Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2854393
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 15
Found at i:2288803 original size:21 final size:21
Alignment explanation
Indices: 2288777--2288820 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
2288767 TAGGTCTAAT
2288777 TGAGTATCTAGATTTGACCTA
1 TGAGTATCTAGATTTGACCTA
2288798 TGAGTATCTAGATTTGACCTA
1 TGAGTATCTAGATTTGACCTA
2288819 TG
1 TG
2288821 TTGTCTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (21 bp):
TGAGTATCTAGATTTGACCTA
Found at i:2295549 original size:21 final size:20
Alignment explanation
Indices: 2295525--2295566 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
2295515 TCATAAAAAG
*
2295525 TTACTGATAATATTATTATTT
1 TTACTGAAAATATTATT-TTT
*
2295546 TTACTTAAAATATTATTTTT
1 TTACTGAAAATATTATTTTT
2295566 T
1 T
2295567 AATATTTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (20 bp):
TTACTGAAAATATTATTTTT
Found at i:2295600 original size:29 final size:30
Alignment explanation
Indices: 2295566--2295632 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
2295556 TATTATTTTT
2295566 TAATATTTTCGGTCA-TTTTTAACG-TCTAA
1 TAATATTTTCGGTCATTTTTTAACGCT-TAA
*
2295595 TAATATTTTCGGTCATTTTTTAGCGCTTAA
1 TAATATTTTCGGTCATTTTTTAACGCTTAA
2295625 TAATATTT
1 TAATATTT
2295633 CCAGTTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 15 0.43
30 19 0.54
31 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (30 bp):
TAATATTTTCGGTCATTTTTTAACGCTTAA
Found at i:2302656 original size:21 final size:21
Alignment explanation
Indices: 2302630--2302669 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2302620 ACAGAACCCA
*
2302630 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
2302651 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
2302670 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:2302698 original size:19 final size:20
Alignment explanation
Indices: 2302652--2302711 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
2302642 TTCCCCTGTG
2302652 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
2302675 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
2302694 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
2302712 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:2311520 original size:2 final size:2
Alignment explanation
Indices: 2311508--2311564 Score: 80
Period size: 2 Copynumber: 29.0 Consensus size: 2
2311498 TTGTTTGCTT
* *
2311508 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA CA 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
*
2311550 TA TG TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA
2311565 ATCTTTGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2311599 original size:35 final size:35
Alignment explanation
Indices: 2311560--2311686 Score: 141
Period size: 35 Copynumber: 3.6 Consensus size: 35
2311550 TATGTATATA
* * *
2311560 ATATAATCTTTGAAA-ATGTTTTAGAAAAATATAGT
1 ATATAATTTTTAAAACAT-TTTTAGAAAAATATAAT
* *
2311595 ATATAATTTTTAAAACATTTTGAAAATAAATATAAT
1 ATATAATTTTTAAAACATTTTTAGAA-AAATATAAT
* *
2311631 ATATAGTTTTTAAAACATTTTT-GAAAATATATATT
1 ATATAATTTTTAAAACATTTTTAGAAAA-ATATAAT
*
2311666 ATATAATTTTTAAAATATTTT
1 ATATAATTTTTAAAACATTTT
2311687 GGAAACATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.03
35 46 0.59
36 30 0.38
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (35 bp):
ATATAATTTTTAAAACATTTTTAGAAAAATATAAT
Found at i:2311634 original size:36 final size:36
Alignment explanation
Indices: 2311586--2311687 Score: 145
Period size: 36 Copynumber: 2.9 Consensus size: 36
2311576 TGTTTTAGAA
*
2311586 AAATATAGTATATAATTTTTAAAACATTTTGAAAAT
1 AAATATAATATATAATTTTTAAAACATTTTGAAAAT
*
2311622 AAATATAATATATAGTTTTTAAAACATTTTTGAAAAT
1 AAATATAATATATAATTTTTAAAACA-TTTTGAAAAT
* *
2311659 --ATATATTATATAATTTTTAAAATATTTTG
1 AAATATAATATATAATTTTTAAAACATTTTG
2311688 GAAACATATT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
34 5 0.08
35 21 0.35
36 24 0.40
37 10 0.17
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (36 bp):
AAATATAATATATAATTTTTAAAACATTTTGAAAAT
Found at i:2311808 original size:12 final size:13
Alignment explanation
Indices: 2311784--2311824 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
2311774 ATATAATATA
2311784 TATTTGTTTTTAT
1 TATTTGTTTTTAT
2311797 TATTTG-TTTTAT
1 TATTTGTTTTTAT
*
2311809 T-TTTATTTTTA-
1 TATTTGTTTTTAT
2311820 TATTT
1 TATTT
2311825 ATTATTCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 4 0.16
12 15 0.60
13 6 0.24
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (13 bp):
TATTTGTTTTTAT
Found at i:2311825 original size:18 final size:19
Alignment explanation
Indices: 2311782--2311827 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
2311772 ATATATAATA
*
2311782 TATATTTGTTTTTATTATT
1 TATATTTATTTTTATTATT
*
2311801 TGT-TTTATTTTTATT-TT
1 TATATTTATTTTTATTATT
2311818 TATATTTATT
1 TATATTTATT
2311828 ATTCGTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 17 0.74
19 2 0.09
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (19 bp):
TATATTTATTTTTATTATT
Found at i:2312921 original size:22 final size:21
Alignment explanation
Indices: 2312859--2312921 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
2312849 TTGATCCCTA
* * *
2312859 AATTCTTATTTTATTTTATTT
1 AATTATTATTATATTTTTTTT
* *
2312880 ATTTATTATTATCATGTTTTTT
1 AATTATTATTAT-ATTTTTTTT
2312902 AATTATTATTAGTATTTTTT
1 AATTATTATTA-TATTTTTT
2312922 CCCTCATATG
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 9 0.27
22 23 0.70
23 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.68
Consensus pattern (21 bp):
AATTATTATTATATTTTTTTT
Found at i:2313025 original size:5 final size:5
Alignment explanation
Indices: 2312980--2313025 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
2312970 TTAATACTTC
* *
2312980 TTTAT TTT-T TTTA- TTTAT TTAAT TTTAAT TTTAT TGTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT-AT TTTAT TTTAT TTTAT TT
2313026 CTTTGGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
4 8 0.24
5 21 0.62
6 5 0.15
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:2314325 original size:39 final size:39
Alignment explanation
Indices: 2314273--2314758 Score: 313
Period size: 40 Copynumber: 11.8 Consensus size: 39
2314263 ACAAGATTCC
* *
2314273 AAAA-AAATCCAACGATTTATTTCTTTTTATAAAACAGA
1 AAAATAAATCCAACGATTTATTTCTTTTTACAAAATAGA
* *
2314311 AAAATAAATCCAACGATTTATATCTTTTTACAAAACATGA
1 AAAATAAATCCAACGATTTATTTCTTTTTACAAAATA-GA
* * *
2314351 AAATTAAATCCAACGATTTATTTCTTTTGACAAAACAGGA
1 AAAATAAATCCAACGATTTATTTCTTTTTACAAAATA-GA
* *
2314391 ATAAATCAAA-CGATTTGTTTCGATTTATTTCTTTTTACAAAATA-A
1 A-AAAT-AAATCCA------ACGATTTATTTCTTTTTACAAAATAGA
* * * *
2314436 AAAACTAAATCCAATGGTTTATTTCCTTTTTACAATATAGG
1 AAAA-TAAATCCAACGATTTATTT-CTTTTTACAAAATAGA
* *
2314477 AAAATAAATCTAACGATTTATTTCTTTTTACAAAATAGG
1 AAAATAAATCCAACGATTTATTTCTTTTTACAAAATAGA
* * *
2314516 AAAATAAATCAAACGATTTGTTTCAATTTATTTTATTTTACAAA-AG-
1 AAAATAAATCCAACGATTTATTTC----T-TTTTA---CA-AAATAGA
* * * *
2314562 AAACTAGATCCAACGATTTATTTCCTTTTTACAATATAGG
1 AAAATAAATCCAACGATTTATTT-CTTTTTACAAAATAGA
* *
2314602 AAAATAAATCAAACGATTTATTTCTTTTTACAAACCCA-AAA
1 AAAATAAATCCAACGATTTATTTCTTTTTACAAA---ATAGA
* * * *
2314643 AAAATCAAAT-GATTTATTTCGATTTATTTC-CTTTATAAAATAGG
1 AAAAT-AAATCCA---A---CGATTTATTTCTTTTTACAAAATAGA
* * ** *
2314687 AAACTAAATCAAAAAATTTATTTCCTTTTTACAATATAGA
1 AAAATAAATCCAACGATTTATTT-CTTTTTACAAAATAGA
*
2314727 AAAATAAATCCAATGATTTATTTCTTTTTACA
1 AAAATAAATCCAACGATTTATTTCTTTTTACA
2314759 GATCAAATCA
Statistics
Matches: 355, Mismatches: 53, Indels: 79
0.73 0.11 0.16
Matches are distributed among these distances:
38 14 0.04
39 98 0.28
40 117 0.33
41 17 0.05
42 13 0.04
43 7 0.02
44 18 0.05
45 5 0.01
46 26 0.07
47 37 0.10
48 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (39 bp):
AAAATAAATCCAACGATTTATTTCTTTTTACAAAATAGA
Found at i:2314417 original size:87 final size:88
Alignment explanation
Indices: 2314324--2314500 Score: 223
Period size: 87 Copynumber: 2.0 Consensus size: 88
2314314 ATAAATCCAA
* *
2314324 CGATTTATATCTTTTTACAAAACATGAAAATTAAATCCAACGATTTATTT-CTTTTGACAAAACA
1 CGATTTATATCTTTTTACAAAACA-AAAAACTAAATCCAACGATTTATTTCCTTTTGACAAAACA
*
2314388 GG-AATAAATCAAACGATTTGTTT
65 GGAAATAAATCAAACGATTTATTT
* * * * * * *
2314411 CGATTTATTTCTTTTTACAAAATAAAAAACTAAATCCAATGGTTTATTTCCTTTTTACAATATAG
1 CGATTTATATCTTTTTACAAAACAAAAAACTAAATCCAACGATTTATTTCCTTTTGACAAAACAG
*
2314476 GAAAATAAATCTAACGATTTATTT
66 G-AAATAAATCAAACGATTTATTT
2314500 C
1 C
2314501 TTTTTACAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
86 21 0.28
87 35 0.46
89 20 0.26
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.39
Consensus pattern (88 bp):
CGATTTATATCTTTTTACAAAACAAAAAACTAAATCCAACGATTTATTTCCTTTTGACAAAACAG
GAAATAAATCAAACGATTTATTT
Found at i:2314605 original size:125 final size:124
Alignment explanation
Indices: 2314285--2314758 Score: 548
Period size: 125 Copynumber: 3.8 Consensus size: 124
2314275 AAAAATCCAA
* * * * * *
2314285 CGATTTATTTCTTTTTATAAAACAGAAAAATAAATCCAACGATTTATAT-CTTTTTACAAAACAT
1 CGATTTATTT-TTTTTA-CAAA-AG-AAACTAAATCCAACGATTTATTTCCTTTTTACAATATAG
*
2314349 GAAAATTAAATCCAACGATTTATTTCTTTTGACAAAACAGG--AATAAATCAAACGATTTGTTT
62 GAAAA-TAAATCCAACGATTTATTTCTTTTTACAAAACAGGAAAATAAATCAAACGATTTGTTT
* * *
2314411 CGATTTATTTCTTTTTACAAAATAAAAAACTAAATCCAATGGTTTATTTCCTTTTTACAATATAG
1 CGATTTATTT-TTTTTAC--AA-AAGAAACTAAATCCAACGATTTATTTCCTTTTTACAATATAG
* *
2314476 GAAAATAAATCTAACGATTTATTTCTTTTTACAAAATAGGAAAATAAATCAAACGATTTGTTT
62 GAAAATAAATCCAACGATTTATTTCTTTTTACAAAACAGGAAAATAAATCAAACGATTTGTTT
* *
2314539 CAATTTATTTTATTTTACAAAAGAAACTAGATCCAACGATTTATTTCCTTTTTACAATATAGGAA
1 CGATTTATTTT-TTTTACAAAAGAAACTAAATCCAACGATTTATTTCCTTTTTACAATATAGGAA
* * * *
2314604 AATAAATCAAACGATTTATTTCTTTTTACAAACCCA--AAAA-AAATCAAATGATTTATTT
65 AATAAATCCAACGATTTATTTCTTTTTACAAA-ACAGGAAAATAAATCAAACGATTTGTTT
* * **
2314662 CGATTTATTTCCTTTATA-AAATAGGAAACTAAATCAAAAAATTTATTTCCTTTTTACAATATAG
1 CGATTTATTT--TTTTTACAAA-A-GAAACTAAATCCAACGATTTATTTCCTTTTTACAATATAG
* *
2314726 AAAAATAAATCCAATGATTTATTTCTTTTTACA
62 GAAAATAAATCCAACGATTTATTTCTTTTTACA
2314759 GATCAAATCA
Statistics
Matches: 305, Mismatches: 31, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
123 28 0.09
124 9 0.03
125 139 0.46
126 71 0.23
127 21 0.07
128 37 0.12
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.39
Consensus pattern (124 bp):
CGATTTATTTTTTTTACAAAAGAAACTAAATCCAACGATTTATTTCCTTTTTACAATATAGGAAA
ATAAATCCAACGATTTATTTCTTTTTACAAAACAGGAAAATAAATCAAACGATTTGTTT
Found at i:2314730 original size:85 final size:88
Alignment explanation
Indices: 2314575--2314750 Score: 234
Period size: 85 Copynumber: 2.0 Consensus size: 88
2314565 CTAGATCCAA
* ** *
2314575 CGATTTATTTCCTTTTTACAATATAGGAAAATAAATCAAACGATTTATTTCTTTTTACAAACCCA
1 CGATTTATTTCCTTTATACAATATAGGAAAATAAATCAAAAAATTTATTTCTTTTTACAAACCAA
2314640 AAAA-AAATCAAATGATTTATTT
66 AAAATAAATCAAATGATTTATTT
* *
2314662 CGATTTATTTCCTTTATA-AA-ATAGGAAACTAAATCAAAAAATTTATTTCCTTTTTACAATA-T
1 CGATTTATTTCCTTTATACAATATAGGAAAATAAATCAAAAAATTTATTT-CTTTTTACAA-ACC
