Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 113 of 322
Found at i:36836575 original size:19 final size:19
Alignment explanation
Indices: 36836530--36836590 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
36836520 TTAAAATAAA
36836530 TAAA-AATAAAAT-AAAA-
1 TAAATAATAAAATCAAAAT
*
36836546 TAAAAAATAAAATCAAAAT
1 TAAATAATAAAATCAAAAT
*
36836565 TAAATATTAAAATCAAAAT
1 TAAATAATAAAATCAAAAT
36836584 TAAATAA
1 TAAATAA
36836591 AAATTAAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
16 4 0.10
17 8 0.21
18 4 0.10
19 23 0.59
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (19 bp):
TAAATAATAAAATCAAAAT
Found at i:36836628 original size:19 final size:18
Alignment explanation
Indices: 36836527--36836630 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
36836517 TTATTAAAAT
36836527 AAATAAAAAT-AAAAT-A
1 AAATAAAAATAAAAATCA
36836543 AAATAAAAA-ATAAAATCA
1 AAATAAAAATA-AAAATCA
* *
36836561 AAATTAAATATTAAAATCA
1 AAA-TAAAAATAAAAATCA
* *
36836580 AAAT-TAAATAAAAATTA
1 AAATAAAAATAAAAATCA
* * *
36836597 AAGACAAAGATAAAAATGA
1 AA-ATAAAAATAAAAATCA
36836616 GAAATAAAAATAAAA
1 -AAATAAAAATAAAA
36836631 CTAAGAAAAG
Statistics
Matches: 68, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
16 9 0.13
17 16 0.24
18 6 0.09
19 35 0.51
20 2 0.03
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (18 bp):
AAATAAAAATAAAAATCA
Found at i:36838310 original size:27 final size:27
Alignment explanation
Indices: 36838280--36838355 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
36838270 ACACGAGCTA
*
36838280 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCTTGTAGGGTAGAAATACCG
* *
36838307 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAAATACCG
* *
36838334 AGATACCCTTGTGGGGTA-AAAT
1 AAATACCCTTGTAGGGTAGAAAT
36838356 TACCATTTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAAATACCG
Found at i:36838596 original size:27 final size:26
Alignment explanation
Indices: 36838558--36838637 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
36838548 CGGAGGAAGC
*
36838558 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATACCAC-AATATCT
*
36838585 GTTCTGGTGGCTCTACCACAATATCT
1 GTTCTGGTGGCTATACCACAATATCT
* * * *
36838611 GTATTTGGTGACTTTATCACAATATCT
1 GT-TCTGGTGGCTATACCACAATATCT
36838638 ATTGATCGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 9 0.20
27 37 0.80
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTATACCACAATATCT
Found at i:36838760 original size:22 final size:22
Alignment explanation
Indices: 36838728--36838786 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
36838718 CCCGTTATTA
*
36838728 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
36838750 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
36838772 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
36838787 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:36838973 original size:27 final size:27
Alignment explanation
Indices: 36838951--36839024 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
36838941 TAGGTGGGTT
*
36838951 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
36838978 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
36839005 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
36839025 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:36839151 original size:6 final size:6
Alignment explanation
Indices: 36839142--36839413 Score: 258
Period size: 6 Copynumber: 44.8 Consensus size: 6
36839132 TTGCATTCAC
* *
36839142 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
36839191 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
36839239 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
* *
36839288 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
36839337 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
36839385 ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
36839414 CATTTTGGTT
Statistics
Matches: 221, Mismatches: 22, Indels: 46
0.76 0.08 0.16
Matches are distributed among these distances:
5 16 0.07
6 186 0.84
7 15 0.07
8 4 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:36839206 original size:30 final size:30
Alignment explanation
Indices: 36839142--36839413 Score: 352
Period size: 30 Copynumber: 9.4 Consensus size: 30
36839132 TTGCATTCAC
* *
36839142 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATACTG
36839173 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
36839203 ATTCTGATTCTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
36839227 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
36839258 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
36839288 ATTCTGATTCTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
36839312 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
*
36839343 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
36839373 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
36839403 ATTCTGATTCT
1 ATTCTGATTCT
36839414 CATTTTGGTT
Statistics
Matches: 215, Mismatches: 12, Indels: 29
0.84 0.05 0.11
Matches are distributed among these distances:
24 46 0.21
26 2 0.01
29 2 0.01
30 96 0.45
31 69 0.32
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:36839282 original size:85 final size:85
Alignment explanation
Indices: 36839142--36839413 Score: 526
Period size: 85 Copynumber: 3.2 Consensus size: 85
36839132 TTGCATTCAC
*
36839142 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
36839207 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
36839227 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
36839292 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
*
36839312 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
36839377 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
36839397 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
36839414 CATTTTGGTT
Statistics
Matches: 185, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 185 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:36842165 original size:18 final size:19
Alignment explanation
Indices: 36842132--36842167 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36842122 CCCTGTTCTG
*
36842132 AATTTAAAAATTAATAATA
1 AATTTAAAAATAAATAATA
36842151 AATTTAAAAA-AAATAAT
1 AATTTAAAAATAAATAAT
36842168 TAGACGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTTAAAAATAAATAATA
Found at i:36849334 original size:31 final size:31
Alignment explanation
Indices: 36849296--36849356 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
36849286 GATTACGAGT
36849296 TAGTGATTGACTACAACCAGGGAAAGGCGAC
1 TAGTGATTGACTACAACCAGGGAAAGGCGAC
*
36849327 TAGTGATTGACTACCACCAGGGAAAGGCGA
1 TAGTGATTGACTACAACCAGGGAAAGGCGA
36849357 ATATGGTCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.20, G:0.30, T:0.16
Consensus pattern (31 bp):
TAGTGATTGACTACAACCAGGGAAAGGCGAC
Found at i:36851608 original size:42 final size:44
Alignment explanation
Indices: 36851489--36851658 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 44
36851479 AGCTCGTAGA
* **
36851489 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGAAATGGTCTTACATGTAAATCAAATATCG
* * *
36851532 ATGCCACTGTCCCAGATAGGGTCTTACATG-AAATCAAATAT-G
1 ATGCCAATGTCCCAGAAATGGTCTTACATGTAAATCAAATATCG
* **
36851574 ATGCCAATG-CCCAGAAATGGTCTTACACGTAAATC-TCTAATCG
1 ATGCCAATGTCCCAGAAATGGTCTTACATGTAAATCAAAT-ATCG
** ** * *
36851617 ATGCCAACATCCCAGACGTGGTCTTACACG-AAATCACATATC
1 ATGCCAATGTCCCAGAAATGGTCTTACATGTAAATCAAATATC
36851659 AGAATCCTAT
Statistics
Matches: 104, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 18 0.17
42 16 0.15
43 51 0.49
44 19 0.18
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCAGAAATGGTCTTACATGTAAATCAAATATCG
Found at i:36856050 original size:27 final size:27
Alignment explanation
Indices: 36856006--36856058 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
36855996 GACCTCAGTT
* *
36856006 TGTAAAATCACTGAAATACCCTTGTAG
1 TGTAAAATCACCGAAATACCCCTGTAG
* *
36856033 TGTAAAATGACCGTAATACCCCTGTA
1 TGTAAAATCACCGAAATACCCCTGTA
36856059 TGGTAGAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (27 bp):
TGTAAAATCACCGAAATACCCCTGTAG
Found at i:36856567 original size:28 final size:28
Alignment explanation
Indices: 36856512--36856577 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
36856502 GCATCTGATA
** *
36856512 CTGATTCTG-TATTGGGCTTAGGGACAC
1 CTGATTCTGTTATTGGGCGAAGGCACAC
*
36856539 CTGATTCTGTTATTGGGCGAAGGCCCAC
1 CTGATTCTGTTATTGGGCGAAGGCACAC
*
36856567 CTGATGCTGTT
1 CTGATTCTGTT
36856578 TCTGTGATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (28 bp):
CTGATTCTGTTATTGGGCGAAGGCACAC
Found at i:36859399 original size:27 final size:27
Alignment explanation
Indices: 36859361--36859415 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
36859351 GAACCACTGA
36859361 TATCAACGTCTTCCACCAATAATACGC
1 TATCAACGTCTTCCACCAATAATACGC
36859388 TATCAACGTCTTCCACCAATAATACGC
1 TATCAACGTCTTCCACCAATAATACGC
36859415 T
1 T
36859416 GTATCTCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (27 bp):
TATCAACGTCTTCCACCAATAATACGC
Found at i:36886001 original size:47 final size:47
Alignment explanation
Indices: 36885932--36886230 Score: 490
Period size: 47 Copynumber: 6.3 Consensus size: 47
36885922 NNNNNNNGTA
*
36885932 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
36885979 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
36886026 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
36886073 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
36886120 TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
36886169 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
36886216 TATAAATGTGATAAG
1 TATATATGTGATAAG
36886231 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 193 0.81
49 46 0.19
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:36886194 original size:143 final size:141
Alignment explanation
Indices: 36885932--36886230 Score: 490
Period size: 143 Copynumber: 2.1 Consensus size: 141
36885922 NNNNNNNGTA
*
36885932 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * *
36885997 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGA
36886062 ATGTGAAAGTG
131 ATGTGAAAGTG
*
36886073 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
* *
36886138 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT
64 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGAT
*
36886203 GGATGTGAAAGTG
129 GAATGTGAAAGTG
*
36886216 TATAAATGTGATAAG
1 TATATATGTGATAAG
36886231 TCCCGAAGGG
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
141 46 0.32
143 100 0.68
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGA
ATGTGAAAGTG
Found at i:36886404 original size:37 final size:37
Alignment explanation
Indices: 36886348--36886426 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
36886338 TCGAGCTCTA
* * *
36886348 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
36886385 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
36886422 AAGAC
1 AAGAC
36886427 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:36888346 original size:50 final size:50
Alignment explanation
Indices: 36888178--36888471 Score: 333
Period size: 50 Copynumber: 5.9 Consensus size: 50
36888168 TGTGGCTGCC
*
36888178 TATCAAATGGTTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTG
1 TATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG
* * * * * * * *
36888228 TACCAGATTGTT-GGTCGCATGTGTAGTACTAAGTGCAAGCTA-TATGCG
1 TATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG
* * ** * * *
36888276 TACCTAATAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTG
1 TATCAAAT-GGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG
*
36888327 TATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTTCAGGCTACTACGTG
1 TATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG
*
36888377 TATCAAATGGTTAGGTCACGTTTGTAGTACTAAGTGCAGGCTACTACGTG
1 TATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG
** ** * * *
36888427 TATCGGATAATT-GGTCGCATGTGTAGTACTAAATGCAGGCTACTA
1 TATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
36888472 TGCGTACTAG
Statistics
Matches: 203, Mismatches: 38, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
48 10 0.05
49 57 0.28
50 126 0.62
51 10 0.05
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
TATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG
Found at i:36888450 original size:149 final size:149
Alignment explanation
Indices: 36888178--36888471 Score: 385
Period size: 149 Copynumber: 2.0 Consensus size: 149
36888168 TGTGGCTGCC
* * *
36888178 TATCAAATGGTTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGT
1 TATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTGGT
* * * *
36888243 CGCATGTGTAGTACTAAGTGCAAGCTATATGCGTACCTAATAACTTCGATCACGTGTGTAGTACT
66 CACATGTGTAGTACTAAGTGCAAGCTATACGCGTACCGAATAACTTCGATCACATGTGTAGTACT
* *
36888308 AAGTGTAGGCTACTACGTG
131 AAATGCAGGCTACTACGTG
* *
36888327 TATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTTCAGGCTACTACGTGTATCAAATGGTTAGG
1 TATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTT-GG
* * * * * * * *
36888392 TCACGTTTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAA-TT-GGTCGCATGTGTAGTA
65 TCACATGTGTAGTACTAAGTGCAAGCTA-TACGCGTACCGAATAACTTCGATCACATGTGTAGTA
36888455 CTAAATGCAGGCTACTA
129 CTAAATGCAGGCTACTA
36888472 TGCGTACTAG
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
149 85 0.69
150 28 0.23
151 11 0.09
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (149 bp):
TATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTGGT
CACATGTGTAGTACTAAGTGCAAGCTATACGCGTACCGAATAACTTCGATCACATGTGTAGTACT
AAATGCAGGCTACTACGTG
Found at i:36890367 original size:17 final size:17
Alignment explanation
Indices: 36890328--36890369 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
36890318 AATTATAACT
36890328 ATAAAATTAAAAAATTA
1 ATAAAATTAAAAAATTA
* *
36890345 AAAAAATTAAAAATTTA
1 ATAAAATTAAAAAATTA
*
36890362 TTAAAATT
1 ATAAAATT
36890370 TATTCTTACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAAATTAAAAAATTA
Found at i:36891972 original size:42 final size:42
Alignment explanation
Indices: 36891913--36892010 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
36891903 ATGTCGACAC
*
36891913 AACACGGACGTGTGGTCGCCTGTGTGGTAGGCCGTGTGACGA
1 AACACGGGCGTGTGGTCGCCTGTGTGGTAGGCCGTGTGACGA
*
36891955 AACACGGGCGTGTGGTCGCTTGTGTGGTAGGCCGTGTGACGA
1 AACACGGGCGTGTGGTCGCCTGTGTGGTAGGCCGTGTGACGA
*
36891997 AACATGGGCGTGTG
1 AACACGGGCGTGTG
36892011 AGTGACGAGC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.16, C:0.19, G:0.42, T:0.22
Consensus pattern (42 bp):
AACACGGGCGTGTGGTCGCCTGTGTGGTAGGCCGTGTGACGA
Found at i:36893327 original size:30 final size:30
Alignment explanation
Indices: 36893269--36893327 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
36893259 ATTTTCAAGC
** **
36893269 CTAGGGGTAAAATGGTTATTTTGTCAAAGT
1 CTAGGGGTAAAATGGCCATTTTACCAAAGT
36893299 CTAGGGGTAAAATGGCCATTTTACCAAAG
1 CTAGGGGTAAAATGGCCATTTTACCAAAG
36893328 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (30 bp):
CTAGGGGTAAAATGGCCATTTTACCAAAGT
Found at i:36893813 original size:46 final size:46
Alignment explanation
Indices: 36893715--36893832 Score: 125
Period size: 46 Copynumber: 2.5 Consensus size: 46
36893705 TATGAGAGCC
* *
36893715 AGTGTAAGACCATGTCT-AGGACATGGCATTGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGA-GACAT-GCATTAGCATTGAGACGAGTGCA
*
36893763 AGTGTAAGACATGTCTGAGACATGCATTAGCCTTGAGA-G-GTAAGCA
1 AGTGTAAGACATGTCTGAGACATGCATTAGCATTGAGACGAGT--GCA
* *
36893809 AGTGTAAGACATGCCTGGGACATG
1 AGTGTAAGACATGTCTGAGACATG
36893833 TACCGGTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
44 2 0.03
45 1 0.02
46 37 0.60
47 12 0.19
48 10 0.16
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGAGACATGCATTAGCATTGAGACGAGTGCA
Found at i:36893892 original size:47 final size:47
Alignment explanation
Indices: 36893841--36893932 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
36893831 TGTACCGGTT
* * *
36893841 ATGAGATGAT-AGTTAGTGTAAGACCAAGTCTGGGACATGGAATCGAC
1 ATGAGAT-ATGAGCTAGCGTAAGACCAAGTCTAGGACATGGAATCGAC
* * *
36893888 ATGAGATATGAGCTAGCGTAATACCATGTCTAGGACATGGCATCG
1 ATGAGATATGAGCTAGCGTAAGACCAAGTCTAGGACATGGAATCG
36893933 GCACCTTACC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 2 0.05
47 36 0.95
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (47 bp):
ATGAGATATGAGCTAGCGTAAGACCAAGTCTAGGACATGGAATCGAC
Found at i:36899554 original size:49 final size:50
Alignment explanation
Indices: 36899473--36899718 Score: 221
Period size: 49 Copynumber: 4.9 Consensus size: 50
36899463 GTAGCCGAAG
* * * * *
36899473 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCCA-
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAC
* *
36899522 TTATCCGGTACACGTAGTAGCCTGCA-TGTAGTACTACACACGTGACCTAAC
1 CTATCCGGTACACGTAGTAGCCTGCACT-TAGTACTACACACGCGACC-AAC
* * * * * * *
36899573 CT-TCTGATACATGTAGTAGCTTGCACTTAGTACTACACACGTGATCGAAG
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAAC
* * ** * * * *
36899623 TTATCAGGTATGCATAGTAGCCTCCATTTAGTACTACACATGCGACCAA-
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAC
* *
36899672 CAATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
36899719 TCACAATAGC
Statistics
Matches: 154, Mismatches: 37, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
48 1 0.01
49 76 0.49
50 43 0.28
51 34 0.22
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (50 bp):
CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAC
Found at i:36899661 original size:101 final size:98
Alignment explanation
Indices: 36899487--36899718 Score: 275
Period size: 100 Copynumber: 2.3 Consensus size: 98
36899477 CTGGTACGCA
* * * * * *
36899487 TAGTAGCCTGCACTTAGTACTACACATGCGACCCATTATCCGGTACACGTAGTAGCCTGCATGTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTCCATGTA
* ** * *
36899552 GTACTACACACGTGACCTAACCTTCTGATACATG
66 GTACTACACACGCGACC-AACAATCCGATACACG
* * ** *
36899586 TAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTATGCATAGTAGCCTCCATT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTCCATG
* *
36899651 TAGTACTACACATGCGACCAACAATCCGGTACACG
64 TAGTACTACACACGCGACCAACAATCCGATACACG
36899686 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
36899719 TCACAATAGC
Statistics
Matches: 111, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
99 29 0.26
100 43 0.39
101 39 0.35
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTCCATGTA
GTACTACACACGCGACCAACAATCCGATACACG
Found at i:36902028 original size:15 final size:15
Alignment explanation
Indices: 36901999--36902048 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
36901989 AACAGAGAAG
36901999 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
36902015 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
* *
36902030 CTATGAT-AAGAGAAT
1 CCAAGATAAAGA-AAT
36902045 CCAA
1 CCAA
36902049 TTTACAACAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 4 0.14
15 20 0.69
16 5 0.17
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:36904839 original size:49 final size:48
Alignment explanation
Indices: 36904767--36904952 Score: 210
Period size: 49 Copynumber: 3.8 Consensus size: 48
36904757 GCCGAAGCTA
*
36904767 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-AG
* *** * *
36904816 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAAG
* * * * *
36904864 TTATCAGGTACGCGTAGTAGCCTGCACTTAGTACTGCACATGCGACCAAAAA
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAAG
*
36904916 TCTGGTACACATAGTAGCCTGCACTTCGTACTACACA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
36904953 CATGACCTCA
Statistics
Matches: 112, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
48 2 0.02
49 71 0.63
51 37 0.33
52 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (48 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAAG
Found at i:36904884 original size:100 final size:100
Alignment explanation
Indices: 36904759--36904957 Score: 326
Period size: 100 Copynumber: 2.0 Consensus size: 100
36904749 CACTTGTAGC
* * *
36904759 CGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCTGGTAC
*
36904824 ACGTAGTAGCCTGCACTTAGTACTACACACATGAT
66 ACATAGTAGCCTGCACTTAGTACTACACACATGAT
* * *
36904859 CGAAGTTATCAGGTACGCGTAGTAGCCTGCACTTAGTACTGCACATGCGACCAAAAATCTGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCTGGTAC
*
36904924 ACATAGTAGCCTGCACTTCGTACTACACACATGA
66 ACATAGTAGCCTGCACTTAGTACTACACACATGA
36904958 CCTCATAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (100 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCTGGTAC
ACATAGTAGCCTGCACTTAGTACTACACACATGAT
Found at i:36907602 original size:46 final size:46
Alignment explanation
