Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 25 of 295
Found at i:6644341 original size:19 final size:19
Alignment explanation
Indices: 6644317--6644360 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
6644307 TCAATTCTAG
6644317 AAGCATTCTGACCAACAAT
1 AAGCATTCTGACCAACAAT
*
6644336 AAGCATTTTGACCAACAAT
1 AAGCATTCTGACCAACAAT
6644355 AAGCAT
1 AAGCAT
6644361 ATCATCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (19 bp):
AAGCATTCTGACCAACAAT
Found at i:6655763 original size:30 final size:30
Alignment explanation
Indices: 6655707--6655764 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
6655697 AAATAATTTA
* * *
6655707 TTTTAACTTTTAATTTTATTTTTTTATCTC
1 TTTTAACTTTAAATTATATTTATTTATCTC
6655737 TTTTAATCTTTAAATTATA-TTATTTATC
1 TTTTAA-CTTTAAATTATATTTATTTATC
6655765 AAAGTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTAACTTTAAATTATATTTATTTATCTC
Found at i:6656130 original size:19 final size:18
Alignment explanation
Indices: 6656108--6656153 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
6656098 GACCTTTAAT
6656108 TATTTAAAAAATTAAAAAA
1 TATTTAAAAAA-TAAAAAA
**
6656127 TATTTTAAAAAATAAAATT
1 TA-TTTAAAAAATAAAAAA
6656146 TATTTAAA
1 TATTTAAA
6656154 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TATTTAAAAAATAAAAAA
Found at i:6657069 original size:23 final size:23
Alignment explanation
Indices: 6657043--6657086 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6657033 TTTAGTCCAT
*
6657043 AATACTTTAAAAGTTAAAAATTC
1 AATAATTTAAAAGTTAAAAATTC
* *
6657066 AATAATTTTAAATTTAAAAAT
1 AATAATTTAAAAGTTAAAAAT
6657087 CTTAATCCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
AATAATTTAAAAGTTAAAAATTC
Found at i:6660585 original size:12 final size:12
Alignment explanation
Indices: 6660568--6660600 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
6660558 CGGCCCAGCC
6660568 ATATTAATTTTT
1 ATATTAATTTTT
6660580 ATATT-ATTTTT
1 ATATTAATTTTT
6660591 ATA-TAATTTT
1 ATATTAATTTT
6660601 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:6660842 original size:22 final size:22
Alignment explanation
Indices: 6660817--6660859 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6660807 TATCTAAACA
6660817 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
6660839 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
6660860 AATAGAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:6660863 original size:11 final size:11
Alignment explanation
Indices: 6660824--6660864 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
6660814 ACAATAACAA
6660824 CAAAATAGTAG
1 CAAAATAGTAG
* *
6660835 CAACATAATAG
1 CAAAATAGTAG
*
6660846 TAAAATAGTAG
1 CAAAATAGTAG
6660857 CAAAATAG
1 CAAAATAG
6660865 AGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:6660872 original size:22 final size:22
Alignment explanation
Indices: 6660825--6660872 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6660815 CAATAACAAC
* *
6660825 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
6660847 AAAATAGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
6660869 AAAA
1 AAAA
6660873 CAATAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:6664603 original size:23 final size:23
Alignment explanation
Indices: 6664558--6664603 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6664548 TCATTAACAT
**
6664558 TGTTCGTGAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCAATTAA
*
6664581 TGTTCGTGAACGTGTTCAATTAA
1 TGTTCGTGAACATGTTCAATTAA
6664604 GTAAAATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCAATTAA
Found at i:6667530 original size:22 final size:24
Alignment explanation
Indices: 6667483--6667531 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
6667473 AACTTTGTAA
*
6667483 TTTTTTTTACATTTGAGCTTGAAC
1 TTTTTTTTACATTTAAGCTTGAAC
*
6667507 TTTTTTTTA-ATTTAAG-TTGGAC
1 TTTTTTTTACATTTAAGCTTGAAC
6667529 TTT
1 TTT
6667532 GAACTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 6 0.26
24 9 0.39
ACGTcount: A:0.20, C:0.08, G:0.12, T:0.59
Consensus pattern (24 bp):
TTTTTTTTACATTTAAGCTTGAAC
Found at i:6679074 original size:18 final size:17
Alignment explanation
Indices: 6679051--6679084 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6679041 ATTTAAATTG
6679051 CGGTCGCGGTCGCGTTTT
1 CGGTCGC-GTCGCGTTTT
*
6679069 CGGTCGCTTCGCGTTT
1 CGGTCGCGTCGCGTTT
6679085 GTCGCGGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.00, C:0.29, G:0.35, T:0.35
Consensus pattern (17 bp):
CGGTCGCGTCGCGTTTT
Found at i:6680907 original size:14 final size:14
Alignment explanation
Indices: 6680869--6680911 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
6680859 TAAAATGTAC
6680869 AATATAATTAAA-T
1 AATATAATTAAATT
6680882 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
6680897 AA-ATAATTTAATT
1 AATATAATTAAATT
6680910 AA
1 AA
6680912 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:6683387 original size:3 final size:3
Alignment explanation
Indices: 6683379--6683418 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
6683369 TAAAACAATT
**
6683379 TAA TAA TAA TAA TAA TAA TGG TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6683419 GATGATGATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6683423 original size:3 final size:3
Alignment explanation
Indices: 6683417--6683446 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6683407 AATAATAATA
6683417 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
6683447 GTATTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:6687106 original size:20 final size:22
Alignment explanation
Indices: 6687058--6687108 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
6687048 TTTCTATGCT
* *
6687058 TGCAAGTGATAGTGGCACTACAG
1 TGCAAGTGAAAGCGGCACTA-AG
6687081 TGCAAGTGAAAGCGGCACT-A-
1 TGCAAGTGAAAGCGGCACTAAG
6687101 TGCAAGTG
1 TGCAAGTG
6687109 TTAGAGGCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.31
21 1 0.04
23 17 0.65
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (22 bp):
TGCAAGTGAAAGCGGCACTAAG
Found at i:6688619 original size:17 final size:17
Alignment explanation
Indices: 6688599--6688655 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
6688589 TTAATAATAT
6688599 AAATAATACAAAATTTG
1 AAATAATACAAAATTTG
* *
6688616 AAATTTAATTCAATAATAT-
1 AAA--TAATACAA-AATTTG
*
6688635 AAATAGTACAAAATTTG
1 AAATAATACAAAATTTG
6688652 AAAT
1 AAAT
6688656 TTAATTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 4 0.13
17 13 0.42
19 10 0.32
20 4 0.13
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATAATACAAAATTTG
Found at i:6688676 original size:36 final size:36
Alignment explanation
Indices: 6688586--6688676 Score: 164
Period size: 36 Copynumber: 2.5 Consensus size: 36
6688576 ATGATTAAAC
*
6688586 AATTTAATAATATAAATAATACAAAATTTGAAATTT
1 AATTTAATAATATAAATAGTACAAAATTTGAAATTT
*
6688622 AATTCAATAATATAAATAGTACAAAATTTGAAATTT
1 AATTTAATAATATAAATAGTACAAAATTTGAAATTT
6688658 AATTTAATAATATAAATAG
1 AATTTAATAATATAAATAG
6688677 CAGACATAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.37
Consensus pattern (36 bp):
AATTTAATAATATAAATAGTACAAAATTTGAAATTT
Found at i:6690391 original size:78 final size:78
Alignment explanation
Indices: 6690262--6690491 Score: 354
Period size: 78 Copynumber: 2.9 Consensus size: 78
6690252 GAGTCACATC
* * *
6690262 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCCAATTCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
6690327 AATGAATCATATA
66 AATGAATCATATA
*
6690340 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGCTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
6690405 AATGAATCATATA
66 AATGAATCATATA
* * * * **
6690418 TCATGTAATTGTAACGAATTAGGATTACCTTTTCAGGTCAAATCCTATCCGCCTTAATTTACCA-
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
6690482 AAGTGAATCA
66 AA-TGAATCA
6690492 GGAATAAATC
Statistics
Matches: 140, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
77 2 0.01
78 138 0.99
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.33
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
AATGAATCATATA
Found at i:6690551 original size:40 final size:40
Alignment explanation
Indices: 6690456--6690593 Score: 159
Period size: 40 Copynumber: 3.5 Consensus size: 40
6690446 CTTTTCAGGT
* * * *
6690456 CAAATCCTATCCGCCTTAATTTACCAAAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* *
6690496 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* ** **
6690536 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* *
6690576 CGAATCCTACCCACTTTA
1 CAAATCCTATCCACTTTA
6690594 TATTCTCAAG
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.29
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:6692429 original size:18 final size:18
Alignment explanation
Indices: 6692406--6692444 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6692396 TACTTTTCTC
6692406 TTTCTA-TCACAATTCTAA
1 TTTCTATTCACAATTC-AA
*
6692424 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
6692442 TTT
1 TTT
6692445 TTTATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:6693699 original size:25 final size:25