*
2314724 AGAAAAATAAATCCAATGATTTATTT
64 A-AAAAATAAATCAAATGATTTATTT
2314750 C
1 C
2314751 TTTTTACAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
85 25 0.32
86 12 0.15
87 23 0.29
88 18 0.23
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (88 bp):
CGATTTATTTCCTTTATACAATATAGGAAAATAAATCAAAAAATTTATTTCTTTTTACAAACCAA
AAAATAAATCAAATGATTTATTT
Found at i:2314865 original size:97 final size:96
Alignment explanation
Indices: 2314702--2314963 Score: 321
Period size: 97 Copynumber: 2.7 Consensus size: 96
2314692 AAATCAAAAA
* * * * *
2314702 ATTTATTTCCTTTTTACAATATAGAAAAATAAATCCAATGATTTA-TTTCTTTTTACAGATCAAA
1 ATTTATTTCCTTTTT-CAAAATAGGAAAATAAATTCTATGAATTATTTTC-TTTTACAGATCAAA
2314766 TCATACAAAATTCTTAGAAAAATAAATTTACCG
64 TCATACAAAATTCTTAGAAAAATAAATTTACCG
*
2314799 ATTTATTTCCTTTTTCAAAATAGGAAAATAAATTTTATGAATTATTTTCTTTTACAGATCAGAAT
1 ATTTATTTCCTTTTTCAAAATAGGAAAATAAATTCTATGAATTATTTTCTTTTACAGATCA-AAT
* * * **
2314864 CATTCAAGATTCTTAGGAAAATAAATTTATTG
65 CATACAAAATTCTTAGAAAAATAAATTTACCG
* * * * *
2314896 ATTTATTTCTTTTTTCAAAACAGGAAAATAAATTCTACG-ATTTTTTTCCTTTTACACATCATAA
1 ATTTATTTCCTTTTTCAAAATAGGAAAATAAATTCTATGAATTATTTT-CTTTTACAGATCA-AA
2314960 TCAT
64 TCAT
2314964 GTGAGATTCT
Statistics
Matches: 144, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
96 42 0.29
97 102 0.71
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (96 bp):
ATTTATTTCCTTTTTCAAAATAGGAAAATAAATTCTATGAATTATTTTCTTTTACAGATCAAATC
ATACAAAATTCTTAGAAAAATAAATTTACCG
Found at i:2315276 original size:56 final size:58
Alignment explanation
Indices: 2315129--2315265 Score: 181
Period size: 56 Copynumber: 2.4 Consensus size: 58
2315119 ATTTTTTATT
*
2315129 CAAGATTCTCGAA-AAAATAAATTTAACAATTTATTTCCTTTAACAAAATAGAATCATT
1 CAAGATTCTC-AAGAAAATAAATTTAACAATTTATTTCCTTTAACAAAATAGAATCATC
* * * **
2315187 TAATATTCTTAAGAAAATAAATTTAACAATTTATTT-CTTTAA-AGGATAGAATCATC
1 CAAGATTCTCAAGAAAATAAATTTAACAATTTATTTCCTTTAACAAAATAGAATCATC
*
2315243 CAGGATTCTCAAGAAAATAAATT
1 CAAGATTCTCAAGAAAATAAATT
2315266 CGATAATTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
56 30 0.44
57 8 0.12
58 30 0.44
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (58 bp):
CAAGATTCTCAAGAAAATAAATTTAACAATTTATTTCCTTTAACAAAATAGAATCATC
Found at i:2317348 original size:24 final size:24
Alignment explanation
Indices: 2317321--2317367 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2317311 CACCACAGCT
*
2317321 CGTATAAATTGCACCGAAGTGCCG
1 CGTAGAAATTGCACCGAAGTGCCG
2317345 CGTAGAAATTGCACCGAAGTGCC
1 CGTAGAAATTGCACCGAAGTGCC
2317368 ATATAGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (24 bp):
CGTAGAAATTGCACCGAAGTGCCG
Found at i:2317374 original size:24 final size:24
Alignment explanation
Indices: 2317326--2317377 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
2317316 CAGCTCGTAT
* *
2317326 AAATTGCACCGAAGTGCCGCGTAG
1 AAATTGCACCGAAGTGCCACATAG
*
2317350 AAATTGCACCGAAGTGCCATATAG
1 AAATTGCACCGAAGTGCCACATAG
2317374 AAAT
1 AAAT
2317378 GTCCCGAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (24 bp):
AAATTGCACCGAAGTGCCACATAG
Found at i:2317442 original size:23 final size:23
Alignment explanation
Indices: 2317371--2317444 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
2317361 AAGTGCCATA
2317371 TAGAAATGTCCCGAAGGACCACG
1 TAGAAATGTCCCGAAGGACCACG
* *
2317394 TAAAAATGTCTCGAAGGACCACG
1 TAGAAATGTCCCGAAGGACCACG
* *
2317417 TAGAATTGTCCCGAAGGACCGCG
1 TAGAAATGTCCCGAAGGACCACG
2317440 TAGAA
1 TAGAA
2317445 CCCTCGACTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (23 bp):
TAGAAATGTCCCGAAGGACCACG
Found at i:2317845 original size:14 final size:14
Alignment explanation
Indices: 2317826--2317854 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2317816 TGATTGATCT
2317826 TAGTCTTAGAATCG
1 TAGTCTTAGAATCG
2317840 TAGTCTTAGAATCG
1 TAGTCTTAGAATCG
2317854 T
1 T
2317855 CCTGAACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (14 bp):
TAGTCTTAGAATCG
Found at i:2320651 original size:60 final size:61
Alignment explanation
Indices: 2320586--2320723 Score: 178
Period size: 60 Copynumber: 2.3 Consensus size: 61
2320576 ACCCAGTTTC
*
2320586 CAAATTCGCAACGCGAATCTGT-AAA-TCGCAACACAGAAGTCAAATTCGAAACGC-G-ATACT
1 CAAATTCGCAACGCGAAT-AGTCAAATTCGCAACACA-AAGTCAAATTCGAAACGCGGAAT-CT
* *
2320646 CAAATTCGCAACGCG-ATAGTCAAATTCGCAACACAAAGTCAAATTCGCAACGCGGAATTT
1 CAAATTCGCAACGCGAATAGTCAAATTCGCAACACAAAGTCAAATTCGAAACGCGGAATCT
*
2320706 CAAATTAGCAACGCGAAT
1 CAAATTCGCAACGCGAAT
2320724 TTAATTTCGC
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
58 2 0.03
59 22 0.32
60 41 0.59
61 4 0.06
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (61 bp):
CAAATTCGCAACGCGAATAGTCAAATTCGCAACACAAAGTCAAATTCGAAACGCGGAATCT
Found at i:2320725 original size:20 final size:20
Alignment explanation
Indices: 2320547--2320736 Score: 128
Period size: 20 Copynumber: 9.6 Consensus size: 20
2320537 AAATGACCAA
*
2320547 CAAATTCGCAACGCGAA-CT
1 CAAATTCGCAACGCGAATGT
* * * *
2320566 CCAATTCGCAAC-CCAGTTT
1 CAAATTCGCAACGCGAATGT
2320585 CCAAATTCGCAACGCGAATCTGT
1 -CAAATTCGCAACGCGAA--TGT
*
2320608 -AAA-TCGCAACACAGAA-GT
1 CAAATTCGCAACGC-GAATGT
* *
2320626 CAAATTCGAAACGCG-ATACT
1 CAAATTCGCAACGCGAAT-GT
2320646 CAAATTCGCAACGCG-ATAGT
1 CAAATTCGCAACGCGAAT-GT
* *
2320666 CAAATTCGCAACAC-AAAGT
1 CAAATTCGCAACGCGAATGT
*
2320685 CAAATTCGCAACGCGGAATTT
1 CAAATTCGCAACGC-GAATGT
*
2320706 CAAATTAGCAACGCGAAT-T
1 CAAATTCGCAACGCGAATGT
* *
2320725 TAATTTCGCAAC
1 CAAATTCGCAAC
2320737 AGGTTTTAGT
Statistics
Matches: 135, Mismatches: 23, Indels: 26
0.73 0.12 0.14
Matches are distributed among these distances:
18 5 0.04
19 41 0.30
20 63 0.47
21 24 0.18
23 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATGT
Found at i:2321503 original size:12 final size:12
Alignment explanation
Indices: 2321482--2321515 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2321472 ACCACATTTC
*
2321482 CAATACCAAACA
1 CAATATCAAACA
2321494 CAATATCAAACA
1 CAATATCAAACA
*
2321506 CAATCTCAAA
1 CAATATCAAA
2321516 GCACGCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:2323940 original size:18 final size:18
Alignment explanation
Indices: 2323917--2323952 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2323907 AAGCAAAAGG
*
2323917 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
2323935 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
2323953 CAACCGGCTT
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:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:2324319 original size:40 final size:40
Alignment explanation
Indices: 2324273--2324356 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
2324263 CGAAAATCAC
* * * *
2324273 GTTGCGAATTTGGCTTTCTCGTTGCGAATTTGACTTTCGT
1 GTTGCGAATTTGACTTTCGCGTTGCGAATTTAACTTTCAT
2324313 GTTGCGAATTTGACTTTCGCGTTGCGAATTTAACTTTCAT
1 GTTGCGAATTTGACTTTCGCGTTGCGAATTTAACTTTCAT
2324353 GTTG
1 GTTG
2324357 TACATTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.44
Consensus pattern (40 bp):
GTTGCGAATTTGACTTTCGCGTTGCGAATTTAACTTTCAT
Found at i:2324356 original size:20 final size:20
Alignment explanation
Indices: 2324273--2324356 Score: 116
Period size: 20 Copynumber: 4.2 Consensus size: 20
2324263 CGAAAATCAC
*
2324273 GTTGCGAATTTGGCTTTC-T
1 GTTGCGAATTTGACTTTCGT
2324292 CGTTGCGAATTTGACTTTCGT
1 -GTTGCGAATTTGACTTTCGT
*
2324313 GTTGCGAATTTGACTTTCGC
1 GTTGCGAATTTGACTTTCGT
* *
2324333 GTTGCGAATTTAACTTTCAT
1 GTTGCGAATTTGACTTTCGT
2324353 GTTG
1 GTTG
2324357 TACATTATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 57 0.98
21 1 0.02
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.44
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTCGT
Found at i:2324799 original size:18 final size:18
Alignment explanation
Indices: 2324778--2324814 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2324768 GTAATTGGAG
2324778 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
2324796 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
2324814 T
1 T
2324815 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:2324821 original size:24 final size:24
Alignment explanation
Indices: 2324770--2324822 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2324760 TTTCATATGT
* * *
2324770 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
2324794 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
2324818 AATTT
1 AATTT
2324823 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:2325162 original size:39 final size:39
Alignment explanation
Indices: 2325119--2325205 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
2325109 ACCGATGCTC
2325119 ATCAAAATCCAAAGCTCATATAGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATAGTGCCAAGCAAAAGGAA
* *
2325158 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATAGTGCCAAGCAAAAGGAA
2325197 ATCAAAATC
1 ATCAAAATC
2325206 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATAGTGCCAAGCAAAAGGAA
Found at i:2325431 original size:20 final size:20
Alignment explanation
Indices: 2325394--2325432 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2325384 TGCGAAAGTC
*
2325394 AAATTCGCAACGCGAAAATA
1 AAATTCGCAACGCAAAAATA
2325414 AAATTCGCAAAC-CAAAAAT
1 AAATTCGC-AACGCAAAAAT
2325433 TGCGTTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.54, C:0.21, G:0.10, T:0.15
Consensus pattern (20 bp):
AAATTCGCAACGCAAAAATA
Found at i:2325611 original size:14 final size:14
Alignment explanation
Indices: 2325594--2325627 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
2325584 ATCAAATTAA
2325594 ACAAATCAACTTTT
1 ACAAATCAACTTTT
2325608 ACAAATCAACTTTT
1 ACAAATCAACTTTT
2325622 ACAAAT
1 ACAAAT
2325628 TAATTAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2327124 original size:21 final size:21
Alignment explanation
Indices: 2327050--2327148 Score: 87
Period size: 21 Copynumber: 4.7 Consensus size: 21
2327040 GCAGACGGGA
* *
2327050 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAATGATGAGAGGGG
* * *
2327071 CCTCTTGAA-CAGTGGGAGAGG
1 CCTCTTGAATGA-TGAGAGGGG
*
2327092 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAATGATGAGAGGGG
*
2327113 CCTCTTGAATGAT-AGGAGGTG
1 CCTCTTGAATGATGA-GAGGGG
2327134 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
2327149 TAGGTGCATC
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
20 3 0.05
21 56 0.90
22 3 0.05
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.25
Consensus pattern (21 bp):
CCTCTTGAATGATGAGAGGGG
Found at i:2327146 original size:42 final size:42
Alignment explanation
Indices: 2327050--2327148 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
2327040 GCAGACGGGA
* *
2327050 CCTCTTGAACGATGACAGGGGCCTCTTGAACAGTGGGAGAGG
1 CCTCTTGAATGATGACAGGGGCCTCTTGAACAGTAGGAGAGG
* * *
2327092 CTTCTTCG-ATGATGAGAGGGGCCTCTTGAA-TGATAGGAG-GTG
1 CCTCTT-GAATGATGACAGGGGCCTCTTGAACAG-TAGGAGAG-G
2327134 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
2327149 TAGGTGCATC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
41 3 0.06
42 43 0.91
43 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.25
Consensus pattern (42 bp):
