Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 110 of 120
Found at i:31988385 original size:27 final size:27
Alignment explanation
Indices: 31988336--31988401 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
31988326 ATATAAGAGG
* ** *
31988336 CTGGTGCCGCCTGTGGTAGTGGCACAT
1 CTGGTGCCGCCTCTGCCACTGGCACAT
* *
31988363 TTGGTGCCGCCTCTGCCACTGGCACCT
1 CTGGTGCCGCCTCTGCCACTGGCACAT
31988390 CTGGTGCCGCCT
1 CTGGTGCCGCCT
31988402 GTGGCAGGCC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.08, C:0.35, G:0.32, T:0.26
Consensus pattern (27 bp):
CTGGTGCCGCCTCTGCCACTGGCACAT
Found at i:31990913 original size:24 final size:25
Alignment explanation
Indices: 31990864--31990919 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
31990854 TCTTTTTAGC
* *
31990864 TTAGTTTTTATTCTCTTCTCTATTT
1 TTAGGTTTTATTCTCTTATCTATTT
31990889 TTAGGTTTTAGTTCT-TTATCT-TTT
1 TTAGGTTTTA-TTCTCTTATCTATTT
*
31990913 TCAGGTT
1 TTAGGTT
31990920 AGTGGTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 9 0.33
25 14 0.52
26 4 0.15
ACGTcount: A:0.12, C:0.12, G:0.11, T:0.64
Consensus pattern (25 bp):
TTAGGTTTTATTCTCTTATCTATTT
Found at i:31993501 original size:18 final size:20
Alignment explanation
Indices: 31993474--31993522 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
31993464 ATTAGGTTAA
*
31993474 TATTTCTTTTTATAA-AT-T
1 TATTTATTTTTATAACATCT
31993492 TATTTATTTTTA-AACATCT
1 TATTTATTTTTATAACATCT
31993511 T-TTTATTTTTAT
1 TATTTATTTTTAT
31993523 TTTCTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTATTTTTATAACATCT
Found at i:31994421 original size:17 final size:18
Alignment explanation
Indices: 31994399--31994439 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
31994389 TAGCATCATT
31994399 TATTTTATAT-T-TGTAAA
1 TATTTTATATATAT-TAAA
31994416 TATTTTATATATATTAAA
1 TATTTTATATATATTAAA
31994434 TATTTT
1 TATTTT
31994440 TTAAAAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
18 11 0.50
19 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATTTTATATATATTAAA
Found at i:31994736 original size:10 final size:9
Alignment explanation
Indices: 31994723--31994748 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
31994713 AAAAGATTAT
31994723 AAAAAATAG
1 AAAAAATAG
31994732 AAAAAATAG
1 AAAAAATAG
31994741 AAAAAATA
1 AAAAAATA
31994749 TTAAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAAAAATAG
Found at i:31995258 original size:9 final size:9
Alignment explanation
Indices: 31995244--31995305 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
31995234 TATTATGATT
31995244 TTTTTATAA
1 TTTTTATAA
*
31995253 TTTTTATTA
1 TTTTTATAA
**
31995262 TTTTATATCG
1 TTTT-TATAA
31995272 TTTTTA-ATA
1 TTTTTATA-A
* *
31995281 TTTTAATAT
1 TTTTTATAA
31995290 TTTTTATAA
1 TTTTTATAA
31995299 TTTTTAT
1 TTTTTAT
31995306 TCTTTTTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
9 33 0.80
10 8 0.20
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTTATAA
Found at i:31995275 original size:19 final size:18
Alignment explanation
Indices: 31995253--31995302 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
31995243 TTTTTTATAA
31995253 TTTTTATTATTTT-ATAT
1 TTTTTATTATTTTAATAT
*
31995270 CGTTTTTAATATTTTAATAT
1 --TTTTTATTATTTTAATAT
*
31995290 TTTTTATAATTTT
1 TTTTTATTATTTT
31995303 TATTCTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.41
19 12 0.44
20 4 0.15
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTATTATTTTAATAT
Found at i:31995311 original size:27 final size:27
Alignment explanation
Indices: 31995245--31995304 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
31995235 ATTATGATTT
* **
31995245 TTTTATAAT-TTTTATTATTTTATATCG
1 TTTT-TAATATTTTAATATTTTATATAA
*
31995272 TTTTTAATATTTTAATATTTTTTATAA
1 TTTTTAATATTTTAATATTTTATATAA
31995299 TTTTTA
1 TTTTTA
31995305 TTCTTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTTAATATTTTAATATTTTATATAA
Found at i:31995409 original size:17 final size:16
Alignment explanation
Indices: 31995371--31995427 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
31995361 TTATAAAACT
31995371 TTTTTTATATTTATTAGA
1 TTTTTTATATTTA-TA-A
31995389 -TTTTTATATTTTATAA
1 TTTTTTATA-TTTATAA
*
31995405 TTTTTT-TA-ATATAA
1 TTTTTTATATTTATAA
31995419 TTTTTTATA
1 TTTTTTATA
31995428 GTTTTAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 11 0.31
15 2 0.06
16 3 0.09
17 15 0.43
18 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTTTTATATTTATAA
Found at i:31995410 original size:18 final size:17
Alignment explanation
Indices: 31995370--31995424 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 17
31995360 GTTATAAAAC
31995370 TTTTTTTATATTTATTAGA
1 TTTTTTTATATTTA-TA-A
*
31995389 TTTTTATAT-TTTATAA
1 TTTTTTTATATTTATAA
31995405 TTTTTTTA-A--TATAA
1 TTTTTTTATATTTATAA
31995419 TTTTTT
1 TTTTTT
31995425 ATAGTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
14 11 0.33
16 8 0.24
17 2 0.06
18 4 0.12
19 8 0.24
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTTTTATATTTATAA
Found at i:31995466 original size:16 final size:16
Alignment explanation
Indices: 31995445--31995480 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
31995435 TAAGTTGATG
*
31995445 TAATTTTAATTTTTTT
1 TAATTTTAATTATTTT
*
31995461 TAATTTTTATTATTTT
1 TAATTTTAATTATTTT
31995477 TAAT
1 TAAT
31995481 CATTTTATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TAATTTTAATTATTTT
Found at i:32004085 original size:16 final size:15
Alignment explanation
Indices: 32004064--32004102 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
32004054 TCATTTTGGG
*
32004064 TATTTTTTTT-CTTT
1 TATTTTTTTTAATTT
32004078 TATGTTTTTTTAATTT
1 TAT-TTTTTTTAATTT
32004094 TATTTTTTT
1 TATTTTTTT
32004103 CTTTATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 13 0.59
16 6 0.27
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (15 bp):
TATTTTTTTTAATTT
Found at i:32009012 original size:43 final size:43
Alignment explanation
Indices: 32008965--32009092 Score: 150
Period size: 43 Copynumber: 3.0 Consensus size: 43
32008955 TATGTGCTAG
* * *
32008965 TATAATTGATTTGGCTTGTCCGATGATGCACTGTGTGTGCCAA
1 TATAATTGATTCGGCTTGTCCGATGACGCACTATGTGTGCCAA
*
32009008 TATAATTGCTTCGGCTTGTCCGATGACGCACTATGTGTGCCAA
1 TATAATTGATTCGGCTTGTCCGATGACGCACTATGTGTGCCAA
* ** * * * *
32009051 TATATTTCCTTCAGTTTATCCGATGATGCACTATG-GTGCCAA
1 TATAATTGATTCGGCTTGTCCGATGACGCACTATGTGTGCCAA
32009093 ATTGGGATAT
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 7 0.09
43 68 0.91
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (43 bp):
TATAATTGATTCGGCTTGTCCGATGACGCACTATGTGTGCCAA
Found at i:32015953 original size:27 final size:28
Alignment explanation
Indices: 32015922--32015982 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
32015912 TAATTATATT
*
32015922 TAATTT-ATTACTAAATATTTTTA-TTTC
1 TAATTTAATTACT-AATATTTCTATTTTC
32015949 TAATTTAATTACTAATATTTCTATTTTC
1 TAATTTAATTACTAATATTTCTATTTTC
32015977 TAATTT
1 TAATTT
32015983 CACACTTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 15 0.48
28 16 0.52
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (28 bp):
TAATTTAATTACTAATATTTCTATTTTC
Found at i:32017862 original size:9 final size:10
Alignment explanation
Indices: 32017846--32017870 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32017836 AAACAAATTC
32017846 ATTTTTTTTT
1 ATTTTTTTTT
32017856 ATTTTTTTTT
1 ATTTTTTTTT
32017866 ATTTT
1 ATTTT
32017871 ACATATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:32022506 original size:2 final size:2
Alignment explanation
Indices: 32022499--32022542 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
32022489 AGGGTATGTT
32022499 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32022540 TA T
1 TA T
32022543 TGTTGACAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32023783 original size:14 final size:13
Alignment explanation
Indices: 32023758--32023782 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32023748 TTTAGTTCTA
32023758 AATTTAAAAAAAT
1 AATTTAAAAAAAT
32023771 AATTTAAAAAAA
1 AATTTAAAAAAA
32023783 AAGAGAATTT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTTAAAAAAAT
Found at i:32030488 original size:22 final size:22
Alignment explanation
Indices: 32030457--32030503 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
32030447 TATGCACTAT
32030457 TAAACAGAGAGCACAAATGTGC
1 TAAACAGAGAGCACAAATGTGC
* *
32030479 TAAACGGAGAGCACTAATGTGC
1 TAAACAGAGAGCACAAATGTGC
32030501 TAA
1 TAA
32030504 TAATCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (22 bp):
TAAACAGAGAGCACAAATGTGC
Found at i:32034168 original size:19 final size:20
Alignment explanation
Indices: 32034132--32034169 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
32034122 TCACGTAAGC
**
32034132 AATTAATTAATTTTTAAAAA
1 AATTAATTAATTCATAAAAA
32034152 AATTAA-TAATTCATAAAA
1 AATTAATTAATTCATAAAA
32034170 TTTTTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTAATTAATTCATAAAAA
Found at i:32038397 original size:2 final size:2
Alignment explanation
Indices: 32038390--32038431 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
32038380 ATAGAGGTTG
32038390 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
32038432 AGGTGGTGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:32057346 original size:12 final size:12
Alignment explanation
Indices: 32057329--32057353 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32057319 GGTGTTCATT
32057329 CGGTTAACCGAC
1 CGGTTAACCGAC
32057341 CGGTTAACCGAC
1 CGGTTAACCGAC
32057353 C
1 C
32057354 CGAAATTACT
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:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:32057527 original size:9 final size:9
Alignment explanation
Indices: 32057513--32057607 Score: 138
Period size: 9 Copynumber: 10.4 Consensus size: 9
32057503 TTTGGTTAAA
32057513 AATTACCCG
1 AATTACCCG
32057522 AATTACCCG
1 AATTACCCG
32057531 AATTACCCG
1 AATTACCCG
*
32057540 AATTAACCG
1 AATTACCCG
32057549 AATTACCCG
1 AATTACCCG
*
32057558 AATTAACCG
1 AATTACCCG
32057567 AATTA-CCG
1 AATTACCCG
*
32057575 AAAAATACCCG
1 --AATTACCCG
32057586 AATTACCCG
1 AATTACCCG
32057595 AATTACCCG
1 AATTACCCG
32057604 AATT
1 AATT
32057608 TTTTTATTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
8 3 0.04
9 68 0.87
10 4 0.05
11 3 0.04
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:32075966 original size:16 final size:18
Alignment explanation
Indices: 32075928--32075968 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32075918 GTTTTTAAGT
32075928 TATTT-TATATTATGTTA
1 TATTTATATATTATGTTA
*
32075945 TTTTTATATATTATG-TA
1 TATTTATATATTATGTTA
32075962 -ATTTATA
1 TATTTATA
32075969 ATACATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 6 0.29
18 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TATTTATATATTATGTTA
Found at i:32076923 original size:28 final size:26
Alignment explanation
Indices: 32076851--32076923 Score: 60
Period size: 28 Copynumber: 2.7 Consensus size: 26
32076841 TTTTCTAGGA
32076851 TATATATAATTT-TTTT-AAAATTTT
1 TATATATAATTTCTTTTAAAAATTTT
* * *
32076875 TAAATATTATTTTGACATTTAAAAATTATAT
1 TATATA-TAATTT--CTTTTAAAAATT-T-T
32076906 TATATATAATTTCTTTTA
1 TATATATAATTTCTTTTA
32076924 CATTTTTAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
24 5 0.14
25 5 0.14
28 8 0.22
29 6 0.17
30 6 0.17
31 6 0.17
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (26 bp):
TATATATAATTTCTTTTAAAAATTTT
Found at i:32084264 original size:67 final size:67
Alignment explanation
Indices: 32084156--32084291 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
32084146 GTAATAAAGC
*
32084156 TTCCTTCAGGAGAGCTAGTTTCAGGTACATCTATTCTCTATGACATTGCAAAATTTGATGACACA
1 TTCCTTCAGGAGAGCTAGTATCAGGTACATCTATTCTCTATGACATTGCAAAATTTGATGACACA
32084221 TT
66 TT
32084223 TTCCTTCAGGAGAGCTAGTATCAGGTACATCTATTCTCTATGACATTGCAAAATTTGATGACACA
1 TTCCTTCAGGAGAGCTAGTATCAGGTACATCTATTCTCTATGACATTGCAAAATTTGATGACACA
32084288 TT
66 TT
32084290 TT
1 TT
32084292 TTCATTGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (67 bp):
TTCCTTCAGGAGAGCTAGTATCAGGTACATCTATTCTCTATGACATTGCAAAATTTGATGACACA
TT
Found at i:32100434 original size:9 final size:8
Alignment explanation
Indices: 32100420--32100454 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
32100410 ATTGAAACAG
32100420 AATTTTTT
1 AATTTTTT
32100428 AATTTTTT
1 AATTTTTT
32100436 AATTCTTTT
1 AATT-TTTT
*
32100445 AAGTTTTT
1 AATTTTTT
32100453 AA
1 AA
32100455 CAAACTGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (8 bp):
AATTTTTT
Found at i:32100446 original size:17 final size:16
Alignment explanation
Indices: 32100420--32100454 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
32100410 ATTGAAACAG
*
32100420 AATTTTTTAATTTTTT
1 AATTTTTTAAGTTTTT
32100436 AATTCTTTTAAGTTTTT
1 AATT-TTTTAAGTTTTT
32100453 AA
1 AA
32100455 CAAACTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (16 bp):
AATTTTTTAAGTTTTT
Found at i:32100929 original size:19 final size:19
Alignment explanation
Indices: 32100905--32100943 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32100895 TACCCTCTCC
32100905 CATTGTCATTGTAAAACCA
1 CATTGTCATTGTAAAACCA
32100924 CATTGTCATTGTAAAACCA
1 CATTGTCATTGTAAAACCA
32100943 C
1 C
32100944 GTCGTCAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CATTGTCATTGTAAAACCA
Found at i:32100950 original size:19 final size:19
Alignment explanation
Indices: 32100909--32100950 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
32100899 CTCTCCCATT
*
32100909 GTCATTGTAAAACCACATT
1 GTCATTGTAAAACCACATC
*
32100928 GTCATTGTAAAACCACGTC
1 GTCATTGTAAAACCACATC
32100947 GTCA
1 GTCA
32100951 GTCCCCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (19 bp):
GTCATTGTAAAACCACATC
Found at i:32101069 original size:27 final size:27
Alignment explanation
Indices: 32101032--32101092 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
32101022 TATTAAGTTT
32101032 AATGT-AACCCTCCTCAATACGCAACC
1 AATGTGAACCCTCCTCAATACGCAACC
*
32101058 AATGTGAACCCTCCTCAATACGCGACC
1 AATGTGAACCCTCCTCAATACGCAACC
32101085 AATGTGAA
1 AATGTGAA
32101093 GCTATTGCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 5 0.15
27 28 0.85
ACGTcount: A:0.34, C:0.33, G:0.13, T:0.20
Consensus pattern (27 bp):
AATGTGAACCCTCCTCAATACGCAACC
Found at i:32104778 original size:23 final size:21
Alignment explanation
Indices: 32104745--32104796 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
32104735 TTAAATTTTA
*
32104745 TTATATATATACATGCATACATTT
1 TTATA-ATATACATACAT--ATTT
*
32104769 TTATAATATACGTACATATTT
1 TTATAATATACATACATATTT
32104790 TTATAAT
1 TTATAAT
32104797 TTATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 11 0.42
23 10 0.38
24 5 0.19
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (21 bp):
TTATAATATACATACATATTT
Found at i:32108818 original size:11 final size:13
Alignment explanation
Indices: 32108802--32108835 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
32108792 AATTTTACGG
32108802 AAAAATTTCG-T-
1 AAAAATTTCGTTC
32108813 AAAAATTTCGTTC
1 AAAAATTTCGTTC
32108826 AAAAATTTCG
1 AAAAATTTCG
32108836 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:32109944 original size:33 final size:33
Alignment explanation
Indices: 32109902--32110157 Score: 140
Period size: 33 Copynumber: 7.5 Consensus size: 33
32109892 AATATGAAGG
*
32109902 GGTTGCTAAGTGCTGATTCCTCGACTCAATGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* *
32109935 GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATATAAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A-C--T-CA-AT---GGT
32109978 GGTTGCTAAGTGCTGATT-CCC--C-CAA-GG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* * * *
32110005 GATTACTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* *
32110038 GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A-C--TCAA--T---GGT
32110081 GGTTGCTAAGTGCTGATT-CCC--C-CAA-GG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
* * *
32110108 GGTTGCTAAGTGCTGATTCCCCGAATGATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
32110141 GGTTGCTAAGTGCTGAT
1 GGTTGCTAAGTGCTGAT
32110158 CCCACCATAT
Statistics
Matches: 173, Mismatches: 18, Indels: 64
0.68 0.07 0.25
