Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 111 of 170
Found at i:34217129 original size:46 final size:46
Alignment explanation
Indices: 34217062--34217158 Score: 194
Period size: 46 Copynumber: 2.1 Consensus size: 46
34217052 CATAAATTGC
34217062 ACTTAGGATTGCATTAGGGATCATTTTGCATCTAGATAATTATTTT
1 ACTTAGGATTGCATTAGGGATCATTTTGCATCTAGATAATTATTTT
34217108 ACTTAGGATTGCATTAGGGATCATTTTGCATCTAGATAATTATTTT
1 ACTTAGGATTGCATTAGGGATCATTTTGCATCTAGATAATTATTTT
34217154 ACTTA
1 ACTTA
34217159 ACATCAACCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.43
Consensus pattern (46 bp):
ACTTAGGATTGCATTAGGGATCATTTTGCATCTAGATAATTATTTT
Found at i:34217529 original size:15 final size:15
Alignment explanation
Indices: 34217506--34217535 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34217496 TATGTTAAAA
34217506 TTATGATTAAATTAT
1 TTATGATTAAATTAT
*
34217521 TTATTATTAAATTAT
1 TTATGATTAAATTAT
34217536 ATTTAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TTATGATTAAATTAT
Found at i:34217541 original size:26 final size:26
Alignment explanation
Indices: 34217452--34217541 Score: 64
Period size: 26 Copynumber: 3.5 Consensus size: 26
34217442 AATATGAACA
*
34217452 AAATTATATATT--ATTATTT-GTATT
1 AAATTATAT-TTAAATTATTTATTATT
* * * *
34217476 AAATTGTATTTAATAATAATTATGT-TA
1 AAATTATATTTAA-ATTATTTAT-TATT
34217503 AAATTATGA-TTAAATTATTTATTATT
1 AAATTAT-ATTTAAATTATTTATTATT
34217529 AAATTATATTTAA
1 AAATTATATTTAA
34217542 TAATAATCCT
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
23 2 0.04
24 8 0.16
25 2 0.04
26 24 0.49
27 11 0.22
28 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (26 bp):
AAATTATATTTAAATTATTTATTATT
Found at i:34217554 original size:26 final size:24
Alignment explanation
Indices: 34217472--34217557 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 24
34217462 TTATTATTTG
*
34217472 TATTAAATTGTATTTAATAATAAT
1 TATTAAATTATATTTAATAATAAT
* * *
34217496 TATGTTAAAATTATGATTAAATTATTTAT
1 TA--TT-AAATTAT-ATTTAA-TAATAAT
34217525 TATTAAATTATATTTAATAATAAT
1 TATTAAATTATATTTAATAATAAT
34217549 CCTATTAAA
1 --TATTAAA
34217558 ATTTAATAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
24 7 0.15
25 5 0.10
26 16 0.33
27 8 0.17
28 5 0.10
29 7 0.15
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (24 bp):
TATTAAATTATATTTAATAATAAT
Found at i:34217705 original size:16 final size:16
Alignment explanation
Indices: 34217669--34217719 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
34217659 CAATGATACT
* *
34217669 ATTACAGCTCTATTCT
1 ATTACAGCTTTATTCC
*
34217685 GTTACAGCTTTATTCC
1 ATTACAGCTTTATTCC
*
34217701 ATTACAGATTTATTCC
1 ATTACAGCTTTATTCC
34217717 ATT
1 ATT
34217720 CCCCCAACCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (16 bp):
ATTACAGCTTTATTCC
Found at i:34224650 original size:46 final size:46
Alignment explanation
Indices: 34224521--34224698 Score: 169
Period size: 46 Copynumber: 3.9 Consensus size: 46
34224511 CCCAAGTTTT
* * * * **
34224521 GAACTCCTACATATGTTGCGGACTCAAGAATACAGGAATAGGTTCC
1 GAACTCCTGCATATGTTGCGGACTCGAGAATACAAGATTAAATTCC
* *
34224567 GAACTCCTGCATATGTTGTGAACTCGAGAATACAAGATTAAATTCC
1 GAACTCCTGCATATGTTGCGGACTCGAGAATACAAGATTAAATTCC
* ** **
34224613 -AAGCTCCTGCATATGTTGCGGACTCGAGAATAAAAGATTAGGTTTT
1 GAA-CTCCTGCATATGTTGCGGACTCGAGAATACAAGATTAAATTCC
** * * * *
34224659 GAGTTCTTACATATGTTGCGGACTCAAGAATACAGGATTA
1 GAACTCCTGCATATGTTGCGGACTCGAGAATACAAGATTA
34224699 TTAAGCCTTG
Statistics
Matches: 108, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
45 2 0.02
46 105 0.97
47 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (46 bp):
GAACTCCTGCATATGTTGCGGACTCGAGAATACAAGATTAAATTCC
Found at i:34224689 original size:92 final size:92
Alignment explanation
Indices: 34224524--34224698 Score: 215
Period size: 92 Copynumber: 1.9 Consensus size: 92
34224514 AAGTTTTGAA
* * * *
34224524 CTCCTACATATGTTGCGGACTCAAGAATACAGGAATAGGTTCCGAACTCCTGCATATGTTGTGAA
1 CTCCTACATATGTTGCGGACTCAAGAATAAAAGAATAGGTTCCGAACTCCTACATATGTTGCGAA
*
34224589 CTCGAGAATACAAGATTAAATTCCAAG
66 CTCAAGAATACAAGATTAAATTCCAAG
* * * ** ** * *
34224616 CTCCTGCATATGTTGCGGACTCGAGAATAAAAGATTAGGTTTTGAGTTCTTACATATGTTGCGGA
1 CTCCTACATATGTTGCGGACTCAAGAATAAAAGAATAGGTTCCGAACTCCTACATATGTTGCGAA
*
34224681 CTCAAGAATACAGGATTA
66 CTCAAGAATACAAGATTA
34224699 TTAAGCCTTG
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
92 68 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (92 bp):
CTCCTACATATGTTGCGGACTCAAGAATAAAAGAATAGGTTCCGAACTCCTACATATGTTGCGAA
CTCAAGAATACAAGATTAAATTCCAAG
Found at i:34230344 original size:24 final size:23
Alignment explanation
Indices: 34230317--34230363 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
34230307 CATTATAATC
*
34230317 AACTTTTCACCTATCATCTTCCTT
1 AACTCTTCACCTATCATC-TCCTT
*
34230341 AACTCTTCACCTTTCATCTCCTT
1 AACTCTTCACCTATCATCTCCTT
34230364 GTAACACCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.45
Consensus pattern (23 bp):
AACTCTTCACCTATCATCTCCTT
Found at i:34232256 original size:114 final size:112
Alignment explanation
Indices: 34232087--34232378 Score: 306
Period size: 114 Copynumber: 2.6 Consensus size: 112
34232077 AAAATAAACA
* * * *
34232087 TTAGCGGCGATTTC-CAGAAAGCGCCGCTAAAAATCTAAGCCCAACGACGTCGTTTTCGGAG-TT
1 TTAGCGGCG-TTTCTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCGGAGCTT
* *
34232150 TCGGGGATTTTAGCGGCGTTTTCAAG-AAAGCGCCCCAAAAGATC-AAGGCT
65 TCAGGGA-TTTAGAGGCGTTTT-AAGTAAAGCGCCCCAAAAG--CGAAGGCT
**
34232200 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAACAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTT
1 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAA-AAACCTAAGCCCAACGACGCCGTTTTCGGAGCTT
* * * * * *
34232265 TTAGGGATTTAGAGGCGTTTTTAGTAAAGCGCCGCTAATGCGAGGGCT
65 TCAGGGATTTAGAGGCGTTTTAAGTAAAGCGCCCCAAAAGCGAAGGCT
* * * * **
34232313 TTAGCGGCATTT-TGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCATTTTTTGAGCTT
1 TTAGCGGCGTTTCTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCGGAGCTT
34232377 TC
65 TC
34232379 GTGGATATAG
Statistics
Matches: 154, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
112 51 0.33
113 44 0.29
114 52 0.34
115 7 0.05
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (112 bp):
TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCGGAGCTTT
CAGGGATTTAGAGGCGTTTTAAGTAAAGCGCCCCAAAAGCGAAGGCT
Found at i:34232398 original size:112 final size:113
Alignment explanation
Indices: 34232196--34232399 Score: 304
Period size: 112 Copynumber: 1.8 Consensus size: 113
34232186 AAAAGATCAA
* * *
34232196 GGCTTTAGCGGCGTTTCTGAGAAAGCGCCGCAAACAAACCTAAGCCCAACGACGCCGTTTTTTGA
1 GGCTTTAGCGGCATTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTTTGA
* *
34232261 GCTTTTAGGGATTTAGAGGCGTTTTTAGTAAAGCGCCGCTAATGCGAG
66 GCTTTTAGGGATATAGAGGCATTTTTAGTAAAGCGCCGCTAATGCGAG
* *
34232309 GGCTTTAGCGGCATTT-TGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCATTTTTTGA
1 GGCTTTAGCGGCATTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTTTGA
* *
34232373 GC-TTTCGTGGATATAGTGGCATTTTTA
66 GCTTTTAG-GGATATAGAGGCATTTTTA
34232400 AGAAAACGCC
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
111 4 0.05
112 62 0.77
113 15 0.19
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (113 bp):
GGCTTTAGCGGCATTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTTTGA
GCTTTTAGGGATATAGAGGCATTTTTAGTAAAGCGCCGCTAATGCGAG
Found at i:34232536 original size:72 final size:73
Alignment explanation
Indices: 34232314--34232551 Score: 264
Period size: 73 Copynumber: 3.3 Consensus size: 73
34232304 GCGAGGGCTT
* * * *
34232314 TAGCGGCA-TTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCATTTTTTGAGCTTT
1 TAGCGGCATTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
34232378 CGTGGATA
66 CGTGGATA
* * * * * *
34232386 TAGTGGCATTTTTAAGAAAACGCCGCAAAAAAACCTAAACCCAACGACGTCGTTTTCTGATCTTT
1 TAGCGGCATTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
* * *
34232451 TGGGGATT
66 CGTGGATA
* * ** *
34232459 TAGCGGCATTTTTGGGAAAGCGCCGC-TAAAAACCTAAACGAAACAATGTCGTTTTTTGAGCTTT
1 TAGCGGCATTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
*
34232523 CATGGATA
66 CGTGGATA
* **
34232531 CAGCGGTGTTTTTAGGAAAGC
1 TAGCGGCATTTTTAGGAAAGC
34232552 ATCGCTAATG
Statistics
Matches: 133, Mismatches: 32, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
72 59 0.44
73 74 0.56
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (73 bp):
TAGCGGCATTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
CGTGGATA
Found at i:34232694 original size:10 final size:10
Alignment explanation
Indices: 34232679--34232703 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34232669 GCTAATGCTC
34232679 AAATAGTTTA
1 AAATAGTTTA
34232689 AAATAGTTTA
1 AAATAGTTTA
34232699 AAATA
1 AAATA
34232704 TTTGTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (10 bp):
AAATAGTTTA
Found at i:34232713 original size:12 final size:12
Alignment explanation
Indices: 34232696--34232726 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
34232686 TTAAAATAGT
34232696 TTAAAATATTTG
1 TTAAAATATTTG
34232708 TTAAAATATTTG
1 TTAAAATATTTG
34232720 TTAAAAT
1 TTAAAAT
34232727 GAAAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (12 bp):
TTAAAATATTTG
Found at i:34232922 original size:22 final size:21
Alignment explanation
Indices: 34232896--34232963 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
34232886 TAGTGTGTAA
34232896 GGGTTAGGAGCTTATGGTTTAG
1 GGGTTAGG-GCTTATGGTTTAG
* * *
34232918 GGGTTATGGGCTTAGGGTCTAT
1 GGGTTA-GGGCTTATGGTTTAG
*
34232940 GGGTTAATGGCTTATGGTTTAG
1 GGGTT-AGGGCTTATGGTTTAG
34232962 GG
1 GG
34232964 TTTAATCAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 34 0.92
23 3 0.08
ACGTcount: A:0.16, C:0.06, G:0.41, T:0.37
Consensus pattern (21 bp):
GGGTTAGGGCTTATGGTTTAG
Found at i:34233009 original size:15 final size:15
Alignment explanation
Indices: 34232991--34233047 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
34232981 GATTTAGAGG
* *
34232991 TTTAAGGGTTTATGC
1 TTTAAGGGTTTAAGA
34233006 TTT-AGAGGTTTAAGA
1 TTTAAG-GGTTTAAGA
* *
34233021 TTTAAAGGTTTAAGG
1 TTTAAGGGTTTAAGA
*
34233036 TTTAGGGGTTTA
1 TTTAAGGGTTTA
34233048 GGTTATCGTC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 2 0.06
15 31 0.91
16 1 0.03
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (15 bp):
TTTAAGGGTTTAAGA
Found at i:34233009 original size:23 final size:23
Alignment explanation
Indices: 34232975--34233019 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
