Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 8 of 295
Found at i:2521682 original size:20 final size:21
Alignment explanation
Indices: 2521639--2521689 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
2521629 TCTTTCAAAA
2521639 AAAATAAAATTATTGTTGTTT
1 AAAATAAAATTATTGTTGTTT
*
2521660 AAAATTAAATT-TT-TTGCTTT
1 AAAATAAAATTATTGTTG-TTT
2521680 AAAATAAAAT
1 AAAATAAAAT
2521690 GTTTATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 10 0.37
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (21 bp):
AAAATAAAATTATTGTTGTTT
Found at i:2530634 original size:4 final size:4
Alignment explanation
Indices: 2530625--2530651 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2530615 AAGTTGCATA
2530625 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
2530652 ACCTCCAAAT
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:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:2534745 original size:16 final size:16
Alignment explanation
Indices: 2534724--2534761 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
2534714 TATAAAAAAA
*
2534724 GTATTTTTATAATTAT
1 GTATTTTTAAAATTAT
2534740 GTA-TTTTAAAATTAT
1 GTATTTTTAAAATTAT
2534755 GTATTTT
1 GTATTTT
2534762 GATTGTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (16 bp):
GTATTTTTAAAATTAT
Found at i:2535998 original size:20 final size:19
Alignment explanation
Indices: 2535964--2536013 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
2535954 TCTCTCTCAA
*
2535964 CAAAAATTTAAAAAAAATT
1 CAAAAATTTATAAAAAATT
2535983 CAAAATATTTAT-AAAAATT
1 CAAAA-ATTTATAAAAAATT
*
2536002 CCAAAATTTATA
1 CAAAAATTTATA
2536014 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 6 0.22
19 16 0.59
20 5 0.19
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
CAAAAATTTATAAAAAATT
Found at i:2538090 original size:12 final size:12
Alignment explanation
Indices: 2538073--2538097 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2538063 AAAATTCGAA
2538073 TTTTAGTAATTT
1 TTTTAGTAATTT
2538085 TTTTAGTAATTT
1 TTTTAGTAATTT
2538097 T
1 T
2538098 GATTTTAATT
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTTAGTAATTT
Found at i:2542014 original size:28 final size:30
Alignment explanation
Indices: 2541953--2542014 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 30
2541943 CAATCACCAA
* *
2541953 ATTTTAATTTAAATGTAAATTTTAATTAAT
1 ATTTTAATTTAAATGTAAATATTAATAAAT
2541983 -TTTTAATTT-AATG-AAATAATTAA-AAAT
1 ATTTTAATTTAAATGTAAAT-ATTAATAAAT
2542010 ATTTT
1 ATTTT
2542015 TTAAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
27 7 0.25
28 12 0.43
29 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (30 bp):
ATTTTAATTTAAATGTAAATATTAATAAAT
Found at i:2543164 original size:20 final size:19
Alignment explanation
Indices: 2543141--2543193 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
2543131 TTTTTATTTA
2543141 AATATTATAATTTCAAAAAT
1 AATATTAT-ATTTCAAAAAT
*
2543161 AATA-TAT-TTATTAAAAAT
1 AATATTATATT-TCAAAAAT
2543179 -ATATTATATTTCAAA
1 AATATTATATTTCAAA
2543194 TTGTATTTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 5 0.18
18 14 0.50
19 5 0.18
20 4 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (19 bp):
AATATTATATTTCAAAAAT
Found at i:2546413 original size:14 final size:13
Alignment explanation
Indices: 2546385--2546418 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2546375 ATGTTTATTT
*
2546385 ATAATTAAAAATA
1 ATAAATAAAAATA
2546398 ATAAATAAAAATTA
1 ATAAATAAAAA-TA
2546412 ATAAATA
1 ATAAATA
2546419 TTGATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAAATAAAAATA
Found at i:2546996 original size:14 final size:16
Alignment explanation
Indices: 2546966--2547007 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
2546956 TTAAGTAAAA
* *
2546966 AAATTATTAAAATTAT
1 AAATTATAAAAAGTAT
2546982 -AATTA-AAAAAGTAT
1 AAATTATAAAAAGTAT
2546996 AAATTATAAAAA
1 AAATTATAAAAA
2547008 TCATAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 7 0.32
15 10 0.45
16 5 0.23
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
AAATTATAAAAAGTAT
Found at i:2547108 original size:20 final size:20
Alignment explanation
Indices: 2547037--2547111 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
2547027 ATTTATAAGT
*
2547037 TATTATAAACAATTATATAAAA
1 TATTATAAA-AATTAT-TTAAA
* *
2547059 AATT-TAAAAGA-TATATAAA
1 TATTATAAAA-ATTATTTAAA
**
2547078 T-TTATTTAAATTATTTAAA
1 TATTATAAAAATTATTTAAA
2547097 TATTATAAAAATTAT
1 TATTATAAAAATTAT
2547112 AAAATCATAA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
18 3 0.08
19 14 0.35
20 15 0.38
21 5 0.12
22 3 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (20 bp):
TATTATAAAAATTATTTAAA
Found at i:2547901 original size:30 final size:30
Alignment explanation
Indices: 2547830--2547909 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
2547820 AAAATAAGAT
* * * *
2547830 TAAATTATCGATTAAACCCTTGTAAAATAA
1 TAAAATATCAATTAAACTCTCGTAAAATAA
*
2547860 -AAAAAATCAATTAAACTCTCGTAAAATAA
1 TAAAATATCAATTAAACTCTCGTAAAATAA
*
2547889 TAAAATATCAATTACACTCTC
1 TAAAATATCAATTAAACTCTC
2547910 CACTTATTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 24 0.57
30 18 0.43
ACGTcount: A:0.50, C:0.16, G:0.04, T:0.30
Consensus pattern (30 bp):
TAAAATATCAATTAAACTCTCGTAAAATAA
Found at i:2548520 original size:28 final size:26
Alignment explanation
Indices: 2548489--2548552 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 26
2548479 CTTAAACTTC
2548489 AAAATTTTTAATCCT-AAATTTAAGGTCT
1 AAAATTTTTAAT-CTAAAATTT-AGGT-T
**
2548517 AAAATTTAGAATCTAAAATTTAGGTT
1 AAAATTTTTAATCTAAAATTTAGGTT
*
2548543 AAAAATTTTA
1 AAAATTTTTA
2548553 TAAAATAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 8 0.27
27 6 0.20
28 16 0.53
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (26 bp):
AAAATTTTTAATCTAAAATTTAGGTT
Found at i:2548521 original size:14 final size:13
Alignment explanation
Indices: 2548504--2548546 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
2548494 TTTTAATCCT
2548504 AAATTTAAGGTCTA
1 AAATTT-AGGTCTA
*
2548518 AAATTTAGAATCTA
1 AAATTTAG-GTCTA
2548532 AAATTTAGGT-TA
1 AAATTTAGGTCTA
2548544 AAA
1 AAA
2548547 ATTTTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 5 0.19
13 3 0.12
14 18 0.69
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (13 bp):
AAATTTAGGTCTA
Found at i:2561036 original size:29 final size:27
Alignment explanation
Indices: 2560984--2561052 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 27
2560974 GAATGTCCAA
2560984 CCCAAACACACCCGGAATATTATATATCCT
1 CCCAAACACA-CCGGAATA--ATATATCCT
*
2561014 -CCATAACACACCGGTATAATATATCCT
1 CCCA-AACACACCGGAATAATATATCCT
2561041 CCCAAACACACC
1 CCCAAACACACC
2561053 AATAAGGCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
27 17 0.47
28 3 0.08
29 10 0.28
30 6 0.17
ACGTcount: A:0.38, C:0.36, G:0.06, T:0.20
Consensus pattern (27 bp):
CCCAAACACACCGGAATAATATATCCT
Found at i:2562144 original size:18 final size:17
Alignment explanation
Indices: 2562109--2562141 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2562099 CTTTTTATTC
2562109 TTTTATTATTTCATTTA
1 TTTTATTATTTCATTTA
2562126 TTTTACTTATTT-ATTT
1 TTTTA-TTATTTCATTT
2562142 TATCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTTCATTTA
Found at i:2564291 original size:9 final size:9
Alignment explanation
Indices: 2564277--2564320 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
2564267 TTATTTATTC
*
2564277 AATTAATTT
1 AATTAATTA
2564286 AATTAATTA
1 AATTAATTA
*
2564295 AACTAATTA
1 AATTAATTA
*
2564304 AATTAACTA
1 AATTAATTA
2564313 AATTAATT
1 AATTAATT
2564321 TCTCAATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (9 bp):
AATTAATTA
Found at i:2564337 original size:16 final size:18
Alignment explanation
Indices: 2564311--2564343 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2564301 TTAAATTAAC
2564311 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
2564328 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
2564344 CTCAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:2565348 original size:21 final size:21
Alignment explanation
Indices: 2565324--2565388 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
2565314 AAATCTAACT
2565324 GAAGCACAAAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
** *
2565345 GAAGC-CTGAAG-GCT-AACT
1 GAAGCACAAAAGTGCTAAACG
* *
2565363 GAATCACATAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
2565384 GAAGC
1 GAAGC
2565389 CCGAAGGCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 7 0.21
21 12 0.36
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.14
Consensus pattern (21 bp):
GAAGCACAAAAGTGCTAAACG
Found at i:2565376 original size:39 final size:39
Alignment explanation
Indices: 2565318--2565406 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
2565308 AACCCGAAAT
*
2565318 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCTGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
* *
2565357 CTAACTGAATCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
2565396 CTAACTGAAGC
1 CTAACTGAAGC
2565407 TCATCAGAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (39 bp):
CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
Found at i:2577951 original size:15 final size:16
Alignment explanation
Indices: 2577931--2577965 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
2577921 AATAATTTAT
*
2577931 TAAAAATATT-TAAAA
1 TAAAAATATTAGAAAA
2577946 TAAAAATATTAGAAAA
1 TAAAAATATTAGAAAA
2577962 TAAA
1 TAAA
2577966 GAAAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAAAATATTAGAAAA
Found at i:2580233 original size:16 final size:16
Alignment explanation
Indices: 2580194--2580234 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
2580184 TAATTAGAAT
*
2580194 GATGGAAAATTAAAGG
1 GATGGAAAATTAAAAG
* *
2580210 GGTAGAAAATTAAAAG
1 GATGGAAAATTAAAAG
2580226 GATGGAAAA
1 GATGGAAAA
2580235 CATAATTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (16 bp):
GATGGAAAATTAAAAG
Found at i:2582209 original size:13 final size:14
Alignment explanation
Indices: 2582181--2582213 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2582171 ATTACAAAAT
2582181 AAATTTAATGTTTTA
1 AAATTTAA-GTTTTA
2582196 AAATTTAA-TTTTA
1 AAATTTAAGTTTTA
