Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 82 of 129
Found at i:13217849 original size:18 final size:15
Alignment explanation
Indices: 13217818--13217882 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 15
13217808 TATTATTAAA
13217818 TTTTTTTA--TTTAT
1 TTTTTTTAGTTTTAT
13217831 TATTTTTTAGGTCTTTAT
1 T-TTTTTTA-GT-TTTAT
13217849 TTTATTTTAGTTTTAT
1 TTT-TTTTAGTTTTAT
13217865 TTTTTATTA-TATTTAT
1 TTTTT-TTAGT-TTTAT
13217881 TT
1 TT
13217883 ATATATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 1 0.02
14 7 0.16
15 3 0.07
16 18 0.41
17 4 0.09
18 11 0.25
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (15 bp):
TTTTTTTAGTTTTAT
Found at i:13218412 original size:9 final size:10
Alignment explanation
Indices: 13218389--13218417 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
13218379 TTGTGACCCA
13218389 AAAAAATTTT
1 AAAAAATTTT
13218399 AAAAAATTTT
1 AAAAAATTTT
13218409 AAAAAATTT
1 AAAAAATTT
13218418 CCCCAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:13230682 original size:22 final size:22
Alignment explanation
Indices: 13230630--13230682 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
13230620 CCCGAAATTA
*
13230630 ATAAAATATTATTTTTTAAAAT
1 ATAAAATTTTATTTTTTAAAAT
13230652 ATAAAATTTTATTTTTT-AAAT
1 ATAAAATTTTATTTTTTAAAAT
13230673 ATAAATATTT
1 ATAAA-ATTT
13230683 AAAAATATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 9 0.31
22 20 0.69
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATAAAATTTTATTTTTTAAAAT
Found at i:13230683 original size:21 final size:22
Alignment explanation
Indices: 13230629--13230683 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
13230619 ACCCGAAATT
13230629 AATA-AAATA-TTATTTTTTAA
1 AATATAAATATTTATTTTTTAA
13230649 AATATAAA-ATTTTATTTTTT-A
1 AATATAAATA-TTTATTTTTTAA
13230670 AATATAAATATTTA
1 AATATAAATATTTA
13230684 AAAATATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.16
21 16 0.52
22 10 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATAAATATTTATTTTTTAA
Found at i:13231019 original size:13 final size:13
Alignment explanation
Indices: 13230988--13231060 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 13
13230978 GTTATTTTCG
*
13230988 ATAATTTAA-AAT
1 ATAATATAATAAT
13231000 ATAATATAATAAT
1 ATAATATAATAAT
*
13231013 ATCATAT-A-AAT
1 ATAATATAATAAT
*
13231024 AAAATATAA-AAT
1 ATAATATAATAAT
*
13231036 -TAATATAGT-AT
1 ATAATATAATAAT
*
13231047 AAAATTATAATAAT
1 ATAA-TATAATAAT
13231061 TATTATTTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
11 16 0.34
12 15 0.32
13 14 0.30
14 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:13231040 original size:11 final size:12
Alignment explanation
Indices: 13230988--13231042 Score: 60
Period size: 11 Copynumber: 4.7 Consensus size: 12
13230978 GTTATTTTCG
*
13230988 ATAATTTAAAAT
1 ATAATATAAAAT
13231000 ATAATATAATAAT
1 ATAATATAA-AAT
*
13231013 ATCATAT-AAAT
1 ATAATATAAAAT
*
13231024 AAAATATAAAAT
1 ATAATATAAAAT
13231036 -TAATATA
1 ATAATATA
13231043 GTATAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 14 0.39
12 13 0.36
13 9 0.25
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:13231170 original size:31 final size:31
Alignment explanation
Indices: 13231135--13231207 Score: 74
Period size: 33 Copynumber: 2.3 Consensus size: 31
13231125 AATTCGTAAT
*
13231135 TTTTATTTAAAATATAATATAAATATATTAA
1 TTTTATTTAAAATATAATATAAATATATAAA
*** *
13231166 TTTTAATTATTTTATATGATATAAATATATAAA
1 TTTT-ATT-TAAAATATAATATAAATATATAAA
13231199 TTATTATTT
1 TT-TTATTT
13231208 TTTACTAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
31 4 0.12
32 4 0.12
33 24 0.71
34 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (31 bp):
TTTTATTTAAAATATAATATAAATATATAAA
Found at i:13250346 original size:17 final size:18
Alignment explanation
Indices: 13250313--13250347 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13250303 AAATGAAAAA
13250313 AAATAAAAGAGAAACAAT
1 AAATAAAAGAGAAACAAT
*
13250331 AAATAAACGA-AAACAAT
1 AAATAAAAGAGAAACAAT
13250348 CAAAATGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.11
Consensus pattern (18 bp):
AAATAAAAGAGAAACAAT
Found at i:13250789 original size:18 final size:18
Alignment explanation
Indices: 13250766--13250839 Score: 75
Period size: 18 Copynumber: 4.2 Consensus size: 18
13250756 GATAATTTAA
13250766 AATATAATATAATAA-TAT
1 AATATAATATAA-AATTAT
*
13250784 AATATAA-ATAAAATTTAA
1 AATATAATATAAAA-TTAT
*
13250802 AATAAAATATAAAA-T-T
1 AATATAATATAAAATTAT
*
13250818 AATATAGTATAAAATTAT
1 AATATAATATAAAATTAT
13250836 AATA
1 AATA
13250840 ATTATTATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
16 14 0.30
17 6 0.13
18 20 0.43
19 6 0.13
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (18 bp):
AATATAATATAAAATTAT
Found at i:13250840 original size:34 final size:36
Alignment explanation
Indices: 13250759--13250833 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
13250749 TATTTTCGAT
*
13250759 AATTTAAAATATAATATAATAATATAATATAAATAA
1 AATTTAAAATAAAATATAATAATATAATATAAATAA
*
13250795 AATTTAAAATAAAATATAA-AAT-TAATATAGTATAA
1 AATTTAAAATAAAATATAATAATATAATATA-AATAA
13250830 AATT
1 AATT
13250834 ATAATAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 7 0.19
35 11 0.31
36 18 0.50
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (36 bp):
AATTTAAAATAAAATATAATAATATAATATAAATAA
Found at i:13251382 original size:15 final size:15
Alignment explanation
Indices: 13251355--13251401 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 15
13251345 TAAAAATTTA
*
13251355 TAATTTTTA-AATAT
1 TAATTTTAATAATAT
13251369 TAATTTTAATAATATAT
1 TAATTTTAAT-A-ATAT
*
13251386 TAGTTTTAATAATAT
1 TAATTTTAATAATAT
13251401 T
1 T
13251402 TTAATTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 8 0.29
15 5 0.18
16 2 0.07
17 13 0.46
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TAATTTTAATAATAT
Found at i:13251387 original size:17 final size:17
Alignment explanation
Indices: 13251365--13251407 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
13251355 TAATTTTTAA
13251365 ATATTAATTTTAATAAT
1 ATATTAATTTTAATAAT
*
13251382 ATATTAGTTTTAATAAT
1 ATATTAATTTTAATAAT
*
13251399 ATTTTAATT
1 ATATTAATT
13251408 AATTCAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
ATATTAATTTTAATAAT
Found at i:13254528 original size:18 final size:20
Alignment explanation
Indices: 13254492--13254537 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
13254482 TGCCATCCCA
13254492 ATTTTTTTGGTTCTGTTTTT
1 ATTTTTTTGGTTCTGTTTTT
*
13254512 ATTTTTTT-GTTGT-TTTTT
1 ATTTTTTTGGTTCTGTTTTT
13254530 ATTTTTTT
1 ATTTTTTT
13254538 TAAATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 13 0.52
19 4 0.16
20 8 0.32
ACGTcount: A:0.07, C:0.02, G:0.11, T:0.80
Consensus pattern (20 bp):
ATTTTTTTGGTTCTGTTTTT
Found at i:13254537 original size:19 final size:20
Alignment explanation
Indices: 13254492--13254538 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
13254482 TGCCATCCCA
*
13254492 ATTTTTTTGGTTCTGTTTTT
1 ATTTTTTTTGTTCTGTTTTT
*
13254512 A-TTTTTTTGTTGT-TTTTT
1 ATTTTTTTTGTTCTGTTTTT
13254530 ATTTTTTTT
1 ATTTTTTTT
13254539 AAATTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.25
19 17 0.71
20 1 0.04
ACGTcount: A:0.06, C:0.02, G:0.11, T:0.81
Consensus pattern (20 bp):
ATTTTTTTTGTTCTGTTTTT
Found at i:13260500 original size:42 final size:42
Alignment explanation
Indices: 13260402--13260524 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
13260392 AAAGTGTCAT
* *
13260402 AGCCTCTACTTAGATGAGCACTTTTAAATTTTCAAAAGTTATCA
1 AGCCTCTACTTAAAAGAG--CTTTTAAATTTTCAAAAGTTATCA
* * * *
13260446 GGCCTCTACTT-AAAGAAGCTTTTAAATTTTTAAAAGTTGTTA
1 AGCCTCTACTTAAAAG-AGCTTTTAAATTTTCAAAAGTTATCA
* * * *
13260488 AGTCTTTGCTTAAAAGAGCTTTTAAAATTTCAAAAGT
1 AGCCTCTACTTAAAAGAGCTTTTAAATTTTCAAAAGT
13260525 AAAAAAGCCC
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 47 0.72
43 6 0.09
44 12 0.18
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (42 bp):
AGCCTCTACTTAAAAGAGCTTTTAAATTTTCAAAAGTTATCA
Found at i:13261678 original size:19 final size:19
Alignment explanation
Indices: 13261650--13261695 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
13261640 CATATGGAAG
*
13261650 TTTT-TTTTTTCATTTTAT
1 TTTTATTTTTTCATTTCAT
*
13261668 TTTTATTTTTTGATTTCAT
1 TTTTATTTTTTCATTTCAT
*
13261687 TTTGATTTT
1 TTTTATTTT
13261696 ACTTTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTTATTTTTTCATTTCAT
Found at i:13265168 original size:20 final size:21
Alignment explanation
Indices: 13265145--13265186 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
13265135 ATATTTAAGA
13265145 TCTTATTTTA-TTATTA-TTAT
1 TCTT-TTTTATTTATTAGTTAT
13265165 TCTTTTTTATTTATTAGTTAT
1 TCTTTTTTATTTATTAGTTAT
13265186 T
1 T
13265187 GATTCATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 10 0.50
21 5 0.25
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (21 bp):
TCTTTTTTATTTATTAGTTAT
Found at i:13265448 original size:14 final size:15
Alignment explanation
Indices: 13265429--13265468 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
13265419 AATTTATAAT
13265429 TTTTAGGTTTTG-GA
1 TTTTAGGTTTTGAGA
*
13265443 TTTTAGGGTTTGAGA
1 TTTTAGGTTTTGAGA
*
13265458 TTTTAGATTTT
1 TTTTAGGTTTT
13265469 AGGGCTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.17, C:0.00, G:0.25, T:0.57
Consensus pattern (15 bp):
TTTTAGGTTTTGAGA
Found at i:13265461 original size:22 final size:21
Alignment explanation
Indices: 13265436--13265497 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
13265426 AATTTTTAGG
