Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 51
Found at i:8626778 original size:111 final size:111
Alignment explanation
Indices: 8626643--8626850 Score: 301
Period size: 111 Copynumber: 1.9 Consensus size: 111
8626633 GGTGCCACTA
*
8626643 ATGAAAGTTAAAGATCGATTTTGTTAAATGCATAAC-GTTGCATTATAGGCATAAAAGGTGCCAC
1 ATGAAAGTTAAAGATCGATATTGTTAAATGCATAACAG-TGCATTATAGGCATAAAAGGTGCCAC
*
8626707 TCATGGTATTCATAAAAGGTGAATTACCATTTCAACTTACTTCGTGT
65 TCATGGTATTCATAAAAGGTGAATGACCATTTCAACTTACTTCGTGT
** * * ** * * *
8626754 ATGAAAGTTATCGATCGATATTGTTTAATGTATAACAGTGTTTTTTTGGCATAAAAGGTGTCACT
1 ATGAAAGTTAAAGATCGATATTGTTAAATGCATAACAGTGCATTATAGGCATAAAAGGTGCCACT
8626819 CATGGTATTCATAAAAGGTGAATGACCATTTC
66 CATGGTATTCATAAAAGGTGAATGACCATTTC
8626851 GGTACTTCGG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
111 84 0.99
112 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (111 bp):
ATGAAAGTTAAAGATCGATATTGTTAAATGCATAACAGTGCATTATAGGCATAAAAGGTGCCACT
CATGGTATTCATAAAAGGTGAATGACCATTTCAACTTACTTCGTGT
Found at i:8630426 original size:13 final size:14
Alignment explanation
Indices: 8630408--8630438 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
8630398 TTTTATGATT
8630408 TATTATTTTT-TAA
1 TATTATTTTTATAA
8630421 TATTATTTTTATAA
1 TATTATTTTTATAA
8630435 TATT
1 TATT
8630439 TGTTGTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATTTTTATAA
Found at i:8632228 original size:14 final size:14
Alignment explanation
Indices: 8632211--8632253 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
8632201 ATTATAAAAT
* *
8632211 TATAAATATATATA
1 TATAAATAAATAAA
8632225 TATAAATAAATAAA
1 TATAAATAAATAAA
*
8632239 TAAAAATAAAATAAA
1 TATAAAT-AAATAAA
8632254 AGTTAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TATAAATAAATAAA
Found at i:8633430 original size:16 final size:16
Alignment explanation
Indices: 8633368--8633445 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
8633358 TTTTAACAAC
* *
8633368 AATAACTTAATCTAAA
1 AATAATTTAAACTAAA
*
8633384 AATTAATTTAAA-TAAG
1 AA-TAATTTAAACTAAA
*
8633400 AATAATTTAATCTAAA
1 AATAATTTAAACTAAA
*
8633416 AATAATATAAACTAACTA
1 AATAATTTAAACTAA--A
*
8633434 ACTAATTTAAAC
1 AATAATTTAAAC
8633446 AACAACAACA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
15 8 0.16
16 23 0.47
17 7 0.14
18 11 0.22
ACGTcount: A:0.56, C:0.09, G:0.01, T:0.33
Consensus pattern (16 bp):
AATAATTTAAACTAAA
Found at i:8634761 original size:16 final size:16
Alignment explanation
Indices: 8634740--8634862 Score: 81
Period size: 16 Copynumber: 7.8 Consensus size: 16
8634730 TTTTAGTTGG
*
8634740 ACCGAAATCAACCCGA
1 ACCGAAAGCAACCCGA
** * *
8634756 ACCGAAATTAATCCAA
1 ACCGAAAGCAACCCGA
8634772 ACCGAAAGCAACCCGA
1 ACCGAAAGCAACCCGA
** * *
8634788 ACAAAAAACAACTCGA
1 ACCGAAAGCAACCCGA
*
8634804 ACAGAAAGCAACCCGA
1 ACCGAAAGCAACCCGA
**
8634820 ATAGAAA--AACCTCGA
1 ACCGAAAGCAACC-CGA
*
8634835 ACC-AAAGTAACCCGA
1 ACCGAAAGCAACCCGA
* *
8634850 ACTGAAAGAAACC
1 ACCGAAAGCAACC
8634863 AGAATTTAGT
Statistics
Matches: 84, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
14 7 0.08
15 9 0.11
16 68 0.81
ACGTcount: A:0.50, C:0.29, G:0.13, T:0.07
Consensus pattern (16 bp):
ACCGAAAGCAACCCGA
Found at i:8634811 original size:32 final size:30
Alignment explanation
Indices: 8634774--8634856 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 30
8634764 TAATCCAAAC
8634774 CGAAAGCAACCCGAACA-AAAAACAACTCGAA
1 CGAAAGCAACCCGAACAGAAAAAC--CTCGAA
*
8634805 CAGAAAGCAACCCGAATAGAAAAACCTCGAA
1 C-GAAAGCAACCCGAACAGAAAAACCTCGAA
* * *
8634836 CCAAAGTAACCCGAACTGAAA
1 CGAAAGCAACCCGAACAGAAA
8634857 GAAACCAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
30 16 0.36
31 8 0.18
32 15 0.33
33 6 0.13
ACGTcount: A:0.52, C:0.28, G:0.14, T:0.06
Consensus pattern (30 bp):
CGAAAGCAACCCGAACAGAAAAACCTCGAA
Found at i:8635572 original size:16 final size:16
Alignment explanation
Indices: 8635553--8635585 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8635543 AATCAATTCC
8635553 AAACCGAACTAAATCT
1 AAACCGAACTAAATCT
8635569 AAACCGAACTAAATCT
1 AAACCGAACTAAATCT
8635585 A
1 A
8635586 GACCCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.06, T:0.18
Consensus pattern (16 bp):
AAACCGAACTAAATCT
Found at i:8636652 original size:19 final size:19
Alignment explanation
Indices: 8636625--8636665 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
8636615 ATTCAGAACT
8636625 TCTAAAAAGAATAATATCC
1 TCTAAAAAGAATAATATCC
*
8636644 TCTAGAAAGAATAATATCC
1 TCTAAAAAGAATAATATCC
8636663 TCT
1 TCT
8636666 TTAACATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (19 bp):
TCTAAAAAGAATAATATCC
Found at i:8638550 original size:19 final size:16
Alignment explanation
Indices: 8638510--8638540 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8638500 AAAATTGTTC
8638510 AAAAAATAATATTTTT
1 AAAAAATAATATTTTT
8638526 AAAAAATAATATTTT
1 AAAAAATAATATTTT
8638541 CTTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAAAATAATATTTTT
Found at i:8640920 original size:20 final size:20
Alignment explanation
Indices: 8640892--8640934 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
8640882 TTCTCTCTTG
*
8640892 AAAGAAAAATTG-GATTTTGA
1 AAAGAAAAA-TGAAATTTTGA
*
8640912 AAAGCAAAATGAAATTTTGA
1 AAAGAAAAATGAAATTTTGA
8640932 AAA
1 AAA
8640935 ATGATTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.56, C:0.02, G:0.16, T:0.26
Consensus pattern (20 bp):
AAAGAAAAATGAAATTTTGA
Found at i:8645176 original size:20 final size:20
Alignment explanation
Indices: 8645151--8645202 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
8645141 GACCAACAAA
8645151 TTCGCAACGCGAACTCCAAT
1 TTCGCAACGCGAACTCCAAT
**
8645171 TTCGCAAC-C-AGTTTCCAAT
1 TTCGCAACGCGA-ACTCCAAT
8645190 TTCGCAACGCGAA
1 TTCGCAACGCGAA
8645203 TATGTAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 1 0.04
19 15 0.58
20 9 0.35
21 1 0.04
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (20 bp):
TTCGCAACGCGAACTCCAAT
Found at i:8645234 original size:20 final size:20
Alignment explanation
Indices: 8645190--8645298 Score: 98
Period size: 20 Copynumber: 5.5 Consensus size: 20
8645180 AGTTTCCAAT
*
8645190 TTCGCAACGCGAATATGT-AAA
1 TTCGCAACACGAA-A-GTCAAA
*
8645211 -TCGCAACACAAAAGTCAAA
1 TTCGCAACACGAAAGTCAAA
* *
8645230 TTCGCAACGCGATAGTCAAA
1 TTCGCAACACGAAAGTCAAA
*
8645250 TTCGCAACACGGAAATTCAAA
1 TTCGCAACAC-GAAAGTCAAA
* **
8645271 TTCGCAAC-TGAATTTCAAA
1 TTCGCAACACGAAAGTCAAA
8645290 TTCGCAACA
1 TTCGCAACA
8645299 GGTTTTAGTT
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
18 2 0.03
19 21 0.28
20 35 0.47
21 16 0.22
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (20 bp):
TTCGCAACACGAAAGTCAAA
Found at i:8645241 original size:40 final size:41
Alignment explanation
Indices: 8645190--8645278 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 41
8645180 AGTTTCCAAT
8645190 TTCGCAACGCGAATATGT-AAA-TCGCAACAC-AAAAGTCAAA
1 TTCGCAACGCG-ATA-GTCAAATTCGCAACACGAAAAGTCAAA
* *
8645230 TTCGCAACGCGATAGTCAAATTCGCAACACGGAAATTCAAA
1 TTCGCAACGCGATAGTCAAATTCGCAACACGAAAAGTCAAA
8645271 TTCGCAAC
1 TTCGCAAC
8645279 TGAATTTCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
38 2 0.05
39 6 0.14
40 20 0.45
41 16 0.36
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (41 bp):
TTCGCAACGCGATAGTCAAATTCGCAACACGAAAAGTCAAA
Found at i:8645289 original size:19 final size:19
Alignment explanation
Indices: 8645225--8645297 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
8645215 AACACAAAAG
* *
8645225 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACG-GAAAT
8645245 TCAAATTCGCAACACGGAAAT
1 TCAAATTCGC-A-ACGGAAAT
* *
8645266 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACGGAAAT
8645285 TCAAATTCGCAAC
1 TCAAATTCGCAAC
8645298 AGGTTTTAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 19 0.40
20 11 0.23
21 14 0.30
22 3 0.06
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (19 bp):
TCAAATTCGCAACGGAAAT
Found at i:8645289 original size:40 final size:40
Alignment explanation
Indices: 8645190--8645298 Score: 118
Period size: 40 Copynumber: 2.7 Consensus size: 40
8645180 AGTTTCCAAT
8645190 TTCGCAACGCGAATATGT-AAA-TCGCAACACAAAAGTCAAA
1 TTCGCAACGC-AATA-GTCAAATTCGCAACACAAAAGTCAAA
* * *
8645230 TTCGCAACGCGATAGTCAAATTCGCAACACGGAAATTCAAA
1 TTCGCAACGCAATAGTCAAATTCGCAACAC-AAAAGTCAAA
*
8645271 TTCGCAACTG-AAT-TTCAAATTCGCAACA
1 TTCGCAAC-GCAATAGTCAAATTCGCAACA
8645299 GGTTTTAGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.03
39 6 0.10
40 33 0.55
41 18 0.30
42 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (40 bp):
TTCGCAACGCAATAGTCAAATTCGCAACACAAAAGTCAAA
Found at i:8646435 original size:12 final size:12
Alignment explanation
Indices: 8646418--8646451 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8646408 ATATAACCCT
8646418 AAAGAAGAAAAA
1 AAAGAAGAAAAA
*
8646430 AAAGAAGAAGAA
1 AAAGAAGAAAAA
*
8646442 GAAGAAGAAA
1 AAAGAAGAAA
8646452 GTCCCCGAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAAAA
Found at i:8648531 original size:18 final size:18
Alignment explanation
Indices: 8648508--8648543 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8648498 AAGCAAAAGG
*
8648508 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
8648526 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
8648544 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:8649133 original size:18 final size:18
Alignment explanation
Indices: 8649112--8649148 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8649102 GTAATTGGAG
8649112 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
8649130 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
8649148 T
1 T
8649149 GTAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:8649156 original size:24 final size:23
Alignment explanation
Indices: 8649092--8649152 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
8649082 ATTTTAAATT
*
8649092 AATTTCATATGTAATTGGAGTTTG
1 AATTTCA-ATGTAATTTGAGTTTG
* *
8649116 AATTTAAATTTCAATTTGAGTTTG
1 AATTTCAATGT-AATTTGAGTTTG
8649140 AATTTCAATGTAA
1 AATTTCAATGTAA
8649153 ATTTCGGCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 5 0.16
24 26 0.84
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (23 bp):
AATTTCAATGTAATTTGAGTTTG
Found at i:8649498 original size:39 final size:39
