Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 375 of 444
Found at i:109012645 original size:5 final size:4
Alignment explanation
Indices: 109012610--109012643 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
109012600 AGCAAACGTG
*
109012610 AGAA AGAA AGAA GGAA AGAA AGAA AGAAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AG-AA AGAA A
109012644 AGGGAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:109013464 original size:47 final size:47
Alignment explanation
Indices: 109013400--109013510 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
109013390 GACATTGAGT
*
109013400 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
109013447 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
109013494 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
109013511 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:109019876 original size:12 final size:13
Alignment explanation
Indices: 109019861--109019893 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
109019851 GCAAACGTGA
109019861 GAAAGAAAG-AAG
1 GAAAGAAAGAAAG
109019873 GAAAGAAAGAAAG
1 GAAAGAAAGAAAG
*
109019886 AAAAGAAA
1 GAAAGAAA
109019894 AGGGAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAAG
Found at i:109019895 original size:5 final size:4
Alignment explanation
Indices: 109019860--109019893 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
109019850 AGCAAACGTG
*
109019860 AGAA AGAA AGAA GGAA AGAA AGAA AGAAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AG-AA AGAA A
109019894 AGGGAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:109020714 original size:47 final size:47
Alignment explanation
Indices: 109020650--109020760 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
109020640 GACATTGAGT
*
109020650 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
109020697 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
109020744 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
109020761 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:109026073 original size:19 final size:19
Alignment explanation
Indices: 109026049--109026085 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
109026039 GGCCTCAAAG
*
109026049 GCATTACAGAATATGCCAA
1 GCATTACAAAATATGCCAA
*
109026068 GCATTATAAAATATGCCA
1 GCATTACAAAATATGCCA
109026086 CACAAAGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (19 bp):
GCATTACAAAATATGCCAA
Found at i:109026112 original size:23 final size:25
Alignment explanation
Indices: 109026068--109026139 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
109026058 AATATGCCAA
109026068 GCATTATAAAATATGCCACACAAAG
1 GCATTATAAAATATGCCACACAAAG
109026093 GCATTATAATAA-ATG-C-CACAAAG
1 GCATTATAA-AATATGCCACACAAAG
* * *
109026116 GCGTTATAGAATATACCACACAAA
1 GCATTATAAAATATGCCACACAAA
109026140 AGTGTTACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 2 0.05
23 16 0.40
24 2 0.05
25 18 0.45
26 2 0.05
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.21
Consensus pattern (25 bp):
GCATTATAAAATATGCCACACAAAG
Found at i:109026157 original size:48 final size:48
Alignment explanation
Indices: 109026071--109026174 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
109026061 ATGCCAAGCA
* * *
109026071 TTATAAAATATGCCACACAAAGGCATTATAATAAATGCCACAAAGGCG
1 TTATAAAATATACCACACAAAAGCATTACAATAAATGCCACAAAGGCG
* ** * * *
109026119 TTATAGAATATACCACACAAAAGTGTTACAATATATGCCATAAAGGTG
1 TTATAAAATATACCACACAAAAGCATTACAATAAATGCCACAAAGGCG
109026167 TTACTAAA
1 TTA-TAAA
109026175 TAAGTCACAA
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
48 42 0.93
49 3 0.07
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (48 bp):
TTATAAAATATACCACACAAAAGCATTACAATAAATGCCACAAAGGCG
Found at i:109026186 original size:23 final size:23
Alignment explanation
Indices: 109026134--109026194 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
109026124 GAATATACCA
* *
109026134 CACAAAAGTGTTACAATATATGC
1 CACAAAGGTGTTACAATATAAGC
* *
109026157 CATAAAGGTGTTACTAA-ATAAGT
1 CACAAAGGTGTTAC-AATATAAGC
*
109026180 CACAAAGGCGTTACA
1 CACAAAGGTGTTACA
109026195 GAATGTGACA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 1 0.03
23 28 0.90
24 2 0.06
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (23 bp):
CACAAAGGTGTTACAATATAAGC
Found at i:109027826 original size:153 final size:153
Alignment explanation
Indices: 109027542--109027850 Score: 390
Period size: 153 Copynumber: 2.0 Consensus size: 153
109027532 CCTTAGATAC
* * * *** *
109027542 TTCTACAGTGGATACTTTACGCCAAACTTTATTTCGTTAGAAGCCTGTAATTTGGCAGATTATGC
1 TTCTACAGTAGATAATTTACGCCAAACTTTAGTTCACCAGAAGCCTGTAATTTGGCAGACTATGC
* * * * * *
109027607 TGCTATAGTATGCCAAATAGATAACTTCACATTTACACGCCTTTTTCTCGATCCATTAAATATT-
66 TACTATAGTACGCCAAACAGATAACTTAACATCTACACGCCTTTTTCTCGATCCACTAAATATTG
*
109027671 GGGTGTGACAAATTCACTATCATA
131 GGGTATGACAAATTCACTATCA-A
* **
109027695 TTCTACAGTAGATAATTTACGTCAAACTTTAGTTCACCAGAAGTTTGTAATTTGGCAGACTATGC
1 TTCTACAGTAGATAATTTACGCCAAACTTTAGTTCACCAGAAGCCTGTAATTTGGCAGACTATGC
* **
109027760 TACTATAGTACGCCAAACAGATAACTTTAACATCTACATGCCTTCTTT-TCGATCTGCTAAAT-T
66 TACTATAGTACGCCAAACAGATAAC-TTAACATCTACACGCCTT-TTTCTCGATCCACTAAATAT
109027823 TGGGGTATGACAAATTCACTATCAA
129 TGGGGTATGACAAATTCACTATCAA
109027848 TTC
1 TTC
109027851 ATATCATTCC
Statistics
Matches: 133, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
153 83 0.62
154 47 0.35
155 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (153 bp):
TTCTACAGTAGATAATTTACGCCAAACTTTAGTTCACCAGAAGCCTGTAATTTGGCAGACTATGC
TACTATAGTACGCCAAACAGATAACTTAACATCTACACGCCTTTTTCTCGATCCACTAAATATTG
GGGTATGACAAATTCACTATCAA
Found at i:109028395 original size:13 final size:13
Alignment explanation
Indices: 109028377--109028415 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
109028367 TTAAATTCAT
109028377 AATTCATCAATTC
1 AATTCATCAATTC
*
109028390 AATTCAT-AGTTC
1 AATTCATCAATTC
*
109028402 AAATCATCAATTC
1 AATTCATCAATTC
109028415 A
1 A
109028416 TCACATAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.36
Consensus pattern (13 bp):
AATTCATCAATTC
Found at i:109034097 original size:21 final size:21
Alignment explanation
Indices: 109034068--109034107 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
109034058 TATAATTTTT
109034068 TAAAATTAAGTG-ATTAAAACG
1 TAAAATTAA-TGAATTAAAACG
*
109034089 TAAATTTAATGAATTAAAA
1 TAAAATTAATGAATTAAAA
109034108 TGTAGTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAAATTAATGAATTAAAACG
Found at i:109035064 original size:16 final size:18
Alignment explanation
Indices: 109035024--109035064 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
109035014 AATTCTTTTT
*
109035024 AACAAATATATACTTAAA
1 AACAAATATATACTGAAA
*
109035042 AATAAATA-ATA-TGAAA
1 AACAAATATATACTGAAA
109035058 AACAAAT
1 AACAAAT
109035065 GAGATTTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 10 0.50
17 3 0.15
18 7 0.35
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.24
Consensus pattern (18 bp):
AACAAATATATACTGAAA
Found at i:109039267 original size:34 final size:37
Alignment explanation
Indices: 109039224--109039322 Score: 100
Period size: 37 Copynumber: 2.8 Consensus size: 37
109039214 TTAACTCATA
*
109039224 AATTATATTATG-ATTTT-TT-AATTCATA-TAATAAT
1 AATTATATTAAGAATTTTATTAAATT-ATATTAATAAT
*
109039258 AATTATATTAAGAATTTTATTAAATTATATTTAGTAAT
1 AATTATATTAAGAATTTTATTAAATTATA-TTAATAAT
* * *
109039296 AATTATAGTAA-AATATGATTAAATTAT
1 AATTATATTAAGAATTTTATTAAATTAT
109039323 TTATTATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
34 11 0.20
35 5 0.09
36 5 0.09
37 18 0.33
38 16 0.29
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.48
Consensus pattern (37 bp):
AATTATATTAAGAATTTTATTAAATTATATTAATAAT
Found at i:109039506 original size:40 final size:42
Alignment explanation
Indices: 109039446--109039555 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 42
109039436 TTTTTTTCTT
*
109039446 ATTCTATTACAACG-TC-ATTCCATTCCAACCAA-ACACAA-GA
1 ATTCTATTAC-A-GTTCTATTCCATTCCAACCAACAAACAATGA
*
109039486 ATTCTATTACAGTTCTATTCCATTCCATCCAACCAAACAATTGA
1 ATTCTATTACAGTTCTATTCCATTCCAACCAA-CAAACAA-TGA
*
109039530 ATTACTTATTACAGTTTTATTCCATT
1 ATT-C-TATTACAGTTCTATTCCATT
109039556 ACAGCTCTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 25 0.42
42 5 0.08
44 5 0.08
45 1 0.02
46 19 0.32
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (42 bp):
ATTCTATTACAGTTCTATTCCATTCCAACCAACAAACAATGA
Found at i:109039532 original size:44 final size:47
Alignment explanation
Indices: 109039461--109039555 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 47
109039451 ATTACAACGT
109039461 CATTCCATTCCAACCAAACACAAGAATT-C-TATTACAGTTCTATTC
1 CATTCCATTCCAACCAAACACAAGAATTACTTATTACAGTTCTATTC
* *
109039506 CATTCCA-TCCAACCAAACA-ATTGAATTACTTATTACAGTTTTATTC
1 CATTCCATTCCAACCAAACACA-AGAATTACTTATTACAGTTCTATTC
109039552 CATT
1 CATT
109039556 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