CCTCTTGAATGATGACAGGGGCCTCTTGAACAGTAGGAGAGG
Found at i:2327153 original size:21 final size:21
Alignment explanation
Indices: 2327100--2327155 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
2327090 GGCTTCTTCG
*
2327100 ATGATGAGAGGGGCCTCTTGA
1 ATGATGAGAGGTGCCTCTTGA
2327121 ATGAT-AGGAGGTGCCTCTTGA
1 ATGATGA-GAGGTGCCTCTTGA
*
2327142 ATGATGATAGGTGC
1 ATGATGAGAGGTGC
2327156 ATCGAGCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.36, T:0.27
Consensus pattern (21 bp):
ATGATGAGAGGTGCCTCTTGA
Found at i:2327583 original size:21 final size:21
Alignment explanation
Indices: 2327555--2327604 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
2327545 ACCATTATCT
*
2327555 TCACGTAAAGTACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
*
2327576 TGACGTAAAGCACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
2327597 TCACGTAA
1 TCACGTAA
2327605 TTCCCCTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:2329336 original size:18 final size:19
Alignment explanation
Indices: 2329292--2329338 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
2329282 TTCTGAAACT
*
2329292 TAAATTCGCAACGCGAAAA
1 TAAAATCGCAACGCGAAAA
*
2329311 TGAAAATCGCAACGCG-AAC
1 T-AAAATCGCAACGCGAAAA
2329330 TAAAATCGC
1 TAAAATCGC
2329339 GTTGCCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.32
19 4 0.16
20 13 0.52
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (19 bp):
TAAAATCGCAACGCGAAAA
Found at i:2329866 original size:20 final size:20
Alignment explanation
Indices: 2329841--2330044 Score: 211
Period size: 20 Copynumber: 10.2 Consensus size: 20
2329831 GCGTAAAACC
*
2329841 ATTTGACTTTTGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
2329861 ATTTGA-TTATCGCGTTGCAA
1 ATTTGACTT-TCGCGTTGCGA
*
2329881 ATTTGAC-TTCTGTGTTGCG-
1 ATTTGACTTTC-GCGTTGCGA
* *
2329900 ATTT-ACAAATTCGTGTTGCGA
1 ATTTGAC--TTTCGCGTTGCGA
* * * *
2329921 ATTTGAATTTTGTGTTGTGA
1 ATTTGACTTTCGCGTTGCGA
*
2329941 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
2329961 ATTTGACTTT-GTGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
2329980 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
2330000 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
2330020 ATTTGAATTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
2330040 ATTTG
1 ATTTG
2330045 GCTTATGTGT
Statistics
Matches: 156, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
18 2 0.01
19 25 0.16
20 121 0.78
21 7 0.04
22 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:2329898 original size:40 final size:40
Alignment explanation
Indices: 2329841--2330056 Score: 251
Period size: 40 Copynumber: 5.4 Consensus size: 40
2329831 GCGTAAAACC
* * * *
2329841 ATTTGACTTTTGCGTTGCGAATTTGATTATCGCGTTGCAA
1 ATTTGACTTCTGTGTTGCGAATTTGACTATCGCGTTGCGA
* *
2329881 ATTTGACTTCTGTGTTGCG-ATTT-ACAAATTCGTGTTGCGA
1 ATTTGACTTCTGTGTTGCGAATTTGAC-TA-TCGCGTTGCGA
* * *
2329921 ATTTGAATTTTGTGTTGTGAATTTGACTATCGCGTTGCGA
1 ATTTGACTTCTGTGTTGCGAATTTGACTATCGCGTTGCGA
2329961 ATTTGACTT-TGTGTTGCGAATTTGACTATCGCGTTGCGA
1 ATTTGACTTCTGTGTTGCGAATTTGACTATCGCGTTGCGA
* * *
2330000 ATTTGACTATC-GCGTTGCGAATTTGAATTTCGCGTTGCGA
1 ATTTGACT-TCTGTGTTGCGAATTTGACTATCGCGTTGCGA
* *
2330040 ATTTGGCTTATGTGTTG
1 ATTTGACTTCTGTGTTG
2330057 TGATTTATAG
Statistics
Matches: 150, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 43 0.29
40 99 0.66
41 5 0.03
42 2 0.01
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.43
Consensus pattern (40 bp):
ATTTGACTTCTGTGTTGCGAATTTGACTATCGCGTTGCGA
Found at i:2330075 original size:119 final size:120
Alignment explanation
Indices: 2329841--2330059 Score: 309
Period size: 119 Copynumber: 1.8 Consensus size: 120
2329831 GCGTAAAACC
* *
2329841 ATTTGACTTTTGCGTTGCGAATTTGATTATCGCGTTGCAAATTTGACTTCTGTGTTGCGATTTAC
1 ATTTGACTTTTGCGTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTCTGCGTTGCGATTTAC
* *
2329906 AAATTCGTGTTGCGAATTTGAATTTTGTGTTGTGAATTTGACTATCGCGTTGCGA
66 AAATTCGCGTTGCGAATTTGAATTATGTGTTGTGAATTTGACTATCGCGTTGCGA
* *
2329961 ATTTGAC-TTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATC-GCGTTGCGAATTT
1 ATTTGACTTTTGCGTTGCGAATTTGACTATCGCGTTGCAAATTTGACT-TCTGCGTTGCG-ATTT
* * **
2330024 -GAATTTCGCGTTGCGAATTTGGCTTATGTGTTGTGA
64 ACAAATTCGCGTTGCGAATTTGAATTATGTGTTGTGA
2330060 TTTATAGATT
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
119 74 0.85
120 13 0.15
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (120 bp):
ATTTGACTTTTGCGTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTCTGCGTTGCGATTTAC
AAATTCGCGTTGCGAATTTGAATTATGTGTTGTGAATTTGACTATCGCGTTGCGA
Found at i:2331814 original size:15 final size:17
Alignment explanation
Indices: 2331794--2331827 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
2331784 TTTATACATA
2331794 AATTTTAAT-ATT-TTT
1 AATTTTAATCATTATTT
2331809 AATTTTAATCATTATTT
1 AATTTTAATCATTATTT
2331826 AA
1 AA
2331828 ACAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 3 0.18
17 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTAATCATTATTT
Found at i:2335523 original size:25 final size:24
Alignment explanation
Indices: 2335495--2335556 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
2335485 AATTATGTTA
*
2335495 ATAATAAAATATTTAATAAGTTGAT
1 ATAATAAAATATTT-ATAAGTTAAT
*
2335520 AT-A-AAATTATTT-TAAGTTAAT
1 ATAATAAAATATTTATAAGTTAAT
2335541 ATATATAAAAT-TTTAT
1 ATA-ATAAAATATTTAT
2335557 TATATATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
21 10 0.33
23 12 0.40
24 6 0.20
25 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (24 bp):
ATAATAAAATATTTATAAGTTAAT
Found at i:2335537 original size:21 final size:21
Alignment explanation
Indices: 2335491--2335543 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
2335481 TTTAAATTAT
2335491 GTTAATAATAAAATATTTAATAA
1 GTTAAT-ATAAAATATTT-ATAA
*
2335514 GTTGATATAAAATTATTT-TAA
1 GTTAATATAAAA-TATTTATAA
2335535 GTTAATATA
1 GTTAATATA
2335544 TATAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 11 0.41
22 6 0.22
23 10 0.37
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (21 bp):
GTTAATATAAAATATTTATAA
Found at i:2336345 original size:30 final size:31
Alignment explanation
Indices: 2336282--2336355 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
2336272 TAACTAGGGA
*
2336282 TGACCACATCTTAATTAAATAAAAACGAAAG
1 TGACCATATCTTAATTAAATAAAAACGAAAG
*
2336313 TGACCATATCTTAATTAAATAAATAC-AAAG
1 TGACCATATCTTAATTAAATAAAAACGAAAG
*
2336343 TGATCATATCTTA
1 TGACCATATCTTA
2336356 TGTTTTTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 16 0.40
31 24 0.60
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (31 bp):
TGACCATATCTTAATTAAATAAAAACGAAAG
Found at i:2343731 original size:21 final size:21
Alignment explanation
Indices: 2343705--2343754 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
2343695 TCCAGATTCA
2343705 CAACGCGAACTTCGACTATCG
1 CAACGCGAACTTCGACTATCG
*
2343726 CAACGCGAACTTGGACTATCG
1 CAACGCGAACTTCGACTATCG
*
2343747 CAATGCGA
1 CAACGCGA
2343755 TTTACATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (21 bp):
CAACGCGAACTTCGACTATCG
Found at i:2343793 original size:21 final size:21
Alignment explanation
Indices: 2343763--2343998 Score: 177
Period size: 21 Copynumber: 11.6 Consensus size: 21
2343753 GATTTACATA
*
2343763 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
2343784 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
2343805 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
** *
2343826 TT--CGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
* *
2343845 TT--CATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* ** *
2343864 TTCGCGATGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
* *
2343885 TT--TGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
2343904 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
2343925 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
2343944 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
2343967 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
2343986 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
2343999 TTATTCAAAA
Statistics
Matches: 167, Mismatches: 38, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
19 69 0.41
21 90 0.54
23 8 0.05
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:2343833 original size:19 final size:19
Alignment explanation
Indices: 2343809--2344019 Score: 134
Period size: 19 Copynumber: 10.5 Consensus size: 19
2343799 TCGAAGTTCG
2343809 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
2343828 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
* ** * *
2343847 CATTGCGATAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
*
2343866 CGCGATGCGATTTTCCAAATT
1 --CGTTGCGATTTTCCAAATT
* ** * *
2343887 TGTTGCGATAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
2343906 CGCGTTGCGATTTTCCAAATT
1 --CGTTGCGATTTTCCAAATT
** * *
2343927 CGTTGCGATAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
2343946 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGA-TT-TTCCAAATT
** * *
2343969 CGTTGCGATAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
*
2343988 CGCGTTGCGATTTATTCAAAATT
1 --CGTTGCGA-TT-TTCCAAATT
2344011 CGTTGCGAT
1 CGTTGCGAT
2344020 AGTCCAAAAT
Statistics
Matches: 142, Mismatches: 38, Indels: 23
0.70 0.19 0.11
Matches are distributed among these distances:
19 67 0.47
20 2 0.01
21 59 0.42
22 2 0.01
23 12 0.08
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:2343875 original size:40 final size:40
Alignment explanation
Indices: 2343769--2344023 Score: 325
Period size: 40 Copynumber: 6.3 Consensus size: 40
2343759 CATATTCGCA
* ** * *
2343769 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT--CG
** * * *
2343811 TTGCGATTTTCCAAATT--CGTTGCGATTTTCCAAATTCA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
* *
2343849 TTGCGATAGTCGAAGTTCGCGATGCGATTTTCCAAATTTG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
2343889 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
2343929 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
*
2343971 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCAAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
2344013 TTGCGATAGTC
1 TTGCGATAGTC
2344024 CAAAATCGCA
Statistics
Matches: 191, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
38 14 0.07
40 98 0.51
41 2 0.01
42 77 0.40
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (40 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
Found at i:2344014 original size:21 final size:21
Alignment explanation
Indices: 2343948--2344019 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
2343938 TCGAAGTTCG
*
2343948 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCAAAATT
* * *
2343969 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCAAAATT
2343988 CGCGTTGCGATTTATTCAAAATT
1 --CGTTGCGATTTATTCAAAATT
2344011 CGTTGCGAT
1 CGTTGCGAT
2344020 AGTCCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
19 8 0.20
21 25 0.61
23 8 0.20
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCAAAATT
