Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 244 of 318
Found at i:77403848 original size:9 final size:9
Alignment explanation
Indices: 77403834--77403858 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
77403824 AAAATTACGA
77403834 TTTTAATAT
1 TTTTAATAT
77403843 TTTTAATAT
1 TTTTAATAT
77403852 TTTTAAT
1 TTTTAAT
77403859 TAAGTTGGGA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTAATAT
Found at i:77410827 original size:21 final size:21
Alignment explanation
Indices: 77410801--77410844 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
77410791 AAAAGTAACA
77410801 TTAAATTTCTATAGATTTGGG
1 TTAAATTTCTATAGATTTGGG
77410822 TTAAATTTCTATAGATTTGGG
1 TTAAATTTCTATAGATTTGGG
77410843 TT
1 TT
77410845 TATGAGGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (21 bp):
TTAAATTTCTATAGATTTGGG
Found at i:77411518 original size:46 final size:46
Alignment explanation
Indices: 77411422--77411602 Score: 152
Period size: 46 Copynumber: 3.9 Consensus size: 46
77411412 CTATTCGTTA
* * * *** *
77411422 TGTAGGTTCAACCTTAACGGGTGACCAGGCACTATTATCCGATTTT
1 TGTAGGTTCAACCTTAACGAGTGACTAGACACTATTATTTTATTTG
* *
77411468 TGTAGGTTTAACCTTAACGAGTGACTAGACACTATTATTTTATTCG
1 TGTAGGTTCAACCTTAACGAGTGACTAGACACTATTATTTTATTTG
* *
77411514 TGTAGGTTCAACCCTT-AC-ATGTGACTAGAAACTATGATTCATTATTTG
1 TGTAGGTTCAA-CCTTAACGA-GTGACTAGACACTATTATT--TTATTTG
* ** * *
77411562 TGTAGGTTTAACCCAAACGGGT-AATCAGACACTATTATTTT
1 TGTAGGTTCAACCTTAACGAGTGACT-AGACACTATTATTTT
77411603 CACCTGTGTA
Statistics
Matches: 108, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
45 1 0.01
46 68 0.63
47 8 0.07
48 31 0.29
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (46 bp):
TGTAGGTTCAACCTTAACGAGTGACTAGACACTATTATTTTATTTG
Found at i:77411922 original size:2 final size:2
Alignment explanation
Indices: 77411917--77411950 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
77411907 AAACTATATA
77411917 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
77411951 GATTTGGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:77414508 original size:41 final size:41
Alignment explanation
Indices: 77414463--77414546 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
77414453 TGAAAGTATA
77414463 GATAGTGCGAAATAAGAGTAGTCCACATTATGAACAAATGC
1 GATAGTGCGAAATAAGAGTAGTCCACATTATGAACAAATGC
77414504 GATAGTGCGAAATAAGAGTAGTCCACATTATGAACAAATGC
1 GATAGTGCGAAATAAGAGTAGTCCACATTATGAACAAATGC
77414545 GA
1 GA
77414547 CAACATTAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (41 bp):
GATAGTGCGAAATAAGAGTAGTCCACATTATGAACAAATGC
Found at i:77415814 original size:21 final size:21
Alignment explanation
Indices: 77415784--77415845 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
77415774 GTTATAATGA
*
77415784 CCACACGGGCGTGTTGCCCTT
1 CCACATGGGCGTGTTGCCCTT
* *
77415805 CCACATGGGCATGTTGCCTTT
1 CCACATGGGCGTGTTGCCCTT
77415826 CCACATGGGCGTGTTGCCCT
1 CCACATGGGCGTGTTGCCCT
77415846 ATTTCAAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.11, C:0.34, G:0.27, T:0.27
Consensus pattern (21 bp):
CCACATGGGCGTGTTGCCCTT
Found at i:77415982 original size:27 final size:27
Alignment explanation
Indices: 77415944--77416000 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
77415934 GTCTAAACAG
77415944 AGTTCAAAAGAGTTTTAAATTTAACTA
1 AGTTCAAAAGAGTTTTAAATTTAACTA
77415971 AGTTCAAAAGAGTTTTAAATTTAACTA
1 AGTTCAAAAGAGTTTTAAATTTAACTA
77415998 AGT
1 AGT
77416001 CTTGGTGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (27 bp):
AGTTCAAAAGAGTTTTAAATTTAACTA
Found at i:77425673 original size:5 final size:5
Alignment explanation
Indices: 77425663--77425695 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
77425653 TTCTGTGTTC
77425663 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
77425696 TCACAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:77427557 original size:17 final size:16
Alignment explanation
Indices: 77427507--77427569 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
77427497 GCTATAGGGG
*
77427507 AGAAAAGAAAAACAAGA
1 AGAAAAGAAAAA-AAAA
* *
77427524 AGAAGAGAAATAGAAAA
1 AGAAAAGAAA-AAAAAA
*
77427541 AGAGAATGAAAAAAAAA
1 AGA-AAAGAAAAAAAAA
77427558 AGAAAAGAAAAA
1 AGAAAAGAAAAA
77427570 TATAAATTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 8 0.22
17 23 0.62
18 6 0.16
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.03
Consensus pattern (16 bp):
AGAAAAGAAAAAAAAA
Found at i:77427561 original size:23 final size:23
Alignment explanation
Indices: 77427509--77427563 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
77427499 TATAGGGGAG
* *
77427509 AAAAGAAAAACAAGAAGAAGAGA
1 AAAAGAAAAACAAGAAGAAAAAA
* *
77427532 AATAGAAAAA-GAGAATGAAAAAA
1 AAAAGAAAAACAAGAA-GAAAAAA
77427555 AAAAGAAAA
1 AAAAGAAAA
77427564 GAAAAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (23 bp):
AAAAGAAAAACAAGAAGAAAAAA
Found at i:77430560 original size:54 final size:54
Alignment explanation
Indices: 77430412--77430545 Score: 241
Period size: 54 Copynumber: 2.5 Consensus size: 54
77430402 ATATACGCTA
* * *
77430412 ACCGTGTAACTAACTGTGCCCGTGTAATATAATGTCACACGACTATATGGATAG
1 ACCGTGTAACTCATTGTGCCCGTGTAATATAAGGTCACACGACTATATGGATAG
77430466 ACCGTGTAACTCATTGTGCCCGTGTAATATAAGGTCACACGACTATATGGATAG
1 ACCGTGTAACTCATTGTGCCCGTGTAATATAAGGTCACACGACTATATGGATAG
77430520 ACCGTGTAACTCATTGTGCCCGTGTA
1 ACCGTGTAACTCATTGTGCCCGTGTA
77430546 GCTTAGGGTC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (54 bp):
ACCGTGTAACTCATTGTGCCCGTGTAATATAAGGTCACACGACTATATGGATAG
Found at i:77432288 original size:39 final size:39
Alignment explanation
Indices: 77432234--77432374 Score: 210
Period size: 39 Copynumber: 3.6 Consensus size: 39
77432224 AACATGTTTT
* *
77432234 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTACA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
77432273 TGAGTATTGTGATATATGCTTAAATGTTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
77432312 TGAGTATTGTGATATATGCTTAAATTTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * * *
77432351 TGTGTAATGTAATATATGTTTAAA
1 TGAGTATTGTGATATATGCTTAAA
77432375 AGTGAATATG
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:77443463 original size:21 final size:21
Alignment explanation
Indices: 77443377--77443506 Score: 93
Period size: 21 Copynumber: 6.2 Consensus size: 21
77443367 AACGCTGAAT
* *
77443377 AGAAGCTCATAAGAGCTAAAC
1 AGAAACTCATAAGAGTTAAAC
* * * *
77443398 AGAAACACATAAGGGTTGAGC
1 AGAAACTCATAAGAGTTAAAC
* * * *
77443419 A-AAAGCTCGTAAAAGCTGAAC
1 AGAAA-CTCATAAGAGTTAAAC
* *
77443440 AGAAACCCATAAGGGTTAAAC
1 AGAAACTCATAAGAGTTAAAC
* *
77443461 AGAAGCTCAAAAGAGTTAAAC
1 AGAAACTCATAAGAGTTAAAC
*
77443482 -GAAAACTCATATGAGTTAAAC
1 AG-AAACTCATAAGAGTTAAAC
77443503 AGAA
1 AGAA
77443507 GCTCGATGGA
Statistics
Matches: 80, Mismatches: 25, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
20 4 0.05
21 72 0.90
22 4 0.05
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.15
Consensus pattern (21 bp):
AGAAACTCATAAGAGTTAAAC
Found at i:77443467 original size:42 final size:42
Alignment explanation
Indices: 77443377--77443511 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 42
77443367 AACGCTGAAT
* * * *
77443377 AGAAGCTCATAAGAGCTAAACAGAAACACATAAGGGTTGAGC
1 AGAAGCTCGTAAAAGCTAAACAGAAACACATAAGGGTTAAAC
* * *
77443419 AAAAGCTCGTAAAAGCTGAACAGAAACCCATAAGGGTTAAAC
1 AGAAGCTCGTAAAAGCTAAACAGAAACACATAAGGGTTAAAC
* * * * *
77443461 AGAAGCTC-AAAAGAGTTAAAC-GAAAACTCATATGAGTTAAAC
1 AGAAGCTCGTAAA-AGCTAAACAG-AAACACATAAGGGTTAAAC
77443503 AGAAGCTCG
1 AGAAGCTCG
77443512 ATGGAGCTAA
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 4 0.05
42 72 0.95
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
AGAAGCTCGTAAAAGCTAAACAGAAACACATAAGGGTTAAAC
Found at i:77451324 original size:1 final size:1
Alignment explanation
Indices: 77451320--77451345 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
77451310 TTTCTTCTTC
77451320 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
77451346 GCTCGAGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:77455954 original size:5 final size:5
Alignment explanation
Indices: 77455946--77455975 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
77455936 TAACCTGAAG
77455946 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
77455976 AGGCAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:77460653 original size:103 final size:104
Alignment explanation
Indices: 77460409--77460674 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
77460399 GTTGTACATA
** *
77460409 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
77460474 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
77460513 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
77460578 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
77460616 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
77460675 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:77464248 original size:10 final size:10
Alignment explanation
Indices: 77464233--77464266 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
77464223 TTTCAATTGG
77464233 TAAGTCAAAT
1 TAAGTCAAAT
77464243 TAAGTCAAAT
1 TAAGTCAAAT
77464253 TAAGTCAAAT
1 TAAGTCAAAT
77464263 TAAG
1 TAAG
77464267 AAAAAGGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (10 bp):
TAAGTCAAAT
Found at i:77465199 original size:46 final size:44
Alignment explanation
