Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 30 of 205
Found at i:9027002 original size:19 final size:20
Alignment explanation
Indices: 9026958--9027002 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
9026948 AAAATAAAAA
9026958 TCAAAATAATTTTCAAGATT
1 TCAAAATAATTTTCAAGATT
* *
9026978 TTAAAATAATTTTTAA-ATT
1 TCAAAATAATTTTCAAGATT
9026997 TCAAAA
1 TCAAAA
9027003 CATTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (20 bp):
TCAAAATAATTTTCAAGATT
Found at i:9029800 original size:31 final size:31
Alignment explanation
Indices: 9029734--9029800 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
9029724 TTAACAGCCT
* *
9029734 AGTGACTTAAATAGAAAGTTTCAATTAATTT
1 AGTGACTTAAATAGAAAGTTTCAAATAATTC
* *
9029765 AGTGACTTAAAT-GAAAATTTTCAAATAGTTC
1 AGTGACTTAAATAG-AAAGTTTCAAATAATTC
9029796 AGTGA
1 AGTGA
9029801 TCATTTTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAGAAAGTTTCAAATAATTC
Found at i:9034369 original size:24 final size:23
Alignment explanation
Indices: 9034342--9034387 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
9034332 TTAGATTTTA
9034342 TTAGAAATAAACTATATATTAACT
1 TTAGAAATAAACTATAT-TTAACT
*
9034366 TTAGAAATAAATTATATTTAAC
1 TTAGAAATAAACTATATTTAAC
9034388 ATATACTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (23 bp):
TTAGAAATAAACTATATTTAACT
Found at i:9034392 original size:33 final size:33
Alignment explanation
Indices: 9034355--9034417 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
9034345 GAAATAAACT
* *
9034355 ATATATTAACTTTAGAA-ATAAATTATATTTAAC
1 ATATACTAACATTAGAATATAAATTA-ATTTAAC
*
9034388 ATATACTAACATTAGAATATAATTTAATTT
1 ATATACTAACATTAGAATATAAATTAATTT
9034418 GATAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 19 0.73
34 7 0.27
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (33 bp):
ATATACTAACATTAGAATATAAATTAATTTAAC
Found at i:9044605 original size:7 final size:7
Alignment explanation
Indices: 9044593--9044621 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
9044583 AATTTGGTGA
9044593 AACAAAC
1 AACAAAC
9044600 AACAAAC
1 AACAAAC
9044607 AACAAAC
1 AACAAAC
9044614 AACAAAC
1 AACAAAC
9044621 A
1 A
9044622 GCCGCCGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (7 bp):
AACAAAC
Found at i:9044876 original size:137 final size:136
Alignment explanation
Indices: 9044630--9044904 Score: 532
Period size: 137 Copynumber: 2.0 Consensus size: 136
9044620 CAGCCGCCGT
*
9044630 TGGTGGTCAAGGACAAAGCTTCATTAACACGATAAAGGCTTTAGCCTCAACATCAATAGAACATT
1 TGGTGGTCAAGGACAAAGCTTCATCAACACGATAAAGGCTTTAGCCTCAACATCAATAGAACATT
9044695 ACATCATGTTGACAACTGACTTTGTCATAACTCAAGTATGACATATCTGGAGTGATTGCAAGCAC
66 ACATCATGTTGACAACTGACTTTGTCATAACTCAAGTATGACATATCTGGAGTGATTGCAAGCAC
9044760 CTTATCA
131 C-TATCA
9044767 TGGTGGTCAAGGACAAAGCTTCATCAACACGATAAAGGCTTTAGCCTCAACATCAATAGAACATT
1 TGGTGGTCAAGGACAAAGCTTCATCAACACGATAAAGGCTTTAGCCTCAACATCAATAGAACATT
9044832 ACATCATGTTGACAACTGACTTTGTCATAACTCAAGTATGACATATCTGGAGTGATTGCAAGCAC
66 ACATCATGTTGACAACTGACTTTGTCATAACTCAAGTATGACATATCTGGAGTGATTGCAAGCAC
9044897 CTATCA
131 CTATCA
9044903 TG
1 TG
9044905 ATAAGGAAAC
Statistics
Matches: 137, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
136 7 0.05
137 130 0.95
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (136 bp):
TGGTGGTCAAGGACAAAGCTTCATCAACACGATAAAGGCTTTAGCCTCAACATCAATAGAACATT
ACATCATGTTGACAACTGACTTTGTCATAACTCAAGTATGACATATCTGGAGTGATTGCAAGCAC
CTATCA
Found at i:9044944 original size:43 final size:43
Alignment explanation
Indices: 9044879--9044969 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
9044869 ATGACATATC
9044879 TGGA-GTGATTGCAAGCACCTATCATGATAAGGAAACCAACAT
1 TGGATGTGATTGCAAGCACCTATCATGATAAGGAAACCAACAT
* *
9044921 TGGATGTGATTGGAAGCACCTATCATGATAATGAAACCAACAT
1 TGGATGTGATTGCAAGCACCTATCATGATAAGGAAACCAACAT
9044964 TGGATG
1 TGGATG
9044970 GTCCAAAGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 4 0.09
43 42 0.91
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.24
Consensus pattern (43 bp):
TGGATGTGATTGCAAGCACCTATCATGATAAGGAAACCAACAT
Found at i:9050051 original size:28 final size:28
Alignment explanation
Indices: 9050009--9050063 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
9049999 GCAAAGGGCT
9050009 TGAAGAATGTATCTAGTCTCCGACTAAG
1 TGAAGAATGTATCTAGTCTCCGACTAAG
*
9050037 TGAAGAATGTGTCTAGTCTCCGACTAA
1 TGAAGAATGTATCTAGTCTCCGACTAA
9050064 AACAAAATGC
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:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (28 bp):
TGAAGAATGTATCTAGTCTCCGACTAAG
Found at i:9051301 original size:16 final size:16
Alignment explanation
Indices: 9051275--9051312 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
9051265 TCCTTCCACT
9051275 ATTTCTCTTGATATGAA
1 ATTT-TCTTGATATGAA
9051292 ATTTTCTTGATATGAA
1 ATTTTCTTGATATGAA
9051308 ATTTT
1 ATTTT
9051313 AACAACATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.53
Consensus pattern (16 bp):
ATTTTCTTGATATGAA
Found at i:9054710 original size:22 final size:23
Alignment explanation
Indices: 9054663--9054717 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
9054653 TGAGGTTATG
* *
9054663 CTTAATTAAGTGGTTTAATTAGA
1 CTTAATTAAGTGATTTAATTAAA
9054686 CTTAATTAA-TGATTT-ATTAAAA
1 CTTAATTAAGTGATTTAATT-AAA
9054708 CTTAATTAAG
1 CTTAATTAAG
9054718 AAAGTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 16 0.57
23 9 0.32
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (23 bp):
CTTAATTAAGTGATTTAATTAAA
Found at i:9055589 original size:37 final size:37
Alignment explanation
Indices: 9055543--9055627 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
9055533 CTATTGATCC
*
9055543 TACTAAATGAAGCTCAATCGAGCAAATCTTACCATTA
1 TACTAAATGAAGCTCAATCGAGAAAATCTTACCATTA
* **
9055580 TACTGAATGAAGCTCAATCGAGAAAATCTTACTGTTA
1 TACTAAATGAAGCTCAATCGAGAAAATCTTACCATTA
*
9055617 TACTAAGTGAA
1 TACTAAATGAA
9055628 ACTCGAACGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (37 bp):
TACTAAATGAAGCTCAATCGAGAAAATCTTACCATTA
Found at i:9060952 original size:24 final size:24
Alignment explanation
Indices: 9060924--9060974 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
9060914 TATGTTAGAT
9060924 TTAAAAAGTGAACTGGTCCTTCTA
1 TTAAAAAGTGAACTGGTCCTTCTA
9060948 TTAAAAAGTGAACTGGTCCTTCTA
1 TTAAAAAGTGAACTGGTCCTTCTA
9060972 TTA
1 TTA
9060975 CAATTTAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (24 bp):
TTAAAAAGTGAACTGGTCCTTCTA
Found at i:9069184 original size:27 final size:28
Alignment explanation
Indices: 9069132--9069185 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
9069122 TTTGCCAATG
**
9069132 TTTAGTGAATTTAGGGTTCATTAGTTGC
1 TTTAGTGAATTTAGGGTTCACCAGTTGC
*
9069160 TTTAGTGAA-TTAGGGTTCGCCAGTTG
1 TTTAGTGAATTTAGGGTTCACCAGTTG
9069186 GTTGGTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.20, C:0.09, G:0.28, T:0.43
Consensus pattern (28 bp):
TTTAGTGAATTTAGGGTTCACCAGTTGC
Found at i:9069201 original size:26 final size:27
Alignment explanation
Indices: 9069172--9069236 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
9069162 TAGTGAATTA
* *
9069172 GGGTTCGCCAGTTGG-TTGGTGAGCTG
1 GGGTTCGCCAGTTGGTTTGGCGAACTG
*
9069198 GGGTTCGCTAGTTGGTTTGGCGAACTG
1 GGGTTCGCCAGTTGGTTTGGCGAACTG
9069225 GGGTTCGCCAGT
1 GGGTTCGCCAGT
9069237 ACAAGTCAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.09, C:0.17, G:0.43, T:0.31
Consensus pattern (27 bp):
GGGTTCGCCAGTTGGTTTGGCGAACTG
Found at i:9074475 original size:134 final size:134
Alignment explanation
Indices: 9074293--9074889 Score: 687
Period size: 134 Copynumber: 4.5 Consensus size: 134
9074283 GAAATATATT
* * *
9074293 AAACAGTTTGTTGATTTGCGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATTACAACC
1 AAACAGTTTGCTGATTTACGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACC
* * * *
9074358 TAAGTGT-ATTGATTTACGATCATAAACAA-TTTTATCTGAGTTAGTTGATTTACAATCACAACT
66 TAAGT-TCATTGATTTACAATCATGAACAAGTTCT-TCTGAGTTAGTTGATTTACAATCGCAACT
9074421 CCATTC
129 CCATTC
* * * *
9074427 AAACAGTTCGCTGATTTATGATCACAACTAATATTATTAAGGCTCGTTGATTTATGATCACAACC
1 AAACAGTTTGCTGATTTACGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACC
* * * * **
9074492 TAAGTTCATTTATTTATAATTATGAACAAGTTCTTCTGAATTAGTTGATTTATGATCGCAACTCC
66 TAAGTTCATTGATTTACAATCATGAACAAGTTCTTCTGAGTTAGTTGATTTACAATCGCAACTCC
9074557 ATTC
131 ATTC
* * * * * * *
9074561 CAATAGTTTGTTGATTTACGATTACGACTGATATTGTTAAGGCTCGCTAATTTATGATCACAACC
1 AAACAGTTTGCTGATTTACGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACC
*** * * * * *
9074626 TAAGTTCATTGATTTTTGACCATGAACAAGTTCTTCTAAGCTAGTTGATTTACGATCGCAACTTC
66 TAAGTTCATTGATTTACAATCATGAACAAGTTCTTCTGAGTTAGTTGATTTACAATCGCAACTCC
*
9074691 ATTT
131 ATTC
* * * * ** **
9074695 AAACAGTTTGCTAATTTATGATCATGACTAATATTATTAAGGCTTATTGATTTACAATCACAACC
1 AAACAGTTTGCTGATTTACGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACC
* * *
9074760 TAAGTTCATTGATTAACAATCATGAACAAGTTCTTCTGAGTAAGCTT-ATTTACAATCTCAACTC
66 TAAGTTCATTGATTTACAATCATGAACAAGTTCTTCTGAGTTAG-TTGATTTACAATCGCAACTC
*
9074824 TATTC
130 CATTC
** * ** *
9074829 AAACAGTTCACTAATTTACGATCACGACTGATGCTATTAAGGCTCGTTGATTTACGATCAC
1 AAACAGTTTGCTGATTTACGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCAC
9074890 GACTAATATT
Statistics
Matches: 383, Mismatches: 77, Indels: 6
0.82 0.17 0.01
Matches are distributed among these distances:
133 1 0.00
134 377 0.98
135 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (134 bp):
AAACAGTTTGCTGATTTACGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACC
TAAGTTCATTGATTTACAATCATGAACAAGTTCTTCTGAGTTAGTTGATTTACAATCGCAACTCC
ATTC
Found at i:9074882 original size:36 final size:36
Alignment explanation
Indices: 9074842--9074925 Score: 132
Period size: 36 Copynumber: 2.3 Consensus size: 36
9074832 CAGTTCACTA
* * *
9074842 ATTTACGATCACGACTGATGCTATTAAGGCTCGTTG
1 ATTTACGATCACGACTAATACTATTAAGGCTAGTTG
*
9074878 ATTTACGATCACGACTAATATTATTAAGGCTAGTTG
1 ATTTACGATCACGACTAATACTATTAAGGCTAGTTG
9074914 ATTTACGATCAC
1 ATTTACGATCAC
9074926 AACCTAAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (36 bp):
ATTTACGATCACGACTAATACTATTAAGGCTAGTTG
Found at i:9080289 original size:20 final size:20
Alignment explanation
Indices: 9080264--9080303 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9080254 AATATTTTCC
*
9080264 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
9080284 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
9080304 TCATTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:9083129 original size:17 final size:18
Alignment explanation
Indices: 9083091--9083131 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
9083081 GAAAAGATGA
9083091 TATTT-TCATCATTTAAT
1 TATTTATCATCATTTAAT
* *
9083108 AATTTATCATC-TTTTAT