2582209 AAATT
1 AAATT
2582214 AATAGTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
15 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
AAATTTAAGTTTTA
Found at i:2582520 original size:23 final size:22
Alignment explanation
Indices: 2582479--2582524 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
2582469 ATTGCTTTAA
2582479 ATTATTTTTTATTTAAAACCAAT
1 ATTATTTTTTATTTAAAA-CAAT
*
2582502 ATTA-TTTTTATTATGAAACAAT
1 ATTATTTTTTATT-TAAAACAAT
2582524 A
1 A
2582525 AAAACACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTATTTTTTATTTAAAACAAT
Found at i:2584274 original size:67 final size:69
Alignment explanation
Indices: 2584195--2584330 Score: 206
Period size: 68 Copynumber: 2.0 Consensus size: 69
2584185 AAAGATACAT
* *
2584195 TTAATTAATTTTTA-TTTTTATATATAAAATATTTACCCATAATAGAAA-TTAGTGCATATATA-
1 TTAATTAATTTTTATTTTTTATATATAAAATATTTAACCATAATA-AAATTTAATGCATATATAT
2584257 AAAAA
65 AAAAA
* *
2584262 TTAATTATTTTTTATTTTTTATATATAAAATATTTAAGCATAATAAAATTTAATGCATATATATA
1 TTAATTAATTTTTATTTTTTATATATAAAATATTTAACCATAATAAAATTTAATGCATATATATA
2584327 AAAA
66 AAAA
2584331 AAATTACACA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
67 16 0.26
68 41 0.66
69 5 0.08
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (69 bp):
TTAATTAATTTTTATTTTTTATATATAAAATATTTAACCATAATAAAATTTAATGCATATATATA
AAAA
Found at i:2584665 original size:20 final size:19
Alignment explanation
Indices: 2584623--2584665 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
2584613 TCAAATTTTT
* *
2584623 TAAAATATATTAATTAATT
1 TAAAATATAATAATTAATA
*
2584642 TAAAATATGAATAATTGATA
1 TAAAATAT-AATAATTAATA
2584662 TAAA
1 TAAA
2584666 GGCATTTGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
TAAAATATAATAATTAATA
Found at i:2587652 original size:9 final size:9
Alignment explanation
Indices: 2587638--2587675 Score: 67
Period size: 9 Copynumber: 4.1 Consensus size: 9
2587628 GAATCAAGAT
2587638 TAAAATATA
1 TAAAATATA
2587647 TAAAATATA
1 TAAAATATA
2587656 TAAAAATATA
1 T-AAAATATA
2587666 TAAAATATA
1 TAAAATATA
2587675 T
1 T
2587676 CAAAGCAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TAAAATATA
Found at i:2587661 original size:19 final size:19
Alignment explanation
Indices: 2587639--2587675 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2587629 AATCAAGATT
2587639 AAAATATATAAAATATATA
1 AAAATATATAAAATATATA
2587658 AAAATATATAAAATATAT
1 AAAATATATAAAATATAT
2587676 CAAAGCAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATATATAAAATATATA
Found at i:2589801 original size:21 final size:21
Alignment explanation
Indices: 2589777--2589820 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2589767 TAACGACCTG
* *
2589777 AAGTTGAGTGCACGTTTGAGC
1 AAGTGGAGTGCAAGTTTGAGC
*
2589798 AAGTGGAGTGTAAGTTTGAGC
1 AAGTGGAGTGCAAGTTTGAGC
2589819 AA
1 AA
2589821 CACGTGTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.34, T:0.27
Consensus pattern (21 bp):
AAGTGGAGTGCAAGTTTGAGC
Found at i:2593389 original size:11 final size:11
Alignment explanation
Indices: 2593373--2593397 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2593363 GAAATAATGT
2593373 AAAAAAAATAA
1 AAAAAAAATAA
2593384 AAAAAAAATAA
1 AAAAAAAATAA
2593395 AAA
1 AAA
2593398 GTATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:2596862 original size:20 final size:21
Alignment explanation
Indices: 2596826--2596867 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
2596816 AATGCCAGTC
*
2596826 AAATTTAAATGAGAATT-TTG
1 AAATTTAAATGAAAATTATTG
2596846 AAATTTAGAAT-AAAATTATTG
1 AAATTTA-AATGAAAATTATTG
2596867 A
1 A
2596868 TATAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (21 bp):
AAATTTAAATGAAAATTATTG
Found at i:2597165 original size:36 final size:37
Alignment explanation
Indices: 2597097--2597168 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
2597087 AATTTTGAAA
* *
2597097 TTTATTTTTTTATTTTAAAATTCAAGAGTTTAATTAT
1 TTTATTTTTTAATTTAAAAATTCAAGAGTTTAATTAT
*
2597134 TTTATTTTTCTAATTTAAAAATT-AA-ATTTTAATTA
1 TTTATTTTT-TAATTTAAAAATTCAAGAGTTTAATTA
2597169 ATATCACGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 9 0.29
37 11 0.35
38 11 0.35
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (37 bp):
TTTATTTTTTAATTTAAAAATTCAAGAGTTTAATTAT
Found at i:2599064 original size:10 final size:9
Alignment explanation
Indices: 2599046--2599144 Score: 65
Period size: 10 Copynumber: 10.4 Consensus size: 9
2599036 TAAAATTTAA
2599046 AAAATATTT
1 AAAATATTT
2599055 AAAATCATTT
1 AAAAT-ATTT
*
2599065 AAAATATTAA
1 AAAATATT-T
2599075 AAAATATTT
1 AAAATATTT
*
2599084 TAAATCATTT
1 AAAAT-ATTT
*
2599094 TAAATCATTT
1 AAAAT-ATTT
* *
2599104 TAAATGTTTT
1 AAAAT-ATTT
* *
2599114 ATAATATTA
1 AAAATATTT
2599123 AAAATATATT
1 AAAATAT-TT
*
2599133 -TAATATTT
1 AAAATATTT
2599141 AAAA
1 AAAA
2599145 AATAATTTGA
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
8 2 0.03
9 27 0.38
10 43 0.60
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (9 bp):
AAAATATTT
Found at i:2599108 original size:29 final size:29
Alignment explanation
Indices: 2599036--2599098 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
2599026 AAATTCTATG
*
2599036 TAAAAT-TTAAAAAATATTTAAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
2599064 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
*
2599093 TTAAAT
1 TAAAAT
2599099 CATTTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAATATTAAAAAATATTTTAAATCATT
Found at i:2599135 original size:39 final size:39
Alignment explanation
Indices: 2599037--2599144 Score: 100
Period size: 39 Copynumber: 2.8 Consensus size: 39
2599027 AATTCTATGT
2599037 AAAAT-TTAAAAA-ATATTTAAAATCATTTAAAATATTAA
1 AAAATATTAAAAATATATTT-AAATCATTTAAAATATTAA
** * * **
2599075 AAAATATTTTAAATCAT-TTTAAATCATTTTAAATGTTTT
1 AAAATATTAAAAAT-ATATTTAAATCATTTAAAATATTAA
*
2599114 ATAATATTAAAAATATATTT-AAT-ATTTAAAA
1 AAAATATTAAAAATATATTTAAATCATTTAAAA
2599145 AATAATTTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
37 7 0.12
38 10 0.18
39 34 0.61
40 3 0.05
41 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (39 bp):
AAAATATTAAAAATATATTTAAATCATTTAAAATATTAA
Found at i:2599346 original size:87 final size:88
Alignment explanation
Indices: 2599249--2599415 Score: 300
Period size: 88 Copynumber: 1.9 Consensus size: 88
2599239 ATAAGGACTT
*
2599249 AAAAAAGAAAAAAGAAAGTCA-AACTTTAAAAAAAAAAGACTGAAACAAATAAGTTGGCTGTCAG
1 AAAAAAGAAAAAAGAAAGTCACAACTATAAAAAAAAAAGACTGAAACAAATAAGTTGGCTGTCAG
2599313 ACTTGAAAACTGGTATAGCCAAA
66 ACTTGAAAACTGGTATAGCCAAA
**
2599336 AAAAAAGAAAAAAGAAAGTCACAACTATAAAAAAAAAAGGTTGAAACAAATAAGTTGGCTGTCAG
1 AAAAAAGAAAAAAGAAAGTCACAACTATAAAAAAAAAAGACTGAAACAAATAAGTTGGCTGTCAG
2599401 ACTTGAAAACTGGTA
66 ACTTGAAAACTGGTA
2599416 GCGCCAAATT
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
87 21 0.28
88 55 0.72
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (88 bp):
AAAAAAGAAAAAAGAAAGTCACAACTATAAAAAAAAAAGACTGAAACAAATAAGTTGGCTGTCAG
ACTTGAAAACTGGTATAGCCAAA
Found at i:2602157 original size:51 final size:51
Alignment explanation
Indices: 2602075--2602202 Score: 188
Period size: 51 Copynumber: 2.5 Consensus size: 51
2602065 CTCAAACTTA
* *
2602075 CTTCATACTTCATCCGGAATTATTAGCTTGTTGCTCTAACTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTAGCTTGTTGCTCTAACTTTAACAAGAG
*
2602126 CTTCATATTTCATCCGGAATAATTA-CTTTGTTGCTCTAGCTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTAGC-TTGTTGCTCTAACTTTAACAAGAG
*
2602177 CTTCATATTTTATCCGG-ATAACTTAG
1 CTTCATATTTCATCCGGAATAA-TTAG
2602203 TTATGTTTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
50 5 0.07
51 65 0.93
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTAGCTTGTTGCTCTAACTTTAACAAGAG
Found at i:2603071 original size:31 final size:32
Alignment explanation
Indices: 2603036--2603105 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 32
2603026 ATTTTATTTC
2603036 ATCAT-TCTAAACTATTACACAACCTTTAAAA
1 ATCATATCTAAACTATTACACAACCTTTAAAA
* *
2603067 ATCATAATTTCAACTATTACACAACCTTTAAAA
1 ATCAT-ATCTAAACTATTACACAACCTTTAAAA
2603100 ATCATA
1 ATCATA
2603106 ATTTCAACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
31 5 0.14
32 1 0.03
33 29 0.83
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (32 bp):
ATCATATCTAAACTATTACACAACCTTTAAAA
Found at i:2603082 original size:33 final size:33
Alignment explanation
Indices: 2603045--2603113 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
2603035 CATCATTCTA
2603045 AACTATTACACAACCTTTAAAAATCATAATTTC
1 AACTATTACACAACCTTTAAAAATCATAATTTC
2603078 AACTATTACACAACCTTTAAAAATCATAATTTC
1 AACTATTACACAACCTTTAAAAATCATAATTTC
2603111 AAC
1 AAC
2603114 ACTAAACCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (33 bp):
AACTATTACACAACCTTTAAAAATCATAATTTC
Found at i:2605559 original size:30 final size:30
Alignment explanation
Indices: 2605523--2605595 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
2605513 CCTATATCCA
*
2605523 GGTGATATGAACTCAAACCACCCATGTCTG
1 GGTGATATGAACTCAAACCACCCATGTCCG
* *
2605553 GGTGATATGAACTCGAACCACCTATGTCCG
1 GGTGATATGAACTCAAACCACCCATGTCCG
*
2605583 GGTTATATGAACT
1 GGTGATATGAACT
2605596 GCTCTGGAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (30 bp):
GGTGATATGAACTCAAACCACCCATGTCCG
Found at i:2607478 original size:20 final size:20
Alignment explanation
Indices: 2607441--2607478 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2607431 TGATGGGGAG
*
2607441 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
2607461 CAAGAA-ATCAAAGCTGGA
1 CAAGAATATC-AAGCTGGA
2607479 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:2609434 original size:46 final size:46
Alignment explanation
Indices: 2609380--2609700 Score: 455
Period size: 46 Copynumber: 7.0 Consensus size: 46
2609370 GAGTGTGGTC
2609380 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * *
2609426 CTTGATATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAG
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* *
2609472 CCTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAG
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* *
2609518 CCTGATATGAAATGTGTAAGATCGTGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
2609564 CCTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* *** *