43 1 0.02
44 17 0.38
45 8 0.18
46 19 0.42
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (47 bp):
CATTCCATTCCAACCAAACACAAGAATTACTTATTACAGTTCTATTC
Found at i:109039558 original size:16 final size:16
Alignment explanation
Indices: 109039537--109039607 Score: 115
Period size: 16 Copynumber: 4.4 Consensus size: 16
109039527 TGAATTACTT
* *
109039537 ATTACAGTTTTATTCC
1 ATTACAGCTCTATTCC
109039553 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
109039569 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
109039585 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
109039601 ATTACAG
1 ATTACAG
109039608 TGAACCAAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:109039714 original size:19 final size:17
Alignment explanation
Indices: 109039682--109039716 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
109039672 TTAAGAGTGT
109039682 TTAAATAACGATTAAAA
1 TTAAATAACGATTAAAA
109039699 TTAAATTAATCGATTAAA
1 TTAAA-TAA-CGATTAAA
109039717 CTGATCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (17 bp):
TTAAATAACGATTAAAA
Found at i:109049918 original size:31 final size:31
Alignment explanation
Indices: 109049880--109049940 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
109049870 TTAATAAAAA
109049880 TAAAGTATAGTGACAAATTT-CAATATTAACT
1 TAAAGTATAGTGACAAATTTAC-ATATTAACT
109049911 TAAAGTATAGTGACAAATTTACATATTAAC
1 TAAAGTATAGTGACAAATTTACATATTAAC
109049941 CCTTTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (31 bp):
TAAAGTATAGTGACAAATTTACATATTAACT
Found at i:109051077 original size:23 final size:23
Alignment explanation
Indices: 109051051--109051096 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
109051041 AAAAATATAA
109051051 ATTATAAAAATCATAAAAAAATT
1 ATTATAAAAATCATAAAAAAATT
* *
109051074 ATTATAAAAATTATAGAAAAATT
1 ATTATAAAAATCATAAAAAAATT
109051097 TAAATTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
ATTATAAAAATCATAAAAAAATT
Found at i:109051082 original size:12 final size:11
Alignment explanation
Indices: 109051053--109051096 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
109051043 AAATATAAAT
*
109051053 TATAAAAATCA
1 TATAAAAATTA
*
109051064 TAAAAAAATTA
1 TATAAAAATTA
109051075 TTATAAAAATTA
1 -TATAAAAATTA
*
109051087 TAGAAAAATT
1 TATAAAAATT
109051097 TAAATTTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (11 bp):
TATAAAAATTA
Found at i:109051131 original size:10 final size:9
Alignment explanation
Indices: 109051113--109051185 Score: 58
Period size: 10 Copynumber: 7.8 Consensus size: 9
109051103 TCATAAGATT
109051113 TTAAGAAAAA
1 TTAA-AAAAA
109051123 TATAAAAAAA
1 T-TAAAAAAA
*
109051133 TTCAAAAAA
1 TTAAAAAAA
* *
109051142 TT-CAAATA
1 TTAAAAAAA
*
109051150 TTATAATAAA
1 TTA-AAAAAA
109051160 TTAAAAAATA
1 TTAAAAAA-A
*
109051170 TTATAAAAA
1 TTAAAAAAA
109051179 TTAAAAA
1 TTAAAAA
109051186 TTACTGGACA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
8 6 0.12
9 20 0.40
10 21 0.42
11 3 0.06
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:109051181 original size:19 final size:20
Alignment explanation
Indices: 109051145--109051185 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
109051135 CAAAAAATTC
109051145 AAATATTATAATAAATTAAA
1 AAATATTATAATAAATTAAA
109051165 AAATATTATAA-AAATTAAA
1 AAATATTATAATAAATTAAA
109051184 AA
1 AA
109051186 TTACTGGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATATTATAATAAATTAAA
Found at i:109051186 original size:18 final size:18
Alignment explanation
Indices: 109051118--109051186 Score: 70
Period size: 18 Copynumber: 3.7 Consensus size: 18
109051108 AGATTTTAAG
*
109051118 AAAAATATAAAAAAATTCA-
1 AAAAAT-TAAAAATATT-AT
*
109051137 AAAAATT-CAAATATTAT
1 AAAAATTAAAAATATTAT
109051154 AATAAATTAAAAAATATTAT
1 AA-AAATT-AAAAATATTAT
109051174 AAAAATTAAAAAT
1 AAAAATTAAAAAT
109051187 TACTGGACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
16 1 0.02
17 8 0.19
18 12 0.28
19 11 0.26
20 11 0.26
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATTAAAAATATTAT
Found at i:109051671 original size:19 final size:19
Alignment explanation
Indices: 109051629--109051671 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
109051619 AATAACAATT
* * *
109051629 TTTTTTATAATTTTTATAA
1 TTTTTAATAAATTTTAAAA
*
109051648 GTTTTAATAAATTTTAAAA
1 TTTTTAATAAATTTTAAAA
109051667 TTTTT
1 TTTTT
109051672 TATTTTATAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTAATAAATTTTAAAA
Found at i:109051988 original size:2 final size:2
Alignment explanation
Indices: 109051977--109052013 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
109051967 AAGGGGTTTA
109051977 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109052014 CCAACATGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:109054676 original size:16 final size:16
Alignment explanation
Indices: 109054648--109054682 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
109054638 CAAAGTAGAT
109054648 GAACAAAACTTTGTTA
1 GAACAAAACTTTGTTA
109054664 GAACATAAA-TTTGTTA
1 GAACA-AAACTTTGTTA
109054680 GAA
1 GAA
109054683 AGAACAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (16 bp):
GAACAAAACTTTGTTA
Found at i:109057156 original size:24 final size:23
Alignment explanation
Indices: 109057111--109057156 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
109057101 TAACCCCACA
* **
109057111 TGGTGTGATAGGATGGTCGTAGT
1 TGGTGTGAGAGGATGGGAGTAGT
109057134 TGGTGTGTAGAGGATGGGAGTAG
1 TGGTGTG-AGAGGATGGGAGTAG
109057157 GATTCTGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.20, C:0.02, G:0.48, T:0.30
Consensus pattern (23 bp):
TGGTGTGAGAGGATGGGAGTAGT
Found at i:109057224 original size:6 final size:6
Alignment explanation
Indices: 109057217--109057249 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
109057207 TAGACATGAG
*
109057217 TCTGAG TCTGAA TCTGAA TCTGAA TCTGAA TCT
1 TCTGAA TCTGAA TCTGAA TCTGAA TCTGAA TCT
109057250 AATTGTGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (6 bp):
TCTGAA
Found at i:109061856 original size:53 final size:53
Alignment explanation
Indices: 109061674--109061906 Score: 235
Period size: 53 Copynumber: 4.4 Consensus size: 53
109061664 ATTAGGGTTT
* * *
109061674 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTATAAGGC
* * * * * *
109061729 AAGGAAATCATGTAAGACCATGTCAA-ACATGGCATTGATAAGTTACCATAAAGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TATAAGGC
* * *
109061783 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTTATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
* * *
109061836 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTT-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
*
109061885 AAGGATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
109061907 AAAAGTCATG
Statistics
Matches: 148, Mismatches: 25, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
49 21 0.14
52 9 0.06
53 49 0.33
54 27 0.18
55 42 0.28
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
Found at i:109062151 original size:20 final size:20
Alignment explanation
Indices: 109062113--109062152 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
109062103 GTATTAATAA
* *
109062113 ATTTGATTAAGTAAGTAAGT
1 ATTTAATTAAGTAACTAAGT
*
109062133 ATTTAATTAAGTGACTAAGT
1 ATTTAATTAAGTAACTAAGT
109062153 GAAGAAGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (20 bp):
ATTTAATTAAGTAACTAAGT
Found at i:109064754 original size:17 final size:17
Alignment explanation
Indices: 109064734--109064767 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
109064724 AGGTTTAGGT
109064734 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
109064751 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
109064768 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:109065461 original size:12 final size:12
Alignment explanation
Indices: 109065444--109065476 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
109065434 CGGTCCATCC
109065444 ATATTAATTTTT
1 ATATTAATTTTT
109065456 ATATT-ATTTTT
1 ATATTAATTTTT
109065467 ATA-TAATTTT
1 ATATTAATTTT
109065477 GAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:109067588 original size:14 final size:14
Alignment explanation
Indices: 109067560--109067602 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
109067550 ATTTGTTTCA
*
109067560 CTGAAAAA-GACTT
1 CTGAAAAATAACTT
* *
109067573 CTGGAAAATAATTT
1 CTGAAAAATAACTT
109067587 CTGAAAAATAACTT
1 CTGAAAAATAACTT
109067601 CT
1 CT
109067603 TTTTTTCTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (14 bp):
CTGAAAAATAACTT
Found at i:109068118 original size:15 final size:15
Alignment explanation
Indices: 109068063--109068119 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
109068053 TTTATATTAC
*
109068063 AAAATATTTATTGTT
1 AAAATATTTATTATT
* *
109068078 AATATATTTATAATTGT
1 AAAATATTTATTA-T-T
109068095 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
