Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 10 of 168
Found at i:2861277 original size:43 final size:43
Alignment explanation
Indices: 2861205--2861306 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 43
2861195 ATATCCCGTA
* * *
2861205 ATAATATCCTATAATATCCTATCAGGAATCAAATTGCTAAGAG
1 ATAAAATCCTATAATATCCTATCAAGAATCAAATTGCTAAAAG
* * *
2861248 ATAAAATCTTATAATATCCTATTAAGAATCAATTTGCTAAAAG
1 ATAAAATCCTATAATATCCTATCAAGAATCAAATTGCTAAAAG
* *
2861291 ATAATATCCCATAATA
1 ATAAAATCCTATAATA
2861307 ATATCCTGAC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (43 bp):
ATAAAATCCTATAATATCCTATCAAGAATCAAATTGCTAAAAG
Found at i:2866647 original size:18 final size:16
Alignment explanation
Indices: 2866613--2866657 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
2866603 AGCAATTTAA
*
2866613 TTCTTTTTCTTTTATT
1 TTCTTTTTCTTTCATT
2866629 TTCTTTTTAACTTTCATT
1 TTCTTTTT--CTTTCATT
*
2866647 TTCATTTTCTT
1 TTCTTTTTCTT
2866658 ATTTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 11 0.44
18 14 0.56
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCTTTTTCTTTCATT
Found at i:2866666 original size:13 final size:12
Alignment explanation
Indices: 2866622--2866681 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
2866612 ATTCTTTTTC
2866622 TTTTATTTTCTT
1 TTTTATTTTCTT
* * *
2866634 TTTAACTTTCAT
1 TTTTATTTTCTT
*
2866646 TTTCATTTTCTT
1 TTTTATTTTCTT
*
2866658 ATTTTATTTTATT
1 -TTTTATTTTCTT
2866671 TCTTTATTTTC
1 T-TTTATTTTC
2866682 CTAATCTTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
12 19 0.51
13 18 0.49
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTTTCTT
Found at i:2866671 original size:18 final size:18
Alignment explanation
Indices: 2866622--2866680 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
2866612 ATTCTTTTTC
* *
2866622 TTTTATTTTCTTTT-TAA
1 TTTTATTTTATTTTCTTA
*
2866639 CTTTCATTTTCATTTTCTTA
1 -TTTTATTTT-ATTTTCTTA
2866659 TTTTATTTTA-TTTCTTTA
1 TTTTATTTTATTTTC-TTA
2866677 TTTT
1 TTTT
2866681 CCTAATCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.12
18 16 0.47
19 12 0.35
20 2 0.06
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATTTTATTTTCTTA
Found at i:2868506 original size:20 final size:20
Alignment explanation
Indices: 2868481--2868535 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
2868471 TTTATTTGTT
2868481 TAATTATATATATATATATA
1 TAATTATATATATATATATA
* *
2868501 TAATTA-ATGATATTTAAATA
1 TAATTATAT-ATATATATATA
2868521 TAATT-TATAT-TATAT
1 TAATTATATATATATAT
2868536 GAATTTATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 3 0.10
19 4 0.14
20 22 0.76
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TAATTATATATATATATATA
Found at i:2868530 original size:35 final size:33
Alignment explanation
Indices: 2868491--2868590 Score: 103
Period size: 35 Copynumber: 2.9 Consensus size: 33
2868481 TAATTATATA
2868491 TATATATATATAATTAATGATATTTAAATATAATT
1 TATAT-TATATAATTAATGATATTTAAATATAA-T
* *
2868526 TATATTATATGAATTTATGATAATTAAATTATAAT
1 TATATTATAT-AATTAATGATATTTAAA-TATAAT
* * *
2868561 GATATTATATTATTAAATGA-ATTAAAATAT
1 TATATTATATAATT-AATGATATTTAAATAT
2868591 GCCAATTGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
33 3 0.05
34 13 0.24
35 34 0.62
36 5 0.09
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (33 bp):
TATATTATATAATTAATGATATTTAAATATAAT
Found at i:2868562 original size:25 final size:23
Alignment explanation
Indices: 2868482--2868578 Score: 62
Period size: 24 Copynumber: 4.1 Consensus size: 23
2868472 TTATTTGTTT
2868482 AATTATAT-ATA-TATAT-A-TA
1 AATTATATGATATTATATAATTA
2868501 TAATTA-ATGATATTTAAATATAATTTA
1 -AATTATATGATA-TT--ATATAA-TTA
*
2868528 TATTATATGA-ATTTATGATAATTA
1 AATTATATGATA-TTAT-ATAATTA
*
2868552 AATTATAATGATATTATATTATTA
1 AATTAT-ATGATATTATATAATTA
2868576 AAT
1 AAT
2868579 GAATTAAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
19 2 0.03
20 8 0.13
22 1 0.02
24 23 0.37
25 13 0.21
26 9 0.15
27 6 0.10
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
AATTATATGATATTATATAATTA
Found at i:2870792 original size:22 final size:21
Alignment explanation
Indices: 2870767--2870820 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
2870757 TGCATCTGAT
*
2870767 TCTGATTTGTTCTGCATATGTA
1 TCTGATTTGTTCTGCAT-CGTA
*
2870789 TCTGATCTGTTCTGCATCGTA
1 TCTGATTTGTTCTGCATCGTA
*
2870810 TCTGAATTGTT
1 TCTGATTTGTT
2870821 ACGATAATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.48
Consensus pattern (21 bp):
TCTGATTTGTTCTGCATCGTA
Found at i:2881432 original size:12 final size:12
Alignment explanation
Indices: 2881417--2881447 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2881407 TTCTCTTTTA
2881417 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
2881429 TTTTTCTTTCGC
1 TTTTTCTTTCCC
2881441 TTTTTCT
1 TTTTTCT
2881448 CCCCAGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:2881502 original size:16 final size:18
Alignment explanation
Indices: 2881474--2881517 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
2881464 CAATTCTGTT
2881474 TCTATTCTTAAT-A-AATA
1 TCTATT-TTAATAACAATA
2881491 TCTATTTTAATAACAATA
1 TCTATTTTAATAACAATA
*
2881509 TTTATTTTA
1 TCTATTTTA
2881518 CTTTTGGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 5 0.21
17 7 0.29
18 12 0.50
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (18 bp):
TCTATTTTAATAACAATA
Found at i:2881971 original size:12 final size:11
Alignment explanation
Indices: 2881953--2882022 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 11
2881943 NNNNNNNNNA
2881953 ATAATAATAAT
1 ATAATAATAAT
2881964 AGTAATAATAAT
1 A-TAATAATAAT
*
2881976 ATAATACACAAT
1 ATAATA-ATAAT
**
2881988 AATGGTTAATAATT
1 -AT-AATAATAA-T
*
2882002 ATAATAATTAT
1 ATAATAATAAT
2882013 ATATATAATA
1 ATA-ATAATA
2882023 TTTATGTATA
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
11 10 0.22
12 25 0.56
13 7 0.16
14 3 0.07
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:2885530 original size:35 final size:36
Alignment explanation
Indices: 2885489--2885572 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 36
2885479 TATATATATA
* *
2885489 TATATATATAATAGATACGTATA-GGAGTTTTGTTAT
1 TATATATATAATAGATACATATATGG-GTTTTGGTAT
* *
2885525 T-TATATATAATATATATATATATGGGTTTTGGTAT
1 TATATATATAATAGATACATATATGGGTTTTGGTAT
2885560 TATATATATAATA
1 TATATATATAATA
2885573 TATATGAGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 28 0.67
36 14 0.33
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (36 bp):
TATATATATAATAGATACATATATGGGTTTTGGTAT
Found at i:2885587 original size:35 final size:34
Alignment explanation
Indices: 2885484--2885601 Score: 98
Period size: 35 Copynumber: 3.3 Consensus size: 34
2885474 GTGTATATAT
* * *
2885484 ATATATATATATATAATAGATACGTATAGGAGTTTTG
1 ATAT-TATATATATAATATATATG-AT-GGGGTTTTG
*
2885521 TTATTTATATATAATATATATATAT-AT-GGGTTTTG
1 ATA-TTATATAT-ATA-ATATATATGATGGGGTTTTG
*
2885556 GTATTATATATATAATATATATGAGTGGGGTTTATG
1 ATATTATATATATAATATATATGA-TGGGGTTT-TG
2885592 ATA-TATATAT
1 ATATTATATAT
2885602 GCATGTATAG
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
32 8 0.12
33 4 0.06
34 9 0.13
35 22 0.32
36 4 0.06
37 11 0.16
38 4 0.06
39 6 0.09
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (34 bp):
ATATTATATATATAATATATATGATGGGGTTTTG
Found at i:2885590 original size:28 final size:28
Alignment explanation
Indices: 2885559--2885723 Score: 79
Period size: 28 Copynumber: 5.7 Consensus size: 28
2885549 GGTTTTGGTA
2885559 TTATATATATAATATATATGAGTGGGGT
1 TTATATATATAATATATATGAGTGGGGT
** *
2885587 TTATGATATAT-ATATGCATGTA-T-AGGT
1 TTAT-ATATATAATATATATG-AGTGGGGT
* * *
2885614 GT-TATATATAATATATGTTTAGGTGCATGGGT
1 TTATATATATAATATAT-ATGA-GTG---GGGT
* * * *
2885646 GTTATATGTATAATATATCTGCGT-GGTT
1 -TTATATATATAATATATATGAGTGGGGT
* * * *
2885674 TTGCTATATATAATAGATATGTGTGGGTT
1 TT-ATATATATAATATATATGAGTGGGGT
2885703 TTATTATATATAATATATATG
1 TTA-TATATATAATATATATG
2885724 CGTTTATAGG
Statistics
Matches: 100, Mismatches: 22, Indels: 29
0.66 0.15 0.19
Matches are distributed among these distances:
25 6 0.06
26 6 0.06
27 7 0.07
28 32 0.32
29 29 0.29
32 5 0.05
33 2 0.02
34 13 0.13
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (28 bp):
TTATATATATAATATATATGAGTGGGGT
Found at i:2886166 original size:18 final size:18
Alignment explanation
Indices: 2886145--2886179 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2886135 TGGTGATCTG
2886145 TATTAATATGACAAACTT
1 TATTAATATGACAAACTT
* *
2886163 TATTAATTTGCCAAACT
1 TATTAATATGACAAACT
2886180 ATGTATTGTG
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:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (18 bp):
TATTAATATGACAAACTT
Found at i:2886720 original size:22 final size:22
Alignment explanation
Indices: 2886693--2886735 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2886683 TATCCAATAT
2886693 GTGGTGATAGAGTCACTTATAG
1 GTGGTGATAGAGTCACTTATAG
*
2886715 GTGGTGATAGAGTCCCTTATA
1 GTGGTGATAGAGTCACTTATA
2886736 TGTTTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.33
Consensus pattern (22 bp):
GTGGTGATAGAGTCACTTATAG
Found at i:2888348 original size:61 final size:58
Alignment explanation
Indices: 2888278--2888393 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 58
2888268 AGTGATTATC
*
2888278 TTAATATTAAAT-TAAAT-TAAATATTTATCCTGTAGATAAGTATTCTATTAATTTAATAGAT
1 TTAATATTAAATAT-AATCT-AATATTTATCC--T-GATAAGTATTATATTAATTTAATAGAT
2888339 TTAATATTAAATATAATCTAATATTTATCCTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATATAATCTAATATTTATCCTGATAAGTATTATATTAATTTAATA
2888394 TTAAAGTGAT
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
58 23 0.44
59 1 0.02
61 26 0.50
62 2 0.04
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (58 bp):
TTAATATTAAATATAATCTAATATTTATCCTGATAAGTATTATATTAATTTAATAGAT
Found at i:2888352 original size:68 final size:67
Alignment explanation
Indices: 2888212--2888352 Score: 144
Period size: 68 Copynumber: 2.1 Consensus size: 67
2888202 TAATAGTTTT
* * * * *
2888212 AATATTAAATTTAATTTAATAATTATCTTAATAATATTTTATTAATTTAATATTATAGTGATTAT
1 AATATTAAATTAAATTAAATAATTATCTTAATAATATTCTATTAATTTAATATGATA-TGAATAT
*
2888277 CTT
65 CTA
* *
2888280 AATATTAAATTAAATTAAATATTTATCCTGTAGATAAGTATTCTATTAATTTAATA-GAT-TTAA
1 AATATTAAATTAAATTAAATAATTAT-CT-TA-ATAA-TATTCTATTAATTTAATATGATATGAA
2888343 TAT-TA
62 TATCTA
2888348 AATAT
1 AATAT
2888353 AATCTAATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
68 29 0.48
69 7 0.11
70 2 0.03
71 6 0.10
72 17 0.28
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (67 bp):
AATATTAAATTAAATTAAATAATTATCTTAATAATATTCTATTAATTTAATATGATATGAATATC
TA
Found at i:2891065 original size:24 final size:24
