Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 324 of 333
Found at i:105254914 original size:44 final size:44
Alignment explanation
Indices: 105254864--105255000 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
105254854 AAAGTAATAT
105254864 ATATGTGTAAGATAATATGTGATTTATAAGAAAATGAAATGTGA
1 ATATGTGTAAGATAATATGTGATTTATAAGAAAATGAAATGTGA
** ** * * ***
105254908 ATATGTGCT-CTATATATATGAAATTGA-AATG-TAGCCAAATG-G-
1 ATATGTG-TAAGATA-ATATGTGATTTATAA-GAAAATGAAATGTGA
* *
105254950 ATAAGTGTAAGATGATATGTGATTTATAAGAAAATGAAATGTGA
1 ATATGTGTAAGATAATATGTGATTTATAAGAAAATGAAATGTGA
105254994 ATATGTG
1 ATATGTG
105255001 CTCTATATAT
Statistics
Matches: 64, Mismatches: 21, Indels: 16
0.63 0.21 0.16
Matches are distributed among these distances:
41 11 0.17
42 16 0.25
43 2 0.03
44 24 0.38
45 11 0.17
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (44 bp):
ATATGTGTAAGATAATATGTGATTTATAAGAAAATGAAATGTGA
Found at i:105254992 original size:86 final size:87
Alignment explanation
Indices: 105254868--105255043 Score: 327
Period size: 86 Copynumber: 2.0 Consensus size: 87
105254858 TAATATATAT
105254868 GTGTAAGATAATATGTGATTTATAAGAAAATGAAATGTGAATATGTGCTC-TATATATATGAAAT
1 GTGTAAGATAATATGTGATTTATAAGAAAATGAAATGTGAATATGTGCTCATATATATATGAAAT
105254932 TGAAATGTAGCCAAATGGATAA
66 TGAAATGTAGCCAAATGGATAA
*
105254954 GTGTAAGATGATATGTGATTTATAAGAAAATGAAATGTGAATATGTGCTCTATATATATATGAAA
1 GTGTAAGATAATATGTGATTTATAAGAAAATGAAATGTGAATATGTGCTC-ATATATATATGAAA
105255019 TTGAAATGTAGCCAAATGGATAA
65 TTGAAATGTAGCCAAATGGATAA
105255042 GT
1 GT
105255044 TATATATGAA
Statistics
Matches: 87, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
86 49 0.56
88 38 0.44
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (87 bp):
GTGTAAGATAATATGTGATTTATAAGAAAATGAAATGTGAATATGTGCTCATATATATATGAAAT
TGAAATGTAGCCAAATGGATAA
Found at i:105267106 original size:20 final size:20
Alignment explanation
Indices: 105267065--105267106 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
105267055 TTTTTCACAT
* *
105267065 AAAAATGATTAAAAATTCAA
1 AAAAATGATTAAAAAATAAA
105267085 AAAAAT-ATATAAAAAATAAA
1 AAAAATGAT-TAAAAAATAAA
105267105 AA
1 AA
105267107 TATTAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (20 bp):
AAAAATGATTAAAAAATAAA
Found at i:105267114 original size:8 final size:9
Alignment explanation
Indices: 105267086--105267182 Score: 73
Period size: 8 Copynumber: 11.2 Consensus size: 9
105267076 AAAATTCAAA
105267086 AAAATATAT
1 AAAATATAT
*
105267095 AAAAAATA-
1 AAAATATAT
105267103 AAAATAT-T
1 AAAATATAT
105267111 AAAATTGATAT
1 AAAA-T-ATAT
*
105267122 AAACTAT-T
1 AAAATATAT
105267130 AAAAT-TAT
1 AAAATATAT
105267138 AAAATAGTAT
1 AAAATA-TAT
*
105267148 AAACT-TAT
1 AAAATATAT
* *
105267156 AAATTATAA
1 AAAATATAT
105267165 AAAATATA-
1 AAAATATAT
105267173 AAAAT-TAT
1 AAAATATAT
105267181 AA
1 AA
105267183 TAAATAATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 19
0.72 0.08 0.19
Matches are distributed among these distances:
7 3 0.04
8 35 0.49
9 19 0.27
10 10 0.14
11 4 0.06
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAATATAT
Found at i:105267140 original size:16 final size:16
Alignment explanation
Indices: 105267103--105267179 Score: 66
Period size: 18 Copynumber: 4.6 Consensus size: 16
105267093 ATAAAAAATA
105267103 AAAATATTAAAATTGAT
1 AAAATATTAAAATT-AT
105267120 ATAAACTATTAAAATTAT
1 A-AAA-TATTAAAATTAT
*
105267138 AAAATAGTATAAACTTAT
1 AAAATA-T-TAAAATTAT
* * *
105267156 AAATTATAAAAAATAT
1 AAAATATTAAAATTAT
105267172 AAAA-ATTA
1 AAAATATTA
105267180 TAATAAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
15 3 0.06
16 11 0.22
17 6 0.12
18 19 0.39
19 10 0.20
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (16 bp):
AAAATATTAAAATTAT
Found at i:105267173 original size:34 final size:34
Alignment explanation
Indices: 105267087--105267175 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 34
105267077 AAATTCAAAA
* *
105267087 AAATATATAAAAAATA-AAAATATTAAAATTGATAT
1 AAAT-TATAAAAAATATAAAATAGTAAAACT-ATAT
* * *
105267122 AAACTATTAAAATTATAAAATAGTATAAACT-TAT
1 AAATTATAAAAAATATAAAATAGTA-AAACTATAT
105267156 AAATTATAAAAAATATAAAA
1 AAATTATAAAAAATATAAAA
105267176 ATTATAATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
34 29 0.66
35 11 0.25
36 4 0.09
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (34 bp):
AAATTATAAAAAATATAAAATAGTAAAACTATAT
Found at i:105267177 original size:18 final size:19
Alignment explanation
Indices: 105267156--105267193 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
105267146 ATAAACTTAT
105267156 AAATTATAAAAAAT-ATAA
1 AAATTATAAAAAATAATAA
*
105267174 AAATTATAATAAATAATAA
1 AAATTATAAAAAATAATAA
105267193 A
1 A
105267194 GCTATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATTATAAAAAATAATAA
Found at i:105267193 original size:43 final size:44
Alignment explanation
Indices: 105267085--105267209 Score: 102
Period size: 43 Copynumber: 2.9 Consensus size: 44
105267075 AAAAATTCAA
** * * *
105267085 AAAAATATATAAAAAATAA-AAATATTA-AAATTGATATAAACTAT
1 AAAAAT-TAT-AAAAATAATAAAGCTTATAAATTAATAAAAAATAT
*
105267129 TAAAATTAT-AAAATAGTATAAA-CTTATAAATT-ATAAAAAATAT
1 AAAAATTATAAAAATA--ATAAAGCTTATAAATTAATAAAAAATAT
105267172 AAAAATTATAATAAATAATAAAGC-TAT-AATTAATAAAA
1 AAAAATTATAA-AAATAATAAAGCTTATAAATTAATAAAA
105267210 TTATTTAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 17
0.76 0.06 0.19
Matches are distributed among these distances:
41 6 0.09
42 4 0.06
43 38 0.56
44 15 0.22
45 5 0.07
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (44 bp):
AAAAATTATAAAAATAATAAAGCTTATAAATTAATAAAAAATAT
Found at i:105267285 original size:9 final size:9
Alignment explanation
Indices: 105267273--105267323 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
105267263 AAAACTGTAA
105267273 AAAAATTAT
1 AAAAATTAT
*
105267282 AAAAAGTAT
1 AAAAATTAT
*
105267291 TAAAA-TAT
1 AAAAATTAT
*
105267299 TAAAATTGAT
1 AAAAATT-AT
*
105267309 AAAATTTAT
1 AAAAATTAT
105267318 AAAAAT
1 AAAAAT
105267324 AAAATAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 8 0.23
9 20 0.57
10 7 0.20
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:105267322 original size:27 final size:26
Alignment explanation
Indices: 105267274--105267324 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
105267264 AAACTGTAAA
*
105267274 AAAATTATAAAAAGTATTAAAATATT
1 AAAATTATAAAAAGTATAAAAATATT
**
105267300 AAAATTGATAAAATTTATAAAAATA
1 AAAATT-ATAAAAAGTATAAAAATA
105267325 AAATAAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAATTATAAAAAGTATAAAAATATT
Found at i:105267457 original size:14 final size:15
Alignment explanation
Indices: 105267438--105267467 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
105267428 TGAACAATTT
105267438 TTTTTATTTTT-TTA
1 TTTTTATTTTTATTA
105267452 TTTTTATTTTTATTA
1 TTTTTATTTTTATTA
105267467 T
1 T
105267468 CTAAATTGGC
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:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTATTTTTATTA
Found at i:105267884 original size:43 final size:41
Alignment explanation
Indices: 105267828--105267950 Score: 110
Period size: 43 Copynumber: 2.9 Consensus size: 41
105267818 TTTAAATAAA
*
105267828 TTTTATTAA-TTATAGCTTTATTATTTATTATAATTTTTATATT
1 TTTTA-TAATTTATAG-TTTATTATTT-TTATAATTTTTATAGT
*
105267871 TTTTATAATTTATAAGTTTA-TACTATTTTATAATTTTAATAGT
1 TTTTATAATTTAT-AGTTTATTA-T-TTTTATAATTTTTATAGT
*
105267914 TTATATCAATTTTAATA-TTT-TTATTTTTATAATTTTT
1 TTTTAT-AA-TTT-ATAGTTTATTATTTTTATAATTTTT
105267951 TTTTGAATTT
Statistics
Matches: 68, Mismatches: 4, Indels: 17
0.76 0.04 0.19
Matches are distributed among these distances:
42 17 0.25
43 34 0.50
44 11 0.16
45 4 0.06
46 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (41 bp):
TTTTATAATTTATAGTTTATTATTTTTATAATTTTTATAGT
Found at i:105267900 original size:34 final size:33
Alignment explanation
Indices: 105267858--105267948 Score: 89
Period size: 34 Copynumber: 2.7 Consensus size: 33
105267848 TTATTTATTA
*
105267858 TAAT-TTTTATATTTTTTATAATTTATA-AGTTT
1 TAATATTTTATA-TTTTTATAATTTATACAATTT
* * *
105267890 ATACTATTTTATAATTTTAATAGTTTATATCAATTT
1 -TAATATTTTAT-ATTTTTATAATTTATA-CAATTT
105267926 TAATATTTT-TATTTTTATAATTT
1 TAATATTTTATATTTTTATAATTT
105267949 TTTTTTGAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
33 14 0.30
34 20 0.43
35 9 0.19
36 4 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (33 bp):
TAATATTTTATATTTTTATAATTTATACAATTT
Found at i:105267948 original size:9 final size:9
Alignment explanation
Indices: 105267844--105267950 Score: 66
Period size: 9 Copynumber: 12.3 Consensus size: 9
105267834 TAATTATAGC
*
105267844 TTTATTATT
1 TTTATAATT
105267853 TATTATAATT
1 T-TTATAATT
*
105267863 TTTATATTT
1 TTTATAATT
105267872 TTTATAA--
1 TTTATAATT
*
105267879 TTTATAA-G
1 TTTATAATT
*
105267887 TTTATACTAT
1 TTTATAAT-T
105267897 TTTATAATT
1 TTTATAATT
* *
105267906 TTAATAGTT
1 TTTATAATT
*
105267915 TATATCAATT
1 TTTAT-AATT
*
105267925 TTAAT-A-T
1 TTTATAATT
105267932 TTT-T-ATT
1 TTTATAATT
105267939 TTTATAATT
1 TTTATAATT
105267948 TTT
1 TTT
105267951 TTTTGAATTT
Statistics
Matches: 76, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
6 2 0.03
7 14 0.18
8 8 0.11
9 31 0.41
10 21 0.28
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:105267979 original size:22 final size:21
Alignment explanation
Indices: 105267936--105267979 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
105267926 TAATATTTTT