Found at i:2344803 original size:42 final size:42
Alignment explanation
Indices: 2344741--2344931 Score: 328
Period size: 42 Copynumber: 4.5 Consensus size: 42
2344731 TGCGATTTTG
*
2344741 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
2344783 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
2344825 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
2344867 GACTATCGTAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
2344909 GACTATCGCAACGCGAACTTGGA
1 GACTATCGCAA--CGAACTTGGA
2344932 CTATCGCAAT
Statistics
Matches: 140, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
42 131 0.94
44 9 0.06
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:2344916 original size:21 final size:21
Alignment explanation
Indices: 2344738--2344946 Score: 191
Period size: 21 Copynumber: 10.0 Consensus size: 21
2344728 CGTTGCGATT
*
2344738 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
2344757 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
2344780 TTCGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
2344799 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
2344822 TTCGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
2344841 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
2344864 TTGGACTATCGTAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
2344883 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
2344906 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
2344927 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
2344947 TATGTAAATC
Statistics
Matches: 154, Mismatches: 20, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
19 36 0.23
21 79 0.51
23 39 0.25
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:2346033 original size:33 final size:33
Alignment explanation
Indices: 2345988--2346058 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2345978 AAAATGTTTC
*
2345988 GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
1 GGTTTTAATGTTTCAATAGGACTCAAATACGTT
*
2346021 GGTTTTAATGTTTCAATAGGGCTCAAATACGTT
1 GGTTTTAATGTTTCAATAGGACTCAAATACGTT
2346054 GGTTT
1 GGTTT
2346059 ATTTTCTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.41
Consensus pattern (33 bp):
GGTTTTAATGTTTCAATAGGACTCAAATACGTT
Found at i:2346126 original size:3 final size:3
Alignment explanation
Indices: 2346108--2346164 Score: 57
Period size: 3 Copynumber: 18.7 Consensus size: 3
2346098 GGCCTACAAA
2346108 AAT AAT AA- AAT AAAT AAT AAT AAT AAT AAT AATT AAT AAAT AA- ATAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA-T AAT -AAT AAT A-AT
2346155 AAT -AT AAT AA
1 AAT AAT AAT AA
2346165 AATGTTTTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
2 5 0.11
3 32 0.68
4 10 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2346128 original size:15 final size:15
Alignment explanation
Indices: 2346108--2346165 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
2346098 GGCCTACAAA
2346108 AATAATAAAATAAAT
1 AATAATAAAATAAAT
2346123 AATAATAATAAT-AAT
1 AATAATAA-AATAAAT
2346138 AATTAAT-AAATAAAT
1 AA-TAATAAAATAAAT
*
2346153 -ATAATATAATAAA
1 AATAATAAAATAAA
2346166 ATGTTTTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
13 4 0.11
14 10 0.26
15 17 0.45
16 7 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATAAAATAAAT
Found at i:2347009 original size:247 final size:247
Alignment explanation
Indices: 2346510--2347273 Score: 1049
Period size: 247 Copynumber: 3.1 Consensus size: 247
2346500 CTGAATGAAA
* * * * * * *
2346510 TCGAGCTCGAAGGTCTTT-G--GCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGT
1 TCGAACTCGAAGGTCTTTGGTTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT-AT
* * * * * *
2346572 GCCTTTGAGTTGAGTGGAGTCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGA
65 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
* * *
2346636 GTTATACCATAAATGATGTGCACTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-TTGGCAGATA
130 GTTATGCTATAAATGA-GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATA
* ** *
2346700 GCCCTTCTCGACTTAAGCTATATTACAAATGATGT-CCTTGGAGCTGAGCGTAG
194 ACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
*
2346753 TCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTG-CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
*
2346818 GTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
65 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
* *
2346883 GTTATGCTGTAAATGA-TGCCCTCGAAGCTGA-TGTAATTGAACTCGAGGGTCTTTGGCAGATAA
130 GTTATGCTATAAATGAGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAA
* * *
2346946 CCCTTCTCAACTTAACCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAG
195 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
*
2346999 TCGAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATA
1 TCG-AACTCGAAGGTCTTTGGTT-GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATA
* * *
2347064 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTATCTTTG
64 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTG
* *
2347129 AGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTCGGTTGGT
129 AGTTATGCTATAAATGA-GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-T---TTGGC
* * *
2347194 AGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAA
189 AGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
*
2347253 TCGAACTCGAAGGCCTTTGGT
1 TCGAACTCGAAGGTCTTTGGT
2347274 GGGCACGATT
Statistics
Matches: 461, Mismatches: 44, Indels: 22
0.87 0.08 0.04
Matches are distributed among these distances:
243 17 0.04
244 20 0.04
245 52 0.11
246 52 0.11
247 208 0.45
248 1 0.00
249 15 0.03
250 18 0.04
251 1 0.00
253 17 0.04
254 60 0.13
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (247 bp):
TCGAACTCGAAGGTCTTTGGTTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG
CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
TTATGCTATAAATGAGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAAC
CCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
Found at i:2347061 original size:85 final size:84
Alignment explanation
Indices: 2346526--2347278 Score: 712
Period size: 84 Copynumber: 9.1 Consensus size: 84
2346516 TCGAAGGTCT
* * * * * * * * * *
2346526 TTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGTGCCTTTGAGTTGAGTGGAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGAT-GTGCCTTGGAGCTGAGCGTAG
2346591 TCGAACTCGAAGGTCTTT-G
65 TCGAACTCGAAGGTCTTTGG
* * * * * ** * * * *
2346610 TTGACAGATAACCCTTCTAGCCTTGAGTTATACCATAAATGATGTGCACTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGC-CTTGGAGCTGAGCGTAG
*
2346675 TCGAACTCGAGGGTC-----
65 TCGAACTCGAAGGTCTTTGG
* * ** **
2346690 TTGGCAGATAGCCCTTCTCGACTTAAGCTATATTACAAATGATGT-CCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
2346754 CGAACTCGAAGGTCTTTGG
66 CGAACTCGAAGGTCTTTGG
* * *
2346773 TTGACAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGTCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
2346838 CGAACTCGAAGGTCTTTTGG
66 CGAACTCGAAGGTC-TTTGG
** * * * * * * * *
2346858 -TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG-CCCTCGAAGCTGA-TGTAAT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
* *
2346920 TGAACTCGAGGGTC--T--
66 CGAACTCGAAGGTCTTTGG
* **
2346935 TTGGCAGATAACCCTTCTCAACTTAACCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
2347000 CGAAACTCGAAGGTCTTTGG
66 CG-AACTCGAAGGTCTTTGG
** *
2347020 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
2347085 CGAACTCGAAGGTCTTTTGG
66 CGAACTCGAAGGTC-TTTGG
** * * * * * *
2347105 -TCACAAATAACCCTTCT--ATCTTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGTGT
1 TTGGCAGATAACCCTTCTCGA-C-TTAAGTTATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGT
* * * *
2347167 AATCAAACTCGAGGGTCTTCGG
63 AGTCGAACTCGAAGGTCTTTGG
* * * *
2347189 TTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAAT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
*
2347254 CGAACTCGAAGGCCTTTGG
66 CGAACTCGAAGGTCTTTGG
*
2347273 TGGGCA
1 TTGGCA
2347279 CGATTTCCTT
Statistics
Matches: 545, Mismatches: 101, Indels: 46
0.79 0.15 0.07
Matches are distributed among these distances:
78 62 0.11
79 12 0.02
80 41 0.08
81 11 0.02
82 17 0.03
83 52 0.10
84 216 0.40
85 132 0.24
86 1 0.00
87 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (84 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGG
Found at i:2347755 original size:110 final size:110
Alignment explanation
Indices: 2347392--2348025 Score: 980
Period size: 109 Copynumber: 5.8 Consensus size: 110
2347382 GTTTCGAGGT
* * *
2347392 CAATATCATTCGCCGTGAAGTTGAAATTGACTC----TGAAACTGGAAAGTTATTTGTTGACAGC
1 CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGT
* *
2347453 CAGCCACCCCTTCG-T-TGAAGTTGAGCTTGTGTTGTCTCGAGTC
66 CAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
*
2347496 CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAATTGAAAAGTTATTTGTTGACAGT
1 CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGT
2347561 CAGTCG-CCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
66 CAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
* * *
2347605 CAATATCCTTCGCTGTGAAGTTGAAATTGACTTTGAATGAAACTGAAAAGTTATTTGTTGATAGT
1 CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGT
2347670 CAGTCGCCCCTTCGCTGTGAAGTTGAAGCTTGTGTTGTCTCGAGTC
66 CAGTCGCCCCTTCGCTGTGAAGTTG-AGCTTGTGTTGTCTCGAGTC
** * * *
2347716 TGATATCATTCGCTGTGAA-ATGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGATAGT
1 CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGT
* * *
2347780 CAGCCGCCCCTTCACTGTGAAGTTGAACTTGTGTTGTCTCGAGTC
66 CAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
* * * *
2347825 CAATATCTTTCGTTGTGAAGTTGAAATTAACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGT
1 CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGT
*
2347890 CAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
66 CAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
* *
2347935 CAATATCATT-GCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTATTTGTTGACCGT
1 CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGT
2347999 CAGTCGCCCCTTCGCTGTGAAGTTGAG
66 CAGTCGCCCCTTCGCTGTGAAGTTGAG
2348026 AAACCACATC
Statistics
Matches: 484, Mismatches: 37, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
104 32 0.07
107 7 0.01
108 30 0.06
109 204 0.42
110 175 0.36
111 36 0.07
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (110 bp):
CAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGT
CAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
Found at i:2351729 original size:3 final size:3
Alignment explanation
Indices: 2351721--2351767 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
2351711 ATTAATTAAT
*
2351721 TAA TAA TAA TAA TAA TAA -AA TAA -AA TAA TAGA -AA TAA TAA TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
2351764 TAA T
1 TAA T
2351768 TGTCTAACCT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 5 0.13
3 32 0.84
4 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2352281 original size:26 final size:26
Alignment explanation
Indices: 2352246--2352298 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2352236 TTTGATCGAT
