Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 265 of 356
Found at i:87025019 original size:22 final size:23
Alignment explanation
Indices: 87024994--87025042 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
87024984 ATCATAACAT
87024994 TTAAAAAAATATTTTATTT-TA-A
1 TTAAAAAAATA-TTTATTTCTATA
*
87025016 TT-AAATAATATTTATTTCTATA
1 TTAAAAAAATATTTATTTCTATA
87025038 TTAAA
1 TTAAA
87025043 TATTATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 5 0.22
23 2 0.09
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAAAAATATTTATTTCTATA
Found at i:87026479 original size:15 final size:16
Alignment explanation
Indices: 87026453--87026483 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
87026443 TCTCTCTTGC
87026453 TTTTAGATCATATATA
1 TTTTAGATCATATATA
87026469 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
87026484 AGACAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:87027438 original size:45 final size:45
Alignment explanation
Indices: 87027387--87027477 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
87027377 AGCAAATGAA
*
87027387 TCGTGCTCCTAAATTGAAATTAAATGAGCAAATCTAGATCCATGT
1 TCGTGCTCCTAAAGTGAAATTAAATGAGCAAATCTAGATCCATGT
87027432 TCGTGCTCCTAAAGTGAAATTAAATGAGCAAATCTAGATCCATGT
1 TCGTGCTCCTAAAGTGAAATTAAATGAGCAAATCTAGATCCATGT
87027477 T
1 T
87027478 AAGATCAAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (45 bp):
TCGTGCTCCTAAAGTGAAATTAAATGAGCAAATCTAGATCCATGT
Found at i:87030165 original size:18 final size:19
Alignment explanation
Indices: 87030142--87030182 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
87030132 TATTACTTAA
87030142 TTTTAA-AT-TTTTTTTCAT
1 TTTTAACATATTTTTTT-AT
87030160 TTTTAACATATTTTTTTAT
1 TTTTAACATATTTTTTTAT
87030179 TTTT
1 TTTT
87030183 TCTTTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 8 0.38
20 7 0.33
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTAACATATTTTTTTAT
Found at i:87030301 original size:16 final size:16
Alignment explanation
Indices: 87030280--87030330 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
87030270 AAATATTAAA
87030280 TTTTTTATTTTTAATT
1 TTTTTTATTTTTAATT
*
87030296 TTTTTTATTTTTTATT
1 TTTTTTATTTTTAATT
***
87030312 TTTAAAATTTTTAATT
1 TTTTTTATTTTTAATT
87030328 TTT
1 TTT
87030331 AATTTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTATTTTTAATT
Found at i:87030305 original size:23 final size:23
Alignment explanation
Indices: 87030268--87030346 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
87030258 AAATATGAAC
* *
87030268 TAAAATATTAAATTTTTTATTTT
1 TAAAATTTTTAATTTTTTATTTT
** *
87030291 TAATTTTTTTTATTTTTTATTTT
1 TAAAATTTTTAATTTTTTATTTT
*
87030314 TAAAATTTTTAATTTTTAATTTT
1 TAAAATTTTTAATTTTTTATTTT
*
87030337 AAAAATTTTT
1 TAAAATTTTT
87030347 TTGAAGATTT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TAAAATTTTTAATTTTTTATTTT
Found at i:87030338 original size:6 final size:7
Alignment explanation
Indices: 87030278--87030336 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
87030268 TAAAATATTA
87030278 AATTTTT
1 AATTTTT
*
87030285 TATTTTT
1 AATTTTT
87030292 AATTTTTTT
1 AA--TTTTT
*
87030301 TATTTTT
1 AATTTTT
*
87030308 TATTTTT
1 AATTTTT
87030315 AAAATTTTT
1 --AATTTTT
87030324 AATTTTT
1 AATTTTT
87030331 AATTTT
1 AATTTT
87030337 AAAAATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 32 0.73
9 12 0.27
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
AATTTTT
Found at i:87031114 original size:14 final size:14
Alignment explanation
Indices: 87031079--87031131 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
87031069 ATAATCTCTA
* *
87031079 AACCCTAAAAACCT
1 AACCCTTAAACCCT
* *
87031093 AACACTTAACCCCT
1 AACCCTTAAACCCT
*
87031107 AAGCCTTAAACCCT
1 AACCCTTAAACCCT
87031121 AACCCTTAAAC
1 AACCCTTAAAC
87031132 AATAAACCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.42, C:0.38, G:0.02, T:0.19
Consensus pattern (14 bp):
AACCCTTAAACCCT
Found at i:87031211 original size:14 final size:14
Alignment explanation
Indices: 87031192--87031222 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
87031182 TCATACACTT
87031192 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
87031206 TAAACCCTAAACTA
1 TAAACCCTAAACCA
87031220 TAA
1 TAA
87031223 TGATAATTAA
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:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:87031453 original size:15 final size:15
Alignment explanation
Indices: 87031429--87031463 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
87031419 AAACCACCCG
*
87031429 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
87031443 TAAACCCATAATCCA
1 TAAACCCATAATCCA
87031458 TAAACC
1 TAAACC
87031464 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:87031468 original size:22 final size:22
Alignment explanation
Indices: 87031424--87031468 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
87031414 CCCTTAAACC
* *
87031424 ACCCGTAAACCATAATCCCTAA
1 ACCCATAAACCATAAACCCTAA
* *
87031446 ACCCATAATCCATAAACCTTAA
1 ACCCATAAACCATAAACCCTAA
87031468 A
1 A
87031469 ATAGTAACTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.20
Consensus pattern (22 bp):
