Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 67 of 356
Found at i:21245272 original size:16 final size:16
Alignment explanation
Indices: 21245251--21245292 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
21245241 GTAAAAATAT
21245251 AATAATAATATAAAAA
1 AATAATAATATAAAAA
* * *
21245267 AATAATGATGTAAAAT
1 AATAATAATATAAAAA
21245283 AATAATAATA
1 AATAATAATA
21245293 ATTTGTGAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
AATAATAATATAAAAA
Found at i:21245417 original size:21 final size:19
Alignment explanation
Indices: 21245388--21245428 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
21245378 ATAAAAGCAA
21245388 ATAACAATATATGAAATATAT
1 ATAACAATA-AT-AAATATAT
*
21245409 ATAATAATAATAAATATAT
1 ATAACAATAATAAATATAT
21245428 A
1 A
21245429 GGGCTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 2 0.11
21 8 0.42
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAACAATAATAAATATAT
Found at i:21247503 original size:9 final size:9
Alignment explanation
Indices: 21247489--21247518 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
21247479 TATGTTTGAT
21247489 TTTTTAAAA
1 TTTTTAAAA
*
21247498 TTTTTAAAG
1 TTTTTAAAA
21247507 TTTTTAAAA
1 TTTTTAAAA
21247516 TTT
1 TTT
21247519 ATTATGGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:21249394 original size:18 final size:18
Alignment explanation
Indices: 21249373--21249414 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
21249363 GGAAGAAGAC
* *
21249373 GAAGAATCTGAAGGCGAA
1 GAAGAATCCGAAGGAGAA
*
21249391 GAAGCATCCGAAGGAGAA
1 GAAGAATCCGAAGGAGAA
21249409 GAAGAA
1 GAAGAA
21249415 GCTTCCGAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.33, T:0.07
Consensus pattern (18 bp):
GAAGAATCCGAAGGAGAA
Found at i:21250629 original size:264 final size:265
Alignment explanation
Indices: 21250074--21250798 Score: 1047
Period size: 264 Copynumber: 2.7 Consensus size: 265
21250064 ATTTAGCAAA
* * ** * *
21250074 TCTGCTTAAATTCTAGAAATGGATACTAGAATCGAAGTTTATGGTCTGTTCTTATTTAATA-GAC
1 TCTGCTTAAATTCTATAAATGCATACTAGGCTTGACGTTTATGGTCTGTTCTTATTTAA-AGGAC
* ** * * * * * * * *
21250138 TGCTGAAAGGAACTATATGG-TTGCTGAAGAGGCAT-TAAGTGATTGTTAGCTTT-AGTGACAGA
65 TGCTGAAGGGAAGGAGATGGCTT-ATGAAAAAGCATACAAGTGATTGTTAG-TTTCAATGGCTGA
* * * * *
21250200 GGAT-AGTATT-T-AAGTTAGAAGATATAATAATGAGAATGATGT-GCATTTTGCATATTTCTTG
128 GGATGA-T-TTGTAAATTTA-TAGATATAATCATGAGAATTATGTAG-AATTTGCATATTTCTTG
*
21250261 TTCCCTATAAGAGTTTGTCGGGGGGGGGGGGAGGGGAATAAGTGAAATCGTTGTTCTGAGAATTG
189 TTCCCTATAAGAGTTTGTC-GGGGGGGGGGGAGGGGAATAAGTGAAATCGTTATTCTGAGAATTG
21250326 CTGCATTGTAATT
253 CTGCATTGTAATT
21250339 TCTGCTTAAATTCTATAAATGCATACTAGGCTTGACGTTTATGGTCTGTTCTTATTTAAAGGACT
1 TCTGCTTAAATTCTATAAATGCATACTAGGCTTGACGTTTATGGTCTGTTCTTATTTAAAGGACT
*
21250404 GCTGAAGGGAAGGAGATGGCTTATGAAAAAGCATACAAGTGATTGTTAGTTTCAATGGCTGAGGC
66 GCTGAAGGGAAGGAGATGGCTTATGAAAAAGCATACAAGTGATTGTTAGTTTCAATGGCTGAGGA
21250469 TGATTTGTAAATTTATAGATATAATCATGAGAATTATGTAGAATTTGCATATTTCTTGTTCCCTA
131 TGATTTGTAAATTTATAGATATAATCATGAGAATTATGTAGAATTTGCATATTTCTTGTTCCCTA
21250534 TAAGAGTTTGTC-GGGGGGGGGG-GGGGAATTAAGTGAAATCGTTATTCTGAGAATTGCTGCATT
196 TAAGAGTTTGTCGGGGGGGGGGGAGGGGAA-TAAGTGAAATCGTTATTCTGAGAATTGCTGCATT
21250597 GTAATT
260 GTAATT
* *
21250603 TCTGCTTAAATTCTATAAATGCATACTAGGCTTGACGTTTATGGTCTATTCTTATTTAATGGACT
1 TCTGCTTAAATTCTATAAATGCATACTAGGCTTGACGTTTATGGTCTGTTCTTATTTAAAGGACT
21250668 GCTGAAGGGAAGGAGATGGCTTATGAAAAAGCATACAAGTGATTGTTAGTTTCAATGGCTGAGGA
66 GCTGAAGGGAAGGAGATGGCTTATGAAAAAGCATACAAGTGATTGTTAGTTTCAATGGCTGAGGA
* *
21250733 TGATTTGTAAATTTATAGATATAATCATGAGAATTATGTAGAATTTGCATATCTCTTGTTCGCTA
131 TGATTTGTAAATTTATAGATATAATCATGAGAATTATGTAGAATTTGCATATTTCTTGTTCCCTA
21250798 T
196 T
21250799 TTGAATTTGT
Statistics
Matches: 422, Mismatches: 29, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
263 6 0.01
264 241 0.57
265 86 0.20
266 82 0.19
267 7 0.02
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.36
Consensus pattern (265 bp):
TCTGCTTAAATTCTATAAATGCATACTAGGCTTGACGTTTATGGTCTGTTCTTATTTAAAGGACT
GCTGAAGGGAAGGAGATGGCTTATGAAAAAGCATACAAGTGATTGTTAGTTTCAATGGCTGAGGA
TGATTTGTAAATTTATAGATATAATCATGAGAATTATGTAGAATTTGCATATTTCTTGTTCCCTA
TAAGAGTTTGTCGGGGGGGGGGGAGGGGAATAAGTGAAATCGTTATTCTGAGAATTGCTGCATTG
TAATT
Found at i:21253793 original size:11 final size:10
Alignment explanation
Indices: 21253754--21253789 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
21253744 TAATTTTAAT
21253754 TTTTTAATAA
1 TTTTTAATAA
21253764 TTTTT-ATAA
1 TTTTTAATAA
21253773 TTTTTAATAA
1 TTTTTAATAA
21253783 TTTTTAA
1 TTTTTAA
21253790 ATAAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:21264567 original size:21 final size:20
Alignment explanation
Indices: 21264523--21264559 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21264513 AATGCCTAGG
*
21264523 CCATGTGGAAGCCTACACCC
1 CCATGTGAAAGCCTACACCC
21264543 CCATGTGAAAG-CTACAC
1 CCATGTGAAAGCCTACAC
21264560 ACGCCCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.30, C:0.35, G:0.19, T:0.16
Consensus pattern (20 bp):
CCATGTGAAAGCCTACACCC
Found at i:21265273 original size:9 final size:9
Alignment explanation
Indices: 21265246--21265284 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
21265236 CTTTTTTCCA
21265246 AAAATAAA-
1 AAAATAAAT
21265254 AAAATACAAT
1 AAAATA-AAT
21265264 AAAATAAAT
1 AAAATAAAT
*
21265273 AACATAAAT
1 AAAATAAAT
21265282 AAA
1 AAA
21265285 TATATATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 6 0.22
9 15 0.56
10 6 0.22
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:21281730 original size:134 final size:133
Alignment explanation
Indices: 21281489--21281882 Score: 477
Period size: 134 Copynumber: 3.0 Consensus size: 133
21281479 AAAATTCTTC
* * * *
21281489 AAAACAAAGACGAGATTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGA-AATTGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTGTTGGGTTGCAA
* *
21281554 TTTCGCGTTTGCTCAAAATAATTGAATATCACTTCAAAATTTCATTCATGTCTTTTAAAAATTTT
65 TTTCACGTTTGCTCAAAATAATTGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAATTTT
21281619 CTCT
130 CTCT
21281623 AAAACGAAGACGAAATTCGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATT-GATATTTGGCAATTTGCGGAATAGTGCCCTAACGTGTTGGGTTGCAA
* * ** ***
21281688 TTTCACGTTTACTCAAAATAATTGAATATCCCTTCAAGATTTCACCCACACCTTTTAAAAA--TT
65 TTTCACGTTTGCTCAAAATAATTGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAATTTT
*
21281751 CTTT
130 CTCT
** ** * * *
21281755 AAAACGAAGGTGATGTGTGATATTTGGCAATTTGCAGAATTGTGCCCTAACGTGTTAGGTTGCAA
1 AAAACGAAGACGAAAT-TGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTGTTGGGTTGCAA
* * * * ** * **
21281820 TTTCTCGGTTGCTTAAAATGATCAAATATCCTTTCAAAATTTCATTCATGTCTCCTAAAAATT
65 TTTCACGTTTGCTCAAAATAATTGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAATT
21281883 ATTTAAAACG
Statistics
Matches: 219, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
132 106 0.48
133 4 0.02
134 109 0.50
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (133 bp):
AAAACGAAGACGAAATTGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTGTTGGGTTGCAAT
TTCACGTTTGCTCAAAATAATTGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAATTTTC
TCT
Found at i:21281879 original size:132 final size:130
Alignment explanation
Indices: 21281478--21281893 Score: 490
Period size: 132 Copynumber: 3.1 Consensus size: 130
21281468 TCATTCATTC
* * * * *
21281478 AAAAATTCTTCAAAACAAAGACGAGATTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAGACGA-AATTGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTG
*
21281543 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATTGAATATCACTTCAAAATTTCATTCATGTCTT
65 TTGGGTTGCAATTTCACGTTTGCTCAAAATAATTGAATATC-CTTCAAAATTTCATTCATGTCTT
21281608 TT
129 TT
*
21281610 AAAAATTTTCTCTAAAACGAAGACGAAATTCGATATTTGGCAATTTGCGGAATAGTGCCCTAACG
1 AAAAA--TTCTTTAAAACGAAGACGAAATT-GATATTTGGCAATTTGCGGAATAGTGCCCTAACG
* * ** ***
21281675 TGTTGGGTTGCAATTTCACGTTTACTCAAAATAATTGAATATCCCTTCAAGATTTCACCCACACC
63 TGTTGGGTTGCAATTTCACGTTTGCTCAAAATAATTGAATAT-CCTTCAAAATTTCATTCATGTC
21281740 TTTT
127 TTTT
** ** * *
21281744 AAAAATTCTTTAAAACGAAGGTGATGTGTGATATTTGGCAATTTGCAGAATTGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAGACGAAAT-TGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTG
* * * * * ** *
21281809 TTAGGTTGCAATTTCTCGGTTGCTTAAAATGATCAAATATCCTTTCAAAATTTCATTCATGTCTC
65 TTGGGTTGCAATTTCACGTTTGCTCAAAATAATTGAATATCC-TTCAAAATTTCATTCATGTCTT
*
21281874 CT
129 TT
*
21281876 AAAAATTATTTAAAACGA
1 AAAAATTCTTTAAAACGA
21281894 GGGCAACATT
Statistics
Matches: 240, Mismatches: 38, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
131 2 0.01
132 121 0.50
133 4 0.02
134 112 0.47
135 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (130 bp):
AAAAATTCTTTAAAACGAAGACGAAATTGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTGT
TGGGTTGCAATTTCACGTTTGCTCAAAATAATTGAATATCCTTCAAAATTTCATTCATGTCTTTT
Found at i:21282256 original size:130 final size:129
Alignment explanation
Indices: 21282014--21282256 Score: 344
Period size: 130 Copynumber: 1.9 Consensus size: 129
21282004 ATTAAAAACA
* *
21282014 CTTTAAAACGAAGACGATGTTCAATGTTTGGTGATTTGAGAATCGTGCCCTAACGTGCTGGGTCG
1 CTTTAAAACGAAGACAATGTTCAATGTTTGGTGATTTGAGAATCGGGCCCTAACGTGCTGGGTCG
* * * *