Indices: 36907535--36907626 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
36907525 TTAGTGTGAT
36907535 CGATGCCTCCGACGTCCCTTGATTCCCGATGCTAGCTTGGTGGCAC
1 CGATGCCTCCGACGTCCCTTGATTCCCGATGCTAGCTTGGTGGCAC
*
36907581 CGATGCCTTCGACGTCCCTTGATTCCCGATGCTAGCTTGGTGGCAC
1 CGATGCCTCCGACGTCCCTTGATTCCCGATGCTAGCTTGGTGGCAC
36907627 TATATGAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.13, C:0.34, G:0.26, T:0.27
Consensus pattern (46 bp):
CGATGCCTCCGACGTCCCTTGATTCCCGATGCTAGCTTGGTGGCAC
Found at i:36908098 original size:48 final size:47
Alignment explanation
Indices: 36908028--36908343 Score: 305
Period size: 48 Copynumber: 6.6 Consensus size: 47
36908018 GTAAATTGTT
* * * *
36908028 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGCC
* ** * *
36908076 GATGCCATATCCCAGACATGGTCTTACACAAGCTCTCGTCTCCATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-CATGCC
* * *
36908124 GATGCCATGTCCCAGACATGGTTTTACTCTGGCTCTCATAACATTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCA-TGCC
* * * *
36908172 GATGCCATGTTCCA-ATCATGGTCTTACATTGGCTCTCATAACATTGCT
1 GATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCTCATATCA-TGCC
* * * *
36908220 GATGCCATGTTCTAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCAT-GCC
* * *
36908268 GATGCCTTGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-ATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCAT-GCC
* *
36908316 GATTCCATGTCCCATACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
36908344 TTCGCACACA
Statistics
Matches: 229, Mismatches: 33, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
47 4 0.02
48 222 0.97
49 3 0.01
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGCC
Found at i:36910579 original size:42 final size:43
Alignment explanation
Indices: 36910519--36910611 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 43
36910509 GATTTATGTA
* * ** * *
36910519 TAAGACCATGTCTGGGACATTGGCATCG-TATCT-AATTTCGTG
1 TAAGACCATATCTAGGACAGAGGCATCGATAT-TGAATTACATG
*
36910561 TAAGACCCTATCTAGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATATCTAGGACAGAGGCATCGATATTGAATTACATG
36910604 TAAGACCA
1 TAAGACCA
36910612 CGCCCGAGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
42 24 0.59
43 17 0.41
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
TAAGACCATATCTAGGACAGAGGCATCGATATTGAATTACATG
Found at i:36921267 original size:38 final size:38
Alignment explanation
Indices: 36921180--36921336 Score: 181
Period size: 38 Copynumber: 4.0 Consensus size: 38
36921170 AAACCCAAAC
* * * *
36921180 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
36921220 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
36921258 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
36921296 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGAT
36921336 A
1 A
36921337 CACATCAAAT
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.01
38 64 0.62
39 8 0.08
40 30 0.29
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:36921271 original size:78 final size:78
Alignment explanation
Indices: 36921180--36921336 Score: 203
Period size: 78 Copynumber: 2.0 Consensus size: 78
36921170 AAACCCAAAC
* *
36921180 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTA-GGCCTGCGG
1 ATAACACCAGCACGAAGCCTACGGGA-TTT-AACCCAGATATAATACCAGCA-TATAGCCTGCGG
36921244 G-ATTTAA-CCCGGAT
63 GTATTTAAGCCCGGAT
* * * * *
36921258 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATATAGCCTGCGGGTC
1 ATAACACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCATATAGCCTGCGGGTA
36921323 TTTAAGCCCGGAT
66 TTTAAGCCCGGAT
36921336 A
1 A
36921337 CACATCAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
75 2 0.03
76 27 0.39
77 8 0.12
78 32 0.46
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (78 bp):
ATAACACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCATATAGCCTGCGGGTA
TTTAAGCCCGGAT
Found at i:36927123 original size:42 final size:43
Alignment explanation
Indices: 36927015--36927134 Score: 113
Period size: 42 Copynumber: 2.8 Consensus size: 43
36927005 AACAAGTACA
* * * *
36927015 ATGCCAACGTCCCGGACGTGGTCTTACATGTAATTCAATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAATATTG
**
36927058 ATGCCTCTG-CCCAGACA-GTGTCTTACATG-AAATCAGATA-TG
1 ATGCCAATGTCCCAGACATG-GTCTTACATGTAAATCA-ATATTG
* * *
36927099 ATGCCAATGTCCCAAACATGGTCTTATACGTAAATC
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATC
36927135 TCAAATAGAG
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
41 15 0.25
42 34 0.56
43 12 0.20
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAATATTG
Found at i:36945044 original size:41 final size:41
Alignment explanation
Indices: 36944999--36945397 Score: 506
Period size: 41 Copynumber: 9.8 Consensus size: 41
36944989 ACAAAACAAA
* * * *
36944999 AGCGGCGTTTTTTACTAAAATGCCGCTAAAAA-TAGAGCATT
1 AGCGGCG-CTTTTAGTAAAACGCCGCTAAAAACCAGAGCATT
* **
36945040 AGCGGTGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATT
1 AGCGGCGCTTTTAGTAAAACGCCGCTAAAAACCAGAGCATT
* *
36945081 AACGGCGC-TTTAGGTAAAACGCCGCTAAAAACTAGAGCATT
1 AGCGGCGCTTTTA-GTAAAACGCCGCTAAAAACCAGAGCATT
*
36945122 AGCGGCGC-CTTAGGTAAAACGCCGCTAAAAACCAGAGCATT
1 AGCGGCGCTTTTA-GTAAAACGCCGCTAAAAACCAGAGCATT
36945163 AGCGGCGC-TTTATGTAAAACGCCGCTAAAAACCAGAGCATT
1 AGCGGCGCTTTTA-GTAAAACGCCGCTAAAAACCAGAGCATT
*
36945204 AGCGGCGC-TTTAGGTAAAACGCCGATAAAAACCAGAGCATT
1 AGCGGCGCTTTTA-GTAAAACGCCGCTAAAAACCAGAGCATT
* *
36945245 AGCGGCACTTTCTA-TAAAACGCCGCTAAAAA-CAGGGCATT
1 AGCGGCGCTTT-TAGTAAAACGCCGCTAAAAACCAGAGCATT
** *
36945285 AGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGTGCATT
1 AGCGGCGCTTTTAGTAAAACGCCGCTAAAAACCAGAGCATT
**
36945326 AGCGGCGCTTTGGGTAAAACGCCGCTAAAAACCAGAGCATT
1 AGCGGCGCTTTTAGTAAAACGCCGCTAAAAACCAGAGCATT
* * *
36945367 AGTGGCGCTTTTGGTAAAATGCCGCTAAAAA
1 AGCGGCGCTTTTAGTAAAACGCCGCTAAAAA
36945398 TCCCATAACC
Statistics
Matches: 321, Mismatches: 31, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
40 56 0.17
41 261 0.81
42 2 0.01
43 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (41 bp):
AGCGGCGCTTTTAGTAAAACGCCGCTAAAAACCAGAGCATT
Found at i:36945144 original size:82 final size:82
Alignment explanation
Indices: 36945014--36945397 Score: 574
Period size: 82 Copynumber: 4.7 Consensus size: 82
36945004 CGTTTTTTAC
* * * *
36945014 TAAAATGCCGCTAAAAA-TAGAGCATTAGCGGTGCTTTCGGTAAAACGCCGCTAAAAACCAGAGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGC
*
36945078 ATTAACGGCGCTTTAGG
66 ATTAGCGGCGCTTTAGG
* *
36945095 TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCCTTAGGTAAAACGCCGCTAAAAACCAGAGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGC
*
36945160 ATTAGCGGCGCTTTATG
66 ATTAGCGGCGCTTTAGG
*
36945177 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGATAAAAACCAGAGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGC
* ***
36945242 ATTAGCGGCACTTTCTA
66 ATTAGCGGCGCTTTAGG
* * *
36945259 TAAAACGCCGCTAAAAA-CAGGGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGTGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGC
*
36945323 ATTAGCGGCGCTTTGGG
66 ATTAGCGGCGCTTTAGG
* * *
36945340 TAAAACGCCGCTAAAAACCAGAGCATTAGTGGCGCTTTTGGTAAAATGCCGCTAAAAA
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAA
36945398 TCCCATAACC
Statistics
Matches: 277, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
81 89 0.32
82 188 0.68
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (82 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGC
ATTAGCGGCGCTTTAGG
Found at i:36945358 original size:122 final size:121
Alignment explanation
Indices: 36945014--36945397 Score: 579
Period size: 122 Copynumber: 3.1 Consensus size: 121
36945004 CGTTTTTTAC
* * *
36945014 TAAAATGCCGCTAAAAATAGAGCATTAGCGGTGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCA
1 TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCA
* * **
36945079 TTAACGGCGCTTTAGGTAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCCTTAGG
66 TTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCG-CTTTTG
**
36945136 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTATGTAAAACGCCGCTAAAAACCAGAGC
1 TAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGC
* * *
36945201 ATTAGCGGCGCTTTAGGTAAAACGCCGATAAAAACCAGAGCATTAGCGGCACTTTCTA
65 ATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTT-TG
* *
36945259 TAAAACGCCGCTAAAAACAGGGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGTGCA
1 TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCA
* *
36945324 TTAGCGGCGCTTTGGGTAAAACGCCGCTAAAAACCAGAGCATTAGTGGCGCTTTTGG
66 TTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-G
*
36945381 TAAAATGCCGCTAAAAA
1 TAAAACGCCGCTAAAAA
36945398 TCCCATAACC
Statistics
Matches: 237, Mismatches: 22, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
121 1 0.00
122 129 0.54
123 107 0.45
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (121 bp):
TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCA
TTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTG
Found at i:36946221 original size:15 final size:15
Alignment explanation
Indices: 36946201--36946232 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36946191 TTTAATTTAG
*
36946201 AAGATAAATGTATAT
1 AAGATAAATATATAT
36946216 AAGATAAATATATAT
1 AAGATAAATATATAT
36946231 AA
1 AA
36946233 AATATTATTT
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:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:36946271 original size:24 final size:24
Alignment explanation
Indices: 36946204--36946271 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
36946194 AATTTAGAAG
* *
36946204 ATAAATGTATATAAGATAAATATAT
1 ATAAATATATATATGA-AAATATAT
* *
36946229 ATAAA-ATATTATTTTAAAATATAT
1 ATAAATATA-TATATGAAAATATAT
36946253 ATAAATATATATATGAAAA
1 ATAAATATATATATGAAAA
36946272 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAATATATATATGAAAATATAT
Found at i:36946771 original size:35 final size:36
Alignment explanation
Indices: 36946727--36946799 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
36946717 TAGATAAAAT
* * *
36946727 AGGTGTTACT-GGCGCTTTGCTGAAAACGCCGCAAA
1 AGGTCTTACTAGGCGCGTTGCTGAAAACGCCACAAA
36946762 AGGTCTTACTAGCGGCGCGTTGCTGAAAACGCCACAAA
1 AGGTCTTACTA--GGCGCGTTGCTGAAAACGCCACAAA
36946800 TTTTTCTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 9 0.28
38 23 0.72
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (36 bp):