109068112 AAAATATT
1 AAAATATT
109068120 AATATTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 2 0.06
17 2 0.06
18 2 0.06
19 10 0.30
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:109068361 original size:17 final size:18
Alignment explanation
Indices: 109068319--109068362 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
109068309 ATAATATTTT
*
109068319 ATATTAATATTTTAATAA
1 ATATAAATATTTTAATAA
109068337 ATATAAATATTTATAA-AA
1 ATATAAATATTT-TAATAA
109068355 ATA-AAATA
1 ATATAAATA
109068363 AAATTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 16 0.67
19 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATAAATATTTTAATAA
Found at i:109071705 original size:16 final size:17
Alignment explanation
Indices: 109071684--109071717 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
109071674 TAATAAATTG
*
109071684 AATTTTATAAA-AAAAT
1 AATTTTAAAAAGAAAAT
109071700 AATTTTAAAAAGAAAAT
1 AATTTTAAAAAGAAAAT
109071717 A
1 A
109071718 TTCTTTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AATTTTAAAAAGAAAAT
Found at i:109072096 original size:15 final size:15
Alignment explanation
Indices: 109072076--109072123 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
109072066 ATAATTTAAA
*
109072076 TTTAATACTTAATTT
1 TTTAATATTTAATTT
109072091 TTTAATATTTAATTTT
1 TTTAATATTTAA-TTT
*
109072107 TTTAATATTTTATTT
1 TTTAATATTTAATTT
109072122 TT
1 TT
109072124 CAATTTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 16 0.53
16 14 0.47
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTAATATTTAATTT
Found at i:109072109 original size:16 final size:16
Alignment explanation
Indices: 109072076--109072123 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
109072066 ATAATTTAAA
*
109072076 TTTAATACTTAA-TTT
1 TTTAATATTTAATTTT
109072091 TTTAATATTTAATTTT
1 TTTAATATTTAATTTT
*
109072107 TTTAATATTTTATTTT
1 TTTAATATTTAATTTT
109072123 T
1 T
109072124 CAATTTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAATATTTAATTTT
Found at i:109072486 original size:20 final size:19
Alignment explanation
Indices: 109072455--109072509 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
109072445 TGAGTTTAGG
109072455 ATTTTTTT-TTATTTTTAA
1 ATTTTTTTATTATTTTTAA
* *
109072473 ATTTTTTATATTATCTTTAG
1 ATTTTTT-TATTATTTTTAA
*
109072493 ATTTTTTTATAATTTTT
1 ATTTTTTTATTATTTTT
109072510 GAGTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 7 0.23
19 9 0.29
20 15 0.48
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
ATTTTTTTATTATTTTTAA
Found at i:109072584 original size:14 final size:14
Alignment explanation
Indices: 109072548--109072586 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
109072538 TTGTTTCACA
*
109072548 AAAAATGACTTTTG
1 AAAAATGATTTTTG
109072562 AAAAATGATTTTTG
1 AAAAATGATTTTTG
*
109072576 GAAAATGATTT
1 AAAAATGATTT
109072587 ACTTTTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (14 bp):
AAAAATGATTTTTG
Found at i:109073065 original size:15 final size:15
Alignment explanation
Indices: 109073047--109073100 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
109073037 TATACTACAA
109073047 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
109073062 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
109073079 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
109073096 ATATT
1 ATATT
109073101 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:109073158 original size:15 final size:17
Alignment explanation
Indices: 109073133--109073168 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
109073123 ATGTGAATAA
109073133 TATTGTTTAAAA-TTAT
1 TATTGTTTAAAATTTAT
109073149 TATT-TTTAAAATTTAT
1 TATTGTTTAAAATTTAT
109073165 TATT
1 TATT
109073169 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTGTTTAAAATTTAT
Found at i:109073164 original size:13 final size:14
Alignment explanation
Indices: 109073128--109073174 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
109073118 ATACTATGTG
*
109073128 AATAATATTGTTTAA
1 AATATTATT-TTTAA
109073143 AATTATTATTTTTAA
1 AA-TATTATTTTTAA
*
109073158 AAT-TTATTATTAA
1 AATATTATTTTTAA
109073171 AATA
1 AATA
109073175 AAATTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 12 0.43
14 1 0.04
15 9 0.32
16 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
AATATTATTTTTAA
Found at i:109073210 original size:20 final size:22
Alignment explanation
Indices: 109073181--109073221 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
109073171 AATAAAATTA
*
109073181 AAATATTAAA-TA-ATTTATTC
1 AAATAATAAATTATATTTATTC
109073201 AAATAATAAATTATATTTATT
1 AAATAATAAATTATATTTATT
109073222 ATATTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTC
Found at i:109075184 original size:21 final size:21
Alignment explanation
Indices: 109075160--109075212 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
109075150 TGCAATATTT
109075160 TTTGAACCAGAGCCAATTCCA
1 TTTGAACCAGAGCCAATTCCA
* *
109075181 TTTGAACCAGAGCTAGTTCCA
1 TTTGAACCAGAGCCAATTCCA
**
109075202 ACTGAACCAGA
1 TTTGAACCAGA
109075213 ATATGGAGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (21 bp):
TTTGAACCAGAGCCAATTCCA
Found at i:109078255 original size:22 final size:23
Alignment explanation
Indices: 109078213--109078265 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
109078203 GAAGAACAAA
*
109078213 AATTGAGTGAAAAATTAAGAGAG
1 AATTGAGAGAAAAATTAAGAGAG
*
109078236 AATTGAGAG-AAATTTAAGAGAG
1 AATTGAGAGAAAAATTAAGAGAG
*
109078258 ATTTGAGA
1 AATTGAGA
109078266 ATGTGAGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (23 bp):
AATTGAGAGAAAAATTAAGAGAG
Found at i:109081787 original size:12 final size:12
Alignment explanation
Indices: 109081766--109081801 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
109081756 GACCTGCTCG
109081766 TATTAATTTTTA
1 TATTAATTTTTA
*
109081778 TATTATTTTTTA
1 TATTAATTTTTA
*
109081790 TATAAATTTTTA
1 TATTAATTTTTA
109081802 AAAAAAATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTAATTTTTA
Found at i:109088011 original size:6 final size:6
Alignment explanation
Indices: 109088000--109088028 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
109087990 AACAAGATTC
109088000 AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAAT
109088029 TAAGAAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:109089562 original size:3 final size:3
Alignment explanation
Indices: 109089554--109089631 Score: 71
Period size: 3 Copynumber: 28.0 Consensus size: 3
109089544 TAACTAAATT
* * *
109089554 TAA TAA TAA TAA T-A TAA TAA -AA TAA CAG CAA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
109089599 -AA TAA -AA TAAA TAA -AA TAA TAA TAA -AA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
109089632 CAAAAGAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
2 14 0.22
3 46 0.73
4 3 0.05
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:109089595 original size:25 final size:25
Alignment explanation
Indices: 109089558--109089628 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
109089548 TAAATTTAAT
* * *
109089558 AATAATAATATAATAAAATAACAGC
1 AATAATAAAATAATAAAATAAAAGA
*
109089583 AATAATAAAATAATAAAATAAAATA
1 AATAATAAAATAATAAAATAAAAGA
109089608 AATAA-AATAATAATAAAATAA
1 AATAATAA-AATAATAAAATAA
109089629 TAACAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 2 0.05
25 39 0.95
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (25 bp):
AATAATAAAATAATAAAATAAAAGA
Found at i:109089595 original size:33 final size:33
Alignment explanation
Indices: 109089555--109089631 Score: 100
Period size: 33 Copynumber: 2.2 Consensus size: 33
109089545 AACTAAATTT
* *
109089555 AATAATAATAATATAATAAAATAACAGCAATAATAA
1 AATAATAA-AATAAAAT-AAATAA-AACAATAATAA
*
109089591 AATAATAAAATAAAATAAATAAAATAATAATAA
1 AATAATAAAATAAAATAAATAAAACAATAATAA
109089624 AATAATAA
1 AATAATAA
109089632 CAAAAGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 17 0.45
34 6 0.16
35 7 0.18
36 8 0.21
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.25
Consensus pattern (33 bp):
AATAATAAAATAAAATAAATAAAACAATAATAA
Found at i:109089617 original size:30 final size:31
Alignment explanation
Indices: 109089554--109089628 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
109089544 TAACTAAATT
* **
109089554 TAATAATAATAATATAATAAAATAACAGCAA
1 TAATAATAATAATAAAATAAAATAACAAAAA
109089585 TAATAA-AATAATAAAATAAAATAA-ATAAAA
1 TAATAATAATAATAAAATAAAATAACA-AAAA
109089615 TAATAATAA-AATAA
1 TAATAATAATAATAA
109089629 TAACAAAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 1 0.03
30 30 0.77
31 8 0.21
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.25
Consensus pattern (31 bp):
TAATAATAATAATAAAATAAAATAACAAAAA
Found at i:109089631 original size:8 final size:8
Alignment explanation
Indices: 109089558--109089631 Score: 78
Period size: 8 Copynumber: 9.0 Consensus size: 8
109089548 TAAATTTAAT
109089558 AATAATAA
1 AATAATAA
*
109089566 TATAATAA