21282079 CGCTTTTTCATTGGTCCGAAACAATTGCAGATCCCTTCGGAATTTCACTCACATTTTCTAAAAT
66 CGCTTTTTCATTGGTCCCAAACAATCGAACATCCCTTCGGAATTTCACTCACATTTTCTAAAAT
* *
21282143 CTTTCAAAATGAAGACAATGTTCGATGTTTGGTGATTTGAGAATCGGGCCCTATA-GTGCTGGGT
1 CTTT-AAAACGAAGACAATGTTCAATGTTTGGTGATTTGAGAATCGGGCCCTA-ACGTGCTGGGT
* * * * *
21282207 TGCGCTTTTTCATTTGTCCCAAATAATCGAACATCTCTTCGGGATTTCAC
64 CGCGCTTTTTCATTGGTCCCAAACAATCGAACATCCCTTCGGAATTTCAC
21282257 ACGTATTTTC
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
129 4 0.04
130 94 0.95
131 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (129 bp):
CTTTAAAACGAAGACAATGTTCAATGTTTGGTGATTTGAGAATCGGGCCCTAACGTGCTGGGTCG
CGCTTTTTCATTGGTCCCAAACAATCGAACATCCCTTCGGAATTTCACTCACATTTTCTAAAAT
Found at i:21283722 original size:15 final size:15
Alignment explanation
Indices: 21283704--21283737 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
21283694 TTAGCCCATC
21283704 ATTAATTAGAATTTG
1 ATTAATTAGAATTTG
21283719 ATTAATTAGAATTTG
1 ATTAATTAGAATTTG
21283734 ATTA
1 ATTA
21283738 GAAGAGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (15 bp):
ATTAATTAGAATTTG
Found at i:21286632 original size:15 final size:14
Alignment explanation
Indices: 21286614--21286644 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
21286604 TTAATTTATT
21286614 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
21286629 TAATAATAATCTAA
1 TAATAATAATCTAA
21286643 TA
1 TA
21286645 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:21294205 original size:17 final size:19
Alignment explanation
Indices: 21294177--21294212 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21294167 CTTTTTCTTC
21294177 CCCTGTTTTCGTTT-TGTT
1 CCCTGTTTTCGTTTATGTT
21294195 CCCTG-TTTCGTTTATGTT
1 CCCTGTTTTCGTTTATGTT
21294213 TCTTTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.03, C:0.22, G:0.17, T:0.58
Consensus pattern (19 bp):
CCCTGTTTTCGTTTATGTT
Found at i:21294569 original size:15 final size:14
Alignment explanation
Indices: 21294551--21294581 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
21294541 TTAATTTATT
21294551 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
21294566 TAATAATAATCTAA
1 TAATAATAATCTAA
21294580 TA
1 TA
21294582 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:21294592 original size:21 final size:20
Alignment explanation
Indices: 21294568--21294636 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
21294558 AATGCTAATA
21294568 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
21294589 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
21294608 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
21294629 ATAATAAT
1 ATAATAAT
21294637 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:21303935 original size:12 final size:13
Alignment explanation
Indices: 21303904--21303935 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
21303894 AGTTACAGTA
21303904 AACTTAACTAACT
1 AACTTAACTAACT
21303917 AAC-TAACTAACT
1 AACTTAACTAACT
21303929 -ACTTAAC
1 AACTTAAC
21303936 CAAAAACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 13 0.72
13 3 0.17
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (13 bp):
AACTTAACTAACT
Found at i:21305593 original size:19 final size:19
Alignment explanation
Indices: 21305569--21305605 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
21305559 AATTTTGAAA
21305569 AAATTAAATT-AAATTAATC
1 AAATT-AATTAAAATTAATC
21305588 AAATTAATTAAAATTAAT
1 AAATTAATTAAAATTAAT
21305606 ATGATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTAATTAAAATTAATC
Found at i:21305855 original size:20 final size:21
Alignment explanation
Indices: 21305817--21305857 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21305807 TGGTCGGAAA
*
21305817 GTCATTGGCCTAGACCAAACC
1 GTCATTGGCCCAGACCAAACC
21305838 GTCATTGGCCCA-ACCAAACC
1 GTCATTGGCCCAGACCAAACC
21305858 AGCAGCTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.29, C:0.37, G:0.17, T:0.17
Consensus pattern (21 bp):
GTCATTGGCCCAGACCAAACC
Found at i:21315953 original size:9 final size:9
Alignment explanation
Indices: 21315928--21315973 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
21315918 TCGAAAAAAA
21315928 AATTCGAGTT
1 AATTCGA-TT
*
21315938 GATTCGATT
1 AATTCGATT
21315947 AATTCGATT
1 AATTCGATT
*
21315956 AACTCGATT
1 AATTCGATT
*
21315965 AACTCGATT
1 AATTCGATT
21315974 CGAATAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (9 bp):
AATTCGATT
Found at i:21319827 original size:13 final size:13
Alignment explanation
Indices: 21319803--21319853 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
21319793 TTAAACCAAT
*
21319803 TTTTCAAAAGCAC
1 TTTTCCAAAGCAC
*
21319816 TTTTCCATAGCAC
1 TTTTCCAAAGCAC
*
21319829 TTTTCAAAAGCAC
1 TTTTCCAAAGCAC
21319842 TTTTCCAAAGCA
1 TTTTCCAAAGCA
21319854 TTGTCAAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (13 bp):
TTTTCCAAAGCAC
Found at i:21319832 original size:26 final size:25
Alignment explanation
Indices: 21319803--21319861 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
21319793 TTAAACCAAT
*
21319803 TTTTCAAAAGCACTTTTCCATAGCA
1 TTTTCAAAAGCACTTTTCCAAAGCA
21319828 CTTTTCAAAAGCACTTTTCCAAAGCA
1 -TTTTCAAAAGCACTTTTCCAAAGCA
*
21319854 TTGTCAAA
1 TTTTCAAA
21319862 CTTGCCCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 7 0.23
26 24 0.77
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (25 bp):
TTTTCAAAAGCACTTTTCCAAAGCA
Found at i:21323419 original size:18 final size:19
Alignment explanation
Indices: 21323385--21323441 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
21323375 CTATTTTCAC
21323385 AAATTAAATACATTA-TTA
1 AAATTAAATACATTATTTA
*
21323403 AAATTAAAATAGA-TATTTAA
1 AAATT-AAATACATTATTT-A
21323423 AAATATAAATA-ATTATTTA
1 AAAT-TAAATACATTATTTA
21323442 GCAGACACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
18 7 0.21
19 10 0.30
20 15 0.45
21 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATTAAATACATTATTTA
Found at i:21323439 original size:20 final size:21
Alignment explanation
Indices: 21323385--21323441 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 21
21323375 CTATTTTCAC
21323385 AAAT-TAAATACATTA-TTAA
1 AAATATAAATACATTATTTAA
* *
21323404 AATTA-AAATAGA-TATTTAA
1 AAATATAAATACATTATTTAA
21323423 AAATATAAATA-ATTATTTA
1 AAATATAAATACATTATTTA
21323442 GCAGACACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.06
19 18 0.58
20 11 0.35
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATATAAATACATTATTTAA
Found at i:21324594 original size:27 final size:26
Alignment explanation
Indices: 21324536--21324603 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 26
21324526 AAAGCTGTTG
21324536 TTTTTTTTACTATTTTCTTTTTTTAT
1 TTTTTTTTACTATTTTCTTTTTTTAT
* * *
21324562 TGTTTTGTTGCTATTTTCTTTTTCT-T
1 T-TTTTTTTACTATTTTCTTTTTTTAT
21324588 TTTTTTTTACTATTTT
1 TTTTTTTTACTATTTT
21324604 GCTACCATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.36
26 3 0.08
27 20 0.56
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (26 bp):
TTTTTTTTACTATTTTCTTTTTTTAT
Found at i:21337578 original size:40 final size:40
Alignment explanation
Indices: 21337506--21337584 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
21337496 GAATAAAATG
* * *
21337506 ATTTTTATATCATTCAAGCATTAATTGTTAAGAAACTATT
1 ATTTTTACACCATTCAAGCATTAATTGATAAGAAACTATT
*
21337546 ATTTTTACACCATT-AAGACATTCATTGATAAGAAACTAT
1 ATTTTTACACCATTCAAG-CATTAATTGATAAGAAACTAT
21337585 AACTTTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.09
40 31 0.91
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (40 bp):
ATTTTTACACCATTCAAGCATTAATTGATAAGAAACTATT
Found at i:21343208 original size:15 final size:14
Alignment explanation
Indices: 21343171--21343252 Score: 64
Period size: 15 Copynumber: 5.7 Consensus size: 14
21343161 AATTTATATT
21343171 TTAAATATTATTAAA
1 TTAAATATTA-TAAA
21343186 TTATAATATTATAAA
1 TTA-AATATTATAAA
*
21343201 GTTAAATATTATATA
1 -TTAAATATTATAAA
*
21343216 TTATATATT-TGAAA
1 TTAAATATTAT-AAA
21343230 -TAAAT-TTCAT-AA
1 TTAAATATT-ATAAA
21343242 TATAAATATTA
1 T-TAAATATTA
21343253 CATTAAAGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
12 4 0.07
13 5 0.09
14 17 0.31
15 19 0.35
16 10 0.18
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.46
Consensus pattern (14 bp):
TTAAATATTATAAA
Found at i:21343218 original size:7 final size:7
Alignment explanation
Indices: 21343164--21343224 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
21343154 AATATATAAT
*
21343164 TTATATT
1 TTATATA
*
21343171 TTAAATA
1 TTATATA
*
21343178 TTATTAAA
1 TTA-TATA
21343186 TTATAATA
1 TTAT-ATA
*
21343194 TTATAAA
1 TTATATA
*
21343201 GTTAAATA
1 -TTATATA
21343209 TTATATA
1 TTATATA
21343216 TTATATA
1 TTATATA
21343223 TT
1 TT
21343225 TGAAATAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
7 26 0.62
8 16 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (7 bp):
TTATATA
Found at i:21345795 original size:28 final size:30
Alignment explanation
Indices: 21345762--21345818 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
21345752 TAAATTTTGA
*
21345762 GTTGGAGTTATTTCGAA-TATG-AATTTTC
1 GTTGGAATTATTTCGAATTATGTAATTTTC
*
21345790 GTTGGAATTATTTTGAATTATGTAATTTT
1 GTTGGAATTATTTCGAATTATGTAATTTT
21345819 AGATCTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.60