2609610 CGTGATATGAAATGAACAAGACCGTGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * * * * *
2609656 CATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CCTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
2609701 TCATGTCAAA
Statistics
Matches: 249, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 248 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (46 bp):
CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:2612296 original size:46 final size:44
Alignment explanation
Indices: 2612237--2612351 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
2612227 ACAGGACAGA
* *
2612237 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
2612283 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
2612327 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
2612352 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:2612332 original size:44 final size:45
Alignment explanation
Indices: 2612237--2612370 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
2612227 ACAGGACAGA
* *
2612237 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
2612283 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
2612327 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
2612371 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:2614769 original size:6 final size:6
Alignment explanation
Indices: 2614739--2614794 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
2614729 AATAAAAAAA
* * * *
2614739 TATATT TA-ATA TATATA TATTTT TAAATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
*
2614786 TAAATT TAT
1 TATATT TAT
2614795 TAATGGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
5 4 0.10
6 37 0.90
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
TATATT
Found at i:2614924 original size:21 final size:21
Alignment explanation
Indices: 2614896--2614939 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2614886 TTAAAAAAAG
2614896 AATTT-AAAAATAATATT-TAA
1 AATTTAAAAAAT-ATATTATAA
2614916 AATTGTAAAAAATATATTATAA
1 AATT-TAAAAAATATATTATAA
2614938 AA
1 AA
2614940 CATTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTTAAAAAATATATTATAA
Found at i:2615101 original size:28 final size:26
Alignment explanation
Indices: 2615045--2615106 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
2615035 AAAAAATATC
* * *
2615045 TAAAATATTATGATTTCTTATATTAT
1 TAAAAAATTATAATTTCTTAAATTAT
*
2615071 TAAAAAATTATAATTTTTTAAATGTAT
1 TAAAAAATTATAATTTCTTAAAT-TAT
*
2615098 TTAAAAATT
1 TAAAAAATT
2615107 GTATTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (26 bp):
TAAAAAATTATAATTTCTTAAATTAT
Found at i:2615286 original size:16 final size:18
Alignment explanation
Indices: 2615256--2615303 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
2615246 CAAAAAAAAA
*
2615256 TATATT-AAATATATATT
1 TATATTAAAATTTATATT
2615273 T-T-TTAAAATTTATATT
1 TATATTAAAATTTATATT
*
2615289 TATATTTAAATTTAT
1 TATATTAAAATTTAT
2615304 TAATAGTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 12 0.46
17 2 0.08
18 10 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATTAAAATTTATATT
Found at i:2615597 original size:23 final size:21
Alignment explanation
Indices: 2615540--2615624 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 21
2615530 ATATATAAAG
*
2615540 TTAAAAAATATTTTTAAAAATA
1 TTAAAAAAT-TTTTAAAAAATA
* *
2615562 ATAATTACAATTTTTAAAAAATA
1 TTAA--AAAATTTTTAAAAAATA
*
2615585 TTATAAAACA-TTTTAAATATATA
1 TTA-AAAA-ATTTTTAAA-AAATA
*
2615608 TTACAAAATTTTTAAAA
1 TTAAAAAATTTTTAAAA
2615625 TTAATAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
21 2 0.04
22 22 0.44
23 21 0.42
24 5 0.10
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAAAATTTTTAAAAAATA
Found at i:2615625 original size:23 final size:22
Alignment explanation
Indices: 2615549--2615624 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
2615539 GTTAAAAAAT
2615549 ATTTTTAAAAATAATAATTAC--A
1 ATTTTTAAAAAT-AT-ATTACAAA
*
2615571 ATTTTTAAAAA-ATATTATAAA
1 ATTTTTAAAAATATATTACAAA
* *
2615592 ACATTTTAAATATATATTACAAA
1 A-TTTTTAAAAATATATTACAAA
2615615 ATTTTTAAAA
1 ATTTTTAAAA
2615625 TTAATAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 4 0.09
20 2 0.05
21 2 0.05
22 26 0.59
23 10 0.23
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTTTAAAAATATATTACAAA
Found at i:2615638 original size:22 final size:21
Alignment explanation
Indices: 2615549--2615639 Score: 62
Period size: 22 Copynumber: 4.1 Consensus size: 21
2615539 GTTAAAAAAT
2615549 ATTTTTAAAAATAATAAT-TACA
1 ATTTTT-AAAATAATAATATA-A
*
2615571 ATTTTTAAAA-AATATTATAAA
1 ATTTTTAAAATAATAATAT-AA
* * *
2615592 ACATTTT-AAATATATATTACAAA
1 A-TTTTTAAAATA-ATAATA-TAA
2615615 ATTTTTAAAATTAATAATATAA
1 ATTTTTAAAA-TAATAATATAA
2615637 ATT
1 ATT
2615640 AAATAAGCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
20 5 0.09
21 10 0.18
22 21 0.38
23 17 0.31
24 2 0.04
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTTTAAAATAATAATATAA
Found at i:2615672 original size:18 final size:18
Alignment explanation
Indices: 2615630--2615673 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
2615620 TAAAATTAAT
*
2615630 AATATAAATTAAATAAGC
1 AATATAAATTAAATAAAC
*
2615648 AAAATAAATTAAGA-AAAC
1 AATATAAATTAA-ATAAAC
2615666 AATATAAA
1 AATATAAA
2615674 ACTTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (18 bp):
AATATAAATTAAATAAAC
Found at i:2615742 original size:10 final size:9
Alignment explanation
Indices: 2615717--2615741 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2615707 AAAATATAAG
2615717 AAAAAAAGT
1 AAAAAAAGT
2615726 AAAAAAAGT
1 AAAAAAAGT
2615735 AAAAAAA
1 AAAAAAA
2615742 ATATAAGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:2628411 original size:17 final size:16
Alignment explanation
Indices: 2628380--2628418 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
2628370 AGATACAAAT
*
2628380 AATTTTGAATTTTTTA
1 AATTTTGAATATTTTA
2628396 AATTTATGAATATTTT-
1 AATTT-TGAATATTTTA
2628412 AATTTTG
1 AATTTTG
2628419 GATGTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 10 0.48
17 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (16 bp):
AATTTTGAATATTTTA
Found at i:2634359 original size:149 final size:149
Alignment explanation
Indices: 2634089--2634388 Score: 438
Period size: 149 Copynumber: 2.0 Consensus size: 149
2634079 CATTTAAATC
2634089 AAAGGGAATTTATGAGGAAGACTTCCAACATGACCATTAATGCACCACAAATAGCAACTAGCAAG
1 AAAGGGAATTTATGAGGAAGACTTCCAACATGACCATTAATGCACCACAAATAGCAACTAGCAAG
* * * *
2634154 TTTCAAGGGAGTACTCAAAGAACTATACATCTGCAGAAGCCATTTATAGATATCAAATCTTGAAA
66 TCTCAAAGGAGTACTCAAAGAACTATACATCAGCAGAAACCATTTATAGATATCAAATCTTGAAA
*
2634219 TAAATTTCCCTCAAATTAT
131 TAAATTTACCTCAAATTAT
** ** *
2634238 AAAGGGAATTTATGAGTTAGACTTCCAACATGACCATTAATGCACTGCATATAGCAACTAGCAAG
1 AAAGGGAATTTATGAGGAAGACTTCCAACATGACCATTAATGCACCACAAATAGCAACTAGCAAG
* * * ** *
2634303 TCTGAAAGTAGTGCTCAAAGAACTATGTATCAGCAGAAACCATTTATAGATATCAAATCTTGCAA
66 TCTCAAAGGAGTACTCAAAGAACTATACATCAGCAGAAACCATTTATAGATATCAAATCTTGAAA
* *
2634368 TAAGTTTACCTCAATTTAT
131 TAAATTTACCTCAAATTAT
2634387 AA
1 AA
2634389 CTGTAATCCC
Statistics
Matches: 133, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
149 133 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (149 bp):
AAAGGGAATTTATGAGGAAGACTTCCAACATGACCATTAATGCACCACAAATAGCAACTAGCAAG
TCTCAAAGGAGTACTCAAAGAACTATACATCAGCAGAAACCATTTATAGATATCAAATCTTGAAA
TAAATTTACCTCAAATTAT
Found at i:2635182 original size:53 final size:53
Alignment explanation
Indices: 2635116--2635381 Score: 460
Period size: 53 Copynumber: 5.0 Consensus size: 53
2635106 CAATTAGATA
*
2635116 TGCCATGACCATTGATAACAATACATAGTAACAGTGTAACTATATCCATAAGC
1 TGCCATGAGCATTGATAACAATACATAGTAACAGTGTAACTATATCCATAAGC
2635169 TGCCATGAGCATTGATAACAATACATAGTAACAGTGTAACTATATCCATAAGC
1 TGCCATGAGCATTGATAACAATACATAGTAACAGTGTAACTATATCCATAAGC
* *
2635222 TACCATGAGCATTGATAAAAATACATAGTAACAGTGTAACTATATCCATAAGC
1 TGCCATGAGCATTGATAACAATACATAGTAACAGTGTAACTATATCCATAAGC
*
2635275 TGCCATGAGCATTGATAACAATACATAGTAACAGTGTAACTATATTCATAAGC
1 TGCCATGAGCATTGATAACAATACATAGTAACAGTGTAACTATATCCATAAGC
* * * *
2635328 TGTCATGAGCATTGATAACAATACATGGTAACAGTGTGACCATATCCATAAGC
1 TGCCATGAGCATTGATAACAATACATAGTAACAGTGTAACTATATCCATAAGC
2635381 T
1 T
2635382 ATGTAACCAA
Statistics
Matches: 202, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 202 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (53 bp):
TGCCATGAGCATTGATAACAATACATAGTAACAGTGTAACTATATCCATAAGC
Found at i:2637045 original size:25 final size:26
Alignment explanation
Indices: 2636985--2637049 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
2636975 TATATTAAAT
*
2636985 TTAATATAAATTTTAAATATAATTATA
1 TTAATAT-AATTATAAATATAATTATA
* * * *
2637012 TTGAGATAATTAT-AATATAATTTTG
1 TTAATATAATTATAAATATAATTATA
2637037 TTAATATAATTAT
1 TTAATATAATTAT
2637050 TCTAAATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
25 21 0.68
26 5 0.16
27 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (26 bp):
TTAATATAATTATAAATATAATTATA
Found at i:2640640 original size:130 final size:131
Alignment explanation
Indices: 2640372--2640640 Score: 391
Period size: 130 Copynumber: 2.0 Consensus size: 131
2640362 AATTTTCATG
2640372 GATATCTCTTTGTTCTCGATTTATCTCAATTTAAAGGAATATATATATATATAGGGACTCATTTT
1 GATATCTCTTTGTTCTCGATTTATCTCAATTTAAAGG-A-ATATATATATATAGGGACTCATTTT
* * ****
2640437 CCTGTATATATAATCTGGGTAAGATGTCAGCTCATCAGCAAAAATGTTATCCTGGTTATAATTTT
64 CCTGTATATATAATCTGGGTAAGATGTCAGCTCATCAGCAAAAAGGTTAT-CTGATTATAAAAGG
**
2640502 CATG
128 CAAA
2640506 GATATCTCTTTGTTCTCGATTTATCTCAATTTAAAGG-A-ATATATATATAGGGACTCATTTTCC
1 GATATCTCTTTGTTCTCGATTTATCTCAATTTAAAGGAATATATATATATAGGGACTCATTTTCC
*
2640569 TGTATATATAATCTGGGTAAGATGTCAGCTCATCAGCAAAAAGGTTAGT-TGATTATATAAAGGG
66 TGTATATATAATCTGGGTAAGATGTCAGCTCATCAGCAAAAAGGTTA-TCTGATTATA-AAAGGC
2640633 AAA
129 AAA
2640636 GATAT
1 GATAT
2640641 TATCAATGAT
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
129 7 0.06
130 78 0.63
131 2 0.02
134 37 0.30
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (131 bp):
GATATCTCTTTGTTCTCGATTTATCTCAATTTAAAGGAATATATATATATAGGGACTCATTTTCC
TGTATATATAATCTGGGTAAGATGTCAGCTCATCAGCAAAAAGGTTATCTGATTATAAAAGGCAA