1 TATTTATCATCATTTAAT
9083125 TATTTAT
1 TATTTAT
9083132 TCCTTCCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTATCATCATTTAAT
Found at i:9093622 original size:32 final size:32
Alignment explanation
Indices: 9093580--9093642 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
9093570 TTTAAGATCC
* *
9093580 AGTCTAAACAATCCTTTAAGCAAATTGCATCA
1 AGTCTAAACAACCCTTGAAGCAAATTGCATCA
* *
9093612 AGTCTCAACAACCCTTGAAGCAGATTGCATC
1 AGTCTAAACAACCCTTGAAGCAAATTGCATC
9093643 TGTTGAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (32 bp):
AGTCTAAACAACCCTTGAAGCAAATTGCATCA
Found at i:9096570 original size:133 final size:133
Alignment explanation
Indices: 9096317--9096709 Score: 646
Period size: 133 Copynumber: 3.0 Consensus size: 133
9096307 CATCTGCAAC
9096317 TTCAGGGAGATAGGACTGGTGGCTTAAATC-AGCTTCCCTACTACCTTGGGAAGATAAGATTCAC
1 TTCAGGGAGATAGGACTGGTGGCTTAAATCTA-CTTCCCTACTACCTTGGGAAGATAAGATTCAC
* *
9096381 CGTCT-TTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTATAATATTCAACCTACTCCACT
65 CGTCTCTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACT
9096445 ACTG
130 ACTG
* * *
9096449 TTCAAGGAGATAGGACTGGTGGTTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACT
1 TTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACC
* *
9096514 GTCTCTTGATCTGCTCCACTATTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCATTA
66 GTCTCTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTA
9096579 CTG
131 CTG
* * * *
9096582 CTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCTTACTATCTTGGGAAGATAAGATTCACC
1 TTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACC
* *
9096647 GTCTCTTGATCTGCTCTACTACTGCTTAGGGAGACAGGATCTTCAATCTTCAACCTACTCCAC
66 GTCTCTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCAC
9096710 CGTTGCTCAG
Statistics
Matches: 241, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
132 64 0.27
133 177 0.73
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (133 bp):
TTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACC
GTCTCTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTA
CTG
Found at i:9097052 original size:89 final size:89
Alignment explanation
Indices: 9096726--9097052 Score: 374
Period size: 89 Copynumber: 3.7 Consensus size: 89
9096716 TCAGTGAGAT
* * * * * * * *
9096726 AAGGCTGGTGTTTTCAATCTACTTCACTGCTAGTACAGGAATACAAGATAT-AT-TGCTTTCATT
1 AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-C-TTCATT
*
9096789 CTGCTCCGCTGTAAACTCAGGGAGGC
64 CTGCTCCGCTGCAAACTCAGGGAGGC
* * * * *
9096815 AAGGCTGGTGTATTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATCTTTATTTT
1 AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCATTCT
9096880 GCTCCG-TCGCAAACTCAGGGAGGC
66 GCTCCGCT-GCAAACTCAGGGAGGC
* *
9096904 AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCT
1 AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCATTCT
* * *
9096969 GCTCAGCTACAAACTCAAGGAGGTC
66 GCTCCGCTGCAAACTCAGGGAGG-C
* * * * *
9096994 -AGGCTGGTGTCTTCGATCTGCTTCGCTACCAGTACAGGAAGACCAGATCTGCTATCTTC
1 AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
9097053 TTCAATCCAT
Statistics
Matches: 206, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
88 1 0.00
89 200 0.97
90 4 0.02
91 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (89 bp):
AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCATTCT
GCTCCGCTGCAAACTCAGGGAGGC
Found at i:9100816 original size:28 final size:26
Alignment explanation
Indices: 9100754--9100828 Score: 88
Period size: 28 Copynumber: 3.0 Consensus size: 26
9100744 CAAAGGGTTT
9100754 TTTACCAAAAT-AT-TACAAAAAAAA
1 TTTACCAAAATAATATACAAAAAAAA
9100778 --TACCAAAATAATATACAAAAAAATTA
1 TTTACCAAAATAATATACAAAAAAA--A
*
9100804 TTTACCAAAATAATACA-AAAAAAAA
1 TTTACCAAAATAATATACAAAAAAAA
9100829 CAAATACGGC
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
22 9 0.20
23 2 0.05
24 10 0.23
25 1 0.02
26 1 0.02
27 7 0.16
28 14 0.32
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (26 bp):
TTTACCAAAATAATATACAAAAAAAA
Found at i:9101884 original size:151 final size:151
Alignment explanation
Indices: 9101606--9102104 Score: 829
Period size: 152 Copynumber: 3.3 Consensus size: 151
9101596 GTAGAACTCT
*
9101606 AAATTAAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGAAAAAAAAATACGAACATAGGGC
1 AAATT-AAAAAATAGTATATTTTTTAAAAGTAATAAAATCCG--AAAAAAATACGAACATAGGGC
*
9101671 CGAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAAT
63 CGAAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAAT
*
9101736 ATACTAAAATAATGTAAAATAAAAA
128 ATACTAAAATAATATAAAAT-AAAA
9101761 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAAAAAAATACGAACATAGGGCCGA
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAAAAAAATACGAACATAGGGCCGA
* *
9101826 AATAAGGG-TTTTTTAAAATTTATTTAAGAAAGACACTAAATTAATACATTTCAAATATAATTTA
66 AATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATATA
*
9101890 CTAAAATAATATAAAATTAAA
131 CTAAAATAATATAAAATAAAA
* * *
9101911 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGAAAAAAATACGAACATAGGACCA
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATC-CGAAAAAAATACGAACATAGGGCCG
* *
9101976 AAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTACTACATTTCAAATATAATGT
65 AAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATAT
9102041 ACTAAAATAATATAAAATAAAA
130 ACTAAAATAATATAAAATAAAA
* *
9102063 ATATTAAAAAATGGTATATTTTTTAAAAGTAATAAAATCCGA
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGA
9102105 GGAAAAAAAA
Statistics
Matches: 326, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
150 42 0.13
151 102 0.31
152 142 0.44
154 35 0.11
155 5 0.02
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (151 bp):
AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAAAAAAATACGAACATAGGGCCGA
AATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATATA
CTAAAATAATATAAAATAAAA
Found at i:9104485 original size:9 final size:9
Alignment explanation
Indices: 9104471--9104495 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9104461 TAAAATTGTG
9104471 AAATATAAC
1 AAATATAAC
9104480 AAATATAAC
1 AAATATAAC
9104489 AAATATA
1 AAATATA
9104496 TATGTATATA
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATATAAC
Found at i:9104522 original size:26 final size:26
Alignment explanation
Indices: 9104493--9104546 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
9104483 TATAACAAAT
*
9104493 ATATATGTATATATATAAATTATAAA
1 ATATATGTACATATATAAATTATAAA
* **
9104519 ATATATGTACATCTATGTATTATAAA
1 ATATATGTACATATATAAATTATAAA
9104545 AT
1 AT
9104547 GTATATAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (26 bp):
ATATATGTACATATATAAATTATAAA
Found at i:9109372 original size:27 final size:27
Alignment explanation
Indices: 9109337--9109389 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9109327 AAGATTAAGA
9109337 TATGAAAACAAAATTAA-AAATCGAAAC
1 TATGAAAACAAAATTAACAAA-CGAAAC
* *
9109364 TATGGAAACAAGATTAACAAACGAAA
1 TATGAAAACAAAATTAACAAACGAAA
9109390 ATCTTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.60, C:0.11, G:0.11, T:0.17
Consensus pattern (27 bp):
TATGAAAACAAAATTAACAAACGAAAC
Found at i:9113748 original size:17 final size:17
Alignment explanation
Indices: 9113694--9113748 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
9113684 CCTGGTTGGT
* *
9113694 TTTATTTATTTAAGTCA
1 TTTATTTATTTTAGTTA
* ** *
9113711 TTTTTTTATTTTTCTTG
1 TTTATTTATTTTAGTTA
9113728 TTTATTTATTTTAGTTA
1 TTTATTTATTTTAGTTA
9113745 TTTA
1 TTTA
9113749 AAGTATCTTA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.20, C:0.04, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTATTTATTTTAGTTA
Found at i:9127066 original size:35 final size:35
Alignment explanation
Indices: 9127020--9127089 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
9127010 TCGTATTATA
*
9127020 TAATACTATCAAACCCATGGTTCACCTCATGAATG
1 TAATACCATCAAACCCATGGTTCACCTCATGAATG
*
9127055 TAATACCATCAAACCCGTGGTTCACCTCATGAATG
1 TAATACCATCAAACCCATGGTTCACCTCATGAATG
9127090 GACTGACACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (35 bp):
TAATACCATCAAACCCATGGTTCACCTCATGAATG
Found at i:9132124 original size:16 final size:16
Alignment explanation
Indices: 9132103--9132170 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
9132093 TTTGGTTCGC
9132103 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9132119 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
9132135 TGTAATGGATTACAGG
1 TGTATTGGATTAGAGG
9132151 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9132167 TGTA
1 TGTA
9132171 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.26, C:0.01, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9132424 original size:16 final size:16
Alignment explanation
Indices: 9132387--9132428 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9132377 TTAATCATAT
*
9132387 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
9132403 TT-AAATATATTATAA
1 TTAAAATATATTATAA
9132418 TTAAAATATAT
1 TTAAAATATAT
9132429 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:9132435 original size:14 final size:15
Alignment explanation
Indices: 9132396--9132437 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9132386 TTTAAACATA
*
9132396 ATTATTATTAAATAT
1 ATTATAATTAAATAT
9132411 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
9132425 A-TATAATTTAATA
1 ATTATAATTAAATA
9132438 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:9132555 original size:14 final size:15
Alignment explanation
Indices: 9132506--9132557 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9132496 ATAAAATATA
9132506 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
9132521 TATTAAATATATTAT
1 AATTAAATATATTAT
9132536 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
9132549 AATTTAATA
1 AATTAAATA
9132558 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:9132668 original size:18 final size:18
Alignment explanation
Indices: 9132647--9132694 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
9132637 TTATTATTAA
9132647 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
9132665 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
9132682 -TAT-TAATAATTAA
1 ATATATTATAATTAA
9132695 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:9132675 original size:14 final size:15
Alignment explanation
Indices: 9132626--9132677 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9132616 ATAAAATATA
9132626 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
9132641 TATTAAATATATTAT
1 AATTAAATATATTAT
9132656 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
9132669 AATTTAATA
1 AATTAAATA
9132678 AAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:9132741 original size:120 final size:120