Alignment explanation
Indices: 2891037--2891084 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2891027 AATTAAAAAC
2891037 ATAAAGATAATTTGTATTCATGTT
1 ATAAAGATAATTTGTATTCATGTT
2891061 ATAAAGATAATTTGTATTCATGTT
1 ATAAAGATAATTTGTATTCATGTT
2891085 TGTCAACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (24 bp):
ATAAAGATAATTTGTATTCATGTT
Found at i:2891830 original size:27 final size:27
Alignment explanation
Indices: 2891789--2891857 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
2891779 AAATGAAAAG
*
2891789 GGGGTTGCTATGTGCTGATTCCCCCGA-
1 GGGGTTGCTAAGTGCTGATT-CCCCGAT
2891816 GGGGTTGCTAAGTGCTGATTCCCCGAT
1 GGGGTTGCTAAGTGCTGATTCCCCGAT
2891843 GGTGG-TGCTAAGTGC
1 GG-GGTTGCTAAGTGC
2891858 GGGATCCACC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 6 0.15
27 31 0.79
28 2 0.05
ACGTcount: A:0.13, C:0.22, G:0.36, T:0.29
Consensus pattern (27 bp):
GGGGTTGCTAAGTGCTGATTCCCCGAT
Found at i:2893982 original size:42 final size:42
Alignment explanation
Indices: 2893921--2894004 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
2893911 ATACATAAAA
* *
2893921 TTTAAAACATAATATAACAATTAACCAATTTAATTATTAATC
1 TTTAAAACATAATAGAACAATTAACCAATTTAATCATTAATC
2893963 TTTAAAACATAATAGAACAATTAACCAATTTAATCATTAATC
1 TTTAAAACATAATAGAACAATTAACCAATTTAATCATTAATC
2894005 ATACTCGTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.50, C:0.13, G:0.01, T:0.36
Consensus pattern (42 bp):
TTTAAAACATAATAGAACAATTAACCAATTTAATCATTAATC
Found at i:2896400 original size:21 final size:23
Alignment explanation
Indices: 2896376--2896420 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
2896366 TAGTTTTAGG
*
2896376 TTTAG-TTTTCTCTAGA-TTTTC
1 TTTAGTTTTTCTCTACACTTTTC
2896397 TTTAGTTTTTCTCTACACTTTTC
1 TTTAGTTTTTCTCTACACTTTTC
2896420 T
1 T
2896421 AGGGTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 10 0.48
23 6 0.29
ACGTcount: A:0.13, C:0.18, G:0.07, T:0.62
Consensus pattern (23 bp):
TTTAGTTTTTCTCTACACTTTTC
Found at i:2900143 original size:6 final size:6
Alignment explanation
Indices: 2900132--2900158 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2900122 CGATTCTAGC
2900132 CCAATT CCAATT CCAATT CCAATT CCA
1 CCAATT CCAATT CCAATT CCAATT CCA
2900159 TCCTTGGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (6 bp):
CCAATT
Found at i:2901327 original size:107 final size:107
Alignment explanation
Indices: 2901136--2901346 Score: 323
Period size: 107 Copynumber: 2.0 Consensus size: 107
2901126 ACTATCCAAA
*
2901136 AAGATTTTCTAAATAAGCCAATATTTCGCGTTTAGAAATTCGAGAAAACGTGCCCTAACGTGCTG
1 AAGATTTTCTAAACAAGCCAATATTTCGCGTTTAGAAATTCGAGAAAACGTGCCCTAACGTGCTG
*
2901201 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTC
66 GGTTTCGATTTCTCATTCGACCAAATAGCCAAATATCCTTTC
* * * * * * *
2901243 AAGATTTTCTAAACGAGGCAATGTTTTGCGTTTGGAAGTTCGAGAAAACGTGCTCTAACGTGCTG
1 AAGATTTTCTAAACAAGCCAATATTTCGCGTTTAGAAATTCGAGAAAACGTGCCCTAACGTGCTG
* *
2901308 GGTTTCGATTTCTTATTCGACTAAATAGCCAAATATCCT
66 GGTTTCGATTTCTCATTCGACCAAATAGCCAAATATCCT
2901347 CTTAAAACTT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
107 93 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (107 bp):
AAGATTTTCTAAACAAGCCAATATTTCGCGTTTAGAAATTCGAGAAAACGTGCCCTAACGTGCTG
GGTTTCGATTTCTCATTCGACCAAATAGCCAAATATCCTTTC
Found at i:2904281 original size:19 final size:17
Alignment explanation
Indices: 2904249--2904290 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
2904239 TAATTTTTTT
2904249 TTATTTTTAATATTATA
1 TTATTTTTAATATTATA
*
2904266 TTATTCTTTAA-A-TATT
1 TTATT-TTTAATATTATA
2904282 TTATTTTTA
1 TTATTTTTA
2904291 CTTCTTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 6 0.26
18 5 0.22
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTTTAATATTATA
Found at i:2908104 original size:32 final size:33
Alignment explanation
Indices: 2908061--2908140 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
2908051 TTGTCTTGAT
2908061 GGAACTGTTGCTTACTGT-TGAGT-ATCTTCCAG
1 GGAACTGTTGCTTACTGTCTGA-TCATCTTCCAG
* * *
2908093 GTAACTGTTGCTTA-TTTCTTATCATCTTCCAG
1 GGAACTGTTGCTTACTGTCTGATCATCTTCCAG
2908125 GGAACTGTTGCTTACT
1 GGAACTGTTGCTTACT
2908141 ACTTACTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 3 0.07
32 37 0.90
33 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (33 bp):
GGAACTGTTGCTTACTGTCTGATCATCTTCCAG
Found at i:2910337 original size:22 final size:22
Alignment explanation
Indices: 2910309--2910350 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2910299 TTTTGTTGCC
2910309 ATTTTGTTATTATATTGATACT
1 ATTTTGTTATTATATTGATACT
* *
2910331 ATTTTGTTATTGTTTTGATA
1 ATTTTGTTATTATATTGATA
2910351 TTGTATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.62
Consensus pattern (22 bp):
ATTTTGTTATTATATTGATACT
Found at i:2914270 original size:115 final size:114
Alignment explanation
Indices: 2913881--2914272 Score: 345
Period size: 116 Copynumber: 3.4 Consensus size: 114
2913871 TCATATGCAA
* * * *
2913881 GGTTTGAGTACTTTATTTCACTTAGGTAGAGATATGATCTCCCTA-T--TA--G-ATAGCTCCCC
1 GGTTTGAGTAATTTACTTCACTTAGGTAGAGATATGATCTCCCTAGTGAAAGTGAATAACTCCCC
** * *
2913940 TAGCCGCA-ATTATGATAGCTCAAAATTTGGCCGCTAATAAATTATATGCAG
66 TAG-C-CATAGCATGATAGCTCAAAATTTGGCCACTAAT-AATTATATACAG
* * *
2913991 GGTTT-AATAAATTTACTTCACTTAGGTAGAGATGTGATATCCCTAGTGAAAGTGAATAACTCCC
1 GGTTTGAGT-AATTTACTTCACTTAGGTAGAGATATGATCTCCCTAGTGAAAGTGAATAACTCCC
* * * * * * * *
2914055 TTAACTATAGCTGTGCTCA-CTCAAAACTTGGCCACTAATAATCCATATACAA
65 CTAGCCATAGC-ATGAT-AGCTCAAAATTTGGCCACTAATAAT-TATATACAG
** * * * * *
2914107 GGCCTAAGAAATTTATTTCACTTAGGTAGAGATGTGATCTTCGC-AGTGAAAGTGAATAACTCCC
1 GGTTTGAGTAATTTACTTCACTTAGGTAGAGATATGATC-TCCCTAGTGAAAGTGAATAACTCCC
* * * * *
2914171 CTAGCCATAGCATGATTGTTCAAATTTTGGCCACTATTAAGTTATATATAG
65 CTAGCCATAGCATGATAGCTCAAAATTTGGCCACTAATAA-TTATATACAG
*
2914222 GGTTTGAGTAATTTACTTCACTTAGGTAAAGATATGATCTCCCTAGTGAAA
1 GGTTTGAGTAATTTACTTCACTTAGGTAGAGATATGATCTCCCTAGTGAAA
2914273 ATGGATAATC
Statistics
Matches: 219, Mismatches: 47, Indels: 27
0.75 0.16 0.09
Matches are distributed among these distances:
109 2 0.01
110 37 0.17
111 1 0.00
113 1 0.00
114 4 0.02
115 72 0.33
116 97 0.44
117 5 0.02
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (114 bp):
GGTTTGAGTAATTTACTTCACTTAGGTAGAGATATGATCTCCCTAGTGAAAGTGAATAACTCCCC
TAGCCATAGCATGATAGCTCAAAATTTGGCCACTAATAATTATATACAG
Found at i:2919445 original size:38 final size:39
Alignment explanation
Indices: 2919398--2919473 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 39
2919388 GCCTTAATAA
*
2919398 TGAATTGCTATATTTTGAATGATGTACCAACTAAGATTT
1 TGAATTGCTATATTTTGAATGATATACCAACTAAGATTT
2919437 TGAA-TGCTATATTTTGAATGATATACCAACTAAGATT
1 TGAATTGCTATATTTTGAATGATATACCAACTAAGATT
2919474 GCATCTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 32 0.89
39 4 0.11
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (39 bp):
TGAATTGCTATATTTTGAATGATATACCAACTAAGATTT
Found at i:2926609 original size:18 final size:19
Alignment explanation
Indices: 2926572--2926611 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2926562 TTTCTATGTG
* *
2926572 ATATAAAGAATTACATAAT
1 ATATAAAGAATAAAATAAT
2926591 ATATAAA-AATAAAATAAT
1 ATATAAAGAATAAAATAAT
2926609 ATA
1 ATA
2926612 CTACATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
ATATAAAGAATAAAATAAT
Found at i:2940655 original size:26 final size:25
Alignment explanation
Indices: 2940604--2940653 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 25
2940594 TTTAGAAACA
2940604 AAGAAAACAAAAAAAAAACTAAAAG
1 AAGAAAACAAAAAAAAAACTAAAAG
2940629 AAGAAAATCAAGAATAAAAAA-TAAA
1 AAGAAAA-CAA-AA-AAAAAACTAAA
2940654 GATTCAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.32
26 3 0.14
27 6 0.27
28 6 0.27
ACGTcount: A:0.78, C:0.06, G:0.08, T:0.08
Consensus pattern (25 bp):
AAGAAAACAAAAAAAAAACTAAAAG
Found at i:2941292 original size:42 final size:42
Alignment explanation
Indices: 2941244--2941386 Score: 164
Period size: 43 Copynumber: 3.4 Consensus size: 42
2941234 AGACTAAGAC
* *
2941244 CTTTAGCGGCGCTTTAGTG-TAAGCGCCTCTAAAGATCAGGGT
1 CTTTAGCGGCGCTTT-GTGAAAAGCGCCACTAAAGATCAGGGT
2941286 CTTTAGCGGCG-TTTGTGGAAAAAGCGCCACTAAAGATCAGGGT
1 CTTTAGCGGCGCTTTGT-G-AAAAGCGCCACTAAAGATCAGGGT
* * * * *
2941329 CTTTAGCGGCGTTTTTGCGCAAAGCGCCGCTAAAGATTAGGGT
1 CTTTAGCGGCG-CTTTGTGAAAAGCGCCACTAAAGATCAGGGT
*
2941372 CATTAGCGGCGCTTT
1 CTTTAGCGGCGCTTT
2941387 TCCCACAAAC
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
40 2 0.02
41 4 0.05
42 14 0.16
43 63 0.72
44 1 0.01
45 4 0.05
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTGTGAAAAGCGCCACTAAAGATCAGGGT
Found at i:2941400 original size:43 final size:43
Alignment explanation
Indices: 2941267--2941578 Score: 238
Period size: 43 Copynumber: 7.3 Consensus size: 43
2941257 TTAGTGTAAG
* * * ** *
2941267 CGCCTCTAAAGATCAGGGTCTTTAGCGGCG-TTTGT-GGAAAAA
1 CGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTT-TCCCACAAA
* * * * * *
2941309 GCGCCACTAAAGATCAGGGTCTTTAGCGGCGTTTTTGCGCA-AAG
1 -CGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTTT-CCCACAAA
** * *
2941353 CGCCGCTAAAGATTAGGGTCATTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCACAAA
* ** * *** *
2941396 CGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCACATA
1 CGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCACAAA
* *
2941439 CGCCACTAAAGAACCTA--ATCTTTAGCGGCGCTTTCCCCACAAA
1 CGCCGCTAAAG-ACC-AGGATCTTTAGCGGCGCTTTTCCCACAAA
* * *
2941482 CGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAA
1 CGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCACAAA
** * *
2941525 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTTACCAAAAA
1 CGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCACAAA
*
2941568 CGCCACTAAAG
1 CGCCGCTAAAG
2941579 GCCAACACCT
Statistics
Matches: 223, Mismatches: 38, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
41 1 0.00
42 6 0.03
43 206 0.92
44 8 0.04
45 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (43 bp):
CGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCACAAA
Found at i:2941569 original size:86 final size:86
Alignment explanation
Indices: 2941374--2941620 Score: 287
Period size: 86 Copynumber: 2.9 Consensus size: 86
2941364 ATTAGGGTCA
* * * * *** *
2941374 TTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCACATA
1 TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAA
2941439 CGCCACTAAAGAACCTAATCT
66 CGCCACTAAAGAACCTAATCT
*
2941460 TTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAA
1 TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAA
* * *
2941525 CGCCGCTAAAGACCCTGATCT
66 CGCCACTAAAGAACCTAATCT
* * * * ** * * ** *
