Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 229 of 295
Found at i:73298292 original size:58 final size:62
Alignment explanation
Indices: 73298179--73298294 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 62
73298169 AGTGATTATA
* * * ** *
73298179 TTAATATTAATTTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTATTTTAATAAGAT
1 TTAATATTAATATTAATCTAATATTTATCTTGTAGATAAATATTAGATTAATTTAATAAGAT
73298241 TTAATATTAA-ATTAATCTAATATTTATC-T-T-GATAAATATTAGATTAATTTAATA
1 TTAATATTAATATTAATCTAATATTTATCTTGTAGATAAATATTAGATTAATTTAATA
73298295 TTAAAGTGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 21 0.44
59 1 0.02
60 1 0.02
61 15 0.31
62 10 0.21
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (62 bp):
TTAATATTAATATTAATCTAATATTTATCTTGTAGATAAATATTAGATTAATTTAATAAGAT
Found at i:73298294 original size:16 final size:16
Alignment explanation
Indices: 73298239--73298299 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
73298229 TTTTAATAAG
73298239 ATTTAATATTAAATTA
1 ATTTAATATTAAATTA
* ** *
73298255 ATCTAATATTTATCTTG
1 ATTTAATA-TTAAATTA
* *
73298272 A-TAAATATTAGATTA
1 ATTTAATATTAAATTA
73298287 ATTTAATATTAAA
1 ATTTAATATTAAA
73298300 GTGATTAAGT
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
15 6 0.19
16 20 0.62
17 6 0.19
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTTAATATTAAATTA
Found at i:73300344 original size:43 final size:43
Alignment explanation
Indices: 73300296--73300493 Score: 324
Period size: 43 Copynumber: 4.6 Consensus size: 43
73300286 CCGGCATTAC
* *
73300296 GCCTGCTAGGCACGAAGGCCCGAATACAGATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
73300339 GCCTGCTAGGCACGAAGGCCCGAATACACATCACGGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
73300382 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
73300425 GCCTGCTAGGCACAAAGGCCCGAATACATATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
73300468 GCCTGCTAGGCACAAAGGCCCAAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
73300494 TAATACCAGC
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.31, C:0.32, G:0.26, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:73300534 original size:38 final size:38
Alignment explanation
Indices: 73300486--73300631 Score: 175
Period size: 38 Copynumber: 3.8 Consensus size: 38
73300476 GGCACAAAGG
* * *
73300486 CCCAAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCAGATATAATACCAGCACGAAGCCTGCGGGATTTAT
73300524 CCCAGATATAATACCAGCACGAAGCCTGCGGGATTTAT
1 CCCAGATATAATACCAGCACGAAGCCTGCGGGATTTAT
*** *
73300562 CTGGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCAGATATAATACCAGCACGAAGCCTGCGGGATTTAT
** ** * *
73300600 CCTGGATATTTTACCAGTATGAAGCCTGCGGG
1 CCCAGATATAATACCAGCACGAAGCCTGCGGG
73300632 TCTTTAAGCC
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 95 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCAGATATAATACCAGCACGAAGCCTGCGGGATTTAT
Found at i:73300579 original size:76 final size:76
Alignment explanation
Indices: 73300491--73300631 Score: 201
Period size: 76 Copynumber: 1.9 Consensus size: 76
73300481 AAAGGCCCAA
* * *
73300491 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCAGATATAATACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAATACCAGCACGAAGCCTGCGGG
73300556 ATTTATCTGGG
66 ATTTATCTGGG
** ** * *
73300567 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGGATATTTTACCAGTATGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAATACCAGCACGAAGCCTGCGGG
73300632 TCTTTAAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 56 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (76 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAATACCAGCACGAAGCCTGCGGG
ATTTATCTGGG
Found at i:73304861 original size:28 final size:28
Alignment explanation
Indices: 73304811--73304917 Score: 132
Period size: 27 Copynumber: 3.9 Consensus size: 28
73304801 GGCTGCTAGA
* *
73304811 ACAGATAA-TGTGACAGAGTCACCAGAT
1 ACAGATAATTGTGGCAGAGCCACCAGAT
*
73304838 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAATTGTGGCAGAGCCACCAGAT
*
73304865 ACAGA-AATATGTGGCAGAGCCACCAAAT
1 ACAGATAAT-TGTGGCAGAGCCACCAGAT
*
73304893 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAATTGTGGCAGAGCCACCAG
73304918 GACGTTTCCT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.04
27 48 0.70
28 18 0.26
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (28 bp):
ACAGATAATTGTGGCAGAGCCACCAGAT
Found at i:73304899 original size:54 final size:54
Alignment explanation
Indices: 73304808--73304917 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
73304798 CATGGCTGCT
* * *
73304808 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACC
1 AGAACAGAAAATGTGACAGAGCCACCAAATACAGATAATCGTGGCAGAGCCACC
* * *
73304862 AGAACAGAAATATGTGGCAGAGCCACCAAAT-CAGATAATTGTGGCATAGCCACC
1 AGAACAGAAA-ATGTGACAGAGCCACCAAATACAGATAATCGTGGCAGAGCCACC
73304916 AG
1 AG
73304918 GACGTTTCCT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (54 bp):
AGAACAGAAAATGTGACAGAGCCACCAAATACAGATAATCGTGGCAGAGCCACC
Found at i:73306367 original size:24 final size:24
Alignment explanation
Indices: 73306349--73306407 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
73306339 CCTTATCTGG
*
73306349 TCCTAAATCCTATCTCTTATCAAC
1 TCCTAAATCCTATCCCTTATCAAC
* *
73306373 TCCCAAATCCTATCCCTTATCAAT
1 TCCTAAATCCTATCCCTTATCAAC
73306397 TCCTAAATCCT
1 TCCTAAATCCT
73306408 CTCCTGACAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.36, G:0.00, T:0.36
Consensus pattern (24 bp):
TCCTAAATCCTATCCCTTATCAAC
Found at i:73310456 original size:30 final size:29
Alignment explanation
Indices: 73310395--73310456 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
73310385 ACTTATTTTA
*
73310395 TTGTTAATTTTTTATTATTTTAAAGGTAT
1 TTGTTAATTTTTTATTATTTTAAAGGAAT
**
73310424 TTGTTAATTTTGTTATTATTTTAGCGGAAT
1 TTGTTAATTTT-TTATTATTTTAAAGGAAT
73310454 TTG
1 TTG
73310457 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.60
Consensus pattern (29 bp):
TTGTTAATTTTTTATTATTTTAAAGGAAT
Found at i:73310609 original size:12 final size:11
Alignment explanation
Indices: 73310578--73310605 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
73310568 TATATATATT
73310578 TAAAAATTATA
1 TAAAAATTATA
73310589 TAAAAATTATA
1 TAAAAATTATA
73310600 TAAAAA
1 TAAAAA
73310606 ATTAATACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:73311334 original size:10 final size:10
Alignment explanation
Indices: 73311321--73311398 Score: 52
Period size: 10 Copynumber: 7.6 Consensus size: 10
73311311 TATTTTTTTT
73311321 ATTTTTAATA
1 ATTTTTAATA
*
73311331 ATTTTTTATA
1 ATTTTTAATA
* **
73311341 TTTTTTTGTA
1 ATTTTTAATA
*
73311351 ATTTTTTAT-
1 ATTTTTAATA
*
73311360 ATTTTTAGTA
1 ATTTTTAATA
73311370 ATTTTATAATTA
1 ATTTT-TAA-TA
73311382 TACTTTTTAA-A
1 -A-TTTTTAATA
73311393 ATTTTT
1 ATTTTT
73311399 TATGTTTTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
9 12 0.22
10 30 0.55
11 3 0.05
12 2 0.04
13 4 0.07
14 4 0.07
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:73311336 original size:19 final size:19
Alignment explanation
Indices: 73311312--73311374 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
73311302 TAACATTTCT
* *
73311312 ATTTTTTTTATTTTTAATA
1 ATTTTTTATATTTTTAGTA
*
73311331 ATTTTTTATATTTTTTTGTA
1 ATTTTTTATA-TTTTTAGTA
73311351 ATTTTTTATATTTTTAGTA
1 ATTTTTTATATTTTTAGTA
73311370 ATTTT
1 ATTTT
73311375 ATAATTATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (19 bp):
ATTTTTTATATTTTTAGTA
Found at i:73312758 original size:6 final size:7
Alignment explanation
Indices: 73312742--73312771 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
73312732 ATATTTTAAG
73312742 TTTTTAT
1 TTTTTAT
73312749 TTTTTAT
1 TTTTTAT
73312756 TTTTTA-
1 TTTTTAT
73312762 TTTTTAT
1 TTTTTAT
73312769 TTT
1 TTT
73312772 AGGAAGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:73312766 original size:13 final size:14
Alignment explanation
Indices: 73312742--73312771 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
73312732 ATATTTTAAG
73312742 TTTTTATTTTTTAT
1 TTTTTATTTTTTAT
73312756 TTTTTA-TTTTTAT
1 TTTTTATTTTTTAT
73312769 TTT
1 TTT
73312772 AGGAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTATTTTTTAT
Found at i:73315297 original size:6 final size:5
Alignment explanation
Indices: 73315258--73315296 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
73315248 ATTTCTGTGA
73315258 AAAAT AAAAT AAAAT AAAAT AAAAT AATAAT AATAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT AA
73315297 TGAACACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 22 0.67
6 11 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:73319730 original size:5 final size:5
Alignment explanation
Indices: 73319720--73319748 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
73319710 AATTTGTGAA
73319720 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
73319749 ATAATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:73323172 original size:64 final size:64
Alignment explanation