AGGTCTTACTAGGCGCGTTGCTGAAAACGCCACAAA
Found at i:36947745 original size:18 final size:17
Alignment explanation
Indices: 36947724--36947766 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
36947714 ATCTTAATGA
36947724 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
36947742 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
36947759 TCGATGAT
1 T-GATGAT
36947767 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:36950590 original size:18 final size:17
Alignment explanation
Indices: 36950569--36950611 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
36950559 ATCTTAATGA
36950569 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
36950587 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
36950604 TCGATGAT
1 T-GATGAT
36950612 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:36951908 original size:51 final size:51
Alignment explanation
Indices: 36951833--36951970 Score: 260
Period size: 51 Copynumber: 2.7 Consensus size: 51
36951823 GTTTTCAATG
36951833 TTTAATTAACA-TTTAATTACATTCCTAAATTTTTAATGTTTTTCCTAACA
1 TTTAATTAACATTTTAATTACATTCCTAAATTTTTAATGTTTTTCCTAACA
*
36951883 TTTAATTAACATTTTAATTACATTCCTAAATTTTTAATTTTTTTCCTAACA
1 TTTAATTAACATTTTAATTACATTCCTAAATTTTTAATGTTTTTCCTAACA
36951934 TTTAATTAACATTTTAATTACATTCCTAAATTTTTAA
1 TTTAATTAACATTTTAATTACATTCCTAAATTTTTAA
36951971 GCTTATTTCA
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
50 11 0.13
51 75 0.87
ACGTcount: A:0.35, C:0.13, G:0.01, T:0.51
Consensus pattern (51 bp):
TTTAATTAACATTTTAATTACATTCCTAAATTTTTAATGTTTTTCCTAACA
Found at i:36952696 original size:133 final size:133
Alignment explanation
Indices: 36952451--36952702 Score: 486
Period size: 133 Copynumber: 1.9 Consensus size: 133
36952441 TGGTGATTCC
36952451 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
* *
36952516 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGTTTACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
36952581 TAT
131 TAT
36952584 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
36952649 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
36952703 TGTTGAATTC
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 117 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:36960614 original size:21 final size:21
Alignment explanation
Indices: 36960590--36960635 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
36960580 AACTTAGAGA
*
36960590 GGAGGCAGCAGCGAGGGAGGC
1 GGAGGCAACAGCGAGGGAGGC
*
36960611 GGAGGCAACAGCGAGGGAGGT
1 GGAGGCAACAGCGAGGGAGGC
36960632 GGAG
1 GGAG
36960636 CAGAACAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.57, T:0.02
Consensus pattern (21 bp):
GGAGGCAACAGCGAGGGAGGC
Found at i:36961066 original size:43 final size:42
Alignment explanation
Indices: 36960932--36961190 Score: 254
Period size: 43 Copynumber: 6.1 Consensus size: 42
36960922 ACTGGGCAAA
* ***
36960932 TTAGCGGCGTTTTTTAAAAACGCGCCGCTAAAAGTTGAGGT-T
1 TTAGCGGCGTTTTTTAAAAA-GCGCCGCTAAAGGTCCTGGTCT
* * * * *
36960974 TACAGCGACGTTTTTTACAAAAGCGCCGCTAAAAGT-ATAGGCCT
1 T-TAGCGGCGTTTTTTA-AAAAGCGCCGCTAAAGGTCCT-GGTCT
* *
36961018 ATAGCGGCGTTTTTTATAAAAGTGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTA-AAAAGCGCCGCTAAAGGTCCTGGTCT
* * * *
36961061 TTAGCGGCGCTTTTATAAAAAACGTCGTTAAAGGTCCTGGTCT
1 TTAGCGGCG-TTTTTTAAAAAGCGCCGCTAAAGGTCCTGGTCT
* *
36961104 TTGGCGGCGTTTTTT-AAGAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTCCTGGTCT
* * *
36961145 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGATCGTGGTCT
1 TTAGCGGCG-TTTTTTAAAAAGCGCCGCTAAAGGTCCTGGTCT
36961188 TTA
1 TTA
36961191 ACTTTTGTGG
Statistics
Matches: 179, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
41 30 0.17
42 12 0.07
43 125 0.70
44 12 0.07
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTCCTGGTCT
Found at i:36961137 original size:84 final size:86
Alignment explanation
Indices: 36961021--36961189 Score: 261
Period size: 84 Copynumber: 2.0 Consensus size: 86
36961011 TAGGCCTATA
* *
36961021 GCGGCGTTTTTTATAAAAGTGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGT
1 GCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGC
* *
36961086 CGTTAAAGGTCCTGGTCTTTG
66 CGCTAAAGATCCTGGTCTTTG
* *
36961107 GCGGCG-TTTTT-TAAGAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTTTAAAAAACGC
1 GCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGC
*
36961170 CGCTAAAGATCGTGGTCTTT
66 CGCTAAAGATCCTGGTCTTT
36961190 AACTTTTGTG
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
84 65 0.86
85 5 0.07
86 6 0.08
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (86 bp):
GCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGC
CGCTAAAGATCCTGGTCTTTG
Found at i:36963795 original size:34 final size:33
Alignment explanation
Indices: 36963747--36963811 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
36963737 GCATATTTGT
* *
36963747 ACTGTACTGTTACTG-AGATGGGCTCAGGCCCAC
1 ACTGTACTGATACTGTA-ATGGGCTAAGGCCCAC
36963780 ACTGATACTGATACTGTAATGGGCTAAGGCCC
1 ACTG-TACTGATACTGTAATGGGCTAAGGCCC
36963812 TAACTGGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 23 0.82
35 1 0.04
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (33 bp):
ACTGTACTGATACTGTAATGGGCTAAGGCCCAC
Found at i:36970870 original size:20 final size:20
Alignment explanation
Indices: 36970841--36970881 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
36970831 TTTTCCCTCC
36970841 TCTTACTTTTTC-TTTTCTTT
1 TCTTA-TTTTTCTTTTTCTTT
36970861 TCTTATTTTTCTTTTTCTTT
1 TCTTATTTTTCTTTTTCTTT
36970881 T
1 T
36970882 TGTGGGCTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (20 bp):
TCTTATTTTTCTTTTTCTTT
Found at i:36971929 original size:7 final size:7
Alignment explanation
Indices: 36971917--36971943 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
36971907 CTAAGGTAAA
36971917 ATATCAC
1 ATATCAC
36971924 ATATCAC
1 ATATCAC
36971931 ATATCAC
1 ATATCAC
36971938 ATATCA
1 ATATCA
36971944 ACAAATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (7 bp):
ATATCAC
Found at i:36972012 original size:25 final size:25
Alignment explanation
Indices: 36971933--36972012 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
36971923 CATATCACAT
36971933 ATCACATATCAACAAATTTTGACCA
1 ATCACATATCAACAAATTTTGACCA
* * *
36971958 ATTCA-AT-GCTAACATAGTTTAGA-CA
1 A-TCACATATC-AACA-AATTTTGACCA
36971983 TATCACATATCAACAAATTTTGACCA
1 -ATCACATATCAACAAATTTTGACCA
36972009 ATCA
1 ATCA
36972013 TAAAACCTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
24 1 0.02
25 22 0.52
26 18 0.43
27 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.30
Consensus pattern (25 bp):
ATCACATATCAACAAATTTTGACCA
Found at i:36974409 original size:27 final size:28
Alignment explanation
Indices: 36974370--36974422 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
36974360 GATATTGAAT
*
36974370 AGGGCTTCAGCCCA-GACTGTACTGAGA
1 AGGGCTTCAGCCCAGGACTGCACTGAGA
* *
36974397 AGGGTTTCGGCCCAGGACTGCACTGA
1 AGGGCTTCAGCCCAGGACTGCACTGA
36974423 TACTTGTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.23, C:0.26, G:0.32, T:0.19
Consensus pattern (28 bp):
AGGGCTTCAGCCCAGGACTGCACTGAGA
Found at i:36986227 original size:35 final size:34
Alignment explanation
Indices: 36986155--36986227 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
36986145 AATATGATAT
**
36986155 TATATAATGAAATAATATATTTTATAAATATTAA
1 TATATAATGAAATAATATATTTTATAAATAAAAA
* *
36986189 TATATAATTAATATATTATATTTTAT-AATAAAAGA
1 TATATAATGAA-ATAATATATTTTATAAATAAAA-A
36986224 TATA
1 TATA
36986228 GTATCAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 15 0.45
35 18 0.55
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (34 bp):
TATATAATGAAATAATATATTTTATAAATAAAAA
Found at i:36988970 original size:51 final size:51
Alignment explanation
Indices: 36988866--36988970 Score: 120
Period size: 51 Copynumber: 2.1 Consensus size: 51
36988856 ATTTTATTTT
** * ** *
36988866 TTTCCTTTCCTCCATTAAGGTCGTTGCCTACATCTCACATTTTGCCATTTC
1 TTTCCTTTCCTCCATTAAGGTCGTCCCCTACACCTCACATTTCACCATCTC
* * * *
36988917 TTTCCTTTCCTTCATTAATGTCGTCCCCTAGACCTCATATTTCACCATCTC
1 TTTCCTTTCCTCCATTAAGGTCGTCCCCTACACCTCACATTTCACCATCTC
36988968 TTT
1 TTT
36988971 ATTCTTCTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.16, C:0.32, G:0.08, T:0.44
Consensus pattern (51 bp):
TTTCCTTTCCTCCATTAAGGTCGTCCCCTACACCTCACATTTCACCATCTC
Found at i:36998331 original size:13 final size:13
Alignment explanation
Indices: 36998313--36998338 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36998303 GATGCATAGC
36998313 ATAAGGGCTACTA
1 ATAAGGGCTACTA
36998326 ATAAGGGCTACTA
1 ATAAGGGCTACTA
36998339 TGCGCCTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
ATAAGGGCTACTA
Found at i:37009404 original size:21 final size:21
Alignment explanation
Indices: 37009379--37009443 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
37009369 TAGCCTTCGG
37009379 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
37009400 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
* *
37009418 CCTTCCGTTTAACACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
37009439 GCTTC
1 GCTTC
37009444 AGTTAGCCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
18 5 0.15
19 9 0.26
20 10 0.29
21 10 0.29
ACGTcount: A:0.11, C:0.28, G:0.22, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:37009415 original size:39 final size:39
Alignment explanation
Indices: 37009361--37009493 Score: 178
Period size: 39 Copynumber: 3.4 Consensus size: 39
37009351 GCTCTGATGA
37009361 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
37009400 GCTTCAGTTAGCCTTCGGCCTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
*** *
37009439 GCTTCAGTTAGCCTTCAGGG-TTATTTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTC-GGGCTTCCGTTTAGCACTTGTGT
* *
37009478 GCTTCAGCTAGACTTC
1 GCTTCAGTTAGCCTTC
37009494 AGGATTCAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 81 0.98
40 2 0.02
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:37011415 original size:46 final size:45
Alignment explanation
Indices: 37011322--37011445 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
37011312 TGATATGTGT
* ** **
37011322 GCTAGAGTAAGACATGTCTGGGACATGCATCGACCACGTTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGA-CACGAGACAAGA
*
37011368 GCTAGTGTAAGACATGTCTGGGACATGCATCTG-CATTGAGACAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACA-CGAGACAAGA