Matches are distributed among these distances:
27 34 0.20
28 10 0.06
31 3 0.02
32 5 0.03
33 56 0.32
34 7 0.04
35 2 0.01
36 1 0.01
37 2 0.01
38 3 0.02
39 1 0.01
40 3 0.02
41 4 0.02
42 2 0.01
43 40 0.23
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCAATGGT
Found at i:32110080 original size:103 final size:103
Alignment explanation
Indices: 32109898--32110202 Score: 493
Period size: 103 Copynumber: 3.0 Consensus size: 103
32109888 ATGGAATATG
* * *
32109898 AAGGGGTTGCTAAGTGCTGATTCCTCGACTCAATGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
* *
32109963 TTTAAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
* * *
32110001 AAGGGATTACTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
32110066 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
* * *
32110104 AAGGGGTTGCTAAGTGCTGATTCCCCGAATGATTGGTGGTTGCTAAGTGCTGATCCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
* *
32110169 TTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTC
66 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTC
32110203 ACCGAATCAC
Statistics
Matches: 187, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 187 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:32113954 original size:24 final size:27
Alignment explanation
Indices: 32113918--32113966 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
32113908 TTGGTATATT
*
32113918 TATATTAACTTATTTTA-ATTTTATCA
1 TATATTAACTTATGTTATATTTTATCA
32113944 TATA-TAA-TTATGTTATATTTTAT
1 TATATTAACTTATGTTATATTTTAT
32113967 TTTATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 10 0.48
26 4 0.19
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (27 bp):
TATATTAACTTATGTTATATTTTATCA
Found at i:32123459 original size:18 final size:19
Alignment explanation
Indices: 32123416--32123459 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
32123406 TAAAAAAATT
32123416 ATTTTTAAACTTTTTTTTAC
1 ATTTTTAAAC-TTTTTTTAC
*
32123436 AATTTTAAA-TTTTTTTAC
1 ATTTTTAAACTTTTTTTAC
32123454 ATTTTT
1 ATTTTT
32123460 TGTAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
20 8 0.36
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTAAACTTTTTTTAC
Found at i:32123601 original size:21 final size:21
Alignment explanation
Indices: 32123542--32123608 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 21
32123532 TTTATTTGTT
*
32123542 TATTTATTTCCTAGATTTTATATA
1 TATTTATTTCC---ATTTTTTATA
**
32123566 TATTT-TTCTGAATTTTTTATA
1 TATTTATT-TCCATTTTTTATA
*
32123587 TATTTATTTCCATTTTTCATA
1 TATTTATTTCCATTTTTTATA
32123608 T
1 T
32123609 TTTTTAATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
21 25 0.71
22 2 0.06
23 2 0.06
24 6 0.17
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.63
Consensus pattern (21 bp):
TATTTATTTCCATTTTTTATA
Found at i:32130036 original size:15 final size:15
Alignment explanation
Indices: 32129992--32130050 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
32129982 ATCCACCGCC
*
32129992 AGGATATCCTCCTCA
1 AGGATACCCTCCTCA
* *
32130007 AGGTTATCCTCCTCA
1 AGGATACCCTCCTCA
*
32130022 AGGATACCCTGCTCA
1 AGGATACCCTCCTCA
*
32130037 GGGATACCCTCCTC
1 AGGATACCCTCCTC
32130051 CTTATGCTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (15 bp):
AGGATACCCTCCTCA
Found at i:32130766 original size:12 final size:12
Alignment explanation
Indices: 32130749--32130773 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32130739 GAATTCTAAC
32130749 TCTTTTTTTTTT
1 TCTTTTTTTTTT
32130761 TCTTTTTTTTTT
1 TCTTTTTTTTTT
32130773 T
1 T
32130774 TGCATTTGCA
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:32134189 original size:41 final size:42
Alignment explanation
Indices: 32134125--32134207 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 42
32134115 TATTTCTCAT
* *
32134125 ACTTTTTCAAAATTTTAAAATTTCAATTATGTCTTAACAATA
1 ACTTTTTCAAAATTTTAAAATTTCAATCATGACTTAACAATA
*
32134167 ACTTTTTC-AAATTTTAAAATTTCAATCATGACTTAATAATA
1 ACTTTTTCAAAATTTTAAAATTTCAATCATGACTTAACAATA
32134208 GTGTTAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 30 0.79
42 8 0.21
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (42 bp):
ACTTTTTCAAAATTTTAAAATTTCAATCATGACTTAACAATA
Found at i:32143027 original size:98 final size:96
Alignment explanation
Indices: 32142860--32143048 Score: 211
Period size: 98 Copynumber: 1.9 Consensus size: 96
32142850 TAGATGCATG
* * * * *
32142860 TAGAGGTGATTCTAGTGAAGCAGACTTGAAGAGACAAAATGAGATGCTTGTATGCAAATTTGGCA
1 TAGAGATGAATCTAGTGAAGCAGACTTAAAGAGACAAAATGAGATGCTTGTAGGCAAACTTGGCA
**
32142925 AAGCGAGCCTAAAGAGGTAAAATAAGCAATT
66 AAGCGAGCCTAAAGAGACAAAATAAGCAATT
* * *
32142956 TAGAGATGAATCTGGTGAAGCAGACTTATAAAGAGGCAAAATGAGATGCCTTAG-AGGCGAACTT
1 TAGAGATGAATCTAGTGAAGCAGAC-T-TAAAGAGACAAAATGAGATG-CTT-GTAGGCAAACTT
* * *
32143020 -GCGAAGCGAGCTTGAAGAGACAAAATAAG
62 GGCAAAGCGAGCCTAAAGAGACAAAATAAG
32143049 ACGCCTAAGA
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
96 22 0.29
97 1 0.01
98 42 0.55
99 10 0.13
100 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.21
Consensus pattern (96 bp):
TAGAGATGAATCTAGTGAAGCAGACTTAAAGAGACAAAATGAGATGCTTGTAGGCAAACTTGGCA
AAGCGAGCCTAAAGAGACAAAATAAGCAATT
Found at i:32143348 original size:12 final size:12
Alignment explanation
Indices: 32143331--32143357 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32143321 ATCCCTTTTA
32143331 GGGCATCAAGAG
1 GGGCATCAAGAG
32143343 GGGCATCAAGAG
1 GGGCATCAAGAG
32143355 GGG
1 GGG
32143358 TTGTATCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.15, G:0.48, T:0.07
Consensus pattern (12 bp):
GGGCATCAAGAG
Found at i:32144132 original size:46 final size:46
Alignment explanation
Indices: 32144061--32144162 Score: 136
Period size: 46 Copynumber: 2.2 Consensus size: 46
32144051 CAAGGCGACC
* * * * *
32144061 CCTTTTT-GTGGCACGAGGGTGACCCCTTAAT-AGGAGGGGGAGGGT
1 CCTTTTTAGCGGCACGAGAGTAACCCCTTAATGA-GAAGGGGAGGCT
32144106 CCTTTTTAGCGGCACGAGAGTAACCCCTTAATGAGAAGGGGAGGCT
1 CCTTTTTAGCGGCACGAGAGTAACCCCTTAATGAGAAGGGGAGGCT
32144152 CCTTTTTAGCG
1 CCTTTTTAGCG
32144163 AACTTTTTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 7 0.14
46 42 0.84
47 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (46 bp):
CCTTTTTAGCGGCACGAGAGTAACCCCTTAATGAGAAGGGGAGGCT
Found at i:32146409 original size:77 final size:79
Alignment explanation
Indices: 32146278--32146436 Score: 268
Period size: 77 Copynumber: 2.0 Consensus size: 79
32146268 AGCCACTAGC
32146278 AATGTTTATGAAGATCAGGTGAGTTGAGATTTGGGTAGGATACTGATATAAG-A-AGTCTTTTAA
1 AATGTTTATGAAGATCAGGTGAGTTGAGATTTGGGTAGGATACTGATATAAGAAGAGTCTTTTAA
*
32146341 GCCATTTTTGTAAT
66 GCCATTTTAGTAAT
** *
32146355 AATGTTTATGAAGATTGGGTGAGTTGAGATTTGGGTAGGATACTGATATCAGAAGAGTCTTTTAA
1 AATGTTTATGAAGATCAGGTGAGTTGAGATTTGGGTAGGATACTGATATAAGAAGAGTCTTTTAA
32146420 GCCATTTTAGTAAT
66 GCCATTTTAGTAAT
32146434 AAT
1 AAT
32146437 TAAGATGGGA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
77 49 0.64
78 1 0.01
79 26 0.34
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (79 bp):
AATGTTTATGAAGATCAGGTGAGTTGAGATTTGGGTAGGATACTGATATAAGAAGAGTCTTTTAA
GCCATTTTAGTAAT
Found at i:32151289 original size:29 final size:29
Alignment explanation
Indices: 32151257--32151314 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
32151247 ATAGAATCAC
*
32151257 AATCAAAGTTTCATATAT-AAATTGCACAT
1 AATCAAAGTTT-ATATATCAAATTACACAT
*
32151286 AATCAAAGTTTATGTATCAAATTACACAT
1 AATCAAAGTTTATATATCAAATTACACAT
32151315 TAAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (29 bp):
AATCAAAGTTTATATATCAAATTACACAT
Found at i:32152402 original size:17 final size:17
Alignment explanation
Indices: 32152378--32152415 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
32152368 TTTATATAAG
32152378 TTAA-AATTT-TATTATT
1 TTAATAATTTATATT-TT
32152394 TTAATAATTTATATTTT
1 TTAATAATTTATATTTT
32152411 TTAAT
1 TTAAT
32152416 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 12 0.60
18 4 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTAATAATTTATATTTT
Found at i:32153645 original size:4 final size:4
Alignment explanation
Indices: 32153636--32153660 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
