Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 25 of 213
Found at i:6622633 original size:394 final size:394
Alignment explanation
Indices: 6621900--6622693 Score: 1579
Period size: 394 Copynumber: 2.0 Consensus size: 394
6621890 TCAACAGCAT
*
6621900 AACAATTTTCTTGATGACTGATTGATCTATGTCCCTATCAAGAGAGATTCAAATGAGAACATTCA
1 AACAGTTTTCTTGATGACTGATTGATCTATGTCCCTATCAAGAGAGATTCAAATGAGAACATTCA
6621965 AATATCAACCGACTAGTAATCAAGAAATAACCAACAATGGTTTCGGAACATTATTTCCAGTGGCA
66 AATATCAACCGACTAGTAATCAAGAAATAACCAACAATGGTTTCGGAACATTATTTCCAGTGGCA
6622030 AATGTGATTGTGATTGTAAGCTCTGAACAGGGAACTAAAAGCAATGCCAAACCATGTTTAATTGC
131 AATGTGATTGTGATTGTAAGCTCTGAACAGGGAACTAAAAGCAATGCCAAACCATGTTTAATTGC
6622095 AATGGCAAATGAAAATGCCAAACTTAGCCATATCTGTAAGTTTCATTATGATGTGTTCTACAATT
196 AATGGCAAATGAAAATGCCAAACTTAGCCATATCTGTAAGTTTCATTATGATGTGTTCTACAATT
6622160 TTATACCTTTACCTCTAATTTCTCAACTAAACAGCAAGTCTTTTACATGTAAAATTAAAAGCTAT
261 TTATACCTTTACCTCTAATTTCTCAACTAAACAGCAAGTCTTTTACATGTAAAATTAAAAGCTAT
6622225 GGTAATTTTAAAAAAGAAATGTGCTTTATTTGATAATAAAACATCTTTATTTTACAGAATACTGA
326 GGTAATTTTAAAAAAGAAATGTGCTTTATTTGATAATAAAACATCTTTATTTTACAGAATACTGA
6622290 TAAA
391 TAAA
6622294 AACAGTTTTCTTGATGACTGATTGATCTATGTCCCTATCAAGAGAGATTCAAATGAGAACATTCA
1 AACAGTTTTCTTGATGACTGATTGATCTATGTCCCTATCAAGAGAGATTCAAATGAGAACATTCA
6622359 AATATCAACCGACTAGTAATCAAGAAATAACCAACAATGGTTTCGGAACATTATTTCCAGTGGCA
66 AATATCAACCGACTAGTAATCAAGAAATAACCAACAATGGTTTCGGAACATTATTTCCAGTGGCA
6622424 AATGTGATTGTGATTGTAAGCTCTGAACAGGGAACTAAAAGCAATGCCAAACCATGTTTAATTGC
131 AATGTGATTGTGATTGTAAGCTCTGAACAGGGAACTAAAAGCAATGCCAAACCATGTTTAATTGC
6622489 AATGGCAAATGAAAATGCCAAACTTAGCCATATCTGTAAGTTTCATTATGATGTGTTCTACAATT
196 AATGGCAAATGAAAATGCCAAACTTAGCCATATCTGTAAGTTTCATTATGATGTGTTCTACAATT
6622554 TTATACCTTTACCTCTAATTTCTCAACTAAACAGCAAGTCTTTTACATGTAAAATTAAAAGCTAT
261 TTATACCTTTACCTCTAATTTCTCAACTAAACAGCAAGTCTTTTACATGTAAAATTAAAAGCTAT
6622619 GGTAATTTTAAAAAAGAAATGTGCTTTATTTGATAATAAAACATCTTTATTTTACAGAATACTGA
326 GGTAATTTTAAAAAAGAAATGTGCTTTATTTGATAATAAAACATCTTTATTTTACAGAATACTGA
6622684 TAAA
391 TAAA
6622688 AACAGT
1 AACAGT
6622694 ACAACACAAA
Statistics
Matches: 399, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
394 399 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (394 bp):
AACAGTTTTCTTGATGACTGATTGATCTATGTCCCTATCAAGAGAGATTCAAATGAGAACATTCA
AATATCAACCGACTAGTAATCAAGAAATAACCAACAATGGTTTCGGAACATTATTTCCAGTGGCA
AATGTGATTGTGATTGTAAGCTCTGAACAGGGAACTAAAAGCAATGCCAAACCATGTTTAATTGC
AATGGCAAATGAAAATGCCAAACTTAGCCATATCTGTAAGTTTCATTATGATGTGTTCTACAATT
TTATACCTTTACCTCTAATTTCTCAACTAAACAGCAAGTCTTTTACATGTAAAATTAAAAGCTAT
GGTAATTTTAAAAAAGAAATGTGCTTTATTTGATAATAAAACATCTTTATTTTACAGAATACTGA
TAAA
Found at i:6631510 original size:28 final size:29
Alignment explanation
Indices: 6631471--6631533 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
6631461 AATAAACACC
*
6631471 AAAAAATTATTTTAAAAATAA-AAAAATA
1 AAAAAAGTATTTTAAAAATAATAAAAATA
*
6631499 AAAAAAGTATTTTAAAAATAATTAAAAATT
1 AAAAAAGTATTTTAAAAATAA-TAAAAATA
6631529 AAAAA
1 AAAAA
6631534 TAAAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 20 0.65
30 11 0.35
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (29 bp):
AAAAAAGTATTTTAAAAATAATAAAAATA
Found at i:6636814 original size:21 final size:21
Alignment explanation
Indices: 6636775--6636814 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6636765 TGAGTCGAGG
*
6636775 ATTTAATATTTAAGGTTTACA
1 ATTTAATATTTAAAGTTTACA
* *
6636796 ATTTAATGTTTAAATTTTA
1 ATTTAATATTTAAAGTTTA
6636815 GATTTCAGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (21 bp):
ATTTAATATTTAAAGTTTACA
Found at i:6638933 original size:18 final size:18
Alignment explanation
Indices: 6638899--6638933 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6638889 CGAAAATGGT
* *
6638899 ATAAAATTTTAAAAAAAC
1 ATAAAAGTTAAAAAAAAC
6638917 ATAAAAGTTAAAAAAAA
1 ATAAAAGTTAAAAAAAA
6638934 AAGTTGGGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
ATAAAAGTTAAAAAAAAC
Found at i:6639028 original size:10 final size:10
Alignment explanation
Indices: 6639013--6639089 Score: 70
Period size: 10 Copynumber: 7.7 Consensus size: 10
6639003 GCTGAAGGAG
6639013 AGGAAAGAAA
1 AGGAAAGAAA
*
6639023 AGGAAAGGAGA
1 AGGAAA-GAAA
6639034 A-GAAAGAAA
1 AGGAAAGAAA
*
6639043 AAGAAAGAAGA
1 AGGAAAGAA-A
*
6639054 A-GAAAGGAA
1 AGGAAAGAAA
*
6639063 AGGAAAGGAGA
1 AGGAAA-GAAA
6639074 A-GAAAGAAA
1 AGGAAAGAAA
6639083 AGGAAAG
1 AGGAAAG
6639090 GAGAAGAGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
9 10 0.18
10 36 0.65
11 9 0.16
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (10 bp):
AGGAAAGAAA
Found at i:6639032 original size:20 final size:20
Alignment explanation
Indices: 6639007--6639096 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
6638997 CATTTGGCTG
*
6639007 AAGGAGAGGAAAGAAAAGGA
1 AAGGAGAAGAAAGAAAAGGA
*
6639027 AAGGAGAAGAAAGAAAAAGA
1 AAGGAGAAGAAAGAAAAGGA
* *
6639047 AAGAAGAAGAAAGGAAAGGA
1 AAGGAGAAGAAAGAAAAGGA
6639067 AAGGAGAAGAAAGAAAAGGA
1 AAGGAGAAGAAAGAAAAGGA
6639087 AAGGAGAAGA
1 AAGGAGAAGA
6639097 GGGAGGGAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (20 bp):
AAGGAGAAGAAAGAAAAGGA
Found at i:6639677 original size:130 final size:131
Alignment explanation
Indices: 6639525--6639794 Score: 445
Period size: 130 Copynumber: 2.1 Consensus size: 131
6639515 TAAAAAATAC
* *
6639525 ACTAAATTAATACATTTTAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATACGAAAATAA
*
6639590 TATATATATTTGAAAGTAATAAAATCC-GAAAAAAATACGAACAAATGGCTGAAATAAGAG-TTT
66 TATAT-TATTTGAAAGAAATAAAATCCGGAAAAAAATACGAACAAATGGCTGAAATAAGAGTTTT
6639653 TT
130 TT
*
6639655 ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATATGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATACGAAAATAA
* * *
6639720 TATATTTTTTGAAAGAAATAAAATCCGGGGAAAAAATACGAACAAATGGCTGAAATAAGGGTTTT
66 TATATTATTTGAAAGAAATAAAATCC-GGAAAAAAATACGAACAAATGGCTGAAATAAGAGTTTT
6639785 TT
130 TT
6639787 ACTAAATT
1 ACTAAATT
6639795 TAATTAAAAA
Statistics
Matches: 130, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
129 19 0.15
130 67 0.52
131 31 0.24
132 13 0.10
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.30
Consensus pattern (131 bp):
ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATACGAAAATAA
TATATTATTTGAAAGAAATAAAATCCGGAAAAAAATACGAACAAATGGCTGAAATAAGAGTTTTT
T
Found at i:6639842 original size:155 final size:154
Alignment explanation
Indices: 6639657--6640104 Score: 661
Period size: 155 Copynumber: 2.9 Consensus size: 154
6639647 GAGTTTTTAC
* *
6639657 TAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATATGAAAATAATA
1 TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
*
6639722 TATTTTTTGAAAGAAATAAAATCCGGGGAAAAAATACGAACAAATGGCTGAAATAAGGGTTTTTT
66 TATTTTTTGAAAGAAATAAAATCCGGGAAAAAAATACGAACAAATGGCTGAAATAAGGGTTTTTT
*
6639787 ACTAAATTTAATTAAAAAATTACAG
131 ACTAAATTTAATTAAAAAA-CACAG
*
6639812 TAAATTAATACATTTCAAGCATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
1 TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
** * **
6639877 TATTTTTATTGAAAGAAATAAAATCCAAGAAAAAAATACGAACAAAGGGCCAAAATAAGGGTTTT
66 TA-TTTT-TTGAAAGAAATAAAATCCGGGAAAAAAATACGAACAAATGGCTGAAATAAGGGTTTT
* *
6639942 TT--TAAAATTTATTTAAAAAACATAG
129 TTACT-AAATTTAATTAAAAAACACAG
* *
6639967 TAAATTAATACATTTTAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATA
1 TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
* * * *
6640032 TATTTTTT-AAAGTAATAAAATCTGGGAAAAAAATATGAATAAATGG-TCGAAATAAGGGTTTTT
66 TATTTTTTGAAAGAAATAAAATCCGGGAAAAAAATACGAACAAATGGCT-GAAATAAGGGTTTTT
6640095 TACTAAATTT
130 TACTAAATTT
6640105 GTTTTGAAGT
Statistics
Matches: 263, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
152 46 0.17
153 8 0.03
154 5 0.02
155 132 0.50
156 19 0.07
157 53 0.20
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (154 bp):
TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
TATTTTTTGAAAGAAATAAAATCCGGGAAAAAAATACGAACAAATGGCTGAAATAAGGGTTTTTT
ACTAAATTTAATTAAAAAACACAG
Found at i:6645426 original size:23 final size:23
Alignment explanation
Indices: 6645381--6645427 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6645371 TAAAAATAAT
*
6645381 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
6645404 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
6645427 A
1 A
6645428 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:6645764 original size:3 final size:3
Alignment explanation
Indices: 6645758--6645794 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
6645748 TTGGCACCAC
*
6645758 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTC CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
6645795 AGCTGGACTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:6647735 original size:42 final size:42
Alignment explanation
Indices: 6647665--6647745 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
6647655 CGTGTCCTTG
*
6647665 CCCGTGTAACTCACTGACTTGAAACACACGACCGTGTCCCAA
1 CCCGTGTAACTCACTGACTTGAAACACACGACCATGTCCCAA
* * *** *
6647707 CCCGTGTAATTCTCTGACTTGGGTCACACGGCCATGTCC
1 CCCGTGTAACTCACTGACTTGAAACACACGACCATGTCC
6647746 TACGTCATGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.23
Consensus pattern (42 bp):
CCCGTGTAACTCACTGACTTGAAACACACGACCATGTCCCAA
Found at i:6651344 original size:2 final size:2
Alignment explanation