Indices: 77465140--77465254 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
77465130 ACAGGACAGA
* *
77465140 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
77465186 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
77465230 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
77465255 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:77465235 original size:44 final size:45
Alignment explanation
Indices: 77465140--77465273 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
77465130 ACAGGACAGA
* *
77465140 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
77465186 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
77465230 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
77465274 CAGGGTATTG
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:77470315 original size:5 final size:5
Alignment explanation
Indices: 77470305--77470376 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
77470295 TGTTAAAAAA
* *
77470305 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
77470351 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
77470377 ACATAAAACC
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:77470358 original size:19 final size:19
Alignment explanation
Indices: 77470334--77470376 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
77470324 ATTATGTTTT
77470334 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
77470353 TATATTATATTATATTATA
1 TATATTATATTATATTATA
77470372 TATAT
1 TATAT
77470377 ACATAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:77470410 original size:18 final size:18
Alignment explanation
Indices: 77470387--77470421 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77470377 ACATAAAACC
*
77470387 AAAAGAAAGAATAGAAAA
1 AAAAGAAAGAAAAGAAAA
77470405 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
77470422 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (18 bp):
AAAAGAAAGAAAAGAAAA
Found at i:77470411 original size:9 final size:9
Alignment explanation
Indices: 77470387--77470421 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
77470377 ACATAAAACC
77470387 AAAAGAAAG
1 AAAAGAAAG
* *
77470396 AATAGAAAA
1 AAAAGAAAG
77470405 AAAAGAAAG
1 AAAAGAAAG
77470414 AAAAGAAA
1 AAAAGAAA
77470422 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:77471440 original size:46 final size:44
Alignment explanation
Indices: 77471381--77471495 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
77471371 ACAGGACAGA
* *
77471381 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
77471427 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
77471471 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
77471496 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:77471476 original size:44 final size:45
Alignment explanation
Indices: 77471381--77471514 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
77471371 ACAGGACAGA
* *
77471381 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
77471427 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
77471471 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
77471515 CAGGGTATTG
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:77472841 original size:31 final size:31
Alignment explanation
Indices: 77472792--77472867 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
77472782 ATTTAATGGT
* * *
77472792 AGAGTGATTAGAACTGATAACTTATCTAACG
1 AGAGTGACTAAAATTGATAACTTATCTAACG
*
77472823 AGAGTGACTAAAATTGATAACTTATCTAACT
1 AGAGTGACTAAAATTGATAACTTATCTAACG
* *
77472854 AAAGTAACTAAAAT
1 AGAGTGACTAAAAT
77472868 AACAATTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (31 bp):
AGAGTGACTAAAATTGATAACTTATCTAACG
Found at i:77476921 original size:25 final size:24
Alignment explanation
Indices: 77476864--77476922 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
77476854 TCTGTTTTAT
* *
77476864 TTTATTTATTATTTCATCATTTTC
1 TTTATTTATTATTTCATCATATTA
* *
77476888 TTTCCTTTATTATTGTTATCATATTA
1 TTT-ATTTATTATT-TCATCATATTA
77476914 TTTATTTAT
1 TTTATTTAT
77476923 CCATTTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 3 0.11
25 14 0.50
26 11 0.39
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTATTTATTATTTCATCATATTA
Found at i:77481467 original size:6 final size:6
Alignment explanation
Indices: 77481410--77481450 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
77481400 AGGTTTCTCA
*
77481410 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGA AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
77481451 ATTCATTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:77485214 original size:27 final size:27
Alignment explanation
Indices: 77485160--77485234 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
77485150 GTTATCTTAC
* * * *
77485160 AGGGGTATTACAGTTATTTTACCTTAT
1 AGGGGTATTTCGGTCATTTTACCCTAT
77485187 AGGGGTATTTCGGTCATTTTACCCTAT
1 AGGGGTATTTCGGTCATTTTACCCTAT
* * *
77485214 AAGGGTACTTCGGCCATTTTA
1 AGGGGTATTTCGGTCATTTTA
77485235 TCACATAAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTCGGTCATTTTACCCTAT
Found at i:77485242 original size:27 final size:27
Alignment explanation
Indices: 77485175--77485245 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
77485165 TATTACAGTT
* * *
77485175 ATTTTAC-CTTATAGGGGTATTTCGGTC
1 ATTTTACAC-TATAAGGGTACTTCGGCC
*
77485202 ATTTTACCCTATAAGGGTACTTCGGCC
1 ATTTTACACTATAAGGGTACTTCGGCC
77485229 ATTTTATCAC-ATAAGGG
1 ATTTTA-CACTATAAGGG
77485246 AAAAGCAGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (27 bp):
ATTTTACACTATAAGGGTACTTCGGCC
Found at i:77485401 original size:18 final size:17
Alignment explanation
Indices: 77485375--77485408 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
77485365 GCATAATGCG
77485375 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
77485393 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
77485409 AAGCCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:77494571 original size:58 final size:57
Alignment explanation
Indices: 77494503--77494615 Score: 156
Period size: 57 Copynumber: 2.0 Consensus size: 57
77494493 AAAAATGGTG
*
77494503 AAATGGAGAAATAGTAAA-CATTTGGAAATGATTAAGGTTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAATA--AAATCATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAATGA
* ** *
77494561 AAATGGAGAAATAAAATCATTTGTAAATGAATGTGGTTTTCTCCGAAATGAAAAT
1 AAATGGAGAAATAAAATCATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAAT
77494616 AACTTGAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 3 0.06
57 33 0.67
58 13 0.27
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (57 bp):
AAATGGAGAAATAAAATCATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAATGA
Found at i:77496210 original size:16 final size:16
Alignment explanation
Indices: 77496189--77496219 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77496179 AATTGGATGG
*
77496189 TTTTTAGTTTAATTAA
1 TTTTTAGGTTAATTAA
77496205 TTTTTAGGTTAATTA
1 TTTTTAGGTTAATTA
77496220 GATTAATTGA
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:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (16 bp):
TTTTTAGGTTAATTAA
Found at i:77500674 original size:39 final size:39
Alignment explanation
Indices: 77500631--77500707 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
77500621 CTACAGTATC
*
77500631 TAATCTCACCACCATTATTGTTTTTACACTAATCGCAAA
1 TAATCTCACCACCACTATTGTTTTTACACTAATCGCAAA
* *
77500670 TAATCTCATCGCCACTATTGTTTTTACACTAATCGCAA
1 TAATCTCACCACCACTATTGTTTTTACACTAATCGCAA
77500708 GTAAACACAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (39 bp):
TAATCTCACCACCACTATTGTTTTTACACTAATCGCAAA
Found at i:77501396 original size:3 final size:3
Alignment explanation
Indices: 77501383--77501433 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
77501373 AAAAAGAAAG
* * *
77501383 AAT AA- AAT AAT AAT AAT AAT AAT ATAC AAA AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
77501428 AAT AAT
1 AAT AAT
77501434 TAATTAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:77503349 original size:16 final size:16
Alignment explanation
Indices: 77503328--77503378 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
77503318 GGTTCACTTG
77503328 AATGGAATAAGACTGT
1 AATGGAATAAGACTGT
77503344 AATGGAAT-AGAGCTGT
1 AATGGAATAAGA-CTGT
*
77503360 AATGGAATAGGACTGT
1 AATGGAATAAGACTGT
77503376 AAT
1 AAT
77503379 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 3 0.09
16 27 0.84
17 2 0.06
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.25
Consensus pattern (16 bp):
AATGGAATAAGACTGT
Found at i:77503449 original size:44 final size:45
Alignment explanation
Indices: 77503357--77503452 Score: 126
Period size: 46 Copynumber: 2.1 Consensus size: 45
77503347 GGAATAGAGC
* *
77503357 TGTAATGGAATAGGACTGTAATCAGTAATTCAATTGTTTGGTTGAA
1 TGTAATGGAATAGAACTATAATCAGTAATT-AATTGTTTGGTTGAA
77503403 TGTAATGGAATAGAACTATAAT-AGT-ATT-ATTGTATTTGGTTGAA
1 TGTAATGGAATAGAACTATAATCAGTAATTAATTG--TTTGGTTGAA
77503447 TGTAAT
1 TGTAAT
77503453 AGATATATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
42 4 0.09
44 19 0.41
45 3 0.07
46 20 0.43
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (45 bp):
TGTAATGGAATAGAACTATAATCAGTAATTAATTGTTTGGTTGAA
Found at i:77503575 original size:5 final size:6
Alignment explanation
Indices: 77503563--77503593 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