34232965 TTAATCAAGA
34232975 GTTTATGATTTAGAGGTTTAAGG
1 GTTTATGATTTAGAGGTTTAAGG
*
34232998 GTTTATGCTTTAGAGGTTTAAG
1 GTTTATGATTTAGAGGTTTAAG
34233020 ATTTAAAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.44
Consensus pattern (23 bp):
GTTTATGATTTAGAGGTTTAAGG
Found at i:34233024 original size:7 final size:7
Alignment explanation
Indices: 34232983--34233039 Score: 51
Period size: 8 Copynumber: 7.6 Consensus size: 7
34232973 GAGTTTATGA
34232983 TTTAGAGG
1 TTTA-AGG
34232991 TTTAAGGG
1 TTTAA-GG
* *
34232999 TTTATGC
1 TTTAAGG
34233006 TTTAGAGG
1 TTTA-AGG
*
34233014 TTTAAGA
1 TTTAAGG
34233021 TTTAAAGG
1 TTT-AAGG
34233029 TTTAAGG
1 TTTAAGG
34233036 TTTA
1 TTTA
34233040 GGGGTTTAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
7 19 0.47
8 21 0.52
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.44
Consensus pattern (7 bp):
TTTAAGG
Found at i:34233031 original size:30 final size:30
Alignment explanation
Indices: 34232991--34233047 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
34232981 GATTTAGAGG
* *
34232991 TTTAAGGGTTTATGCTTTAGAGGTTTAAGA
1 TTTAAAGGTTTAAGCTTTAGAGGTTTAAGA
* *
34233021 TTTAAAGGTTTAAGGTTTAGGGGTTTA
1 TTTAAAGGTTTAAGCTTTAGAGGTTTA
34233048 GGTTATCGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (30 bp):
TTTAAAGGTTTAAGCTTTAGAGGTTTAAGA
Found at i:34233095 original size:14 final size:13
Alignment explanation
Indices: 34233077--34233129 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 13
34233067 AAGGGTTATT
34233077 GGTTTACGGTTTA
1 GGTTTACGGTTTA
34233090 GTGTTTACGGTTTA
1 G-GTTTACGGTTTA
* *
34233104 GGGTTTATGGTGTA
1 -GGTTTACGGTTTA
*
34233118 GGTTTATGGTTT
1 GGTTTACGGTTT
34233130 TAAGTATGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.34
14 22 0.63
15 1 0.03
ACGTcount: A:0.13, C:0.04, G:0.34, T:0.49
Consensus pattern (13 bp):
GGTTTACGGTTTA
Found at i:34233170 original size:28 final size:27
Alignment explanation
Indices: 34233139--34233226 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 27
34233129 TTAAGTATGC
34233139 AGTTTATGATTTAGTGTTAAGAGTTTAG
1 AGTTTATGATTTAGTGTT-AGAGTTTAG
* *
34233167 AGTTTATGGTTTAAG-GTGTAGGGTTTAG
1 AGTTTATGATTT-AGTGT-TAGAGTTTAG
* * * *
34233195 GGTTTATTATTTATTGTTTAGATTTTAG
1 AGTTTATGATTTAGTG-TTAGAGTTTAG
34233223 AGTT
1 AGTT
34233227 CAGCTAGTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
27 1 0.02
28 42 0.89
29 4 0.09
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (27 bp):
AGTTTATGATTTAGTGTTAGAGTTTAG
Found at i:34233429 original size:103 final size:103
Alignment explanation
Indices: 34233218--34233429 Score: 336
Period size: 103 Copynumber: 2.1 Consensus size: 103
34233208 TTGTTTAGAT
* * *
34233218 TTTAGAGTTCAGCTAGTAGCTTAGAGTTTAGGGATTAATACGAGTATAGGGTATATGGGTTAAGA
1 TTTAGGGTTCAGCTAGTAGCTTAGAGTTTAAGGATTAATACGAGCATAGGGTATATGGGTTAAGA
*
34233283 AGGCTTATGGTTTAGGGTTTAAATTTTATATTTTAAGG
66 AGGCTTATGGATTAGGGTTTAAATTTTATATTTTAAGG
* *
34233321 TTTAGGGTTTAGCTAGTAGCTTAGAGTTTAAGGATTAATACGGGCATAGGGTATATGGGTTAAG-
1 TTTAGGGTTCAGCTAGTAGCTTAGAGTTTAAGGATTAATACGAGCATAGGGTATATGGGTTAAGA
* *
34233385 AGGGTATATGGATTAGGGTTTAAATTTTATATTTTAGGG
66 AGGCT-TATGGATTAGGGTTTAAATTTTATATTTTAAGG
34233424 TTTAGG
1 TTTAGG
34233430 ATTATGGTAA
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
102 4 0.04
103 96 0.96
ACGTcount: A:0.28, C:0.04, G:0.29, T:0.39
Consensus pattern (103 bp):
TTTAGGGTTCAGCTAGTAGCTTAGAGTTTAAGGATTAATACGAGCATAGGGTATATGGGTTAAGA
AGGCTTATGGATTAGGGTTTAAATTTTATATTTTAAGG
Found at i:34233463 original size:103 final size:102
Alignment explanation
Indices: 34233250--34233453 Score: 234
Period size: 103 Copynumber: 2.0 Consensus size: 102
34233240 AGAGTTTAGG
* *
34233250 GATTAATACGAGTATAGGGTATATGGGTTAAGAAGGCTTATGGTTTAGGGTTTAAATTTTATATT
1 GATTAATACGAGCATAGGGTATATGGGTTAAGAAGGCTTATGGATTAGGGTTTAAATTTTATATT
* * ** ** *
34233315 TTAAGGTTTAGGGTTTAGCTAGTAGCTTAGAGTTTAAG
66 TTAAGGTTTAGGATTTAGCTAG-AACACAGAGTAAAAA
* *
34233353 GATTAATACGGGCATAGGGTATATGGGTTAAG-AGGGTATATGGATTAGGGTTTAAATTTTATAT
1 GATTAATACGAGCATAGGGTATATGGGTTAAGAAGGCT-TATGGATTAGGGTTTAAATTTTATAT
* * *
34233417 TTTAGGGTTTAGGA-TTATGGTA-AACACAGGGTAAAAA
65 TTTAAGGTTTAGGATTTA-GCTAGAACACAGAGTAAAAA
34233454 TATGTTAATA
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
101 8 0.09
102 7 0.08
103 70 0.82
ACGTcount: A:0.31, C:0.04, G:0.28, T:0.37
Consensus pattern (102 bp):
GATTAATACGAGCATAGGGTATATGGGTTAAGAAGGCTTATGGATTAGGGTTTAAATTTTATATT
TTAAGGTTTAGGATTTAGCTAGAACACAGAGTAAAAA
Found at i:34233963 original size:116 final size:113
Alignment explanation
Indices: 34233672--34233969 Score: 307
Period size: 116 Copynumber: 2.6 Consensus size: 113
34233662 TAGTTTCCAC
* * * * *
34233672 TTTAGTGGCATTTCTTC-ATAAACGGCGCAATTATGTTTTAAGTCTTTGCTAAACACTGTCATTT
1 TTTAGTGGCGTTT-TTCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTTT
* * * * ** * *
34233736 TAAATTTCGTTTTAGTTGCGTTTTCTCTTATGCGCCGCAAAATTTTGGT
65 TTATTTTCGTTTTAGTGGCATTTTCTCTTAAACGCCGCAAAAGTATGGT
* * *
34233785 TTTTGTGGCGTTTTT-ATGATAAACGCCGCAGTTATGTTTTAAGTATTTGCTAAACGCAGTCGTT
1 TTTAGTGGCGTTTTTCA--ATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTT
*
34233849 TTTATTTTGCGTTATTAGTGGCATTTT-TCGTTAAACGCCGCAATAGGTAT-GT
64 TTTATTTT-CGTT-TTAGTGGCATTTTCTC-TTAAACGCCGCAA-AAGTATGGT
* * * *
34233901 TTTAGTGGCGTTTTGTCAATAAACGCCGCAAATATGTTTTAAGTGTTTGCTAAACGGTGTCGTAT
1 TTTAGTGGCGTTTT-TCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTTT
34233966 TTAT
65 TTAT
34233970 CTACCATTTT
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
112 2 0.01
113 11 0.07
114 46 0.30
115 6 0.04
116 82 0.54
117 4 0.03
118 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (113 bp):
TTTAGTGGCGTTTTTCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTTTT
TATTTTCGTTTTAGTGGCATTTTCTCTTAAACGCCGCAAAAGTATGGT
Found at i:34237888 original size:9 final size:9
Alignment explanation
Indices: 34237864--34238153 Score: 217
Period size: 9 Copynumber: 30.9 Consensus size: 9
34237854 ACATAATATC
*
34237864 TTACATAAC
1 TTACATAAA
34237873 TTAACATAAA
1 TT-ACATAAA
34237883 TTACATAAA
1 TTACATAAA
* *
34237892 TTAAATAAC
1 TTACATAAA
*
34237901 TTACATAAC
1 TTACATAAA
34237910 TTACATAAA
1 TTACATAAA
* *
34237919 TTAAATAAC
1 TTACATAAA
*
34237928 TTACATAAC
1 TTACATAAA
34237937 TTACATAAA
1 TTACATAAA
* *
34237946 TTAAATAAC
1 TTACATAAA
34237955 TTACATAAA
1 TTACATAAA
34237964 TTACATAAA
1 TTACATAAA
34237973 TTACATAAA
1 TTACATAAA
* *
34237982 TTAAATAAC
1 TTACATAAA
*
34237991 TTACATAAC
1 TTACATAAA
34238000 TTACATAAA
1 TTACATAAA
* *
34238009 TTAAATAAC
1 TTACATAAA
*
34238018 TTACATAAC
1 TTACATAAA
34238027 TTACATAAA
1 TTACATAAA
*
34238036 TTA-AAAAA
1 TTACATAAA
34238044 CTTACATATTAA
1 -TTACATA--AA
*
34238056 CTTACATAAG
1 -TTACATAAA
34238066 TTATC-TACAA
1 TTA-CATA-AA
*
34238076 GCTTATATATAAA
1 ---T-TACATAAA
* *
34238089 CTTGCATAAC
1 -TTACATAAA
34238099 TTACAT-AA
1 TTACATAAA
*
34238107 TAACATAATA
1 TTACATAA-A
*
34238117 TCTTACATAAC
1 --TTACATAAA
34238128 TTACATAAA
1 TTACATAAA
34238137 TTACATAAA
1 TTACATAAA
*
34238146 TTAAATAA
1 TTACATAA
34238154 CTGGCGTTTT
Statistics
Matches: 228, Mismatches: 37, Indels: 32
0.77 0.12 0.11
Matches are distributed among these distances:
8 10 0.04
9 174 0.76
10 19 0.08
11 1 0.00
12 17 0.07
13 3 0.01
14 4 0.02
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (9 bp):
TTACATAAA
Found at i:34237913 original size:27 final size:27
Alignment explanation
Indices: 34237868--34238155 Score: 266
Period size: 27 Copynumber: 10.2 Consensus size: 27
34237858 AATATCTTAC
*
34237868 ATAACTTAACATAAATTACATAAATTAA
1 ATAACTT-ACATAACTTACATAAATTAA
34237896 ATAACTTACATAACTTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
34237923 ATAACTTACATAACTTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
34237950 ATAACTTACATAAATTACATAAATTACATAAATTAA
1 ATAACTTACAT--A--AC-----TTACATAAATTAA
34237986 ATAACTTACATAACTTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
34238013 ATAACTTACATAACTTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
* *
34238040 AAAACTTACATATTAACTTACATAAGTT--
1 ATAACTTAC--A-TAACTTACATAAATTAA
* * **
34238068 AT--C-TACA-AGCTTATATATAAACTTGC
1 ATAACTTACATAAC-T-TACATAAA-TTAA
* *
34238094 ATAACTTACATAA-TAACATAATATCTTAC
1 ATAACTTACATAACTTACATAA-A--TTAA
*
34238123 ATAACTTACATAAATTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
34238150 ATAACT
1 ATAACT
34238156 GGCGTTTTAA
Statistics
Matches: 223, Mismatches: 13, Indels: 49
0.78 0.05 0.17
Matches are distributed among these distances:
21 2 0.01
22 1 0.00
23 7 0.03
24 2 0.01
25 3 0.01
26 3 0.01
27 119 0.53
28 11 0.05
29 24 0.11
30 22 0.10
31 2 0.01
32 2 0.01
34 1 0.00
36 24 0.11
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (27 bp):
ATAACTTACATAACTTACATAAATTAA
Found at i:34241587 original size:21 final size:21
Alignment explanation
Indices: 34241561--34241652 Score: 139
Period size: 21 Copynumber: 4.4 Consensus size: 21
34241551 CTACAACTTA
*
34241561 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
34241582 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
34241603 AAGCAGAGGTTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
34241624 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
34241645 AAGCAGAG
1 AAGCAGAG
34241653 CAGAGCAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.32, C:0.18, G:0.46, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:34243182 original size:24 final size:25
Alignment explanation
Indices: 34243147--34243236 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 25
34243137 ATATATTTAA
* *
34243147 AAAATTAAAAAATTGT-TATAAAA-T
1 AAAATTATAAAATTATATA-AAAATT
34243171 AAAATTATAAAATTATATAAAAATT
1 AAAATTATAAAATTATATAAAAATT
* *
34243196 AAAATTATTGAAATTATTTTAAAAAATT
1 AAAATTA-TAAAATTA-TAT-AAAAATT
*
34243224 ACAAAATATAAAA
1 A-AAATTATAAAA
34243237 AAACATTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
24 18 0.33
25 10 0.19
26 7 0.13
27 2 0.04
28 12 0.22
29 5 0.09
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (25 bp):
AAAATTATAAAATTATATAAAAATT
Found at i:34243275 original size:27 final size:27
Alignment explanation
Indices: 34243245--34243303 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
34243235 AAAAACATTT
*
34243245 TAAAAATATAAAAA-AACTAAAATTTAC
1 TAAAAAT-TAAAAAGAAATAAAATTTAC
* *
34243272 TAAAAATTAAAAAGAAATAAATTTTAT
1 TAAAAATTAAAAAGAAATAAAATTTAC
34243299 TAAAA
1 TAAAA
34243304 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (27 bp):