* *
105267936 ATTTTTATAATTTTTTTTTGA
1 ATTTTTATAATTTTTATGTGA
*
105267957 ATTTTTAATCATTTTTATGTGA
1 ATTTTT-ATAATTTTTATGTGA
105267979 A
1 A
105267980 AAATATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (21 bp):
ATTTTTATAATTTTTATGTGA
Found at i:105274101 original size:44 final size:43
Alignment explanation
Indices: 105274041--105274126 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 43
105274031 TATTGTAGTT
105274041 TTTTTAGACCAATTTTGTTTAGCCCAATTACAAATAAAATCTAG
1 TTTTTAGACCAATTTTGTTTAGCCCAATTAC-AATAAAATCTAG
105274085 TTTTTAGACCAATTTTGTTTAGCCCAATTACAATAAAATCTA
1 TTTTTAGACCAATTTTGTTTAGCCCAATTACAATAAAATCTA
105274127 CATAAAAGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 11 0.26
44 31 0.74
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (43 bp):
TTTTTAGACCAATTTTGTTTAGCCCAATTACAATAAAATCTAG
Found at i:105274648 original size:13 final size:15
Alignment explanation
Indices: 105274616--105274653 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
105274606 TTTTGTTGTT
105274616 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
*
105274631 ATTTTTTGCT-G-AA
1 TTTTTTTGCTGGAAA
105274644 TTTTTTTGCT
1 TTTTTTTGCT
105274654 CTTTTTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 1 0.05
15 9 0.43
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.61
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:105276777 original size:4 final size:4
Alignment explanation
Indices: 105276768--105276799 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
105276758 ATGGATATGC
105276768 AATG AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG
105276800 CATAAATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:105281427 original size:15 final size:16
Alignment explanation
Indices: 105281389--105281430 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
105281379 CCTTTTTTGT
*
105281389 TTTTTTTTTGCTGGAA
1 TTTTTTTTTGCTGAAA
105281405 -TTTTTTTTGCT-AAA
1 TTTTTTTTTGCTGAAA
105281419 TTTTTTTTTGCT
1 TTTTTTTTTGCT
105281431 CTTTTTTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.69
Consensus pattern (16 bp):
TTTTTTTTTGCTGAAA
Found at i:105281708 original size:30 final size:30
Alignment explanation
Indices: 105281653--105281767 Score: 101
Period size: 30 Copynumber: 3.8 Consensus size: 30
105281643 GTAATTTTTA
* *
105281653 GAAAATTTA-GGGTTAAAAT-ACAATTTAAG
1 GAAAGTTTAGGGGTCAAAATGA-AATTTAAG
** * *
105281682 GAAAGTTTAGGGGTTTAAGTGAAATTTAAA
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
* **
105281712 GAAAGTTTAAGAATCAAAATGAAATTT-AG
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
105281741 GAAAAGTTTAGGGGTCAAAATGTAAAT
1 G-AAAGTTTAGGGGTCAAAATG-AAAT
105281768 ATTTTTTTGA
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
29 10 0.15
30 53 0.78
31 5 0.07
ACGTcount: A:0.46, C:0.03, G:0.22, T:0.30
Consensus pattern (30 bp):
GAAAGTTTAGGGGTCAAAATGAAATTTAAG
Found at i:105281910 original size:3 final size:3
Alignment explanation
Indices: 105281902--105282019 Score: 112
Period size: 3 Copynumber: 38.7 Consensus size: 3
105281892 ATAAACTAAC
*
105281902 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GA-A ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
** * * * * * * *
105281947 ACG ATA ATC ATCA ACGA ACA ACA ACA ATA ATA AAA ATA ATA ACA ATA
1 ATA ATA ATA AT-A A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
105281994 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
105282020 GTAAAGATAG
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
2 1 0.01
3 92 0.95
4 4 0.04
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:105282300 original size:28 final size:28
Alignment explanation
Indices: 105282246--105282300 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
105282236 AAAAGGGAAA
*
105282246 ACAATATAATAATAATAATAGTGGTAAT
1 ACAATATAATAATAATAATAGTCGTAAT
* *
105282274 ACAATAGTAAT-ATACTAATTGTCGTAA
1 ACAATA-TAATAATAATAATAGTCGTAA
105282301 CCATTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (28 bp):
ACAATATAATAATAATAATAGTCGTAAT
Found at i:105283406 original size:3 final size:3
Alignment explanation
Indices: 105283356--105283387 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
105283346 GATAACTAAC
105283356 AAT AAT AAT AAT AAT AAT AAT -AT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
105283388 GAATAAAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:105283557 original size:17 final size:18
Alignment explanation
Indices: 105283521--105283557 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
105283511 ATATTTATTG
105283521 AAAATAGTAATAATATAT
1 AAAATAGTAATAATATAT
105283539 AAAA-AGTAACTAATA-AT
1 AAAATAGTAA-TAATATAT
105283556 AA
1 AA
105283558 CGATACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAATAGTAATAATATAT
Found at i:105283713 original size:24 final size:25
Alignment explanation
Indices: 105283680--105283728 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
105283670 TATACGTAAT
**
105283680 ATATTAAAAAGGTATACATAATATA
1 ATATTAAAAACATATACATAATATA
*
105283705 ATATT-AAAACATTTACATAATATA
1 ATATTAAAAACATATACATAATATA
105283729 TACATGTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAACATATACATAATATA
Found at i:105283851 original size:11 final size:11
Alignment explanation
Indices: 105283835--105283880 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
105283825 TAAAAGTATG
105283835 TACATAATATA
1 TACATAATATA
105283846 TACATAATATA
1 TACATAATATA
** *
105283857 TTGAAAATATA
1 TACATAATATA
105283868 TACATAATATA
1 TACATAATATA
105283879 TA
1 TA
105283881 TAATATTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
TACATAATATA
Found at i:105285308 original size:9 final size:9
Alignment explanation
Indices: 105285296--105285330 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
105285286 AAAATAGAGA
105285296 TAATAATAG
1 TAATAATAG
*
105285305 TAATAATAA
1 TAATAATAG
105285314 TAATAATAG
1 TAATAATAG
*
105285323 TTATAATA
1 TAATAATA
105285331 ATGAACATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (9 bp):
TAATAATAG
Found at i:105288977 original size:38 final size:39
Alignment explanation
Indices: 105288905--105289043 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
105288895 GCTTTGATGA
*
105288905 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATAT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
105288944 GCTTCAGTTAGCC-TCTGGGC-TCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTC-GGGCTTCCGTTTAGCACTTATGT
* *
105288982 GCTTCAGTTAGCCTTCGAGCTTCCGTCTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
105289021 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
105289044 AGATCACGAT
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
38 35 0.39
39 55 0.61
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:105293947 original size:12 final size:13
Alignment explanation
Indices: 105293918--105293946 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
105293908 TTTCATTTAA
105293918 TTTTT-ACAATTT
1 TTTTTCACAATTT
105293930 TTTTTCACAATTT
1 TTTTTCACAATTT
105293943 TTTT
1 TTTT
105293947 CCTTACTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTCACAATTT
Found at i:105296127 original size:43 final size:42
Alignment explanation
Indices: 105296045--105296137 Score: 96
Period size: 43 Copynumber: 2.2 Consensus size: 42
105296035 GGTTTAGCCT
* * * ** *
105296045 ATAATGCACTTATGTGCCAGTATATTTGCTTCGGTTTGTCCG
1 ATAATGCACTCATGTGCCAGTATAATTGATTCGACTTGTCCA
* *
105296087 ATAATGCACCTCATGTGCTAGTATAATTGATTCTACTTGTCCA
1 ATAATGCA-CTCATGTGCCAGTATAATTGATTCGACTTGTCCA
*
105296130 ATGATGCA
1 ATAATGCA
105296138 TGATGTATGC
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 8 0.20
43 33 0.80
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (42 bp):
ATAATGCACTCATGTGCCAGTATAATTGATTCGACTTGTCCA
Found at i:105315820 original size:18 final size:17
Alignment explanation
Indices: 105315793--105315830 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
105315783 TAATAATAAG
105315793 TAAATATTAT-TTATTAT
1 TAAATATTATATTA-TAT
105315810 TAAATTATTATATTATAT
1 TAAA-TATTATATTATAT
105315828 TAA
1 TAA
105315831 TATAATAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 12 0.63
19 3 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAAATATTATATTATAT
Found at i:105318930 original size:12 final size:13
Alignment explanation
Indices: 105318901--105318925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105318891 AAACATATTT
105318901 ATATTTTTTAAAA
1 ATATTTTTTAAAA
105318914 ATATTTTTTAAA
1 ATATTTTTTAAA
105318926 TTATTAAATT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTTTTTAAAA
Found at i:105320703 original size:28 final size:29
Alignment explanation
Indices: 105320650--105320706 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
105320640 GGTAGAAATT
105320650 ATTTTTAGGAGAGTAGAAATTAAATTTTA
1 ATTTTTAGGAGAGTAGAAATTAAATTTTA
* *
105320679 ATTTTTATGATAGTA-AAA-TATAATTTTA
1 ATTTTTAGGAGAGTAGAAATTA-AATTTTA
105320707 TTATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.08
28 10 0.40
29 13 0.52
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (29 bp):
ATTTTTAGGAGAGTAGAAATTAAATTTTA
Found at i:105322060 original size:10 final size:10
Alignment explanation
Indices: 105322045--105322093 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
105322035 CCAAAATTAT
*
105322045 TATTTTAGAA
1 TATTTTAAAA
* *
105322055 TATTTTTATA
1 TATTTTAAAA
105322065 TATTTTAAAA