2352246 ATCATCACTCAAACGTCGATTGGAAC
1 ATCATCACTCAAACGTCGATTGGAAC
2352272 ATCATCACTCAAACGTCGATTGGAAC
1 ATCATCACTCAAACGTCGATTGGAAC
2352298 A
1 A
2352299 CAGATCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (26 bp):
ATCATCACTCAAACGTCGATTGGAAC
Found at i:2352850 original size:13 final size:12
Alignment explanation
Indices: 2352823--2352886 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 12
2352813 GGGCTTGCAA
2352823 AAATAATAAAAT
1 AAATAATAAAAT
2352835 AAATAATAATAAT
1 AAATAATAA-AAT
2352848 AAATAA-ATAAAT
1 AAATAATA-AAAT
* *
2352860 ATATAGTATAATAT
1 AAATA--ATAAAAT
2352874 AATATAATAAAAT
1 AA-ATAATAAAAT
2352887 GTTTTTGTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
12 17 0.40
13 16 0.38
14 5 0.12
15 4 0.10
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AAATAATAAAAT
Found at i:2355988 original size:260 final size:255
Alignment explanation
Indices: 2355494--2355997 Score: 963
Period size: 260 Copynumber: 2.0 Consensus size: 255
2355484 AAACTGAATA
2355494 TTTGGATGAACTTAGCCACACCATGTATTACCTTGTTTGGAGTTGGATTTATGTTGGATTATTTA
1 TTTGGATGAACTTAGCCACACCATGTATTACCTTGTTTGGAGTTGGATTTATGTTGGATTATTTA
2355559 TTCATGTTAATGGATGGTTTGGATGTTTTATGTTTAAATGTCTTTTGCTCATTGTTTTTATCTTT
66 TTCATGTTAATGGATGGTTTGGATGTTTTATGTTTAAATGTCTTTTGCTCATTGTTTTTATCTTT
2355624 CTGCGATGTAGCATTGTAAGAGCTTTTGAGAGATTGTCGTTACTATAGCGTAATATGCTTAGTCT
131 CTGCGATGTAGCATTGTAAGAGCTTTTGAGAGATTGTCGTTACTATAGCGTAATATGCTTAGTCT
2355689 TGTAAGAGCTTTTGAGAGATTGCCCTTTTTGAAGTATAGATACCTAGTAACTTGAATATT
196 TGTAAGAGCTTTTGAGAGATTGCCCTTTTTGAAGTATAGATACCTAGTAACTTGAATATT
2355749 TTTGGATGAACTTAGCCACACCATGTATTACCTTGTTTGGAGTTGGATTTATGTTGGATTATTTT
1 TTTGGATGAACTTAGCCACACCATGTATTACCTTGTTTGGAGTTGGATTTATGTTGGATTA-TTT
2355814 ATTTCATGTTAATGGATGGTTTGGATGTTTTTATGTTTAAATGTTCTTTTGCTCATTGTTTTTAT
65 A-TTCATGTTAATGGATGGTTTGGATG-TTTTATGTTTAAATG-TCTTTTGCTCATTGTTTTTAT
2355879 CTTTCTGCGATGTAGCATTGTAAGAGCTTTTGAGAGATTGTCGTTTACTATAGCGTAATATGCTT
127 CTTTCTGCGATGTAGCATTGTAAGAGCTTTTGAGAGATTGTCG-TTACTATAGCGTAATATGCTT
2355944 AGTCTTGTAAGAGCTTTTGAGAGATTGCCCTTTTTGAAGTATAGATACCTAGTA
191 AGTCTTGTAAGAGCTTTTGAGAGATTGCCCTTTTTGAAGTATAGATACCTAGTA
2355998 TCGAGAGATC
Statistics
Matches: 244, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
255 61 0.25
256 4 0.02
257 25 0.10
258 15 0.06
259 64 0.26
260 75 0.31
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.44
Consensus pattern (255 bp):
TTTGGATGAACTTAGCCACACCATGTATTACCTTGTTTGGAGTTGGATTTATGTTGGATTATTTA
TTCATGTTAATGGATGGTTTGGATGTTTTATGTTTAAATGTCTTTTGCTCATTGTTTTTATCTTT
CTGCGATGTAGCATTGTAAGAGCTTTTGAGAGATTGTCGTTACTATAGCGTAATATGCTTAGTCT
TGTAAGAGCTTTTGAGAGATTGCCCTTTTTGAAGTATAGATACCTAGTAACTTGAATATT
Found at i:2356891 original size:19 final size:19
Alignment explanation
Indices: 2356847--2356891 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2356837 ATTTGTTTTT
2356847 AATAAATTTTTATCTATAA
1 AATAAATTTTTATCTATAA
* *
2356866 AATTAAATTTTTATTTTTAA
1 AA-TAAATTTTTATCTATAA
2356886 AATAAA
1 AATAAA
2356892 AGATTAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
AATAAATTTTTATCTATAA
Found at i:2367731 original size:81 final size:81
Alignment explanation
Indices: 2367640--2367801 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
2367630 AACAAAAAAC
2367640 GTAATTATATGAACTTAACAA-TTGAATTGCACTTCCTAATTCAATTTTCACATTCTTAATCTGA
1 GTAATTATATGAACTTAACAATTTGAATTGCACTTCC-AATTCAATTTTCACATTCTTAATCTGA
2367704 AGACATTTTATATATTG
65 AGACATTTTATATATTG
2367721 GTAATTATATGAACTTAACAATTTGAATTGCACTTCCAATTCAATTTTCACATTCTTAATCTGAA
1 GTAATTATATGAACTTAACAATTTGAATTGCACTTCCAATTCAATTTTCACATTCTTAATCTGAA
2367786 GACATTTTATATATTG
66 GACATTTTATATATTG
2367802 AAACATAAAA
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
81 65 0.81
82 15 0.19
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.42
Consensus pattern (81 bp):
GTAATTATATGAACTTAACAATTTGAATTGCACTTCCAATTCAATTTTCACATTCTTAATCTGAA
GACATTTTATATATTG
Found at i:2373598 original size:82 final size:82
Alignment explanation
Indices: 2373494--2373658 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
2373484 AATTAATTTA
2373494 TTTTATTTTATAAAAATATATTCAAATGCTCACTACATAATTATAAATTAATGATTGAATTACCT
1 TTTTATTTTATAAAAATATATTCAAATGCTCACTACATAATTATAAATTAATGATTGAATTACCT
2373559 ATACAACACAGCCTCTT
66 ATACAACACAGCCTCTT
2373576 TTTTATTTTATAAAAATATATTCAAATGCTCACTACATAATTATAAATTAATGATTGAATTACCT
1 TTTTATTTTATAAAAATATATTCAAATGCTCACTACATAATTATAAATTAATGATTGAATTACCT
2373641 ATACAACACAGCCTCTT
66 ATACAACACAGCCTCTT
2373658 T
1 T
2373659 ATACTAGTAT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (82 bp):
TTTTATTTTATAAAAATATATTCAAATGCTCACTACATAATTATAAATTAATGATTGAATTACCT
ATACAACACAGCCTCTT
Found at i:2374675 original size:32 final size:32
Alignment explanation
Indices: 2374639--2374705 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
2374629 TTCACTTAGA
2374639 TTTCATTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTCGCGTTACGATTCTCTCGTTGCGAT
* *
2374671 TTTCATTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTCGCGTTACGATTCTCTCGTTGCGAT
2374703 TTT
1 TTT
2374706 TTTCAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.10, C:0.24, G:0.18, T:0.48
Consensus pattern (32 bp):
TTTCATTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:2374772 original size:19 final size:19
Alignment explanation
Indices: 2374743--2374800 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 19
2374733 CACGAGATAA
2374743 ATGAAAATCGCAACGAGAG
1 ATGAAAATCGCAACGAGAG
*** * *
2374762 ATGACTGTCGCAACGCGAA
1 ATGAAAATCGCAACGAGAG
2374781 ATGAAAATCGCAACGAGAG
1 ATGAAAATCGCAACGAGAG
2374800 A
1 A
2374801 ATCGCAACGC
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.12
Consensus pattern (19 bp):
ATGAAAATCGCAACGAGAG
Found at i:2374811 original size:33 final size:35
Alignment explanation
Indices: 2374741--2374825 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 35
2374731 CGCACGAGAT
2374741 AAATGAAAATCGCAACGAGAGATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAGA-GAC--TCGCAACGCG
2374779 AAATGAAAATCGCAACGAGAGA-A-TCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAGACTCGCAACGCG
**
2374812 AAACCAAAATCGCA
1 AAATGAAAATCGCA
2374826 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
33 22 0.49
36 1 0.02
38 22 0.49
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.11
Consensus pattern (35 bp):
AAATGAAAATCGCAACGAGAGAGACTCGCAACGCG
Found at i:2374863 original size:14 final size:14
Alignment explanation
Indices: 2374844--2374932 Score: 88
Period size: 14 Copynumber: 5.7 Consensus size: 14
2374834 TTTTATTTCG
2374844 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2374858 CGTTGCGATTTTCATTCG
1 CGTTGCGA--TTC--TCT
2374876 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2374890 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
2374907 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
2374923 CGTTGCGATT
1 CGTTGCGATT
2374933 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 11 0.17
17 5 0.08
18 11 0.17
19 8 0.12
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2374915 original size:33 final size:32
Alignment explanation
Indices: 2374826--2374938 Score: 181
Period size: 33 Copynumber: 3.4 Consensus size: 32
2374816 CAAAATCGCA
*
2374826 TTGCGATTTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGA-TTTTCA-TTCGCGTTGCGATTCTCTCG
2374860 TTGCGATTTTCATTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTCGCGTTGCGATTCTCTCG
*
2374892 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCAT-TCGCGTTGCGATTCTCTCG
2374925 TTGCGATTTTCATT
1 TTGCGATTTTCATT
2374939 TCAACCAAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
32 33 0.44
33 36 0.48
34 6 0.08
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (32 bp):
TTGCGATTTTCATTCGCGTTGCGATTCTCTCG
Found at i:2376849 original size:91 final size:91
Alignment explanation
Indices: 2376623--2377078 Score: 717
Period size: 90 Copynumber: 5.1 Consensus size: 91
2376613 TAGATTGCTT
* *
2376623 AGTAAATTT-ATCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACATGTG-AATAGTAT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTCAC-TGTGAAATAGTAT
2376686 TTGTCTTTGTTTTGTC-TTTGGTTGAA
65 TTGTCTTTGTTTTGTCTTTTGGTTGAA
2376712 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTCACTGTGAAATAGTATT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTCACTGTGAAATAGTATT
2376777 TGTCTTTGTTTTGTCTTTTGGTTGAA
66 TGTCTTTGTTTTGTCTTTTGGTTGAA
2376803 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT--CACTGTGAAATAGTA
2376868 TTTGTC-TTGTTTTGTCTTTTGGTTGAA
64 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
2376895 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTA-TCTATAACACTGTG-AATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCT-T-TCACTGTGAAATAGTA
2376958 -TTGTCTTTG-TTTGTCTTTTGGTTGAA
64 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2376984 AGTAAATTTGTTC----GCTGCCAATTCTGCTAAA-TGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT--CACTGTGAAATAGTA
2377043 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
64 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2377070 AGTAAATTT
1 AGTAAATTT
2377079 ATCCATTCAA
Statistics
Matches: 350, Mismatches: 4, Indels: 29
0.91 0.01 0.08
Matches are distributed among these distances:
84 7 0.02
85 30 0.09
86 39 0.11
89 48 0.14
90 73 0.21
91 68 0.19
92 64 0.18
93 21 0.06
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (91 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTCACTGTGAAATAGTATT
TGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2376957 original size:183 final size:181
Alignment explanation
Indices: 2376623--2377078 Score: 749
Period size: 183 Copynumber: 2.6 Consensus size: 181
2376613 TAGATTGCTT
*
2376623 AGTAAATTT-ATCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACA-TGTG-AATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2376685 TTTGTCTTTGTTTTGTC-TTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTC-TTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
2376749 GTGTATTCTTTCACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
130 GTGTATTCTTACACTGTGAAATAGTA-TTGTCTTTG-TTTGTCTTTTGGTTGAA
2376803 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2376868 TTTGTCTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTTGTCTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
2376933 TGTA-TCTATAACACTGTG-AATAGTATTGTCTTTGTTTGTCTTTTGGTTGAA
131 TGTATTCT-T-ACACTGTGAAATAGTATTGTCTTTGTTTGTCTTTTGGTTGAA
2376984 AGTAAATTTGTTC----GCTGCCAATTCTGCTAAA-TGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2377043 TTTGTCTT-TGTTTGTCTTTTGGTTGAAAGTAAATTT
66 TTTGTCTTGT-TTTGTCTTTTGGTTGAAAGTAAATTT
2377079 ATCCATTCAA
Statistics
Matches: 267, Mismatches: 2, Indels: 19
0.93 0.01 0.07
Matches are distributed among these distances:
174 1 0.00
175 36 0.13
176 26 0.10
177 18 0.07
180 9 0.03
181 71 0.27
182 26 0.10
183 73 0.27
184 7 0.03
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (181 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTACACTGTGAAATAGTATTGTCTTTGTTTGTCTTTTGGTTGAA