TAAAAATTAAAAAGAAATAAAATTTAC
Found at i:34243409 original size:9 final size:9
Alignment explanation
Indices: 34243388--34243514 Score: 53
Period size: 9 Copynumber: 13.7 Consensus size: 9
34243378 TTAAAACGAT
*
34243388 TTTTTGTAA
1 TTTTTATAA
34243397 -TTTTATAA
1 TTTTTATAA
*
34243405 TTTTTCT-A
1 TTTTTATAA
*
34243413 TTTTTAATCA
1 TTTTT-ATAA
* *
34243423 TTTTAATAT
1 TTTTTATAA
*
34243432 TTTTTTTAA
1 TTTTTATAA
34243441 TTTTTAAATAA
1 TTTTT--ATAA
* * *
34243452 ATATTGTAA
1 TTTTTATAA
34243461 TTTTTATAA
1 TTTTTATAA
*
34243470 -ATTTATATA
1 TTTTTATA-A
* *
34243479 TTTTTTTCTA
1 TTTTTAT-AA
34243489 TGTTTTAGTAA
1 T-TTTTA-TAA
*
34243500 TTTTAATAA
1 TTTTTATAA
34243509 TTTTTA
1 TTTTTA
34243515 AAATAATTTT
Statistics
Matches: 84, Mismatches: 24, Indels: 20
0.66 0.19 0.16
Matches are distributed among these distances:
8 19 0.23
9 37 0.44
10 15 0.18
11 12 0.14
12 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:34243521 original size:12 final size:12
Alignment explanation
Indices: 34243504--34243528 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34243494 TAGTAATTTT
34243504 AATAATTTTTAA
1 AATAATTTTTAA
34243516 AATAATTTTTAA
1 AATAATTTTTAA
34243528 A
1 A
34243529 GATTTCAAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATAATTTTTAA
Found at i:34249690 original size:15 final size:15
Alignment explanation
Indices: 34249651--34249692 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
34249641 GGCTCTCACC
*
34249651 AAAATAAAATT-TTA
1 AAAATAAAATTAATA
*
34249665 AAAATTTAAATTAATA
1 AAAA-TAAAATTAATA
34249681 AAAATAAAATTA
1 AAAATAAAATTA
34249693 TTTTGATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 13 0.57
16 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAAATTAATA
Found at i:34258677 original size:25 final size:25
Alignment explanation
Indices: 34258648--34258720 Score: 146
Period size: 25 Copynumber: 2.9 Consensus size: 25
34258638 TATTAGCTCA
34258648 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
34258673 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
34258698 ATTTTTATTATTTCATTTAACAA
1 ATTTTTATTATTTCATTTAACAA
34258721 AATCCTATCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTATTTCATTTAACAATT
Found at i:34260770 original size:51 final size:51
Alignment explanation
Indices: 34260637--34260772 Score: 222
Period size: 50 Copynumber: 2.7 Consensus size: 51
34260627 AGTGAAAGTG
34260637 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
* * *
34260688 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
34260737 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
34260773 TGTGAACTGA
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
49 4 0.05
50 42 0.53
51 33 0.42
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
Found at i:34260776 original size:26 final size:26
Alignment explanation
Indices: 34260695--34260776 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
34260685 GATAGGTCGC
34260695 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* * *
34260721 ACGTGTA-T-CGGATG-GTAATGG-TCAC-
1 ATGTGTAGTAC-TATGTG-CA-GGCT-ACT
34260746 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
34260772 ATGTG
1 ATGTG
34260777 AACTGAACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.39
26 21 0.51
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:34260834 original size:45 final size:45
Alignment explanation
Indices: 34260783--34260869 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
34260773 TGTGAACTGA
* *
34260783 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
*
34260828 ACATCATTGATTAATAAGGTGGTTGTTATGTGCTGAATCCAC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
34260870 TGAGTATCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:34263558 original size:21 final size:21
Alignment explanation
Indices: 34263534--34263576 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
34263524 TAAGTTAATT
34263534 TACTC-GTAATTTTTCTATTTA
1 TACTCTGTAATTTTTC-ATTTA
* *
34263555 TACTCTTTTATTTTTCATTTA
1 TACTCTGTAATTTTTCATTTA
34263576 T
1 T
34263577 TTTATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.63
Consensus pattern (21 bp):
TACTCTGTAATTTTTCATTTA
Found at i:34264866 original size:18 final size:16
Alignment explanation
Indices: 34264831--34264869 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
34264821 TAGATAAAAT
*
34264831 AATTAAAAATTTATAA
1 AATTAAAAATTAATAA
34264847 AATTAAAAATATAAATAA
1 AATTAAAAAT-T-AATAA
34264865 AATTA
1 AATTA
34264870 GATTAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 1 0.05
18 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTAAAAATTAATAA
Found at i:34265118 original size:15 final size:15
Alignment explanation
Indices: 34265094--34265123 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34265084 TATTAACATA
34265094 TAATTATTAATTTTT
1 TAATTATTAATTTTT
*
34265109 TAATTTTTAATTTTT
1 TAATTATTAATTTTT
34265124 ATCTTTCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TAATTATTAATTTTT
Found at i:34269730 original size:15 final size:15
Alignment explanation
Indices: 34269710--34269747 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
34269700 AACTCGACAT
34269710 TTACTTGTCACTTTA
1 TTACTTGTCACTTTA
34269725 TTACTTGTCACTTTA
1 TTACTTGTCACTTTA
34269740 TTACTTGT
1 TTACTTGT
34269748 TGCGATTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.55
Consensus pattern (15 bp):
TTACTTGTCACTTTA
Found at i:34276634 original size:25 final size:25
Alignment explanation
Indices: 34276574--34276634 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
34276564 CTCCTAAATT
*
34276574 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
34276599 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
34276624 TTAATTAAATT
1 TTAATTAAATT
34276635 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:34278421 original size:30 final size:30
Alignment explanation
Indices: 34278387--34278549 Score: 118
Period size: 30 Copynumber: 5.5 Consensus size: 30
34278377 TTAATTTTTT
34278387 TTGCATTTTGACCCCTAAACTTT-TCAAAAA
1 TTGCATTTTGACCCCTAAACTTTCTC-AAAA
34278417 TTGCATTTTGACCCCTAAACTTTCTCAAAA
1 TTGCATTTTGACCCCTAAACTTTCTCAAAA
* * * * * **
34278447 TTACA-TTTCAACACTAAA-TTTTTTTAAA
1 TTGCATTTTGACCCCTAAACTTTCTCAAAA
* * * ** **
34278475 TTACATTTTAACCCCTAAAATACCTTGAAA
1 TTGCATTTTGACCCCTAAACTTTCTCAAAA
* * *
34278505 TTACATTTTAACCCCTAAAATTTCTCAAAA
1 TTGCATTTTGACCCCTAAACTTTCTCAAAA
*
34278535 TTACACTTTTG-CCCC
1 TTGCA-TTTTGACCCC
34278550 AAAAATTTTG
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
28 12 0.11
29 20 0.18
30 72 0.65
31 6 0.05
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (30 bp):
TTGCATTTTGACCCCTAAACTTTCTCAAAA
Found at i:34278955 original size:15 final size:15
Alignment explanation
Indices: 34278920--34278963 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34278910 ACACAAATAA
* *
34278920 AAGAGAAAGACAAAGG
1 AAGAAAAAGA-AAAAG
34278936 AAGAAAAAGAAAAAG
1 AAGAAAAAGAAAAAG
*
34278951 AAGAAAAGGAAAA
1 AAGAAAAAGAAAA
34278964 GGGGAGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAAAAG
Found at i:34279064 original size:7 final size:7
Alignment explanation
Indices: 34279052--34279147 Score: 54
Period size: 7 Copynumber: 13.3 Consensus size: 7
34279042 AACGAAGGAG
34279052 AAGAAAA
1 AAGAAAA
34279059 AAGAAAAA
1 AAG-AAAA
34279067 AAGAAAA
1 AAGAAAA
34279074 AA-AAGAA
1 AAGAA-AA
*
34279081 GAAGAAAG
1 -AAGAAAA
**
34279089 AAGAAGG
1 AAGAAAA
34279096 AAGAAAA
1 AAGAAAA
***
34279103 AAGGGGGA
1 AA-GAAAA
34279111 AAG-AAA
1 AAGAAAA
34279117 AAGAAAA
1 AAGAAAA
34279124 AAGAATAA
1 AAGAA-AA
*
34279132 AA-AATA
1 AAGAAAA
34279138 AAGAATAA
1 AAGAA-AA
34279146 AA
1 AA
34279148 AACAATTAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
6 9 0.13
7 37 0.54
8 21 0.30
9 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (7 bp):
AAGAAAA
Found at i:34279203 original size:18 final size:18
Alignment explanation
Indices: 34279180--34279216 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
34279170 TACCGACCCG
34279180 ACCCGACCC-GAACTAGCC
1 ACCCGACCCGGAAC-AGCC
34279198 ACCCGACCCGGAACAGCC
1 ACCCGACCCGGAACAGCC
34279216 A
1 A
34279217 GCAGACCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.30, C:0.49, G:0.19, T:0.03
Consensus pattern (18 bp):
ACCCGACCCGGAACAGCC
Found at i:34279447 original size:11 final size:11
Alignment explanation
Indices: 34279421--34279486 Score: 66
Period size: 11 Copynumber: 6.1 Consensus size: 11
34279411 GGCCCAACCT
34279421 GAAAAA-AAAA
1 GAAAAAGAAAA
34279431 GAAAAAAGAAAA
1 G-AAAAAGAAAA
34279443 GAAAAAG-AAA
1 GAAAAAGAAAA
*
34279453 -AAAGAGAAAA
1 GAAAAAGAAAA
*
34279463 GAAAGAGAAAA
1 GAAAAAGAAAA
*
34279474 AAAAAAGGAAAA
1 GAAAAA-GAAAA
34279486 G
1 G
34279487 GCCCAAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
9 5 0.11
10 7 0.15
11 25 0.53
12 10 0.21
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:34279449 original size:18 final size:18
Alignment explanation
Indices: 34279421--34279486 Score: 82
Period size: 17 Copynumber: 3.7 Consensus size: 18
34279411 GGCCCAACCT
34279421 GAAAA-AAAAAGAAAAAA
1 GAAAAGAAAAAGAAAAAA
34279438 GAAAAGAAAAAGAAAAAAGA
1 GAAAAGAAAAAG-AAAAA-A
*
34279458 GAAAAGAAAGAGAAAAAA
1 GAAAAGAAAAAGAAAAAA
*
34279476 -AAAAGGAAAAG
1 GAAAAGAAAAAG
34279487 GCCCAAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
17 14 0.33
18 7 0.16
19 10 0.23
20 12 0.28
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
GAAAAGAAAAAGAAAAAA
Found at i:34279455 original size:20 final size:20
Alignment explanation
Indices: 34279421--34279477 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
34279411 GGCCCAACCT
34279421 GAAAA-AAAAAG--AAAAAA
1 GAAAAGAAAAAGAAAAAAAA
*
34279438 GAAAAGAAAAAGAAAAAAGA
1 GAAAAGAAAAAGAAAAAAAA
*
34279458 GAAAAGAAAGAGAAAAAAAA
1 GAAAAGAAAAAGAAAAAAAA
34279478 AAGGAAAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.15
18 6 0.18
20 23 0.68
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
GAAAAGAAAAAGAAAAAAAA
Found at i:34279457 original size:25 final size:25
Alignment explanation
Indices: 34279422--34279485 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
34279412 GCCCAACCTG
34279422 AAAAAAAAAGAAAAAAGAAA-AGAA
1 AAAAAAAAAGAAAAAAGAAAGAGAA
*
34279446 AAAGAAAAAAGAGAAAAGAAAGAGAA
1 AAA-AAAAAAGAAAAAAGAAAGAGAA
*
34279472 AAAAAAAAGGAAAA
1 AAAAAAAAAGAAAA
34279486 GGCCCAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.09
25 25 0.71
26 7 0.20