77503553 AATATAATTT
77503563 AATAAA AATAAA AATAAA AAT-AA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA
77503594 ATTTAATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:77503595 original size:12 final size:12
Alignment explanation
Indices: 77503563--77503593 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
77503553 AATATAATTT
77503563 AATAAAAATAAA
1 AATAAAAATAAA
77503575 AATAAAAAT-AA
1 AATAAAAATAAA
77503586 AATAAAAA
1 AATAAAAA
77503594 ATTTAATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AATAAAAATAAA
Found at i:77510202 original size:13 final size:13
Alignment explanation
Indices: 77510184--77510211 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
77510174 ACCCTATGAA
77510184 ATGAAACGGTTAT
1 ATGAAACGGTTAT
77510197 ATGAAACGGTTAT
1 ATGAAACGGTTAT
77510210 AT
1 AT
77510212 TGTGGCACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.32
Consensus pattern (13 bp):
ATGAAACGGTTAT
Found at i:77511618 original size:20 final size:20
Alignment explanation
Indices: 77511593--77511632 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
77511583 TCTTTGTTTA
77511593 TCTCTCT-TTGTTATATTTTT
1 TCTCTCTATT-TTATATTTTT
*
77511613 TCTCTCTATTTTATCTTTTT
1 TCTCTCTATTTTATATTTTT
77511633 AGAACAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.10, C:0.17, G:0.03, T:0.70
Consensus pattern (20 bp):
TCTCTCTATTTTATATTTTT
Found at i:77512861 original size:18 final size:17
Alignment explanation
Indices: 77512825--77512878 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
77512815 CAAATGCATC
*
77512825 TTATTTAATAATA-TTT
1 TTATTTAAAAATATTTT
77512841 TTATTTAAAAAATATTTT
1 TTATTT-AAAAATATTTT
77512859 TTATCTTAAAAATATTTT
1 TTAT-TTAAAAATATTTT
77512877 TT
1 TT
77512879 TAAAAACAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 6 0.18
17 6 0.18
18 20 0.59
19 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTTAAAAATATTTT
Found at i:77516110 original size:96 final size:96
Alignment explanation
Indices: 77515926--77516110 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 96
77515916 TCGCTTCTTT
* * * *
77515926 TTGCTCCTCTTAGCTCTCTTGGCTTCGGCTTTACCTTTGCTTGAACCAAGCTTCTTGGGCTCATT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCAGT
* * *
77515991 GTCTGCTCCATCGTTCCCTTCGATGATAGAC
66 ATCTGCTCCATCATTCCCATCGATGATAGAC
* * * *
77516022 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGTTTCTTGGGCTCCGT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCAGT
* **
77516087 ATCTGCTCGATCATTTTCATCGAT
66 ATCTGCTCCATCATTCCCATCGAT
77516111 AACGTACTTC
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.11, C:0.31, G:0.18, T:0.39
Consensus pattern (96 bp):
TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCAGT
ATCTGCTCCATCATTCCCATCGATGATAGAC
Found at i:77533712 original size:19 final size:19
Alignment explanation
Indices: 77533690--77533726 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
77533680 TTGTTATTAC
*
77533690 TATTTATTATTATTAATGT
1 TATTTACTATTATTAATGT
*
77533709 TATTTACTATTGTTAATG
1 TATTTACTATTATTAATG
77533727 ACTAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (19 bp):
TATTTACTATTATTAATGT
Found at i:77538600 original size:20 final size:20
Alignment explanation
Indices: 77538575--77538615 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
77538565 AGACAAGTAA
77538575 TCCATATAAAATGTTTGAAT
1 TCCATATAAAATGTTTGAAT
77538595 TCCATATAAAATGTTTGAAT
1 TCCATATAAAATGTTTGAAT
77538615 T
1 T
77538616 TCTGTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TCCATATAAAATGTTTGAAT
Found at i:77539538 original size:87 final size:87
Alignment explanation
Indices: 77539429--77539602 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
77539419 AATAAGTCTT
77539429 ACAACTCATAAATAGCAGTAGTAAAGAGACCAAGGTAAACAATAAAACAAGAGTAACAGAAGGTA
1 ACAACTCATAAATAGCAGTAGTAAAGAGACCAAGGTAAACAATAAAACAAGAGTAACAGAAGGTA
77539494 CTAAACTCACAGCTCTATCGAA
66 CTAAACTCACAGCTCTATCGAA
77539516 ACAACTCATAAATAGCAGTAGTAAAGAGACCAAGGTAAACAATAAAACAAGAGTAACAGAAGGTA
1 ACAACTCATAAATAGCAGTAGTAAAGAGACCAAGGTAAACAATAAAACAAGAGTAACAGAAGGTA
77539581 CTAAACTCACAGCTCTATCGAA
66 CTAAACTCACAGCTCTATCGAA
77539603 TTCCAACATG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.16
Consensus pattern (87 bp):
ACAACTCATAAATAGCAGTAGTAAAGAGACCAAGGTAAACAATAAAACAAGAGTAACAGAAGGTA
CTAAACTCACAGCTCTATCGAA
Found at i:77543181 original size:18 final size:19
Alignment explanation
Indices: 77543158--77543203 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
77543148 CGAACTAGCA
77543158 AGCTGGG-GGAAAGTGGCG
1 AGCTGGGAGGAAAGTGGCG
* *
77543176 AGCTGGGAGTAGAGTGGCG
1 AGCTGGGAGGAAAGTGGCG
77543195 AGCTGGGAG
1 AGCTGGGAG
77543204 TAGAGTGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.22, C:0.11, G:0.54, T:0.13
Consensus pattern (19 bp):
AGCTGGGAGGAAAGTGGCG
Found at i:77543193 original size:19 final size:19
Alignment explanation
Indices: 77543169--77543211 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
77543159 GCTGGGGGAA
77543169 AGTGGCGAGCTGGGAGTAG
1 AGTGGCGAGCTGGGAGTAG
77543188 AGTGGCGAGCTGGGAGTAG
1 AGTGGCGAGCTGGGAGTAG
77543207 AGTGG
1 AGTGG
77543212 TACGAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.21, C:0.09, G:0.53, T:0.16
Consensus pattern (19 bp):
AGTGGCGAGCTGGGAGTAG
Found at i:77544522 original size:18 final size:18
Alignment explanation
Indices: 77544499--77544578 Score: 97
Period size: 18 Copynumber: 4.4 Consensus size: 18
77544489 TATCAGTATC
*
77544499 ATTCAGTAACAACCAATT
1 ATTCAGTAACAATCAATT
* *
77544517 ATTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
*
77544535 ATTCAGTAACAATCAATC
1 ATTCAGTAACAATCAATT
* * *
77544553 ATTCAGTAACAGTCAGTC
1 ATTCAGTAACAATCAATT
77544571 ATTCAGTA
1 ATTCAGTA
77544579 CCTTTATTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:77544540 original size:36 final size:36
Alignment explanation
Indices: 77544490--77544578 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 36
77544480 CAATCAATTT
* *
77544490 ATCAGTATCATTCAGTAACAACCAATTATTCAGTAGCA
1 ATCAGT-T-ATTCAGTAACAACCAATCATTCAGTAACA
*
77544528 ATCAGTTATTCAGTAACAATCAATCATTCAGTAACA
1 ATCAGTTATTCAGTAACAACCAATCATTCAGTAACA
* *
77544564 GTCAGTCATTCAGTA
1 ATCAGTTATTCAGTA
77544579 CCTTTATTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 39 0.85
37 1 0.02
38 6 0.13
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (36 bp):
ATCAGTTATTCAGTAACAACCAATCATTCAGTAACA
Found at i:77544784 original size:44 final size:44
Alignment explanation
Indices: 77544731--77544822 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
77544721 CCGAAGTAAC
* * *
77544731 AGTAGCAGTACGACACACATGGTGCCTCATTGACTCGAA-GTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTC-AAGGTCGA
* **
77544775 AGTAACAGTATGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
77544819 AGTA
1 AGTA
77544823 TCTCTGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:77546680 original size:47 final size:48
Alignment explanation
Indices: 77546547--77546804 Score: 164
Period size: 47 Copynumber: 5.4 Consensus size: 48
77546537 TGTCAGACAC
* * **
77546547 GTCTGGGACATGCATCGACCAC-ATTATG-AGAGTCAGTGTAAGACCAT
1 GTCTGGGACATGCATCGGCCTCGAGAATGTA-AGTCAGTGTAAGACCAT
* * * * *
77546594 GTCTGGGACATGACATTGGCATTGAGACAAG--AGTTAGTGTAAGA-CAT
1 GTCTGGGACATG-CATCGGCCTCGAGA-ATGTAAGTCAGTGTAAGACCAT
* *
77546641 GTCTGGGACATGCATCGGCCTCGAGAATGTAAGCCAGTGTAAGA-TAT
1 GTCTGGGACATGCATCGGCCTCGAGAATGTAAGTCAGTGTAAGACCAT
** *
77546688 GTCTGAAACATGCATCGG-CTATGAG-ATGT--GTCAGTGTAAGACCAT
1 GTCTGGGACATGCATCGGCCT-CGAGAATGTAAGTCAGTGTAAGACCAT
* * *
77546733 GTCCGGGACATAGCATTGG-CACG-GATATGTGAGAG-CTAGTGTAAGACCAT
1 GTCTGGGACAT-GCATCGGCCTCGAGA-ATGT-A-AGTC-AGTGTAAGACCAT
* *
77546783 GTTTGGGACATGGCATCAGCCT
1 GTCTGGGACAT-GCATCGGCCT
77546805 TATACCCTAT
Statistics
Matches: 162, Mismatches: 33, Indels: 28
0.73 0.15 0.13
Matches are distributed among these distances:
44 12 0.07
45 13 0.08
46 28 0.17
47 59 0.36
48 17 0.10
49 2 0.01
50 30 0.19
51 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
GTCTGGGACATGCATCGGCCTCGAGAATGTAAGTCAGTGTAAGACCAT
Found at i:77549877 original size:3 final size:3
Alignment explanation
Indices: 77549862--77549944 Score: 61
Period size: 3 Copynumber: 29.0 Consensus size: 3
77549852 ATATATTAGT
* *
77549862 TAA TAA TAT TAA TAA TAA TACA TTA TAA TAA T-A TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * *
77549906 TAA T-T TAA TAA T-T TAA T-A TAA -AA TTAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
77549945 ATATCTATTT
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
2 10 0.16
3 48 0.77
4 4 0.06
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:77549889 original size:13 final size:12
Alignment explanation
Indices: 77549862--77549944 Score: 71
Period size: 13 Copynumber: 6.5 Consensus size: 12
77549852 ATATATTAGT
77549862 TAATAAT-ATTAA
1 TAATAATAATT-A
77549874 TAATAATACATTA
1 TAATAATA-ATTA
*
77549887 TAATAATATAATA
1 TAATAATA-ATTA
77549900 TAATAATAATT-
1 TAATAATAATTA
77549911 TAATAATTTAATATA
1 TAATAA--TAAT-TA
*
77549926 AAATTAATAATTA
1 TAA-TAATAATTA
77549939 TAATAA
1 TAATAA
77549945 ATATCTATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
11 6 0.10
12 12 0.20
13 28 0.47
14 8 0.14
15 2 0.03
16 3 0.05
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAATAATTA
Found at i:77550451 original size:20 final size:19