29 4 0.16
30 6 0.24
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (30 bp):
GTTGGAATTATTTCGAATTATGTAATTTTC
Found at i:21346836 original size:17 final size:17
Alignment explanation
Indices: 21346794--21346836 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
21346784 ATGGACAAAT
21346794 AATTTAAAAATATAAAA
1 AATTTAAAAATATAAAA
* *
21346811 TATTCAAAAATA-AAAA
1 AATTTAAAAATATAAAA
21346827 AATTATAAAA
1 AATT-TAAAA
21346837 TTCAAAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
AATTTAAAAATATAAAA
Found at i:21349047 original size:5 final size:5
Alignment explanation
Indices: 21349039--21349081 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
21349029 AAAAAAATGA
* *
21349039 AAAAG AAAAG AAAAG AAACG AAGAG AAAAG AAGAAG AAGAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AA-AAG A
21349082 TACAAATCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:21352428 original size:6 final size:6
Alignment explanation
Indices: 21352411--21352465 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
21352401 CTATTCACTC
* *
21352411 GGGTCA GCGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGGCA GGGTCA
1 GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA
21352459 GGGTCA G
1 GGGTCA G
21352466 TAAAAGTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.16, C:0.18, G:0.51, T:0.15
Consensus pattern (6 bp):
GGGTCA
Found at i:21355286 original size:38 final size:38
Alignment explanation
Indices: 21355235--21355313 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
21355225 TCCATAGAAG
21355235 GGAAAAATGATCAGCATGTCATAAAACATAAGAAAATA
1 GGAAAAATGATCAGCATGTCATAAAACATAAGAAAATA
*
21355273 GGAAAAATTATCAGCATGTCATAAAACATAAGAAAATA
1 GGAAAAATGATCAGCATGTCATAAAACATAAGAAAATA
21355311 GGA
1 GGA
21355314 TGAAGTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.54, C:0.10, G:0.16, T:0.19
Consensus pattern (38 bp):
GGAAAAATGATCAGCATGTCATAAAACATAAGAAAATA
Found at i:21356167 original size:50 final size:49
Alignment explanation
Indices: 21356046--21356234 Score: 225
Period size: 50 Copynumber: 3.8 Consensus size: 49
21356036 TGAGGTCGCA
* * * * *
21356046 TGTGAAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-TGGTCACG
* **
21356097 TGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT-GGTCACG
* * * *
21356147 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACG
* *
21356196 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
21356235 GCTTTGGCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 41 0.35
50 44 0.37
51 33 0.28
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACG
Found at i:21356233 original size:99 final size:101
Alignment explanation
Indices: 21356046--21356233 Score: 263
Period size: 99 Copynumber: 1.9 Consensus size: 101
21356036 TGAGGTCGCA
* *
21356046 TGTGAAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGAAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGTACTAAG
*
21356111 TGCAGGCTACTACGCGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGCGTACCAGATGGTTAGGTCACG
* * * * * * *
21356147 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCGCATGTGTAGTACTATG
1 TGTGAAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGTACTAAG
*
21356210 TGCAGGCTACTATGCGTACCAGAT
66 TGCAGGCTACTACGCGTACCAGAT
21356234 AGCTTTGGCT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 40 0.53
100 1 0.01
101 35 0.46
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (101 bp):
TGTGAAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGTACTAAG
TGCAGGCTACTACGCGTACCAGATGGTTAGGTCACG
Found at i:21358072 original size:18 final size:18
Alignment explanation
Indices: 21358048--21358127 Score: 115
Period size: 18 Copynumber: 4.4 Consensus size: 18
21358038 TATCAATATC
21358048 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* * *
21358066 TTTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
21358084 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* *
21358102 ATTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
21358120 ATTCAGTA
1 ATTCAGTA
21358128 CCTTTATTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:21358088 original size:36 final size:36
Alignment explanation
Indices: 21358048--21358127 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
21358038 TATCAATATC
*
21358048 ATTCAGTAACAATCAATTTTTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATTATTCAGTAGCAATCAGTT
21358084 ATTCAGTAACAATCAATTATTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATTATTCAGTAGCAATCAGTT
21358120 ATTCAGTA
1 ATTCAGTA
21358128 CCTTTATTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (36 bp):
ATTCAGTAACAATCAATTATTCAGTAGCAATCAGTT
Found at i:21358338 original size:43 final size:43
Alignment explanation
Indices: 21358288--21358370 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 43
21358278 ACAGTAGCAG
*
21358288 TACGACACATATGGTGCCTCATCGACTTGAA-GTCGAAGTACAA
1 TACGACACATATAGTGCCTCATCGACTT-AAGGTCGAAGTACAA
*
21358331 TACGACACTTATAGTGCCTCATCGACTTAAGGTCGAAGTA
1 TACGACACATATAGTGCCTCATCGACTTAAGGTCGAAGTA
21358371 TCCCTAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (43 bp):
TACGACACATATAGTGCCTCATCGACTTAAGGTCGAAGTACAA
Found at i:21359096 original size:12 final size:11
Alignment explanation
Indices: 21359056--21359096 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
21359046 TTAATATTTA
21359056 AATTTCTTATTC
1 AATTTC-TATTC
21359068 AATTTCTATTC
1 AATTTCTATTC
*
21359079 AATTTCTACTTT
1 AATTTCTA-TTC
21359091 AATTTC
1 AATTTC
21359097 AATTTTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:21359766 original size:22 final size:22
Alignment explanation
Indices: 21359754--21359800 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 22
21359744 TTTATTTTAT
21359754 AATATAATATAATATAATTTAA
1 AATATAATATAATATAATTTAA
21359776 AATATGATATAATAATATAATTTAA
1 AATAT-A-AT-ATAATATAATTTAA
21359801 TATTTAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 1 0.05
24 2 0.09
25 14 0.64
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATATAATATAATATAATTTAA
Found at i:21363597 original size:89 final size:87
Alignment explanation
Indices: 21363436--21363625 Score: 224
Period size: 89 Copynumber: 2.1 Consensus size: 87
21363426 CTTAAGGGTG
* * * *
21363436 TAAAAAA-CCCTTAAAACTTTTTCAAAAAAAGTAATTAAGCCTTGCTCTTTTTTTTTCACTTCAT
1 TAAAAAAGCCC-TAAAACTCTTTCAAAAAAAGCAATTAAGCC-TCCTCTTTTTTTTGCACTTCAT
** *
21363500 TGGGTACTTGAACTTTCAAAATGCA
64 TGAATACTTGAACTGTC-AAATGCA
*
21363525 TAAAAAAGCCCTCAAACTCTTTCAAAAAAAAGCAATTAAGCC-CCTACTTTTTTTTGCAC-TCAA
1 TAAAAAAGCCCTAAAACTCTTTC-AAAAAAAGCAATTAAGCCTCCT-CTTTTTTTTGCACTTC-A
21363588 TTGAATACTTGAACTGTCAAATGCA
63 TTGAATACTTGAACTGTCAAATGCA
21363613 TAAAAAAGACCCT
1 TAAAAAAG-CCCT
21363626 TTGATCGTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
88 19 0.22
89 49 0.56
90 20 0.23
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (87 bp):
TAAAAAAGCCCTAAAACTCTTTCAAAAAAAGCAATTAAGCCTCCTCTTTTTTTTGCACTTCATTG
AATACTTGAACTGTCAAATGCA
Found at i:21363759 original size:17 final size:17
Alignment explanation
Indices: 21363723--21363767 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
21363713 GACATGTGAC
21363723 AAAAA-TAATAAAAAAT
1 AAAAATTAATAAAAAAT
21363739 -AAAATTAATAAAAAAT
1 AAAAATTAATAAAAAAT
*
21363755 AAAAATTATTAAA
1 AAAAATTAATAAA
21363768 TTTTAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 4 0.15
16 11 0.42
17 11 0.42
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATTAATAAAAAAT
Found at i:21363796 original size:9 final size:9
Alignment explanation
Indices: 21363723--21363806 Score: 54
Period size: 10 Copynumber: 9.6 Consensus size: 9
21363713 GACATGTGAC
*
21363723 AAAAATAAT
1 AAAAATTAT
21363732 AAAAA--AT
1 AAAAATTAT
21363739 -AAAATTAAT
1 AAAAATT-AT
21363748 AAAAA--AT
1 AAAAATTAT
21363755 AAAAATTATT
1 AAAAATTA-T
**
21363765 AAATTTTAAT
1 AAAAATT-AT
21363775 AAAAA-TAT
1 AAAAATTAT
*
21363783 AAAAATATTT
1 AAAAAT-TAT
21363793 AAAAATTAT
1 AAAAATTAT
21363802 AAAAA
1 AAAAA
21363807 CTGTAAAAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
6 4 0.07
7 9 0.15
8 7 0.12
9 16 0.27
10 22 0.37
11 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:21363803 original size:27 final size:27
Alignment explanation
Indices: 21363739--21363806 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
21363729 AATAAAAAAT
21363739 AAAATTAATAAAAAATAAAAATTATTA
1 AAAATTAATAAAAAATAAAAATTATTA
**
21363766 AATTTTAATAAAAATATAAAAA-TATTTA
1 AAAATTAATAAAAA-ATAAAAATTA-TTA
21363794 AAAATT-ATAAAAA
1 AAAATTAATAAAAA
21363807 CTGTAAAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (27 bp):
AAAATTAATAAAAAATAAAAATTATTA
Found at i:21363936 original size:40 final size:41
Alignment explanation
Indices: 21363870--21363959 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
21363860 AAAAGATATA
** * *
21363870 TATATAAAAAATGTAAAATTTTAT-AAAGTCGT-AAGAAAAT
1 TATA-AAAAAATGTAAAAAATCATAAAAGTCGTAAAAAAAAT
*
21363910 TATAAAAAAATGTAAAACAATCATAAAATTCGTAAAAAAAAT
1 TATAAAAAAATGTAAAA-AATCATAAAAGTCGTAAAAAAAAT
21363952 TATAAAAA
1 TATAAAAA
21363960 TTATTGTACC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 13 0.31
40 7 0.17
41 7 0.17
42 15 0.36
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (41 bp):
TATAAAAAAATGTAAAAAATCATAAAAGTCGTAAAAAAAAT