ACCCATAAACCATAAACCCTAA
Found at i:87031814 original size:40 final size:40
Alignment explanation
Indices: 87031753--87031858 Score: 112
Period size: 40 Copynumber: 2.6 Consensus size: 40
87031743 AATTCATTTA
*
87031753 TGGCGTTTTTCATTAAA-CGCCGCTAAAGATCG-AGCAT-TAG
1 TGGCGTTTTTCA-AAAAGCGCCGCTAAAGAT-GTA-CATATAG
* *
87031793 TGGCATTTTTCAAAAAGCGCCGCTAAAGGTGTACATATAG
1 TGGCGTTTTTCAAAAAGCGCCGCTAAAGATGTACATATAG
*
87031833 CGGCGTTTCTT-AAAAAGCGCCGCTAA
1 TGGCGTTT-TTCAAAAAGCGCCGCTAA
87031859 TACTTGATCT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
39 7 0.12
40 48 0.84
41 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (40 bp):
TGGCGTTTTTCAAAAAGCGCCGCTAAAGATGTACATATAG
Found at i:87032102 original size:155 final size:155
Alignment explanation
Indices: 87031795--87032185 Score: 527
Period size: 155 Copynumber: 2.5 Consensus size: 155
87031785 AGCATTAGTG
* * *
87031795 GCATTTTTCAAAAAGCGCCGCTAAAGGTGTACATATAGCGGCGTTTCTTAAAAAGCGCCGCTAAT
1 GCATTTTTCAAAAAGCGACGCTAAAGGTGTACATATAGCGGCGTTTTTTAAAAAGAGCCGCTAAT
** *
87031860 ACTTGATCTTTAGCGGTGTTTTTAAAAAGTGCCGCTAAAGCCACTAAAAGCTCAATACAAAAACA
66 ACTTGATCTTTAGCGGCATTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAAACA
* *
87031925 ATGGAGTTTTGCAAAAAATTTTGCA
131 ACGGAGTTTTGCAAAAAATTTTGAA
* * *
87031950 GTATTTTTCAAAAAGCGTCGCTAAAGGTGTACTTATAGCGGCGTTTTTTAAAAAGAGCCGCTAAT
1 GCATTTTTCAAAAAGCGACGCTAAAGGTGTACATATAGCGGCGTTTTTTAAAAAGAGCCGCTAAT
* * * **
87032015 ACTTTATCTTTAGTGGCATTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGTTCAATAC-AAAATG
66 ACTTGATCTTTAGCGGCATTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAAACA
**
87032079 ACGGAGTTTTGCAAAATTCTTTTGAA
131 ACGGAGTTTTGCAAAA-AATTTTGAA
* * * * *
87032105 GCGTTTTTCAAAAAAC-ACTGCTAAAGGTGTACATATAGAGGCATTTTTAAAAAAGCA-CCGCTA
1 GCATTTTTCAAAAAGCGAC-GCTAAAGGTGTACATATAGCGGCGTTTTTTAAAAAG-AGCCGCTA
87032168 ATACTTGATCTTTAGCGG
64 ATACTTGATCTTTAGCGG
87032186 TGTTTTTTGT
Statistics
Matches: 206, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
154 20 0.10
155 185 0.90
156 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (155 bp):
GCATTTTTCAAAAAGCGACGCTAAAGGTGTACATATAGCGGCGTTTTTTAAAAAGAGCCGCTAAT
ACTTGATCTTTAGCGGCATTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAAACA
ACGGAGTTTTGCAAAAAATTTTGAA
Found at i:87035228 original size:26 final size:26
Alignment explanation
Indices: 87035197--87035288 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
87035187 TAGATTAATA
87035197 CTGATATGGGCTAGGCCCAATATACT
1 CTGATATGGGCTAGGCCCAATATACT
87035223 CTGATACTGTAAGGGGCTATGGCCCAGATTAATA-T
1 CTGATA---T---GGGCTA-GGCCCA-A-T-ATACT
87035258 -TGATATGGGCTAGGCCCAATATACT
1 CTGATATGGGCTAGGCCCAATATACT
87035283 CTGATA
1 CTGATA
87035289 CTGTAAGGGG
Statistics
Matches: 54, Mismatches: 0, Indels: 24
0.69 0.00 0.31
Matches are distributed among these distances:
24 3 0.06
25 2 0.04
26 12 0.22
27 6 0.11
28 6 0.11
29 1 0.02
31 1 0.02
32 6 0.11
33 6 0.11
34 6 0.11
35 2 0.04
36 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (26 bp):
CTGATATGGGCTAGGCCCAATATACT
Found at i:87035231 original size:32 final size:33
Alignment explanation
Indices: 87035204--87035308 Score: 113
Period size: 32 Copynumber: 3.4 Consensus size: 33
87035194 ATACTGATAT
87035204 GGGCTA-GGCCCAATATACTCTGATACTGTAAG
1 GGGCTATGGCCCAATATACTCTGATACTGTAAG
87035236 GGGCTATGGCCCAGATTAATA-T-TGATA---T---
1 GGGCTATGGCCCA-A-T-ATACTCTGATACTGTAAG
87035264 GGGCTA-GGCCCAATATACTCTGATACTGTAAG
1 GGGCTATGGCCCAATATACTCTGATACTGTAAG
87035296 GGGCTATGGCCCA
1 GGGCTATGGCCCA
87035309 GATTAATATT
Statistics
Matches: 60, Mismatches: 0, Indels: 25
0.71 0.00 0.29
Matches are distributed among these distances:
24 3 0.05
25 2 0.03
26 6 0.10
27 6 0.10
28 6 0.10
29 1 0.02
31 1 0.02
32 12 0.20
33 12 0.20
34 6 0.10
35 2 0.03
36 3 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (33 bp):
GGGCTATGGCCCAATATACTCTGATACTGTAAG
Found at i:87035240 original size:60 final size:60
Alignment explanation
Indices: 87035140--87035338 Score: 296
Period size: 60 Copynumber: 3.3 Consensus size: 60
87035130 AACTGTGTTA
* * * * *
87035140 ATATGGGCAAGGCCCAATATA-TCTCG--ACTTGTAATAGGGCTACGGCCTAGATTAATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GATAC-TGTAA-GGGGCTATGGCCCAGATTAATATTG
87035200 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
87035260 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
87035320 ATATGGGCTAGGGCCCAAT
1 ATATGGGCTA-GGCCCAAT
87035339 TAACACTGAT
Statistics
Matches: 130, Mismatches: 5, Indels: 7
0.92 0.04 0.05
Matches are distributed among these distances:
60 112 0.86
61 16 0.12
62 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
Found at i:87035336 original size:28 final size:27
Alignment explanation
Indices: 87035236--87035341 Score: 92
Period size: 28 Copynumber: 3.7 Consensus size: 27
87035226 ATACTGTAAG
87035236 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTATGGCCCA-ATTAATATTGATAT
87035264 GGGCTA-GGCCCAA-T-ATACTCTGATACTGT
1 GGGCTATGGCCCAATTAATA-T-TGATA---T
87035293 AAGGGGCTATGGCCCAGATTAATATTGATAT
1 ---GGGCTATGGCCCA-ATTAATATTGATAT
*
87035324 GGGCTAGGGCCCAATTAA
1 GGGCTATGGCCCAATTAA