Alignment explanation
Indices: 77550405--77550451 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
77550395 AATCATTTTT
*
77550405 CCTAATTTCTCTTAATTAAG
1 CCTAA-TTCACTTAATTAAG
77550425 -CTAAATTCACTTAATTAAAG
1 CCT-AATTCACTTAATT-AAG
77550445 CCTAATT
1 CCTAATT
77550452 AAACACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (19 bp):
CCTAATTCACTTAATTAAG
Found at i:77552741 original size:25 final size:25
Alignment explanation
Indices: 77552708--77552760 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
77552698 AAAGAATAAT
*
77552708 TGTTAAGAGTTGAATTTGTAAGAAA
1 TGTTAAGAGTTGAATTTATAAGAAA
* *
77552733 TGTTGAGAGTTGAATTTATAAGTAA
1 TGTTAAGAGTTGAATTTATAAGAAA
77552758 TGT
1 TGT
77552761 AATCAGATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.40
Consensus pattern (25 bp):
TGTTAAGAGTTGAATTTATAAGAAA
Found at i:77559245 original size:68 final size:67
Alignment explanation
Indices: 77559160--77559442 Score: 252
Period size: 68 Copynumber: 4.2 Consensus size: 67
77559150 ATAGATCAAT
* *
77559160 TGTGATATTAAGTCAGCGGACTATAAAATAAAAATGCGATCTTAAATTGACGTGCTATGTAGGTC
1 TGTGATCTTAAATCAGCGGACTATAAAATAAAAA-GCGATCTTAAATTGACGTGCTATGTAGGT-
77559225 T-G-
64 TAGC
* * * ** * ** *
77559227 TCGTGATTTTAAACCAGCGGACTGTAAAATAGATGAGCTATCTTAAATCAATGTGCTATGTAGGT
1 T-GTGATCTTAAATCAGCGGACTATAAAATA-AAAAGCGATCTTAAATTGACGTGCTATGTAGGT
77559292 TAGC
64 TAGC
** * * *
77559296 TGTGATCTTAAATCAAAGGACTATAAGAT-AAAAGCATGATCTTAAATTGGCATGCTATGTAGGT
1 TGTGATCTTAAATCAGCGGACTATAAAATAAAAAGC--GATCTTAAATTGACGTGCTATGTAGGT
77559360 TAGC
64 TAGC
* * * * * *
77559364 TGAGATCTTAAATCAGTGGACTATAAGATAGAAATGCTATCTTAAA-TCAGCGTGCTATGTAGGT
1 TGTGATCTTAAATCAGCGGACTATAAAATA-AAAAGCGATCTTAAATTGA-CGTGCTATGTAGGT
*
77559428 TAGT
64 TAGC
77559432 TGT-ATCTTAAA
1 TGTGATCTTAAA
77559443 GCAACAGACT
Statistics
Matches: 173, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
66 4 0.02
67 11 0.06
68 150 0.87
69 3 0.02
70 5 0.03
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (67 bp):
TGTGATCTTAAATCAGCGGACTATAAAATAAAAAGCGATCTTAAATTGACGTGCTATGTAGGTTA
GC
Found at i:77559528 original size:134 final size:136
Alignment explanation
Indices: 77559263--77559577 Score: 366
Period size: 134 Copynumber: 2.3 Consensus size: 136
77559253 AAATAGATGA
* * *
77559263 GCTATCTTAAATCAATGTGCTATGTAGGTTAGCTGTGATCTTAAATCAAAGGACTATAAGATAAA
1 GCTATCTTAAATCAACGTGCTATGTAGGTTAGCTGTGATCTTAAAGCAAAGGACTAGAAGATAAA
* * * * * * * * * *
77559328 AGCATGATCTTAAATTGGCATGCTATGTAGGTTAGCTGAGATCTTAAATCAGTGGACTATAAGAT
66 AGCATGATCTTAAATCGACATGCCATGCAAGCTAACCGAGATATAAAATCAGTGGACTATAAGAT
*
77559393 AGAAAT
131 AGAAAC
* * *
77559399 GCTATCTTAAATCAGCGTGCTATGTAGGTTAGTTGT-ATCTTAAAGCAACA-GACT-GAAGATAG
1 GCTATCTTAAATCAACGTGCTATGTAGGTTAGCTGTGATCTTAAAGCAA-AGGACTAGAAGATAA
* * * * *
77559461 AAGCGTGATCTTAAATCGACATGCCATGCAAGCTAACCGTGATATAAAATTAGTGGGCTGTAAGA
65 AAGCATGATCTTAAATCGACATGCCATGCAAGCTAACCGAGATATAAAATCAGTGGACTATAAGA
*
77559526 TAGAAGC
130 TAGAAAC
* **
77559533 GCAATCTTAAATCAACGTGCTATGTAGGTTAGCCATGATCTTAAA
1 GCTATCTTAAATCAACGTGCTATGTAGGTTAGCTGTGATCTTAAA
77559578 TTAGTGGACT
Statistics
Matches: 149, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
134 92 0.62
135 23 0.15
136 34 0.23
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (136 bp):
GCTATCTTAAATCAACGTGCTATGTAGGTTAGCTGTGATCTTAAAGCAAAGGACTAGAAGATAAA
AGCATGATCTTAAATCGACATGCCATGCAAGCTAACCGAGATATAAAATCAGTGGACTATAAGAT
AGAAAC
Found at i:77559579 original size:68 final size:68
Alignment explanation
Indices: 77559195--77559679 Score: 330
Period size: 68 Copynumber: 7.2 Consensus size: 68
77559185 AAATAAAAAT
** * * * * *
77559195 GCGATCTTAAATTGACGTGCTATGTAGGTCT-GTCGTGATTTTAAACCAGCGGACTGTAAAATAG
1 GCGATCTTAAATCAACGTGCTATGTAGGT-TAGCCGTGATCTTAAATCAGTGGACTGTAAGATAG
* *
77559259 ATGA
65 AAGC
* * * ** * *
77559263 GCTATCTTAAATCAATGTGCTATGTAGGTTAGCTGTGATCTTAAATCAAAGGACTATAAGATAAA
1 GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
77559328 AGC
66 AGC
** *** * * * *
77559331 ATGATCTTAAATTGGCATGCTATGTAGGTTAGCTGAGATCTTAAATCAGTGGACTATAAGATAGA
1 GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
**
77559396 AAT
66 AGC
* * ** * ***
77559399 GCTATCTTAAATCAGCGTGCTATGTAGGTTAGTTGT-ATCTTAAAGCAACAGACTG-AAGATAGA
1 GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
77559462 AGC
66 AGC
* * * * * * * * * * * *
77559465 GTGATCTTAAATCGACATGCCATGCAAGCTAACCGTGATATAAAATTAGTGGGCTGTAAGATAGA
1 GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
77559530 AGC
66 AGC
* * *
77559533 GCAATCTTAAATCAACGTGCTATGTAGGTTAGCCATGATCTTAAATTAGTGGACTGTAAGA-AGA
1 GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
**
77559597 AAT
66 AGC
** * **** ** *** *
77559600 ATGATCTTAAGTCGGTATGCTATGTAGGTTAGTTGTGATCTTAAATCAACAGATTGTAAGATAGA
1 GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
*
77559665 AGT
66 AGC
*
77559668 GCAATCTTAAAT
1 GCGATCTTAAAT
77559680 AGCTAACTTT
Statistics
Matches: 313, Mismatches: 100, Indels: 8
0.74 0.24 0.02
Matches are distributed among these distances:
66 33 0.11
67 75 0.24
68 205 0.65
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (68 bp):
GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
AGC
Found at i:77561039 original size:30 final size:30
Alignment explanation
Indices: 77560982--77561039 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
77560972 CACGGGCTGG
* * *
77560982 CACATGGGCTTGTGTCCAGCCCGTGTGGCA
1 CACATAGGCGTGTGTCCAGCCCATGTGGCA
77561012 CACATAGGCGTGTGTCCTA-CCCATGTGG
1 CACATAGGCGTGTGTCC-AGCCCATGTGG
77561040 AAATGCCCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.16, C:0.29, G:0.31, T:0.24
Consensus pattern (30 bp):
CACATAGGCGTGTGTCCAGCCCATGTGGCA
Found at i:77562141 original size:20 final size:21
Alignment explanation
Indices: 77562116--77562155 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
77562106 TCAAGCTAAT
*
77562116 AAGGGC-ACACGCCTGTGTGG
1 AAGGGCAACACGCCCGTGTGG
77562136 AAGGGCAACACGCCCGTGTG
1 AAGGGCAACACGCCCGTGTG
77562156 TCTTCTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (21 bp):
AAGGGCAACACGCCCGTGTGG
Found at i:77563448 original size:48 final size:47
Alignment explanation
Indices: 77563396--77563709 Score: 207
Period size: 48 Copynumber: 6.6 Consensus size: 47
77563386 CATGTTCCAA
* *
77563396 ACATGGTTTTACACTGGCTCACATGTCGAGGCCGATGCCATATCCCAG
1 ACATGGTCTTACACTGGCTCACATATC-AGGCCGATGCCATATCCCAG
* * ** * * * *
77563444 ACATGGTCTTACAGTAGCTTTCGTCTCAGTGCCAATGCCATATCTCAG
1 ACATGGTCTTACACTGGCTCACATATCAG-GCCGATGCCATATCCCAG
* * * *
77563492 ACATGGTCTTACACTGGCTCTCATAAT-ATGGCGGATGCCATGTCCCAA
1 ACATGGTCTTACACTGGCTCACAT-ATCA-GGCCGATGCCATATCCCAG
* * * * * * *
77563540 ACATGGCCTTACACTAGCGCACATATCAATGCCGATTCCATGTCCTAG
1 ACATGGTCTTACACTGGCTCACATATC-AGGCCGATGCCATATCCCAG
* * * * *** * * *
77563588 ACATGGTATTACACTGGCTCTCACAACATTTTCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCACATATCA-GGCCGATGCCATATCCCAG
* ** * * *
77563636 ACATGGTCTTACACTAGCTCTTATATCGTGGCCGACGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCACATATC-AGGCCGATGCCATATCCCAG
* *
77563684 ACATGGTCTTACACTAGCGCACATAT
1 ACATGGTCTTACACTGGCTCACATAT
77563710 AAGCCAAATG
Statistics
Matches: 203, Mismatches: 56, Indels: 14
0.74 0.21 0.05
Matches are distributed among these distances:
47 5 0.02
48 195 0.96
49 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
ACATGGTCTTACACTGGCTCACATATCAGGCCGATGCCATATCCCAG
Found at i:77563590 original size:96 final size:96
Alignment explanation
Indices: 77563480--77563698 Score: 262
Period size: 96 Copynumber: 2.3 Consensus size: 96
77563470 CAGTGCCAAT
* * * *
77563480 GCCATATCTCAGACATGGTCTTACACTGGCTCTCATAATA-TGGCGGATGCCATGTCCCAAACAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATTGGC-GATGCCATGTCCCAAACAT
*
77563544 GGCCTTACACTAGCGCACATATCAAT-GCCGAT
65 GGCCTTACACTAGCGCACATATC-ATGGCCGAC
* * * ** *
77563576 TCCATGTCCTAGACATGGTATTACACTGGCTCTCACAACATTTTCGATGCCATGTTCCAAACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATTGGCGATGCCATGTCCCAAACATG
* * ** *
77563641 GTCTTACACTAGCTCTTATATCGTGGCCGAC
66 GCCTTACACTAGCGCACATATCATGGCCGAC
77563672 GCCATGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
77563699 AGCGCACATA
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
95 1 0.01
96 99 0.97
97 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATTGGCGATGCCATGTCCCAAACATG
GCCTTACACTAGCGCACATATCATGGCCGAC
Found at i:77565736 original size:18 final size:18
Alignment explanation
Indices: 77565713--77565749 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
77565703 GAAAGCCGTG
*
77565713 CTAAAATTCAACTTTGTC
1 CTAAAATTCAACTTCGTC
77565731 CTAAAATTCAACTTCGTC
1 CTAAAATTCAACTTCGTC
77565749 C
1 C
77565750 CCAAAGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (18 bp):
CTAAAATTCAACTTCGTC
Found at i:77572584 original size:114 final size:112
Alignment explanation
Indices: 77572365--77572591 Score: 418
Period size: 113 Copynumber: 2.0 Consensus size: 112
77572355 AGCGAAAGAG
*
77572365 GGTAAGAAAAAATTGAAAATAGTGACAAATGGGTGCTGAAAGAATATAAACCTCTGGTTCCGTAC
1 GGTAAGAAAAAATTGAAAATAGTGACAAATGGGTGCTGAAAGAATATAAACCTCCGGTTCCGTAC
*
77572430 CAGCATTGCATTGATACGCAATTCGGTAAGTTTCTTGAACTTTTTAA
66 CAGCATCGCATTGATACGCAATTCGGTAAGTTTCTTGAACTTTTTAA
77572477 GGTAAGAAAAAAATTGAAAATAGTGACAAATGGGTGCTGAAAGAATATAAACCTCCGGTTCCGTA
1 GGTAAG-AAAAAATTGAAAATAGTGACAAATGGGTGCTGAAAGAATATAAACCTCCGGTTCCGTA