*
37011414 GCTAGTGTAAGACCTGTCTGGGACATGGCATC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATC
37011446 AGCTTGTTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 2 0.03
46 60 0.88
47 6 0.09
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACACGAGACAAGA
Found at i:37011565 original size:49 final size:49
Alignment explanation
Indices: 37011458--37011580 Score: 124
Period size: 49 Copynumber: 2.5 Consensus size: 49
37011448 CTTGTTGAGT
* * * *
37011458 GTCATTGTAAGACCTGTCTTGGACATGGCATCGACACTGATAGATGAGA
1 GTCAATGTAAGACCTGTCTAGGACACGGCATCGACACTGATAGATGAAA
* * * *
37011507 GCCAGTGTAAGACTTGTCTAGGACACGGCATCGGC-CTCGAT-GTATGAAA
1 GTCAATGTAAGACCTGTCTAGGACACGGCATCGACACT-GATAG-ATGAAA
*
37011556 GTCAATGTAAGACCATGTCTGGGAC
1 GTCAATGTAAGACC-TGTCTAGGAC
37011581 GTGGCGTCGG
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
48 3 0.05
49 48 0.80
50 9 0.15
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
GTCAATGTAAGACCTGTCTAGGACACGGCATCGACACTGATAGATGAAA
Found at i:37048297 original size:17 final size:20
Alignment explanation
Indices: 37048260--37048298 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
37048250 AACAATTAAT
37048260 AATTAAATATATGCATATTA
1 AATTAAATATATGCATATTA
37048280 AATT-AATA-ATGC-TATTA
1 AATTAAATATATGCATATTA
37048297 AA
1 AA
37048299 CAAAAATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 4 0.21
20 4 0.21
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
AATTAAATATATGCATATTA
Found at i:37055550 original size:182 final size:182
Alignment explanation
Indices: 37055243--37055608 Score: 732
Period size: 182 Copynumber: 2.0 Consensus size: 182
37055233 ATTAATTCAT
37055243 TAATTACCTCACAGCCGTAACGCAAGAATAACTTAGGCATGATTTTACTTAATTAAGCATTTTAC
1 TAATTACCTCACAGCCGTAACGCAAGAATAACTTAGGCATGATTTTACTTAATTAAGCATTTTAC
37055308 CGAGGCCTATAGCAACATAAACACAATTTTAACAATTTAAGAAGACGAAATGCAATCAACCCACC
66 CGAGGCCTATAGCAACATAAACACAATTTTAACAATTTAAGAAGACGAAATGCAATCAACCCACC
37055373 ACGAATTAAATTCAAGCTAAGCTGATTAAATTAACCATTCCAACAACATGAA
131 ACGAATTAAATTCAAGCTAAGCTGATTAAATTAACCATTCCAACAACATGAA
37055425 TAATTACCTCACAGCCGTAACGCAAGAATAACTTAGGCATGATTTTACTTAATTAAGCATTTTAC
1 TAATTACCTCACAGCCGTAACGCAAGAATAACTTAGGCATGATTTTACTTAATTAAGCATTTTAC
37055490 CGAGGCCTATAGCAACATAAACACAATTTTAACAATTTAAGAAGACGAAATGCAATCAACCCACC
66 CGAGGCCTATAGCAACATAAACACAATTTTAACAATTTAAGAAGACGAAATGCAATCAACCCACC
37055555 ACGAATTAAATTCAAGCTAAGCTGATTAAATTAACCATTCCAACAACATGAA
131 ACGAATTAAATTCAAGCTAAGCTGATTAAATTAACCATTCCAACAACATGAA
37055607 TA
1 TA
37055609 CTCATAGATT
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 184 1.00
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.25
Consensus pattern (182 bp):
TAATTACCTCACAGCCGTAACGCAAGAATAACTTAGGCATGATTTTACTTAATTAAGCATTTTAC
CGAGGCCTATAGCAACATAAACACAATTTTAACAATTTAAGAAGACGAAATGCAATCAACCCACC
ACGAATTAAATTCAAGCTAAGCTGATTAAATTAACCATTCCAACAACATGAA
Found at i:37059896 original size:29 final size:29
Alignment explanation
Indices: 37059833--37059900 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
37059823 TAATCAACCG
*
37059833 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
37059862 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
37059891 CGCACACTTA
1 CGCACACTTA
37059901 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:37060013 original size:174 final size:174
Alignment explanation
Indices: 37059722--37060049 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
37059712 AACTCAAGGT
* * *
37059722 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
37059787 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
37059852 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
37059896 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
37059961 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
37060026 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
37060050 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:37060041 original size:29 final size:30
Alignment explanation
Indices: 37060002--37060080 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
37059992 CTTAATAATC
37060002 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
37060032 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
37060061 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
37060081 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:37069289 original size:29 final size:29
Alignment explanation
Indices: 37069226--37069293 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
37069216 TAATCACCCA
* *
37069226 CGCACACTCAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* **
37069255 CACACACTTAGTACCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
37069284 CGCACACTTA
1 CGCACACTTA
37069294 CCTTTTTCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:37069435 original size:29 final size:30
Alignment explanation
Indices: 37069396--37069474 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
37069386 CTTAATAATC
37069396 AACCGCGCACACTTAGTGCCATGTAC-TGTA
1 AACC-CGCACACTTAGTGCCATGTACATGTA
* *
37069426 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATGTA
37069455 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
37069475 ATCTCATGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATGTA
Found at i:37072017 original size:49 final size:49
Alignment explanation
Indices: 37071956--37072086 Score: 167
Period size: 49 Copynumber: 2.7 Consensus size: 49
37071946 ACATCAAATT
* * *
37071956 CGATGCCATGTCCCAGACAGGTCTTACATTGACTTTTATATATCAAGG-G-
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC--GGTGC
* * * *
37072005 CGATGCCGTGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
37072054 CGATGCCATGTCCCAGACAGGTCTTACACTGAC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAC
37072087 ACACAACAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 2 0.03
48 1 0.01
49 67 0.96
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:37076944 original size:24 final size:24
Alignment explanation
Indices: 37076917--37076974 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
37076907 CCTCCTAAAA
* *
37076917 TTTCTCCATAATTCTCTCCTTGAT
1 TTTCTCCACAATCCTCTCCTTGAT
* *
37076941 TTTCTCCCCCATCCTCTCCTTGAT
1 TTTCTCCACAATCCTCTCCTTGAT
*
37076965 TTCCTCCACA
1 TTTCTCCACA
37076975 TAACACTCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.14, C:0.40, G:0.03, T:0.43
Consensus pattern (24 bp):
TTTCTCCACAATCCTCTCCTTGAT
Found at i:37083556 original size:19 final size:19
Alignment explanation
Indices: 37083521--37083558 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
37083511 GTAAGGAGCC
*
37083521 CACGAGCCCATTGGGCCCA
1 CACGAGCCCATCGGGCCCA
37083540 CACG-GCCCATCGTGGCCCA
1 CACGAGCCCATCG-GGCCCA
37083559 AAATGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.18, C:0.45, G:0.26, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATCGGGCCCA
Found at i:37095532 original size:24 final size:24
Alignment explanation
Indices: 37095500--37095546 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
37095490 GCCACACCGA
*
37095500 CGTGTGGTCGCCCGTGTGGTAGGG
1 CGTGTGGTCACCCGTGTGGTAGGG
*
37095524 CGTGTGGTCATCCGTGTGGTAGG
1 CGTGTGGTCACCCGTGTGGTAGG
37095547 CCATGTGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.06, C:0.19, G:0.47, T:0.28
Consensus pattern (24 bp):
CGTGTGGTCACCCGTGTGGTAGGG
Found at i:37095553 original size:24 final size:24
Alignment explanation
Indices: 37095502--37095553 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
37095492 CACACCGACG
* * *
37095502 TGTGGTCGCCCGTGTGGTAGGGCG
1 TGTGGTCACCCGTGTGGTAGGCCA
*
37095526 TGTGGTCATCCGTGTGGTAGGCCA
1 TGTGGTCACCCGTGTGGTAGGCCA
37095550 TGTG
1 TGTG
37095554 ATGAAACACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.19, G:0.44, T:0.29
Consensus pattern (24 bp):
TGTGGTCACCCGTGTGGTAGGCCA
Found at i:37095732 original size:13 final size:13
Alignment explanation
Indices: 37095714--37095738 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37095704 GGGCCTTGTG
37095714 GGCCACATGGGCT
1 GGCCACATGGGCT
37095727 GGCCACATGGGC
1 GGCCACATGGGC
37095739 GTGTCAGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.40, T:0.12
Consensus pattern (13 bp):
GGCCACATGGGCT
Found at i:37098307 original size:20 final size:21
Alignment explanation
Indices: 37098279--37098318 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
37098269 TAAATTCCAA
37098279 TTTAACCAAAAA-TATTTATT
1 TTTAACCAAAAATTATTTATT
*
37098299 TTTACCCAAAAATTATTTAT
1 TTTAACCAAAAATTATTTAT
37098319 AACCATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAACCAAAAATTATTTATT
Found at i:37098316 original size:17 final size:18
Alignment explanation
Indices: 37098294--37098331 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
37098284 CCAAAAATAT
* *
37098294 TTATTTTTACCCA-AAAA
1 TTATTTATAACCATAAAA
37098311 TTATTTATAACCATAAAA
1 TTATTTATAACCATAAAA
37098329 TTA
1 TTA
37098332 AATTTTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATTTATAACCATAAAA
Found at i:37104004 original size:16 final size:16
Alignment explanation
Indices: 37103980--37104013 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
37103970 CTGTGTGTTC
*
37103980 TTTACTTTATTTTATT
1 TTTAATTTATTTTATT
37103996 TTTAATTTATTTTATT
1 TTTAATTTATTTTATT
37104012 TT
1 TT
37104014 CTCAGTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTAATTTATTTTATT
Found at i:37104400 original size:17 final size:17
Alignment explanation
Indices: 37104342--37104392 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
37104332 GAACAATGAG
37104342 ATAAA-AAA-AACAAAA
1 ATAAACAAACAACAAAA
* * *
37104357 ATAAATAAATAAGAAAA
1 ATAAACAAACAACAAAA
*
37104374 ATAAACAAACAATAAAA
1 ATAAACAAACAACAAAA
37104391 AT
1 AT
37104393 CAAAAAACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 5 0.17
16 3 0.10
17 22 0.73
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (17 bp):
ATAAACAAACAACAAAA
Found at i:37104404 original size:18 final size:17
Alignment explanation
Indices: 37104353--37104392 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
37104343 TAAAAAAAAC
* * *
37104353 AAAAATAAATAAATAAG
1 AAAAATAAACAAACAAT
37104370 AAAAATAAACAAACAAT
1 AAAAATAAACAAACAAT
37104387 AAAAAT
1 AAAAAT
37104393 CAAAAAACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAATAAACAAACAAT
Found at i:37109479 original size:17 final size:17
Alignment explanation
Indices: 37109459--37109508 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
37109449 TTATATAGCA
37109459 TTTATTATATTTTTACT
1 TTTATTATATTTTTACT
*
37109476 TTTATTATATATATTACT
1 TTTATTATAT-TTTTACT
37109494 TATTA-TATTATTTTT
1 T-TTATTA-TATTTTT
37109509 TTATCATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 10 0.36
18 12 0.43
19 6 0.21
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATTATATTTTTACT
Found at i:37109498 original size:16 final size:15
Alignment explanation
Indices: 37109477--37109572 Score: 69
Period size: 16 Copynumber: 6.3 Consensus size: 15
37109467 ATTTTTACTT
37109477 TTATTATATATATTA
1 TTATTATATATATTA
37109492 CTTATTATAT-TATT-
1 -TTATTATATATATTA
*
37109506 TTTTTATCATATATTA
1 TTATTAT-ATATATTA
37109522 TGTA-TATCATATATTA
1 T-TATTAT-ATATATTA
37109538 TTTATTATAT-TATTTA
1 -TTATTATATATA-TTA
37109554 TGT-TTATAT-TATTCA
1 T-TATTATATATATT-A
37109569 TTAT
1 TTAT
37109573 ATTATTTATA
Statistics
Matches: 68, Mismatches: 2, Indels: 21
0.75 0.02 0.23
Matches are distributed among these distances:
13 6 0.09
14 5 0.07
15 22 0.32
16 30 0.44
17 5 0.07
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.61
Consensus pattern (15 bp):
TTATTATATATATTA
Found at i:37109548 original size:12 final size:12
Alignment explanation
Indices: 37109458--37109581 Score: 82
Period size: 12 Copynumber: 10.5 Consensus size: 12
37109448 ATTATATAGC
37109458 ATTTATTATATT
1 ATTTATTATATT
*
37109470 -TTTACT-T-TT
1 ATTTATTATATT
37109479 A-TTATATATATT
1 ATTTAT-TATATT
*
37109491 ACTTATTATATT
1 ATTTATTATATT
* *
37109503 ATTT-TTTTATC
1 ATTTATTATATT
* *
37109514 ATATATTAT-GT
1 ATTTATTATATT
*
37109525 ATATCA-TATATT
1 AT-TTATTATATT
37109537 ATTTATTATATT
1 ATTTATTATATT
37109549 ATTTATGTTTATATT
1 ATTTA---TTATATT
*
37109564 ATTCATTATATT
1 ATTTATTATATT
37109576 ATTTAT
1 ATTTAT
37109582 AATTTTAAGA
Statistics
Matches: 85, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
9 5 0.06
10 2 0.02
11 21 0.25
12 42 0.49
13 4 0.05
15 11 0.13
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (12 bp):
ATTTATTATATT
Found at i:37125761 original size:210 final size:210
Alignment explanation
Indices: 37125399--37126362 Score: 1637
Period size: 210 Copynumber: 4.6 Consensus size: 210
37125389 CTTCATCGAG
* *
37125399 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGC-AGGGAGCAGATCAGAGATATAGCT
1 GCAGATCCAAGATGGCAGATCTTATCTCTCTGTATTCGGCGA-GGAGCAGATCAAAGATATAGCT
37125463 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGT-TTCTGTATTGTCA
65 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTT-TGTATTGTCA
37125527 GAGAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTT
129 GAGAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTT
*
37125592 CAAATGTTTACACTGAA
194 CAGATGTTTACACTGAA
* * *
37125609 GCAGATCCAAGATGGCAGATCTTATCTCTCTGTATTCAGCGAGAAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGGCAGATCTTATCTCTCTGTATTCGGCGAGGAGCAGATCAAAGATATAGCTG
37125674 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTTTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTTTGTATTGTCAGA
*
37125739 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
37125804 GATGTTTACACTGAA
196 GATGTTTACACTGAA
* * * ** *
37125819 GCAAATCCAAGATGGCAGATCTTATCTCTCCGTATTCGGCGGGGAAAAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGGCAGATCTTATCTCTCTGTATTCGGCGAGGAGCAGATCAAAGATATAGCTG
*
37125884 ATTTGGCTTTTACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTTTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTTTGTATTGTCAGA
* *
37125949 GAACAAATCGAAGTCTGGCATTTCCACTTTGACGGAAGGCAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
37126014 GATGTTTACACTGAA
196 GATGTTTACACTGAA
* *
37126029 GCAGATCCAAGATGACAGATCTTCTCTCTCTGTATTCGGC-AGGGAGCAGATCAAAGATATAGCT
1 GCAGATCCAAGATGGCAGATCTTATCTCTCTGTATTCGGCGA-GGAGCAGATCAAAGATATAGCT
* * *
37126093 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTTTTAG
65 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTTTGTATTGTCAG
* *
37126158 AGAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGCGGATACATAGCAGATCTCACCTTC
130 AGAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTC
*
37126223 AGATGTTTACATTGAA
195 AGATGTTTACACTGAA
* *
37126239 GCAGATCCAAGATGGCAGATCTTATCTCTCTGTATTTGGCGGGGAGCAGATCAAAGATATAGCTG
1 GCAGATCCAAGATGGCAGATCTTATCTCTCTGTATTCGGCGAGGAGCAGATCAAAGATATAGCTG
*
37126304 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATT
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTTTGTATT
37126363 CCTTGTATAT
Statistics
Matches: 713, Mismatches: 37, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
210 710 1.00
211 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (210 bp):
GCAGATCCAAGATGGCAGATCTTATCTCTCTGTATTCGGCGAGGAGCAGATCAAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTTTGTATTGTCAGA
GAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
GATGTTTACACTGAA
Found at i:37128445 original size:13 final size:14
Alignment explanation
Indices: 37128427--37128491 Score: 62
Period size: 13 Copynumber: 4.7 Consensus size: 14
37128417 CTTCTATTTC
37128427 AAAA-AAAAAGGGA
1 AAAAGAAAAAGGGA
* **
37128440 AAAAAAGAAAAGCAA
1 AAAAGA-AAAAGGGA
*
37128455 AAAAGAAAAAAGGA
1 AAAAGAAAAAGGGA
*
37128469 AAAAGAAAAA-GAA
1 AAAAGAAAAAGGGA
37128482 AAAAGAAAAA
1 AAAAGAAAAA
37128492 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
13 16 0.37
14 16 0.37
15 11 0.26
ACGTcount: A:0.82, C:0.02, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGGGA
Found at i:37128450 original size:7 final size:7
Alignment explanation
Indices: 37128438--37128491 Score: 67
Period size: 7 Copynumber: 7.9 Consensus size: 7
37128428 AAAAAAAAGG
37128438 GAAAAAA
1 GAAAAAA
*
37128445 -AGAAAA
1 GAAAAAA
37128451 GCAAAAAA
1 G-AAAAAA
37128459 GAAAAAA
1 GAAAAAA
*
37128466 GGAAAAA
1 GAAAAAA
37128473 G-AAAAA
1 GAAAAAA
37128479 GAAAAAA
1 GAAAAAA
37128486 GAAAAA
1 GAAAAA
37128492 TGGAGAGGCC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 11 0.27
7 24 0.59
8 6 0.15
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:37133257 original size:48 final size:48
Alignment explanation
Indices: 37133074--37133296 Score: 210
Period size: 48 Copynumber: 4.7 Consensus size: 48
37133064 GGGGTGTTAC
* * *
37133074 ATGCCATG-TCTAGACATGGTCTTACACTAGC-CCTCATAACATTGTCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCC-CATAACATTGGCG
* * * ** *
37133121 ATGACATGTTCCAAACATGGTCTTACTCTGGCTCTTATAACATTGTCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCCCATAACATTGGCG
*
37133169 ATGCCATGTTCCAAACATGGTCTTACACT-GCCTCTCAT-A-ATGTGGCTG
1 ATGCCATGTTCCAAACATGGTCTTACACTAG-CTCCCATAACAT-TGGC-G
* *
37133217 ATGTCATGTTCCAAACATTGTCTTACACTAGCTCCCAT-A-ATGTGGCTG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCCCATAACAT-TGGC-G
*
37133265 ATGCCATG-TCCTAGACATGGTCTTACACTAGC
1 ATGCCATGTTCC-AAACATGGTCTTACACTAGC
37133297 ACACATATCA
Statistics
Matches: 152, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
46 2 0.01
47 15 0.10
48 133 0.88
49 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (48 bp):
ATGCCATGTTCCAAACATGGTCTTACACTAGCTCCCATAACATTGGCG
Found at i:37133268 original size:96 final size:95
Alignment explanation
Indices: 37133074--37133296 Score: 258
Period size: 96 Copynumber: 2.3 Consensus size: 95
37133064 GGGGTGTTAC
* *
37133074 ATGCCATGTCTAGACATGGTCTTACACTAGCCCTCATAACATTGTCGATGACATGTTCCAAACAT
1 ATGCCATGTCCAGACATGGTCTTACACTAGCCCTCATAACATTGGCGATGACATGTTCCAAACAT
* * ** *
37133139 GGTCTTACTCTGGCTCTTATAACATTGTCG
66 GGTCTTACACTAGCTCCCATAACATTGGCG
* *
37133169 ATGCCATGTTCCAAACATGGTCTTACACT-GCCTCTCAT-A-ATGTGGCTGATGTCATGTTCCAA
1 ATGCCATG-TCCAGACATGGTCTTACACTAGCC-CTCATAACAT-TGGC-GATGACATGTTCCAA
*
37133231 ACATTGTCTTACACTAGCTCCCAT-A-ATGTGGCTG
62 ACATGGTCTTACACTAGCTCCCATAACAT-TGGC-G
37133265 ATGCCATGTCCTAGACATGGTCTTACACTAGC
1 ATGCCATGTCC-AGACATGGTCTTACACTAGC
37133297 ACACATATCA
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
94 4 0.04
95 22 0.20
96 81 0.74
97 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (95 bp):
ATGCCATGTCCAGACATGGTCTTACACTAGCCCTCATAACATTGGCGATGACATGTTCCAAACAT
GGTCTTACACTAGCTCCCATAACATTGGCG
Found at i:37140177 original size:159 final size:159
Alignment explanation
Indices: 37139888--37140204 Score: 607
Period size: 159 Copynumber: 2.0 Consensus size: 159
37139878 TATTTCAAAC
*
37139888 ATTTATTCATATTTGTAAAAGTCATAAAAAATAATGGTTTAGTAGTTTCTATGTAACTCCCCCAA
1 ATTTATCCATATTTGTAAAAGTCATAAAAAATAATGGTTTAGTAGTTTCTATGTAACTCCCCCAA
37139953 AATTTAAGTTTTTTGTTTGCTAAATTTTATTAAGTTGATTGATTTGGTTCAATGGCTAAGTGCTA
66 AATTTAAGTTTTTTGTTTGCTAAATTTTATTAAGTTGATTGATTTGGTTCAATGGCTAAGTGCTA
37140018 ATTATGTGTGTATGAGGTTCTATGTTCGA
131 ATTATGTGTGTATGAGGTTCTATGTTCGA
*
37140047 ATTTATCCATATTTGTAAAAGTCATAAAAAATAATGGTTTAGTAGTTTCTATGTAACTCCCCTAA
1 ATTTATCCATATTTGTAAAAGTCATAAAAAATAATGGTTTAGTAGTTTCTATGTAACTCCCCCAA
37140112 AATTTAAGTTTTTTGTTTGCTAAATTTTATTAAGTTGATTGATTTGGTTCAATGGCTAAGTGCTA
66 AATTTAAGTTTTTTGTTTGCTAAATTTTATTAAGTTGATTGATTTGGTTCAATGGCTAAGTGCTA
*
37140177 ATTATGTGTGTATGAGGTTCTGTGTTCG
131 ATTATGTGTGTATGAGGTTCTATGTTCG
37140205 GATCCACTTT
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 155 1.00
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.44
Consensus pattern (159 bp):
ATTTATCCATATTTGTAAAAGTCATAAAAAATAATGGTTTAGTAGTTTCTATGTAACTCCCCCAA
AATTTAAGTTTTTTGTTTGCTAAATTTTATTAAGTTGATTGATTTGGTTCAATGGCTAAGTGCTA
ATTATGTGTGTATGAGGTTCTATGTTCGA
Found at i:37143880 original size:46 final size:46
Alignment explanation
Indices: 37143817--37143912 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
37143807 AGACACGGGC
37143817 GTGT-GTCTCAACTGTGTGTGACACACGGTCAAGTGACACGGCTGT
1 GTGTCGTCTCAACTGTGTGTGACACACGGTCAAGTGACACGGCTGT
* *
37143862 GTGTCGTCTCAACTGTGTGTGACACATGGTCAAGTGATACGGCTGT
1 GTGTCGTCTCAACTGTGTGTGACACACGGTCAAGTGACACGGCTGT
37143908 GTGTC
1 GTGTC
37143913 CCCTAGTGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 4 0.08
46 44 0.92
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
GTGTCGTCTCAACTGTGTGTGACACACGGTCAAGTGACACGGCTGT
Found at i:37144262 original size:19 final size:20
Alignment explanation
Indices: 37144235--37144275 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
37144225 GTCCTCTGTA
* *
37144235 TTTTGTAAAA-TTTTCTAAG
1 TTTTCTAAAACTTTCCTAAG