Alignment explanation
Indices: 8649455--8649541 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
8649445 TTCGATGCTC
*
8649455 ATCAAAATCCAAAGCTCATATGGTGTCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
8649494 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
8649533 ATCAAAATC
1 ATCAAAATC
8649542 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:8649777 original size:20 final size:20
Alignment explanation
Indices: 8649754--8649792 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8649744 AATAAGCGTT
*
8649754 GCGATAGCCAAATTCGCAAC
1 GCGAAAGCCAAATTCGCAAC
*
8649774 GCGAAAGTCAAATTCGCAA
1 GCGAAAGCCAAATTCGCAA
8649793 ACCAAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (20 bp):
GCGAAAGCCAAATTCGCAAC
Found at i:8649944 original size:14 final size:14
Alignment explanation
Indices: 8649925--8649964 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
8649915 ATAATTCTTA
*
8649925 TTTACACATCAACT
1 TTTACAAATCAACT
8649939 TTTACAAATCAACT
1 TTTACAAATCAACT
8649953 TTTACAAATCAA
1 TTTACAAATCAA
8649965 TTAATCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (14 bp):
TTTACAAATCAACT
Found at i:8651409 original size:21 final size:21
Alignment explanation
Indices: 8651349--8651466 Score: 85
Period size: 21 Copynumber: 5.6 Consensus size: 21
8651339 GTGAATCGGG
** * *
8651349 CTCTTGAACGGCGGGCGGGAC
1 CTCTTGAACGATGGGAGGGGC
**
8651370 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATGGGAGGGGC
*
8651391 CTCTTGAACGATGGGAGGGGG
1 CTCTTGAACGATGGGAGGGGC
* * * *
8651412 TTCTTCG-ATGATGAGAGGGAC
1 CTCTT-GAACGATGGGAGGGGC
* * *
8651433 CTCTTGAACAATAGGAGGCGC
1 CTCTTGAACGATGGGAGGGGC
*
8651454 CTCTTGAATGATG
1 CTCTTGAACGATG
8651467 ATATGTGCAT
Statistics
Matches: 71, Mismatches: 24, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 1 0.01
21 69 0.97
22 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:8651465 original size:42 final size:42
Alignment explanation
Indices: 8651369--8651467 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
8651359 GCGGGCGGGA
* * * * *
8651369 CCTCTTGAACGATGACAGGGGCCTCTTGAACGATGGGAGGGG
1 CCTCTTGAATGATGACAGGGACCTCTTGAACAATAGGAGGCG
** *
8651411 GTTCTTCG-ATGATGAGAGGGACCTCTTGAACAATAGGAGGCG
1 CCTCTT-GAATGATGACAGGGACCTCTTGAACAATAGGAGGCG
8651453 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
8651468 TATGTGCATC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.02
42 43 0.96
43 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.23
Consensus pattern (42 bp):
CCTCTTGAATGATGACAGGGACCTCTTGAACAATAGGAGGCG
Found at i:8661680 original size:19 final size:19
Alignment explanation
Indices: 8661656--8661694 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8661646 CAACTCTGAC
8661656 CAAAGTCAACAGGTCGGGT
1 CAAAGTCAACAGGTCGGGT
*
8661675 CAAAGTCAACAGTTCGGGT
1 CAAAGTCAACAGGTCGGGT
8661694 C
1 C
8661695 GGGTCAACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (19 bp):
CAAAGTCAACAGGTCGGGT
Found at i:8661702 original size:18 final size:18
Alignment explanation
Indices: 8661660--8661716 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
8661650 TCTGACCAAA
* **
8661660 GTCAACAGGTCGGGTCAAA
1 GTCAACAGTTCGGGTC-GG
8661679 GTCAACAGTTCGGGTCGG
1 GTCAACAGTTCGGGTCGG
*
8661697 GTCAACAGTTCGGGTTGG
1 GTCAACAGTTCGGGTCGG
8661715 GT
1 GT
8661717 AGACGTGTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 19 0.56
19 15 0.44
ACGTcount: A:0.21, C:0.19, G:0.37, T:0.23
Consensus pattern (18 bp):
GTCAACAGTTCGGGTCGG
Found at i:8676771 original size:2 final size:2
Alignment explanation
Indices: 8676764--8676788 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8676754 TTGTAGCTTA
8676764 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8676789 CTAATAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8679095 original size:18 final size:18
Alignment explanation
Indices: 8679068--8679112 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
8679058 AACATTCCCA
*
8679068 GTAATTTTATTCCCGCCG
1 GTAATCTTATTCCCGCCG
*
8679086 GTAATCTTATTCCCGCCT
1 GTAATCTTATTCCCGCCG
8679104 GTAATCTTA
1 GTAATCTTA
8679113 CATTACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (18 bp):
GTAATCTTATTCCCGCCG
Found at i:8683404 original size:14 final size:14
Alignment explanation
Indices: 8683360--8683428 Score: 75
Period size: 14 Copynumber: 4.9 Consensus size: 14
8683350 AACTCAGCCC
8683360 GAGTCAACCCGTCT
1 GAGTCAACCCGTCT
* *
8683374 GATTCAACTCGGTCT
1 GAGTCAAC-CCGTCT
8683389 GAGTCAACCCGTCT
1 GAGTCAACCCGTCT
* **
8683403 GAGTTAAATCGTCT
1 GAGTCAACCCGTCT
*
8683417 TAGTCAACCCGT
1 GAGTCAACCCGT
8683429 TGCATTGATC
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
14 31 0.72
15 12 0.28
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (14 bp):
GAGTCAACCCGTCT
Found at i:8683425 original size:28 final size:29
Alignment explanation
Indices: 8683360--8683428 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
8683350 AACTCAGCCC
*
8683360 GAGTCAACCCGTCTGATTCAACTCGGTCT
1 GAGTCAACCCGTCTGATTCAAATCGGTCT
8683389 GAGTCAACCCGTCTGAGTT-AAATC-GTCT
1 GAGTCAACCCGTCTGA-TTCAAATCGGTCT
*
8683417 TAGTCAACCCGT
1 GAGTCAACCCGT
8683429 TGCATTGATC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 15 0.41
29 20 0.54
30 2 0.05
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (29 bp):
GAGTCAACCCGTCTGATTCAAATCGGTCT
Found at i:8693454 original size:46 final size:46
Alignment explanation
Indices: 8693401--8693583 Score: 235
Period size: 46 Copynumber: 4.0 Consensus size: 46
8693391 AAAACGAATC
* *
8693401 CATAACTAAAATGTATGAAAGGATGTATTAAGGCGTGAAAGGATGA
1 CATAACTAAAATGTATGAAAGGATGCATTAAGGCATGAAAGGATGA
* * * * *
8693447 CATAACTAAAATGAATTAAAGGATGCATTAAGGCATGGAATGATGT
1 CATAACTAAAATGTATGAAAGGATGCATTAAGGCATGAAAGGATGA
* *
8693493 CAGAACTAAAAT-TCATAAAAGGATGCATTAAGGCATGAAAGGAT-A
1 CATAACTAAAATGT-ATGAAAGGATGCATTAAGGCATGAAAGGATGA
* *
8693538 CCATAACTAAAATGCATGAAAGGATGCATTAATGCATGAAAGGATG
1 -CATAACTAAAATGTATGAAAGGATGCATTAAGGCATGAAAGGATG
8693584 CATTAAGGCA
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
46 116 1.00
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (46 bp):
CATAACTAAAATGTATGAAAGGATGCATTAAGGCATGAAAGGATGA
Found at i:8693580 original size:112 final size:112
Alignment explanation
Indices: 8693464--8693696 Score: 342
Period size: 112 Copynumber: 2.1 Consensus size: 112
8693454 AAAATGAATT
* * ** *
8693464 AAAGGATGCATTAAGGCATGGAATGATGTCAGAACTAAAATTCATAAAAGGATGCATTAAGGCAT
1 AAAGGATGCATTAAGGCATGAAAGGATGTCAGAACTAAAATGAATAAAAGGATGAATTAAGGCAT
8693529 GAAAGGATACCATAACTAAAATGCATGAAAGGATGCATTAATG-CATG
66 GAAAGGATACCATAACTAAAATGCATGAAAGGATGCATTAA-GACATG
* * * * *
8693576 AAAGGATGCATTAAGGCATGAAAGGATGTCATAACTGAAATGAATGAAGGGATGAATTAAGGGAT
1 AAAGGATGCATTAAGGCATGAAAGGATGTCAGAACTAAAATGAATAAAAGGATGAATTAAGGCAT
* *
8693641 GAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAAGACATG
66 GAAAGGATACCATAACTAAAATGCATGAAAGGATGCATTAAGACATG
8693688 AAAGGATGC
1 AAAGGATGC
8693697 CATAACTAAA
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
111 1 0.01
112 107 0.99
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.21
Consensus pattern (112 bp):
AAAGGATGCATTAAGGCATGAAAGGATGTCAGAACTAAAATGAATAAAAGGATGAATTAAGGCAT
GAAAGGATACCATAACTAAAATGCATGAAAGGATGCATTAAGACATG
Found at i:8693585 original size:66 final size:65
Alignment explanation
Indices: 8693510--8693784 Score: 238
Period size: 66 Copynumber: 4.1 Consensus size: 65
8693500 AAAATTCATA
8693510 AAAGGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAAAGGATGCATTAATGCAT
1 AAAGGATGCATTAAGGCATGAAAGGATA-CATAACTAAAATGCATGAAAGGATGCATTAATGCAT
8693575 G
65 G
* * * * * * *
8693576 AAAGGATGCATTAAGGCATGAAAGGATGTCATAACTGAAATGAATGAAGGGATGAATTAAGGGAT
1 AAAGGATGCATTAAGGCATGAAAGGAT-ACATAACTAAAATGCATGAAAGGATGCATTAATGCAT
8693641 G
65 G
* * * *
8693642 AAAGGATGCCATAACTAAAATGCATGAAATGATGCAT---TAAGA--CATGAAAGGATGCCATAA
1 AAAGGATG-CAT---T--AAGGCATGAAAGGATACATAACTAAAATGCATGAAAGGATG-CAT--
*
8693702 CTAAAATGCGTG
57 -T--AATGCATG
* *
8693714 AAAGGATGCATTAAGGCATGAAAGAATGACATAACTAAAATGCATGAAATGATGCATTAA-GACA
1 AAAGGATGCATTAAGGCATGAAAGGAT-ACATAACTAAAATGCATGAAAGGATGCATTAATG-CA
8693778 TG
64 TG
8693780 AAAGG
1 AAAGG
8693785 GTCCCATAAA
Statistics
Matches: 164, Mismatches: 25, Indels: 40
0.72 0.11 0.17
Matches are distributed among these distances:
65 1 0.01
66 98 0.60
67 8 0.05
68 5 0.03
70 6 0.04
71 9 0.05
72 37 0.23
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (65 bp):
AAAGGATGCATTAAGGCATGAAAGGATACATAACTAAAATGCATGAAAGGATGCATTAATGCATG
Found at i:8693623 original size:92 final size:89
Alignment explanation
Indices: 8693551--8693807 Score: 286
Period size: 92 Copynumber: 2.9 Consensus size: 89
8693541 TAACTAAAAT
* * *
8693551 GCATGAAAGGATG-CAT-T-AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAACTG
1 GCATGAAAGGATGCCATATAAATGCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTA
*
8693613 AAATGAATGAAGGGATGAATTAAG
66 AAATGAATGAAAGGATGAATTAAG
* *
8693637 GGATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAAGACATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCAT-A-T-AAATGCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAA
** *
8693702 CTAAAATGCGTGAAAGGATGCATTAAG
63 CTAAAATGAATGAAAGGATGAATTAAG
* * * * *
8693729 GCATGAAAGAATGACATAACTAAAATGCATGAAATGATGCATTAAGACATGAAAGGGTCCCATAA
1 GCATGAAAGGATGCCAT-A-T-AAATGCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAA
* * *
8693794 ATTAAATTAATGAA
63 CTAAAATGAATGAA
8693808 TAAATTACTA
Statistics
Matches: 146, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
86 12 0.08
87 3 0.02
90 1 0.01
92 130 0.89
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (89 bp):
GCATGAAAGGATGCCATATAAATGCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTA
AAATGAATGAAAGGATGAATTAAG
Found at i:8693667 original size:138 final size:135
Alignment explanation
Indices: 8693525--8693793 Score: 301
Period size: 138 Copynumber: 1.9 Consensus size: 135
8693515 ATGCATTAAG
8693525 GCATGAAAGGATACCATAACTAAAATGCATGAAAGGATG-CAT-T-AATGCATGAAAGGATGCAT
1 GCATGAAAGGAT-CCAT---TAAAA--CATGAAAGGATGCCATATAAATGCATGAAAGGATGCAT
* * * * ** *
8693587 TAAGGCATGAAAGGATGTCATAACTGAAATGAATGAAGGGATGAATTAAGGGATGAAAGGATGCC