87035342 CACTGATTTC
Statistics
Matches: 65, Mismatches: 1, Indels: 25
0.71 0.01 0.27
Matches are distributed among these distances:
24 3 0.05
25 2 0.03
26 6 0.09
27 11 0.17
28 18 0.28
29 1 0.02
31 1 0.02
32 6 0.09
33 6 0.09
34 6 0.09
35 2 0.03
36 3 0.05
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (27 bp):
GGGCTATGGCCCAATTAATATTGATAT
Found at i:87035348 original size:27 final size:28
Alignment explanation
Indices: 87035176--87035348 Score: 72
Period size: 28 Copynumber: 5.9 Consensus size: 28
87035166 ACTTGTAATA
* * *
87035176 GGGCTACGGCCTAGATTAATACTGATAT
1 GGGCTAGGGCCCAGATTAACACTGATAT
*
87035204 GGGCTA-GGCCCA-A-TATACTCTGATACTGT
1 GGGCTAGGGCCCAGATTA-ACACTGATA---T
* * *
87035233 AAGGGGCTATGGCCCAGATTAATATTGATAT
1 ---GGGCTAGGGCCCAGATTAACACTGATAT
*
87035264 GGGCTA-GGCCCA-A-TATACTCTGATACTGT
1 GGGCTAGGGCCCAGATTA-ACACTGATA---T
* * *
87035293 AAGGGGCTATGGCCCAGATTAATATTGATAT
1 ---GGGCTAGGGCCCAGATTAACACTGATAT
87035324 GGGCTAGGGCCCA-ATTAACACTGAT
1 GGGCTAGGGCCCAGATTAACACTGAT
87035349 TTCTGAATAG
Statistics
Matches: 110, Mismatches: 15, Indels: 41
0.66 0.09 0.25
Matches are distributed among these distances:
25 4 0.04
26 15 0.14
27 21 0.19
28 24 0.22
29 2 0.02
31 2 0.02
32 12 0.11
33 12 0.11
34 14 0.13
35 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (28 bp):
GGGCTAGGGCCCAGATTAACACTGATAT
Found at i:87036681 original size:26 final size:26
Alignment explanation
Indices: 87036634--87036684 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
87036624 CCGTTTGGCC
*
87036634 CCTAGCCCAAAACTCATTTTCTAACG
1 CCTAGCCCAAAACTCATCTTCTAACG
87036660 CCTAGCCCAAAAC-CTATCTTCTAAC
1 CCTAGCCCAAAACTC-ATCTTCTAAC
87036685 CCACAAAGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.31, C:0.37, G:0.06, T:0.25
Consensus pattern (26 bp):
CCTAGCCCAAAACTCATCTTCTAACG
Found at i:87039610 original size:26 final size:26
Alignment explanation
Indices: 87039580--87039632 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
87039570 TCGGGCCGAA
*
87039580 AGGGGCTATGTGAGCCCAATGGGCCT
1 AGGGGCCATGTGAGCCCAATGGGCCT
*
87039606 AGGGGCCATGTGAGCCCAATGGTCCT
1 AGGGGCCATGTGAGCCCAATGGGCCT
87039632 A
1 A
87039633 CGAGCCCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.36, T:0.19
Consensus pattern (26 bp):
AGGGGCCATGTGAGCCCAATGGGCCT
Found at i:87039741 original size:27 final size:27
Alignment explanation
Indices: 87039700--87040254 Score: 785
Period size: 27 Copynumber: 20.7 Consensus size: 27
87039690 AATCTCATAT
*
87039700 CTGTAGGCTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
87039727 CTATAGGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
87039754 CTGTAGGGTAGAATTATCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
87039781 CTGTAAGGTAGAATTACCGAAAT-GCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
87039807 CTGTAGGGTAGAATTATCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
87039834 TTGTAGGGTAGAATTATCGAAATA-CC
1 CTGTAGGGTAGAATTACCGAAATACCC
87039860 CTGTAGGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
87039887 CTGTAGGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
87039914 CTGTAGGGTAGAACTACCGAAATACCT
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
87039941 CTGTAGGGTGGAACTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
87039968 CTGTAGGGTGGAACTACCGAAATA-CC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
87039994 CAGAAGGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
87040021 CTGTAAGGTATAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
87040048 CTATAGGGTACAATTACCGAAATA-CC
1 CTGTAGGGTAGAATTACCGAAATACCC
87040074 CTGTAGGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
87040101 CTATAGGGTAGTATTACAGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
87040128 CTGTAGGATAGAATTATCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
87040155 CTGTAGGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
87040182 CTATAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
87040209 CTGTAGGGTAGAGTTACCGAGATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
87040236 TTGTGGGGTTAAAATTACC
1 CTGTAGGG-TAGAATTACC
87040255 ATTTTTCCCC
Statistics
Matches: 473, Mismatches: 50, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
26 93 0.20
27 372 0.79
28 8 0.02
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACCGAAATACCC
Found at i:87039839 original size:80 final size:81
Alignment explanation
Indices: 87039700--87040254 Score: 785
Period size: 80 Copynumber: 6.9 Consensus size: 81
87039690 AATCTCATAT
* *
87039700 CTGTAGGCTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 CTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
87039765 AATTATCGAAATACCC
66 AATTACCGAAATACCC
* * * *
87039781 CTGTAAGGTAGAATTACCGAAAT-GCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAG
1 CTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
87039845 AATTATCGAAATA-CC
66 AATTACCGAAATACCC
87039860 CTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 CTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
87039925 AACTACCGAAATACCT
66 AATTACCGAAATACCC
* * * * * *
87039941 CTGTAGGGTGGAACTACCGAAATACCCCTGTAGGGTGGAACTACCGAAATA-CCCAGAAGGGTAG