A
Found at i:2643137 original size:106 final size:106
Alignment explanation
Indices: 2642952--2643157 Score: 331
Period size: 106 Copynumber: 1.9 Consensus size: 106
2642942 TTAGTTATAA
* * *
2642952 TTATTTCGGTAGCCAAAAGCTAATAACGTTAAATATAAAAAGAGTTAACTAATGAGAACTCGTCA
1 TTATTTCGGTAGCCAAAAGCTAATAACGTTAAAAATAAAAAGAGTTAACCAATGAGAACGCGTCA
* *
2643017 CATCATCAATGACATGGCATATTGATCAACAACATAATTTG
66 CATCATCAATGACATAGCATATTGACCAACAACATAATTTG
* *
2643058 TTATTTCGGTAGCTAAAAGCTAATAACGTTAAAAATAAAAAGAGTTAGCCAATGAGAACGCGTCA
1 TTATTTCGGTAGCCAAAAGCTAATAACGTTAAAAATAAAAAGAGTTAACCAATGAGAACGCGTCA
* *
2643123 CGTCATCAATGACATAGCATATTGACCAACGACAT
66 CATCATCAATGACATAGCATATTGACCAACAACAT
2643158 GGTATGTTGA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
106 91 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (106 bp):
TTATTTCGGTAGCCAAAAGCTAATAACGTTAAAAATAAAAAGAGTTAACCAATGAGAACGCGTCA
CATCATCAATGACATAGCATATTGACCAACAACATAATTTG
Found at i:2644062 original size:22 final size:22
Alignment explanation
Indices: 2644037--2644082 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2644027 TTTTTACAAC
*
2644037 TTTTA-AATATTTTAAATAATTT
1 TTTTACAAT-TTTTAAATAAATT
*
2644059 TTTTACAGTTTTTAAATAAATT
1 TTTTACAATTTTTAAATAAATT
2644081 TT
1 TT
2644083 ACAAGTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTACAATTTTTAAATAAATT
Found at i:2644224 original size:20 final size:20
Alignment explanation
Indices: 2644201--2644238 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2644191 GTCAATCTAG
*
2644201 CACGTCATTGGTCAACATTT
1 CACGTCATTGGCCAACATTT
2644221 CACGTCATTGGCCAACAT
1 CACGTCATTGGCCAACAT
2644239 GCCTACTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CACGTCATTGGCCAACATTT
Found at i:2644802 original size:59 final size:58
Alignment explanation
Indices: 2644709--2644835 Score: 143
Period size: 59 Copynumber: 2.2 Consensus size: 58
2644699 ATTGGGTGGC
* *
2644709 AAAAAAAACAATTGAATAGTTGAGTGACCATTTTGCAACT-TTTCATA-TTGGGTGACCAA
1 AAAAAAAACTACT-AATAGTTGAGTGACCATTTTGCAA-TATTTCATAGTTGGGTGA-CAA
* * *
2644768 AAAAGAAAACTACTAATAGTTGTA-TGACTATTTTGTAATATTTTATAGTTGGGTGACAA
1 AAAA-AAAACTACTAATAGTTG-AGTGACCATTTTGCAATATTTCATAGTTGGGTGACAA
2644827 AAAAAAAAC
1 AAAAAAAAC
2644836 CATAGTTGGG
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
58 6 0.10
59 37 0.63
60 16 0.27
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (58 bp):
AAAAAAAACTACTAATAGTTGAGTGACCATTTTGCAATATTTCATAGTTGGGTGACAA
Found at i:2662771 original size:26 final size:28
Alignment explanation
Indices: 2662706--2662771 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
2662696 TCAAAATTCA
* *
2662706 TATATAATTTTGATATTTATTCATATAT
1 TATATAATTATGATATTTATTCATATAC
*
2662734 TATATTATATTATGGTATTT-TT-ATATAC
1 TATA-TA-ATTATGATATTTATTCATATAC
2662762 TATATAATTA
1 TATATAATTA
2662772 GTACATACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 4 0.12
27 2 0.06
28 13 0.39
29 4 0.12
30 10 0.30
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (28 bp):
TATATAATTATGATATTTATTCATATAC
Found at i:2663163 original size:14 final size:15
Alignment explanation
Indices: 2663144--2663173 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2663134 ATTACATAAA
2663144 ATAC-AAATAAAGAG
1 ATACAAAATAAAGAG
2663158 ATACAAAATAAAGAG
1 ATACAAAATAAAGAG
2663173 A
1 A
2663174 AATTTTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.07, G:0.13, T:0.13
Consensus pattern (15 bp):
ATACAAAATAAAGAG
Found at i:2672800 original size:39 final size:39
Alignment explanation
Indices: 2672757--2672921 Score: 199
Period size: 39 Copynumber: 4.2 Consensus size: 39
2672747 GGTTGCCATA
*
2672757 CATTTGCTGAGGATACATCGAACCCATCTGGCCAGCTGG
1 CATTTGCTGAGGATACATTGAACCCATCTGGCCAGCTGG
* **
2672796 CATTTGCTGAGGATACATTGAACCCATCTGGGCC-CCCAG
1 CATTTGCTGAGGATACATTGAACCCATCT-GGCCAGCTGG
* * *
2672835 CACTTGCTGAGGATACATTGAACCCATCTGGCCCGTTGG
1 CATTTGCTGAGGATACATTGAACCCATCTGGCCAGCTGG
* * * *
2672874 CATTTGATGAGGATACATGGAACTCATCTGGCCCA-CAGG
1 CATTTGCTGAGGATACATTGAACCCATCTGG-CCAGCTGG
2672913 CATTTGCTG
1 CATTTGCTG
2672922 TGGAACCATG
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.04
39 96 0.91
40 6 0.06
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
CATTTGCTGAGGATACATTGAACCCATCTGGCCAGCTGG
Found at i:2672847 original size:78 final size:78
Alignment explanation
Indices: 2672760--2672921 Score: 236
Period size: 78 Copynumber: 2.1 Consensus size: 78
2672750 TGCCATACAT
* *
2672760 TTGCTGAGGATACATCGAACCCATCTGGCCAGCTGGCATTTGCTGAGGATACATTGAACCCATCT
1 TTGCTGAGGATACATCGAACCCATCTGGCCAGCTGGCATTTGATGAGGATACATGGAACCCATCT
*
2672825 GGGCCCCCA-GCAC
66 -GGCCCACAGGCAC
* * * *
2672838 TTGCTGAGGATACATTGAACCCATCTGGCCCGTTGGCATTTGATGAGGATACATGGAACTCATCT
1 TTGCTGAGGATACATCGAACCCATCTGGCCAGCTGGCATTTGATGAGGATACATGGAACCCATCT
*
2672903 GGCCCACAGGCAT
66 GGCCCACAGGCAC
2672916 TTGCTG
1 TTGCTG
2672922 TGGAACCATG
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
77 7 0.09
78 68 0.91
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (78 bp):
TTGCTGAGGATACATCGAACCCATCTGGCCAGCTGGCATTTGATGAGGATACATGGAACCCATCT
GGCCCACAGGCAC
Found at i:2675096 original size:110 final size:110
Alignment explanation
Indices: 2674903--2675124 Score: 426
Period size: 110 Copynumber: 2.0 Consensus size: 110
2674893 ATTTTTAATA
2674903 AGTGATACTAGCAAAATCACCTTAAGGACCATGAAATAAAAAGAGAATGCCATGCAGAAAAGCAT
1 AGTGATACTAGCAAAATCACCTTAAGGACCATGAAATAAAAAGAGAATGCCATGCAGAAAAGCAT
*
2674968 GACACATTCATGAAAACAGATGATAACATCAAGTCTTCAACTTAT
66 GACACATTCATGAAAACAGATGATAACATCAAGTCATCAACTTAT
2675013 AGTGATACTAGCAAAATCACCTTAAGGACCATGAAATAAAAAGAGAATGCCATGCAGAAAAGCAT
1 AGTGATACTAGCAAAATCACCTTAAGGACCATGAAATAAAAAGAGAATGCCATGCAGAAAAGCAT
*
2675078 GACACATTCATGAAAACAGATGATACCATCAAGTCATCAACTTAT
66 GACACATTCATGAAAACAGATGATAACATCAAGTCATCAACTTAT
2675123 AG
1 AG
2675125 AGAGTATGAA
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.20
Consensus pattern (110 bp):
AGTGATACTAGCAAAATCACCTTAAGGACCATGAAATAAAAAGAGAATGCCATGCAGAAAAGCAT
GACACATTCATGAAAACAGATGATAACATCAAGTCATCAACTTAT
Found at i:2678410 original size:6 final size:6
Alignment explanation
Indices: 2678399--2678425 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2678389 CGTTGAGAAA
2678399 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
2678426 TAAAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:2680880 original size:14 final size:14
Alignment explanation
Indices: 2680863--2680897 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
2680853 ACATATAATT
2680863 TGGCCCAATTGGAA
1 TGGCCCAATTGGAA
2680877 TGGCCCAATTGGAA
1 TGGCCCAATTGGAA
2680891 TGGCCCA
1 TGGCCCA
2680898 TTACTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.20
Consensus pattern (14 bp):
TGGCCCAATTGGAA
Found at i:2680988 original size:19 final size:19
Alignment explanation
Indices: 2680960--2681021 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
2680950 AATCTTTAAG
*
2680960 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
2680979 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
2680998 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
2681019 GAT
1 GAT
2681022 CTTGTAATCT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 31 0.77
21 9 0.22
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:2686197 original size:9 final size:9
Alignment explanation
Indices: 2686183--2686232 Score: 68
Period size: 9 Copynumber: 5.7 Consensus size: 9
2686173 ACTTCTATTT
2686183 AAAAAAAAG
1 AAAAAAAAG
2686192 -AAAAAAAG
1 AAAAAAAAG
2686200 AAAAAAAAG
1 AAAAAAAAG
2686209 AGAAAAAAA-
1 A-AAAAAAAG
*
2686218 AGAAAAAAG
1 AAAAAAAAG
2686227 AAAAAA
1 AAAAAA
2686233 TAGAGAGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
8 14 0.39
9 15 0.42
10 7 0.19
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:2686223 original size:27 final size:28
Alignment explanation
Indices: 2686183--2686238 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
2686173 ACTTCTATTT
2686183 AAAAAAAAGAAAAAAAGAAAAAAAAGAG
1 AAAAAAAAGAAAAAAAGAAAAAAAAGAG
*
2686211 AAAAAAAAG-AAAAAAGAAAAAATAGAG
1 AAAAAAAAGAAAAAAAGAAAAAAAAGAG
2686238 A
1 A
2686239 GGCCGAGGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (28 bp):
AAAAAAAAGAAAAAAAGAAAAAAAAGAG
Found at i:2686555 original size:79 final size:79
Alignment explanation
Indices: 2686424--2686578 Score: 294
Period size: 79 Copynumber: 2.0 Consensus size: 79
2686414 CACATGTTGA
2686424 ACTCAAAAAAAAAGTTCTTCATGGAGCTGGTGTATAGACGCTCAAGCGGCGATATCTAGGGCATC
1 ACTCAAAAAAAAAGTTCTTCATGGAGCTGGTGTATAGACGCTCAAGCGGCGATATCTAGGGCATC
2686489 TAACTTTTATCAAG
66 TAACTTTTATCAAG
2686503 ACTCAAAAAAAAAAG-TCTTCATGGAGCTGGTGTATAGACGCTCAAGCGGCGATATCTAGGGCAT
1 ACTC-AAAAAAAAAGTTCTTCATGGAGCTGGTGTATAGACGCTCAAGCGGCGATATCTAGGGCAT
2686567 CTAACTTTTATC
65 CTAACTTTTATC
2686579 CTACTTGGTA
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
79 65 0.87
80 10 0.13
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (79 bp):
ACTCAAAAAAAAAGTTCTTCATGGAGCTGGTGTATAGACGCTCAAGCGGCGATATCTAGGGCATC
TAACTTTTATCAAG
Found at i:2688041 original size:350 final size:352
Alignment explanation
Indices: 2687402--2688187 Score: 1229
Period size: 350 Copynumber: 2.2 Consensus size: 352
2687392 AATATAAGAT
* * * *
2687402 GATTTAGCGTCTCTGTATTGGCAGAGAGTAGATCAAAGATGACTGATTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
* *
2687467 GCAAAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGTTGAAGCAAATCAAAG
66 GCAGAGAGCAGATCGAAGACA-AGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCAAAG
2687532 ATGAATTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGATAT
130 ATGAATTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGATAT
*
2687597 TGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTATATTTGACGGAGAGCAGATCGAAG
195 TGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAG
*
2687662 ACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAAATGATTTGGCATCTTTGT
260 ACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAAATGATTTGGCATCTCTGT
*
2687727 ATTGGCAGAGAGCAGATCGAAGATAATA
325 ATTGGCAGAGAGCAGATCGAAGATAACA
* *
2687755 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTATATTCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
* * *