32153626 AGCAAAGATT
32153636 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
32153661 AAATTTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:32156602 original size:15 final size:15
Alignment explanation
Indices: 32156582--32156619 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
32156572 TGTATTAATT
*
32156582 TTTTTTATA-AATATA
1 TTTTTTATATAAT-GA
32156597 TTTTTTATATAATGA
1 TTTTTTATATAATGA
32156612 TTTTTTAT
1 TTTTTTAT
32156620 TTACATTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTTTATATAATGA
Found at i:32156888 original size:13 final size:13
Alignment explanation
Indices: 32156870--32156920 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
32156860 TTCTTCATTA
32156870 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
32156883 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
32156896 CTGTGGAAAAGTG
1 CTTTTGAAAAGTG
32156909 CTTTTGAAAAGT
1 CTTTTGAAAAGT
32156921 TTGATTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:32157705 original size:19 final size:20
Alignment explanation
Indices: 32157670--32157710 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
32157660 AAAAATCTCA
32157670 AATTTTTTATAAGAAATAGAT
1 AATTTTTTATAAGAAATA-AT
32157691 AATTTTTTAT-A-AAATAAT
1 AATTTTTTATAAGAAATAAT
32157709 AA
1 AA
32157711 GTAAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 5 0.25
20 1 0.05
21 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AATTTTTTATAAGAAATAAT
Found at i:32159743 original size:21 final size:22
Alignment explanation
Indices: 32159695--32159741 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
32159685 ATGTATTTAT
*
32159695 TAAAATTTTATATTAAAATTAA
1 TAAAATTTTATATTAAAATGAA
*
32159717 TAAAATTTTA-ATTGAAATG-A
1 TAAAATTTTATATTAAAATGAA
32159737 TAAAA
1 TAAAA
32159742 ATATTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 7 0.30
22 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
TAAAATTTTATATTAAAATGAA
Found at i:32160056 original size:10 final size:10
Alignment explanation
Indices: 32160041--32160065 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32160031 TATGTTTTAT
32160041 ATATATATAA
1 ATATATATAA
32160051 ATATATATAA
1 ATATATATAA
32160061 ATATA
1 ATATA
32160066 AAATATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATATAA
Found at i:32160951 original size:8 final size:8
Alignment explanation
Indices: 32160938--32160962 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
32160928 ATTAGCGTAC
32160938 TGATGTAT
1 TGATGTAT
32160946 TGATGTAT
1 TGATGTAT
32160954 TGATGTAT
1 TGATGTAT
32160962 T
1 T
32160963 TGAGGCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (8 bp):
TGATGTAT
Found at i:32168531 original size:25 final size:25
Alignment explanation
Indices: 32168502--32168636 Score: 139
Period size: 25 Copynumber: 5.3 Consensus size: 25
32168492 CAATATCCAG
* *
32168502 GGAAGCTTTAGAGAGCCATTAATCG
1 GGAAGCTCTAGAGAGCCATTAATCA
* *
32168527 GGAAGCTCAAGAGAGCCA-TATATCG
1 GGAAGCTCTAGAGAGCCATTA-ATCA
*
32168552 GGTAGCTCTAGAGAGCCATTAATCA
1 GGAAGCTCTAGAGAGCCATTAATCA
* * *
32168577 AGAAGCTCATGAAAGAGCCTTTAATCA
1 GGAAGCTC-T-AGAGAGCCATTAATCA
*
32168604 GGAAGCTCCAGAGAGCCAATT-ATCA
1 GGAAGCTCTAGAGAGCC-ATTAATCA
32168629 GGAAGCTC
1 GGAAGCTC
32168637 ATACGAGCCA
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
24 2 0.02
25 64 0.70
26 5 0.05
27 21 0.23
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (25 bp):
GGAAGCTCTAGAGAGCCATTAATCA
Found at i:32168566 original size:27 final size:25
Alignment explanation
Indices: 32168501--32168658 Score: 126
Period size: 25 Copynumber: 6.3 Consensus size: 25
32168491 CCAATATCCA
**
32168501 GGGAAGCTTTAGAGAGCCATTAATC
1 GGGAAGCTCAAGAGAGCCATTAATC
32168526 GGGAAGCTCAAGAGAGCCA-TATATC
1 GGGAAGCTCAAGAGAGCCATTA-ATC
* *
32168551 GGGTAGCTCTAGAGAGCCATTAATC
1 GGGAAGCTCAAGAGAGCCATTAATC
** * *
32168576 AAGAAGCTCATGAAAGAGCCTTTAATC
1 GGGAAGCTCA--AGAGAGCCATTAATC
* *
32168603 AGGAAGCTCCAGAGAGCCAATT-ATC
1 GGGAAGCTCAAGAGAGCC-ATTAATC
* * *
32168628 AGGAAGCTCATA-CGAGCCATAAAT-
1 GGGAAGCTCA-AGAGAGCCATTAATC
32168652 GGGAAGC
1 GGGAAGC
32168659 CCATGAGAAC
Statistics
Matches: 108, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
24 10 0.09
25 72 0.67
26 5 0.05
27 21 0.19
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (25 bp):
GGGAAGCTCAAGAGAGCCATTAATC
Found at i:32168617 original size:52 final size:51
Alignment explanation
Indices: 32168488--32168648 Score: 161
Period size: 52 Copynumber: 3.2 Consensus size: 51
32168478 AAACTCATGC
* * *
32168488 GAGCCA-ATATCCAGGGAAGCTTTAGAGAGCCATTAATCGGGAAGCTCA-AGA
1 GAGCCATATAT-CA-GGAAGCTCTAGAGAGCCATTAATCAGGAAGCTCATAAA
* * *
32168539 GAGCCATATATCGGGTAGCTCTAGAGAGCCATTAATCAAGAAGCTCATGAAA
1 GAGCCATATATCAGGAAGCTCTAGAGAGCCATTAATCAGGAAGCTCAT-AAA
* * *
32168591 GAGCC-TTTAATCAGGAAGCTCCAGAGAGCCAATT-ATCAGGAAGCTCAT-AC
1 GAGCCATAT-ATCAGGAAGCTCTAGAGAGCC-ATTAATCAGGAAGCTCATAAA
32168641 GAGCCATA
1 GAGCCATA
32168649 AATGGGAAGC
Statistics
Matches: 91, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
50 36 0.40
51 10 0.11
52 42 0.46
53 3 0.03
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (51 bp):
GAGCCATATATCAGGAAGCTCTAGAGAGCCATTAATCAGGAAGCTCATAAA
Found at i:32170394 original size:18 final size:18
Alignment explanation
Indices: 32170354--32170397 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
32170344 AAATTAAAGT
*
32170354 AATTT-TAAAATTTTAAA
1 AATTTATAAAAATTTAAA
*
32170371 ATATTTATAAAAATTTCAA
1 A-ATTTATAAAAATTTAAA
32170390 AATTTATA
1 AATTTATA
32170398 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 11 0.48
19 11 0.48
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTTATAAAAATTTAAA
Found at i:32170568 original size:16 final size:16
Alignment explanation
Indices: 32170547--32170577 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32170537 TCTTATTTTT
32170547 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
32170563 TTTCAAATTTATATG
1 TTTCAAATATATATG
32170578 ATCTAACATA
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:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:32175388 original size:31 final size:31
Alignment explanation
Indices: 32175353--32175415 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
32175343 CCTACCGTAT
* * *
32175353 TAAGTAGTCACATTGGATCCTGATTAAATTC
1 TAAGTAGACACATCGGATCCCGATTAAATTC
* *
32175384 TAAGTTGACACATCGTATCCCGATTAAATTC
1 TAAGTAGACACATCGGATCCCGATTAAATTC
32175415 T
1 T
32175416 GAGTTGAGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (31 bp):
TAAGTAGACACATCGGATCCCGATTAAATTC
Found at i:32199684 original size:12 final size:12
Alignment explanation
Indices: 32199669--32199694 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32199659 AAAACTTATA
32199669 AAAAAATTTAAT
1 AAAAAATTTAAT
32199681 AAAAAATTTAAT
1 AAAAAATTTAAT
32199693 AA
1 AA
32199695 TATAATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAAATTTAAT
Found at i:32199684 original size:13 final size:13
Alignment explanation
Indices: 32199666--32199694 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
32199656 GATAAAACTT
32199666 ATAAAAAAATTTA
1 ATAAAAAAATTTA
32199679 AT-AAAAAATTTA
1 ATAAAAAAATTTA
32199691 ATAA
1 ATAA
32199695 TATAATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.80
13 3 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAAAAAATTTA
Found at i:32202659 original size:14 final size:14
Alignment explanation
Indices: 32202640--32202669 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
32202630 GCCATACTTC
32202640 ATTGTTCTCAACCA
1 ATTGTTCTCAACCA
32202654 ATTGTTCTCAACCA
1 ATTGTTCTCAACCA
32202668 AT
1 AT
32202670 AATCAAGCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (14 bp):
ATTGTTCTCAACCA
Found at i:32220004 original size:5 final size:5
Alignment explanation
Indices: 32219987--32220025 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
32219977 AGATACCATA
*
32219987 AAACT AAATT AAACT AAAACT AAACTT AAACT AAACT AA
1 AAACT AAACT AAACT -AAACT AAAC-T AAACT AAACT AA
32220026 CTTCCTATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 20 0.67