77572542 CCCAGCATCGCATTGATACGCAATTCGGTAAGTTTCTTGAACTTTTTAA
65 -CCAGCATCGCATTGATACGCAATTCGGTAAGTTTCTTGAACTTTTTAA
77572591 G
1 G
77572592 CAATTACATA
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
112 6 0.05
113 57 0.51
114 48 0.43
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (112 bp):
GGTAAGAAAAAATTGAAAATAGTGACAAATGGGTGCTGAAAGAATATAAACCTCCGGTTCCGTAC
CAGCATCGCATTGATACGCAATTCGGTAAGTTTCTTGAACTTTTTAA
Found at i:77581266 original size:48 final size:48
Alignment explanation
Indices: 77581156--77581378 Score: 243
Period size: 48 Copynumber: 4.6 Consensus size: 48
77581146 GGTGAATTGT
* * * *
77581156 CGATGCCATGTTCCAAAAATGGTCTTACACTGGCTCACATGTCGA-GGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * * * * * *
77581204 CAATTCCATATCCCAGACATGGTCTTACACTAGCTTTCATAAT-GTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-ATCATGGC
* * *
77581252 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAGAACATTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGC
* *
77581300 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTTATATCATGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGC
* * *
77581348 TGACGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAAACATGGTCTTACACT
77581379 AGCACACAGA
Statistics
Matches: 142, Mismatches: 30, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
47 1 0.01
48 140 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGC
Found at i:77586311 original size:15 final size:15
Alignment explanation
Indices: 77586291--77586323 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
77586281 GCTCCTAATG
77586291 TGGCTGAGTACTGGA
1 TGGCTGAGTACTGGA
77586306 TGGCTGAGTACTGGA
1 TGGCTGAGTACTGGA
77586321 TGG
1 TGG
77586324 AGGCCACGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.42, T:0.27
Consensus pattern (15 bp):
TGGCTGAGTACTGGA
Found at i:77606393 original size:20 final size:20
Alignment explanation
Indices: 77606368--77606408 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
77606358 CTCTATACTT
*
77606368 TTAACAGTATTGCAAATTAG
1 TTAACAATATTGCAAATTAG
77606388 TTAACAATATTGCAAATTAG
1 TTAACAATATTGCAAATTAG
77606408 T
1 T
77606409 CCTGAGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (20 bp):
TTAACAATATTGCAAATTAG
Found at i:77610256 original size:12 final size:12
Alignment explanation
Indices: 77610239--77610265 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
77610229 ATTCCGAAGT
77610239 ATATATATATAC
1 ATATATATATAC
77610251 ATATATATATAC
1 ATATATATATAC
77610263 ATA
1 ATA
77610266 AGTATGCCAT
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:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:77610770 original size:27 final size:27
Alignment explanation
Indices: 77610739--77610916 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
77610729 TAAATTGTAC
77610739 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
77610766 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
77610792 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
77610820 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
77610848 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
77610875 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
77610902 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
77610917 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:77610853 original size:82 final size:81
Alignment explanation
Indices: 77610740--77610895 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
77610730 AAATTGTACA
* *
77610740 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
77610804 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
77610821 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
77610886 TGCGAGTTGA
65 TGCGAATTGA
77610896 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:77610907 original size:82 final size:81
Alignment explanation
Indices: 77610736--77610916 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
77610726 GATTAAATTG
* *
77610736 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
77610801 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
77610817 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
77610881 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
77610899 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
77610917 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:77631952 original size:29 final size:29
Alignment explanation
Indices: 77631910--77632148 Score: 273
Period size: 29 Copynumber: 8.2 Consensus size: 29
77631900 GTATTGATGC
* **
77631910 CCATCGATTATGAAAACAGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* **
77631939 CCATCGAATATGAAAAAGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* *
77631968 CCATCGAATATGAAAAGGGATGGCTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* * *
77631997 CCATC-AATTAAAGAATAGAGATGGTTTCGA
1 CCATCGAA-T-ATGAAAAGGGATGGTTTCGA
* *
77632027 CCATCAAATATGAAAAGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
*
77632056 CCATCGAATATGAAAAGGGATGGCTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* * *
77632085 CCATTGAATATGCAAAGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* *
77632114 CCATCGATTAAAGAAAAGGGATGGTTTCGA
1 CCATCGAAT-ATGAAAAGGGATGGTTTCGA
77632144 CCATC
1 CCATC
77632149 ATTTAGCAAA
Statistics
Matches: 175, Mismatches: 31, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
28 2 0.01
29 128 0.73
30 43 0.25
31 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTTCGA
Found at i:77632059 original size:88 final size:87
Alignment explanation
Indices: 77631927--77632148 Score: 286
Period size: 88 Copynumber: 2.5 Consensus size: 87
77631917 TTATGAAAAC
* **
77631927 AGATGGTTTCGACCATCGAATATGAAAAAGGATGGTGACGACCATCGAATATGAAAAGGGATGGC
1 AGATGGTTTCGACCATCGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGC
77631992 TTCAACCA-TCAATTAAAG-AATAG
66 TTCAACCATTCAA-T-AAGCAA-AG
* *
77632015 AGATGGTTTCGACCATCAAATATGAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGATGGC
1 AGATGGTTTCGACCATCGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGC
* * *
77632080 TTCGACCATTGAATATGCAAAG
66 TTCAACCATTCAATAAGCAAAG
* * * *
77632102 GGATGGTTTCAACCATCGATTAAAGAAAAGGGATGGTTTCGACCATC
1 AGATGGTTTCGACCATCGAAT-ATGAAAAGGGATGGTTTCGACCATC
77632149 ATTTAGCAAA
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
87 21 0.18
88 93 0.79
89 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (87 bp):
AGATGGTTTCGACCATCGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGC
TTCAACCATTCAATAAGCAAAG
Found at i:77632116 original size:117 final size:117
Alignment explanation
Indices: 77631918--77632149 Score: 349
Period size: 117 Copynumber: 2.0 Consensus size: 117
77631908 GCCCATCGAT
*
77631918 TATGAAAACAGATGGTTTCGACCATCGAATATGAAAAAGGATGGTGACGACCATCGAATATGAAA
1 TATGAAAACAGATGGTTTCAACCATCGAATATGAAAAAGGATGGTGACGACCATCGAATATGAAA
*
77631983 AGGGATGGCTTCAACCATCAATTAAAGAATAGAGATGGTTTCGACCATCAAA
66 AGGGATGGCTTCAACCATCAATTAAAGAAAAGAGATGGTTTCGACCATCAAA
** * * * *
77632035 TATGAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGATGGCT-TCGACCATTGAATATGCA
1 TATGAAAACAGATGGTTTCAACCATCGAATATGAAAAAGGATGG-TGACGACCATCGAATATGAA
* * *
77632099 AAGGGATGGTTTCAACCATCGATTAAAGAAAAGGGATGGTTTCGACCATCA
65 AAGGGATGGCTTCAACCATCAATTAAAGAAAAGAGATGGTTTCGACCATCA
77632150 TTTAGCAAAC
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
117 102 0.99
118 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (117 bp):
TATGAAAACAGATGGTTTCAACCATCGAATATGAAAAAGGATGGTGACGACCATCGAATATGAAA
AGGGATGGCTTCAACCATCAATTAAAGAAAAGAGATGGTTTCGACCATCAAA
Found at i:77636810 original size:63 final size:63
Alignment explanation
Indices: 77636711--77636838 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
77636701 AGCAAGGAGA
*
77636711 AAACCCAAACAAGCCAAGGGCCTAGTGACATGACCGACATGGAGATAGTCATTCAGTGGATGC
1 AAACCCAAACAAGCCAAAGGCCTAGTGACATGACCGACATGGAGATAGTCATTCAGTGGATGC
77636774 AAACCCAAACAAGCCAAAGGCCTAGTGACATGACCGACATGGAGATAGTCATTCAGTGGATGC
1 AAACCCAAACAAGCCAAAGGCCTAGTGACATGACCGACATGGAGATAGTCATTCAGTGGATGC
77636837 AA
1 AA
77636839 GGAATGACAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (63 bp):
AAACCCAAACAAGCCAAAGGCCTAGTGACATGACCGACATGGAGATAGTCATTCAGTGGATGC
Found at i:77643473 original size:40 final size:40
Alignment explanation
Indices: 77643418--77643595 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
77643408 TGGATGATAA
* * *
77643418 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
77643458 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
77643498 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
77643538 CCAGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
77643578 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
77643596 TACTTGGCTT
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 16 0.13
40 110 0.87
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:77644982 original size:16 final size:16
Alignment explanation
Indices: 77644961--77644993 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
77644951 AGGAAAATAT
77644961 CGAAATGCCGAAAAGC
1 CGAAATGCCGAAAAGC
*
77644977 CGAAATGCTGAAAAGC
1 CGAAATGCCGAAAAGC
77644993 C
1 C
77644994 AGAAGTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.24, G:0.24, T:0.09
Consensus pattern (16 bp):
CGAAATGCCGAAAAGC
Found at i:77645251 original size:28 final size:28