2941546 TTAGCGGCGCTTTTACCAAAAACGCCACTAAAGGCCAACACCTTTAGTGGCGTTTTTTAAAAAAA
1 TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAA
2941611 CGCCACTAAA
66 CGCCACTAAA
2941621 TTTGGCAGAT
Statistics
Matches: 136, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 136 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (86 bp):
TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAA
CGCCACTAAAGAACCTAATCT
Found at i:2941591 original size:43 final size:43
Alignment explanation
Indices: 2941310--2941620 Score: 223
Period size: 43 Copynumber: 7.2 Consensus size: 43
2941300 GTGGAAAAAG
* * * * * *
2941310 CGCCACTAAAGATCAGGGTCTTTAGCGGCGTTTTTGCGCA-AAG
1 CGCCACTAAAGACCAAGATCTTTAGCGGCGCTTTTAC-CACAAA
* ** * * * *
2941353 CGCCGCTAAAGATTAGGGTCATTAGCGGCGCTTTTCCCACAAA
1 CGCCACTAAAGACCAAGATCTTTAGCGGCGCTTTTACCACAAA
* * ** * ** *
2941396 CGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCACATA
1 CGCCACTAAAGACCAAGATCTTTAGCGGCGCTTTTACCACAAA
* **
2941439 CGCCACTAAAGAACCTA-ATCTTTAGCGGCGCTTTCCCCACAAA
1 CGCCACTAAAG-ACCAAGATCTTTAGCGGCGCTTTTACCACAAA
* * * *
2941482 CGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAA
1 CGCCACTAAAGACCAAGATCTTTAGCGGCGCTTTTACCACAAA
* ** *
2941525 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTTACCAAAAA
1 CGCCACTAAAGACCAAGATCTTTAGCGGCGCTTTTACCACAAA
* * * * * * *
2941568 CGCCACTAAAGGCCAACACCTTTAGTGGCGTTTTTTA-AAAAAA
1 CGCCACTAAAGACCAAGATCTTTAGCGGCG-CTTTTACCACAAA
2941611 CGCCACTAAA
1 CGCCACTAAA
2941621 TTTGGCAGAT
Statistics
Matches: 218, Mismatches: 46, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
42 5 0.02
43 205 0.94
44 8 0.04
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (43 bp):
CGCCACTAAAGACCAAGATCTTTAGCGGCGCTTTTACCACAAA
Found at i:2941612 original size:129 final size:129
Alignment explanation
Indices: 2941374--2941620 Score: 307
Period size: 129 Copynumber: 1.9 Consensus size: 129
2941364 ATTAGGGTCA
* *
2941374 TTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCACATA
1 TTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCAAAAA
* * ** * *
2941439 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGATCT
66 CGCCACTAAAGAACCAAACCTTTAGCGGCGCTTTCCAAAAAAACGCCACTAAAGACCATGATCT
* * * * **
2941503 TTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTTACCAAAAA
1 TTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCAAAAA
* * * **
2941568 CGCCACTAAAG-GCCAACACCTTTAGTGGCGTTTTTTAAAAAAACGCCACTAAA
66 CGCCACTAAAGAACCAA-ACCTTTAGCGGCGCTTTCCAAAAAAACGCCACTAAA
2941621 TTTGGCAGAT
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
128 3 0.03
129 95 0.97
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (129 bp):
TTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCAAAAA
CGCCACTAAAGAACCAAACCTTTAGCGGCGCTTTCCAAAAAAACGCCACTAAAGACCATGATCT
Found at i:2941961 original size:21 final size:21
Alignment explanation
Indices: 2941928--2941999 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
2941918 TTTGACGCTG
*
2941928 CTCTTCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
* **
2941949 CTCTACTTGCCTCGCTATAGC
1 CTCTACTTCCCTCGCTGCAGC
* *
2941970 CTCTGCTTCCCTCACTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
*
2941991 CTGTACTTC
1 CTCTACTTC
2942000 TCTAGTTGCC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.10, C:0.43, G:0.14, T:0.33
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:2942013 original size:21 final size:21
Alignment explanation
Indices: 2941984--2942032 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
2941974 GCTTCCCTCA
* *
2941984 CTGCAGCCTGTACTTCTCTAG
1 CTGCCGCCTCTACTTCTCTAG
* * *
2942005 TTGCCGCCTCTGCTTCTCTTG
1 CTGCCGCCTCTACTTCTCTAG
2942026 CTGCCGC
1 CTGCCGC
2942033 ATCTGCTTTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.06, C:0.39, G:0.20, T:0.35
Consensus pattern (21 bp):
CTGCCGCCTCTACTTCTCTAG
Found at i:2942037 original size:21 final size:21
Alignment explanation
Indices: 2941996--2942040 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2941986 GCAGCCTGTA
* *
2941996 CTTCTCTAGTTGCCGCCTCTG
1 CTTCTCTAGCTGCCGCATCTG
*
2942017 CTTCTCTTGCTGCCGCATCTG
1 CTTCTCTAGCTGCCGCATCTG
2942038 CTT
1 CTT
2942041 TAAGCTGCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.38, G:0.18, T:0.40
Consensus pattern (21 bp):
CTTCTCTAGCTGCCGCATCTG
Found at i:2942101 original size:66 final size:66
Alignment explanation
Indices: 2942011--2942176 Score: 219
Period size: 66 Copynumber: 2.5 Consensus size: 66
2942001 CTAGTTGCCG
* * *
2942011 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTTCG-T
2942074 GAA
64 GAA
* *
2942077 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTGTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTCGTGA
2942142 A
66 A
* * * *
2942143 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG
2942177 TTGTGTAATT
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 1 0.01
66 83 0.93
67 5 0.06
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTCGTGA
A
Found at i:2947613 original size:9 final size:9
Alignment explanation
Indices: 2947577--2947797 Score: 120
Period size: 9 Copynumber: 26.3 Consensus size: 9
2947567 AATTGCACGG
2947577 GTAAGTTAT
1 GTAAGTTAT
*
2947586 GT-A-TTGT
1 GTAAGTTAT
*
2947593 GTAAGCTAT
1 GTAAGTTAT
*
2947602 GTAAGTTGT
1 GTAAGTTAT
2947611 GT-A-TTAT
1 GTAAGTTAT
2947618 GTAAGTTAT
1 GTAAGTTAT
2947627 -T-A-TTAT
1 GTAAGTTAT
2947633 GCTTTAAGTTAT
1 G---TAAGTTAT
*
2947645 GTAAGTAAT
1 GTAAGTTAT
2947654 GT-A-TTAT
1 GTAAGTTAT
*
2947661 GTAAGTTGT
1 GTAAGTTAT
*
2947670 GTAA--AAT
1 GTAAGTTAT
*
2947677 GTTAGTTAT
1 GTAAGTTAT
**
2947686 CAAAGTTAT
1 GTAAGTTAT
2947695 GT-A-TTAT
1 GTAAGTTAT
2947702 GTAAGTTAT
1 GTAAGTTAT
*
2947711 TTAAGTTAT
1 GTAAGTTAT
*
2947720 GTAA--CAT
1 GTAAGTTAT
*
2947727 GTAAATTAT
1 GTAAGTTAT
*
2947736 GTAAGTTGT
1 GTAAGTTAT
*
2947745 GT-A-TAAT
1 GTAAGTTAT
*
2947752 GTTAGTTAT
1 GTAAGTTAT
**
2947761 CAAAGTTAT
1 GTAAGTTAT
2947770 GT-A-TTAT
1 GTAAGTTAT
2947777 GTAAGTTAT
1 GTAAGTTAT
*
2947786 TTAAGTTAT
1 GTAAGTTAT
2947795 GTA
1 GTA
2947798 GGCTATGTAT
Statistics
Matches: 156, Mismatches: 34, Indels: 44
0.67 0.15 0.19
Matches are distributed among these distances:
6 4 0.03
7 42 0.27
8 13 0.08
9 90 0.58
10 1 0.01
11 1 0.01
12 5 0.03
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:2947685 original size:25 final size:25
Alignment explanation
Indices: 2947637--2947797 Score: 148
Period size: 25 Copynumber: 6.4 Consensus size: 25
2947627 TATTATGCTT
*
2947637 TAAGTTATGTAAGTAATGT-A-TTATG
1 TAAGTTATGT-A-TAATGTAAGTTATC
* * *
2947662 TAAGTTGTGTAAAATGTTAGTTATC
1 TAAGTTATGTATAATGTAAGTTATC
* * *
2947687 AAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATAATGTAAGTTATC
* *
2947712 TAAGTTATGTA-ACATGTAAATTATG
1 TAAGTTATGTATA-ATGTAAGTTATC
* *
2947737 TAAGTTGTGTATAATGTTAGTTATC
1 TAAGTTATGTATAATGTAAGTTATC
* * *
2947762 AAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATAATGTAAGTTATC
2947787 TAAGTTATGTA
1 TAAGTTATGTA
2947798 GGCTATGTAT
Statistics
Matches: 109, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
23 5 0.05
24 2 0.02
25 101 0.93
26 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (25 bp):
TAAGTTATGTATAATGTAAGTTATC
Found at i:2947707 original size:16 final size:17
Alignment explanation
Indices: 2947599--2947797 Score: 82
Period size: 16 Copynumber: 11.9 Consensus size: 17
2947589 TTGTGTAAGC
*
2947599 TATGTAAGTTGTGT-AT
1 TATGTAAGTTATGTAAT
2947615 TATGTAAGTTAT-T-AT
1 TATGTAAGTTATGTAAT
2947630 TATGCTTTAAGTTATGTAAGT
1 TATG---TAAGTTATGTAA-T
*
2947651 AATGT-A-TTATGTAAGT
1 TATGTAAGTTATGTAA-T
* * *
2947667 TGTGTAA--AATGTTAGT
1 TATGTAAGTTATG-TAAT
**
2947683 TATCAAAGTTATGT-AT
1 TATGTAAGTTATGTAAT
*
2947699 TATGTAAGTTATTTAAGT
1 TATGTAAGTTATGTAA-T
*
2947717 TATGTAA--CATGTAAAT
1 TATGTAAGTTATGT-AAT
*
2947733 TATGTAAGTTGTGT-AT
1 TATGTAAGTTATGTAAT
* * **
2947749 AATGTTAGTTATCAAAGT
1 TATGTAAGTTATGTAA-T
2947767 TATGT-A-TTATGTAAGT
1 TATGTAAGTTATGTAA-T
*
2947783 TATTTAAGTTATGTA
1 TATGTAAGTTATGTA
2947798 GGCTATGTAT
Statistics
Matches: 137, Mismatches: 27, Indels: 36
0.69 0.14 0.18
Matches are distributed among these distances:
15 7 0.05
16 78 0.57
17 11 0.08
18 35 0.26
19 1 0.01
20 1 0.01
21 4 0.03
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (17 bp):
TATGTAAGTTATGTAAT
Found at i:2947717 original size:75 final size:74
Alignment explanation
Indices: 2947635--2947797 Score: 274
Period size: 75 Copynumber: 2.2 Consensus size: 74
2947625 ATTATTATGC
2947635 TTTAAGTTATGTAAGTAATGT-ATTATGTAAGTTGTGTAAAATGTTAGTTATCAAAGTTATGTAT
1 TTTAAGTTATGTAA--AATGTAATTATGTAAGTTGTGTAAAATGTTAGTTATCAAAGTTATGTAT
2947699 TATGTAAGTTA
64 TATGTAAGTTA
* *
2947710 TTTAAGTTATGTAACATGTAAATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATT
1 TTTAAGTTATGTAAAATGT-AATTATGTAAGTTGTGTAAAATGTTAGTTATCAAAGTTATGTATT
2947775 ATGTAAGTTA
65 ATGTAAGTTA
2947785 TTTAAGTTATGTA
1 TTTAAGTTATGTA
2947798 GGCTATGTAT
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
73 4 0.05
75 80 0.95
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (74 bp):
TTTAAGTTATGTAAAATGTAATTATGTAAGTTGTGTAAAATGTTAGTTATCAAAGTTATGTATTA
TGTAAGTTA
Found at i:2947979 original size:26 final size:25
Alignment explanation
Indices: 2947937--2947994 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
2947927 TTAGTTATCA
* * *
2947937 AAGTTATGTATTATGTGTTTCTATTT
1 AAGTTATGTAGTATGTGTAT-TATGT
2947963 AAGTTATGTAAGT-TGTGTATTATGT
1 AAGTTATGT-AGTATGTGTATTATGT
2947988 AAGTTAT
1 AAGTTAT
2947995 TAAAAATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 11 0.39
26 15 0.54
27 2 0.07
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.52
Consensus pattern (25 bp):
AAGTTATGTAGTATGTGTATTATGT
Found at i:2948209 original size:18 final size:18
Alignment explanation
Indices: 2948186--2948274 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
2948176 ATATATAAAG
2948186 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
2948204 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
**
2948226 TTTTTGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
2948243 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
2948261 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
2948275 GTAAGTAATG
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 13 0.21
18 30 0.49
19 3 0.05
20 3 0.05
21 4 0.07
22 8 0.13
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:2948264 original size:35 final size:37
Alignment explanation
Indices: 2948190--2948423 Score: 177
Period size: 39 Copynumber: 6.0 Consensus size: 37
2948180 ATAAAGTTTA
2948190 AGTAATGTAATATATTTAAGTAATGTAAGTTATAAATTTT
1 AGTAA-GTAATATATTTAAGTAATGTAAG-TAT-AATTTT
*