Indices: 6651339--6651363 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6651329 TATTTTATGC
6651339 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6651364 AACTGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6659089 original size:25 final size:25
Alignment explanation
Indices: 6659060--6659109 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6659050 ATGTTTATAC
6659060 ATTATGATGAACACGAGATTTCCAT
1 ATTATGATGAACACGAGATTTCCAT
6659085 ATTATGATGAACACGAGATTTCCAT
1 ATTATGATGAACACGAGATTTCCAT
6659110 GCAAGGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (25 bp):
ATTATGATGAACACGAGATTTCCAT
Found at i:6659548 original size:30 final size:31
Alignment explanation
Indices: 6659514--6659576 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
6659504 ACTTATTTTA
*
6659514 TTGTTAA-TTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTTGTTATTATTTTAAAGACAT
*
6659544 TTGTTAATTTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTTGTTATTATTTTAAAGACAT
6659575 TT
1 TT
6659577 TCTTTTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTTGTTATTATTTTAAAGACAT
Found at i:6660222 original size:27 final size:27
Alignment explanation
Indices: 6660192--6660250 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
6660182 TTAAACCTCG
*
6660192 AACTTCGAATCTTGAAC-CCAAACCTTA
1 AACTTCGAA-CTTGAACTCCAAACCCTA
*
6660219 AACTTCGAACTTGAACTCTAAACCCTA
1 AACTTCGAACTTGAACTCCAAACCCTA
6660246 AACTT
1 AACTT
6660251 TAAATTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (27 bp):
AACTTCGAACTTGAACTCCAAACCCTA
Found at i:6660254 original size:34 final size:33
Alignment explanation
Indices: 6660167--6660289 Score: 108
Period size: 34 Copynumber: 3.6 Consensus size: 33
6660157 TACATTTAAT
* * *
6660167 TCTAAATCTTAAACCTTAAACCTCGAACTTCGAA
1 TCTAAACCCTAAACCTTAAACTTCGAACTT-GAA
*
6660201 TCTTGAACCC-AAACCTTAAACTTCGAACTTGAA
1 TC-TAAACCCTAAACCTTAAACTTCGAACTTGAA
* *
6660234 CTCTAAACCCTAAACTTTAAA-TTCTAAACTTGAA
1 -TCTAAACCCTAAACCTTAAACTTC-GAACTTGAA
*
6660268 TCTCAAA-TCTAAAACCTTAAAC
1 TCT-AAACCCT-AAACCTTAAAC
6660290 CCCAAACCGA
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
33 17 0.23
34 52 0.71
35 4 0.05
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.29
Consensus pattern (33 bp):
TCTAAACCCTAAACCTTAAACTTCGAACTTGAA
Found at i:6661365 original size:3 final size:3
Alignment explanation
Indices: 6661357--6661391 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6661347 CTTGAACTAA
6661357 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6661392 AATCTTGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6661528 original size:3 final size:3
Alignment explanation
Indices: 6661520--6661549 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6661510 TATAAAGGTT
6661520 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6661550 GAGTTTTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6663646 original size:5 final size:6
Alignment explanation
Indices: 6663617--6663644 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6663607 CACAGGGTGT
6663617 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
6663645 GAGATAAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6666128 original size:18 final size:18
Alignment explanation
Indices: 6666107--6666147 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6666097 TATAACTCCT
*
6666107 TTTAAAATTTAATCATAA
1 TTTAAAATTTAATAATAA
* *
6666125 TTTAGAATTTAATAATAT
1 TTTAAAATTTAATAATAA
6666143 TTTAA
1 TTTAA
6666148 TTCATCCAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTAAAATTTAATAATAA
Found at i:6666467 original size:21 final size:21
Alignment explanation
Indices: 6666441--6666490 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
6666431 CGCTATTGAA
* *
6666441 GAAGACGATGAAGATGAAGAC
1 GAAGACGAAGAAGACGAAGAC
*
6666462 GAAGACGAAGAAGACGAAGAT
1 GAAGACGAAGAAGACGAAGAC
*
6666483 GAAAACGA
1 GAAGACGA
6666491 CGACGTCTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.32, T:0.06
Consensus pattern (21 bp):
GAAGACGAAGAAGACGAAGAC
Found at i:6666475 original size:33 final size:33
Alignment explanation
Indices: 6666412--6666485 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
6666402 GGTGAAGATT
* * * *
6666412 ACGATGACGATGAAGACGACGCTATTGAAGAAG
1 ACGATGAAGATGAAGACGAAGCGATAGAAGAAG
*
6666445 ACGATGAAGATGAAGACGAAGACGA-AGAAGACG
1 ACGATGAAGATGAAGACGAAG-CGATAGAAGAAG
*
6666478 AAGATGAA
1 ACGATGAA
6666486 AACGACGACG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 32 0.94
34 2 0.06
ACGTcount: A:0.46, C:0.12, G:0.31, T:0.11
Consensus pattern (33 bp):
ACGATGAAGATGAAGACGAAGCGATAGAAGAAG
Found at i:6666493 original size:15 final size:15
Alignment explanation
Indices: 6666438--6666481 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
6666428 CGACGCTATT
* *
6666438 GAAGAAGACGATGAA
1 GAAGAAGACGAAGAC
*
6666453 GATGAAGACGAAGAC
1 GAAGAAGACGAAGAC
6666468 GAAGAAGACGAAGA
1 GAAGAAGACGAAGA
6666482 TGAAAACGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.52, C:0.09, G:0.34, T:0.05
Consensus pattern (15 bp):
GAAGAAGACGAAGAC
Found at i:6668898 original size:28 final size:28
Alignment explanation
Indices: 6668858--6668912 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
6668848 AGCATTAATG
6668858 GTGCAATTGACTGCTAGATGGAAGTTTA
1 GTGCAATTGACTGCTAGATGGAAGTTTA
*
6668886 GTGCAATTGACTGCTGGATGGAAGTTT
1 GTGCAATTGACTGCTAGATGGAAGTTT
6668913 TGGTATTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.31, T:0.33
Consensus pattern (28 bp):
GTGCAATTGACTGCTAGATGGAAGTTTA
Found at i:6681087 original size:12 final size:13
Alignment explanation
Indices: 6681062--6681094 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
6681052 CAGCTCTCAT
6681062 ATAAGAAGAGAAA
1 ATAAGAAGAGAAA
6681075 ATAAGAA-AGAAA
1 ATAAGAAGAGAAA
6681087 ATAA-AAGA
1 ATAAGAAGA
6681095 AACTTGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 10 0.53
13 7 0.37
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (13 bp):
ATAAGAAGAGAAA
Found at i:6684950 original size:12 final size:12
Alignment explanation
Indices: 6684933--6684964 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
6684923 ATTATATTTT
6684933 TAAAAAATGATA
1 TAAAAAATGATA
6684945 TAAAAAATGATA
1 TAAAAAATGATA
6684957 TAAAAAAT
1 TAAAAAAT
6684965 TAATACGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (12 bp):
TAAAAAATGATA
Found at i:6706372 original size:25 final size:25
Alignment explanation
Indices: 6706325--6706372 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
6706315 TACACTAATA
* *
6706325 AGAGTTTAAGTGTGAAACTAAAAAT
1 AGAGTTTAAGTGGGAAACGAAAAAT
6706350 AGAGTTTAAGTGGGAGAA-GAAAA
1 AGAGTTTAAGTGGGA-AACGAAAA
6706373 GCCAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.27, T:0.23
Consensus pattern (25 bp):
AGAGTTTAAGTGGGAAACGAAAAAT
Found at i:6709094 original size:25 final size:24
Alignment explanation
Indices: 6709058--6709114 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
6709048 AAATTTCAGA
6709058 ATTTATAATTTTTATAAACT-TATAT
1 ATTT-TAATTTTT-TAAACTATATAT
* *
6709083 ATTTTAATTTTTTTAGATTATATAT
1 ATTTTAA-TTTTTTAAACTATATAT
6709108 ATTTTAA
1 ATTTTAA
6709115 ATCTCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTAATTTTTTAAACTATATAT
Found at i:6713105 original size:402 final size:400
Alignment explanation
Indices: 6712318--6713123 Score: 1344
Period size: 402 Copynumber: 2.0 Consensus size: 400
6712308 TTAGGGACTA
* * ** *
6712318 AATTGATCAAATCCTAAAATTTCTGGGTAAAACCATAAAATCTAAAAAAAGGGACATGTAGTCAT
1 AATTGATCAAATCCTAAAATTTCTCGGAAAAACCATAAAATCTAAAAAAAGGGACACATAGTAAT
* * *
6712383 GTGATTGGACCGTGTGGAAAGCTCTAGACTGTGTGGAAGGGATACATGGCCATGTCACAAACTGT
66 GTGATTGGACCGTGTAGAAAGCTCTAGACTGTGTAGAAGGGATACACGGCCATGTCACAAACTGT
6712448 GGCCATATGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACCTA
131 GGCCATATGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACCTA
6712513 GGGTTTCAAGGGACATGGATGTGTAATGGGTTGTGTGGTCCACACGCCTACGTGGAAGATCGTGT
196 GGGTTTCAAGGGACATGGATGTGTAATGGGTTGTGTGGTCCACACGCCTACGTGGAAGATCGTGT
* * * *
6712578 GGCCCTATCTTAGGCATAGTTTTACCTCGATTCACTTGTAAAAGAACACACACCTGTCATTGGGA
261 GACCCTATCCTAGACATAGTTTTACCTCGATTCACTTGTAAAAGAACACACACCTGTCAGTGGGA
* *
6712643 TCTCCAGCGACGTTCCTCACGTTAAAATCTGGTCTGAGGTACCTAAACGGGTCATTCAAACGACA
326 TCTCCAGCGACGTTCCTCACATTAAAATCTGGTCTGAGGTACCTAAACGGGTCATTCAAACAACA
*
6712708 TTTACTCAAT
391 TTTACGCAAT
* **
6712718 AATTGATCAAATCCTAAAATTTTTCGGAAAAACTGTAAAATCTAAAAAAAAGGGACACATAGTAA
1 AATTGATCAAATCCTAAAATTTCTCGGAAAAACCATAAAATCT-AAAAAAAGGGACACATAGTAA
*
6712783 TGTGATTGGACCGTGTAGAAAGC-CTTAGATTGTGTAGAAGGGATACACGGCCATGTCACAAACT
65 TGTGATTGGACCGTGTAGAAAGCTC-TAGACTGTGTAGAAGGGATACACGGCCATGTCACAAACT
* *
6712847 GTGGTCATGTGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACC
129 GTGGCCATATGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACC
* * *
6712912 TAGGGTTTCAAGGGGACATGGATGTGTGATGGGTTGTGTGGTCCACATGCCTATGTGGAAGATCG
194 TAGGGTTTCAA-GGGACATGGATGTGTAATGGGTTGTGTGGTCCACACGCCTACGTGGAAGATCG
6712977 TGTGACCCTATCCTAGACATAGTTTTACCTCGATTCACTTGTAAAAGAACACACACCTGTCAGTG
258 TGTGACCCTATCCTAGACATAGTTTTACCTCGATTCACTTGTAAAAGAACACACACCTGTCAGTG
* *
6713042 GGATCTCCAGCGACGTTCCTCACATTCAAATCTGGTCTGAGGTACCTAAACGGGTCTTTCAAACA
323 GGATCTCCAGCGACGTTCCTCACATTAAAATCTGGTCTGAGGTACCTAAACGGGTCATTCAAACA
6713107 ACATTTACGCAAT
388 ACATTTACGCAAT
6713120 AATT
1 AATT
6713124 AATAACGAAT
Statistics