60 TAAGGCATGAAAGAATGACATAACTAAAATGAATGAAAGGATGAATTAAGACATGAAAGGATCCC
8693652 ATAACTAAAAT
125 ATAACTAAAAT
* * * *
8693663 GCATGAAATGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCGTGAAAGGATGCATTAA
1 GCATGAAAGGATCCATTAAAACATGAAAGGATGCCAT-A-T-AAATGCATGAAAGGATGCATTAA
* * * *
8693728 GGCATGAAAGAATGACATAACTAAAATGCATGAAATGATGCATTAAGACATGAAAGGGTCCCATA
63 GGCATGAAAGAATGACATAACTAAAATGAATGAAAGGATGAATTAAGACATGAAAGGATCCCATA
8693793 A
128 A
8693794 ATTAAATTAA
Statistics
Matches: 110, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
132 12 0.11
133 3 0.03
134 4 0.04
136 1 0.01
137 3 0.03
138 87 0.79
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (135 bp):
GCATGAAAGGATCCATTAAAACATGAAAGGATGCCATATAAATGCATGAAAGGATGCATTAAGGC
ATGAAAGAATGACATAACTAAAATGAATGAAAGGATGAATTAAGACATGAAAGGATCCCATAACT
AAAAT
Found at i:8693703 original size:158 final size:158
Alignment explanation
Indices: 8693410--8693737 Score: 476
Period size: 158 Copynumber: 2.1 Consensus size: 158
8693400 CCATAACTAA
* * * * *
8693410 AATGTATGAAAGGATGTATTAAGGCGTGAAAGGATGACATAACTAAAATGAATTAAAGGATGCAT
1 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGACATAACTAAAATGAATGAAAGGATGAAT
* * * * *
8693475 TAAGGCATGGAATGATGTCAGAACTAAAATTCATAAAAGGATGCATTAAGGCATGAAAGGATACC
66 TAAGGCATGAAAGGATGCCAGAACTAAAATGCATAAAAGGATGCATTAAGACATGAAAGGATACC
8693540 ATAACTAAAATGCATGAAAGGATGCATT
131 ATAACTAAAATGCATGAAAGGATGCATT
* * *
8693568 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAACTGAAATGAATGAAGGGATGAAT
1 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGACATAACTAAAATGAATGAAAGGATGAAT
* * * * *
8693633 TAAGGGATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAAGACATGAAAGGATGCC
66 TAAGGCATGAAAGGATGCCAGAACTAAAATGCATAAAAGGATGCATTAAGACATGAAAGGATACC
*
8693698 ATAACTAAAATGCGTGAAAGGATGCATT
131 ATAACTAAAATGCATGAAAGGATGCATT
*
8693726 AAGGCATGAAAG
1 AATGCATGAAAG
8693738 AATGACATAA
Statistics
Matches: 150, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
158 150 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (158 bp):
AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGACATAACTAAAATGAATGAAAGGATGAAT
TAAGGCATGAAAGGATGCCAGAACTAAAATGCATAAAAGGATGCATTAAGACATGAAAGGATACC
ATAACTAAAATGCATGAAAGGATGCATT
Found at i:8693807 original size:46 final size:46
Alignment explanation
Indices: 8693568--8693793 Score: 317
Period size: 46 Copynumber: 4.9 Consensus size: 46
8693558 AGGATGCATT
* *
8693568 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAACTGA
1 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAA
* * * *
8693614 AATGAATGAAGGGATGAATTAAGGGATGAAAGGATGCCATAACTAA
1 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAA
* *
8693660 AATGCATGAAATGATGCATTAAGACATGAAAGGATGCCATAACTAA
1 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAA
* * *
8693706 AATGCGTGAAAGGATGCATTAAGGCATGAAAGAATGACATAACTAA
1 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAA
* * * *
8693752 AATGCATGAAATGATGCATTAAGACATGAAAGGGTCCCATAA
1 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
8693794 ATTAAATTAA
Statistics
Matches: 156, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.44, C:0.11, G:0.24, T:0.21
Consensus pattern (46 bp):
AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAA
Found at i:8700499 original size:137 final size:138
Alignment explanation
Indices: 8700325--8700680 Score: 563
Period size: 137 Copynumber: 2.6 Consensus size: 138
8700315 TGCATTAAGG
* *
8700325 CATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAACTAAAATGCATGAAAGGATGCATTAAG
1 CATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
* * * *
8700390 GCATGAAATGATGCCATAACTAACATGCATGAAGGGGTGCATTAAGGCATGAAAGGATACCAT-A
66 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATACC-TCA
8700454 ACTAAAATA
130 ACTAAAATA
*
8700463 CAT-AAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAAG
1 CATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
* *
8700527 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGTTGCCTCAA
66 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATACCTCAA
*
8700592 CTAAAATG
131 CTAAAATA
* * *
8700600 CATGAAATGATGCATTAAGGTATGACAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
1 CATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
*
8700665 ACATGAAAGGATGCCA
66 GCATGAAAGGATGCCA
8700681 AAAATGAAAT
Statistics
Matches: 201, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
136 1 0.00
137 125 0.62
138 75 0.37
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (138 bp):
CATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATACCTCAA
CTAAAATA
Found at i:8700638 original size:183 final size:184
Alignment explanation
Indices: 8700324--8700680 Score: 565
Period size: 183 Copynumber: 1.9 Consensus size: 184
8700314 ATGCATTAAG
*
8700324 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAACTAAAATGCATGAAAGGATGCATTAA
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAA
* * * *
8700389 GGCATGAAATGATGCCATAACTAACATGCATGAAGGGGTGCATTAAGGCATGAAAGGATACCATA
66 GGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATACCATA
*
8700454 ACTAAAATACAT-AAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
131 ACTAAAATACATGAAAAGATGCATTAAGACATGAAAGGATGCCATAACTAAAAT
*
8700507 GCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAA
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAA
* * * * *
8700572 GGCATGAAAGGTTGCC-TCAACTAAAATGCATGAAATGATGCATTAAGGTATGACAGGATGCCAT
66 GGCATGAAAGGATGCCAT-AACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATACCAT
* *
8700636 AACTAAAATGCATGAAAGGATGCATTAAGACATGAAAGGATGCCA
130 AACTAAAATACATGAAAAGATGCATTAAGACATGAAAGGATGCCA
8700681 AAAATGAAAT
Statistics
Matches: 158, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
182 1 0.01
183 128 0.81
184 29 0.18
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (184 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAA
GGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATACCATA
ACTAAAATACATGAAAAGATGCATTAAGACATGAAAGGATGCCATAACTAAAAT
Found at i:8700658 original size:26 final size:26
Alignment explanation
Indices: 8700481--8700658 Score: 142
Period size: 26 Copynumber: 7.5 Consensus size: 26
8700471 ATGCATTAAG
8700481 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
* *
8700507 GCATGAAATGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
8700527 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
*
8700553 GCATGAAAGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
*
8700573 GCATGAAAGGTTGCC-TCAACTAAAAT
1 GCATGAAAGGATGCCAT-AACTAAAAT
* *
8700599 GCATGAAATGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
* *
8700619 GTATGACAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
8700645 GCATGAAAGGATGC
1 GCATGAAAGGATGC
8700659 ATTAAGACAT
Statistics
Matches: 116, Mismatches: 16, Indels: 40
0.67 0.09 0.23
Matches are distributed among these distances:
20 41 0.35
21 7 0.06
22 3 0.03
24 3 0.03
25 7 0.06
26 55 0.47
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAACTAAAAT
Found at i:8700697 original size:46 final size:46
Alignment explanation
Indices: 8700324--8700680 Score: 565
Period size: 46 Copynumber: 7.8 Consensus size: 46
8700314 ATGCATTAAG
*
8700324 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* *
8700370 GCATGAAAGGATGCATTAAGGCATGAAATGATGCCATAACTAACAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* * *
8700416 GCATGAAGGGGTGCATTAAGGCATGAAAGGATACCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* *
8700462 ACAT-AAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
*
8700507 GCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
*
8700553 GCATGAAAGGATGCATTAAGGCATGAAAGGTTGCC-TCAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT-AACTAAAAT
* * *
8700599 GCATGAAATGATGCATTAAGGTATGACAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
*
8700645 GCATGAAAGGATGCATTAAGACATGAAAGGATGCCA
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCA
8700681 AAAATGAAAT
Statistics
Matches: 283, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 41 0.14
46 241 0.85
47 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (46 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
Found at i:8701020 original size:18 final size:18
Alignment explanation
Indices: 8700997--8701036 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
8700987 AGCGGTGATT
8700997 ATCAATTAAGGTTGACTA
1 ATCAATTAAGGTTGACTA
* *
8701015 ATCAATTGAGGTTGACTC
1 ATCAATTAAGGTTGACTA
8701033 ATCA
1 ATCA
8701037 GTGATAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (18 bp):
ATCAATTAAGGTTGACTA
Found at i:8705462 original size:15 final size:15
Alignment explanation
Indices: 8705442--8705482 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
8705432 CATGTTGAAC
8705442 GAAGATGAAGAAGGT
1 GAAGATGAAGAAGGT
*
8705457 GAAGATGAAGAATGT
1 GAAGATGAAGAAGGT
8705472 GAAGA-GAAGAA
1 GAAGATGAAGAA
8705483 AAACAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.51, C:0.00, G:0.37, T:0.12
Consensus pattern (15 bp):
GAAGATGAAGAAGGT
Found at i:8710765 original size:19 final size:18
Alignment explanation
Indices: 8710738--8710776 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
8710728 ACAACAAAAT
* *
8710738 AAGTTGGTTGCTATCTGAA
1 AAGTAGGTTGCGATCT-AA
8710757 AAGTAGGTTGCGATCTAA
1 AAGTAGGTTGCGATCTAA
8710775 AA
1 AA
8710777 TGTTATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (18 bp):
AAGTAGGTTGCGATCTAA
Found at i:8714459 original size:17 final size:17
Alignment explanation
Indices: 8714437--8714469 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8714427 ATTCCATTAC
8714437 GTTTTTCCTTTATTTTT
1 GTTTTTCCTTTATTTTT
8714454 GTTTTTCCTTTATTTT
1 GTTTTTCCTTTATTTT
8714470 ATTTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (17 bp):
GTTTTTCCTTTATTTTT
Found at i:8714470 original size:5 final size:5
Alignment explanation
Indices: 8714462--8714529 Score: 70
Period size: 5 Copynumber: 14.0 Consensus size: 5
8714452 TTGTTTTTCC
* * * *
8714462 TTTAT TTTAT TTTGT TTTA- TTTA- TTTAT TATAT CTTGT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
8714510 CTTTAT TTTA- TTTAT TTTAT
1 -TTTAT TTTAT TTTAT TTTAT
8714530 CTTTTTCATT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
4 12 0.23
5 35 0.67