1 AATAATAA
* *
109089574 AATAACAGC
1 AATAATA-A
109089583 AATAATAA
1 AATAATAA
109089591 AATAATAA
1 AATAATAA
*
109089599 AATAAAATA
1 AATAATA-A
109089608 AATAA-AA
1 AATAATAA
109089615 TAATAATAA
1 -AATAATAA
109089624 AATAATAA
1 AATAATAA
109089632 CAAAAGAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
7 1 0.02
8 40 0.73
9 14 0.25
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (8 bp):
AATAATAA
Found at i:109089636 original size:11 final size:11
Alignment explanation
Indices: 109089558--109089636 Score: 74
Period size: 11 Copynumber: 7.2 Consensus size: 11
109089548 TAAATTTAAT
*
109089558 AATAATAATAT
1 AATAATAATAA
109089569 AATAA-AATAA
1 AATAATAATAA
**
109089579 CAGCAATAATAA
1 -AATAATAATAA
109089591 AATAATAA-AA
1 AATAATAATAA
109089601 TAA-AATAAATAA
1 -AATAAT-AATAA
109089613 AATAATAATAA
1 AATAATAATAA
*
109089624 AATAATAACAA
1 AATAATAATAA
109089635 AA
1 AA
109089637 GAAAAAATGG
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
10 9 0.16
11 37 0.66
12 10 0.18
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.23
Consensus pattern (11 bp):
AATAATAATAA
Found at i:109095713 original size:21 final size:20
Alignment explanation
Indices: 109095676--109095723 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
109095666 AGTCTAATTT
*
109095676 TTTATTTTTTTTGTTTTAATA
1 TTTATTTTTTGTGTTTTAA-A
109095697 TTTATTTTTATGT-TTTTAAA
1 TTTATTTTT-TGTGTTTTAAA
*
109095717 TGTATTT
1 TTTATTT
109095724 GATTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.29
21 15 0.62
22 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (20 bp):
TTTATTTTTTGTGTTTTAAA
Found at i:109099111 original size:10 final size:10
Alignment explanation
Indices: 109099085--109099123 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
109099075 TAAATTCTAA
109099085 AAGATAAA-T
1 AAGATAAATT
*
109099094 ACAAATAAATT
1 A-AGATAAATT
109099105 AAGATAAATT
1 AAGATAAATT
109099115 AAGATAAAT
1 AAGATAAAT
109099124 GATAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 1 0.04
10 23 0.88
11 2 0.08
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.26
Consensus pattern (10 bp):
AAGATAAATT
Found at i:109099175 original size:26 final size:27
Alignment explanation
Indices: 109099125--109099182 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
109099115 AAGATAAATG
109099125 ATAATAAATCCTAAAATTAAATCTAA-
1 ATAATAAATCCTAAAATTAAATCTAAT
*
109099151 ATAAT-AATCCTTAATAATT-ATTCTAAT
1 ATAATAAATCC-TAA-AATTAAATCTAAT
109099178 ATAAT
1 ATAAT
109099183 TAAACATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 5 0.18
26 14 0.50
27 9 0.32
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (27 bp):
ATAATAAATCCTAAAATTAAATCTAAT
Found at i:109107168 original size:13 final size:12
Alignment explanation
Indices: 109107152--109107184 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
109107142 ATTAAATCTA
109107152 AATAATAATCCTT
1 AATAATAATCC-T
109107165 AATAATAATCCT
1 AATAATAATCCT
109107177 AAT-ATAAT
1 AATAATAAT
109107185 TAAACATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 4 0.20
13 11 0.55
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (12 bp):
AATAATAATCCT
Found at i:109140062 original size:4 final size:4
Alignment explanation
Indices: 109140053--109140102 Score: 93
Period size: 4 Copynumber: 12.8 Consensus size: 4
109140043 TTACTACCAA
109140053 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
109140100 TAT
1 TAT
109140103 TATCTCGATA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 3 0.07
4 42 0.93
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:109142697 original size:26 final size:27
Alignment explanation
Indices: 109142661--109142718 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
109142651 TATTGGAATT
**
109142661 AACTTTTTA-TTTATTTATAATTTTTA
1 AACTTTTTATTTTATTTATAAAATTTA
109142687 AACTTTTTATTTTTATTTATAAAATTTA
1 AACTTTTTA-TTTTATTTATAAAATTTA
109142715 AACT
1 AACT
109142719 ATTTGTTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 9 0.32
28 19 0.68
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (27 bp):
AACTTTTTATTTTATTTATAAAATTTA
Found at i:109145772 original size:10 final size:10
Alignment explanation
Indices: 109145757--109145785 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
109145747 ATGTGTGTGT
109145757 TAATATTGTA
1 TAATATTGTA
109145767 TAATA-TGTA
1 TAATATTGTA
109145776 TAATATTGTA
1 TAATATTGTA
109145786 AAAATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (10 bp):
TAATATTGTA
Found at i:109149059 original size:2 final size:2
Alignment explanation
Indices: 109149052--109149078 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
109149042 TACCCAAGCA
109149052 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
109149079 CCATGTGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:109153802 original size:18 final size:18
Alignment explanation
Indices: 109153779--109153814 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
109153769 ACCTCTTAAC
109153779 CTAATAACAAAACAAAAG
1 CTAATAACAAAACAAAAG
109153797 CTAATAACAAAACAAAAG
1 CTAATAACAAAACAAAAG
109153815 TACTATGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.17, G:0.06, T:0.11
Consensus pattern (18 bp):
CTAATAACAAAACAAAAG
Found at i:109161408 original size:5 final size:5
Alignment explanation
Indices: 109161398--109161428 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
109161388 TATTTTAATG
109161398 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA T
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA T
109161429 GTTTAAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TTAAA
Found at i:109168294 original size:23 final size:24
Alignment explanation
Indices: 109168250--109168301 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
109168240 TCTATTTTTT
*
109168250 GTAATGCTTATGATTTTTGTTTGA
1 GTAATGCTTACGATTTTTGTTTGA
109168274 GTAATGCTTACGA-TTTTGTTTGA
1 GTAATGCTTACGATTTTTGTTTGA
109168297 GTAAT
1 GTAAT
109168302 TTGGCTAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.50
Consensus pattern (24 bp):
GTAATGCTTACGATTTTTGTTTGA
Found at i:109186393 original size:13 final size:13
Alignment explanation
Indices: 109186375--109186401 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
109186365 TAGTTTAATC
109186375 AGTTAATTAGTTT
1 AGTTAATTAGTTT
109186388 AGTTAATTAGTTT
1 AGTTAATTAGTTT
109186401 A
1 A
109186402 ATAAATGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGTTAATTAGTTT
Found at i:109191968 original size:14 final size:15
Alignment explanation
Indices: 109191944--109191973 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
109191934 GGATATAAAA
109191944 ACATGAATTAAGAAC
1 ACATGAATTAAGAAC
109191959 ACAT-AATTAAGAAC
1 ACATGAATTAAGAAC
109191973 A
1 A
109191974 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (15 bp):
ACATGAATTAAGAAC
Found at i:109193884 original size:27 final size:27
Alignment explanation
Indices: 109193854--109194088 Score: 219
Period size: 27 Copynumber: 8.8 Consensus size: 27
109193844 CCTTAATCGA
* * *
109193854 TAAAATGATTGTTTTGCCCTTAAGTGC
1 TAAAATGACTATTTTGCCCTTAAGTGG
109193881 TAAAATGACT-TTTTGCCCTTAAGTGG
1 TAAAATGACTATTTTGCCCTTAAGTGG
* * * *
109193907 TAAAATGACTGTTTTTCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTAAGTGG
* * * *
109193934 TAAAATCACTATTTTGCCTTTATGTGA
1 TAAAATGACTATTTTGCCCTTAAGTGG
* *
109193961 TAAAATGACTATTTTGCCTTTATGTGG
1 TAAAATGACTATTTTGCCCTTAAGTGG
* * *
109193988 TAAAAT-AAT-TGTTTGCCCTTATGAGG
1 TAAAATGACTAT-TTTGCCCTTAAGTGG
* *
109194014 TAAAATAACTATTTTGCCCTTATA-TAG
1 TAAAATGACTATTTTGCCCTTA-AGTGG
* *
109194041 TAAAATGATTATTTTTCCCTTATA-TGG
1 TAAAATGACTATTTTGCCCTTA-AGTGG
*
109194068 TAAAATGACTATTTTTCCCTT
1 TAAAATGACTATTTTGCCCTT
109194089 TTATGGTAAG
Statistics
Matches: 178, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
25 1 0.01
26 46 0.26
27 130 0.73
28 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTAAGTGG
Found at i:109194007 original size:80 final size:81
Alignment explanation
Indices: 109193865--109194088 Score: 274
Period size: 80 Copynumber: 2.8 Consensus size: 81
109193855 AAAATGATTG
* * * * *
109193865 TTTTGCCCTTAAGTGCTAAAATGACT-TTTTGCCCTTAAGTGGTAAAATGACTGTTTTTCCCTTA
1 TTTTGCCCTTATGTGATAAAATGACTATTTTGCCCTTATGTGGTAAAATAACTGTTTTGCCCTTA
*
109193929 TGAGGTAAAATCACTA
66 TGAGGTAAAATAACTA
* * *
109193945 TTTTGCCTTTATGTGATAAAATGACTATTTTGCCTTTATGTGGTAAAATAATTG-TTTGCCCTTA
1 TTTTGCCCTTATGTGATAAAATGACTATTTTGCCCTTATGTGGTAAAATAACTGTTTTGCCCTTA
109194009 TGAGGTAAAATAACTA
66 TGAGGTAAAATAACTA
* * * * * * *
109194025 TTTTGCCCTTATAT-AGTAAAATGATTATTTTTCCCTTATATGGTAAAATGACTATTTTTCCCTT
1 TTTTGCCCTTATGTGA-TAAAATGACTATTTTGCCCTTATGTGGTAAAATAACTGTTTTGCCCTT
109194089 TTATGGTAAG
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 90 0.74
81 31 0.25
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (81 bp):
TTTTGCCCTTATGTGATAAAATGACTATTTTGCCCTTATGTGGTAAAATAACTGTTTTGCCCTTA