Indices: 73323091--73323275 Score: 196
Period size: 67 Copynumber: 2.9 Consensus size: 64
73323081 AGACATTATG
* *
73323091 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
73323155 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
73323220 AA
63 AA
* * * *
73323222 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGCT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCT
73323276 GAACTATATG
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:73326273 original size:50 final size:50
Alignment explanation
Indices: 73326213--73326312 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
73326203 TTCAACCTAA
73326213 AACACATGGAAACCCTAGGAGAGAGAAAAGAAACTTTCAAGACCTAATTG
1 AACACATGGAAACCCTAGGAGAGAGAAAAGAAACTTTCAAGACCTAATTG
*
73326263 AACACATGGAAACCCTAGGAGAGAGAAAAGAAACTTTCAAGGCCTAATTG
1 AACACATGGAAACCCTAGGAGAGAGAAAAGAAACTTTCAAGACCTAATTG
73326313 GGTAAGTTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (50 bp):
AACACATGGAAACCCTAGGAGAGAGAAAAGAAACTTTCAAGACCTAATTG
Found at i:73327458 original size:19 final size:19
Alignment explanation
Indices: 73327417--73327458 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
73327407 TTCAACGGAC
**
73327417 ATGAAAATCTTGACATGGC
1 ATGAAAATCTTGACATGAA
*
73327436 ATGAAAATCTTGAGATGAA
1 ATGAAAATCTTGACATGAA
73327455 ATGA
1 ATGA
73327459 TAATGACTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (19 bp):
ATGAAAATCTTGACATGAA
Found at i:73334052 original size:39 final size:39
Alignment explanation
Indices: 73333998--73334083 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
73333988 TGGTAGAAAC
*
73333998 TTTC-ATTAGGCATCATTTTAAAGTGGAAGCTTTTTAGT
1 TTTCAATTAGGAATCATTTTAAAGTGGAAGCTTTTTAGT
73334036 TTTCAATTAGGAATCATTTTAAAGTGGAAGCTTTTTAGT
1 TTTCAATTAGGAATCATTTTAAAGTGGAAGCTTTTTAGT
73334075 TTTCAATTA
1 TTTCAATTA
73334084 TTGTTTTATA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 4 0.09
39 42 0.91
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.45
Consensus pattern (39 bp):
TTTCAATTAGGAATCATTTTAAAGTGGAAGCTTTTTAGT
Found at i:73337546 original size:29 final size:29
Alignment explanation
Indices: 73337472--73337590 Score: 104
Period size: 29 Copynumber: 4.2 Consensus size: 29
73337462 TACATACATG
*
73337472 CATATGGCCTACTAGGCCCAA-TCTTATT
1 CATATGGCCTACTAGGCCCAATTCATATT
*
73337500 CAAATGG-CTGATCT-GGCCCAATTCATATT
1 CATATGGCCT-A-CTAGGCCCAATTCATATT
* * *
73337529 CTTATGGCCCACTAGGCCAAATTC-TCATT
1 CATATGGCCTACTAGGCCCAATTCAT-ATT
* * *
73337558 CATACGGCCTATTAGGCCCAAATCATATT
1 CATATGGCCTACTAGGCCCAATTCATATT
73337587 -ATAT
1 CATAT
73337591 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
27 2 0.03
28 20 0.28
29 47 0.66
30 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
CATATGGCCTACTAGGCCCAATTCATATT
Found at i:73342014 original size:29 final size:29
Alignment explanation
Indices: 73341950--73342066 Score: 116
Period size: 28 Copynumber: 4.2 Consensus size: 29
73341940 TACATACATG
* *
73341950 CATATGGCCCACTAGG-CCAA-TCTTATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * *
73341977 CAAATGGCCCATTTGGCCCAGTTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * * *
73342006 CTTATGGCCCACTAGGCCAAATTCTTA-T
1 CATATGGCCCATTAGGCCCAATTCATATT
*
73342034 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
73342063 -ATAT
1 CATAT
73342067 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
27 13 0.19
28 30 0.43
29 27 0.39
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:73342060 original size:57 final size:56
Alignment explanation
Indices: 73341952--73342062 Score: 161
Period size: 57 Copynumber: 2.0 Consensus size: 56
73341942 CATACATGCA
* **
73341952 TATGGCCCACTAGGCCAATCTTATTCAAATGGCCCATTTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCAATCTTATTCAAATGGCCCATTAGGCCCAAATCATATTCT
*
73342008 TATGGCCCACTAGGCCAAATTCTTA-TCATATGGCCCATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCC-AA-TCTTATTCAAATGGCCCATTAGGCCCAAATCATATT
73342063 ATATTCATGC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
56 16 0.33
57 28 0.57
58 5 0.10
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (56 bp):
TATGGCCCACTAGGCCAATCTTATTCAAATGGCCCATTAGGCCCAAATCATATTCT
Found at i:73352094 original size:23 final size:22
Alignment explanation
Indices: 73352071--73352113 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
73352061 TTTCCCTTGA
73352071 AACA-AGGTCACACGCCCGTGTG
1 AACATAGG-CACACGCCCGTGTG
*
73352093 AACATAGGGACACGCCCGTGT
1 AACATAGGCACACGCCCGTGT
73352114 ACCTTTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.14
Consensus pattern (22 bp):
AACATAGGCACACGCCCGTGTG
Found at i:73354089 original size:48 final size:46
Alignment explanation
Indices: 73354052--73354139 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
73354042 TAGCTTGTAT
* *
73354052 ATCTAGAGGCCGATGCATGTCCCAAACATGTTTTACACTAGCTCTC
1 ATCTAAAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTC
* *
73354098 ATCTAAATGCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 ATCTAAAGGCCGATGCATGTCCCAAACATGTCTTACACTAGC
73354140 ACACATATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (46 bp):
ATCTAAAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTC
Found at i:73359807 original size:33 final size:33
Alignment explanation
Indices: 73359765--73359833 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
73359755 TAAGCTTTGT
73359765 ATGTTATGCATATGAAACAGGTGAGGAAAGGTA
1 ATGTTATGCATATGAAACAGGTGAGGAAAGGTA
73359798 ATGTTATGCATATGAAACAGGTGAGGAAAGGTA
1 ATGTTATGCATATGAAACAGGTGAGGAAAGGTA
73359831 ATG
1 ATG
73359834 GTAAGTTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.39, C:0.06, G:0.30, T:0.25
Consensus pattern (33 bp):
ATGTTATGCATATGAAACAGGTGAGGAAAGGTA
Found at i:73362774 original size:3 final size:3
Alignment explanation
Indices: 73362761--73362807 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
73362751 AATTCGGATG
*
73362761 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
73362808 TCATATGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:73364949 original size:20 final size:21
Alignment explanation
Indices: 73364906--73364951 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
73364896 ACTGTTTTTT
73364906 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
73364926 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
73364945 TATGGGC
1 TATGGGC
73364952 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:73376226 original size:32 final size:32
Alignment explanation
Indices: 73376190--73376251 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
73376180 ATGCATTTTA
73376190 GCATTTTAATAGTTAATGGATGATGGGCATTG
1 GCATTTTAATAGTTAATGGATGATGGGCATTG
73376222 GCATTTTAATAGTTAATGGATGATGGGCAT
1 GCATTTTAATAGTTAATGGATGATGGGCAT
73376252 GGTAAGCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.37
Consensus pattern (32 bp):
GCATTTTAATAGTTAATGGATGATGGGCATTG
Found at i:73377740 original size:26 final size:26
Alignment explanation
Indices: 73377711--73377763 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
73377701 TTTACAGTTT
73377711 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTA-GAGATAAATTGACCGAAA
* *
73377737 TACCCCTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
73377763 T
1 T
73377764 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:73383941 original size:32 final size:32
Alignment explanation
Indices: 73383905--73383969 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
73383895 TGTATGCATT
73383905 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
73383937 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
73383969 T
1 T
73383970 GGTAAGCATT
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:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:73385479 original size:26 final size:26
Alignment explanation
Indices: 73385449--73385501 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
73385439 TTTATAGTTT
73385449 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
73385475 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
73385501 T
1 T
73385502 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:73388650 original size:28 final size:28
Alignment explanation
Indices: 73388618--73388675 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
73388608 TCGGTGATGG
73388618 ATACCGTACCAATGGCTTGAGATCCTGC
1 ATACCGTACCAATGGCTTGAGATCCTGC
73388646 ATACCGTACCAATGGCTTGAGATCCTGC
1 ATACCGTACCAATGGCTTGAGATCCTGC
73388674 AT
1 AT
73388676 GTGTTGTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (28 bp):
ATACCGTACCAATGGCTTGAGATCCTGC
Found at i:73392597 original size:22 final size:23
Alignment explanation
Indices: 73392572--73392617 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
73392562 CAACCAAACC
73392572 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
73392594 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
73392617 A
1 A
73392618 CGTCATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:73392623 original size:23 final size:22