6 5 0.10
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:8714499 original size:23 final size:23
Alignment explanation
Indices: 8714462--8714506 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8714452 TTGTTTTTCC
* *
8714462 TTTATTTTATTTTGTTTTATTTA
1 TTTATTATATCTTGTTTTATTTA
8714485 TTTATTATATCTTGTTTTATTT
1 TTTATTATATCTTGTTTTATTT
8714507 TATCTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (23 bp):
TTTATTATATCTTGTTTTATTTA
Found at i:8714516 original size:11 final size:11
Alignment explanation
Indices: 8714500--8714533 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
8714490 TATATCTTGT
8714500 TTTATTTTATC
1 TTTATTTTATC
8714511 TTTATTTTA--
1 TTTATTTTATC
8714520 TTTATTTTATC
1 TTTATTTTATC
8714531 TTT
1 TTT
8714534 TTCATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTTATC
Found at i:8716573 original size:183 final size:185
Alignment explanation
Indices: 8716238--8716607 Score: 710
Period size: 183 Copynumber: 2.0 Consensus size: 185
8716228 AGATGAAAAA
8716238 TGGGTAACTGACCGGGCTCGACACAAGGGTAACGGAGAAGGAATTTCTTGGATTCATATCAAGCA
1 TGGGTAACTGACCGGGCTCGACACAAGGGTAACGGAGAAGGAATTTCTTGGATTCATATCAAGCA
8716303 ACTAATGAATAACTATCCCGATGAATGGAAGGCAATAGATCTTTTTACGTTGGGTCTTTATGGTT
66 ACTAATGAATAACTATCCCGATGAATGGAAGGCAATAGATCTTTTTACGTTGGGTCTTTATGGTT
8716368 TGGTTATATTCCCTATGACTTTGGAGTACATTGATGTAGCTGTGGT-GAACTATT
131 TGGTTATATTCCCTATGACTTTGGAGTACATTGATGTAGCTGTGGTGGAACTATT
8716422 TGGGTAACTGACCGGGCTCGACACAAGGGTAACGGAGAAGGAATTTCTTGGA-TCATATCAAGCA
1 TGGGTAACTGACCGGGCTCGACACAAGGGTAACGGAGAAGGAATTTCTTGGATTCATATCAAGCA
8716486 ACTAATGAATAACTATCCCGATGAATGGAAGGCAA-AGATCTTTTTACGTTGGGTCTTTATGGTT
66 ACTAATGAATAACTATCCCGATGAATGGAAGGCAATAGATCTTTTTACGTTGGGTCTTTATGGTT
8716550 TGGTTATATTCCCTATGGACTTTGGAGTACATTGATGTAGCTGTGGTGGAACTATT
131 TGGTTATATTCCCTAT-GACTTTGGAGTACATTGATGTAGCTGTGGTGGAACTATT
8716606 TG
1 TG
8716608 AACAACTCCC
Statistics
Matches: 184, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
182 45 0.24
183 77 0.42
184 62 0.34
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (185 bp):
TGGGTAACTGACCGGGCTCGACACAAGGGTAACGGAGAAGGAATTTCTTGGATTCATATCAAGCA
ACTAATGAATAACTATCCCGATGAATGGAAGGCAATAGATCTTTTTACGTTGGGTCTTTATGGTT
TGGTTATATTCCCTATGACTTTGGAGTACATTGATGTAGCTGTGGTGGAACTATT
Found at i:8717531 original size:168 final size:167
Alignment explanation
Indices: 8717241--8717576 Score: 613
Period size: 168 Copynumber: 2.0 Consensus size: 167
8717231 AGAGGGTAAG
8717241 GGAATTGAGGTTAAAAGATACCAGTGGAAATTAGATGATGATACTCAGAAGGACCAGGCAGACAA
1 GGAATTGAGGTTAAAAGATACCAGTGGAAATTAGATGATGA-ACTCAGAAGGACCAGGCAGACAA
8717306 GTTAGAGAAGAAACAAAGAAAATTTGTTGTAAGCTTGAAGACTTGAGAAAAAATATCGAGAACA-
65 GTTAGAGAAGAAACAAAGAAAATTTGTTGTAAGCTTGAAGACTTGAGAAAAAATATCGAGAACAC
8717370 GTCCAGAGTAATTCCAACATGAAAAGGTCTTCTGAGTA
130 GTCCAGAGTAATTCCAACATGAAAAGGTCTTCTGAGTA
*
8717408 GGAATTTGAGGTTAAAAGATACCAGTGGAAATTAGATGATG-ACTCAGAAGGATCAGGCAGACAA
1 GGAA-TTGAGGTTAAAAGATACCAGTGGAAATTAGATGATGAACTCAGAAGGACCAGGCAGACAA
8717472 GTTAGAGAAGAAACAAAAGAAAATTTGTTGTAAGCTTGAAGACTTGAGAAAAGAATATCGAGAAC
65 GTTAGAGAAGAAAC-AAAGAAAATTTGTTGTAAGCTTGAAGACTTGAGAAAA-AATATCGAGAAC
8717537 ACGTCCAGAGTAATTCCAACATGAAAAGGTCTTCTGAGTA
128 ACGTCCAGAGTAATTCCAACATGAAAAGGTCTTCTGAGTA
8717577 CTGGAAAGGT
Statistics
Matches: 164, Mismatches: 1, Indels: 6
0.96 0.01 0.04
Matches are distributed among these distances:
166 36 0.22
167 41 0.25
168 49 0.30
169 38 0.23
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (167 bp):
GGAATTGAGGTTAAAAGATACCAGTGGAAATTAGATGATGAACTCAGAAGGACCAGGCAGACAAG
TTAGAGAAGAAACAAAGAAAATTTGTTGTAAGCTTGAAGACTTGAGAAAAAATATCGAGAACACG
TCCAGAGTAATTCCAACATGAAAAGGTCTTCTGAGTA
Found at i:8725427 original size:66 final size:66
Alignment explanation
Indices: 8725332--8725458 Score: 159
Period size: 66 Copynumber: 1.9 Consensus size: 66
8725322 AATACTTCGC
* * * * * *
8725332 TTAGGATGGAAACCCGAGAGGGTGTCCTAAGTTG-AAAAGGAAAAAGAAAAA-AAAGAGAAAAAA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAG-AAAAGAAAAAGAAA-AGAAAAAA
8725395 TAT
64 TAT
*
8725398 TTAGGGTGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAGAAAAGAAAAAGAAAAGAAAA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAGAAAAGAAAAAGAAAAGAAAA
8725459 TAAGGTGGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 44 0.85
67 8 0.15
ACGTcount: A:0.54, C:0.09, G:0.24, T:0.13
Consensus pattern (66 bp):
TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAGAAAAGAAAAAGAAAAGAAAAAATA
T
Found at i:8725449 original size:11 final size:11
Alignment explanation
Indices: 8725433--8725458 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8725423 CCTAAATTGA
8725433 AAAAAGAAAAG
1 AAAAAGAAAAG
8725444 AAAAAGAAAAG
1 AAAAAGAAAAG
8725455 AAAA
1 AAAA
8725459 TAAGGTGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:8728565 original size:4 final size:4
Alignment explanation
Indices: 8728556--8728582 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8728546 TTCGTTTTGT
8728556 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
8728583 TATCTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:8737872 original size:3 final size:3
Alignment explanation
Indices: 8737852--8737904 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
8737842 GAACGAAAAC
* * * *
8737852 AAT AAT AAA AAT AA- AAT AAT AAC GAT AAT AAT AAT AGT AAT AACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
8737897 AAT AAT AA
1 AAT AAT AA
8737905 CTCGGACAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:8737990 original size:4 final size:4
Alignment explanation
Indices: 8737981--8738045 Score: 53
Period size: 4 Copynumber: 16.5 Consensus size: 4
8737971 ATATATGATT
* * * * *
8737981 TACA TACA TACA TGCA TACA TATAA TGCA TGCA T-CA TACA TACA TGCA
1 TACA TACA TACA TACA TACA TA-CA TACA TACA TACA TACA TACA TACA
*
8738029 TATA TA-A TACA TACA TA
1 TACA TACA TACA TACA TA
8738046 TATTAGACAT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
3 6 0.12
4 42 0.84
5 2 0.04
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (4 bp):
TACA
Found at i:8738038 original size:15 final size:16
Alignment explanation
Indices: 8737988--8738040 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
8737978 ATTTACATAC
8737988 ATACATGCATACATATA
1 ATACATGCAT-CATATA
* *
8738005 ATGCATGCATCATA-C
1 ATACATGCATCATATA
8738020 ATACATGCAT-ATATA
1 ATACATGCATCATATA
8738035 ATACAT
1 ATACAT
8738041 ACATATATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 3 0.10
15 15 0.48
16 4 0.13
17 9 0.29
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (16 bp):
ATACATGCATCATATA
Found at i:8738787 original size:287 final size:286
Alignment explanation
Indices: 8738177--8738922 Score: 878
Period size: 287 Copynumber: 2.6 Consensus size: 286
8738167 ACTAAGATGT
* * * * *
8738177 TAAATTTTTGTTCACCAACTTTTAAAAT-GAGTACAATTTAGTCCAATTTGATATTAATTTAAGT
1 TAAACTTTTGTTCACCAACTTTTTAAATGGA-TGCAATTTAGTCCATTTTTATATTAATTTAAGT
* ** * *
8738241 TTCACATTTTATAATTATTTCAATTTGATCCATGTGTTTTATTTATATTATTTAAATTTTAGTTT
65 TTCACATTTTACAATTATTTCAATTTGATCCACATGTTGT-TTAAT-TTATTTAAATTTTAGTTT
* * * * * * *
8738306 TTAATTTCATGTTTGTTCGATTTAATTCTTAAAATTATA-TTATTTATTTGAAGCTTACCCATAC
128 GTAATTTCATGTTTGTTCAATTT-ATTCTTAAAATTATATTTTTTTATCTGAAGATTACACATAA
* * * **
8738370 TTATTTATATTTTTGTAATTTACTCCAAACTATATAAATCACATCACGAACTTTATTTCATAACC
192 TTATTTATATTTTTGTAATTTACACCAAACCATATAAATCACATCACAAACTGCATTTCATAACC
* *
8738435 TATAAAGTATATCATAATCTCTAAACTCTA
257 TATAAAGTATATCATAAACTCCAAACTCTA
* * * *
8738465 TAAACTTTTATTTACCAACTTTTTAAATGGATGCAATTTAGTCCATTTTTATTTTAATTTCAGTT
1 TAAACTTTTGTTCACCAACTTTTTAAATGGATGCAATTTAGTCCATTTTTATATTAATTTAAGTT
** ** *
8738530 TCGTATTTTACAATTATTTTGATTTGATCACCACATGTTGTTTAATTTATTTAAATTTCAGTTTG
66 TCACATTTTACAATTATTTCAATTTGAT--CCACATGTTGTTTAATTTATTTAAATTTTAGTTTG
** *
8738595 TAATTTCACATTTGTCCAATTTATTCTTTAAAATTATATTTTTTTATCTGAA-ATTAGCACATAA
129 TAATTTCATGTTTGTTCAATTTATTC-TTAAAATTATATTTTTTTATCTGAAGATTA-CACATAA
* * * * *
8738659 TTATTTTTATTTTT-T-ATTTACACTAAACCCTATAAATCACATCATAAACTGCATTTTA-AATC
192 TTATTTATATTTTTGTAATTTACACCAAACCATATAAATCACATCACAAACTGCATTTCATAA-C
* *
8738721 CTATAAATTATATCATAAACTCCAAATTCTA
256 CTATAAAGTATATCATAAACTCCAAACTCTA
* * **
8738752 TAAACTTTTGTTCACCAACTTTTTAAATGGATGCAATTTAGTCCATTTTTATATTGATTTTAGCA
1 TAAACTTTTGTTCACCAACTTTTTAAATGGATGCAATTTAGTCCATTTTTATATTAATTTAAGTT
*
8738817 TCACATTTTACAATTATTTCAATTTG-TCCATGCATGTTGTTTAATTTATCTAAATTTTAGTTTG
66 TCACATTTTACAATTATTTCAATTTGATCCA--CATGTTGTTTAATTTATTTAAATTTTAGTTTG
**
8738881 TAATTTCATGTTTGTTCAATTTAGGCCTT-AAATTATATTTTT
129 TAATTTCATGTTTGTTCAATTTA-TTCTTAAAATTATATTTTT
8738923 ATCGAAATTG
Statistics
Matches: 387, Mismatches: 61, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
284 3 0.01
285 13 0.03
286 55 0.14
287 147 0.38
288 126 0.33
289 35 0.09
290 8 0.02
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (286 bp):
TAAACTTTTGTTCACCAACTTTTTAAATGGATGCAATTTAGTCCATTTTTATATTAATTTAAGTT
TCACATTTTACAATTATTTCAATTTGATCCACATGTTGTTTAATTTATTTAAATTTTAGTTTGTA
ATTTCATGTTTGTTCAATTTATTCTTAAAATTATATTTTTTTATCTGAAGATTACACATAATTAT
TTATATTTTTGTAATTTACACCAAACCATATAAATCACATCACAAACTGCATTTCATAACCTATA
AAGTATATCATAAACTCCAAACTCTA
Found at i:8739774 original size:113 final size:114
Alignment explanation
Indices: 8739571--8739803 Score: 425
Period size: 113 Copynumber: 2.0 Consensus size: 114
8739561 ATCATACTAG
*
8739571 TATTGCATGAGATATAAGAGGGTTTAACAAGTGTAGGTGTATACTTGATGATAGGACCTCTTCTT
1 TATTACATGAGATATAAGAGGGTTTAACAAGTGTAGGTGTATACTTGATGATAGGACCTCTTCTT
8739636 TCGCCAGGAAAATGGTGTTGGAGACCGATATTCAT-CA-CCATGTCTCAA
66 TCGCCAGGAAAATGGTGTTGGAGACCGATATT-ATACACCCATGTCTCAA
8739684 TATTACATGAGATATAAGAGGGTTTAACAAGTGTAGGTGTATACTTGATGATAGGACCTCTTCTT
1 TATTACATGAGATATAAGAGGGTTTAACAAGTGTAGGTGTATACTTGATGATAGGACCTCTTCTT
8739749 TCGCCAGGAAAATGGTGTTGGAGACCGATATTATCACACCCATGTCTCAA
66 TCGCCAGGAAAATGGTGTTGGAGACCGATATTAT-ACACCCATGTCTCAA
8739799 TATTA
1 TATTA
8739804 TATCATTTAT
Statistics
Matches: 116, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
112 2 0.02
113 96 0.83
114 2 0.02
115 16 0.14
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (114 bp):
TATTACATGAGATATAAGAGGGTTTAACAAGTGTAGGTGTATACTTGATGATAGGACCTCTTCTT
TCGCCAGGAAAATGGTGTTGGAGACCGATATTATACACCCATGTCTCAA