1 CTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
87040005 AATTACCGAAATACCC
66 AATTACCGAAATACCC
* * * *
87040021 CTGTAAGGTATAATTACCGAAATACCCCTATAGGGTACAATTACCGAAATA-CCCTGTAGGGTAG
1 CTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
87040085 AATTACCGAAATACCC
66 AATTACCGAAATACCC
* * * * *
87040101 CTATAGGGTAGTATTACAGAAATACCCCTGTAGGATAGAATTATCGAAATACCCCTGTAGGGTAG
1 CTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
87040166 AATTACCGAAATACCC
66 AATTACCGAAATACCC
* * * * * *
87040182 CTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAGTTACCGAGATACCCTTGTGGGGTTA
1 CTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGG-TA
*
87040247 AAATTACC
65 GAATTACC
87040255 ATTTTTCCCC
Statistics
Matches: 421, Mismatches: 49, Indels: 7
0.88 0.10 0.01
Matches are distributed among these distances:
79 24 0.06
80 236 0.56
81 152 0.36
82 9 0.02
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (81 bp):
CTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
AATTACCGAAATACCC
Found at i:87040517 original size:28 final size:28
Alignment explanation
Indices: 87040483--87040568 Score: 131
Period size: 27 Copynumber: 3.1 Consensus size: 28
87040473 GAAGTGTTCC
87040483 GGTGGCTATGCCACAAATATCTGTTTCT
1 GGTGGCTATGCCACAAATATCTGTTTCT
*
87040511 GTTGGCTATGCCACAAATATCTG-TTCT
1 GGTGGCTATGCCACAAATATCTGTTTCT
* *
87040538 GGTGGCTCTGCCAC-AATATTTGTTTCT
1 GGTGGCTATGCCACAAATATCTGTTTCT
87040565 GGTG
1 GGTG
87040569 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 7 0.13
27 24 0.45
28 22 0.42
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (28 bp):
GGTGGCTATGCCACAAATATCTGTTTCT
Found at i:87040573 original size:27 final size:28
Alignment explanation
Indices: 87040483--87040588 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 28
87040473 GAAGTGTTCC
*
87040483 GGTGGCTATGCCACAAATATCTGTTTCT
1 GGTGGCTCTGCCACAAATATCTGTTTCT
* *
87040511 GTTGGCTATGCCACAAATATCTG-TTCT
1 GGTGGCTCTGCCACAAATATCTGTTTCT
*
87040538 GGTGGCTCTGCCAC-AATATTTGTTTCT
1 GGTGGCTCTGCCACAAATATCTGTTTCT
* * *
87040565 GGTGACTCTGTCAC-AATATTTGTT
1 GGTGGCTCTGCCACAAATATCTGTT
87040589 GACCGATCGA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
26 7 0.10
27 42 0.59
28 22 0.31
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (28 bp):
GGTGGCTCTGCCACAAATATCTGTTTCT
Found at i:87040766 original size:78 final size:78
Alignment explanation
Indices: 87040594--87040759 Score: 287
Period size: 78 Copynumber: 2.1 Consensus size: 78
87040584 TTGTTGACCG
* *
87040594 ATCGATGGCTGAGTGTCGATCATGTTACCGAAGGCTGTGTGCCATTATTGTGGGCTTCGTACCGA
1 ATCGATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTACCATTATTGTGGGCTTCGTACCGA
87040659 TTATAGACCCGTT
66 TTATAGACCCGTT
* *
87040672 ATCGATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTACCGTTATTGTGGGCTTCGTGCCGA
1 ATCGATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTACCATTATTGTGGGCTTCGTACCGA
*
87040737 TTATAGACCTGTT
66 TTATAGACCCGTT
87040750 ATCGATGGCT
1 ATCGATGGCT
87040760 TTGTGCCACG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 83 1.00
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (78 bp):
ATCGATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTACCATTATTGTGGGCTTCGTACCGA
TTATAGACCCGTT
Found at i:87040989 original size:6 final size:6
Alignment explanation
Indices: 87040980--87041092 Score: 65
Period size: 6 Copynumber: 18.3 Consensus size: 6
87040970 TTGCATTCAC
* * *
87040980 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTC
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
87041030 ATTCTG ATTCTG ATTCT- -TTCACCGG ATTCTG ATTCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT---CTG ATTCTG ATTCTG ATTCTG ATTCTG
87041079 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
87041093 AATGTTTCTT
Statistics
Matches: 82, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
4 2 0.02
5 4 0.05
6 65 0.79
7 7 0.09
8 2 0.02
9 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:87041011 original size:25 final size:25
Alignment explanation
Indices: 87040980--87041071 Score: 132
Period size: 25 Copynumber: 3.7 Consensus size: 25
87040970 TTGCATTCAC
87040980 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* * *
87041005 ATACTGATTCTGATTCTGTCACCTC
1 ATTCTGATTCTGATTCTGTTACCTG
*
87041030 ATTCTGATTCTGATTCT-TTCACCGG
1 ATTCTGATTCTGATTCTGTT-ACCTG
87041055 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
87041072 CATTTTGATT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
24 1 0.02
25 58 0.98
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:87043058 original size:84 final size:81
Alignment explanation
Indices: 87042911--87043179 Score: 294
Period size: 84 Copynumber: 3.3 Consensus size: 81
87042901 CTCATATTTG
* * *
87042911 TAGGCTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTATAAGGTAGAAT
1 TAGGATAGAATTACCGAAATACCCCTAGAGGGTAGAATTACAGAAATACCCTTATAAGGTAGAAT
*
87042976 TACCGAAATATCCCTA
66 TACCGAAATACCCCTA
*
87042992 TAGGATAGAATTACCGAAATACCCCTGTAGGAGGGTAGAATTACAGAAATACCCTGT-T-TGGAT
1 TAGGATAGAATTACCGAAATACCCC--TA-GAGGGTAGAATTACAGAAATACCCT-TATAAGG-T
*
87043055 AGAATTACCGAAATACCCCTC