Alignment explanation
Indices: 73392579--73392628 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
73392569 ACCAATTCAA
*
73392579 CATATTTTCAAGATAAATTCAT
1 CATATTTTCAAGATAAAGTCAT
*
73392601 GCATATTTAT-AAGATAACGTCAT
1 -CATATTT-TCAAGATAAAGTCAT
73392624 CATAT
1 CATAT
73392629 ACCCAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (22 bp):
CATATTTTCAAGATAAAGTCAT
Found at i:73396150 original size:26 final size:26
Alignment explanation
Indices: 73396121--73396202 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
73396111 TGATAAAAAT
*
73396121 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73396147 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
73396173 TGAAAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73396199 TGAT
1 TGAT
73396203 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:73397419 original size:76 final size:76
Alignment explanation
Indices: 73397293--73397441 Score: 280
Period size: 76 Copynumber: 2.0 Consensus size: 76
73397283 TAGTAATCCA
*
73397293 ATTGTAGGCAGTTCGTGTGTGGATCTCGTCAGCATATCGTCGCAAACAGGTGTGTAACTAACACC
1 ATTGTAAGCAGTTCGTGTGTGGATCTCGTCAGCATATCGTCGCAAACAGGTGTGTAACTAACACC
73397358 CTCTTATAGAC
66 CTCTTATAGAC
73397369 ATTGTAAGCAGTTCGTGTGTGGATCTCGTCAGCATATCGTCGCAAACAGGTGTGTAACTAACACC
1 ATTGTAAGCAGTTCGTGTGTGGATCTCGTCAGCATATCGTCGCAAACAGGTGTGTAACTAACACC
*
73397434 CTTTTATA
66 CTCTTATA
73397442 TATGTGTGAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (76 bp):
ATTGTAAGCAGTTCGTGTGTGGATCTCGTCAGCATATCGTCGCAAACAGGTGTGTAACTAACACC
CTCTTATAGAC
Found at i:73397472 original size:22 final size:22
Alignment explanation
Indices: 73397446--73397495 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
73397436 TTTATATATG
73397446 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
73397468 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
73397490 TGTGAT
1 TGTGAT
73397496 GAATGTGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:73397520 original size:47 final size:47
Alignment explanation
Indices: 73397468--73397875 Score: 582
Period size: 47 Copynumber: 8.5 Consensus size: 47
73397458 GAATGGCCAA
*
73397468 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATG
**
73397515 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C--ATGCATATG
*
73397566 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATG
* * * *
73397613 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAACCTGTATATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG--CATATG
*
73397662 TGCATGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATG
1 TG--TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATG
*
73397711 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATG
* * *
73397758 TGTGATAAGTCCGAATGGCCAATGTGATGAAAGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATG
* * *
73397805 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATG
* *
73397852 TGTGGTAAGGCCGAATGGCTAATG
1 TGTGATAAGGCCGAATGGCCAATG
73397876 CGAAATGTGT
Statistics
Matches: 326, Mismatches: 27, Indels: 16
0.88 0.07 0.04
Matches are distributed among these distances:
47 234 0.72
49 12 0.04
51 80 0.25
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATG
Found at i:73397585 original size:98 final size:96
Alignment explanation
Indices: 73397468--73397875 Score: 626
Period size: 98 Copynumber: 4.2 Consensus size: 96
73397458 GAATGGCCAA
73397468 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGG
73397533 CCAATGTGATGAATGTGAACCCGTATATATATG
66 CCAATGTGATGAATGTGAA--CGTATATATATG
*
73397566 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCTAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGG
73397631 CCAATGTGATGAATGTGAACCTGTATATATATG
66 CCAATGTGATGAATGTGAA-C-GTATATATATG
**
73397664 CATGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGG
***
73397729 CCAATGTGATGAATGTGAAC--ATGCGTATG
66 CCAATGTGATGAATGTGAACGTATATATATG
* * * * *
73397758 TGTGATAAGTCCGAATGGCCAATGTGATGAAAGTGAACATGCATATATGAGATAAGGCCGAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGG
* *
73397823 CCAATGTGATGAATGTGAACATGTATATATG
66 CCAATGTGATGAATGTGAACGTATATATATG
*
73397854 TG-G-TAAGGCCGAATGGCTAATG
1 TGTGATAAGGCCGAATGGCCAATG
73397876 CGAAATGTGT
Statistics
Matches: 287, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
94 101 0.35
95 1 0.00
96 7 0.02
97 3 0.01
98 175 0.61
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (96 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGG
CCAATGTGATGAATGTGAACGTATATATATG
Found at i:73397711 original size:23 final size:23
Alignment explanation
Indices: 73397685--73397759 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
73397675 CGAATGGCCA
73397685 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
73397708 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
73397732 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
73397755 ATGTG
1 ATGTG
73397760 TGATAAGTCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:73397711 original size:145 final size:142
Alignment explanation
Indices: 73397468--73397875 Score: 622
Period size: 145 Copynumber: 2.8 Consensus size: 142
73397458 GAATGGCCAA
* *
73397468 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTG-TGATAAGGCCGAATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGATGATAAGGCCGAATG
*
73397532 GCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
66 GCCAATGTGATGAATGTGAA--C--ATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
73397597 TGTGAACATGCGTATG
127 TGTGAACATGCGTATG
* * *
73397613 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAACCTGTATATATATGCATGATAAGGCCGA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG--CATATATG-ATGATAAGGCCGA
**
73397678 ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
63 ATGGCCAATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
73397743 GTGAACATGCGTATG
128 GTGAACATGCGTATG
* *
73397758 TGTGATAAGTCCGAATGGCCAATGTGATGAAAGTGAACATGCATATATGA-GATAAGGCCGAATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGATGATAAGGCCGAATG
* * *
73397822 GCCAATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATG
66 GCCAATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATG
73397876 CGAAATGTGT
Statistics
Matches: 241, Mismatches: 18, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
141 63 0.26
142 1 0.00
143 7 0.03
145 129 0.54
147 6 0.02
149 35 0.15
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (142 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGATGATAAGGCCGAATG
GCCAATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
AACATGCGTATG
Found at i:73397915 original size:46 final size:46
Alignment explanation
Indices: 73397849--73397938 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
73397839 GAACATGTAT
* * *
73397849 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
* *
73397895 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGAT
73397939 GTGTATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
Found at i:73398267 original size:37 final size:37
Alignment explanation
Indices: 73398080--73398266 Score: 311
Period size: 37 Copynumber: 5.0 Consensus size: 37
73398070 AACTTGGAAA
73398080 TATATTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATA-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
73398118 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
73398155 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
*
73398192 TATATCCGGGTAAGACCCGATGACTACATGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
* * * **
73398229 TTTGTCCGGGTAAGACCCGATAACTTTGTGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
73398266 T
1 T
73398267 TCGTCTGAGC
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
37 138 0.97
38 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:73410504 original size:18 final size:19
Alignment explanation
Indices: 73410481--73410519 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
73410471 CTAAATTTTT
73410481 CTTTTTCTT-TTTCATTCC
1 CTTTTTCTTCTTTCATTCC
*
73410499 CTTTTTCTTCTTTCTTTCC
1 CTTTTTCTTCTTTCATTCC
73410518 CT
1 CT
73410520 ACTATTCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (19 bp):
CTTTTTCTTCTTTCATTCC
Found at i:73410622 original size:21 final size:21
Alignment explanation
Indices: 73410582--73410629 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
73410572 TATTATAACT
*
73410582 ATTAT-ATTGTTATATTTTAA
1 ATTATAATTATTATATTTTAA
73410602 ATTATAATTATTAT-TTCTTAA
1 ATTATAATTATTATATT-TTAA
*
73410623 ATAATAA
1 ATTATAA
73410630 GTAAAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTATAATTATTATATTTTAA
Found at i:73414653 original size:30 final size:30
Alignment explanation
Indices: 73414619--73414679 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
73414609 TCCTTAACTC
73414619 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
73414649 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
73414679 A
1 A