2687820 GCGGAGAGCAGATCGAAGAC-AGCTGATTTGGC-TTCTACGTGTTTACGTTGAAGCAAGTCTAAG
66 GCAGAGAGCAGATCGAAGACAAGCTGATTTGGCTTTC-ACGTGTTTACGTTGAAGCAAATCAAAG
* * ** *
2687883 ATGATTTGGTATCTCTGTATTGGTAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTG-TAT
130 ATGAATTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGATAT
* * * * * *
2687947 TGGCAGAGAGGAGATCAAAGATGACAGGTTTGGCATCTCTGTATTCGGCGGATAGCATATCGAAG
195 TGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAG
*
2688012 ACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGT
260 ACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAAATGATTTGGCATCTCTGT
*
2688077 ATTGGTAGAGAGCAGATCGAAGATAACA
325 ATTGGCAGAGAGCAGATCGAAGATAACA
* ** * * *
2688105 GATTTGACATCTCTGTATTGGCAGAGAGCAGATTGAAGATAATAGATTTGGCGTCTCTGTATT-G
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
2688169 GCAGAGAGCAGATCGAAGA
66 GCAGAGAGCAGATCGAAGA
2688188 TAGAAGATTT
Statistics
Matches: 396, Mismatches: 36, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
349 18 0.05
350 209 0.53
351 92 0.23
353 77 0.19
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (352 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
GCAGAGAGCAGATCGAAGACAAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCAAAGA
TGAATTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGATATT
GGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAGA
CATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAAATGATTTGGCATCTCTGTA
TTGGCAGAGAGCAGATCGAAGATAACA
Found at i:2688099 original size:176 final size:176
Alignment explanation
Indices: 2687402--2688187 Score: 1218
Period size: 176 Copynumber: 4.5 Consensus size: 176
2687392 AATATAAGAT
* * * *
2687402 GATTTAGCGTCTCTGTATTGGCAGAGAGTAGATCAAAGATGACTGATTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
** * * * *
2687467 GCAAAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGTTGAAGCAAATCAAAG
66 GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
* *
2687532 ATGAATTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
2687578 GATTTGGCATCTCTGATATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTATATTT
1 GATTTGGCATCTCTG-TATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTC
*
2687643 GACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAA
65 GGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAA
* * *
2687708 AATGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAATA
130 GATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
2687755 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTATATTCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
*
2687820 GCGGAGAGCAGATCGAAGAC--AGCTGATTTGGCTTCTACGTGTTTACGTTGAAGCAAGTCTAAG
66 GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
* * *
2687883 ATGATTTGGTATCTCTGTATTGGTAGAGAGCAGATCGAAGATAGCA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
2687929 GATTTGGCATCTCTGTATTGGCAGAGAGGAGATCAAAGATGACAGGTTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
* *
2687994 GCGGATAGCATATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
66 GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
*
2688059 ATGATTTGGCATCTCTGTATTGGTAGAGAGCAGATCGAAGATAACA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* ** * * *
2688105 GATTTGACATCTCTGTATTGGCAGAGAGCAGATTGAAGATAATAGATTTGGCGTCTCTGTATT-G
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
*
2688169 GCAGAGAGCAGATCGAAGA
66 GCGGAGAGCAGATCGAAGA
2688188 TAGAAGATTT
Statistics
Matches: 559, Mismatches: 48, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
174 161 0.29
175 17 0.03
176 221 0.40
177 160 0.29
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (176 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
GCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
Found at i:2688228 original size:44 final size:44
Alignment explanation
Indices: 2687296--2688231 Score: 556
Period size: 44 Copynumber: 21.3 Consensus size: 44
2687286 TATTGTTAAG
* * *
2687296 GAGCAGATCGAAGATACCAGATTTGGCGTCTCTGTATTGGCAGG
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
* * * * * *
2687340 GAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TT-ACATTGA
1 GAGCAGATCGAAG--ATAACAGATTTGGC-ATCTC-TGTATTGGCA--GA
* ** * *
2687388 -AGCAAATATAAGAT----GATTTAGCGTCTCTGTATTGGCAGA
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
* * * * *
2687427 GAGTAGATCAAAGATGACTGATTTGGCATCTCTGTATTCGGCAAA
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT-GGCAGA
* * * * ** *
2687472 GAGCAGATCGAAGACATAGCTGATTTGGC-TTTCATGTGTTTAC-GTT
1 GAGCAGATCGAAG--ATAACAGATTTGGCATCTC-TGTATTGGCAG-A
* * * *
2687518 GAAGCAAATCAAAGAT----GAATTGGCATCTCTGTATTGACAGA
1 G-AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
2687559 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGATATTGGCAGA
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTG-TATTGGCAGA
* * * * *
2687604 GAGCAGATCAAAGATGACAGATTTGGCATCTCTATATTTGACGGA
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTA-TTGGCAGA
* * * * * **
2687649 GAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGT-TTACGTTGA
1 GAGCAGATCGAAG--ATAACAGATTTGGCAT-CTC-TGTATT-GGCAGA
* * *
2687697 -AGCA-AGTC-TA-A-AA-TGATTTGGCATCTTTGTATTGGCAGA
1 GAGCAGA-TCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
*
2687736 GAGCAGATCGAAGATAATAGATTTGGCATCTCTGTATTGGCAGA
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
* * * * *
2687780 GAGCAGATCAAAGATGACAGATTTGGCATCTCTATATTCAGCGGA
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT-GGCAGA
* * * * * **
2687825 GAGCAGATCGAAGACAGCTGATTTGGCTTCTACGTGT-TTACGTTGA
1 GAGCAGATCGAAGATAACAGATTTGGCATCT-C-TGTATT-GGCAGA
* * *
2687871 -AGCA-AGTCTAAGAT----GATTTGGTATCTCTGTATTGGTAGA
1 GAGCAGA-TCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
*
2687910 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCAGA
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
* * * * *
2687954 GAGGAGATCAAAGATGACAGGTTTGGCATCTCTGTATTCGGCGGA
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT-GGCAGA
* * * * * * * **
2687999 TAGCATATCGAAGACATAGCTGATTTGGCTTCCACGTGT-TTACGTTGA
1 GAGCAGATCGAAG--ATAACAGATTTGGCAT-CTC-TGTATT-GGCAGA
* *
2688047 -AGCA-AGTCTAAGAT----GATTTGGCATCTCTGTATTGGTAGA
1 GAGCAGA-TCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
*
2688086 GAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTGGCAGA
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
* * *
2688130 GAGCAGATTGAAGATAATAGATTTGGCGTCTCTGTATTGGCAGA
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
* *
2688174 GAGCAGATCGAAGATAGA-AGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATA-ACAGATTTGGCATCTCTGTATTGGCAGA
* *
2688218 GAGTATATCGAAGA
1 GAGCAGATCGAAGA
2688232 GAAGAACAAC
Statistics
Matches: 695, Mismatches: 132, Indels: 130
0.73 0.14 0.14
Matches are distributed among these distances:
39 25 0.04
40 65 0.09
41 57 0.08
42 6 0.01
43 3 0.00
44 275 0.40
45 134 0.19
46 28 0.04
47 82 0.12
48 15 0.02
49 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (44 bp):
GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
Found at i:2688426 original size:44 final size:44
Alignment explanation
Indices: 2688284--2688562 Score: 199
Period size: 44 Copynumber: 6.2 Consensus size: 44
2688274 GATCCAAGAT
* *
2688284 GATTTGGCATTCCTGTGTTTACAGGGAACAGATCGAAGACATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATTGAAG--ATAGCA
* * * * ** ** ***
2688330 GATCTGACATTCCTGTGCTTACAACGAAGCAGATCAAAGATTTTA
1 GATTTGGCATCCCTGTGTTTACAGGGAA-CAGATTGAAGATAGCA
** *
2688375 -ACATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGA-TTGAAGATAGCA
* *
2688418 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAAACATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATTG--AAGATAGCA
* * * * * **
2688464 GATTTGACATTCCTGTGCTTACAGCGAAGCAGATTAAAGATTTCA
1 GATTTGGCATCCCTGTGTTTACAGGGAA-CAGATTGAAGATAGCA
* *
2688509 GCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGTA
1 G-ATTTGGCATCCCTGTGTTTACAGGGAACAGA-TTGAAGATAGCA
2688552 GATTTGGCATC
1 GATTTGGCATC
2688563 TTCATATTCG
Statistics
Matches: 177, Mismatches: 45, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
42 3 0.02
43 20 0.11
44 73 0.41
45 11 0.06
46 56 0.32
47 14 0.08
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATTGAAGATAGCA
Found at i:2688434 original size:134 final size:134
Alignment explanation
Indices: 2688284--2688562 Score: 486
Period size: 134 Copynumber: 2.1 Consensus size: 134
2688274 GATCCAAGAT
* *
2688284 GATTTGGCATTCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAAACATAGCAGATCTGACATTCCTGTGCT
*
2688349 TACAACGAAGCAGATCAAAGATTTTAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAACGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
2688414 AGCA
131 AGCA
*
2688418 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAAACATAGCAGATTTGACATTCCTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAAACATAGCAGATCTGACATTCCTGTGCT
* * *
2688483 TACAGCGAAGCAGATTAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAACGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
*
2688548 AGTA
131 AGCA
2688552 GATTTGGCATC
1 GATTTGGCATC
2688563 TTCATATTCG
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 137 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (134 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAAACATAGCAGATCTGACATTCCTGTGCT
TACAACGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
AGCA
Found at i:2688750 original size:44 final size:45
Alignment explanation
Indices: 2688626--2688774 Score: 167
Period size: 45 Copynumber: 3.3 Consensus size: 45
2688616 TTTACATCGA
* * * * *
2688626 AGCAGATCCAAGATGATAGATTTGGCATCTTTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACGGGG
* * * *
2688671 AACAAATCGGAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACGGGG
* *
2688716 AGCAGATTGAAGA-AGCAAATTTGG-AGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAAATTTGGCA-TCTCTGTATTAGACGGGG
*
2688760 AGCAGATCAAAGATA
1 AGCAGATCGAAGATA
2688775 GCAGATATCG
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 38 0.44
45 48 0.55
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACGGGG
Found at i:2689152 original size:14 final size:15