Alignment explanation
Indices: 9132390--9132711 Score: 628
Period size: 120 Copynumber: 2.7 Consensus size: 120
9132380 ATCATATTTA
9132390 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
9132455 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
9132510 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
9132575 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
9132630 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
9132695 TATTCTTATAT-AATTTA
66 TATTCTTATATGAATTTA
9132712 ATAAAACAAT
Statistics
Matches: 201, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
119 6 0.03
120 195 0.97
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:9135017 original size:12 final size:13
Alignment explanation
Indices: 9134989--9135022 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
9134979 TGGAGAAAGC
9134989 AAAGCAAAGGAAG
1 AAAGCAAAGGAAG
9135002 AAAGCAAAGG-AG
1 AAAGCAAAGGAAG
9135014 AAAGCAAAG
1 AAAGCAAAG
9135023 CAAAGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.62, C:0.09, G:0.29, T:0.00
Consensus pattern (13 bp):
AAAGCAAAGGAAG
Found at i:9135091 original size:19 final size:19
Alignment explanation
Indices: 9135067--9135103 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9135057 AATCGGGCGA
9135067 AACAGAAGAGGCAAAGGGG
1 AACAGAAGAGGCAAAGGGG
*
9135086 AACAGAAGAGGCAGAGGG
1 AACAGAAGAGGCAAAGGG
9135104 TAAAACAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.43, T:0.00
Consensus pattern (19 bp):
AACAGAAGAGGCAAAGGGG
Found at i:9145903 original size:17 final size:19
Alignment explanation
Indices: 9145873--9145907 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
9145863 TGTTCGAACC
9145873 ATATATACTCCACATTCAA
1 ATATATACTCCACATTCAA
9145892 ATATATA-T-CACATTCA
1 ATATATACTCCACATTCA
9145908 GTCATACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (19 bp):
ATATATACTCCACATTCAA
Found at i:9146793 original size:12 final size:14
Alignment explanation
Indices: 9146755--9146790 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
9146745 GACTCTATTT
9146755 TAATTATATTAAGA
1 TAATTATATTAAGA
9146769 TAATTAATATTAAGA
1 TAATT-ATATTAAGA
9146784 TAATTAT
1 TAATTAT
9146791 TAAAGATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
TAATTATATTAAGA
Found at i:9149005 original size:13 final size:13
Alignment explanation
Indices: 9148987--9149011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9148977 ACAAACGATA
9148987 AAATTTTCACACG
1 AAATTTTCACACG
9149000 AAATTTTCACAC
1 AAATTTTCACAC
9149012 ATATAAATCA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:9149337 original size:25 final size:25
Alignment explanation
Indices: 9149293--9149486 Score: 143
Period size: 25 Copynumber: 8.0 Consensus size: 25
9149283 GTCCTCTTTC
*
9149293 GAGCCATATAACGTGG-AGCTCATGT
1 GAGCCATATAACG-GGAAGCTCATAT
* *
9149318 GAGCCATGTAACGGGAAGCTTATAT
1 GAGCCATATAACGGGAAGCTCATAT
* **
9149343 GGGCTGTATAACGGGAAGCTCATAAT
1 GAGCCATATAACGGGAAGCTCAT-AT
* * *
9149369 -AGCCATA-ATCAGAAAGCTCATAT
1 GAGCCATATAACGGGAAGCTCATAT
* ** *
9149392 GAGCCA-ATAACGGGTAGCTCCGAA
1 GAGCCATATAACGGGAAGCTCATAT
*
9149416 GAGCCAT-TAACGGGAAGCTCCAAAT
1 GAGCCATATAACGGGAAGCT-CATAT
* * * *
9149441 -AGCCATATATCGGGAAGTTCAAAC
1 GAGCCATATAACGGGAAGCTCATAT
9149465 GAGCCATAT--CGGGAAGCTCATA
1 GAGCCATATAACGGGAAGCTCATA
9149487 AAGAGACTTT
Statistics
Matches: 131, Mismatches: 30, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
23 14 0.11
24 54 0.41
25 61 0.47
26 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAT
Found at i:9149434 original size:48 final size:47
Alignment explanation
Indices: 9149326--9149486 Score: 121
Period size: 48 Copynumber: 3.3 Consensus size: 47
9149316 GTGAGCCATG
* * ** *
9149326 TAACGGGAAGCTTATATGGGCTGTATAACGGGAAGCT-CATAATAGCCA
1 TAACGGGAAGCTCATATGAGC-CAATAACGGGAAGCTCCA-AAGAGCCA
* * * *
9149374 TAATCAGAAAGCTCATATGAGCCAATAACGGGTAGCTCCGAAGAGCCA
1 TAA-CGGGAAGCTCATATGAGCCAATAACGGGAAGCTCCAAAGAGCCA
* * *
9149422 TTAACGGGAAGCTCCAAAT-AGCCATATATCGGGAAG-TTCAAACGAGCCA
1 -TAACGGGAAGCT-CATATGAGCCA-ATAACGGGAAGCTCCAAA-GAGCCA
*
9149471 TATCGGGAAGCTCATA
1 TAACGGGAAGCTCATA
9149487 AAGAGACTTT
Statistics
Matches: 89, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
47 3 0.03
48 49 0.55
49 37 0.42
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (47 bp):
TAACGGGAAGCTCATATGAGCCAATAACGGGAAGCTCCAAAGAGCCA
Found at i:9155947 original size:22 final size:21
Alignment explanation
Indices: 9155922--9155970 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
9155912 TTATATTAAA
*
9155922 TTATAAATATTGAAAAAT-TATT
1 TTATAAATA-T-AAAAATACATT
9155944 TTATTAAATATAAAAATACATT
1 TTA-TAAATATAAAAATACATT
9155966 TTATA
1 TTATA
9155971 TCCAATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 8 0.33
22 10 0.42
23 6 0.25
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TTATAAATATAAAAATACATT
Found at i:9162549 original size:21 final size:21
Alignment explanation
Indices: 9162520--9162559 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9162510 TATTTAAGCT
9162520 TTTACAATCCAATTAGTATGAG
1 TTTACAATCCAATTA-TATGAG
*
9162542 TTTA-AATCTAATTATATG
1 TTTACAATCCAATTATATG
9162560 CATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTACAATCCAATTATATGAG
Found at i:9163068 original size:26 final size:25
Alignment explanation
Indices: 9163032--9163107 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 25
9163022 ATATAAATCC
* * *
9163032 AATATAAAAAATTTATAATCTACAAA
1 AATATATAAAATTTAAAATATA-AAA
9163058 AATATATAAAAATTTTAAAATATAAAA
1 AATATAT-AAAA-TTTAAAATATAAAA
* *
9163085 AAGAAATAAAATTTAAATATATA
1 AATATATAAAATTTAAA-ATATA
9163108 GAAACTGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
25 6 0.14
26 15 0.36
27 12 0.29
28 9 0.21
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (25 bp):
AATATATAAAATTTAAAATATAAAA
Found at i:9163086 original size:28 final size:28
Alignment explanation
Indices: 9163033--9163086 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
9163023 TATAAATCCA
* * *
9163033 ATATAAAAAATTTATAATCTACAAAAAT
1 ATATAAAAAATTTAAAATATAAAAAAAT
*
9163061 ATATAAAAATTTTAAAATATAAAAAA
1 ATATAAAAAATTTAAAATATAAAAAA
9163087 GAAATAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (28 bp):
ATATAAAAAATTTAAAATATAAAAAAAT
Found at i:9167577 original size:5 final size:6
Alignment explanation
Indices: 9167550--9167576 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9167540 TGGTTTTTAT
9167550 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
9167577 TCATCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:9179859 original size:5 final size:5
Alignment explanation
Indices: 9179849--9179895 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
9179839 AGAGTTGCCC
*
9179849 ATAAT ATAAT ATAGT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
9179896 TGCAACTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:9182593 original size:22 final size:24
Alignment explanation
Indices: 9182569--9182613 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
9182559 ATTTAAACTT
*
9182569 AAATTTACATG-TATTTAAAAATA
1 AAATTCACATGCTATTTAAAAATA
9182592 AAATTCACATGCTA-TTAAAAAT
1 AAATTCACATGCTATTTAAAAAT
9182614 TCATATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATTCACATGCTATTTAAAAATA
Found at i:9183184 original size:31 final size:29
Alignment explanation
Indices: 9183149--9183219 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
9183139 TTAAATTAGT
* *
9183149 AATGATAAAATTGTACTTTAGTCTCCTTAAA
1 AATGATAAAATT-TAATTTAATC-CCTTAAA
*
9183180 AATGATAAAAATTTAATTTAATCCTTTAAA
1 AATGAT-AAAATTTAATTTAATCCCTTAAA
*
9183210 AATTATAAAA
1 AATGATAAAA
9183220 ATATAGACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 4 0.11
30 11 0.31
31 14 0.40
32 6 0.17
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (29 bp):
AATGATAAAATTTAATTTAATCCCTTAAA
Found at i:9183211 original size:30 final size:32
Alignment explanation
Indices: 9183149--9183221 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 32
9183139 TTAAATTAGT
* *
9183149 AATGAT-AAAATTGTACTTTAGTCTCCTTAAA
1 AATGATAAAAATTGTAATTTAATCTCCTTAAA
*
9183180 AATGATAAAAATT-TAATTTAATC-CTTTAAA
1 AATGATAAAAATTGTAATTTAATCTCCTTAAA
*
9183210 AATTATAAAAAT
1 AATGATAAAAAT
9183222 ATAGACTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 17 0.46
31 14 0.38
32 6 0.16
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.38
Consensus pattern (32 bp):
AATGATAAAAATTGTAATTTAATCTCCTTAAA
Found at i:9189218 original size:31 final size:29
Alignment explanation
Indices: 9189141--9189221 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
9189131 CTTTTTTTGC
9189141 TCAAAT-T-ACATTTTAGTCACTTATGTT
1 TCAAATGTAACATTTTAGTCACTTATGTT
* * *
9189168 TGAAATGTTACGTTTTAGTCACTTATGTT
1 TCAAATGTAACATTTTAGTCACTTATGTT
**
9189197 ATCACGTTGTAACATTTTAGTCACT
1 -TCA-AATGTAACATTTTAGTCACT
9189222 GAGCCGTTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 19 0.44
30 2 0.05
31 16 0.37
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (29 bp):
TCAAATGTAACATTTTAGTCACTTATGTT
Found at i:9191497 original size:11 final size:11
Alignment explanation
Indices: 9191481--9191575 Score: 67
Period size: 11 Copynumber: 8.9 Consensus size: 11
9191471 CTTGACAACA
9191481 TCTCAATTTCC
1 TCTCAATTTCC
*
9191492 TCTCAATTTGC
1 TCTCAATTTCC
9191503 TCTCAATTTCC
1 TCTCAATTTCC
9191514 T-TCCAAATTT-C
1 TCT-C-AATTTCC
*
9191525 TCTCAA-ATCC
1 TCTCAATTTCC
**
9191535 -CT--ATTTAA
1 TCTCAATTTCC
*
9191543 TCTCAATTTGC
1 TCTCAATTTCC
*
9191554 TCTCAATTTGC
1 TCTCAATTTCC
9191565 TCTCAAATTTC
1 TCTC-AATTTC
9191576 TCTTAAATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 5 0.08
10 4 0.06
11 44 0.67
12 11 0.17
ACGTcount: A:0.23, C:0.29, G:0.03, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:9191506 original size:22 final size:22
Alignment explanation
Indices: 9191481--9191575 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
9191471 CTTGACAACA
9191481 TCTCAATTTCCTCTCAATTTGC
1 TCTCAATTTCCTCTCAATTTGC
9191503 TCTCAATTTCCT-TCCAAATTT-C
1 TCTCAATTTCCTCT-C-AATTTGC
* **
9191525 TCTCAA-ATCC-CT--ATTTAA
1 TCTCAATTTCCTCTCAATTTGC
*
9191543 TCTCAATTTGCTCTCAATTTGC
1 TCTCAATTTCCTCTCAATTTGC
9191565 TCTCAAATTTC
1 TCTC-AATTTC
9191576 TCTTAAATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
17 4 0.07
18 6 0.11
19 2 0.04
20 2 0.04
21 5 0.09
22 28 0.49
23 10 0.18
ACGTcount: A:0.23, C:0.29, G:0.03, T:0.44
Consensus pattern (22 bp):
TCTCAATTTCCTCTCAATTTGC
Found at i:9191583 original size:11 final size:12
Alignment explanation
Indices: 9191543--9191583 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
9191533 CCCTATTTAA
9191543 TCTC-AATTTGC
1 TCTCAAATTTGC
9191554 TCTC-AATTTGC
1 TCTCAAATTTGC
9191565 TCTCAAATTT-C