Found at i:2377146 original size:19 final size:19
Alignment explanation
Indices: 2377122--2377249 Score: 98
Period size: 19 Copynumber: 7.3 Consensus size: 19
2377112 TAGTTTACTT
* *
2377122 TCGCAACACGAAACTTAAA
1 TCGCAACGCGAAACTAAAA
*
2377141 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
2377160 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
*
2377179 TCGCAA--CG--AC-AGAA
1 TCGCAACGCGAAACTAAAA
* *
2377193 TCGCAACGCGAAACCATAA
1 TCGCAACGCGAAACTAAAA
*
2377212 TCGCAA--CG--AC-AAGA
1 TCGCAACGCGAAACTAAAA
*
2377226 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
2377245 TCGCA
1 TCGCA
2377250 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
14 17 0.19
15 3 0.03
16 4 0.05
17 4 0.05
18 4 0.05
19 56 0.64
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:2377200 original size:33 final size:32
Alignment explanation
Indices: 2377157--2377249 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
2377147 CGCGAAACCA
**
2377157 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
*
2377189 AGAATCGCAACGCGAAACCATAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
2377222 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
2377250 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 2 0.04
33 53 0.96
ACGTcount: A:0.45, C:0.28, G:0.18, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2377247 original size:52 final size:51
Alignment explanation
Indices: 2377122--2377249 Score: 127
Period size: 52 Copynumber: 2.5 Consensus size: 51
2377112 TAGTTTACTT
**
2377122 TCGCAACACGAAACTTAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * * *
2377173 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCATAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC--CAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
2377226 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACACGAAACCAAAATCGCA
2377250 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
49 3 0.05
50 6 0.10
51 1 0.02
52 39 0.65
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (51 bp):
TCGCAACACGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:2377281 original size:19 final size:19
Alignment explanation
Indices: 2377245--2377366 Score: 128
Period size: 19 Copynumber: 6.6 Consensus size: 19
2377235 GAAACCAAAA
*
2377245 TCGCATTGCGATTTTTCATT
1 TCGCGTTGCGA-TTTTCATT
2377265 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
2377284 TCGCATTGCGA--TT-ATG
1 TCGCGTTGCGATTTTCATT
2377300 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2377317 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
2377336 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
2377356 TCGTGTTGCGA
1 TCGCGTTGCGA
2377367 AAGTAACTAT
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
14 7 0.08
16 5 0.06
17 5 0.06
19 47 0.55
20 22 0.26
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2379288 original size:13 final size:14
Alignment explanation
Indices: 2379256--2379290 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2379246 ATTGTTTAAT
2379256 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
2379270 TGATTTGTAAAAG-
1 TGATTTGTAAAAGA
2379283 TGATTTGT
1 TGATTTGT
2379291 GTAATTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2379464 original size:20 final size:19
Alignment explanation
Indices: 2379396--2379476 Score: 109
Period size: 19 Copynumber: 4.5 Consensus size: 19
2379386 AAAATTGACT
2379396 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2379415 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2379429 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2379448 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2379468 ATCGCAATG
1 ATCGCAATG
2379477 GGAGAATCGC
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 20 0.37
20 18 0.33
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2381509 original size:12 final size:12
Alignment explanation
Indices: 2381492--2381516 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2381482 TCTTCGGGGA
2381492 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2381504 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2381516 C
1 C
2381517 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2381721 original size:24 final size:24
Alignment explanation
Indices: 2381687--2381733 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2381677 TCTGAACATC
2381687 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2381711 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2381734 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2382437 original size:20 final size:20
Alignment explanation
Indices: 2382409--2382657 Score: 259
Period size: 20 Copynumber: 12.5 Consensus size: 20
2382399 AAATTTCAGT
* * *
2382409 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
2382429 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
2382449 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
2382469 GTTGCGA-TTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
2382488 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
2382508 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
2382528 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
2382548 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
*
2382568 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
2382588 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
2382608 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
2382628 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
2382648 GTTGCGATTT
1 GTTGCGATTT
2382658 TGGAAAATCG
Statistics
Matches: 200, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.09
20 182 0.91
21 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:2382674 original size:21 final size:21
Alignment explanation
Indices: 2382644--2382726 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
2382634 ATTTTCATAT
*
2382644 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
2382665 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
2382686 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
2382707 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
2382727 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:2382717 original size:42 final size:43
Alignment explanation
Indices: 2382624--2382722 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
2382614 ATTTATGTGT
* *
2382624 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
2382665 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
2382707 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
2382723 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:2385227 original size:23 final size:23
Alignment explanation
Indices: 2385182--2385227 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2385172 ACATTTTATA
* *
2385182 TGGCACTTTGGTACAATTCTACG
1 TGGCACTTCGGTACAATTATACG
* *
2385205 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTACAATTATACG
2385228 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (23 bp):
TGGCACTTCGGTACAATTATACG
Found at i:2386736 original size:4 final size:4
Alignment explanation
Indices: 2386727--2386753 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2386717 TTGTGAATGT
2386727 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
2386754 TAGTATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:2388391 original size:21 final size:21
Alignment explanation
Indices: 2388356--2388411 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
2388346 ACCGCAACCA
* * *
2388356 TTTCAGATGATATCACAGTCG
1 TTTCAGATGACATCACAATAG
*
2388377 TTTCAGATGGCATCACAATAG
1 TTTCAGATGACATCACAATAG
* *
2388398 TTTCATATGTCATC
1 TTTCAGATGACATC
2388412 GCAGGATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (21 bp):
TTTCAGATGACATCACAATAG
Found at i:2394960 original size:129 final size:129
Alignment explanation
Indices: 2394730--2394971 Score: 306
Period size: 129 Copynumber: 1.9 Consensus size: 129
2394720 AAAAGGTAAA
* *
2394730 ATTGAAAAAACAATGAAATATTGAGGACTGATTTTCTATTATACCTAGAGAATATAAAGAATAAA
1 ATTGAAAAAACAATGAAACATTGAGGACTCATTTTCTATTATACCTAGAGAATATAAAGAATAAA
* * * ** *
2394795 AATGGCTTATCAGAAAATTTTTGACATATTGAGGTTGAAATTGTAAAAAGAAAATAAGGGCCCG
66 AAAGACTCATCAGAAAATTTTCAACATAATGAGGTTGAAATTGTAAAAAGAAAATAAGGGCCCG
* * ** * *
2394859 ATTGAAATATCAATGAAACA-TGAGGACTCATTTTTCTATTATTTCTTGGGAATATAAAGAATAA
1 ATTGAAAAAACAATGAAACATTGAGGACTCA-TTTTCTATTATACCTAGAGAATATAAAGAATAA
** **
2394923 AAAAGACTCATTTGAAAATTTTCAACATAATGAGGTTGTCATTGTAAAA
65 AAAAGACTCATCAGAAAATTTTCAACATAATGAGGTTGAAATTGTAAAA
2394972 TATAAGGTGA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
128 9 0.10
129 85 0.90
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.31
Consensus pattern (129 bp):
ATTGAAAAAACAATGAAACATTGAGGACTCATTTTCTATTATACCTAGAGAATATAAAGAATAAA
AAAGACTCATCAGAAAATTTTCAACATAATGAGGTTGAAATTGTAAAAAGAAAATAAGGGCCCG
Found at i:2395831 original size:2 final size:2
Alignment explanation
Indices: 2395824--2395849 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2395814 TCTAACTCAC
2395824 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2395850 TAATAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2402920 original size:18 final size:19
Alignment explanation
Indices: 2402880--2402919 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2402870 AAATCCAGAA
*
2402880 CCCC-AGGGGGTATCGATT
1 CCCCTAGGGGGAATCGATT
*
2402898 CCCCTAGGGGGAATCGGTT
1 CCCCTAGGGGGAATCGATT
2402917 CCC
1 CCC
2402920 TCATGAGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.20
Consensus pattern (19 bp):
CCCCTAGGGGGAATCGATT
Found at i:2408685 original size:19 final size:19
Alignment explanation
Indices: 2408645--2408705 Score: 104
Period size: 19 Copynumber: 3.2 Consensus size: 19
2408635 GGAATCTATA
*
2408645 CCCCTAATGGGTAATCGGTT
1 CCCCTAATGGGGAAT-GGTT
2408665 CCCCTAATGGGGAATGGTT
1 CCCCTAATGGGGAATGGTT
2408684 CCCCTAATGGGGAATGGTT
1 CCCCTAATGGGGAATGGTT
2408703 CCC
1 CCC
2408706 TAGGTGTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
19 26 0.65
20 14 0.35
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (19 bp):
CCCCTAATGGGGAATGGTT
Found at i:2409891 original size:29 final size:29
Alignment explanation
Indices: 2409815--2409891 Score: 68
Period size: 29 Copynumber: 2.6 Consensus size: 29
2409805 CATCTGAATA
* *
2409815 TATGTGTTTTACTAATTTTGGCACTTTAGTT
1 TATGT-TTTTACT-ATTTAGGCACTTAAGTT
* *
2409846 TCTGTTATTT--TATTTTAGTCACTTAAGTT
1 TATGTT-TTTACTA-TTTAGGCACTTAAGTT
2409875 TATGTTTTTACTATTTA
1 TATGTTTTTACTATTTA
2409892 TGTCCTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
28 4 0.11
29 23 0.62
30 3 0.08
31 7 0.19
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.58
Consensus pattern (29 bp):
TATGTTTTTACTATTTAGGCACTTAAGTT
Found at i:2411325 original size:27 final size:27
Alignment explanation
Indices: 2411295--2411353 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
2411285 TTGTTTGTGT
*
2411295 CATTTTTCATCTCTATTAGCATCTTTG
1 CATTTTGCATCTCTATTAGCATCTTTG