Alignment explanation
Indices: 77645218--77645284 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
77645208 GACTATGAGT
* *
77645218 GTGATTGGGCCTGACGGGTCATATGAAA
1 GTGATTGGGCCCGACGGGCCATATGAAA
* *
77645246 GTGATTGGGCCCGATGGGCCATATGAAT
1 GTGATTGGGCCCGACGGGCCATATGAAA
*
77645274 GAGATTGGGCC
1 GTGATTGGGCC
77645285 GAAAGGGGCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.22, C:0.16, G:0.37, T:0.24
Consensus pattern (28 bp):
GTGATTGGGCCCGACGGGCCATATGAAA
Found at i:77646573 original size:17 final size:18
Alignment explanation
Indices: 77646540--77646573 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77646530 TTCAAAGAAG
77646540 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
77646558 GGTTTTCAAT-AAAACA
1 GGTTTTCAATGAAAACA
77646574 CTTCAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:77661546 original size:17 final size:17
Alignment explanation
Indices: 77661520--77661552 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
77661510 TTATTATAAT
*
77661520 TGTGTGTATATATTATG
1 TGTGTATATATATTATG
77661537 TGTGTATATATATTAT
1 TGTGTATATATATTAT
77661553 ATGCGTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (17 bp):
TGTGTATATATATTATG
Found at i:77661560 original size:17 final size:17
Alignment explanation
Indices: 77661526--77661561 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
77661516 TAATTGTGTG
* *
77661526 TATATATTATGTGTGTA
1 TATATATTATATGCGTA
77661543 TATATATTATATGCGTA
1 TATATATTATATGCGTA
77661560 TA
1 TA
77661562 AATAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (17 bp):
TATATATTATATGCGTA
Found at i:77682731 original size:18 final size:18
Alignment explanation
Indices: 77682694--77682732 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
77682684 TTCAAAATCA
*
77682694 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
77682712 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
77682730 AAA
1 AAA
77682733 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:77688497 original size:39 final size:39
Alignment explanation
Indices: 77688437--77688652 Score: 324
Period size: 39 Copynumber: 5.5 Consensus size: 39
77688427 AAAAAGCATG
*
77688437 CGGGACTTTAAGCCCAGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
* **
77688478 CGGGACTTAGCCCGAATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* **
77688517 CAGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
77688556 CGGGACTTAGCCCGGATATAATACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
77688595 CAGGACTTAGCCCGGATATAATACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
77688634 CGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
77688653 TTTTCCAGCA
Statistics
Matches: 159, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 151 0.95
40 2 0.01
41 6 0.04
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:77688661 original size:39 final size:39
Alignment explanation
Indices: 77688437--77688740 Score: 267
Period size: 39 Copynumber: 7.7 Consensus size: 39
77688427 AAAAAGCATG
* * *
77688437 CGGGACTTTAAGCCCAGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATATTTCCAGCACGAATGCCTT
* ***
77688478 CGGGACTTAGCCCGAATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATATTTCCAGCACGAATGCCTT
* ***
77688517 CAGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATATTTCCAGCACGAATGCCTT
* * *
77688556 CGGGACTTAGCCCGGATATAATACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATATTTCCAGCACGAATGCCTT
* * * *
77688595 CAGGACTTAGCCCGGATATAATACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATATTTCCAGCACGAATGCCTT
* **
77688634 CGGGACTTAGCCCGGATATTTTTCCAGCACTTA-GCC-T
1 CGGGACTTAGCCCGGATATATTTCCAGCACGAATGCCTT
* * * *
77688671 -GTGGACTTTAAGTCCGGATATATTTCCAGCA-TAAAGCCTG
1 CG-GGAC-TT-AGCCCGGATATATTTCCAGCACGAATGCCTT
* *
77688711 C-AGACTTCAAGTCCGGATATATTTCCAGCA
1 CGGGACTT--AGCCCGGATATATTTCCAGCA
77688741 TAAAGCCTGC
Statistics
Matches: 229, Mismatches: 27, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
36 1 0.00
37 5 0.02
38 9 0.04
39 206 0.90
40 2 0.01
41 6 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATATTTCCAGCACGAATGCCTT
Found at i:77688702 original size:78 final size:79
Alignment explanation
Indices: 77688439--77688701 Score: 313
Period size: 78 Copynumber: 3.4 Consensus size: 79
77688429 AAAGCATGCG
* * **
77688439 GGACTTTAAGCCCAGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGAATATAACGCCA
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
77688504 GCACGAATGCCTTCA
66 GCACGAATGCCTT-A
** * *
77688519 GGAC-TT-AGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATACTA
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
77688582 GCACGAATGCCTTCA
66 GCACGAATGCCTT-A
* **
77688597 GGAC-TT-AGCCCGGATATAATACCAGCATGAATGCCTTCGGGACTTAGCCCGGATATTTTTCCA
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
**
77688660 GCACTTA-GCCTGT-
66 GCACGAATGCCT-TA
* * *
77688673 GGACTTTAAGTCCGGATATATTTCCAGCA
1 GGACTTTAAGCCCGGATATAATACCAGCA
77688702 TAAAGCCTGC
Statistics
Matches: 161, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
76 4 0.02
77 6 0.04
78 145 0.90
79 2 0.01
80 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
GCACGAATGCCTTA
Found at i:77688741 original size:39 final size:39
Alignment explanation
Indices: 77688606--77688776 Score: 195
Period size: 39 Copynumber: 4.4 Consensus size: 39
77688596 AGGACTTAGC
* * * * *
77688606 CCGGATATAATACCAGCATGAATGCCTTCGGGACTT--AGC
1 CCGGATATATTTCCAGCAT-AAAGCCTGC-GGACTTCAAGT
* * * *
77688645 CCGGATATTTTTCCAGCACT-TAGCCTGTGGACTTTAAGT
1 CCGGATATATTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
*
77688684 CCGGATATATTTCCAGCATAAAGCCTGCAGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
77688723 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
*
77688762 CCGGATATTTTTCCA
1 CCGGATATATTTCCA
77688777 ATACCATGCA
Statistics
Matches: 113, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
37 6 0.05
38 5 0.04
39 101 0.89
40 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:77708291 original size:4 final size:4
Alignment explanation
Indices: 77708282--77708306 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
77708272 TGCTTTCCCT
77708282 CATC CATC CATC CATC CATC CATC C
1 CATC CATC CATC CATC CATC CATC C
77708307 TCGCTCCTTA
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:0.52, G:0.00, T:0.24
Consensus pattern (4 bp):
CATC
Found at i:77719523 original size:109 final size:109
Alignment explanation
Indices: 77719332--77719534 Score: 273
Period size: 109 Copynumber: 1.9 Consensus size: 109
77719322 TGTGCCTTGG
* * * *
77719332 CCGTGTGGTTTTTAATCACAAATAGTGAGTTACATGACCTGGGCACACGCCTGTGTCCCTAGCCA
1 CCGTGTGATTCTTAATCACAAACAGTGAGTTACATGACCTGGGCACACGCCCGTGTCCCTAGCCA
77719397 TGTGGTTCTTAAGTACAAACAGTGAGTTATATGGCCTGGGCCCA
66 TGTGGTTCTTAAGTACAAACAGTGAGTTATATGGCCTGGGCCCA
* *** * * *
77719441 CCGTGTGATTCTTAAGT-ACAAACAGTGAGTTACATGGCCTGGGCATTTGCCCGTGTTCCTGGTC
1 CCGTGTGATTCTTAA-TCACAAACAGTGAGTTACATGACCTGGGCACACGCCCGTGTCCCTAGCC
* *
77719505 GTGTGGTTCTTAAGTACAAATAGTGAGTTA
65 ATGTGGTTCTTAAGTACAAACAGTGAGTTA
77719535 CACGACCTAG
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
109 79 0.99
110 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (109 bp):
CCGTGTGATTCTTAATCACAAACAGTGAGTTACATGACCTGGGCACACGCCCGTGTCCCTAGCCA
TGTGGTTCTTAAGTACAAACAGTGAGTTATATGGCCTGGGCCCA
Found at i:77719555 original size:62 final size:62
Alignment explanation
Indices: 77719442--77719633 Score: 285
Period size: 62 Copynumber: 3.1 Consensus size: 62
77719432 CTGGGCCCAC
* * * * *** *
77719442 CGTGTGATTCTTAAGTACAAACAGTGAGTTACATGGCCTGGGCATTTGCCCGTGTTCCTGGT
1 CGTGTGGTTCTTAAGTACAAATAGTGAGTTACACGGCCTAGGCACACGCCCGTGTCCCTGGT
*
77719504 CGTGTGGTTCTTAAGTACAAATAGTGAGTTACACGACCTAGGCACACGCCCGTGTCCCTGGT
1 CGTGTGGTTCTTAAGTACAAATAGTGAGTTACACGGCCTAGGCACACGCCCGTGTCCCTGGT
* *
77719566 CGTGTGGTTCTTAAGTACAAATAGTGAGTTACACGGCCTTGGCACACGCCCGTGTCCCTGGC
1 CGTGTGGTTCTTAAGTACAAATAGTGAGTTACACGGCCTAGGCACACGCCCGTGTCCCTGGT
77719628 CGTGTG
1 CGTGTG
77719634 AACCCTGCAC
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 118 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (62 bp):
CGTGTGGTTCTTAAGTACAAATAGTGAGTTACACGGCCTAGGCACACGCCCGTGTCCCTGGT
Found at i:77729366 original size:6 final size:6
Alignment explanation
Indices: 77729344--77729388 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
77729334 ATAAGTTTTC
77729344 AAAAAT AAAAGAT -AAAAT AAAAAAT AAAAAT AAAAAT -AAAAT AAA
1 AAAAAT AAAA-AT AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAA
77729389 TGGACTCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 7 0.20
6 21 0.60
7 7 0.20
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:77729368 original size:19 final size:17
Alignment explanation
Indices: 77729344--77729388 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
77729334 ATAAGTTTTC
77729344 AAAAATAAAAGATAAAATA
1 AAAAATAAAA-ATAAAA-A
77729363 AAAAATAAAAATAAAAA
1 AAAAATAAAAATAAAAA
*
77729380 TAAAATAAA
1 AAAAATAAA
77729389 TGGACTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.36
18 6 0.24
19 10 0.40
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (17 bp):
AAAAATAAAAATAAAAA
Found at i:77731218 original size:20 final size:20
Alignment explanation
Indices: 77731195--77731233 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
