222, Mismatches: 37, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
211 15 0.07
212 45 0.20
213 87 0.39
214 14 0.06
215 59 0.27
216 2 0.01
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (212 bp):
TTAACATAAAAAAGTGAGAATAATTATAAAATTAGTATCATTTATGTAAAATATAAGAAGTATTC
GTATACCTTAAGAAAAAATTTGTAATAATTCTAAACATAATAAAAAGTAACAACAAACATAAAAA
AAAAATATTGAAACATAATAAATTAACAACATAAAAAAATCAGTATTATAAATAAAAAATAATTT
CAACCAAAAAATACATG
Found at i:6199424 original size:221 final size:213
Alignment explanation
Indices: 6199126--6199708 Score: 610
Period size: 221 Copynumber: 2.7 Consensus size: 213
6199116 TTTGGCAACA
* * * *
6199126 TAAAAGAATTATTATTACAAATAAATAATAATTCTTAACCAAAAAAT-A-ATGTTAGTATAAAAA
1 TAAAAAAATTATTATTACAAATAAAAAATAATT-TTAAACAAAAAATAAGATGTTA--A-ATAAA
* * *
6199189 ATGTGAGAGTAATCATAAAATTGATATTATTTGACATAAAATAGTTAGAAATGTTGTAATGCTTT
62 AGGTGAAAGTAATCATAAAATTGATATTATTTGACATAAAATAGTTAGAAATGTTGTAATAC-TT
* * * *
6199254 TAGGAAAAAAATTATGATAATCATAAACGTAATGAAATGTAACAACAAGTGTAAAA-AGATATTG
126 TAAGAAAAAAATTATGATAATCATAAACGTAATGAAAAGTAACAACAAATGTAAAAGA-ATATTA
*
6199318 TT-ATAACGTAAATAATTAAGTTAGTAATG
190 TTGA-AACG-AAAT-A--AAGTTA-TAACG
6199347 TAAAAAAAATTATTATTACAAATAAAAAATAATTTTAAACAAAAAATAAGAT-TTAACATAAAAC
1 T-AAAAAAATTATTATTACAAATAAAAAATAATTTTAAACAAAAAATAAGATGTTAA-ATAAAA-
* * * * * *
6199411 GGTGAAAGTAATCATAAAATTGGTATTATTTTACATAAAATAGTTAGAAATATTATTATACCTTA
63 GGTGAAAGTAATCATAAAATTGATATTATTTGACATAAAATAGTTAGAAATGTTGTAATA-CTTT
* * **
6199476 ACCAAAAAAAAATTATAATAATTTTAAACGTAATGAAAAGTAACAACAAATGTAAAAGAATATTA
127 A--AGAAAAAAATTATGATAATCATAAACGTAATGAAAAGTAACAACAAATGTAAAAGAATATTA
*
6199541 TTGAAACGAAATAAATTTATAACG
190 TTGAAACGAAATAAAGTTATAACG
* ** *
6199565 T-AAAAAATTAATATTTTAAAT-AAAAATAATTCTAAATCAAAAAATAAG-TGTTAAAGTAAAAG
1 TAAAAAAATTATTATTACAAATAAAAAATAATTTTAAA-CAAAAAATAAGATGTTAAA-TAAAAG
** * * * *
6199627 AAGAAAATAATCATAAAATTGATATAATTTGACATAAAATATATTTGAAATGTTGTAATAC-TTA
64 GTGAAAGTAATCATAAAATTGATATTATTTGACATAAAATA-GTTAGAAATGTTGTAATACTTTA
6199691 AG-AAAAAATTATGATAAT
128 AGAAAAAAATTATGATAAT
6199709 TTTAAATATA
Statistics
Matches: 307, Mismatches: 42, Indels: 36
0.80 0.11 0.09
Matches are distributed among these distances:
211 15 0.05
212 1 0.00
214 2 0.01
215 53 0.17
216 50 0.16
218 5 0.02
219 5 0.02
220 6 0.02
221 69 0.22
222 39 0.13
223 60 0.20
224 2 0.01
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (213 bp):
TAAAAAAATTATTATTACAAATAAAAAATAATTTTAAACAAAAAATAAGATGTTAAATAAAAGGT
GAAAGTAATCATAAAATTGATATTATTTGACATAAAATAGTTAGAAATGTTGTAATACTTTAAGA
AAAAAATTATGATAATCATAAACGTAATGAAAAGTAACAACAAATGTAAAAGAATATTATTGAAA
CGAAATAAAGTTATAACG
Found at i:6199786 original size:215 final size:215
Alignment explanation
Indices: 6199121--6199884 Score: 667
Period size: 215 Copynumber: 3.5 Consensus size: 215
6199111 ATATTTTTGG
* * * **
6199121 CAACATAAAAGAATTATTATTACAAATAAATAATAATTCTTAACCAAAAAATAA-TGTTAGTATA
1 CAACATAAAA-AATTATTATTACAAATAAAAAATAATTCTAAATCAAAAAATAAGTGTTAACATA
* * *
6199185 AAA-AATGTGAGAGTAATCATAAAATTGATATTATTTGACATAAAATAGTTAGAAATGTTGTAAT
65 AAAGAA--TGAAAATAATCATAAAATTGATATAATTTGACATAAAATAGTTAGAAATGTTGTAAT
* * ** *
6199249 GCTTTTAGGAAAAAAATTATGATAATCATAAACGTAATGAAATGTAACAACAAGTGTAAAAAGAT
128 AC--TTAAG-AAAAAATTATGATAATTTTAAACGTAATAAAATGTAACAACAAGTGT-AAAAGAT
* * *
6199314 ATTGTTATAACGTAAATAATTAAGTTAGTA
189 ATTGTT-GAACATAAATAATTAAATT-G-A
** * *
6199344 -ATGTAAAAAAAATTATTATTACAAATAAAAAATAATTTTAAA-CAAAAAATAAGAT-TTAACAT
1 CA-ACATAAAAAATTATTATTACAAATAAAAAATAATTCTAAATCAAAAAATAAG-TGTTAACAT
* * * * * * * *
6199406 AAAACG-GTGAAAGTAATCATAAAATTGGTATTATTTTACATAAAATAGTTAGAAATATTATTAT
64 AAAA-GAATGAAAATAATCATAAAATTGATATAATTTGACATAAAATAGTTAGAAATGTTGTAAT
* * *
6199470 ACCTTAACCAAAAAAAAATTATAATAATTTTAAACGTAATGAAAA-GTAACAACAAATGTAAAAG
128 A-CTT----AAGAAAAAATTATGATAATTTTAAACGTAAT-AAAATGTAACAACAAGTGTAAAAG
* ** *
6199534 AATATTATTGAA-A-CGA-AA-TAAATTTA
187 -ATATTGTTGAACATAAATAATTAAATTGA
* * * **
6199560 TAACGTAAAAAATTAATATTTTAAAT-AAAAATAATTCTAAATCAAAAAATAAGTGTTAA-AGTA
1 CAACATAAAAAATTATTATTACAAATAAAAAATAATTCTAAATCAAAAAATAAGTGTTAACA-TA
* *
6199623 AAAGAA-GAAAATAATCATAAAATTGATATAATTTGACATAAAATATATTTGAAATGTTGTAATA
65 AAAGAATGAAAATAATCATAAAATTGATATAATTTGACATAAAATA-GTTAGAAATGTTGTAATA
** * * ** * *
6199687 CTTAAGAAAAAATTATGATAATTTTAAATATAATAAAATGCAATAACAAGCATAATAGATTTTGT
129 CTTAAGAAAAAATTATGATAATTTTAAACGTAATAAAATGTAACAACAAGTGTAAAAGATATTGT
6199752 TGCAACATAAATAATTAAATTGA
194 TG-AACATAAATAATTAAATTGA
* * ** * *
6199775 CAACATAAAAAATTATTATTATAAATAATAAAATAATTCTAAATCTAAACTTAACTATTAACATA
1 CAACATAAAAAATTATTATTACAAATAA-AAAATAATTCTAAATCAAAAAATAAGTGTTAACATA
* * *
6199840 AAA-ATATGAGAATAATCTTAAAATTGATATAATTTAACATAAAAT
65 AAAGA-ATGAAAATAATCATAAAATTGATATAATTTGACATAAAAT
6199885 GTGTTAAAAA
Statistics
Matches: 437, Mismatches: 75, Indels: 63
0.76 0.13 0.11
Matches are distributed among these distances:
210 11 0.03
211 42 0.10
212 1 0.00
213 1 0.00
214 2 0.00
215 84 0.19
216 53 0.12
217 34 0.08
218 41 0.09
219 2 0.00
220 3 0.01
221 61 0.14
222 47 0.11
223 51 0.12
224 4 0.01
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (215 bp):