1 TCTCAAATTTGC
*
9191576 TCTTAAAT
1 TCTCAAAT
9191584 ATTTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 23 0.82
12 5 0.18
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.46
Consensus pattern (12 bp):
TCTCAAATTTGC
Found at i:9193443 original size:18 final size:18
Alignment explanation
Indices: 9193420--9193462 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9193410 TGCCAGGTGC
* *
9193420 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
9193438 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
9193456 GTTTCCT
1 GTATCCT
9193463 TTTCTGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:9193743 original size:21 final size:21
Alignment explanation
Indices: 9193719--9193764 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
9193709 GATACCCTAT
* *
9193719 CGGAGGAACCAGAATCCCCGC
1 CGGAGCAACCAGAACCCCCGC
*
9193740 CGGAGCAACCATAACCCCCGC
1 CGGAGCAACCAGAACCCCCGC
9193761 CGGA
1 CGGA
9193765 AGCTGGACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.41, G:0.26, T:0.04
Consensus pattern (21 bp):
CGGAGCAACCAGAACCCCCGC
Found at i:9194467 original size:230 final size:230
Alignment explanation
Indices: 9194025--9194790 Score: 1264
Period size: 229 Copynumber: 3.3 Consensus size: 230
9194015 TCATATTTTG
* *
9194025 AAAAATAATAAACACAAAAACTAATCCAATTTTGAAAATTTTATAAATAATTTAATTGACAAACC
1 AAAAATAATAAACACAAAAACTAATCCAATTTTGAAATTTTTTTAAATAATTTAATTGACAAACC
9194090 CTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACCAAAAC
66 CTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACCAAAAC
*
9194155 CCTAACAAAATCCCTAACCCTAACCCTAATCTAATTTTTAAAATTTTTTAATTAAATTACTCAAG
131 CCTAACAAAAACCCTAACCCTAACCCTAATCTAATTTTTAAAATTTTTTAATTAAATTACTCAAG
*
9194220 TAACCCGAAACCACAATTTAATTAATTTTTTCTTA
196 TAACCCTAAACCACAATTTAATTAATTTTTTCTTA
* *
9194255 AAAAATAATAAACACGAAAACTAATCCAATTTT-TAATTTTTTTAAATAATTTAATTGACAAACC
1 AAAAATAATAAACACAAAAACTAATCCAATTTTGAAATTTTTTTAAATAATTTAATTGACAAACC
*
9194319 CTAAACTCTAAACTCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACCAAAAC
66 CTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACCAAAAC
9194384 CCTAACAAAAACCCTAACCCTAACCCTAATCTAATTTTTAAAAATTTTTTAATTAAATTACTCAA
131 CCTAACAAAAACCCTAACCCTAACCCTAATCTAATTTTT-AAAATTTTTTAATTAAATTACTCAA
*
9194449 GTAACCCTAAATCACAATTTAATTAATTTTTTCTTA
195 GTAACCCTAAACCACAATTTAATTAATTTTTTCTTA
* * *
9194485 AAAAATAATAAACACGAAAACTAATCCAATTTTGAAATTTTTTTCAATAATTTAATTGACAAATC
1 AAAAATAATAAACACAAAAACTAATCCAATTTTGAAATTTTTTTAAATAATTTAATTGACAAACC
*
9194550 CTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACTAAAAC
66 CTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACCAAAAC
* ** *
9194615 CCTAACAAAAACCCTAACCCTAACCCTAACCCTAATTTGATTTTTAATTTTTTAATTAAATTATT
131 CCTAACAAAAACCCTAACCCTAACCCTAA-TCTAA-TT--TTTAAAATTTTTTAATTAAATTACT
* * * *
9194680 CAAATAACCCTAAACCATAATTTAATTGATTTTTCCTTA
192 CAAGTAACCCTAAACCACAATTTAATTAATTTTTTCTTA
* * * *
9194719 AAAATTAATAAACACAAAAACTAATCTAATTTCGAAATTTTTTTAAATTATTTAATTGACAAACC
1 AAAAATAATAAACACAAAAACTAATCCAATTTTGAAATTTTTTTAAATAATTTAATTGACAAACC
9194784 CTAAACT
66 CTAAACT
9194791 AGAGGTGTTC
Statistics
Matches: 501, Mismatches: 29, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
229 130 0.26
230 124 0.25
231 120 0.24
232 4 0.01
233 2 0.00
234 118 0.24
235 3 0.01
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (230 bp):
AAAAATAATAAACACAAAAACTAATCCAATTTTGAAATTTTTTTAAATAATTTAATTGACAAACC
CTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACCAAAAC
CCTAACAAAAACCCTAACCCTAACCCTAATCTAATTTTTAAAATTTTTTAATTAAATTACTCAAG
TAACCCTAAACCACAATTTAATTAATTTTTTCTTA
Found at i:9194635 original size:6 final size:6
Alignment explanation
Indices: 9194624--9194649 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9194614 CCCTAACAAA
9194624 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
9194650 TTTGATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:9195297 original size:15 final size:15
Alignment explanation
Indices: 9195279--9195311 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9195269 CATAAACCAT
*
9195279 AAACCCTAAAACCTA
1 AAACCCTAAAACCCA
9195294 AAACCCTAAAACCCA
1 AAACCCTAAAACCCA
9195309 AAA
1 AAA
9195312 ACGAGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.33, G:0.00, T:0.09
Consensus pattern (15 bp):
AAACCCTAAAACCCA
Found at i:9195301 original size:8 final size:8
Alignment explanation
Indices: 9195279--9195313 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
9195269 CATAAACCAT
9195279 AAACCCTA
1 AAACCCTA
9195287 AAA-CCTA
1 AAACCCTA
9195294 AAACCCTA
1 AAACCCTA
*
9195302 AAACCCAA
1 AAACCCTA
9195310 AAAC
1 AAAC
9195314 GAGAAAAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.57, C:0.34, G:0.00, T:0.09
Consensus pattern (8 bp):
AAACCCTA
Found at i:9198726 original size:4 final size:4
Alignment explanation
Indices: 9198717--9198760 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
9198707 TTTACATGCT
*
9198717 TACA TACA TACA TACA TACA TACA TACA TACA TACA TCCA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
9198761 CCCTTTTGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:9200876 original size:151 final size:151
Alignment explanation
Indices: 9200602--9200902 Score: 548
Period size: 151 Copynumber: 2.0 Consensus size: 151
9200592 AAAAAGTAGG
* * *
9200602 GAATTTCAAGTAGTTTTTGAGATAGGGAAGATGTCTAATATTTTTAAAGTTTTAAATTCGCTACT
1 GAATTTCAAGTAGTTTTTGAAATAGGGAAGATGGCTAATATTTTTAAAGCTTTAAATTCGCTACT
*
9200667 TGGATTATTTATGCTGTTTAGTATTATTTTAGTGTGAATTTTCAATGTATGATTATCTGTAAATT
66 TGGATTATCTATGCTGTTTAGTATTATTTTAGTGTGAATTTTCAATGTATGATTATCTGTAAATT
9200732 ATACTAAGACAATATCAGTGT
131 ATACTAAGACAATATCAGTGT
9200753 GAATTTCAAGTAGTTTTTGAAATAGGGAAGATGGCTAATATTTTTAAAGCTTTAAATTCGCTACT
1 GAATTTCAAGTAGTTTTTGAAATAGGGAAGATGGCTAATATTTTTAAAGCTTTAAATTCGCTACT
*
9200818 TGGATTGTCTATGCTGTTTAGTATTATTTTAGTGTGAATTTTCAATGTATGATTATCTGTAAATT
66 TGGATTATCTATGCTGTTTAGTATTATTTTAGTGTGAATTTTCAATGTATGATTATCTGTAAATT
*
9200883 ATATTAAGACAATATCAGTG
131 ATACTAAGACAATATCAGTG
9200903 AAAACAATTA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
151 144 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.44
Consensus pattern (151 bp):
GAATTTCAAGTAGTTTTTGAAATAGGGAAGATGGCTAATATTTTTAAAGCTTTAAATTCGCTACT
TGGATTATCTATGCTGTTTAGTATTATTTTAGTGTGAATTTTCAATGTATGATTATCTGTAAATT
ATACTAAGACAATATCAGTGT
Found at i:9202394 original size:17 final size:18
Alignment explanation
Indices: 9202361--9202398 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
9202351 AAAACTTAAA
9202361 ATTTTTATATAAAAATGT
1 ATTTTTATATAAAAATGT
9202379 ATTTTTA-A-AAATAATGT
1 ATTTTTATATAAA-AATGT
9202396 ATT
1 ATT
9202399 GATTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 9 0.47
18 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
ATTTTTATATAAAAATGT
Found at i:9204269 original size:21 final size:22
Alignment explanation
Indices: 9204239--9204283 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
9204229 GAACAAATTG
9204239 TTGATTCTATTTCTTTCTTG-AT
1 TTGATTCTA-TTCTTTCTTGTAT
*
9204261 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCTTTCTTGTAT
9204282 TT
1 TT
9204284 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCTTTCTTGTAT
Found at i:9204666 original size:21 final size:22
Alignment explanation
Indices: 9204626--9204680 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
9204616 AAAGCTTAAG
*
9204626 TTTGGAAACTTGATTGTGAAAA
1 TTTGGAAACTTAATTGTGAAAA
*
9204648 TTTGAAAACTTAATT-TGAAAA
1 TTTGGAAACTTAATTGTGAAAA
9204669 TTTGGAAACTTA
1 TTTGGAAACTTA
9204681 GAAATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.38
Consensus pattern (22 bp):
TTTGGAAACTTAATTGTGAAAA
Found at i:9204959 original size:35 final size:35
Alignment explanation
Indices: 9204915--9205081 Score: 239
Period size: 35 Copynumber: 4.8 Consensus size: 35
9204905 TTCACTTGTC
* * *
9204915 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
9204950 TTTTGTTGCAAGGAATCTCTCCTGTTCACAC-TTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATT-A
* *
9204985 -TTTCTTACAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
9205019 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
9205054 TGTTGTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA
9205082 TGTATCATTT
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
34 29 0.25
35 88 0.75
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:9205016 original size:69 final size:69
Alignment explanation
Indices: 9204916--9205081 Score: 253
Period size: 69 Copynumber: 2.4 Consensus size: 69
9204906 TCACTTGTCT
* *
9204916 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCACAC
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCACAC
9204981 -TTCA
66 ATT-A
* * *
9204985 TTTCTTACAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACGC
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCACAC
9205050 ATTA
66 ATTA
*
9205054 TGTTGTTGCAGGGAATCTCTCCTGTTCA
1 T-TTCTTGCAGGGAATCTCTCCTGTTCA
9205082 TGTATCATTT
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
69 62 0.70
70 26 0.30
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (69 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCACAC
ATTA
Found at i:9207922 original size:21 final size:22
Alignment explanation
Indices: 9207892--9207936 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
9207882 GAGCAAATTG
9207892 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
9207914 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
9207935 TT
1 TT
9207937 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:9211544 original size:789 final size:789
Alignment explanation
Indices: 9210025--9211602 Score: 3057
Period size: 789 Copynumber: 2.0 Consensus size: 789
9210015 TTTTGCTTAT
*
9210025 TTTTGTTGGAATAGAAGTGCTTTCTACACCATTCTTTATTTATTTCAAACAATTTTTCTAAAACA
1 TTTTGTTGGAATAGAACTGCTTTCTACACCATTCTTTATTTATTTCAAACAATTTTTCTAAAACA
9210090 AATATTTCTGAATTTTCTCTTTGTCTTGCATTATTAGTCATTGATGAATAAGTTGGTGACATGTT
66 AATATTTCTGAATTTTCTCTTTGTCTTGCATTATTAGTCATTGATGAATAAGTTGGTGACATGTT
*
9210155 AGGTGAATTTTGGGGACTCTCTTCTTGTCTGGCATAGATAGGTTGAGCTATATTTGAGGAATTAT
131 AGGTGAATTTTGGGGACTCTCTTCCTGTCTGGCATAGATAGGTTGAGCTATATTTGAGGAATTAT
9210220 CTATTCCTTGTAAATTGGTCCTAAATGTTGTTGGGATAGAAGAGACAGAGGCTCTGGCTGTCCTA
196 CTATTCCTTGTAAATTGGTCCTAAATGTTGTTGGGATAGAAGAGACAGAGGCTCTGGCTGTCCTA
9210285 AAATCTACTGTTTGTGTTTCTGGATTTGACTCTTCTTCTATATTTAACCTCCTAAAAGCTGTGCT
261 AAATCTACTGTTTGTGTTTCTGGATTTGACTCTTCTTCTATATTTAACCTCCTAAAAGCTGTGCT
*
9210350 GGTACTTCCTATTTCGAAGGAGTGTCTTGGAGGCATTCTTTGTGGCCTATTGAATTTTAATTCAA
326 GGTACTTCCTATTTCGAAGGAGTATCTTGGAGGCATTCTTTGTGGCCTATTGAATTTTAATTCAA
9210415 CTGTGCCATCTTGGTGCTGAGAAATTTCACTTAATGAAGTGTTTCTTATGGGGGTTGGTGCCACA