Found at i:8742905 original size:50 final size:48
Alignment explanation
Indices: 8742792--8742895 Score: 147
Period size: 50 Copynumber: 2.1 Consensus size: 48
8742782 TTTATCCTAT
*
8742792 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
1 TTTAATATGTATTTATTTTAAAATTGATTATTGGGATA--TTGTTTTGTA
* *
8742842 TTTAGTATGTATTTATTTTAATATTGATTATTGGGATA-TGTTTTGTA
1 TTTAATATGTATTTATTTTAAAATTGATTATTGGGATATTGTTTTGTA
*
8742889 TTCAATA
1 TTTAATA
8742896 ATTTTTATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
47 14 0.27
50 37 0.73
ACGTcount: A:0.27, C:0.02, G:0.15, T:0.56
Consensus pattern (48 bp):
TTTAATATGTATTTATTTTAAAATTGATTATTGGGATATTGTTTTGTA
Found at i:8747569 original size:105 final size:105
Alignment explanation
Indices: 8747389--8747680 Score: 424
Period size: 105 Copynumber: 2.7 Consensus size: 105
8747379 AGCTAAGGTT
* * * *
8747389 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTTGTTGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTACGAAC--CTTCTCC--TT-TAGGACGAGTTCTTCTCATTATGAACT
8747454 CTTATGGAAATGTTGATTCACCTCCTTCTGGGGTGAATTTGAAAG
61 CTTATGGAAATGTTGATTCACCTCCTTCTGGGGTGAATTTGAAAG
* * * *
8747499 GAGA-AAGTTCTTCTCATTACGAACTTTCTTCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
1 GA-ACAAGCTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTA
*
8747563 TGGAAATGTTGATTCACCTCCTTCTGGGTTGAATTTGAAAG
65 TGGAAATGTTGATTCACCTCCTTCTGGGGTGAATTTGAAAG
* *
8747604 TAACAGGCTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTAT
1 GAACAAGCTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTAT
8747669 GGAAATGTTGAT
66 GGAAATGTTGAT
8747681 CGGTTTATCC
Statistics
Matches: 167, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
104 1 0.01
105 137 0.82
106 2 0.01
108 5 0.03
110 21 0.13
111 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (105 bp):
GAACAAGCTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTAT
GGAAATGTTGATTCACCTCCTTCTGGGGTGAATTTGAAAG
Found at i:8748642 original size:20 final size:20
Alignment explanation
Indices: 8748614--8748686 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
8748604 GCATCATGCT
8748614 CGAAAGACTTACTCATGGCC
1 CGAAAGACTTACTCATGGCC
* *
8748634 CGAAGGACTTATTCATCAT-GCT
1 CGAAAGACTTA--C-TCATGGCC
*
8748656 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTCATGGCC
*
8748676 CGAAGGACTTA
1 CGAAAGACTTA
8748687 TGATGATTCG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 3 0.07
20 23 0.53
22 13 0.30
23 4 0.09
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (20 bp):
CGAAAGACTTACTCATGGCC
Found at i:8748664 original size:22 final size:20
Alignment explanation
Indices: 8748605--8748667 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 20
8748595 AGAATTTAAG
8748605 CATCATGCTCGAAAGACTTA
1 CATCATGCTCGAAAGACTTA
* *
8748625 C-TCATGGCCCGAAGGACTTA
1 CATCAT-GCTCGAAAGACTTA
8748645 TTCATCATGCTCGAAAGACTTA
1 --CATCATGCTCGAAAGACTTA
8748667 C
1 C
8748668 TGATGGCCCG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 4 0.11
20 14 0.40
22 13 0.37
23 4 0.11
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (20 bp):
CATCATGCTCGAAAGACTTA
Found at i:8748687 original size:42 final size:42
Alignment explanation
Indices: 8748548--8748687 Score: 185
Period size: 42 Copynumber: 3.4 Consensus size: 42
8748538 CTTATGGATA
*
8748548 GCCCGAAGGACTTA-TCATCTTGCTCGAAAGACTTA-TAGATG
1 GCCCGAAGGACTTATTCATCATGCTCGAAAGACTTACT-GATG
* * * * ** *
8748589 ACCTGAAGAATTTAAGCATCATGCTCGAAAGACTTACTCATG
1 GCCCGAAGGACTTATTCATCATGCTCGAAAGACTTACTGATG
8748631 GCCCGAAGGACTTATTCATCATGCTCGAAAGACTTACTGATG
1 GCCCGAAGGACTTATTCATCATGCTCGAAAGACTTACTGATG
8748673 GCCCGAAGGACTTAT
1 GCCCGAAGGACTTAT
8748688 GATGATTCGA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 10 0.12
42 72 0.87
43 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (42 bp):
GCCCGAAGGACTTATTCATCATGCTCGAAAGACTTACTGATG
Found at i:8749070 original size:52 final size:52
Alignment explanation
Indices: 8748873--8749067 Score: 180
Period size: 52 Copynumber: 3.8 Consensus size: 52
8748863 TGAAAATCAT
** *
8748873 CATCAAGAAACCCCTGGAAATCAGGCTTAGTTTC-TAAAACTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAAAATTCATTTGAAAA
* ** * * * *
8748924 TATCAAGAAATTCCTAAAAATTAGGCTTAATTTCTTTGAAATTCATTTAAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTC-TTAAAATTCATTTGAAAA
* * * * * *
8748977 CATTAAGAAACCCCT-AAAATTAGGTTTAGCTTCTTTCAAGTTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTC-TTAAAATTCATTTGAAAA
* * *
8749029 CACCGAGAAACCCCTAAAAACCAGGCTTAGTTTC-TAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAAAA
8749068 GTTTTCTTTT
Statistics
Matches: 112, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
51 30 0.27
52 43 0.38
53 39 0.35
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (52 bp):
CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAAAATTCATTTGAAAA
Found at i:8749232 original size:74 final size:76
Alignment explanation
Indices: 8749133--8749312 Score: 188
Period size: 74 Copynumber: 2.4 Consensus size: 76
8749123 AGGGAAACTA
* * * * * *
8749133 TCTCAAGCGAGATAAATTTTGGTTTTAAGAAAAACAAT-TTTGAGTGAAATGAATAT-TCTTGTT
1 TCTCAAGCGAGACAAAATAT-GTTTTAAGAAAAACAATCTGT-AATGAAACGAA-ATGTCTTGTT
* *
8749196 TTGAG-TA-AAATG
63 GTGAGAAACAAATG
* *
8749208 TCTTAAGCGAGACAAAATATGTTTTAAGAAAAATAATCTGTAATGAAACGAAATGTCTTGTTGTG
1 TCTCAAGCGAGACAAAATATGTTTTAAGAAAAACAATCTGTAATGAAACGAAATGTCTTGTTGTG
8749273 AGAAAACAAATG
66 AG-AAACAAATG
* *
8749285 TCTCAAGCGAGACAAAGTCTGTTTTAAG
1 TCTCAAGCGAGACAAAATATGTTTTAAG
8749313 GGAAACTATT
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
73 2 0.02
74 36 0.41
75 18 0.21
76 1 0.01
77 30 0.34
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.32
Consensus pattern (76 bp):
TCTCAAGCGAGACAAAATATGTTTTAAGAAAAACAATCTGTAATGAAACGAAATGTCTTGTTGTG
AGAAACAAATG
Found at i:8749334 original size:36 final size:37
Alignment explanation
Indices: 8749294--8749396 Score: 120
Period size: 36 Copynumber: 2.8 Consensus size: 37
8749284 GTCTCAAGCG
* * *
8749294 AGACAAAGTCTGTTTTAAGGGAAACTATTTCAA-GGA
1 AGACAAAATTTGTTTCAAGGGAAACTATTTCAAGGGA
* * *
8749330 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGGGA
1 AGACAAAATTTGTTTCAAGGGAAACTATTTCAAGGGA
8749367 A-ACAAAATTTTGTTTCAAGGGAAACATATT
1 AGACAAAA-TTTGTTTCAAGGGAAAC-TATT
8749397 CAAAGATTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 33 0.60
37 20 0.36
38 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (37 bp):
AGACAAAATTTGTTTCAAGGGAAACTATTTCAAGGGA
Found at i:8749391 original size:37 final size:36
Alignment explanation
Indices: 8749285--8749399 Score: 119
Period size: 36 Copynumber: 3.2 Consensus size: 36
8749275 AAAACAAATG
* * *
8749285 TCTCAAGCG-AGACAAAGTCTGTTTTAAGGGAAACTA
1 TCTCAAG-GAAGACAAAATTTGTTTCAAGGGAAACTA
* * *
8749321 TTTCAAGGAAGACAAAATTTGTTTCAAGAGAAACTG
1 TCTCAAGGAAGACAAAATTTGTTTCAAGGGAAACTA
8749357 TCTCAAGGGAA-ACAAAATTTTGTTTCAAGGGAAACATA
1 TCTCAA-GGAAGACAAAA-TTTGTTTCAAGGGAAAC-TA
8749395 T-TCAA
1 TCTCAA
8749400 AGATTTTGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.02
36 39 0.59
37 24 0.36
38 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (36 bp):
TCTCAAGGAAGACAAAATTTGTTTCAAGGGAAACTA
Found at i:8749598 original size:37 final size:37
Alignment explanation
Indices: 8749528--8749800 Score: 172
Period size: 37 Copynumber: 7.8 Consensus size: 37
8749518 GAGATGATGC
* * * *
8749528 TTGTTTTGAGAGAGAAAT-ACTCAAGTGAAACAAAAT
1 TTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAAT
*
8749564 TTGTTTTAAGAGAAAAATGTCTCAAGCGAGACAAAAT
1 TTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAAT
* * *
8749601 TTGTTTTTA-AGAAAAA-----CAACTTG-G--AAATT
1 TTGTTTTAAGAGAAAAATGTCTCAA-GTGAGACAAAAT
* ** * *
8749630 ATTATTTCGA-AGAAATATGTCTCAAGTGAAACAAAAT
1 -TTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAAT
*
8749667 TTGTTTTAAGGGAAAAATGTCTCAAGTGAGACAAAAT
1 TTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAAT
* * **
8749704 TTGTTTTTA-AGAAAAA-----CAACTTTG---AAAT
1 TTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAAT
* ** * *
8749732 TTGTATTCCGAAGGAAAATGTCTCAAGTGAAACAAAAT
1 TTGTTTTAAG-AGAAAAATGTCTCAAGTGAGACAAAAT
8749770 TTGTTTTAAGAGAAAAATGTCTCAAGTGAGA
1 TTGTTTTAAGAGAAAAATGTCTCAAGTGAGA
8749801 TGACATTTTG
Statistics
Matches: 175, Mismatches: 40, Indels: 43
0.68 0.16 0.17
Matches are distributed among these distances:
28 10 0.06
29 4 0.02
30 18 0.10
31 9 0.05
32 1 0.01
34 2 0.01
35 7 0.04
36 35 0.20
37 78 0.45
38 11 0.06
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (37 bp):
TTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAAT
Found at i:8749826 original size:103 final size:103
Alignment explanation
Indices: 8749547--8749800 Score: 440
Period size: 103 Copynumber: 2.5 Consensus size: 103
8749537 GAGAGAAATA
*
8749547 CTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGCGAGACAAAATTTGTTTTTAAG
1 CTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAG
*
8749612 AAAAACAACTTGGAAATTATTATTTCGAAGAAATATGT
66 AAAAACAACTTGGAAATTATTATTCCGAAGAAATATGT
*
8749650 CTCAAGTGAAACAAAATTTGTTTTAAGGGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAG
1 CTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAG
*
8749715 AAAAACAACTTTGAAATT-TGTATTCCGAAGGAAA-ATGT
66 AAAAACAACTTGGAAATTAT-TATTCCGAA-GAAATATGT
8749753 CTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGA
1 CTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGA
8749801 TGACATTTTG
Statistics
Matches: 144, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
102 1 0.01
103 139 0.97
104 4 0.03
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (103 bp):
CTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAG
AAAAACAACTTGGAAATTATTATTCCGAAGAAATATGT
Found at i:8750931 original size:99 final size:99
Alignment explanation
Indices: 8750760--8750955 Score: 383
Period size: 99 Copynumber: 2.0 Consensus size: 99
8750750 ACATTGTCAA
8750760 TTGCTAGACTCTTTAAAACACTTTTGTTTCAATTCTCTAAAATCTTCCATTTGTTCAAGCTTTGT
1 TTGCTAGACTCTTTAAAACACTTTTGTTTCAATTCTCTAAAATCTTCCATTTGTTCAAGCTTTGT
8750825 AGACTCTTCTAGCAAAGGTAGTGCAGAAATATGG
66 AGACTCTTCTAGCAAAGGTAGTGCAGAAATATGG
*
8750859 TTGCTAGACTCTTTAAAACACTTTTGTTTCAATTCTCTGAAATCTTCCATTTGTTCAAGCTTTGT