Matches: 377, Mismatches: 26, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
400 39 0.10
401 150 0.40
402 188 0.50
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (400 bp):
AATTGATCAAATCCTAAAATTTCTCGGAAAAACCATAAAATCTAAAAAAAGGGACACATAGTAAT
GTGATTGGACCGTGTAGAAAGCTCTAGACTGTGTAGAAGGGATACACGGCCATGTCACAAACTGT
GGCCATATGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACCTA
GGGTTTCAAGGGACATGGATGTGTAATGGGTTGTGTGGTCCACACGCCTACGTGGAAGATCGTGT
GACCCTATCCTAGACATAGTTTTACCTCGATTCACTTGTAAAAGAACACACACCTGTCAGTGGGA
TCTCCAGCGACGTTCCTCACATTAAAATCTGGTCTGAGGTACCTAAACGGGTCATTCAAACAACA
TTTACGCAAT
Found at i:6714989 original size:17 final size:17
Alignment explanation
Indices: 6714962--6714994 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6714952 ACTTACATTA
6714962 AAATCCTAATTTGTCTAC
1 AAATCCTAATTT-TCTAC
6714980 AAAT-CTAATTTTCTA
1 AAATCCTAATTTTCTA
6714995 GAGATTAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (17 bp):
AAATCCTAATTTTCTAC
Found at i:6720238 original size:18 final size:19
Alignment explanation
Indices: 6720215--6720250 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6720205 CCCAACAATA
6720215 TCTTCTGCTTTTT-TTTTT
1 TCTTCTGCTTTTTGTTTTT
*
6720233 TCTTCTTCTTTTTGTTTT
1 TCTTCTGCTTTTTGTTTT
6720251 GCTCTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (19 bp):
TCTTCTGCTTTTTGTTTTT
Found at i:6738210 original size:31 final size:31
Alignment explanation
Indices: 6738170--6738252 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
6738160 TTAACGACCA
* * *
6738170 AGTGCCTTAAATAAAAACTTTAGAGTGGTTT
1 AGTGACTTAAATAAAAACTTTAGAATAGTTT
*
6738201 AGTGACTTAAATAAAAACTTTTGAATAGTTT
1 AGTGACTTAAATAAAAACTTTAGAATAGTTT
* * *
6738232 AATGACTTAAATGAAACCTTT
1 AGTGACTTAAATAAAAACTTT
6738253 CGTATAATTC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTAGAATAGTTT
Found at i:6739073 original size:37 final size:37
Alignment explanation
Indices: 6739004--6739160 Score: 190
Period size: 37 Copynumber: 4.0 Consensus size: 37
6738994 TACGTATGAT
* *
6739004 CACTTATCAC-TTGTCCCTTGATCAGATGAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
6739040 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
6739077 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
6739120 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
6739160 C
1 C
6739161 GAAGCTATAA
Statistics
Matches: 106, Mismatches: 5, Indels: 19
0.82 0.04 0.15
Matches are distributed among these distances:
36 10 0.09
37 53 0.50
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 30 0.28
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:6739130 original size:46 final size:46
Alignment explanation
Indices: 6739077--6739293 Score: 263
Period size: 46 Copynumber: 4.6 Consensus size: 46
6739067 TAAGTGTAGC
* * *
6739077 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* *
6739123 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* * *
6739169 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* * * *
6739215 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
*
6739267 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
6739294 AGTACTCAAA
Statistics
Matches: 151, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
46 110 0.73
48 1 0.01
50 1 0.01
52 39 0.26
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
Found at i:6748347 original size:63 final size:64
Alignment explanation
Indices: 6748269--6748395 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 64
6748259 AAATGTTAGC
* *
6748269 ATATAATTAGCTCCACCTTTCGAAGGCACTTTGGATGA-CCCCACAGATCAGAATGAATATACT
1 ATATAACTAGCTCCACCTCTCGAAGGCACTTTGGATGACCCCCACAGATCAGAATGAATATACT
* *
6748332 ATATAACTAGCTCCACCTCTCGAATGCATTTTGGATGACCCCCACAGATCAGAATGAATATACT
1 ATATAACTAGCTCCACCTCTCGAAGGCACTTTGGATGACCCCCACAGATCAGAATGAATATACT
6748396 TTAACATTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
63 34 0.58
64 25 0.42
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (64 bp):
ATATAACTAGCTCCACCTCTCGAAGGCACTTTGGATGACCCCCACAGATCAGAATGAATATACT
Found at i:6750450 original size:13 final size:13
Alignment explanation
Indices: 6750422--6750467 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
6750412 TTCCTTAATC
6750422 TTTA-TTTATTAT
1 TTTATTTTATTAT
6750434 TTTATTTTAGTTA-
1 TTTATTTTA-TTAT
*
6750447 TTTATTTTAATTTT
1 TTTATTTT-ATTAT
6750461 TTTATTT
1 TTTATTT
6750468 GACTTGGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 4 0.14
13 14 0.48
14 11 0.38
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:6750465 original size:18 final size:19
Alignment explanation
Indices: 6750416--6750467 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
6750406 ATTCGCTTCC
6750416 TTAATCTTTATTTA-TTATT
1 TTAAT-TTTATTTATTTATT
*
6750435 TT-ATTTTAGTTATTTATT
1 TTAATTTTATTTATTTATT
6750453 TTAATTTT-TTTATTT
1 TTAATTTTATTTATTT
6750468 GACTTGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 7 0.24
18 15 0.52
19 7 0.24
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTAATTTTATTTATTTATT
Found at i:6752981 original size:3 final size:3
Alignment explanation
Indices: 6752973--6753003 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6752963 TAGTTTACTC
6752973 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6753004 AAGCTTGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6756802 original size:24 final size:24
Alignment explanation
Indices: 6756775--6756826 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6756765 AATCAAAGTC
* *
6756775 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
6756799 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
6756823 AAAT
1 AAAT
6756827 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:6762554 original size:3 final size:3
Alignment explanation
Indices: 6762548--6762576 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6762538 GTGGTTATCT
6762548 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6762577 TATTTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6763381 original size:106 final size:105
Alignment explanation
Indices: 6763168--6763470 Score: 408
Period size: 106 Copynumber: 2.8 Consensus size: 105
6763158 TTTCTAATTG
* * * *
6763168 AGGCAATATTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCT
* * *** **
6763233 CGTTTAACCAAATGACTTAATATCCTTTTAATTTTTTTAAAATA
63 CGTTTAACCAAATG-CTAAATATCCTTTCAAAAATTACAAAATA
*
6763277 AGGCAATGTTTTGTGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
*
6763342 TCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
66 TTAACCAAAT-GCTAAATATCCTTTCAAAAATTACAAAATA
* *
6763383 AGGTAATGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
*
6763448 TTAACCAAATTGCCAAATATCCT
66 TTAACCAAA-TGCTAAATATCCT
6763471 CTTGAATTTT
Statistics
Matches: 174, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
106 120 0.69
107 2 0.01
108 26 0.15
109 26 0.15
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (105 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
TTAACCAAATGCTAAATATCCTTTCAAAAATTACAAAATA
Found at i:6775195 original size:46 final size:45
Alignment explanation
Indices: 6775142--6775737 Score: 452
Period size: 46 Copynumber: 13.6 Consensus size: 45
6775132 ATTATACAGG
* * *
6775142 TCTTATCTCCCTGAGGTTCCAGTGGAGTAGACCGAAGACTTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAC-ATCAGA
* *
6775188 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAT--GA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* * * *
6775231 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---G-CATCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* *
6775272 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAC-ATCAGA
* *
6775318 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAT--GA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* * * *
6775361 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---G-CATCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* * *
6775402 TCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAC-ATCAGA
* * * *
6775448 TCTTATCTCCCTGAGGTTATAGCGGAGCAGATCGGAGACAT--GA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* * ** * *
6775491 TCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAA-A-ATAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACAT-CA-GA
* * * * * *
6775535 TCTTATCTCTCTGAAGTTACAGTAGAGCAGATC---G-CACCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* *
6775576 TCTTATCTCCCTGAGGTTACAGTAGAGTAGACCGAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACA--TCAGA
* * * * * *
6775622 TTTTATCCCCCTGAGGTTACAGCGAAGCAGATCGAAGACA-C-TA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* * * ** * *
6775665 TCCTATCTCCCTGAAGTTACAGCGGAGCGGAT-TAAAACCA-CAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGA-CATCAGA
** *
6775709 TCTTATCTCCCTGAACTTGCAGTGGAGTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTA
6775738 AATTAAAACC
Statistics
Matches: 436, Mismatches: 84, Indels: 62
0.75 0.14 0.11
Matches are distributed among these distances:
39 6 0.01
40 4 0.01
41 90 0.21
42 5 0.01
43 120 0.28
44 59 0.14
45 5 0.01
46 146 0.33
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
Found at i:6775371 original size:130 final size:130
Alignment explanation
Indices: 6775138--6775513 Score: 698
Period size: 130 Copynumber: 2.9 Consensus size: 130
6775128 GTTCATTATA
*
6775138 CAGGTCTTATCTCCCTGAGGTTCCAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