6 10 0.33
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (5 bp):
AAACT
Found at i:32220006 original size:16 final size:17
Alignment explanation
Indices: 32219985--32220025 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
32219975 TAAGATACCA
32219985 TAAAACTAAA-TTAAAC
1 TAAAACTAAACTTAAAC
32220001 TAAAACTAAACTTAAAC
1 TAAAACTAAACTTAAAC
32220018 T-AAACTAA
1 TAAAACTAA
32220026 CTTCCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAACTAAACTTAAAC
Found at i:32220010 original size:11 final size:11
Alignment explanation
Indices: 32219987--32220025 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
32219977 AGATACCATA
*
32219987 AAACT-AAATT
1 AAACTAAAACT
32219997 AAACTAAAACT
1 AAACTAAAACT
*
32220008 AAACTTAAACT
1 AAACTAAAACT
32220019 AAACTAA
1 AAACTAA
32220026 CTTCCTATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (11 bp):
AAACTAAAACT
Found at i:32220887 original size:40 final size:40
Alignment explanation
Indices: 32220812--32220889 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
32220802 CACGCAGAAA
* *
32220812 CGATGCCTCAACATTCAAATCCAATGTTGCAACATTCAAG
1 CGATGCCACAACATTCAAATCCAATGTCGCAACATTCAAG
* * **
32220852 CGATGCCACGACATTCAATTCCAATGTCGTGACATTCA
1 CGATGCCACAACATTCAAATCCAATGTCGCAACATTCA
32220890 TGAAAGTTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (40 bp):
CGATGCCACAACATTCAAATCCAATGTCGCAACATTCAAG
Found at i:32227359 original size:17 final size:17
Alignment explanation
Indices: 32227337--32227370 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32227327 CCAAACCCAC
32227337 CTATATTTACAAAAAAT
1 CTATATTTACAAAAAAT
*
32227354 CTATATTTGCAAAAAAT
1 CTATATTTACAAAAAAT
32227371 TAACCCAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (17 bp):
CTATATTTACAAAAAAT
Found at i:32229521 original size:32 final size:30
Alignment explanation
Indices: 32229448--32229522 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
32229438 TGCACAAATA
** *
32229448 GTCACCCAACTATTAGTAAATTTCTTTTTT
1 GTCACCCAACTATTAACAAATTCCTTTTTT
*
32229478 GTCACCTAACTATTAACAAATTCCTTTTTTT
1 GTCACCCAACTATTAACAAATTCC-TTTTTT
*
32229509 CGTTACCCAACTAT
1 -GTCACCCAACTAT
32229523 GAAAAGTTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 20 0.54
31 6 0.16
32 11 0.30
ACGTcount: A:0.28, C:0.24, G:0.05, T:0.43
Consensus pattern (30 bp):
GTCACCCAACTATTAACAAATTCCTTTTTT
Found at i:32232895 original size:17 final size:17
Alignment explanation
Indices: 32232873--32232909 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
32232863 ATAACTACAA
32232873 AATGGGTCTCAGAAATT
1 AATGGGTCTCAGAAATT
32232890 AATGGGTCTCAGAAATT
1 AATGGGTCTCAGAAATT
32232907 AAT
1 AAT
32232910 AACAATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.30
Consensus pattern (17 bp):
AATGGGTCTCAGAAATT
Found at i:32235298 original size:2 final size:2
Alignment explanation
Indices: 32235291--32235317 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32235281 TGTTTTGATT
32235291 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32235318 CGCCATTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32236752 original size:14 final size:14
Alignment explanation
Indices: 32236733--32236771 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
32236723 TGTTTATTTA
32236733 TATTATTATTACTG
1 TATTATTATTACTG
* *
32236747 TATTATTATTAGTT
1 TATTATTATTACTG
*
32236761 TAATATTATTA
1 TATTATTATTA
32236772 TACTTACTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (14 bp):
TATTATTATTACTG
Found at i:32236755 original size:22 final size:21
Alignment explanation
Indices: 32236704--32236755 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
32236694 TTTTTAGTTT
*
32236704 TTTATTATATTGTTAATACTG
1 TTTATTATATTATTAATACTG
*
32236725 TTTATTTATATTATTATTACTG
1 TTTA-TTATATTATTAATACTG
32236747 TATTATTAT
1 T-TTATTAT
32236756 TAGTTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 4 0.15
22 20 0.74
23 3 0.11
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.62
Consensus pattern (21 bp):
TTTATTATATTATTAATACTG
Found at i:32242387 original size:19 final size:19
Alignment explanation
Indices: 32242360--32242432 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
32242350 AATTTCTGAG
*
32242360 GATACGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
32242379 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
32242398 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
32242417 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
32242433 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:32245150 original size:5 final size:5
Alignment explanation
Indices: 32245140--32245173 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
32245130 TTCTTCATTT
32245140 TTTCC TTTCC TTTCC TTTCC TTTCC TTT-C TTTCC
1 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC
32245174 CATTTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTCC
Found at i:32254731 original size:26 final size:26
Alignment explanation
Indices: 32254679--32254731 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
32254669 CACCAATATC
* * *
32254679 GCAGCATAATTGCCAGTAGTAATAAT
1 GCAGCAGAACTGCCAGTAGTAAGAAT
*
32254705 GCAGCAGAACTGCCAGTAGTGAGAAT
1 GCAGCAGAACTGCCAGTAGTAAGAAT
32254731 G
1 G
32254732 GCTAAGAGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (26 bp):
GCAGCAGAACTGCCAGTAGTAAGAAT
Found at i:32254868 original size:32 final size:33
Alignment explanation
Indices: 32254801--32255047 Score: 208
Period size: 32 Copynumber: 7.7 Consensus size: 33
32254791 TACAATAATG
* * * * *
32254801 TGATTGGCACA-AAGCCATCAGTAGCAGTGATA
1 TGATCGGCACACAAGCCATCAGTAACGGTAACA
*
32254833 TGATCGGCATACAA-CCATCAGTAACGGTAACA
1 TGATCGGCACACAAGCCATCAGTAACGGTAACA
** * *
32254865 TGATCGGCACA-AAGCCATCAGTAACAATGATA
1 TGATCGGCACACAAGCCATCAGTAACGGTAACA
* * *
32254897 TGATTGGCACAC-AGCCATCAGTAACAGTAAAA
1 TGATCGGCACACAAGCCATCAGTAACGGTAACA
* * * * *
32254929 CGATCGGCATACAA-TCATCGGTAACGGTAATA
1 TGATCGGCACACAAGCCATCAGTAACGGTAACA
* * *
32254961 TGATCGGTACA-AAGCTATCAGTAATGGT-ACTA
1 TGATCGGCACACAAGCCATCAGTAACGGTAAC-A
32254993 TGATCGGCACA-AAGCCATCAGTAACGGT-ACTA
1 TGATCGGCACACAAGCCATCAGTAACGGTAAC-A
*
32255025 TGATCGGCACA-AAGTCATCAGTA
1 TGATCGGCACACAAGCCATCAGTA
32255048 GCATCGTAGC
Statistics
Matches: 175, Mismatches: 34, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
31 5 0.03
32 167 0.95
33 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (33 bp):
TGATCGGCACACAAGCCATCAGTAACGGTAACA
Found at i:32255037 original size:64 final size:63
Alignment explanation
Indices: 32254801--32255047 Score: 248
Period size: 64 Copynumber: 3.9 Consensus size: 63
32254791 TACAATAATG
* * *
32254801 TGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCATACAA-CCATCAGTAACGGTAACA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATATGATCGGCACA-AAGCCATCAGTAACGGT-ACA
* * * * *
32254865 TGATCGGCACAAAGCCATCAGTAACAATGATATGATTGGCACACAGCCATCAGTAACAGTAAAA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATATGATCGGCACAAAGCCATCAGTAACGGT-ACA
* * * * * * * * *
32254929 CGATCGGCATACAA-TCATCGGTAACGGTAATATGATCGGTACAAAGCTATCAGTAATGGTACTA
1 TGATCGGCACA-AAGCCATCAGTAACAGTGATATGATCGGCACAAAGCCATCAGTAACGGTAC-A
* *
32254993 TGATCGGCACAAAGCCATCAGTAACGGT-ACTATGATCGGCACAAAGTCATCAGTA
1 TGATCGGCACAAAGCCATCAGTAACAGTGA-TATGATCGGCACAAAGCCATCAGTA
32255048 GCATCGTAGC
Statistics
Matches: 149, Mismatches: 29, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
63 5 0.03
64 142 0.95
65 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (63 bp):
TGATCGGCACAAAGCCATCAGTAACAGTGATATGATCGGCACAAAGCCATCAGTAACGGTACA
Found at i:32255043 original size:96 final size:95
Alignment explanation
Indices: 32254781--32255047 Score: 306
Period size: 96 Copynumber: 2.8 Consensus size: 95
32254771 GAATGGCTAC
* * * *
32254781 AAGCCATAAGT-ACAATAATGTGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCATAC
1 AAGCCATCAGTAACAATGATATGATTGGCACAAAGCCATCAGTAACAGT-ATATGATCGGCATAC
*
32254845 AACCATCAGTAACGGTAACATGATCGGCACA
65 AATCATCAGTAACGGTAACATGATCGGCACA
* * *