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAGAAAAAAGAAAGAGAA
Found at i:34279625 original size:20 final size:20
Alignment explanation
Indices: 34279600--34279638 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
34279590 TTTTTAAATA
34279600 TTTTT-ATTTTATATTTATGT
1 TTTTTAATTTTAT-TTTATGT
34279620 TTTTTAAATTTTATTTTAT
1 TTTTT-AATTTTATTTTAT
34279639 TTTATTCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTAATTTTATTTTATGT
Found at i:34279980 original size:18 final size:17
Alignment explanation
Indices: 34279951--34280108 Score: 138
Period size: 17 Copynumber: 8.8 Consensus size: 17
34279941 AAAAAACTAA
34279951 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
* *
34279968 TCATGTTTCCAAAAAATTC
1 TCGTGTTT-C-AAAAATTT
*
34279987 CCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
34280004 TCGTGTTTTCAAAAATTT
1 TCGTG-TTTCAAAAATTT
*
34280022 TCGTGTTTCAAAAAAATCCT
1 TCGTGTTTC--AAAAAT-TT
* *
34280042 T-GTGTTTTTAAGAATTT
1 TCGTG-TTTCAAAAATTT
* **
34280059 TCGTGTTTCTAAAATCC
1 TCGTGTTTCAAAAATTT
*
34280076 TCGTGTTTTAAAAATTTT
1 TCGTGTTTCAAAAA-TTT
34280094 TCGTGTTCTCAAAAA
1 TCGTGTT-TCAAAAA
34280109 AATAATTATT
Statistics
Matches: 111, Mismatches: 20, Indels: 18
0.74 0.13 0.12
Matches are distributed among these distances:
17 43 0.39
18 35 0.32
19 28 0.25
20 5 0.05
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:34279982 original size:36 final size:35
Alignment explanation
Indices: 34279950--34280035 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 35
34279940 AAAAAAACTA
34279950 ATCGTGTTTCAAAAATTTTCATGTTTCCAAAAAATT
1 ATCGTGTTTCAAAAATTTTCATGTTTCC-AAAAATT
** * *
34279986 CCCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATT
1 ATCGTGTTTCAAAAATTTTCATGTTTCCAAAAATT
*
34280021 TTCGTGTTTCAAAAA
1 ATCGTGTTTCAAAAA
34280036 AATCCTTGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 20 0.45
36 24 0.55
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (35 bp):
ATCGTGTTTCAAAAATTTTCATGTTTCCAAAAATT
Found at i:34280027 original size:35 final size:35
Alignment explanation
Indices: 34279951--34280108 Score: 158
Period size: 35 Copynumber: 4.4 Consensus size: 35
34279941 AAAAAACTAA
* * * *
34279951 TCGTGTTTCAAAAATTTTCATGTTTCCAAAAAATTC
1 TCGTGTTTCAAAAATCTTCGTGTTTTC-AAAAATTT
* *
34279987 CCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTT
1 TCGTGTTTCAAAAATCTTCGTGTTTTCAAAAATTT
* *
34280022 TCGTGTTTCAAAAAAATCCTT-GTGTTTTTAAGAATTT
1 TCGTGTTTC--AAAAAT-CTTCGTGTTTTCAAAAATTT
* *
34280059 TCGTGTTTCTAAAATCCTCGTGTTTT-AAAAATTTT
1 TCGTGTTTCAAAAATCTTCGTGTTTTCAAAAA-TTT
34280094 TCGTGTTCTCAAAAA
1 TCGTGTT-TCAAAAA
34280109 AATAATTATT
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
34 6 0.06
35 37 0.36
36 30 0.29
37 29 0.28
38 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (35 bp):
TCGTGTTTCAAAAATCTTCGTGTTTTCAAAAATTT
Found at i:34280029 original size:54 final size:54
Alignment explanation
Indices: 34279951--34280089 Score: 165
Period size: 54 Copynumber: 2.6 Consensus size: 54
34279941 AAAAAACTAA
* *
34279951 TCGTGTTTCAAAAATTTTCATGTTTCCAAAAAATTCC-CGTG-TTTCAAAAATTT
1 TCGTGTTTCAAAAATTTTCGTGTTT-CAAAAAAATCCTCGTGTTTTCAAAAATTT
* * *
34280004 TCGTGTTTTCAAAAATTTTCGTGTTTCAAAAAAATCCTTGTGTTTTTAAGAATTT
1 TCGTG-TTTCAAAAATTTTCGTGTTTCAAAAAAATCCTCGTGTTTTCAAAAATTT
* ** *
34280059 TCGTGTTTCTAAAATCCTCGTGTTTTAAAAA
1 TCGTGTTTCAAAAATTTTCGTGTTTCAAAAA
34280090 TTTTTCGTGT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
53 15 0.20
54 44 0.59
55 15 0.20
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (54 bp):
TCGTGTTTCAAAAATTTTCGTGTTTCAAAAAAATCCTCGTGTTTTCAAAAATTT
Found at i:34280047 original size:37 final size:37
Alignment explanation
Indices: 34280006--34280144 Score: 139
Period size: 35 Copynumber: 3.9 Consensus size: 37
34279996 AAAAATTTTC
34280006 GTGTTTTCAAAAATTTTCGTGTTTCAAAAAAATCCTT
1 GTGTTTTCAAAAATTTTCGTGTTTCAAAAAAATCCTT
* * * *
34280043 GTGTTTTTAAGAATTTTCGTGTTTC--TAAAATCCTC
1 GTGTTTTCAAAAATTTTCGTGTTTCAAAAAAATCCTT
**
34280078 GTGTTTT-AAAAATTTTTCGTGTTCTCAAAAAAAT-AAT
1 GTGTTTTCAAAAA-TTTTCGTGTT-TCAAAAAAATCCTT
* *
34280115 -T-ATTTCAAAAATCTTCGTGTTT-AAAAAAAT
1 GTGTTTTCAAAAATTTTCGTGTTTCAAAAAAAT
34280145 TCGTATTTTG
Statistics
Matches: 86, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
33 8 0.09
34 5 0.06
35 37 0.43
36 8 0.09
37 23 0.27
38 5 0.06
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.44
Consensus pattern (37 bp):
GTGTTTTCAAAAATTTTCGTGTTTCAAAAAAATCCTT
Found at i:34281045 original size:5 final size:5
Alignment explanation
Indices: 34281025--34281072 Score: 69
Period size: 5 Copynumber: 9.2 Consensus size: 5
34281015 TTTTTATGCT
*
34281025 TTATA TATATTA TTATA TTATA TTATA TTATA TTGTA TTATA TTATA T
1 TTATA T-TA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
34281073 AAGTAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 32 0.82
6 4 0.10
7 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:34281885 original size:18 final size:18
Alignment explanation
Indices: 34281848--34281897 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
34281838 AAATTTTATT
*
34281848 ATTATTATTGTTAATATA
1 ATTATTATTATTAATATA
* *
34281866 ATTATTATTATTATTTTA
1 ATTATTATTATTAATATA
* *
34281884 ATGATTATAATTAA
1 ATTATTATTATTAA
34281898 AAGTGAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
ATTATTATTATTAATATA
Found at i:34288447 original size:5 final size:5
Alignment explanation
Indices: 34288432--34288481 Score: 84
Period size: 5 Copynumber: 10.2 Consensus size: 5
34288422 TTTTTATGCT
*
34288432 TTATA -TATA TTATA TTATA TTATA TTATA TTATA TTGTA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
34288481 T
1 T
34288482 AAGTAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:34289299 original size:18 final size:18
Alignment explanation
Indices: 34289262--34289311 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
34289252 AAATTTTATT
*
34289262 ATTATTATTGTTAATATA
1 ATTATTATTATTAATATA
* *
34289280 ATTATTATTATTATTTTA
1 ATTATTATTATTAATATA
* *
34289298 ATGATTATAATTAA
1 ATTATTATTATTAA
34289312 AAGTGAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
ATTATTATTATTAATATA
Found at i:34295434 original size:8 final size:8
Alignment explanation
Indices: 34295417--34295475 Score: 61
Period size: 8 Copynumber: 7.6 Consensus size: 8
34295407 TATTATGCCT
34295417 AAAAAAAC
1 AAAAAAAC
*
34295425 AAAAAGAC
1 AAAAAAAC
34295433 --AAAAAC
1 AAAAAAAC
34295439 AAAAAAAC
1 AAAAAAAC
34295447 AAAAAAAC
1 AAAAAAAC
34295455 AAACAAAA-
1 AAA-AAAAC
* *
34295463 AAGAAAAG
1 AAAAAAAC
34295471 AAAAA
1 AAAAA
34295476 GAAAAATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 5 0.12
7 4 0.09
8 30 0.70
9 4 0.09
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:34295438 original size:14 final size:13
Alignment explanation
Indices: 34295419--34295481 Score: 58
Period size: 14 Copynumber: 4.7 Consensus size: 13
34295409 TTATGCCTAA
34295419 AAAAACAAAAAGAC
1 AAAAA-AAAAAGAC
*
34295433 AAAAACAAAAAAAC
1 AAAAA-AAAAAGAC
*
34295447 AAAAAAACAA-AC
1 AAAAAAAAAAGAC
34295459 AAAAAAGAAAAGA-
1 AAAAAA-AAAAGAC
34295472 AAAAGAAAAA
1 AAAA-AAAAA
34295482 TCAAGATGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.19
13 14 0.33
14 21 0.49
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAC
Found at i:34295445 original size:22 final size:22
Alignment explanation
Indices: 34295417--34295481 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
34295407 TATTATGCCT
*
34295417 AAAAAAACAAAAAGACAAAAAC
1 AAAAAAACAAAAAGACAAAAAA
*
34295439 AAAAAAACAAAAAAACAAACAAA
1 AAAAAAACAAAAAGACAAA-AAA
*
34295462 AAAGAAAAGAAAAAGA-AAAA
1 AAA-AAAACAAAAAGACAAAA
34295482 TCAAGATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 19 0.51
23 8 0.22
24 10 0.27
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (22 bp):
AAAAAAACAAAAAGACAAAAAA
Found at i:34297974 original size:151 final size:148
Alignment explanation
Indices: 34296360--34297978 Score: 1493
Period size: 151 Copynumber: 10.6 Consensus size: 148
34296350 TTCTGTTTTT
* * *
34296360 TTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA-TTCT
* * *
34296424 TAATTTAATTTCTGTTTTTTCAAAAAATCAACTCATAATAC-AGAAGTGAGTTGAGCCTCGGGTC
64 T-A---AATTTCTG-TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
34296488 ACGCTGAGGTATTTTTTTAAATTTCTGC
123 ACGCTGAGGTA--TTTTTAAATTTCTGC
* * *
34296516 TTTTTTCAAAAAATCAACTCATAATAC-AGATGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 --TTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA---
* * *
34296580 TTTTTAATTTAATTTCTGTTTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC
60 TTCTT-A---AATTTCTG--TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
34296644 GGGTCACGCTGAGGTATTTTTAAATTTCTGC
118 GGGTCACGCTGAGGTATTTTTAAATTTCTGC
* *
34296675 TTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT-
1 --TTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTC
* * * * *
34296738 TTTAATTTCTGTCTTTTTTAAAAATCAACTCATAATAC-AGAGGTGGGTTGAGCCTCGGGTCACG
63 TTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACG
* *
34296802 CTGAGGTATTTGT-AATTTATGTC
126 CTGAGGTATTTTTAAATTTCTG-C
*** * **
34296825 TTTTTTTTTTCAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGTTGAGGTATT
1 ----TTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATT
* * *
34296889 TTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAGTAC-AGAGGTGAGTTGAGCCTCGGGTCA
62 CTTAAATTTCTG--TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
34296953 CGCTGAGGTATTTTT-AATTTATGTC
124 CGCTGAGGTATTTTTAAATTTCTG-C
* * *
34296978 TTTTTTTAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTC
1 --TTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA-TTC
** *
34297042 TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCAT
63 --TTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
34297107 GCCGAGGTATTTCTTTTAAATTTCTG-
125 GCTGAGGTA--T-TTTTAAATTTCTGC
* * ** * *
34297133 TTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCAAGGTATTTCT
1 TTTT-CAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA-TTC-
* *
34297198 TTTAAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACGC
63 -TTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGC
* * * *
34297263 CGAGGTATTTTTCAATTCCTGT
127 TGAGGTATTTTTAAATTTCTGC
* * * *
34297285 TTTTCAAAAATCAACTCATACTGCAAGGGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTC
1 TTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAC--GCCGAGGTA-TTC
* *
34297350 TTTTAAATTTC-GTATTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCG
63 --TTAAATTTCTGT-TTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--
* * *
34297414 CATGCCGAGGTATTCTTTTCAATTTCTG-
122 CACGCTGAGGTA-T-TTTTAAATTTCTGC
* * * * *
34297442 TATTTCAAAAAATCAACTCATAATGAGAGAAGTGAGTTGAGCCT-TGGACACATGCCGATGTATT
1 T-TTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAC--GCCGAGGTA-T
*
34297506 TCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGTCG
61 TC--TTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--
**
34297571 CACGCTGAGGTA-TTTTAAATTT-TTT
122 CACGCTGAGGTATTTTTAAATTTCTGC
* * ** * *
34297596 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATCGAGGTATTTTTC
1 TTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTCTTA
* * ** **
34297661 ATTTTTTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGTCGCACGCT
66 AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCT
*
34297726 GAGGTA-TTTTAAATTTCTGT
128 GAGGTATTTTTAAATTTCTGC
* * * * * * *
34297746 TTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTAAGCCTCGAGTCACGTCGAGGTATTTTTC
1 TTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTCTTA
* * *
34297811 AATTTCTATTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACG-TCGA
66 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCT-GA
*
34297875 GGTATTTTTCAA-TTCTTGC
130 GGTATTTTTAAATTTC-TGC
* * * *
34297894 TTTTCAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTG-GGCTCGGGTTGCACGCCGAGCTAT
1 TTTTC---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-T-CACGCCGAGGTAT
*
34297958 TCTT-GATTTCTGTTTTTCAAA
61 TCTTAAATTTCTGTTTTTCAAA
34297979 TAAAAAGAAA
Statistics
Matches: 1301, Mismatches: 118, Indels: 91
0.86 0.08 0.06
Matches are distributed among these distances:
146 1 0.00
147 13 0.01
148 25 0.02
149 109 0.08
150 140 0.11
151 222 0.17
152 102 0.08
153 134 0.10
154 128 0.10
155 53 0.04
156 17 0.01
157 61 0.05
158 108 0.08
159 109 0.08
160 19 0.01
161 60 0.05
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (148 bp):
TTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTCTTA
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
GTATTTTTAAATTTCTGC
Found at i:34297975 original size:77 final size:75
Alignment explanation
Indices: 34296359--34297978 Score: 1591
Period size: 77 Copynumber: 21.1 Consensus size: 75
34296349 ATTCTGTTTT
* * *
34296359 TTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTT
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA-TTT
34296423 TTAATTTAATTTCTG
65 TT-A---AATTTCTG
* * * *
34296438 TTTTTTCAAAAAATCAACTCATAATAC-AGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 -TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA--T
34296502 TTTTAAATTTCTG
63 TTTTAAATTTCTG
* * * *
34296515 CTTTTTTCAAAAAATCAACTCATAATAC-AGATGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
1 --TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA--
34296579 TTTTTTAATTTAATTTCTG
62 -TTTTT-A---AATTTCTG
* * *
34296598 TTTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
1 --TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATT
34296662 TTTAAATTTCTG
64 TTTAAATTTCTG
* * *
34296674 CTTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
1 --TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATT
34296738 TTT-AATTTCTG
64 TTTAAATTTCTG
** * * * *
34296749 TCTTTTTTAAAAATCAACTCATAATAC-AGAGGTGGGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 T-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT
* * *
34296813 GTAATTTATGTCTT
65 TTAA---ATTTCTG
**** * * **
34296827 TTTTTTTTCAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGTTGAGGTATTTT
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTT
34296891 TAAATTTCTG
66 TAAATTTCTG
* * *
34296901 CTTTTTTCAAAAAATCAACTCATAGTAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
1 --TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATT
*
34296965 TTT-AATTTATG
64 TTTAAATTTCTG
** * * *
34296976 TCTTTTTTTAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
1 --TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA--
34297040 TCTTTTAAATTTCTG
62 T-TTTTAAATTTCTG
** *
34297055 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTC
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA--T-
34297120 TTTTAAATTTCTG
63 TTTTAAATTTCTG
* * ** * *
34297133 -TTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCAAGGTATTTC
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA--T-
*
34297197 TTTTAAATTTATG
63 TTTTAAATTTCTG
*
34297210 TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACGCCGAGGTATTTT
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTT
* *
34297274 TCAATTCCTG
66 TAAATTTCTG
* * * *
34297284 TTTTTC-AAAAATCAACTCATACTGCAAGGGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATT
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC--GCCGAGGTA--
34297348 TCTTTTAAATTTC-G
62 T-TTTTAAATTTCTG
* * *
34297362 TATTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCGCATGCCGAGGTAT
1 T-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCCGAGGTA-
*
34297427 TCTTTTCAATTTCTG
62 T-TTTTAAATTTCTG
* * * * * * *
34297442 TATTTCAAAAAATCAACTCATAATGAGAGAAGTGAGTTGAGCCT-TGGACACATGCCGATGTATT
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC--GCCGAGGTA--
34297506 TCTTTTAAATTTCTG
62 T-TTTTAAATTTCTG
* *
34297521 TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGTCGCACGCTGAGGTA-T
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCCGAGGTATT
*
34297584 TTTAAATTT-TT
64 TTTAAATTTCTG
* **
34297595 TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATCGAGGTATTTT
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTT
* * * *
34297659 TCATTTTTTA
66 TAAATTTCTG
* ** *
34297669 CTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGTCGCACGCTGAGGTA-T
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCCGAGGTATT
34297733 TTTAAATTTCTG
64 TTTAAATTTCTG
* * * *
34297745 TTTTTC-AAAAATCAACTCATATTGCGATAGGTGAGTTAAGCCTCGAGTCACGTCGAGGTATTTT
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTT
* *
34297809 TCAATTTCTA
66 TAAATTTCTG
* * *
34297819 TTTTTC-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACGTCGAGGTATTTT
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTT
*
34297883 TCAA-TTCTTG
66 TAAATTTC-TG
* * * *
34297893 CTTTTCAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTG-GGCTCGGGTTGCACGCCGAGCTA
1 TTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-T-CACGCCGAGGTA
* *
34297957 TTCTT-GATTTCTG
62 TTTTTAAATTTCTG
34297970 TTTTTCAAA
1 TTTTTCAAA
34297979 TAAAAAGAAA
Statistics
Matches: 1362, Mismatches: 129, Indels: 103
0.85 0.08 0.06
Matches are distributed among these distances:
72 9 0.01
73 22 0.02
74 256 0.19
75 165 0.12
76 164 0.12
77 261 0.19
78 184 0.14
79 108 0.08
80 114 0.08
81 9 0.01
82 2 0.00
83 68 0.05
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (75 bp):
TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTT
TAAATTTCTG
Found at i:34298178 original size:30 final size:29
Alignment explanation
Indices: 34298145--34298304 Score: 162
Period size: 30 Copynumber: 5.4 Consensus size: 29
34298135 AATTTTTTTG
*
34298145 CATTTTGACCCCTAAACTTTTCTAAAATTG
1 CATTTTGACCCCTAAAC-TTTCTAAAATTA
34298175 CATTTTGACCCCTAAACTTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTCT-AAAATTA
* * * * * *
34298205 CA-TTTCAACACTAAAATTTTTTAAATTA
1 CATTTTGACCCCTAAACTTTCTAAAATTA
* *
34298233 CATTTTGACCCCTAAACTTCCTTGAAATTA
1 CATTTTGACCCCTAAACTTTC-TAAAATTA
* *
34298263 CCTTTTAACCCCTAAACTTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTCT-AAAATTA
34298293 CACTTTTG-CCCC
1 CA-TTTTGACCCC
34298305 AAAAAATTTA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
28 8 0.08
29 32 0.30
30 61 0.58
31 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (29 bp):
CATTTTGACCCCTAAACTTTCTAAAATTA
Found at i:34298706 original size:15 final size:15
Alignment explanation
Indices: 34298671--34298714 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34298661 ACAAAAATAA
* *
34298671 AAGAGAAAGACAAAGG
1 AAGAAAAAGA-AAAAG
34298687 AAGAAAAAGAAAAAG
1 AAGAAAAAGAAAAAG
*
34298702 AAGAAAAGGAAAA
1 AAGAAAAAGAAAA
34298715 GGGGAGAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAAAAG
Found at i:34298843 original size:10 final size:10
Alignment explanation
Indices: 34298801--34298856 Score: 71
Period size: 10 Copynumber: 5.8 Consensus size: 10
34298791 TGAACGAACG
34298801 AGAAGAAAAA
1 AGAAGAAAAA
34298811 AGAA-AAAAA
1 AGAAGAAAAA
34298820 AGAA-AAAAA
1 AGAAGAAAAA
*
34298829 AGAAGAAGAA
1 AGAAGAAAAA
**
34298839 AGAAGAAGGA
1 AGAAGAAAAA
34298849 AGAAGAAA
1 AGAAGAAA
34298857 GGGGGAAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
9 18 0.43
10 24 0.57
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AGAAGAAAAA
Found at i:34298962 original size:18 final size:18
Alignment explanation
Indices: 34298948--34298982 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34298938 CCCGACCCGA
*
34298948 AACAGCCAGCAGACCCAC
1 AACACCCAGCAGACCCAC
*
34298966 AACACCCAGCAGGCCCA
1 AACACCCAGCAGACCCA
34298983 GCAGATTAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.46, G:0.17, T:0.00
Consensus pattern (18 bp):
AACACCCAGCAGACCCAC
Found at i:34299190 original size:11 final size:11
Alignment explanation
Indices: 34299174--34299236 Score: 63
Period size: 11 Copynumber: 5.4 Consensus size: 11
34299164 CCCAACCTGA
34299174 AAAAAAAAAAG
1 AAAAAAAAAAG
34299185 AAAAAAGAAAAG
1 AAAAAA-AAAAG
34299197 AAAAAGAAAAAAG
1 -AAAA-AAAAAAG
* *
34299210 AGAAAAGAAAG
1 AAAAAAAAAAG
*
34299221 AGAAAAAAAAGG
1 A-AAAAAAAAAG
34299233 AAAA
1 AAAA
34299237 GGCCCAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
11 16 0.37
12 16 0.37
13 9 0.21
14 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:34299207 original size:25 final size:25
Alignment explanation
Indices: 34299172--34299230 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
34299162 GGCCCAACCT
34299172 GAAAAAAAAAAAGAAAAAAGAAA-A
1 GAAAAAAAAAAAGAAAAAAGAAAGA
*
34299196 GAAAAAGAAAAAAGAGAAAAGAAAGA
1 GAAAAA-AAAAAAGAAAAAAGAAAGA
34299222 GAAAAAAAA
1 GAAAAAAAA
34299231 GGAAAAGGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 6 0.19
25 19 0.59
26 7 0.22
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (25 bp):
GAAAAAAAAAAAGAAAAAAGAAAGA
Found at i:34299208 original size:20 final size:20
Alignment explanation
Indices: 34299172--34299237 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
34299162 GGCCCAACCT
34299172 GAAAA-AAAAA-AAGAAAAAA