6775203 GTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 GTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
6775268 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
6775333 GTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 GTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
*
6775398 CAGGTCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
* * * *
6775463 GTTATAGCGGAGCAGATCGGAGACATGATCCTATCTCCCTGAAGTTACAGT
66 GTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTTACAGT
6775514 GGAGCGGATT
Statistics
Matches: 240, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 240 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (130 bp):
CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
GTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:6775556 original size:174 final size:173
Alignment explanation
Indices: 6775184--6775737 Score: 618
Period size: 174 Copynumber: 3.2 Consensus size: 173
6775174 CGAAGACTTT
* * ** * * * * * *
6775184 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTT
1 CAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-CCA-GGTCTTATCTCCCTGAGGTT
* * * * * *
6775249 ACAGTAGAGTAGATC---GCA--TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
64 ACAGTAGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG
* * * * * *
6775309 ACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACA
129 AC-AT--GATCCTATCTCCCTGAAGTTACAGCGGAGCGGAT-TAAAACA
* * *
6775358 -TGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGGTTAC
1 CAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGGTTAC
* * * *
6775422 AGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTATAGCGGAGCAGATCGGAGAC
66 AGTAGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAC
* *
6775487 ATGATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
131 ATGATCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAACA
* *
6775530 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTA
1 CA-GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGGTTA
* * *
6775595 CAGTAGAGTAGACCGAAGAATTTCAGATTTTATCCCCCTGAGGTTACAGCGAAGCAGATCGAAGA
65 CAGTAGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGA
6775660 CACT-ATCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAACCA
130 CA-TGATCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAA-CA
* * * *
6775705 CAGATCTTATCTCCCTGAACTTGCAGTGGAGTA
1 CAGATCTTATCTCTCTGAAGTTACAGTAGAGTA
6775738 AATTAAAACC
Statistics
Matches: 322, Mismatches: 49, Indels: 18
0.83 0.13 0.05
Matches are distributed among these distances:
171 29 0.09
172 6 0.02
173 62 0.19
174 183 0.57
175 4 0.01
176 38 0.12
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (173 bp):
CAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGGTTAC
AGTAGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAC
ATGATCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAACA
Found at i:6777270 original size:3 final size:3
Alignment explanation
Indices: 6777262--6777290 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6777252 GTTATCTTTG
6777262 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6777291 TATTTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6778104 original size:106 final size:106
Alignment explanation
Indices: 6777891--6778193 Score: 426
Period size: 106 Copynumber: 2.8 Consensus size: 106
6777881 TTTCTAATTG
* * *
6777891 AGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCT
* * * *** **
6777956 CGTTTAACCAAATGGCTTAATATCCTTTTAATTTTTTTAAAATA
63 CGTTTAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
*
6778000 AGGCAATGTTTTGTGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
*
6778065 TCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
66 TTAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
* *
6778106 AGGTAATGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
* *
6778171 TTAACCAAATTGCCAAATATCCT
66 TTAACCAAATAGCTAAATATCCT
6778194 CTTGAATTTT
Statistics
Matches: 175, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
106 122 0.70
108 26 0.15
109 27 0.15
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (106 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
TTAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
Found at i:6779018 original size:23 final size:23
Alignment explanation
Indices: 6778992--6779067 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
6778982 AGTGTTATTG
*
6778992 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
6779015 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
6779038 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
6779061 ATCAGTG
1 ATCAGTG
6779068 TGGTACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:6783346 original size:20 final size:18
Alignment explanation
Indices: 6783321--6783359 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6783311 CTTGCTAAAA
6783321 TTCTCTGCATTTTTCTATCT
1 TTCTCTGC-TTTTTCT-TCT
*
6783341 TTCTCTTCTTTTTCTTCT
1 TTCTCTGCTTTTTCTTCT
6783359 T
1 T
6783360 CTTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.05, C:0.26, G:0.03, T:0.67
Consensus pattern (18 bp):
TTCTCTGCTTTTTCTTCT
Found at i:6786113 original size:22 final size:22
Alignment explanation
Indices: 6786066--6786113 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
6786056 AACTGCTTGC
* **
6786066 ATCTTAATCTGCCACAATGCGC
1 ATCTTAATCTGCCACAACGCAA
6786088 ATCTTAATCTGCCACAACGCAA
1 ATCTTAATCTGCCACAACGCAA
6786110 ATCT
1 ATCT
6786114 GGTCAATCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.27
Consensus pattern (22 bp):
ATCTTAATCTGCCACAACGCAA
Found at i:6786422 original size:24 final size:24
Alignment explanation
Indices: 6786407--6786458 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6786397 AATCAAAGTC
6786407 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
6786431 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
6786455 AAAT
1 AAAT
6786459 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:6794004 original size:17 final size:18
Alignment explanation
Indices: 6793982--6794019 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
6793972 ATTTACACGT
6793982 AATAAAACT-TAAATT-AA
1 AATAAAA-TATAAATTGAA
6793999 AATAAAATATAAATTGAA
1 AATAAAATATAAATTGAA
6794017 AAT
1 AAT
6794020 TTACTAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.05
17 13 0.68
18 5 0.26
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AATAAAATATAAATTGAA
Found at i:6809876 original size:14 final size:16
Alignment explanation
Indices: 6809847--6809883 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
6809837 GATAAATATA
6809847 ATTAAAAAAGTAAAAT
1 ATTAAAAAAGTAAAAT
6809863 ATTAAAAAA-T-AAAT
1 ATTAAAAAAGTAAAAT
6809877 ATTAAAA
1 ATTAAAA
6809884 GTAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
15 1 0.05
16 9 0.43
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
ATTAAAAAAGTAAAAT
Found at i:6809890 original size:20 final size:20
Alignment explanation
Indices: 6809867--6809903 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
6809857 TAAAATATTA
6809867 AAAAATAAATA-TTAAAAGT
1 AAAAATAAATATTTAAAAGT
*
6809886 AAAAATATATATTTAAAA
1 AAAAATAAATATTTAAAA
6809904 ACGTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (20 bp):
AAAAATAAATATTTAAAAGT
Found at i:6809891 original size:15 final size:15
Alignment explanation
Indices: 6809852--6809893 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
6809842 ATATAATTAA
6809852 AAAAGT-AAAATATT
1 AAAAGTAAAAATATT
6809866 AAAA--AATAAATATT
1 AAAAGTAA-AAATATT
6809880 AAAAGTAAAAATAT
1 AAAAGTAAAAATAT
6809894 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 1 0.04
14 15 0.62
15 6 0.25
16 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (15 bp):
AAAAGTAAAAATATT
Found at i:6811829 original size:8 final size:8
Alignment explanation
Indices: 6811818--6811842 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6811808 CCACCTACCC
6811818 CCCACTTG
1 CCCACTTG
6811826 CCCACTTG
1 CCCACTTG
6811834 CCCACTTG
1 CCCACTTG
6811842 C
1 C
6811843 GCCGAACACC
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:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:6822618 original size:21 final size:21
Alignment explanation
Indices: 6822594--6822633 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6822584 ATTTTAGTCC
*
6822594 TTTTTTTTATTTTTATATTTA
1 TTTTTGTTATTTTTATATTTA
6822615 TTTTTGTTATTTTTATATT
1 TTTTTGTTATTTTTATATT
6822634 AGTATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTTTGTTATTTTTATATTTA
Found at i:6822655 original size:3 final size:3
Alignment explanation
Indices: 6822621--6822683 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
6822611 TTTATTTTTG
* * *
6822621 TTA TTT TTA -TA TTA GTA TTA -TA TTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
6822667 GTA TATA TTT TTA TTA T
1 TTA T-TA TTA TTA TTA T
6822684 GTACGTGTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
2 4 0.09
3 40 0.85
4 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:6822760 original size:25 final size:24
Alignment explanation
Indices: 6822713--6822760 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6822703 TATATTTTCA
*
6822713 TATTTAATATTTTTATTTCATTTT
1 TATTTAATATTTTTATTTAATTTT
6822737 TATTCTAATA-TTTTATTATAATTT
1 TATT-TAATATTTTTATT-TAATTT