61 AGAATTACCGAAATACCCCTA
* ** * * * *
87043076 TAGGGTAGAATTACCGAAATACCCCCT-TTGGGTAG-ATTACTGAAATACCCCTCTAGGGTAGAA
1 TAGGATAGAATTACCGAAATA-CCCCTAGAGGGTAGAATTACAGAAATACCCTTATAAGGTAGAA
* *
87043139 TTACTGAAATACCCCTC
65 TTACCGAAATACCCCTA
* * *
87043156 TAGGGTAGAGTTACCGAGATACCC
1 TAGGATAGAATTACCGAAATACCC
87043180 TTGTGGGGTA
Statistics
Matches: 165, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
79 4 0.02
80 55 0.33
81 32 0.19
83 5 0.03
84 64 0.39
85 5 0.03
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (81 bp):
TAGGATAGAATTACCGAAATACCCCTAGAGGGTAGAATTACAGAAATACCCTTATAAGGTAGAAT
TACCGAAATACCCCTA
Found at i:87043064 original size:111 final size:106
Alignment explanation
Indices: 87042911--87043179 Score: 297
Period size: 111 Copynumber: 2.5 Consensus size: 106
87042901 CTCATATTTG
* * * *
87042911 TAGGCTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTATAAGGTAGAAT
1 TAGGGTAGAATTACAGAAATA-CCCTATAGGATAGAATTACCGAAATACCCCTATAAGGTAGAAT
* *
87042976 TACCGAAATA-TCCCTATAGGATAGAATTACCGAAATACCCCTG
65 TACCGAAATACCCCCT-TAGGATAG-ATTACCGAAATACCCCTC
* * * *
87043019 TAGGAGGGTAGAATTACAGAAATACCCTGTTTGGATAGAATTACCGAAATACCCCTCTAGGGTAG
1 T---AGGGTAGAATTACAGAAATACCCT-ATAGGATAGAATTACCGAAATACCCCTATAAGGTAG
* * *
87043084 AATTACCGAAATACCCCCTTTGGGTAGATTACTGAAATACCCCTC
62 AATTACCGAAATACCCCCTTAGGATAGATTACCGAAATACCCCTC
* * * * *
87043129 TAGGGTAGAATTACTGAAATACCCCTCTAGGGTAGAGTTACCGAGATACCC
1 TAGGGTAGAATTACAGAAATA-CCCTATAGGATAGAATTACCGAAATACCC
87043180 TTGTGGGGTA
Statistics
Matches: 136, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
107 39 0.29
108 5 0.04
110 21 0.15
111 67 0.49
112 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (106 bp):
TAGGGTAGAATTACAGAAATACCCTATAGGATAGAATTACCGAAATACCCCTATAAGGTAGAATT
ACCGAAATACCCCCTTAGGATAGATTACCGAAATACCCCTC
Found at i:87043189 original size:27 final size:27
Alignment explanation
Indices: 87042911--87043179 Score: 310
Period size: 27 Copynumber: 9.9 Consensus size: 27
87042901 CTCATATTTG
*
87042911 TAGGCTAGAATTACCGAAATACCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTA
*
87042938 TAGGGTAGAATTACCGAAATACCCTTA
1 TAGGGTAGAATTACCGAAATACCCCTA
* *
87042965 TAAGGTAGAATTACCGAAATATCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTA
*
87042992 TAGGATAGAATTACCGAAATACCCCTGTA
1 TAGGGTAGAATTACCGAAATACCCC--TA
* * *
87043021 GGAGGGTAGAATTACAGAAATA-CCCTGT
1 -TAGGGTAGAATTACCGAAATACCCCT-A
* * *
87043049 TTGGATAGAATTACCGAAATACCCCTC
1 TAGGGTAGAATTACCGAAATACCCCTA
87043076 TAGGGTAGAATTACCGAAATACCCCCT-
1 TAGGGTAGAATTACCGAAATA-CCCCTA
* * *
87043103 TTGGGTAG-ATTACTGAAATACCCCTC
1 TAGGGTAGAATTACCGAAATACCCCTA
* *
87043129 TAGGGTAGAATTACTGAAATACCCCTC
1 TAGGGTAGAATTACCGAAATACCCCTA
* *
87043156 TAGGGTAGAGTTACCGAGATACCC
1 TAGGGTAGAATTACCGAAATACCC
87043180 TTGTGGGGTA
Statistics
Matches: 209, Mismatches: 25, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.02
26 18 0.09
27 154 0.74
28 9 0.04
29 5 0.02
30 18 0.09
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCCTA
Found at i:87043469 original size:28 final size:27
Alignment explanation
Indices: 87043427--87043532 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
87043417 GAAGCGTTCC
87043427 GGTGGCTATGCCACAAATATCTGTTTCT
1 GGTGGCTATGCCAC-AATATCTGTTTCT
*
87043455 GTTGGCTATGCCACAAATATCTG-TTCT
1 GGTGGCTATGCCAC-AATATCTGTTTCT
* * *
87043482 GGTGGCTCTGCCACAATATTTGTATCT
1 GGTGGCTATGCCACAATATCTGTTTCT
* * *
87043509 GGTGACTCTGTCACAATATCTGTT
1 GGTGGCTATGCCACAATATCTGTT
87043533 GGTCGATCGA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.10
27 39 0.57
28 22 0.32
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTGGCTATGCCACAATATCTGTTTCT
Found at i:87043667 original size:78 final size:78
Alignment explanation
Indices: 87043538--87043703 Score: 269
Period size: 78 Copynumber: 2.1 Consensus size: 78
87043528 CTGTTGGTCG
* *
87043538 ATCGATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTGCCATTATTGTGGGCTTCGTGCTGA
1 ATCGATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTACCATTATTGTGGGCTTCGTGCCGA
87043603 TTATAAACCCATT
66 TTATAAACCCATT
* *
87043616 ATCGATGGCTGAGTGTCGGTCATGTTACCGAAGGCTGTGTACCATTATTGTGGGCTTCGTGCCGA
1 ATCGATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTACCATTATTGTGGGCTTCGTGCCGA
* **
87043681 TTATAGACCTGTT
66 TTATAAACCCATT
87043694 ATCGATGGCT
1 ATCGATGGCT
87043704 TTGTGCCACG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (78 bp):
ATCGATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTACCATTATTGTGGGCTTCGTGCCGA
TTATAAACCCATT
Found at i:87043786 original size:27 final size:27
Alignment explanation
Indices: 87043732--87043805 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
87043722 TAAGTGGCTT
* * *
87043732 TGCCACATTATCTG-ATTCTAGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGACTC
87043759 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
*
87043786 TGTCACAATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
87043806 CAGTCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:87043932 original size:6 final size:6
Alignment explanation
Indices: 87043923--87044026 Score: 59