1 TATTTTAAAA
105322075 T-TTTTATAAA
1 TATTTTA-AAA
105322085 TATTTTAAA
1 TATTTTAAA
105322094 TTTTAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 5 0.16
10 22 0.69
11 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:105322079 original size:18 final size:18
Alignment explanation
Indices: 105322041--105322097 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 18
105322031 GGTCCCAAAA
105322041 TTAT-TATTTTAGAATATTT
1 TTATATATTTTA-AA-ATTT
105322060 TTATATATTTTAAAATTT
1 TTATATATTTTAAAATTT
105322078 TTATAAATATTTT-AAATTT
1 TTAT--ATATTTTAAAATTT
105322097 T
1 T
105322098 AATAAATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.23
19 13 0.37
20 14 0.40
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TTATATATTTTAAAATTT
Found at i:105322102 original size:19 final size:20
Alignment explanation
Indices: 105322064--105322108 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
105322054 ATATTTTTAT
*
105322064 ATATTTTAAAATTTTTATAA
1 ATATTTTAAAATTTTAATAA
105322084 ATATTTT-AAATTTTAATAA
1 ATATTTTAAAATTTTAATAA
105322103 ATATTT
1 ATATTT
105322109 GGATTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATTTTAAAATTTTAATAA
Found at i:105322116 original size:19 final size:19
Alignment explanation
Indices: 105322073--105322128 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
105322063 TATATTTTAA
*
105322073 AATTTTT-ATAAATATTTT
1 AATTTTTAATAAATATTTG
*
105322091 AAATTTTAATAAATATTTG
1 AATTTTTAATAAATATTTG
* *
105322110 GATTTTTAAAAAATTATTT
1 AATTTTTAATAAA-TATTT
105322129 TTAACTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 6 0.19
19 20 0.65
20 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (19 bp):
AATTTTTAATAAATATTTG
Found at i:105329774 original size:19 final size:19
Alignment explanation
Indices: 105329741--105329796 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
105329731 AAAAAAGTTA
*
105329741 AAAATAATTTTTTAAAAATC
1 AAAAT-ATTTATTAAAAATC
* * *
105329761 CAAATATTTATTAAAATTT
1 AAAATATTTATTAAAAATC
105329780 AAAATATTTA-TAAAAAT
1 AAAATATTTATTAAAAAT
105329797 TTTAAAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 6 0.20
19 20 0.67
20 4 0.13
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATATTTATTAAAAATC
Found at i:105329802 original size:20 final size:20
Alignment explanation
Indices: 105329762--105329814 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
105329752 TTAAAAATCC
*
105329762 AAATATTTATTAAAA-TTTA
1 AAATATTTATAAAAATTTTA
105329781 AAATATTTATAAAAATTTTA
1 AAATATTTATAAAAATTTTA
105329801 AAATA--TATAAAAAT
1 AAATATTTATAAAAAT
105329815 ATTCTAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 9 0.28
19 14 0.44
20 9 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATATTTATAAAAATTTTA
Found at i:105329828 original size:18 final size:18
Alignment explanation
Indices: 105329773--105329814 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
105329763 AATATTTATT
105329773 AAAA-TTTAAAATATTTATA
1 AAAATTTTAAAATA--TATA
105329792 AAAATTTTAAAATATATA
1 AAAATTTTAAAATATATA
105329810 AAAAT
1 AAAAT
105329815 ATTCTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 4 0.18
20 9 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTTTAAAATATATA
Found at i:105331198 original size:29 final size:29
Alignment explanation
Indices: 105331166--105331223 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
105331156 ATTTAAATAA
*
105331166 TAAAA-TTATATTTTTACTATCATAAAAAT
1 TAAAATTTA-ATTTCTACTATCATAAAAAT
* *
105331195 TAAAATTTAATTTCTACTCTCCTAAAAAT
1 TAAAATTTAATTTCTACTATCATAAAAAT
105331224 AATTTCTACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (29 bp):
TAAAATTTAATTTCTACTATCATAAAAAT
Found at i:105332974 original size:13 final size:13
Alignment explanation
Indices: 105332956--105332980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105332946 AATTTAATAA
105332956 TTTAAAAAATATT
1 TTTAAAAAATATT
105332969 TTTAAAAAATAT
1 TTTAAAAAATAT
105332981 AAATATGTTT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAAAAATATT
Found at i:105348184 original size:15 final size:15
Alignment explanation
Indices: 105348164--105348209 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
105348154 ATATTAAAAT
105348164 AATTATATAAAATAA
1 AATTATATAAAATAA
105348179 AATTAT-TAAATATTAA
1 AATTATATAAA-A-TAA
*
105348195 AA-TATATAATATAA
1 AATTATATAAAATAA
105348209 A
1 A
105348210 TATTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 8 0.30
15 11 0.41
16 8 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTATATAAAATAA
Found at i:105348209 original size:21 final size:21
Alignment explanation
Indices: 105348152--105348213 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
105348142 ACTCTAATAT
* *
105348152 AAATAT-TAAAATAATTATATA
1 AAATATATAATATAAATAT-TA
105348173 AAATA-A-AATTATTAAATATTA
1 AAATATATAA-TA-TAAATATTA
105348194 AAATATATAATATAAATATT
1 AAATATATAATATAAATATT
105348214 TTTTAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
20 2 0.06
21 21 0.62
22 9 0.26
23 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATATATAATATAAATATTA
Found at i:105348231 original size:34 final size:32
Alignment explanation
Indices: 105348151--105348237 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 32
105348141 TACTCTAATA
105348151 TAAATATTAAAATAATTATATAAAATAAAATTAT
1 TAAATATTAAAA-AA-TATATAAAATAAAATTAT
* *
105348185 TAAATATT--AAAATATATAATATAAATATTTTT
1 TAAATATTAAAAAATATATAAAATAAA-A-TTAT
*
105348217 TAAAAATTAAAAAATAATATA
1 TAAATATTAAAAAAT-ATATA
105348238 GGTAAGCATA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
30 12 0.27
31 3 0.07
32 12 0.27
34 13 0.29
35 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (32 bp):
TAAATATTAAAAAATATATAAAATAAAATTAT
Found at i:105349228 original size:58 final size:58
Alignment explanation
Indices: 105349138--105349298 Score: 219
Period size: 51 Copynumber: 2.9 Consensus size: 58
105349128 CTGACCAATG
* *
105349138 ACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAGCA
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGCA
**
105349196 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCA--G-T---T-ACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGCA
* *
105349247 ATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGATAAGTGA
105349299 TAAATGTGAT
Statistics
Matches: 90, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
51 45 0.50
52 1 0.01
53 1 0.01
55 1 0.01
56 1 0.01
57 1 0.01
58 40 0.44
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (58 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGCA
Found at i:105350446 original size:29 final size:28
Alignment explanation
Indices: 105350412--105350475 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
105350402 TTGGTCATCC
*
105350412 AACTATGAAAAGTTACAAAATGATCACCT
1 AACTATGAAAAATTACAAAATGATC-CCT
* *
105350441 AACTATGAAAAATTATAAAATGGTCCCT
1 AACTATGAAAAATTACAAAATGATCCCT
*
105350469 AATTATG
1 AACTATG
105350476 TAATACCCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 9 0.29
29 22 0.71
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (28 bp):
AACTATGAAAAATTACAAAATGATCCCT
Found at i:105350655 original size:22 final size:23
Alignment explanation
Indices: 105350630--105350675 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
105350620 CAACCAAATC
105350630 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
105350652 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
105350675 A
1 A
105350676 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:105350681 original size:23 final size:23
Alignment explanation
Indices: 105350637--105350681 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
105350627 ATCAATTCAA
*
105350637 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
105350660 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
105350682 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:105352825 original size:22 final size:22
Alignment explanation
Indices: 105352785--105352826 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
105352775 TAAGAAATTT
* *
105352785 AAATAGTAGCAATATAATAGCG
1 AAATAGTAGCAAAACAATAGCG
*
105352807 AAATGGTAGCAAAACAATAG
1 AAATAGTAGCAAAACAATAG
105352827 TATCCTGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (22 bp):
AAATAGTAGCAAAACAATAGCG
Found at i:105362223 original size:15 final size:15
Alignment explanation
Indices: 105362201--105362238 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
105362191 AAATTTTAAG
105362201 AAAAAAAT-GAATATT
1 AAAAAAATAG-ATATT
*
105362216 ATAAAAATAGATATT
1 AAAAAAATAGATATT
105362231 AAAAAAAT
1 AAAAAAAT
105362239 TTAATTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (15 bp):
AAAAAAATAGATATT
Found at i:105362653 original size:3 final size:3
Alignment explanation
Indices: 105362647--105362676 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
105362637 AAAAAAATTG
105362647 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
105362677 ATCAGTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:105362851 original size:22 final size:20
Alignment explanation
Indices: 105362800--105362851 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 20
105362790 TTAATTATCA
*
105362800 TTATTTTTAAAAATAATTTT
1 TTATTTTTAATAATAATTTT
105362820 TATATGTTTTAATAATAATATTT
1 T-TAT-TTTTAATAATAAT-TTT
105362843 GTTATTTTT
1 -TTATTTTT
105362852 GATATAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
21 3 0.11