77731185 GGGGTATTGC
77731195 GAATGGCTGGG-GTGTGGGTG
1 GAATGG-TGGGTGTGTGGGTG
77731215 GAATGGTGGGTGTGTGGGT
1 GAATGGTGGGTGTGTGGGT
77731234 AGGGAGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.10, C:0.03, G:0.59, T:0.28
Consensus pattern (20 bp):
GAATGGTGGGTGTGTGGGTG
Found at i:77735853 original size:30 final size:30
Alignment explanation
Indices: 77735819--77735875 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
77735809 CACGGCCATG
77735819 ACACACGGGCGTGTAG-TCTACCCGTGTGTC
1 ACACACGGGCGTGTAGAT-TACCCGTGTGTC
*
77735849 ACACACGGGCGTGTGGATTACCCGTGT
1 ACACACGGGCGTGTAGATTACCCGTGT
77735876 AGAAGTTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.18, C:0.28, G:0.32, T:0.23
Consensus pattern (30 bp):
ACACACGGGCGTGTAGATTACCCGTGTGTC
Found at i:77736313 original size:62 final size:61
Alignment explanation
Indices: 77736195--77736661 Score: 443
Period size: 62 Copynumber: 7.5 Consensus size: 61
77736185 TACCACATGG
* * * * *
77736195 CCTGGGCATACGTCCGTGTGCCTTGGCCGTGTGGTTTTTAAGCACAAACAGCGAGTTACACGA
1 CCTGGGCACACG-CCGTGT-CCCTGGCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGA
** * * *
77736258 CCTGGGCACACGTCCGTGTCCCTGGCCGTGTAATTGTTAACTACAAACAGTGAGTTACACGG
1 CCTGGGCACACG-CCGTGTCCCTGGCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGA
** * * * * *
77736320 CCTAAGCACACGCTCGTATCCCTGGTCGTGTGGTTCTTAAGTACAAACTGTGAATTACACGG
1 CCTGGGCACACGC-CGTGTCCCTGGCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGA
* * * * *
77736382 CCTGGGCATACGCCCGTGTCCTTAGCCATGTGGTTCTTAAGTACAAATAGTGAGTTACAC-A
1 CCTGGGCACACG-CCGTGTCCCTGGCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGA
* * * *
77736443 GCCTGGGCACACGCCCGTATCCCTGGCCGTGTGGTTCTTAAGTACAAAAAGTGAGTTACAAGC
1 -CCTGGGCACACG-CCGTGTCCCTGGCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGA
** * * * * *
77736506 CCTGAACACACACCCGTGTCCCTGGCCGTGTGGTTCTTAAGTATAAATAATGAGTTACACGG
1 CCTGGGCACAC-GCCGTGTCCCTGGCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGA
* * * ** * *
77736568 CTTGGGCACATGCTCATGTCCCTGGTTGTATGGTTCTTAAGTACAAGCAGTGAGTTACAC-A
1 CCTGGGCACACGC-CGTGTCCCTGGCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGA
* *
77736629 GCTTGGGCACACGCTCGTGTCCCTAGCCGTGTG
1 -CCTGGGCACACGC-CGTGTCCCTGGCCGTGTG
77736662 AACCCTACAC
Statistics
Matches: 329, Mismatches: 68, Indels: 15
0.80 0.17 0.04
Matches are distributed among these distances:
61 2 0.01
62 308 0.94
63 19 0.06
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (61 bp):
CCTGGGCACACGCCGTGTCCCTGGCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGA
Found at i:77736453 original size:124 final size:124
Alignment explanation
Indices: 77736222--77736661 Score: 520
Period size: 124 Copynumber: 3.5 Consensus size: 124
77736212 GTGCCTTGGC
* * * * * *
77736222 CGTGTGGTTTTTAAGCACAAACAGCGAGTTACACGACCTGGGCACACGTCCGTGTCCCTGGCCGT
1 CGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGGCCTGGGCACACGCCCGTGTCCCTAGCCGT
** * * * **
77736287 GTAATTGTTAACTACAAACAGTGAGTTACACGGCCTAAGCACACGCTCGTATCCCTGGT
66 GTGGTTCTTAAGTACAAATAGTGAGTTACACGGCCTGGGCACACGCTCGTATCCCTGGT
* * * * *
77736346 CGTGTGGTTCTTAAGTACAAACTGTGAATTACACGGCCTGGGCATACGCCCGTGTCCTTAGCCAT
1 CGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGGCCTGGGCACACGCCCGTGTCCCTAGCCGT
* * *
77736411 GTGGTTCTTAAGTACAAATAGTGAGTTACACAGCCTGGGCACACGCCCGTATCCCTGGC
66 GTGGTTCTTAAGTACAAATAGTGAGTTACACGGCCTGGGCACACGCTCGTATCCCTGGT
* * * ** * *
77736470 CGTGTGGTTCTTAAGTACAAAAAGTGAGTTACAAGCCCTGAACACACACCCGTGTCCCTGGCCGT
1 CGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGGCCTGGGCACACGCCCGTGTCCCTAGCCGT
* * * * * *
77736535 GTGGTTCTTAAGTATAAATAATGAGTTACACGGCTTGGGCACATGCTCATGTCCCTGGT
66 GTGGTTCTTAAGTACAAATAGTGAGTTACACGGCCTGGGCACACGCTCGTATCCCTGGT
* * * * * *
77736594 TGTATGGTTCTTAAGTACAAGCAGTGAGTTACACAGCTTGGGCACACGCTCGTGTCCCTAGCCGT
1 CGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGGCCTGGGCACACGCCCGTGTCCCTAGCCGT
77736659 GTG
66 GTG
77736662 AACCCTACAC
Statistics
Matches: 261, Mismatches: 55, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
124 261 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.26
Consensus pattern (124 bp):
CGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGGCCTGGGCACACGCCCGTGTCCCTAGCCGT
GTGGTTCTTAAGTACAAATAGTGAGTTACACGGCCTGGGCACACGCTCGTATCCCTGGT
Found at i:77736538 original size:186 final size:186
Alignment explanation
Indices: 77736193--77736662 Score: 559
Period size: 186 Copynumber: 2.5 Consensus size: 186
77736183 CCTACCACAT
* * * *
77736193 GGCCTGGGCATACGTCCGTGTGCCTTGGCCGTGTGGTTTTTAAGCACAAACAGCGAGTTACAC-G
1 GGCCTGGGCATACGCCCGTGT-CCTTGGCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACAG
* * * * * *
77736257 ACCTGGGCACACGTCCGTGTCCCTGGCCGTGTAATTGTTAACTACAAACAGTGAGTTACACGGCC
65 -CCTGGGCACACGCCCGTGTCCCTGGCCGTGTGATTCTTAACTACAAAAAGTGAGTTACAAGCCC
* * * *
77736322 TAAGCACACGCTCGTATCCCTGGTCGTGTGGTTCTTAAGTACAAACT-GTGAATTACAC
129 TAAGCACACACCCGTATCCCTGGCCGTGTGGTTCTTAAGTACAAA-TAATGAATTACAC
* * *
77736380 GGCCTGGGCATACGCCCGTGTCCTTAGCCATGTGGTTCTTAAGTACAAATAGTGAGTTACACAGC
1 GGCCTGGGCATACGCCCGTGTCCTTGGCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACAGC
* * *
77736445 CTGGGCACACGCCCGTATCCCTGGCCGTGTGGTTCTTAAGTACAAAAAGTGAGTTACAAGCCCTG
66 CTGGGCACACGCCCGTGTCCCTGGCCGTGTGATTCTTAACTACAAAAAGTGAGTTACAAGCCCT-
* * *
77736510 AA-CACACACCCGTGTCCCTGGCCGTGTGGTTCTTAAGTATAAATAATGAGTTACAC
130 AAGCACACACCCGTATCCCTGGCCGTGTGGTTCTTAAGTACAAATAATGAATTACAC
* * * * * * ** * *
77736566 GGCTTGGGCACATGCTCATGTCCCTGGTTGTATGGTTCTTAAGTACAAGCAGTGAGTTACACAGC
1 GGCCTGGGCATACGCCCGTGTCCTTGGCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACAGC
* * *
77736631 TTGGGCACACGCTCGTGTCCCTAGCCGTGTGA
66 CTGGGCACACGCCCGTGTCCCTGGCCGTGTGA
77736663 ACCCTACACT
Statistics
Matches: 239, Mismatches: 41, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
185 1 0.00
186 215 0.90
187 23 0.10
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (186 bp):
GGCCTGGGCATACGCCCGTGTCCTTGGCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACAGC
CTGGGCACACGCCCGTGTCCCTGGCCGTGTGATTCTTAACTACAAAAAGTGAGTTACAAGCCCTA
AGCACACACCCGTATCCCTGGCCGTGTGGTTCTTAAGTACAAATAATGAATTACAC
Found at i:77738513 original size:160 final size:160
Alignment explanation
Indices: 77738276--77738567 Score: 383
Period size: 160 Copynumber: 1.8 Consensus size: 160
77738266 TCTAATTCAC
* * * *
77738276 CAATTAAACTTTTTGAGGGAGAAGCTTTTTTTATAAGCTTAAATTAAGAATTATTCCTTATATGA
1 CAATTAAAATTTTAGAGGAAGAAGCTTTTTTTAGAAGCTTAAATTAAGAATTATTCCTTATATGA
* * *
77738341 ATTACTTAATTTAACGAATTTCT-TAATCTCAGTCTTTGATTTGGATAACAAATTTTCAAACTTG
66 ATTACCTAATTTAACGAATTT-TGTAATCTCAGTCCTTGATTTGGACAACAAATTTTCAAACTTG
77738405 ATTTCCACCCCAATTACCCCCTGTAATTGAT
130 ATTTCCACCCCAATTACCCCCTGTAATTGAT
* * * * *
77738436 CAATTAAAATTTTAGAGGAAGAAG-TTTTTTTACGATGCTTCAAA-TAAGAATTCTTTCTTTTTT
1 CAATTAAAATTTTAGAGGAAGAAGCTTTTTTTA-GAAGCTT-AAATTAAGAATTATTCCTTATAT
* * * **
77738499 GAATTACCTAATTTAATGAATTTTGTAATCTTAGTCCTTGATTTGGACAATAGTTTTTCAAACTT
64 GAATTACCTAATTTAACGAATTTTGTAATCTCAGTCCTTGATTTGGACAACAAATTTTCAAACTT
77738564 GATT
129 GATT
77738568 CCCATCCTTA
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
159 9 0.08
160 100 0.89
161 3 0.03
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (160 bp):
CAATTAAAATTTTAGAGGAAGAAGCTTTTTTTAGAAGCTTAAATTAAGAATTATTCCTTATATGA
ATTACCTAATTTAACGAATTTTGTAATCTCAGTCCTTGATTTGGACAACAAATTTTCAAACTTGA
TTTCCACCCCAATTACCCCCTGTAATTGAT
Found at i:77743902 original size:36 final size:36
Alignment explanation
Indices: 77743861--77743930 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
77743851 GTTTTTTTTT
77743861 AAAAGGCGAAAAAGTTAAAATAAACACACAAACTGA
1 AAAAGGCGAAAAAGTTAAAATAAACACACAAACTGA
*
77743897 AAAAGGTGAAAAAGTTAAAATAAACACACAAACT
1 AAAAGGCGAAAAAGTTAAAATAAACACACAAACT
77743931 AACATAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (36 bp):
AAAAGGCGAAAAAGTTAAAATAAACACACAAACTGA
Found at i:77751099 original size:4 final size:4
Alignment explanation
Indices: 77751090--77751170 Score: 62
Period size: 4 Copynumber: 20.0 Consensus size: 4
77751080 TGTCTTTCTA
*
77751090 CTTT CTTT CTTT CCCTT -TTT C-TT -TTT CTTT CTTT C-TT CTTT CTGTTT
1 CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C--TTT
* *
77751137 CGTTT CGTTT CTAT CTTT CTTT CTTT ATTT CTTT
1 C-TTT C-TTT CTTT CTTT CTTT CTTT CTTT CTTT
77751171 TTATTAATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
3 9 0.14
4 38 0.59
5 13 0.20
6 4 0.06
ACGTcount: A:0.02, C:0.23, G:0.04, T:0.70
Consensus pattern (4 bp):
CTTT
Found at i:77751142 original size:22 final size:21
Alignment explanation
Indices: 77751082--77751169 Score: 74
Period size: 22 Copynumber: 4.0 Consensus size: 21
77751072 CCTAGCCTTG
77751082 TCTTTCTACTTTCTTTCTTTCCCT
1 TCTTTCT-CTTTCTTTCTTT--CT
*
77751106 T-TTTCTTTTTCTTTCTTTCT
1 TCTTTCTCTTTCTTTCTTTCT
*
77751126 TCTTTCTGTTTCGTTTCGTTTCT
1 TCTTTCTCTTTC-TTTC-TTTCT
*
77751149 ATC-TT-TCTTTCTTTATTTCT
1 -TCTTTCTCTTTCTTTCTTTCT
77751169 T
1 T
77751170 TTTATTAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
19 1 0.02
20 8 0.14
21 12 0.21
22 20 0.36
23 12 0.21
24 3 0.05
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.69
Consensus pattern (21 bp):
TCTTTCTCTTTCTTTCTTTCT
Found at i:77754046 original size:26 final size:26
Alignment explanation
Indices: 77754010--77754116 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