13265436 TTTTGGATTTTAGGGTTTGAGA
1 TTTTGGATTTTAGGGTTTGA-A
* * *
13265458 TTTTAGATTTTAGGGCTTCAA
1 TTTTGGATTTTAGGGTTTGAA
*
13265479 TTTTGGGATTTGA-GGTTTG
1 TTTT-GGATTTTAGGGTTTG
13265498 GGGTTTCATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 9 0.28
22 23 0.72
ACGTcount: A:0.18, C:0.03, G:0.29, T:0.50
Consensus pattern (21 bp):
TTTTGGATTTTAGGGTTTGAA
Found at i:13265584 original size:28 final size:28
Alignment explanation
Indices: 13265478--13265613 Score: 95
Period size: 29 Copynumber: 4.8 Consensus size: 28
13265468 TAGGGCTTCA
**
13265478 ATTTT-GGGATTTGA-GGTTTGGGGTTTC
1 ATTTTAGGG-TTTGAGGGTTTAAGGTTTC
13265505 ATTTTAGGGTTTAGAGGGTTT-AGGATTTC
1 ATTTTAGGGTTT-GAGGGTTTAAGG-TTTC
* **
13265534 ATTTTAGGATTTAGAGAATTTAAGGTTT-
1 ATTTTAGGGTTT-GAGGGTTTAAGGTTTC
* *
13265562 AGTTTTGGGGTTTGAGGGTTTAAAGTCTT-
1 A-TTTTAGGGTTTGAGGGTTTAAGGT-TTC
*
13265591 AGATTTAGGGTTTG-GGGTTTAAG
1 A-TTTTAGGGTTTGAGGGTTTAAG
13265614 ACTTGGATTT
Statistics
Matches: 90, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
27 8 0.09
28 26 0.29
29 53 0.59
30 3 0.03
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.45
Consensus pattern (28 bp):
ATTTTAGGGTTTGAGGGTTTAAGGTTTC
Found at i:13265592 original size:29 final size:27
Alignment explanation
Indices: 13265552--13265612 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
13265542 ATTTAGAGAA
* * *
13265552 TTTAAGGTTTAGTTTTGGGGTTTGAGGG
1 TTTAAAGTTTAGATTTAGGGTTTG-GGG
13265580 TTTAAAGTCTTAGATTTAGGGTTTGGGG
1 TTTAAAGT-TTAGATTTAGGGTTTGGGG
13265608 TTTAA
1 TTTAA
13265613 GACTTGGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.46
Consensus pattern (27 bp):
TTTAAAGTTTAGATTTAGGGTTTGGGG
Found at i:13265625 original size:28 final size:30
Alignment explanation
Indices: 13265560--13265625 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
13265550 AATTTAAGGT
* *
13265560 TTAG-TTTTGGGGTTTGAGGGTTTAAAGTC
1 TTAGATTTTAGGGTTTGAGGGTTTAAAGAC
13265589 TTAGA-TTTAGGGTTTG-GGGTTT-AAGAC
1 TTAGATTTTAGGGTTTGAGGGTTTAAAGAC
*
13265616 TTGGATTTTA
1 TTAGATTTTA
13265626 AAGTTTAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 8 0.25
28 10 0.31
29 14 0.44
ACGTcount: A:0.20, C:0.03, G:0.32, T:0.45
Consensus pattern (30 bp):
TTAGATTTTAGGGTTTGAGGGTTTAAAGAC
Found at i:13265761 original size:3 final size:3
Alignment explanation
Indices: 13265753--13265797 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
13265743 TTATAGAAAT
* * *
13265753 TTA TTA TTA TTA TTA TTA TCA AT- TTA TTA GTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13265798 GCTTTTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:13265776 original size:23 final size:23
Alignment explanation
Indices: 13265750--13265794 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
13265740 TTTTTATAGA
*
13265750 AATTTATTATTATTATTATTATC
1 AATTTATTAGTATTATTATTATC
13265773 AATTTATTAGTATTATTATTAT
1 AATTTATTAGTATTATTATTAT
13265795 TATGCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
AATTTATTAGTATTATTATTATC
Found at i:13265941 original size:3 final size:3
Alignment explanation
Indices: 13265906--13265961 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
13265896 ATAATAAAAA
* * *
13265906 ATT ATT -TT ATT CTT ATT ATA ATT -TT -TT A-G ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13265950 ATT ATT ATT ATT
1 ATT ATT ATT ATT
13265962 TAAGCATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 7 0.16
3 37 0.84
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:13266766 original size:7 final size:7
Alignment explanation
Indices: 13266754--13266800 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
13266744 CGGCAAGGAC
13266754 TTTGTTT
1 TTTGTTT
13266761 TTTGTTGAT
1 TTTGTT--T
*
13266770 TTTGTTG
1 TTTGTTT
13266777 TTTGTTT
1 TTTGTTT
13266784 TTT-TTT
1 TTTGTTT
*
13266790 TTTTTTT
1 TTTGTTT
13266797 TTTG
1 TTTG
13266801 GGTGTGTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 6 0.18
7 21 0.62
9 7 0.21
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.83
Consensus pattern (7 bp):
TTTGTTT
Found at i:13267850 original size:22 final size:22
Alignment explanation
Indices: 13267802--13267854 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
13267792 ATCATGCCTG
**
13267802 GAGGTCTTAGAAATTATGGTCA
1 GAGGTCTTAGAAATTATGCCCA
13267824 GAGGTCTTAGAAATTATGCCCTA
1 GAGGTCTTAGAAATTATGCCC-A
13267847 -AGGTCTTA
1 GAGGTCTTA
13267855 AAGAATAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (22 bp):
GAGGTCTTAGAAATTATGCCCA
Found at i:13267952 original size:22 final size:22
Alignment explanation
Indices: 13267921--13268041 Score: 129
Period size: 22 Copynumber: 5.5 Consensus size: 22
13267911 ATCGTGAGTT
* * * *
13267921 GAAATCATGCCCGAGGGTTTTA
1 GAAATTATGCCCAAAGGTCTTA
13267943 GAAATTATGCCCAAAGGTCTTA
1 GAAATTATGCCCAAAGGTCTTA
** *
13267965 GAAATTATGCTTAGAGGTCTT-
1 GAAATTATGCCCAAAGGTCTTA
13267986 GAAAATTATG-CCAAGAGGTCTTA
1 G-AAATTATGCCCAA-AGGTCTTA
*
13268009 GAAATTATGCTCAAAGGTCTTA
1 GAAATTATGCCCAAAGGTCTTA
*
13268031 GAGATTATGCC
1 GAAATTATGCC
13268042 TGAAGGTATT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
21 2 0.02
22 76 0.93
23 4 0.05
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (22 bp):
GAAATTATGCCCAAAGGTCTTA
Found at i:13268038 original size:44 final size:43
Alignment explanation
Indices: 13267940--13268041 Score: 143
Period size: 44 Copynumber: 2.3 Consensus size: 43
13267930 CCCGAGGGTT
* *
13267940 TTAGAAATTATGCCCAAAGGTCTTAGAAATTATGCTTAGAGGTC
1 TTAGAAATTATG-CCAAAGGTCTTAGAAATTATGCTCAAAGGTC
13267984 TT-GAAAATTATGCCAAGAGGTCTTAGAAATTATGCTCAAAGGTC
1 TTAG-AAATTATGCCAA-AGGTCTTAGAAATTATGCTCAAAGGTC
*
13268028 TTAGAGATTATGCC
1 TTAGAAATTATGCC
13268042 TGAAGGTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
43 5 0.10
44 46 0.88
45 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (43 bp):
TTAGAAATTATGCCAAAGGTCTTAGAAATTATGCTCAAAGGTC
Found at i:13268109 original size:95 final size:95
Alignment explanation
Indices: 13267987--13268180 Score: 232
Period size: 95 Copynumber: 2.0 Consensus size: 95
13267977 AGAGGTCTTG
* * * * * *
13267987 AAAATTATGCCAAGAGGTCTTAGAAATTATGCTCAAAGGTCTTAGAGATTATGCCTGA-AGGTAT
1 AAAATTACGCCAAGAGGTCTTAAAAATTATGCCCAAAGGTCTTAGAAATCATGCC-AATAGGTAT
*
13268051 TAAAGAATCGA-TCGGGACAACACCACAAGTC
65 TAAAGAATCGACT-AGGACAACACCACAAGTC
* * *
13268082 AAAATTACGCCTAGAGGT-TCTAAAAATTATGCCCAGAGGTCTTAGAAATCATGCCAATAGGTCT
1 AAAATTACGCCAAGAGGTCT-TAAAAATTATGCCCAAAGGTCTTAGAAATCATGCCAATAGGTAT
**
13268146 TAAAGAATCGACTAGGACAACACCGTAAGTC
65 TAAAGAATCGACTAGGACAACACCACAAGTC
13268177 AAAA
1 AAAA
13268181 AATAAAGAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
94 2 0.02
95 81 0.96
96 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (95 bp):
AAAATTACGCCAAGAGGTCTTAAAAATTATGCCCAAAGGTCTTAGAAATCATGCCAATAGGTATT
AAAGAATCGACTAGGACAACACCACAAGTC
Found at i:13268130 original size:22 final size:22
Alignment explanation
Indices: 13268082--13268149 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
13268072 ACCACAAGTC
* *
13268082 AAAATTACGCCTAGAGGT-TCTA
1 AAAATTATGCCAAGAGGTCT-TA
*
13268104 AAAATTATGCCCAGAGGTCTTA
1 AAAATTATGCCAAGAGGTCTTA
* * *
13268126 GAAATCATGCCAATAGGTCTTA
1 AAAATTATGCCAAGAGGTCTTA
13268148 AA
1 AA
13268150 GAATCGACTA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 37 0.97
23 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (22 bp):
AAAATTATGCCAAGAGGTCTTA
Found at i:13268201 original size:37 final size:37
Alignment explanation
Indices: 13268146--13268217 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
13268136 CAATAGGTCT
* * *
13268146 TAAAGAATCGACTAGGACAACACCGTAAGTCAAAAAA
1 TAAAGAATCAACTAGGACAACACCATAAATCAAAAAA
* *
13268183 TAAAGAATCAATTGGGACAACACCATAAATCAAAA
1 TAAAGAATCAACTAGGACAACACCATAAATCAAAA
13268218 TTATGCTCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.53, C:0.18, G:0.14, T:0.15
Consensus pattern (37 bp):
TAAAGAATCAACTAGGACAACACCATAAATCAAAAAA
Found at i:13275120 original size:21 final size:21
Alignment explanation
Indices: 13275077--13275121 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
13275067 GAACTACATG
* *
13275077 TTAAGAGAAAATCTATTTTTT
1 TTAAAAGAAAATCTATTTCTT
13275098 TTAAAAGAAAATGCT-TTTCTT
1 TTAAAAGAAAAT-CTATTTCTT
13275119 TTA
1 TTA
13275122 TTATCCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (21 bp):
TTAAAAGAAAATCTATTTCTT
Found at i:13276822 original size:14 final size:15
Alignment explanation
Indices: 13276805--13276844 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
13276795 GTTTTTTTAA
13276805 TTTTGGATTTT-AGG
1 TTTTGGATTTTAAGG
13276819 TTTTGGATTTTAAGG
1 TTTTGGATTTTAAGG
*
13276834 TTTGGGATTTT
1 TTTTGGATTTT
13276845 GGATTTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.57
Consensus pattern (15 bp):
TTTTGGATTTTAAGG
Found at i:13276864 original size:36 final size:36
Alignment explanation
Indices: 13276804--13276873 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
13276794 GGTTTTTTTA
* *
13276804 ATTTTGGATTTTAGGTTTTGGATTTTAAGGTTTGGG
1 ATTTTGGATTTTAGGTCTTCGATTTTAAGGTTTGGG
*
13276840 ATTTTGGATTTTAAGG-CTTCGATTTTAGGGTTTG
1 ATTTTGGATTTT-AGGTCTTCGATTTTAAGGTTTG
13276874 AGGTTTGGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 27 0.90
37 3 0.10
ACGTcount: A:0.17, C:0.03, G:0.29, T:0.51
Consensus pattern (36 bp):
ATTTTGGATTTTAGGTCTTCGATTTTAAGGTTTGGG
Found at i:13276905 original size:29 final size:29
Alignment explanation
Indices: 13276861--13277002 Score: 166
Period size: 29 Copynumber: 5.0 Consensus size: 29
13276851 TAAGGCTTCG
*