Alignment explanation
Indices: 6693642--6693689 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6693632 TGTAACTTTC
* *
6693642 TTTCCTTTTTTTTACTTCTTTTACG
1 TTTCATTTGTTTTACTTCTTTTACG
*
6693667 TTTCATTTGTTTTATTTCTTTTA
1 TTTCATTTGTTTTACTTCTTTTA
6693690 TGTTATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.04, T:0.71
Consensus pattern (25 bp):
TTTCATTTGTTTTACTTCTTTTACG
Found at i:6696415 original size:25 final size:25
Alignment explanation
Indices: 6696387--6696434 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6696377 TCTCGAGCCA
* *
6696387 TATAATAGGAAGCTCATATGAGCTG
1 TATAACAGGAAGCTCATAAGAGCTG
*
6696412 TATAACGGGAAGCTCATAAGAGC
1 TATAACAGGAAGCTCATAAGAGC
6696435 CATAATCGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (25 bp):
TATAACAGGAAGCTCATAAGAGCTG
Found at i:6696445 original size:23 final size:24
Alignment explanation
Indices: 6696388--6696452 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
6696378 CTCGAGCCAT
* * *
6696388 ATAATAGGAAGCTCATATGAGCTGT
1 ATAATCGGAAGCTCATAAGAGC-GC
6696413 ATAA-CGGGAAGCTCATAAGAGC-C
1 ATAATC-GGAAGCTCATAAGAGCGC
6696436 ATAATCGGAAAGCTCAT
1 ATAATCGG-AAGCTCAT
6696453 GCTAGCCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 6 0.18
24 9 0.26
25 19 0.56
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (24 bp):
ATAATCGGAAGCTCATAAGAGCGC
Found at i:6699354 original size:18 final size:18
Alignment explanation
Indices: 6699331--6699367 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6699321 TGAGTTTTCA
*
6699331 AATTCAAGTAACTCGAAT
1 AATTCAAATAACTCGAAT
*
6699349 AATTCAAATAATTCGAAT
1 AATTCAAATAACTCGAAT
6699367 A
1 A
6699368 TCAAACTATA
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:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:6700969 original size:25 final size:25
Alignment explanation
Indices: 6700873--6700971 Score: 105
Period size: 25 Copynumber: 4.0 Consensus size: 25
6700863 TTTGAGCTAT
* *
6700873 GAATCGGTATGCTC-TCACGAGCTGT
1 GAATCGGTAAGCTCAT-ACGAGCTGA
*
6700898 GAATCGGTAAGCTCATACAAGCTGA
1 GAATCGGTAAGCTCATACGAGCTGA
*
6700923 GAGTCGGTAAGCTC-TCACGAGCTGCA
1 GAATCGGTAAGCTCAT-ACGAGCTG-A
*
6700949 -AATCGGTAAGCTCATATGAGCTG
1 GAATCGGTAAGCTCATACGAGCTG
6700972 TAGTGCGTCT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
24 1 0.02
25 59 0.94
26 3 0.05
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (25 bp):
GAATCGGTAAGCTCATACGAGCTGA
Found at i:6700971 original size:50 final size:51
Alignment explanation
Indices: 6700858--6700971 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 51
6700848 ATACATGTAT
* * **
6700858 GCTCATTTGAGCT-ATGAATCGGTATGCTCTCACGAGCTGTGAATCGGTAA
1 GCTCATATGAGCTGATGAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAA
** *
6700908 GCTCATACAAGCTGA-GAGTCGGTAAGCTCTCACGAGCTGCAAATCGGTAA
1 GCTCATATGAGCTGATGAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAA
6700958 GCTCATATGAGCTG
1 GCTCATATGAGCTG
6700972 TAGTGCGTCT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 53 0.98
51 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (51 bp):
GCTCATATGAGCTGATGAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAA
Found at i:6701304 original size:16 final size:16
Alignment explanation
Indices: 6701283--6701313 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6701273 ATGAATTTAA
6701283 CTCATTCAATATAATT
1 CTCATTCAATATAATT
*
6701299 CTCATTCAATTTAAT
1 CTCATTCAATATAAT
6701314 CCAACATGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (16 bp):
CTCATTCAATATAATT
Found at i:6709975 original size:27 final size:26
Alignment explanation
Indices: 6709940--6710051 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
6709930 AGCATGGCTG
* *
6709940 CCAGAACAGATAATATGACAGAGTCA
1 CCAGAACAGATAATATGGCAGAGCCA
*
6709966 CCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAA-TATGGCAGAGCCA
6709994 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAATA--TGGCAGAGCCA
* * *
6710021 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TATGGCAGAGCCA
6710048 CCAG
1 CCAG
6710052 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.01
26 7 0.10
27 47 0.64
28 17 0.23
29 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATATGGCAGAGCCA
Found at i:6710031 original size:54 final size:54
Alignment explanation
Indices: 6709940--6710051 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
6709930 AGCATGGCTG
*
6709940 CCAGAACAGATAATATGACAGAGTCACCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATATGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCA
* *
6709994 CCAGAACAGA-AATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATA--TGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCA
6710048 CCAG
1 CCAG
6710052 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
53 4 0.08
54 34 0.64
55 15 0.28
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATATGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCA
Found at i:6711498 original size:24 final size:24
Alignment explanation
Indices: 6711471--6711541 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
6711461 CTAGATTTCC
*
6711471 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCTACTCCTAAATCCTA
6711495 TCCCTTAT-TAACTCCTAAATCCTA
1 TCCCTTATCT-ACTCCTAAATCCTA
*
6711519 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCTACTCCTAAATCCT
6711542 CTCCTGACAG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.02
24 42 0.98
ACGTcount: A:0.25, C:0.37, G:0.01, T:0.37
Consensus pattern (24 bp):
TCCCTTATCTACTCCTAAATCCTA
Found at i:6712638 original size:43 final size:43
Alignment explanation
Indices: 6712574--6712681 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
6712564 TAGTGGCGTT
* *
6712574 TTTTCGAAAAAACGCCTCTAAAGACCATGACCTTTAACGGCAC
1 TTTTCTAAAAAACGCCGCTAAAGACCATGACCTTTAACGGCAC
* * * *
6712617 TTTTTTAAAAAATGCCGCTAAAGATCATGACCTTTAACGGCGC
1 TTTTCTAAAAAACGCCGCTAAAGACCATGACCTTTAACGGCAC
* *
6712660 TTTTCTCACAAACGCCGCTAAA
1 TTTTCTAAAAAACGCCGCTAAA
6712682 AATAATGATC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
TTTTCTAAAAAACGCCGCTAAAGACCATGACCTTTAACGGCAC
Found at i:6713021 original size:17 final size:18
Alignment explanation
Indices: 6712994--6713027 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6712984 ATGCCAAAAT
6712994 GTTGAACTCCATATTCCA
1 GTTGAACTCCATATTCCA
6713012 GTTG-ACTCCATATTCC
1 GTTGAACTCCATATTCC
6713028 CCCACATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (18 bp):
GTTGAACTCCATATTCCA
Found at i:6715775 original size:21 final size:22
Alignment explanation
Indices: 6715751--6715829 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 22
6715741 TCCTAAACCC
6715751 TAAACCCTAAACT-ATATATCT
1 TAAACCCTAAACTCATATATCT
** * *
6715772 TAAACTATAGTTAACTCATAAACCT
1 TAAACCCTA---AACTCATATATCT
6715797 TAAACCCTAAA-TCATATATCT
1 TAAACCCTAAACTCATATATCT
6715818 TAAACCCTAAAC
1 TAAACCCTAAAC
6715830 CTTAAACTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
21 26 0.58
22 2 0.04
24 4 0.09
25 13 0.29
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.30
Consensus pattern (22 bp):
TAAACCCTAAACTCATATATCT
Found at i:6715787 original size:46 final size:46
Alignment explanation
Indices: 6715733--6715822 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
6715723 CTTCAAATAC
*
6715733 TAGTTAACTCCTAAACCCTAAACCCTAAA-CTATATATCTTAAACTA
1 TAGTTAACTCATAAACCCTAAACCCTAAATC-ATATATCTTAAACTA
*
6715779 TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAAC
1 TAGTTAACTCATAAACCCTAAACCCTAAATCATATATCTTAAAC
6715823 CCTAAACCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 40 0.98
47 1 0.02
ACGTcount: A:0.42, C:0.24, G:0.02, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCCTAAACCCTAAATCATATATCTTAAACTA
Found at i:6715880 original size:25 final size:25
Alignment explanation
Indices: 6715846--6715895 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6715836 CTATAATGAT
6715846 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
6715871 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
6715896 TACTATCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (25 bp):
AATTAATTCGATATTTTAAATTCAA
Found at i:6716206 original size:40 final size:41
Alignment explanation
Indices: 6716042--6716231 Score: 265
Period size: 41 Copynumber: 4.6 Consensus size: 41
6716032 TGTTTTGTCG
6716042 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCA
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCA
** *
6716083 AAAGCGCTACTAATGCTCTGGTTTTTAGCGGCGTTTTGCCA
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCA
6716124 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCA
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCA
* * * ** *
6716165 AAAGCACCGCTATTGCTCT-GTTTTTAGTGGCAATTTACCA
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCA
* *
6716205 AAAACGCCGCTATTGCTCTGTGTTTTT
1 AAAGCGCCGCTAATGCTCTG-GTTTTT
6716232 CAATTTTTGC
Statistics
Matches: 133, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 34 0.26
41 93 0.70
42 6 0.05