73414680 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:73421300 original size:19 final size:20
Alignment explanation
Indices: 73421276--73421313 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
73421266 TAAATTTTCC
73421276 TTTTCTT-TTTCTTTCCCTT
1 TTTTCTTCTTTCTTTCCCTT
73421295 TTTTCTTCTTTCTTTCCCT
1 TTTTCTTCTTTCTTTCCCT
73421314 GCTATTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTCTTCTTTCTTTCCCTT
Found at i:73421303 original size:16 final size:17
Alignment explanation
Indices: 73421274--73421306 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
73421264 CCTAAATTTT
*
73421274 CCTTTTCTTTTTCTTTC
1 CCTTTTCTTCTTCTTTC
73421291 CCTTTT-TTCTTCTTTC
1 CCTTTTCTTCTTCTTTC
73421307 TTTCCCTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
CCTTTTCTTCTTCTTTC
Found at i:73424850 original size:15 final size:15
Alignment explanation
Indices: 73424832--73424869 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
73424822 TTCTTTATGT
73424832 TGGATTTCTATATTA
1 TGGATTTCTATATTA
* *
73424847 TGGATTTCTCTGTTA
1 TGGATTTCTATATTA
73424862 TGGATTTC
1 TGGATTTC
73424870 CTTATCTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.53
Consensus pattern (15 bp):
TGGATTTCTATATTA
Found at i:73433959 original size:15 final size:15
Alignment explanation
Indices: 73433919--73433968 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
73433909 AAATGATGTG
* *
73433919 ATTTAAATTTAAAAT
1 ATTTTAATTTTAAAT
* *
73433934 ATTATAGTTTTAAAT
1 ATTTTAATTTTAAAT
73433949 ATTTTAATTTT--AT
1 ATTTTAATTTTAAAT
73433962 ATTTTAA
1 ATTTTAA
73433969 CTAAAATAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
13 9 0.31
15 20 0.69
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
ATTTTAATTTTAAAT
Found at i:73435282 original size:27 final size:27
Alignment explanation
Indices: 73435237--73435325 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
73435227 ATACATACAT
* * * *
73435237 GTTGTGCCTACCTGACAGGCTCAACTA
1 GTTGAGCCTATCTGGCAGGCACAACTA
*
73435264 GTTGAGCCTATCTGGCAGGCACGACTA
1 GTTGAGCCTATCTGGCAGGCACAACTA
* * *
73435291 GTTGTGCCT-TCTTGGTAGGCACAACTG
1 GTTGAGCCTATC-TGGCAGGCACAACTA
*
73435318 GTGGAGCC
1 GTTGAGCC
73435326 CACATGCTTA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
26 2 0.04
27 48 0.96
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.26
Consensus pattern (27 bp):
GTTGAGCCTATCTGGCAGGCACAACTA
Found at i:73441389 original size:21 final size:21
Alignment explanation
Indices: 73441348--73441389 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
73441338 CTTATGTCAC
73441348 AAAAAAAATTTAATATCTTAAT
1 AAAAAAAATTTAATA-CTTAAT
*
73441370 AAAAAGAATTTTAATA-TTAA
1 AAAAA-AAATTTAATACTTAA
73441390 AATGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 5 0.28
23 9 0.50
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAAAAATTTAATACTTAAT
Found at i:73443071 original size:28 final size:31
Alignment explanation
Indices: 73443028--73443094 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 31
73443018 TAGCAAACAA
73443028 ATATAT-AAATATAAATAAA-TAAAT-ATTT
1 ATATATAAAATATAAATAAATTAAATAATTT
*
73443056 ATATATAAAATA-AAATAAATTGAATAATTT
1 ATATATAAAATATAAATAAATTAAATAATTT
*
73443086 ATATTTAAA
1 ATATATAAA
73443095 TTATCATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 13 0.38
29 9 0.26
30 12 0.35
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (31 bp):
ATATATAAAATATAAATAAATTAAATAATTT
Found at i:73445409 original size:25 final size:26
Alignment explanation
Indices: 73445381--73445429 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
73445371 CGAATTCTTC
73445381 TTTCTCTTCTCC-TCTCTTCTTCTAT
1 TTTCTCTTCTCCTTCTCTTCTTCTAT
* *
73445406 TTTCTTTTCTCCTTCTTTTCTTCT
1 TTTCTCTTCTCCTTCTCTTCTTCT
73445430 CTAGCCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTCTCTTCTCCTTCTCTTCTTCTAT
Found at i:73451327 original size:87 final size:86
Alignment explanation
Indices: 73451104--73451354 Score: 265
Period size: 87 Copynumber: 2.9 Consensus size: 86
73451094 TTAATTCTAT
** * * * * * *
73451104 TTTGGAAACAAAATTGAAATTG-AATAAAATCTGTTAAACGGCGGGAATAAATCCCAAAACAAAT
1 TTTGGAAACAAAATAAAAAATGAAATAAAATCTGTTGAAC-GCAGGAATAAATTCCGAAACAGAT
* * *
73451168 TTTATTTAATTTTAATTTCTCG
65 TTTATTTAATTTTAAATACTCA
* * * *
73451190 TTTGGCAACAAAATAAAAAATGGAATAAAATCTGTTGAACGGAGAAAATAAATTCCGAAACAGAT
1 TTTGGAAACAAAATAAAAAATGAAATAAAATCTGTTGAACGCAG-GAATAAATTCCGAAACAGAT
73451255 TTTATTT-ATTTTAAATACTCA
65 TTTATTTAATTTTAAATACTCA
* * *
73451276 TTTGGAAACAAAGTCAAAAAATGAAATAAAATCTGTTGAACGACAGGAATAAA-TCATGAAAAAG
1 TTTGGAAACAAAAT-AAAAAATGAAATAAAATCTGTTGAACG-CAGGAATAAATTC-CGAAACAG
*
73451340 ATTTTATTCAATTTT
63 ATTTTATTTAATTTT
73451355 TATTTTTATT
Statistics
Matches: 137, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
86 45 0.33
87 85 0.62
88 7 0.05
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.31
Consensus pattern (86 bp):
TTTGGAAACAAAATAAAAAATGAAATAAAATCTGTTGAACGCAGGAATAAATTCCGAAACAGATT
TTATTTAATTTTAAATACTCA
Found at i:73463272 original size:23 final size:24
Alignment explanation
Indices: 73463233--73463280 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
73463223 TAATTTTTAA
73463233 AGCTTATTATTTATATTTAATTTT
1 AGCTTATTATTTATATTTAATTTT
*
73463257 AGCTT-TTATATT-TATTTATTTTT
1 AGCTTATTAT-TTATATTTAATTTT
73463280 A
1 A
73463281 TTTATCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (24 bp):
AGCTTATTATTTATATTTAATTTT
Found at i:73468912 original size:29 final size:29
Alignment explanation
Indices: 73468852--73468930 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
73468842 AAAAATAATT
* * * * *
73468852 CATCTCGTCAAAATAATTTTTTTAGAATA
1 CATCACGTCAAAATTATTTTTTCAAAACA
*
73468881 CATCACGTCAAATTTATTTTTTCAAAACA
1 CATCACGTCAAAATTATTTTTTCAAAACA
*
73468910 CAT-ATTGTCAAAATTATTTTT
1 CATCA-CGTCAAAATTATTTTT
73468931 CCCATAACAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 1 0.02
29 40 0.98
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.43
Consensus pattern (29 bp):
CATCACGTCAAAATTATTTTTTCAAAACA
Found at i:73469072 original size:64 final size:65
Alignment explanation
Indices: 73468961--73469105 Score: 179
Period size: 64 Copynumber: 2.2 Consensus size: 65
73468951 TAAAAAAAAG
* *
73468961 CCCTAAAACCCTAAACAATTAAAAACCTAATACCCAAATTTA-ATTTTTCCTAAACTCTA-TCAA
1 CCCTAAAACCCTAAACAATTAAAAACATAATACCCAAATTTATATTTTTCC-AAACCCTATTCAA
73469024 A
65 A
* * *
73469025 CCCTAAAACCCTAAATAATTAAAAA-ATAATACCCTAATTTGATTTTTTTCCAAACCCTATTCAA
1 CCCTAAAACCCTAAACAATTAAAAACATAATACCCAAATTT-ATATTTTTCCAAACCCTATTCAA
73469089 A
65 A
* * *
73469090 CTCAAAAATCCTAAAC
1 CCCTAAAACCCTAAAC
73469106 CTAGGTCCTA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
63 13 0.19
64 32 0.46
65 24 0.35
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.29
Consensus pattern (65 bp):
CCCTAAAACCCTAAACAATTAAAAACATAATACCCAAATTTATATTTTTCCAAACCCTATTCAAA
Found at i:73469676 original size:47 final size:52
Alignment explanation
Indices: 73469612--73469708 Score: 132
Period size: 48 Copynumber: 2.0 Consensus size: 52
73469602 TTAAAAAAAA
73469612 ATTAAAAATATAT-AAAA-ATATTTTTTAAA-AATAAAAA-TAATTAAATTT
1 ATTAAAAATATATAAAAATATATTTTTTAAATAATAAAAATTAATTAAATTT
* **
73469660 ATTAAAAA-GTATAAAAATATATTTTTTAAATTTTAAAAATTAATTAAAT
1 ATTAAAAATATATAAAAATATATTTTTTAAATAATAAAAATTAATTAAAT
73469709 GTTGACATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 3 0.07
48 12 0.29
49 12 0.29
50 6 0.14
51 9 0.21
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (52 bp):
ATTAAAAATATATAAAAATATATTTTTTAAATAATAAAAATTAATTAAATTT
Found at i:73485597 original size:69 final size:68
Alignment explanation
Indices: 73485464--73485622 Score: 164
Period size: 69 Copynumber: 2.3 Consensus size: 68
73485454 TCCATTGGTT
* * *
73485464 GCCATAGCTAAGCCATGAT-TTATACCTCGAAATCCCTATTTTACTATCCCGACGAACTAACCTA
1 GCCATAGCCAAGCCATGATCTTATACCTCAAAATCCCTATTTTACTATCCAGACGAACTAACCTA
73485528 GTC
66 GTC
* * * *
73485531 GCCATAGCCAAGCCATGGTCTTATACCTCAAAAT-CCTCATGTTTACTGTCTCAG-TGGACTAAC
1 GCCATAGCCAAGCCATGATCTTATACCTCAAAATCCCT-AT-TTTACTATC-CAGACGAACTAAC
*
73485594 CTAGTT
63 CTAGTC
* *
73485600 GTCATAGTCCAA-CCATGTTCTTA
1 GCCATAG-CCAAGCCATGATCTTA
73485623 CACAGTATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
67 20 0.26
68 15 0.19
69 36 0.47
70 6 0.08
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (68 bp):
GCCATAGCCAAGCCATGATCTTATACCTCAAAATCCCTATTTTACTATCCAGACGAACTAACCTA
GTC
Found at i:73485643 original size:69 final size:67
Alignment explanation
Indices: 73485570--73485761 Score: 197
Period size: 69 Copynumber: 2.8 Consensus size: 67
73485560 AAAATCCTCA
* * *
73485570 TGTTTACTGTCTCAGTGGACTAACCTAGTTGTCATAGTCCAACCATGTTCTTACACAGTATATTC
1 TGTTTACTGTC-CAGTGGACTATCAT-GTTGTCATAGTCCAACCATGGTCTTACACAGTATATTC
73485635 CCCG
64 CCCG
* ** * *
73485639 TGTTTACTGTCCTG-GCAGACTATTTTGGTTGTCATAGTCTAACCATGGTCTTACACCGTATATT
1 TGTTTACTGTCCAGTG--GACTATCAT-GTTGTCATAGTCCAACCATGGTCTTACACAGTATATT
**
73485703 CCTTG
63 CCCCG
* * *
73485708 TGTTTACTGTCCCGGTGAACTATCATGATTGCCATAGTCCAACCATGGTCTTAC