13276861 ATTTTAGGGTTT-GA-GGTTTGGGGTTTTC
1 ATTTTAGGGTTTAGAGGGTTTAGGG-TTTC
* * * *
13276889 GTTTCAGGGTTTGGA-GGTTT-GTGGTTTT
1 ATTTTAGGGTTTAGAGGGTTTAG-GGTTTC
*
13276917 ATTTTAGGGTTTAGAGGGTTTAAGGTTTC
1 ATTTTAGGGTTTAGAGGGTTTAGGGTTTC
13276946 ATTTTAGGGTTTAGAGGGTTTAGGGTTTC
1 ATTTTAGGGTTTAGAGGGTTTAGGGTTTC
**
13276975 ATTTTAGGGTTTAGAGAATTTAGGGTTT
1 ATTTTAGGGTTTAGAGGGTTTAGGGTTT
13277003 AGTTGTGGGG
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.26
29 73 0.74
ACGTcount: A:0.16, C:0.03, G:0.34, T:0.47
Consensus pattern (29 bp):
ATTTTAGGGTTTAGAGGGTTTAGGGTTTC
Found at i:13276943 original size:16 final size:16
Alignment explanation
Indices: 13276919--13277004 Score: 67
Period size: 16 Copynumber: 5.8 Consensus size: 16
13276909 GTGGTTTTAT
13276919 TTTAGGGTTTAGAGGG
1 TTTAGGGTTTAGAGGG
* * *
13276935 TTTAAGGTTT-CA--T
1 TTTAGGGTTTAGAGGG
13276948 TTTAGGGTTTAGAGGG
1 TTTAGGGTTTAGAGGG
* *
13276964 TTTAGGGTTT-CA--T
1 TTTAGGGTTTAGAGGG
**
13276977 TTTAGGGTTTAGAGAA
1 TTTAGGGTTTAGAGGG
13276993 TTTAGGGTTTAG
1 TTTAGGGTTTAG
13277005 TTGTGGGGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
13 19 0.35
14 2 0.04
15 2 0.04
16 31 0.57
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (16 bp):
TTTAGGGTTTAGAGGG
Found at i:13276956 original size:13 final size:13
Alignment explanation
Indices: 13276935--13276986 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
13276925 GTTTAGAGGG
*
13276935 TTTAAGGTTTCAT
1 TTTAGGGTTTCAT
* *
13276948 TTTAGGGTTTAGAGGG
1 TTTAGGGTTT-CA--T
13276964 TTTAGGGTTTCAT
1 TTTAGGGTTTCAT
13276977 TTTAGGGTTT
1 TTTAGGGTTT
13276987 AGAGAATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 19 0.61
14 1 0.03
15 1 0.03
16 10 0.32
ACGTcount: A:0.17, C:0.04, G:0.29, T:0.50
Consensus pattern (13 bp):
TTTAGGGTTTCAT
Found at i:13277013 original size:29 final size:29
Alignment explanation
Indices: 13276911--13277015 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
13276901 GGAGGTTTGT
* * ** *
13276911 GGTTTTATTTTAGGGTTTAGAGGGTTTAA
1 GGTTTCATTGTAGGGTTTAGAGAATTTAG
* **
13276940 GGTTTCATTTTAGGGTTTAGAGGGTTTAG
1 GGTTTCATTGTAGGGTTTAGAGAATTTAG
*
13276969 GGTTTCATTTTAGGGTTTAGAGAATTTAG
1 GGTTTCATTGTAGGGTTTAGAGAATTTAG
*
13276998 GGTTT-AGTTGTGGGGTTT
1 GGTTTCA-TTGTAGGGTTT
13277016 GAAGGTTTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
28 1 0.01
29 68 0.99
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (29 bp):
GGTTTCATTGTAGGGTTTAGAGAATTTAG
Found at i:13277014 original size:58 final size:57
Alignment explanation
Indices: 13276894--13277024 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 57
13276884 TTTTCGTTTC
* ** *
13276894 AGGGTTTGGAGGTTT-GTGGTTTTATTTTAGGGTTTAGAGGGTTTAAGGTTTCATTTT
1 AGGGTTT-GAGGTTTAGTGGTTTCATTTTAGGGTTTAGAGAATTTAAGGTTTCATTGT
*
13276951 AGGGTTTAGAGGGTTTAG-GGTTTCATTTTAGGGTTTAGAGAATTTAGGGTTT-AGTTGT
1 AGGGTTT-GA-GGTTTAGTGGTTTCATTTTAGGGTTTAGAGAATTTAAGGTTTCA-TTGT
*
13277009 GGGGTTTGAAGGTTTA
1 AGGGTTTG-AGGTTTA
13277025 AAGTCTTAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
57 17 0.27
58 45 0.71
59 1 0.02
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.45
Consensus pattern (57 bp):
AGGGTTTGAGGTTTAGTGGTTTCATTTTAGGGTTTAGAGAATTTAAGGTTTCATTGT
Found at i:13282494 original size:11 final size:11
Alignment explanation
Indices: 13282474--13282503 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13282464 AGCATTTTAT
13282474 CATATAATCAA
1 CATATAATCAA
*
13282485 CATATCATCAA
1 CATATAATCAA
13282496 CATATAAT
1 CATATAAT
13282504 AAGAGAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (11 bp):
CATATAATCAA
Found at i:13284765 original size:12 final size:12
Alignment explanation
Indices: 13284748--13284777 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13284738 ATCAAAGTAA
13284748 CTGAATCACTAT
1 CTGAATCACTAT
*
13284760 CTGAATCATTAT
1 CTGAATCACTAT
13284772 CTGAAT
1 CTGAAT
13284778 TCATTGCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (12 bp):
CTGAATCACTAT
Found at i:13296570 original size:10 final size:10
Alignment explanation
Indices: 13296557--13296587 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
13296547 ATGATCAGTT
13296557 ATTTATTAAA
1 ATTTATTAAA
13296567 ATTTATTAAA
1 ATTTATTAAA
13296577 ATTTATTAAA
1 ATTTATTAAA
13296587 A
1 A
13296588 AATAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTTATTAAA
Found at i:13297441 original size:22 final size:23
Alignment explanation
Indices: 13297398--13297441 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
13297388 GCATAGATAA
* *
13297398 ATAAATAAATAACTTAACAAAAT
1 ATAAATAAATAACCTAAAAAAAT
*
13297421 ATAAA-AAATTACCTAAAAAAA
1 ATAAATAAATAACCTAAAAAAA
13297442 CTAGTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (23 bp):
ATAAATAAATAACCTAAAAAAAT
Found at i:13306553 original size:40 final size:40
Alignment explanation
Indices: 13306492--13306761 Score: 263
Period size: 41 Copynumber: 6.7 Consensus size: 40
13306482 TGTACAAACT
*
13306492 CACCACAACTTTGAAAAATAAATGCTCCTCTAAACAGAAG
1 CACCACAACTTTGAAAAATAAATGCTCCTCTAAACAGAGG
** * *
13306532 CACCGTAACTTTGAAAAATAAATGCTCTTTTAAACAGAGG
1 CACCACAACTTTGAAAAATAAATGCTCCTCTAAACAGAGG
* * *
13306572 CACCACAACTTTAAAAAAATAAATGCTCCTTTAAATAGAGG
1 CACCACAACTTT-GAAAAATAAATGCTCCTCTAAACAGAGG
13306613 CACCACAACTTTGAAAAACTAAATGCTCCTCTAAACAGAGG
1 CACCACAACTTTGAAAAA-TAAATGCTCCTCTAAACAGAGG
* * * * * * *
13306654 CATCACGACTTTGAAAAAATAAATAG-TCATTTACATAAAGG
1 CACCACAACTTTG-AAAAATAAAT-GCTCCTCTAAACAGAGG
* * * * *
13306695 CACCACGACTTTAAAAAAATAAATGCTCATCTAAATAGAAG
1 CACCACAACTTT-GAAAAATAAATGCTCCTCTAAACAGAGG
* ** * *
13306736 CACTATGACTTTGAAAAGTATATGCT
1 CACCACAACTTTGAAAAATAAATGCT
13306762 TCTCAACAAT
Statistics
Matches: 193, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
40 62 0.32
41 125 0.65
42 6 0.03
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (40 bp):
CACCACAACTTTGAAAAATAAATGCTCCTCTAAACAGAGG
Found at i:13306719 original size:123 final size:120
Alignment explanation
Indices: 13306492--13306761 Score: 346
Period size: 123 Copynumber: 2.2 Consensus size: 120
13306482 TGTACAAACT
13306492 CACCACAACTTTGAAAAATAAATGCTCCTCTAAACAGAAGCACCGTAACTTTGAAAAATAAATGC
1 CACCACAACTTTGAAAAATAAATGCTCCTCTAAACAGAAGCACCG-AACTTTGAAAAATAAATGC
* * * * *
13306557 TCTTTTAAACAGAGGCACCACAACTTTAAAAAAATAAATGCTCCTTTAAATAGAGG
65 TCATTTAAACAAAGGCACCACAACTTTAAAAAAATAAATGCTCATCTAAATAGAAG
*
13306613 CACCACAACTTTGAAAAACTAAATGCTCCTCTAAACAGAGGCATCACG-ACTTTGAAAAAATAAA
1 CACCACAACTTTGAAAAA-TAAATGCTCCTCTAAACAGAAGCA-C-CGAACTTTG-AAAAATAAA
* * *
13306677 TAG-TCATTTACATAAAGGCACCACGACTTTAAAAAAATAAATGCTCATCTAAATAGAAG
62 T-GCTCATTTAAACAAAGGCACCACAACTTTAAAAAAATAAATGCTCATCTAAATAGAAG
* ** * *
13306736 CACTATGACTTTGAAAAGTATATGCT
1 CACCACAACTTTGAAAAATAAATGCT
13306762 TCTCAACAAT
Statistics
Matches: 130, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
121 18 0.14
122 36 0.28
123 73 0.56
124 3 0.02
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (120 bp):
CACCACAACTTTGAAAAATAAATGCTCCTCTAAACAGAAGCACCGAACTTTGAAAAATAAATGCT
CATTTAAACAAAGGCACCACAACTTTAAAAAAATAAATGCTCATCTAAATAGAAG
Found at i:13307358 original size:46 final size:46
Alignment explanation
Indices: 13307259--13307484 Score: 285
Period size: 46 Copynumber: 4.9 Consensus size: 46
13307249 TTGAAGATTC
* * *
13307259 AAAGTTTCTCATTTAGAAACTCAAAGATTCTTATTT--GGATTTCTT
1 AAAGATTCTCATTTA-AGACTCAAAGATTCTCATTTGAGGATTTCTT
* *
13307304 AAAGATTCTCATTTAAGACTCAAAGATTCTCATCTGAGGATTTTTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTT
* * * * *
13307350 AAAAATTCTCGTTTAAGACTCAAAGATTTTCTTTTGATGATTTCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTT
** *
13307396 AAAGATTCTTGTTTAAGACTCAAAGATTCTCATTTGAGGATTTCCT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTT
* * *
13307442 AAAGATTCTCATTTAAGACTTAAAGATTCTCGTTTAAGGATTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTT
13307485 ACAATTTTAT
Statistics
Matches: 156, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
44 17 0.11
45 14 0.09
46 125 0.80
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.42
Consensus pattern (46 bp):
AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTT
Found at i:13308355 original size:16 final size:15
Alignment explanation
Indices: 13308320--13308352 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
13308310 AAAGTAAATC
13308320 TGGTACAAAAACAAT
1 TGGTACAAAAACAAT
13308335 TGGTACAAAAACAAT
1 TGGTACAAAAACAAT
13308350 TGG
1 TGG
13308353 GTAAAGAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (15 bp):
TGGTACAAAAACAAT
Found at i:13308694 original size:16 final size:16
Alignment explanation
Indices: 13308655--13308729 Score: 62
Period size: 16 Copynumber: 4.5 Consensus size: 16
13308645 TTTTTTCATC
* *
13308655 TTTTTTTCATTCTTTC
1 TTTTTTTCATTTTTTT
* *
13308671 ATTCTTTCATTTTTTT
1 TTTTTTTCATTTTTTT
13308687 TTTTTTTCTATTTTTTAT
1 TTTTTTTC-ATTTTTT-T
*
13308705 TTCTTTT-ATTTTTCTT
1 TTTTTTTCATTTTT-TT
13308721 TCTTTTTTC
1 T-TTTTTTC
13308730 TCTTTCCCTT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
16 26 0.57
17 13 0.28
18 7 0.15
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTCATTTTTTT
Found at i:13308702 original size:11 final size:10
Alignment explanation
Indices: 13308633--13308782 Score: 70
Period size: 11 Copynumber: 13.4 Consensus size: 10
13308623 AATTTGAATA
13308633 TTTTTTTTCT
1 TTTTTTTTCT
*
13308643 CTTTTTTTCAT
1 TTTTTTTTC-T
*
13308654 CTTTTTTTCAT
1 TTTTTTTTC-T
**
13308665 TCTTTCATTCT
1 T-TTTTTTTCT
13308676 TTCATTTTTT-T
1 TT--TTTTTTCT
*
13308687 TTTTTTTCTAT
1 TTTTTTT-TCT