TGAGGTAAAATAACTA
Found at i:109194044 original size:107 final size:107
Alignment explanation
Indices: 109193843--109194088 Score: 273
Period size: 107 Copynumber: 2.3 Consensus size: 107
109193833 CATACTTAGA
* * * *
109193843 CCCTTA-ATCGATAAAATGATTGTTTTGCCCTTAAGTGCTAAAATGACTTTTTGCCCTTAAGTGG
1 CCCTTATAT-GATAAAATGACTATTTTGCCCTTAAGTGCTAAAATGAATTTTTGCCCTTAAGAGG
* * * *
109193907 TAAAATGACTGTTTTTCCCTTATGAGGTAAAATCACTATTTTG
65 TAAAATAACTATTTTGCCCTTATGAAGTAAAATCACTATTTTG
* * * * * *
109193950 CCTTTATGTGATAAAATGACTATTTTGCCTTTATGTGGTAAAAT-AATTGTTTGCCCTTATGAGG
1 CCCTTATATGATAAAATGACTATTTTGCCCTTAAGTGCTAAAATGAATT-TTTGCCCTTAAGAGG
* * *
109194014 TAAAATAACTATTTTGCCCTTAT-ATAGTAAAATGATTATTTTT
65 TAAAATAACTATTTTGCCCTTATGA-AGTAAAATCACTATTTTG
* *
109194057 CCCTTATATGGTAAAATGACTATTTTTCCCTT
1 CCCTTATATGATAAAATGACTATTTTGCCCTT
109194089 TTATGGTAAG
Statistics
Matches: 114, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
106 4 0.04
107 109 0.96
108 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (107 bp):
CCCTTATATGATAAAATGACTATTTTGCCCTTAAGTGCTAAAATGAATTTTTGCCCTTAAGAGGT
AAAATAACTATTTTGCCCTTATGAAGTAAAATCACTATTTTG
Found at i:109194456 original size:18 final size:18
Alignment explanation
Indices: 109194433--109194484 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
109194423 GGACTTGCAT
*
109194433 ACTGTTTACTGTTTCTGC
1 ACTGTTTACTGTTACTGC
*
109194451 ACTGTTTATTGTTACTGC
1 ACTGTTTACTGTTACTGC
* *
109194469 ACTATTTACTATTACT
1 ACTGTTTACTGTTACT
109194485 ATAATGGGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:109200211 original size:43 final size:43
Alignment explanation
Indices: 109200163--109200333 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 43
109200153 GTTATCGAGA
* *
109200163 TGTGATTACATGTAAAACCATGTCAGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAAACCATGTCTGGGACATTGGCATCGTAT
* * *
109200206 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAA
1 TGTGATTACATGTAAAACCATGTCTGGGACATTGGCATCG-TAT
* * * *
109200250 T-CGATTTCATGTAAGATCC-TGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAA-AACCATGTCTGGGACATTGGCATCGTAT
* * * * *
109200291 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 -TGTGATTACATGTAAAACCATGTCTGGGACATTGGCATCGTAT
109200334 GAGCTATATG
Statistics
Matches: 102, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 10 0.10
43 86 0.84
44 5 0.05
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAAACCATGTCTGGGACATTGGCATCGTAT
Found at i:109200318 original size:86 final size:85
Alignment explanation
Indices: 109200166--109200328 Score: 204
Period size: 86 Copynumber: 1.9 Consensus size: 85
109200156 ATCGAGATGT
* * * * *
109200166 GATTACATGTAAAACCATGTCAGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATGTCT
1 GATTACATGTAAAACCATGTCAGGGACAGTGGCATCGTATTGTGATAACATGTAAGACCATATCT
109200231 GGGACATTGGCATCGTTAATC
66 GGGACA-TGGCATCGTTAATC
* * *
109200252 GATTTCATGTAAGATCC-TGTCTGGGACAGTGGCATCG-ATATGTGATAACATGTAAGACCATAT
1 GATTACATGTAA-AACCATGTCAGGGACAGTGGCATCGTAT-TGTGATAACATGTAAGACCATAT
*
109200315 CTGGGATATGGCAT
64 CTGGGACATGGCAT
109200329 TGTATGAGCT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
85 8 0.12
86 55 0.83
87 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (85 bp):
GATTACATGTAAAACCATGTCAGGGACAGTGGCATCGTATTGTGATAACATGTAAGACCATATCT
GGGACATGGCATCGTTAATC
Found at i:109203026 original size:32 final size:32
Alignment explanation
Indices: 109202980--109203042 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
109202970 AAGGAAGAAG
* *
109202980 TAAGCTTTATGCTTAGTAAGTCCATATGAAAT
1 TAAGCTTTACGCTTAGTAAGTCCATAAGAAAT
109203012 TAAGCTTTACGCTTAGTAAGTCCATAAGAAA
1 TAAGCTTTACGCTTAGTAAGTCCATAAGAAA
109203043 ATAATAAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (32 bp):
TAAGCTTTACGCTTAGTAAGTCCATAAGAAAT
Found at i:109204117 original size:50 final size:50
Alignment explanation
Indices: 109204002--109204273 Score: 228
Period size: 50 Copynumber: 5.7 Consensus size: 50
109203992 AGGGTAAGAT
* * * * * *
109204002 GCCGATGCCATGTCCCGGACATGGTCTTACACTG--GCTCACACATCAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG
* *
109204050 GTCGATGCCATGTCCCAGACATGCTCTTACACTGACTCTCATATATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG
* * * *
109204100 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATCTGTCG-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG
* * * * *
109204149 TGCCGATGCCATGTTCTAGACATGGTCTTACACTGA----AACATATC-AA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG
* * * *
109204195 GTCGATGCCATGTCCCAGGCATTGTCTTACACT-AGCTCTCATA-AT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAG
* *
109204243 ACTGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
109204274 AGCACACATA
Statistics
Matches: 179, Mismatches: 35, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
44 1 0.01
45 28 0.16
46 14 0.08
47 13 0.07
48 37 0.21
49 3 0.02
50 83 0.46
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG
Found at i:109204191 original size:98 final size:95
Alignment explanation
Indices: 109204002--109204286 Score: 258
Period size: 95 Copynumber: 3.0 Consensus size: 95
109203992 AGGGTAAGAT
* * *
109204002 GCCGATGCCATGTCCCGGACATGGTCTTACACTGGCTCACA-CATCAAAGTCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCATCAAAGCCGATGCCATGTCCC
* * *
109204066 AGACATGCTCTTACACTGACTCTCATATATCGAG
66 AGACATGCTCTTACACTGA--C-AACATATC-AA
* * *** *
109204100 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATCTGTCGGTGCCGATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATC-ATCAAAGCCGATGCCATGTCC
* *
109204165 TAGACATGGTCTTACACTGA-AACATATCAA
65 CAGACATGCTCTTACACTGACAACATATCAA
* * * * * *** *
109204195 GTCGATGCCATGTCCCAGGCATTGTCTTACACTAGCTCTCATAATGTGA-CTGATG-CATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCATCAAAGCCGATGCCATGTCCC
109204258 AGACATG-TCTTACACT-AGCACACATATCA
66 AGACATGCTCTTACACTGA-CA-ACATATCA
109204287 CCCAAATATC
Statistics
Matches: 155, Mismatches: 27, Indels: 15
0.79 0.14 0.08
Matches are distributed among these distances:
90 1 0.01
91 9 0.06
92 14 0.09
93 13 0.08
94 2 0.01
95 38 0.25
96 6 0.04
98 38 0.25
99 1 0.01
100 33 0.21
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCATCAAAGCCGATGCCATGTCCC
AGACATGCTCTTACACTGACAACATATCAA
Found at i:109204833 original size:30 final size:31
Alignment explanation
Indices: 109204789--109204847 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
109204779 TTCCATAATT
*
109204789 TATACTTTGGC-AAAATGACCATTTTACCCC
1 TATACTTTGACAAAAATGACCATTTTACCCC
* * *
109204819 TATACTTTTACAAAAATTACGATTTTACC
1 TATACTTTGACAAAAATGACCATTTTACC
109204848 TTTAGGCTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (31 bp):
TATACTTTGACAAAAATGACCATTTTACCCC
Found at i:109208931 original size:15 final size:15
Alignment explanation
Indices: 109208911--109208946 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
109208901 GACGCGAGGG
109208911 TGGTGGTTGCTGGAA
1 TGGTGGTTGCTGGAA
*
109208926 TGGTGGTTGCTGGGA
1 TGGTGGTTGCTGGAA
109208941 TGGTGG
1 TGGTGG
109208947 GTCCTCGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.06, G:0.53, T:0.33
Consensus pattern (15 bp):
TGGTGGTTGCTGGAA
Found at i:109224142 original size:6 final size:6
Alignment explanation
Indices: 109224131--109224188 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
109224121 TTTCAATTTG
* * * * *
109224131 TTTTTC TTTTTC TTTTTA -TTTTC TTTTTA TTTTTA TGTTTA TTTTTG
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
109224178 TTTTTA TTTTT
1 TTTTTA TTTTT
109224189 CATGTTCTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
5 4 0.09
6 40 0.91
ACGTcount: A:0.09, C:0.05, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:109224146 original size:11 final size:11
Alignment explanation
Indices: 109224138--109224187 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
109224128 TTGTTTTTCT
109224138 TTTTCTTTTTA
1 TTTTCTTTTTA
109224149 TTTTCTTTTTA
1 TTTTCTTTTTA
109224160 TTTT-TATGTTTA
1 TTTTCT-T-TTTA
*
109224172 TTTTTGTTTTTA
1 -TTTTCTTTTTA
109224184 TTTT
1 TTTT
109224188 TCATGTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 20 0.57
12 8 0.23
13 5 0.14
14 1 0.03
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTA
Found at i:109224146 original size:12 final size:12
Alignment explanation
Indices: 109224131--109224189 Score: 75
Period size: 12 Copynumber: 5.0 Consensus size: 12
109224121 TTTCAATTTG
*
109224131 TTTTTCTTTTTC
1 TTTTTATTTTTC
109224143 TTTTTA-TTTTC
1 TTTTTATTTTTC
*
109224154 TTTTTATTTTTA
1 TTTTTATTTTTC
* *
109224166 TGTTTATTTTTG
1 TTTTTATTTTTC
109224178 TTTTTATTTTTC
1 TTTTTATTTTTC
109224190 ATGTTCTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
11 11 0.28
12 29 0.73
ACGTcount: A:0.08, C:0.07, G:0.03, T:0.81
Consensus pattern (12 bp):
TTTTTATTTTTC
Found at i:109224152 original size:17 final size:17
Alignment explanation