2948230 TGTAAGTAATATATTTAAGTAATGTAA-TAT-ATTTT
1 AGTAAGTAATATATTTAAGTAATGTAAGTATAATTTT
* ** * * *
2948265 AGTAAGTAATGTAAGTAATGTAATATATACTTTAATTTT
1 AGTAAGTAATATATTTAA-GTAATGTA-AGTATAATTTT
* * * ** *
2948304 AGTAAGTCATGTATTTAAGTAATATATTTAATCCAATTCT
1 AGTAAGTAATATATTTAAGTAATGTAAGT-AT--AATTTT
* *
2948344 AGTAAGTAATGTATTTAAGTAATATATTTAAGTA-AATTTT
1 AGTAAGTAATATATTTAAG---TA-ATGTAAGTATAATTTT
*
2948384 AGTAATTAATATATTTAAGTAATGTAAGTTATAAATTTT
1 AGTAAGTAATATATTTAAGTAATGTAAG-TAT-AATTTT
2948423 A
1 A
2948424 AAAATATATA
Statistics
Matches: 158, Mismatches: 22, Indels: 29
0.76 0.11 0.14
Matches are distributed among these distances:
35 19 0.12
36 13 0.08
37 9 0.06
38 11 0.07
39 49 0.31
40 49 0.31
43 3 0.02
44 5 0.03
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (37 bp):
AGTAAGTAATATATTTAAGTAATGTAAGTATAATTTT
Found at i:2948269 original size:31 final size:31
Alignment explanation
Indices: 2948188--2948292 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
2948178 ATATAAAGTT
2948188 TAAGTAATGTAATATA--TT--TAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
* * *
2948215 TAAGT--TATAA-ATTTTTGTAAGTAA-TATATT
1 TAAGTAATGTAATATATTT-T-AGTAAGTA-ATG
2948245 TAAGTAATGTAATATATTTTAGTAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
2948276 TAAGTAATGTAATATAT
1 TAAGTAATGTAATATAT
2948293 ACTTTAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
24 2 0.03
25 4 0.07
26 1 0.02
27 6 0.10
29 2 0.03
30 10 0.16
31 24 0.39
32 7 0.11
33 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (31 bp):
TAAGTAATGTAATATATTTTAGTAAGTAATG
Found at i:2948331 original size:13 final size:13
Alignment explanation
Indices: 2948315--2948406 Score: 73
Period size: 13 Copynumber: 6.9 Consensus size: 13
2948305 GTAAGTCATG
2948315 TATTTAAGTAATA
1 TATTTAAGTAATA
2948328 TATTTAA-TCCAAT-
1 TATTTAAGT--AATA
* * *
2948341 TCTAGTAAGTAATG
1 TAT-TTAAGTAATA
2948355 TATTTAAGTAATA
1 TATTTAAGTAATA
2948368 TATTTAAGTAA-A
1 TATTTAAGTAATA
* *
2948380 TTTTAGTAATTAATA
1 TATT--TAAGTAATA
2948395 TATTTAAGTAAT
1 TATTTAAGTAAT
2948407 GTAAGTTATA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
12 5 0.08
13 38 0.61
14 14 0.23
15 5 0.08
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (13 bp):
TATTTAAGTAATA
Found at i:2948356 original size:40 final size:39
Alignment explanation
Indices: 2948300--2948423 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 39
2948290 TATACTTTAA
* *
2948300 TTTTAGTAAGTCATGTATTTAAGTAATATATTTAATCCAA
1 TTTTAGTAAGTAATGTATTTAAGTAATATATTTAAT-AAA
*
2948340 TTCTAGTAAGTAATGTATTTAAGTAATATATTTAAGTAAA
1 TTTTAGTAAGTAATGTATTTAAGTAATATATTTAA-TAAA
* * * *
2948380 TTTTAGTAATTAATATATTTAAGTAATGTAAGTT-ATAAA
1 TTTTAGTAAGTAATGTATTTAAGTAATAT-ATTTAATAAA
2948419 TTTTA
1 TTTTA
2948424 AAAATATATA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 9 0.12
40 61 0.82
41 4 0.05
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.46
Consensus pattern (39 bp):
TTTTAGTAAGTAATGTATTTAAGTAATATATTTAATAAA
Found at i:2948472 original size:11 final size:11
Alignment explanation
Indices: 2948441--2948473 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
2948431 ATATATTAAT
2948441 AATTCATTGAC
1 AATTCATTGAC
2948452 -ATTCATTGAC
1 AATTCATTGAC
*
2948462 AATTCACTGAC
1 AATTCATTGAC
2948473 A
1 A
2948474 GTCAATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (11 bp):
AATTCATTGAC
Found at i:2951857 original size:7 final size:7
Alignment explanation
Indices: 2951845--2951975 Score: 70
Period size: 7 Copynumber: 18.0 Consensus size: 7
2951835 ATTAATTGAC
2951845 ACCCTAA
1 ACCCTAA
2951852 ACCCTAA
1 ACCCTAA
2951859 ATCCCTAA
1 A-CCCTAA
*
2951867 CCCCTAA
1 ACCCTAA
*
2951874 CCCCTAA
1 ACCCTAA
*
2951881 CCCCTAA
1 ACCCTAA
2951888 ATCTCCT-A
1 A-C-CCTAA
*
2951896 GCCCTTAA
1 ACCC-TAA
*
2951904 ATTCCTAA
1 A-CCCTAA
*
2951912 CCCCT-A
1 ACCCTAA
2951918 ACTCCTAA
1 AC-CCTAA
*
2951926 CCCCTAA
1 ACCCTAA
2951933 ATCCCTAA
1 A-CCCTAA
*
2951941 CCCCTAA
1 ACCCTAA
*
2951948 CCCCTAA
1 ACCCTAA
*
2951955 ACCTTATA
1 ACCCTA-A
*
2951963 TCCC-AA
1 ACCCTAA
2951969 ACCCTAA
1 ACCCTAA
2951976 TAATCATATA
Statistics
Matches: 97, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
6 8 0.08
7 61 0.63
8 23 0.24
9 5 0.05
ACGTcount: A:0.33, C:0.45, G:0.01, T:0.21
Consensus pattern (7 bp):
ACCCTAA
Found at i:2951878 original size:14 final size:15
Alignment explanation
Indices: 2951846--2951954 Score: 107
Period size: 14 Copynumber: 7.4 Consensus size: 15
2951836 TTAATTGACA
* *
2951846 CCCTAAACCCTAAAT
1 CCCTAACCCCTAAAC
2951861 CCCTAACCCCT-AAC
1 CCCTAACCCCTAAAC
2951875 CCCTAACCCCTAAATC
1 CCCTAACCCCTAAA-C
* * * *
2951891 TCCTAGCCCTTAAAT
1 CCCTAACCCCTAAAC
*
2951906 TCCTAACCCCT-AAC
1 CCCTAACCCCTAAAC
* *
2951920 TCCTAACCCCTAAAT
1 CCCTAACCCCTAAAC
2951935 CCCTAACCCCT-AAC
1 CCCTAACCCCTAAAC
2951949 CCCTAA
1 CCCTAA
2951955 ACCTTATATC
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
14 34 0.43
15 33 0.42
16 12 0.15
ACGTcount: A:0.31, C:0.47, G:0.01, T:0.21
Consensus pattern (15 bp):
CCCTAACCCCTAAAC
Found at i:2951880 original size:29 final size:30
Alignment explanation
Indices: 2951846--2951947 Score: 127
Period size: 29 Copynumber: 3.4 Consensus size: 30
2951836 TTAATTGACA
* *
2951846 CCCTAAACCCTAAATCCCTAACCCCT-AAC
1 CCCTAACCCCTAAATCCCTAACCCCTAAAT
* *
2951875 CCCTAACCCCTAAATCTCCTAGCCCTTAAAT
1 CCCTAACCCCTAAATC-CCTAACCCCTAAAT
* *
2951906 TCCTAACCCCTAACT-CCTAACCCCTAAAT
1 CCCTAACCCCTAAATCCCTAACCCCTAAAT
2951935 CCCTAACCCCTAA
1 CCCTAACCCCTAA
2951948 CCCCTAAACC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
29 39 0.63
30 8 0.13
31 15 0.24
ACGTcount: A:0.31, C:0.46, G:0.01, T:0.22
Consensus pattern (30 bp):
CCCTAACCCCTAAATCCCTAACCCCTAAAT
Found at i:2951965 original size:29 final size:29
Alignment explanation
Indices: 2951846--2951972 Score: 121
Period size: 29 Copynumber: 4.3 Consensus size: 29
2951836 TTAATTGACA
* * * *
2951846 CCCTAAACCCTAAATCCCTAACCCCT-AAC
1 CCCTAACCCCTAACT-CCTAACCCTTAAAT
*
2951875 CCCTAACCCCTAAATCTCCTAGCCCTTAAAT
1 CCCTAACCCCT-AA-CTCCTAACCCTTAAAT
* *
2951906 TCCTAACCCCTAACTCCTAACCCCTAAAT
1 CCCTAACCCCTAACTCCTAACCCTTAAAT
* * *
2951935 CCCTAACCCCTAACCCCTAAACCTTATAT
1 CCCTAACCCCTAACTCCTAACCCTTAAAT
*
2951964 CCCAAACCC
1 CCCTAACCC
2951973 TAATAATCAT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
29 56 0.69
30 12 0.15
31 13 0.16
ACGTcount: A:0.31, C:0.46, G:0.01, T:0.21
Consensus pattern (29 bp):
CCCTAACCCCTAACTCCTAACCCTTAAAT
Found at i:2952672 original size:18 final size:19
Alignment explanation
Indices: 2952651--2952693 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
2952641 AAAAATTATA
2952651 ATTTTTATTTTT-TATTTC
1 ATTTTTATTTTTGTATTTC
*
2952669 ATTTTTATTTTTGTATTTT
1 ATTTTTATTTTTGTATTTC
2952688 ATTTTT
1 ATTTTT
2952694 TCTTATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.79
Consensus pattern (19 bp):
ATTTTTATTTTTGTATTTC
Found at i:2952680 original size:19 final size:18
Alignment explanation
Indices: 2952651--2952693 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
2952641 AAAAATTATA
*
2952651 ATTTTTATTTTTTATTTC
1 ATTTTTATTTTGTATTTC
*
2952669 ATTTTTATTTTTGTATTTT
1 ATTTTTA-TTTTGTATTTC
2952688 ATTTTT
1 ATTTTT
2952694 TCTTATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.79
Consensus pattern (18 bp):
ATTTTTATTTTGTATTTC
Found at i:2952846 original size:18 final size:19
Alignment explanation
Indices: 2952823--2952863 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
2952813 ATTATTTAAC
2952823 AAATCTCAAATAAACC-TT
1 AAATCTCAAATAAACCATT
* *
2952841 AAATCTTAAATTAACCATT
1 AAATCTCAAATAAACCATT
2952860 AAAT
1 AAAT
2952864 ATACATAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATCTCAAATAAACCATT
Found at i:2954087 original size:41 final size:41
Alignment explanation
Indices: 2953995--2954190 Score: 216
Period size: 41 Copynumber: 4.8 Consensus size: 41
2953985 TTATTATTAC
* * * * * *
2953995 TAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCACAGTAA
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCAT
* * * * *
2954036 TACCGACGCTTCTTTAAAAACGCCGCTAAAGATCTGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCAT
*
2954077 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGA-CAGAACAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCT-AAAGACCAGAGCAT
*
2954118 TAGCGGCGCTT-TACTCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTTCT--TCAAAAACGCCGCTAAAGACCAGAGCAT
* *
2954160 TAGCGGCGTTTATTCAAAAACGCCGCTAAAG
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAG
2954191 GCCCCAAAAA
Statistics
Matches: 133, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
40 1 0.01
41 95 0.71
42 36 0.27
43 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (41 bp):
TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCAT
Found at i:2954364 original size:39 final size:39
Alignment explanation
Indices: 2954230--2954364 Score: 148
Period size: 39 Copynumber: 3.5 Consensus size: 39
2954220 TGGCTTAGGC
* * *
2954230 TTTTTA-CGGCGCTTTTCAGAAAACGCCGCTAATGCT-TA
1 TTTTTAGCGGCGTTTTTTA-AAAGCGCCGCTAATGCTCTA
* * *
2954268 TTTTTAGCGGCGTTTTTGGATAAGCGCCGCTAATGCGCTA
1 TTTTTAGCGGCGTTTTT-TAAAAGCGCCGCTAATGCTCTA
** *
2954308 CCTTTAGCGGCGTTTTTTAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTTAAAAGCGCCGCTAATGCTCTA
*
2954347 TTTTTAGTGGCGTTTTTT
1 TTTTTAGCGGCGTTTTTT
2954365 GTCCAATCGC
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
38 6 0.08
39 56 0.70
40 18 0.22
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTTAAAAGCGCCGCTAATGCTCTA
Found at i:2955768 original size:7 final size:7
Alignment explanation
Indices: 2955756--2955787 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
2955746 GTATTGTAAC
2955756 AAATTTA
1 AAATTTA
2955763 AAATTTA
1 AAATTTA
2955770 AAATTTA
1 AAATTTA
2955777 AAATTTA
1 AAATTTA
2955784 AAAT
1 AAAT
2955788 GAAAAGGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATTTA
Found at i:2960896 original size:21 final size:22
Alignment explanation
Indices: 2960870--2960912 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
2960860 GAGTTGAATT
2960870 TAAAGTTATGAAT-TAT-ATATA
1 TAAAGTT-TGAATGTATGATATA
2960891 TAAAGTTTGAATGTATGATATA
1 TAAAGTTTGAATGTATGATATA
2960913 AGTTCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAAGTTTGAATGTATGATATA
Found at i:2960911 original size:20 final size:21
Alignment explanation
Indices: 2960870--2960913 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
2960860 GAGTTGAATT
*
2960870 TAAAGTTATGAATTATATATA
1 TAAAGTTATGAATTATAGATA
2960891 TAAAGTT-TGAATGTAT-GATA
1 TAAAGTTATGAAT-TATAGATA
2960911 TAA
1 TAA
2960914 GTTCTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