1 GAAAAGAAAAAGAA-AAAAAA
*
34299191 GAAAAGAAAAAGAAAAAAGA
1 GAAAAGAAAAAGAAAAAAAA
*
34299211 GAAAAGAAAGAGAAAAAAAA
1 GAAAAGAAAAAGAAAAAAAA
34299231 GGAAAAG
1 -GAAAAG
34299238 GCCCAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
19 5 0.12
20 28 0.68
21 8 0.20
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
GAAAAGAAAAAGAAAAAAAA
Found at i:34299362 original size:5 final size:5
Alignment explanation
Indices: 34299352--34299394 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
34299342 TTTTAAATAT
*
34299352 TTTTA TTTTA TATTTA TGTTT- TTTAA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA T-TTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TT
34299395 CGTTAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
4 2 0.06
5 23 0.70
6 8 0.24
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:34299376 original size:20 final size:20
Alignment explanation
Indices: 34299351--34299388 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34299341 TTTTTAAATA
34299351 TTTTT-ATTTTATATTTATGT
1 TTTTTAATTTTAT-TTTATGT
34299371 TTTTTAATTTTATTTTAT
1 TTTTTAATTTTATTTTAT
34299389 TTTATTCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTTAATTTTATTTTATGT
Found at i:34299728 original size:18 final size:17
Alignment explanation
Indices: 34299699--34299857 Score: 122
Period size: 17 Copynumber: 8.8 Consensus size: 17
34299689 AAAAAACTAA
34299699 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
* *
34299716 TCATGTTTCCAAAAAATTC
1 TCGTGTTT-C-AAAAATTT
* *
34299735 CCGTGTTTTAAAAATTT
1 TCGTGTTTCAAAAATTT
34299752 TCGTGTTTTCAAAAATTT
1 TCGTG-TTTCAAAAATTT
*
34299770 TCGTGTTTCAAAAAAAATCCT
1 TCGTGTTTC---AAAAAT-TT
* *
34299791 T-GTGTTTTTAAGAATTT
1 TCGTG-TTTCAAAAATTT
* **
34299808 TCGTGTTTCTAAAATCC
1 TCGTGTTTCAAAAATTT
*
34299825 TCGTGTTTTAAAAATTTT
1 TCGTGTTTCAAAAA-TTT
34299843 TCGTGTTCTCAAAAA
1 TCGTGTT-TCAAAAA
34299858 AATAATTATT
Statistics
Matches: 109, Mismatches: 22, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
17 43 0.39
18 33 0.30
19 19 0.17
20 9 0.08
21 5 0.05
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:34299730 original size:36 final size:35
Alignment explanation
Indices: 34299698--34299783 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 35
34299688 AAAAAAACTA
34299698 ATCGTGTTTCAAAAATTTTCATGTTTCCAAAAAATT
1 ATCGTGTTTCAAAAATTTTCATGTTTCC-AAAAATT
** * * *
34299734 CCCGTGTTTTAAAAATTTTCGTGTTTTCAAAAATT
1 ATCGTGTTTCAAAAATTTTCATGTTTCCAAAAATT
*
34299769 TTCGTGTTTCAAAAA
1 ATCGTGTTTCAAAAA
34299784 AAATCCTTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 19 0.45
36 23 0.55
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (35 bp):
ATCGTGTTTCAAAAATTTTCATGTTTCCAAAAATT
Found at i:34299775 original size:35 final size:36
Alignment explanation
Indices: 34299699--34299849 Score: 114
Period size: 35 Copynumber: 4.2 Consensus size: 36
34299689 AAAAAACTAA
* * * * *
34299699 TCGTGTTT-CAAAAATTTTCATGTTTCCAAAAAATTC
1 TCGTGTTTATAAAAATCTTCGTGTTTTC-AAAAATTT
* *
34299735 CCGTGTTT-TAAAAATTTTCGTGTTTTCAAAAATTT
1 TCGTGTTTATAAAAATCTTCGTGTTTTCAAAAATTT
* * *
34299770 TCGTGTTTCAAAAAAAATCCTT-GTGTTTTTAAGAATTT
1 TCGTGTTT--ATAAAAAT-CTTCGTGTTTTCAAAAATTT
* *
34299808 TCGTGTTTCT-AAAATCCTCGTGTTTT-AAAAATTTT
1 TCGTGTTTATAAAAATCTTCGTGTTTTCAAAAA-TTT
34299843 TCGTGTT
1 TCGTGTT
34299850 CTCAAAAAAA
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
34 6 0.06
35 36 0.38
36 23 0.24
38 28 0.29
39 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.46
Consensus pattern (36 bp):
TCGTGTTTATAAAAATCTTCGTGTTTTCAAAAATTT
Found at i:34299796 original size:55 final size:54
Alignment explanation
Indices: 34299699--34299838 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 54
34299689 AAAAAACTAA
* * *
34299699 TCGTGTTTCAAAAATTTTCATGTTTCCAAAAAATTCCCGTG-TTTTAAAAATTT
1 TCGTGTTTCAAAAATTTTCGTGTTTCAAAAAAAATCCCGTGTTTTTAAAAATTT
* *
34299752 TCGTGTTTTCAAAAATTTTCGTGTTTCAAAAAAAATCCTTGTGTTTTTAAGAATTT
1 TCGTG-TTTCAAAAATTTTCGTGTTTCAAAAAAAATCC-CGTGTTTTTAAAAATTT
* ** *
34299808 TCGTGTTTCTAAAATCCTCGTGTTTTAAAAA
1 TCGTGTTTCAAAAATTTTCGTGTTTCAAAAA
34299839 TTTTTCGTGT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 5 0.07
54 29 0.39
55 25 0.33
56 16 0.21
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (54 bp):
TCGTGTTTCAAAAATTTTCGTGTTTCAAAAAAAATCCCGTGTTTTTAAAAATTT
Found at i:34299890 original size:18 final size:18
Alignment explanation
Indices: 34299699--34299892 Score: 87
Period size: 18 Copynumber: 10.8 Consensus size: 18
34299689 AAAAAACTAA
*
34299699 TCGTGTTT-CAAAAATTT
1 TCGTGTTTAAAAAAATTT
* * *
34299716 TCATGTTTCCAAAAAATTC
1 TCGTGTTT-AAAAAAATTT
* *
34299735 CCGTGTTT-TAAAAATTT
1 TCGTGTTTAAAAAAATTT
**
34299752 TCGTGTTTTCAAAAATTT
1 TCGTGTTTAAAAAAATTT
*
34299770 TCGTGTTTCAAAAAAAATCCT
1 TCGTGTTT--AAAAAAAT-TT
** *
34299791 T-GTGTTTTTAAGAATTT
1 TCGTGTTTAAAAAAATTT
** **
34299808 TCGTGTTT-CTAAAATCC
1 TCGTGTTTAAAAAAATTT
* *
34299825 TCGTGTTTTAAAAATTTT
1 TCGTGTTTAAAAAAATTT
**
34299843 TCGTGTTCTCAAAAAAATAA
1 TCGTGTT-T-AAAAAAATTT
* *
34299863 T--TATTT-AAAAAATCT
1 TCGTGTTTAAAAAAATTT
34299878 TCGTGTTTAAAAAAA
1 TCGTGTTTAAAAAAA
34299893 ATTCGTATTT
Statistics
Matches: 130, Mismatches: 34, Indels: 25
0.69 0.18 0.13
Matches are distributed among these distances:
15 8 0.06
17 40 0.31
18 47 0.36
19 14 0.11
20 19 0.15
21 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (18 bp):
TCGTGTTTAAAAAAATTT
Found at i:34307216 original size:33 final size:33
Alignment explanation
Indices: 34307179--34307249 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
34307169 ACCTGTATCT
*
34307179 CAGTCACATAGGT-CTCCTTCACCTGCCCCACTA
1 CAGTCACATAGGTCCT-CTTCACCTGCCCCACAA
*
34307212 CAGTCACATATGTCCTCTTCACCTGCCCCACAA
1 CAGTCACATAGGTCCTCTTCACCTGCCCCACAA
34307245 CAGTC
1 CAGTC
34307250 CTCCATCATG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 33 0.94
34 2 0.06
ACGTcount: A:0.23, C:0.42, G:0.11, T:0.24
Consensus pattern (33 bp):
CAGTCACATAGGTCCTCTTCACCTGCCCCACAA
Found at i:34308977 original size:19 final size:19
Alignment explanation
Indices: 34308946--34309013 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
34308936 GGAATGTTAG
*
34308946 AGTAGTTAGTAAAGCTGTT
1 AGTAGTTAGTAAAACTGTT
34308965 AGTAGTT-GTTAAAACTGTT
1 AGTAGTTAG-TAAAACTGTT
* *
34308984 -GTACGGTTAGT-CAACAGTT
1 AGTA--GTTAGTAAAACTGTT
34309003 GAGTAGTTAGT
1 -AGTAGTTAGT
34309014 TATGCTTACG
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
18 4 0.10
19 28 0.70
20 4 0.10
21 4 0.10
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.37
Consensus pattern (19 bp):
AGTAGTTAGTAAAACTGTT
Found at i:34315856 original size:30 final size:30
Alignment explanation
Indices: 34315822--34315914 Score: 159
Period size: 30 Copynumber: 3.1 Consensus size: 30
34315812 ACTTAACAAG
*
34315822 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
34315852 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
* *
34315882 CAAATGTCTTTAAAATTATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
34315912 CAA
1 CAA
34315915 TAAAATAAGT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAACAAAATTAA
Found at i:34318354 original size:3 final size:3
Alignment explanation
Indices: 34318334--34318368 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
34318324 AAATTGATGA
34318334 AAG AA- AAG AAG AATG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG AA
34318369 AAGGGGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:34321358 original size:19 final size:19
Alignment explanation
Indices: 34321331--34321367 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
34321321 AATACGAGCA
34321331 AAAACAAATAAAAACAAAAT
1 AAAACAAAT-AAAACAAAAT
34321351 AAAA-AAATAAAACAAAA
1 AAAACAAATAAAACAAAA
34321368 CAATTATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (19 bp):
AAAACAAATAAAACAAAAT
Found at i:34323684 original size:44 final size:44
Alignment explanation
Indices: 34323636--34323732 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
34323626 CGCTTCAATA
* *
34323636 CAACTTTAGGGAGATAGG-ATTAGTAGCTTCAGCCTGCTCCACTG
1 CAACTTTAGGGAGATAGGAATTA-TAGCTTCAACCTGCCCCACTG
* *
34323680 CAACTTCAGGGAGATAGGAATTATATCTTCAACCTGCCCCACTG
1 CAACTTTAGGGAGATAGGAATTATAGCTTCAACCTGCCCCACTG
34323724 CAACTTTAG
1 CAACTTTAG
34323733 AGGGATAAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 43 0.91
45 4 0.09
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (44 bp):
CAACTTTAGGGAGATAGGAATTATAGCTTCAACCTGCCCCACTG
Found at i:34323755 original size:44 final size:44
Alignment explanation
Indices: 34323707--34323790 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
34323697 GAATTATATC
* * * *
34323707 TTCAACCTGCCCCACTGCAACTTTAGAGGGATAAGGTTTGTTAT
1 TTCAACCTACCCCACTACAACTTCAGAGAGATAAGGTTTGTTAT
* * *
34323751 TTCAACCTACTCTACTACAACTTCAGAGAGATAATGTTTG
1 TTCAACCTACCCCACTACAACTTCAGAGAGATAAGGTTTG
34323791 ATATGATCTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (44 bp):
TTCAACCTACCCCACTACAACTTCAGAGAGATAAGGTTTGTTAT
Found at i:34324911 original size:45 final size:45
Alignment explanation
Indices: 34324859--34324945 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
34324849 AGTTCGAAAT
* *
34324859 GAATAAATTAATCAAGATAACAAATTTTTCCAAGATACGAAATGA
1 GAATAAATTAATCAAGATAACAAATTTTGCCAAAATACGAAATGA
* ** *
34324904 GAATAAATTGATCAAGATGGCATATTTTGCCAAAATACGAAA
1 GAATAAATTAATCAAGATAACAAATTTTGCCAAAATACGAAA
34324946 ACGAATAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.26
Consensus pattern (45 bp):
GAATAAATTAATCAAGATAACAAATTTTGCCAAAATACGAAATGA
Found at i:34325227 original size:1 final size:1
Alignment explanation
Indices: 34325217--34325295 Score: 50
Period size: 1 Copynumber: 79.0 Consensus size: 1
34325207 TGGCCTCTAC
* * * * * * * * * * *
34325217 TTTTTATTTTTCTTTTCTTTTTCTTCTTTTCTTTTTTTTTCTTTTCTTTTCTTTTTCTTTTATTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
34325282 TTTTTGTTTTTTTT
1 TTTTTTTTTTTTTT
34325296 AACATTCTTT
Statistics
Matches: 54, Mismatches: 24, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.03, C:0.11, G:0.01, T:0.85
Consensus pattern (1 bp):
T
Found at i:34325232 original size:5 final size:5
Alignment explanation
Indices: 34325224--34325295 Score: 78
Period size: 5 Copynumber: 14.8 Consensus size: 5
34325214 TACTTTTTAT
* *
34325224 TTTTC TTTTC TTTT- TCTTC TTTTC TTTTT TTTTC TTTTC TTTTC TTTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC
* *
34325274 TTTTA TTTT- TTTTG TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTT
34325296 AACATTCTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
4 11 0.19
5 43 0.73
6 5 0.08
ACGTcount: A:0.01, C:0.12, G:0.01, T:0.85
Consensus pattern (5 bp):
TTTTC
Found at i:34325232 original size:6 final size:6
Alignment explanation
Indices: 34325216--34325277 Score: 62
Period size: 6 Copynumber: 10.8 Consensus size: 6
34325206 TTGGCCTCTA
*
34325216 CTTTTT ATTTTT C-TTTT CTTTTT CTTCTTT -TCTTTT -TTTTT C-TTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTT-TTT CT-TTTT CTTTTT CTTTTT
34325262 C-TTTT CTTTTT CTTTT
1 CTTTTT CTTTTT CTTTT
34325278 ATTTTTTTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
5 19 0.39
6 26 0.53
7 4 0.08
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:34325237 original size:11 final size:11
Alignment explanation
Indices: 34325218--34325283 Score: 73
Period size: 11 Copynumber: 5.9 Consensus size: 11
34325208 GGCCTCTACT
*
34325218 TTTTATTTTTC
1 TTTTCTTTTTC
34325229 TTTTCTTTTTCTTC
1 TTTTC--TTT-TTC
34325243 TTTTCTTTTT-
1 TTTTCTTTTTC
34325253 TTTTC-TTTTC
1 TTTTCTTTTTC
34325263 TTTTCTTTTTC
1 TTTTCTTTTTC
*
34325274 TTTTATTTTT
1 TTTTCTTTTT
34325284 TTTGTTTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
9 4 0.08
10 10 0.21
11 20 0.42
12 3 0.06
13 3 0.06
14 8 0.17
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:34325286 original size:34 final size:34
Alignment explanation
Indices: 34325223--34325295 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 34
34325213 CTACTTTTTA
34325223 TTTTTCTTTTCTTTTTCTTCTTTTCTTTTT-TTT
1 TTTTTCTTTTCTTTTTCTTCTTTTCTTTTTGTTT
*
34325256 TCTTTTCTTTTCTTTTTCTT-TTATTTTTTTTGTTT
1 T-TTTTCTTTTCTTTTTCTTCTT-TTCTTTTTGTTT
34325291 TTTTT
1 TTTTT
34325296 AACATTCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
33 3 0.08
34 29 0.81
35 4 0.11
ACGTcount: A:0.01, C:0.12, G:0.01, T:0.85
Consensus pattern (34 bp):
TTTTTCTTTTCTTTTTCTTCTTTTCTTTTTGTTT
Found at i:34331482 original size:31 final size:30
Alignment explanation
Indices: 34331447--34331506 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
34331437 GGAGGTGGGA
*
34331447 TGGGAAGAGAATAAAACTTTTAGGGGAAAAG
1 TGGGAAG-GAATAAAAATTTTAGGGGAAAAG
* * *
34331478 TGGGACGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGAATAAAAATTTTAGGGGAAAA
34331507 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.42, C:0.03, G:0.35, T:0.20
Consensus pattern (30 bp):
TGGGAAGGAATAAAAATTTTAGGGGAAAAG
Found at i:34331816 original size:9 final size:9
Alignment explanation
Indices: 34331799--34331829 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34331789 TCAAGTTGAT
34331799 TCGAATAAC
1 TCGAATAAC
*
34331808 TCGATTAAC
1 TCGAATAAC
34331817 TCGAATAAC
1 TCGAATAAC
34331826 TCGA
1 TCGA
34331830 TTCATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:34332815 original size:17 final size:16
Alignment explanation
Indices: 34332788--34332823 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
34332778 ATGGGTCAGA
34332788 GGGTTTTGGGCCAATT
1 GGGTTTTGGGCCAATT
34332804 GGGTTATTGGGCCAATT
1 GGGTT-TTGGGCCAATT
34332821 GGG
1 GGG
34332824 CCATTCGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.14, C:0.11, G:0.42, T:0.33
Consensus pattern (16 bp):
GGGTTTTGGGCCAATT
Found at i:34335920 original size:106 final size:106
Alignment explanation
Indices: 34335728--34335929 Score: 275
Period size: 106 Copynumber: 1.9 Consensus size: 106
34335718 AAGAAAAAAT
* *
34335728 TTTCAAATTAAGGCAATATTTTGCGTTGGAAAATTCGAGAAAACGTGCCCTAACGTACTGAGTCT
1 TTTCAAAGTAAGGCAATATTTTGCGTTAGAAAATTCGAGAAAACGTGCCCTAACGTACTGAGTCT
*
34335793 CGATTTCTCGTCTGATCAAATAGCCGAATATGCTTTCGAAA
66 CGATTTCTCGTCTGATCAAATAGCCAAATATGCTTTCGAAA
* * * * * *
34335834 TTTCAAAGTGAGGCAATATTTTGCATTTAG-AAATTCGAGAGAACGTGCCCTAACGTGCTGGGTT
1 TTTCAAAGTAAGGCAATATTTTGC-GTTAGAAAATTCGAGAAAACGTGCCCTAACGTACTGAGTC
34335898 TCGATTTCTCGT-TCGA-CTAAATAGCCAAATAT
65 TCGATTTCTCGTCT-GATC-AAATAGCCAAATAT
34335930 CCTCTTAAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
105 2 0.02
106 79 0.94
107 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (106 bp):
TTTCAAAGTAAGGCAATATTTTGCGTTAGAAAATTCGAGAAAACGTGCCCTAACGTACTGAGTCT
CGATTTCTCGTCTGATCAAATAGCCAAATATGCTTTCGAAA
Found at i:34337877 original size:69 final size:69
Alignment explanation
Indices: 34337643--34337887 Score: 264
Period size: 69 Copynumber: 3.6 Consensus size: 69
34337633 AGTATGTTAC
* * * *
34337643 ACTTAAAAACAGTAGCAAAATCTTAGATATTTAAGAACATATGGCAAACCAACACTCAACTAAAA
1 ACTTAAAAACAGTAGCAAAATATTAGATATTTAAGAACATATGACAAACTAACACTTAACTAAAA
34337708 CAAG
66 CAAG
* * * * * *** * ** *
34337712 ACTTAGAAACAGTAGCAAAACATTAGATATTTGAGAACATAAGA-AAATTTTGACATATGTTACA
1 ACTTAAAAACAGTAGCAAAATATTAGATATTTAAGAACATATGACAAACTAACACTTA-ACTAAA
34337776 AC-AG
65 ACAAG
* * *
34337780 -TTTACAAACAGTAGCCAAAA-AGTAGATATTTAAGAACATATGACAAACTAACACTTAACTAAA
1 ACTTAAAAACAGTAG-CAAAATATTAGATATTTAAGAACATATGACAAACTAACACTTAACTAAA
34337843 ACAAG
65 ACAAG
*
34337848 ACTTAAAAACAATAGCAAAATATTAGATATTTAAGAACAT
1 ACTTAAAAACAGTAGCAAAATATTAGATATTTAAGAACAT
34337888 GTGAAATTTT
Statistics
Matches: 137, Mismatches: 33, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
67 37 0.27
68 28 0.20
69 72 0.53
ACGTcount: A:0.51, C:0.15, G:0.11, T:0.24
Consensus pattern (69 bp):
ACTTAAAAACAGTAGCAAAATATTAGATATTTAAGAACATATGACAAACTAACACTTAACTAAAA
CAAG
Found at i:34337899 original size:136 final size:136
Alignment explanation
Indices: 34337649--34337911 Score: 393
Period size: 136 Copynumber: 1.9 Consensus size: 136
34337639 TTACACTTAA
** *
34337649 AAACAGTAGCAAAATCTTAGATATTTAAGAACATATGGCAAACCAACACTCAACTAAAACAAGAC
1 AAACAGTAGCAAAATAGTAGATATTTAAGAACATATGACAAACCAACACTCAACTAAAACAAGAC
* * *
34337714 TTAGAAACAGTAGCAAAACATTAGATATTTGAGAACATAAGAAAATTTTGACATATGTTACAACA
66 TTAAAAACAATAGCAAAACATTAGATATTTAAGAACATAAGAAAATTTTGACATATGTTACAACA
34337779 GTTTAC
131 GTTTAC
* *
34337785 AAACAGTAGCCAAAA-AGTAGATATTTAAGAACATATGACAAACTAACACTTAACTAAAACAAGA
1 AAACAGTAG-CAAAATAGTAGATATTTAAGAACATATGACAAACCAACACTCAACTAAAACAAGA
* ** * *
34337849 CTTAAAAACAATAGCAAAATATTAGATATTTAAGAACATGTGAAATTTTTGGCATATGTTACA
65 CTTAAAAACAATAGCAAAACATTAGATATTTAAGAACATAAGAAAATTTTGACATATGTTACA
34337912 CTTTAAAACA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
136 108 0.96
137 5 0.04
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (136 bp):
AAACAGTAGCAAAATAGTAGATATTTAAGAACATATGACAAACCAACACTCAACTAAAACAAGAC
TTAAAAACAATAGCAAAACATTAGATATTTAAGAACATAAGAAAATTTTGACATATGTTACAACA
GTTTAC
Found at i:34344288 original size:20 final size:21
Alignment explanation
Indices: 34344249--34344288 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
34344239 TTTCTTCCCT
*
34344249 CAAAAACACCACTTTCTCCTA
1 CAAAAACACCACTTTATCCTA
*
34344270 CAAAAACA-CATTTTATCCT
1 CAAAAACACCACTTTATCCT
34344289 GAAACTCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.28
Consensus pattern (21 bp):
CAAAAACACCACTTTATCCTA
Found at i:34352339 original size:3 final size:3
Alignment explanation
Indices: 34352331--34352366 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
34352321 CTTTTCCTTC
34352331 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT
34352367 TATAACTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:34361715 original size:6 final size:6
Alignment explanation
Indices: 34361704--34361729 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
34361694 CTGGTACAAG
34361704 TTTGAA TTTGAA TTTGAA TTTGAA TT
1 TTTGAA TTTGAA TTTGAA TTTGAA TT
34361730 GGGACTGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (6 bp):
TTTGAA
Found at i:34361959 original size:21 final size:20
Alignment explanation
Indices: 34361935--34361978 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
34361925 TCCTAATGCC
34361935 ATAT-TAAAAATGCTAACCAAA
1 ATATCTAAAAATG-TAA-CAAA
34361956 ATATCCTAAAAATGTAACAAA
1 ATAT-CTAAAAATGTAACAAA
34361977 AT
1 AT
34361979 TTACTTAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 10 0.48
22 3 0.14
23 8 0.38
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.25
Consensus pattern (20 bp):
ATATCTAAAAATGTAACAAA
Found at i:34373464 original size:59 final size:59
Alignment explanation
Indices: 34373372--34373485 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
34373362 GTGTAGAGTG
34373372 CCCTTTTTTGTCCTCTCATCACAACAAGAACCCTACGAGAAACTTTTAAGCCATTACTA
1 CCCTTTTTTGTCCTCTCATCACAACAAGAACCCTACGAGAAACTTTTAAGCCATTACTA
* *
34373431 CCCTTTTTTGTCCTCTCATTACAACAAGAACCCTATGAGAAACTTTTAAGCCATT
1 CCCTTTTTTGTCCTCTCATCACAACAAGAACCCTACGAGAAACTTTTAAGCCATT
34373486 TGACTCAATG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (59 bp):
CCCTTTTTTGTCCTCTCATCACAACAAGAACCCTACGAGAAACTTTTAAGCCATTACTA
Found at i:34376110 original size:27 final size:28
Alignment explanation
Indices: 34376050--34376104 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
34376040 AAAACTAATT
*
34376050 AAAATTAAATATGTTAATAATTTAAGTG
1 AAAATTAAATATGTTAATAATTAAAGTG
* *
34376078 AAAATTAATTAT-TTTATAATTAAAGTG
1 AAAATTAAATATGTTAATAATTAAAGTG
34376105 TGAATTTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (28 bp):
AAAATTAAATATGTTAATAATTAAAGTG
Found at i:34379390 original size:67 final size:65
Alignment explanation
Indices: 34379265--34379488 Score: 211
Period size: 67 Copynumber: 3.3 Consensus size: 65
34379255 CCTCAAAAAA
* * * *
34379265 GGTTCAAGGTGTAAGACCTTAGCTTGGCTAAT-GCAACCAATAAAGTCCGCAAGGATGTTAAACA
1 GGTTCAAGGTGTAAGACCAT-GCTT-GCT-ATGGCAACCAATAGAGTCAGCAATGATGTTAAACA
34379329 TGG
63 TGG
* *
34379332 GGTTACAAGGTGTAAGACCATGCTTAGCTATGGTAACCAATAGAGTCAG-ACATGATGTTAAATA
1 GGTT-CAAGGTGTAAGACCATGCTT-GCTATGGCAACCAATAGAGTCAGCA-ATGATGTTAAACA
34379396 TGG
63 TGG
** * * * *
34379399 GGTTACAAGGTGTAAGACCACAACTTGACTATGGCAACTAATAGAGTCTGCTATGAGGTTAAACA
1 GGTT-CAAGGTGTAAGACCA-TGCTTG-CTATGGCAACCAATAGAGTCAGCAATGATGTTAAACA
34379464 T-G
63 TGG
*
34379466 GGTTCAGACTGTGTAAGACCATG
1 GGTTCA-A-GGTGTAAGACCATG
34379489 GCTCGGCTAT
Statistics
Matches: 131, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
66 5 0.04
67 66 0.50
68 60 0.46
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (65 bp):
GGTTCAAGGTGTAAGACCATGCTTGCTATGGCAACCAATAGAGTCAGCAATGATGTTAAACATGG
Found at i:34379499 original size:68 final size:67
Alignment explanation
Indices: 34379265--34379500 Score: 214
Period size: 68 Copynumber: 3.5 Consensus size: 67
34379255 CCTCAAAAAA
* * * * *
34379265 GGTT-CAAGGTGTAAGACCTTAGCTTGGCTAAT-GCAACCAATAAAGTCCG-CAAGGATGTTAAA
1 GGTTACAAGGTGTAAGACCAT-GCTTGGCT-ATGGCAACCAATAGAGTCAGAC-ATGAGGTTAAA