22 16 0.59
23 6 0.22
24 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
TTATTTTTAATAATAATTTT
Found at i:105377089 original size:129 final size:123
Alignment explanation
Indices: 105376776--105377310 Score: 625
Period size: 129 Copynumber: 4.3 Consensus size: 123
105376766 CTTTCCAAGG
**
105376776 AAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
* * *
105376841 ATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCAAGGTATTTTTAGTTTATGTTTT
66 ATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTTACTTTAT-TTTT
** *
105376900 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTT-TGTTTTTCAAAAATCAACTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
* * ** *
105376963 ATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTATTTTT
66 ATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCCAAGGT-ATTT---TTACT-TTATTTTT
105377026 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG-TTTTCAAAAATCAAC
1 --AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAAC
* * *
105377090 TCATATTGCGAGAAGTGAGTTGAGCCT-AGGGCACGCCAAGGTA-TTTTAGTTTATGTTT
64 TCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTTACTTTATTTTT
** * *
105377148 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTC-AAAATCAACTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
* * ** * * * *
105377211 ATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTT
66 ATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTTACTTTAT-TT-TT
**
105377271 AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
1 ----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
105377311 CAGGACACGC
Statistics
Matches: 350, Mismatches: 42, Indels: 34
0.82 0.10 0.08
Matches are distributed among these distances:
119 76 0.22
120 18 0.05
121 8 0.02
122 63 0.18
123 47 0.13
126 9 0.03
127 5 0.01
128 42 0.12
129 80 0.23
130 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (123 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
ATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTTACTTTATTTTT
Found at i:105377218 original size:248 final size:251
Alignment explanation
Indices: 105376776--105377310 Score: 936
Period size: 248 Copynumber: 2.1 Consensus size: 251
105376766 CTTTCCAAGG
**
105376776 AAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
*
105376841 ATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
66 ATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
105376906 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTGTTTTTCAAAAATCAACTCATATTGCT
131 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTGTTTTTCAAAAATCAACTCATATTGCT
* ***
105376971 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTATTTTTCA
196 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-GTTAAAA
105377028 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG-TTTTCAAAAATCAACTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
105377092 ATATTGCGAGAAGTGAGTTGAGCCT-AGGGCACGCCAAGGTA-TTTTAGTTTATG-TTTAAATTG
66 ATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
105377154 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTC-AAAATCAACTCATATTGC
131 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTT-TGTTTTTCAAAAATCAACTCATATTGC
105377218 TAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTTAAAA
195 TAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTTAAAA
**
105377275 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
105377311 CAGGACACGC
Statistics
Matches: 273, Mismatches: 9, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
247 37 0.14
248 114 0.42
249 20 0.07
250 15 0.05
251 42 0.15
252 45 0.16
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (251 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTC
ATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTGTTTTTCAAAAATCAACTCATATTGCT
AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTTAAAA
Found at i:105377463 original size:73 final size:72
Alignment explanation
Indices: 105377182--105377710 Score: 693
Period size: 72 Copynumber: 7.2 Consensus size: 72
105377172 GAGTTAAGCC
* * **
105377182 TTTT-AATTTATGTTTTTCAAAA-TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
105377245 CTGAGGTA
65 CTGAGGTA
* * *
105377253 ATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTT-TT--CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
105377318 CGCTGAGGTA
63 CGCTGAGGTA
* * *
105377328 ATTTCAATTTCTGTTTTCAAAATTTAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
105377393 TGAGGTA
66 TGAGGTA
* *
105377400 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACG
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
*
105377465 TTGAGGTA
65 CTGAGGTA
* * * *
105377473 ATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAAGT
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
105377538 TGAGGTA
66 TGAGGTA
* **
105377545 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATA
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
*
105377610 CTTAGGTA
65 CTGAGGTA
* * * * **
105377618 TTGTCAATTTTTTGTATGTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAA-TTTCTG--T-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
*
105377683 ATGCTGAGGTA
62 ACGCTGAGGTA
*
105377694 TTTTCCATTTCTGTTTT
1 TTTTCAATTTCTGTTTT
105377711 TCAATTTATG
Statistics
Matches: 411, Mismatches: 37, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
71 5 0.01
72 144 0.35
73 128 0.31
74 11 0.03
75 67 0.16
76 56 0.14
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (72 bp):
TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
TGAGGTA
Found at i:105377484 original size:145 final size:146
Alignment explanation
Indices: 105377186--105377714 Score: 721
Period size: 145 Copynumber: 3.6 Consensus size: 146
105377176 TAAGCCTTTT
* * **
105377186 AATTTATGTTTTTCAAAA-TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
* * * *
105377250 GTAATTTCAATTTCTG-TTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
66 GTATTTTCAATTTCTGCTT-TT--CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*
105377314 GACACGCTGAGGTAATTTC
128 GACACGTTGAGGTAATTTC
* *
105377333 AATTTCTG-TTTTCAAAATTTAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
*
105377397 GTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGAC
66 GTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
105377462 ACGTTGAGGTAATTTC
131 ACGTTGAGGTAATTTC
* * *
105377478 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAAGTTGAG
1 AATTTCTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
105377542 GTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
66 GTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
105377607 ATAC-TT-AGGT-ATTGTC
131 --ACGTTGAGGTAATT-TC
* * * ** *
105377623 AATTTTTTGTATGTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCT
1 AA-TTTCTGT-T-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCT
* *
105377688 GAGGTATTTTCCATTTCTGTTTTTCAA
63 GAGGTATTTTCAATTTCTGCTTTTCAA
105377715 TTTATGTTTT
Statistics
Matches: 345, Mismatches: 28, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
144 3 0.01
145 186 0.54
146 16 0.05
147 67 0.19
148 3 0.01
149 70 0.20
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (146 bp):
AATTTCTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
GTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
ACGTTGAGGTAATTTC
Found at i:105377781 original size:86 final size:86
Alignment explanation
Indices: 105377632--105377849 Score: 330
Period size: 86 Copynumber: 2.5 Consensus size: 86
105377622 CAATTTTTTG
* *
105377632 TATG-TTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATT
1 TATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
* **
105377696 TTCCATTTCTGTTTTTCAATT
66 TTCAATTTCTACTTTTCAATT
* * *
105377717 TATGTTTTCAAAAATCAATTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
1 TATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
105377782 TTCAATTTCTACTTTTCAATT
66 TTCAATTTCTACTTTTCAATT
* *
105377803 TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCT
1 TATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
105377850 TTTTCTATTT
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 4 0.03
86 76 0.64
87 39 0.33
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (86 bp):
TATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
TTCAATTTCTACTTTTCAATT
Found at i:105377930 original size:58 final size:55
Alignment explanation
Indices: 105377813--105377963 Score: 167
Period size: 58 Copynumber: 2.7 Consensus size: 55
105377803 TCTGTTTTTC
* * * * *
105377813 AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTTTTTCTATTTTTCAAAAAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCTC---AAAAA
******
105377871 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCTGTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCTCAAAAA
*
105377926 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
105377964 GGCTCACACG
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
55 37 0.46
58 44 0.54
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (55 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCTCAAAAA
Found at i:105378001 original size:14 final size:14
Alignment explanation
Indices: 105377982--105378016 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
105377972 CGCTGAGGTA
105377982 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
105377996 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