TAAAGTTATGAATTATAGATA
Found at i:2960951 original size:2 final size:2
Alignment explanation
Indices: 2960944--2960988 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2960934 TATTATGAAT
2960944 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2960986 TA T
1 TA T
2960989 GCACATATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2961117 original size:41 final size:41
Alignment explanation
Indices: 2961042--2961119 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
2961032 ATCTGAGATT
* *
2961042 TTCAGGCTTAATGCCTAGCAGGCTTGATGTCGGTGAATTAC
1 TTCAGACTTAATGCCTAGCAGGCTTGATGACGGTGAATTAC
* *
2961083 TTCAGACTTTATGTCTAGCAGGCTTTG-TGACGGTGAA
1 TTCAGACTTAATGCCTAGCAGGC-TTGATGACGGTGAA
2961120 ATGTATCGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 29 0.91
42 3 0.09
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (41 bp):
TTCAGACTTAATGCCTAGCAGGCTTGATGACGGTGAATTAC
Found at i:2964313 original size:7 final size:7
Alignment explanation
Indices: 2964298--2964329 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
2964288 TGTATACTAT
*
2964298 TAATCAA
1 TAATAAA
2964305 TAATAAA
1 TAATAAA
2964312 TAATAAA
1 TAATAAA
2964319 TAATAAA
1 TAATAAA
2964326 TAAT
1 TAAT
2964330 TAAAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:2966687 original size:23 final size:23
Alignment explanation
Indices: 2966661--2966717 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
2966651 TACAGAATAG
*
2966661 AACAGAACACCA-TCGAAGCAGAT
1 AACAAAACACCACT-GAAGCAGAT
*
2966684 AACAAAACACCACTGAAGCGGAT
1 AACAAAACACCACTGAAGCAGAT
*
2966707 AATAAAACACC
1 AACAAAACACC
2966718 GCCAAAGCGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 29 0.97
24 1 0.03
ACGTcount: A:0.51, C:0.26, G:0.14, T:0.09
Consensus pattern (23 bp):
AACAAAACACCACTGAAGCAGAT
Found at i:2966725 original size:23 final size:23
Alignment explanation
Indices: 2966661--2966731 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 23
2966651 TACAGAATAG
* * * *
2966661 AACAGAACACCATCGAAGCAGAT
1 AACAAAACACCACCAAAGCGGAT
**
2966684 AACAAAACACCACTGAAGCGGAT
1 AACAAAACACCACCAAAGCGGAT
* *
2966707 AATAAAACACCGCCAAAGCGGAT
1 AACAAAACACCACCAAAGCGGAT
2966730 AA
1 AA
2966732 ATAGAGAGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.49, C:0.25, G:0.17, T:0.08
Consensus pattern (23 bp):
AACAAAACACCACCAAAGCGGAT
Found at i:2966756 original size:25 final size:25
Alignment explanation
Indices: 2966728--2966790 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
2966718 GCCAAAGCGG
* * **
2966728 ATAAATAGAGAGCATTGATGTGCTA
1 ATAAATAGAGAGCACTAACATGCTA
2966753 AT-AATCAGAGAGCACTAACATGCTA
1 ATAAAT-AGAGAGCACTAACATGCTA
*
2966778 ATAATTAGAGAGC
1 ATAAATAGAGAGC
2966791 GAACTAAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 3 0.10
25 26 0.84
26 2 0.06
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.24
Consensus pattern (25 bp):
ATAAATAGAGAGCACTAACATGCTA
Found at i:2981840 original size:57 final size:56
Alignment explanation
Indices: 2981717--2981850 Score: 144
Period size: 57 Copynumber: 2.3 Consensus size: 56
2981707 AATAAGATTA
* * * *
2981717 TTAATATAAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAAT
1 TTAATAAAAAT-ATATATAATTTAATAAAATTTTAACATAATTATTATT-AATATAAT
* *
2981775 TTAATAAAAATATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAAT
1 TTAATAAAAATATATATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AAT
* *
2981832 TTACTAAAATTATAATATA
1 TTAATAAAAATAT-ATATA
2981851 TAATACTATA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
56 4 0.06
57 31 0.48
58 30 0.46
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.45
Consensus pattern (56 bp):
TTAATAAAAATATATATAATTTAATAAAATTTTAACATAATTATTATTAATATAAT
Found at i:2982101 original size:23 final size:23
Alignment explanation
Indices: 2982075--2982120 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
2982065 TCATAATATC
2982075 CAAACATAATATTCATATATTAA
1 CAAACATAATATTCATATATTAA
*
2982098 CAAATATAATATTCATATATTAA
1 CAAACATAATATTCATATATTAA
2982121 TAAAAAGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (23 bp):
CAAACATAATATTCATATATTAA
Found at i:2994025 original size:50 final size:50
Alignment explanation
Indices: 2993915--2994111 Score: 204
Period size: 50 Copynumber: 3.9 Consensus size: 50
2993905 ACATTAAAAG
*
2993915 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
*
2993966 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * *
2994019 GATGAGAGGTCTCCCA--TAAGACCATGTCTGGGACATAGCATGGGCACCTA
1 GATGAGAGG--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * *
2994069 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTG
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG
2994112 ACAGTACAAG
Statistics
Matches: 124, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
48 5 0.04
50 67 0.54
51 1 0.01
52 5 0.04
53 3 0.02
54 6 0.05
55 1 0.01
56 36 0.29
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:2996732 original size:21 final size:22
Alignment explanation
Indices: 2996697--2996749 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
2996687 TGGCGTGAAC
*
2996697 TGTAAAAAATGTCTAGTAAGATA
1 TGTAATAAATGTCTA-TAAGATA
* *
2996720 TG-AATAAAT-TCTATTAGATC
1 TGTAATAAATGTCTATAAGATA
2996740 TGTAATAAAT
1 TGTAATAAAT
2996750 ATTGCTGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 6 0.23
23 2 0.08
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (22 bp):
TGTAATAAATGTCTATAAGATA
Found at i:2996934 original size:13 final size:13
Alignment explanation
Indices: 2996916--2996944 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2996906 GTGATTGAAG
2996916 GATCTGTCATTGT
1 GATCTGTCATTGT
2996929 GATCTGTCATTGT
1 GATCTGTCATTGT
2996942 GAT
1 GAT
2996945 TCATCTGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.14, G:0.24, T:0.45
Consensus pattern (13 bp):
GATCTGTCATTGT
Found at i:2997731 original size:16 final size:15
Alignment explanation
Indices: 2997710--2997739 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2997700 TGTTGTAAAG
2997710 TTATATATCAAGTTTA
1 TTATATAT-AAGTTTA
2997726 TTATATATAAGTTT
1 TTATATATAAGTTT
2997740 GTCATTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (15 bp):
TTATATATAAGTTTA
Found at i:2997756 original size:56 final size:56
Alignment explanation
Indices: 2997675--2997786 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
2997665 GAATACACCT
*
2997675 TATAAGTTTGTCATTATTAATTCTATGTTGTAAAGTTATATATCAAGTTTATTATA
1 TATAAGTTTGTCATTAATAATTCTATGTTGTAAAGTTATATATCAAGTTTATTATA
2997731 TATAAGTTTGTCATTAATAATTCTATGTTGTAAAGTTATATATCAAGTTTATTATA
1 TATAAGTTTGTCATTAATAATTCTATGTTGTAAAGTTATATATCAAGTTTATTATA
2997787 ACAAGTTATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (56 bp):
TATAAGTTTGTCATTAATAATTCTATGTTGTAAAGTTATATATCAAGTTTATTATA
Found at i:2998489 original size:102 final size:102
Alignment explanation
Indices: 2998328--2998552 Score: 355
Period size: 103 Copynumber: 2.2 Consensus size: 102
2998318 AAATATAAAA
* * *
2998328 ATAAAATATTATTTCTAAATTTTAGAAATTATAAAAATAAAATATTGTAATATTGTAATATAATT
1 ATAAAATATTATTTCCAAA-TTTAGAAAATATAAAAATAAAACATTGTAATATTGTAATATAATT
* *
2998393 TAATATAAAAA-ATAAAAATCTTTTAATATAATTTAAT
65 TAATATAAAAATAAAAAAATATTTTAATATAATTTAAT
*
2998430 ATAAAATATTATTTCCAAATTTAGAAAATATAAAAATAAAACATTTTAAATAATT-TAATATAAT
1 ATAAAATATTATTTCCAAATTTAGAAAATATAAAAATAAAACATTGT-AAT-ATTGTAATATAAT
2998494 TTAATATAAAAATAAAAAAATATTTTAATATAATTTAAT
64 TTAATATAAAAATAAAAAAATATTTTAATATAATTTAAT
2998533 ATAAAATATTATTTCCAAAT
1 ATAAAATATTATTTCCAAAT
2998553 ATAATTTAAT
Statistics
Matches: 114, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
101 25 0.22
102 42 0.37
103 47 0.41
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (102 bp):
ATAAAATATTATTTCCAAATTTAGAAAATATAAAAATAAAACATTGTAATATTGTAATATAATTT
AATATAAAAATAAAAAAATATTTTAATATAATTTAAT
Found at i:2998495 original size:44 final size:44
Alignment explanation
Indices: 2998454--2998536 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
2998444 CCAAATTTAG
* *
2998454 AAAATATAAA-AATAAAACATTTTAA-ATAATTTAATATAATTT
1 AAAATAAAAATAAAAAAACATTTTAATATAATTTAATATAATTT
* *
2998496 AATATAAAAATAAAAAAATATTTTAATATAATTTAATATAA
1 AAAATAAAAATAAAAAAACATTTTAATATAATTTAATATAA
2998537 AATATTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 8 0.23
43 13 0.37
44 14 0.40
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (44 bp):
AAAATAAAAATAAAAAAACATTTTAATATAATTTAATATAATTT
Found at i:2998556 original size:30 final size:30
Alignment explanation
Indices: 2998520--2998582 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
2998510 AAAATATTTT
2998520 AATATAATTTAATATAAAATATTATTTCCA
1 AATATAATTTAATATAAAATATTATTTCCA
2998550 AATATAATTTAATATAAAATATTATTTCCA
1 AATATAATTTAATATAAAATATTATTTCCA
2998580 AAT
1 AAT
2998583 TTCAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (30 bp):
AATATAATTTAATATAAAATATTATTTCCA
Found at i:2998581 original size:133 final size:133
Alignment explanation
Indices: 2998417--2998679 Score: 449
Period size: 133 Copynumber: 2.0 Consensus size: 133
2998407 AAAATCTTTT
*
2998417 AATATAATTTAATATAAAATATTATTTCCAAATTT-AGAAAATATAAAAATAAAACATTTTAAAT
1 AATATAATTTAATATAAAATATTATTTCCAAATTTCAAAAAATATAAAAATAAAACATTTTAAAT
2998481 AATTT-AATATAATTTAATATAAAAATAAAAAAATATTTTAATATAATTTAATATAAAATATTAT
66 -ATTTCAATATAATTTAATATAAAAAT-AAAAAATATTTTAATATAATTTAATATAAAATATTAT
2998545 TTCCA
129 TTCCA
* *
2998550 AATATAATTTAATATAAAATATTATTTCCAAATTTCAAAAAATATAAAAATAAAATATTTTATAT
1 AATATAATTTAATATAAAATATTATTTCCAAATTTCAAAAAATATAAAAATAAAACATTTTAAAT
* *
2998615 ATTTCAATATAATTTAATATAAAAATAAAAAATCTTTTGATATAATTTAATATAAAATATTATTT
66 ATTTCAATATAATTTAATATAAAAATAAAAAATATTTTAATATAATTTAATATAAAATATTATTT
2998680 AAATATTATT
Statistics
Matches: 123, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
133 76 0.62
134 47 0.38
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (133 bp):
AATATAATTTAATATAAAATATTATTTCCAAATTTCAAAAAATATAAAAATAAAACATTTTAAAT
ATTTCAATATAATTTAATATAAAAATAAAAAATATTTTAATATAATTTAATATAAAATATTATTT
CCA
Found at i:2998594 original size:30 final size:30
Alignment explanation
Indices: 2998520--2998598 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
2998510 AAAATATTTT
**
2998520 AATATAATTTAATATAAAATATTATTTCCA
1 AATATAATAAAATATAAAATATTATTTCCA
**
2998550 AATATAATTTAATATAAAATATTATTTCCA
1 AATATAATAAAATATAAAATATTATTTCCA
*
2998580 AATTTCAA-AAAATATAAAA
1 AATAT-AATAAAATATAAAA
2998599 ATAAAATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 43 0.96
31 2 0.04
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.39
Consensus pattern (30 bp):
AATATAATAAAATATAAAATATTATTTCCA
Found at i:2998674 original size:40 final size:37