391 CTGTGCCATCTTGGTGCTGAGAAATTTCACTTAATGAAGTGTTTCTTATGGGGGTTGGTGCCACA
*
9210480 GGGTCTGTAGCACCTTCAAGTTTCCACTTATCAGGAAGGTTTATCTCATGCCATTGTATTGTTCT
456 GGGTCTGTAGCACCTTCAAGTTTCCACTTATCACGAAGGTTTATCTCATGCCATTGTATTGTTCT
9210545 GGGGATTGTAGTATGAGATCTTGTGGTGTCTGTCTCTATTAAGAGGGTTTCTCCTTTTGGGCTTT
521 GGGGATTGTAGTATGAGATCTTGTGGTGTCTGTCTCTATTAAGAGGGTTTCTCCTTTTGGGCTTT
**
9210610 GGAGTAAAGCCTTGGTATTAACTACAGAATACATGGCTTTGAAATGGAGTCTATAAACCAAAGTT
586 GGAGTAAAGCCTTGGTATTAACTACAGAATACATAACTTTGAAATGGAGTCTATAAACCAAAGTT
9210675 AATACTTCTGTACCAGGAAGCATTTTGTAGTTATGGTTATGTATTTGGAGTGTCAAAGATTGTAA
651 AATACTTCTGTACCAGGAAGCATTTTGTAGTTATGGTTATGTATTTGGAGTGTCAAAGATTGTAA
9210740 AATATTTTTATCAGTCAAAGACACATCATGTTTAATGACTCATTATTAGGAACTATAGAAACAAG
716 AATATTTTTATCAGTCAAAGACACATCATGTTTAATGACTCATTATTAGGAACTATAGAAACAAG
9210805 CCTATGTAC
781 CCTATGTAC
*
9210814 TTTTGTTGGAATAGAACTTCTTTCTACACCATTCTTTATTTATTTCAAACAATTTTTCTAAAACA
1 TTTTGTTGGAATAGAACTGCTTTCTACACCATTCTTTATTTATTTCAAACAATTTTTCTAAAACA
9210879 AATATTTCTGAATTTTCTCTTTGTCTTGCATTATTAGTCATTGATGAATAAGTTGGTGACATGTT
66 AATATTTCTGAATTTTCTCTTTGTCTTGCATTATTAGTCATTGATGAATAAGTTGGTGACATGTT
9210944 AGGTGAATTTTGGGGACTCTCTTCCTGTCTGGCATAGATAGGTTGAGCTATATTTGAGGAATTAT
131 AGGTGAATTTTGGGGACTCTCTTCCTGTCTGGCATAGATAGGTTGAGCTATATTTGAGGAATTAT
9211009 CTATTCCTTGTAAATTGGTCCTAAATGTTGTTGGGATAGAAGAGACAGAGGCTCTGGCTGTCCTA
196 CTATTCCTTGTAAATTGGTCCTAAATGTTGTTGGGATAGAAGAGACAGAGGCTCTGGCTGTCCTA
*
9211074 AAATCTACTGTTTGTGTTTCTGGATTTGACTCTTCTTCTATATTTAACCTCTTAAAAGCTGTGCT
261 AAATCTACTGTTTGTGTTTCTGGATTTGACTCTTCTTCTATATTTAACCTCCTAAAAGCTGTGCT
* *
9211139 GGTACTTCCTATTTCGAATGAGTATCTTGGAGGCATTCTTTGTGGCCTATTGAATTTTAATTCGA
326 GGTACTTCCTATTTCGAAGGAGTATCTTGGAGGCATTCTTTGTGGCCTATTGAATTTTAATTCAA
9211204 CTGTGCCATCTTGGTGCTGAGAAATTTCACTTAATGAAGTGTTTCTTATGGGGGTTGGTGCCACA
391 CTGTGCCATCTTGGTGCTGAGAAATTTCACTTAATGAAGTGTTTCTTATGGGGGTTGGTGCCACA
9211269 GGGTCTGTAGCACCTTCAAGTTTCCACTTATCACGAAGGTTTATCTCATGCCATTGTATTGTTCT
456 GGGTCTGTAGCACCTTCAAGTTTCCACTTATCACGAAGGTTTATCTCATGCCATTGTATTGTTCT
*
9211334 GGGGATTGTGGTATGAGATCTTGTGGTGTCTGTCTCTATTAAGAGGGTTTCTCCTTTTGGGCTTT
521 GGGGATTGTAGTATGAGATCTTGTGGTGTCTGTCTCTATTAAGAGGGTTTCTCCTTTTGGGCTTT
9211399 GGAGTAAAGCCTTGGTATTAACTACAGAATACATAACTTTGAAATGGAGTCTATAAACCAAAGTT
586 GGAGTAAAGCCTTGGTATTAACTACAGAATACATAACTTTGAAATGGAGTCTATAAACCAAAGTT
9211464 AATACTTCTGTACCAGGAAGCATTTTGTAGTTATGGTTATGTATTTGGAGTGTCAAAGATTGTAA
651 AATACTTCTGTACCAGGAAGCATTTTGTAGTTATGGTTATGTATTTGGAGTGTCAAAGATTGTAA
9211529 AATATTTTTATCAGTCAAAGACACATCATGTTTAATGACTCATTATTAGGAACTATAGAAACAAG
716 AATATTTTTATCAGTCAAAGACACATCATGTTTAATGACTCATTATTAGGAACTATAGAAACAAG
9211594 CCTATGTAC
781 CCTATGTAC
9211603 AGGCCCAATA
Statistics
Matches: 778, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
789 778 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.39
Consensus pattern (789 bp):
TTTTGTTGGAATAGAACTGCTTTCTACACCATTCTTTATTTATTTCAAACAATTTTTCTAAAACA
AATATTTCTGAATTTTCTCTTTGTCTTGCATTATTAGTCATTGATGAATAAGTTGGTGACATGTT
AGGTGAATTTTGGGGACTCTCTTCCTGTCTGGCATAGATAGGTTGAGCTATATTTGAGGAATTAT
CTATTCCTTGTAAATTGGTCCTAAATGTTGTTGGGATAGAAGAGACAGAGGCTCTGGCTGTCCTA
AAATCTACTGTTTGTGTTTCTGGATTTGACTCTTCTTCTATATTTAACCTCCTAAAAGCTGTGCT
GGTACTTCCTATTTCGAAGGAGTATCTTGGAGGCATTCTTTGTGGCCTATTGAATTTTAATTCAA
CTGTGCCATCTTGGTGCTGAGAAATTTCACTTAATGAAGTGTTTCTTATGGGGGTTGGTGCCACA
GGGTCTGTAGCACCTTCAAGTTTCCACTTATCACGAAGGTTTATCTCATGCCATTGTATTGTTCT
GGGGATTGTAGTATGAGATCTTGTGGTGTCTGTCTCTATTAAGAGGGTTTCTCCTTTTGGGCTTT
GGAGTAAAGCCTTGGTATTAACTACAGAATACATAACTTTGAAATGGAGTCTATAAACCAAAGTT
AATACTTCTGTACCAGGAAGCATTTTGTAGTTATGGTTATGTATTTGGAGTGTCAAAGATTGTAA
AATATTTTTATCAGTCAAAGACACATCATGTTTAATGACTCATTATTAGGAACTATAGAAACAAG
CCTATGTAC
Found at i:9211896 original size:35 final size:35
Alignment explanation
Indices: 9211833--9211927 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
9211823 TTCACTTGTC
* * * * *
9211833 TTTTCTTGCAGGGAATATTTCCTATTCACTCGTTA
1 TTTTCTTGCAGGGAATCTCTCCTATTCACACATCA
* *
9211868 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTTTCTTGCAGGGAATCTCTCCTATTCACACATCA
*
9211903 -TTTCTTGTAGGGAATCTCTCCTATT
1 TTTTCTTGCAGGGAATCTCTCCTATT
9211928 ACGAAATCGG
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 22 0.44
35 28 0.56
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (35 bp):
TTTTCTTGCAGGGAATCTCTCCTATTCACACATCA
Found at i:9213178 original size:37 final size:38
Alignment explanation
Indices: 9213113--9213191 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 38
9213103 TGTCAATTTA
* * *
9213113 TTACTTCGGATTTATTCGATGAGGCACTGGGTGGCAAT
1 TTACTTCGGATTTAATCAATGAGACACTGGGTGGCAAT
*
9213151 TTACTTCGG-TTTAATCAATGAGACACTGGGTGTCAAT
1 TTACTTCGGATTTAATCAATGAGACACTGGGTGGCAAT
9213188 TTAC
1 TTAC
9213192 CACTTCGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 28 0.76
38 9 0.24
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (38 bp):
TTACTTCGGATTTAATCAATGAGACACTGGGTGGCAAT
Found at i:9213971 original size:21 final size:20
Alignment explanation
Indices: 9213929--9213971 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
9213919 ATTTAAAATG
* * *
9213929 ATGATTTGAATGATGTTTTA
1 ATGATATGAATGATGATGTA
9213949 ATGATATGAAATGATGATGTA
1 ATGATATG-AATGATGATGTA
9213970 AT
1 AT
9213972 TGTGGTACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (20 bp):
ATGATATGAATGATGATGTA
Found at i:9216782 original size:31 final size:31
Alignment explanation
Indices: 9216738--9216806 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
9216728 TTGCCCAAGA
9216738 GTAAATA-CTCAAAATTTGAGGGGTTAAAGT
1 GTAAATATCTCAAAATTTGAGGGGTTAAAGT
9216768 GTAAATATCTCAAAATTTGAGGGGTTAAAGT
1 GTAAATATCTCAAAATTTGAGGGGTTAAAGT
9216799 GTAAATAT
1 GTAAATAT
9216807 GAAAAATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 7 0.18
31 31 0.82
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.32
Consensus pattern (31 bp):
GTAAATATCTCAAAATTTGAGGGGTTAAAGT
Found at i:9216815 original size:30 final size:31
Alignment explanation
Indices: 9216748--9216815 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
9216738 GTAAATACTC
**
9216748 AAAATTTGAGGGGTTAAAGTGTAAATATCTC
1 AAAATTTGAGGGGTTAAAGTGTAAATATCGA
9216779 AAAATTTGAGGGGTTAAAGTGTAAATAT-GA
1 AAAATTTGAGGGGTTAAAGTGTAAATATCGA
9216809 AAAATTT
1 AAAATTT
9216816 AAAGGACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 7 0.20
31 28 0.80
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (31 bp):
AAAATTTGAGGGGTTAAAGTGTAAATATCGA
Found at i:9224816 original size:4 final size:4
Alignment explanation
Indices: 9224807--9224834 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
9224797 TGTTTTTGGA
9224807 TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT
9224835 GAAGAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:9229500 original size:17 final size:17
Alignment explanation
Indices: 9229481--9229512 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9229471 ATATTTTGTT
9229481 TTTTTA-TATTTTTATA
1 TTTTTACTATTTTTATA
9229497 TTTTTACTATTTTTAT
1 TTTTTACTATTTTTAT
9229513 TTCCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTACTATTTTTATA
Found at i:9229501 original size:9 final size:8
Alignment explanation
Indices: 9229481--9229512 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
9229471 ATATTTTGTT
9229481 TTTTTATA
1 TTTTTATA
9229489 TTTTTATA
1 TTTTTATA
9229497 TTTTTACTA
1 TTTTTA-TA
9229506 TTTTTAT
1 TTTTTAT
9229513 TTCCATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTATA
Found at i:9229595 original size:22 final size:21
Alignment explanation
Indices: 9229570--9229649 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 21
9229560 AATTGTCTTC
9229570 ATTTTTTATTATATTTTATTAT
1 ATTTTTTATTATATTTTATT-T
* *
9229592 ATTTTTTATTTTCATTTCATTT
1 ATTTTTTATTAT-ATTTTATTT
*
9229614 CATTTTTATATTAT-TATTATTT
1 -ATTTTT-TATTATATTTTATTT
9229636 ATTATTATTATTAT
1 ATT-TT-TTATTAT
9229650 CATCATTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
21 3 0.06
22 26 0.54
23 14 0.29
24 5 0.10
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTTTATTATATTTTATTT
Found at i:9229598 original size:12 final size:12
Alignment explanation
Indices: 9229570--9229601 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
9229560 AATTGTCTTC
9229570 ATTTTTTATTAT
1 ATTTTTTATTAT
9229582 A--TTTTATTAT
1 ATTTTTTATTAT
9229592 ATTTTTTATT
1 ATTTTTTATT
9229602 TTCATTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.56
12 8 0.44
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
ATTTTTTATTAT
Found at i:9229637 original size:10 final size:10
Alignment explanation
Indices: 9229574--9229649 Score: 54
Period size: 10 Copynumber: 7.8 Consensus size: 10
9229564 GTCTTCATTT
9229574 TTTATTA-TA
1 TTTATTATTA
9229583 TTTTATTA-TA
1 -TTTATTATTA
*
9229593 TTTTTTATT-
1 TTTATTATTA
* *
9229602 TTCATT-TCA
1 TTTATTATTA
*
9229611 TTTCATTTTTA
1 TTT-ATTATTA
9229622 TATTATTATTA
1 T-TTATTATTA
9229633 TTTATTATTA
1 TTTATTATTA
9229643 -TTATTAT
1 TTTATTAT
9229650 CATCATTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
8 1 0.02
9 19 0.35
10 22 0.41
11 10 0.19
12 2 0.04
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTATTATTA
Found at i:9229643 original size:16 final size:15
Alignment explanation
Indices: 9229618--9229649 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
9229608 TCATTTCATT
9229618 TTTATATTATTATTA
1 TTTATATTATTATTA
9229633 TTTATTATTATTATTA
1 TTTA-TATTATTATTA
9229649 T
1 T
9229650 CATCATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATATTATTATTA
Found at i:9229679 original size:3 final size:3
Alignment explanation
Indices: 9229622--9229660 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
9229612 TTCATTTTTA
* *
9229622 TAT TAT TAT TATT TAT TAT TAT TAT TAT CAT CAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA
9229661 AACTGTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9231451 original size:3 final size:3
Alignment explanation
Indices: 9231445--9231479 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
9231435 AAGGAACTAA
* *
9231445 AAC AAC AAC AAC AAC AAC AAC AAT AAC AAA AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
9231480 AAAAAACCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.71, C:0.26, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:9232730 original size:24 final size:25
Alignment explanation
Indices: 9232688--9232747 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
9232678 ATACTTCTCT
* *
9232688 TAAAAAAAG-GAAAAGAAAATAAAA
1 TAAAAAGAGAGAAAAGAAAAGAAAA
9232712 TAAAAAGAGAGAAAA-AAAAGAAAA
1 TAAAAAGAGAGAAAAGAAAAGAAAA
* *
9232736 AAAAAAGGGAGA
1 TAAAAAGAGAGA
9232748 GGCCAAGGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 26 0.84