13308698 TTTTTATTTCT
1 TTTTT-TTTCT
13308709 TTTATTTTTCT
1 TTT-TTTTTCT
13308720 TTCTTTTTTCT
1 TT-TTTTTTCT
*
13308731 CTTTCCCTTTGTTAT
1 -TTT---TTT-TTCT
13308746 TTTTTATTT-T
1 TTTTT-TTTCT
13308756 TCATTTTTTTCT
1 T--TTTTTTTCT
13308768 TTTTTTTTCAT
1 TTTTTTTTC-T
13308779 TTTT
1 TTTT
13308783 CCATCAATTA
Statistics
Matches: 113, Mismatches: 8, Indels: 37
0.72 0.05 0.23
Matches are distributed among these distances:
9 5 0.04
10 20 0.18
11 55 0.49
12 24 0.21
14 6 0.05
15 3 0.03
ACGTcount: A:0.07, C:0.14, G:0.01, T:0.78
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:13308709 original size:33 final size:34
Alignment explanation
Indices: 13308646--13308730 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 34
13308636 TTTTTCTCTT
*
13308646 TTTTTCATCTTTTTTTC-ATTCTTTCATTCTTTCA
1 TTTTTC-TTTTTTTTTCTATTCTTTCATTCTTTCA
* *
13308680 TTTTT-TTTTTTTTTCTATT-TTTTATTTCTTTTA
1 TTTTTCTTTTTTTTTCTATTCTTTCA-TTCTTTCA
13308713 TTTTTCTTTCTTTTTTCT
1 TTTTTCTTT-TTTTTTCT
13308731 CTTTCCCTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 13 0.30
33 15 0.34
34 8 0.18
35 8 0.18
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (34 bp):
TTTTTCTTTTTTTTTCTATTCTTTCATTCTTTCA
Found at i:13308770 original size:8 final size:8
Alignment explanation
Indices: 13308653--13308773 Score: 57
Period size: 9 Copynumber: 14.1 Consensus size: 8
13308643 CTTTTTTTCA
13308653 TCTTTTTT
1 TCTTTTTT
* *
13308661 TCATTCTT
1 TCTTTTTT
* *
13308669 TCATTCTT
1 TCTTTTTT
13308677 TCATTTTTT
1 TC-TTTTTT
13308686 T-TTTTTT
1 TCTTTTTT
13308693 TCTATTTTT
1 TCT-TTTTT
*
13308702 TATTTCTTT
1 TCTTT-TTT
*
13308711 TATTTTTCTT
1 T-CTTTT-TT
13308721 TCTTTTTT
1 TCTTTTTT
*
13308729 CTCTTTCCCTT
1 -TCTTT--TTT
*
13308740 TGTTATTTT
1 TCTT-TTTT
*
13308749 T-TATTTT
1 TCTTTTTT
13308756 TCATTTTTT
1 TC-TTTTTT
13308765 TCTTTTTT
1 TCTTTTTT
13308773 T
1 T
13308774 TTCATTTTTC
Statistics
Matches: 89, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
7 12 0.13
8 29 0.33
9 36 0.40
10 9 0.10
11 3 0.03
ACGTcount: A:0.07, C:0.14, G:0.01, T:0.78
Consensus pattern (8 bp):
TCTTTTTT
Found at i:13313108 original size:16 final size:16
Alignment explanation
Indices: 13313089--13313124 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13313079 TAATTAGCAT
13313089 TTTTCCAAATTTTTAA
1 TTTTCCAAATTTTTAA
**
13313105 TTTTTTAAATTTTTAA
1 TTTTCCAAATTTTTAA
13313121 TTTT
1 TTTT
13313125 TTAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTCCAAATTTTTAA
Found at i:13313111 original size:8 final size:8
Alignment explanation
Indices: 13313098--13313134 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
13313088 TTTTTCCAAA
13313098 TTTTTAAT
1 TTTTTAAT
*
13313106 TTTTTAAA
1 TTTTTAAT
13313114 TTTTTAAT
1 TTTTTAAT
13313122 TTTTTAAT
1 TTTTTAAT
13313130 TTTTT
1 TTTTT
13313135 GGTGTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTAAT
Found at i:13313323 original size:13 final size:12
Alignment explanation
Indices: 13313302--13313339 Score: 58
Period size: 13 Copynumber: 3.0 Consensus size: 12
13313292 CTTTAAAAAA
13313302 TATTTTTTATTT
1 TATTTTTTATTT
13313314 TATGTTTTTATTT
1 TAT-TTTTTATTT
13313327 TATTATTTTATTT
1 TATT-TTTTATTT
13313340 AATATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:13313430 original size:19 final size:18
Alignment explanation
Indices: 13313393--13313451 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
13313383 ATTATGCATA
* *
13313393 AAACAA-AACAAATGAAT
1 AAACAATAATAAAAGAAT
*
13313410 AAACAATCAATTAAAGAAT
1 AAACAAT-AATAAAAGAAT
*
13313429 AAAAAATAATAAAAGAA-
1 AAACAATAATAAAAGAAT
13313446 AAACAA
1 AAACAA
13313452 GTACCAAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 11 0.32
18 9 0.26
19 14 0.41
ACGTcount: A:0.73, C:0.08, G:0.05, T:0.14
Consensus pattern (18 bp):
AAACAATAATAAAAGAAT
Found at i:13314674 original size:55 final size:55
Alignment explanation
Indices: 13314615--13314726 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
13314605 TTTAAGAGCA
*
13314615 AAATAAACACATACTTAATTCAAGCTTACATATATCAAATAAAATTGGTATATTC
1 AAATAAACACATACTCAATTCAAGCTTACATATATCAAATAAAATTGGTATATTC
*
13314670 AAATAAACACATACTCAATTCAAGCTTACATTTATCAAATAAAATTGGTATATTC
1 AAATAAACACATACTCAATTCAAGCTTACATATATCAAATAAAATTGGTATATTC
13314725 AA
1 AA
13314727 GATATATCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.32
Consensus pattern (55 bp):
AAATAAACACATACTCAATTCAAGCTTACATATATCAAATAAAATTGGTATATTC
Found at i:13317831 original size:23 final size:20
Alignment explanation
Indices: 13317804--13317858 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 20
13317794 ATCTTTTTAT
13317804 AAATAAATAATAAAATATTTAA
1 AAATAAATAATAAAA-A-TTAA
* *
13317826 GAAATACA-AATACAAATTAA
1 -AAATAAATAATAAAAATTAA
13317846 AAATAAAT-ATAAA
1 AAATAAATAATAAA
13317859 TACATAACCT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
19 10 0.37
20 4 0.15
21 1 0.04
22 6 0.22
23 6 0.22
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (20 bp):
AAATAAATAATAAAAATTAA
Found at i:13318231 original size:5 final size:5
Alignment explanation
Indices: 13318221--13318269 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
13318211 GTACAAAATT
*
13318221 AATAA AATAAA ATATGAA AAGAA ATATAA AATAA AATAA AATAA AATAA
1 AATAA AAT-AA A-AT-AA AATAA A-ATAA AATAA AATAA AATAA AATAA
13318270 TTTTAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
5 25 0.66
6 8 0.21
7 5 0.13
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:13318358 original size:27 final size:29
Alignment explanation
Indices: 13318328--13318387 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 29
13318318 TCATTTCATT
13318328 AAAAAATAAAAGAAA-TT-AAA-TTTTTTA
1 AAAAAATAAAA-AAATTTAAAAGTTTTTTA
**
13318355 AAAAGTTAAAAAAATTTAAAAGTTTTTTA
1 AAAAAATAAAAAAATTTAAAAGTTTTTTA
13318384 AAAA
1 AAAA
13318388 TAGATTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.11
27 11 0.39
28 3 0.11
29 11 0.39
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAAAATAAAAAAATTTAAAAGTTTTTTA
Found at i:13318512 original size:29 final size:29
Alignment explanation
Indices: 13318464--13318536 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
13318454 TAACTTAATT
13318464 ATATATAAATTTAAT-TTTTTATTAAATTAA
1 ATATATAAA--TAATATTTTTATTAAATTAA
*
13318494 GATAT-TAAATAATATTTTTATTAAGTTAA
1 -ATATATAAATAATATTTTTATTAAATTAA
*
13318523 ATATATAAAAAATA
1 ATATATAAATAATA
13318537 ATATATATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 8 0.21
29 22 0.58
30 4 0.11
31 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
ATATATAAATAATATTTTTATTAAATTAA
Found at i:13319342 original size:39 final size:39
Alignment explanation
Indices: 13319291--13319369 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
13319281 ATTACTCTAG
* *
13319291 TTTTTCTTTAAATCCTAGACGTAAAGATTTATAACATTT
1 TTTTTCTTTAAATCCTAAACGTAAAGATTTACAACATTT
* * *
13319330 TTTTTTTTTAAATCCTAAATGTAAGGATTTACAACATTT
1 TTTTTCTTTAAATCCTAAACGTAAAGATTTACAACATTT
13319369 T
1 T
13319370 AGAAAACAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (39 bp):
TTTTTCTTTAAATCCTAAACGTAAAGATTTACAACATTT
Found at i:13319729 original size:28 final size:29
Alignment explanation
Indices: 13319692--13319746 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
13319682 ATGACACGTG
*
13319692 AATTTATTAA-ATTAATATATA-AAATAAT
1 AATTTATTAATA-AAATATATATAAATAAT
*
13319720 AATTTTTTAATAAAATATATATAAATA
1 AATTTATTAATAAAATATATATAAATA
13319747 TAAAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
AATTTATTAATAAAATATATATAAATAAT
Found at i:13319761 original size:16 final size:17
Alignment explanation
Indices: 13319729--13319762 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13319719 TAATTTTTTA
*
13319729 ATAAAATATATATAAAT
1 ATAAAATATAAATAAAT
13319746 ATAAAAT-TAAATAAAT
1 ATAAAATATAAATAAAT
13319762 A
1 A
13319763 ATAAGTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAATATAAATAAAT
Found at i:13319761 original size:26 final size:27
Alignment explanation
Indices: 13319697--13319766 Score: 65
Period size: 28 Copynumber: 2.6 Consensus size: 27
13319687 ACGTGAATTT
* *
13319697 ATTAAATTAATATATAAAATAATAATT
1 ATTAAATAAATATATAAAATAATAATA
* *
13319724 TTTTAATAAAATATATATAAAT-ATAA-A
1 ATTAAAT-AAATATATA-AAATAATAATA
13319751 ATTAAATAAATA-ATAA
1 ATTAAATAAATATATAA
13319767 GTATTTATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
24 1 0.03
25 3 0.09
26 5 0.14
27 10 0.29
28 12 0.34
29 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
ATTAAATAAATATATAAAATAATAATA
Found at i:13320410 original size:11 final size:10
Alignment explanation
Indices: 13320392--13320426 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 10
13320382 AAATTTATGT
13320392 AATAAAAATA
1 AATAAAAATA
13320402 AACTAAAAATA
1 AA-TAAAAATA
13320413 AAT-AAAATA
1 AATAAAAATA
13320422 AATAA
1 AATAA
13320427 TAGATTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.39
10 4 0.17
11 10 0.43
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (10 bp):
AATAAAAATA
Found at i:13320415 original size:15 final size:16
Alignment explanation
Indices: 13320392--13320452 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
13320382 AAATTTATGT
*
13320392 AATAA-AAATAAACTA
1 AATAATAAATAAAATA
13320407 AA-AATAAATAAAATA
1 AATAATAAATAAAATA
* **
13320422 AATAATAGATTTAATA
1 AATAATAAATAAAATA
13320438 AATAATAAAGTAAAA
1 AATAATAAA-TAAAA
13320453 GCAAAAAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
14 2 0.06
15 13 0.36
16 18 0.50
17 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (16 bp):
AATAATAAATAAAATA