37144254 TTTTCTAAAACTTTCCTAAG
1 TTTTCTAAAACTTTCCTAAG
37144274 TT
1 TT
37144276 ATTGGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.51
Consensus pattern (20 bp):
TTTTCTAAAACTTTCCTAAG
Found at i:37145879 original size:27 final size:27
Alignment explanation
Indices: 37145849--37145904 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
37145839 TCCCTTTTCA
* *
37145849 ATACTCGTACAAATCTCGTATGTACCT
1 ATACTCGTACAAATCTCATACGTACCT
**
37145876 ATACTCGTATGAATCTCATACGTACCT
1 ATACTCGTACAAATCTCATACGTACCT
37145903 AT
1 AT
37145905 GTCACTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (27 bp):
ATACTCGTACAAATCTCATACGTACCT
Found at i:37147714 original size:39 final size:40
Alignment explanation
Indices: 37147619--37147880 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
37147609 TTGAATGATG
*
37147619 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
37147657 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
37147698 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
37147737 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
37147776 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
37147815 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
37147854 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
37147881 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:37155981 original size:40 final size:40
Alignment explanation
Indices: 37155892--37156155 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
37155882 TTGAATGATG
* *
37155892 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
37155931 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
37155971 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37156010 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37156050 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
37156090 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
37156131 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37156156 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37156173 original size:120 final size:118
Alignment explanation
Indices: 37155892--37156188 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
37155882 TTGAATGATG
* *
37155892 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
37155952 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
37156010 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
37156075 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
37156131 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
37156189 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:37157636 original size:43 final size:42
Alignment explanation
Indices: 37157512--37157667 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 42
37157502 GGGTGTTACA
* * *
37157512 TCCCAGATATGGTATTACATGTTATCTCATATCGATGCCAATAG
1 TCCCAGATATGGTCTTACATGTAATCACATA-CGATGCCAAT-G
* *** *
37157556 -CCCAGCTATGGTCTTACACAAAATCATATAACGATGCCAATG
1 TCCCAGATATGGTCTTACATGTAATCACAT-ACGATGCCAATG
* *
37157598 TCCCAGATATGGTCTTACATGTAATCGCAGTACAATGCCAATG
1 TCCCAGATATGGTCTTACATGTAATCACA-TACGATGCCAATG
*
37157641 TCCCAGACATGGT-TCTACATGTAATCA
1 TCCCAGATATGGTCT-TACATGTAATCA
37157668 TATCTCGATA
Statistics
Matches: 91, Mismatches: 17, Indels: 9
0.78 0.15 0.08
Matches are distributed among these distances:
42 2 0.02
43 87 0.96
44 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
TCCCAGATATGGTCTTACATGTAATCACATACGATGCCAATG
Found at i:37158493 original size:16 final size:18
Alignment explanation
Indices: 37158474--37158506 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
37158464 CATACTAGAT
37158474 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
37158490 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
37158507 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:37159141 original size:43 final size:43
Alignment explanation
Indices: 37159075--37159239 Score: 215
Period size: 43 Copynumber: 3.8 Consensus size: 43
37159065 CTGAACTCAT
* * *
37159075 TCACCAGCATTA-CGCCTACTAGGCTCGAAGCCTGATATTAAC
1 TCACCGGCATTATAGCCTACTAGGCTCGAAGCCCGATATTAAC
*
37159117 TCACCGGCATTATAGCCTACTAGGCTCGAAGCCCGATATTAAT
1 TCACCGGCATTATAGCCTACTAGGCTCGAAGCCCGATATTAAC
* * * *
37159160 TCACCGGCATTATAGCTTGCTAGGCTCAAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTACTAGGCTCGAAGCCCGATATTAAC
* * *
37159203 TCACTGGCATTATAGCCTGCTAGGCTTGAAGGCCCGA
1 TCACCGGCATTATAGCCTACTAGGCTCGAA-GCCCGA
37159240 ATAGTACCGT
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 11 0.10
43 91 0.84
44 6 0.06
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTACTAGGCTCGAAGCCCGATATTAAC
Found at i:37168673 original size:40 final size:40
Alignment explanation
Indices: 37168618--37169035 Score: 761
Period size: 40 Copynumber: 10.5 Consensus size: 40
37168608 CGGATGATAA
* *
37168618 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
37168658 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
37168698 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
37168738 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
37168778 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
37168818 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
37168858 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
37168898 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
37168938 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37168978 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
37169018 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
37169036 TACTTGGTTT
Statistics
Matches: 372, Mismatches: 4, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
39 17 0.05
40 354 0.95
41 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:37172288 original size:49 final size:49
Alignment explanation
Indices: 37172163--37172669 Score: 860
Period size: 49 Copynumber: 10.6 Consensus size: 49
37172153 CCCTTCGGGA
* * * * *
37172163 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37172209 CTCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37172257 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37172306 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37172355 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37172404 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37172451 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37172500 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37172549 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37172596 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37172643 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
37172670 TATTCAAATA
Statistics
Matches: 446, Mismatches: 7, Indels: 15
0.95 0.01 0.03
Matches are distributed among these distances:
46 3 0.01
47 200 0.45
48 2 0.00
49 241 0.54
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37172428 original size:145 final size:143
Alignment explanation
Indices: 37172163--37172669 Score: 862
Period size: 145 Copynumber: 3.5 Consensus size: 143
37172153 CCCTTCGGGA
* * * * * *
37172163 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATA
37172225 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
37172290 ACATCGGCCATTAGGC
128 ACATCGGCCATTAGGC
37172306 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
37172371 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
37172436 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
37172451 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
37172516 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
37172581 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
37172596 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
37172659 ACTTTCACATT
66 ACTTTCACATT
37172670 TATTCAAATA
Statistics
Matches: 353, Mismatches: 6, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
141 19 0.05
143 57 0.16
144 1 0.00
145 227 0.64
146 2 0.01
147 47 0.13
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:37175014 original size:49 final size:49
Alignment explanation
Indices: 37174942--37175037 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
37174932 CTTCACGAGT
37174942 GCGAATAGCATAGGCTCATGTAGGTGCTCCAGCCTCTGACCTCATAGAC
1 GCGAATAGCATAGGCTCATGTAGGTGCTCCAGCCTCTGACCTCATAGAC
** *
37174991 GCGAATAGCATAGGCTCATGTAGGTGCTCTGGCCTCTGGCCTCATAG
1 GCGAATAGCATAGGCTCATGTAGGTGCTCCAGCCTCTGACCTCATAG
37175038 CAAAATCTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (49 bp):
GCGAATAGCATAGGCTCATGTAGGTGCTCCAGCCTCTGACCTCATAGAC
Found at i:37177842 original size:43 final size:44
Alignment explanation
Indices: 37177721--37177844 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 44
37177711 GCTCATATCG
** * *
37177721 ATGCCAATAG-CCCAGTTATGGTCTTAAACGAAATCAC-ATAACA
1 ATGCCAAT-GTCCCAGACATGGTCTTACACGCAATCACAATAACA
* * *
37177764 ATGTCAATGTCCTAGACATGGTCTTACACGTAATCACAAT-ACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGCAATCACAATAACA
* *
37177807 ATGCCAATGTCCCAGACATGGTCTTGCATGCAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGCAATCACA
37177845 TCTCAGTAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 1 0.01
43 65 0.96
44 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGCAATCACAATAACA
Found at i:37183159 original size:43 final size:43
Alignment explanation
Indices: 37183088--37183237 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
37183078 TATCCCAGAT
* **
37183088 ATGGTCTTACATGTTATCAC-ATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAAATCACAATA-CGATGCCAATGTCCTAGAC
*
37183131 ATGGTCTTACACGAAATCA-TATGACGATGCCAATGT-CTCAGAC
1 ATGGTCTTACACGAAATCACAAT-ACGATGCCAATGTCCT-AGAC
* * * *
37183174 ATGATCTTACATGTAATCACAATACAATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAAATCACAATACGATGCCAATGTCCTAGAC
* *
37183217 ATGGTCTTACATGTAATCACA
1 ATGGTCTTACACGAAATCACA
37183238 TCTCGATAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
42 2 0.02
43 86 0.92
44 5 0.05
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCACAATACGATGCCAATGTCCTAGAC
Found at i:37187547 original size:10 final size:10
Alignment explanation
Indices: 37187523--37187556 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
37187513 TAAAGAATTA
*
37187523 TTTTCAAATG
1 TTTTGAAATG
*
37187533 ATTTGAAATG
1 TTTTGAAATG
37187543 TTTTGAAATG
1 TTTTGAAATG
37187553 TTTT
1 TTTT
37187557 ACTGAATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (10 bp):