CAACATAAAAAATTATTATTACAAATAAAAAATAATTCTAAATCAAAAAATAAGTGTTAACATAA
AAGAATGAAAATAATCATAAAATTGATATAATTTGACATAAAATAGTTAGAAATGTTGTAATACT
TAAGAAAAAATTATGATAATTTTAAACGTAATAAAATGTAACAACAAGTGTAAAAGATATTGTTG
AACATAAATAATTAAATTGA
Found at i:6199994 original size:934 final size:932
Alignment explanation
Indices: 6198147--6199960 Score: 2102
Period size: 934 Copynumber: 1.9 Consensus size: 932
6198137 GAACAAGTAT
* * * *
6198147 AAAAAAATTATTGTGACATAAATAATATTTTTGGCAACATAAAAGAATTATTGTTACAAATAATT
1 AAAAAAATCATTGTAACATAAATAATATTTTTGGCAACATAAAAGAATTATTATTACAAATAAAT
*
6198212 AATAATTCTAAACCAAAAAATAAGTGTTAGTATAAAAAAAAAAAGGTGAGAGTAATTATAAAATT
66 AATAATTCTAAACCAAAAAATAAGTGTTAGTAT----AAAAAAAGGTGAGAGTAATCATAAAATT
* * * * * *
6198277 AGTATTATTTGATATAAAATTGTTTAAAATGTCGTAACACCTTTAAGAAAAAAGTTGTAATACTT
127 AGTATTATTTGACATAAAATAGTTTAAAATGTCGTAACACCTTTAAGAAAAAAATTATAATAATC
* * * *
6198342 TTAAACGTAATGAAAAGTAACAATAGGCGTAAAAAGATATATTAAAATATAAATAATTAAGTTGA
192 ATAAACGTAATGAAAAGTAACAACAAGCGTAAAAAGATATATTAAAACATAAATAATTAAGTTGA
* ** *
6198407 CGATATAAAAGAACTATTACTACAAATAAAAAAATAATTTTAAGTAAAAAGTTAAGAATTAACAT
257 CGATATAAAAAAACTATTACTACAAATAAAAAAATAATTTTAAACAAAAAGATAAGAATTAACAT
* * * *
6198472 AAAACAGTGAGAATTATCATAAAATTAGTATTATCTAACGTAAAATAGTAAGAAGTATTCTTATA
322 AAAACAGTGAGAATAATCATAAAATTAGTATTATCTAACATAAAATAGTAAGAAATATTATTATA
* * *
6198537 CCTTAAGAAAAAATTTGTAATAATTCTAAACGTAATAAAAAGTAACAACAAACATAAAAAAAAAA
387 CCTTAAAAAAAAAATTATAATAATTCTAAACGTAATAAAAAGTAACAACAAACATAAAAAAAAAA
*
6198602 TATTGAAACATAATAAATTAATAACGTAAAAAAATCAGTATTATAAATAAAAAATAATTCAATCA
452 TATTGAAACATAATAAATTAATAACGTAAAAAAATCAATATTATAAATAAAAAATAATTCAATCA
* * * * **
6198667 AAAAATAAGTGTTAACATAAAAAAGTGAGAATAATTATAAAATTGGTATCATTTGATGTAAAATA
517 AAAAATAAGTGTTAACATAAAAAAG-GAAAATAATCATAAAATTGATATAATTTGACATAAAATA
* *** * *
6198732 TATTAGAAGTATCGTATACCTTAAGAAATTTTTTTGATAATTCTAAACATAATAAAAGGTAAGAA
581 TATTAGAAATATCGTATACCTTAAGAAAAAATTATGATAATTCTAAACATAATAAAAGGCAAGAA
** * * *
6198797 CAAATGTAAAAGATTTTATTGTAACATAAATATAAGTTGACATCATAAAAAATTATTATTATAAA
646 CAAACATAAAAGATTTTATTGCAACATAAATATAAATTGACAACATAAAAAATTATTATTATAAA
* * * * *
6198862 TAAAAAATAATTTTGAACCAAAAAGTACATGTTCACATAAAAAGGTAAGAATAATTGAAAATTTA
711 TAAAAAATAATTCTAAACCAAAAAGTACATATTAACATAAAAAGATAAGAATAATTGAAAATTTA
* *** * * ** * *
6198927 GAATCATTTAGTGTAAAATATGTTACAATGTCATAATGTAAAAGGATAAAAATAGTTACAAAATT
776 GAATAATTTAACATAAAATATGTTAAAATATCATAACATAAAAGGATAAAAACAGTCACAAAATT
* * * * * *
6198992 AGTGTTATTTGACATAAATTGGATTATAAGTGTCATAACACATTAACAAAAAGTTGTGATAATTA
841 AGTATAATTTGACATAAATAGGATTAGAAGTATCATAACACACTAACAAAAAGTTGTG---ATTA
6199057 TAATCGTAATAAAAAGTTGGAATAAATATA
903 TAATCGTAATAAAAAGTTGGAATAAATATA
6199087 AAAAAAATCATTGTAACATAAATAATATTTTTGGCAACATAAAAGAATTATTATTACAAATAAAT
1 AAAAAAATCATTGTAACATAAATAATATTTTTGGCAACATAAAAGAATTATTATTACAAATAAAT
* *
6199152 AATAATTCTTAACCAAAAAATAA-TGTTAGTAT-AAAAAATGTGAGAGTAATCATAAAATT-GAT
66 AATAATTCTAAACCAAAAAATAAGTGTTAGTATAAAAAAAGGTGAGAGTAATCATAAAATTAG-T
* ** * * *
6199214 ATTATTTGACATAAAATAG-TTAGAAATGTTGTAATGCTTTTAGGAAAAAAATTATGATAATCAT
130 ATTATTTGACATAAAATAGTTTA-AAATGTCGTAACACCTTTAAGAAAAAAATTATAATAATCAT
* * * * *
6199278 AAACGTAATGAAATGTAACAACAAGTGTAAAAAGATATTGTTATAACGTAAATAATTAAGTT-A-
194 AAACGTAATGAAAAGTAACAACAAGCGTAAAAAGATA-TATTAAAACATAAATAATTAAGTTGAC
* * * *
6199341 GTAATGTAAAAAAAATTATTATTACAAAT-AAAAAATAATTTTAAACAAAAA-ATAAGATTTAAC
258 G--ATAT-AAAAAAACTATTACTACAAATAAAAAAATAATTTTAAACAAAAAGATAAGAATTAAC
* * * * *
6199404 ATAAAACGGTGA-AAGTAATCATAAAATTGGTATTATTTTACATAAAATAGTTAGAAATATTATT
320 ATAAAACAGTGAGAA-TAATCATAAAATTAGTATTATCTAACATAAAATAGTAAGAAATATTATT
* * **
6199468 ATACCTTAACCAAAAAAAAATTATAATAATTTTAAACGTAATGAAAAGTAACAACAAATGTAAAA
384 ATACCTT-A--AAAAAAAAATTATAATAATTCTAAACGTAATAAAAAGTAACAACAAACATAAAA
* * * * * *
6199533 GAATATTATTGAAACGA-AATAAATTTATAACGT-AAAAAATTAATATTTTAAAT-AAAAATAAT
446 AAAAAATATTGAAAC-ATAATAAATTAATAACGTAAAAAAATCAATATTATAAATAAAAAATAAT
6199595 TCTAAATCAAAAAATAAGTGTTAA-AGTAAAAGAA-GAAAATAATCATAAAATTGATATAATTTG
510 TC--AATCAAAAAATAAGTGTTAACA-TAAAA-AAGGAAAATAATCATAAAATTGATATAATTTG
* * * * *
6199658 ACATAAAATATATTTGAAATGTTGTAATA-CTTAAGAAAAAATTATGATAATTTTAAATATAATA
571 ACATAAAATATATTAGAAATATCGT-ATACCTTAAGAAAAAATTATGATAATTCTAAACATAATA
* * * * *
6199722 AAATGCAATAACAAGCATAATAGATTTTGTTGCAACATAAATAATTAAATTGACAACATAAAAAA
635 AAAGGCAAGAACAAACATAAAAGATTTTATTGCAACATAAAT-A-TAAATTGACAACATAAAAAA
* * ** * *
6199787 TTATTATTATAAATAATAAAATAATTCTAAATCTAAACTTA-ACTATTAACATAAAAATATGAGA
698 TTATTATTATAAATAA-AAAATAATTCTAAACCAAAAAGTACA-TATTAACATAAAAAGATAAGA
* * *
6199851 ATAATCTTAAAA-TT-GATATAATTTAACATAAAATGTGTTAAAAATATCATAACATAAAAATG-
761 ATAAT-TGAAAATTTAGA-ATAATTTAACATAAAATATGTT-AAAATATCATAACAT-AAAAGGA
* * * **
6199913 TGAAAACAGTCATAAAATTATTATAATTTGATGTAAAATAGG-TTAGAA
822 TAAAAACAGTCACAAAATTAGTATAATTTGACAT-AAATAGGATTAGAA
6199961 TTATTGTAAT
Statistics
Matches: 730, Mismatches: 119, Indels: 50
0.81 0.13 0.06
Matches are distributed among these distances:
933 7 0.01
934 176 0.24
935 55 0.08
936 142 0.19
937 103 0.14
938 40 0.05
939 67 0.09
940 129 0.18