Found at i:21364257 original size:19 final size:19
Alignment explanation
Indices: 21364215--21364268 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
21364205 ATTTTTTTAT
21364215 TTTTAATATTTTTATTAAAG
1 TTTTAATATTTTTA-TAAAG
21364235 -TTTAATAATTTTTAT-AAG
1 TTTTAAT-ATTTTTATAAAG
*
21364253 TTTTATTGATTTTTAT
1 TTTTAAT-ATTTTTAT
21364269 TTTTTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 3 0.10
19 20 0.67
20 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
TTTTAATATTTTTATAAAG
Found at i:21364281 original size:9 final size:9
Alignment explanation
Indices: 21364171--21364282 Score: 63
Period size: 9 Copynumber: 12.6 Consensus size: 9
21364161 AAAAATACAT
*
21364171 TTTTTATAT
1 TTTTTATAA
*
21364180 TTTTTATGA
1 TTTTTATAA
* *
21364189 TTTATAT-T
1 TTTTTATAA
*
21364197 TTTTTCTAA
1 TTTTTATAA
*
21364206 TTTTT-TTA
1 TTTTTATAA
21364214 TTTTTA-ATA
1 TTTTTATA-A
21364223 TTTTTATTAAA
1 TTTTTA-T-AA
* *
21364234 GTTTAATAA
1 TTTTTATAA
21364243 TTTTTATAA
1 TTTTTATAA
* *
21364252 GTTTTATTGA
1 TTTTTA-TAA
21364262 TTTTTAT--
1 TTTTTATAA
21364269 TTTTTATAA
1 TTTTTATAA
21364278 TTTTT
1 TTTTT
21364283 CGCCACATGT
Statistics
Matches: 78, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
7 7 0.09
8 12 0.15
9 45 0.58
10 8 0.10
11 5 0.06
12 1 0.01
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.70
Consensus pattern (9 bp):
TTTTTATAA
Found at i:21367289 original size:46 final size:46
Alignment explanation
Indices: 21367222--21367314 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
21367212 GGTAATTCCT
21367222 CAGGAAACACTTTTGGATACTCACAAACTACAGGCACAGTCTCGAG
1 CAGGAAACACTTTTGGATACTCACAAACTACAGGCACAGTCTCGAG
21367268 CAGGAAACACTTTTGGATACTCACAAACTACAGGCACAGTCTCGAG
1 CAGGAAACACTTTTGGATACTCACAAACTACAGGCACAGTCTCGAG
21367314 C
1 C
21367315 TTTCATTCCG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (46 bp):
CAGGAAACACTTTTGGATACTCACAAACTACAGGCACAGTCTCGAG
Found at i:21370352 original size:24 final size:24
Alignment explanation
Indices: 21370325--21370413 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
21370315 GCAGCGTTTC
*
21370325 CTCGCACACATAGTGCTATATAAT
1 CTCGCACACATAGTGCCATATAAT
* *
21370349 CTCGCACACATAGTGCCATGTAGTT
1 CTCGCACACATAGTGCCATATA-AT
* * ** *
21370374 TTTGCACACATAGTGCCGCATAAC
1 CTCGCACACATAGTGCCATATAAT
21370398 CTCGCACACATAGTGC
1 CTCGCACACATAGTGC
21370414 TGAAATTTCT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 34 0.65
25 18 0.35
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (24 bp):
CTCGCACACATAGTGCCATATAAT
Found at i:21374172 original size:40 final size:42
Alignment explanation
Indices: 21374109--21374197 Score: 105
Period size: 40 Copynumber: 2.2 Consensus size: 42
21374099 GTATGGTCTG
*
21374109 TGCACT-GGTCGGGTCCAAATCTGCTAACCA-AGC-TTAACC-
1 TGCACTGGGTCGGGTCCAAATCTGCCAACCATA-CTTTAACCT
* * *
21374148 TGCACTGGGTTGGGTCCGAGTCTGCCAACCATACTTTAACCT
1 TGCACTGGGTCGGGTCCAAATCTGCCAACCATACTTTAACCT
21374190 TGCACTGG
1 TGCACTGG
21374198 ATTATGTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
39 6 0.14
40 21 0.50
41 7 0.17
42 8 0.19
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (42 bp):
TGCACTGGGTCGGGTCCAAATCTGCCAACCATACTTTAACCT
Found at i:21399620 original size:43 final size:43
Alignment explanation
Indices: 21399554--21399673 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
21399544 CCTTTATTTG
* * * * *
21399554 AATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TAGTGTCTTC
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGATTACTGGCCTC
* *
21399597 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCCTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATTACTGGCCTC
21399641 -ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGAT
21399674 CTGACATTCT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 59 0.89
44 7 0.11
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (43 bp):
AATCTGCTCCACTGTAACTCAGGGAGATAAGATTACTGGCCTC
Found at i:21404152 original size:20 final size:20
Alignment explanation
Indices: 21404129--21404183 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
21404119 ATAATACAAA
21404129 AATTTATAATATAATTATTT
1 AATTTATAATATAATTATTT
*
21404149 AATTAATAA-AT-ATT-TTT
1 AATTTATAATATAATTATTT
* *
21404166 AACTTAAAATAGTAATTA
1 AATTTATAATA-TAATTA
21404184 ATAAATATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
17 9 0.33
18 4 0.15
19 3 0.11
20 11 0.41
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
AATTTATAATATAATTATTT
Found at i:21404299 original size:5 final size:5
Alignment explanation
Indices: 21404289--21404340 Score: 54
Period size: 5 Copynumber: 10.6 Consensus size: 5
21404279 TTAATTTATT
* * *
21404289 TATAA TATAA TATAA TATAA TTTAAA TATGA TAT-A -ATAA TATAA TTTAA
1 TATAA TATAA TATAA TATAA TAT-AA TATAA TATAA TATAA TATAA TATAA
21404338 TAT
1 TAT
21404341 TTAACTAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 31 0.79
6 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:21404304 original size:21 final size:21
Alignment explanation
Indices: 21404286--21404337 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 21
21404276 ATCTTAATTT
21404286 ATTTATAATATAATATAATATA
1 ATTTA-AATATAATATAATATA
21404308 ATTTAAATATGATATAATAATATA
1 ATTTAAATAT-A-AT-ATAATATA
21404332 ATTTAA
1 ATTTAA
21404338 TATTTAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.19
22 6 0.22
23 2 0.07
24 14 0.52
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTTAAATATAATATAATATA
Found at i:21408131 original size:89 final size:88
Alignment explanation
Indices: 21407956--21408146 Score: 228
Period size: 89 Copynumber: 2.1 Consensus size: 88
21407946 CTTAAGGGTG
* * *
21407956 TAAAAAA-CCCTTAAAACTTTTTCAAAAAAAGTAATTAAGCCTTGCTCTTTTTTTTTCACTTCAT
1 TAAAAAAGCCC-TAAAACTCTTTCAAAAAAAGCAATTAAGCC-TCCTCTTTTTTTTTCACTTCAT
** *
21408020 TGGGTACTTGAACTTTCAAAATGCA
64 TGAATACTTGAACTGTCAAAATGCA
*
21408045 TAAAAAAGCCCTCAAACTCTTTCAAAAAAAAGCAATTAAGCC-CCTACTTTTTTTTTGCAC-TCA
1 TAAAAAAGCCCTAAAACTCTTTC-AAAAAAAGCAATTAAGCCTCCT-CTTTTTTTTT-CACTTC-
21408108 ATTGAATACTTGAACTGTC-AAATGCA
62 ATTGAATACTTGAACTGTCAAAATGCA
21408134 TAAAAAAGACCCT
1 TAAAAAAG-CCCT
21408147 TTGATCGTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
88 2 0.02
89 44 0.49
90 43 0.48
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (88 bp):
TAAAAAAGCCCTAAAACTCTTTCAAAAAAAGCAATTAAGCCTCCTCTTTTTTTTTCACTTCATTG
AATACTTGAACTGTCAAAATGCA
Found at i:21408280 original size:17 final size:17
Alignment explanation
Indices: 21408244--21408288 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
21408234 GACATGTGAC
21408244 AAAAA-TAATAAAAAAT
1 AAAAATTAATAAAAAAT
21408260 -AAAATTAATAAAAAAT
1 AAAAATTAATAAAAAAT
*
21408276 AAAAATTATTAAA
1 AAAAATTAATAAA
21408289 TTTTAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 4 0.15
16 11 0.42
17 11 0.42
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATTAATAAAAAAT
Found at i:21408317 original size:9 final size:9
Alignment explanation
Indices: 21408244--21408327 Score: 54
Period size: 10 Copynumber: 9.6 Consensus size: 9
21408234 GACATGTGAC
*
21408244 AAAAATAAT
1 AAAAATTAT
21408253 AAAAA--AT
1 AAAAATTAT
21408260 -AAAATTAAT
1 AAAAATT-AT
21408269 AAAAA--AT
1 AAAAATTAT
21408276 AAAAATTATT
1 AAAAATTA-T
**
21408286 AAATTTTAAT
1 AAAAATT-AT
21408296 AAAAA-TAT
1 AAAAATTAT
*
21408304 AAAAATATTT
1 AAAAAT-TAT
21408314 AAAAATTAT
1 AAAAATTAT
21408323 AAAAA
1 AAAAA
21408328 CTGTAAAAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
6 4 0.07
7 9 0.15
8 7 0.12
9 16 0.27
10 22 0.37
11 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:21408324 original size:27 final size:27
Alignment explanation
Indices: 21408260--21408327 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
21408250 AATAAAAAAT
21408260 AAAATTAATAAAAAATAAAAATTATTA
1 AAAATTAATAAAAAATAAAAATTATTA
**
21408287 AATTTTAATAAAAATATAAAAA-TATTTA
1 AAAATTAATAAAAA-ATAAAAATTA-TTA
21408315 AAAATT-ATAAAAA
1 AAAATTAATAAAAA
21408328 CTGTAAAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (27 bp):
AAAATTAATAAAAAATAAAAATTATTA
Found at i:21408457 original size:40 final size:41
Alignment explanation
Indices: 21408391--21408480 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
21408381 AAAAGATATA
** * *
21408391 TATATAAAAAATGTAAAATTTTAT-AAAGTCGT-AAGAAAAT
1 TATA-AAAAAATGTAAAAAATCATAAAAGTCGTAAAAAAAAT
*
21408431 TATAAAAAAATGTAAAACAATCATAAAATTCGTAAAAAAAAT
1 TATAAAAAAATGTAAAA-AATCATAAAAGTCGTAAAAAAAAT
21408473 TATAAAAA
1 TATAAAAA
21408481 TTATTGTACC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 13 0.31
40 7 0.17
41 7 0.17
42 15 0.36
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (41 bp):
TATAAAAAAATGTAAAAAATCATAAAAGTCGTAAAAAAAAT
Found at i:21408737 original size:15 final size:15
Alignment explanation
Indices: 21408690--21408750 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
21408680 AAAAAAATAC
*
21408690 ATTTTTTATATTTTT
1 ATTTTTAATATTTTT
*
21408705 ATGATTT-ATATTTTT
1 AT-TTTTAATATTTTT
*
21408720 -TTTCTAAT-TTTTT
1 ATTTTTAATATTTTT
21408733 ATTTTTAATATTTTT
1 ATTTTTAATATTTTT
21408748 ATT
1 ATT
21408751 AAAGTTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 7 0.18
14 10 0.26
15 18 0.47
16 3 0.08
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (15 bp):