1 TTGCTAGACTCTTTAAAACACTTTTGTTTCAATTCTCTAAAATCTTCCATTTGTTCAAGCTTTGT
8750924 AGACTCTTCTAGCAAAGGTAGTGCAGAAATAT
66 AGACTCTTCTAGCAAAGGTAGTGCAGAAATAT
8750956 TGGTCTAAAA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (99 bp):
TTGCTAGACTCTTTAAAACACTTTTGTTTCAATTCTCTAAAATCTTCCATTTGTTCAAGCTTTGT
AGACTCTTCTAGCAAAGGTAGTGCAGAAATATGG
Found at i:8751499 original size:19 final size:19
Alignment explanation
Indices: 8751477--8751524 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
8751467 ATTCCATCTG
*
8751477 TGAAGATCATGATCATCAT
1 TGAACATCATGATCATCAT
8751496 TGAACATCATGATCATCAT
1 TGAACATCATGATCATCAT
8751515 TGAACATCAT
1 TGAACATCAT
8751525 TAACAGAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (19 bp):
TGAACATCATGATCATCAT
Found at i:8752470 original size:172 final size:173
Alignment explanation
Indices: 8752183--8752527 Score: 683
Period size: 172 Copynumber: 2.0 Consensus size: 173
8752173 AGCAGAAGGG
8752183 TTAGTCTTCATTCTCAAAGGACTTAGGGTGAGATATTGACTCTTGATTAAAGGGGATAACAAGTC
1 TTAGTCTTCATTCTCAAAGGACTTAGGGTGAGATATTGACTCTTGATTAAAGGGGATAACAAGTC
8752248 AGAAATGGGCACTTGAAAAACCTTGAGGGTCGTGTTTTTCCAAGACATCTTTTGTGGCCAGTCTC
66 AGAAATGGGCACTTGAAAAACCTTGAGGGTCGTGTTTTTCCAAGACATCTTTTGTGGCCAGTCTC
8752313 GTATTACTTCTCTTTTGATTTCCTTCTCATCATTTCCTATTTC
131 GTATTACTTCTCTTTTGATTTCCTTCTCATCATTTCCTATTTC
8752356 TTAGTCTTCATTCTCAAAGG-CTTAGGGTGAGATATTGACTCTTGATTAAAGGGGATAACAAGTC
1 TTAGTCTTCATTCTCAAAGGACTTAGGGTGAGATATTGACTCTTGATTAAAGGGGATAACAAGTC
8752420 AGAAATGGGCACTTGAAAAACCTTGAGGGTCGTGTTTTTCCAAGACATCTTTTGTGGCCAGTCTC
66 AGAAATGGGCACTTGAAAAACCTTGAGGGTCGTGTTTTTCCAAGACATCTTTTGTGGCCAGTCTC
8752485 GTATTACTTCTCTTTTGATTTCCTTCTCATCATTTCCTATTTC
131 GTATTACTTCTCTTTTGATTTCCTTCTCATCATTTCCTATTTC
8752528 CTTCTCATTT
Statistics
Matches: 172, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
172 152 0.88
173 20 0.12
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (173 bp):
TTAGTCTTCATTCTCAAAGGACTTAGGGTGAGATATTGACTCTTGATTAAAGGGGATAACAAGTC
AGAAATGGGCACTTGAAAAACCTTGAGGGTCGTGTTTTTCCAAGACATCTTTTGTGGCCAGTCTC
GTATTACTTCTCTTTTGATTTCCTTCTCATCATTTCCTATTTC
Found at i:8753828 original size:6 final size:6
Alignment explanation
Indices: 8753817--8753841 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8753807 AAATGTAATG
8753817 ATGCAA ATGCAA ATGCAA ATGCAA A
1 ATGCAA ATGCAA ATGCAA ATGCAA A
8753842 GAAGGTGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
ATGCAA
Found at i:8756535 original size:29 final size:27
Alignment explanation
Indices: 8756482--8756536 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
8756472 AATATTATAT
* *
8756482 ACAAAGTAATATATAATAATAAAACAA
1 ACAAAATAATATATAAAAATAAAACAA
8756509 ACAAAATAAGTATATAAAACATAAAACA
1 ACAAAATAA-TATATAAAA-ATAAAACA
8756537 TACTTGAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.33
28 8 0.33
29 8 0.33
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.20
Consensus pattern (27 bp):
ACAAAATAATATATAAAAATAAAACAA
Found at i:8758157 original size:21 final size:20
Alignment explanation
Indices: 8758110--8758164 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
8758100 CGATTCTGAT
8758110 TATCGCATTGCGATTTTCCA
1 TATCGCATTGCGATTTTCCA
* * *
8758130 AATTCGCGTTGCGATTTTCGA
1 TA-TCGCATTGCGATTTTCCA
*
8758151 CTATCGCAATGCGA
1 -TATCGCATTGCGA
8758165 ATATGTAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (20 bp):
TATCGCATTGCGATTTTCCA
Found at i:8758196 original size:20 final size:20
Alignment explanation
Indices: 8758139--8758282 Score: 121
Period size: 20 Copynumber: 7.2 Consensus size: 20
8758129 AAATTCGCGT
*
8758139 TGCGATTTTCGACTATCGCAA
1 TGCGATTCT-GACTATCGCAA
* * *
8758160 TGCGAATATGTA-AATCGCAA
1 TGCGATTCTG-ACTATCGCAA
* *
8758180 TGCGAGTATGACTATCGCAA
1 TGCGATTCTGACTATCGCAA
* * *
8758200 CGTGATTCTGACTGTCGCAA
1 TGCGATTCTGACTATCGCAA
* *
8758220 CGAGATTCTGACTATCGCAA
1 TGCGATTCTGACTATCGCAA
* *
8758240 CGCGATTCTGACTATCAC-A
1 TGCGATTCTGACTATCGCAA
*
8758259 TCGCGATGCTGACTATCGCAA
1 T-GCGATTCTGACTATCGCAA
8758280 TGC
1 TGC
8758283 AATTTTCAAA
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.02
20 90 0.88
21 10 0.10
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (20 bp):
TGCGATTCTGACTATCGCAA
Found at i:8758485 original size:22 final size:22
Alignment explanation
Indices: 8758460--8758502 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8758450 GGCAACATCT
*
8758460 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCACCGACGAAATCA
*
8758482 GTCCCCATCACCGGCGAAATC
1 GTCCCCATCACCGACGAAATC
8758503 CATCTATCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.16, T:0.16
Consensus pattern (22 bp):
GTCCCCATCACCGACGAAATCA
Found at i:8758975 original size:20 final size:20
Alignment explanation
Indices: 8758884--8758992 Score: 114
Period size: 20 Copynumber: 5.5 Consensus size: 20
8758874 ACAGAATCAC
* *
8758884 GTTGCGATTTT-AGTTTCGC
1 GTTGCGATTTTCATTTTCGT
*
8758903 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
** **
8758922 GTTGCGATAGTCAAATTCGT
1 GTTGCGATTTTCATTTTCGT
**
8758942 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
8758962 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
*
8758982 GTTGTGATTTT
1 GTTGCGATTTT
8758993 AAGTTTCAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
19 28 0.35
20 51 0.65
ACGTcount: A:0.14, C:0.15, G:0.24, T:0.48
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:8767133 original size:24 final size:23
Alignment explanation
Indices: 8767106--8767151 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
8767096 GGATTTTAAT
* *
8767106 TTCCACCTTTTTCAAAATGTTTTG
1 TTCCAACTTTATCAAAA-GTTTTG
8767130 TTCCAACTTTATCAAAAGTTTT
1 TTCCAACTTTATCAAAAGTTTT
8767152 AAGATCATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.48
Consensus pattern (23 bp):
TTCCAACTTTATCAAAAGTTTTG
Found at i:8770284 original size:20 final size:19
Alignment explanation
Indices: 8770246--8770307 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
8770236 ATAGTTTACT
8770246 TCGCAACGCGAAATGACTA
1 TCGCAACGCGAAATGACTA
*
8770265 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
8770285 TCGCAA--CG-AATGACTA
1 TCGCAACGCGAAATGACTA
8770301 TCG-AACG
1 TCGCAACG
8770308 AAAGAATGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 2 0.05
16 9 0.24
17 1 0.03
18 2 0.05
19 12 0.32
20 12 0.32
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:8770309 original size:15 final size:16
Alignment explanation
Indices: 8770257--8770309 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 16
8770247 CGCAACGCGA
8770257 AATGACTATCGCAACGCG
1 AATGACTATCGCAA--CG
8770275 AATTTGACTATCGCAACG
1 AA--TGACTATCGCAACG
8770293 AATGACTATCG-AACG
1 AATGACTATCGCAACG
8770308 AA
1 AA
8770310 AGAATGCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
15 6 0.18
16 9 0.27
18 6 0.18
20 12 0.36
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.21
Consensus pattern (16 bp):
AATGACTATCGCAACG
Found at i:8770386 original size:18 final size:19
Alignment explanation
Indices: 8770344--8770390 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
8770334 GCGATTCTCT
8770344 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
8770364 CGTTGCGATAGTCA-TTCG
1 CGTTGCGATAGTCATTTCG
*
8770382 TGTTGCGAT
1 CGTTGCGAT
8770391 TTTAAGTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 12 0.46
20 14 0.54
ACGTcount: A:0.15, C:0.19, G:0.28, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:8770898 original size:19 final size:19
Alignment explanation
Indices: 8770874--8770947 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 19
8770864 ACTCACATGT
8770874 TATCGTTCAAGAGGCCCCC
1 TATCGTTCAAGAGGCCCCC
8770893 TATCGTTCAAGAGG-CCCC
1 TATCGTTCAAGAGGCCCCC
* *
8770911 TATCATCCTCAAGAGTCCCTCC
1 TATCGT--TCAAGAGGCCC-CC
*
8770933 -ACCGTTCAAGAGGCC
1 TATCGTTCAAGAGGCC
8770948 ACTGTCATCG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
18 9 0.20
19 23 0.50
20 7 0.15
21 5 0.11
22 2 0.04
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (19 bp):
TATCGTTCAAGAGGCCCCC
Found at i:8772380 original size:14 final size:14
Alignment explanation
Indices: 8772346--8772407 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
8772336 TTGCTTGTTT
*
8772346 AATTGATTTATAAA
1 AATTGATTTGTAAA
*
8772360 AAATGATTTGTAAA
1 AATTGATTTGTAAA
* *
8772374 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
8772389 TATTGATGTGTAAA
1 AATTGATTTGTAAA
8772403 TAATT
1 -AATT
8772408 CTATTTGTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 23 0.64
15 13 0.36
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:8772554 original size:20 final size:20
Alignment explanation
Indices: 8772518--8772555 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8772508 CGCTAAACTT
*
8772518 AAAATCGCAATGCGAAAGAC
1 AAAATCGCAACGCGAAAGAC
*
8772538 AAAATCGCAACGTGAAAG
1 AAAATCGCAACGCGAAAG
8772556 TCAATTCGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.18, G:0.21, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAGAC
Found at i:8772632 original size:20 final size:20
Alignment explanation
Indices: 8772618--8772842 Score: 147
Period size: 20 Copynumber: 11.9 Consensus size: 20
8772608 GTCAAATACA
*
8772618 CGTTGCGATAATCAAATTTG
1 CGTTGCGATAATCAAATTCG
* *
8772638 CGTTACGATACTCAAATTCG
1 CGTTGCGATAATCAAATTCG
* *
8772658 CGTTGCGA-AGTCAAA-TAG
1 CGTTGCGATAATCAAATTCG
* *
8772676 CCGTTGCGATAGTAAAATTCG
1 -CGTTGCGATAATCAAATTCG
8772697 CGTTGCGATAGA-CAAATTCG
1 CGTTGCGATA-ATCAAATTCG
*
8772717 CGTTGCGAT--T----TTTG
1 CGTTGCGATAATCAAATTCG
* *
8772731 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAATCAAATTCG
* *
8772751 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
*
8772771 CGTTGCGAT--T----TTTG
1 CGTTGCGATAATCAAATTCG
*
8772785 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAATCAAATTCG
* ** *
8772805 TGTTATGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
* *
8772825 CGTTACGATATTCAAATT
1 CGTTGCGATAATCAAATT
8772843 AATGTGTAAT
Statistics
Matches: 163, Mismatches: 25, Indels: 34
0.73 0.11 0.15
Matches are distributed among these distances:
14 23 0.14
16 2 0.01
18 3 0.02
19 14 0.09
20 119 0.73
21 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:8772653 original size:40 final size:40
Alignment explanation
Indices: 8772598--8772779 Score: 139