941 11 0.02
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (932 bp):
AAAAAAATCATTGTAACATAAATAATATTTTTGGCAACATAAAAGAATTATTATTACAAATAAAT
AATAATTCTAAACCAAAAAATAAGTGTTAGTATAAAAAAAGGTGAGAGTAATCATAAAATTAGTA
TTATTTGACATAAAATAGTTTAAAATGTCGTAACACCTTTAAGAAAAAAATTATAATAATCATAA
ACGTAATGAAAAGTAACAACAAGCGTAAAAAGATATATTAAAACATAAATAATTAAGTTGACGAT
ATAAAAAAACTATTACTACAAATAAAAAAATAATTTTAAACAAAAAGATAAGAATTAACATAAAA
CAGTGAGAATAATCATAAAATTAGTATTATCTAACATAAAATAGTAAGAAATATTATTATACCTT
AAAAAAAAAATTATAATAATTCTAAACGTAATAAAAAGTAACAACAAACATAAAAAAAAAATATT
GAAACATAATAAATTAATAACGTAAAAAAATCAATATTATAAATAAAAAATAATTCAATCAAAAA
ATAAGTGTTAACATAAAAAAGGAAAATAATCATAAAATTGATATAATTTGACATAAAATATATTA
GAAATATCGTATACCTTAAGAAAAAATTATGATAATTCTAAACATAATAAAAGGCAAGAACAAAC
ATAAAAGATTTTATTGCAACATAAATATAAATTGACAACATAAAAAATTATTATTATAAATAAAA
AATAATTCTAAACCAAAAAGTACATATTAACATAAAAAGATAAGAATAATTGAAAATTTAGAATA
ATTTAACATAAAATATGTTAAAATATCATAACATAAAAGGATAAAAACAGTCACAAAATTAGTAT
AATTTGACATAAATAGGATTAGAAGTATCATAACACACTAACAAAAAGTTGTGATTATAATCGTA
ATAAAAAGTTGGAATAAATATA
Found at i:6200222 original size:938 final size:929
Alignment explanation
Indices: 6198078--6200315 Score: 2128
Period size: 940 Copynumber: 2.4 Consensus size: 929
6198068 TTGGTGTCAC
* * * * **
6198078 TTAGAATTATCGTAACAC-CTAACAAAGAGTTGTAATGAATT-TAAATTTAAT-AAAAGT-AAGA
1 TTAGAAGTATCATAACACACTAACAAAAAGTTGTGAT-AATTATAAACGTAATAAAAAGTGAA-A
* * * * ** * *
6198139 ACAA-GTATAAAAAAATTATTGTGACATAAATAATATTTTTGGCAACATAAAAGAATTATTGTTA
64 AAAACATA-AAAAAAATCATTGTAACATAAATAATATTAATAGCAACATAAAAGAATTATTATTA
* * *
6198203 CAAATAATTAATAATTCTAAACCAAAAAATAAGTGTTAGTATAAAAAAAAAAAGGTGAGAGTAAT
128 CAAATAAATAATAATTCT-AACCAAAAAATAA-TGTTA-TAT-----AAAAAATGTGAGAATAAT
* * * * * *
6198268 TATAAAATT-AGTATTATTTGATATAAAATTGTTTA-AAAT-GTCGTAA-CACCTTTAAGAAAAA
185 CATAAAATTGA-TATCATTTGACATAAAATAG-TTAGAAATACT-GTAAGCA--TTTAAAAAAAA
* * * * * * *
6198329 AGTTGTAATACTTTTAAACGTAATGAAAAGTAACAATAGGCGTAAAAAGATA-TATTAAAATATA
245 AGTTGTGATA-TTCTAAACGTAATGAAAAGTAACAACAAGTGTAAAAAGATATTATTATAATGTA
* * * **
6198393 AATAATTAAGTT-G--ACGATATAAAAGAACTATTACTACAAATAAAAAAATAATTTTAAGTAAA
309 AATAATTAAGTTAGTAACG-TA-AAAAAAATTATTATTACAAAT-AAAAAATAATTTTAAACAAA
* * *
6198455 AAGTTAAGAATTAACATAAAACAGTGAGAATTATCATAAAATTAGTATTATCTAACGTAAAATAG
371 AAGATAAGAATTAACATAAAACAGTGAGAATAATCATAAAATTAGTATTATCTAACATAAAATAG
* * * * *
6198520 TAAGAAGTATTCTTATACCTTAAGAAAAAATTTGTAATAATTCTAAACGTAATAAAAAGTAACAA
436 TAAGAAATATTATTATACCTTAAAAAAAAAATTATAATAATTCTAAACGTAATAAAAAGTAACAA
*
6198585 CAAACATAAAAAAAAAATATTGAAACATAATAAATTAATAACGTAAAAAAATCAGTATTATAAAT
501 CAAACATAAAAAAAAAATATTGAAACATAATAAATTAATAACGTAAAAAAATCAATATTATAAAT
* * *
6198650 AAAAAATAATTCAATCAAAAAATAAGTGTTAACATAAAAAAGTGAGAATAATTATAAAATTGGTA
566 AAAAAATAATTCAATCAAAAAATAAGTGTTAACATAAAAAAG-GAAAATAATCATAAAATTGATA
* ** * *** *
6198715 TCATTTGATGTAAAATATATTAGAAGTATCGTATACCTTAAGAAATTTTTTTGATAATTCTAAAC
630 TAATTTGACATAAAATATATTAGAAATATCGTATACCTTAAGAAAAAATTATGATAATTCTAAAC
* ** * * *
6198780 ATAATAAAAGGTAAGAACAAATGTAAAAGATTTTATTGTAACATAAATATAAGTTGACATCATAA
695 ATAATAAAAGGCAAGAACAAACATAAAAGATTTTATTGCAACATAAATATAAATTGACAACATAA
* * * * *
6198845 AAAATTATTATTATAAATAAAAAATAATTTTGAACCAAAAAGTACATGTTCACATAAAAAGGTAA
760 AAAATTATTATTATAAATAAAAAATAATTCTAAACCAAAAAGTACATATTAACATAAAAAGATAA
* *** * * **
6198910 GAATAATTGAAAATTTAGAATCATTTAGTGTAAAATATGTTACAATGTCATAATGTAAAAGGATA
825 GAATAATTGAAAATTTAGAATAATTTAACATAAAATATGTTAAAATATCATAACATAAAAGGATA
* * * * *
6198975 AAAATAGTTACAAAATTAGTGTTATTTGACATAAATTGGA
890 AAAACAGTCACAAAATTAGTATAATTTGACATAAATAGGA
* * * * * *
6199015 TTATAAGTGTCATAACACATTAACAAAAAGTTGTGATAATTATAATCGTAATAAAAAGTTGGAAT
1 TTAGAAGTATCATAACACACTAACAAAAAGTTGTGATAATTATAAACGTAATAAAAAG-TGAAAA
* ** *
6199080 AAATATAAAAAAAATCATTGTAACATAAATAATATTTTTGGCAACATAAAAGAATTATTATTACA
65 AAACATAAAAAAAATCATTGTAACATAAATAATATTAATAGCAACATAAAAGAATTATTATTACA
*
6199145 AATAAATAATAATTCTTAACCAAAAAATAATGTTAGTATAAAAAATGTGAGAGTAATCATAAAAT
130 AATAAATAATAATTC-TAACCAAAAAATAATGTTA-TATAAAAAATGTGAGAATAATCATAAAAT
* ** * * * *
6199210 TGATATTATTTGACATAAAATAGTTAGAAATGTTGTAATGCTTTTAGGAAAAAAA-TTATGATAA
193 TGATATCATTTGACATAAAATAGTTAGAAATACTGTAA-GCATTTA-AAAAAAAAGTTGTGATAT
* * *
6199274 TCATAAACGTAATGAAATGTAACAACAAGTGTAAAAAGATATTGTTATAACGTAAATAATTAAGT
256 TC-TAAACGTAATGAAAAGTAACAACAAGTGTAAAAAGATATTATTATAATGTAAATAATTAAGT
* *
6199339 TAGTAATGTAAAAAAAATTATTATTACAAATAAAAAATAATTTTAAACAAAAA-ATAAGATTTAA
320 TAGTAACGTAAAAAAAATTATTATTACAAATAAAAAATAATTTTAAACAAAAAGATAAGAATTAA
* * * * *
6199403 CATAAAACGGTGA-AAGTAATCATAAAATTGGTATTATTTTACATAAAATAGTTAGAAATATTAT
385 CATAAAACAGTGAGAA-TAATCATAAAATTAGTATTATCTAACATAAAATAGTAAGAAATATTAT
* * **
6199467 TATACCTTAACCAAAAAAAAATTATAATAATTTTAAACGTAATGAAAAGTAACAACAAATGTAAA
449 TATACCTT-A--AAAAAAAAATTATAATAATTCTAAACGTAATAAAAAGTAACAACAAACATAAA
* * * * * *
6199532 AGAATATTATTGAAACGA-AATAAATTTATAACGT-AAAAAATTAATATTTTAAAT-AAAAATAA
511 AAAAAAATATTGAAAC-ATAATAAATTAATAACGTAAAAAAATCAATATTATAAATAAAAAATAA
6199594 TTCTAAATCAAAAAATAAGTGTTAA-AGTAAAAGAA-GAAAATAATCATAAAATTGATATAATTT
575 TTC--AATCAAAAAATAAGTGTTAACA-TAAAA-AAGGAAAATAATCATAAAATTGATATAATTT