Alignment explanation
Indices: 2689133--2689170 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
2689123 AATCTTTAAG
2689133 GATATG-CAATCTTA
1 GATATGACAATCTTA
2689147 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
2689164 GATATGA
1 GATATGA
2689171 TATGCAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:2689159 original size:17 final size:17
Alignment explanation
Indices: 2689139--2689172 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2689129 TAAGGATATG
2689139 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
2689156 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
2689173 TGCAATCCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:2695164 original size:5 final size:5
Alignment explanation
Indices: 2695154--2695181 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2695144 AATAATTAAG
2695154 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
2695182 TATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:2698737 original size:18 final size:19
Alignment explanation
Indices: 2698716--2698755 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2698706 TACCTAAATT
* *
2698716 TATTTTTTAAA-TTTAATA
1 TATTTTTAAAACTTTAAAA
2698734 TATTTTTAAAACTTTAAAA
1 TATTTTTAAAACTTTAAAA
2698753 TAT
1 TAT
2698756 CATATCAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTTTTAAAACTTTAAAA
Found at i:2710027 original size:28 final size:28
Alignment explanation
Indices: 2709987--2710041 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
2709977 TATGCTCATG
2709987 TAAGTTTTTTTTAATAAAAAGAAAAACC
1 TAAGTTTTTTTTAATAAAAAGAAAAACC
*
2710015 TAAGTTTTTTTTAATAAAAAGACAAAC
1 TAAGTTTTTTTTAATAAAAAGAAAAAC
2710042 ACTTTCAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (28 bp):
TAAGTTTTTTTTAATAAAAAGAAAAACC
Found at i:2710983 original size:16 final size:17
Alignment explanation
Indices: 2710964--2711006 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
2710954 TATACTTTCA
2710964 TAATTAAATTAA-ATTT
1 TAATTAAATTAAGATTT
* *
2710980 TAATTAAAATAAGGTTT
1 TAATTAAATTAAGATTT
*
2710997 TAATCAAATT
1 TAATTAAATT
2711007 TCAATGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (17 bp):
TAATTAAATTAAGATTT
Found at i:2717401 original size:253 final size:253
Alignment explanation
Indices: 2717020--2717528 Score: 964
Period size: 253 Copynumber: 2.0 Consensus size: 253
2717010 CATCAAGCAA
2717020 GCAACTGGTGAGTAATCGATCAACTAATGTTAGCATTTGATGGGAAATAAACAAAAGCAGAGGTT
1 GCAACTGGTGAGTAATCGATCAACTAATGTTAGCATTTGATGGGAAATAAACAAAAGCAGAGGTT
*
2717085 AACATACAAGCACACAGAAAAGCGAAATAATATAACGGTATTGGGGAGCAGTGGAACCTTACATA
66 AACATACAAGCACACAGAAAAGCGAAATAATATAACGATATTGGGGAGCAGTGGAACCTTACATA
*
2717150 TTACAATTTTCAATAGCAGCACCATTCCCAGCATTATCAGCCAAGTTCTCCAAGGTTGCTGATGA
131 TTACAATTTTCAATAGCAGCACCATTCCCAGCATTATCAGCCAAATTCTCCAAGGTTGCTGATGA
*
2717215 AATTGACTGGCTTTCACTGTTCTTTATCTGCGGAGTAGGAGAGCTGATAATTATGCAT
196 AATTGACTGGCTTTCACTGTTCTTTATCTGCGGAGTAGGAGAGCTGACAATTATGCAT
2717273 GCAACTGGTGAGTAATCGATCAACTAATGTTAGCATTTGATGGGAAATAAACAAAAGCAGAGGTT
1 GCAACTGGTGAGTAATCGATCAACTAATGTTAGCATTTGATGGGAAATAAACAAAAGCAGAGGTT
*
2717338 AACATACAAGCACACAGAGAAGCGAAATAATATAACGATATTGGGGAGCAGTGGAACCTTACATA
66 AACATACAAGCACACAGAAAAGCGAAATAATATAACGATATTGGGGAGCAGTGGAACCTTACATA
**
2717403 TTGTAATTTTCAATAGCAGCACCATTCCCAGCATTATCAGCCAAATTCTCCAAGGTTGCTGATGA
131 TTACAATTTTCAATAGCAGCACCATTCCCAGCATTATCAGCCAAATTCTCCAAGGTTGCTGATGA
2717468 AATTGACTGGCTTTCACTGTTCTTTATCTGCGGAGTAGGAGAGCTGACAATTATGCAT
196 AATTGACTGGCTTTCACTGTTCTTTATCTGCGGAGTAGGAGAGCTGACAATTATGCAT
2717526 GCA
1 GCA
2717529 TTTCCCGAAA
Statistics
Matches: 250, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
253 250 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (253 bp):
GCAACTGGTGAGTAATCGATCAACTAATGTTAGCATTTGATGGGAAATAAACAAAAGCAGAGGTT
AACATACAAGCACACAGAAAAGCGAAATAATATAACGATATTGGGGAGCAGTGGAACCTTACATA
TTACAATTTTCAATAGCAGCACCATTCCCAGCATTATCAGCCAAATTCTCCAAGGTTGCTGATGA
AATTGACTGGCTTTCACTGTTCTTTATCTGCGGAGTAGGAGAGCTGACAATTATGCAT
Found at i:2721949 original size:34 final size:34
Alignment explanation
Indices: 2721910--2721977 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
2721900 AAGAAAAAGA
2721910 ACTCTTTAAATTCGTAAGATATAAGAAGAAACCC
1 ACTCTTTAAATTCGTAAGATATAAGAAGAAACCC
2721944 ACTCTTTAAATTCGTAAGATATAAGAAGAAACCC
1 ACTCTTTAAATTCGTAAGATATAAGAAGAAACCC
2721978 TAAAAAGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (34 bp):
ACTCTTTAAATTCGTAAGATATAAGAAGAAACCC
Found at i:2723030 original size:26 final size:26
Alignment explanation
Indices: 2722966--2723034 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 26
2722956 CATTAAAACT
* *
2722966 AAACTTAGATACCAAATTGAAACAAAA
1 AAAC-TAGATACTAAATAGAAACAAAA
*
2722993 AAATCAAG-TACTAAAGTAGAAA-AAAA
1 AAA-CTAGATACTAAA-TAGAAACAAAA
2723019 AAACTAGATACTAAAT
1 AAACTAGATACTAAAT
2723035 TAAACATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
25 4 0.11
26 20 0.57
27 10 0.29
28 1 0.03
ACGTcount: A:0.61, C:0.12, G:0.09, T:0.19
Consensus pattern (26 bp):
AAACTAGATACTAAATAGAAACAAAA
Found at i:2724964 original size:45 final size:45
Alignment explanation
Indices: 2724915--2725015 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
2724905 GTTTAACTAA
*
2724915 AAAAATAT-AAAGTTTAGAAATTGAGAA-ATTGAAAAGTAAAATTTG
1 AAAAATATGAAA-TCTAGAAATTGA-AATATTGAAAAGTAAAATTTG
* * **
2724960 AAAAATATGAAATCTAGAAATTGAAATTTTGAAATGTTCAATTTG
1 AAAAATATGAAATCTAGAAATTGAAATATTGAAAAGTAAAATTTG
2725005 AAAAAT-TGAAA
1 AAAAATATGAAA
2725016 ATAAAAAACA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
44 7 0.14
45 39 0.80
46 3 0.06
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (45 bp):
AAAAATATGAAATCTAGAAATTGAAATATTGAAAAGTAAAATTTG
Found at i:2727305 original size:17 final size:17
Alignment explanation
Indices: 2727283--2727317 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2727273 TTCTTCCCTG
*
2727283 AAAAAAAGGGAAAAGAA
1 AAAAAAAGAGAAAAGAA
*
2727300 AAAAAAAGAGCAAAGAA
1 AAAAAAAGAGAAAAGAA
2727317 A
1 A
2727318 CTCTTCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAGAAAAGAA
Found at i:2731143 original size:25 final size:26
Alignment explanation
Indices: 2731097--2731148 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 26
2731087 TAAAAATTTA
2731097 GTTAAAAAGATTAAGTAATTTTTTTTT
1 GTTAAAAAGA-TAAGTAATTTTTTTTT
*
2731124 GTTAAAAAG-TAAGT-TTTTTTTTTT
1 GTTAAAAAGATAAGTAATTTTTTTTT
2731148 G
1 G
2731149 AGAAATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 10 0.42
25 5 0.21
27 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (26 bp):
GTTAAAAAGATAAGTAATTTTTTTTT
Found at i:2738578 original size:23 final size:23
Alignment explanation
Indices: 2738525--2738579 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
2738515 AATTTAAATA
*
2738525 AATATTGAATTATACTTTATTAC
1 AATATTAAATTATACTTTATTAC
* *
2738548 AATATTAAATTATATTTTCATTAT
1 AATATTAAATTATACTTT-ATTAC
2738572 AAT-TTAAA
1 AATATTAAA
2738580 CTATTCAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (23 bp):
AATATTAAATTATACTTTATTAC
Found at i:2739900 original size:46 final size:46
Alignment explanation
Indices: 2739831--2740103 Score: 345
Period size: 46 Copynumber: 6.0 Consensus size: 46
2739821 TGACATAGTG
* * *
2739831 TCTTTCAA-CATAGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTA
*** **
2739876 TCTTTCAACCATGGTCTTGTTCATTTCATATCATGTTGCCATAATA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
* *
2739922 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
* *
2739968 TCTTTTAACCATGGTCTTGCACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
** * *
2740014 TCTTTCAACCATGGTCTTATTC-TTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
* * *
2740059 TCTTTCAACCATTGTCTTACACATTTCATATCACGTTGTCATGGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGT
2740104 CATATCAGGT
Statistics
Matches: 197, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
45 52 0.26
46 145 0.74
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
Found at i:2740019 original size:25 final size:25
Alignment explanation
Indices: 2739991--2740065 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
2739981 GTCTTGCACA
2739991 TTTCATATCATGTTGCCATGGTATC
1 TTTCATATCATGTTGCCATGGTATC
* *
2740016 TTTCA-ACCATG--GTC-T--TATTC
1 TTTCATATCATGTTGCCATGGTA-TC
* *
2740036 TTTCATGTCACGTTGCCATGGTATC
1 TTTCATATCATGTTGCCATGGTATC
2740061 TTTCA
1 TTTCA
2740066 ACCATTGTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
19 2 0.05
20 7 0.19
21 4 0.11
22 2 0.05
23 2 0.05
24 6 0.16
25 12 0.32
26 2 0.05
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (25 bp):
TTTCATATCATGTTGCCATGGTATC
Found at i:2740068 original size:183 final size:182
Alignment explanation
Indices: 2739831--2740607 Score: 862
Period size: 183 Copynumber: 4.1 Consensus size: 182
2739821 TGACATAGTG
* * *
2739831 TCTTTCAA-CATAGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTG
1 TCTTTCAACCATGGTCTTACTCA-TTTCTGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
** *
2739895 TTCATTTCATATCATGTTGCCATAATATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
65 CACATTTCATATCATGTTGCCATAATATCTTTCAACCATGGTCTTACAC-TTTCATATCACGTTG
* *
2739960 TCATGGTATCTTTTAACCATGGTCTTGCACATTTCATATCATGTTGCCATGGTA
129 TCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
* *
2740014 TCTTTCAACCATGGTCTTATTC-TTTCATGTCACGTTGCCATGGTATCTTTCAACCATTGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTC-TGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
2740078 CACATTTCATATCACGTTGTCATGGTCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTA
65 CACATTTCATATCA---TGT--T-GCCATA--A---T---A-----TCTTTCAACCATGGTCTTA
** * * *
2740143 TTCTTTCATGTCACGTTATCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGTTGC
111 CACTTTCATATCACGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGC
2740208 CATGGTA
176 CATGGTA
* * * * * * * *
2740215 TCTTTCAACTATGATCTTACACATTTCTAATCATGTTGCCATGGTATCTTTAAATCATGGTCTTG
1 TCTTTCAACCATGGTCTTACTCATTTCT-GTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
* ** ** * * *
2740280 CACATTTCATATCATGTTGTCATGGTATCTTTCAACCATGGTCTTATTCTTTCATTTCACATTGC
65 CACATTTCATATCATGTTGCCATAATATCTTTCAACCATGGTCTTACACTTTCATATCACGTTGT
* *