Period size: 40 Copynumber: 4.7 Consensus size: 40
8772588 GCGATTTTCT
* * * *
8772598 CGTTACAATAGTCAAATACACGTTGCGATAATCAAATTTG
1 CGTTACGATAGTCAAATTCGCGTTGCGATAATCAAATTAG
* *
8772638 CGTTACGATACTCAAATTCGCGTTGCGA-AGTCAAA-TAG
1 CGTTACGATAGTCAAATTCGCGTTGCGATAATCAAATTAG
* * *
8772676 CCGTTGCGATAGTAAAATTCGCGTTGCGATAGA-CAAATTCG
1 -CGTTACGATAGTCAAATTCGCGTTGCGATA-ATCAAATTAG
* * * * *
8772717 CGTTGCGAT--T----TTTGCGTTGCGATAGTCATATTCG
1 CGTTACGATAGTCAAATTCGCGTTGCGATAATCAAATTAG
* *
8772751 TGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGTTACGATAGTCAAATTCGCGTTGCGAT
8772780 TTTTGAGTTG
Statistics
Matches: 115, Mismatches: 16, Indels: 22
0.75 0.10 0.14
Matches are distributed among these distances:
34 28 0.24
36 1 0.01
38 3 0.03
39 31 0.27
40 50 0.43
41 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (40 bp):
CGTTACGATAGTCAAATTCGCGTTGCGATAATCAAATTAG
Found at i:8772686 original size:39 final size:40
Alignment explanation
Indices: 8772638--8772713 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 40
8772628 ATCAAATTTG
* *
8772638 CGTTACGATACTCAAATTCGCGTTGCGA-AGTCAAATAGC
1 CGTTACGATACTAAAATTCGCGTTGCGATAGACAAATAGC
* *
8772677 CGTTGCGATAGTAAAATTCGCGTTGCGATAGACAAAT
1 CGTTACGATACTAAAATTCGCGTTGCGATAGACAAAT
8772714 TCGCGTTGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 25 0.78
40 7 0.22
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (40 bp):
CGTTACGATACTAAAATTCGCGTTGCGATAGACAAATAGC
Found at i:8772700 original size:59 final size:59
Alignment explanation
Indices: 8772607--8772778 Score: 194
Period size: 59 Copynumber: 3.0 Consensus size: 59
8772597 TCGTTACAAT
* * * *
8772607 AGTCAAATA-CACGTTGCGATAATCAAATTTGCGTTACGATACTCAAATTCGCGTTGCGA
1 AGTCAAATAGC-CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGA
* *
8772666 AGTCAAATAGCCGTTGCGATAGTAAAATTCGCGTTGCGATAGACAAATTCGCGTTGCG-
1 AGTCAAATAGCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGA
** * * *
8772724 A-T--TTTTG-CGTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGA
1 AGTCAAATAGCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGA
8772779 TTTTTGAGTT
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
54 43 0.44
55 2 0.02
57 1 0.01
58 1 0.01
59 50 0.51
60 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (59 bp):
AGTCAAATAGCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGA
Found at i:8772759 original size:54 final size:54
Alignment explanation
Indices: 8772618--8772833 Score: 234
Period size: 54 Copynumber: 3.9 Consensus size: 54
8772608 GTCAAATACA
* * * * * ** *
8772618 CGTTGCGATAATCAAATTTGCGTTACGATACTCAAATTCGCGTTGCGAAGTCAAATAG
1 CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCG-A-T--TTTTG
* * *
8772676 CCGTTGCGATAGTAAAATTCGCGTTGCGATAGACAAATTCGCGTTGCGATTTTTG
1 -CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
*
8772731 CGTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
1 CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
* * ** *
8772785 AGTTGCGATAATCAAATTCGTGTTATGATAGTCAAATTCGCGTTACGAT
1 CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGAT
8772834 ATTCAAATTA
Statistics
Matches: 138, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
54 93 0.67
55 2 0.01
57 1 0.01
58 1 0.01
59 41 0.30
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
Found at i:8773064 original size:140 final size:140
Alignment explanation
Indices: 8772812--8773081 Score: 504
Period size: 140 Copynumber: 1.9 Consensus size: 140
8772802 TCGTGTTATG
* *
8772812 ATAGTCAAATTCGCGTTACGATATTCAAATTAATGTGTAATAAGTGATAACAACTGAACATATAA
1 ATAGTCAAATTCGCGTTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATAA
*
8772877 TAGCAATTTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
8772942 AATACACATA
131 AATACACATA
*
8772952 ATAGTCAAATTCGCGTTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATAA
8773017 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
8773082 TACACGTTGC
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 126 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATAA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:8773162 original size:18 final size:18
Alignment explanation
Indices: 8773139--8773173 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8773129 AAGCCGGTTG
*
8773139 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
8773157 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
8773174 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:8773766 original size:173 final size:172
Alignment explanation
Indices: 8773439--8773785 Score: 644
Period size: 173 Copynumber: 2.0 Consensus size: 172
8773429 AAAGGATGTG
8773439 AATAGGGTAGATAATCTCGGCATAAGTATGCGATATACTTCTGTAGTGTAGCAATCATAGCGTAT
1 AATAGGGTAGATAATCTCGGCATAAGTATGCGATATACTTCTGTAGTGTAGCAATCATAGCGTAT
*
8773504 GCGCTTGAATCATCTTGGTTTAGATGAAGAGAACTTTTATACATGCCCACATGGATACCAGATGT
66 GCGCTTGAATCATCTTGGTTTAGATGAAGAAAACTTTTATACATGCCCACATGGATACCAGATGT
8773569 TTGCCATTTCATACAACTACACGTC-TTTCA-TTAGATCGAC
131 TTGCCATTTCATACAACTACACGTCTTTTCATTTAGATCGAC
8773609 AATAGGGTAGATAATCTCGGCATAAGTATGTCGATATACTTCTGTAGTGTAGCAATCCATAGCGT
1 AATAGGGTAGATAATCTCGGCATAAGTATG-CGATATACTTCTGTAGTGTAGCAAT-CATAGCGT
8773674 ATGCGCTTGAATCATCTTGGTTTAGATGAAGAAAACTTTTATAACATGCCCACATGGATACCAGA
64 ATGCGCTTGAATCATCTTGGTTTAGATGAAGAAAACTTTTAT-ACATGCCCACATGGATACCAGA
8773739 TGTTTGCCATTTCATACAACTACACGTCTTTTCATTTAGATCGAC
128 TGTTTGCCATTTCATACAACTACACGTCTTTTCATTTAGATCGAC
8773784 AA
1 AA
8773786 GCCCATTTAA
Statistics
Matches: 171, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
170 30 0.18
171 25 0.15
172 49 0.29
173 50 0.29
174 5 0.03
175 12 0.07
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (172 bp):
AATAGGGTAGATAATCTCGGCATAAGTATGCGATATACTTCTGTAGTGTAGCAATCATAGCGTAT
GCGCTTGAATCATCTTGGTTTAGATGAAGAAAACTTTTATACATGCCCACATGGATACCAGATGT
TTGCCATTTCATACAACTACACGTCTTTTCATTTAGATCGAC
Found at i:8775130 original size:14 final size:13
Alignment explanation
Indices: 8775110--8775146 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
8775100 CTCCCGTGGC
8775110 ATTTTCTTCGGGG
1 ATTTTCTTCGGGG
8775123 ACTTTTCTTCGGGG
1 A-TTTTCTTCGGGG
8775137 ATTTATCTTC
1 ATTT-TCTTC
8775147 TTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.49
Consensus pattern (13 bp):
ATTTTCTTCGGGG
Found at i:8775370 original size:24 final size:24
Alignment explanation
Indices: 8775336--8775389 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
8775326 CTGAAACATC
8775336 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
8775360 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
8775384 ATCAAA
1 ATCAAA
8775390 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:8776248 original size:20 final size:20
Alignment explanation
Indices: 8776219--8776278 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
8776209 GTGTTGCGAC
*
8776219 AGTCAAAATCGCGTTACGAT
1 AGTCAAAATCGCATTACGAT
* *
8776239 AGTCAGAATCGCATTGCGAT
1 AGTCAAAATCGCATTACGAT
** *
8776259 AGTCATTATCGCATTGCGAT
1 AGTCAAAATCGCATTACGAT
8776279 TTACATATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (20 bp):
AGTCAAAATCGCATTACGAT
Found at i:8776270 original size:40 final size:40
Alignment explanation
Indices: 8776212--8776303 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
8776202 AAATTCAGTG
* *
8776212 TTGCGACAGTCAAAATCGCGTTACGATAGT-CAGAATCGCA
1 TTGCGATAGTCAAAATCGCATTACGAT-GTACAGAATCGCA
** * * * *
8776252 TTGCGATAGTCATTATCGCATTGCGATTTACATATTCGCA
1 TTGCGATAGTCAAAATCGCATTACGATGTACAGAATCGCA
8776292 TTGCGATAGTCA
1 TTGCGATAGTCA
8776304 GAAAATCACA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.02
40 42 0.98
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCGATAGTCAAAATCGCATTACGATGTACAGAATCGCA
Found at i:8776833 original size:34 final size:35
Alignment explanation
Indices: 8776759--8776829 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
8776749 TAAAAGATAA
* * *
8776759 ATTTATAATTTGAATCTTAAATATTTTTTCTTATG
1 ATTTATAATTTGAATATTAAATATATTTTCTAATG
8776794 A-TTATAATTTGAATATTAAAT-TATTTT-TAATG
1 ATTTATAATTTGAATATTAAATATATTTTCTAATG
8776826 ATTT
1 ATTT
8776830 TATATATAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 5 0.16
33 7 0.22
34 19 0.59
35 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (35 bp):
ATTTATAATTTGAATATTAAATATATTTTCTAATG
Found at i:8781531 original size:20 final size:19
Alignment explanation
Indices: 8781508--8781559 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
8781498 TATGTAATTT
* *
8781508 TAATTATATTGAATATAATA
1 TAATTATATT-AAAAGAATA
*
8781528 TAATAAATATTAAAAGAATA
1 TAAT-TATATTAAAAGAATA
8781548 TAATTATGATTA
1 TAATTAT-ATTA
8781560 TAATTCTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
TAATTATATTAAAAGAATA
Found at i:8784802 original size:27 final size:27
Alignment explanation
Indices: 8784737--8784801 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
8784727 AAAGTGAGAT
* *
8784737 AAAAC-ATAAAATATCATAATTACTTG
1 AAAACAATAAAATATCATAAATACTTA
* *
8784763 AAGACATTAAAATATCATAAATACTTCA
1 AAAACAATAAAATATCATAAATACTT-A
8784791 AAAACAATAAA
1 AAAACAATAAA
8784802 TGTAACTCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
26 4 0.13
27 18 0.58
28 9 0.29
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.26
Consensus pattern (27 bp):
AAAACAATAAAATATCATAAATACTTA
Found at i:8785508 original size:18 final size:18
Alignment explanation
Indices: 8785485--8785519 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8785475 TATTCCATAA
*
8785485 TTAAAATTAAATCATACT
1 TTAAAAATAAATCATACT
8785503 TTAAAAATAAATCATAC
1 TTAAAAATAAATCATAC
8785520 GAGGTTGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAAAATAAATCATACT
Found at i:8789085 original size:90 final size:91
Alignment explanation
Indices: 8788974--8789153 Score: 290
Period size: 90 Copynumber: 2.0 Consensus size: 91
8788964 TAATCCCAAA
* * **
8788974 TATTTAATTTCAATTAATTAAATATAAATTTAATTAATTTGAAAT-AATAAAATTCCTAATATGA
1 TATTAAATTTCAATTAATTAAATATAAATTTAATTAATTTGAAATAAAAAAAAACCCTAATATGA
8789038 TTAGGGTAACTTGGATATAAAAGGAT
66 TTAGGGTAACTTGGATATAAAAGGAT
*
8789064 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAAAAAAAAAACCCTAATATG
1 TATTAAATTTCAATTAATTAAATATAAATTTAATTAATTTGAAAT-AAAAAAAAACCCTAATATG
*
8789129 ATTAGGGTAACTTGGCTATAAAAGG