32254876 AAGCCATCAGTAACAATGATATGATTGGCACACAGCCATCAGTAACAGTAAAACGATCGGCATAC
1 AAGCCATCAGTAACAATGATATGATTGGCACAAAGCCATCAGTAACAGT-ATATGATCGGCATAC
* * *
32254941 AATCATCGGTAACGGTAATATGATCGGTACA
65 AATCATCAGTAACGGTAACATGATCGGCACA
* *** * * *
32254972 AAGCTATCAGTAATGGT-ACTATGATCGGCACAAAGCCATCAGTAACGGTACTATGATCGGCACA
1 AAGCCATCAGTAACAATGA-TATGATTGGCACAAAGCCATCAGTAACAGTA-TATGATCGGCATA
32255036 -AAGTCATCAGTA
64 CAA-TCATCAGTA
32255048 GCATCGTAGC
Statistics
Matches: 145, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
95 14 0.10
96 131 0.90
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (95 bp):
AAGCCATCAGTAACAATGATATGATTGGCACAAAGCCATCAGTAACAGTATATGATCGGCATACA
ATCATCAGTAACGGTAACATGATCGGCACA
Found at i:32255084 original size:26 final size:27
Alignment explanation
Indices: 32255050--32255104 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
32255040 CATCAGTAGC
* *
32255050 ATCGTAGCAAAGTTGCCAGCAA-TAGT
1 ATCGCAGCAAAGCTGCCAGCAATTAGT
*
32255076 ATCGCAGCAAAGCTGCCAGTAATTAGT
1 ATCGCAGCAAAGCTGCCAGCAATTAGT
32255103 AT
1 AT
32255105 ATGTGGCCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
ATCGCAGCAAAGCTGCCAGCAATTAGT
Found at i:32258518 original size:43 final size:42
Alignment explanation
Indices: 32258418--32258664 Score: 332
Period size: 43 Copynumber: 5.8 Consensus size: 42
32258408 TATTGTCAAT
*
32258418 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCAAAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCAAAAAC
*
32258460 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTATAAAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTT-CAAAAAC
*
32258503 GCCGCTATAGTTCAGGACCTTTAGCGGCGCTTTTTACAAAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTT-CAAAAAC
* * *
32258546 GCCGCTATAGATCAGGACCTTTAGCGACGCATCTTTCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTTCAAAAAC
* * * *
32258589 GCCGCTATAGCTCAAGACCTTTAGCGGCTCTTTTTTCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTTCAAAAAC
* * * *
32258632 GCCGCTATAGCTCAAGACATTTAGCGACGCTTT
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTT
32258665 GATTACAAAT
Statistics
Matches: 186, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
42 37 0.20
43 145 0.78
44 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (42 bp):
GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCAAAAAC
Found at i:32258853 original size:14 final size:14
Alignment explanation
Indices: 32258834--32258863 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
32258824 AAATCATGTT
32258834 AAATTTCAAGTTCA
1 AAATTTCAAGTTCA
32258848 AAATTTCAAGTTCA
1 AAATTTCAAGTTCA
32258862 AA
1 AA
32258864 TAGTGCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (14 bp):
AAATTTCAAGTTCA
Found at i:32264247 original size:21 final size:21
Alignment explanation
Indices: 32264226--32264266 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
32264216 CCCTATTCCC
32264226 TAAACCCTAAATCACAAACCCT
1 TAAACCCTAAA-CACAAACCCT
* *
32264248 TAAACCTTAAACCCAAACC
1 TAAACCCTAAACACAAACC
32264267 ATCAAATCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCTAAACACAAACCCT
Found at i:32264287 original size:29 final size:28
Alignment explanation
Indices: 32264224--32264294 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
32264214 ATCCCTATTC
* *
32264224 CCTAAACCCTAAATCACAAACCCTTAAA
1 CCTAAACCCTAAACCACAAACCCTAAAA
*
32264252 CCTTAAACCC-AAACCATCAAATCTCTAAAA
1 CC-TAAACCCTAAACCA-CAAA-CCCTAAAA
32264282 CCTAAATCCCTAA
1 CCTAAA-CCCTAA
32264295 CTATTAACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
28 7 0.20
29 15 0.43
30 11 0.31
31 2 0.06
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (28 bp):
CCTAAACCCTAAACCACAAACCCTAAAA
Found at i:32264834 original size:41 final size:40
Alignment explanation
Indices: 32264738--32265032 Score: 405
Period size: 41 Copynumber: 7.2 Consensus size: 40
32264728 AATACATTTT
* *
32264738 GCGGCGCTTTCCCAAAAACGCCGCTAAAGA-CAGAGTAATA
1 GCGGCGCTTT-CCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
32264778 GCGGCACTTCTACAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTT-TCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * **
32264819 GCGGCGTTTTCACAAAAGCGCCGCTAAAGAATAGAGCATTA
1 GCGGCGCTTTC-CAAAAACGCCGCTAAAGACCAGAGCATTA
*
32264860 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGACCATTA
1 GCGGCGCTTT-CCAAAAACGCCGCTAAAGACCAGAGCATTA
32264901 GCGGCGCTTTCTCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTC-CAAAAACGCCGCTAAAGACCAGAGCATTA
32264942 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGC-TTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
32264983 GCGGCGCTTTTCCAAAAACG-CGCTAAAGACCAGATCTTTA
1 GCGGCGC-TTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
*
32265023 GTGGCGCTTT
1 GCGGCGCTTT
32265033 TTGAAAAACG
Statistics
Matches: 230, Mismatches: 19, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.01
40 52 0.23
41 170 0.74
42 5 0.02
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (40 bp):
GCGGCGCTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:32264958 original size:123 final size:123
Alignment explanation
Indices: 32264738--32265049 Score: 452
Period size: 123 Copynumber: 2.6 Consensus size: 123
32264728 AATACATTTT
** * *
32264738 GCGGCGCTTTCCCAAAAACGCCGCTAAAGA-CAGAGTAATAGCGGCAC-TTCTACAAAAACGCCG
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGACCATTAGCGGCGCTTTCT-CAAAAACGCCG
* *
32264801 CTAAAGACCAGAGCATTAGCGGCGTTTTCACAAAAGCGCCGCTAAAGAATAGAGCATTA
65 CTAAAGACCAGAGCATTAGCGGCGTTTTCACAAAAACGCCGCTAAAGAACAGAGCATTA
32264860 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGACCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGACCATTAGCGGCGCTTTCTCAAAAACGCCGC
*
32264925 TAAAGACCAGAGCATTAGCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCAGAGCATTA
66 TAAAGACCAGAGCATTAGCGGCG-TTTTCACAAAAACGCCGCTAAAGAACAGAGCATTA
* * * * * * *
32264983 GCGGCGCTTTTCCAAAAACG-CGCTAAAGACCAGATCTTTAGTGGCGCTTTTTGAAAAACGCCAC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGACCATTAGCGGCGCTTTCTCAAAAACGCCGC
32265047 TAA
66 TAA
32265050 GGCCCCGAAA
Statistics
Matches: 173, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
122 71 0.41
123 93 0.54
124 9 0.05
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (123 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGACCATTAGCGGCGCTTTCTCAAAAACGCCGC
TAAAGACCAGAGCATTAGCGGCGTTTTCACAAAAACGCCGCTAAAGAACAGAGCATTA
Found at i:32265138 original size:39 final size:37
Alignment explanation
Indices: 32265089--32265241 Score: 108
Period size: 40 Copynumber: 3.8 Consensus size: 37
32265079 TGGGCTTAGG
* * *
32265089 TTTTTTGCGGCGCTTTTTGGAAAACGCCACTAATTCTCA
1 TTTTTAGCGGCG-TTTTT-AAAAACGCCACTAATACTCA
* *
32265128 TTTTTAGCGGCGTTTTCTAAAAAACGCCGCTAATACCCGA
1 TTTTTAGCGGCGTTTT-T-AAAAACGCCACTAATACTC-A
* * * * * *
32265168 TCTTTAGTGGCGGTATTTTAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGC-GT-TTTTAAAAACGCCACTAATAC-TCA
32265208 TTTTTAGCGGCGTTTTTTATACAAACGCCACTAA
1 TTTTTAGCGGCG-TTTTTA-A-AAACGCCACTAA
32265242 AAACGCCGCT
Statistics
Matches: 90, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
38 4 0.04
39 33 0.37
40 37 0.41
41 13 0.14
42 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (37 bp):
TTTTTAGCGGCGTTTTTAAAAACGCCACTAATACTCA
Found at i:32265814 original size:82 final size:82
Alignment explanation
Indices: 32265718--32265925 Score: 294
Period size: 82 Copynumber: 2.5 Consensus size: 82
32265708 AAAATTTTAA
*
32265718 ATTAATAAAGTTAAAATTACACTTT-GGCCCCTTAAAAATTATAAAAATTTGATTTAATATTTTA
1 ATTAA-AAA-TTAAAATTA-A-TTTCGGCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTA
*
32265782 AAATTTAT-AAAAAATAAGCT
62 AAATTTATAAAAAAATAAGAT
*
32265802 ATTAAAAATTAAAATTTAATTTCTGCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAA
1 ATTAAAAATTAAAA-TTAATTTCGGCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAA
32265867 TTTATAAAAAAAATAAGAT
65 TTTAT-AAAAAAATAAGAT
32265886 ATTAAAAATTAAAATTTAATTTCGGCCCCCCATAAAAATT
1 ATTAAAAATTAAAA-TTAATTTCGG-CCCCC-TAAAAATT
32265926 TTCTAGCTTC
Statistics