* * * * *
6199657 GACATAAAATATATTTGAAATGTTGTAATA-CTTAAGAAAAAATTATGATAATTTTAAATATAAT
636 GACATAAAATATATTAGAAATATCGT-ATACCTTAAGAAAAAATTATGATAATTCTAAACATAAT
* * * * *
6199721 AAAATGCAATAACAAGCATAATAGATTTTGTTGCAACATAAATAATTAAATTGACAACATAAAAA
700 AAAAGGCAAGAACAAACATAAAAGATTTTATTGCAACATAAAT-A-TAAATTGACAACATAAAAA
* * ** * *
6199786 ATTATTATTATAAATAATAAAATAATTCTAAATCTAAACTTA-ACTATTAACATAAAAATATGAG
763 ATTATTATTATAAATAA-AAAATAATTCTAAACCAAAAAGTACA-TATTAACATAAAAAGATAAG
* * *
6199850 AATAATCTTAAAA-TT-GATATAATTTAACATAAAATGTGTTAAAAATATCATAACATAAAAATG
826 AATAAT-TGAAAATTTAGA-ATAATTTAACATAAAATATGTT-AAAATATCATAACAT-AAAAGG
* * * **
6199913 -TGAAAACAGTCATAAAATTATTATAATTTGATGTAAAATAGG-
887 ATAAAAACAGTCACAAAATTAGTATAATTTGACAT-AAATAGGA
* ** * * * * *
6199955 TTAGAATTATTGTAATACCCTAA-AGAAGAGTTGTTATAATTTTAAACGTAATAAAACA-T-AAA
1 TTAGAAGTATCATAACACACTAACA-AAAAGTTGTGATAATTATAAACGTAATAAAA-AGTGAAA
* * * * * * **
6200017 AAAAGCGTGAAAAAATATTATTTTAACGTAAATAATTAGGTTAATAGC-ATA-AAAATTATTATT
64 AAAA-CAT-AAAAAAAATCATTGTAACATAAATAA-TA--TTAATAGCAACATAAAAGAATTATT
* * * *
6200080 ATTATAAATAAA-AATAATTC-AATCAAAAAATAAATGTT-TATGTAAAAATGTGAGAATAATCG
124 ATTACAAATAAATAATAATTCTAACCAAAAAAT-AATGTTATAT-AAAAAATGTGAGAATAATCA
* * *
6200142 TAAAATTTATATCATTTGACATAAAGTTTA-TTAGAAGTACTGTAA-CAATTTAAAAAAAAAGTT
187 TAAAATTGATATCATTTGACATAAA--ATAGTTAGAAATACTGTAAGC-ATTTAAAAAAAAAGTT
* *
6200205 GTGATGATTCTAAACGTAAT-AAAAGATAAGAACAAGTGTAAAAACATATTATTATAATGTAAAT
249 GTGAT-ATTCTAAACGTAATGAAAAG-TAACAACAAGTGTAAAAAGATATTATTATAATGTAAAT
* * *
6200269 AATTAAATTAGTAACGT---AAAAATTATTATTATAAATAAAAAGTAATT
312 AATTAAGTTAGTAACGTAAAAAAAATTATTATTACAAATAAAAAATAATT
6200316 CCACATTAAA
Statistics
Matches: 1071, Mismatches: 178, Indels: 106
0.79 0.13 0.08
Matches are distributed among these distances:
933 6 0.01
934 164 0.15
935 88 0.08
936 144 0.13
937 138 0.13
938 188 0.18
939 96 0.09
940 201 0.19
941 39 0.04
942 2 0.00
943 5 0.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (929 bp):
TTAGAAGTATCATAACACACTAACAAAAAGTTGTGATAATTATAAACGTAATAAAAAGTGAAAAA
AACATAAAAAAAATCATTGTAACATAAATAATATTAATAGCAACATAAAAGAATTATTATTACAA
ATAAATAATAATTCTAACCAAAAAATAATGTTATATAAAAAATGTGAGAATAATCATAAAATTGA
TATCATTTGACATAAAATAGTTAGAAATACTGTAAGCATTTAAAAAAAAAGTTGTGATATTCTAA
ACGTAATGAAAAGTAACAACAAGTGTAAAAAGATATTATTATAATGTAAATAATTAAGTTAGTAA
CGTAAAAAAAATTATTATTACAAATAAAAAATAATTTTAAACAAAAAGATAAGAATTAACATAAA
ACAGTGAGAATAATCATAAAATTAGTATTATCTAACATAAAATAGTAAGAAATATTATTATACCT
TAAAAAAAAAATTATAATAATTCTAAACGTAATAAAAAGTAACAACAAACATAAAAAAAAAATAT
TGAAACATAATAAATTAATAACGTAAAAAAATCAATATTATAAATAAAAAATAATTCAATCAAAA
AATAAGTGTTAACATAAAAAAGGAAAATAATCATAAAATTGATATAATTTGACATAAAATATATT
AGAAATATCGTATACCTTAAGAAAAAATTATGATAATTCTAAACATAATAAAAGGCAAGAACAAA
CATAAAAGATTTTATTGCAACATAAATATAAATTGACAACATAAAAAATTATTATTATAAATAAA
AAATAATTCTAAACCAAAAAGTACATATTAACATAAAAAGATAAGAATAATTGAAAATTTAGAAT
AATTTAACATAAAATATGTTAAAATATCATAACATAAAAGGATAAAAACAGTCACAAAATTAGTA
TAATTTGACATAAATAGGA
Found at i:6200299 original size:21 final size:20
Alignment explanation
Indices: 6200251--6200302 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
6200241 TGTAAAAACA
*
6200251 TATTATTATAATGTAAATAAT
1 TATTATTATAACGTAAA-AAT
*
6200272 TA-AATTAGTAACGTAAAAAT
1 TATTATTA-TAACGTAAAAAT
6200292 TATTATTATAA
1 TATTATTATAA
6200303 ATAAAAAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (20 bp):
TATTATTATAACGTAAAAAT
Found at i:6200528 original size:14 final size:15
Alignment explanation
Indices: 6200503--6200533 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
6200493 GAATTGATAT
6200503 TTTTAAATTAAAAAA
1 TTTTAAATTAAAAAA
6200518 TTTTAAA-TAAAAAA
1 TTTTAAATTAAAAAA
6200532 TT
1 TT
6200534 ACGAACGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTTAAATTAAAAAA
Found at i:6201829 original size:23 final size:23
Alignment explanation
Indices: 6201801--6201850 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6201791 GATAATTTAA
* *
6201801 AATACG-ATATAAGATATAAAAAT
1 AATACGAATAAAAAATAT-AAAAT
6201824 AATACGAATAAAAAATATAAAAT
1 AATACGAATAAAAAATATAAAAT
6201847 AATA
1 AATA
6201851 TAACTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (23 bp):
AATACGAATAAAAAATATAAAAT
Found at i:6202218 original size:25 final size:25
Alignment explanation
Indices: 6202162--6202231 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
6202152 TTCAAGTCCA
*
6202162 ATATTATTTCGTAT-ATTTTAAAAT
1 ATATTATTTAGTATCATTTTAAAAT
*
6202186 AGTGTTATTTAGTATCATTTTAAAGAT
1 A-TATTATTTAGTATCATTTTAAA-AT
6202213 -TATTA-TTA-TATCATTTTAA
1 ATATTATTTAGTATCATTTTAA
6202232 TATTGATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 11 0.28
24 4 0.10
25 15 0.38
26 8 0.20
27 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (25 bp):
ATATTATTTAGTATCATTTTAAAAT
Found at i:6207391 original size:2 final size:2
Alignment explanation
Indices: 6207384--6207410 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6207374 GCATGCATAC
6207384 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6207411 AAAGCGAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6221723 original size:30 final size:30