* **
2411322 CATTTTGCATCTGTATTTTCATCTTTG
1 CATTTTGCATCTCTATTAGCATCTTTG
2411349 CATTT
1 CATTT
2411354 CATTTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.20, G:0.08, T:0.54
Consensus pattern (27 bp):
CATTTTGCATCTCTATTAGCATCTTTG
Found at i:2413834 original size:117 final size:116
Alignment explanation
Indices: 2413621--2413937 Score: 425
Period size: 117 Copynumber: 2.8 Consensus size: 116
2413611 AGGGGCTTCC
* *
2413621 CAGTTTCATTCAGAGTCAATTTCAACTTCACAAGCGAAGAATATTGGACTCAAGACAACACAAGC
1 CAGTTTCATTCAGAGTCAATTTCAACTTCAC-AGCGAAGGATATTGGACTCGAGACAACACAAGC
* *
2413686 -------TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTT
65 TTGGATTTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAA-AAATTCT
2413732 CAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCT
1 CAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCT
2413797 TGGATTTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAAAAATTCT
66 TGGATTTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAAAAATTCT
* * * * * * * *
2413848 CAGTTTCATTTAAGAGCCAATTTCAATTTCACTGCGAATGATATTGGACTCGAAACAGCAAAAGC
1 CAGTTTCA-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGC
*
2413913 TTGGATTTCGACTTCAC-GACGAAGG
65 TTGGATTTCAACTTCACAG-CGAAGG
2413938 ATATTCAAGT
Statistics
Matches: 184, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
110 31 0.17
111 31 0.17
116 14 0.08
117 108 0.59
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (116 bp):
CAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCT
TGGATTTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAAAAATTCT
Found at i:2414252 original size:43 final size:42
Alignment explanation
Indices: 2414203--2414322 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
2414193 ACGAAGTGGC
**
2414203 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCATG
1 CATCCACG-TTTCAACTCCACGACGGAGGATATCGTACCCACA
* *
2414246 GATCCACGTTTTCAACTCCACGACGGAGGATATCGTGCCCACA
1 CATCCACG-TTTCAACTCCACGACGGAGGATATCGTACCCACA
* * *
2414289 CAACCACTGTTTCAACTTCACGACGAAGGATATC
1 CATCCAC-GTTTCAACTCCACGACGGAGGATATC
2414323 CAATTCGAGG
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
43 66 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (42 bp):
CATCCACGTTTCAACTCCACGACGGAGGATATCGTACCCACA
Found at i:2414487 original size:37 final size:37
Alignment explanation
Indices: 2414418--2414507 Score: 146
Period size: 37 Copynumber: 2.5 Consensus size: 37
2414408 ACTTTGAAAT
*
2414418 CAGTTTCCCTTGAAAC-AAGTTTTGTCTCCCTTGAGA
1 CAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA
2414454 CAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA
1 CAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA
* *
2414491 CGGTTTTCCTTGAAACA
1 CAGTTTCCCTTGAAACA
2414508 TAAAATCTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
36 16 0.32
37 34 0.68
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (37 bp):
CAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA
Found at i:2414546 original size:105 final size:102
Alignment explanation
Indices: 2414367--2414560 Score: 259
Period size: 105 Copynumber: 1.9 Consensus size: 102
2414357 TCCACAATTT
*
2414367 CAAAATTTATCTCTCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAATCAGTTTCCCTTGAA
1 CAAAATTTATCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAATCAGTTTCCCTTGAA
2414432 ACAAGTTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
66 ACAAGTTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
* * *
2414469 CAAAATTTTGTCTCCCTTGAGACGGTTT-TCCTTGAAACATAAAATCTTTGAGATC-GTTTTCCC
1 CAAAA-TTTATCTCCCTTGAGACAGTTTCT-CTTGAAACAT-AAA-CTTTGAAATCAG-TTTCCC
**
2414532 TTGAAAC-AGATTTTGTCTCTTTTGAGACA
61 TTGAAACAAG-TTTTGTCTCCCTTGAGACA
2414561 ACTTCTTTTG
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
102 6 0.08
103 29 0.36
104 6 0.08
105 39 0.49
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (102 bp):
CAAAATTTATCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAATCAGTTTCCCTTGAA
ACAAGTTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
Found at i:2414923 original size:3 final size:3
Alignment explanation
Indices: 2414897--2414983 Score: 93
Period size: 3 Copynumber: 28.3 Consensus size: 3
2414887 TTAGAAAAAA
* * * * *
2414897 TAT TAT TAAA TAT AAT TAT CAT TAT TAT TAA TAT TAT TAT TAT TAA
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2414943 TAT TAT TAT TAT TAG TAG TAT TATT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T
2414984 TAAACCCTAC
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
3 65 0.93
4 5 0.07
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:2415615 original size:145 final size:145
Alignment explanation
Indices: 2415279--2415690 Score: 468
Period size: 145 Copynumber: 2.8 Consensus size: 145
2415269 TCGGATTCTC
* * * * * * *
2415279 GCCGGTGATCGGGATCTCCGATCAACATTCCGAACGGTCAAAAGCTGTGCAAGGCCATCACGAAC
1 GCCGGAGATCGGGATCTCCGATCAACATTCTGAACGGTCAAAAGTTGCGCGAGACCAACACGAAC
* * * * *
2415344 AACATACTGAAAATTCAGGATGATC-GACGGTGGACAGCGGTGGATCGGTGAAAATAAGTCGAAC
66 AACATACTGAAAATTCAGGACGATCGGACGGTGGACGGCGGCGGATCGGAGAAAATAAGCCGAAC
* *
2415408 GGTTTTTGTCCTCTT
131 GATTTTTGGCCTCTT
* * * * * * *
2415423 GCCGGAGATCGGGATCTCTGATCAACATT-TCAAACAGTTAAACGTTGCGTGAGACTAACACGAA
1 GCCGGAGATCGGGATCTCCGATCAACATTCT-GAACGGTCAAAAGTTGCGCGAGACCAACACGAA
*
2415487 CAACATACTGAAAAATCAGGACGATCGGACGGTGGACGGCGGCGGATCGGAGAAAATAAGCCGAA
65 CAACATACTGAAAATTCAGGACGATCGGACGGTGGACGGCGGCGGATCGGAGAAAATAAGCCGAA
2415552 CGATTTTTGGCCTCTT
130 CGATTTTTGGCCTCTT
* * * * * ** *
2415568 GCCGGGGATCGGGAACTCCGATCAACATTCTGAATGGTCAAAAGTTGCACGAAACCAGTATGAAC
1 GCCGGAGATCGGGATCTCCGATCAACATTCTGAACGGTCAAAAGTTGCGCGAGACCAACACGAAC
* * * * ** *
2415633 AACATACTGAAAATTCAAGACTATCGGACGGTGAACGACTACAGATCGGAGAAAATAA
66 AACATACTGAAAATTCAGGACGATCGGACGGTGGACGGCGGCGGATCGGAGAAAATAA
2415691 ATTTGAACAG
Statistics
Matches: 220, Mismatches: 45, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
144 73 0.33
145 146 0.66
146 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (145 bp):
GCCGGAGATCGGGATCTCCGATCAACATTCTGAACGGTCAAAAGTTGCGCGAGACCAACACGAAC
AACATACTGAAAATTCAGGACGATCGGACGGTGGACGGCGGCGGATCGGAGAAAATAAGCCGAAC
GATTTTTGGCCTCTT
Found at i:2428588 original size:51 final size:49
Alignment explanation
Indices: 2428494--2428590 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 49
2428484 ATAAATTTTA
*
2428494 ATAAAAAAATATTTTATTAGAACTCATCACCTTGAGGTGACGAGTTTGG
1 ATAAAAAAATATTTTATTAGAACTCATCACCTTAAGGTGACGAGTTTGG
* * *
2428543 ATAAAAAAATATTTTTTATTAGAACTCATTACCTTAATGTTACGAGTT
1 ATAAAAAAATA--TTTTATTAGAACTCATCACCTTAAGGTGACGAGTT
2428591 CCATGAACAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 11 0.26
51 31 0.74
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (49 bp):
ATAAAAAAATATTTTATTAGAACTCATCACCTTAAGGTGACGAGTTTGG
Found at i:2429554 original size:18 final size:18
Alignment explanation
Indices: 2429531--2429586 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
2429521 CACTTGCATA
2429531 TTAAACTTGTCAAATTGG
1 TTAAACTTGTCAAATTGG
* * *
2429549 TTAAACTTGTTAGATTGA
1 TTAAACTTGTCAAATTGG
*
2429567 TCAAACTTGTCAAACTTGG
1 TTAAACTTGTCAAA-TTGG
2429586 T
1 T
2429587 AGAATGCACA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 26 0.87
19 4 0.13
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (18 bp):
TTAAACTTGTCAAATTGG
Found at i:2431104 original size:21 final size:20
Alignment explanation
Indices: 2431064--2431101 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2431054 CCCAAATAAA
2431064 ATTTCTGATAAACATAAATG
1 ATTTCTGATAAACATAAATG
2431084 ATTT-TGATATAACATAAA
1 ATTTCTGATA-AACATAAA
2431102 ATGTATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (20 bp):
ATTTCTGATAAACATAAATG
Found at i:2434094 original size:85 final size:85
Alignment explanation
Indices: 2433948--2434114 Score: 214
Period size: 85 Copynumber: 2.0 Consensus size: 85
2433938 ATGACGTGCT
* * *
2433948 TTTATGACATGCATTTATGACGCTCATTGCGCATCATTGAAGCCACCGTCATAAATGAAGATGAC
1 TTTATGACACGCATTTACGACGCTCATTGCGCATCATTGAAGCCACCGTCATAAATAAAGATGAC
*
2434013 ACACATTTGTGTGTCATAAA
66 ACACATTCGTGTGTCATAAA
* **
2434033 TTTATGACACGCATTTACGAC-TTACATTGCGTGTCATTGAAG-CACACGTCATTAAA-AAAGAT
1 TTTATGACACGCATTTACGACGCT-CATTGCGCATCATTGAAGCCAC-CGTCA-TAAATAAAGAT
*
2434095 TACACACATTCGTGTGTCAT
63 GACACACATTCGTGTGTCAT
2434115 GATTGTATGT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 4 0.06
85 63 0.89
86 4 0.06
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (85 bp):
TTTATGACACGCATTTACGACGCTCATTGCGCATCATTGAAGCCACCGTCATAAATAAAGATGAC
ACACATTCGTGTGTCATAAA
Found at i:2437870 original size:22 final size:22
Alignment explanation
Indices: 2437844--2437888 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
2437834 ATGTGAAATT
2437844 TGTCCCGAAGAACCACTGTATA
1 TGTCCCGAAGAACCACTGTATA
*
2437866 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGAACCACTGTATA
2437888 T
1 T
2437889 CCCTCGACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (22 bp):
TGTCCCGAAGAACCACTGTATA
Found at i:2450067 original size:29 final size:29
Alignment explanation
Indices: 2450034--2450122 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 29
2450024 AAATTTTGTC
* *
2450034 TAGTGATTAAAATATAAGTTTTAAAAGTT
1 TAGTGACTAAAATATAACTTTTAAAAGTT
* * *
2450063 TAGTGGCTAAAGTATAAACTTTGAAAAGTT
1 TAGTGACTAAAATAT-AACTTTTAAAAGTT
* *
2450093 TAAG-GACCAAAATTATAATTTTTAAAAGTT
1 T-AGTGACTAAAA-TATAACTTTTAAAAGTT
2450123 ATATATTTTA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
29 12 0.26
30 30 0.64
31 5 0.11
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (29 bp):
TAGTGACTAAAATATAACTTTTAAAAGTT
Found at i:2454617 original size:16 final size:16
Alignment explanation
Indices: 2454596--2454626 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2454586 TACTCCCTGC
2454596 TTTTCAATCCCAATTA
1 TTTTCAATCCCAATTA
2454612 TTTTCAATCCCAATT
1 TTTTCAATCCCAATT
2454627 GCTTTTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTTCAATCCCAATTA
Found at i:2463368 original size:20 final size:20
Alignment explanation
Indices: 2463343--2463385 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
2463333 TGGTGTGCAG
2463343 TTTTGATCATGCAAATGTAT
1 TTTTGATCATGCAAATGTAT
2463363 TTTTGATCATGCAAATGTAT
1 TTTTGATCATGCAAATGTAT
2463383 TTT
1 TTT
2463386 GTGTAGGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (20 bp):
TTTTGATCATGCAAATGTAT
Found at i:2464646 original size:22 final size:22
Alignment explanation
Indices: 2464618--2464662 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2464608 CTCATCTGAC
2464618 CACGCGATTATCCTCTTGGAGA
1 CACGCGATTATCCTCTTGGAGA
2464640 CACGCGATTATCCTCTTGGAGA
1 CACGCGATTATCCTCTTGGAGA
2464662 C
1 C
2464663 GACAAACCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (22 bp):
CACGCGATTATCCTCTTGGAGA
Found at i:2466593 original size:46 final size:46
Alignment explanation
Indices: 2466542--2466633 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
2466532 GGAGTCCTCC
2466542 AAAATACGTACATCACAACCATACCTCTACAAATACTCAAGACATA
1 AAAATACGTACATCACAACCATACCTCTACAAATACTCAAGACATA