Alignment explanation
Indices: 2998588--2998674 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 37
2998578 CAAATTTCAA
2998588 AAAATATAAAAATAAAATATTTTATATATTTCAATAT
1 AAAATATAAAAATAAAATATTTTATATATTTCAATAT
*
2998625 AATTTAATATAAAAATAAAAAATCTTTTGATATAATTT-AATAT
1 AA---AATATAAAAAT--AAAATATTTT-ATAT-ATTTCAATAT
2998668 AAAATAT
1 AAAATAT
2998675 TATTTAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
37 2 0.05
40 16 0.38
42 9 0.21
43 11 0.26
44 4 0.10
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (37 bp):
AAAATATAAAAATAAAATATTTTATATATTTCAATAT
Found at i:3008643 original size:19 final size:20
Alignment explanation
Indices: 3008603--3008643 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3008593 ATTAATTATT
*
3008603 TATAAACTTTAATTAGAATA
1 TATAAACTATAATTAGAATA
*
3008623 TATAAACTATATTTA-AATA
1 TATAAACTATAATTAGAATA
3008642 TA
1 TA
3008644 ACCATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
TATAAACTATAATTAGAATA
Found at i:3011339 original size:18 final size:18
Alignment explanation
Indices: 3011316--3011369 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
3011306 AATTTTTATG
3011316 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
*
3011334 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGGTA
* *
3011352 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGGTTGGGT
3011370 TTAGGTGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 22 0.71
19 9 0.29
ACGTcount: A:0.11, C:0.02, G:0.46, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:3014674 original size:19 final size:19
Alignment explanation
Indices: 3014650--3014722 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
3014640 AATCTTCAAG
*
3014650 GATATGCAATCTTTGATAT
1 GATATGCAATCTTAGATAT
*
3014669 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
3014688 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
3014707 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
3014723 AGATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:3014744 original size:23 final size:22
Alignment explanation
Indices: 3014664--3014745 Score: 86
Period size: 19 Copynumber: 4.0 Consensus size: 22
3014654 TGCAATCTTT
*
3014664 GATATGATATGTAATCTT---A
1 GATATGATATGCAATCTTAGAA
3014683 GATATGATATGCAATCTT---A
1 GATATGATATGCAATCTTAGAA
3014702 GATATGATATGCAATCTTAGAA
1 GATATGATATGCAATCTTAGAA
* *
3014724 GATATGATTTTGTAATCTTAGA
1 GATATGA-TATGCAATCTTAGA
3014746 GATTTAATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
19 36 0.64
22 8 0.14
23 12 0.21
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (22 bp):
GATATGATATGCAATCTTAGAA
Found at i:3023018 original size:15 final size:16
Alignment explanation
Indices: 3023000--3023029 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3022990 TGTGATTATG
3023000 GTTTAATTAA-TTAAA
1 GTTTAATTAAGTTAAA
3023015 GTTTAATTAAGTTAA
1 GTTTAATTAAGTTAA
3023030 TTAAGTGATT
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:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (16 bp):
GTTTAATTAAGTTAAA
Found at i:3029102 original size:34 final size:34
Alignment explanation
Indices: 3029033--3029104 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
3029023 AATAATACAA
* *
3029033 TAGCAATCAATATGCTTATAACAGTTCAAAACAG
1 TAGCAATCAATATGCTTAAAACAGATCAAAACAG
* **
3029067 TAGCAAAT-AATATGCTTAAAATAGATCAACTCAG
1 TAGC-AATCAATATGCTTAAAACAGATCAAAACAG
3029101 TAGC
1 TAGC
3029105 CAAAAGTCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 29 0.91
35 3 0.09
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.26
Consensus pattern (34 bp):
TAGCAATCAATATGCTTAAAACAGATCAAAACAG
Found at i:3032031 original size:330 final size:326
Alignment explanation
Indices: 3031434--3032086 Score: 1123
Period size: 330 Copynumber: 2.0 Consensus size: 326
3031424 ATATTGATGA
* *
3031434 GGGTTTGAAGATTATTGATGCAAGATTCAACAATTTGGTGGAAGAATGATTTAATCGAGACATGA
1 GGGTTTGAAGATTATTGATGCAAAATTCAACAATTCGGTGGAAGAATGATTTAATCGAGACATGA
*
3031499 TTTCAATTTAGGATTCAAAAGATTAATTTTCCAGCAATAAAGGTAAAATATTTTATAAAAAGAAA
66 TTTCAATTTAGGATTCAAAAGATTAATTTTCCAGCAATAAAGGCAAAATATTTTATAAAAAGAAA
3031564 AGAGGGAAAATAAAAGAAAGAAAGGATTTTAAAGAGAAAAGAATTCAATTTAGGGTTGGAAAGGA
131 AGAGGGAAAATAAAAGAAAGAAAGGATTTTAAAGAGAAAAGAATTCAATTTAGGGTTGGAAAGGA
3031629 TTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAGGTTTTCAAAATTGGAGGGTTGA
196 TTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAGGTTTTCAAAATTGGAGGGTTGA
*
3031694 TTGGGCAAATAACCCATCTATCAAAAATTAAGAAAATGGGAGGGGGAATGGCACGCTTTGAACAT
261 TTGGGCAAATAACCCATCTACCAAAAATTAAGAAAATGGGAGGGGGAATGGCACGCTTTGAACAT
3031759 G
326 G
*
3031760 GGGTTTGAAGATTATTGATGCAAAATTCAACAATTC-GTGGGAAGAATGATTTAATC-AGGACTT
1 GGGTTTGAAGATTATTGATGCAAAATTCAACAATTCGGT-GGAAGAATGATTTAATCGA-GACAT
* * *
3031823 GATTTCAATTTAGGATTCAAAAGATTAA-TTTCCAGCAATGAAGGCAAAATTTTTTATGAAAAGA
64 GATTTCAATTTAGGATTCAAAAGATTAATTTTCCAGCAATAAAGGCAAAATATTTTATAAAAAGA
*
3031887 AAAGAGGGAAACTAAAAGAAAGAAAGGATTTTAAAGAGAAGAGAAAAGAATTCAATTTAGGGTTG
129 AAAGAGGGAAAATAAAAGAAAGAAAGGATTTT----A-AAGAGAAAAGAATTCAATTTAGGGTTG
3031952 GAAAGGATTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAGGTTTTCAAAATTGGA
189 GAAAGGATTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAGGTTTTCAAAATTGGA
* *
3032017 GGGTTGATTGGGCAAATAACCCATCTGCCAAAAATTAAGAAAATGGGAGGGGGAATGGCATGCTT
254 GGGTTGATTGGGCAAATAACCCATCTACCAAAAATTAAGAAAATGGGAGGGGGAATGGCACGCTT
3032082 TGAAC
319 TGAAC
3032087 CTGGAAGCAA
Statistics
Matches: 309, Mismatches: 11, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
325 66 0.21
326 83 0.27
329 1 0.00
330 159 0.51
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.27
Consensus pattern (326 bp):
GGGTTTGAAGATTATTGATGCAAAATTCAACAATTCGGTGGAAGAATGATTTAATCGAGACATGA
TTTCAATTTAGGATTCAAAAGATTAATTTTCCAGCAATAAAGGCAAAATATTTTATAAAAAGAAA
AGAGGGAAAATAAAAGAAAGAAAGGATTTTAAAGAGAAAAGAATTCAATTTAGGGTTGGAAAGGA
TTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAGGTTTTCAAAATTGGAGGGTTGA
TTGGGCAAATAACCCATCTACCAAAAATTAAGAAAATGGGAGGGGGAATGGCACGCTTTGAACAT
G
Found at i:3034852 original size:16 final size:16
Alignment explanation
Indices: 3034831--3034866 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
3034821 AAATGGAAAG
3034831 TATATACATATACATA
1 TATATACATATACATA
*
3034847 TATATAGATATACATA
1 TATATACATATACATA
3034863 TATA
1 TATA
3034867 AAAAAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (16 bp):
TATATACATATACATA
Found at i:3035046 original size:3 final size:3
Alignment explanation
Indices: 3035038--3035082 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
3035028 CAATGATATG
3035038 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3035083 ATTTATTAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3037216 original size:18 final size:19
Alignment explanation
Indices: 3037177--3037217 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
3037167 TATAAAAAAA
3037177 TAAATTTTAGAAAAAGTAT
1 TAAATTTTAGAAAAAGTAT
3037196 TAAATTTTA-ATAAAA-TAT
1 TAAATTTTAGA-AAAAGTAT
3037214 TAAA
1 TAAA
3037218 AAATTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAATTTTAGAAAAAGTAT
Found at i:3046947 original size:147 final size:147
Alignment explanation
Indices: 3046677--3047195 Score: 966
Period size: 147 Copynumber: 3.5 Consensus size: 147
3046667 TGCCCGAATG
3046677 GGGGATGTAGCTCAAATGGTAGAGCGCTCGCTTTGCATGCGAGAGGCACGGGGTTCGATCCCCCG
1 GGGGATGTAGCTCAAATGGTAGAGCGCTCGCTTTGCATGCGAGAGGCACGGGGTTCGATCCCCCG
*
3046742 CATCTCCATTTCCAGACTTTTTTGCCAACACTTTTTTTTTTCTAATAAGAAATCTTTTCTTTCAA
66 CATCTCCATTTTCAGACTTTTTTGCCAACACTTTTTTTTTTCTAATAAGAAATCTTTTCTTTCAA
*
3046807 TGATACTAACACACAAT
131 TGATTCTAACACACAAT
3046824 GGGGATGTAGCTCAAATGGTAGAGCGCTCGCTTTGCATGCGAGAGGCACGGGGTTCGATCCCCCG
1 GGGGATGTAGCTCAAATGGTAGAGCGCTCGCTTTGCATGCGAGAGGCACGGGGTTCGATCCCCCG
*
3046889 CATCTCCATTTTCAGACTTTTTTGCCAACACTTTTTTTTTTCTAATAAGAAATTTTTTCTTTCAA
66 CATCTCCATTTTCAGACTTTTTTGCCAACACTTTTTTTTTTCTAATAAGAAATCTTTTCTTTCAA
3046954 TGATTCTAACACACAAT
131 TGATTCTAACACACAAT
3046971 GGGGATGTAGCTCAAATGGTAGAGCGCTCGCTTTGCATGCGAGAGGCACGGGGTTCGATCCCCCG
1 GGGGATGTAGCTCAAATGGTAGAGCGCTCGCTTTGCATGCGAGAGGCACGGGGTTCGATCCCCCG
* *
3047036 CATCTCCATTTTCAGACTTTTTTGCCAACACTTTTTTTTTTCTAATAAGAAATGTTTTCTTTCAG
66 CATCTCCATTTTCAGACTTTTTTGCCAACACTTTTTTTTTTCTAATAAGAAATCTTTTCTTTCAA
3047101 TGATTCTAACACACAAT
131 TGATTCTAACACACAAT
* *
3047118 GGGGATGTAGATCAAATGGTAGAGCGCTTGCTTTGCATGCGAGAGGCACGGGGTTCGATCCCCCG
1 GGGGATGTAGCTCAAATGGTAGAGCGCTCGCTTTGCATGCGAGAGGCACGGGGTTCGATCCCCCG
3047183 CATCTCCAATTTT
66 CATCTCC-ATTTT
3047196 GGATTTGTTT
Statistics
Matches: 364, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
147 359 0.99
148 5 0.01
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (147 bp):
GGGGATGTAGCTCAAATGGTAGAGCGCTCGCTTTGCATGCGAGAGGCACGGGGTTCGATCCCCCG
CATCTCCATTTTCAGACTTTTTTGCCAACACTTTTTTTTTTCTAATAAGAAATCTTTTCTTTCAA
TGATTCTAACACACAAT
Found at i:3047468 original size:12 final size:12
Alignment explanation
Indices: 3047438--3047476 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 12
3047428 TACATTAAAG
3047438 AATATTTTTTTAA
1 AATATTTTTTT-A
3047451 ATATATTTTTTTA
1 A-ATATTTTTTTA
3047464 AATATTTGTTTTA
1 AATATTT-TTTTA
3047477 GAATTAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 8 0.33
14 10 0.42
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (12 bp):
AATATTTTTTTA
Found at i:3047475 original size:14 final size:14
Alignment explanation
Indices: 3047439--3047468 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3047429 ACATTAAAGA
3047439 ATATTTTTTTAAAT
1 ATATTTTTTTAAAT
3047453 ATATTTTTTTAAAT
1 ATATTTTTTTAAAT
3047467 AT
1 AT
3047469 TTGTTTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATTTTTTTAAAT
Found at i:3052303 original size:19 final size:19
Alignment explanation
Indices: 3052279--3052320 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3052269 ATAAATTATT
*
3052279 TTTAAAAATATTTAAATAA
1 TTTAAAAATAGTTAAATAA
* *
3052298 TTTAAAATTAGTTAAATTA
1 TTTAAAAATAGTTAAATAA
3052317 TTTA
1 TTTA
3052321 TAGGTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTTAAAAATAGTTAAATAA
Found at i:3055500 original size:45 final size:45
Alignment explanation
Indices: 3055449--3055594 Score: 112
Period size: 45 Copynumber: 3.0 Consensus size: 45
3055439 TGGAAGTGGG
*
3055449 AGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCTAGTTAT
1 AGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCAAGTTAT
* * * * * * ***
3055494 AGGAAATCGAGTTATGATAGATCAGATGAAAGAGAAGAAGGATATGGAGGTGGG
1 AGGAAATCG-G--ATGAT-GA--AGATG-AAGGGTATAA-GAAAT-CAAGTTAT
*
3055548 AGGAAATCGGATGATGAAGATGAAGGGTATAAGAAGTCAAGTTAT