1 TGTTTACTGT-CCAGTGGACTATCATG-TTGTCATAGTCCAACCATGGTCTTAC
73485762 CTAGTTGCCA
Statistics
Matches: 102, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
67 1 0.01
68 3 0.03
69 94 0.92
70 3 0.03
71 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (67 bp):
TGTTTACTGTCCAGTGGACTATCATGTTGTCATAGTCCAACCATGGTCTTACACAGTATATTCCC
CG
Found at i:73485842 original size:99 final size:99
Alignment explanation
Indices: 73485666--73485855 Score: 283
Period size: 99 Copynumber: 1.9 Consensus size: 99
73485656 GACTATTTTG
* * ** * * *
73485666 GTTGTCATAGTCTAACCATGGTCTTACACCGTATATTCCTTGTGTTTACTGTCCCGGTGAACTAT
1 GTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCGTGTTTACTGTCCCGGTGAACTAT
73485731 CATGATTGCCATAGTCCAACCATGGTCTTACCTA
66 CATGATTGCCATAGTCCAACCATGGTCTTACCTA
73485765 GTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCGTGTTTACTGTCCCGGTGAACTAT
1 GTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCGTGTTTACTGTCCCGGTGAACTAT
* *
73485830 CCT-AGTTGCCATAGTCCAACCCTGGT
66 CATGA-TTGCCATAGTCCAACCATGGT
73485856 ATTATACTGT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 1 0.01
99 80 0.99
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (99 bp):
GTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCGTGTTTACTGTCCCGGTGAACTAT
CATGATTGCCATAGTCCAACCATGGTCTTACCTA
Found at i:73485880 original size:69 final size:69
Alignment explanation
Indices: 73485761--73486021 Score: 310
Period size: 69 Copynumber: 3.8 Consensus size: 69
73485751 CATGGTCTTA
** * * *
73485761 CCTAGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCGTGTTTACTGTCCCGGTGAA
1 CCTAGTTGCCATAGTCCAACCATGGTCTTACACCGTATATTCCTCGTGTTTACTGTCACGGTGAA
73485826 CTAT
66 CTAT
* * * * * * * ** *
73485830 CCTAGTTGCCATAGTCCAACCCTGGTATTATACTGTAAATTCCTCATGTTTACTATCATAG-CAG
1 CCTAGTTGCCATAGTCCAACCATGGTCTTACACCGTATATTCCTCGTGTTTACTGTCACGGTGA-
73485894 ACTAT
65 ACTAT
* * * *
73485899 CCTGGTTGCCATAGTCCAACCATGGTTTTACACCGTATATTCC-CTGTGTTTACTGTCTCGATGA
1 CCTAGTTGCCATAGTCCAACCATGGTCTTACACCGTATATTCCTC-GTGTTTACTGTCACGGTGA
73485963 ACTAT
65 ACTAT
*
73485968 CCTAGTTGCCATAGTCCAACCATGGTCTTACACCGTATATTCCCCGTGTTTACT
1 CCTAGTTGCCATAGTCCAACCATGGTCTTACACCGTATATTCCTCGTGTTTACT
73486022 CGGAGCTTCG
Statistics
Matches: 159, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
68 2 0.01
69 155 0.97
70 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (69 bp):
CCTAGTTGCCATAGTCCAACCATGGTCTTACACCGTATATTCCTCGTGTTTACTGTCACGGTGAA
CTAT
Found at i:73485882 original size:168 final size:168
Alignment explanation
Indices: 73485592--73485929 Score: 401
Period size: 168 Copynumber: 2.0 Consensus size: 168
73485582 CAGTGGACTA
* ** * *
73485592 ACCTAGTTGTCATAGTCCAACCATGTTCTTACACAGTATATTCCCCGTGTTTACTGTCCTGGCAG
1 ACCTAGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCACCGTGTTTACTGTCCCGGCAG
** * * * * * ** * *
73485657 ACTATTTTGGTTGTCATAGTCTAACCATGGTCTTACACCGTATATTCCTTGTGTTTACTGTC-CC
66 ACTATCCTAGTTGCCATAGTCCAACCATGGTATTACACCGTAAATTCCTCATGTTTACTATCACA
**
73485721 GGTGAACTATCATGATTGCCATAGTCCAACCATGGTCTT
131 GCAG-ACTATCATGATTGCCATAGTCCAACCATGGTCTT
* *
73485760 ACCTAGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCGTGTTTACTGTCCCGG-TG
1 ACCTAGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCACCGTGTTTACTGTCCCGGCAG
* * * *
73485824 AACTATCCTAGTTGCCATAGTCCAACCCTGGTATTATACTGTAAATTCCTCATGTTTACTATCAT
66 -ACTATCCTAGTTGCCATAGTCCAACCATGGTATTACACCGTAAATTCCTCATGTTTACTATCAC
* * *
73485889 AGCAGACTATCCTGGTTGCCATAGTCCAACCATGGTTTT
130 AGCAGACTATCATGATTGCCATAGTCCAACCATGGTCTT
73485928 AC
1 AC
73485930 ACCGTATATT
Statistics
Matches: 141, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
167 1 0.01
168 138 0.98
169 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (168 bp):
ACCTAGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCACCGTGTTTACTGTCCCGGCAG
ACTATCCTAGTTGCCATAGTCCAACCATGGTATTACACCGTAAATTCCTCATGTTTACTATCACA
GCAGACTATCATGATTGCCATAGTCCAACCATGGTCTT
Found at i:73485938 original size:237 final size:237
Alignment explanation
Indices: 73485570--73485998 Score: 617
Period size: 237 Copynumber: 1.8 Consensus size: 237
73485560 AAAATCCTCA
* * * * * *
73485570 TGTTTACTGTCTCAGTGGACTAACCTAGTTGTCATAGTCCAACCATGTTCTTACACAGTATATTC
1 TGTTTACTGTCCCAGTGAACTAACCTAGTTGCCATAGTCCAACCATGGTATTACACAGTAAATTC
* * * * ** * *
73485635 CCCGTGTTTACTGTCCTGGCAGACTATTTTGGTTGTCATAGTCTAACCATGGTCTTACACCGTAT
66 CCCATGTTTACTATCATAGCAGACTATCCTGGTTGCCATAGTCCAACCATGGTCTTACACCGTAT
* *
73485700 ATTCCTTGTGTTTACTGTCCCGGTGAACTATCAT-GATTGCCATAGTCCAACCATGGTCTTACCT
131 ATTCCCTGTGTTTACTGTCCCGATGAACTATCATAG-TTGCCATAGTCCAACCATGGTCTTACCT
73485764 AGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCG
195 AGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCG
* * * * *
73485807 TGTTTACTGTCCCGGTGAACTATCCTAGTTGCCATAGTCCAACCCTGGTATTATACTGTAAATTC
1 TGTTTACTGTCCCAGTGAACTAACCTAGTTGCCATAGTCCAACCATGGTATTACACAGTAAATTC
* *
73485872 CTCATGTTTACTATCATAGCAGACTATCCTGGTTGCCATAGTCCAACCATGGTTTTACACCGTAT
66 CCCATGTTTACTATCATAGCAGACTATCCTGGTTGCCATAGTCCAACCATGGTCTTACACCGTAT
* *
73485937 ATTCCCTGTGTTTACTGTCTCGATGAACTATCCTAGTTGCCATAGTCCAACCATGGTCTTAC
131 ATTCCCTGTGTTTACTGTCCCGATGAACTATCATAGTTGCCATAGTCCAACCATGGTCTTAC
73485999 ACCGTATATT
Statistics
Matches: 166, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
237 165 0.99
238 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.35
Consensus pattern (237 bp):
TGTTTACTGTCCCAGTGAACTAACCTAGTTGCCATAGTCCAACCATGGTATTACACAGTAAATTC
CCCATGTTTACTATCATAGCAGACTATCCTGGTTGCCATAGTCCAACCATGGTCTTACACCGTAT
ATTCCCTGTGTTTACTGTCCCGATGAACTATCATAGTTGCCATAGTCCAACCATGGTCTTACCTA
GTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCG
Found at i:73486018 original size:138 final size:138
Alignment explanation
Indices: 73485765--73486021 Score: 372
Period size: 138 Copynumber: 1.9 Consensus size: 138
73485755 GTCTTACCTA
*
73485765 GTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCGTGTTTACTGTCCCGGTGAACTAT
1 GTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCGTGTTTACTGTCCCGATGAACTAT
* * * *
73485830 CCTAGTTGCCATAGTCCAACCCTGGTATTATACTGTAAATTCCTCATGTTTACTATCATAGCAGA
66 CCTAGTTGCCATAGTCCAACCATGGTATTACACCGTAAATTCCCCATGTTTACTATCATAGCAGA
73485895 CTATCCTG
131 CTATCCTG
** * * * *
73485903 GTTGCCATAGTCCAACCATGGTTTTACACCGTATATTC-CCTGTGTTTACTGTCTCGATGAACTA
1 GTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATC-GTGTTTACTGTCCCGATGAACTA
* * *
73485967 TCCTAGTTGCCATAGTCCAACCATGGTCTTACACCGTATATTCCCCGTGTTTACT
65 TCCTAGTTGCCATAGTCCAACCATGGTATTACACCGTAAATTCCCCATGTTTACT
73486022 CGGAGCTTCG
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
137 1 0.01
138 103 0.99
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (138 bp):
GTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCGTGTTTACTGTCCCGATGAACTAT
CCTAGTTGCCATAGTCCAACCATGGTATTACACCGTAAATTCCCCATGTTTACTATCATAGCAGA
CTATCCTG
Found at i:73486491 original size:96 final size:96
Alignment explanation
Indices: 73486326--73486517 Score: 357
Period size: 96 Copynumber: 2.0 Consensus size: 96
73486316 GATTCATAGT
73486326 CAATTTATGCATATTGAACTAGAATGGCAGATTCTCATATACTTATTATCTCAGGGGTGGAGTGC
1 CAATTTATGCATATTGAACTAGAATGGCAGATTCTCATATACTTATTATCTCAGGGGTGGAGTGC
*
73486391 AGAAACTCACCTGACACTTCTTTGCCTCCTC
66 AGAAACTCACCTGACACTTATTTGCCTCCTC
* *
73486422 CAATTTATGCATATTGAACTAGAGTGGCAGATTCTCATATACTTATTATCTCAGGGGTGGAGTGT
1 CAATTTATGCATATTGAACTAGAATGGCAGATTCTCATATACTTATTATCTCAGGGGTGGAGTGC
73486487 AGAAACTCACCTGACACTTATTTGCCTCCTC
66 AGAAACTCACCTGACACTTATTTGCCTCCTC
73486518 ATTCGCTTAA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (96 bp):
CAATTTATGCATATTGAACTAGAATGGCAGATTCTCATATACTTATTATCTCAGGGGTGGAGTGC
AGAAACTCACCTGACACTTATTTGCCTCCTC
Found at i:73488561 original size:30 final size:30
Alignment explanation
Indices: 73488481--73488550 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
73488471 TAAAGTCAGT
*
73488481 TACATAATATAAATAGTAATAAACATGACA
1 TACATAATATAAATAGTAATAAACATAACA
* *
73488511 TAAATAATATAAACAGTAATAAACATAACA
1 TACATAATATAAATAGTAATAAACATAACA
73488541 TACATAATAT
1 TACATAATAT
73488551 CTATACTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.59, C:0.10, G:0.04, T:0.27
Consensus pattern (30 bp):
TACATAATATAAATAGTAATAAACATAACA
Found at i:73488585 original size:13 final size:13
Alignment explanation
Indices: 73488538--73488621 Score: 73
Period size: 13 Copynumber: 6.3 Consensus size: 13
73488528 AATAAACATA
73488538 ACATACATAATAT
1 ACATACATAATAT
73488551 -CTATAC-TAATAT
1 AC-ATACATAATAT
**
73488563 ACATGTATAATAT
1 ACATACATAATAT
*
73488576 ACATACATAAACATT
1 ACATACAT-AATA-T
*
73488591 AATATACATAATAT
1 -ACATACATAATAT
*
73488605 ACATACATAATAG
1 ACATACATAATAT
73488618 ACAT
1 ACAT
73488622 CCTAGTATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
12 9 0.16
13 32 0.57
14 4 0.07
15 4 0.07
16 7 0.12
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.32
Consensus pattern (13 bp):
ACATACATAATAT