Indices: 109224132--109224187 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
109224122 TTCAATTTGT
*
109224132 TTTTCTTTTTCTTTTTA
1 TTTTCTTTTTATTTTTA
109224149 TTTTCTTTTTATTTTTA
1 TTTTCTTTTTATTTTTA
* *
109224166 TGTTTATTTTTGTTTTTA
1 T-TTTCTTTTTATTTTTA
109224184 TTTT
1 TTTT
109224188 TCATGTTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
17 20 0.57
18 15 0.43
ACGTcount: A:0.09, C:0.05, G:0.04, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTTATTTTTA
Found at i:109224176 original size:24 final size:23
Alignment explanation
Indices: 109224131--109224194 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
109224121 TTTCAATTTG
* * *
109224131 TTTTTCTTTTTCTTTTTATTTTC
1 TTTTTATTTTTATGTTTATTTTC
*
109224154 TTTTTATTTTTATGTTTATTTTTG
1 TTTTTATTTTTATGTTTA-TTTTC
109224178 TTTTTATTTTTCATGTT
1 TTTTTATTTTT-ATGTT
109224195 CTTAAAATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 15 0.43
24 15 0.43
25 5 0.14
ACGTcount: A:0.09, C:0.06, G:0.05, T:0.80
Consensus pattern (23 bp):
TTTTTATTTTTATGTTTATTTTC
Found at i:109239420 original size:21 final size:21
Alignment explanation
Indices: 109239394--109239441 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
109239384 ACTAGGTGGA
* *
109239394 TCAGCTCTTATGATCTTCTGT
1 TCAGCTCTTATGAGCTTATGT
109239415 TCAGCTCTTATGAGCTTATGT
1 TCAGCTCTTATGAGCTTATGT
109239436 TCAGCT
1 TCAGCT
109239442 TTTAATAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTATGT
Found at i:109239451 original size:21 final size:21
Alignment explanation
Indices: 109239394--109239464 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
109239384 ACTAGGTGGA
* * *
109239394 TCAGCTCTTATGATCTTCTGT
1 TCAGCTTTTATGAGCTTATGT
*
109239415 TCAGCTCTTATGAGCTTATGT
1 TCAGCTTTTATGAGCTTATGT
* *
109239436 TCAGCTTTTAAT-AGCTTCTAT
1 TCAGCTTTT-ATGAGCTTATGT
109239457 TCAGCTTT
1 TCAGCTTT
109239465 CGAGCTTTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 42 0.95
22 2 0.05
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.46
Consensus pattern (21 bp):
TCAGCTTTTATGAGCTTATGT
Found at i:109239763 original size:28 final size:30
Alignment explanation
Indices: 109239731--109239792 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
109239721 GTAGGTTCGG
*
109239731 TAAGA-TTTTGTTTAA-CCGTTGAACTTAC
1 TAAGATTTTTGTTTAACCCGTCGAACTTAC
*
109239759 TAAGATTTTTGTTTAACCCGTCGAACTTAG
1 TAAGATTTTTGTTTAACCCGTCGAACTTAC
109239789 TAAG
1 TAAG
109239793 CTTTATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 5 0.17
29 10 0.33
30 15 0.50
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (30 bp):
TAAGATTTTTGTTTAACCCGTCGAACTTAC
Found at i:109240420 original size:43 final size:43
Alignment explanation
Indices: 109240347--109240444 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
109240337 GGGTAGGGAA
* * * * *
109240347 ACGGGCGTGTGTCTTAGTCGTGTGTAACACATGGCAAGATGAT
1 ACGGTCGTGTGTATCAGTCGTCTGTAACACATGGCAAGATGAC
* * *
109240390 ACGGTTGTGTGTATCAGTCGTCTGTGACACATGGCAAGGTGAC
1 ACGGTCGTGTGTATCAGTCGTCTGTAACACATGGCAAGATGAC
109240433 ACGGTCGTGTGT
1 ACGGTCGTGTGT
109240445 CCCTTGTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (43 bp):
ACGGTCGTGTGTATCAGTCGTCTGTAACACATGGCAAGATGAC
Found at i:109244821 original size:4 final size:4
Alignment explanation
Indices: 109244789--109244840 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
109244779 CAATTTACCG
* * * *
109244789 ATTT ATTT CATTT GTTC ATTTT CTTT ATTT ATTT ATTT ATTT CTTT ATTT
1 ATTT ATTT -ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
109244839 AT
1 AT
109244841 CTTGTCGAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
4 32 0.84
5 6 0.16
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:109245661 original size:22 final size:22
Alignment explanation
Indices: 109245633--109245674 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
109245623 TACGATATGA
109245633 ATAAAAT-ATAAGGAAATATAAT
1 ATAAAATGATAA-GAAATATAAT
*
109245655 ATAAAATGATAATAAATATA
1 ATAAAATGATAAGAAATATA
109245675 TAATAAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (22 bp):
ATAAAATGATAAGAAATATAAT
Found at i:109245680 original size:22 final size:22
Alignment explanation
Indices: 109245627--109245680 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
109245617 TAATAATACG
109245627 ATATGAATAAAATATAAGGAAAT
1 ATAT-AATAAAATATAAGGAAAT
*
109245650 ATA-ATATAAAATGATAA-TAAAT
1 ATATA-ATAAAAT-ATAAGGAAAT
109245672 ATATAATAA
1 ATATAATAA
109245681 GTATTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 1 0.04
22 18 0.67
23 8 0.30
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
ATATAATAAAATATAAGGAAAT
Found at i:109245766 original size:13 final size:14
Alignment explanation
Indices: 109245743--109245780 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
109245733 TAAAAAACAA
109245743 AATAGATATATAAAT
1 AATA-ATATATAAAT
109245758 AA-AATATAT-AAT
1 AATAATATATAAAT
109245770 AATAATATATA
1 AATAATATATA
109245781 TAAGAAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.24
13 13 0.62
14 1 0.05
15 2 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AATAATATATAAAT
Found at i:109245930 original size:17 final size:19
Alignment explanation
Indices: 109245904--109245950 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
109245894 AATATTTTTC
*
109245904 ATATAGTAAAATA-A-ATA
1 ATATAATAAAATATATATA
*
109245921 ATATAATAAAATATATATC
1 ATATAATAAAATATATATA
109245940 ATATAATAAAA
1 ATATAATAAAA
109245951 ATTTTGAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 12 0.46
18 1 0.04
19 13 0.50
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
ATATAATAAAATATATATA
Found at i:109245945 original size:19 final size:17
Alignment explanation
Indices: 109245902--109245950 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
109245892 CAAATATTTT
*
109245902 TCATATAGTAAAATAAA
1 TCATATAATAAAATAAA
*
109245919 TAATATAATAAAATATATA
1 TCATATAATAAAATA-A-A
109245938 TCATATAATAAAA
1 TCATATAATAAAA
109245951 ATTTTGAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 13 0.48
18 1 0.04
19 13 0.48
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
TCATATAATAAAATAAA
Found at i:109247512 original size:25 final size:25
Alignment explanation
Indices: 109247479--109247537 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
109247469 CTTCATGAGT
109247479 TTTGGGTCTTGTAAGGGTTT-TTGGG
1 TTTGGGTCTTGTAA-GGTTTATTGGG
109247504 TTTGGGTCTTGTAAGGTTTATTGGG
1 TTTGGGTCTTGTAAGGTTTATTGGG
109247529 TTTGGGTCT
1 TTTGGGTCT
109247538 GCTGTAGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 5 0.15
25 28 0.85
ACGTcount: A:0.08, C:0.05, G:0.37, T:0.49
Consensus pattern (25 bp):
TTTGGGTCTTGTAAGGTTTATTGGG
Found at i:109247925 original size:44 final size:43
Alignment explanation
Indices: 109247875--109247957 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
109247865 CATGTTGATA
*
109247875 TCTTCGATCTGCTCTCCGCCGAACACAGAGACGCCAAATCTACT
1 TCTTCGATCTGCTCTCCGAC-AACACAGAGACGCCAAATCTACT
* * * * *
109247919 TCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCCGACAACACAGAGACGCCAAATC
109247958 ATCTTAGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 17 0.52
44 16 0.48
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (43 bp):
TCTTCGATCTGCTCTCCGACAACACAGAGACGCCAAATCTACT
Found at i:109248229 original size:119 final size:119
Alignment explanation
Indices: 109248057--109248300 Score: 416
Period size: 119 Copynumber: 2.1 Consensus size: 119
109248047 CTTGGATCTA
** *
109248057 CTTCAGTCTAATCATTTGAAGGTTAGATCTGCTATGTGTCTGCCCTTCATCGAATATAGAGACGC
1 CTTCAGTCTAATCAACTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATATAGAGACGC
* *
109248122 CAAACTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTG
66 CAAACCTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTG
* *
109248176 CTTCAGTCTAATCAACTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGC
1 CTTCAGTCTAATCAACTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATATAGAGACGC
*
109248241 CAAACCTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTG
66 CAAACCTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTG
109248295 CTTCAG
1 CTTCAG
109248301 CATAAGCACG
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 117 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (119 bp):
CTTCAGTCTAATCAACTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATATAGAGACGC
CAAACCTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTG
Found at i:109248329 original size:119 final size:119
Alignment explanation
Indices: 109248087--109248330 Score: 357
Period size: 119 Copynumber: 2.1 Consensus size: 119
109248077 GGTTAGATCT
* * *
109248087 GCTATGTGTCTGCCCTTCATCGAATATAGAGACGCCAAACTTCGATTTGTTCTCTAACAATACAG
1 GCTATGTGTCTGCCCTCCATCGAATATAGAGACGCCAAACCTCAATTTGTTCTCTAACAATACAG
* * * * *
109248152 AGATGCCAAATCATCTTAGACTTGCTTCAGTCTAATCAACTGAAGGTTAGATCT
66 AGATGCCAAATCATCTTAGACTTGCTTCAGTCTAAGCAACTGAAAGCTAAATCA