6822761 ATATATATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTAATATTTTTATTTAATTTT
Found at i:6823049 original size:27 final size:28
Alignment explanation
Indices: 6823019--6823072 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
6823009 ACATACACAT
*
6823019 ATTATATGTATAGACATACATA-TTTTC
1 ATTATATATATAGACATACATAGTTTTC
* *
6823046 ATTATATATATATACCTACATAGTTTT
1 ATTATATATATAGACATACATAGTTTT
6823073 TTTTGTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (28 bp):
ATTATATATATAGACATACATAGTTTTC
Found at i:6835621 original size:44 final size:44
Alignment explanation
Indices: 6835348--6836257 Score: 520
Period size: 44 Copynumber: 20.8 Consensus size: 44
6835338 AAAAATTTTC
* *
6835348 AGATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAA-ACAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * ** **
6835391 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * * * *
6835435 TA-ATCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA---A-
1 -AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * * * * *
6835474 AGATCTTATCTCTCTGAAGTTACAGTAGAGAAGA-TCACA-TCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGA-AGCCAG
* * * ** *
6835517 -G-TCTTATTTCCCTTAGGTTACAGTGGAGTAGACCGGAGAATTCC--
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGA---TTGAA-GCCAG
6835561 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * * * *
6835605 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
** * * * ** *** *
6835648 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATGAT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * ** *
6835692 AGATCTTATCTCCCTGAGATTACAGTGGAGTAGACCGGAGAATTCC--
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGA---TTGAA-GCCAG
6835738 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * * *
6835782 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
** * * * ** *** *
6835825 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATGAT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * ** * *
6835869 AGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAG-AATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---G
*
6835915 AGATCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * * * *
6835959 AGATCTTATCTCTCTCAGATTACA-TCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCCCTGAGGTTACAGT-GGAGCAGATTGAAGCCAG
* * * * *** *
6836003 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * ** * * * *
6836046 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * * ** * *
6836090 -G-TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAG-AATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---G
6836134 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * * * *
6836178 AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * * * *
6836222 AAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT
6836258 AAAATAAAGG
Statistics
Matches: 667, Mismatches: 157, Indels: 85
0.73 0.17 0.09
Matches are distributed among these distances:
38 2 0.00
39 24 0.04
40 2 0.00
41 55 0.08
42 8 0.01
43 112 0.17
44 325 0.49
45 7 0.01
46 128 0.19
47 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
Found at i:6835748 original size:177 final size:176
Alignment explanation
Indices: 6835391--6836080 Score: 874
Period size: 177 Copynumber: 3.9 Consensus size: 176
6835381 ATTGAAACAG
* * ** ** * * *
6835391 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
** * * * * * * ** * *
6835456 ACAATGGAGCGGAT-TAA-A-A-GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC-ACAT-C
66 ACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATAT
* * * *
6835515 AGGTCTTATTTCCCTTAGGTTACAGTGGAGTAGACCGGAGAATTCC
131 AGATCTTATCTCCCTGAGATTACAGTGGAGTAGACCGGAGAATTCC
6835561 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
6835626 ACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATGA
66 ACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAAT-A
6835691 TAGATCTTATCTCCCTGAGATTACAGTGGAGTAGACCGGAGAATTCC
130 TAGATCTTATCTCCCTGAGATTACAGTGGAGTAGACCGGAGAATTCC
*
6835738 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
6835803 ACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATGA
66 ACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAAT-A
** * *
6835868 TAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTC
130 TAGATCTTATCTCCCTGAGATTACAGTGGAGTAGACCGGAGAATTCC
* * * *
6835915 AGATCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTCAGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
* * * * * *
6835980 ACATCGGAGTAGATTGAAG-CTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAAT
66 ACAGCGGAGCAGATCGAAGAC-ACT-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAAT
* * **
6836044 AAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA
129 ATA-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGA
6836081 TCGCATCAGG
Statistics
Matches: 464, Mismatches: 45, Indels: 14
0.89 0.09 0.03
Matches are distributed among these distances:
170 67 0.14
171 2 0.00
172 1 0.00
173 1 0.00
174 29 0.06
175 3 0.01
176 1 0.00
177 297 0.64
178 63 0.14
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (176 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
ACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATAT
AGATCTTATCTCCCTGAGATTACAGTGGAGTAGACCGGAGAATTCC
Found at i:6836128 original size:219 final size:219
Alignment explanation
Indices: 6835872--6836308 Score: 775
Period size: 219 Copynumber: 2.0 Consensus size: 219
6835862 AAATGATAGA
* * *
6835872 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCTTGAGGTTA
1 TCTTATCACCCTGAGATTACAGGGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
*
6835937 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTCAGATTACATCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTCAGATTACAGCGGAGTAGATTGAAGCTA
*
6836002 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GAAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
*
6836067 TACAGCAGAGTAGATCGCATCAGG
196 TACAGCAGAGTAGATCACATCAGG
* **
6836091 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCACCCTGAGATTACAGGGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
*
6836156 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTCAGATTACAGCGGAGTAGATTGAAGCTA
6836221 GAAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GAAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
*
6836286 TACAGTAGAGTAGATCACATCAG
196 TACAGCAGAGTAGATCACATCAG
6836309 ATTGAAGCCA
Statistics
Matches: 207, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
219 207 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (219 bp):
TCTTATCACCCTGAGATTACAGGGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTCAGATTACAGCGGAGTAGATTGAAGCTA
GAAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
TACAGCAGAGTAGATCACATCAGG
Found at i:6836428 original size:46 final size:46
Alignment explanation
Indices: 6836320--6836428 Score: 130
Period size: 46 Copynumber: 2.4 Consensus size: 46
6836310 TTGAAGCCAG
* * * *
6836320 AGATCTTATCTCCCTGTATTTGGCAGTGGAACAGATTGAAGATTGC
1 AGATCTTACCTCCCTGTATTTGGCAGTCGAACAGATCGAAGATGGC
* * *
6836366 AGATCTTGCCTTCCTGTATTTGGCAG-CGAAGCAGATCGATGATGGC
1 AGATCTTACCTCCCTGTATTTGGCAGTCGAA-CAGATCGAAGATGGC
*
6836412 AGATTTTACCTCCCTGT
1 AGATCTTACCTCCCTGT
6836429 GACGACAGTG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 3 0.06
46 49 0.94
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (46 bp):
AGATCTTACCTCCCTGTATTTGGCAGTCGAACAGATCGAAGATGGC
Found at i:6836582 original size:41 final size:40
Alignment explanation
Indices: 6836502--6836614 Score: 190
Period size: 41 Copynumber: 2.8 Consensus size: 40
6836492 CGAAGATTAC
* *
6836502 AGTCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCA
6836542 AGTCTTATCTCCCTAAGCAGTTAGTGGAGCAGATCACATCA
1 AGTCTTATCTCCCTAAGCAG-TAGTGGAGCAGATCACATCA
*
6836583 AGTCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA
6836615 CTAAAAACAC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 31 0.45
41 38 0.55
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (40 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCA
Found at i:6837001 original size:8 final size:8
Alignment explanation
Indices: 6836990--6837014 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6836980 CCACCTACCC
6836990 CCCACTTG
1 CCCACTTG
6836998 CCCACTTG
1 CCCACTTG
6837006 CCCACTTG
1 CCCACTTG
6837014 C
1 C
6837015 GCCGAACACC
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:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:6837537 original size:13 final size:12
Alignment explanation
Indices: 6837505--6837542 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
6837495 CCTTTCCCCC
6837505 TCCCTTCTCTC-
1 TCCCTTCTCTCT
6837516 TCCCTTCTCTCT
1 TCCCTTCTCTCT
6837528 TCCCTCTCTCTCT
1 TCCCT-TCTCTCT
6837541 TC
1 TC
6837543 TTTTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
12 5 0.20
13 9 0.36
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (12 bp):
TCCCTTCTCTCT
Found at i:6838032 original size:3 final size:3
Alignment explanation
Indices: 6838008--6838078 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
6837998 AATATCCTTG
* * * *
6838008 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
6838055 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
6838079 GTACGTGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:6838075 original size:23 final size:22