1 AGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCAAGTTAT
3055593 AG
1 AG
3055595 AAGAAATGAT
Statistics
Matches: 72, Mismatches: 20, Indels: 18
0.65 0.18 0.16
Matches are distributed among these distances:
45 14 0.19
46 4 0.06
47 7 0.10
48 10 0.14
49 2 0.03
50 2 0.03
51 10 0.14
52 7 0.10
53 5 0.07
54 11 0.15
ACGTcount: A:0.42, C:0.04, G:0.33, T:0.21
Consensus pattern (45 bp):
AGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCAAGTTAT
Found at i:3055618 original size:99 final size:99
Alignment explanation
Indices: 3055438--3055620 Score: 264
Period size: 99 Copynumber: 1.8 Consensus size: 99
3055428 AAGCAAAGCC
*
3055438 ATGGAAGTGGGAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCTAGTTATAGGAAATCG
1 ATGGAAGTGGGAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCAAGTTATAGGAAATCG
* **
3055503 AGTTATGATAGATCAGATGAAAGAGAAGAAGGAT
66 AGTGACAATAGATCAGATGAAAGAGAAGAAGGAT
* *
3055537 ATGGAGGTGGGAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAGTCAAGTTATAGAAGAAAT
1 ATGGAAGTGGGAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCAAGTTATAG--GAAAT
3055602 -GA-TGACAAT-GATTCAGATG
64 CGAGTGACAATAGA-TCAGATG
3055621 GTGAAAGGAG
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
98 2 0.03
99 66 0.88
100 2 0.03
101 5 0.07
ACGTcount: A:0.42, C:0.04, G:0.33, T:0.21
Consensus pattern (99 bp):
ATGGAAGTGGGAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCAAGTTATAGGAAATCG
AGTGACAATAGATCAGATGAAAGAGAAGAAGGAT
Found at i:3058872 original size:2 final size:2
Alignment explanation
Indices: 3058859--3058899 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
3058849 TCTTATACAA
* * *
3058859 AT AT AT AA AT AT AT AT AT CT AT AT AT CT 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 AT A
3058900 AGCATCATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3059559 original size:18 final size:17
Alignment explanation
Indices: 3059508--3059561 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
3059498 ATACAATCTT
3059508 TTAAAGAAAATAAAGAATA
1 TTAAAGAAAAT-AA-AATA
* *
3059527 TTAATGAAACTTAAAATA
1 TTAAAGAAA-ATAAAATA
3059545 TTATAAGAAAATAAAAT
1 TTA-AAGAAAATAAAAT
3059562 TGAGCAGAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 13 0.45
19 15 0.52
20 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (17 bp):
TTAAAGAAAATAAAATA
Found at i:3062021 original size:43 final size:43
Alignment explanation
Indices: 3061974--3062137 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 43
3061964 CTATCACAAA
*
3061974 CGCCGCTGA-AGACTAAGAG-CTTTAGCGGCGTTTTTAATATAAC
1 CGCCGCT-ATAGA-TAAGAGTCTTTAGCGGCGTTTTTAATATAAG
** * **
3062017 CGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTTGTTGA-AAG
1 CGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAAT-ATAAG
* * *
3062060 CGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTTATATAAG
1 CGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAATATAAG
* * *
3062103 CGCCGCTATAGATCATG-GCCTTTAGCGGCGCTTTT
1 CGCCGCTATAGAT-AAGAGTCTTTAGCGGCGTTTTT
3062138 CCCAAAAACG
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 5 0.05
43 94 0.93
44 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (43 bp):
CGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAATATAAG
Found at i:3062150 original size:86 final size:86
Alignment explanation
Indices: 3061993--3062157 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 86
3061983 AGACTAAGAG
* * ****
3061993 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTTGTTGAA
1 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGCCTTTAGCGGCGCTTTTCCCAAA
* *
3062058 AGCGCCGCTATAGATCAGGGT
66 AACGCCGCAATAGATCAGGGT
* *
3062079 CTTTAGCGGCGTTTTTTATATAAGCGCCGCTATAGATCAT-G-GCCTTTAGCGGCGCTTTTCCCA
1 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGAT--TGGTGCCTTTAGCGGCGCTTTTCCCA
3062142 AAAACGCCGCAATAGA
64 AAAACGCCGCAATAGA
3062158 CCCTGATCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 65 0.97
87 1 0.01
88 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (86 bp):
CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGCCTTTAGCGGCGCTTTTCCCAAA
AACGCCGCAATAGATCAGGGT
Found at i:3062291 original size:89 final size:89
Alignment explanation
Indices: 3062125--3062331 Score: 250
Period size: 89 Copynumber: 2.4 Consensus size: 89
3062115 TCATGGCCTT
* * * *
3062125 TAGCGGCGCTTTTCCCAAAAACGCCGC-AATAGACCC--TGATC--TATAGCGGCGCTTATCCAG
1 TAGCGGCGCTTATACCAAAAACGCCGCTAA-ATACCCTTTG-TCTATATAGCGGCGCTTAGCCAG
*
3062185 AAAACGCCGCAATAGACCCTGATCTA
64 AAAACGCCGCAATAGACCCTAATCTA
*
3062211 TAGCGGCGCTTAT-CCAGAAAACGCCGCTAAATACCCTTTGTCTATATAGCGGCGCTTCGCGCA-
1 TAGCGGCGCTTATACCA-AAAACGCCGCTAAATACCCTTTGTCTATATAGCGGCGCTTAGC-CAG
3062274 AAAACGCCGCTAA-AGACCCTAATCTA
64 AAAACGCCGC-AATAGACCCTAATCTA
*
3062300 TAGCGGCGCTTTTACCAAAAACGCCGCTAAAT
1 TAGCGGCGCTTATACCAAAAACGCCGCTAAAT
3062332 TTGGCAGATT
Statistics
Matches: 106, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
85 3 0.03
86 27 0.25
87 4 0.04
88 2 0.02
89 63 0.59
90 7 0.07
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (89 bp):
TAGCGGCGCTTATACCAAAAACGCCGCTAAATACCCTTTGTCTATATAGCGGCGCTTAGCCAGAA
AACGCCGCAATAGACCCTAATCTA
Found at i:3062329 original size:43 final size:42
Alignment explanation
Indices: 3062125--3062330 Score: 238
Period size: 43 Copynumber: 4.7 Consensus size: 42
3062115 TCATGGCCTT
3062125 TAGCGGCGCTTTTCCCAAAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTT-CCAAAAACGCCGCTAA-AGACCCTGATCTA
*
3062168 TAGCGGCGCTTATCCAGAAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTTCCA-AAAACGCCGCTAA-AGACCCTGATCTA
* *
3062211 TAGCGGCGCTTATCCAGAAAACGCCGCTAAATACCCTTTG-TCTATA
1 TAGCGGCGCTTTTCCA-AAAACGCCGCTAAAGACCC--TGATC--TA
** *
3062257 TAGCGGCGCTTCGCGCAAAAACGCCGCTAAAGACCCTAATCTA
1 TAGCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCCTGATCTA
3062300 TAGCGGCGCTTTTACCAAAAACGCCGCTAAA
1 TAGCGGCGCTTTT-CCAAAAACGCCGCTAAA
3062331 TTTGGCAGAT
Statistics
Matches: 146, Mismatches: 8, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
42 3 0.02
43 99 0.68
44 6 0.04
45 4 0.03
46 32 0.22
47 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (42 bp):
TAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCTGATCTA
Found at i:3068856 original size:18 final size:18
Alignment explanation
Indices: 3068833--3068868 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3068823 ATAGTTACGC
3068833 TATGTAAGTTATGTATTA
1 TATGTAAGTTATGTATTA
*
3068851 TATGTAAGTTATTTATTA
1 TATGTAAGTTATGTATTA
3068869 CCCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (18 bp):
TATGTAAGTTATGTATTA
Found at i:3069034 original size:16 final size:16
Alignment explanation
Indices: 3069013--3069223 Score: 92
Period size: 16 Copynumber: 13.1 Consensus size: 16
3069003 ATTAAAAAAA
3069013 TGTAAGTTATGT-AGAT
1 TGTAAGTTATGTAAG-T
3069029 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
3069045 TGTAAGTTATGTAAGTT
1 TGTAAGTTATGTAAG-T
*
3069062 ATGTATA-ATAT-TAA-T
1 -TGTA-AGTTATGTAAGT
* *
3069077 TAACTAACTTATGTAA-T
1 T--GTAAGTTATGTAAGT
*
3069094 T-TAAGTATAATATTAA--
1 TGTAAGT-T-AT-GTAAGT
3069110 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
3069126 TGTAAGTTATGTAAGTT
1 TGTAAGTTATGTAAG-T
*
3069143 ATGTATA-ATAT-TAA-T
1 -TGTA-AGTTATGTAAGT
* *
3069158 TAACTAACTTATGTAA-T
1 T--GTAAGTTATGTAAGT
*
3069175 T-TAAGTATAATATTAA--
1 TGTAAGT-T-AT-GTAAGT
3069191 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
3069207 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
3069223 T
1 T
3069224 ATGTATAATA
Statistics
Matches: 156, Mismatches: 12, Indels: 54
0.70 0.05 0.24
Matches are distributed among these distances:
14 16 0.10
15 10 0.06
16 78 0.50
17 36 0.23
18 14 0.09
19 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:3069040 original size:25 final size:25
Alignment explanation
Indices: 3069012--3069066 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
3069002 AATTAAAAAA
3069012 ATGTAAGTTATGT-AGAT-TGTAAGTT
1 ATGTAAG-T-TGTAAGATATGTAAGTT
*
3069037 ATGTAAGTTGTAAGTTATGTAAGTT
1 ATGTAAGTTGTAAGATATGTAAGTT
3069062 ATGTA
1 ATGTA
3069067 TAATATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 3 0.11
24 4 0.15
25 20 0.74
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.44
Consensus pattern (25 bp):
ATGTAAGTTGTAAGATATGTAAGTT
Found at i:3069041 original size:9 final size:9
Alignment explanation
Indices: 3069012--3069293 Score: 112
Period size: 9 Copynumber: 31.6 Consensus size: 9
3069002 AATTAAAAAA
3069012 ATGTAAGTT
1 ATGTAAGTT
*
3069021 ATGT-AGAT
1 ATGTAAGTT
3069029 -TGTAAGTT
1 ATGTAAGTT
3069037 ATGTAAG-T
1 ATGTAAGTT
3069045 -TGTAAGTT
1 ATGTAAGTT
3069053 ATGTAAGTT
1 ATGTAAGTT
*
3069062 ATGTATA-AT
1 ATGTA-AGTT
3069071 AT-TAA-TT
1 ATGTAAGTT
** *
3069078 AACTAACTT
1 ATGTAAGTT
*
3069087 ATGTAATTT
1 ATGTAAGTT
* *
3069096 AAGTATAATATT
1 -A-TGTAA-GTT
3069108 AATGTAAGTT
1 -ATGTAAGTT
3069118 ATGTAAG-T
1 ATGTAAGTT
3069126 -TGTAAGTT
1 ATGTAAGTT
3069134 ATGTAAGTT
1 ATGTAAGTT
*
3069143 ATGTATA-AT
1 ATGTA-AGTT
3069152 AT-TAA-TT
1 ATGTAAGTT
** *
3069159 AACTAACTT
1 ATGTAAGTT
*
3069168 ATGTAATTT
1 ATGTAAGTT
* *
3069177 AAGTATAATATT
1 -A-TGTAA-GTT
3069189 AATGTAAGTT
1 -ATGTAAGTT
3069199 ATGTAAG-T
1 ATGTAAGTT
3069207 -TGTAAGTT
1 ATGTAAGTT
3069215 ATGTAAGTT
1 ATGTAAGTT
*
3069224 ATGTATA-AT
1 ATGTA-AGTT
3069233 AT-TAA-TT
1 ATGTAAGTT
** *
3069240 AACTAACTT
1 ATGTAAGTT
*
3069249 ATGTAATTT
1 ATGTAAGTT
* *
3069258 AAGTATAATATT
1 -A-TGTAA-GTT
3069270 AATGTAAGTT
1 -ATGTAAGTT
3069280 ATGTAAGTT
1 ATGTAAGTT
3069289 ATGTA
1 ATGTA
3069294 TAATATTAAT
Statistics
Matches: 215, Mismatches: 32, Indels: 52
0.72 0.11 0.17
Matches are distributed among these distances:
7 30 0.14
8 27 0.13
9 110 0.51
10 12 0.06
11 24 0.11
12 12 0.06
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:3069126 original size:81 final size:81
Alignment explanation
Indices: 3069029--3069288 Score: 520
Period size: 81 Copynumber: 3.2 Consensus size: 81
3069019 TTATGTAGAT
3069029 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTTATGTAAT
1 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTTATGTAAT
3069094 TTAAGTATAATATTAA
66 TTAAGTATAATATTAA
3069110 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTTATGTAAT
1 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTTATGTAAT
3069175 TTAAGTATAATATTAA
66 TTAAGTATAATATTAA
3069191 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTTATGTAAT
1 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTTATGTAAT
3069256 TTAAGTATAATATTAA
66 TTAAGTATAATATTAA
3069272 TGTAAGTTATGTAAGTT
1 TGTAAGTTATGTAAGTT
3069289 ATGTATAATA
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 179 1.00