Found at i:73488621 original size:9 final size:9
Alignment explanation
Indices: 73488569--73488609 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
73488559 ATATACATGT
73488569 ATAATATAC
1 ATAATATAC
*
73488578 ATACATAAAC
1 ATA-ATATAC
73488588 ATTAATATAC
1 A-TAATATAC
73488598 ATAATATAC
1 ATAATATAC
73488607 ATA
1 ATA
73488610 CATAATAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 14 0.50
10 12 0.43
11 2 0.07
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (9 bp):
ATAATATAC
Found at i:73491769 original size:19 final size:19
Alignment explanation
Indices: 73491734--73491771 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
73491724 AGTTCTTTTT
73491734 TATTATTTTTTTCAATTTA
1 TATTATTTTTTTCAATTTA
*
73491753 TATT-TTTTATTTTAATTTA
1 TATTATTTT-TTTCAATTTA
73491772 ATTGTCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTATTTTTTTCAATTTA
Found at i:73493603 original size:86 final size:86
Alignment explanation
Indices: 73493451--73493615 Score: 224
Period size: 86 Copynumber: 1.9 Consensus size: 86
73493441 CCTCTCTCTT
** * *
73493451 TTTTTTTACACTCAATTGAGCATTTAAACTTTCAAAATGCATAAAAAAAATTCTTAAACTTCTTC
1 TTTTTTTACACTCAATTGAGCATTTAAACTTTCAAAATGCATAAAAAAAACCCTCAAAATTCTTC
73493516 AAAAAAAGCAATTAAACTCCTA
66 AAAAAAA-CAATTAAACTCCTA
* * * * *
73493538 TTTTTTT-CACTCAATTGAGTATTTGAACTTTCAAAATGCATAAGAAAGACCCTCAAAATTTTTC
1 TTTTTTTACACTCAATTGAGCATTTAAACTTTCAAAATGCATAAAAAAAACCCTCAAAATTCTTC
*
73493602 AATAAAACAATTAA
66 AAAAAAACAATTAA
73493616 GCCCATGCTC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 7 0.10
86 54 0.79
87 7 0.10
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (86 bp):
TTTTTTTACACTCAATTGAGCATTTAAACTTTCAAAATGCATAAAAAAAACCCTCAAAATTCTTC
AAAAAAACAATTAAACTCCTA
Found at i:73493701 original size:18 final size:19
Alignment explanation
Indices: 73493660--73493706 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
73493650 TAAAACTAAT
73493660 AAATAATAAATTTTAGAAAA
1 AAAT-ATAAATTTTAGAAAA
* *
73493680 AAATTTAAATTTTA-ATAA
1 AAATATAAATTTTAGAAAA
73493698 AAATATAAA
1 AAATATAAA
73493707 ATTATGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 11 0.46
19 9 0.38
20 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATATAAATTTTAGAAAA
Found at i:73493708 original size:19 final size:19
Alignment explanation
Indices: 73493667--73493728 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
73493657 AATAAATAAT
*
73493667 AAATTTTAGAAAAAAATTT
1 AAATTTTAGAAAAAAATTA
*
73493686 AAATTTTA-ATAAAAATATA
1 AAATTTTAGAAAAAAAT-TA
* *
73493705 AAATTAT-GAAAAATTATTA
1 AAATTTTAGAAAAA-AATTA
73493724 AAATT
1 AAATT
73493729 AGAAATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 7 0.20
19 26 0.74
20 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
AAATTTTAGAAAAAAATTA
Found at i:73494046 original size:47 final size:47
Alignment explanation
Indices: 73493948--73494048 Score: 109
Period size: 47 Copynumber: 2.1 Consensus size: 47
73493938 TTTATAAATT
* * *
73493948 ATTTTTATGAAATTTATATTTCTTTACATTTTGTATAATTTTTTATT
1 ATTTTTATAAAATTTATATTTCTTTACATTTTGTATAATTTTTAATA
* *
73493995 ATTTTTATAAAATTT-TATATT-TTTACGCTTTTTTAT-ATTTTTAATAA
1 ATTTTTATAAAATTTATAT-TTCTTTAC-ATTTTGTATAATTTTTAAT-A
73494042 ATTTTTA
1 ATTTTTA
73494049 ATATTTGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
46 16 0.35
47 30 0.65
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (47 bp):
ATTTTTATAAAATTTATATTTCTTTACATTTTGTATAATTTTTAATA
Found at i:73497606 original size:29 final size:30
Alignment explanation
Indices: 73497515--73497596 Score: 148
Period size: 30 Copynumber: 2.8 Consensus size: 30
73497505 ACTTATTTTA
73497515 TTGTTAATTTTGTTATTATTTTAAAAATAT
1 TTGTTAATTTTGTTATTATTTTAAAAATAT
*
73497545 TTTTTAATTTTGTTATTATTTTAAAAATAT
1 TTGTTAATTTTGTTATTATTTTAAAAATAT
73497575 TTGTTAA-TTTGTTATTATTTTA
1 TTGTTAATTTTGTTATTATTTTA
73497597 GAGGAATTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 15 0.30
30 35 0.70
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.63
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAAATAT
Found at i:73499099 original size:13 final size:13
Alignment explanation
Indices: 73499058--73499101 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
73499048 AAGATTTAGT
73499058 ATTTATTAGTATA
1 ATTTATTAGTATA
* *
73499071 ATATATT--TAAA
1 ATTTATTAGTATA
73499082 ATTTATTAGTATA
1 ATTTATTAGTATA
73499095 ATTTATT
1 ATTTATT
73499102 TGACCTAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 9 0.36
13 16 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (13 bp):
ATTTATTAGTATA
Found at i:73500090 original size:19 final size:19
Alignment explanation
Indices: 73500066--73500103 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
73500056 GTTCACCACT
73500066 AATTAAATGTGATGGACGG
1 AATTAAATGTGATGGACGG
73500085 AATTAAATGTGATGGACGG
1 AATTAAATGTGATGGACGG
73500104 TGGTGGGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (19 bp):
AATTAAATGTGATGGACGG
Found at i:73504919 original size:14 final size:14
Alignment explanation
Indices: 73504900--73504926 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
73504890 AATCTATGTG
73504900 TTTTATTTTATTTA
1 TTTTATTTTATTTA
73504914 TTTTATTTTATTT
1 TTTTATTTTATTT
73504927 TTCACAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:73508602 original size:26 final size:27
Alignment explanation
Indices: 73508550--73508602 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
73508540 AATTGGGTAG
73508550 TTTACCCTATTTATATTTTTTTTATAA
1 TTTACCCTATTTATATTTTTTTTATAA
73508577 TTTACCCTATTTATA-TTTTTTTATAA
1 TTTACCCTATTTATATTTTTTTTATAA
73508603 AAGTAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTACCCTATTTATATTTTTTTTATAA
Found at i:73518849 original size:16 final size:16
Alignment explanation
Indices: 73518828--73518876 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
73518818 TTAATCACTT
73518828 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* *
73518844 TAATATTTAATAAATA
1 TAATATTAAATTAATA
* *
73518860 TTATATTAATTTAATA
1 TAATATTAAATTAATA
73518876 T
1 T
73518877 TAAACCTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:73518967 original size:20 final size:18
Alignment explanation
Indices: 73518920--73518968 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
73518910 CAAGATAAAC
73518920 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
73518937 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
73518957 ATTAAATTAATA
1 ATTAAATTAATA
73518969 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:73518999 original size:37 final size:37
Alignment explanation
Indices: 73518958--73519028 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
73518948 CACTTTAATA
*
73518958 TTAAA-TTAATAA-AATACTATTAAGATAAATATTAAAG
1 TTAAATTTAATAATAA-ACTATTAAAAT-AATATTAAAG
73518995 TTAAATTTAATAATAAACTATTAAAATAATATTA
1 TTAAATTTAATAATAAACTATTAAAATAATATTA
73519029 TTTTTAGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 12 0.39
38 17 0.55
39 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (37 bp):
TTAAATTTAATAATAAACTATTAAAATAATATTAAAG
Found at i:73519409 original size:27 final size:27
Alignment explanation
Indices: 73519379--73519433 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
73519369 AAGTTCAATT
73519379 ACCCATTAGGCCAATTGTCTGACTTGA
1 ACCCATTAGGCCAATTGTCTGACTTGA
* *
73519406 ACCCATTGGGCCAATTGTTTGACTTGA
1 ACCCATTAGGCCAATTGTCTGACTTGA
73519433 A
1 A
73519434 AATTAATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (27 bp):
ACCCATTAGGCCAATTGTCTGACTTGA
Found at i:73522364 original size:12 final size:12
Alignment explanation
Indices: 73522330--73522368 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
73522320 CCATTAAGAT
73522330 TACTCATTGAAC
1 TACTCATTGAAC
*
73522342 TTCTC-TTGAAC
1 TACTCATTGAAC
73522353 TACTCATTGAAC
1 TACTCATTGAAC
73522365 -ACTC
1 TACTC
73522369 GGAATGCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (12 bp):
TACTCATTGAAC
Found at i:73529243 original size:16 final size:17
Alignment explanation
Indices: 73529213--73529246 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
73529203 TAATTAATTT
73529213 TAATTAATAAATTTTTA
1 TAATTAATAAATTTTTA
*
73529230 TAATTAATAATTTTTTA
1 TAATTAATAAATTTTTA
73529247 AACTCGATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTAATAAATTTTTA
Found at i:73533913 original size:15 final size:15
Alignment explanation
Indices: 73533883--73533921 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
73533873 TTGATTGATC
73533883 CAAATTTTCATTAAAAA
1 CAAATTTT--TTAAAAA
*
73533900 CTAATTTTTTAAAAA
1 CAAATTTTTTAAAAA
73533915 CAAATTT
1 CAAATTT
73533922 ATCAATAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
17 7 0.35
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (15 bp):
CAAATTTTTTAAAAA
Found at i:73534346 original size:34 final size:34
Alignment explanation
Indices: 73534303--73534370 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
73534293 GTATGTAGTA
73534303 GTATATTGTACTATGGTTCACCAAAAAATGAATT