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (41 bp):
AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCA
Found at i:6718741 original size:46 final size:45
Alignment explanation
Indices: 6718675--6718844 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 45
6718665 GTAACTTGCC
*
6718675 CATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
6718720 CCATAAGTGAACCCGGACTCAACTCAACGAGCTCGGATGCTTAGTT-ACAT
1 -CATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--GC---GTTCGCAT
* * *
6718770 C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
6718813 CATAAGTGAACTCGGACTCAACTCAACGAGCT
1 CATAAGCGAACTCGGACTCAACTCAACGAGCT
6718845 TGGATGCCCA
Statistics
Matches: 104, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 26 0.25
46 32 0.31
47 27 0.26
48 4 0.04
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:6718850 original size:92 final size:93
Alignment explanation
Indices: 6718681--6718851 Score: 290
Period size: 92 Copynumber: 1.8 Consensus size: 93
6718671 TGCCCATAAG
* * *
6718681 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACCCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCA
6718746 ACGAGCTCGGATGCTTAGTTACATCTCA
66 ACGAGCTCGGATGCTTAGTTACATCTCA
*
6718774 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT-CATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCA
*
6718838 ACGAGCTTGGATGC
66 ACGAGCTCGGATGC
6718852 CCAAATATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 37 0.51
93 36 0.49
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCA
ACGAGCTCGGATGCTTAGTTACATCTCA
Found at i:6722889 original size:337 final size:337
Alignment explanation
Indices: 6722274--6722951 Score: 1266
Period size: 337 Copynumber: 2.0 Consensus size: 337
6722264 TTATTGGGAT
6722274 CAACCTGTATACCATCACCTGAAACAATATGACATAAGAATCCAACTTCTCGAAGCCAAAGCTCA
1 CAACCTGTATACCATCACCTGAAACAATATGACATAAGAATCCAACTTCTCGAAGCCAAAGCTCA
*
6722339 CTTTTACTGAACTTGGCATACAACTGTTTATCTCTCAGAATTTGCAAGACTATCCTCAAGTGCTC
66 CTTTTACTAAACTTGGCATACAACTGTTTATCTCTCAGAATTTGCAAGACTATCCTCAAGTGCTC
* * * *
6722404 AGCATATTTTGCCTTGTTCTTCTAATAAATCAAGTTATTGTCAATAAATACCACAACAAACTTGT
131 AGCATATTCTGCCTCGTTCTTCGAATAAATCAAGTTATCGTCAATAAATACCACAACAAACTTGT
6722469 CCAAATATGGTCAAAATATTCGATTTATCAAATCCATAAACACAGCAGGAGCATTTGTCAACCCG
196 CCAAATATGGTCAAAATATTCGATTTATCAAATCCATAAACACAGCAGGAGCATTTGTCAACCCG
* *
6722534 AATGGCATAACTAAGAATTCATAATGGCTGTACCTTGTTCTAAAAGCAGTTTTAGGCACATCTGA
261 AATGACATAACTAAGAATTCATAATGGCCGTACCTTGTTCTAAAAGCAGTTTTAGGCACATCTGA
*
6722599 TTCTTTCACCTG
326 TTCTTTCACCCG
6722611 CAACCTGTATACCATCACCTGAAACAATATGACATAAGAATCCAACTTCTCGAAGCCAAAGCTCA
1 CAACCTGTATACCATCACCTGAAACAATATGACATAAGAATCCAACTTCTCGAAGCCAAAGCTCA
6722676 CTTTTACTAAACTTGGCATACAACTGTTTATCTCTCAGAATTTGCAAGACTATCCTCAAGTGCTC
66 CTTTTACTAAACTTGGCATACAACTGTTTATCTCTCAGAATTTGCAAGACTATCCTCAAGTGCTC
*
6722741 AGCATGTTCTGCCTCGTTCTTCGAATAAATCAAGTTATCGTCAATAAATACCACAACAAACTTGT
131 AGCATATTCTGCCTCGTTCTTCGAATAAATCAAGTTATCGTCAATAAATACCACAACAAACTTGT
*
6722806 CCAAATATGGTCAGAATATTCGATTTATCAAATCCATAAACACAGCAGGAGCATTTGTCAACCCG
196 CCAAATATGGTCAAAATATTCGATTTATCAAATCCATAAACACAGCAGGAGCATTTGTCAACCCG
6722871 AATGACATAACTAAGAATTCATAATGGCCGTACCTTGTTCTAAAAGCAGTTTTAGGCACATCTGA
261 AATGACATAACTAAGAATTCATAATGGCCGTACCTTGTTCTAAAAGCAGTTTTAGGCACATCTGA
6722936 TTCTTTCACCCG
326 TTCTTTCACCCG
6722948 CAAC
1 CAAC
6722952 TGGTAGTACC
Statistics
Matches: 331, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
337 331 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (337 bp):
CAACCTGTATACCATCACCTGAAACAATATGACATAAGAATCCAACTTCTCGAAGCCAAAGCTCA
CTTTTACTAAACTTGGCATACAACTGTTTATCTCTCAGAATTTGCAAGACTATCCTCAAGTGCTC
AGCATATTCTGCCTCGTTCTTCGAATAAATCAAGTTATCGTCAATAAATACCACAACAAACTTGT
CCAAATATGGTCAAAATATTCGATTTATCAAATCCATAAACACAGCAGGAGCATTTGTCAACCCG
AATGACATAACTAAGAATTCATAATGGCCGTACCTTGTTCTAAAAGCAGTTTTAGGCACATCTGA
TTCTTTCACCCG
Found at i:6726637 original size:46 final size:46
Alignment explanation
Indices: 6726570--6726698 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
6726560 TGTAACCCGC
* * *
6726570 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
6726616 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
6726662 CCACAAGTGAACTTGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
6726699 TGCCCAAATA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:6729059 original size:21 final size:21
Alignment explanation
Indices: 6729033--6729073 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6729023 TAACGGGACT
6729033 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGGCAAGTTAACTA
*
6729054 GCTGATGTGGCCAGTTAACT
1 GCTGATGTGGCAAGTTAACT
6729074 TGCCACATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACTA
Found at i:6729154 original size:3 final size:3
Alignment explanation
Indices: 6729148--6729181 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
6729138 TTAATAATAG
*
6729148 AGA AGA AGA AGA AGA AGA AGAA AGA AGG AGA AGA
1 AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA
6729182 GAAAGTGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6731586 original size:26 final size:26
Alignment explanation
Indices: 6731557--6731626 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
6731547 AATGAACTTC
6731557 AAAACAAGTATTATACAAAGA-AATTT
1 AAAACAAGTATTATACAAA-ACAATTT
** * *
6731583 AAAATTAGTGTTACACAAAACAATTT
1 AAAACAAGTATTATACAAAACAATTT
6731609 AAAACCAAG-ATTTATACA
1 AAAA-CAAGTA-TTATACA
6731627 TCAAAATATA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
25 1 0.03
26 24 0.73
27 8 0.24
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.27
Consensus pattern (26 bp):
AAAACAAGTATTATACAAAACAATTT
Found at i:6732468 original size:6 final size:6
Alignment explanation
Indices: 6732437--6732521 Score: 59
Period size: 6 Copynumber: 13.8 Consensus size: 6
6732427 AAGAAACATT
* * *
6732437 ATCAGA A-CTAGA ACCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
6732486 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAG
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAG
6732522 TATTAGGTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 50 0.81
7 6 0.10
8 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:6732482 original size:25 final size:25
Alignment explanation
Indices: 6732451--6732521 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
6732441 GAACTAGAAC
* *
6732451 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
6732476 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
6732501 CAGAATCAAAATCAGAATCAG
1 CAGAATCAGAATCAGAATCAG
6732522 TATTAGGTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:6732489 original size:31 final size:30
Alignment explanation
Indices: 6732446--6732537 Score: 95
Period size: 31 Copynumber: 3.2 Consensus size: 30
6732436 TATCAGAACT
* *
6732446 AGAACCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAG-ATTAGGTAAC
*
6732477 AGAATCAGAATCAG--T---ATCAGGTAAC
1 AGAATCAGAATCAGAATCAGATTAGGTAAC
*
6732502 AGAATCAAAATCAGAATCAGTATTAGGTAAC
1 AGAATCAGAATCAGAATCAG-ATTAGGTAAC
6732533 AGAAT
1 AGAAT
6732538 AAAAAATCAG
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
25 21 0.42
27 1 0.02
29 1 0.02
31 27 0.54
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGATTAGGTAAC
Found at i:6732730 original size:27 final size:26
Alignment explanation
Indices: 6732687--6732788 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 26
6732677 GCTCAGTTAC
* *
6732687 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
6732714 CAGATATTGTGGTAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
6732740 CAGATATTTATGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
*
6732768 CAGATAATGTGGCTA-AGCCAC
1 CAGATATTGTGGC-AGAGCCAC
6732789 TTAAAAAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.11
27 48 0.75
28 9 0.14
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:6732975 original size:22 final size:22
Alignment explanation
Indices: 6732947--6733011 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
6732937 GCAAATACGT
*
6732947 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
6732969 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
6732991 TTGACACAAAGCTATAATCAG
1 TTGGCACAAAGCCATAATCAG
6733012 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:6733496 original size:27 final size:27
Alignment explanation
Indices: 6733438--6734116 Score: 1022
Period size: 27 Copynumber: 25.3 Consensus size: 27
6733428 GGGGCAAAAT
* * * *
6733438 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
6733464 GATAATTCCACCCTACAGTGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6733491 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
6733518 GGTAATTCTACCCTACATGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
6733545 GATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6733572 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6733599 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6733626 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6733653 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