Alignment explanation
Indices: 6221683--6221740 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6221673 TACTAACCCC
*
6221683 GTGACTCTTTGAAAAAGTGTAACAAAACCA
1 GTGACCCTTTGAAAAAGTGTAACAAAACCA
* * *
6221713 GTGACCCTTTGACACAGTGTAAGAAAAC
1 GTGACCCTTTGAAAAAGTGTAACAAAAC
6221741 TAACTCTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (30 bp):
GTGACCCTTTGAAAAAGTGTAACAAAACCA
Found at i:6244042 original size:3 final size:3
Alignment explanation
Indices: 6244034--6244066 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6244024 CCTCTCTAGG
6244034 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6244067 CACTTTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:6248986 original size:12 final size:12
Alignment explanation
Indices: 6248969--6248994 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6248959 AACACTCTAC
6248969 CAACATGCCACA
1 CAACATGCCACA
6248981 CAACATGCCACA
1 CAACATGCCACA
6248993 CA
1 CA
6248995 GCTGTTGGCA
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:0.42, C:0.42, G:0.08, T:0.08
Consensus pattern (12 bp):
CAACATGCCACA
Found at i:6259371 original size:24 final size:24
Alignment explanation
Indices: 6259327--6259394 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
6259317 ATATATAATT
* *
6259327 TATATTAAAAATAATATT-TATAAA
1 TATATTTAAAATAAAATTAT-TAAA
*
6259351 TATATATTAAATTAAAATTATTAAA
1 TATAT-TTAAAATAAAATTATTAAA
* *
6259376 TTTATTTAAAATATAATTA
1 TATATTTAAAATAAAATTA
6259395 ATTATGATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 17 0.47
25 18 0.50
26 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TATATTTAAAATAAAATTATTAAA
Found at i:6259398 original size:25 final size:27
Alignment explanation
Indices: 6259267--6259396 Score: 92
Period size: 26 Copynumber: 4.8 Consensus size: 27
6259257 TATGTAATAT
*
6259267 TTTA-ATTATAAATATTAATTGAATAAAAA
1 TTTATATTA-AAATA-TAATT-AATATAAA
* **
6259296 TATTATATTTATGTATAATTAATATATAA
1 T-TTATATTAAAATATAATTAATATA-AA
*
6259325 TTTATATTAAAA-ATAA-TATTTATAAA
1 TTTATATTAAAATATAATTA-ATATAAA
* * *
6259351 TATATATTAAATTAAAATT-AT-TAAA
1 TTTATATTAAAATATAATTAATATAAA
6259376 TTTAT-TTAAAATATAATTAAT
1 TTTATATTAAAATATAATTAAT
6259397 TATGATTTTA
Statistics
Matches: 79, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
24 11 0.14
25 10 0.13
26 15 0.19
27 11 0.14
28 14 0.18
29 9 0.11
30 6 0.08
31 3 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TTTATATTAAAATATAATTAATATAAA
Found at i:6259751 original size:16 final size:15
Alignment explanation
Indices: 6259706--6259751 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
6259696 CTCCACTCTT
6259706 TTATTTTTTTTAAAA
1 TTATTTTTTTTAAAA
**
6259721 TTATTTTTAAATAAAA
1 TTATTTTT-TTTAAAA
6259737 TTATTTATTTTTAAA
1 TTATTT-TTTTTAAA
6259752 TTTTTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 8 0.32
16 15 0.60
17 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTTTTTTTAAAA
Found at i:6266107 original size:22 final size:21
Alignment explanation
Indices: 6266069--6266121 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 21
6266059 TTATATAATT
6266069 ATATATTTATATTTAAAAAATA
1 ATAT-TTTATATTTAAAAAATA
6266091 ATATTTTATATTATAAAAAATA
1 ATATTTTATATT-TAAAAAATA
6266113 ATATTTTAT
1 ATATTTTAT
6266122 TAATTTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 8 0.27
22 22 0.73
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTTTATATTTAAAAAATA
Found at i:6283101 original size:6 final size:6
Alignment explanation
Indices: 6283090--6283114 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6283080 AGAAATGTAA
6283090 TGAAAT TGAAAT TGAAAT TGAAAT T
1 TGAAAT TGAAAT TGAAAT TGAAAT T
6283115 CATCTAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (6 bp):
TGAAAT
Found at i:6291267 original size:34 final size:34
Alignment explanation
Indices: 6291224--6291294 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
6291214 AAATATATTC
6291224 TATAGGACGAGAGTAGTCGGATCCATTAATGAAT
1 TATAGGACGAGAGTAGTCGGATCCATTAATGAAT
* **
6291258 TATAGGACGAGAGTAGTTGGATTGATTAATGAAT
1 TATAGGACGAGAGTAGTCGGATCCATTAATGAAT
6291292 TAT
1 TAT
6291295 TTTTCTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (34 bp):
TATAGGACGAGAGTAGTCGGATCCATTAATGAAT
Found at i:6294484 original size:27 final size:27
Alignment explanation
Indices: 6294453--6294509 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
6294443 CTTACTTGGG
6294453 CATTTTAGTTCCTAGGTACATCCTACT
1 CATTTTAGTTCCTAGGTACATCCTACT
6294480 CATTTTAGTTCCTAGGTACATCCTACT
1 CATTTTAGTTCCTAGGTACATCCTACT
6294507 CAT
1 CAT
6294510 GTGATAGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (27 bp):
CATTTTAGTTCCTAGGTACATCCTACT
Found at i:6297881 original size:25 final size:27
Alignment explanation
Indices: 6297853--6297919 Score: 88
Period size: 25 Copynumber: 2.6 Consensus size: 27
6297843 AATCTAATCA
6297853 AGAATATCATTTTATTA-TTTAA-TAT
1 AGAATATCATTTTATTATTTTAATTAT
6297878 AGAAT-T-ACTTTTATTATTTTAATTAT
1 AGAATATCA-TTTTATTATTTTAATTAT
*
6297904 AAAATATCATTTTATT
1 AGAATATCATTTTATT