Found at i:13323090 original size:15 final size:17
Alignment explanation
Indices: 13323061--13323093 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
13323051 AAATAATATA
13323061 TAAAAAATAAGAAAATT
1 TAAAAAATAAGAAAATT
13323078 TAAAAAA-AA-AAAATT
1 TAAAAAATAAGAAAATT
13323093 T
1 T
13323094 TTTACCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
TAAAAAATAAGAAAATT
Found at i:13323356 original size:24 final size:26
Alignment explanation
Indices: 13323321--13323375 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
13323311 AGCGCGAATC
13323321 TTGGGCTCTT-A-AAACGACATCGTT
1 TTGGGCTCTTAAGAAACGACATCGTT
*
13323345 TTGGGC-CTTTAATGAAACGACGTCGTT
1 TTGGGCTC-TTAA-GAAACGACATCGTT
13323372 TTGG
1 TTGG
13323376 TTCTGAGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 1 0.04
24 8 0.31
25 1 0.04
27 16 0.62
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (26 bp):
TTGGGCTCTTAAGAAACGACATCGTT
Found at i:13336102 original size:46 final size:46
Alignment explanation
Indices: 13336049--13336465 Score: 491
Period size: 46 Copynumber: 8.9 Consensus size: 46
13336039 AACAGATGGA
* *
13336049 ATTTTTAAAGTTGTTGAACATCTGCTGAGAGGAGCTTTTTCAAGAG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAG
* * * *
13336095 ATTTTTAAAGTTGTTAAGCCTCTGCTGAAAGAAGCTTTTCCAAGATG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGA-G
* *
13336142 AATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAAG
1 -ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAG
*
13336189 ATTTTTAAAGTTGTTGAG-CTTTGCTGAGAGGAGCTTTTTCAAG-G
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAG
* * *
13336233 AATTTTTAAAGTTGTTGAGCCTCTGTTGAGATGAGC-CTTTCTAAGATGG
1 -ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-AAGA--G
* *
13336282 AATTTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTTTTCAAGAG
1 -ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAG
* *
13336329 ATTTTTAAAGTTGTTGAGCCTATGCTGAAAGGAGCCTTTTTCAAGATG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGA-G
* * * *
13336377 AGATTTTAAAGTTGTTGAGCCTCTGCTGAAAAGAGTTTTTTCAAGACAAG
1 A-TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAG---AG
* *
13336427 A-TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCCTTTT
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT
13336466 AAACTTTCAA
Statistics
Matches: 323, Mismatches: 33, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
44 1 0.00
45 44 0.14
46 103 0.32
47 14 0.04
48 85 0.26
49 69 0.21
50 6 0.02
51 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (46 bp):
ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAG
Found at i:13336318 original size:140 final size:140
Alignment explanation
Indices: 13336049--13336465 Score: 522
Period size: 140 Copynumber: 3.0 Consensus size: 140
13336039 AACAGATGGA
* * *
13336049 ATTTTTAAAGTTGTTGAACATCTGCTGAGAGGAGCTTTTTCAA-GAGATTTTTAAAGTTGTTAAG
1 ATTTTTAAAGTTGTTGAGC-TATGCTGAGAGGAGCTTTTTCAAGGAGATTTTTAAAGTTGTTGAG
* *
13336113 CCTCTGCTGAAAGAAGCTTTTCCAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
65 CCTCTGCTGAAAGAAGCCTTTCCAAGATGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGC
13336178 TTTTCCAAAAG
130 TTTTCCAAAAG
*
13336189 ATTTTTAAAGTTGTTGAGCTTTGCTGAGAGGAGCTTTTTCAAGGA-ATTTTTAAAGTTGTTGAGC
1 ATTTTTAAAGTTGTTGAGCTATGCTGAGAGGAGCTTTTTCAAGGAGATTTTTAAAGTTGTTGAGC
* * * *
13336253 CTCTGTTGAGATG-AGCCTTTCTAAGATGGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGATGAG
66 CTCTGCTGA-AAGAAGCCTTTCCAAGAT-GAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAG
* *
13336317 CTTTTTCAAGAG
129 CTTTTCCAAAAG
*
13336329 ATTTTTAAAGTTGTTGAGCCTATGCTGAAAGGAGCCTTTTTCAAGATGAGA-TTTTAAAGTTGTT
1 ATTTTTAAAGTTGTTGAG-CTATGCTGAGAGGAG-CTTTTTCAAG--GAGATTTTTAAAGTTGTT
** * * * * *
13336393 GAGCCTCTGCTGAAA-AGAGTTTTTTCAAGA-CAAGATTTTAAAGTTGTTGAGCCTCTGCTAAGA
62 GAGCCTCTGCTGAAAGA-AGCCTTTCCAAGATGAA-TTTTTAAAGTTGTTAAGCCTCTGCTGAGA
13336456 GGAGCCTTTT
125 GGAG-CTTTT
13336466 AAACTTTCAA
Statistics
Matches: 241, Mismatches: 24, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
139 60 0.25
140 84 0.35
141 13 0.05
142 12 0.05
143 30 0.12
144 41 0.17
145 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (140 bp):
ATTTTTAAAGTTGTTGAGCTATGCTGAGAGGAGCTTTTTCAAGGAGATTTTTAAAGTTGTTGAGC
CTCTGCTGAAAGAAGCCTTTCCAAGATGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCT
TTTCCAAAAG
Found at i:13336338 original size:95 final size:94
Alignment explanation
Indices: 13336047--13336464 Score: 517
Period size: 95 Copynumber: 4.4 Consensus size: 94
13336037 AAAACAGATG
* * *
13336047 GAATTTTTAAAGTTGTTGAACATCTGCTGAGAGGAG-CTTTTTCAAGAGATTTTTAAAGTTGTTA
1 GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTCTCAAGAGATTTTTAAAGTTGTTA
*
13336111 AGCCTCTGCTGA-AAGAAGCTTTTCCAAGA
66 AGCCTCTGCTGAGAAG-AGCTTTTTCAAGA
* *
13336140 TGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTC-CAAAAGATTTTTAAAGTTGTT
1 -GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTCTCAAGAGATTTTTAAAGTTGTT
* * *
13336204 GAG-CTTTGCTGAGAGGAGCTTTTTCAAG-
65 AAGCCTCTGCTGAGAAGAGCTTTTTCAAGA
* *
13336232 GAATTTTTAAAGTTGTTGAGCCTCTGTTGAGATGAGCCTTTCT-AAGATGGAATTTTTAAAGTTG
1 GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTCTCAAGA--G-ATTTTTAAAGTTG
*
13336296 TTAAGCCTCTGCTGAGATGAGCTTTTTCAAGA
63 TTAAGCCTCTGCTGAGAAGAGCTTTTTCAAGA
* * * *
13336328 G-ATTTTTAAAGTTGTTGAGCCTATGCTGAAAGGAGCCTTTTTCAAGATGAGATTTTAAAGTTGT
1 GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTCTCAAGA-GA-TTTTTAAAGTTGT
* * *
13336392 TGAGCCTCTGCTGAAAAGAGTTTTTTCAAGA
64 TAAGCCTCTGCTGAGAAGAGCTTTTTCAAGA
* * *
13336423 CAAGATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCCTTT
1 GAA-TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTT
13336465 TAAACTTTCA
Statistics
Matches: 280, Mismatches: 32, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
91 42 0.15
93 20 0.07
94 76 0.27
95 102 0.36
96 6 0.02
97 34 0.12
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (94 bp):
GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTCTCAAGAGATTTTTAAAGTTGTTA
AGCCTCTGCTGAGAAGAGCTTTTTCAAGA
Found at i:13340820 original size:132 final size:131
Alignment explanation
Indices: 13340548--13341210 Score: 624
Period size: 131 Copynumber: 5.1 Consensus size: 131
13340538 TAAATTTTTT
* * * * *
13340548 TATAAAATATTAAACAAATAAATTAAACAACGACATTGAAGAATTATTGTTAAATAAAATAAATT
1 TATAAAATATTAAAAAAATAAATTAAGCAACGACATTGAAAAATTATAG-CAAATAAAATAAATT
** * * * * * *
13340613 TTTGGAATAATAATTTTTTATCGA-TACAAATATAATTAAAAGTTTCGTAATAACTTTTTTAGTC
65 TTTACAACAATAATATTTTATC-ATTACAAATATAATAAAAATTTTCGTAA-AAATTTTTTTGTC
*
13340677 GTTG
128 ATTG
* * * *
13340681 TACAAAATATTAAAAAAATTAATTAAGCAACGACATTAAAAAATTATAGCAAATAAAACT-AGTT
1 TATAAAATATTAAAAAAATAAATTAAGCAACGACATTGAAAAATTATAGCAAATAAAA-TAAATT
* * * * * * * * *
13340745 TTTATAAAAATAATTTTTTGTTATTATAAATATGATAAAAATTTTTGTAAAAATATTTTTTGTAA
65 TTTACAACAATAATATTTTATCATTACAAATATAATAAAAATTTTCGTAAAAAT-TTTTTTGTCA
13340810 TTG
129 TTG
* * * * *
13340813 TATAAAATATTAAACAAATAAATTAAGCAACGATATTGAATAATCATTGCAAATAAAATAAATTT
1 TATAAAATATTAAAAAAATAAATTAAGCAACGACATTGAAAAATTATAGCAAATAAAATAAATTT
* *
13340878 TCACAACAATAATATTTTATCATTACAAATATAATAAAAATTTTCGTATCAAATTTTTTT-TCAT
66 TTACAACAATAATATTTTATCATTACAAATATAATAAAAATTTTCGTA-AAAATTTTTTTGTCAT
13340942 TG
130 TG
* * * ** * *
13340944 TATAAAATTTTTAAAAAATAAATTAAGTAATAATATTGAAAAATTGTTA-CAAATAAAATAAATT
1 TATAAAATATTAAAAAAATAAATTAAGCAACGACATTGAAAAATT-ATAGCAAATAAAATAAATT
* * *
13341008 TTTACAACAATAATATTTTATCGTTATAAATATAATAAAAATTTTCGTAACAATTTTTTTGTCAT
65 TTTACAACAATAATATTTTATCATTACAAATATAATAAAAATTTTCGTAAAAATTTTTTTGTCAT
*
13341073 TA
130 TG
* * * * ** *
13341075 TATAAAATTTTTAAAAAATAAATTAAGTAATGTTATTGAAAAATCAATA-CAAAT---ATAAATT
1 TATAAAATATTAAAAAAATAAATTAAGCAACGACATTGAAAAAT-TATAGCAAATAAAATAAATT
** * * ** * * * *
13341136 TTCGCAATAATAATTTTTTATTGTTACAAATATGATAAAAATTTTCATTACAA-TTTTTTGTCAT
65 TTTACAACAATAATATTTTATCATTACAAATATAATAAAAATTTTCGTAAAAATTTTTTTGTCAT
*
13341200 TA
130 TG
13341202 TATAAAATA
1 TATAAAATA
13341211 CAAAAATCAT
Statistics
Matches: 449, Mismatches: 73, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
127 21 0.05
128 51 0.11
130 9 0.02
131 162 0.36
132 159 0.35
133 47 0.10
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (131 bp):
TATAAAATATTAAAAAAATAAATTAAGCAACGACATTGAAAAATTATAGCAAATAAAATAAATTT
TTACAACAATAATATTTTATCATTACAAATATAATAAAAATTTTCGTAAAAATTTTTTTGTCATT
G
Found at i:13341240 original size:103 final size:105
Alignment explanation
Indices: 13341120--13341315 Score: 256
Period size: 103 Copynumber: 1.9 Consensus size: 105
13341110 TTGAAAAATC
* * * *
13341120 AATACAAATATAAATTTTCGCAATAATAATTTTTTATTGTTACAAATATGATAAAAATTTTCATT
1 AATACAAATATAAATTTTCACAAAAATAATTTTTTATTCTAACAAAT-TGATAAAAATTTT-ATT
13341185 -ACAA-TTTTTTGTCATTATATAAAATACAAAAATCATTACA
64 AACAATTTTTTTGTCATTATATAAAATACAAAAATCATTACA
* * *
13341225 AATA-AAA-ATAAATTTTCATAAAAATAATTTTTTATTCTAACAAATTGATTAAAATTTTTTTAA
1 AATACAAATATAAATTTTCACAAAAATAATTTTTTATTCTAACAAATTGATAAAAATTTTATTAA
*
13341288 CAACTTTTTTTTGTCATTGTATAAAATA
66 CAA--TTTTTTTGTCATTATATAAAATA
13341316 TTAACAAATA
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
101 2 0.03
102 16 0.20
103 33 0.42
104 3 0.04
105 25 0.32
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (105 bp):
AATACAAATATAAATTTTCACAAAAATAATTTTTTATTCTAACAAATTGATAAAAATTTTATTAA
CAATTTTTTTGTCATTATATAAAATACAAAAATCATTACA
Found at i:13341240 original size:231 final size:231
Alignment explanation
Indices: 13340990--13341445 Score: 571
Period size: 231 Copynumber: 2.0 Consensus size: 231