2740345 CATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
130 CATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
* * *
2740398 TCTTTCAACCATGGTCTTATTC-TTTCATGTCACGTTGCTATGGTATCTTTCAACAATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTC-TGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
* ** * *
2740462 CACATTTCATATTATGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATATCATGTTG
65 CACATTTCATATCATGTTGCCATAATATCTTTCAACCATGGTCTTACAC-TTTCATATCACGTTG
*
2740527 -CTATGGTATCTTTCAACCATGGTCTTACACATTTC-TAATCATGTTGTCATGGTA
129 TC-ATGGTATCTTTCAACCATGGTCTTACACATTTCAT-ATCATGTTGCCATGGTA
* *
2740581 TCTTTCAACCATGGTCATACACATTTC
1 TCTTTCAACCATGGTCTTACTCATTTC
2740608 ATTTCAGAGA
Statistics
Matches: 504, Mismatches: 62, Indels: 55
0.81 0.10 0.09
Matches are distributed among these distances:
182 83 0.16
183 234 0.46
184 15 0.03
186 3 0.01
188 2 0.00
189 5 0.01
191 2 0.00
194 1 0.00
196 5 0.01
197 2 0.00
199 3 0.01
201 82 0.16
202 67 0.13
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (182 bp):
TCTTTCAACCATGGTCTTACTCATTTCTGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTAC
ACATTTCATATCATGTTGCCATAATATCTTTCAACCATGGTCTTACACTTTCATATCACGTTGTC
ATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
Found at i:2740108 original size:19 final size:19
Alignment explanation
Indices: 2740084--2740122 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2740074 CTTACACATT
*
2740084 TCATATCACGTTGTCATGG
1 TCATATCACGTTGCCATGG
*
2740103 TCATATCAGGTTGCCATGG
1 TCATATCACGTTGCCATGG
2740122 T
1 T
2740123 ATCTTTCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (19 bp):
TCATATCACGTTGCCATGG
Found at i:2740123 original size:65 final size:64
Alignment explanation
Indices: 2740038--2740167 Score: 188
Period size: 65 Copynumber: 2.0 Consensus size: 64
2740028 TCTTATTCTT
* * *
2740038 TCATGTCACGTTGCCATGGTATCTTTCAACCATTGTCTTACACATTTCATATCACGTTGTCATGG
1 TCATATCACGTTGCCATGGTATCTTTCAACCATAGTCTTACAC-TTTCATATCACGTTATCATGG
* ** *
2740103 TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTATTCTTTCATGTCACGTTATCATGG
1 TCATATCACGTTGCCATGGTATCTTTCAACCATAGTCTTACACTTTCATATCACGTTATCATGG
2740167 T
1 T
2740168 ATCTTTCAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
64 20 0.34
65 38 0.66
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (64 bp):
TCATATCACGTTGCCATGGTATCTTTCAACCATAGTCTTACACTTTCATATCACGTTATCATGG
Found at i:2740125 original size:110 final size:110
Alignment explanation
Indices: 2739993--2740213 Score: 370
Period size: 110 Copynumber: 2.0 Consensus size: 110
2739983 CTTGCACATT
* * *
2739993 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTCATGTCACGTTGCCATGGT
1 TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTATTCTTTCATGTCACGTTACCATGGT
* *
2740058 ATCTTTCAACCATTGTCTTACACATTTCATATCACGTTGTCATGG
66 ATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGG
*
2740103 TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTATTCTTTCATGTCACGTTATCATGGT
1 TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTATTCTTTCATGTCACGTTACCATGGT
* *
2740168 ATCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGG
66 ATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGG
2740213 T
1 T
2740214 ATCTTTCAAC
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 103 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (110 bp):
TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTATTCTTTCATGTCACGTTACCATGGT
ATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGG
Found at i:2740211 original size:91 final size:90
Alignment explanation
Indices: 2740103--2740596 Score: 641
Period size: 91 Copynumber: 5.4 Consensus size: 90
2740093 GTTGTCATGG
* * * *
2740103 TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTATTCTTTCATGTCACGTTATCATGGT
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTCATATCACGTT-CCATGGT
2740168 ATCTTTCAACCATGGTCTTACACATT
65 ATCTTTCAACCATGGTCTTACACATT
* * * ** *
2740194 TTATATCATGTTGCCATGGTATCTTTCAACTATGATCTTACACATTTC-TAATCATGTTGCCATG
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCAT-ATCACGTT-CCATG
* * *
2740258 GTATCTTTAAATCATGGTCTTGCACATT
63 GTATCTTTCAACCATGGTCTTACACATT
* * * *
2740286 TCATATCATGTTGTCATGGTATCTTTCAACCATGGTCTTATTCTTTCATTTCACATTGCCATAGT
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTCATATCACGTT-CCATGGT
2740351 ATCTTTCAACCATGGTCTTACACATT
65 ATCTTTCAACCATGGTCTTACACATT
* * *
2740377 TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTCATGTCACGTTGCTATGGT
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTCATATCACGTT-CCATGGT
*
2740442 ATCTTTCAACAATGGTCTTACACATT
65 ATCTTTCAACCATGGTCTTACACATT
* *** * *
2740468 TCATATTATGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATATCATGTTGCTATGG
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATATCACGTT-CCATGG
2740533 TATCTTTCAACCATGGTCTTACACATT
64 TATCTTTCAACCATGGTCTTACACATT
*
2740560 TC-TAATCATGTTGTCATGGTATCTTTCAACCATGGTC
1 TCAT-ATCATGTTGCCATGGTATCTTTCAACCATGGTC
2740597 ATACACATTT
Statistics
Matches: 354, Mismatches: 44, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
91 199 0.56
92 155 0.44
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (90 bp):
TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTCATATCACGTTCCATGGTA
TCTTTCAACCATGGTCTTACACATT
Found at i:2740233 original size:46 final size:46
Alignment explanation
Indices: 2740103--2740609 Score: 664
Period size: 46 Copynumber: 11.1 Consensus size: 46
2740093 GTTGTCATGG
* * **
2740103 TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTATTC-TT
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
* * **
2740148 TCATGTCACGTTATCATGGTATCTTTCAACCATGGTCTTACACATT
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
* * *
2740194 TTATATCATGTTGCCATGGTATCTTTCAACTATGATCTTACACATT
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
* * *
2740240 TC-TAATCATGTTGCCATGGTATCTTTAAATCATGGTCTTGCACATT
1 TCAT-ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
* **
2740286 TCATATCATGTTGTCATGGTATCTTTCAACCATGGTCTTATTC-TT
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
* ** *
2740331 TCATTTCACATTGCCATAGTATCTTTCAACCATGGTCTTACACATT
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
* **
2740377 TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TT
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
* * * *
2740422 TCATGTCACGTTGCTATGGTATCTTTCAACAATGGTCTTACACATT
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
* *
2740468 TCATATTATGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATT
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
*
2740514 TCATATCATGTTGCTATGGTATCTTTCAACCATGGTCTTACACATT
1 TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
* *
2740560 TC-TAATCATGTTGTCATGGTATCTTTCAACCATGGTCATACACATT
1 TCAT-ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
2740606 TCAT
1 TCAT
2740610 TTCAGAGAGC
Statistics
Matches: 398, Mismatches: 57, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
45 115 0.29
46 281 0.71
47 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.41
Consensus pattern (46 bp):
TCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
Found at i:2740233 original size:156 final size:156
Alignment explanation
Indices: 2739947--2740259 Score: 416
Period size: 156 Copynumber: 2.0 Consensus size: 156
2739937 CTTACACATT
* * * * * *
2739947 TCATATCAGGTTGTCATGGTATCTTTTAACCATGGTCTTGCACATTTCATATCATGTTGCCATGG
1 TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCACGTTACCATGG
** *
2740012 TATCTTTCAACCATGGTCTTATTCTTTCATGTCACGTTGCCATGGTATCTTTCAACCATTGTCTT
66 TATCTTTCAACCATGGTCTTACACTTTCATATCACGTTGCCATGGTATCTTTCAACCATTGTCTT
*
2740077 ACACATTTC-ATATCACGTTGTCATGG
131 ACACATTTCTA-ATCACGTTGCCATGG
** * *
2740103 TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTATTC-TTTCATGTCACGTTATCATGG
1 TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCACGTTACCATGG
* * *
2740167 TATCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACTA-TGATC
66 TATCTTTCAACCATGGTCTTACAC-TTTCATATCACGTTGCCATGGTATCTTTCAACCATTG-TC
*
2740231 TTACACATTTCTAATCATGTTGCCATGG
129 TTACACATTTCTAATCACGTTGCCATGG
2740259 T
1 T
2740260 ATCTTTAAAT
Statistics
Matches: 136, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
155 41 0.30
156 94 0.69
157 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.41
Consensus pattern (156 bp):
TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCACGTTACCATGG
TATCTTTCAACCATGGTCTTACACTTTCATATCACGTTGCCATGGTATCTTTCAACCATTGTCTT
ACACATTTCTAATCACGTTGCCATGG
Found at i:2740540 original size:25 final size:25
Alignment explanation
Indices: 2740466--2740541 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
2740456 GTCTTACACA
* *
2740466 TTTCATATTATGTTGCCATGGTATC
1 TTTCATATCATGTTGCTATGGTATC
* * *
2740491 TTTCA-ACCATGGT-CT-T-GCA-C
1 TTTCATATCATGTTGCTATGGTATC
2740511 ATTTCATATCATGTTGCTATGGTATC
1 -TTTCATATCATGTTGCTATGGTATC
2740537 TTTCA
1 TTTCA
2740542 ACCATGGTCT
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 7 0.19
22 7 0.19
23 3 0.08
24 6 0.16
25 12 0.32
26 1 0.03
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.45
Consensus pattern (25 bp):
TTTCATATCATGTTGCTATGGTATC
Found at i:2740592 original size:274 final size:274
Alignment explanation
Indices: 2740103--2740596 Score: 832
Period size: 274 Copynumber: 1.8 Consensus size: 274
2740093 GTTGTCATGG
2740103 TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTATTCTTTCATGTCACGTTATCATGGT
1 TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTATTCTTTCATGTCACGTTATCATGGT
* * *
2740168 ATCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACTATGATCTT
66 ATCTTTCAACAATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGATCTT
* *
2740233 ACACATTTCTAATCATGTTGCCATGGTATCTTTAAATCATGGTCTTGCACATTTCATATCATGTT
131 ACACATTTCTAATCATGTTGCCATGGTATCTTTAAACCATGGTCTTACACATTTCATATCATGTT
2740298 GTCATGGTATCTTTCAACCATGGTCTTATTCTTTCATTTCACATTGCCATAGTATCTTTCAACCA
196 GTCATGGTATCTTTCAACCATGGTCTTATTCTTTCATTTCACATTGCCATAGTATCTTTCAACCA
2740363 TGGTCTTACACATT
261 TGGTCTTACACATT
* *
2740377 TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTCATGTCACGTT-GCTATGG