6297920 GGGCAGAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
23 1 0.03
24 9 0.25
25 10 0.28
26 7 0.19
27 8 0.22
28 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (27 bp):
AGAATATCATTTTATTATTTTAATTAT
Found at i:6298006 original size:2 final size:2
Alignment explanation
Indices: 6297999--6298024 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6297989 TTTCAATGTA
6297999 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
6298025 TAAATTAGCT
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:6298349 original size:27 final size:27
Alignment explanation
Indices: 6298319--6298388 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
6298309 TTTTTGTCTG
6298319 ATTTTTTTTTATTTTTTAAATCAAAAT
1 ATTTTTTTTTATTTTTTAAATCAAAAT
*** * *
6298346 ATTTTTTAAAAATTTTTAAATCTAAAT
1 ATTTTTTTTTATTTTTTAAATCAAAAT
6298373 -TCTTTATTTTTATTTT
1 AT-TTT-TTTTTATTTT
6298389 CTTGTTGATT
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
26 1 0.03
27 25 0.78
28 6 0.19
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (27 bp):
ATTTTTTTTTATTTTTTAAATCAAAAT
Found at i:6300114 original size:3 final size:3
Alignment explanation
Indices: 6300106--6300146 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
6300096 AAAATGAAAA
*
6300106 AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6300147 AGGTTCTGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6305675 original size:18 final size:18
Alignment explanation
Indices: 6305652--6305686 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6305642 TTTCAGGGTC
* *
6305652 TTTTTATTTTTTTTTTAA
1 TTTTTAATTTTCTTTTAA
6305670 TTTTTAATTTTCTTTTA
1 TTTTTAATTTTCTTTTA
6305687 TTATATTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTAATTTTCTTTTAA
Found at i:6309624 original size:7 final size:7
Alignment explanation
Indices: 6309612--6309638 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6309602 TTTTTCTGCT
6309612 TTGTTGA
1 TTGTTGA
6309619 TTGTTGA
1 TTGTTGA
6309626 TTGTTGA
1 TTGTTGA
6309633 TTGTTG
1 TTGTTG
6309639 TCTATTACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.30, T:0.59
Consensus pattern (7 bp):
TTGTTGA
Found at i:6323931 original size:85 final size:86
Alignment explanation
Indices: 6323787--6323964 Score: 322
Period size: 85 Copynumber: 2.1 Consensus size: 86
6323777 AAGTTGGCCG
*
6323787 TGTCATCCAACCCTTTTCTCTATTGTGAGCCAAAATTACATACGGGGATATTGGGGAACCAAATT
1 TGTCATCCAACCCTTTTCTCTATTGTGAGCCAAAATTACATACAGGGATATTGGGGAACCAAATT
6323852 AGGCATATCTACACTTTTCTA
66 AGGCATATCTACACTTTTCTA
*
6323873 TGTCATCCAA-CCTTTTCTCTGTTGTGAGCCAAAATTACATACAGGGATATTGGGGAACCAAATT
1 TGTCATCCAACCCTTTTCTCTATTGTGAGCCAAAATTACATACAGGGATATTGGGGAACCAAATT
*
6323937 AGGCATATTTACACTTTTCTA
66 AGGCATATCTACACTTTTCTA
6323958 TGTCATC
1 TGTCATC
6323965 ATGGGTTGTT
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
85 79 0.89
86 10 0.11
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (86 bp):
TGTCATCCAACCCTTTTCTCTATTGTGAGCCAAAATTACATACAGGGATATTGGGGAACCAAATT
AGGCATATCTACACTTTTCTA
Found at i:6325177 original size:17 final size:17
Alignment explanation
Indices: 6325155--6325188 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6325145 CCCTGCAATC
6325155 TGCAAGGCGTACATTAT
1 TGCAAGGCGTACATTAT
6325172 TGCAAGGCGTACATTAT
1 TGCAAGGCGTACATTAT
6325189 ATAAGTAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (17 bp):
TGCAAGGCGTACATTAT
Found at i:6329485 original size:20 final size:18
Alignment explanation
Indices: 6329452--6329488 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
6329442 GATTTTAGAA
6329452 TATTAATAAAATAAAATT
1 TATTAATAAAATAAAATT
6329470 TATTAATTATAAATAAAAT
1 TATTAA-TA-AAATAAAAT
6329489 AATTAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATTAATAAAATAAAATT
Found at i:6334435 original size:58 final size:60
Alignment explanation
Indices: 6334354--6334518 Score: 187
Period size: 58 Copynumber: 2.8 Consensus size: 60
6334344 TTTGTATTTT
* **
6334354 AAAGAAAATTGATACTTTCAACTTTTCTTTAAAATATTTTTTTTTAA-ATTTTAATT-TC
1 AAAGAAAATTGATACTTTCAACTTTTCTTAAAAATATTTTTTTAAAACATTTTAATTCTC
* * *
6334412 -GAGAAACATTGATACTTTCAACTTTTTCCTAAAAATA-TTTTTTAAAACATTTTTATTCTC
1 AAAGAAA-ATTGATACTTTCAAC-TTTTCTTAAAAATATTTTTTTAAAACATTTTAATTCTC
* * *
6334472 AAAGGAAATTGATACTTTCAAC-TTTCTCTCAAAATATTTTTTGAAAA
1 AAAGAAAATTGATACTTTCAACTTTTCT-TAAAAATATTTTTTTAAAA
6334519 TTTTATTTTA
Statistics
Matches: 89, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
57 5 0.06
58 27 0.30
59 27 0.30
60 26 0.29
61 4 0.04
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.45
Consensus pattern (60 bp):
AAAGAAAATTGATACTTTCAACTTTTCTTAAAAATATTTTTTTAAAACATTTTAATTCTC
Found at i:6334487 original size:60 final size:58
Alignment explanation
Indices: 6334349--6334523 Score: 194
Period size: 59 Copynumber: 3.0 Consensus size: 58
6334339 AAATTTTTGT
* * * **
6334349 ATTTTAAAGAAAATTGATACTTTCAAC-TTTTCTTTAAAATATTTTTTTTTAAATTTTA
1 ATTTCAAAGAAAATTGATACTTTCAACTTTTTCCTAAAAATA-TTTTTTAAAAATTTTA
* *
6334407 ATTTC-GAGAAACATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAAAACATTTTT
1 ATTTCAAAGAAA-ATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAAAA-ATTTTA