105378010 TTTTCAA
1 TTTTCAA
105378017 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:105378118 original size:73 final size:73
Alignment explanation
Indices: 105377997--105378153 Score: 253
Period size: 73 Copynumber: 2.2 Consensus size: 73
105377987 AATTTCTGGT
* *
105377997 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGAGAGTTGAGCCTC-GGGACACG
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGG-CACG
105378061 CTGAGGTAA
65 CTGAGGTAA
* *
105378070 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGGCACGC
*
105378135 TGAGGTAT
66 TGAGGTAA
105378143 TTTCAATTTCT
1 TTTCAATTTCT
105378154 ACTTTTCAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
73 75 0.96
74 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (73 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGGCACGC
TGAGGTAA
Found at i:105378190 original size:160 final size:159
Alignment explanation
Indices: 105377916--105378211 Score: 468
Period size: 160 Copynumber: 1.8 Consensus size: 159
105377906 CTTTTGCAAA
*
105377916 TTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTGAGGT
1 TTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAGG--CACACGCTGAGGT
** * *
105377981 ATTTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGAGAGTT
64 ATTTTCAATTTCTACTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGAGAGCT
105378046 GAGCCTCGGGACACGCTGAGGTAATTTCAAT
129 GAGCCTCGGGACACGCTGAGGTAATTTCAAT
* * *
105378077 TTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCACGCTGAGGT
1 TTCTGTTT-TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-AGGCACACGCTGAGGT
*
105378141 ATTTTCAATTTCTACTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCT
64 ATTTTCAATTTCTACTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGAGAGCT
105378206 GAGCCT
129 GAGCCT
105378212 TTTAATTTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
160 77 0.62
161 8 0.06
162 37 0.30
163 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (159 bp):
TTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAGGCACACGCTGAGGTAT
TTTCAATTTCTACTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGAGAGCTGA
GCCTCGGGACACGCTGAGGTAATTTCAAT
Found at i:105378247 original size:56 final size:56
Alignment explanation
Indices: 105378155--105378379 Score: 261
Period size: 56 Copynumber: 4.1 Consensus size: 56
105378145 TCAATTTCTA
* *
105378155 CTTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGC
1 CTTTT-AATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
105378210 CTTTTAATTTTTATTTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
105378266 C--TT--TTTCTATTTTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTAATTTCTATTTTTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
105378322 CTTTTGCAAATTCT-GTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT--AATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
105378377 CTT
1 CTT
105378380 GGCTCACGTG
Statistics
Matches: 149, Mismatches: 9, Indels: 24
0.82 0.05 0.13
Matches are distributed among these distances:
52 11 0.07
54 14 0.09
55 42 0.28
56 71 0.48
58 2 0.01
61 5 0.03
62 4 0.03
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (56 bp):
CTTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:105378720 original size:30 final size:30
Alignment explanation
Indices: 105378656--105378756 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 30
105378646 TTAAAAATAA
* *
105378656 AAATTGCATTTTGACCCCTAAACTTT-TCT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
*
105378685 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
* * * *
105378715 AAATTTCACTTAGACCCCTAAACCTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
105378745 AAATTTCATTTT
1 AAATTTCATTTT
105378757 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 24 0.39
30 37 0.61
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTTT
Found at i:105378778 original size:59 final size:59
Alignment explanation
Indices: 105378653--105378778 Score: 139
Period size: 59 Copynumber: 2.1 Consensus size: 59
105378643 TTTTTAAAAA
* * * *
105378653 TAAAAATTGCATTTTGACCCCTAAACTTTTCTAAATTTCATTTTGACCCTTAAACTTTC
1 TAAAAATTGCACTTAGACCCCTAAACTTATCTAAATTTCATTTTAACCCTTAAACTTTC
** * * *
105378712 TTTAAATTTCACTTAGACCCCTAAACCTTCAT-TAAATTTCATTTTAATCC-TAAATTTTC
1 TAAAAATTGCACTTAGACCCCTAAA-CTT-ATCTAAATTTCATTTTAACCCTTAAACTTTC
105378771 TAAAAATT
1 TAAAAATT
105378779 ACATTTAGCC
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
59 34 0.63
60 19 0.35
61 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (59 bp):
TAAAAATTGCACTTAGACCCCTAAACTTATCTAAATTTCATTTTAACCCTTAAACTTTC
Found at i:105380148 original size:19 final size:20
Alignment explanation
Indices: 105380118--105380155 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
105380108 ATTCGTGTTT
105380118 TCGTGTTTTCAAAAAAAATC
1 TCGTGTTTTCAAAAAAAATC
105380138 TCGTG-TTTCAAAAAAAAT
1 TCGTGTTTTCAAAAAAAAT
105380156 AAAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (20 bp):
TCGTGTTTTCAAAAAAAATC
Found at i:105380174 original size:9 final size:10
Alignment explanation
Indices: 105380147--105380173 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
105380137 CTCGTGTTTC
105380147 AAAAAAAATA
1 AAAAAAAATA
105380157 AAAAAAAATA
1 AAAAAAAATA
105380167 AAAAAAA
1 AAAAAAA
105380174 TTCTCGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:105380259 original size:18 final size:18
Alignment explanation
Indices: 105380238--105380669 Score: 218
Period size: 17 Copynumber: 25.0 Consensus size: 18
105380228 AAATTTAGTG
105380238 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
105380256 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
105380274 TCTTT-GTGTTTTCAAAAA
1 T-TTTCGTGTTTTCAAAAA
* * *
105380292 TTCTGGCG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
**
105380309 TTTTCGTGTTTAAAAAAAAA
1 TTTTCGTGTTT--TCAAAAA
* *
105380329 TTTACGTGTTTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
105380347 TTTTCGTG-TTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
105380364 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
105380382 -CTCCAGTG-TTTC-AAAG
1 TTTTC-GTGTTTTCAAAAA
* *
105380398 TTTCCATGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * **
105380416 TTCTCGCG-TTAAAAAAA
1 TTTTCGTGTTTTCAAAAA
**
105380433 AATTCGTG-TTTCAAAATA
1 TTTTCGTGTTTTCAAAA-A
* **
105380451 TTCTCG-CATTTC---AA
1 TTTTCGTGTTTTCAAAAA
**
105380465 TTTT--TGTTTT-TTAAA
1 TTTTCGTGTTTTCAAAAA
105380480 ---TCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
105380494 ATGTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
*
105380511 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
* *
105380528 TTTCCTTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
**
105380545 TTCCCGTG-TTTCAAAAAAAA
1 TTTTCGTGTTTTC---AAAAA
* *
105380565 ATGTCGTGTTTT-AAGAAA
1 TTTTCGTGTTTTCAA-AAA
* *
105380583 ATTTCGTTTTTTCTAAAAA
1 TTTTCGTGTTTTC-AAAAA
*
105380602 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
105380619 TTTTCGTG-TTT-ACAAA
1 TTTTCGTGTTTTCAAAAA
*
105380635 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
105380653 TTCTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
105380670 AAAACTTTCG
Statistics
Matches: 317, Mismatches: 62, Indels: 71
0.70 0.14 0.16
Matches are distributed among these distances:
12 1 0.00
13 6 0.02
14 9 0.03
15 3 0.01
16 21 0.07
17 122 0.38
18 113 0.36
19 12 0.04
20 27 0.09
21 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:105380358 original size:55 final size:53
Alignment explanation
Indices: 105380238--105380374 Score: 157
Period size: 55 Copynumber: 2.5 Consensus size: 53
105380228 AAATTTAGTG
** **
105380238 TTTTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAATTTTCGTGTTTAAAAAAAAATTTGTGTTTTCAAAAA
* * * *
105380292 TTCTGGCGTTTCAAAAATTTTCGTGTTTAAAAAAAAATTTACGTGTTTTCACAAA
1 TTTTCGTGTTTCAAAAATTTTCGTGTTTAAAAAAAAATTT--GTGTTTTCAAAAA
* *
105380347 TTTTCGTGTTTCACAAATTCTCGTGTTT
1 TTTTCGTGTTTCAAAAATTTTCGTGTTT
105380375 TCAAAAACTC
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
53 28 0.41
54 5 0.07
55 35 0.51
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (53 bp):
TTTTCGTGTTTCAAAAATTTTCGTGTTTAAAAAAAAATTTGTGTTTTCAAAAA
Found at i:105380391 original size:73 final size:73
Alignment explanation
Indices: 105380251--105380392 Score: 173
Period size: 73 Copynumber: 1.9 Consensus size: 73
105380241 TCGTGTTTTC
* * * *
105380251 AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTGGCGTTTCAAAAATTTTCGT
1 AAAAATTTACGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTCGCGTTTCAAAAATCTCCGT
105380316 GTTTAAAA
66 GTTTAAAA
* * *
105380324 AAAAATTTACGTGTTTTCACAAAT-TTTCGTG-TTTCACAAATTCTCGTGTTTTCAAAAA-CTCC
1 AAAAATTTACGTGTTTTCAAAAATCTTT-GTGTTTTCAAAAATTCTCGCG-TTTCAAAAATCTCC
105380386 AGTGTTT
64 -GTGTTT
105380393 CAAAGTTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
72 19 0.32
73 40 0.68
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (73 bp):
AAAAATTTACGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTCGCGTTTCAAAAATCTCCGT
GTTTAAAA
Found at i:105380607 original size:91 final size:88
Alignment explanation
Indices: 105380480--105380652 Score: 240
Period size: 91 Copynumber: 1.9 Consensus size: 88
105380470 GTTTTTTAAA
*
105380480 TCGTGTTTCAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCTTGTTTTAAAAA
1 TCGTGTTTCAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCGTG-TTTAAAAA