2466588 AAAATACGTACATCACAACCATACCTCTACAAATACTCAAGACATA
1 AAAATACGTACATCACAACCATACCTCTACAAATACTCAAGACATA
2466634 CTCTGCAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.48, C:0.28, G:0.04, T:0.20
Consensus pattern (46 bp):
AAAATACGTACATCACAACCATACCTCTACAAATACTCAAGACATA
Found at i:2467438 original size:18 final size:19
Alignment explanation
Indices: 2467398--2467444 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
2467388 GGACCAACAC
*
2467398 ATCGATACTCACCCCTTGGGT
1 ATCGATACTCA--CCTTGAGT
2467419 ATCGATACTCA-CTTGAGT
1 ATCGATACTCACCTTGAGT
2467437 ATCGATAC
1 ATCGATAC
2467445 CAAAATTTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 14 0.56
21 11 0.44
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (19 bp):
ATCGATACTCACCTTGAGT
Found at i:2470867 original size:2 final size:2
Alignment explanation
Indices: 2470860--2470895 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2470850 CCACGATGTG
2470860 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2470896 GTTGAGAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2474088 original size:3 final size:3
Alignment explanation
Indices: 2474080--2474144 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
2474070 AAATTTAAAT
*
2474080 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2474127 TTA TTA -TA TTA TTTA TTA
1 TTA TTA TTA TTA -TTA TTA
2474145 AATATTACAA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 4 0.07
3 50 0.88
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2476035 original size:29 final size:28
Alignment explanation
Indices: 2475974--2476037 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
2475964 TGATATTCTA
* *
2475974 AATA-ATAAATATCTTATATATATATAT
1 AATATATAAATATATTATATATATAAAT
*
2476001 ATATATATATATATATTATATATATAAATT
1 A-ATATATAAATATATTATATATATAAA-T
2476031 AATATAT
1 AATATAT
2476038 TTTCTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 1 0.03
28 3 0.10
29 25 0.81
30 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
AATATATAAATATATTATATATATAAAT
Found at i:2476037 original size:2 final size:2
Alignment explanation
Indices: 2475988--2476026 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2475978 ATAAATATCT
2475988 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- 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
2476027 AATTAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2487585 original size:12 final size:11
Alignment explanation
Indices: 2487570--2487620 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 11
2487560 AAATTTTGGC
2487570 TTTTTTTTGCT
1 TTTTTTTTGCT
*
2487581 TTTTTTGTGCCT
1 TTTTTTTTG-CT
2487593 TTTTTTTTGC-
1 TTTTTTTTGCT
*
2487603 CTTTTTTTG-T
1 TTTTTTTTGCT
2487613 TTTTTTTT
1 TTTTTTTT
2487621 TTAAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
10 15 0.44
11 9 0.26
12 10 0.29
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (11 bp):
TTTTTTTTGCT
Found at i:2487599 original size:14 final size:12
Alignment explanation
Indices: 2487570--2487610 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
2487560 AAATTTTGGC
2487570 TTTTTTTTG-CT
1 TTTTTTTTGCCT
*
2487581 TTTTTTGTGCCT
1 TTTTTTTTGCCT
2487593 TTTTTTTTGCCT
1 TTTTTTTTGCCT
2487605 TTTTTT
1 TTTTTT
2487611 GTTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (12 bp):
TTTTTTTTGCCT
Found at i:2493300 original size:22 final size:22
Alignment explanation
Indices: 2493275--2493348 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
2493265 TACACTTTTT
*
2493275 AAAGACGATAGACTCTTTCTTC
1 AAAGATGATAGACTCTTTCTTC
* * * *
2493297 AAAGATGATAGCCTATCTCTTT
1 AAAGATGATAGACTCTTTCTTC
*
2493319 AAAGATGATAGATTCTCTT-TTC
1 AAAGATGATAGACTCT-TTCTTC
2493341 AAAGATGA
1 AAAGATGA
2493349 AAGCTTTATT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 40 0.98
23 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (22 bp):
AAAGATGATAGACTCTTTCTTC
Found at i:2494125 original size:46 final size:46
Alignment explanation
Indices: 2494022--2494765 Score: 1238
Period size: 46 Copynumber: 15.9 Consensus size: 46
2494012 CTATTTCCCA
2494022 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC----AAAAACCTTCGGGT
*
2494072 CATCTGTAAGTCCTTCAATGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
2494118 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGT
2494166 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
2494212 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTTGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
2494258 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
2494304 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGT
2494352 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGT
* *
2494399 CATCTGTAAGTCCTTCAGTGCATGATGTTTTTAAAAACCTTCGAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
2494445 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
2494491 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGT
*
2494539 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* *
2494585 CATCTATAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
2494631 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGT
* *
2494678 CATCTGTAAGCCCTTTAGTGCATGATGTTTTC-AAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* * * *
2494723 CATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTC
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTTC
2494766 AGGAGCTTTT
Statistics
Matches: 665, Mismatches: 20, Indels: 21
0.94 0.03 0.03
Matches are distributed among these distances:
45 41 0.06
46 361 0.54
47 95 0.14
48 137 0.21
50 31 0.05
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (46 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
Found at i:2494278 original size:140 final size:139
Alignment explanation
Indices: 2494022--2494765 Score: 1251
Period size: 140 Copynumber: 5.3 Consensus size: 139
2494012 CTATTTCCCA
2494022 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAAAACCTTCGGGTCATCTGTAAGTCCTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC----AAAAACCTTCGGGTCATCTGTAAGTCCTT
*
2494087 CAATGCATGATGTTTTC-AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCA
62 CAGTGCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC-
2494151 AAAAAACCTTCGGGT
126 -AAAAACCTTCGGGT
2494166 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
2494231 GCATGATGTTTTC-AAAAACCTTTGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA
66 GCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA
2494295 CCTTCGGGT
131 CCTTCGGGT
2494304 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGTCATCTGTAAGTCCTTCA
*
2494369 GTGCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTTAAA
64 GTGCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
*
2494434 AACCTTCGAGT
129 AACCTTCGGGT
2494445 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
2494510 GCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAA
66 GCATGATGTTTTC-AAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAA
2494575 ACCTTCGGGT
130 ACCTTCGGGT
* * *
2494585 CATCTATAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGAGTCATCTGTAAGCCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
* *
2494650 GCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGCCCTTTAGTGCATGATGTTTTC-AAAA
66 GCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA
2494714 CCTTCGGGT
131 CCTTCGGGT
* * * *
2494723 CATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTC
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTTC
2494766 AGGAGCTTTT
Statistics
Matches: 576, Mismatches: 19, Indels: 15
0.94 0.03 0.02
Matches are distributed among these distances:
138 91 0.16
139 95 0.16
140 269 0.47
141 89 0.15
144 32 0.06
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (139 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
GCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA
CCTTCGGGT
Found at i:2494340 original size:186 final size:186
Alignment explanation
Indices: 2494022--2494877 Score: 1331
Period size: 186 Copynumber: 4.7 Consensus size: 186
2494012 CTATTTCCCA
2494022 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAAAACCTTCGGGTCATCTGTAAGTCCTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC----AAAAACCTTCGGGTCATCTGTAAGTCCTT
*
2494087 CAATGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAA
62 CAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAA
2494152 AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
127 AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
2494212 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTTGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
2494277 GCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAA
66 GCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAA
2494342 ACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
131 ACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGT
* *
2494399 CATCTGTAAGTCCTTCAGTGCATGATGTTTTTAAAAACCTTCGAGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
2494464 GCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAA
66 GCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAA
*
2494529 ACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
131 ACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* * *
2494585 CATCTATAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGAGTCATCTGTAAGCCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
* *
2494650 GCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGCCCTTTAGTGCATGATGTTTTC---AA
66 GCATGATGTTTTC-AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA
* * * * *
2494712 AACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCAGG-
130 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTTCGGGT
* * *
2494769 -AGC--T---T--TT-A--G-AT-A--TTATC-AAAACCTTCGGGTCATCTGTAAGCCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
2494818 GCATGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
66 GCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAA
2494878 CATTTCCATC
Statistics
Matches: 640, Mismatches: 21, Indels: 32
0.92 0.03 0.05
Matches are distributed among these distances:
166 44 0.07
168 44 0.07
169 4 0.01
171 1 0.00
172 2 0.00
173 1 0.00
175 1 0.00
176 2 0.00
178 1 0.00
181 1 0.00
183 2 0.00
184 45 0.07
185 7 0.01
186 227 0.35
187 226 0.35
190 32 0.05
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (186 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
GCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAA
ACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
Found at i:2494835 original size:45 final size:45
Alignment explanation
Indices: 2494784--2494877 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
2494774 TTAGATATTA
2494784 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
2494829 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
2494874 TCAA
1 TCAA
2494878 CATTTCCATC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (45 bp):
TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
Done.