* * * *
6334466 ATTCTCAAAGGAAATTGATACTTTCAACTTTCT-CTCAAAATATTTTTTGAAAATTTTA
1 ATT-TCAAAGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAAAAATTTTA
6334524 TTTTAAAATT
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
57 5 0.05
58 32 0.32
59 37 0.37
60 21 0.21
61 4 0.04
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.47
Consensus pattern (58 bp):
ATTTCAAAGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAAAAATTTTA
Found at i:6334584 original size:58 final size:58
Alignment explanation
Indices: 6334522--6334783 Score: 184
Period size: 57 Copynumber: 4.5 Consensus size: 58
6334512 TTGAAAATTT
* * *
6334522 TATTTTAAAATTTTTGTTTTTAAGAAAAATTAATCCTTTCAACTTTTTCCT-AAAAATA
1 TATTTTAAAATTTTTATTTTCAAGAAAAATTAATACTTTCAAC-TTTTCCTCAAAAATA
** * * * **
6334580 TATTTTTTAACCTTTTTATTTCCAATG-AAAATTGATACTTTCAACTTTTCTCCCAAAAACC
1 TA--TTTTAAAATTTTTATTTTCAA-GAAAAATTAATACTTTCAACTTTTC-CTCAAAAATA
** *** * * *
6334641 TATTTT-TTATTTTTGCGTTCAA-AAGAAATTGACACATTCAAC-TTTCCTTCAAAAATA
1 TATTTTAAAATTTTTATTTTCAAGAA-AAATTAATACTTTCAACTTTTCC-TCAAAAATA
* *
6334698 TTTTTTAAAA-TTTTATTTGT-AAGAAAAATTAATACTTTCAACTTTTCTTCAAAAATA
1 TATTTTAAAATTTTTATTT-TCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATA
6334755 TATTTTTTAAAA-TTTTATTTT-AA-AAAAAT
1 TA--TTTTAAAATTTTTATTTTCAAGAAAAAT
6334784 CATTAAAAAG
Statistics
Matches: 157, Mismatches: 33, Indels: 29
0.72 0.15 0.13
Matches are distributed among these distances:
56 1 0.01
57 53 0.34
58 37 0.24
59 25 0.16
60 33 0.21
61 8 0.05
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.47
Consensus pattern (58 bp):
TATTTTAAAATTTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATA
Found at i:6334588 original size:189 final size:189
Alignment explanation
Indices: 6334338--6334715 Score: 445
Period size: 189 Copynumber: 2.0 Consensus size: 189
6334328 AAAGCGTTTG
* * * *
6334338 AAAATTTTTGTATTTTAAAGAAAATTGATACTTTCAACTTTTCTTTAAAATATTTTTTTTTAA-A
1 AAAATTTTTGTATTTTAAAGAAAATTAATACTTTCAACTTTTCCTAAAAATATTATTTTTTAACA
* *
6334402 TTTTAATTT-CGA-GAAACATTGATACTTTCAACTTTT-TCCTAAAAA-TATTTTTTAAAACATT
66 TTTTAATTTCCAATGAAA-ATTGATACTTTCAACTTTTCTCCCAAAAACTATTTTTT-----ATT
* * * *
6334463 TTT-ATTCTCAAAGGAAATTGATACTTTCAACTTT-CTCTC-AAAATATTTTTTGAAAATTTTAT
125 TTTGAGT-TCAAAAGAAATTGACACATTCAACTTTCCT-TCAAAAATATTTTTT-AAAATTTTAT
6334525 TTT
187 TTT
*
6334528 AAAATTTTTGT-TTTT-AAGAAAAATTAATCCTTTCAACTTTTTCCTAAAAATA-TATTTTTTAA
1 AAAATTTTTGTATTTTAAAG-AAAATTAATACTTTCAAC-TTTTCCTAAAAATATTATTTTTTAA
* *
6334590 CCTTTTTATTTCCAATGAAAATTGATACTTTCAACTTTTCTCCCAAAAACCTATTTTTTATTTTT
64 CATTTTAATTTCCAATGAAAATTGATACTTTCAACTTTTCTCCCAAAAA-CTATTTTTTATTTTT
*
6334655 GCGTTCAAAAGAAATTGACACATTCAACTTTCCTTCAAAAATATTTTTTAAAATTTTATTT
128 GAGTTCAAAAGAAATTGACACATTCAACTTTCCTTCAAAAATATTTTTTAAAATTTTATTT
6334716 GTAAGAAAAA
Statistics
Matches: 163, Mismatches: 14, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
188 3 0.02
189 73 0.45
190 46 0.28
191 21 0.13
192 12 0.07
194 8 0.05
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.48
Consensus pattern (189 bp):
AAAATTTTTGTATTTTAAAGAAAATTAATACTTTCAACTTTTCCTAAAAATATTATTTTTTAACA
TTTTAATTTCCAATGAAAATTGATACTTTCAACTTTTCTCCCAAAAACTATTTTTTATTTTTGAG
TTCAAAAGAAATTGACACATTCAACTTTCCTTCAAAAATATTTTTTAAAATTTTATTTT
Found at i:6335356 original size:22 final size:23
Alignment explanation
Indices: 6335308--6335356 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
6335298 AATTTTCTAG
*
6335308 AAAAATAATTGCCAAAAAATTCA
1 AAAAATAATTGCCAAAAAAATCA
*
6335331 AAAAA-AATT-CCTAAAAAAATCT
1 AAAAATAATTGCC-AAAAAAATCA
6335353 AAAA
1 AAAA
6335357 CTATTTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 16 0.70
23 5 0.22
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAAATAATTGCCAAAAAAATCA
Found at i:6335978 original size:43 final size:43
Alignment explanation
Indices: 6335875--6336020 Score: 202
Period size: 43 Copynumber: 3.3 Consensus size: 43
6335865 AAATTTTGAT
* *
6335875 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTT-A-AAAAATAAA
* * *
6335920 CAAAGCTCCTATAAACAGAGGCTTAACAACTTTAAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTAAAAAATAAA
*
6335963 TAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTAAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTAAAAAATAAA
*
6336007 CAAAGCTCTTCTAA
1 CAAAGCTCCTCTAA
6336021 TTTAGAAATA
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
43 34 0.38
44 26 0.29
45 29 0.33
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.21
Consensus pattern (43 bp):
CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTAAAAAATAAA
Found at i:6337134 original size:14 final size:15
Alignment explanation
Indices: 6337103--6337135 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6337093 TTTGAGAAAC
*
6337103 ATAAACAAAGCTCTT
1 ATAAACAAAGCGCTT
6337118 ATAAACAAAG-GCTT
1 ATAAACAAAGCGCTT
6337132 ATAA
1 ATAA
6337136 CTTTGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (15 bp):
ATAAACAAAGCGCTT
Found at i:6337163 original size:42 final size:44
Alignment explanation
Indices: 6337091--6337172 Score: 114