Matches: 114, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
81 3 0.03
82 52 0.46
83 6 0.05
84 40 0.35
85 5 0.04
86 8 0.07
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (82 bp):
ATTAAAAATTAAAATTAATTTCGGCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAAT
TTATAAAAAAATAAGAT
Found at i:32269490 original size:15 final size:17
Alignment explanation
Indices: 32269464--32269498 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
32269454 ATCTGTAAGG
32269464 AAAATCCTGAATAA-AT
1 AAAATCCTGAATAACAT
32269480 AAAAT-CTGAATAACAT
1 AAAATCCTGAATAACAT
32269496 AAA
1 AAA
32269499 TAATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (17 bp):
AAAATCCTGAATAACAT
Found at i:32283265 original size:23 final size:23
Alignment explanation
Indices: 32283245--32283289 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
32283235 TTAAATTTTG
32283245 ATTTATTTAGTAATAATATTTAA
1 ATTTATTTAGTAATAATATTTAA
*
32283268 ATTTATTTAGTGATAATATTTA
1 ATTTATTTAGTAATAATATTTA
32283290 GGAAAAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (23 bp):
ATTTATTTAGTAATAATATTTAA
Found at i:32284522 original size:18 final size:19
Alignment explanation
Indices: 32284492--32284527 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
32284482 ACAAAAAAAA
*
32284492 TTCAAAATAATTTTTAAAT
1 TTCAAAATAATTTATAAAT
32284511 TTCAAAAT-ATTTATAAA
1 TTCAAAATAATTTATAAA
32284528 AATTCCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
TTCAAAATAATTTATAAAT
Found at i:32285240 original size:23 final size:23
Alignment explanation
Indices: 32285214--32285259 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
32285204 AAAAACATAA
* *
32285214 TAAAAATTTTATTTAAATTAATT
1 TAAAAATTTAATTTAAAATAATT
**
32285237 TAAATGTTTAATTTAAAATAATT
1 TAAAAATTTAATTTAAAATAATT
32285260 GTTTATGTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TAAAAATTTAATTTAAAATAATT
Found at i:32288742 original size:20 final size:21
Alignment explanation
Indices: 32288704--32288744 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32288694 AAAATTTCAA
32288704 ATTTTCAAAAAATATAAAATT
1 ATTTTCAAAAAATATAAAATT
* * *
32288725 ATTTTTAAAAATTAAAAAAT
1 ATTTTCAAAAAATATAAAAT
32288745 GTTAAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTTTCAAAAAATATAAAATT
Found at i:32290611 original size:20 final size:20
Alignment explanation
Indices: 32290567--32290652 Score: 120
Period size: 20 Copynumber: 4.2 Consensus size: 20
32290557 GGGCTGTTAA
** *
32290567 AAAATTATATTAAAT-ATAA
1 AAAATTATATTAAATGCGAT
32290586 AAAATTATATTAAATGCGAT
1 AAAATTATATTAAATGCGAT
32290606 AAAATTATATTAAATGCGAT
1 AAAATTATATTAAATGCGAT
32290626 AAAAAATTATATTAAATGCGAT
1 --AAAATTATATTAAATGCGAT
32290648 AAAAT
1 AAAAT
32290653 GAGAGAAGGG
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
19 15 0.25
20 26 0.43
22 20 0.33
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (20 bp):
AAAATTATATTAAATGCGAT
Found at i:32290634 original size:22 final size:22
Alignment explanation
Indices: 32290564--32290651 Score: 141
Period size: 22 Copynumber: 4.2 Consensus size: 22
32290554 ATCGGGCTGT
32290564 TAAAAAATTATATTAAAT---A
1 TAAAAAATTATATTAAATGCGA
32290583 TAAAAAATTATATTAAATGCGA
1 TAAAAAATTATATTAAATGCGA
32290605 T--AAAATTATATTAAATGCGA
1 TAAAAAATTATATTAAATGCGA
32290625 TAAAAAATTATATTAAATGCGA
1 TAAAAAATTATATTAAATGCGA
32290647 TAAAA
1 TAAAA
32290652 TGAGAGAAGG
Statistics
Matches: 64, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
19 18 0.28
20 20 0.31
22 26 0.41
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (22 bp):
TAAAAAATTATATTAAATGCGA
Found at i:32290638 original size:42 final size:39
Alignment explanation
Indices: 32290567--32290652 Score: 145
Period size: 42 Copynumber: 2.1 Consensus size: 39
32290557 GGGCTGTTAA
32290567 AAAATTATATTAAATATAAAAAATTATATTAAATGCGAT
1 AAAATTATATTAAATATAAAAAATTATATTAAATGCGAT
32290606 AAAATTATATTAAATGCGATAAAAAATTATATTAAATGCGAT
1 AAAATTATATTAAAT---ATAAAAAATTATATTAAATGCGAT
32290648 AAAAT
1 AAAAT
32290653 GAGAGAAGGG
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
39 15 0.34
42 29 0.66
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (39 bp):
AAAATTATATTAAATATAAAAAATTATATTAAATGCGAT
Found at i:32295538 original size:33 final size:35
Alignment explanation
Indices: 32295500--32295596 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
32295490 ATGGTTATAT
32295500 TTAAATATTTAAAATATATTTTATATATT-C-TAA
1 TTAAATATTTAAAATATATTTTATATATTGCTTAA
* *
32295533 TTAAAT-TTTATAAATA-ATTAATATTTATTGCTTAA
1 TTAAATATTTA-AAATATATT-TTATATATTGCTTAA
*
32295568 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAA--TATATTTTATATATT
32295597 AAAAATATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
32 7 0.14
33 25 0.49
34 5 0.10
35 11 0.22
36 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATATTTTATATATTGCTTAA
Found at i:32299250 original size:20 final size:20
Alignment explanation
Indices: 32299225--32299264 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32299215 ACACAAATCC
*
32299225 TTACCA-CTTTCTATTCTCTA
1 TTACCACCTTCCT-TTCTCTA
32299245 TTACCACCTTCCTTTCTCTA
1 TTACCACCTTCCTTTCTCTA
32299265 AAAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.35, G:0.00, T:0.47
Consensus pattern (20 bp):
TTACCACCTTCCTTTCTCTA
Found at i:32305377 original size:6 final size:6
Alignment explanation
Indices: 32305366--32305395 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
32305356 AATCACCTAC
32305366 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
32305396 AAATATATTA
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:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:32307848 original size:29 final size:30
Alignment explanation
Indices: 32307787--32307849 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
32307777 TTATATCAAT
* *
32307787 AATTGGATCAAATCAAAATTTCATGTATAA
1 AATTGGATAAAATCAAAAGTTCATGTATAA
* *
32307817 AATTGTATAAAATC-AAAGTTCATTTATAA
1 AATTGGATAAAATCAAAAGTTCATGTATAA
32307846 AATT
1 AATT
32307850 ACACATTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (30 bp):
AATTGGATAAAATCAAAAGTTCATGTATAA
Found at i:32310941 original size:2 final size:2
Alignment explanation
Indices: 32310934--32310982 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
32310924 AACCAAAACT
32310934 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32310976 TA TA TA T
1 TA TA TA T
32310983 TCTTACCCGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32313058 original size:19 final size:20
Alignment explanation
Indices: 32313034--32313072 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32313024 TATAGTAATT
32313034 AAAAAAC-ACAAATTAAAAA
1 AAAAAACAACAAATTAAAAA
*
32313053 AAAAAACAACTAATTAAAAA
1 AAAAAACAACAAATTAAAAA
32313073 TTAAACACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (20 bp):
AAAAAACAACAAATTAAAAA
Found at i:32316868 original size:27 final size:27
Alignment explanation
Indices: 32316827--32317156 Score: 518
Period size: 27 Copynumber: 12.2 Consensus size: 27
32316817 AAATCACAAG
** *
32316827 AGAAATCTAAAGCTACTGAGTCCAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
32316854 AGAAATCTACTGCTACTGAGTTGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
32316881 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
32316908 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
* * *
32316935 AGAAATCTACTGTTACTGATTCAAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
32316962 AGAAACCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
32316989 AGAAATCTACTGCTACCGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
* *
32317016 AGAAA-CTTACTGCTACCGAGTCAAGCA
1 AGAAATC-TACTGCTACTGAGTCGAGCA
*
32317043 AGAAATCTACTGCTACTGAGTCAAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
32317070 AGAAATCTACTGCTACTGAGTCAAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
32317097 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
32317124 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
32317151 ATAAAT
1 AGAAAT
32317157 TGACCAATGT
Statistics
Matches: 283, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