34379327 CATGG
63 CATGG
* * * *
34379332 GGTTACAAGGTGTAAGACCATGCTTAGCTATGGTAACCAATAGAGTCAGACATGATGTTAAATAT
1 GGTTACAAGGTGTAAGACCATGCTTGGCTATGGCAACCAATAGAGTCAGACATGAGGTTAAACAT
34379397 GG
66 GG
** * * *
34379399 GGTTACAAGGTGTAAGACCACAACTTGACTATGGCAACTAATAGAGTCTG-CTATGAGGTTAAAC
1 GGTTACAAGGTGTAAGACCA-TGCTTGGCTATGGCAACCAATAGAGTCAGAC-ATGAGGTTAAAC
34379463 AT-G
64 ATGG
* *
34379466 GGTT-CAGACTGTGTAAGACCATGGCTCGGCTATGG
1 GGTTACA-A-GGTGTAAGACCAT-GCTTGGCTATGG
34379501 TGTCAGGTAA
Statistics
Matches: 140, Mismatches: 21, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
66 4 0.03
67 66 0.47
68 70 0.50
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (67 bp):
GGTTACAAGGTGTAAGACCATGCTTGGCTATGGCAACCAATAGAGTCAGACATGAGGTTAAACAT
GG
Found at i:34384225 original size:35 final size:34
Alignment explanation
Indices: 34384180--34384246 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 34
34384170 AGAATAGAAA
*
34384180 TGAGAAAGAAAGAA-ACAAAGAAGCAAAACGAAATT
1 TGAGAAAGAAA-AAGACAAAGAAG-AAAAAGAAATT
*
34384215 TGAGAAAGAAAAAGAGAAAGAAGAAAAAGAAA
1 TGAGAAAGAAAAAGACAAAGAAGAAAAAGAAA
34384247 GAGAACCACG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 10 0.34
35 19 0.66
ACGTcount: A:0.67, C:0.04, G:0.22, T:0.06
Consensus pattern (34 bp):
TGAGAAAGAAAAAGACAAAGAAGAAAAAGAAATT
Found at i:34385050 original size:22 final size:22
Alignment explanation
Indices: 34385001--34385051 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
34384991 ATTAAATGAT
34385001 ATTGAAT-TATTTGTGAATTGA
1 ATTGAATATATTTGTGAATTGA
* *
34385022 AAT-AATATATGTTTTGAATTG-
1 ATTGAATATAT-TTGTGAATTGA
34385043 ATTGAATAT
1 ATTGAATAT
34385052 TTGAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 3 0.12
21 7 0.29
22 14 0.58
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (22 bp):
ATTGAATATATTTGTGAATTGA
Found at i:34390942 original size:20 final size:20
Alignment explanation
Indices: 34390910--34391014 Score: 104
Period size: 20 Copynumber: 5.2 Consensus size: 20
34390900 TATTGCTGAA
*
34390910 CAGAGGCACCGAAGTGCAAT
1 CAGAGGCAGCGAAGTGCAAT
* *
34390930 CAGAGACAGCGAAGTACAAT
1 CAGAGGCAGCGAAGTGCAAT
* * *
34390950 CAAAGGCATCGAAGTGCCAT
1 CAGAGGCAGCGAAGTGCAAT
*
34390970 CAGAGGC-GTCGAAGTACAAT
1 CAGAGGCAG-CGAAGTGCAAT
* * *
34390990 CAAAGGCACCAAAGTGCAAT
1 CAGAGGCAGCGAAGTGCAAT
34391010 CAGAG
1 CAGAG
34391015 AGTACATAAA
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.39, C:0.23, G:0.27, T:0.11
Consensus pattern (20 bp):
CAGAGGCAGCGAAGTGCAAT
Found at i:34390972 original size:40 final size:40
Alignment explanation
Indices: 34390913--34391015 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
34390903 TGCTGAACAG
34390913 AGGCACCGAAGTGCAATCAGAGACAG-CGAAGTACAATCAA
1 AGGCACCGAAGTGCAATCAGAGAC-GTCGAAGTACAATCAA
* * *
34390953 AGGCATCGAAGTGCCATCAGAGGCGTCGAAGTACAATCAA
1 AGGCACCGAAGTGCAATCAGAGACGTCGAAGTACAATCAA
*
34390993 AGGCACCAAAGTGCAATCAGAGA
1 AGGCACCGAAGTGCAATCAGAGA
34391016 GTACATAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 54 0.98
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (40 bp):
AGGCACCGAAGTGCAATCAGAGACGTCGAAGTACAATCAA
Found at i:34391057 original size:22 final size:22
Alignment explanation
Indices: 34390995--34391125 Score: 76
Period size: 22 Copynumber: 6.0 Consensus size: 22
34390985 ACAATCAAAG
* *
34390995 GCACCAAAGTGC-AATCAGAGA
1 GCACAAAAGTGCAAATTAGAGA
*
34391016 GTACATAAA-TGCTAAA-TAGAGA
1 GCACA-AAAGTGC-AAATTAGAGA
*
34391038 GCACAAAAGTGCAAATTAGATA
1 GCACAAAAGTGCAAATTAGAGA
* *
34391060 GC-CTAGAAGTG-ATAATTAGAAA
1 GCAC-AAAAGTGCA-AATTAGAGA
*
34391082 GCATAAAAGTGCTAAA-TAGAGA
1 GCACAAAAGTGC-AAATTAGAGA
** * *
34391104 GCACTGAAGTGCTAATCAGAGA
1 GCACAAAAGTGCAAATTAGAGA
34391126 TCCAATTTCA
Statistics
Matches: 84, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
21 16 0.19
22 63 0.75
23 4 0.05
24 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.18
Consensus pattern (22 bp):
GCACAAAAGTGCAAATTAGAGA
Found at i:34391113 original size:44 final size:44
Alignment explanation
Indices: 34391032--34391119 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
34391022 AAATGCTAAA
* *
34391032 TAGAGAGCACAAAAGTGCAAATTAGATAGCCTAGAAGTGATAAT
1 TAGAAAGCACAAAAGTGCAAATTAGAGAGCCTAGAAGTGATAAT
* *
34391076 TAGAAAGCATAAAAGTGCTAAA-TAGAGAGCACT-GAAGTGCTAAT
1 TAGAAAGCACAAAAGTGC-AAATTAGAGAGC-CTAGAAGTGATAAT
34391120 CAGAGATCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 33 0.87
45 5 0.13
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.20
Consensus pattern (44 bp):
TAGAAAGCACAAAAGTGCAAATTAGAGAGCCTAGAAGTGATAAT
Found at i:34392320 original size:23 final size:23
Alignment explanation
Indices: 34392276--34392320 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
34392266 TTAAAAAGTA
*
34392276 GTTAATTTCCACTTTAAACCTTG
1 GTTAATTTCCACTATAAACCTTG
*
34392299 GTTAATTTACCA-TATAAGCCTT
1 GTTAATTT-CCACTATAAACCTT
34392321 TTAACTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (23 bp):
GTTAATTTCCACTATAAACCTTG
Found at i:34393652 original size:3 final size:3
Alignment explanation
Indices: 34393644--34393670 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
34393634 GTAAGCTAAG
34393644 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
34393671 TTTTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:34393685 original size:13 final size:13
Alignment explanation
Indices: 34393648--34393689 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
34393638 GCTAAGCTTC
*
34393648 TTCTTCTTCTTCTTC
1 TTCTTCTT-TT-TTT
34393663 TTCTTCTTTTTTT
1 TTCTTCTTTTTTT
34393676 TTCTT-TTTTTTT
1 TTCTTCTTTTTTT
34393688 TT
1 TT
34393690 AAATTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 9 0.35
13 7 0.27
14 2 0.08
15 8 0.31
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTCTTCTTTTTTT
Found at i:34398048 original size:15 final size:14
Alignment explanation
Indices: 34398028--34398059 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
34398018 CGAAAAATAC
34398028 AAAAATTAAATTCTT
1 AAAAATTAAATT-TT
34398043 AAAAATTAAATTTT
1 AAAAATTAAATTTT
34398057 AAA
1 AAA
34398060 TCTATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAAATTAAATTTT
Found at i:34403591 original size:22 final size:21
Alignment explanation
Indices: 34403535--34403605 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
34403525 ATACAGTGTG
34403535 GATAAACCACTAATTA-GTATA
1 GATAAACCACTAA-TACGTATA
* *
34403556 GATAAAAACTACTAATACGCTATG
1 GAT--AAACCACTAATACG-TATA
34403580 GATAAACCACTAAT-CGTATA
1 GATAAACCACTAATACGTATA
34403600 GATAAA
1 GATAAA
34403606 ATCTGCTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
20 9 0.21
21 5 0.12
22 12 0.29
23 10 0.24
24 6 0.14
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.25
Consensus pattern (21 bp):
GATAAACCACTAATACGTATA
Found at i:34403615 original size:44 final size:45
Alignment explanation
Indices: 34403510--34403636 Score: 161
Period size: 44 Copynumber: 2.8 Consensus size: 45
34403500 TAAATGTTGC
*
34403510 AGATAAAAGCTGCTAATACAG-TGTGGATAAACCACTAATTAGTAT
1 AGATAAAAACTGCTAATAC-GCTGTGGATAAACCACTAATTAGTAT
* * *
34403555 AGATAAAAACTACTAATACGCTATGGATAAACCACTAA-TCGTAT
1 AGATAAAAACTGCTAATACGCTGTGGATAAACCACTAATTAGTAT
* *
34403599 AGATAAAATCTGCTAATACGAC-GTGGATTAACCACTAA
1 AGATAAAAACTGCTAATACG-CTGTGGATAAACCACTAA
34403637 ACGATGAAGA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
44 38 0.53
45 34 0.47
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (45 bp):
AGATAAAAACTGCTAATACGCTGTGGATAAACCACTAATTAGTAT
Found at i:34419260 original size:14 final size:14
Alignment explanation
Indices: 34419241--34419275 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
34419231 TATATATATA
*
34419241 TATACATACTGGCC
1 TATACATACTAGCC
*
34419255 TATACATACTAGCT
1 TATACATACTAGCC
34419269 TATACAT
1 TATACAT
34419276 GTCATATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (14 bp):
TATACATACTAGCC
Found at i:34420156 original size:60 final size:62
Alignment explanation
Indices: 34419963--34420208 Score: 311
Period size: 65 Copynumber: 4.0 Consensus size: 62
34419953 TCTTTGTAGC
* **
34419963 AAACATACATTCGGATAACATA-TATATAATTCATACAATTAAATTCAACTTATAGAACTCA
1 AAACATACATTCGGCTAACATATTATATAATTCATACAATTAGTTTCAACTTATAGAACTCA
* *
34420024 AAACATACATTCGGCTAACATATATATATATAATTTATACAATTAGTTTCAACTCATAGAACTCA
1 AAACATACATTCGGCTAAC--ATAT-TATATAATTCATACAATTAGTTTCAACTTATAGAACTCA
*
34420089 AAACATACATT-GGCTAACATATT-TATAATTCATACAATTAGTTTCAACTTATCA-AACTTA
1 AAACATACATTCGGCTAACATATTATATAATTCATACAATTAGTTTCAACTTAT-AGAACTCA
* * * ** *
34420149 AAGCATACATTCAGCTAACATATTTATATAATTCATAAAATTAAATTCAGCTTATAGAAC
1 AAACATACATTCGGCTAACATA-TTATATAATTCATACAATTAGTTTCAACTTATAGAAC
34420209 ATATATATAT
Statistics
Matches: 162, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
60 42 0.26
61 29 0.18
62 7 0.04
63 31 0.19
64 7 0.04
65 46 0.28
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (62 bp):
AAACATACATTCGGCTAACATATTATATAATTCATACAATTAGTTTCAACTTATAGAACTCA
Found at i:34424119 original size:17 final size:18
Alignment explanation
Indices: 34424087--34424124 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
34424077 ACAGTAACGA
*
34424087 GCTTGCGGCGGTGAT-AG
1 GCTTGCGGCGGCGATAAG
*
34424104 GCTTGCGGTGGCGATAAG
1 GCTTGCGGCGGCGATAAG
34424122 GCT
1 GCT
34424125 GCTCCAGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.13, C:0.18, G:0.45, T:0.24
Consensus pattern (18 bp):
GCTTGCGGCGGCGATAAG
Found at i:34427716 original size:40 final size:40
Alignment explanation
Indices: 34427672--34427899 Score: 250
Period size: 40 Copynumber: 5.8 Consensus size: 40
34427662 AATTATTGTA
* *
34427672 TGAATGCACATATGTGCCTTTGTTTGTACTTCGATACCCC
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGATACCCC
*
34427712 TGAATGCACATGCGTG-CCTCTGTTTGTACTT-GAGTACCCC
1 TGAATGCACATACGTGCCCT-TGTTTGTACTTCGA-TACCCC
* * * * *
34427752 TGAATGGACATACGTGCCCATG-TTGTACTTTGGTATCCC
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGATACCCC
* * *
34427791 TGAATGCACATGCGTGCCCTTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGATACCCC
* *
34427831 TGAATGCACATACGTGCCCTTGTTTATACTTCCG-TACCCT
1 TGAATGCACATACGTGCCCTTGTTTGTACTT-CGATACCCC
* * *
34427871 TGAATGCACTTATGTG-CCTTGTTTATACT
1 TGAATGCACATACGTGCCCTTGTTTGTACT
34427900 CCGGTAACTC
Statistics
Matches: 162, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 48 0.30
40 110 0.68
41 4 0.02
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCTTGTTTGTACTTCGATACCCC
Done.