1 GTATATTGTACTATGGTTCACCAAAAAATGAATT
73534337 GTATATTGTACTATGGTTCACCAAAAAATGAATT
1 GTATATTGTACTATGGTTCACCAAAAAATGAATT
73534371 AAGGGGAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (34 bp):
GTATATTGTACTATGGTTCACCAAAAAATGAATT
Found at i:73534617 original size:20 final size:20
Alignment explanation
Indices: 73534594--73534635 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
73534584 ATGATTGATG
73534594 AATGATGTATTACTCAAATC
1 AATGATGTATTACTCAAATC
73534614 AATGATGTATTACTCAAATC
1 AATGATGTATTACTCAAATC
73534634 AA
1 AA
73534636 GTTTGGCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (20 bp):
AATGATGTATTACTCAAATC
Found at i:73543778 original size:83 final size:80
Alignment explanation
Indices: 73543625--73543785 Score: 216
Period size: 83 Copynumber: 2.0 Consensus size: 80
73543615 TGCAAGGTGC
* * *
73543625 TGGATCTTGACTCTGCTTTGTTTTCTATCAGTAGAATGATTATTTTCTGATAATGGACGAATAAT
1 TGGATCTTGACTCTGCTTTGGTTTCTATCAGTACAATCATTATTTTCTGATAATGGACGAATAAT
73543690 AAAATGAACGGTTGT
66 AAAATGAACGGTTGT
* **
73543705 TGGATCTTGACTCTCTGCTTTGGTTTCTATCAGTACAATCA-TAGTTTTTGTGATAATTTACGAA
1 TGGATCTTGA--CTCTGCTTTGGTTTCTATCAGTACAATCATTA--TTTTCTGATAATGGACGAA
*
73543769 TAATAAAATGAATGGTT
62 TAATAAAATGAACGGTT
73543786 CCATTTGGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 10 0.14
81 2 0.03
82 26 0.37
83 32 0.46
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (80 bp):
TGGATCTTGACTCTGCTTTGGTTTCTATCAGTACAATCATTATTTTCTGATAATGGACGAATAAT
AAAATGAACGGTTGT
Found at i:73544101 original size:6 final size:6
Alignment explanation
Indices: 73544083--73544122 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
73544073 AAGTGGTGGC
*
73544083 GGGGCT GGAGCT GGGGCT GGGGCT GGGGCT GGGGCT GGGG
1 GGGGCT GGGGCT GGGGCT GGGGCT GGGGCT GGGGCT GGGG
73544123 GAGATTTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.03, C:0.15, G:0.68, T:0.15
Consensus pattern (6 bp):
GGGGCT
Found at i:73554047 original size:25 final size:23
Alignment explanation
Indices: 73553999--73554049 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
73553989 CTAAATCTCC
*
73553999 TCTTTTACACCATTGATTTCCAT
1 TCTTTTACACCATTGATATCCAT
73554022 TCTTTTCACCACCACTTGATAT-CAT
1 TCTTTT-A-CACCA-TTGATATCCAT
73554047 TCT
1 TCT
73554050 CTACCACCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
24 1 0.04
25 11 0.46
26 6 0.25
ACGTcount: A:0.22, C:0.29, G:0.04, T:0.45
Consensus pattern (23 bp):
TCTTTTACACCATTGATATCCAT
Found at i:73555266 original size:21 final size:23
Alignment explanation
Indices: 73555240--73555283 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
73555230 GGTAGGAATG
73555240 TTTTTG-AAAAACT-TGCATTGA
1 TTTTTGAAAAAACTCTGCATTGA
73555261 TTTTTGAAAAAACTCTGCATTGA
1 TTTTTGAAAAAACTCTGCATTGA
73555284 CATTCTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 7 0.33
23 8 0.38
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (23 bp):
TTTTTGAAAAAACTCTGCATTGA
Found at i:73556629 original size:16 final size:17
Alignment explanation
Indices: 73556565--73556675 Score: 79
Period size: 17 Copynumber: 6.3 Consensus size: 17
73556555 TCCAAAAATA
*
73556565 ATATTATTTTAATAGATTT
1 ATATTAATTTAAT--ATTT
73556584 AATATTAAATTTAATATTT
1 -ATATT-AATTTAATATTT
*
73556603 ATCTTAA--TAATATTT
1 ATATTAATTTAATATTT
*
73556618 -TATTAATTTAATATTAA
1 ATATTAATTTAATATT-T
73556635 AGTGATT-ATCTTAATATTT
1 A-T-ATTAAT-TTAATATTT
73556654 A-ATTTAATTTAATATTT
1 ATA-TTAATTTAATATTT
73556671 ATATT
1 ATATT
73556676 GTAGATAAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 25
0.71 0.05 0.24
Matches are distributed among these distances:
14 5 0.07
15 8 0.11
16 8 0.11
17 16 0.21
18 7 0.09
19 8 0.11
20 16 0.21
21 7 0.09
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (17 bp):
ATATTAATTTAATATTT
Found at i:73556632 original size:11 final size:11
Alignment explanation
Indices: 73556563--73556634 Score: 55
Period size: 12 Copynumber: 6.8 Consensus size: 11
73556553 ATTCCAAAAA
*
73556563 TAATATTATTT
1 TAATATTAATT
*
73556574 TAATA--GATT
1 TAATATTAATT
73556583 TAATATTAAATT
1 TAATATT-AATT
*
73556595 TAATATTTATCT
1 TAATATTAAT-T
*
73556607 TAATAAT-ATT
1 TAATATTAATT
73556617 T--TATTAATT
1 TAATATTAATT
73556626 TAATATTAA
1 TAATATTAA
73556635 AGTGATTATC
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
8 3 0.06
9 11 0.23
10 2 0.04
11 15 0.31
12 17 0.35
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:73556711 original size:61 final size:58
Alignment explanation
Indices: 73556645--73556760 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 58
73556635 AGTGATTATC
** * * *
73556645 TTAATATTTAATTTAATTTAATATTTATATTGTAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATGAAATTTAATCTAATATTTAT-CT-T-GATAAATATTATATTAATTTAATAGAT
* *
73556706 TTAATATGAAATTTAATCTAATATTTCTCTTGATAAGTATTATATTAATTTAATA
1 TTAATATGAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
73556761 TTAAAATGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 22 0.46
59 1 0.02
60 1 0.02
61 24 0.50
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (58 bp):
TTAATATGAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:73558755 original size:49 final size:49
Alignment explanation
Indices: 73558645--73558770 Score: 121
Period size: 49 Copynumber: 2.6 Consensus size: 49
73558635 CTTACACAGT
* * * *
73558645 CTACCTGATTTG-CTAGTGTAATCGCACACACCCATGTACCCTACACGTC
1 CTACCTGATTTGCCCA-TGCAATCGCACACACCCATGTACCCCACACGGC
* * ** *
73558694 CTCCCTGATTTGCCTATGCAATCGCACACACCTGTGTGCCCCACACGGC
1 CTACCTGATTTGCCCATGCAATCGCACACACCCATGTACCCCACACGGC
* *
73558743 CTACCT-ATTTTGCCCGTGTAATCGCACA
1 CTACCTGA-TTTGCCCATGCAATCGCACA
73558771 TGCTCGTGTG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.02
49 60 0.94
50 3 0.05
ACGTcount: A:0.21, C:0.37, G:0.16, T:0.26
Consensus pattern (49 bp):
CTACCTGATTTGCCCATGCAATCGCACACACCCATGTACCCCACACGGC
Found at i:73559464 original size:14 final size:13
Alignment explanation
Indices: 73559445--73559478 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
73559435 GGAATAATAG
*
73559445 AAAAAAATGAAGA
1 AAAAAAAAGAAGA
73559458 AAAAAAAAGAAGA
1 AAAAAAAAGAAGA
*
73559471 AAAGAAAA
1 AAAAAAAA
73559479 CTGTGAACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAAAAAAGAAGA
Found at i:73566476 original size:21 final size:20
Alignment explanation
Indices: 73566444--73566492 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
73566434 TTTTCAAACG
* *
73566444 GGCGTGTGCCTTGGACACAC
1 GGCGTGTCCCTTAGACACAC
*
73566464 GGCGATGTCCCTTAGCCACAC
1 GGCG-TGTCCCTTAGACACAC
73566485 GGACGTGT
1 GG-CGTGT
73566493 GAGATCTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 18 0.75
22 2 0.08
ACGTcount: A:0.16, C:0.31, G:0.33, T:0.20
Consensus pattern (20 bp):
GGCGTGTCCCTTAGACACAC
Found at i:73573093 original size:26 final size:27
Alignment explanation
Indices: 73573051--73573111 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
73573041 TATGTATTTG
* *
73573051 AAATTTAGT-TT-TTTTTTTGTTTTTAA
1 AAATTTAGTCTTATTTTTTCGATTTT-A
73573077 AAATTTAGTCTTATTTTTTCGATTTTA
1 AAATTTAGTCTTATTTTTTCGATTTTA
73573104 AAATTTAG
1 AAATTTAG
73573112 ATTTAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 9 0.29
27 11 0.35
28 11 0.35
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (27 bp):
AAATTTAGTCTTATTTTTTCGATTTTA
Found at i:73575220 original size:16 final size:15
Alignment explanation
Indices: 73575182--73575265 Score: 57
Period size: 16 Copynumber: 5.3 Consensus size: 15
73575172 ATTTAAACTC
73575182 ATTATATTAT-TATTT
1 ATTA-ATTATATATTT
73575197 -TTATATATATATATTT
1 ATTA-AT-TATATATTT
*
73575213 ATTAA-TATTTAATTT
1 ATTAATTATAT-ATTT
*
73575228 AATAATTATATATTTT
1 ATTAATTATATA-TTT
*
73575244 ATTACCATTATATTTTT
1 ATTA--ATTATATATTT
73575261 ATTAA
1 ATTAA
73575266 ATTTTGATTG
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
14 10 0.18
15 13 0.23
16 16 0.29
17 10 0.18
18 7 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTAATTATATATTT
Found at i:73577107 original size:18 final size:17
Alignment explanation
Indices: 73577072--73577107 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
73577062 AGGTTTGGTT
*
73577072 AGAAAAAAAAAAGTGAG
1 AGAAAAAAAAAAGAGAG
73577089 AGAAAAAAAATAAGAGAG
1 AGAAAAAAAA-AAGAGAG
73577107 A
1 A
73577108 TTATCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (17 bp):
AGAAAAAAAAAAGAGAG
Found at i:73579774 original size:29 final size:29
Alignment explanation
Indices: 73579742--73579801 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
73579732 TAAAAGATAA
73579742 AACTTTGAAACAATTTTAAAATTAAGTGC
1 AACTTTGAAACAATTTTAAAATTAAGTGC
73579771 AACTTTGAAACAATTTTAAAATTAAGTGC
1 AACTTTGAAACAATTTTAAAATTAAGTGC
73579800 AA
1 AA
73579802 ATGATTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (29 bp):
AACTTTGAAACAATTTTAAAATTAAGTGC
Found at i:73579823 original size:20 final size:20
Alignment explanation
Indices: 73579800--73579851 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
73579790 AATTAAGTGC
73579800 AAATGATTTTAACCAAGTCA