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (81 bp):
TGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTTATGTAAT
TTAAGTATAATATTAA
Found at i:3069202 original size:65 final size:64
Alignment explanation
Indices: 3069126--3069587 Score: 516
Period size: 65 Copynumber: 6.9 Consensus size: 64
3069116 TTATGTAAGT
* * * *
3069126 TGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAA
1 TGTAAGTTATGTAA-TTATGTATAATATTAATTAATTAAGTTATATAATTTATGTATAATATTAA
* *
3069191 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGT-ATAATATTAA-TTA-ACTAACTTATGT
1 TGTAAGTTATGTAA--T-TATG-TA--TAA--TAT-TAATTA-ATTAAGTTATA-TAA--T-T-T
3069253 AATTTAAGTATAATATTAA
51 -A--T--GTATAATATTAA
* * *
3069272 TGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAA-TTATGTATAATATTAATTAATTAAGTTATATAATTTATGTATAATATTAA
*
3069337 TGTAAGTTATGTAATTAATGTATAATATTAATTAATTAAGTCATATAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATT-ATGTATAATATTAATTAATTAAGTTATATAATTTATGTATAATATTAA
* *
3069402 TGTAAGTTATGTAATTAATGTATAATATTAATTAATTAAGTCATATAATTTATGTACAATATTAA
1 TGTAAGTTATGTAATT-ATGTATAATATTAATTAATTAAGTTATATAATTTATGTATAATATTAA
* * *
3069467 TATAAGTTATGTAATTAATGTATAATATTAATCAATTAAGTCATATAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATT-ATGTATAATATTAATTAATTAAGTTATATAATTTATGTATAATATTAA
* *
3069532 TGCAAGTTATGTAATATATGTATAATATTAATTAATTAAGTTATGTAATTTATGTA
1 TGTAAGTTATGTAAT-TATGTATAATATTAATTAATTAAGTTATATAATTTATGTA
3069588 ATTTATGTAT
Statistics
Matches: 349, Mismatches: 24, Indels: 48
0.83 0.06 0.11
Matches are distributed among these distances:
64 2 0.01
65 259 0.74
66 2 0.01
67 4 0.01
68 2 0.01
69 1 0.00
70 4 0.01
71 1 0.00
72 13 0.04
73 10 0.03
74 13 0.04
75 1 0.00
76 4 0.01
77 1 0.00
78 2 0.01
79 3 0.01
80 1 0.00
81 26 0.07
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (64 bp):
TGTAAGTTATGTAATTATGTATAATATTAATTAATTAAGTTATATAATTTATGTATAATATTAA
Found at i:3069365 original size:130 final size:129
Alignment explanation
Indices: 3069207--3069587 Score: 602
Period size: 130 Copynumber: 2.9 Consensus size: 129
3069197 TTATGTAAGT
* * * * *
3069207 TGTAAGTTATGTAAGTT-ATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTA
1 TGTAAGTTATGTAA-TTAATGTATAATATTAATTAATTAAGTCATATAATTTATGTATAATATTA
* * *
3069271 ATGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTATGTATAATATTA
65 ATGTAAGTTATGTAA-TTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTACAATATTA
3069336 A
129 A
3069337 TGTAAGTTATGTAATTAATGTATAATATTAATTAATTAAGTCATATAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTAATGTATAATATTAATTAATTAAGTCATATAATTTATGTATAATATTAA
* *
3069402 TGTAAGTTATGTAATTAATGTATAATATTAATTAATTAAGTCATATAATTTATGTACAATATTAA
66 TGTAAGTTATGTAATT-ATGTATAATATTAATTAATTAAGTTATGTAATTTATGTACAATATTAA
* *
3069467 TATAAGTTATGTAATTAATGTATAATATTAATCAATTAAGTCATATAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTAATGTATAATATTAATTAATTAAGTCATATAATTTATGTATAATATTAA
*
3069532 TGCAAGTTATGTAATATATGTATAATATTAATTAATTAAGTTATGTAATTTATGTA
66 TGTAAGTTATGTAAT-TATGTATAATATTAATTAATTAAGTTATGTAATTTATGTA
3069588 ATTTATGTAT
Statistics
Matches: 233, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
129 4 0.02
130 228 0.98
131 1 0.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (129 bp):
TGTAAGTTATGTAATTAATGTATAATATTAATTAATTAAGTCATATAATTTATGTATAATATTAA
TGTAAGTTATGTAATTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTACAATATTAA
Found at i:3069434 original size:195 final size:195
Alignment explanation
Indices: 3069207--3069587 Score: 579
Period size: 195 Copynumber: 2.0 Consensus size: 195
3069197 TTATGTAAGT
* * *
3069207 TGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAA
1 TGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTCATATAATTTAAGTACAATATTAA
* * * *
3069272 TGTAAGTTATGTAAGTT-ATGTATAATATTAATTAACTAACTTATGTAATTTATGTATAATATTA
66 TATAAGTTATGTAA-TTAATGTATAATATTAATCAACTAACTCATATAATTTATGTATAATATTA
*
3069336 ATGTAAGTTATGTAAT-TAATGTATAATATTAATTAATTAAGTCATATAATTTATGTATAATATT
130 ATGCAAGTTATGTAATAT-ATGTATAATATTAATTAATTAAGTCATATAATTTATGTATAATATT
3069400 AA
194 AA
* * *
3069402 TGTAAGTTATGTAA-TTAATGTATAATATTAATTAATTAAGTCATATAATTTATGTACAATATTA
1 TGTAAGTTATGTAAGTT-ATGTATAATATTAATTAACTAACTCATATAATTTAAGTACAATATTA
* *
3069466 ATATAAGTTATGTAATTAATGTATAATATTAATCAATTAAGTCATATAATTTATGTATAATATTA
65 ATATAAGTTATGTAATTAATGTATAATATTAATCAACTAACTCATATAATTTATGTATAATATTA
* *
3069531 ATGCAAGTTATGTAATATATGTATAATATTAATTAATTAAGTTATGTAATTTATGTA
130 ATGCAAGTTATGTAATATATGTATAATATTAATTAATTAAGTCATATAATTTATGTA
3069588 ATTTATGTAT
Statistics
Matches: 168, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
194 4 0.02
195 163 0.97
196 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (195 bp):
TGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTCATATAATTTAAGTACAATATTAA
TATAAGTTATGTAATTAATGTATAATATTAATCAACTAACTCATATAATTTATGTATAATATTAA
TGCAAGTTATGTAATATATGTATAATATTAATTAATTAAGTCATATAATTTATGTATAATATTAA
Found at i:3069576 original size:25 final size:25
Alignment explanation
Indices: 3069548--3069632 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 25
3069538 TTATGTAATA
3069548 TATGTATAATATTAATTAATTAAGT
1 TATGTATAATATTAATTAATTAAGT
3069573 TATG--TAAT-TT-ATGTAA-T---T
1 TATGTATAATATTAAT-TAATTAAGT
* *
3069591 TATGTATAATATTAAATAATCAAGT
1 TATGTATAATATTAATTAATTAAGT
3069616 TATGTATAATATTAATT
1 TATGTATAATATTAATT
3069633 TTTTTATACA
Statistics
Matches: 48, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
18 5 0.10
20 4 0.08
21 8 0.17
22 6 0.12
23 4 0.08
25 21 0.44
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.48
Consensus pattern (25 bp):
TATGTATAATATTAATTAATTAAGT
Found at i:3069586 original size:43 final size:43
Alignment explanation
Indices: 3069538--3069621 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
3069528 TTAATGCAAG
* *
3069538 TTATGTAATATATGTATAATATTAATTAATTAAGTTATGTAAT
1 TTATGTAATATATGTATAATATTAAATAATCAAGTTATGTAAT
*
3069581 TTATGTAATTTATGTATAATATTAAATAATCAAGTTATGTA
1 TTATGTAATATATGTATAATATTAAATAATCAAGTTATGTA
3069622 TAATATTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.48
Consensus pattern (43 bp):
TTATGTAATATATGTATAATATTAAATAATCAAGTTATGTAAT
Found at i:3073386 original size:115 final size:112
Alignment explanation
Indices: 3073082--3073406 Score: 431
Period size: 115 Copynumber: 2.9 Consensus size: 112
3073072 NNNNNNNAGT
* * * *
3073082 GGCGCTTTACATAAACTCCGCGAAAGACCCCAAAAACTTAGAAAACGGTGCCG-TTGAGCTTAGG
1 GGCGCTTTACATAAACGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTTG-TCTTAGG
*
3073146 CTTTTTTGCGGCGCTTTAAAAAAAACGCCGCTAAAGACATGAGCATTAGC
65 C-TTTTTGCGGCGCTTT-TAAAAAACGCCGCTAAAGACATGAGCATTAGC
* * * * *
3073196 GACACTTTACATAAACGCCACTAAAGACCCC-AAAACTCAGAAAACGGTGCCGTTGGGT-TTAGA
1 GGCGCTTTACATAAACGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTT-TGTCTTAGG
*
3073259 CTTTTTGCGGCGCTTTTAAAACAACGCCGCTAAAGACTTGAGCATTAGC
65 CTTTTTGCGGCGCTTTTAAAA-AACGCCGCTAAAGACATGAGCATTAGC
* * *
3073308 GGCGCTTTTACAGAAAACGCCGCTAAAGACCCCAAAAAATCAGAAAACGGTGCCGTTTGTCTTTG
1 GGCGC-TTTACA-TAAACGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTTGTCTTAG
3073373 GCTTTTTGCGGCGCTTTTATAAAAACGCCGCTAA
64 GCTTTTTGCGGCGCTTTTA-AAAAACGCCGCTAA
3073407 TGCTTATTTT
Statistics
Matches: 184, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
111 4 0.02
112 44 0.24
113 31 0.17
114 47 0.26
115 55 0.30
116 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (112 bp):
GGCGCTTTACATAAACGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTTGTCTTAGGC
TTTTTGCGGCGCTTTTAAAAAACGCCGCTAAAGACATGAGCATTAGC
Found at i:3076318 original size:16 final size:17
Alignment explanation
Indices: 3076281--3076318 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
3076271 AATTTTTAAG
3076281 TTTTAAAAATGATATTTA
1 TTTTAAAAATGATA-TTA
3076299 TTTTAAAAATGATA-TA
1 TTTTAAAAATGATATTA
3076315 TTTT
1 TTTT
3076319 TATTTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
18 14 0.70
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
TTTTAAAAATGATATTA
Found at i:3082857 original size:22 final size:22
Alignment explanation
Indices: 3082829--3082874 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
3082819 TTCCCATTTT
3082829 ATATGAAGAACTATTGAACTCA
1 ATATGAAGAACTATTGAACTCA
3082851 ATATGAAGAACTATTGAACTCA
1 ATATGAAGAACTATTGAACTCA
3082873 AT
1 AT
3082875 CACTTGCTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (22 bp):
ATATGAAGAACTATTGAACTCA
Found at i:3083006 original size:212 final size:212
Alignment explanation
Indices: 3082639--3083040 Score: 786
Period size: 212 Copynumber: 1.9 Consensus size: 212
3082629 CAATAATTTT
3082639 ATATGAAGAACTATTGAACTCAATCACTTGCTACTGTTACTCTTCAGTTTTCTGTTGAGGTCTAC
1 ATATGAAGAACTATTGAACTCAATCACTTGCTACTGTTACTCTTCAGTTTTCTGTTGAGGTCTAC
*
3082704 CCTGTAGAGGTACTCAAATTTGATTAATGATCAATTTTTAGGTTTCGTCATTAACCTAATTGGTT
66 CCTGTAGAGGTACTCAAATTTGATCAATGATCAATTTTTAGGTTTCGTCATTAACCTAATTGGTT
3082769 CCTTTTAATTAGGTAAATCATAGCTCAAACTGCACTCAAAGGTAGGGCATTTCCCATTTTATATG
131 CCTTTTAATTAGGTAAATCATAGCTCAAACTGCACTCAAAGGTAGGGCATTTCCCATTTTATATG
3082834 AAGAACTATTGAACTCA
196 AAGAACTATTGAACTCA
*
3082851 ATATGAAGAACTATTGAACTCAATCACTTGCTGCTGTTACTCTTCAGTTTTCTGTTGAGGTCTAC
1 ATATGAAGAACTATTGAACTCAATCACTTGCTACTGTTACTCTTCAGTTTTCTGTTGAGGTCTAC
3082916 CCTGTAGAGGTACTCAAATTTGATCAATGATCAATTTTTAGGTTTCGTCATTAACCTAATTGGTT
66 CCTGTAGAGGTACTCAAATTTGATCAATGATCAATTTTTAGGTTTCGTCATTAACCTAATTGGTT
3082981 CCTTTTAATTAGGTAAATCATAGCTCAAACTGCACTCAAAGGTAGGGCATTTCCCATTTT
131 CCTTTTAATTAGGTAAATCATAGCTCAAACTGCACTCAAAGGTAGGGCATTTCCCATTTT
3083041 TATAGGAACT
Statistics
Matches: 188, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
212 188 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (212 bp):
ATATGAAGAACTATTGAACTCAATCACTTGCTACTGTTACTCTTCAGTTTTCTGTTGAGGTCTAC
CCTGTAGAGGTACTCAAATTTGATCAATGATCAATTTTTAGGTTTCGTCATTAACCTAATTGGTT
CCTTTTAATTAGGTAAATCATAGCTCAAACTGCACTCAAAGGTAGGGCATTTCCCATTTTATATG
AAGAACTATTGAACTCA
Found at i:3083839 original size:13 final size:14
Alignment explanation
Indices: 3083821--3083850 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
3083811 TCGATTAAAC
3083821 AAATTGTAAAA-AA
1 AAATTGTAAAATAA
3083834 AAATTGTAAAATAA
1 AAATTGTAAAATAA
3083848 AAA
1 AAA
3083851 ATATTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (14 bp):
AAATTGTAAAATAA
Found at i:3086042 original size:2 final size:2
Alignment explanation
Indices: 3086035--3086072 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
3086025 GACATGTGCG
*
3086035 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3086073 AAAAATATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Done.