13340980 TGAAAAATTG
* * * *
13340990 TTACAAATAAAATAAATTTTTACAACAATAATATTTTA-TCGTTATAAATATAATAAAAATTTTC
1 TTACAAATAAAATAAATTTTCACAAAAATAATATTTTATTC-TAACAAAT-TAATAAAAATTTTC
* * **
13341054 GTAACAA-TTTTTTTGTCATTATATAAAATTTTTAAAAAATAAATTAAGTAATGTTATTGAAAAA
64 GTAACAACTTTTTTTGTCATTATATAAAA-TATTAAAAAATAAATTAAGCAATGACATTGAAAAA
* * *
13341118 TCAATACAAAT-A-TAAATTTTCGCAATAATAATTTTTTATTGTTACAAATATGATAAAAATTTT
128 TCAATACAAATAAGTAAATTTTCGCAACAATAATTTTTTATCGTTACAAATATGAAAAAAATTTT
* *
13341181 CATTACAA-TTTTTTGTCATTATATAAAATACAAAAATCA
193 CATAACAACTTTTTTATCATT-TATAAAATACAAAAATCA
* * * * **
13341220 TTACAAATAAAAATAAATTTTCATAAAAATAATTTTTTATTCTAACAAATTGATTAAAATTTTTT
1 TTACAAAT-AAAATAAATTTTCACAAAAATAATATTTTATTCTAACAAATTAATAAAAATTTTCG
* * *
13341285 TAACAACTTTTTTTTGTCATTGTATAAAATATTAACAAATAAATTAAGCAATGACATTGAAATAT
65 TAACAAC-TTTTTTTGTCATTATATAAAATATTAAAAAATAAATTAAGCAATGACATTGAAAAAT
* * *
13341350 CATTGCAAATAAAAGTAAGTTTTCGCAACAATAATTTTTTATCGTTACAAATATGAAAAAAATTT
129 CAATACAAAT--AAGTAAATTTTCGCAACAATAATTTTTTATCGTTACAAATATGAAAAAAATTT
*
13341415 TCATAACAACTTTTTTATCGTTTATAAAATA
192 TCATAACAACTTTTTTATCATTTATAAAATA
13341446 TTAAAAAATA
Statistics
Matches: 191, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
230 25 0.13
231 70 0.37
232 22 0.12
234 1 0.01
235 63 0.33
236 10 0.05
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (231 bp):
TTACAAATAAAATAAATTTTCACAAAAATAATATTTTATTCTAACAAATTAATAAAAATTTTCGT
AACAACTTTTTTTGTCATTATATAAAATATTAAAAAATAAATTAAGCAATGACATTGAAAAATCA
ATACAAATAAGTAAATTTTCGCAACAATAATTTTTTATCGTTACAAATATGAAAAAAATTTTCAT
AACAACTTTTTTATCATTTATAAAATACAAAAATCA
Found at i:13341256 original size:16 final size:16
Alignment explanation
Indices: 13341226--13341255 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13341216 ATCATTACAA
13341226 ATAAAAATAAATTTTC
1 ATAAAAATAAATTTTC
13341242 ATAAAAAT-AATTTT
1 ATAAAAATAAATTTT
13341256 TTATTCTAAC
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:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAAAATAAATTTTC
Found at i:13341489 original size:130 final size:131
Alignment explanation
Indices: 13341212--13341507 Score: 332
Period size: 130 Copynumber: 2.3 Consensus size: 131
13341202 TATAAAATAC
* * * **
13341212 AAAA-ATCATTACAAATAAAAATAAATTTTCATAAAAATAATTTTTTATTCTAACAAATTGATTA
1 AAAACATCATTGCAAATAAAAATAAGTTTTCACAAAAATAATTTTTTATTCTAACAAATTGAAAA
** * * *
13341276 AAATTTTTTTAACAACTTTTTTTTGTCATTGTATAAAATATTAACAAATAAATTAAGCAATGACA
66 AAATTTTCATAACAAC-TTTTTTTATCATTGTATAAAATATTAAAAAATAAATTAAGCAATAACA
13341341 TT
130 TT
* * * * * *
13341343 GAAATATCATTGCAAATAAAAGTAAGTTTTCGCAACAATAATTTTTTA-TCGTTACAAATATGAA
1 AAAACATCATTGCAAATAAAAATAAGTTTTCACAAAAATAATTTTTTATTC-TAACAAAT-TGAA
* * * *
13341407 AAAAATTTTCATAACAAC-TTTTTTATCGTT-TATAAAATATTAAAAAATAACTTAAGTAATAAT
64 AAAAATTTTCATAACAACTTTTTTTATCATTGTATAAAATATTAAAAAATAAATTAAGCAATAAC
13341470 ATT
129 ATT
*
13341473 AAAAGCA-CATTGCAAATAAAAATAAGTTGTCACAA
1 AAAA-CATCATTGCAAATAAAAATAAGTTTTCACAA
13341508 TAACTATTTG
Statistics
Matches: 137, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
130 59 0.43
131 16 0.12
132 44 0.32
133 18 0.13
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (131 bp):
AAAACATCATTGCAAATAAAAATAAGTTTTCACAAAAATAATTTTTTATTCTAACAAATTGAAAA
AAATTTTCATAACAACTTTTTTTATCATTGTATAAAATATTAAAAAATAAATTAAGCAATAACAT
T
Found at i:13341679 original size:2 final size:2
Alignment explanation
Indices: 13341672--13341716 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
13341662 ACGATTTTTG
13341672 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
13341714 TA T
1 TA T
13341717 TTAGTGATTG
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:13350169 original size:4 final size:4
Alignment explanation
Indices: 13350160--13350184 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13350150 TCTCACTATA
13350160 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
13350185 ATTGTTTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:13351034 original size:45 final size:45
Alignment explanation
Indices: 13350984--13351075 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
13350974 TTTGCATGCA
13350984 AATATTAAATAATTTTATTTATATTTGACTACAATTAATTGAAGG
1 AATATTAAATAATTTTATTTATATTTGACTACAATTAATTGAAGG
13351029 AATATTAAATAATTTTATTTATATTTGACTACAATTAATTGAAGG
1 AATATTAAATAATTTTATTTATATTTGACTACAATTAATTGAAGG
13351074 AA
1 AA
13351076 ACTCCCCCGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (45 bp):
AATATTAAATAATTTTATTTATATTTGACTACAATTAATTGAAGG
Found at i:13351294 original size:56 final size:56
Alignment explanation
Indices: 13351208--13351318 Score: 195
Period size: 56 Copynumber: 2.0 Consensus size: 56
13351198 AACATTTAAA
* *
13351208 GATAATTTTTGACGTTAAAAATATCGATTTAGATGATATAGTATTTTATTTTCGAT
1 GATAATTTTTGACGTTAAAAATATAGATTTAAATGATATAGTATTTTATTTTCGAT
*
13351264 GATAATTTTTTACGTTAAAAATATAGATTTAAATGATATAGTATTTTATTTTCGA
1 GATAATTTTTGACGTTAAAAATATAGATTTAAATGATATAGTATTTTATTTTCGA
13351319 AGATTTTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.47
Consensus pattern (56 bp):
GATAATTTTTGACGTTAAAAATATAGATTTAAATGATATAGTATTTTATTTTCGAT
Found at i:13352536 original size:16 final size:15
Alignment explanation
Indices: 13352515--13352548 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
13352505 TAAATTTTTT
*
13352515 AAAAAATTAAAAATTA
1 AAAAAAATAAAAA-TA
13352531 AAAAAAATAAAAATA
1 AAAAAAATAAAAATA
13352546 AAA
1 AAA
13352549 TATTTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAAAATAAAAATA
Found at i:13352633 original size:26 final size:24
Alignment explanation
Indices: 13352586--13352641 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
13352576 CCAATTATGG
*
13352586 AATTTTTAAAAATTTCAAATGATA
1 AATTTTTAAAAATTTCAAATGAGA
* *
13352610 AATTTTTATAAAATTCTTAGATGAGA
1 AATTTTTA-AAAATT-TCAAATGAGA
13352636 AATTTT
1 AATTTT
13352642 GTCTAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 8 0.30
25 6 0.22
26 13 0.48
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (24 bp):
AATTTTTAAAAATTTCAAATGAGA
Found at i:13352973 original size:53 final size:51
Alignment explanation
Indices: 13352906--13353085 Score: 200
Period size: 53 Copynumber: 3.4 Consensus size: 51
13352896 TTTTTCTTCC
*
13352906 AAGAAAAAAGATTTCTAAATACGCCCAAATAGTGAAAAATTTAGAAATTTCAA
1 AAGAAAAAATATTTCTAAATA-GCCCAAATAGTGAAAAATTTAGAAA-TTCAA
* *
13352959 AA-AAGAAAATATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATTCAA
1 AAGAA-AAAATATTTCTAAA-TAGCCCAAATAGTGAAAAATTTAGAAATTCAA
* * *
13353011 TAATAAATAAATAGAATTTCTAAATAGGTCCAAATAGTAAAAAATTTAGAAATTCAA
1 -AAGAAA-AAAT---ATTTCTAAATA-GCCCAAATAGTGAAAAATTTAGAAATTCAA
*
13353068 AAGAAAAGATATTTCTAA
1 AAGAAAAAATATTTCTAA
13353086 TTTGGCCTAA
Statistics
Matches: 109, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
52 15 0.14
53 41 0.38
54 8 0.07
55 3 0.03
56 7 0.06
57 35 0.32
ACGTcount: A:0.54, C:0.09, G:0.10, T:0.27
Consensus pattern (51 bp):
AAGAAAAAATATTTCTAAATAGCCCAAATAGTGAAAAATTTAGAAATTCAA
Found at i:13357032 original size:14 final size:14
Alignment explanation
Indices: 13357003--13357103 Score: 62
Period size: 14 Copynumber: 6.9 Consensus size: 14
13356993 ACTAATGGAT
*
13357003 TAAAAA-AAAAAGA
1 TAAAAATAAAAAAA
*
13357016 TAAAGATAAAAAAA
1 TAAAAATAAAAAAA
**
13357030 TAAAAATGGAAAAA
1 TAAAAATAAAAAAA
13357044 TAAAAAATGAAAAAAAA
1 T-AAAAAT--AAAAAAA
* *
13357061 GAAAAAATGAAAAAA
1 -TAAAAATAAAAAAA
*
13357076 -AAAAAGAAGAAAAA
1 TAAAAATAA-AAAAA
13357090 TGAAAAATGAAAAA
1 T-AAAAAT-AAAAA
13357104 GAGAGAAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
13 11 0.16
14 23 0.34
15 12 0.18
16 8 0.12
17 13 0.19
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.10
Consensus pattern (14 bp):
TAAAAATAAAAAAA
Found at i:13357043 original size:17 final size:15
Alignment explanation
Indices: 13357004--13357103 Score: 78
Period size: 16 Copynumber: 6.3 Consensus size: 15
13356994 CTAATGGATT
*
13357004 AAAAAAAAAAGATAAAG
1 AAAAAAAAAA-A-AATG
13357021 ATAAAAAAATAAAAATG
1 A-AAAAAAA-AAAAATG
* *
13357038 GAAAAATAAAAAATG
1 AAAAAAAAAAAAATG
13357053 AAAAAAAAGAAAAAATG
1 -AAAAAAA-AAAAAATG
13357070 AAAAAAAAAAAGAA-G
1 AAAAAAAAAAA-AATG
**
13357085 -AAAAATGAAAAATG
1 AAAAAAAAAAAAATG
13357099 AAAAA
1 AAAAA
13357104 GAGAGAAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
13 2 0.03
14 9 0.13
15 16 0.23
16 20 0.29
17 12 0.17
18 8 0.12
19 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (15 bp):
AAAAAAAAAAAAATG
Found at i:13357074 original size:46 final size:45
Alignment explanation
Indices: 13357006--13357112 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 45
13356996 AATGGATTAA
*
13357006 AAAAAAAAGATAAAGATAAAAAAATAAAAATG-GAAAAATAAAAAATG
1 AAAAAAAAGA-AAAAATAAAAAAA-AAAAA-GAGAAAAATAAAAAATG
* *
13357053 AAAAAAAAGAAAAAATGAAAAAAAAAAAGAAGAAAAATGAAAAATG
1 AAAAAAAAGAAAAAATAAAAAAAAAAAAG-AGAAAAATAAAAAATG
*
13357099 AAAAAGAGAGAAAA
1 AAAAA-AAAGAAAA
13357113 TGATGACTCA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
44 1 0.02
45 5 0.09
46 30 0.57
47 17 0.32
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (45 bp):
AAAAAAAAGAAAAAATAAAAAAAAAAAAGAGAAAAATAAAAAATG
Found at i:13357079 original size:23 final size:23
Alignment explanation
Indices: 13357004--13357115 Score: 95
Period size: 22 Copynumber: 4.9 Consensus size: 23
13356994 CTAATGGATT
*
13357004 AAAAAAAAAAGATAAAGAT-AAAA
1 AAAAAAAAAAGA-AAAAATGAAAA
* * *
13357027 AAATAAAAATGGAAAAAT-AAAA
1 AAAAAAAAAAGAAAAAATGAAAA
13357049 AATGAAAAAAAAGAAAAAATGAAAA
1 AA--AAAAAAAAGAAAAAATGAAAA
*