1 AAATGATTTTAACCAAGTCA
* * * *
73579820 AAATGATTTCAATCATGTTA
1 AAATGATTTTAACCAAGTCA
*
73579840 AAATCATTTTAA
1 AAATGATTTTAA
73579852 ATGTTTTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.37
Consensus pattern (20 bp):
AAATGATTTTAACCAAGTCA
Found at i:73581200 original size:58 final size:58
Alignment explanation
Indices: 73581110--73581227 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
73581100 AAAGCATGCA
*
73581110 TTGGAAGTGGTTCATGACTAAACCGATAACTTAGGAAATTTTTCAACACTTAGAAAAT
1 TTGGAAGTGGTTCAGGACTAAACCGATAACTTAGGAAATTTTTCAACACTTAGAAAAT
*
73581168 TTGGAAGTGGTTCAGGACTAAACCGATAACTTAGGAAATTTTTCAGCACTTAGAAAAT
1 TTGGAAGTGGTTCAGGACTAAACCGATAACTTAGGAAATTTTTCAACACTTAGAAAAT
73581226 TT
1 TT
73581228 TTGCATAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (58 bp):
TTGGAAGTGGTTCAGGACTAAACCGATAACTTAGGAAATTTTTCAACACTTAGAAAAT
Found at i:73582708 original size:41 final size:40
Alignment explanation
Indices: 73582648--73582725 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 40
73582638 GCCACTGTAT
*
73582648 ATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCA
1 ATATATAACCGAAGCTATCTCAATCTCGCACAC-AAGTGCA
* *
73582689 ATATATAACCGAAGTTATCTCAATTTCGCACACAAGT
1 ATATATAACCGAAGCTATCTCAATCTCGCACACAAGT
73582726 ACCCATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (40 bp):
ATATATAACCGAAGCTATCTCAATCTCGCACACAAGTGCA
Found at i:73582742 original size:41 final size:41
Alignment explanation
Indices: 73582648--73582742 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
73582638 GCCACTGTAT
*
73582648 ATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCA
1 ATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTCCA
* * * *
73582689 ATATATAACCGAAGTTATCTCAATTTCGCACAC-AAGTACCC
1 ATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGT-CCA
73582730 ATA-ATTAGCCGAA
1 ATATA-TAGCCGAA
73582743 TCATTTTCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 5 0.11
41 41 0.89
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (41 bp):
ATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTCCA
Found at i:73595315 original size:56 final size:57
Alignment explanation
Indices: 73595248--73595357 Score: 204
Period size: 56 Copynumber: 1.9 Consensus size: 57
73595238 GGTTAGTCCT
73595248 GGACCATTCTTAATGCATGTTTTGGGTCTCGTAGG-CCATAATAGGGACACTATCAC
1 GGACCATTCTTAATGCATGTTTTGGGTCTCGTAGGCCCATAATAGGGACACTATCAC
*
73595304 GGACCATTCTTAATGCATGTTTTGGGTCTCGTAGGCCCATAATAGGGATACTAT
1 GGACCATTCTTAATGCATGTTTTGGGTCTCGTAGGCCCATAATAGGGACACTAT
73595358 GGCGTTGCTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 35 0.67
57 17 0.33
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (57 bp):
GGACCATTCTTAATGCATGTTTTGGGTCTCGTAGGCCCATAATAGGGACACTATCAC
Found at i:73602950 original size:29 final size:27
Alignment explanation
Indices: 73602918--73602987 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 27
73602908 TAGAAATTCA
*
73602918 AAAAATTATAAAATTATTTTTAAACTATT
1 AAAAATTATAAAATTA-TTTAAAACTA-T
*
73602947 AAAAATTACTAAAATTATTTAAAAGTAT
1 AAAAATTA-TAAAATTATTTAAAACTAT
*
73602975 AAAAACTATAAAA
1 AAAAATTATAAAA
73602988 AAATATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 5 0.14
28 8 0.22
29 16 0.43
30 8 0.22
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (27 bp):
AAAAATTATAAAATTATTTAAAACTAT
Found at i:73604096 original size:12 final size:13
Alignment explanation
Indices: 73604072--73604114 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
73604062 AAGTTTTGGA
73604072 TTTAATATTTGTT
1 TTTAATATTTGTT
73604085 TTTAAT-TTTGTTAT
1 TTTAATATTTG-T-T
*
73604099 TTTAATATTAGTT
1 TTTAATATTTGTT
73604112 TTT
1 TTT
73604115 GTATTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 4 0.15
13 11 0.42
14 8 0.31
15 3 0.12
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTAATATTTGTT
Found at i:73605360 original size:20 final size:20
Alignment explanation
Indices: 73605332--73605376 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
73605322 TTATATGCAC
*
73605332 ATTAAT-AAATAATTTAAAAA
1 ATTAATAAAAT-ATTCAAAAA
*
73605352 ATTATTAAAATATTCAAAAA
1 ATTAATAAAATATTCAAAAA
73605372 ATTAA
1 ATTAA
73605377 AAATAAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTAATAAAATATTCAAAAA
Found at i:73606796 original size:26 final size:24
Alignment explanation
Indices: 73606766--73606815 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
73606756 AAATAAAAAA
*
73606766 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
73606792 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
73606816 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:73606835 original size:21 final size:21
Alignment explanation
Indices: 73606786--73606844 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
73606776 ATAATAAATC
*
73606786 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
73606806 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
73606828 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
73606845 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:73613348 original size:69 final size:68
Alignment explanation
Indices: 73613267--73613419 Score: 175
Period size: 68 Copynumber: 2.2 Consensus size: 68
73613257 TTTTTCCAAC
* *
73613267 ATATAACTTTTTGTATGCCATAG-AGACTTGTCACTTTGTGTATGTGTAAATG-GATGTGGTGGT
1 ATATAACTTTTTGTATGCAATAGTAG-CTTGTCACTTT-TGTATGTGTAAATGAG-TGCGGTGGT
73613330 GAACTA
63 GAACTA
* * * * * *
73613336 ATATAATTTTTTGTATGTAATTGTAGGTTGTCACTTTTGTATGTTTAAATGAGTGCGGTGGTGGA
1 ATATAACTTTTTGTATGCAATAGTAGCTTGTCACTTTTGTATGTGTAAATGAGTGCGGTGGTGAA
*
73613401 GTA
66 CTA
*
73613404 ATATAAGTTTTTGTAT
1 ATATAACTTTTTGTAT
73613420 ATAATTGCAG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
68 40 0.56
69 30 0.42
70 2 0.03
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.44
Consensus pattern (68 bp):
ATATAACTTTTTGTATGCAATAGTAGCTTGTCACTTTTGTATGTGTAAATGAGTGCGGTGGTGAA
CTA
Found at i:73613396 original size:68 final size:69
Alignment explanation
Indices: 73613294--73613426 Score: 189
Period size: 68 Copynumber: 1.9 Consensus size: 69
73613284 CCATAGAGAC
* * *
73613294 TTGTCACTTTGTGTATGTGTAAATGGATGTGGTGGTGAACTAATATAATTTTTTGTATGTAATTG
1 TTGTCACTTTGTGTATGTGTAAATGGATGCGGTGGTGAACTAATATAAGTTTTTGTATATAATTG
73613359 TAGG
66 TAGG
* * *
73613363 TTGTCACTTT-TGTATGTTTAAAT-GAGTGCGGTGGTGGAGTAATATAAGTTTTTGTATATAATT
1 TTGTCACTTTGTGTATGTGTAAATGGA-TGCGGTGGTGAACTAATATAAGTTTTTGTATATAATT
73613426 G
65 G
73613427 CAGGATGATA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 2 0.04
68 45 0.79
69 10 0.18
ACGTcount: A:0.25, C:0.05, G:0.26, T:0.45
Consensus pattern (69 bp):
TTGTCACTTTGTGTATGTGTAAATGGATGCGGTGGTGAACTAATATAAGTTTTTGTATATAATTG
TAGG
Found at i:73614634 original size:20 final size:21
Alignment explanation
Indices: 73614606--73614648 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
73614596 TTAATTCATT
73614606 TTTATTTTATATAAATATTTG
1 TTTATTTTATATAAATATTTG
**
73614627 TTTA-TTTATATTTATATTTG
1 TTTATTTTATATAAATATTTG
73614647 TT
1 TT
73614649 CGCTAACGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTATTTTATATAAATATTTG
Found at i:73614764 original size:17 final size:16
Alignment explanation
Indices: 73614738--73614772 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
73614728 AAGGCAAAAG
73614738 AAAAAAAAATTAAATA
1 AAAAAAAAATTAAATA
*
73614754 AAAATAAAAATTGAATA
1 AAAA-AAAAATTAAATA
73614771 AA
1 AA
73614773 TCTGTTTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AAAAAAAAATTAAATA
Found at i:73614934 original size:86 final size:87
Alignment explanation
Indices: 73614760--73614944 Score: 232
Period size: 86 Copynumber: 2.1 Consensus size: 87
73614750 AATAAAAATA
* * * * * *
73614760 AAAATTGAAT-AAATCTGTTTCGGGATTTATTTCCGCCGTTCAACAAATTTTATTCTATTTTTTT
1 AAAATTAAATAAAATCTGTTTCGAGATTTATTTCCGCCATTCAACAAATTTTATTCTAATATTTG
* *
73614824 ATTTTGTTTCCAAACAATTATT
66 ACTTTGTTTCCAAACAAGTATT
* * *
73614846 AAAATTAAATAAAATCTGTTTCGAGATTTA-TTCTCGCCATTTAATAGATTTTATT-TAATATTT
1 AAAATTAAATAAAATCTGTTTCGAGATTTATTTC-CGCCATTCAACAAATTTTATTCTAATATTT
*
73614909 GACTTTGTTTCCAAACGAGTATT
65 GACTTTGTTTCCAAACAAGTATT
73614932 AAAATTAAATAAA
1 AAAATTAAATAAA
73614945 TTCATTTTAT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
86 50 0.59
87 35 0.41
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (87 bp):
AAAATTAAATAAAATCTGTTTCGAGATTTATTTCCGCCATTCAACAAATTTTATTCTAATATTTG
ACTTTGTTTCCAAACAAGTATT
Found at i:73614953 original size:55 final size:55
Alignment explanation
Indices: 73614893--73614999 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 55
73614883 CATTTAATAG
*
73614893 ATTTTATTTAATATTTGACTTTGTTTCCAAACGAGTATTAAAATTAAATAAATTC
1 ATTTTATTCAATATTTGACTTTGTTTCCAAACGAGTATTAAAATTAAATAAATTC
* * * *
73614948 ATTTTATTCCATTTTTTATTTTGTTTCCAAACGAGTATTAAAATTAAATAAA
1 ATTTTATTCAATATTTGACTTTGTTTCCAAACGAGTATTAAAATTAAATAAA
73615000 ATCTGTTTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (55 bp):
ATTTTATTCAATATTTGACTTTGTTTCCAAACGAGTATTAAAATTAAATAAATTC
Done.