6733680 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6733707 GGTAATTCTACCCTATA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
6733733 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
6733760 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6733787 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
6733814 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6733841 GGTAATTCTACCCTATA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
6733867 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6733894 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
6733921 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6733948 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
6733975 GATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
6734002 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
6734029 GATAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6734056 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
6734083 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
6734110 GGTAATT
1 GGTAATT
6734117 TTGTAAATCG
Statistics
Matches: 596, Mismatches: 54, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
26 61 0.10
27 535 0.90
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:6734167 original size:27 final size:26
Alignment explanation
Indices: 6734098--6734501 Score: 98
Period size: 27 Copynumber: 15.0 Consensus size: 26
6734088 TTCTACCCTA
6734098 CAAGGGTATTTCGGTAATTTTGTAAAT
1 CAAGGGTATTT-GGTAATTTTGTAAAT
* *** *
6734125 CGAGGGTAAAACGGTAGTTTTGTAAAT
1 CAAGGGT-ATTTGGTAATTTTGTAAAT
** *
6734152 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTA-TTTGGTAATTTTGTAAAT
* ** ** **
6734179 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTT-GGTAATTTTGTAAAT
* ** ***
6734206 CGAGGGTATTTCAATAATTTCACAAAT
1 CAAGGGTATTT-GGTAATTTTGTAAAT
**
6734233 C-AGGGATATTTTGGTAATTTTACAAA-
1 CAAGGG-TA-TTTGGTAATTTTGTAAAT
* * **
6734259 CTAGGGGTATTTTGATAATTTTACAAA-
1 C-AAGGGTA-TTTGGTAATTTTGTAAAT
* * ** *
6734286 CTAGGGGTATTTTTGTAATTTTACAAAC
1 C-AAGGGTA-TTTGGTAATTTTGTAAAT
* *
6734314 CAGGGGTATTTTGGTAATTTTATAAA-
1 CAAGGGTA-TTTGGTAATTTTGTAAAT
** * **
6734340 CAAAGTTTATTTTAGTAATTTTACAAA-
1 C-AAGGGTA-TTTGGTAATTTTGTAAAT
* *
6734367 CTAGGGGTATTTTGGTAATTTTGTAAAC
1 C-AAGGGTA-TTTGGTAATTTTGTAAAT
** *
6734395 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTA-TTTGGTAATTTTGTAAAT
* * * *
6734422 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTA-TTTGGTAATTTTGTAAAT
* * ** *
6734449 CAATGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTA-TTTGGTAATTTTGTAAAT
* *
6734476 CAGGGGTATTTTGGTAATTTGGTAAA
1 CAAGGGTA-TTTGGTAATTTTGTAAA
6734502 CTAAAGTATT
Statistics
Matches: 309, Mismatches: 58, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
26 10 0.03
27 290 0.94
28 9 0.03
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (26 bp):
CAAGGGTATTTGGTAATTTTGTAAAT
Found at i:6734294 original size:81 final size:80
Alignment explanation
Indices: 6734154--6734495 Score: 348
Period size: 81 Copynumber: 4.2 Consensus size: 80
6734144 TTGTAAATCA
* * * ** ** *
6734154 AGGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTAC-AGGTCGAGGGTATTT
1 AGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACTAG-GGGTATTT
* * * *
6734217 CAATAATTTCACAAATC
64 TAGTAATTTTACAAACC
6734234 AGGGATATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTT
1 AGGG-TATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTT
*
6734299 TGTAATTTTACAAACC
65 AGTAATTTTACAAACC
* * * **
6734315 AGGGGTATTTTGGTAATTTTATAAACAAAGTTTATTTT-AGTAATTTTACAAACTAGGGGTATTT
1 A-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGA-TAATTTTACAAACTAGGGGTATTT
* **
6734379 TGGTAATTTTGTAAACC
64 TAGTAATTTTACAAACC
* * * * * **
6734396 AAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAATGGTATTTT
1 -AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTT
6734461 AGTAATTTTACAAACC
65 AGTAATTTTACAAACC
6734477 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTTGGTAATTT
6734496 GGTAAACTAA
Statistics
Matches: 219, Mismatches: 35, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
80 6 0.03
81 202 0.92
82 11 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTA
GTAATTTTACAAACC
Found at i:6734402 original size:108 final size:108
Alignment explanation
Indices: 6734239--6734502 Score: 404
Period size: 108 Copynumber: 2.4 Consensus size: 108
6734229 AAATCAGGGA
* * ** * * *
6734239 TATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTTGTAA
1 TATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAA
*
6734304 TTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA-GTT
66 TTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAATG-G
6734347 TATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAA
1 TATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAA
* *
6734412 TTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAATGG
66 TTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAATGG
* *
6734455 TATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
1 TATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAAC
6734503 TAAAGTATTC
Statistics
Matches: 143, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
108 142 0.99
109 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (108 bp):
TATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAA
TTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAATGG
Found at i:6734502 original size:27 final size:27
Alignment explanation
Indices: 6734220--6734495 Score: 354
Period size: 27 Copynumber: 10.2 Consensus size: 27
6734210 GGTATTTCAA
* * *
6734220 TAATTTCACAAATCAGGGATATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
6734247 TAATTTTACAAACTAGGGGTATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
6734274 TAATTTTACAAACTAGGGGTATTTTTG
1 TAATTTTACAAACCAGGGGTATTTTGG
6734301 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * ** *
6734328 TAATTTTATAAACAAAGTTTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
6734355 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
** *
6734382 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
6734409 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * ** *
6734436 TGATTTTATAAACCAATGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
6734463 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
6734490 TAATTT
1 TAATTT
6734496 GGTAAACTAA
Statistics
Matches: 211, Mismatches: 38, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 211 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:6752705 original size:12 final size:12
Alignment explanation
Indices: 6752688--6752712 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6752678 TTGTGTGTTC
6752688 TTTATTTTATTT
1 TTTATTTTATTT
6752700 TTTATTTTATTT
1 TTTATTTTATTT
6752712 T
1 T
6752713 ATTTTTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:6758128 original size:59 final size:61
Alignment explanation
Indices: 6758055--6758178 Score: 198
Period size: 59 Copynumber: 2.1 Consensus size: 61
6758045 CATTCATACT
* *
6758055 AAATTAATAAAATATTATCTAAATAAATATTAAGTTAAATTT-A-ATCTCATATTAATATC
1 AAATTAATAAAATATTATCTAAATAAATATTAAATTAAATTTAATATCTAATATTAATATC
* *
6758114 AAATTAATAAAATATTATCTAAATAAATATTAAATTTAATTTAATATCTAATATTAATATT
1 AAATTAATAAAATATTATCTAAATAAATATTAAATTAAATTTAATATCTAATATTAATATC
6758175 AAAT
1 AAAT
6758179 ACTATCAGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
59 40 0.68
60 1 0.02
61 18 0.31
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (61 bp):
AAATTAATAAAATATTATCTAAATAAATATTAAATTAAATTTAATATCTAATATTAATATC
Found at i:6759632 original size:23 final size:23
Alignment explanation
Indices: 6759602--6759646 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6759592 ACTGCATACA
*
6759602 TATATTTTTTATT-CTTTAATCTT
1 TATA-TTTTCATTACTTTAATCTT
6759625 TATATTTTCATTACTTTAATCT
1 TATATTTTCATTACTTTAATCT
6759647 CCATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.64
Consensus pattern (23 bp):
TATATTTTCATTACTTTAATCTT
Found at i:6760052 original size:21 final size:20
Alignment explanation
Indices: 6760026--6760069 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
6760016 TAACACCAAT
6760026 TAAATA-ATAATTAATTTAAAA
1 TAAATATATAA-TAA-TTAAAA
6760047 TAAATATTATAATAATTAAAA
1 TAAATA-TATAATAATTAAAA
6760068 TA
1 TA
6760070 TTTTTTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 14 0.67
22 3 0.14
23 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAATATATAATAATTAAAA
Found at i:6769261 original size:15 final size:15
Alignment explanation
Indices: 6769220--6769262 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
6769210 AATTATATTG
6769220 TAGTCACTTACGTTT
1 TAGTCACTTACGTTT
* * *
6769235 GAAT-AATTACGTTT
1 TAGTCACTTACGTTT
6769249 TAGTCACTTACGTT
1 TAGTCACTTACGTT
6769263 ATCGTTTTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (15 bp):
TAGTCACTTACGTTT
Found at i:6773096 original size:29 final size:30