Period size: 42 Copynumber: 1.9 Consensus size: 44
6337081 AGGCTCAACG
* *
6337091 ACTTTGAGAAACATAAACAAAGCTCTTATAAACAAAGGCTTATA
1 ACTTTGAGAAACATAAACAAAACTCCTATAAACAAAGGCTTATA
* *
6337135 ACTTTGA-AAA-ATAAATAAAACTCCTATAAACAGAGGCT
1 ACTTTGAGAAACATAAACAAAACTCCTATAAACAAAGGCT
6337173 CAACGACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 24 0.71
43 3 0.09
44 7 0.21
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (44 bp):
ACTTTGAGAAACATAAACAAAACTCCTATAAACAAAGGCTTATA
Found at i:6337292 original size:44 final size:44
Alignment explanation
Indices: 6337063--6337297 Score: 217
Period size: 44 Copynumber: 5.3 Consensus size: 44
6337053 AAATTTTGAT
* * * *
6337063 CAAAGTTCTTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGA-AAAAATAAA
* * * *
6337108 CAAAGCTCTTATAAACAAAGGCTTATA--ACTTTG-AAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCA-ACGACTTTGAAAAAATAAA
* * *
6337150 TAAAACTCCTATAAACAGAGGCTCAACGACTTTTG-AAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTGAAAAAATAAA
* * * *
6337194 CAAAGCTCTTTTAATCAGAGGCTCAACGATTTTGAAAAAATAAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAAT-AAA
* * * * *
6337239 AAAAGTTCCTCTAAATAGAGGCTCCACGACTTTGAAAAAATGAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAA
*
6337283 CAAAGTTCCTCTAAA
1 CAAAGCTCCTCTAAA
6337298 AGGAGGTAAT
Statistics
Matches: 157, Mismatches: 27, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 28 0.18
43 6 0.04
44 65 0.41
45 56 0.36
46 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (44 bp):
CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAA
Found at i:6337400 original size:41 final size:42
Alignment explanation
Indices: 6337245--6337449 Score: 188
Period size: 42 Copynumber: 4.9 Consensus size: 42
6337235 AAAAAAAAGT
*** ** *
6337245 TCCTCTAAATAGAGGCTCCACG-ACTTTGAAAAAATGAACAAAGT
1 TCCTCTAAATAGAGGCAATA-GAACTTTGAAAAAAT-AA-ATGGC
* * * *
6337289 TCCTCTAAA-AGGAGGTAATAGAACTTT-AGGAGAATAAATAGC
1 TCCTCTAAATA-GAGGCAATAGAACTTTGA-AAAAATAAATGGC
*
6337331 TCCTCTAAATAAAGGCAATAGAACTTTGAAAAAATAAATGGC
1 TCCTCTAAATAGAGGCAATAGAACTTTGAAAAAATAAATGGC
*
6337373 TCCT-TAAATAGA-GCAATATAACATTTG-AAAAATAAATGGC
1 TCCTCTAAATAGAGGCAATAGAAC-TTTGAAAAAATAAATGGC
* *
6337413 TTCTCTAAATAGAGGTAATAGAACTTTGAAAAAATAA
1 TCCTCTAAATAGAGGCAATAGAACTTTGAAAAAATAA
6337450 CTAAGGCTCA
Statistics
Matches: 134, Mismatches: 18, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
40 25 0.19
41 23 0.17
42 56 0.42
43 7 0.05
44 23 0.17
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (42 bp):
TCCTCTAAATAGAGGCAATAGAACTTTGAAAAAATAAATGGC
Found at i:6338496 original size:9 final size:9
Alignment explanation
Indices: 6338482--6338516 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
6338472 CTTTCTTTAT
6338482 TTTTTTTCA
1 TTTTTTTCA
6338491 TTTTTTT-A
1 TTTTTTTCA
6338499 TTTTTTTCA
1 TTTTTTTCA
6338508 TTTTTTTCA
1 TTTTTTTCA
6338517 AGCATAGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:6338511 original size:17 final size:18
Alignment explanation
Indices: 6338467--6338514 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 18
6338457 TCATTTTTCA
*
6338467 TTTTTC-TTTCTTTATTT
1 TTTTTCATTTTTTTATTT
6338484 TTTTTCATTTTTTTA-TT
1 TTTTTCATTTTTTTATTT
6338501 TTTTTCATTTTTTT
1 TTTTTCATTTTTTT
6338515 CAAGCATAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 22 0.76
18 7 0.24
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCATTTTTTTATTT
Found at i:6347354 original size:14 final size:14
Alignment explanation
Indices: 6347335--6347362 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6347325 ATCTCTTTGT
6347335 CTATCCCCATGAGA
1 CTATCCCCATGAGA
6347349 CTATCCCCATGAGA
1 CTATCCCCATGAGA
6347363 TGGGCCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.36, G:0.14, T:0.21
Consensus pattern (14 bp):
CTATCCCCATGAGA
Found at i:6349150 original size:153 final size:152
Alignment explanation
Indices: 6348909--6349214 Score: 558
Period size: 153 Copynumber: 2.0 Consensus size: 152
6348899 GAAAAAAATA
6348909 AAATAAAATAAAAAGAAAGGAATAATGATTCAACTTTTGATATAAATCATTTTCTTTTCATTTAA
1 AAATAAAATAAAAAGAAAGGAATAATGATTCAACTTTTGATATAAATCATTTTCTTTTCATTTAA
* *
6348974 AAGCTCATTGCTTTTGTATAAGAAAAATTGATATTTTCAATTTTTCCTTAAAGCGTTTGAAAATT
66 AAGCTCATTGCTTTTGTACAAGAAAAATTGATATTTTCAACTTTTCCTTAAAGCGTTTGAAAA-T
6349039 TTTTTATTTTAAAGAAAATTGAT
130 TTTTTATTTTAAAGAAAATTGAT
** *
6349062 AAATAAAATAAAAAGAAAGGAATAATGATTCAGTTTTTGATATAAATCCTTTTCTTTTCATTTAA
1 AAATAAAATAAAAAGAAAGGAATAATGATTCAACTTTTGATATAAATCATTTTCTTTTCATTTAA
6349127 AAGCTCATTGCTTTTGTACAAGAAAAATTGATATTTTCAACTTTTCCTTAAAGCGTTTGAAAATT
66 AAGCTCATTGCTTTTGTACAAGAAAAATTGATATTTTCAACTTTTCCTTAAAGCGTTTGAAAATT
6349192 TTTTATTTTAAAGAAAATTGAT
131 TTTTATTTTAAAGAAAATTGAT
6349214 A
1 A
6349215 CTTTCAACTT
Statistics
Matches: 148, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
152 25 0.17
153 123 0.83
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (152 bp):
AAATAAAATAAAAAGAAAGGAATAATGATTCAACTTTTGATATAAATCATTTTCTTTTCATTTAA
AAGCTCATTGCTTTTGTACAAGAAAAATTGATATTTTCAACTTTTCCTTAAAGCGTTTGAAAATT
TTTTATTTTAAAGAAAATTGAT
Done.