ATTTTTAATATTTTT
Found at i:21408737 original size:16 final size:16
Alignment explanation
Indices: 21408690--21408750 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 16
21408680 AAAAAAATAC
21408690 ATTTTTT-ATATTTTT
1 ATTTTTTAATATTTTT
**
21408705 ATGATTT-ATA-TTTT
1 ATTTTTTAATATTTTT
*
21408719 -TTTTCTAAT-TTTTT
1 ATTTTTTAATATTTTT
21408733 A-TTTTTAATATTTTT
1 ATTTTTTAATATTTTT
21408748 ATT
1 ATT
21408751 AAAGTTTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
13 3 0.09
14 17 0.49
15 14 0.40
16 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (16 bp):
ATTTTTTAATATTTTT
Found at i:21408777 original size:19 final size:19
Alignment explanation
Indices: 21408735--21408788 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
21408725 AATTTTTTAT
21408735 TTTTAATATTTTTATTAAAG
1 TTTTAATATTTTTA-TAAAG
21408755 -TTTAATAATTTTTAT-AAG
1 TTTTAAT-ATTTTTATAAAG
*
21408773 TTTTATTGATTTTTAT
1 TTTTAAT-ATTTTTAT
21408789 TTTTTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 3 0.10
19 20 0.67
20 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
TTTTAATATTTTTATAAAG
Found at i:21408801 original size:9 final size:9
Alignment explanation
Indices: 21408692--21408802 Score: 63
Period size: 9 Copynumber: 12.6 Consensus size: 9
21408682 AAAAATACAT
21408692 TTTTTAT-A
1 TTTTTATAA
*
21408700 TTTTTATGA
1 TTTTTATAA
* **
21408709 TTTATATTT
1 TTTTTATAA
*
21408718 TTTTTCTAA
1 TTTTTATAA
21408727 TTTTT-T-A
1 TTTTTATAA
21408734 TTTTTA-ATA
1 TTTTTATA-A
21408743 TTTTTATTAAA
1 TTTTTA-T-AA
* *
21408754 GTTTAATAA
1 TTTTTATAA
21408763 TTTTTATAA
1 TTTTTATAA
* *
21408772 GTTTTATTGA
1 TTTTTA-TAA
21408782 TTTTTAT--
1 TTTTTATAA
21408789 TTTTTATAA
1 TTTTTATAA
21408798 TTTTT
1 TTTTT
21408803 CGCCACATGT
Statistics
Matches: 79, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
7 13 0.16
8 8 0.10
9 44 0.56
10 8 0.10
11 5 0.06
12 1 0.01
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.69
Consensus pattern (9 bp):
TTTTTATAA
Found at i:21411797 original size:46 final size:45
Alignment explanation
Indices: 21411731--21411819 Score: 169
Period size: 46 Copynumber: 2.0 Consensus size: 45
21411721 TAATTCCTCA
21411731 GAAACACTTTGGATACTCACAAACTACAGGCACAGTCTCGAGCAG
1 GAAACACTTTGGATACTCACAAACTACAGGCACAGTCTCGAGCAG
21411776 GAAACACTTTTGGATACTCACAAACTACAGGCACAGTCTCGAGC
1 GAAACAC-TTTGGATACTCACAAACTACAGGCACAGTCTCGAGC
21411820 TTTCATTCCG
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 7 0.16
46 36 0.84
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (45 bp):
GAAACACTTTGGATACTCACAAACTACAGGCACAGTCTCGAGCAG
Found at i:21414816 original size:24 final size:24
Alignment explanation
Indices: 21414789--21414877 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
21414779 GCAGCGTTTC
*
21414789 CTCGCACACATAGTGCTATATAAT
1 CTCGCACACATAGTGCCATATAAT
* *
21414813 CTCGCACACATAGTGCCATGTAGTT
1 CTCGCACACATAGTGCCATATA-AT
* * ** *
21414838 TTTGCACACATAGTGCCGCATAAC
1 CTCGCACACATAGTGCCATATAAT
21414862 CTCGCACACATAGTGC
1 CTCGCACACATAGTGC
21414878 TGAAATTTCT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 34 0.65
25 18 0.35
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (24 bp):
CTCGCACACATAGTGCCATATAAT
Found at i:21418671 original size:41 final size:42
Alignment explanation
Indices: 21418614--21418704 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 42
21418604 GTATGGTCTG
*
21418614 TGCACTGGGTCGGGTCCAAATCTGCTAACCA-AGC-TTAACCC
1 TGCACTGGGTCGGGTCCAAATCTGCCAACCATA-CTTTAACCC
* * * *
21418655 TGCACTGGGTTGGGTCCGAGTCTGCCAACCATACTTTAACCT
1 TGCACTGGGTCGGGTCCAAATCTGCCAACCATACTTTAACCC
21418697 TGCACTGG
1 TGCACTGG
21418705 ATTATGTCGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 28 0.65
42 15 0.35
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (42 bp):
TGCACTGGGTCGGGTCCAAATCTGCCAACCATACTTTAACCC
Found at i:21433805 original size:40 final size:40
Alignment explanation
Indices: 21433750--21433825 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
21433740 TATTGAAACC
21433750 TACAATTTTTTTATCAAATCAGCAACATTGTAGTTAGGCA
1 TACAATTTTTTTATCAAATCAGCAACATTGTAGTTAGGCA
*
21433790 TACAATTTTTTTATCAAATCAGCAACGTTGTAGTTA
1 TACAATTTTTTTATCAAATCAGCAACATTGTAGTTA
21433826 ATTATCTAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (40 bp):
TACAATTTTTTTATCAAATCAGCAACATTGTAGTTAGGCA
Found at i:21436956 original size:20 final size:19
Alignment explanation
Indices: 21436927--21436968 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
21436917 TTGTAATTAG
21436927 TATAAGTAATTATTATTA-AA
1 TATAAGTAA-TATT-TTATAA
*
21436947 TATAATTAATATTTTATAA
1 TATAAGTAATATTTTATAA
21436966 TAT
1 TAT
21436969 TTTCCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.15
19 9 0.45
20 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TATAAGTAATATTTTATAA
Found at i:21437937 original size:70 final size:71
Alignment explanation
Indices: 21437808--21437957 Score: 221
Period size: 74 Copynumber: 2.1 Consensus size: 71
21437798 GTACAGACTA
* * * *
21437808 GTTTTTAAATTATTATTTATTTATTTATTTTAATATGTTGAAAATTTTCTTTTTCAAAATAAAAA
1 GTTTTTAAAATATTATTTATTTATTAATTTTAATATATTG---ATTTTCATTTTCAAAATAAAAA
21437873 CCTTTAATG
63 CCTTTAATG
*
21437882 GTTTTTAAAATATTATTTATTTATTAATTTTAATATATTG-TTTTCATTTTCAAAATAAAAACTT
1 GTTTTTAAAATATTATTTATTTATTAATTTTAATATATTGATTTTCATTTTCAAAATAAAAACCT
21437946 TTAATG
66 TTAATG
21437952 GTTTTT
1 GTTTTT
21437958 CAAACACTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
70 34 0.48
74 37 0.52
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (71 bp):
GTTTTTAAAATATTATTTATTTATTAATTTTAATATATTGATTTTCATTTTCAAAATAAAAACCT
TTAATG
Found at i:21438383 original size:33 final size:33
Alignment explanation
Indices: 21438341--21438404 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
21438331 TTTACAAAAA
21438341 AAATTTCACAAATAAGATCA-AAGGTTTAACACC
1 AAATTTCACAAATAAGATCAGAA-GTTTAACACC
21438374 AAATTTCACAAATAAGATCAGAAGTTTAACA
1 AAATTTCACAAATAAGATCAGAAGTTTAACA
21438405 AGTGTCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (33 bp):
AAATTTCACAAATAAGATCAGAAGTTTAACACC
Found at i:21442932 original size:19 final size:20
Alignment explanation
Indices: 21442896--21442934 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
21442886 TTCTTGAAAT
*
21442896 AATTCTAAAAAAGTTTTAATA
1 AATTATAAAAAAG-TTTAATA
21442917 AATTATAAAAAA-TTTAAT
1 AATTATAAAAAAGTTTAAT
21442935 CAAAGGTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATTATAAAAAAGTTTAATA
Found at i:21443043 original size:20 final size:20
Alignment explanation
Indices: 21443003--21443043 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
21442993 AAGATCGAAC
*
21443003 ACATAAATTTTACGTGGAAA
1 ACATAAATTTTACGTGAAAA
21443023 ACATAAATTTTACGTGAAAA
1 ACATAAATTTTACGTGAAAA
21443043 A
1 A
21443044 ACTCCTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (20 bp):
ACATAAATTTTACGTGAAAA
Found at i:21443765 original size:13 final size:14
Alignment explanation
Indices: 21443749--21443779 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
21443739 AAGAAAGGAA
21443749 ATAAACAATT-TTT
1 ATAAACAATTGTTT
21443762 ATAAACAATTGTTT
1 ATAAACAATTGTTT
21443776 ATAA
1 ATAA
21443780 TAATTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (14 bp):
ATAAACAATTGTTT
Found at i:21443818 original size:14 final size:15
Alignment explanation
Indices: 21443797--21443836 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
21443787 TTAGAATCTC
*
21443797 TATAATTTTTTTATT
1 TATAATTTTATTATT
21443812 T-TAA-TTTATTATT
1 TATAATTTTATTATT
21443825 TATAA-TTTATTA
1 TATAATTTTATTA
21443837 AAAATTGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 13 0.57
15 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATAATTTTATTATT
Found at i:21447029 original size:7 final size:7
Alignment explanation
Indices: 21446995--21447032 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
21446985 TTGTACTTGT
*
21446995 GGTTTAA
1 GGTTTAG
21447002 GGTTTAG
1 GGTTTAG
*
21447009 GATTTAG
1 GGTTTAG
21447016 GGTTTAG
1 GGTTTAG
21447023 GGTTTAG
1 GGTTTAG
21447030 GGT
1 GGT
21447033 CTCAAGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:21447089 original size:15 final size:15
Alignment explanation
Indices: 21447069--21447100 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21447059 TTTAATTTAG
21447069 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
21447084 AAGATAAATATATAT
1 AAGATAAATATAAAT
21447099 AA
1 AA
21447101 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:21449521 original size:39 final size:39
Alignment explanation
Indices: 21449478--21449555 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
21449468 AAGTAGAGAA
*
21449478 CTTAAATTTGTTATTTTGCATGATTATTTGAGATCTGCT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCT
*
21449517 CTTAAATTTGTTATTCTGCATGATTATTTGAGATTTGCT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCT
21449556 TTTGTCAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.51
Consensus pattern (39 bp):
CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCT
Found at i:21449545 original size:20 final size:20
Alignment explanation
Indices: 21449483--21449546 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
21449473 GAGAACTTAA
*
21449483 ATTTGTTATTTTGCATGATT
1 ATTTGTTATTCTGCATGATT