13357074 AAAAAAAGAAG-AAAAATGAAAA
1 AAAAAAAAAAGAAAAAATGAAAA
** * *
13357096 ATGAAAAAGAGAGAAAATGA
1 AAAAAAAAAAGAAAAAATGA
13357116 TGACTCAAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
22 29 0.40
23 24 0.33
24 13 0.18
25 6 0.08
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (23 bp):
AAAAAAAAAAGAAAAAATGAAAA
Found at i:13357088 original size:8 final size:7
Alignment explanation
Indices: 13357055--13357103 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
13357045 AAAAAATGAA
13357055 AAAAAAG
1 AAAAAAG
13357062 AAAAAATG
1 AAAAAA-G
*
13357070 AAAAAAA
1 AAAAAAG
13357077 AAAAGAAG
1 AAAA-AAG
*
13357085 AAAAATG
1 AAAAAAG
*
13357092 AAAAATG
1 AAAAAAG
13357099 AAAAA
1 AAAAA
13357104 GAGAGAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
7 24 0.65
8 13 0.35
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (7 bp):
AAAAAAG
Found at i:13357685 original size:79 final size:80
Alignment explanation
Indices: 13357597--13357755 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
13357587 AAGATGATAA
*
13357597 GGAGC-AAAAAAATAAAGAGTGCAAAAACTTGAAAAAATGATTTGAAATGAGACATGGTGTGGTC
1 GGAGCAAAAAAAATAAAGAGTGCAAAAACTTGAAAAAATGATTTGAAATGACACATGGTGTGGTC
13357661 AAATGATGAATATGG
66 AAATGATGAATATGG
13357676 GGAGCAAAAAAAATAAAGAGTGCAAAAACTTGAAAAAATGATTTGAAATGACACATGGTGTGGTC
1 GGAGCAAAAAAAATAAAGAGTGCAAAAACTTGAAAAAATGATTTGAAATGACACATGGTGTGGTC
13357741 AAATGATGAATATGG
66 AAATGATGAATATGG
13357756 TGATAGATTG
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
79 5 0.06
80 73 0.94
ACGTcount: A:0.47, C:0.07, G:0.25, T:0.21
Consensus pattern (80 bp):
GGAGCAAAAAAAATAAAGAGTGCAAAAACTTGAAAAAATGATTTGAAATGACACATGGTGTGGTC
AAATGATGAATATGG
Found at i:13357895 original size:22 final size:22
Alignment explanation
Indices: 13357854--13357895 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13357844 ACTTGTGAAT
*
13357854 TGTGGTCAAATGATAGAAATAA
1 TGTGGTCAAAGGATAGAAATAA
13357876 TGTGGATCAAAGGATA-AAAT
1 TGTGG-TCAAAGGATAGAAAT
13357896 TTGTTCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.45, C:0.05, G:0.24, T:0.26
Consensus pattern (22 bp):
TGTGGTCAAAGGATAGAAATAA
Found at i:13357976 original size:63 final size:63
Alignment explanation
Indices: 13357886--13358135 Score: 293
Period size: 63 Copynumber: 4.0 Consensus size: 63
13357876 TGTGGATCAA
* * *
13357886 AGGATAAAATTTGTTCTAAAATAGTTAATGATGAGAAACCTATGATTGGTGACCAAGTGATGG
1 AGGATGAAATTTGTTCTAAAATGGTTAATGCTGAGAAACCTATGATTGGTGACCAAGTGATGG
* * * * * *
13357949 AGGACGAAATTTGTTCTGAAATGGTTAATGTTGAGAAACCTAAGATTGATGACCAAGTGATGA
1 AGGATGAAATTTGTTCTAAAATGGTTAATGCTGAGAAACCTATGATTGGTGACCAAGTGATGG
** * * * *
13358012 AAAATGAAATTTGTTTTGAAATGGTTAGTGCTGAGAAACCTATGATTGGTGACCAAGTAATGG
1 AGGATGAAATTTGTTCTAAAATGGTTAATGCTGAGAAACCTATGATTGGTGACCAAGTGATGG
* * * * * * * *
13358075 AGGATAAAATTTTTTCTAAAATGGCTAGTGCTGAGAAGCATATGAGTAGTGACCAAGTGAT
1 AGGATGAAATTTGTTCTAAAATGGTTAATGCTGAGAAACCTATGATTGGTGACCAAGTGAT
13358136 AGAAGACAGA
Statistics
Matches: 157, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 157 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (63 bp):
AGGATGAAATTTGTTCTAAAATGGTTAATGCTGAGAAACCTATGATTGGTGACCAAGTGATGG
Found at i:13358583 original size:25 final size:24
Alignment explanation
Indices: 13358519--13358583 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 24
13358509 ATAAAATTAT
*
13358519 GAATCCTCAAATGAAAATCTTTAA
1 GAATCCTCAAATGAGAATCTTTAA
** *
13358543 G--TTTTTAAATGAGAATCTTTAA
1 GAATCCTCAAATGAGAATCTTTAA
13358565 GAAATCCTCAAATGAGAAT
1 G-AATCCTCAAATGAGAAT
13358584 TTTTTAGTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
22 18 0.58
24 1 0.03
25 12 0.39
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (24 bp):
GAATCCTCAAATGAGAATCTTTAA
Found at i:13359099 original size:41 final size:41
Alignment explanation
Indices: 13359042--13359232 Score: 170
Period size: 41 Copynumber: 4.7 Consensus size: 41
13359032 TTAATGAGCC
*
13359042 TTTTATTTTTCAAAGTTATTGTGCCTCTAATTAGAGCAATT
1 TTTTATTTTTCAAAGTTATTGAGCCTCTAATTAGAGCAATT
* * * *
13359083 TTTTATTTTTCAAAGTTATTGTGCCTCTGATTAGA-TAAGCT
1 TTTTATTTTTCAAAGTTATTGAGCCTCTAATTAGAGCAA-TT
* * * ** * * * *
13359124 TTTTATTTTTCAAAGTTGTTAAGCCTATGTTTATAGGAGTC
1 TTTTATTTTTCAAAGTTATTGAGCCTCTAATTAGAGCAATT
* * ***
13359165 TTTTATTTTTCAAAGTCATTGAGCCTCTAATTAGAGGAGCC
1 TTTTATTTTTCAAAGTTATTGAGCCTCTAATTAGAGCAATT
* *
13359206 TTTTATTTTT-TAAGTCATTGAGCCTCT
1 TTTTATTTTTCAAAGTTATTGAGCCTCT
13359233 GTTTAGGGGA
Statistics
Matches: 126, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
40 18 0.14
41 107 0.85
42 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.48
Consensus pattern (41 bp):
TTTTATTTTTCAAAGTTATTGAGCCTCTAATTAGAGCAATT
Found at i:13359272 original size:44 final size:42
Alignment explanation
Indices: 13359166--13359328 Score: 136
Period size: 44 Copynumber: 3.8 Consensus size: 42
13359156 ATAGGAGTCT
* * *
13359166 TTTA-TTTTTCAAAGTCATTGAGCCTCTAATTAGAGGAGCCT-
1 TTTATTTTTTTAAA-TCATTGAGCCTCTATTTAGAGGAGCTTA
* * *
13359207 TTTA-TTTTTTAAGTCATTGAGCCTCTGTTTAGGGGAGCTTTA
1 TTTATTTTTTTAAATCATTGAGCCTCTATTTAGAGGAGC-TTA
* * *
13359249 TTTATTTTTTTGAAATCATTGAGCTTC-AGCTTAGAGGAGCCTAA
1 TTTATTTTTTT-AAATCATTGAGCCTCTA-TTTAGAGGAG-CTTA
* **
13359293 TTTTATTTTTTAAAATTGTTGAGCCTCTATTTAGAG
1 -TTTATTTTTTTAAATCATTGAGCCTCTATTTAGAG
13359329 AAAGTCTGAA
Statistics
Matches: 97, Mismatches: 17, Indels: 13
0.76 0.13 0.10
Matches are distributed among these distances:
40 22 0.23
41 12 0.12
42 4 0.04
43 6 0.06
44 41 0.42
45 12 0.12
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.45
Consensus pattern (42 bp):
TTTATTTTTTTAAATCATTGAGCCTCTATTTAGAGGAGCTTA
Found at i:13361020 original size:51 final size:50
Alignment explanation
Indices: 13360943--13361040 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 50
13360933 AAAAAAAAAG
* * *
13360943 AAAAAAGATTTTTAAATAGGCCCAAATGGTGAAAATTTTAGAAATTCTAA
1 AAAAAAAATTTTTAAATAGACCCAAATGGTGAAAAATTTAGAAATTCTAA
* *
13360993 AAAAAAAATTTGTTAAATTGACTCAAATGGTGAAAAATTTAGAAATTC
1 AAAAAAAATTT-TTAAATAGACCCAAATGGTGAAAAATTTAGAAATTC
13361041 AATAAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 10 0.24
51 32 0.76
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (50 bp):
AAAAAAAATTTTTAAATAGACCCAAATGGTGAAAAATTTAGAAATTCTAA
Found at i:13361860 original size:28 final size:27
Alignment explanation
Indices: 13361804--13361869 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
13361794 ATTATGAATG
*
13361804 TTGAATTTTTCATTATACTTTAATTTTA
1 TTGAATTTTGCATTATACTTTAA-TTTA
*
13361832 TTGAATTTTGCAATTATATTTTTAATTATA
1 TTGAATTTTGC-ATTATA-CTTTAATT-TA
13361862 TT-AATTTT
1 TTGAATTTT
13361870 TGAAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 10 0.30
29 14 0.42
30 9 0.27
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (27 bp):
TTGAATTTTGCATTATACTTTAATTTA
Found at i:13361871 original size:30 final size:30
Alignment explanation
Indices: 13361804--13361876 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
13361794 ATTATGAATG
*
13361804 TTGAATTTTT-C-ATTATACTTTAATTTTA
1 TTGAATTTTTGCAATTATACTTTAATTATA
*
13361832 TTGAA-TTTTGCAATTATATTTTTAATTATA
1 TTGAATTTTTGCAATTATA-CTTTAATTATA
*
13361862 TT-AATTTTTGAAATT
1 TTGAATTTTTGCAATT
13361877 TATCACTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 4 0.11
28 6 0.16
29 8 0.21
30 20 0.53
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (30 bp):
TTGAATTTTTGCAATTATACTTTAATTATA
Found at i:13362020 original size:2 final size:2
Alignment explanation
Indices: 13362013--13362062 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
13362003 ACCTCATCCT
* *
13362013 TA TA TA TA TA TA TA TA TA TA TT TA TA TT 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
*
13362055 TA TC TA TA
1 TA TA TA TA
13362063 AAAAAAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:13362133 original size:15 final size:14
Alignment explanation
Indices: 13362082--13362136 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
13362072 CCTCTTCCTA
*
13362082 TCATTAAATTAAAGTC
1 TCATTAAA--AAAATC
13362098 TCATT-AAAAAATC
1 TCATTAAAAAAATC
*
13362111 TC-TCAAAAAAATTC
1 TCATTAAAAAAA-TC
13362125 TCATTAAAAAAA
1 TCATTAAAAAAA
13362137 AAGCAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 1 0.03
13 13 0.39
14 4 0.12
15 10 0.30
16 5 0.15
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.31
Consensus pattern (14 bp):
TCATTAAAAAAATC
Found at i:13363331 original size:20 final size:19
Alignment explanation
Indices: 13363293--13363332 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
13363283 TCTACAATTG
*
13363293 AATAAAATTATAAAAATAA
1 AATAAAATGATAAAAATAA
*
13363312 AATAATAATGATAAATATAA
1 AATAA-AATGATAAAAATAA
13363332 A
1 A
13363333 TATAGATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AATAAAATGATAAAAATAA
Found at i:13363355 original size:16 final size:18
Alignment explanation
Indices: 13363322--13363360 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
13363312 AATAATAATG
*
13363322 ATAAATATAAATATAGAT
1 ATAAATACAAATATAGAT
13363340 ATAAATACAAA-A-AGAT
1 ATAAATACAAATATAGAT
13363356 ATAAA
1 ATAAA
13363361 CATAAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 1 0.05
18 10 0.50
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAAATACAAATATAGAT
Found at i:13363367 original size:16 final size:16
Alignment explanation
Indices: 13363322--13363369 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
13363312 AATAATAATG
13363322 ATAAATATAAATATAGAT
1 ATAAATATAAA-A-AGAT
*
13363340 ATAAATACAAAAAGAT
1 ATAAATATAAAAAGAT
*