Alignment explanation
Indices: 6838020--6838081 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
6838010 ATTTTTATAT
*
6838020 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
6838041 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
6838063 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
6838082 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:6838088 original size:23 final size:23
Alignment explanation
Indices: 6838015--6838089 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
6838005 TTGTTATTTT
* *
6838015 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
6838038 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
6838063 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
6838086 TATA
1 TATA
6838090 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:6838155 original size:25 final size:24
Alignment explanation
Indices: 6838108--6838155 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6838098 TATATTTTCA
*
6838108 TATTTAATATTTTTATTTCATTTT
1 TATTTAATATTTTTATTTAATTTT
6838132 TATTCTAATA-TTTTATTATAATTT
1 TATT-TAATATTTTTATT-TAATTT
6838156 ATATATATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTAATATTTTTATTTAATTTT
Found at i:6840792 original size:25 final size:25
Alignment explanation
Indices: 6840764--6840811 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
6840754 AGAGGATAGT
6840764 TTAAAGAACATAAAAGAAAAAAAAA
1 TTAAAGAACATAAAAGAAAAAAAAA
** * *
6840789 TTAAATTACTTAAAAGGAAAAAA
1 TTAAAGAACATAAAAGAAAAAAA
6840812 TATGGGATCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAAGAAAAAAAAA
Found at i:6841368 original size:19 final size:19
Alignment explanation
Indices: 6841344--6841380 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6841334 ATTGAATTAT
6841344 AATTTTTATATAATTTTAA
1 AATTTTTATATAATTTTAA
* *
6841363 AATTTTTCTTTAATTTTA
1 AATTTTTATATAATTTTA
6841381 TAACATACAA
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:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTTTTATATAATTTTAA
Found at i:6843965 original size:17 final size:17
Alignment explanation
Indices: 6843943--6843975 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6843933 GCGCTTAGTT
6843943 GAAAATAAAAGTGAGAG
1 GAAAATAAAAGTGAGAG
6843960 GAAAATAAAAGTGAGA
1 GAAAATAAAAGTGAGA
6843976 TCATTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (17 bp):
GAAAATAAAAGTGAGAG
Found at i:6856012 original size:6 final size:6
Alignment explanation
Indices: 6856003--6856078 Score: 50
Period size: 6 Copynumber: 12.7 Consensus size: 6
6855993 TGATTTTATT
* * * * * *
6856003 TTTTTA TTTTTA -ATTTA -ATTTA ATTTTA TGTTTA TGTTTA TTTCTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
6856049 TTTTTA GTTGTTT- TGTTTTA TTTTTA TTTT
1 TTTTTA -TT-TTTA T-TTTTA TTTTTA TTTT
6856079 CTTATACTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
5 9 0.16
6 42 0.72
7 4 0.07
8 3 0.05
ACGTcount: A:0.18, C:0.01, G:0.07, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:6859425 original size:13 final size:13
Alignment explanation
Indices: 6859407--6859432 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6859397 CTACAAATTT
6859407 TTTTGCAATGTTG
1 TTTTGCAATGTTG
6859420 TTTTGCAATGTTG
1 TTTTGCAATGTTG
6859433 GGTATTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (13 bp):
TTTTGCAATGTTG
Found at i:6859897 original size:30 final size:30
Alignment explanation
Indices: 6859863--6859924 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
6859853 TATTTCCAGA
6859863 AACCAACTATGAATTTATCACACACAAAAC
1 AACCAACTATGAATTTATCACACACAAAAC
6859893 AACCAACTATGAATTTATCACACACAAAAC
1 AACCAACTATGAATTTATCACACACAAAAC
6859923 AA
1 AA
6859925 TTTTCCCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (30 bp):
AACCAACTATGAATTTATCACACACAAAAC
Found at i:6860337 original size:22 final size:22
Alignment explanation
Indices: 6860309--6860354 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
6860299 AATTTTCCAA
6860309 TAATCATAGAAATAACATACTT
1 TAATCATAGAAATAACATACTT
* *
6860331 TAATCATAGAAATAATATATTT
1 TAATCATAGAAATAACATACTT
6860353 TA
1 TA
6860355 GATGCTGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (22 bp):
TAATCATAGAAATAACATACTT
Found at i:6866653 original size:24 final size:24
Alignment explanation
Indices: 6866620--6866667 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
6866610 TGTCGTTGAG
*
6866620 ATTTAGTTATTTATT-TTTAATTTT
1 ATTTAATTATTT-TTATTTAATTTT
6866644 ATTTAATTATTTTTATTTAATTTT
1 ATTTAATTATTTTTATTTAATTTT
6866668 TCTCATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (24 bp):
ATTTAATTATTTTTATTTAATTTT
Found at i:6884195 original size:41 final size:40
Alignment explanation
Indices: 6884124--6884200 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 40
6884114 TAAATTCTTA
* *
6884124 AACCCTAAACCTTAAAACAAAATTATTTTAACAAAACCCT
1 AACCCTAAACCCTAAAACAAAATCATTTTAACAAAACCCT
* * *
6884164 AACCCTACAACCCTAAACCTAAATCATTTTAATAAAA
1 AACCCTA-AACCCTAAAACAAAATCATTTTAACAAAA
6884201 ACTCTAAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 7 0.23
41 24 0.77
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (40 bp):
AACCCTAAACCCTAAAACAAAATCATTTTAACAAAACCCT
Found at i:6885104 original size:29 final size:28
Alignment explanation
Indices: 6885072--6885151 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 28
6885062 TTGATCTTAT
6885072 TAAAAAT-TAGAAAAATTATT-AAATTTTAA
1 TAAAAATATA-AAAAATT-TTAAAATTTT-A
6885101 TAAAAATATAAAAAATTTTAAAATTTTA
1 TAAAAATATAAAAAATTTTAAAATTTTA
6885129 TAAAAATCATAAAAAAATTTTAA
1 TAAAAAT-AT-AAAAAATTTTAA
6885152 CGACCCCTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
28 10 0.21
29 23 0.49
30 14 0.30
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (28 bp):
TAAAAATATAAAAAATTTTAAAATTTTA
Found at i:6885416 original size:26 final size:28
Alignment explanation
Indices: 6885387--6885439 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
6885377 ATTTTATTCT
*
6885387 AATTTTTAATAA-ATTT-TTAATATTTG
1 AATTTTTAATAATATTTAATAATATTTG
*
6885413 AATTTTTATTAATATTTAATAATATTT
1 AATTTTTAATAATATTTAATAATATTT
6885440 ATAGCTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
27 4 0.17
28 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
AATTTTTAATAATATTTAATAATATTTG
Found at i:6885570 original size:88 final size:88
Alignment explanation
Indices: 6885478--6885657 Score: 272
Period size: 88 Copynumber: 2.0 Consensus size: 88
6885468 AATTTTTAAT
** *
6885478 AAAAGTAGGGGCTTAATTGCTTTTTTTTTTAAA-GTTTAAGGGTATTTTTTATGCATTTTGAAAG
1 AAAAGTAGGGGCTTAATTGC-TTTTTTTGAAAAGGTTTAAGGGCATTTTTTATGCATTTTGAAAG
*
6885542 TTCAAATAATCAATTGAGTACAAA
65 TTCAAATAATCAAATGAGTACAAA
*
6885566 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGCATTTTTTATGCATTTTGAAAGT
1 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAGGTTTAAGGGCATTTTTTATGCATTTTGAAAGT
* * *
6885631 TCAAGTACTCAAATGAGTGCAAA
66 TCAAATAATCAAATGAGTACAAA
6885654 AAAA
1 AAAA
6885658 AAACAGTAGC
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 10 0.12
88 73 0.88
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.38
Consensus pattern (88 bp):
AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAGGTTTAAGGGCATTTTTTATGCATTTTGAAAGT
TCAAATAATCAAATGAGTACAAA
Found at i:6885691 original size:88 final size:87
Alignment explanation
Indices: 6885488--6885705 Score: 253
Period size: 88 Copynumber: 2.5 Consensus size: 87
6885478 AAAAGTAGGG
* *
6885488 GCTTAATTGCTTTTTTTTTTAAAGTTTAAGGGTATTTTTTATGCATTTTGAAAGTTCAAATAATC
1 GCTTAATTGCTTTTTTTTTT-AAGTTTGAGGGCATTTTTTATGCATTTTGAAAGTTCAAATAATC
* * ** *
6885553 AATTGAGTACAAAAAAAGTAGGG
65 AAATGAGTAAAAAAAAAACAGGA
*** * *
6885576 GCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGCATTTTTTATGCATTTTGAAAGTTCAAGTACTC
1 GCTTAATTGCTTTTTTTTTTAA-GTTTGAGGGCATTTTTTATGCATTTTGAAAGTTCAAATAATC
*
6885641 AAATGAGTGCAAAAAAAAAACAGTA
65 AAATGAGT--AAAAAAAAAACAGGA
*
6885666 GCTTAATTG-TTTTTTTTTTAAGTTTGGGGGC--TTTTTATGC
1 GCTTAATTGCTTTTTTTTTTAAGTTTGAGGGCATTTTTTATGC
6885706 CCTTAAGCCT
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
86 9 0.08
87 2 0.02
88 71 0.65
89 9 0.08
90 19 0.17
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (87 bp):
GCTTAATTGCTTTTTTTTTTAAGTTTGAGGGCATTTTTTATGCATTTTGAAAGTTCAAATAATCA
AATGAGTAAAAAAAAAACAGGA
Found at i:6885835 original size:19 final size:20
Alignment explanation
Indices: 6885800--6885838 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6885790 AATTAGAAGC
6885800 TTAAACAATAATATAGAATT
1 TTAAACAATAATATAGAATT
6885820 TTAAA-AAT-ATATTAGAATT
1 TTAAACAATAATA-TAGAATT
6885839 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 10 0.56
20 5 0.28
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAAACAATAATATAGAATT
Found at i:6887324 original size:36 final size:36
Alignment explanation
Indices: 6887279--6887359 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
6887269 AATTGTGACG
* * * *
6887279 TTTAATGTTTAACATTATGGTCTTTTAAATTCAAAT
1 TTTATTGTTTAAAATTATGATCTTTTAAAATCAAAT
6887315 TTTATTGTTTAAAATTATGATCTTTTAAAATCAAAT
1 TTTATTGTTTAAAATTATGATCTTTTAAAATCAAAT
6887351 TTTATTGTT
1 TTTATTGTT
6887360 GATGGGATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.53
Consensus pattern (36 bp):
TTTATTGTTTAAAATTATGATCTTTTAAAATCAAAT
Found at i:6893995 original size:4 final size:4
Alignment explanation