** *
21449503 ATTTGAGA-TCTGC-T-CTT
1 ATTTGTTATTCTGCATGATT
21449520 AAATTTGTTATTCTGCATGATT
1 --ATTTGTTATTCTGCATGATT
21449542 ATTTG
1 ATTTG
21449547 AGATTTGCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 10 0.31
20 16 0.50
21 1 0.03
22 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (20 bp):
ATTTGTTATTCTGCATGATT
Found at i:21452715 original size:26 final size:26
Alignment explanation
Indices: 21452686--21452788 Score: 179
Period size: 26 Copynumber: 4.0 Consensus size: 26
21452676 ATTCCCATCT
*
21452686 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
21452712 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
21452738 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
21452764 TGGAACATTTACCTAACCCATTATC
1 TGGAACATTTACCTAACCCATTATC
21452789 GATTTGTACC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:21454869 original size:65 final size:65
Alignment explanation
Indices: 21454765--21454898 Score: 259
Period size: 65 Copynumber: 2.1 Consensus size: 65
21454755 TCTTGAGCAG
*
21454765 ACCATTGGATCTGAAGTCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
1 ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
21454830 ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
1 ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
21454895 ACCA
1 ACCA
21454899 CCTAACGCAC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (65 bp):
ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
Found at i:21458263 original size:13 final size:14
Alignment explanation
Indices: 21458247--21458275 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21458237 TTATAAATAT
21458247 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
21458260 TTATAATGGTTTAA
1 TTATAATGGTTTAA
21458274 TT
1 TT
21458276 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:21463378 original size:25 final size:25
Alignment explanation
Indices: 21463344--21463394 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
21463334 TTCCTTATAA
**
21463344 ACTTTAAATTAGAAATTCTATTAGG
1 ACTTTAAATTAGAAATTAGATTAGG
*
21463369 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGAAATTAGATTAGG
21463394 A
1 A
21463395 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGAAATTAGATTAGG
Found at i:21465596 original size:25 final size:25
Alignment explanation
Indices: 21465568--21465618 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
21465558 TTCCTTATAA
**
21465568 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
21465593 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
21465618 A
1 A
21465619 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:21465617 original size:12 final size:12
Alignment explanation
Indices: 21465571--21465618 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
21465561 CTTATAAACT
21465571 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
21465583 TTCTATTAGGACT
1 TTAAATTAGGA-A
21465596 TTAAATTAGGAA
1 TTAAATTAGGAA
*
21465608 TTAGATTAGGA
1 TTAAATTAGGA
21465619 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:21469896 original size:75 final size:74
Alignment explanation
Indices: 21469761--21469902 Score: 198
Period size: 75 Copynumber: 1.9 Consensus size: 74
21469751 TTCCCCTGCT
* *
21469761 GTTGATTTCATGTTCTTTTCTGATTTTTATTTCAGTTTTTATGTCATTAAATACTGGTTTAAGTT
1 GTTGATTTCATGCTCTTTTCTGATATTTATTTCAGTTTTTATGTCATTAAATACTGGTTTAAGTT
21469826 GAAGTTGAA
66 GAAGTTGAA
* * *
21469835 GTTGATTTCATGCTCTTTTCCT-A-ATTTATTTCTGTTTTTATATGTCATTAAATATTTGTTTAA
1 GTTGATTTCATGCTCTTTT-CTGATATTTATTTCAG-TTTT-TATGTCATTAAATACTGGTTTAA
21469898 GTTGA
63 GTTGA
21469903 CATTATTATG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
73 9 0.15
74 23 0.38
75 28 0.47
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (74 bp):
GTTGATTTCATGCTCTTTTCTGATATTTATTTCAGTTTTTATGTCATTAAATACTGGTTTAAGTT
GAAGTTGAA
Found at i:21478066 original size:21 final size:20
Alignment explanation
Indices: 21478027--21478067 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21478017 TTTTTAAAAA
* *
21478027 AAAATTTAAAATAACATATG
1 AAAACTTAAAATAAAATATG
21478047 AAAACTTAAAATAATAATATG
1 AAAACTTAAAATAA-AATATG
21478068 TGGAAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAACTTAAAATAAAATATG
Found at i:21483992 original size:22 final size:22
Alignment explanation
Indices: 21483961--21484009 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
21483951 AAATTAACCC
*
21483961 AACCATAGCCTATATCAGCTCA
1 AACCACAGCCTATATCAGCTCA
21483983 AACCACAGCCTATATCAGCTCA
1 AACCACAGCCTATATCAGCTCA
21484005 AACCA
1 AACCA
21484010 AAGAAATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.35, G:0.08, T:0.18
Consensus pattern (22 bp):
AACCACAGCCTATATCAGCTCA
Found at i:21484267 original size:27 final size:27
Alignment explanation
Indices: 21484237--21484401 Score: 221
Period size: 27 Copynumber: 6.1 Consensus size: 27
21484227 ACGAAGTCAT
21484237 CAGATACAGAT-ATTGTGGCAGAGCCAC
1 CAGAT-CAGATAATTGTGGCAGAGCCAC
*
21484264 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
21484291 CAGGA-CAGAT-ATATGTGGCAGAGCCAC
1 CA-GATCAGATAAT-TGTGGCAGAGCCAC
* *
21484318 CAGATCAGATAATCGTGGCATAGCCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
*
21484345 CAGAACAGAT-ATATGTGGCAGAGCCAC
1 CAGATCAGATAAT-TGTGGCAGAGCCAC
*
21484372 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
21484399 CAG
1 CAG
21484402 GACGCTTCCT
Statistics
Matches: 122, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
26 11 0.09
27 105 0.86
28 6 0.05
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATCAGATAATTGTGGCAGAGCCAC
Found at i:21484310 original size:54 final size:54
Alignment explanation
Indices: 21484242--21484404 Score: 301
Period size: 54 Copynumber: 3.0 Consensus size: 54
21484232 GTCATCAGAT
21484242 ACAGATAT-TGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
1 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
* *
21484295 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
21484349 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
1 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
21484403 AC
1 AC
21484405 GCTTCCTCTA
Statistics
Matches: 105, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 8 0.08
54 97 0.92
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
Found at i:21486056 original size:26 final size:26
Alignment explanation
Indices: 21486025--21486132 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
21486015 TGAAATTCCC
*
21486025 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
21486051 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
21486077 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
21486103 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21486129 ATCA
1 ATCA
21486133 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21488168 original size:29 final size:29
Alignment explanation
Indices: 21488133--21488190 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
21488123 CCCCTTGTTT
21488133 TTGTGGCTAGAACCCTCTAGTTTTTACAA
1 TTGTGGCTAGAACCCTCTAGTTTTTACAA
*
21488162 TTGTGGCTAGAACCCTCTATTTTTTACAA
1 TTGTGGCTAGAACCCTCTAGTTTTTACAA
21488191 GACTCAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (29 bp):
TTGTGGCTAGAACCCTCTAGTTTTTACAA
Found at i:21488631 original size:20 final size:20
Alignment explanation
Indices: 21488584--21488631 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
21488574 TACAAGATGT
* * *
21488584 ATGGGTAGAAGTGGACTTGT
1 ATGGGTAGAAGAGGACCTGA
**
21488604 ATTAGTAGAAGAGGACCTGA
1 ATGGGTAGAAGAGGACCTGA
21488624 ATGGGTAG
1 ATGGGTAG
21488632 GAGTCCCCCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.38, T:0.25
Consensus pattern (20 bp):
ATGGGTAGAAGAGGACCTGA
Found at i:21489662 original size:10 final size:9
Alignment explanation
Indices: 21489640--21489679 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
21489630 AAAAGAACCA
*
21489640 TTTTATAAT
1 TTTTATTAT
21489649 TTTTATTGAT
1 TTTTATT-AT
21489659 TTTTATT-T
1 TTTTATTAT
21489667 TTTTATTAT
1 TTTTATTAT
21489676 TTTT
1 TTTT
21489680 CACCATATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.29
9 11 0.39
10 9 0.32
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (9 bp):
TTTTATTAT
Found at i:21497179 original size:26 final size:26
Alignment explanation
Indices: 21497143--21497198 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
21497133 GAAGAAGGAA
21497143 TAAACCATAACTATATTAAGCATGAT
1 TAAACCATAACTATATTAAGCATGAT
21497169 TAAACCATAACTATATTAAGCATGAT
1 TAAACCATAACTATATTAAGCATGAT
21497195 TAAA
1 TAAA
21497199 TCATTCCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.30
Consensus pattern (26 bp):
TAAACCATAACTATATTAAGCATGAT
Found at i:21509508 original size:26 final size:26
Alignment explanation
Indices: 21509477--21509584 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
21509467 TGATACAAAT
21509477 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
21509503 TTATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21509529 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21509555 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21509581 TGAT
1 TGAT
21509585 GGGAATTTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21527835 original size:17 final size:19
Alignment explanation