* * *
109248206 GCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACCTCAATTTGTTCTCTGACAATACAG
1 GCTATGTGTCTGCCCTCCATCGAATATAGAGACGCCAAACCTCAATTTGTTCTCTAACAATACAG
109248271 AGATGCCAAATCATCTTAGACTTGCTTCAG-CATAAGC-ACGTGAAAGCTAAATCA
66 AGATGCCAAATCATCTTAGACTTGCTTCAGTC-TAAGCAAC-TGAAAGCTAAATCA
109248325 GCTATG
1 GCTATG
109248331 ATTTCGATTT
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
118 3 0.03
119 109 0.97
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (119 bp):
GCTATGTGTCTGCCCTCCATCGAATATAGAGACGCCAAACCTCAATTTGTTCTCTAACAATACAG
AGATGCCAAATCATCTTAGACTTGCTTCAGTCTAAGCAACTGAAAGCTAAATCA
Found at i:109248339 original size:206 final size:206
Alignment explanation
Indices: 109248153--109249003 Score: 1368
Period size: 206 Copynumber: 4.1 Consensus size: 206
109248143 ACAATACAGA
* * *
109248153 GATGCCAAATCATCTTAGA-CTTGCTTCAGTCTAATCAACTGAAGGTTAGATCTGCTATGTGTCT
1 GATGCCAAACCATCTTGGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCT
* *
109248217 GCCCTCCGTCGAATATGGAGACGCCAAACCTCAATTTGTTCTCTGACAATACAGAGATGCCAAAT
65 GCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAAT
* * *
109248282 CATCTTAGACTTGCTTCAGCATAAGCACGTGAAAGCTAAATCAGCTATGAT-TTCGATTTGTTCC
130 CATCTTAGATTTGCTTCATCATAAGCACGTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCC
109248346 TTGTAAACACAAG
194 TTGTAAACACAAG
*
109248359 GATGCCAAACCATCTTGGATCTGTTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTG
1 GATGCCAAACCATCTTGGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTG
* *
109248424 CCCTCCGTCGAATATGGAAATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATC
66 CCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATC
*
109248489 ATCTTAGATTTGCTTCATCATAAGCACGTGAAAGCTAAATCAGCTATGAT-TTCGATTTGTTCCT
131 ATCTTAGATTTGCTTCATCATAAGCACGTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCT
109248553 TGTAAACACAAG
195 TGTAAACACAAG
*
109248565 GATGCCAAACCATCTTGGATCTGCTTCAGTCTAATCATCTAAAGGTTAGATCTGCTATGTGTCTG
1 GATGCCAAACCATCTTGGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTG
109248630 CCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATC
66 CCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATC
** *
109248695 ATCTTAGATTTGCTTCATTGTAAGCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTT
131 ATCTTAGATTTGCTTCATCATAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTT
*
109248760 GTAAATACAAG
196 GTAAACACAAG
* * ** *
109248771 GATGCCAAATCATCTTGGATCTGCTTCAGTATCAA-CATCTGAAGGCCAGATCTGCTATGTATCT
1 GATGCCAAACCATCTTGGATCTGCTTCAGTCT-AATCATCTGAAGGTTAGATCTGCTATGTGTCT
* *
109248835 GCTCTCCGTCGAATATGGAGACACCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAAT
65 GCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAAT
* * *
109248900 CATCTTAGATTGGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCT
130 CATCTTAGATTTGCTTCATCATAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCT
*
109248965 TGTAAGCACAAG
195 TGTAAACACAAG
*
109248977 GATGCCAAATCATCTTGGATCTTGCTT
1 GATGCCAAACCATCTTGGATC-TGCTT
109249004 TAGCCAGATC
Statistics
Matches: 608, Mismatches: 33, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
205 1 0.00
206 599 0.99
207 8 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
GATGCCAAACCATCTTGGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTG
CCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATC
ATCTTAGATTTGCTTCATCATAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTT
GTAAACACAAG
Found at i:109263570 original size:22 final size:22
Alignment explanation
Indices: 109263542--109263583 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
109263532 TACGATATGA
109263542 ATAAAAT-ATAAGGAAATATAAT
1 ATAAAATGATAA-GAAATATAAT
*
109263564 ATAAAATGATAATAAATATA
1 ATAAAATGATAAGAAATATA
109263584 TAATAAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (22 bp):
ATAAAATGATAAGAAATATAAT
Found at i:109263589 original size:22 final size:22
Alignment explanation
Indices: 109263536--109263589 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
109263526 TAATAATACG
109263536 ATATGAATAAAATATAAGGAAAT
1 ATAT-AATAAAATATAAGGAAAT
*
109263559 ATA-ATATAAAATGATAA-TAAAT
1 ATATA-ATAAAAT-ATAAGGAAAT
109263581 ATATAATAA
1 ATATAATAA
109263590 GTATTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 1 0.04
22 18 0.67
23 8 0.30
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
ATATAATAAAATATAAGGAAAT
Found at i:109263675 original size:13 final size:14
Alignment explanation
Indices: 109263652--109263689 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
109263642 TAAAAAACAA
109263652 AATAGATATATAAAT
1 AATA-ATATATAAAT
109263667 AA-AATATAT-AAT
1 AATAATATATAAAT
109263679 AATAATATATA
1 AATAATATATA
109263690 TAAGAAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.24
13 13 0.62
14 1 0.05
15 2 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AATAATATATAAAT
Found at i:109264120 original size:21 final size:22
Alignment explanation
Indices: 109264084--109264125 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
109264074 ACAATTTACA
*
109264084 AATTTAATAAATAATAATATAT
1 AATTTAATAAAAAATAATATAT
109264106 AATTT-ATAAAAAATAATATA
1 AATTTAATAAAAAATAATATA
109264126 AGGAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTTAATAAAAAATAATATAT
Found at i:109264134 original size:29 final size:28
Alignment explanation
Indices: 109264102--109264166 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 28
109264092 AAATAATAAT
*
109264102 ATATAATTTATAAAAAATAATATAAGGAA
1 ATATAATTTATAAAAAA-AATATAAGAAA
* *
109264131 ATAT-A--TAT-AACAAAATATAATAAA
1 ATATAATTTATAAAAAAAATATAAGAAA
109264155 ATATAATTTATA
1 ATATAATTTATA
109264167 GATGAGATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
24 13 0.45
25 5 0.17
26 3 0.10
27 3 0.10
28 1 0.03
29 4 0.14
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (28 bp):
ATATAATTTATAAAAAAAATATAAGAAA
Found at i:109264157 original size:61 final size:60
Alignment explanation
Indices: 109264081--109264231 Score: 139
Period size: 61 Copynumber: 2.5 Consensus size: 60
109264071 ATTACAATTT
* **
109264081 ACAAATTTAAT-AAATAATAATATATAAT-TTATAAAAAATAATATAAGGAAAT-ATATATA
1 ACAAATATAATAAAATAATAATATATAATGAGAT-AAAAATAATATAA-GAAATAATATATA
* * *
109264140 ACAAAATATAATAAAAT-ATAATTTATAGATGAGATAAAAATAATATAATATATAATATATA
1 AC-AAATATAATAAAATAATAATATATA-ATGAGATAAAAATAATATAAGAAATAATATATA
* *
109264201 ACTAATATTTATAAAAATAAATAATATATAA
1 ACAAATA-TAAT-AAAAT-AATAATATATAA
109264232 AGTATCTTAG
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
59 2 0.03
60 24 0.32
61 31 0.42
62 7 0.09
63 1 0.01
64 9 0.12
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (60 bp):
ACAAATATAATAAAATAATAATATATAATGAGATAAAAATAATATAAGAAATAATATATA
Found at i:109264924 original size:2 final size:2
Alignment explanation
Indices: 109264917--109264953 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
109264907 TAAAAAGGGT
109264917 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
109264954 GTGTCAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:109265435 original size:25 final size:25
Alignment explanation
Indices: 109265400--109265458 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
109265390 CTTCATGTGT
*
109265400 TTTGGGACTTGTAAGGGTTT-TTGGG
1 TTTGGGTCTTGTAA-GGTTTATTGGG
109265425 TTTGGGTCTTGTAAGGTTTATTGGG
1 TTTGGGTCTTGTAAGGTTTATTGGG
109265450 TTTGGGTCT
1 TTTGGGTCT
109265459 GTTGTAGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 5 0.16
25 27 0.84
ACGTcount: A:0.10, C:0.05, G:0.37, T:0.47
Consensus pattern (25 bp):
TTTGGGTCTTGTAAGGTTTATTGGG
Found at i:109273250 original size:20 final size:20
Alignment explanation
Indices: 109273227--109273264 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
109273217 ATATATATAC
*
109273227 AATATAAAAATATATAAAAG
1 AATATAAAAATAAATAAAAG
*
109273247 AATATAAATATAAATAAA
1 AATATAAAAATAAATAAA
109273265 GTGAGTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
AATATAAAAATAAATAAAAG
Found at i:109273325 original size:12 final size:13
Alignment explanation
Indices: 109273307--109273358 Score: 63
Period size: 14 Copynumber: 4.1 Consensus size: 13
109273297 AAAAAATATG
109273307 ATATTTAATAATA
1 ATATTTAATAATA
109273320 AT-TTTAA-AATA
1 ATATTTAATAATA
*
109273331 GTATTTAATATATA
1 ATATTTAATA-ATA
*
109273345 ATATATAATAATA
1 ATATTTAATAATA
109273358 A
1 A
109273359 AAAAATTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 5 0.15
12 10 0.30
13 7 0.21
14 11 0.33
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:109273354 original size:24 final size:24
Alignment explanation
Indices: 109273299--109273357 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 24
109273289 CTTATAATAA
*
109273299 AAAATATGATATTTAATAATAATTTT
1 AAAATA-G-TATTTAATAATAATTAT
109273325 AAAATAGTATTTAATATATAATATAT
1 AAAATAGTATTTAATA-ATAAT-TAT
109273351 AATAATA
1 AA-AATA