26 1 0.00
27 281 0.99
28 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
AGAAATCTACTGCTACTGAGTCGAGCA
Found at i:32320581 original size:16 final size:18
Alignment explanation
Indices: 32320556--32320596 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
32320546 GTTATTTTCG
*
32320556 AAAATTTGAT-ATGCT-A
1 AAAATATGATCATGCTGA
*
32320572 AAAATATGATCATGTTGA
1 AAAATATGATCATGCTGA
32320590 AAAATAT
1 AAAATAT
32320597 AAGGATTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 9 0.43
17 4 0.19
18 8 0.38
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (18 bp):
AAAATATGATCATGCTGA
Found at i:32323305 original size:24 final size:24
Alignment explanation
Indices: 32323273--32323321 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
32323263 CTCTTGCATC
* *
32323273 GCCGCTGGTGTAAGCGCCGCCGTT
1 GCCGCTGGTGCAAGCGCCACCGTT
32323297 GCCGCTGGTGCAAGCGCCACCGTT
1 GCCGCTGGTGCAAGCGCCACCGTT
32323321 G
1 G
32323322 TCATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.10, C:0.35, G:0.37, T:0.18
Consensus pattern (24 bp):
GCCGCTGGTGCAAGCGCCACCGTT
Found at i:32327042 original size:2 final size:2
Alignment explanation
Indices: 32327035--32327078 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
32327025 GACTTAATTG
32327035 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32327076 AT A
1 AT A
32327079 AAAAGTTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32328509 original size:43 final size:43
Alignment explanation
Indices: 32328435--32328517 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
32328425 AATATATTAT
** *
32328435 TAAAACTAGATCAATGGATTAATTGTCTAAATATTTTTTTTAG
1 TAAAACTAGATCAATGGATTAACCGTCTAAATATATTTTTTAG
* * *
32328478 TAAAACTAGATTAATGGATTAGCCGTGTAAATATATTTTT
1 TAAAACTAGATCAATGGATTAACCGTCTAAATATATTTTT
32328518 GGTATGTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.42
Consensus pattern (43 bp):
TAAAACTAGATCAATGGATTAACCGTCTAAATATATTTTTTAG
Found at i:32336044 original size:29 final size:29
Alignment explanation
Indices: 32336010--32336065 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
32336000 TTTGATTCTT
* * *
32336010 TTTAATAGTATAGGGGCTAAATTGATCCA
1 TTTAATAATAGAGGGACTAAATTGATCCA
*
32336039 TTTAATAATAGAGGGACTAATTTGATC
1 TTTAATAATAGAGGGACTAAATTGATC
32336066 TGGTCACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (29 bp):
TTTAATAATAGAGGGACTAAATTGATCCA
Found at i:32339334 original size:23 final size:23
Alignment explanation
Indices: 32339305--32339353 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
32339295 GGGAAGAAAG
32339305 TTTTTAAATTTAAATAAACTTAT
1 TTTTTAAATTTAAATAAACTTAT
32339328 TTTTTAAATTTAAATAAACTTAT
1 TTTTTAAATTTAAATAAACTTAT
32339351 TTT
1 TTT
32339354 GAGTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTTAAATTTAAATAAACTTAT
Found at i:32342792 original size:5 final size:5
Alignment explanation
Indices: 32342782--32342837 Score: 112
Period size: 5 Copynumber: 11.2 Consensus size: 5
32342772 TTTCCCTTTC
32342782 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
32342832 ATTAT A
1 ATTAT A
32342838 CTCGGAGTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:32343110 original size:16 final size:17
Alignment explanation
Indices: 32343078--32343117 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
32343068 AAGTTTTATC
32343078 ATAAATATTTAAAATAA
1 ATAAATATTTAAAATAA
*
32343095 ATAAAT-TTTCAAATAA
1 ATAAATATTTAAAATAA
32343111 ATAAATA
1 ATAAATA
32343118 AAACAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAATATTTAAAATAA
Found at i:32354014 original size:2 final size:2
Alignment explanation
Indices: 32354007--32354036 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32353997 TTTATTTATT
32354007 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32354037 ATCTCAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32377058 original size:15 final size:16
Alignment explanation
Indices: 32377040--32377069 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32377030 TTTTTTTTTC
32377040 TTCTTTTT-TTCTCCT
1 TTCTTTTTCTTCTCCT
32377055 TTCTTTTTCTTCTCC
1 TTCTTTTTCTTCTCC
32377070 ACAAAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTTTTTCTTCTCCT
Found at i:32380695 original size:12 final size:12
Alignment explanation
Indices: 32380678--32380702 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32380668 GGTGTGCATT
32380678 CGGTTAACCGAC
1 CGGTTAACCGAC
32380690 CGGTTAACCGAC
1 CGGTTAACCGAC
32380702 C
1 C
32380703 CGAATTAGTT
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:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:32380875 original size:9 final size:9
Alignment explanation
Indices: 32380861--32380926 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
32380851 TGGTTAAAAA
32380861 TTAACCGAT
1 TTAACCGAT
*
32380870 TTAACCTAT
1 TTAACCGAT
32380879 TTAACCGA-
1 TTAACCGAT
32380887 TTAACCGAT
1 TTAACCGAT
*
32380896 TTAACCAAT
1 TTAACCGAT
*
32380905 TTAACCGAC
1 TTAACCGAT
32380914 TTAACCGAT
1 TTAACCGAT
32380923 TTAA
1 TTAA
32380927 ATCACTATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
8 8 0.16
9 42 0.84
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (9 bp):
TTAACCGAT
Found at i:32380893 original size:26 final size:26
Alignment explanation
Indices: 32380860--32380926 Score: 116
Period size: 26 Copynumber: 2.5 Consensus size: 26
32380850 TTGGTTAAAA
*
32380860 ATTAACCGATTTAACCTATTTAACCG
1 ATTAACCGATTTAACCAATTTAACCG
32380886 ATTAACCGATTTAACCAATTTAACCG
1 ATTAACCGATTTAACCAATTTAACCG
32380912 ACTTAACCGATTTAA
1 A-TTAACCGATTTAA
32380927 ATCACTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 26 0.67
27 13 0.33
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATTAACCGATTTAACCAATTTAACCG
Found at i:32380981 original size:37 final size:37
Alignment explanation
Indices: 32380926--32381035 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
32380916 AACCGATTTA
* * *
32380926 AATCACTATATAATTAAAAAAATTACACAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
32380963 AATCACTACATAACTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
32381000 AATCACTACATAATTAAAAATATTACATAGGTCTTT
1 AATCACTACATAATTAAAAATATTACATAAGTCTTT
32381036 AACACATAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:32381011 original size:20 final size:20
Alignment explanation
Indices: 32380949--32381012 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
32380939 TTAAAAAAAT
*
32380949 TACACAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
*** *
32380969 TACATAA--CTAAAAAT-AT
1 TACATAAGTCTTTGAATCAC
32380986 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
32381006 TACATAA
1 TACATAA
32381013 TTAAAAATAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
19 5 0.16
20 14 0.44
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:32381291 original size:7 final size:7
Alignment explanation
Indices: 32381279--32381323 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
32381269 GTACAGAAGA
32381279 AAACATG
1 AAACATG
32381286 AAACATG
1 AAACATG
* **
32381293 CAGTATG
1 AAACATG
32381300 AAACATG
1 AAACATG
32381307 AAAACATG
1 -AAACATG
32381315 AAACATG
1 AAACATG
32381322 AA
1 AA
32381324 TTATTCTTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.56, C:0.13, G:0.16, T:0.16
Consensus pattern (7 bp):
AAACATG
Found at i:32381505 original size:16 final size:16
Alignment explanation
Indices: 32381480--32381510 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32381470 ATCTCCCAAT
*
32381480 GTATTGATACTTTAAG
1 GTATTAATACTTTAAG
32381496 GTATTAATACTTTAA
1 GTATTAATACTTTAA
32381511 TGGTGATATC
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:0.06, G:0.13, T:0.45
Consensus pattern (16 bp):
GTATTAATACTTTAAG
Found at i:32395128 original size:16 final size:17
Alignment explanation
Indices: 32395100--32395131 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
32395090 TTTTTATATG
32395100 AAATTATTAATAATTTT
1 AAATTATTAATAATTTT
32395117 AAATTA-TAATAATTT
1 AAATTATTAATAATTT
32395132 ATATTCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTATTAATAATTTT
Done.