25 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (25 bp):
TAAAAAGAGAGAAAAGAAAAGAAAA
Found at i:9232740 original size:11 final size:11
Alignment explanation
Indices: 9232689--9232742 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
9232679 TACTTCTCTT
*
9232689 AAAAAAAGGAA
1 AAAAAAAGAAA
* *
9232700 AAGAAAATAAA
1 AAAAAAAGAAA
*
9232711 ATAAAAAGAGAGA
1 A-AAAAA-AGAAA
9232724 AAAAAAAGAAA
1 AAAAAAAGAAA
9232735 AAAAAAAG
1 AAAAAAAG
9232743 GGAGAGGCCA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
11 21 0.62
12 9 0.26
13 4 0.12
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:9234063 original size:143 final size:143
Alignment explanation
Indices: 9233613--9234507 Score: 1246
Period size: 143 Copynumber: 6.3 Consensus size: 143
9233603 GATTGAAATC
* * * * *
9233613 ATTATAGCGAATCTTATCTTTCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAACCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * * *
9233678 CTGAAGTTGCAGCGGAGTAGACTGAAGACAGCGAATCTTATTTCCCTAACGTTGTAGTGGAACAG
66 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAATAG
*
9233743 ATTAAAGCTATAA
131 ATTAAAGCTACAA
* * * *
9233756 ATTATGGCAGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACTAGCCTTATCACC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * *
9233821 CTAAAGTTGCAGCGAAACAGACTAAAGACAGCG-ATCTTATTTCCCTAGTGTTGCAGTGGAAGAG
66 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAATAG
9233885 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * * *
9233898 ATTATGGGGGATCTTATTTTCCTAAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * **
9233963 CTAAAGTTGCAACAGAGCAGACTAAAGACATCGAATCTTATTTCCCTGGTTTTGCAGTGGAATAG
66 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAATAG
9234028 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* *
9234041 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGGGCAGATTGAAGCCACCAGCCTTATTTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
*
9234106 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAG
66 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAATAG
9234171 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * *
9234184 ATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAGCATATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * *
9234249 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTACAGTGGAACAG
66 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAATAG
9234314 ATTAAAGC-ACAA
131 ATTAAAGCTACAA
* * *
9234326 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCATATTGAAGTCACCAACCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* ** * ** *
9234391 CTGAAGTTATAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAAAGTTACAGTGGAATAG
66 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAATAG
*
9234456 ATTAAAGCTATAA
131 ATTAAAGCTACAA
* *
9234469 GTTA---CGGATCTTATC-TCTCTGAAGTTGCA-TAGAGCAGAT
1 ATTATGGCGGATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGAT
9234508 CATATCAAAC
Statistics
Matches: 680, Mismatches: 69, Indels: 10
0.90 0.09 0.01
Matches are distributed among these distances:
139 10 0.01
140 22 0.03
142 254 0.37
143 394 0.58
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (143 bp):
ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAATAG
ATTAAAGCTACAA
Found at i:9234133 original size:285 final size:286
Alignment explanation
Indices: 9233613--9234465 Score: 1262
Period size: 285 Copynumber: 3.0 Consensus size: 286
9233603 GATTGAAATC
* * *
9233613 ATTATAGCGAATCTTATCTTT-CTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAACCTTATCTC
1 ATTATGGCGAATCTTAT-TTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTC
* * ** *
9233677 CCTGAAGTTGCAGCGGAGTAGACTGAAGACAGCGAATCTTATTTCCCTAACGTTGTAGTGGAACA
65 CCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * *
9233742 GATTAAAGCTATAAATTATGGCAGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCA
130 GATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA
* * * * *
9233807 CTAGCCTTATCACCCTAAAGTTGCAGCGAAACAGACTAAAGACAGCG-ATCTTATTTCCCTAGTG
195 CCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGAG
*
9233871 TTGCAGTGGAAGAGATTAAAGCTACAA
260 TTGCAGTGGAATAGATTAAAGCTACAA
* * * * *
9233898 ATTATGGGGGATCTTATTTTCCTAAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGAATCTTATTTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * ** *
9233963 CTAAAGTTGCAACAGAGCAGACTAAAGACATCGAATCTTATTTCCCTGGTTTTGCAGTGGAATAG
66 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
*
9234028 ATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGGGCAGATTGAAGCCAC
131 ATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
* * *
9234093 CAGCCTTATTTCCCTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGT
196 CAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGAGT
9234158 TGCAGTGGAATAGATTAAAGCTACAA
261 TGCAGTGGAATAGATTAAAGCTACAA
* * *
9234184 ATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAGCATATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGAATCTTATTTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
*
9234249 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTACAGTGGAACAG
66 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
* *
9234314 ATTAAAGC-ACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCATATTGAAGTCAC
131 ATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
* * ** * *
9234378 CAACCTTATCTCCCTGAAGTTATAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAAAGT
196 CAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGAGT
*
9234443 TACAGTGGAATAGATTAAAGCTA
261 TGCAGTGGAATAGATTAAAGCTA
9234466 TAAGTTACGG
Statistics
Matches: 505, Mismatches: 61, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
284 3 0.01
285 339 0.67
286 163 0.32
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (286 bp):
ATTATGGCGAATCTTATTTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
ATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
CAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGAGT
TGCAGTGGAATAGATTAAAGCTACAA
Found at i:9234417 original size:44 final size:45
Alignment explanation
Indices: 9234338--9234447 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 45
9234328 TATGGCGGAT
* * * * * *
9234338 CTTATCTTCCTGAAGTTGCAGTGGAGCATATTGAAGTCA-CCAAC
1 CTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGACAGCCAAC
* * *
9234382 CTTATCTCCCTGAAGTTATAGCGGAGCAGACTGAAGACAGCGAAT
1 CTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGACAGCCAAC
* *
9234427 CTTATTTCCCTAAAGTTACAG
1 CTTATCTCCCTGAAGTTACAG
9234448 TGGAATAGAT
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
44 32 0.60
45 21 0.40
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGACAGCCAAC
Found at i:9234428 original size:428 final size:427
Alignment explanation
Indices: 9233613--9234507 Score: 1262
Period size: 428 Copynumber: 2.1 Consensus size: 427
9233603 GATTGAAATC
* * *
9233613 ATTATAGCGAATCTTATCTTTCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAACCTTATCTCC
1 ATTAT-GCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCC
* * * *
9233678 CTGAAGTTGCAGCGGAGTAGACTGAAGACAGCGAATCTTATTTCCCTAACGTTGTAGTGGAACAG
65 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAACGTTGCAGTGGAACAG
* *
9233743 ATTAAAGCTATAAATTATGGCAGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCAC
130 ATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
* *
9233808 TAGCCTTATCACCCTAAAGTTGCAGCGAAACAGACTAAAGACAGCGATCTTATTTCCCTAGTGTT
195 CAGCCTTATCACCCTAAAGTTGCAGCGAAACAGACTAAAGACAGCGATCTTATTTCCCTAGCGTT
* * * *
9233873 GCAGTGGAAGAGATTAAAGCTACAAATTATGGGGGATCTTATTTTCCTAAAGTTGCAATGAAGCA
260 ACAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAATGAAGCA
* * *
9233938 GATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAACAGAGCAGACTAAAGACATCGAATCTTA
325 GATTGAAGCCACCAACCTTATCTCCCTAAAGTTACAACAGAGCAGACTAAAGACAGCGAATCTTA
**** *
9234003 TTTCCCTGGTTTTGCAGTGGAATAGATTAAAGCTACAA
390 TTTCCCTAAAGTTACAGTGGAATAGATTAAAGCTACAA
* * *
9234041 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGGGCAGATTGAAGCCACCAGCCTTATTTCC
1 ATTAT-GCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCC
** *
9234106 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAG
65 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAACGTTGCAGTGGAACAG
* *
9234171 ATTAAAGCTACAAATTATGGC-GAATCTTATCTTCTTGAAGTTGCAGTGGAGCATATTGAAGCCA
130 ATTAAAGCTACAAATTATGGCAG-ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA
* * * * *
9234235 CCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCG
194 CCAGCCTTATCACCCTAAAGTTGCAGCGAAACAGACTAAAGACAGCG-ATCTTATTTCCCTAGCG
* * *
9234300 TTACAGTGGAACAGATTAAAGC-ACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAG
258 TTACAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAATGAAG
* * * * * * *
9234364 CATATTGAAGTCACCAACCTTATCTCCCTGAAGTTATAGCGGAGCAGACTGAAGACAGCGAATCT
323 CAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTACAACAGAGCAGACTAAAGACAGCGAATCT
*
9234429 TATTTCCCTAAAGTTACAGTGGAATAGATTAAAGCTATAA
388 TATTTCCCTAAAGTTACAGTGGAATAGATTAAAGCTACAA
* *
9234469 GTTA--CGGATCTTATC-TCTCTGAAGTTGCA-TAGAGCAGAT
1 ATTATGCGGATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGAT
9234508 CATATCAAAC
Statistics
Matches: 413, Mismatches: 51, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
424 10 0.02
425 22 0.05
427 1 0.00
428 345 0.84
429 35 0.08
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (427 bp):
ATTATGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCC
TAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAACGTTGCAGTGGAACAGA
TTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACC
AGCCTTATCACCCTAAAGTTGCAGCGAAACAGACTAAAGACAGCGATCTTATTTCCCTAGCGTTA
CAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAATGAAGCAG
ATTGAAGCCACCAACCTTATCTCCCTAAAGTTACAACAGAGCAGACTAAAGACAGCGAATCTTAT
TTCCCTAAAGTTACAGTGGAATAGATTAAAGCTACAA
Found at i:9234952 original size:26 final size:26
Alignment explanation
Indices: 9234923--9234977 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
9234913 TTTACAAACC
*
9234923 AAACCCAAAACAAACTCAATCCAAAT
1 AAACCCAAAACAAACCCAATCCAAAT
* *
9234949 AAACCCAAAACAAACCCAATTCAATT
1 AAACCCAAAACAAACCCAATCCAAAT
9234975 AAA
1 AAA
9234978 AAACCTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.29, G:0.00, T:0.13
Consensus pattern (26 bp):
AAACCCAAAACAAACCCAATCCAAAT
Found at i:9236212 original size:3 final size:3
Alignment explanation
Indices: 9236204--9236240 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
9236194 TATTTACTTG
* *
9236204 TAT TAT TAT TAA TAT TAT TAT TGT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9236241 TAACCATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:9237510 original size:15 final size:15