13363356 ATAAACATAAAAAG
1 ATAAATATAAAAAG
13363370 TAAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 16 0.59
17 1 0.04
18 10 0.37
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (16 bp):
ATAAATATAAAAAGAT
Found at i:13364184 original size:22 final size:22
Alignment explanation
Indices: 13364159--13364212 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
13364149 AAAAATCTTA
13364159 CACAAATCTATTAA-AAATGTAT
1 CACAAATCTATTAATAAATG-AT
* * *
13364181 CACAAATTTGTTAATATATGAT
1 CACAAATCTATTAATAAATGAT
13364203 -ACAAATCTAT
1 CACAAATCTAT
13364213 CACTATCTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 8 0.31
22 14 0.54
23 4 0.15
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (22 bp):
CACAAATCTATTAATAAATGAT
Found at i:13377489 original size:12 final size:12
Alignment explanation
Indices: 13377474--13377506 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13377464 TCAAATACAT
*
13377474 AAATAAATAACC
1 AAATAAAAAACC
13377486 AAATAAAAAACC
1 AAATAAAAAACC
13377498 AAA-AAAAAA
1 AAATAAAAAA
13377507 AAAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.09
Consensus pattern (12 bp):
AAATAAAAAACC
Found at i:13381165 original size:3 final size:3
Alignment explanation
Indices: 13381159--13381192 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
13381149 ATTATTATTA
*
13381159 TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
13381193 CTAAGTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:13383904 original size:31 final size:32
Alignment explanation
Indices: 13383867--13383933 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
13383857 TGATGTATTG
* *
13383867 AAATTTAAT-TTTTTATATAT-TATTTAATATA
1 AAATTTAATATGTTTAAATATAT-TTTAATATA
*
13383898 AAATTTAATATGTTTAAATATATTTTGATATA
1 AAATTTAATATGTTTAAATATATTTTAATATA
13383930 AAAT
1 AAAT
13383934 AATTATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 9 0.29
32 21 0.68
33 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (32 bp):
AAATTTAATATGTTTAAATATATTTTAATATA
Found at i:13384210 original size:21 final size:21
Alignment explanation
Indices: 13384186--13384238 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
13384176 CGATTTATCA
* *
13384186 ATTTTTAAATTTTATTTTATT
1 ATTTTTAAATATTATTTTAAT
*
13384207 ATTTTTATATATTATTTTAAT
1 ATTTTTAAATATTATTTTAAT
*
13384228 ATATTTAAATA
1 ATTTTTAAATA
13384239 GATTTTGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTTAAATATTATTTTAAT
Found at i:13385551 original size:105 final size:103
Alignment explanation
Indices: 13385361--13385552 Score: 262
Period size: 105 Copynumber: 1.8 Consensus size: 103
13385351 TATTTTAATC
*
13385361 TTGTTAAAACTATAAAAATTCAAAAAATAAAATTTCTCATAATATATCAACAAAAATTTACATTT
1 TTGTTAAAACTATAAAAATTCAAAAAATAAAATTTCTCATAATATATCAACAAAAATTTACATAT
13385426 TTAAGATAAAAAATACATTTTTATCTTTAAAATATAAGTT
66 TT-A-ATAAAAAATACATTTTTATCTTTAAAATATAAGTT
* ** * *
13385466 TTGTTGAAACTATAAAAATTTTAAAAATAAAATTTCTCATAATATATCAATAAAAACTATATATA
1 TTGTTAAAACTATAAAAATTCAAAAAATAAAATTTCTCATAATATATCAACAAAAA-T-T-TACA
13385531 TATTT-ATAAAAACATA-ATTTTT
63 TATTTAATAAAAA-ATACATTTTT
13385553 GTTGAAACTA
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
105 65 0.84
106 4 0.05
107 1 0.01
108 7 0.09
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.39
Consensus pattern (103 bp):
TTGTTAAAACTATAAAAATTCAAAAAATAAAATTTCTCATAATATATCAACAAAAATTTACATAT
TTAATAAAAAATACATTTTTATCTTTAAAATATAAGTT
Found at i:13385560 original size:85 final size:81
Alignment explanation
Indices: 13385452--13385690 Score: 261
Period size: 85 Copynumber: 2.9 Consensus size: 81
13385442 ATTTTTATCT
* *
13385452 TTAAAATATAAGTTTTGTTGAAACTATAAAAATTTTAAAAATAAAATTTCTCATAATATATCAAT
1 TTAAAA-ATAATTTTTGTTGAAACTATAAAAATTTTAAAAATAAAATTTCTCATAATATATCAAC
*
13385517 AAAAACTATATATATATT-
65 AAAAA-T-TACATATATTC
* * *
13385535 TATAAAAACATAATTTTTGTTGAAACTAT-AAAATTTTAAAAAATAAATTTTTTAATAATATATC
1 T-T-AAAA-ATAATTTTTGTTGAAACTATAAAAATTTT-AAAAATAAAATTTCTCATAATATATC
* *
13385599 AACAAAAATTACCTTTATTC
62 AACAAAAATTACATATATTC
* * * *
13385619 TTAACAATGATTCTTTGTTAAAACTATAAAAATTTGAAAAA-AAAA-TTCTCATAATATATCAAC
1 TTAAAAATAATT-TTTGTTGAAACTATAAAAATTTTAAAAATAAAATTTCTCATAATATATCAAC
*
13385682 AAAAGTTAC
65 AAAAATTAC
13385691 GTTAATCTAA
Statistics
Matches: 133, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
80 24 0.18
81 8 0.06
82 21 0.16
83 16 0.12
84 11 0.08
85 53 0.40
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (81 bp):
TTAAAAATAATTTTTGTTGAAACTATAAAAATTTTAAAAATAAAATTTCTCATAATATATCAACA
AAAATTACATATATTC
Found at i:13386388 original size:18 final size:18
Alignment explanation
Indices: 13386362--13386414 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
13386352 AATTATAATT
*
13386362 TATAATTTTAAAAATATA
1 TATAATTTTAAAAATAAA
* *
13386380 TATATTTTTAAACAAAAAA
1 TATAATTTTAAA-AATAAA
13386399 TATAATTTTAACAAAT
1 TATAATTTTAA-AAAT
13386415 TAAGGTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 11 0.39
19 16 0.57
20 1 0.04
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
TATAATTTTAAAAATAAA
Found at i:13386946 original size:31 final size:30
Alignment explanation
Indices: 13386869--13386948 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 30
13386859 AAATAGTTCT
* *
13386869 TATACTCACATAAAATTTAAAATTTAGTCTC
1 TATACT-AGATAAAATTTAAAATTTAGTCAC
*
13386900 TATACTAGCACAAAATTTAAAATTTAGTCCAC
1 TATACTAG-ATAAAATTTAAAATTTAGT-CAC
*
13386932 ATATTCTAG-TAAAATTT
1 -TATACTAGATAAAATTT
13386949 GCAATTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
30 1 0.02
31 31 0.76
32 2 0.05
33 7 0.17
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (30 bp):
TATACTAGATAAAATTTAAAATTTAGTCAC
Found at i:13386995 original size:21 final size:19
Alignment explanation
Indices: 13386969--13387013 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
13386959 CCATCTAATA
13386969 TAAAAAATGTTTTGAATTTTT
1 TAAAAAAT-TTTT-AATTTTT
*
13386990 TAAAAAATTTTTAGTTTTT
1 TAAAAAATTTTTAATTTTT
13387009 TAAAA
1 TAAAA
13387014 TATTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.48
20 4 0.17
21 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (19 bp):
TAAAAAATTTTTAATTTTT
Found at i:13387980 original size:17 final size:17
Alignment explanation
Indices: 13387960--13387993 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13387950 ATAATTAATT
13387960 ATATATAATAAAAAATA
1 ATATATAATAAAAAATA
**
13387977 ATATATTGTAAAAAATA
1 ATATATAATAAAAAATA
13387994 TTTTTTATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
ATATATAATAAAAAATA
Found at i:13388058 original size:19 final size:19
Alignment explanation
Indices: 13388012--13388060 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
13388002 TAGAGGGATT
*
13388012 AAAATATTTTTAAAAAATG
1 AAAATATTTTTAAAAAATC
* * *
13388031 AGAACATTTTTAAAAATTC
1 AAAATATTTTTAAAAAATC
13388050 AAAATATTTTT
1 AAAATATTTTT
13388061 TATATTAGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (19 bp):
AAAATATTTTTAAAAAATC
Found at i:13388109 original size:31 final size:31
Alignment explanation
Indices: 13388073--13388154 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
13388063 TATTAGAACA
* *
13388073 ATTAAATTTCAAATTTTGTGA-GAGTATAGAG
1 ATTAAATTTCAAATTTTGT-ACAAATATAGAG
*
13388104 ATTAAATTTCAAATTGTGTACAAATATAGAG
1 ATTAAATTTCAAATTTTGTACAAATATAGAG
* *
13388135 ATTAAAGTTCAATTTTTGTA
1 ATTAAATTTCAAATTTTGTA
13388155 TTAGTACATA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
30 1 0.02
31 43 0.98
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (31 bp):
ATTAAATTTCAAATTTTGTACAAATATAGAG
Found at i:13388954 original size:11 final size:11
Alignment explanation
Indices: 13388938--13388967 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
13388928 ATTCTTACAC
13388938 AAATTTATTAA
1 AAATTTATTAA
13388949 AAATTTATTAA
1 AAATTTATTAA
13388960 AAATTTAT
1 AAATTTAT
13388968 CAATATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAATTTATTAA
Found at i:13389743 original size:19 final size:19
Alignment explanation
Indices: 13389699--13389744 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13389689 CAAGGACTAT
*
13389699 AATATTTTTAAAAAACAAG
1 AATATTTTAAAAAAACAAG
*
13389718 AAAATTTTAAAAAAATCAA-
1 AATATTTTAAAAAAA-CAAG
13389737 AATATTTT
1 AATATTTT
13389745 TTATATTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
AATATTTTAAAAAAACAAG
Found at i:13389831 original size:31 final size:31
Alignment explanation
Indices: 13389754--13389849 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
13389744 TTTATATTAG
* *
13389754 AAAGACTAAATTTCAAATTTCAT-TAGATTAT
1 AAAGACTAAATTTCAAATTTCATATA-AGTAC
* *
13389785 AGAGATTAAATTTCAAATTTCATATAAGTAC
1 AAAGACTAAATTTCAAATTTCATATAAGTAC
* * *
13389816 AAAGACTAAAGTTCAAATTTTATATGAGTAC
1 AAAGACTAAATTTCAAATTTCATATAAGTAC
13389847 AAA
1 AAA
13389850 AATCATTTGT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
31 53 0.96
32 2 0.04
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (31 bp):
AAAGACTAAATTTCAAATTTCATATAAGTAC
Found at i:13393992 original size:22 final size:22
Alignment explanation
Indices: 13393958--13394014 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
13393948 TTTGTTTGAT
* *
13393958 AAAA-AATTAATTGATTAACGA
1 AAAATAATTTATTGATCAACGA
*
13393979 AAAATAATTTATTGATCAATGA
1 AAAATAATTTATTGATCAACGA
*
13394001 AAAATGATGTTATT
1 AAAATAAT-TTATT
13394015 TTTTTGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 4 0.13
22 21 0.70
23 5 0.17
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.35
Consensus pattern (22 bp):
AAAATAATTTATTGATCAACGA
Done.