Alignment explanation
Indices: 6773053--6773111 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
6773043 AAATTGGATC
6773053 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
*
6773083 AAATCAAAA-TTCATGTATACAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
6773112 TTAAACCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:6774266 original size:14 final size:14
Alignment explanation
Indices: 6774249--6774275 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6774239 AAAAATTTGG
6774249 AATAAAATAATAAT
1 AATAAAATAATAAT
6774263 AATAAAATAATAA
1 AATAAAATAATAA
6774276 GATCTGATAA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:6775852 original size:26 final size:26
Alignment explanation
Indices: 6775806--6775858 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6775796 TCAAACATGC
*
6775806 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
6775832 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
6775858 A
1 A
6775859 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:6777375 original size:26 final size:26
Alignment explanation
Indices: 6777344--6777451 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
6777334 TGAAATTCCC
*
6777344 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
6777370 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
6777396 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
6777422 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6777448 ATCA
1 ATCA
6777452 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6778213 original size:26 final size:25
Alignment explanation
Indices: 6778152--6778228 Score: 75
Period size: 26 Copynumber: 3.1 Consensus size: 25
6778142 TTATATGGCT
* *
6778152 CTTTTTGGAGCTTCCTGTTTAAAGG
1 CTTTTTGGAGCTTCCCGTTTAATGG
* ***
6778177 CTCTCCAGAGCTTCCCGATTTAATGG
1 CTTTTTGGAGCTTCCCG-TTTAATGG
*
6778203 CTTTTTGGAGCTACCCG-TTAATGG
1 CTTTTTGGAGCTTCCCGTTTAATGG
6778227 CT
1 CT
6778229 CACATGAGTT
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
24 9 0.22
25 12 0.30
26 19 0.47
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (25 bp):
CTTTTTGGAGCTTCCCGTTTAATGG
Found at i:6788927 original size:26 final size:26
Alignment explanation
Indices: 6788898--6788979 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
6788888 TGGTACAAAT
*
6788898 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
6788924 TGATAATGGATTAAGTAAACGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
6788950 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
6788976 TGAT
1 TGAT
6788980 GGCATTTCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:6790170 original size:8 final size:8
Alignment explanation
Indices: 6790157--6790186 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
6790147 AGATAGGCAC
6790157 AAGCCGAA
1 AAGCCGAA
6790165 AAGCCGAA
1 AAGCCGAA
*
6790173 ATGCCGAA
1 AAGCCGAA
6790181 AAGCCG
1 AAGCCG
6790187 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:6790699 original size:27 final size:27
Alignment explanation
Indices: 6790602--6790706 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
6790592 AGGAAGCGTC
*
6790602 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
6790629 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
6790656 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
6790683 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
6790707 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:6794790 original size:16 final size:15
Alignment explanation
Indices: 6794764--6794798 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
6794754 TGATGTGAAT
6794764 AATATAAAATATTAA
1 AATATAAAATATTAA
*
6794779 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
6794795 AATA
1 AATA
6794799 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:6794987 original size:20 final size:21
Alignment explanation
Indices: 6794945--6794987 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
6794935 CCTTTTTTAG
* *
6794945 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
6794966 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
6794986 AA
1 AA
6794988 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:6795204 original size:11 final size:11
Alignment explanation
Indices: 6795188--6795217 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6795178 TAACATTAAG
6795188 AATATATATAT
1 AATATATATAT
*
6795199 AATATAAATAT
1 AATATATATAT
6795210 AATATATA
1 AATATATA
6795218 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:6795691 original size:13 final size:13
Alignment explanation
Indices: 6795643--6795695 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
6795633 AAAAAATGTA
6795643 ATTTTTTT-TTAT
1 ATTTTTTTATTAT
*
6795655 ATTTGTTTTGTATAT
1 ATTT-TTTTAT-TAT
*
6795670 ATATTTTTATTAT
1 ATTTTTTTATTAT
6795683 ATTTTTTTATTAT
1 ATTTTTTTATTAT
6795696 GATGTATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 4 0.11
13 19 0.54
14 6 0.17
15 6 0.17
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (13 bp):
ATTTTTTTATTAT
Found at i:6795761 original size:17 final size:17
Alignment explanation
Indices: 6795741--6795779 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
6795731 GAAAAAATAA
*
6795741 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
6795758 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
6795775 AAAAT
1 AAAAT
6795780 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:6796028 original size:24 final size:21
Alignment explanation
Indices: 6795994--6796046 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
6795984 AGGGTTTCTT
**
6795994 GGTTTTTTTTTTGGGGAGGTTA
1 GGTTTTTTTTTTTTGG-GGTTA
6796016 GGTTTTTTTTTTTTGGGGTTA
1 GGTTTTTTTTTTTTGGGGTTA
6796037 GGTTTTTTTT
1 GGTTTTTTTT
6796047 GGGGGGACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.06, C:0.00, G:0.30, T:0.64
Consensus pattern (21 bp):
GGTTTTTTTTTTTTGGGGTTA
Found at i:6798960 original size:26 final size:26
Alignment explanation
Indices: 6798914--6798966 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6798904 TCAAACATGC
*
6798914 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
6798940 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
6798966 A
1 A
6798967 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:6800483 original size:26 final size:26
Alignment explanation
Indices: 6800452--6800559 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
6800442 TGAAATACCC
6800452 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
6800478 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
* *
6800504 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
6800530 ATCATGGGACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
6800556 ATCA
1 ATCA
6800560 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
25 3 0.04
26 70 0.93
27 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:6805434 original size:12 final size:12
Alignment explanation
Indices: 6805417--6805447 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6805407 AGTACTACCT
6805417 CGGCCTCGACCA
1 CGGCCTCGACCA
6805429 CGGCCTCGACCA
1 CGGCCTCGACCA
*
6805441 TGGCCTC
1 CGGCCTC
6805448 TTCCCCGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.48, G:0.26, T:0.13
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:6807085 original size:24 final size:26
Alignment explanation
Indices: 6807049--6807097 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
6807039 TCAAACATGC
6807049 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
6807074 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
6807098 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:6808619 original size:26 final size:26
Alignment explanation
Indices: 6808583--6808690 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
6808573 TGAAATGCCA
6808583 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
6808609 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
6808635 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
6808661 ATCATGGAACATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
6808687 ATCA
1 ATCA
6808691 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 2 0.03
26 74 0.97
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:6809248 original size:22 final size:22
Alignment explanation
Indices: 6809220--6809266 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
6809210 CGTATTAATG
6809220 ATAGTTAAATTGATAATATGCT
1 ATAGTTAAATTGATAATATGCT
6809242 ATAGTTAAATTGATAATATGCT
1 ATAGTTAAATTGATAATATGCT
6809264 ATA
1 ATA
6809267 TTGTGTTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.40
Consensus pattern (22 bp):
ATAGTTAAATTGATAATATGCT
Found at i:6815501 original size:56 final size:56
Alignment explanation
Indices: 6815415--6815527 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
6815405 AAACAGTCTC
* *
6815415 ATTGTTAAGTTGGACAAAACTACCTTCATCTCCTCCTTCTATTGGAGCTCTAATAG
1 ATTGTTAAGTTAGACAAAACTACCTTCATCTCCTCCCTCTATTGGAGCTCTAATAG
6815471 ATTGTTAAGTTAGACAAAACTACCTTCATCTCCTCCCTCTATTGGAGCTCTAATAG