105380545 TTCCCGTG-TTTCAAAAAAAAATG
65 TTCCCGTGTTTTCAAAAAAAAATG
* * * * *
105380568 TCGTGTTTTAAGAAAATTTCGTTTTTTCTAAAAATTTTCGTGTTTCTAAAATTTTCGTGTTTACA
1 TCGTGTTTCAA-AAAATGTCG-TGTTT-TAAAAATTTTCGTGTTTCTAAAATTTCCGTGTTTAAA
*
105380633 AATTCTCGTGTTTTCAAAAA
63 AATTCCCGTGTTTTCAAAAA
105380653 TTCTCGTGTT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
88 10 0.14
89 8 0.11
90 18 0.24
91 38 0.51
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (88 bp):
TCGTGTTTCAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCGTGTTTAAAAAT
TCCCGTGTTTTCAAAAAAAAATG
Found at i:105387415 original size:46 final size:46
Alignment explanation
Indices: 105387348--105387600 Score: 355
Period size: 46 Copynumber: 5.5 Consensus size: 46
105387338 TGGCAACCTG
105387348 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
105387394 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* **
105387440 TGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTGATATGCGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* * * *
105387486 TGTGTAAAACCATGGTTGAAAGATACCATAGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
105387532 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
** *
105387578 TAAGTAAGACCATAGTTGAAAGA
1 TGTGTAAGACCATGGTTGAAAGA
105387601 CACTATAGCA
Statistics
Matches: 188, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 187 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:105387544 original size:138 final size:130
Alignment explanation
Indices: 105387299--105387610 Score: 401
Period size: 138 Copynumber: 2.3 Consensus size: 130
105387289 AGTGTGCTCT
* *
105387299 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTGTGTGTAAAACCATGGT
* * * **
105387364 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATAGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
105387429 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTGATATGCGATGTGTAAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACC-----T--G-TGTGTAAA
*
105387494 ACCATGGTTGAAAGATACCATAGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
58 ACCATGGTTGAAAGATACCATAGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
105387559 ATGGCAAC
123 ATGGCAAC
* * ** * * *
105387567 ATGACA-GAAAATAAGTAAGACCATAGTTGAAAGACACTATAGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATAGCA
105387611 TCACGTCAAA
Statistics
Matches: 158, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
130 46 0.29
135 1 0.01
137 2 0.01
138 109 0.69
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTGTGTGTAAAACCATGGT
TGAAAGATACCATAGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:105387916 original size:23 final size:25
Alignment explanation
Indices: 105387871--105387917 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
105387861 AATAAATATA
*
105387871 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
105387896 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
105387918 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:105388613 original size:38 final size:38
Alignment explanation
Indices: 105388562--105388718 Score: 253
Period size: 38 Copynumber: 4.1 Consensus size: 38
105388552 ATATTTGATG
*
105388562 TATATCCGGGTTTTATCCCACAGGCTTCA-TGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTT-AGTGCTGGTAT
* *
105388600 TATATCTGGGTTTTATCCCGCAGGCTTTGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
105388638 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
**
105388676 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
105388714 TATAT
1 TATAT
105388719 TCGAGCTTAA
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
38 111 1.00
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (38 bp):
TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
Found at i:105388751 original size:40 final size:38
Alignment explanation
Indices: 105388562--105388739 Score: 187
Period size: 38 Copynumber: 4.6 Consensus size: 38
105388552 ATATTTGATG
* ** *
105388562 TATATCCGGGTTTTATCCCACAGGCTTCA-TGCTGGTAT
1 TATATCCGGCTTAAATCCCGCAGGCTT-AGTGCTGGTAT
* * ** *
105388600 TATATCTGGGTTTTATCCCGCAGGCTTTGTGCTGGTAT
1 TATATCCGGCTTAAATCCCGCAGGCTTAGTGCTGGTAT
* **
105388638 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGCTTAAATCCCGCAGGCTTAGTGCTGGTAT
*
105388676 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGCTTAAATCCCGCAGGCTTAGTGCTGGTAT
* *
105388714 TATATTCGAGCTTAAAGTTCCGCAGG
1 TATATCCG-GCTTAAA-TCCCGCAGG
105388740 TTCTGTGCTG
Statistics
Matches: 127, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 113 0.89
39 6 0.05
40 8 0.06
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.36
Consensus pattern (38 bp):
TATATCCGGCTTAAATCCCGCAGGCTTAGTGCTGGTAT
Found at i:105392156 original size:12 final size:12
Alignment explanation
Indices: 105392141--105392167 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
105392131 ACTTGACACA
105392141 TTACCAAATTTT
1 TTACCAAATTTT
105392153 TTACCAAATTTT
1 TTACCAAATTTT
105392165 TTA
1 TTA
105392168 TATGTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (12 bp):
TTACCAAATTTT
Found at i:105394796 original size:87 final size:87
Alignment explanation
Indices: 105394675--105394844 Score: 286
Period size: 87 Copynumber: 2.0 Consensus size: 87
105394665 AATTGATAAT
* * * *
105394675 ATTATTAAAAGAGTTCTGTTAAATTGAATATATGATATCTTAATTTTCAGTTGTGTCCCTTCTTT
1 ATTATTAAAAGACTTCTATTAAACTGAATATATGATATCTTAATTTTCAGTTGTGTCCCTTCCTT
105394740 TTTCTATTTATTTCTATGGTCA
66 TTTCTATTTATTTCTATGGTCA
*
105394762 ATTATTAAAAGACTTCTATTAAACTGAATATATGATATTTTAATTTTCAGTTGTGTCCCTTCCTT
1 ATTATTAAAAGACTTCTATTAAACTGAATATATGATATCTTAATTTTCAGTTGTGTCCCTTCCTT
*
105394827 TTTCTATTTATTTTTATG
66 TTTCTATTTATTTCTATG
105394845 ATCGATGATC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 77 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (87 bp):
ATTATTAAAAGACTTCTATTAAACTGAATATATGATATCTTAATTTTCAGTTGTGTCCCTTCCTT
TTTCTATTTATTTCTATGGTCA
Found at i:105401377 original size:14 final size:14
Alignment explanation
Indices: 105401355--105401385 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
105401345 TAGTTTTTTC
*
105401355 TTTAGAAATTTCTA
1 TTTAAAAATTTCTA
105401369 TTTAAAAATTTCTA
1 TTTAAAAATTTCTA
105401383 TTT
1 TTT
105401386 GTACTGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (14 bp):
TTTAAAAATTTCTA
Found at i:105407364 original size:24 final size:25
Alignment explanation
Indices: 105407337--105407389 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
105407327 TATTTTTTAC
* *
105407337 ATATT-ATGTAATTTATATAAAACA
1 ATATTAATATAATATATATAAAACA
*
105407361 ATATTAAATATAATATATATAATACA
1 ATATT-AATATAATATATATAAAACA
105407387 ATA
1 ATA
105407390 ACGTAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
26 19 0.79
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (25 bp):
ATATTAATATAATATATATAAAACA
Found at i:105410934 original size:53 final size:53
Alignment explanation
Indices: 105410867--105411022 Score: 199
Period size: 53 Copynumber: 2.9 Consensus size: 53
105410857 TATTCTTATT
* *
105410867 TTATATAATATATTTGAAAATAATAACATATTTATTACCCCCAATTACGACAGAA
1 TTAT-TAA-ATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACACAA
* * * *
105410922 TTCTTAAATATTT-AAATATAATAATGTATTTATTACCCCAAATTACGACTCAA
1 TTATTAAATATTTGAAA-ATAATAATATATTTATTACCCCCAATTACGACACAA
* *
105410975 TTATTAAATATTTGAATATAATAATATATTTATTA-ACCCAATTACGAC
1 TTATTAAATATTTGAAAATAATAATATATTTATTACCCCCAATTACGAC
105411023 TCAAGGATCA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
52 14 0.16
53 66 0.75
54 5 0.06
55 3 0.03
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (53 bp):
TTATTAAATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACACAA
Found at i:105416839 original size:15 final size:15
Alignment explanation
Indices: 105416786--105416840 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
105416776 TCCACCACCG
*
105416786 GGATATCCTCCACAA
1 GGATATCCTCCTCAA
105416801 GGATA---TCCTCAA
1 GGATATCCTCCTCAA
*
105416813 GGTTATCCTCCTCAA
1 GGATATCCTCCTCAA
105416828 GGATATCCTCCTC
1 GGATATCCTCCTC
105416841 CTTACGCCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 10 0.29
15 24 0.71
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
GGATATCCTCCTCAA
Found at i:105424232 original size:15 final size:16
Alignment explanation
Indices: 105424196--105424233 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
105424186 GAGCAGTTGC
105424196 AGAAGCAGAAGCTGCA
1 AGAAGCAGAAGCTGCA
*
105424212 A-TAGCAGAAGCTG-A
1 AGAAGCAGAAGCTGCA
105424226 AGAAGCAG
1 AGAAGCAG
105424234 CAAGAGAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 2 0.11
15 16 0.84
16 1 0.05
ACGTcount: A:0.45, C:0.16, G:0.32, T:0.08
Consensus pattern (16 bp):
AGAAGCAGAAGCTGCA
Found at i:105424279 original size:21 final size:21
Alignment explanation
Indices: 105424255--105424294 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
105424245 GAGGTTGCTG
*
105424255 AAGCTGATGCAGAGGCAGCGC
1 AAGCTGATGCAGAAGCAGCGC
**
105424276 AAGCTTTTGCAGAAGCAGC
1 AAGCTGATGCAGAAGCAGC
105424295 AATGAAAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.23, G:0.33, T:0.15
Consensus pattern (21 bp):
AAGCTGATGCAGAAGCAGCGC
Found at i:105424612 original size:29 final size:29
Alignment explanation
Indices: 105424579--105424665 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
105424569 TGTTGACGAT
*
105424579 TTTTGCAGCAGGCACCCAGTCATCATCCC