Indices: 21527804--21527842 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
21527794 CTCGACCTAT
*
21527804 TAGACCGTGTTGG-CCACA
1 TAGACCGTGTGGGCCCACA
21527822 TAGA-CGTGTGGGCCCACA
1 TAGACCGTGTGGGCCCACA
21527840 TAG
1 TAG
21527843 GTGAACCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.21
Consensus pattern (19 bp):
TAGACCGTGTGGGCCCACA
Found at i:21536897 original size:42 final size:43
Alignment explanation
Indices: 21536826--21536955 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 43
21536816 ATTAGGTTGT
* * *
21536826 TATAGTGATTATGTGTAAGACCGTGTCTGGGACATTGGCATCG
1 TATATTGATTATGTGTAAGACCCTGTCTGGGACAGTGGCATCG
*
21536869 TATATTGATT-TGTGTAAGACCCTTTCTGGGACAGTGGCATCG
1 TATATTGATTATGTGTAAGACCCTGTCTGGGACAGTGGCATCG
* ** * * * *
21536911 -ATATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTG
1 TATAT-TGATTATGTGTAAGACCCTGTCTGGGACAGTGGCATCG
21536953 TAT
1 TAT
21536956 GAGCTTATGT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.05
42 40 0.55
43 29 0.40
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (43 bp):
TATATTGATTATGTGTAAGACCCTGTCTGGGACAGTGGCATCG
Found at i:21537564 original size:21 final size:20
Alignment explanation
Indices: 21537535--21537573 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21537525 CTTGTTTTGG
*
21537535 TATGTTTATCATAATTGTTGA
1 TATGGTTAT-ATAATTGTTGA
*
21537556 TATGGTTATATAGTTGTT
1 TATGGTTATATAATTGTT
21537574 CTTTTGGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.54
Consensus pattern (20 bp):
TATGGTTATATAATTGTTGA
Found at i:21540022 original size:42 final size:41
Alignment explanation
Indices: 21539911--21540032 Score: 140
Period size: 42 Copynumber: 3.0 Consensus size: 41
21539901 TGAATTTCCT
* *
21539911 TTTAACTCTAATGGGTTTCCGTTTAGCTC-TTGAGCTTCAG
1 TTTAACCCTCATGGGTTTCCGTTTAGCTCTTTGAGCTTCAG
** * **
21539951 AATAACCCTTC-TGGGTTTCAGTTCCGCTCTTTCGAGCTTCAG
1 TTTAACCC-TCATGGGTTTCCGTTTAGCTCTTT-GAGCTTCAG
21539993 TTTAACCCTCATGGGTTTCCGTTTAGCTCTTATGAGCTTC
1 TTTAACCCTCATGGGTTTCCGTTTAGCTCTT-TGAGCTTC
21540033 CATTCAACCC
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
40 20 0.31
41 5 0.08
42 39 0.60
43 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (41 bp):
TTTAACCCTCATGGGTTTCCGTTTAGCTCTTTGAGCTTCAG
Found at i:21540042 original size:42 final size:41
Alignment explanation
Indices: 21539921--21540061 Score: 121
Period size: 42 Copynumber: 3.4 Consensus size: 41
21539911 TTTAACTCTA
* * * *
21539921 ATGGGTTTCCGTTTAGCTC-TTGAGCTTCAGAATAACCCTTC
1 ATGGGTTTCAGTTTAGCTCTTTGAGCTTC-CATTAACCCATC
**
21539962 -TGGGTTTCAGTTCCGCTCTTTCGAGCTT-CAGTTTAACCC-TC
1 ATGGGTTTCAGTTTAGCTCTTT-GAGCTTCCA--TTAACCCATC
*
21540003 ATGGGTTTCCGTTTAGCTCTTATGAGCTTCCATTCAACCCAT-
1 ATGGGTTTCAGTTTAGCTCTT-TGAGCTTCCATT-AACCCATC
*
21540045 ATAGGTTTCAGTTTAGC
1 ATGGGTTTCAGTTTAGC
21540062 ACTTATGTGC
Statistics
Matches: 81, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
40 16 0.20
41 6 0.07
42 55 0.68
43 4 0.05
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (41 bp):
ATGGGTTTCAGTTTAGCTCTTTGAGCTTCCATTAACCCATC
Found at i:21546132 original size:64 final size:64
Alignment explanation
Indices: 21545922--21546132 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
21545912 CTGGGCCAGA
*
21545922 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
21545986 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
21546048 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
21546059 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
21546123 GCCCATTTCA
1 GCCCATTTCA
21546133 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:21546137 original size:137 final size:137
Alignment explanation
Indices: 21545899--21546173 Score: 550
Period size: 137 Copynumber: 2.0 Consensus size: 137
21545889 ATCCCATTCA
21545899 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
21545964 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
21546029 CCATTTG
131 CCATTTG
21546036 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
21546101 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
21546166 CCATTTG
131 CCATTTG
21546173 G
1 G
21546174 AGAGACTACT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 138 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
CCATTTG
Found at i:21546468 original size:26 final size:26
Alignment explanation
Indices: 21546422--21546474 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
21546412 TCAAACATGC
*
21546422 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
21546448 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
21546474 A
1 A
21546475 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:21547991 original size:26 final size:26
Alignment explanation
Indices: 21547960--21548067 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
21547950 TGAAATTCCC
21547960 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
21547986 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
21548012 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
21548038 GTCATGAAACATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
21548064 ATCA
1 ATCA
21548068 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 2 0.03
26 71 0.97
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:21548037 original size:52 final size:52
Alignment explanation
Indices: 21547960--21548067 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
21547950 TGAAATTCCC
* *
21547960 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
* * *
21548012 ATCATGGAATATTTACCTAATCCATTGTCATGAAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
21548064 ATCA
1 ATCA
21548068 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
Found at i:21549593 original size:37 final size:37
Alignment explanation
Indices: 21549543--21549616 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
21549533 TTTCGACAAT
21549543 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
1 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
21549580 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
1 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
21549617 CTTGATTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (37 bp):
AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
Found at i:21550669 original size:14 final size:13
Alignment explanation
Indices: 21550646--21550677 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
21550636 AGGATATCAA
21550646 AACAATAATTAAG
1 AACAATAATTAAG
21550659 AACACATAATTAAG
1 AACA-ATAATTAAG
21550673 AACAA
1 AACAA
21550678 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:21552390 original size:37 final size:37
Alignment explanation
Indices: 21552334--21552488 Score: 183
Period size: 37 Copynumber: 4.2 Consensus size: 37
21552324 ACTTAATGCG
*
21552334 TGGCGTGTTATCG-GTTGGATTAGCTCTTATGAGCATT
1 TGGCATGTTATCGAG-TGGATTAGCTCTTATGAGCATT
* *
21552371 TGGCGTGTTATCGAATGGATTAGCT-TTGATGAGCATT
1 TGGCATGTTATCGAGTGGATTAGCTCTT-ATGAGCATT
* * *
21552408 TGGCATGTTATCTAGTGGATTAGCTTTTATGAGTATT
1 TGGCATGTTATCGAGTGGATTAGCTCTTATGAGCATT
* * *
21552445 TGGCATGTTATTGGGTGGATTAGCTCTTATGA-TA-T
1 TGGCATGTTATCGAGTGGATTAGCTCTTATGAGCATT
21552480 TGGCATGTT
1 TGGCATGTT
21552489 TTGGTTGGAT
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
35 10 0.09
36 4 0.04
37 90 0.85
38 2 0.02
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.42
Consensus pattern (37 bp):
TGGCATGTTATCGAGTGGATTAGCTCTTATGAGCATT
Found at i:21560311 original size:11 final size:11
Alignment explanation
Indices: 21560295--21560327 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
21560285 TTATAGCCGA
21560295 AAAATAAAAAT
1 AAAATAAAAAT
21560306 AAAATAAATAA-
1 AAAATAAA-AAT
21560317 AAAATAAAAAT
1 AAAATAAAAAT
21560328 TTCCTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:21560316 original size:15 final size:16
Alignment explanation
Indices: 21560296--21560325 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21560286 TATAGCCGAA
21560296 AAAT-AAAAATAAAAT
1 AAATAAAAAATAAAAT
21560311 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
21560326 ATTTCCTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAAAAATAAAAT
Found at i:21560569 original size:25 final size:23
Alignment explanation
Indices: 21560523--21560569 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
21560513 TATTTTACTT
*
21560523 TGGGCTAATAATTTGCTTGTAAG
1 TGGGCTAATAATTGGCTTGTAAG
21560546 TGGGCTAGATAATTGGACTTGTAA
1 TGGGCTA-ATAATTGG-CTTGTAA
21560570 CAGGGACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.36
Consensus pattern (23 bp):
TGGGCTAATAATTGGCTTGTAAG
Found at i:21561852 original size:11 final size:11
Alignment explanation
Indices: 21561832--21561885 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
21561822 AAAGCAACAG
*
21561832 CAAAATAGCAC
1 CAAAACAGCAC
21561843 CAAAACAGCAC
1 CAAAACAGCAC
*
21561854 C-AAACAGCAA
1 CAAAACAGCAC
*
21561864 CAAAACAACAC
1 CAAAACAGCAC
*
21561875 AAAAAACAGCA
1 -CAAAACAGCA
21561886 TCACCAACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 9 0.26
11 18 0.51
12 8 0.23
ACGTcount: A:0.61, C:0.30, G:0.07, T:0.02
Consensus pattern (11 bp):
CAAAACAGCAC
Found at i:21562061 original size:9 final size:9
Alignment explanation