1 ATTGTTAAGTTAGACAAAACTACCTTCATCTCCTCCCTCTATTGGAGCTCTAATAG
6815527 A
1 A
6815528 AGGTCATTAC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (56 bp):
ATTGTTAAGTTAGACAAAACTACCTTCATCTCCTCCCTCTATTGGAGCTCTAATAG
Found at i:6815804 original size:123 final size:124
Alignment explanation
Indices: 6815581--6815940 Score: 473
Period size: 123 Copynumber: 2.9 Consensus size: 124
6815571 ACATCTGTCA
* * * *
6815581 AAATCTTAGTCCTTCAATTAGTAAAGTTGTC-AAACTTTATTTATGTATTTTTATATAGTTTGTC
1 AAATCTCAGCCCTTCAATTAGTAAAGTT-TCTAAACTTTATTAATGTATTTTTATATATTTTGTC
* *
6815645 ---TTTGACAAAAGTACCTTCATCTCCTCCTTCTATTGGAGCTCCAATAGAAGTTCATTAC
65 AAGTTTGACAAAAATACCTTCATCTCCT-CTTCTATTGGAGCTCCAATAGAAGGTCATTAC
* *
6815703 AAATCTCAGCCCTTCAATTAGTAAAGTTTACTAGACTTTATTAATGTGTTTTTATATATTTTGTC
1 AAATCTCAGCCCTTCAATTAGTAAAGTTT-CTAAACTTTATTAATGTATTTTTATATATTTTGTC
* * * * *
6815768 AAGTTTGAGAAAAATACCTTTATCT-CT-TTCTGTTGGAGCTCCAACAGAAGGTCTTTAC
65 AAGTTTGACAAAAATACCTTCATCTCCTCTTCTATTGGAGCTCCAATAGAAGGTCATTAC
* *
6815826 AAATCTCAGCCCTTCAATTGGTAAAGATTGT-TAAACTTTATTAATGTATTTTTATGTATTTTGT
1 AAATCTCAGCCCTTCAATTAGTAAAG-TT-TCTAAACTTTATTAATGTATTTTTATATATTTTGT
*
6815890 CAAGTTTGACAAAAATACCTTCATCTCCTCCTTCTATTGAAGCTCCAATAG
64 CAAGTTTGACAAAAATACCTTCATCTCCT-CTTCTATTGGAGCTCCAATAG
6815941 GAGTACTCTT
Statistics
Matches: 206, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
121 1 0.00
122 27 0.13
123 135 0.66
124 4 0.02
125 3 0.01
126 36 0.17
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (124 bp):
AAATCTCAGCCCTTCAATTAGTAAAGTTTCTAAACTTTATTAATGTATTTTTATATATTTTGTCA
AGTTTGACAAAAATACCTTCATCTCCTCTTCTATTGGAGCTCCAATAGAAGGTCATTAC
Found at i:6817389 original size:27 final size:27
Alignment explanation
Indices: 6817338--6817496 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
6817328 GCGAGGCTGC
* *
6817338 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
6817365 CAGATATTGTGGCAGAGCCATCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
6817391 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
6817418 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
6817445 CAAATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
6817472 CAGATAATTGTGACATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
6817497 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:6817431 original size:54 final size:54
Alignment explanation
Indices: 6817356--6817496 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
6817346 GTGACGAAGT
* * *
6817356 CACCAGATACAGAT-ATTGTGGCAGAGCCATCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGC
*
6817410 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAAATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGC
* * *
6817464 CACCAGATCAGATAATTGTGACATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCAGAGCCACCAG
6817497 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGC
Found at i:6819121 original size:26 final size:26
Alignment explanation
Indices: 6819091--6819172 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
6819081 TGAAATTCCC
6819091 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6819117 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6819143 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6819169 ATCA
1 ATCA
6819173 ATTTTTTATC
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:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6824992 original size:23 final size:24
Alignment explanation
Indices: 6824941--6824997 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
6824931 TTATTTTTAA
*
6824941 CTTTATATTGTGTATCGTATATGT
1 CTTTATATTGTGTATCGTATATAT
*
6824965 TTTTATATATGT-TAT-GTATATAT
1 CTTTATAT-TGTGTATCGTATATAT
6824988 CTTTAGTATT
1 CTTTA-TATT
6824998 ATTAGTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 12 0.43
24 13 0.46
25 3 0.11
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (24 bp):
CTTTATATTGTGTATCGTATATAT
Found at i:6825358 original size:21 final size:21
Alignment explanation
Indices: 6825334--6825387 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
6825324 ATACTATTAT
* *
6825334 TATATTTATTTTTATTCCTAG
1 TATATTTATTTTTAATACTAG
* *
6825355 TATATTTATTATTAATATTAG
1 TATATTTATTTTTAATACTAG
*
6825376 TATATGTATTTT
1 TATATTTATTTT
6825388 ATTGTAAAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (21 bp):
TATATTTATTTTTAATACTAG
Found at i:6826496 original size:56 final size:56
Alignment explanation
Indices: 6826410--6826522 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
6826400 AAACAGTCTC
*
6826410 ATTGTTAAGTTGGACAAAACTACCTTCATCTCCTCCTTCTATTGGAGCTCTAATAG
1 ATTGTTAAGTTAGACAAAACTACCTTCATCTCCTCCTTCTATTGGAGCTCTAATAG
6826466 ATTGTTAAGTTAGACAAAACTACCTTCATCTCCTCCTTCTATTGGAGCTCTAATAG
1 ATTGTTAAGTTAGACAAAACTACCTTCATCTCCTCCTTCTATTGGAGCTCTAATAG
6826522 A
1 A
6826523 AGGTCATTAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (56 bp):
ATTGTTAAGTTAGACAAAACTACCTTCATCTCCTCCTTCTATTGGAGCTCTAATAG
Found at i:6826799 original size:123 final size:124
Alignment explanation
Indices: 6826576--6826935 Score: 473
Period size: 123 Copynumber: 2.9 Consensus size: 124
6826566 ACATCTGTCA
* * * *
6826576 AAATCTTAGTCCTTCAATTAGTAAAGTTGTC-AAACTTTATTTATGTATTTTTATATAGTTTGTC
1 AAATCTCAGCCCTTCAATTAGTAAAGTT-TCTAAACTTTATTAATGTATTTTTATATATTTTGTC
* *
6826640 ---TTTGACAAAAGTACCTTCATCTCCTCCTTCTATTGGAGCTCCAATAGAAGTTCATTAC
65 AAGTTTGACAAAAATACCTTCATCTCCT-CTTCTATTGGAGCTCCAATAGAAGGTCATTAC
* *
6826698 AAATCTCAGCCCTTCAATTAGTAAAGTTTACTAGACTTTATTAATGTGTTTTTATATATTTTGTC
1 AAATCTCAGCCCTTCAATTAGTAAAGTTT-CTAAACTTTATTAATGTATTTTTATATATTTTGTC
* * * * *
6826763 AAGTTTGAGAAAAATACCTTTATCT-CT-TTCTGTTGGAGCTCCAACAGAAGGTCTTTAC
65 AAGTTTGACAAAAATACCTTCATCTCCTCTTCTATTGGAGCTCCAATAGAAGGTCATTAC
* *
6826821 AAATCTCAGCCCTTCAATTGGTAAAGATTGT-TAAACTTTATTAATGTATTTTTATGTATTTTGT
1 AAATCTCAGCCCTTCAATTAGTAAAG-TT-TCTAAACTTTATTAATGTATTTTTATATATTTTGT
*
6826885 CAAGTTTGACAAAAATACCTTCATCTCCTCCTTCTATTGAAGCTCCAATAG
64 CAAGTTTGACAAAAATACCTTCATCTCCT-CTTCTATTGGAGCTCCAATAG
6826936 GAGTACTCTT
Statistics
Matches: 206, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
121 1 0.00
122 27 0.13
123 135 0.66
124 4 0.02
125 3 0.01
126 36 0.17
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (124 bp):
AAATCTCAGCCCTTCAATTAGTAAAGTTTCTAAACTTTATTAATGTATTTTTATATATTTTGTCA
AGTTTGACAAAAATACCTTCATCTCCTCTTCTATTGGAGCTCCAATAGAAGGTCATTAC
Found at i:6828383 original size:27 final size:27
Alignment explanation
Indices: 6828332--6828490 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
6828322 GCGAGGCTGC
* *
6828332 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
6828359 CAGATATTGTGGCAGAGCCATCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
6828385 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
6828412 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
6828439 CAAATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
6828466 CAGATAATTGTGACATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
6828491 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:6828425 original size:54 final size:54
Alignment explanation
Indices: 6828350--6828490 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
6828340 GTGACGAAGT
* * *
6828350 CACCAGATACAGAT-ATTGTGGCAGAGCCATCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGC
*
6828404 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAAATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGC
* * *
6828458 CACCAGATCAGATAATTGTGACATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCAGAGCCACCAG
6828491 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGC
Found at i:6828658 original size:28 final size:26
Alignment explanation
Indices: 6828596--6828658 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
6828586 AAAGTAACCC
** * *
6828596 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
6828622 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
6828650 TAGGGGTAT
1 TAGGGGTAT
6828659 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:6830122 original size:26 final size:26
Alignment explanation
Indices: 6830092--6830173 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
6830082 TGAAATTCCC
*
6830092 ATCATGGTACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6830118 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6830144 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6830170 ATCA
1 ATCA
6830174 ATTTTTTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6833119 original size:21 final size:20
Alignment explanation
Indices: 6833095--6833143 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
6833085 GTTTTAAATT
6833095 TTTAAATAAATCAAAAAATAC
1 TTTAAA-AAATCAAAAAATAC
**
6833116 TTTAAAAAATTTAAAAATA-
1 TTTAAAAAATCAAAAAATAC
*
6833135 TATAAAAAA
1 TTTAAAAAA
6833144 AATTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.32
20 11 0.44
21 6 0.24
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
TTTAAAAAATCAAAAAATAC
Found at i:6835988 original size:23 final size:24