1 TTTTGCAGCAGGCACCCAGTGATCATCCC
*
105424608 TTTTGCAGCAGGCACCCAGTGATCGTCCC
1 TTTTGCAGCAGGCACCCAGTGATCATCCC
*
105424637 TATTTGTAGCAGGCACCCAGTGATCATCC
1 T-TTTGCAGCAGGCACCCAGTGATCATCC
105424666 TTATTATTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 28 0.53
30 25 0.47
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (29 bp):
TTTTGCAGCAGGCACCCAGTGATCATCCC
Found at i:105424650 original size:30 final size:30
Alignment explanation
Indices: 105424580--105424670 Score: 139
Period size: 30 Copynumber: 3.1 Consensus size: 30
105424570 GTTGACGATT
*
105424580 TTTGCAGCAGGCACCCAGTCATCATCCCT-
1 TTTGCAGCAGGCACCCAGTGATCATCCCTA
*
105424609 TTTGCAGCAGGCACCCAGTGATCGTCCCTA
1 TTTGCAGCAGGCACCCAGTGATCATCCCTA
* *
105424639 TTTGTAGCAGGCACCCAGTGATCATCCTTA
1 TTTGCAGCAGGCACCCAGTGATCATCCCTA
105424669 TT
1 TT
105424671 ATTTGTAGCC
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 27 0.48
30 29 0.52
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (30 bp):
TTTGCAGCAGGCACCCAGTGATCATCCCTA
Found at i:105428518 original size:57 final size:57
Alignment explanation
Indices: 105428430--105428544 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
105428420 AAAAATTATA
105428430 ATTTGTTGAGTAGAGTGATAAAAGAGTTCAATACTTTTAAGTAAAGTTTTAAGTTCG
1 ATTTGTTGAGTAGAGTGATAAAAGAGTTCAATACTTTTAAGTAAAGTTTTAAGTTCG
105428487 ATTTGTTGAGTAGAGTGATAAAAGAGTTCAATACTTTTAAGTAAAGTTTTAAGTTCG
1 ATTTGTTGAGTAGAGTGATAAAAGAGTTCAATACTTTTAAGTAAAGTTTTAAGTTCG
105428544 A
1 A
105428545 GTTTTGTGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (57 bp):
ATTTGTTGAGTAGAGTGATAAAAGAGTTCAATACTTTTAAGTAAAGTTTTAAGTTCG
Found at i:105428542 original size:27 final size:27
Alignment explanation
Indices: 105428454--105428542 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
105428444 GTGATAAAAG
105428454 AGTTCAATACTTTTAAGTAAAGTTTTA
1 AGTTCAATACTTTTAAGTAAAGTTTTA
* * * **
105428481 AGTTCGAT--TTGTTGAGTAGAGTGATAAAA
1 AGTTCAATACTT-TTAAGTAAAGT--T-TTA
105428510 GAGTTCAATACTTTTAAGTAAAGTTTTA
1 -AGTTCAATACTTTTAAGTAAAGTTTTA
105428538 AGTTC
1 AGTTC
105428543 GAGTTTTGTG
Statistics
Matches: 45, Mismatches: 10, Indels: 14
0.65 0.14 0.20
Matches are distributed among these distances:
25 2 0.04
26 9 0.20
27 12 0.27
28 2 0.04
29 2 0.04
30 7 0.16
31 9 0.20
32 2 0.04
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (27 bp):
AGTTCAATACTTTTAAGTAAAGTTTTA
Found at i:105430664 original size:3 final size:3
Alignment explanation
Indices: 105430656--105430686 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
105430646 CACAACCTCA
105430656 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
105430687 GTAACAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:105435194 original size:70 final size:69
Alignment explanation
Indices: 105435047--105435200 Score: 175
Period size: 70 Copynumber: 2.2 Consensus size: 69
105435037 GTTGAACACT
* * * *
105435047 AGCAATAAGATGGACACAGGACATTGTTTATGTAGAGGTTATTTTTAAGAAATAAAGTTAATGCA
1 AGCAATAAGATGGACAAAGAACATTGTTTA-GCAGAGGTTATTTTTAAGAAATAAAATTAATGCA
*
105435112 AGCCC
65 AACCC
** * * *
105435117 AATAATAAGATGGACAAAGAACATTGTTTA-CAGAGGCTTCTTTTTAAGACAATAAAATTAGTTC
1 AGCAATAAGATGGACAAAGAACATTGTTTAGCAGAGG-TTATTTTTAAGA-AATAAAATTAATGC
*
105435181 AAATCC
64 AAACCC
105435187 AGCAATAAGATGGA
1 AGCAATAAGATGGA
105435201 GGTGGAAATT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
68 5 0.07
69 11 0.16
70 53 0.77
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (69 bp):
AGCAATAAGATGGACAAAGAACATTGTTTAGCAGAGGTTATTTTTAAGAAATAAAATTAATGCAA
ACCC
Found at i:105438369 original size:14 final size:14
Alignment explanation
Indices: 105438317--105438374 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
105438307 GCCTTAAACC
105438317 AAAATATTAAA-TTT
1 AAAAT-TTAAAGTTT
* **
105438331 AAAGTTTAGGGTTT
1 AAAATTTAAAGTTT
*
105438345 ATAATTT-AAGTTT
1 AAAATTTAAAGTTT
105438358 AAAATTTAAAGTTT
1 AAAATTTAAAGTTT
105438372 AAA
1 AAA
105438375 TTGAAAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
13 13 0.38
14 21 0.62
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (14 bp):
AAAATTTAAAGTTT
Found at i:105438375 original size:13 final size:13
Alignment explanation
Indices: 105438318--105438376 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
105438308 CCTTAAACCA
105438318 AAATATTAAA-TTT
1 AAAT-TTAAAGTTT
**
105438331 AAAGTTTAGGGTTT
1 AAA-TTTAAAGTTT
105438345 ATAATTT-AAGTTT
1 A-AATTTAAAGTTT
105438358 AAAATTTAAAGTTT
1 -AAATTTAAAGTTT
105438372 AAATT
1 AAATT
105438377 GAAAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
13 20 0.54
14 15 0.41
15 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (13 bp):
AAATTTAAAGTTT
Found at i:105438684 original size:17 final size:20
Alignment explanation
Indices: 105438654--105438695 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
105438644 ATTCAACATA
105438654 TTTTAATAGTAAAAT-ATTT
1 TTTTAATAGTAAAATAATTT
105438673 TTTTAA-AG-AAAATAATTT
1 TTTTAATAGTAAAATAATTT
105438691 TTTTA
1 TTTTA
105438696 GCACTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.23
18 11 0.50
19 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
TTTTAATAGTAAAATAATTT
Found at i:105445451 original size:18 final size:20
Alignment explanation
Indices: 105445428--105445473 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
105445418 GTATTATTGT
*
105445428 ATAAATTAT-CGAT-AATAC
1 ATAAATTATACCATCAATAC
105445446 ATAAATTATACCATCAATAC
1 ATAAATTATACCATCAATAC
105445466 ATTAAATT
1 A-TAAATT
105445474 TAACCCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 3 0.12
20 6 0.25
21 6 0.25
ACGTcount: A:0.50, C:0.13, G:0.02, T:0.35
Consensus pattern (20 bp):
ATAAATTATACCATCAATAC
Found at i:105447137 original size:8 final size:8
Alignment explanation
Indices: 105447126--105447150 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
105447116 ATTTTATTGT
105447126 TTTATATA
1 TTTATATA
105447134 TTTATATA
1 TTTATATA
105447142 TTTATATA
1 TTTATATA
105447150 T
1 T
105447151 AAATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTATATA
Found at i:105448228 original size:16 final size:15
Alignment explanation
Indices: 105448196--105448224 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
105448186 TATCTGTCTT
105448196 TTTTTTAAATATTTA
1 TTTTTTAAATATTTA
105448211 TTTTTTAAATATTT
1 TTTTTTAAATATTT
105448225 TATTATAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTAAATATTTA
Found at i:105457915 original size:40 final size:41
Alignment explanation
Indices: 105457860--105457956 Score: 151
Period size: 40 Copynumber: 2.4 Consensus size: 41
105457850 TAGGTATGCC
* *
105457860 CTTGTCATGTCCACCGCCACTGGCACGCCTGCTG-CACTGG
1 CTTGTCATGTCCACCGCCACTGGCACGCCTACTGCCACCGG
*
105457900 CTTGTCATGTCCACCGCCACTGGCGCGCCTACTGCCACCGG
1 CTTGTCATGTCCACCGCCACTGGCACGCCTACTGCCACCGG
*
105457941 CTTGTCACGTCCACCG
1 CTTGTCATGTCCACCG
105457957 TCTTCAAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 32 0.62
41 20 0.38
ACGTcount: A:0.12, C:0.42, G:0.24, T:0.22
Consensus pattern (41 bp):
CTTGTCATGTCCACCGCCACTGGCACGCCTACTGCCACCGG
Found at i:105458417 original size:10 final size:11
Alignment explanation
Indices: 105458403--105458435 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
105458393 GGGAATGAAT
105458403 GAAAATAAAAA
1 GAAAATAAAAA
105458414 -AAAATAAAAA
1 GAAAATAAAAA
105458424 GAAAA-AAAAA
1 GAAAATAAAAA
105458434 GA
1 GA
105458436 TTGACTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (11 bp):
GAAAATAAAAA
Found at i:105459162 original size:13 final size:14
Alignment explanation
Indices: 105459146--105459181 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
105459136 CAATCTCATA
105459146 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
105459159 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
105459172 TCTC-ATTTCA
1 TCTCAATTTCA
105459182 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:105459171 original size:18 final size:19
Alignment explanation
Indices: 105459133--105459173 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
105459123 TGGTTCATGT
105459133 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
105459152 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
105459170 TTTC
1 TTTC
105459174 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:105459363 original size:39 final size:40
Alignment explanation
Indices: 105459320--105459431 Score: 95
Period size: 39 Copynumber: 2.8 Consensus size: 40
105459310 TCGGATAGTT
* *
105459320 CGAAGCAATATTTGACACCCAGTCTCTCATCG-GCCTAGC
1 CGAAGAAATATTTGACACCCAGTCTCTCATCGAACCTAGC
* * ** * *
105459359 CGAAGTAA-AGTTGGTACCCAGTAC-CTCATCGAATCTATC
1 CGAAGAAATATTTGACACCCAGT-CTCTCATCGAACCTAGC
* *
105459398 CGAAGAAATATAGTGACACCCAGTGTCTCATCGA
1 CGAAGAAATAT-TTGACACCCAGTCTCTCATCGA
105459432 CTCGAGGTCG
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
38 18 0.33
39 19 0.35
40 1 0.02
41 17 0.31
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
CGAAGAAATATTTGACACCCAGTCTCTCATCGAACCTAGC
Found at i:105459697 original size:18 final size:19
Alignment explanation
Indices: 105459671--105459709 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
105459661 TTTCAATTTA
*
105459671 ATTCAAATAATCAATATAT
1 ATTCAAATAATAAATATAT
*
105459690 ATTC-AATATTAAATATAT
1 ATTCAAATAATAAATATAT
105459708 AT
1 AT
105459710 ATCTATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATAAATATAT
Found at i:105461025 original size:5 final size:5
Alignment explanation