77754000 TGAAATTCCC
*
77754010 ATCAT-GAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
77754035 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
77754061 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
77754087 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77754113 ATCA
1 ATCA
77754117 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 5 0.07
26 71 0.93
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:77761184 original size:27 final size:27
Alignment explanation
Indices: 77761149--77761200 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
77761139 GCAGAAGGAT
*
77761149 CAACTCCTTTCAATCCTAAAAATTCAC
1 CAACGCCTTTCAATCCTAAAAATTCAC
*
77761176 CAACGCCTTTCAATCCTAAGAATTC
1 CAACGCCTTTCAATCCTAAAAATTC
77761201 TATTGCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.33, G:0.04, T:0.29
Consensus pattern (27 bp):
CAACGCCTTTCAATCCTAAAAATTCAC
Found at i:77763531 original size:4 final size:4
Alignment explanation
Indices: 77763522--77763612 Score: 64
Period size: 4 Copynumber: 22.0 Consensus size: 4
77763512 TGTCTTTCTA
*
77763522 CTTT CTTT CTTT CCCTT -TTT C-TT -TTT CTTT CTTT C-TT CTTT CTGTTT
1 CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C--TTT
* *
77763569 CGTTT CGTTT CGTTT CGTTT CTAT CTTT CTTT CTTT ATTT CTTT
1 C-TTT C-TTT C-TTT C-TTT CTTT CTTT CTTT CTTT CTTT CTTT
77763613 TTATTAATTA
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
3 9 0.12
4 38 0.51
5 23 0.31
6 4 0.05
ACGTcount: A:0.02, C:0.23, G:0.05, T:0.69
Consensus pattern (4 bp):
CTTT
Found at i:77763574 original size:22 final size:21
Alignment explanation
Indices: 77763514--77763604 Score: 67
Period size: 22 Copynumber: 3.9 Consensus size: 21
77763504 TCTAGCATTG
77763514 TCTTTCTACTTTCTTTCTTTCCCT
1 TCTTTCT-CTTTCTTTCTTT--CT
*
77763538 T-TTTCTTTTTCTTTCTTTCT
1 TCTTTCTCTTTCTTTCTTTCT
*
77763558 TCTTTCTGTTTCGTTTCGTTTCGTT
1 TCTTTCTCTTTC-TTTC-TTTC--T
77763583 TCGTTTCTATCTTTCTTTCTTT
1 TC-TTTC--TCTTTCTTTCTTT
77763605 ATTTCTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
20 3 0.05
21 9 0.16
22 15 0.27
23 9 0.16
24 1 0.02
25 3 0.05
26 7 0.12
27 4 0.07
28 5 0.09
ACGTcount: A:0.02, C:0.24, G:0.05, T:0.68
Consensus pattern (21 bp):
TCTTTCTCTTTCTTTCTTTCT
Found at i:77763575 original size:5 final size:5
Alignment explanation
Indices: 77763560--77763589 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
77763550 TTCTTTCTTC
77763560 TTTCTG TTTCG TTTCG TTTCG TTTCG TTTC
1 TTTC-G TTTCG TTTCG TTTCG TTTCG TTTC
77763590 TATCTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.00, C:0.20, G:0.17, T:0.63
Consensus pattern (5 bp):
TTTCG
Found at i:77768298 original size:9 final size:9
Alignment explanation
Indices: 77768283--77768311 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
77768273 GAAATTAGGG
77768283 ATTTTTTT-
1 ATTTTTTTA
77768291 ATTTTTTTA
1 ATTTTTTTA
77768300 ATTTTTTTA
1 ATTTTTTTA
77768309 ATT
1 ATT
77768312 GGATGTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:77769921 original size:42 final size:42
Alignment explanation
Indices: 77769771--77769924 Score: 190
Period size: 42 Copynumber: 3.7 Consensus size: 42
77769761 ATAAGTGCTA
* *
77769771 AACAGAAACCCATAAGGGTTGAAA--GAAAGCTCGTAAA-AGCTT
1 AACAGAAACCCATAAGGGTT-AAACTG-AAGCTC-AAAAGAGCTG
77769813 AACAGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTG
1 AACAGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTG
* *
77769855 AACAGAAACCTATAAGGGTTAAACT-ACAGCTTAAAAGAGCTG
1 AACAGAAACCCATAAGGGTTAAACTGA-AGCTCAAAAGAGCTG
* *
77769897 AACGGAAACCCATAAGGGCTAAACTGAA
1 AACAGAAACCCATAAGGGTTAAACTGAA
77769925 ATTCATATGA
Statistics
Matches: 100, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
41 7 0.07
42 91 0.91
43 2 0.02
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (42 bp):
AACAGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTG
Found at i:77772026 original size:31 final size:31
Alignment explanation
Indices: 77771975--77772040 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
77771965 TACTAAAAAT
*
77771975 AATAATAATATATCTTATTAAA-ATATTACTAA
1 AATAATAATATATCTAATTAAATA-ATTA-TAA
*
77772007 AATAAT-ATTTATCTAATTAAATAATTATAA
1 AATAATAATATATCTAATTAAATAATTATAA
77772037 AATA
1 AATA
77772041 TCACCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 7 0.23
31 17 0.55
32 7 0.23
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (31 bp):
AATAATAATATATCTAATTAAATAATTATAA
Found at i:77773126 original size:14 final size:14
Alignment explanation
Indices: 77773107--77773133 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77773097 TTTGATTTTT
77773107 ATTAGATTAAAACC
1 ATTAGATTAAAACC
77773121 ATTAGATTAAAAC
1 ATTAGATTAAAAC
77773134 TGCTCTCTAT
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:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (14 bp):
ATTAGATTAAAACC
Found at i:77773560 original size:81 final size:82
Alignment explanation
Indices: 77773377--77773583 Score: 328
Period size: 82 Copynumber: 2.5 Consensus size: 82
77773367 GGTATACATC
**
77773377 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGTAGT
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAAAAGT
**
77773442 AAGATGTTAACTGACCA
66 AAGATGTTAACAAACCA
* * *
77773459 TTTTAACAAATCATTTCAAAAAACAAACAAAATATGTTATGCTAACGAAATGATCCTATAAAAGT
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAAAAGT
77773524 AAGATGTTAA-AAACCA
66 AAGATGTTAACAAACCA
77773540 TTTCAACAAATCATTTCAAAAAAACAAACAAAATATGTTA-ACTA
1 TTTCAACAAATCATTTC-AAAAAACAAACAAAATATGTTATACTA
77773584 GCTTAATTCA
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
81 23 0.20
82 92 0.80
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (82 bp):
TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAAAAGT
AAGATGTTAACAAACCA
Found at i:77778733 original size:18 final size:18
Alignment explanation
Indices: 77778712--77778747 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
77778702 TCAGCAACCT
*
77778712 CACCACCTTCACCCTCAC
1 CACCACCCTCACCCTCAC
77778730 CACCACCCTCACCCTCAC
1 CACCACCCTCACCCTCAC
77778748 TCTCGCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.64, G:0.00, T:0.14
Consensus pattern (18 bp):
CACCACCCTCACCCTCAC
Found at i:77778888 original size:17 final size:17
Alignment explanation
Indices: 77778866--77778900 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
77778856 TAGCAGTGTC
77778866 AATCTCATACCCTACAT
1 AATCTCATACCCTACAT
77778883 AATCTCATACCCTACAT
1 AATCTCATACCCTACAT
77778900 A
1 A
77778901 TGAGTCTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (17 bp):
AATCTCATACCCTACAT
Found at i:77781247 original size:10 final size:9
Alignment explanation
Indices: 77781217--77781253 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
77781207 CTAGTTAGTG
77781217 TTTAACTTGT
1 TTTAA-TTGT
*
77781227 TTTAATTTT
1 TTTAATTGT
77781236 TTTAATTGT
1 TTTAATTGT
77781245 TTTAATTGT
1 TTTAATTGT
77781254 GAGTAAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.68
Consensus pattern (9 bp):
TTTAATTGT
Found at i:77782717 original size:7 final size:6
Alignment explanation
Indices: 77782702--77782735 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
77782692 TAGGTTTCCA
* *
77782702 AAAATG AAAATG GAAATG AAAGTG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
77782736 CTTGCAATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:77783201 original size:30 final size:30
Alignment explanation
Indices: 77783165--77783227 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
77783155 ACTTAACAAG
77783165 CAAATGTCCCTAAAATAATAACAAAATTAA
1 CAAATGTCCCTAAAATAATAACAAAATTAA
** *
77783195 CAAATGTCTTTAAAGTAATAACAAAATTAA
1 CAAATGTCCCTAAAATAATAACAAAATTAA
77783225 CAA
1 CAA
77783228 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGTCCCTAAAATAATAACAAAATTAA
Found at i:77783618 original size:26 final size:25
Alignment explanation
Indices: 77783566--77783628 Score: 90
Period size: 26 Copynumber: 2.5 Consensus size: 25
77783556 ACAAATTTTC
*
77783566 TCAAAATTTTACCGCGGTAAAATTG
1 TCAAAATTTTATCGCGGTAAAATTG
*
77783591 TCAAAATTTTATCGGGAGTAAAATTG
1 TCAAAATTTTATCGCG-GTAAAATTG
*
77783617 TCAAAACTTTAT
1 TCAAAATTTTAT
77783629 TGAGATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (25 bp):
TCAAAATTTTATCGCGGTAAAATTG
Found at i:77786986 original size:21 final size:22
Alignment explanation
Indices: 77786962--77787006 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
77786952 ATAAAAAATC
*
77786962 ATTTT-TATAAAATAATATTTT
1 ATTTTCTAAAAAATAATATTTT
77786983 ATTTTCCCTAAAAAATAATATTTT
1 ATTTT--CTAAAAAATAATATTTT
77787007 TTTAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
24 15 0.75
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTTCTAAAAAATAATATTTT
Found at i:77788781 original size:53 final size:53
Alignment explanation
Indices: 77788640--77788805 Score: 212
Period size: 53 Copynumber: 3.1 Consensus size: 53
77788630 GACGAAAAAT
* * **
77788640 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTAGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
77788692 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
77788745 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
77788799 TATGTGA
1 -ATGTGA
77788806 ACCGTGTAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 80 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Done.