Alignment explanation
Indices: 6835937--6835993 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
6835927 TTATTTTTAA
*
6835937 CTTTATATTGTGTATCGTATATGT
1 CTTTATATTGTGTATCGTATATAT
*
6835961 TTTTATATATGT-TAT-GTATATAT
1 CTTTATAT-TGTGTATCGTATATAT
6835984 CTTTAGTATT
1 CTTTA-TATT
6835994 ATTAGTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 12 0.43
24 13 0.46
25 3 0.11
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (24 bp):
CTTTATATTGTGTATCGTATATAT
Found at i:6836368 original size:21 final size:20
Alignment explanation
Indices: 6836318--6836376 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
6836308 TATCATATAT
*
6836318 ATACTATTATATTTATTTTA
1 ATACTAGTATATTTATTTTA
* *
6836338 TTCCTAGTATATTTATTATTA
1 ATACTAGTATATTTATT-TTA
* *
6836359 ATATTAGTATATGTATTT
1 ATACTAGTATATTTATTT
6836377 ATTGTAAAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
ATACTAGTATATTTATTTTA
Found at i:6837481 original size:56 final size:56
Alignment explanation
Indices: 6837395--6837507 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
6837385 AAACAGTCTC
*
6837395 ATTGTTAAGTTGGACAAAACTACCTTCATCTCCTCCTTCTATTGGAGCTCTAATAG
1 ATTGTTAAGTTAGACAAAACTACCTTCATCTCCTCCTTCTATTGGAGCTCTAATAG
6837451 ATTGTTAAGTTAGACAAAACTACCTTCATCTCCTCCTTCTATTGGAGCTCTAATAG
1 ATTGTTAAGTTAGACAAAACTACCTTCATCTCCTCCTTCTATTGGAGCTCTAATAG
6837507 A
1 A
6837508 AGGTCATTAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (56 bp):
ATTGTTAAGTTAGACAAAACTACCTTCATCTCCTCCTTCTATTGGAGCTCTAATAG
Found at i:6837784 original size:123 final size:124
Alignment explanation
Indices: 6837561--6837920 Score: 473
Period size: 123 Copynumber: 2.9 Consensus size: 124
6837551 ACATCTGTCA
* * * *
6837561 AAATCTTAGTCCTTCAATTAGTAAAGTTGTC-AAACTTTATTTATGTATTTTTATATAGTTTGTC
1 AAATCTCAGCCCTTCAATTAGTAAAGTT-TCTAAACTTTATTAATGTATTTTTATATATTTTGTC
* *
6837625 ---TTTGACAAAAGTACCTTCATCTCCTCCTTCTATTGGAGCTCCAATAGAAGTTCATTAC
65 AAGTTTGACAAAAATACCTTCATCTCCT-CTTCTATTGGAGCTCCAATAGAAGGTCATTAC
* *
6837683 AAATCTCAGCCCTTCAATTAGTAAAGTTTACTAGACTTTATTAATGTGTTTTTATATATTTTGTC
1 AAATCTCAGCCCTTCAATTAGTAAAGTTT-CTAAACTTTATTAATGTATTTTTATATATTTTGTC
* * * * *
6837748 AAGTTTGAGAAAAATACCTTTATCT-CT-TTCTGTTGGAGCTCCAACAGAAGGTCTTTAC
65 AAGTTTGACAAAAATACCTTCATCTCCTCTTCTATTGGAGCTCCAATAGAAGGTCATTAC
* *
6837806 AAATCTCAGCCCTTCAATTGGTAAAGATTGT-TAAACTTTATTAATGTATTTTTATGTATTTTGT
1 AAATCTCAGCCCTTCAATTAGTAAAG-TT-TCTAAACTTTATTAATGTATTTTTATATATTTTGT
*
6837870 CAAGTTTGACAAAAATACCTTCATCTCCTCCTTCTATTGAAGCTCCAATAG
64 CAAGTTTGACAAAAATACCTTCATCTCCT-CTTCTATTGGAGCTCCAATAG
6837921 GAGTACTCTT
Statistics
Matches: 206, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
121 1 0.00
122 27 0.13
123 135 0.66
124 4 0.02
125 3 0.01
126 36 0.17
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (124 bp):
AAATCTCAGCCCTTCAATTAGTAAAGTTTCTAAACTTTATTAATGTATTTTTATATATTTTGTCA
AGTTTGACAAAAATACCTTCATCTCCTCTTCTATTGGAGCTCCAATAGAAGGTCATTAC
Found at i:6839365 original size:27 final size:27
Alignment explanation
Indices: 6839314--6839472 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
6839304 GCGAGGCTGC
* *
6839314 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
6839341 CAGATATTGTGGCAGAGCCATCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
6839367 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
6839394 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
6839421 CAAATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
6839448 CAGATAATTGTGACATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
6839473 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:6839407 original size:54 final size:54
Alignment explanation
Indices: 6839332--6839472 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
6839322 GTGACGAAGT
* * *
6839332 CACCAGATACAGAT-ATTGTGGCAGAGCCATCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGC
*
6839386 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAAATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGC
* * *
6839440 CACCAGATCAGATAATTGTGACATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCAGAGCCACCAG
6839473 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGC
Found at i:6839639 original size:28 final size:26
Alignment explanation
Indices: 6839577--6839639 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
6839567 AAAGTAACCC
** * *
6839577 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
6839603 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
6839631 TAGGGGTAT
1 TAGGGGTAT
6839640 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:6840989 original size:26 final size:26
Alignment explanation
Indices: 6840954--6841014 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
6840944 GGACTTACCT
* *
6840954 TCATTTTCATGGAACATTTACCTAAC
1 TCATTATCATGAAACATTTACCTAAC
6840980 TCATTATCATGAAACATTTACCTAAC
1 TCATTATCATGAAACATTTACCTAAC
*
6841006 CCATTATCA
1 TCATTATCA
6841015 ATTTTTATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (26 bp):
TCATTATCATGAAACATTTACCTAAC
Found at i:6845271 original size:17 final size:18
Alignment explanation
Indices: 6845249--6845286 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6845239 TACTTCAAGC
*
6845249 TTTTTAA-TTTTAATTAT
1 TTTTTAACTATTAATTAT
6845266 TTTTTAACGTATTAATTAT
1 TTTTTAAC-TATTAATTAT
6845285 TT
1 TT
6845287 GGTTAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTTAACTATTAATTAT
Found at i:6846864 original size:23 final size:24
Alignment explanation
Indices: 6846813--6846869 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
6846803 TTATTTTTAA
*
6846813 CTTTATATTGTGTATCGTATATGT
1 CTTTATATTGTGTATCGTATATAT
*
6846837 TTTTATATATGT-TAT-GTATATAT
1 CTTTATAT-TGTGTATCGTATATAT
6846860 CTTTAGTATT
1 CTTTA-TATT
6846870 ATTAGTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 12 0.43
24 13 0.46
25 3 0.11
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (24 bp):
CTTTATATTGTGTATCGTATATAT
Found at i:6847232 original size:21 final size:21
Alignment explanation
Indices: 6847208--6847261 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
6847198 ATACTATTAT
* *
6847208 TATATTTATTTTTATTCCTAG
1 TATATTTATTTTTAATACTAG
* *
6847229 TATATTTATTATTAATATTAG
1 TATATTTATTTTTAATACTAG
*
6847250 TATATGTATTTT
1 TATATTTATTTT
6847262 ATTATACGCA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (21 bp):
TATATTTATTTTTAATACTAG
Found at i:6851401 original size:29 final size:29
Alignment explanation
Indices: 6851359--6851417 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
6851349 CAGTAGTTGA
*
6851359 CAAACAACATCGAGCTAAAAAGGCATAAG
1 CAAACAACATCGAGCTAAAAAGACATAAG
6851388 CAAACAACATCGAGCTAAAAAGACATAAG
1 CAAACAACATCGAGCTAAAAAGACATAAG
6851417 C
1 C
6851418 TCTATGCTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.53, C:0.22, G:0.15, T:0.10
Consensus pattern (29 bp):
CAAACAACATCGAGCTAAAAAGACATAAG
Found at i:6853553 original size:51 final size:51
Alignment explanation
Indices: 6853435--6853541 Score: 198
Period size: 50 Copynumber: 2.1 Consensus size: 51
6853425 CCGACGTTGT
*
6853435 AGTTAAAATGAGTTTTAAATGCCAACATGAATGTCCAACTAGGATGAGAAA
1 AGTTAAAATGAGTTTTAAATGCCAACATGAATATCCAACTAGGATGAGAAA
6853486 AGTTAAAATGAGTTTTAAATG-CAACATGAATATCCAACTAGGATGAGAAA
1 AGTTAAAATGAGTTTTAAATGCCAACATGAATATCCAACTAGGATGAGAAA
6853536 AGTTAA
1 AGTTAA
6853542 TGTTTTTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 34 0.62
51 21 0.38
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (51 bp):
AGTTAAAATGAGTTTTAAATGCCAACATGAATATCCAACTAGGATGAGAAA
Found at i:6854639 original size:103 final size:103
Alignment explanation
Indices: 6854472--6854802 Score: 425
Period size: 103 Copynumber: 3.2 Consensus size: 103
6854462 CCACCTAGTC
* * * * *
6854472 CCCTTCCTACATACATCCACCCTCATACTCTCCCTCGCCATCTCTACGATCTACCTCACATCCAC
1 CCCTTCCTACATACATCCACCCTCGTACTCTCCCTCACCATCTCTTCGATCTCCCTCACCTCCAC
6854537 CGTCCTCCGAGCAACATGTGACTTTGCACCACCCGGCT
66 CGTCCTCCGAGCAACATGTGACTTTGCACCACCCGGCT
* * *
6854575 CTCTTCCTACATACATCCACCCTCGTGCTCTCCCTCACCATCTCTTCGATCTCCCACACCTCCAC
1 CCCTTCCTACATACATCCACCCTCGTACTCTCCCTCACCATCTCTTCGATCTCCCTCACCTCCAC
* * ** * *
6854640 AGTCCT-CTAGGCAACACATGACTTTGCACCACCTGGCC
66 CGTCCTCCGA-GCAACATGTGACTTTGCACCACCCGGCT
* * * * *
6854678 CCCTTCCTACATATATCTACCCCCGTTCTCTCCCTCACAATCTCTTCGATCTCCCTCACCTCCAC
1 CCCTTCCTACATACATCCACCCTCGTACTCTCCCTCACCATCTCTTCGATCTCCCTCACCTCCAC
* * * *
6854743 CATCCTCCGGGTAACATGTGACATTGCACCACCCGGCT
66 CGTCCTCCGAGCAACATGTGACTTTGCACCACCCGGCT
6854781 CCCTTCCTACATAC--CCACCCTC
1 CCCTTCCTACATACATCCACCCTC
6854803 ATTCTCACCC
Statistics
Matches: 192, Mismatches: 34, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
101 6 0.03
102 2 0.01
103 183 0.95
104 1 0.01
ACGTcount: A:0.19, C:0.46, G:0.09, T:0.25
Consensus pattern (103 bp):
CCCTTCCTACATACATCCACCCTCGTACTCTCCCTCACCATCTCTTCGATCTCCCTCACCTCCAC
CGTCCTCCGAGCAACATGTGACTTTGCACCACCCGGCT
Found at i:6856721 original size:26 final size:26
Alignment explanation
Indices: 6856692--6856751 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