Indices: 6893986--6894020 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
6893976 TATAGATTGT
*
6893986 ATAC ATAC ATAC ATAC ATAC ATTC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
6894021 TATATATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:6908012 original size:13 final size:13
Alignment explanation
Indices: 6907994--6908018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6907984 ATAAAATTCT
6907994 GTAAATCAAAATA
1 GTAAATCAAAATA
6908007 GTAAATCAAAAT
1 GTAAATCAAAAT
6908019 GAAAACTTAA
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:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
GTAAATCAAAATA
Found at i:6908253 original size:33 final size:33
Alignment explanation
Indices: 6908188--6908253 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
6908178 AGTTCAAAAT
* *
6908188 GACTAACAACAGATTCCAGAAGAGAACCCCAGA
1 GACTAACAACAGATTCCAAAAAAGAACCCCAGA
* * *
6908221 GACTAACAATAGATTCCAAAAAAGGACGCCAGA
1 GACTAACAACAGATTCCAAAAAAGAACCCCAGA
6908254 TGGCAATTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (33 bp):
GACTAACAACAGATTCCAAAAAAGAACCCCAGA
Found at i:6908552 original size:24 final size:24
Alignment explanation
Indices: 6908525--6908574 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
6908515 ACCAAATAGG
6908525 ACCTCGAAAAGTCCATCCAACCTT
1 ACCTCGAAAAGTCCATCCAACCTT
6908549 ACCTCGAAAAGTCCATCCAACCTT
1 ACCTCGAAAAGTCCATCCAACCTT
6908573 AC
1 AC
6908575 ACACTAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.38, G:0.08, T:0.20
Consensus pattern (24 bp):
ACCTCGAAAAGTCCATCCAACCTT
Found at i:6909993 original size:6 final size:6
Alignment explanation
Indices: 6909984--6910013 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
6909974 AAAAAAAAGA
6909984 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
6910014 GTTTATGTCT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:6910674 original size:19 final size:19
Alignment explanation
Indices: 6910646--6910682 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6910636 GGTAAGGGTA
6910646 AAAAGGTAATTAAATAAAT
1 AAAAGGTAATTAAATAAAT
* *
6910665 AAAAGTTAATTTAATAAA
1 AAAAGGTAATTAAATAAA
6910683 AGAAAAAGCC
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:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (19 bp):
AAAAGGTAATTAAATAAAT
Found at i:6911081 original size:27 final size:28
Alignment explanation
Indices: 6911026--6911090 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 28
6911016 ATAAAAAATA
* *
6911026 ACCAAAATTTTATAACTTTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTTATTT
6911054 ACCAAAATATTATAA-ATTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTTATTT
6911081 ACCAAAATAT
1 ACCAAAATAT
6911091 ACCAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (28 bp):
ACCAAAATATTATAACATTTTTTTATTT
Found at i:6911169 original size:27 final size:27
Alignment explanation
Indices: 6911130--6911197 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
6911120 GCCTGATCAG
* *
6911130 GCCAATCACATTGGAGGCACCAAAGGT
1 GCCAATGAGATTGGAGGCACCAAAGGT
* *
6911157 GCCAATGAGATTGGCGGCACCAATGGT
1 GCCAATGAGATTGGAGGCACCAAAGGT
*
6911184 GCCAAAGAGATTGG
1 GCCAATGAGATTGG
6911198 CGGTGTAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.22, G:0.31, T:0.16
Consensus pattern (27 bp):
GCCAATGAGATTGGAGGCACCAAAGGT
Found at i:6911198 original size:27 final size:27
Alignment explanation
Indices: 6911139--6911200 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
6911129 GGCCAATCAC
* *
6911139 ATTGGAGGCACCAAAGGTGCCAATGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
*
6911166 ATTGGCGGCACCAATGGTGCCAAAGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
6911193 ATTGGCGG
1 ATTGGCGG
6911201 TGTAACAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.35, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGAG
Found at i:6912419 original size:28 final size:28
Alignment explanation
Indices: 6912379--6912505 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
6912369 TGATTTTCGA
*
6912379 CACTAAGTGTGCGAATTTAATTATAAAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
* *
6912407 CACTAAGTGTGCGAGTTTAATTGTAGAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
**
6912435 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
* **
6912463 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
6912491 CACTAAGTGTGCGAG
1 CACTAAGTGTGCGAG
6912506 CTTATTAAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 89 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTATAAAG
Found at i:6912725 original size:17 final size:17
Alignment explanation
Indices: 6912687--6912725 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
6912677 TATATATAAT
*
6912687 ATGAATCTTTATATTAC
1 ATGATTCTTTATATTAC
6912704 ATGATTCTTTATATTAC
1 ATGATTCTTTATATTAC
6912721 ATGAT
1 ATGAT
6912726 GAGGAAATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (17 bp):
ATGATTCTTTATATTAC
Found at i:6913303 original size:24 final size:22
Alignment explanation
Indices: 6913275--6913631 Score: 206
Period size: 23 Copynumber: 15.2 Consensus size: 22
6913265 GTATGCTCCT
*
6913275 AATTTTGATAAATCAATGCTGTCA
1 AATTTTG-TATAT-AATGCTGTCA
*
6913299 AATTTTGTATATACATGCTGTTA
1 AATTTTGTATATA-ATGCTGTCA
*
6913322 AATTTTGTGTATAAATGCTGTCCA
1 AATTTTGTATAT-AATGCTGT-CA
* *
6913346 AATTTGTGTATGT-ATGCT-TCCT
1 AATTT-TGTATATAATGCTGT-CA
*
6913368 AATTTTGGGTGA-ATAAATGCTATCCA
1 AATTTT--GT-ATAT-AATGCTGT-CA
*
6913394 AATTTTGTATATACATGCTGTTA
1 AATTTTGTATATA-ATGCTGTCA
*
6913417 AATTTTGTGTATAAGTGCTGTCCA
1 AATTTTGTATATAA-TGCTGT-CA
* * *
6913441 AATTTGTGTATGT-ATGCTGCCC
1 AATTT-TGTATATAATGCTGTCA
*
6913463 AATTTTGGTGA-AGCAATGCTGTCA
1 AATTTT-GT-ATA-TAATGCTGTCA
* *
6913487 AATTTTGTACATACATGCTGTTA
1 AATTTTGTATATA-ATGCTGTCA
* *
6913510 TATTTTGTGTATAAGTGCTGTCCA
1 AATTTTGTATATAA-TGCTGT-CA
* * *
6913534 AA-TTTGTATATGTATGCTGCCC
1 AATTTTGTATAT-AATGCTGTCA
6913556 AATTTTGGTGA-ATCAATGCTGTCA
1 AATTTT-GT-ATAT-AATGCTGTCA
*
6913580 AATTTTGTATATACATGCTGTTA
1 AATTTTGTATATA-ATGCTGTCA
* *
6913603 TATTTTGTGTATAAGTGCTGTCCA
1 AATTTTGTATATAA-TGCTGT-CA
6913627 AATTT
1 AATTT
6913632 GTAATATGTA
Statistics
Matches: 261, Mismatches: 41, Indels: 62
0.72 0.11 0.17
Matches are distributed among these distances:
21 2 0.01
22 27 0.10
23 137 0.52
24 70 0.27
25 16 0.06
26 9 0.03
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (22 bp):
AATTTTGTATATAATGCTGTCA
Found at i:6913634 original size:93 final size:93
Alignment explanation
Indices: 6913260--6913641 Score: 604
Period size: 93 Copynumber: 4.1 Consensus size: 93
6913250 GCCCAATTGT
* * *
6913260 TATATGTATGCT-CCTAATTTTGATAAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
*
6913324 TTTTGTGTATAAATGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
* * * * *
6913352 TGTATGTATGCTTCCTAATTTTGGGTGAATAAATGCTATCCAAATTTTGTATATACATGCTGTTA
1 TATATGTATGCTGCCCAATTTT-GGTGAATCAATGCTGT-CAAATTTTGTATATACATGCTGTTA
6913417 AATTTTGTGTATAAGTGCTGTCCAAATTTG
64 AATTTTGTGTATAAGTGCTGTCCAAATTTG
* * * *
6913447 TGTATGTATGCTGCCCAATTTTGGTGAAGCAATGCTGTCAAATTTTGTACATACATGCTGTTATA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
6913512 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
*
6913540 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
6913605 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
6913633 TAATATGTA
1 T-ATATGTA
6913642 GTATAGTTAG
Statistics
Matches: 270, Mismatches: 16, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
92 11 0.04
93 153 0.57
94 32 0.12
95 74 0.27
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (93 bp):
TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
TTTTGTGTATAAGTGCTGTCCAAATTTG
Found at i:6914122 original size:18 final size:19
Alignment explanation
Indices: 6914101--6914188 Score: 99
Period size: 18 Copynumber: 4.7 Consensus size: 19
6914091 AATAATAATT
6914101 CTATTTTAATTTAATAA-A
1 CTATTTTAATTTAATAACA
* * *
6914119 CTATTCTCATTTAATAACT
1 CTATTTTAATTTAATAACA
6914138 CTATTTTAATTTAATAA-A
1 CTATTTTAATTTAATAACA
* * **
6914156 CTATTCTCATTTAATAATT
1 CTATTTTAATTTAATAACA
6914175 CTATTTTAATTTAA
1 CTATTTTAATTTAA
6914189 AAAAATTAAG
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
18 30 0.53
19 27 0.47
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
CTATTTTAATTTAATAACA
Found at i:6914134 original size:37 final size:37
Alignment explanation
Indices: 6914093--6914188 Score: 183
Period size: 37 Copynumber: 2.6 Consensus size: 37
6914083 TTTAATTAAA
6914093 TAATAATTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAATTCTATTTTAATTTAATAAACTATTCTCATT
*
6914130 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAATTCTATTTTAATTTAATAAACTATTCTCATT
6914167 TAATAATTCTATTTTAATTTAA
1 TAATAATTCTATTTTAATTTAA
6914189 AAAAATTAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (37 bp):
TAATAATTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:6914303 original size:18 final size:18
Alignment explanation
Indices: 6914280--6914380 Score: 130
Period size: 18 Copynumber: 5.5 Consensus size: 18
6914270 CTCTGTTTTA
6914280 ATTTAATAAACTATTCTC
1 ATTTAATAAACTATTCTC
* * *
6914298 ATTTAATAACTCTATTTTA
1 ATTTAATAA-ACTATTCTC
6914317 ATTTAATAAACTATTCTC
1 ATTTAATAAACTATTCTC
* * *
6914335 ATTTAATAAGTCTATTTTA
1 ATTTAATAA-ACTATTCTC
6914354 ATTTAATAAACTATTCTC
1 ATTTAATAAACTATTCTC
6914372 ATTTAATAA
1 ATTTAATAA