65 ATTAGGGTAACTTGGATATAAAAGG
8789154 GTGTGTTAGG
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
90 43 0.52
92 39 0.48
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.37
Consensus pattern (91 bp):
TATTAAATTTCAATTAATTAAATATAAATTTAATTAATTTGAAATAAAAAAAAACCCTAATATGA
TTAGGGTAACTTGGATATAAAAGGAT
Found at i:8792794 original size:16 final size:16
Alignment explanation
Indices: 8792773--8792812 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
8792763 AGTATGTCTT
*
8792773 TTATGAAGATTTGGGG
1 TTATGAAGATTTAGGG
8792789 TTATGAAGATTTAGGG
1 TTATGAAGATTTAGGG
8792805 TTATGAAG
1 TTATGAAG
8792813 CTTATGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.38
Consensus pattern (16 bp):
TTATGAAGATTTAGGG
Found at i:8795852 original size:88 final size:89
Alignment explanation
Indices: 8795743--8795907 Score: 296
Period size: 90 Copynumber: 1.9 Consensus size: 89
8795733 TTTACTTTCA
*
8795743 ATTAATTAAATATAGATTTAATTAATTTGAAATAAT-AAATCCCTAATATGATTAGGGTAACTTG
1 ATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTTG
8795807 GATATAAAAGGATTATTAAATTCT
66 GATATAAAAGGATTATTAAATTCT
8795831 ATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAAACCCTAATATGATTAGGGTAACTT
1 ATTAATTAAATATAGATTTAATTAATTTGAAATAAT-AAAAACCCTAATATGATTAGGGTAACTT
*
8795896 GGCTATAAAAGG
65 GGATATAAAAGG
8795908 GTGTGTTAGG
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
88 36 0.49
90 37 0.51
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (89 bp):
ATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTTG
GATATAAAAGGATTATTAAATTCT
Found at i:8796311 original size:16 final size:16
Alignment explanation
Indices: 8796290--8796323 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8796280 ATTGTATGTT
* *
8796290 GTGTTTGAGATGCATG
1 GTGTTTGAAAAGCATG
8796306 GTGTTTGAAAAGCATG
1 GTGTTTGAAAAGCATG
8796322 GT
1 GT
8796324 TATAGCCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.35, T:0.35
Consensus pattern (16 bp):
GTGTTTGAAAAGCATG
Found at i:8798693 original size:36 final size:38
Alignment explanation
Indices: 8798620--8798694 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 38
8798610 ATTAGAAAAT
* *
8798620 ATTTATATATTTTCTTTAAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAAATCATAAA
* *
8798658 ATTTATATATTTT-TTTTACAAAATTAAAAAT-ATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAAATCATAAA
8798694 A
1 A
8798695 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 6 0.18
37 14 0.42
38 13 0.39
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (38 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAAATCATAAA
Found at i:8801943 original size:25 final size:25
Alignment explanation
Indices: 8801915--8801965 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8801905 TTCATTCCAC
8801915 TTAATAAGAACAACTCGAATTCGAT
1 TTAATAAGAACAACTCGAATTCGAT
8801940 TTAATAAGAACAACTCGAATTCGAT
1 TTAATAAGAACAACTCGAATTCGAT
8801965 T
1 T
8801966 CAATCAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (25 bp):
TTAATAAGAACAACTCGAATTCGAT
Found at i:8802034 original size:29 final size:29
Alignment explanation
Indices: 8802001--8802106 Score: 83
Period size: 29 Copynumber: 3.7 Consensus size: 29
8801991 TTGGATCGAT
8802001 TCGAACTCGAGCTCGATTCGTAGATTAAC
1 TCGAACTCGAGCTCGATTCGTAGATTAAC
* * * ** * *
8802030 TCGAATTTGA-TTCGAGACCTCA-A-TACGAA
1 TCGAACTCGAGCTCGATTCGT-AGATTA--AC
* *
8802059 TCGAACTCGACCTCGATTAGTAGATTAAC
1 TCGAACTCGAGCTCGATTCGTAGATTAAC
8802088 TCGAACTCGAGCTCGATTC
1 TCGAACTCGAGCTCGATTC
8802107 AAGATCTTAA
Statistics
Matches: 54, Mismatches: 17, Indels: 12
0.65 0.20 0.14
Matches are distributed among these distances:
27 2 0.04
28 7 0.13
29 37 0.69
30 6 0.11
31 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (29 bp):
TCGAACTCGAGCTCGATTCGTAGATTAAC
Found at i:8804139 original size:37 final size:37
Alignment explanation
Indices: 8804093--8804167 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
8804083 AACACTTGGC
8804093 GTGCAGCCTTGAGACACAGATACTTCAAAAATCCTTG
1 GTGCAGCCTTGAGACACAGATACTTCAAAAATCCTTG
8804130 GTGCAGCCTTGAGACACAGATACTTCAAAAATCCTTG
1 GTGCAGCCTTGAGACACAGATACTTCAAAAATCCTTG
8804167 G
1 G
8804168 GCCATCGTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (37 bp):
GTGCAGCCTTGAGACACAGATACTTCAAAAATCCTTG
Found at i:8805697 original size:20 final size:18
Alignment explanation
Indices: 8805644--8805698 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
8805634 AGTTTCCCAA
*
8805644 AAAGTTTTGATACTTTTC
1 AAAGTTTTGATACTTTCC
* *
8805662 AAGAGTTTCGAAACTTTCCC
1 AA-AGTTTTGATACTTT-CC
8805682 TAAAGTTTTGATACTTT
1 -AAAGTTTTGATACTTT
8805699 GGCTCCAACG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 2 0.07
19 12 0.41
20 13 0.45
21 2 0.07
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.44
Consensus pattern (18 bp):
AAAGTTTTGATACTTTCC
Found at i:8808164 original size:20 final size:20
Alignment explanation
Indices: 8808116--8808174 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
8808106 TGATATTTTT
*
8808116 TCAAGAGTTTCGAAACTATC
1 TCAAGAGTTTCGAAACTTTC
8808136 TCAAGAGTTTCGAAACTTTCC
1 TCAAGAGTTTCGAAACTTT-C
* *
8808157 TTAA-AGTTTCGATACTTT
1 TCAAGAGTTTCGAAACTTT
8808175 GGCTCCAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 31 0.89
21 4 0.11
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (20 bp):
TCAAGAGTTTCGAAACTTTC
Found at i:8814267 original size:23 final size:22
Alignment explanation
Indices: 8814206--8814267 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 22
8814196 TAGACAGTGT
* *
8814206 ACCGATGCATCCCTTGAATGTGC
1 ACCGATGCAT-CCTTGAAGGTAC
* * *
8814229 ATCGATACA-CCATGAAGGTAC
1 ACCGATGCATCCTTGAAGGTAC
8814250 ACCGATGCATTCCTTGAA
1 ACCGATGCA-TCCTTGAA
8814268 TGTGAATCGA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
21 16 0.55
23 13 0.45
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (22 bp):
ACCGATGCATCCTTGAAGGTAC
Found at i:8814278 original size:23 final size:22
Alignment explanation
Indices: 8814208--8814278 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 22
8814198 GACAGTGTAC
*
8814208 CGATGCATCCCTTGAATGTGCAT
1 CGATGCAT-CCTTGAATGTGAAT
* * * *
8814231 CGATACA-CCATGAAGGT-ACAC
1 CGATGCATCCTTGAATGTGA-AT
8814252 CGATGCATTCCTTGAATGTGAAT
1 CGATGCA-TCCTTGAATGTGAAT
8814275 CGAT
1 CGAT
8814279 CCACTCTGCT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
21 15 0.43
23 19 0.54
24 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (22 bp):
CGATGCATCCTTGAATGTGAAT
Found at i:8817080 original size:65 final size:65
Alignment explanation
Indices: 8816958--8817111 Score: 168
Period size: 65 Copynumber: 2.4 Consensus size: 65
8816948 ACCCATTTCG
* * * *
8816958 AATGCAATTTGAGTACCGATGCACAAGCCATACATCGATGGACTCTTTAATATTTTGAAACATCA
1 AATGCAATTTGTGTACCGATGCACAAGCCATACATCGATGCACTCCTGAATATTTTGAAACATCA
* * ** *
8817023 AATGCATTTTGTGTACCGATGCAC-AGACCATGCATCGATGCACTCCTGGCT-TGTTTGAAGCAT
1 AATGCAATTTGTGTACCGATGCACAAG-CCATACATCGATGCACTCCTGAATAT-TTTGAAACAT
*
8817086 CG
64 CA
* *
8817088 AATGTAATTAGTGTACCGATGCAC
1 AATGCAATTTGTGTACCGATGCAC
8817112 CCCTACTGTA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
64 3 0.04
65 71 0.96
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (65 bp):
AATGCAATTTGTGTACCGATGCACAAGCCATACATCGATGCACTCCTGAATATTTTGAAACATCA
Found at i:8818060 original size:23 final size:23
Alignment explanation
Indices: 8818030--8818090 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
8818020 TGAAATATTA
8818030 AAAACCAAAAGGAAAAAAATTTC
1 AAAACCAAAAGGAAAAAAATTTC
8818053 AAAACCAAAAGGAAAAAAATTTC
1 AAAACCAAAAGGAAAAAAATTTC
8818076 AAAACCAAAA-GAAAA
1 AAAACCAAAAGGAAAA
8818091 CAAAAGGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.13
23 33 0.87
ACGTcount: A:0.69, C:0.13, G:0.08, T:0.10
Consensus pattern (23 bp):
AAAACCAAAAGGAAAAAAATTTC
Found at i:8818472 original size:17 final size:17
Alignment explanation
Indices: 8818447--8818486 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
8818437 AAATTATTAA
**
8818447 TAAAA-ATATAATTTTT
1 TAAAATATATAATAATT
8818463 TAAAATATATAATAATT
1 TAAAATATATAATAATT
8818480 TAAAATA
1 TAAAATA
8818487 CGTAGGAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATATATAATAATT
Found at i:8826451 original size:22 final size:21
Alignment explanation
Indices: 8826423--8826500 Score: 111
Period size: 22 Copynumber: 3.6 Consensus size: 21
8826413 ATGAGATTTA
8826423 TCCCGAAGGACCTGTGAATATG
1 TCCCGAAGGACCTGTGAAT-TG
8826445 TCCCGAAGGACCTGTGAATTTG
1 TCCCGAAGGACCTGTGAA-TTG
* * *
8826467 TCCCGAAGGACCTATGAGTTA
1 TCCCGAAGGACCTGTGAATTG
8826488 TCCCGAAGGACCT
1 TCCCGAAGGACCT
8826501 ATAAAACCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.29
22 36 0.69
23 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (21 bp):
TCCCGAAGGACCTGTGAATTG
Found at i:8827162 original size:65 final size:63
Alignment explanation
Indices: 8827041--8827162 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
8827031 AATTAAGGTA
* *
8827041 GGTATCGATACCCTAATTGCATTCTGTTAGTTTTTCATTCAAGAGGGTATCGGTACCCAACTG
1 GGTATCGATACCCTAATTGCATTCTATTACTTTTTCATTCAAGAGGGTATCGGTACCCAACTG
** * * * *
8827104 GGTATCGATACCCTCCTTTCATTCTATTATTCTTTTTCATTTAAGATGGTATTGGTACC
1 GGTATCGATACCCTAATTGCATTCTATTA--CTTTTTCATTCAAGAGGGTATCGGTACC
8827163 TGTTGAATGG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 25 0.51
65 24 0.49
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.40
Consensus pattern (63 bp):
GGTATCGATACCCTAATTGCATTCTATTACTTTTTCATTCAAGAGGGTATCGGTACCCAACTG
Found at i:8827662 original size:8 final size:8
Alignment explanation
Indices: 8827649--8827674 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
8827639 ATATGGAGAA
8827649 AAGAAGAG
1 AAGAAGAG
8827657 AAGAAGAG
1 AAGAAGAG
8827665 AAGAAGAG
1 AAGAAGAG
8827673 AA
1 AA
8827675 CTCTGGAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (8 bp):
AAGAAGAG
Found at i:8839745 original size:13 final size:13
Alignment explanation
Indices: 8839727--8839751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8839717 ATGGTGTGGT
8839727 AAAAGTATCATCC
1 AAAAGTATCATCC
8839740 AAAAGTATCATC
1 AAAAGTATCATC
8839752 TTTAAGTACA
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:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAAGTATCATCC
Done.