Period size: 6 Copynumber: 16.8 Consensus size: 6
87043913 TTGTATTCAC
* * *** *
87043923 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCCG ATTCTG CCACGTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTC-TG
* * * *
87043973 ATTCTG ATTCTG ATTCT- ATCACCGG ATTCTG ATTCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
87044022 ATTCT
1 ATTCT
87044027 AGCTCTGATA
Statistics
Matches: 71, Mismatches: 20, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
5 4 0.06
6 58 0.82
7 6 0.08
8 3 0.04
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.44
Consensus pattern (6 bp):
ATTCTG
Found at i:87043954 original size:25 final size:25
Alignment explanation
Indices: 87043923--87044014 Score: 112
Period size: 25 Copynumber: 3.7 Consensus size: 25
87043913 TTGTATTCAC
*
87043923 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
* * * * *
87043948 ATACTGATTCCGATTCTGCCACGTA
1 ATTCTGATTCTGATTCTGTCACCTG
* *
87043973 ATTCTGATTCTGATTCTATCACCGG
1 ATTCTGATTCTGATTCTGTCACCTG
87043998 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
87044015 CATTTTGATT
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:87045707 original size:16 final size:15
Alignment explanation
Indices: 87045680--87045712 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
87045670 TTTGTAATAA
87045680 AATATATAAATAAAT
1 AATATATAAATAAAT
87045695 AATATAGTAAATAAAT
1 AATATA-TAAATAAAT
87045711 AA
1 AA
87045713 GCAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AATATATAAATAAAT
Found at i:87050798 original size:41 final size:42
Alignment explanation
Indices: 87050698--87050835 Score: 131
Period size: 42 Copynumber: 3.3 Consensus size: 42
87050688 TGAGTTTACA
* * * * *
87050698 TGTAAGACCATATCTGAGATATGGCATC-ATTATTAGATTTCG
1 TGTAAGACCATAGCTGGGACATGGCATCGA-TATGAGATATCG
87050740 TGTAAGACCAT-GTCTGGGACATGGCATCGATATGAGA-ATCG
1 TGTAAGACCATAG-CTGGGACATGGCATCGATATGAGATATCG
* ** *
87050781 TGTAAGACCATAGCTGGG-CTATAGGCATCGATATGTGATCCCA
1 TGTAAGACCATAGCTGGGAC-AT-GGCATCGATATGAGATATCG
87050824 TGTAAGACCATA
1 TGTAAGACCATA
87050836 TTTAGGTATG
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
40 1 0.01
41 21 0.26
42 45 0.56
43 14 0.17
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGACATGGCATCGATATGAGATATCG
Found at i:87054227 original size:15 final size:15
Alignment explanation
Indices: 87054207--87054237 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
87054197 GAAGGATGAA
87054207 GGATAATGGATAAAG
1 GGATAATGGATAAAG
87054222 GGATAATGGATAAAG
1 GGATAATGGATAAAG
87054237 G
1 G
87054238 AATGAGGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.19
Consensus pattern (15 bp):
GGATAATGGATAAAG
Found at i:87061197 original size:41 final size:42
Alignment explanation
Indices: 87061120--87061198 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
87061110 GGGGTTAAAC
* *
87061120 TGAAGCTCAAAAGAGATGAAATAAAACCCAGAAGGGTTGTAT
1 TGAAGCTCAAAAGAGATGAAAAAAAACCCACAAGGGTTGTAT
* *
87061162 TGAAGCTC-AAAGAGCT-AAACAAAAACCCACTAGGGTT
1 TGAAGCTCAAAAGAGATGAAA-AAAAACCCACAAGGGTT
87061199 AAACAGAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 3 0.09
41 21 0.66
42 8 0.25
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (42 bp):
TGAAGCTCAAAAGAGATGAAAAAAAACCCACAAGGGTTGTAT
Found at i:87063133 original size:35 final size:35
Alignment explanation
Indices: 87063070--87063137 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
87063060 CATCTCCGGA
* *
87063070 GCTTGGTAAATATGGAAAGTAGTCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGTAGTATTCAAAGATAT
*
87063105 GCTTGGCAAATATGGAAGGT-GATATTCAAAGAT
1 GCTTGGCAAATATGGAAAGTAG-TATTCAAAGAT
87063138 TTGTGATCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.03
35 28 0.97
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGTAGTATTCAAAGATAT
Found at i:87074230 original size:17 final size:17
Alignment explanation
Indices: 87074199--87074242 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
87074189 GAGCATTGGG
*
87074199 GCAAAAG-TGAAAATAT
1 GCAAAAGTTTAAAATAT
87074215 GCAAAAGTTTAAAATAT
1 GCAAAAGTTTAAAATAT
87074232 GCAAAAGTTTA
1 GCAAAAGTTTA
87074243 GGGGTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.52, C:0.07, G:0.16, T:0.25
Consensus pattern (17 bp):
GCAAAAGTTTAAAATAT
Found at i:87079381 original size:17 final size:17
Alignment explanation
Indices: 87079335--87079370 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
87079325 TAGAATTGGG
* *
87079335 TTAAAAATTTTATTTAA
1 TTAAAAAATTAATTTAA
87079352 TTAAAAAATTAATTTAA
1 TTAAAAAATTAATTTAA
87079369 TT
1 TT
87079371 TAATAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAAATTAATTTAA
Found at i:87084772 original size:40 final size:40
Alignment explanation
Indices: 87084689--87084991 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
87084679 TTGAATGCTG
* * * * * *
87084689 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
87084729 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
87084769 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
87084809 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
87084849 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