Indices: 21562047--21562077 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21562037 ATCGAAGAAA
21562047 CATCGTCCT
1 CATCGTCCT
21562056 CATCGTCCT
1 CATCGTCCT
*
21562065 CATCGTCAT
1 CATCGTCCT
21562074 CATC
1 CATC
21562078 ATTATTGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.16, C:0.42, G:0.10, T:0.32
Consensus pattern (9 bp):
CATCGTCCT
Found at i:21567255 original size:57 final size:57
Alignment explanation
Indices: 21567188--21567301 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
21567178 GACTAGTAAA
21567188 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
1 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
21567245 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
1 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
21567302 ACTAACACTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.19, C:0.04, G:0.19, T:0.58
Consensus pattern (57 bp):
TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
Found at i:21572267 original size:6 final size:6
Alignment explanation
Indices: 21572258--21572292 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
21572248 ATTTTCTTGC
21572258 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
21572293 CACTTGAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:21572801 original size:96 final size:97
Alignment explanation
Indices: 21572607--21572801 Score: 241
Period size: 96 Copynumber: 2.0 Consensus size: 97
21572597 GTCATACTTA
* * ** *
21572607 TATTCTTCTCTAGTTGGATATTTAATTGAACATTGGAAACCCTTATGATGTTTTGAACTACACTA
1 TATTCTTCTCTAGTTGGATATTTAATTGAACATTGAAAACCCTCATGACCTTTTGAACTACACCA
* * *
21572672 ATAAAATTGCACAAAAGGTGATAGCTCATTTG
66 ATAAAATTGCACAAAAGGTGAGAGATCAGTTG
* *
21572704 TATTC-TCTCTATTTGGATATTTCATT-AGACATTGAAAACCCTCATGACCTTTTGAACTACACC
1 TATTCTTCTCTAGTTGGATATTTAATTGA-ACATTGAAAACCCTCATGACCTTTTGAACTACACC
* * **
21572767 AATAACATTTCACAGTAGGTGAGAGATCAGTTG
65 AATAAAATTGCACAAAAGGTGAGAGATCAGTTG
21572800 TA
1 TA
21572802 CTCCTCCTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
95 1 0.01
96 77 0.93
97 5 0.06
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (97 bp):
TATTCTTCTCTAGTTGGATATTTAATTGAACATTGAAAACCCTCATGACCTTTTGAACTACACCA
ATAAAATTGCACAAAAGGTGAGAGATCAGTTG
Found at i:21579062 original size:53 final size:54
Alignment explanation
Indices: 21578954--21579485 Score: 595
Period size: 53 Copynumber: 9.9 Consensus size: 54
21578944 TTAGTTTACC
* * * *
21578954 AAATTACGGAAATACCC-CCAGTTGTAAAATTACC-AAAGTACCC-CTGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCTC-GATTTGTA
** * *
21579007 AAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* *
21579060 AAATTACTGAAATACCATCGATTTGTAAAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * *
21579113 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGA-TTTGTA
* *
21579167 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * * *
21579221 AAATTAC-CAAAGTACCCCCGATTTATAAAATTACCCAAATATCCTCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * *
21579275 AAATTA-TCAAAATATCGTTGA-TTGTAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
** **
21579328 AAATTACTGAAATACAGTCGA-TTGTAAAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
**
21579381 AAATTA-TCGAAATACCCTC-AGTTTGTAAAATTATTGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGA-TTTGTAAAATTACCGAAATACCCTCGATTTGTA
* *
21579435 AAATTACTGAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCCCGATTT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCTCGATTT
21579486 ACAGAATTAC
Statistics
Matches: 411, Mismatches: 52, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
52 3 0.01
53 203 0.49
54 195 0.47
55 10 0.02
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
Found at i:21579522 original size:241 final size:241
Alignment explanation
Indices: 21578954--21579496 Score: 935
Period size: 241 Copynumber: 2.3 Consensus size: 241
21578944 TTAGTTTACC
* * * *
21578954 AAATTACGGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCTGATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
* * *
21579018 ATATCCTCGATTTGTAAAATTACCGAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
66 ATATCCTCGATTTATAAAATTATCAAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
*
21579083 TGTAAAATTACCGAAATACCGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
131 TGTAAAATTACCGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
21579148 GAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
196 GAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
21579194 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
* * *
21579259 ATATCCTCGATTTATAAAATTATCAAAATATCGTTGATTGTAAAATTACTGAAATACCCTCGATT
66 ATATCCTCGATTTATAAAATTATCAAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
*
21579324 TGTAAAATTACTGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
131 TGTAAAATTACCGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
* *
21579389 GAAATACCCTCAGTTTGTAAAATTATTGAAATACCCTCGATTTGTA
196 GAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
* *
21579435 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACAGAATTACC
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACC
21579497 GTTTTACCCT
Statistics
Matches: 286, Mismatches: 16, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
240 16 0.06
241 270 0.94
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (241 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
ATATCCTCGATTTATAAAATTATCAAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
TGTAAAATTACCGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
GAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
Found at i:21579531 original size:27 final size:27
Alignment explanation
Indices: 21578954--21579532 Score: 583
Period size: 27 Copynumber: 21.6 Consensus size: 27
21578944 TTAGTTTACC
* * *
21578954 AAATTACGGAAATACCC-CCAGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21578980 AAATTAC-CAAAGTACCC-CTGATTTATA
1 AAATTACTGAAA-TACCCTC-GATTTGTA
** *
21579007 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21579034 AAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21579060 AAATTACTGAAATACCATCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21579087 AAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21579113 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21579140 AAATTA-TCGAAATACCCTC-AGTTTGCA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
21579167 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21579194 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
21579221 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** * *
21579248 AAATTACCCAAATATCCTCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
21579275 AAATTA-TCAAAATATCGTTGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
21579301 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
**
21579328 AAATTACTGAAATACAGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21579354 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
21579381 AAATTA-TCGAAATACCCTC-AGTTTGTA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
*
21579408 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21579435 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * **
21579462 AAATTAC-CAAAGTACCCCCGATTTACA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* * *** **
21579489 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21579516 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
21579533 CTGTAGGGTA
Statistics
Matches: 471, Mismatches: 60, Indels: 43
0.82 0.10 0.07
Matches are distributed among these distances:
25 3 0.01
26 112 0.24
27 343 0.73
28 13 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:21579955 original size:27 final size:27
Alignment explanation
Indices: 21579524--21579951 Score: 552
Period size: 27 Copynumber: 15.9 Consensus size: 27
21579514 CAAAATTATT
* *
21579524 GAAATACCCCTGTAGGGTAGAAATACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
21579551 GAAATACTCTTATAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * **
21579578 GAAATACCCTTGTAGAGTAGAATTATT
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
21579605 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
21579632 GAAATACCCTTTTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
21579659 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * * *
21579686 AAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
21579713 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
21579740 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
21579767 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
21579794 GAAATACCCCTGTAGGATAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
21579821 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
21579848 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
21579875 AAAATACCCCTGTAGGATAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
21579902 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
21579929 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCTTGTAGGGTAGAAAT
21579952 TACCATTTTG
Statistics
Matches: 353, Mismatches: 48, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
26 4 0.01
27 349 0.99
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAAATACC
Done.