1 TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTATTCTTTCATGTCACGTTATC-ATGG
* *
2740441 TATCTTTCAACAATGGTCTTACACATTTCATATTATGTTGCCATGGTATCTTTCAACCATGGTCT
65 TATCTTTCAACAATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGATCT
* * *
2740506 TGCACATTTC-ATATCATGTTGCTATGGTATCTTTCAACCATGGTCTTACACATTTC-TAATCAT
130 TACACATTTCTA-ATCATGTTGCCATGGTATCTTTAAACCATGGTCTTACACATTTCAT-ATCAT
2740569 GTTGTCATGGTATCTTTCAACCATGGTC
193 GTTGTCATGGTATCTTTCAACCATGGTC
2740597 ATACACATTT
Statistics
Matches: 205, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
273 3 0.01
274 202 0.99
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (274 bp):
TCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTATTCTTTCATGTCACGTTATCATGGT
ATCTTTCAACAATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGATCTT
ACACATTTCTAATCATGTTGCCATGGTATCTTTAAACCATGGTCTTACACATTTCATATCATGTT
GTCATGGTATCTTTCAACCATGGTCTTATTCTTTCATTTCACATTGCCATAGTATCTTTCAACCA
TGGTCTTACACATT
Found at i:2742762 original size:11 final size:11
Alignment explanation
Indices: 2742748--2742788 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
2742738 ATTAAATAAT
2742748 TAATAAAAAAA
1 TAATAAAAAAA
**
2742759 TAATAATGAAA
1 TAATAAAAAAA
*
2742770 TAATAATAAAA
1 TAATAAAAAAA
2742781 TAATAAAA
1 TAATAAAA
2742789 TATCTCATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
TAATAAAAAAA
Found at i:2742813 original size:20 final size:21
Alignment explanation
Indices: 2742760--2742835 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
2742750 ATAAAAAAAT
* *
2742760 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
2742779 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
2742800 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
2742821 TAATCATAAAATATC
1 -AATAATAAAATATC
2742836 ATCAAAATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:2745626 original size:28 final size:28
Alignment explanation
Indices: 2745594--2745650 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
2745584 AAATTGATAG
2745594 ATAGTGCACATTATCCCCAGTAAATACA
1 ATAGTGCACATTATCCCCAGTAAATACA
2745622 ATAGTGCACATTATCCCCAGTAAATACA
1 ATAGTGCACATTATCCCCAGTAAATACA
2745650 A
1 A
2745651 CAACAAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.25
Consensus pattern (28 bp):
ATAGTGCACATTATCCCCAGTAAATACA
Found at i:2746684 original size:14 final size:14
Alignment explanation
Indices: 2746665--2746691 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2746655 AAGATGTTTT
2746665 AAGAAAAGAAAAAA
1 AAGAAAAGAAAAAA
2746679 AAGAAAAGAAAAA
1 AAGAAAAGAAAAA
2746692 GAAAACCTTA
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAGAAAAGAAAAAA
Found at i:2756016 original size:6 final size:6
Alignment explanation
Indices: 2756005--2756034 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
2755995 CAAATGGGGA
2756005 GGGGTG GGGGTG GGGGTG GGGGTG GGGGTG
1 GGGGTG GGGGTG GGGGTG GGGGTG GGGGTG
2756035 CAGATGGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.83, T:0.17
Consensus pattern (6 bp):
GGGGTG
Found at i:2762826 original size:56 final size:56
Alignment explanation
Indices: 2762765--2762950 Score: 160
Period size: 56 Copynumber: 3.2 Consensus size: 56
2762755 TTGAAAATGC
*
2762765 TTTAATTATGATTCAAATTTTTTTATTATAATATCTGAATTAATAAGTTAATATAT
1 TTTAATTATGATTCAAATTTTTTTATTATAATATTTGAATTAATAAGTTAATATAT
* * * * * * *
2762821 TTTAATTAT-ATT-TAATAATTATTATAAAGTGAAATTATATTATAAGTTAAATATGTTGAAAAT
1 TTTAATTATGATTCAAAT-TTTTTTAT-TA-T--AA-TAT-TT-GAA-TTA-ATAAGTT-AATAT
**
2762884 GC
55 AT
*
2762886 TTTAATTATGATTCAAATTTTTTTATTATAATATTTGAATTGATAAGTTAATATAT
1 TTTAATTATGATTCAAATTTTTTTATTATAATATTTGAATTAATAAGTTAATATAT
2762942 TTTAATTAT
1 TTTAATTAT
2762951 ATTTAATAAT
Statistics
Matches: 97, Mismatches: 20, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
54 3 0.03
55 9 0.09
56 23 0.24
57 7 0.07
58 2 0.02
59 4 0.04
60 5 0.05
61 4 0.04
62 4 0.04
63 3 0.03
64 7 0.07
65 14 0.14
66 9 0.09
67 3 0.03
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (56 bp):
TTTAATTATGATTCAAATTTTTTTATTATAATATTTGAATTAATAAGTTAATATAT
Found at i:2762937 original size:121 final size:121
Alignment explanation
Indices: 2762723--2762961 Score: 433
Period size: 121 Copynumber: 2.0 Consensus size: 121
2762713 CCTTAATTAC
* * *
2762723 ATAAAGTGAAATTATATTGTAGGTTGAATATGTTGAAAATGCTTTAATTATGATTCAAATTTTTT
1 ATAAAGTGAAATTATATTATAAGTTAAATATGTTGAAAATGCTTTAATTATGATTCAAATTTTTT
2762788 TATTATAATATCTGAATTAATAAGTTAATATATTTTAATTATATTTAATAATTATT
66 TATTATAATATCTGAATTAATAAGTTAATATATTTTAATTATATTTAATAATTATT
2762844 ATAAAGTGAAATTATATTATAAGTTAAATATGTTGAAAATGCTTTAATTATGATTCAAATTTTTT
1 ATAAAGTGAAATTATATTATAAGTTAAATATGTTGAAAATGCTTTAATTATGATTCAAATTTTTT
* *
2762909 TATTATAATATTTGAATTGATAAGTTAATATATTTTAATTATATTTAATAATT
66 TATTATAATATCTGAATTAATAAGTTAATATATTTTAATTATATTTAATAATT
2762962 TAAATATAAA
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 113 1.00
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (121 bp):
ATAAAGTGAAATTATATTATAAGTTAAATATGTTGAAAATGCTTTAATTATGATTCAAATTTTTT
TATTATAATATCTGAATTAATAAGTTAATATATTTTAATTATATTTAATAATTATT
Found at i:2763150 original size:13 final size:14
Alignment explanation
Indices: 2763119--2763149 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2763109 TCGACTAAAA
*
2763119 TTTTATTTAAATTT
1 TTTTATATAAATTT
2763133 TTTTATATAAATTT
1 TTTTATATAAATTT
2763147 TTT
1 TTT
2763150 ACTCACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATATAAATTT
Found at i:2763402 original size:14 final size:14
Alignment explanation
Indices: 2763377--2763409 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2763367 AATATTTCAT
2763377 AAATACTAAAATTGA
1 AAATACTAAAATT-A
2763392 AAATA-TAAAATTA
1 AAATACTAAAATTA
2763405 AAATA
1 AAATA
2763410 ATATTGAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 7 0.39
15 5 0.28
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (14 bp):
AAATACTAAAATTA
Found at i:2765278 original size:13 final size:13
Alignment explanation
Indices: 2765260--2765284 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2765250 GGGCATTAAA
2765260 AGAAAAAAAAAGC
1 AGAAAAAAAAAGC
2765273 AGAAAAAAAAAG
1 AGAAAAAAAAAG
2765285 ATAAATTTTT
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:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAGC
Found at i:2766060 original size:30 final size:29
Alignment explanation
Indices: 2766021--2766078 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
2766011 AGAAGAAGTA
* *
2766021 TAAACATATTGGGTCATTTATGTAAAAATT
1 TAAAAATATTGGGCCATTTAT-TAAAAATT
2766051 TAAAAATATTGGGCCATTTATTAAAAAT
1 TAAAAATATTGGGCCATTTATTAAAAAT
2766079 AAAAAAAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (29 bp):
TAAAAATATTGGGCCATTTATTAAAAATT
Found at i:2766085 original size:29 final size:30
Alignment explanation
Indices: 2766026--2766085 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
2766016 AAGTATAAAC
* **
2766026 ATATTGGGTCATTTATGTAAAAATTTAAAA
1 ATATTGGGCCATTTATGTAAAAATAAAAAA
2766056 ATATTGGGCCATTTAT-TAAAAATAAAAAA
1 ATATTGGGCCATTTATGTAAAAATAAAAAA
2766085 A
1 A
2766086 GACGGAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (30 bp):
ATATTGGGCCATTTATGTAAAAATAAAAAA
Found at i:2775263 original size:57 final size:57
Alignment explanation
Indices: 2775202--2775317 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
2775192 TATAAACAAA
2775202 ATTTCATTTTCTTTTTAATAATTATGTCAAACTTCTTTATTGATATATCTTTTAGAG
1 ATTTCATTTTCTTTTTAATAATTATGTCAAACTTCTTTATTGATATATCTTTTAGAG
2775259 ATTTCATTTTCTTTTTAATAATTATGTCAAACTTCTTTATTGATATATCTTTTAGAG
1 ATTTCATTTTCTTTTTAATAATTATGTCAAACTTCTTTATTGATATATCTTTTAGAG
2775316 AT
1 AT
2775318 CGATTTGAAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.54
Consensus pattern (57 bp):
ATTTCATTTTCTTTTTAATAATTATGTCAAACTTCTTTATTGATATATCTTTTAGAG
Found at i:2777394 original size:28 final size:28
Alignment explanation
Indices: 2777359--2777422 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
2777349 TATTTAAAAT
2777359 AATATAAAT-CTAAATATTTTTATAATTA
1 AATATAAATAC-AAATATTTTTATAATTA
* *
2777387 AATTTAAATACAAATATTTTTATTATTA
1 AATATAAATACAAATATTTTTATAATTA
2777415 AATATAAA
1 AATATAAA
2777423 ATTAAGTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
AATATAAATACAAATATTTTTATAATTA
Found at i:2781894 original size:54 final size:57
Alignment explanation
Indices: 2781799--2781904 Score: 148
Period size: 54 Copynumber: 1.9 Consensus size: 57
2781789 CTATGTCATA
* *
2781799 ATTATTACTTATCTCTTAATTAAATTAAATATTAAGCGATAAATAATAAATAAATAT
1 ATTATTACTTATCTCTTAATTAAATTAAATAATAAGAGATAAATAATAAATAAATAT
*
2781856 ATTATTA-TT-TCTC-TAATT-AATTAAATTAATATGAGATAAATAATAAATA
1 ATTATTACTTATCTCTTAATTAAATTAAA-TAATAAGAGATAAATAATAAATA
2781905 GATGAGAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
53 7 0.16
54 25 0.56
55 4 0.09
56 2 0.04
57 7 0.16
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (57 bp):
ATTATTACTTATCTCTTAATTAAATTAAATAATAAGAGATAAATAATAAATAAATAT
Found at i:2786520 original size:12 final size:12
Alignment explanation
Indices: 2786503--2786531 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2786493 TAAATATTTT
2786503 TTAATAAAAATA
1 TTAATAAAAATA
2786515 TTAATAAAAATA
1 TTAATAAAAATA
2786527 TTAAT
1 TTAAT
2786532 TTTTAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAATAAAAATA
Found at i:2786667 original size:17 final size:16
Alignment explanation
Indices: 2786627--2786670 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
2786617 CAGATAATTT
2786627 AAAAT-TTATAAATTCA
1 AAAATATTA-AAATTCA
2786643 AAAA-ATTAAAATTCAA
1 AAAATATTAAAATTC-A
2786659 AAAATATTAAAA
1 AAAATATTAAAA
2786671 AACTCATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.24
16 12 0.48
17 7 0.28
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATATTAAAATTCA
Found at i:2788132 original size:29 final size:29
Alignment explanation
Indices: 2788100--2788159 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 29
2788090 CAAATGACTG
* *
2788100 AATTATGTAACGTGAGTATCTAAATTGAA
1 AATTATGTAACGTGAGTACCTAAAATGAA
* * **
2788129 AATTTTTTAATTTGAGTACCTAAAATGAA
1 AATTATGTAACGTGAGTACCTAAAATGAA
2788158 AA
1 AA
2788160 ATTTTAATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (29 bp):
AATTATGTAACGTGAGTACCTAAAATGAA
Done.