87084889 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
87084929 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
87084968 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
87084992 TGAACGAGGA
Statistics
Matches: 239, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
39 34 0.14
40 197 0.82
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:87101446 original size:12 final size:12
Alignment explanation
Indices: 87101424--87101459 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
87101414 TAGGATATGC
*
87101424 AATGAATGAATG
1 AATGCATGAATG
*
87101436 GATGCATGAATG
1 AATGCATGAATG
87101448 AATGCATGAATG
1 AATGCATGAATG
87101460 TCAAATGAAT
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:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:87101446 original size:16 final size:17
Alignment explanation
Indices: 87101420--87101451 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
87101410 AGTATAGGAT
87101420 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
87101437 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
87101452 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:87103046 original size:22 final size:23
Alignment explanation
Indices: 87103021--87103073 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
87103011 TAATGATGTG
87103021 AATAATAAAATAT-ATAAATA-TA
1 AATAATAAAATATCA-AAATATTA
*
87103043 AATATTAAAATATCAAAATATTA
1 AATAATAAAATATCAAAATATTA
87103066 AATAATAA
1 AATAATAA
87103074 TAATCAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAATAAAATATCAAAATATTA
Found at i:87103313 original size:29 final size:29
Alignment explanation
Indices: 87103273--87103339 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
87103263 TATAGTTAAG
*
87103273 ATATATACATAAGATAACATGTAAA-ATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* *
87103302 ATATATAAATAATATAATATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
87103331 ATACATAAA
1 ATATATAAA
87103340 ATAGTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:87103330 original size:25 final size:25
Alignment explanation
Indices: 87103214--87103433 Score: 129
Period size: 25 Copynumber: 9.0 Consensus size: 25
87103204 TAAATACGTG
* *
87103214 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
87103239 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
87103264 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
87103286 ATAACATGTAAAATATATATATAAATAAT
1 ATAATAT-T--AA-AGATATATACATAAT
*
87103315 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * * *
87103340 ATAGTATAAAATATATATACGTAAT
1 ATAATATTAAAGATATATACATAAT
* *
87103365 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
87103388 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
87103410 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
87103433 A
1 A
87103434 ACAAAAAGGA
Statistics
Matches: 152, Mismatches: 30, Indels: 28
0.72 0.14 0.13
Matches are distributed among these distances:
21 4 0.03
22 27 0.18
23 28 0.18
24 8 0.05
25 63 0.41
26 2 0.01
28 2 0.01
29 18 0.12
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:87104020 original size:30 final size:29
Alignment explanation
Indices: 87103913--87104052 Score: 214
Period size: 28 Copynumber: 4.8 Consensus size: 29
87103903 TAGGTACAAG
* *
87103913 TGGTGGTGGAGAAGATGTGGCTAGTGGA-T
1 TGGTGGTGGAAAAG-GGTGGCTAGTGGAGT
87103942 TGGTGGTGGAAAA-GGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGGTGGCTAGTGGAGT
87103970 TGGTGGTGGAAAA-GGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGGTGGCTAGTGGAGT
87103998 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGG-GTGGCTAGTGGAGT
87104028 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGG-GTGGCTAGT
87104053 TGAGAAAAGT
Statistics
Matches: 105, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
27 12 0.11
28 42 0.40
29 13 0.12
30 38 0.36
ACGTcount: A:0.21, C:0.04, G:0.49, T:0.26
Consensus pattern (29 bp):
TGGTGGTGGAAAAGGGTGGCTAGTGGAGT
Found at i:87104031 original size:58 final size:55
Alignment explanation
Indices: 87103913--87104052 Score: 208
Period size: 58 Copynumber: 2.4 Consensus size: 55
87103903 TAGGTACAAG
*
87103913 TGGTGGTGGAGAAGATGTGGCTAGTGGATTGGTGGTGGAAAAGGTGGCTAGTGGAGT
1 TGGTGGTGGA-AA-AGGTGGCTAGTGGATTGGTGGTGGAAAAGGTGGCTAGTGGAGT
87103970 TGGTGGTGGAAAAGGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGGCTAGTGGA-TTGGTGGTGGAAAA-G-GTGGCTAGTGGAGT
87104028 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAA-G-GTGGCTAGT
87104053 TGAGAAAAGT
Statistics
Matches: 77, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
55 13 0.17
56 16 0.21
57 11 0.14
58 27 0.35
59 1 0.01
60 9 0.12
ACGTcount: A:0.21, C:0.04, G:0.49, T:0.26
Consensus pattern (55 bp):
TGGTGGTGGAAAAGGTGGCTAGTGGATTGGTGGTGGAAAAGGTGGCTAGTGGAGT
Found at i:87104837 original size:26 final size:26
Alignment explanation
Indices: 87104786--87104840 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
87104776 GTTTAAGAAC
87104786 ACCCAAAAACCAACGAACAAATCAAAA
1 ACCCAAAAACCAAC-AACAAATCAAAA
87104813 ACCCAAAAA-CAA-AACCAAATCCAAAA
1 ACCCAAAAACCAACAA-CAAAT-CAAAA
87104839 AC
1 AC