Alignment explanation
Indices: 9237490--9237519 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9237480 CAGAAGAATA
9237490 TTGGCATATCATTCT
1 TTGGCATATCATTCT
9237505 TTGGCATATCATTCT
1 TTGGCATATCATTCT
9237520 GAAGAAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGGCATATCATTCT
Found at i:9238686 original size:16 final size:16
Alignment explanation
Indices: 9238628--9238698 Score: 72
Period size: 16 Copynumber: 4.3 Consensus size: 16
9238618 TGCCTTAATT
9238628 AATAA-ATAAAGACAA
1 AATAACATAAAGACAA
*
9238643 AATAACATGAAGTTATCAA
1 AATAACATAAAG--A-CAA
***
9238662 GGGAACATAAAGACAA
1 AATAACATAAAGACAA
9238678 AATAACATAAAGACAA
1 AATAACATAAAGACAA
9238694 AATAA
1 AATAA
9238699 AATGCCTTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
15 5 0.11
16 26 0.59
17 1 0.02
18 1 0.02
19 11 0.25
ACGTcount: A:0.63, C:0.10, G:0.11, T:0.15
Consensus pattern (16 bp):
AATAACATAAAGACAA
Found at i:9243015 original size:40 final size:40
Alignment explanation
Indices: 9242971--9243085 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
9242961 GTTTTTTTCG
*
9242971 TTTGCTCCACTGA-TGCTTAGGGAGATAAGACTGGATGTGA
1 TTTGCTCCACT-ACTGCTTAGGGAGATAAGACTGGATGCGA
*
9243011 TTTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
1 TTTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGA
* * *
9243051 TCTGCTCCACTACTGCCTAGGGAGATCAAGTCTGG
1 TTTGCTCCACTACTGCTTAGGGAGAT-AAGACTGG
9243086 TGTCTTTCAT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 60 0.90
41 6 0.09
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
TTTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGA
Found at i:9243360 original size:72 final size:73
Alignment explanation
Indices: 9243129--9243382 Score: 440
Period size: 73 Copynumber: 3.5 Consensus size: 73
9243119 CGGCATGTGA
* *
9243129 TCTTGA-GCCCAACTCATTTCTCGTAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
9243193 TCAACGTG
66 TCAACGTG
*
9243201 TCTTGAGGCTCAACACATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
9243266 TCAACGTG
66 TCAACGTG
* *
9243274 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTGCC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
*
9243338 TCAATGTG
66 TCAACGTG
9243346 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
9243383 TTCTTTCAAA
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
72 65 0.37
73 109 0.63
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (73 bp):
TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
TCAACGTG
Found at i:9243464 original size:88 final size:86
Alignment explanation
Indices: 9243315--9243561 Score: 289
Period size: 88 Copynumber: 2.8 Consensus size: 86
9243305 AGTTGAATTT
* * ** * **
9243315 TGAAAACAGAAATTGAAATTGCCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
9243380 TGATTCTTTCAAAAACATAATAA
66 TGATTCTTTCAAAAACA-AA-AA
* *
9243403 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
9243468 TGATTTTTTTGAAAAACAGAAA
66 TGA-TTCTTTCAAAAACAAAAA
* **
9243490 TCAAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAA--CAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
9243554 GAGTTGAT
62 GAGTTGAT
9243562 ATTAAAACAC
Statistics
Matches: 137, Mismatches: 17, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
87 7 0.05
88 74 0.54
89 15 0.11
90 41 0.30
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (86 bp):
TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTCTTTCAAAAACAAAAA
Found at i:9243620 original size:72 final size:72
Alignment explanation
Indices: 9243501--9243848 Score: 642
Period size: 72 Copynumber: 4.8 Consensus size: 72
9243491 CAAAAGGCTT
* * *
9243501 AATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTA
1 AATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTA
9243566 AAACACAAA
64 AAACACAAA
9243575 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
9243640 ACACAAA
66 ACACAAA
9243647 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
9243712 ACACAAA
66 ACACAAA
9243719 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
9243784 ACACAAA
66 ACACAAA
*
9243791 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
9243849 TTTCGAAAAA
Statistics
Matches: 270, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
72 253 0.94
74 17 0.06
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (72 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
ACACAAA
Found at i:9243967 original size:73 final size:72
Alignment explanation
Indices: 9243875--9244059 Score: 219
Period size: 77 Copynumber: 2.5 Consensus size: 72
9243865 ATTAAAAGGT
*
9243875 TCAACCCACCTCTCGCAATATGAGTTGATTCTTG-ACAAACAGAAACTGAAAATACCTCAACGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAC-AACAGAAACTGAAAATACCTCAACGTG
9243939 TCTTGAGGC
64 TCTTGAGGC
** * * * * *
9243948 TCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTAACAACAGAAATTGAAATTTCCTCAGC
1 TCAACTCACCTCTCGCAATATGAGTTGA-----TTTTGAACAACAGAAACTGAAAATACCTCAAC
9244013 GTGTCTTGAGGC
61 GTGTCTTGAGGC
*
9244025 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAA
9244060 AAAGTAGAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
72 6 0.06
73 25 0.27
77 59 0.63
78 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAGAAACTGAAAATACCTCAACGTGTC
TTGAGGC
Found at i:9243974 original size:127 final size:126
Alignment explanation
Indices: 9243749--9243978 Score: 327
Period size: 127 Copynumber: 1.8 Consensus size: 126
9243739 GCCCTGAGGC
* * *
9243749 TCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCC
1 TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTGAAAATACCTCAACGTGCC
*
9243814 CTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTCGAAAAAGTAGAAATTAAAAGGT
66 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCGAAAAAGTAGAAATTAAAAGGT
** * *
9243875 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAA-ACAGAAACTGAAAATACCTCAACGTG
1 TCAACCCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAACTGAAAATACCTCAACGTG
* * **
9243939 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
64 CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
9243979 TTTTTTTAAC
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
126 27 0.30
127 60 0.67
128 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (126 bp):
TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTGAAAATACCTCAACGTGCC
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCGAAAAAGTAGAAATTAAAAGGT
Found at i:9244018 original size:77 final size:77
Alignment explanation
Indices: 9243912--9244056 Score: 227
Period size: 77 Copynumber: 1.9 Consensus size: 77
9243902 ATTCTTGACA
** *
9243912 AACAGAAACTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAACTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
9243977 TTTTTTTTTAAC
66 TTTTTTTTTAAC
* * * *
9243989 AACAGAAATTGAAATTTCCTCAGCGTGTCTTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
1 AACAGAAACTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
9244054 TTT
66 TTT
9244057 GAAAAAGTAG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 61 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (77 bp):
AACAGAAACTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
TTTTTTTTTAAC
Found at i:9244045 original size:204 final size:199
Alignment explanation
Indices: 9243677--9244108 Score: 598
Period size: 204 Copynumber: 2.2 Consensus size: 199
9243667 GCCCTGAGGC
* * * *
9243677 TCAACTCACCTCTCGCAATATGAGTTGA-AATTAAAACACAAAAATTGAAAATACCTCAGCGTGC
1 TCAACCCACCTCTCGCAATATGAGTTGATTATTAAAACACAAAAACTGAAAATACCTCAACGTGC
9243741 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTC
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTC
*
9243806 AGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTCGAAAAAGTAGAAATTAAA
131 AGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTCGAAAAAGTAGAAATTAAA
9243871 AGGT
196 AGGT
* * *
9243875 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAA-ACAGAAACTGAAAATACCTCAACGTG
1 TCAACCCACCTCTCGCAATATGAGTTGATTATT-AAAACACAAAAACTGAAAATACCTCAACGTG
* * ** ** ** * *
9243939 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTAACAACAGAAATTGAAAT
65 CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----AATTAAAAC-ACAAAAATTGAAAA
* * * *
9244004 TTCCTCAGCGTGTCTTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGAA
125 TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTCGAAAAAGTAGAA
9244069 ATTAAAAGGT
190 ATTAAAAGGT
9244079 TCAACCCACCTCTCGCAATATGAGTTGATT
1 TCAACCCACCTCTCGCAATATGAGTTGATT
9244109 TTTTGAAAAA
Statistics
Matches: 205, Mismatches: 22, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
198 27 0.13
199 58 0.28
200 3 0.01
203 5 0.02
204 112 0.55
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (199 bp):
TCAACCCACCTCTCGCAATATGAGTTGATTATTAAAACACAAAAACTGAAAATACCTCAACGTGC
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTC
AGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTCGAAAAAGTAGAAATTAAA
AGGT
Found at i:9244145 original size:55 final size:55
Alignment explanation
Indices: 9244021--9244170 Score: 223
Period size: 54 Copynumber: 2.7 Consensus size: 55
9244011 GCGTGTCTTG
* *
9244021 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAAGTAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGCAGAAATTAAA
* * *
9244075 AGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA-CAGGAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAGCAGAAATTAAA
*
9244130 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
9244171 CTTAATTTGA
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
54 38 0.44
55 38 0.44
56 10 0.12
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (55 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGCAGAAATTAAA
Found at i:9244291 original size:72 final size:73
Alignment explanation
Indices: 9244176--9244401 Score: 328
Period size: 73 Copynumber: 3.1 Consensus size: 73
9244166 TGAAACTTAA
* ** * * *
9244176 TTTGAAAAGCAGATTTTGAAAATACCTCAATGTGTTTTGAGGCTCAACTCATTTATCGCAAAATG
1 TTTGAAAAGCAAAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
9244241 AGTTGAAT
66 AGTTGAAT
* * * *
9244249 TTTGAAAA-TAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTGAAAAGCAAAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
9244313 AGTTGAAT
66 AGTTGAAT
* *
9244321 TTTGAAAAGCAAAAATTGAAAATACCTCAATGTGTCTAGAGGCTCAACTCATTTCTCGCAATATA
1 TTTGAAAAGCAAAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
9244386 AGTTGAATT
66 AGTTGAA-T
9244395 TTTGAAA
1 TTTGAAA
9244402 CAGAAATAAA
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
72 64 0.47
73 65 0.47
74 8 0.06
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (73 bp):
TTTGAAAAGCAAAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGAAT
Found at i:9244373 original size:73 final size:73
Alignment explanation
Indices: 9244176--9244408 Score: 337
Period size: 72 Copynumber: 3.2 Consensus size: 73
9244166 TGAAACTTAA
** * * *
9244176 TTTGAAAAGCAGATTTTGAAAATACCTCAATGTGTTTTGAGGCTCAACTCATTTATCGCAAAATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
9244241 AGTTGAAT
66 AGTTGAAT
* * *
9244249 TTTGAAAA-TAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
9244313 AGTTGAAT
66 AGTTGAAT
* * *
9244321 TTTGAAAAGCAAAAATTGAAAATACCTCAATGTGTCTAGAGGCTCAACTCATTTCTCGCAATATA
1 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
9244386 AGTTGAATT
66 AGTTGAA-T
9244395 TTTG-AAA-CAGAAAT
1 TTTGAAAAGCAGAAAT
9244409 AAAAGCATCA
Statistics
Matches: 143, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
72 70 0.49
73 68 0.48
74 5 0.03
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (73 bp):
TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGAAT
Found at i:9263470 original size:18 final size:18
Alignment explanation
Indices: 9263449--9263486 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
9263439 AAAGCAAAAA
9263449 GAGATTGA-AAAAGAAATT
1 GAGATTGAGAAAA-AAATT
9263467 GAGATTGAGAAAAAAATT
1 GAGATTGAGAAAAAAATT
9263485 GA
1 GA
9263487 AAAAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (18 bp):
GAGATTGAGAAAAAAATT
Found at i:9269003 original size:15 final size:15
Alignment explanation
Indices: 9268983--9269012 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9268973 CAGAAGAATA
9268983 TTGGCATATCATTCT
1 TTGGCATATCATTCT
9268998 TTGGCATATCATTCT
1 TTGGCATATCATTCT
9269013 GAAGAAAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGGCATATCATTCT
Found at i:9273427 original size:57 final size:59
Alignment explanation
Indices: 9273313--9273427 Score: 132
Period size: 57 Copynumber: 2.0 Consensus size: 59
9273303 TGATTTAATA
* * *
9273313 TAATTATACATAATATATATTTTAAATACTTTTAATAATTAATAAATTATTTGTAAATT
1 TAATTATACATAATATACATTTTAAATACTTTTAATAAATAATAAATTATTTCTAAATT
*
9273372 TAATTATACATGA-A-ACATTTTAAA-A-TTTTAAATATAATAATAAA-TATTATCTAAAT
1 TAATTATACATAATATACATTTTAAATACTTTT-AATA-AATAATAAATTATT-TCTAAAT
9273428 AATTTAACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
55 4 0.08
56 9 0.18
57 23 0.47
58 1 0.02
59 12 0.24
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (59 bp):
TAATTATACATAATATACATTTTAAATACTTTTAATAAATAATAAATTATTTCTAAATT
Found at i:9273495 original size:33 final size:31
Alignment explanation
Indices: 9273456--9273527 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 31
9273446 TTGTAAACAA
*
9273456 ATTTAAATAAGTTAATACAATGGTACATTAAAT
1 ATTTAAATAAGTTAATACAATGATACA-T-AAT
* * * *
9273489 ATTTAAATGATTTAATATAATGATATATAAT
1 ATTTAAATAAGTTAATACAATGATACATAAT
9273520 ATTTAAAT
1 ATTTAAAT
9273528 TTATCCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 11 0.32
32 1 0.03
33 22 0.65
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTTAAATAAGTTAATACAATGATACATAAT
Found at i:9277842 original size:39 final size:39
Alignment explanation
Indices: 9277798--9277873 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
9277788 ATACTAATTA
*
9277798 CATAAAGGACTTATACAGTTTTGGGTGTTGATTTTGGTT
1 CATAAAGGACTTATACAGTTTCGGGTGTTGATTTTGGTT
9277837 CATAAAGGACTTATACAGTTTCGGGTGTTGATTTTGG
1 CATAAAGGACTTATACAGTTTCGGGTGTTGATTTTGG
9277874 ATGTCCTACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (39 bp):
CATAAAGGACTTATACAGTTTCGGGTGTTGATTTTGGTT
Found at i:9278173 original size:39 final size:39
Alignment explanation
Indices: 9278083--9278258 Score: 185
Period size: 39 Copynumber: 4.5 Consensus size: 39
9278073 CGAGTCTTGG
* * * *
9278083 GCCTAGTAGGCTTTATGCCGATGTATTGTATCGGGCCTTGA
1 GCCTAGTAGGCTTTGTGCCGATG-ACT-TATCAGGCTTTGA
* *
9278124 GCCTAATAGGCTTTGTGCCGGTGACTTATCAGGCTTTGA
1 GCCTAGTAGGCTTTGTGCCGATGACTTATCAGGCTTTGA
**
9278163 GCCTAGTAGGCTTCATGCCGATGACTTATCAGGCTTTGA
1 GCCTAGTAGGCTTTGTGCCGATGACTTATCAGGCTTTGA
* * * *
9278202 GCGTAATAGGCTTTGTGCCGATG-TTTATCGGGC-TTGA
1 GCCTAGTAGGCTTTGTGCCGATGACTTATCAGGCTTTGA
* *
9278239 TGCCTAGCAGGCTTCGTGCC
1 -GCCTAGTAGGCTTTGTGCC
9278259 TGTGTAATGA
Statistics
Matches: 114, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
37 4 0.04
38 23 0.20
39 65 0.57
40 2 0.02
41 20 0.18
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (39 bp):
GCCTAGTAGGCTTTGTGCCGATGACTTATCAGGCTTTGA
Found at i:9278220 original size:78 final size:79
Alignment explanation
Indices: 9278083--9278258 Score: 223
Period size: 78 Copynumber: 2.2 Consensus size: 79
9278073 CGAGTCTTGG
* * * *
9278083 GCCTAGTAGGCTTTATGCCGATGTATTGTATCGGGCCTTGAGCCTAATAGGCTTTGTGCCGGTGA
1 GCCTAGTAGGCTTCATGCCGATGTACTGTATCAGGCCTTGAGCCTAATAGGCTTTGTGCCGATG-
9278148 CTTATCAGGCTTTGA-
65 CTTATCAGGC-TTGAT
* * *
9278163 GCCTAGTAGGCTTCATGCCGATG-ACT-TATCAGGCTTTGAGCGTAATAGGCTTTGTGCCGATGT
1 GCCTAGTAGGCTTCATGCCGATGTACTGTATCAGGCCTTGAGCCTAATAGGCTTTGTGCCGATGC
*
9278226 TTATCGGGCTTGAT
66 TTATCAGGCTTGAT
* *
9278240 GCCTAGCAGGCTTCGTGCC
1 GCCTAGTAGGCTTCATGCC
9278259 TGTGTAATGA
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
76 4 0.05
77 25 0.29
78 32 0.38
79 2 0.02
80 22 0.26
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (79 bp):
GCCTAGTAGGCTTCATGCCGATGTACTGTATCAGGCCTTGAGCCTAATAGGCTTTGTGCCGATGC
TTATCAGGCTTGAT
Found at i:9289493 original size:29 final size:31
Alignment explanation
Indices: 9289461--9289518 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
9289451 GTAAATACTC
**
9289461 AAAATTT-AAGGGTTAA-AGTGTAAATATGA
1 AAAATTTAAAGGAATAATAGTGTAAATATGA
9289490 AAAATTTAAAGGAATAATAGTGTAAATAT
1 AAAATTTAAAGGAATAATAGTGTAAATAT
9289519 TTAATGGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.28
30 7 0.28
31 11 0.44
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (31 bp):
AAAATTTAAAGGAATAATAGTGTAAATATGA
Found at i:9300907 original size:6 final size:6
Alignment explanation
Indices: 9300896--9300927 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
9300886 GTCCCTTCGG
*
9300896 TTTTAT TTTTAT TTTTAT TTTTAT TTTAAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
9300928 GACCACAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:9301284 original size:25 final size:25
Alignment explanation
Indices: 9301256--9301510 Score: 108
Period size: 26 Copynumber: 9.8 Consensus size: 25
9301246 ACTATTATCC
*
9301256 ATTTTAATTTTGTTATATATTATTT
1 ATTTTAATTTTTTTATATATTATTT
*** **
9301281 ATTTTTAAACCATCATATATATT-TTT
1 A-TTTT-AATTTTTTTATATATTATTT
9301307 CATTTTGAATTGTTTTTATATATATCATTT
1 -ATTTT-AATT-TTTTTATATAT-T-ATTT
* * *
9301337 -TTTTAAACTGTTTTGTATATTA-TT
1 ATTTT-AATTTTTTTATATATTATTT
* *
9301361 ATTTTAAACTTCTTTTTACATATTACTT
1 ATTTT-AA-TT-TTTTTATATATTATTT
* **
9301389 ATATTAAACTTTTTATATATTA--T
1 ATTTTAATTTTTTTATATATTATTT
* * * **
9301412 -TTTAAATTGTCTTATATGCTATTT
1 ATTTTAATTTTTTTATATATTATTT
** * *
9301436 ATTTTAAATTGCTTTGTATACTATTT
1 ATTTT-AATTTTTTTATATATTATTT
*
9301462 ATTTTAATTTTTTTTACATATTATTT
1 ATTTTAA-TTTTTTTATATATTATTT
*
9301488 ACTTTAAATTTTTTTATACTATT
1 A-TTTTAATTTTTTTATA-TATT
9301511 TACTTCGAAT
Statistics
Matches: 169, Mismatches: 43, Indels: 34
0.69 0.17 0.14
Matches are distributed among these distances:
22 13 0.08
23 1 0.01
24 3 0.02
25 26 0.15
26 59 0.35
27 50 0.30
28 14 0.08
30 3 0.02
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (25 bp):
ATTTTAATTTTTTTATATATTATTT
Found at i:9301412 original size:28 final size:27
Alignment explanation
Indices: 9301353--9301412 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
9301343 ACTGTTTTGT
* *
9301353 ATATTATTATTTTAAACTTCTTTTTAC
1 ATATTATTATATTAAACTTCTTTATAC
9301380 ATATTACTTATATTAAACTT-TTTAT--
1 ATATTA-TTATATTAAACTTCTTTATAC
9301405 ATATTATT
1 ATATTATT
9301413 TTAAATTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 2 0.07
25 6 0.20
27 10 0.33
28 12 0.40
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (27 bp):
ATATTATTATATTAAACTTCTTTATAC
Found at i:9301466 original size:52 final size:50
Alignment explanation
Indices: 9301338--9301512 Score: 126
Period size: 52 Copynumber: 3.5 Consensus size: 50
9301328 ATATCATTTT
* * * * *
9301338 TTTAAACTGTTTTGTATATTA-TTATTTTAAACTTCTTTTTACATATTACTTA-
1 TTTAAA-T-TTTTGTATACTATTTATTTTAAA-TT-GTCTTACATACTATTTAC
* * * *
9301390 TATTAAACTTTT-TATA-TA-TTATTTTAAATTGTCTTATATGCTATTTAT
1 T-TTAAATTTTTGTATACTATTTATTTTAAATTGTCTTACATACTATTTAC
* * * *
9301438 TTTAAATTGCTTTGTATACTATTTATTTTAATTTTTTTTACATATTATTTAC
1 TTTAAATT--TTTGTATACTATTTATTTTAAATTGTCTTACATACTATTTAC
*
9301490 TTTAAATTTTTTTATACTATTTA
1 TTTAAATTTTTGTATACTATTTA
9301513 CTTCGAATTG
Statistics
Matches: 100, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
47 17 0.17
48 3 0.03
49 15 0.15
50 22 0.22
51 6 0.06
52 32 0.32
53 5 0.05
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (50 bp):
TTTAAATTTTTGTATACTATTTATTTTAAATTGTCTTACATACTATTTAC
Found at i:9301510 original size:27 final size:25
Alignment explanation
Indices: 9301431--9301510 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 25
9301421 TCTTATATGC
* * *
9301431 TATTTATTTTAAATTGCTTTGTA-TAC
1 TATTTA-TTTAAATT-TTTTTTACTAT
*
9301457 TATTTATTTTAATTTTTTTTACATAT
1 TATTTATTTAAATTTTTTTTAC-TAT
9301483 TATTTACTTTAAATTTTTTTATACTAT
1 TATTTA-TTTAAATTTTTTT-TACTAT
9301510 T
1 T
9301511 TACTTCGAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
24 5 0.11
25 7 0.16
26 14 0.31
27 16 0.36
28 3 0.07
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (25 bp):
TATTTATTTAAATTTTTTTTACTAT
Found at i:9301530 original size:50 final size:51
Alignment explanation
Indices: 9301431--9301537 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 51
9301421 TCTTATATGC
* ** * *
9301431 TATTTATTTTAAATTGCTTTGTATACTATTTATTTTAATTTTTTTTACATAT
1 TATTTACTTTAAATT-CTTTGTATACTATTTATTCGAATTTGTTCTACATAT
*
9301483 TATTTACTTTAAATT-TTTTTATACTATTTACTTCGAA-TTGTTCTACATAT
1 TATTTACTTTAAATTCTTTGTATACTATTTA-TTCGAATTTGTTCTACATAT
9301533 TATTT
1 TATTT
9301538 TTGTTTCGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 30 0.62
51 4 0.08
52 14 0.29
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (51 bp):
TATTTACTTTAAATTCTTTGTATACTATTTATTCGAATTTGTTCTACATAT
Found at i:9302706 original size:21 final size:22
Alignment explanation
Indices: 9302674--9302735 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
9302664 GTTTCCATTC
*
9302674 AGCTCTTTTGAGCTTCT-GTTTA
1 AGCTCTTATGAGCTTCTCG-TTA
*
9302696 A-CTCTTATGAG-TTTTCGTTA
1 AGCTCTTATGAGCTTCTCGTTA
9302716 AGCTCTTATGAGCTT-TCGTT
1 AGCTCTTATGAGCTTCTCGTT
9302736 CAACCCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 7 0.20
21 25 0.71
22 3 0.09
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (22 bp):
AGCTCTTATGAGCTTCTCGTTA
Done.