6856682 TCCCTTTGAA
* * *
6856692 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
6856718 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
6856746 CCATTC
1 TCATTC
6856752 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:6856777 original size:28 final size:28
Alignment explanation
Indices: 6856706--6856777 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
6856696 TCGATATTTT
**
6856706 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTACCATTCTCAATATCTC
* *
6856734 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTACCATTCTCAATATCTC
* * *
6856762 GTATACTGAGTACCAT
1 GCACACTAAGTACCAT
6856778 ATTTGATTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTACCATTCTCAATATCTC
Found at i:6859538 original size:20 final size:20
Alignment explanation
Indices: 6859515--6859555 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6859505 TACTTCAAGC
* *
6859515 TTTTTAAATTTTTAATTATT
1 TTTTTAAAGTATTAATTATT
*
6859535 TTTTTAACGTATTAATTATT
1 TTTTTAAAGTATTAATTATT
6859555 T
1 T
6859556 GGTTAGATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTAAAGTATTAATTATT
Found at i:6860896 original size:20 final size:20
Alignment explanation
Indices: 6860873--6860935 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
6860863 CGTGACCTTC
6860873 CCTTGGTTTGTGTGAGCTCT
1 CCTTGGTTTGTGTGAGCTCT
*
6860893 CCTTACGAG-TTG-GTCA-C-C-
1 CCTT--G-GTTTGTGTGAGCTCT
6860911 CCTTGGTTTGTGTGAGCTCT
1 CCTTGGTTTGTGTGAGCTCT
6860931 CCTTG
1 CCTTG
6860936 TGGGTTGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
15 1 0.03
16 4 0.12
17 3 0.09
18 5 0.15
19 2 0.06
20 10 0.30
21 3 0.09
22 4 0.12
23 1 0.03
ACGTcount: A:0.08, C:0.25, G:0.27, T:0.40
Consensus pattern (20 bp):
CCTTGGTTTGTGTGAGCTCT
Found at i:6866615 original size:23 final size:23
Alignment explanation
Indices: 6866589--6866634 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
6866579 TACAAAGTGT
6866589 ATACATAGCATTAAAAATATATA
1 ATACATAGCATTAAAAATATATA
6866612 ATACATAGCATTAAAAATATATA
1 ATACATAGCATTAAAAATATATA
6866635 CATAATATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (23 bp):
ATACATAGCATTAAAAATATATA
Found at i:6866680 original size:26 final size:25
Alignment explanation
Indices: 6866593--6866679 Score: 97
Period size: 26 Copynumber: 3.5 Consensus size: 25
6866583 AAGTGTATAC
* *
6866593 ATAGCATTAAAAATATATA-AT-AC
1 ATAGCATTAAAAATACATACATAAT
*
6866616 ATAGCATTAAAAATATATACATAAT
1 ATAGCATTAAAAATACATACATAAT
* *
6866641 ATGGCGTTGAAAAATACATACATAAT
1 ATAGCATT-AAAAATACATACATAAT
*
6866667 ATAGTATTAAAAA
1 ATAGCATTAAAAA
6866680 AATATATATA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 19 0.35
24 2 0.04
25 12 0.22
26 21 0.39
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (25 bp):
ATAGCATTAAAAATACATACATAAT
Found at i:6866786 original size:27 final size:26
Alignment explanation
Indices: 6866756--6866817 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 26
6866746 TAAAAATACA
* *
6866756 ATATTAAAAGACATATATACGTAATAT
1 ATATTAAAA-AAATATATACATAATAT
* *
6866783 ATA-TAAAAAAATGTATACATGATAT
1 ATATTAAAAAAATATATACATAATAT
6866808 AGTATTAAAA
1 A-TATTAAAA
6866818 TATTTACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 14 0.48
26 7 0.24
27 8 0.28
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (26 bp):
ATATTAAAAAAATATATACATAATAT
Found at i:6866948 original size:14 final size:16
Alignment explanation
Indices: 6866928--6866967 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
6866918 AGAAATAATC
*
6866928 AATATATAATATTAGA
1 AATATATAATATTAAA
6866944 AATATATAATATTAAA
1 AATATATAATATTAAA
6866960 AATATATA
1 AATATATA
6866968 CATAATATAA
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:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
AATATATAATATTAAA
Found at i:6866974 original size:27 final size:26
Alignment explanation
Indices: 6866933--6867003 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 26
6866923 TAATCAATAT
*
6866933 ATAATATTAGAAATATATAATATTAAAA
1 ATAATA-TACAAATATATAA-ATTAAAA
*
6866961 AT-ATATACATAATATA-AAGTTAAAA
1 ATAATATACA-AATATATAAATTAAAA
*
6866986 ATAATATACAAAAATATA
1 ATAATATACAAATATATA
6867004 CACATAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 13 0.35
26 13 0.35
27 9 0.24
28 2 0.05
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
ATAATATACAAATATATAAATTAAAA
Found at i:6866975 original size:25 final size:26
Alignment explanation
Indices: 6866947--6866995 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
6866937 TATTAGAAAT
6866947 ATATAATA-TTAAAAAT-ATATACATA
1 ATATAA-AGTTAAAAATAATATACATA
6866972 ATATAAAGTTAAAAATAATATACA
1 ATATAAAGTTAAAAATAATATACA
6866996 AAAATATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 1 0.05
25 14 0.64
26 7 0.32
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (26 bp):
ATATAAAGTTAAAAATAATATACATA
Found at i:6869320 original size:75 final size:76
Alignment explanation
Indices: 6869046--6869336 Score: 352
Period size: 77 Copynumber: 3.8 Consensus size: 76
6869036 ACGGATTTTG
* *
6869046 AAAATACCTC-GACATGTGACCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTT
1 AAAATACCTCAG-CGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTT
* *
6869110 GAAAAACATAAATT
63 GAAAAATAGAAATT
* * * ** * * *
6869124 AAAAATACCTCAGTGCGTGATCTGAGGCTCAACTCACCTCTCGTAATATAAGTTGATTTGTTTGA
1 -AAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* *
6869189 AAAATAGAGACTA
65 AAAATAGA-AATT
* *
6869202 AAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-A
1 AAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
6869266 AAATAGAAATT
66 AAATAGAAATT
* * *
6869277 GAAATACCTCGGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTT
1 AAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6869337 AAAACACATG
Statistics
Matches: 181, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
75 57 0.31
76 8 0.04
77 69 0.38
78 2 0.01
79 44 0.24
80 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (76 bp):
AAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
AAATAGAAATT
Found at i:6869409 original size:87 final size:86
Alignment explanation
Indices: 6869262--6869532 Score: 314
Period size: 88 Copynumber: 3.1 Consensus size: 86
6869252 GTTGATTTTT
* *
6869262 TTGAAAATAGAAATTG-AAATACCTCGGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAATACCTCGGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATG
*
6869326 ATTTGATTTTTAAAACACAT-G-AA
64 AGTTGATTTTTAAAA-A-ATAGAAA
* *
6869349 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGA
1 TTGAAAA-CAGAAATTGAAAATACCTCGGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
*
6869414 GTTGATTTTTTTGAAAAATAGAAA
65 GTTGA--TTTTTAAAAAATAGAAA
* * * * *
6869438 TTAAAAACAGAATTTGAAAAGACCTCGGCATGTGGCCCGAGACTCAACTCACCTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAATACCTCGGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
* **
6869503 AGTTGATTTTTGACGAATAGAAA
64 AGTTGATTTTTAAAAAATAGAAA
6869526 TTGAAAA
1 TTGAAAA
6869533 TACCTCAGCG
Statistics
Matches: 160, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
87 42 0.26
88 50 0.31
89 31 0.19
90 37 0.23
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (86 bp):
TTGAAAACAGAAATTGAAAATACCTCGGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTAAAAAATAGAAA
Found at i:6869499 original size:90 final size:90
Alignment explanation
Indices: 6869265--6869513 Score: 305
Period size: 90 Copynumber: 2.8 Consensus size: 90
6869255 GATTTTTTTG
* * *
6869265 AAAATAGAAATTG-AAATACCTCGGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGATT
1 AAAACAGAAATTGAAAATACCTCGGC-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
6869329 TGA--TTTTTAAAACACATGAATTGA
65 TGATTTTTTTAAAACACATGAATTGA
* * * *
6869353 AAAGCAGAAATTGAAAATACCTCAGC-GTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCGGCTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
6869417 GATTTTTTTGAAA-A-ATAGAAATT-A
66 GATTTTTTTAAAACACAT-G-AATTGA
* * * *
6869441 AAAACAGAATTTGAAAAGACCTCGGCATGTGGCCCGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCGGC-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
6869506 TGATTTTT
65 TGATTTTT
6869514 GACGAATAGA
Statistics
Matches: 139, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
87 38 0.27
88 36 0.26
89 23 0.17
90 42 0.30
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (90 bp):
AAAACAGAAATTGAAAATACCTCGGCTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTAAAACACATGAATTGA
Found at i:6871230 original size:13 final size:13
Alignment explanation
Indices: 6871212--6871264 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
6871202 TACCCAATGG
6871212 TCTGCCACCACCT
1 TCTGCCACCACCT
6871225 TCTGCCACCA-CT
1 TCTGCCACCACCT
* *
6871237 GTCGGCCACCTACCC
1 -TCTGCCACC-ACCT
6871252 TCTGCCACCACCT
1 TCTGCCACCACCT
6871265 GCTCCTCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 2 0.06
13 21 0.64
14 9 0.27
15 1 0.03
ACGTcount: A:0.15, C:0.53, G:0.11, T:0.21
Consensus pattern (13 bp):
TCTGCCACCACCT
Done.