109273358 AAAAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.31
25 6 0.21
26 10 0.34
27 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (24 bp):
AAAATAGTATTTAATAATAATTAT
Found at i:109273737 original size:18 final size:18
Alignment explanation
Indices: 109273690--109273843 Score: 100
Period size: 18 Copynumber: 8.1 Consensus size: 18
109273680 AGACAAAAAT
*
109273690 ATATAATAGTATAAAAT-G
1 ATATAATA-TATAAAATAA
*
109273708 ACATAATAATATAAAATAA
1 ATATAAT-ATATAAAATAA
*
109273727 ATATAATATATAATATAA
1 ATATAATATATAAAATAA
*
109273745 A-AGTATATATGTGAAAATAA
1 ATA-TA-ATATAT-AAAATAA
109273765 TATATAA-ATATATAAATAA
1 -ATATAATATATA-AAATAA
109273784 TATGAGTAATATATAAAATAA
1 -AT-A-TAATATATAAAATAA
*
109273805 TTATATAATATATAATATAA
1 --ATATAATATATAAAATAA
* *
109273825 AAATAA-AAATAAAAATAA
1 ATATAATATAT-AAAATAA
109273843 A
1 A
109273844 GCAAATAACA
Statistics
Matches: 112, Mismatches: 11, Indels: 26
0.75 0.07 0.17
Matches are distributed among these distances:
17 4 0.04
18 40 0.36
19 24 0.21
20 22 0.20
21 13 0.12
22 9 0.08
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (18 bp):
ATATAATATATAAAATAA
Found at i:109273796 original size:20 final size:18
Alignment explanation
Indices: 109273687--109273824 Score: 104
Period size: 20 Copynumber: 7.1 Consensus size: 18
109273677 TATAGACAAA
109273687 AATATATAATAGTATAAAAT
1 AATATATAATA-TAT-AAAT
109273707 GACATA-ATAATATA-AAAT
1 -A-ATATATAATATATAAAT
109273725 AA-ATATAATATATAATAT
1 AATATATAATATATAA-AT
* *
109273743 AAAAGTAT-ATATGTGAAAAT
1 AATA-TATAATATAT--AAAT
109273763 AATATATAAATATATAAAT
1 AATATAT-AATATATAAAT
109273782 AATATGAGTAATATATAAAAT
1 AATAT-A-TAATATAT-AAAT
109273803 AATTATATAATATATAATAT
1 AA-TATATAATATATAA-AT
109273823 AA
1 AA
109273825 AAATAAAAAT
Statistics
Matches: 99, Mismatches: 3, Indels: 31
0.74 0.02 0.23
Matches are distributed among these distances:
15 1 0.01
16 9 0.09
17 3 0.03
18 8 0.08
19 20 0.20
20 30 0.30
21 22 0.22
22 6 0.06
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (18 bp):
AATATATAATATATAAAT
Found at i:109277164 original size:26 final size:26
Alignment explanation
Indices: 109277133--109277240 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
109277123 TGAAATTCCC
109277133 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
109277159 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
109277185 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
109277211 GTCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
109277237 ATCA
1 ATCA
109277241 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 3 0.04
26 71 0.96
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:109278522 original size:44 final size:43
Alignment explanation
Indices: 109278472--109278554 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
109278462 CATGTTGATA
*
109278472 TCTTCGATCTGCTCTCCGCCAAACACAGAGACGCCAAATCTGCT
1 TCTTCGATCTGCTCTCCGAC-AACACAGAGACGCCAAATCTGCT
* * * *
109278516 TCTTCGATTTGTTCTCTGACAATACAGAGACGCCAAATC
1 TCTTCGATCTGCTCTCCGACAACACAGAGACGCCAAATC
109278555 ATCTTATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 18 0.53
44 16 0.47
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (43 bp):
TCTTCGATCTGCTCTCCGACAACACAGAGACGCCAAATCTGCT
Found at i:109278968 original size:205 final size:206
Alignment explanation
Indices: 109278517--109279291 Score: 1175
Period size: 205 Copynumber: 3.8 Consensus size: 206
109278507 AAATCTGCTT
* * *
109278517 CTTCGATTTGTTCTCTGACAATACAGAGACGCCAAATCATCTTATATTTGCTTCA-TCGTAAGCA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGTCGTAAACA
* *
109278581 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCT
66 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATACCAAACCATCT
** * * * * *
109278646 TGGATCTTGCTTCA--ATGAAATTATCTGAAGGTAAGATCTGCTATGTATCTACTCCCCGTTGAA
131 TGGATC-TGCTTCAGCAT--AAGCATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCGAA
* *
109278709 GTTGAGATGCTAGA
193 GTGGAGATGCCAGA
109278723 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTC-GTCGTAAACA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGTCGTAAACA
* *
109278787 CATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCT
66 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATACCAAACCATCT
109278852 TGGATCTGCTTCAGCATAAGCATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCGAAGTG
131 TGGATCTGCTTCAGCATAAGCATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCGAAGTG
109278917 GAGATGCCAGA
196 GAGATGCCAGA
*
109278928 CTTCGATTTGTTCTCTGACAATACAGAGATGCCGAATCATCTTAGATTTGCTTCAG-CGTAAACA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGTCGTAAACA
* * *
109278992 TGTGAAAGCCAAATCAGCTATGGCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCT
66 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATACCAAACCATCT
* *
109279057 TGGATCTGCTTCAGCATAAGCATCTGAAGGTGAGATCTGCTATGTATCTGATCTCTATCGAAGTG
131 TGGATCTGCTTCAGCATAAGCATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCGAAGTG
109279122 GAGATGCCAGA
196 GAGATGCCAGA
* * *
109279133 CTTCGATTTGTTTTCTGACAATACAGATATGCCAAGTCATCTTAGATTTGCTTCAGT-GTAAACA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGTCGTAAACA
* * ** * *
109279197 CGTGAAAGCCAAATCAGCCATGTCTTCGATTTATTCCTCATAAGAACAAGAATACCAAACCATAT
66 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATACCAAACCATCT
** *
109279262 TGGATCTATTTCAGCATAAACATCTGAAGG
131 TGGATCTGCTTCAGCATAAGCATCTGAAGG
109279292 CCAGATCTAC
Statistics
Matches: 526, Mismatches: 38, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
205 396 0.75
206 128 0.24
207 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGTCGTAAACA
CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATACCAAACCATCT
TGGATCTGCTTCAGCATAAGCATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCGAAGTG
GAGATGCCAGA
Found at i:109291091 original size:20 final size:20
Alignment explanation
Indices: 109291068--109291105 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
109291058 ATATATATAC
*
109291068 AATATAAAAATATATAAAAG
1 AATATAAAAATAAATAAAAG
*
109291088 AATATAAATATAAATAAA
1 AATATAAAAATAAATAAA
109291106 GTGAGTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
AATATAAAAATAAATAAAAG
Found at i:109291235 original size:17 final size:18
Alignment explanation
Indices: 109291177--109291236 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
109291167 TTTAATATAT
109291177 AATATATAATAACAA-AAA
1 AATATAT-ATAACAATAAA
* *
109291195 AAT-TATAAAAGAATAATA
1 AATATATATAACAATAA-A
*
109291213 ATTATATATAA-AATAAA
1 AATATATATAACAATAAA
109291230 AATATAT
1 AATATAT
109291237 TGGTTTACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 5 0.15
17 12 0.35
18 11 0.32
19 6 0.18
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AATATATATAACAATAAA
Found at i:109291531 original size:18 final size:18
Alignment explanation
Indices: 109291500--109291565 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
109291490 AATGATAACA
109291500 ATAT-ATAG-ATAAAAAT
1 ATATAATAGTATAAAAAT
109291516 ATATAATAGTAT-AAAAT
1 ATATAATAGTATAAAAAT
* * *
109291533 GACATAATAATATAAAATAA
1 -ATATAATAGTATAAAA-AT
109291553 ATATAATA-TATAA
1 ATATAATAGTATAA
109291566 TATAAAAGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.10
17 9 0.22
18 17 0.41
19 10 0.24
20 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (18 bp):
ATATAATAGTATAAAAAT
Found at i:109291560 original size:16 final size:17
Alignment explanation
Indices: 109291511--109291663 Score: 63
Period size: 18 Copynumber: 8.8 Consensus size: 17
109291501 TATATAGATA
* *
109291511 AAAATATATAATAGTAT
1 AAAATAAATAATAATAT
*
109291528 AAAATGACATAATAATAT
1 AAAAT-AAATAATAATAT
109291546 AAAATAAAT-ATAATAT
1 AAAATAAATAATAATAT
*
109291562 ATAATATAAA-AGTATATACGT
1 A-AA-ATAAATAATA-ATA--T
109291583 GAAAAT-AATATATAATAT
1 -AAAATAAATA-ATAATAT
*
109291601 -ATATAAATAAT-ATGAGT
1 AAAATAAATAATAAT-A-T
*
109291618 AATATATAA-AATAATTAT
1 AAAATA-AATAATAA-TAT
* *
109291636 ATAATATATAAT-ATA-
1 AAAATAAATAATAATAT
109291651 AAAATAAA-AATAA
1 AAAATAAATAATAA
109291664 AGCAAATAAC
Statistics
Matches: 106, Mismatches: 11, Indels: 40
0.68 0.07 0.25
Matches are distributed among these distances:
14 3 0.03
15 9 0.08
16 16 0.15
17 17 0.16
18 39 0.37
19 9 0.08
20 7 0.07
21 5 0.05
22 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (17 bp):
AAAATAAATAATAATAT
Found at i:109291562 original size:42 final size:41
Alignment explanation
Indices: 109291494--109291572 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
109291484 ACTTTTAATG
* *
109291494 ATAACAATATATAGATAAAAATATATAATAGTATAAAATGAC
1 ATAACAATATATAAATAAAAATATAT-ATAATATAAAATGAC
* *
109291536 ATAATAATATA-AAATAAATATAATATATAATATAAAA
1 ATAACAATATATAAATAAAAAT-ATATATAATATAAAA
109291573 GTATATACGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 18 0.56
42 14 0.44
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (41 bp):
ATAACAATATATAAATAAAAATATATATAATATAAAATGAC
Done.