Indices: 105461015--105461071 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
105461005 TTACTTATTT
* *
105461015 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
105461063 ATAT- ATATA
1 ATATA ATATA
105461072 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:105461031 original size:12 final size:12
Alignment explanation
Indices: 105461014--105461069 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
105461004 TTTACTTATT
105461014 TATATAATATAA
1 TATATAATATAA
105461026 TATATAATATAATA
1 TATATAATAT-A-A
105461040 TACTATAATATAA
1 TA-TATAATATAA
*
105461053 TA-ATAATTTAA
1 TATATAATATAA
105461064 TATATA
1 TATATA
105461070 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:105461084 original size:26 final size:26
Alignment explanation
Indices: 105461016--105461071 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
105461006 TACTTATTTA
*
105461016 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
105461043 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
105461068 TATA
1 TATA
105461072 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:105461721 original size:65 final size:64
Alignment explanation
Indices: 105461640--105461831 Score: 307
Period size: 62 Copynumber: 3.0 Consensus size: 64
105461630 TCCCTTTTGC
* * *
105461640 TTTTATAATTAGACGTTGGCGTTCTCCTTTTCCAAAGGCTTTCTTCCCTTTCCTTCTCCAGCAAG
1 TTTTTTAATTACACGTTGGCGCTCTCCTTTTCCAAAGGCTTTCTTCCC-TTCCTTCTCCAGCAAG
* *
105461705 TTTTTTAATTACACGTTGGCGCTCTCCTTTTCCAAAGGCTTTCGTCCC-T-CTCCTCCAGCAAG
1 TTTTTTAATTACACGTTGGCGCTCTCCTTTTCCAAAGGCTTTCTTCCCTTCCTTCTCCAGCAAG
105461767 TTTTTTAATTACACGTTGGCGCTCTCCTTTTCCAAAGGCTTTCTTCCCTCTCCTTCTCCAGCAAG
1 TTTTTTAATTACACGTTGGCGCTCTCCTTTTCCAAAGGCTTTCTTCCCT-TCCTTCTCCAGCAAG
105461832 CATGGAAGAG
Statistics
Matches: 117, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
62 59 0.50
63 1 0.01
64 1 0.01
65 56 0.48
ACGTcount: A:0.16, C:0.31, G:0.14, T:0.40
Consensus pattern (64 bp):
TTTTTTAATTACACGTTGGCGCTCTCCTTTTCCAAAGGCTTTCTTCCCTTCCTTCTCCAGCAAG
Found at i:105468435 original size:12 final size:12
Alignment explanation
Indices: 105468418--105468460 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
105468408 TAAAATTATG
105468418 TTATATTAATAA
1 TTATATTAATAA
105468430 TTATATTAATAA
1 TTATATTAATAA
*
105468442 TT-TA-TAAGAA
1 TTATATTAATAA
*
105468452 TTAGATTAA
1 TTATATTAA
105468461 ATAAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 17 0.63
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (12 bp):
TTATATTAATAA
Found at i:105472731 original size:23 final size:23
Alignment explanation
Indices: 105472705--105472772 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 23
105472695 CCCAAATAAG
105472705 ATTAAGTACCAACATGAAAACAA
1 ATTAAGTACCAACATGAAAACAA
* * * *
105472728 ATT-ATTACC-CCA--AATA-AG
1 ATTAAGTACCAACATGAAAACAA
105472746 ATTAAGTACCAACATGAAAACAA
1 ATTAAGTACCAACATGAAAACAA
105472769 ATTA
1 ATTA
105472773 TTAGGTGCCA
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
18 4 0.12
19 8 0.25
20 2 0.06
21 2 0.06
22 8 0.25
23 8 0.25
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.22
Consensus pattern (23 bp):
ATTAAGTACCAACATGAAAACAA
Found at i:105472738 original size:41 final size:41
Alignment explanation
Indices: 105472693--105472775 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
105472683 ATCAAGTTAG
105472693 ACCCCAAATAAGATTAAGTACCAACATGAAAACAAATTATT
1 ACCCCAAATAAGATTAAGTACCAACATGAAAACAAATTATT
105472734 ACCCCAAATAAGATTAAGTACCAACATGAAAACAAATTATT
1 ACCCCAAATAAGATTAAGTACCAACATGAAAACAAATTATT
105472775 A
1 A
105472776 GGTGCCAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (41 bp):
ACCCCAAATAAGATTAAGTACCAACATGAAAACAAATTATT
Found at i:105481547 original size:42 final size:42
Alignment explanation
Indices: 105481468--105481550 Score: 105
Period size: 45 Copynumber: 1.9 Consensus size: 42
105481458 CTAATTAATT
*
105481468 TATTTTTTTCAAATCATTATAATAGAATATTTTTTTCAAATATA
1 TATTTTTTCCAAATCATTATAATAGAATA--TTTTTCAAATATA
* *
105481512 TATTTTTTCCGAACTCATTATGATAGAATA-TTTTCAAAT
1 TATTTTTTCC-AAATCATTATAATAGAATATTTTTCAAAT
105481551 CAAATAAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 9 0.26
44 9 0.26
45 17 0.49
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (42 bp):
TATTTTTTCCAAATCATTATAATAGAATATTTTTCAAATATA
Found at i:105483619 original size:61 final size:61
Alignment explanation
Indices: 105483548--105483672 Score: 250
Period size: 61 Copynumber: 2.0 Consensus size: 61
105483538 GTTTTAGTCA
105483548 AAATTTAAATTAAAAATAATAATTAGACTATTCTTTAATGTTTAATGGTCAAATTTAACTC
1 AAATTTAAATTAAAAATAATAATTAGACTATTCTTTAATGTTTAATGGTCAAATTTAACTC
105483609 AAATTTAAATTAAAAATAATAATTAGACTATTCTTTAATGTTTAATGGTCAAATTTAACTC
1 AAATTTAAATTAAAAATAATAATTAGACTATTCTTTAATGTTTAATGGTCAAATTTAACTC
105483670 AAA
1 AAA
105483673 AGAATAATAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (61 bp):
AAATTTAAATTAAAAATAATAATTAGACTATTCTTTAATGTTTAATGGTCAAATTTAACTC
Found at i:105483646 original size:30 final size:30
Alignment explanation
Indices: 105483551--105483646 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
105483541 TTAGTCAAAA
105483551 TTTAAATTAAAAATAATAATTAGACTATTC
1 TTTAAATTAAAAATAATAATTAGACTATTC
* *** * **
105483581 TTTAATGTTTAATGGTCAA-ATTTA-ACTCA-AA
1 TTTAA--ATTAAAAAT-AATAATTAGACT-ATTC
105483612 TTTAAATTAAAAATAATAATTAGACTATTC
1 TTTAAATTAAAAATAATAATTAGACTATTC
105483642 TTTAA
1 TTTAA
105483647 TGTTTAATGG
Statistics
Matches: 45, Mismatches: 14, Indels: 14
0.62 0.19 0.19
Matches are distributed among these distances:
28 2 0.04
29 10 0.22
30 13 0.29
31 8 0.18
32 10 0.22
33 2 0.04
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (30 bp):
TTTAAATTAAAAATAATAATTAGACTATTC
Found at i:105484828 original size:11 final size:11
Alignment explanation
Indices: 105484812--105484836 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
105484802 TCGAATATTC
105484812 ATGTCCAAAAT
1 ATGTCCAAAAT
105484823 ATGTCCAAAAT
1 ATGTCCAAAAT
105484834 ATG
1 ATG
105484837 CATAAATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (11 bp):
ATGTCCAAAAT
Found at i:105504876 original size:3 final size:3
Alignment explanation
Indices: 105504868--105504892 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
105504858 ACCCAGTTTA
105504868 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
105504893 CGTTTTGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:105511038 original size:21 final size:21
Alignment explanation
Indices: 105511008--105511086 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 21
105510998 ATAATGATAC
*
105511008 TTTTAGAATTCAATTAAAATA
1 TTTTAAAATTCAATTAAAATA
* *
105511029 TTTTAAAATTTGCTATAATAATGATAA
1 TTTTAAAA-TT-C-A-ATTAA-AAT-A
*
105511056 TTTTAGAATTCAATTAAAATA
1 TTTTAAAATTCAATTAAAATA
105511077 TTTTAAAATT
1 TTTTAAAATT
105511087 TGAAGAGCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
21 17 0.38
22 4 0.09
23 5 0.11
24 2 0.04
25 5 0.11
26 4 0.09
27 8 0.18
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (21 bp):
TTTTAAAATTCAATTAAAATA
Found at i:105511061 original size:48 final size:48
Alignment explanation
Indices: 105510990--105511088 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
105510980 AATGACTTGA
*
105510990 TTGCTATAATAATGATACTTTTAGAATTCAATTAAAATATTTTAAAAT
1 TTGCTATAATAATGATAATTTTAGAATTCAATTAAAATATTTTAAAAT
105511038 TTGCTATAATAATGATAATTTTAGAATTCAATTAAAATATTTTAAAAT
1 TTGCTATAATAATGATAATTTTAGAATTCAATTAAAATATTTTAAAAT
105511086 TTG
1 TTG
105511089 AAGAGCAATT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.44
Consensus pattern (48 bp):
TTGCTATAATAATGATAATTTTAGAATTCAATTAAAATATTTTAAAAT
Found at i:105516960 original size:14 final size:14
Alignment explanation
Indices: 105516941--105516987 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
105516931 TTTTCAATTT
105516941 TTAAAATATAAAGA
1 TTAAAATATAAAGA
* *
105516955 TTAAAAATTTCAA-A
1 TT-AAAATATAAAGA
*
105516969 TTAAAATATAAAGG
1 TTAAAATATAAAGA
105516983 TTAAA
1 TTAAA
105516988 TTCACAATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 8 0.31
14 10 0.38
15 8 0.31
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (14 bp):
TTAAAATATAAAGA
Found at i:105517308 original size:19 final size:19
Alignment explanation
Indices: 105517270--105517306 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
105517260 TTTTATTGAC
105517270 ATAATATTTAAAATTTTTT
1 ATAATATTTAAAATTTTTT
*
105517289 ATAAT-TTTATAATTTTTT
1 ATAATATTTAAAATTTTTT
105517307 TACTATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATAATATTTAAAATTTTTT
Found at i:105518600 original size:31 final size:32
Alignment explanation
Indices: 105518565--105518625 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
105518555 AAACTTTTAG
105518565 ATAGTTAAATGACTAAAATG-AAATTTTTTGA
1 ATAGTTAAATGACTAAAATGTAAATTTTTTGA
* * *
105518596 ATAGTTTAATGATTAAATTGTAAATTTTTT
1 ATAGTTAAATGACTAAAATGTAAATTTTTT
105518626 AATTAAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (32 bp):
ATAGTTAAATGACTAAAATGTAAATTTTTTGA
Found at i:105521234 original size:19 final size:20
Alignment explanation
Indices: 105521198--105521244 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
105521188 TCCAACAAAA
* *
105521198 AAAAATTCAGAATAATTT-T
1 AAAAATTTAAAATAATTTAT
105521217 CAAAAATTTAAAAT-ATTTAT
1 -AAAAATTTAAAATAATTTAT
105521237 AAAAATTT
1 AAAAATTT
105521245 CATAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAATTTAAAATAATTTAT
Done.