6914381 TTTTATTTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
18 39 0.57
19 30 0.43
ACGTcount: A:0.40, C:0.12, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTTAATAAACTATTCTC
Found at i:6914305 original size:37 final size:37
Alignment explanation
Indices: 6914264--6914394 Score: 226
Period size: 37 Copynumber: 3.5 Consensus size: 37
6914254 TCTAATTAAG
*
6914264 TAATAACTCTGTTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
6914301 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
*
6914338 TAATAAGTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
* *
6914375 TAATAATTTTATTTTAATTT
1 TAATAACTCTATTTTAATTT
6914395 TTAAAAAAAT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.51
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:6914471 original size:18 final size:18
Alignment explanation
Indices: 6914448--6914511 Score: 85
Period size: 18 Copynumber: 3.5 Consensus size: 18
6914438 TAAAATAGAG
*
6914448 TTATTAAATGAGAATAGT
1 TTATTAAATAAGAATAGT
*
6914466 TTATTAAATTAA-AATAGAG
1 TTATTAAA-TAAGAATAG-T
6914485 TTATTAAATAAGAATAGT
1 TTATTAAATAAGAATAGT
6914503 TTATTAAAT
1 TTATTAAAT
6914512 TAAAATAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 25 0.62
19 15 0.38
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (18 bp):
TTATTAAATAAGAATAGT
Found at i:6914475 original size:37 final size:37
Alignment explanation
Indices: 6914434--6914527 Score: 179
Period size: 37 Copynumber: 2.5 Consensus size: 37
6914424 TAATTTTTTA
*
6914434 AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
1 AAATTAAAATAGAGTTATTAAATAAGAATAGTTTATT
6914471 AAATTAAAATAGAGTTATTAAATAAGAATAGTTTATT
1 AAATTAAAATAGAGTTATTAAATAAGAATAGTTTATT
6914508 AAATTAAAATAGAGTTATTA
1 AAATTAAAATAGAGTTATTA
6914528 CTTAATTAGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (37 bp):
AAATTAAAATAGAGTTATTAAATAAGAATAGTTTATT
Found at i:6914532 original size:18 final size:19
Alignment explanation
Indices: 6914434--6914527 Score: 122
Period size: 19 Copynumber: 5.1 Consensus size: 19
6914424 TAATTTTTTA
6914434 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
* * *
6914453 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
6914471 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
*
6914490 AAA-TAAGAATAG-TTTATT
1 AAATTAA-AATAGAGTTATT
6914508 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
6914527 A
1 A
6914528 CTTAATTAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
18 31 0.49
19 32 0.51
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:6915117 original size:27 final size:27
Alignment explanation
Indices: 6915078--6915136 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
6915068 TTTTAGTCCT
6915078 TTGGCACCATTGGTGCCGCCAATCTCA
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * * *
6915105 TTGGCACCTTTGGTGCCTCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
6915132 TTGGC
1 TTGGC
6915137 CTGATCAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:6915214 original size:25 final size:27
Alignment explanation
Indices: 6915186--6915245 Score: 97
Period size: 25 Copynumber: 2.3 Consensus size: 27
6915176 TTTTTTTGGT
6915186 ATATTTTGGTAAAT-AAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
6915211 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAAT-AAAAAAAGTTATA
6915239 ATATTTT
1 ATATTTT
6915246 AGTTATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 14 0.44
27 6 0.19
28 12 0.38
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:6917240 original size:43 final size:43
Alignment explanation
Indices: 6917133--6917269 Score: 168
Period size: 43 Copynumber: 3.2 Consensus size: 43
6917123 TTTTGAATGC
* * * *
6917133 CCACACGGACGTGTCTCTTGACCGTGTAAGAGACACAACCTGG
1 CCACACGGACGTGTCTCTTGGCCGTGTGAGACACACGACCTGG
* * *
6917176 CCACTCGGGCTTGTCTCTTGGCCGTGTGAGACACACGACCTGG
1 CCACACGGACGTGTCTCTTGGCCGTGTGAGACACACGACCTGG
* *
6917219 CCACACGGACGTGTCAT-TTGGCCGTGTGAGACACACGGCCTAG
1 CCACACGGACGTGTC-TCTTGGCCGTGTGAGACACACGACCTGG
*
6917262 CTACACGG
1 CCACACGG
6917270 GTGTGTGTCC
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 79 0.99
44 1 0.01
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.20
Consensus pattern (43 bp):
CCACACGGACGTGTCTCTTGGCCGTGTGAGACACACGACCTGG
Found at i:6922623 original size:31 final size:31
Alignment explanation
Indices: 6922588--6922648 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
6922578 TGAATCAAAA
* *
6922588 TTTTGTCTCTTGATATATGGAAAGTCAAAGG
1 TTTTGCCTCTTGATATATGGAAAGCCAAAGG
*
6922619 TTTTGCCTCTTGATCTATGGAAAGCCAAAG
1 TTTTGCCTCTTGATATATGGAAAGCCAAAG
6922649 TTCCAGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (31 bp):
TTTTGCCTCTTGATATATGGAAAGCCAAAGG
Found at i:6944263 original size:21 final size:21
Alignment explanation
Indices: 6944239--6944278 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6944229 CACCGGGCTT
6944239 CAACACCCTCA-CCATCTCCCC
1 CAACACCCTCATCC-TCTCCCC
6944260 CAACACCCTCATCCTCTCC
1 CAACACCCTCATCCTCTCC
6944279 GCCGCTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.23, C:0.60, G:0.00, T:0.17
Consensus pattern (21 bp):
CAACACCCTCATCCTCTCCCC
Found at i:6947550 original size:24 final size:24
Alignment explanation
Indices: 6947513--6947585 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
6947503 GGTAAGACAT
6947513 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
* *
6947537 TTTCCACTGTTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
* *
6947561 ATTCCACAGCTCCTCTATTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
6947585 T
1 T
6947586 ATCGATTGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.14, C:0.47, G:0.04, T:0.36
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:6948399 original size:8 final size:8
Alignment explanation
Indices: 6948386--6948410 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6948376 AATGCCGTTC
6948386 CTGTTGTT
1 CTGTTGTT
6948394 CTGTTGTT
1 CTGTTGTT
6948402 CTGTTGTT
1 CTGTTGTT
6948410 C
1 C
6948411 CTGGTAATGG
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:0.00, C:0.16, G:0.24, T:0.60
Consensus pattern (8 bp):
CTGTTGTT
Found at i:6950617 original size:34 final size:35
Alignment explanation
Indices: 6950559--6950625 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
6950549 CAAACACCAG
* * *
6950559 AAAATATTTTCCTGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
6950594 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
6950626 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:6955858 original size:18 final size:16
Alignment explanation
Indices: 6955821--6955850 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6955811 TTTATAATAC
6955821 TTTATATTATATTATT
1 TTTATATTATATTATT
6955837 TTTATA-TATATTAT
1 TTTATATTATATTAT
6955851 GTAATTTAGA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATTATATTATT
Found at i:6958077 original size:22 final size:23
Alignment explanation
Indices: 6958050--6958101 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
6958040 GATTAGTGAT
6958050 TTAATATAAATATAA-ATATATAA
1 TTAATAT-AATATAACATATATAA
* *
6958073 -TAATATTATTTAACATATATAA
1 TTAATATAATATAACATATATAA
6958095 TTAATAT
1 TTAATAT
6958102 GATTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.20
22 14 0.56
23 6 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAATATAATATAACATATATAA
Found at i:6962479 original size:16 final size:16
Alignment explanation
Indices: 6962439--6962492 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
6962429 TTTGGTTCGC
*
6962439 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
6962455 TATATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
6962471 TGTAATGGAATAGATG
1 TGTAATGGATTAGAGG
6962487 TGTAAT
1 TGTAAT
6962493 AGCAAATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.37
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:6962537 original size:45 final size:44
Alignment explanation
Indices: 6962471--6962565 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
6962461 GGATTAGAGG
* * *
6962471 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
6962516 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
6962560 TGTAAT
1 TGTAAT
6962566 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:6962748 original size:18 final size:17
Alignment explanation
Indices: 6962727--6962761 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6962717 TTATTATTTA
*
6962727 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6962745 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6962762 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6962755 original size:28 final size:27
Alignment explanation
Indices: 6962685--6962757 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
6962675 TTTATTATCA
*
6962685 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
6962713 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
6962740 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
6962758 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:6962895 original size:18 final size:17
Alignment explanation
Indices: 6962874--6962908 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6962864 TTATTATTAA
*
6962874 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6962892 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6962909 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Done.