TTTTGAAATG
Found at i:37190742 original size:32 final size:32
Alignment explanation
Indices: 37190706--37190770 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37190696 AAGAGCCTCA
37190706 AATATCTCCTCACTCAAAAGGAGCTAAATCTT
1 AATATCTCCTCACTCAAAAGGAGCTAAATCTT
37190738 AATATCTCCTCACTCAAAAGGAGCTAAATCTT
1 AATATCTCCTCACTCAAAAGGAGCTAAATCTT
37190770 A
1 A
37190771 GGCAGCGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (32 bp):
AATATCTCCTCACTCAAAAGGAGCTAAATCTT
Found at i:37204463 original size:27 final size:27
Alignment explanation
Indices: 37204433--37204609 Score: 144
Period size: 27 Copynumber: 6.5 Consensus size: 27
37204423 ATATTGAGCC
* * *
37204433 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCACATAATCAACT
* * *
37204460 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAACT
* *
37204487 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCCACATAAT-CAACT
* ** *
37204515 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAACT
* **
37204542 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAACT
* *
37204569 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCCACATAA-TCA-ACT
37204596 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37204610 TGTACAATTT
Statistics
Matches: 122, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.02
27 95 0.78
28 24 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAACT
Found at i:37208986 original size:40 final size:40
Alignment explanation
Indices: 37208886--37209150 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
37208876 GCTCCTCGTT
* * * *
37208886 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
37208926 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
37208965 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
37209005 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
37209045 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
37209085 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
37209126 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
37209151 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:37209110 original size:80 final size:80
Alignment explanation
Indices: 37208853--37209150 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
37208843 AAATCACGTA
* ** * * *
37208853 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
37208915 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
37208931 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
37208994 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
37209011 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
37209075 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
37209091 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
37209151 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:37209159 original size:41 final size:41
Alignment explanation
Indices: 37209082--37209159 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37209072 TTTGTATCTC
* * *
37209082 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37209123 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37209160 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37212217 original size:41 final size:41
Alignment explanation
Indices: 37212159--37212236 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
37212149 GCAACTTACC
* *
37212159 TGATACAATACATTGGCACGAAGCCTGCTTGGCACAAGGCT
1 TGATACAATACACTGGCACGAAGCCTGCTAGGCACAAGGCT
*
37212200 TGATATAATACACTGGCACGAAGCCTGCTAGGCACAA
1 TGATACAATACACTGGCACGAAGCCTGCTAGGCACAA
37212237 AACTCGAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (41 bp):
TGATACAATACACTGGCACGAAGCCTGCTAGGCACAAGGCT
Found at i:37212295 original size:37 final size:38
Alignment explanation
Indices: 37212254--37212402 Score: 156
Period size: 38 Copynumber: 3.9 Consensus size: 38
37212244 ATATCACCAA
37212254 CACAAAGCCTACTAGGCACGG-GCCCAAATATCACTGG
1 CACAAAGCCTACTAGGCACGGAGCCCAAATATCACTGG
** *
37212291 CACAAAGCCTACTAGGCACGGAGCCTGAATATCACCGG
1 CACAAAGCCTACTAGGCACGGAGCCCAAATATCACTGG
* * * * * * * *
37212329 GACAAAGCTTGCTAGGAACAGAGCTCGAATATCAATGG
1 CACAAAGCCTACTAGGCACGGAGCCCAAATATCACTGG
** *
37212367 CACAAAGCCTGTTAGGCATGGAGCCCCAAATATCAC
1 CACAAAGCCTACTAGGCACGGAG-CCCAAATATCAC
37212403 CAAGTTTCTA
Statistics
Matches: 89, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
37 21 0.24
38 59 0.66
39 9 0.10
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.15
Consensus pattern (38 bp):
CACAAAGCCTACTAGGCACGGAGCCCAAATATCACTGG
Found at i:37212321 original size:75 final size:76
Alignment explanation
Indices: 37212206--37212405 Score: 190
Period size: 75 Copynumber: 2.6 Consensus size: 76
37212196 GGCTTGATAT
* * **
37212206 AATA-CACTGGCACGAAGCCTGCTAGGCAC-AAAACTCGAATATCACCAACACAAAGCCTACTAG
1 AATATCACTGGCACAAAGCCTGCTAGGCACGGAGCCT-GAATATCACCAACACAAAGCCTACTAG
* *
37212269 GCAC-GGGCCCA
65 GAACAGAGCCCA
* *** * *
37212280 AATATCACTGGCACAAAGCCTACTAGGCACGGAGCCTGAATATCACCGGGACAAAGCTTGCTAGG
1 AATATCACTGGCACAAAGCCTGCTAGGCACGGAGCCTGAATATCACCAACACAAAGCCTACTAGG
* *
37212345 AACAGAGCTCG
66 AACAGAGCCCA
* * * **
37212356 AATATCAATGGCACAAAGCCTGTTAGGCATGGAGCCCCAAATATCACCAA
1 AATATCACTGGCACAAAGCCTGCTAGGCACGGAG-CCTGAATATCACCAA
37212406 GTTTCTATTT
Statistics
Matches: 100, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
74 4 0.04
75 48 0.48
76 37 0.37
77 11 0.11
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.15
Consensus pattern (76 bp):
AATATCACTGGCACAAAGCCTGCTAGGCACGGAGCCTGAATATCACCAACACAAAGCCTACTAGG
AACAGAGCCCA
Found at i:37212334 original size:38 final size:38
Alignment explanation
Indices: 37212206--37212391 Score: 146
Period size: 38 Copynumber: 4.9 Consensus size: 38
37212196 GGCTTGATAT
* * * **
37212206 AATA-CACTGGCACGAAGCCTGCTAGGCAC-AAAACTCG
1 AATATCACTGGCACAAAGCCTACTAGGCACGGAGCCT-G
*** **
37212243 AATATCACCAACACAAAGCCTACTAGGCACGG-GCCCA
1 AATATCACTGGCACAAAGCCTACTAGGCACGGAGCCTG
37212280 AATATCACTGGCACAAAGCCTACTAGGCACGGAGCCTG
1 AATATCACTGGCACAAAGCCTACTAGGCACGGAGCCTG
* * * * * *
37212318 AATATCACCGGGACAAAGCTTGCTAGGAACAGAG-CTCG
1 AATATCACTGGCACAAAGCCTACTAGGCACGGAGCCT-G
* ** *
37212356 AATATCAATGGCACAAAGCCTGTTAGGCATGGAGCC
1 AATATCACTGGCACAAAGCCTACTAGGCACGGAGCC
37212392 CCAAATATCA
Statistics
Matches: 115, Mismatches: 29, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
37 35 0.30
38 79 0.69
39 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.15
Consensus pattern (38 bp):
AATATCACTGGCACAAAGCCTACTAGGCACGGAGCCTG
Found at i:37214080 original size:20 final size:19
Alignment explanation
Indices: 37214020--37214086 Score: 50
Period size: 20 Copynumber: 3.5 Consensus size: 19
37214010 TGAATTTAAC
37214020 CACATCATGAGTGACCTTAG
1 CACATCATGA-TGACCTTAG
** *
37214040 --CAT-ATGATGAATTTAAC
1 CACATCATGATGACCTT-AG
37214057 CACATCATGATTGACCTTAG
1 CACATCATGA-TGACCTTAG
37214077 CACATGCATG
1 CACAT-CATG
37214087 CATATAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 11
0.67 0.12 0.21
Matches are distributed among these distances:
16 5 0.14
17 5 0.14
18 3 0.09
19 3 0.09
20 10 0.29
21 9 0.26
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (19 bp):
CACATCATGATGACCTTAG
Found at i:37215866 original size:3 final size:3
Alignment explanation
Indices: 37215858--37215888 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
37215848 TAAATATGTA
37215858 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37215889 TTTTATGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37218056 original size:46 final size:46
Alignment explanation
Indices: 37218003--37218175 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
37217993 TGGTTGAGCA
37218003 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
37218049 TCTGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGCAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
37218094 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
37218142 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
37218176 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
43 7 0.06
45 4 0.04
46 59 0.54
47 29 0.27
48 4 0.04
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:37218159 original size:93 final size:93
Alignment explanation
Indices: 37218000--37218171 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
37217990 GGATGGTTGA
* * *
37218000 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
37218065 TGAGTCCGAGTTCATGAGATGCAACTAG
66 TGAGTCCGAGTTCATGAGATGCAACTAG
* * *
37218093 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
37218158 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
37218172 CTTAGGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCATGAGATGCAACTAG
Found at i:37223057 original size:38 final size:39
Alignment explanation
Indices: 37223004--37223098 Score: 95
Period size: 38 Copynumber: 2.4 Consensus size: 39
37222994 GTATCCGGGC
* *
37223004 TTAAAGACCCACAGGCTATATGCTAGAATTATATCTG-GG
1 TTAAAGTCCCGCAGGCTA-ATGCTAGAATTATATCTGAGG
* * * *
37223043 TTAAA-TCCCGCAGGCCTAGTGCTGGTATTATATCTGAGT
1 TTAAAGTCCCGCAGG-CTAATGCTAGAATTATATCTGAGG
*
37223082 TTAAAGTCCCGTAGGCT
1 TTAAAGTCCCGCAGGCT
37223099 TCGTGCTGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
38 22 0.48
39 16 0.35
40 8 0.17
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (39 bp):
TTAAAGTCCCGCAGGCTAATGCTAGAATTATATCTGAGG
Found at i:37223105 original size:40 final size:38
Alignment explanation
Indices: 37223031--37223113 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 38
37223021 ATATGCTAGA
37223031 ATTATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGT
* * * *
37223069 ATTATATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 ATTATATCTG-GGTTAAA-TCCCGCAGGCCTAGTGCTGGT
*
37223109 GTTAT
1 ATTAT
37223114 GCTCGGGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 10 0.26
39 6 0.16
40 22 0.58
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (38 bp):
ATTATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGT
Found at i:37226318 original size:12 final size:12
Alignment explanation
Indices: 37226303--37226328 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37226293 TGGATGAGAA
37226303 TTGAATTAGTTT
1 TTGAATTAGTTT
37226315 TTGAATTAGTTT
1 TTGAATTAGTTT
37226327 TT
1 TT
37226329 CCTAATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
TTGAATTAGTTT
Done.