87104841 TTATTCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 2 0.08
25 5 0.19
26 10 0.38
27 9 0.35
ACGTcount: A:0.64, C:0.31, G:0.02, T:0.04
Consensus pattern (26 bp):
ACCCAAAAACCAACAACAAATCAAAA
Found at i:87110281 original size:24 final size:24
Alignment explanation
Indices: 87110254--87110306 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
87110244 TATGTGTATT
* *
87110254 CAGATTTAGATACAAATGTAGACA
1 CAGATTCAGATACAAATATAGACA
* *
87110278 CAGATTCAGATACAGATATAGTCA
1 CAGATTCAGATACAAATATAGACA
87110302 CAGAT
1 CAGAT
87110307 CCTACCCCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (24 bp):
CAGATTCAGATACAAATATAGACA
Found at i:87111589 original size:43 final size:43
Alignment explanation
Indices: 87111541--87111710 Score: 252
Period size: 43 Copynumber: 4.0 Consensus size: 43
87111531 GCGAAAGAAG
*
87111541 CCGCTAAAGAACATGACCTTTAGTGGCACTTTTCCCACAAACA
1 CCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCACAAACA
*
87111584 CCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCACAAACG
1 CCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCACAAACA
** *
87111627 CCGCTAAAGAACATGACCTTTA-TCGGCGCTTTTTTCACAAACT
1 CCGCTAAAGAACATGACCTTTAGT-GGCGCTTTTCCCACAAACA
** *
87111670 CCGCTAAAGAACATGACCTTTAGCAGTGCTTTTCCCACAAA
1 CCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCACAAA
87111711 TGCCACGAAC
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 114 0.99
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.25
Consensus pattern (43 bp):
CCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCACAAACA
Found at i:87114421 original size:15 final size:15
Alignment explanation
Indices: 87114401--87114430 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
87114391 AGGACGATTG
87114401 AAAATTTCTAAAATT
1 AAAATTTCTAAAATT
87114416 AAAATTTCTAAAATT
1 AAAATTTCTAAAATT
87114431 TTAAGACGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATTTCTAAAATT
Found at i:87114708 original size:20 final size:18
Alignment explanation
Indices: 87114663--87114700 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
87114653 GAAAGGCTAA
*
87114663 GAAAGAAAAGGGAATTGG
1 GAAAGAAAAGGGAATGGG
87114681 GAAAGAAAAGGGAATCGGG
1 GAAAGAAAAGGGAAT-GGG
87114700 G
1 G
87114701 GAGAGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.47, C:0.03, G:0.42, T:0.08
Consensus pattern (18 bp):
GAAAGAAAAGGGAATGGG
Found at i:87114756 original size:18 final size:18
Alignment explanation
Indices: 87114733--87114767 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
87114723 GAGAATGGCT
87114733 GAGAAAGAAAAAGGAATC
1 GAGAAAGAAAAAGGAATC
*
87114751 GAGAAAGAAAAGGGAAT
1 GAGAAAGAAAAAGGAAT
87114768 TGGGGGAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.31, T:0.06
Consensus pattern (18 bp):
GAGAAAGAAAAAGGAATC
Found at i:87114757 original size:72 final size:72
Alignment explanation
Indices: 87114634--87114782 Score: 226
Period size: 72 Copynumber: 2.1 Consensus size: 72
87114624 TTCGAGTATA
* * * *
87114634 AAATAGAAGAACAGGTTGAGAAAGGCTAAGAAAGAAAAGGGAATTGGGAAAGAAAAGGGAATCGG
1 AAATAGAAGAACAGGCTGAGAAAGGCTAAGAAAGAAAAAGGAATCGAGAAAGAAAAGGGAATCGG
87114699 GGGAGAG
66 GGGAGAG
* * * *
87114706 AAATAGAAGTACAGGCTGAGAATGGCTGAGAAAGAAAAAGGAATCGAGAAAGAAAAGGGAATTGG
1 AAATAGAAGAACAGGCTGAGAAAGGCTAAGAAAGAAAAAGGAATCGAGAAAGAAAAGGGAATCGG
87114771 GGGAGAG
66 GGGAGAG
87114778 AAATA
1 AAATA
87114783 AACGGCACTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.49, C:0.05, G:0.36, T:0.11
Consensus pattern (72 bp):
AAATAGAAGAACAGGCTGAGAAAGGCTAAGAAAGAAAAAGGAATCGAGAAAGAAAAGGGAATCGG
GGGAGAG
Found at i:87114921 original size:39 final size:39
Alignment explanation
Indices: 87114870--87114945 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
87114860 ATTTTTTATG
* *
87114870 GCGTTTTCATCATAAACGCCACTATTGCTTGCCTTTTAC
1 GCGTTTTCATCATAAACGCCACTAATGCTTGACTTTTAC
* * *
87114909 GCGTTTTTATCATAAATGCCGCTAATGCTTGACTTTT
1 GCGTTTTCATCATAAACGCCACTAATGCTTGACTTTT
87114946 TTACAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (39 bp):
GCGTTTTCATCATAAACGCCACTAATGCTTGACTTTTAC
Found at i:87115348 original size:17 final size:18
Alignment explanation
Indices: 87115315--87115348 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
87115305 TATCTCTTAA
87115315 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
87115333 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
87115349 AAAATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:87115822 original size:21 final size:20
Alignment explanation
Indices: 87115767--87115855 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 20
87115757 AAAACTTTAA
* * *
87115767 AACCATAAACCCGAACCACT
1 AACCCTAAACCCTAAACACT
* *
87115787 AAATCCTAAATCCTAAACACT
1 -AACCCTAAACCCTAAACACT
*
87115808 AACCCTTAACCCCTAAAC-CTT
1 AACCC-TAAACCCTAAACAC-T
*
87115829 AAACCCTAAACCCTAAATCACA
1 -AACCCTAAACCCTAAA-CACT
87115851 AACCC
1 AACCC
87115856 CGCTAATGCT
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
20 5 0.09
21 41 0.77
22 6 0.11
23 1 0.02
ACGTcount: A:0.44, C:0.38, G:0.01, T:0.17
Consensus pattern (20 bp):
AACCCTAAACCCTAAACACT
Found at i:87115843 original size:7 final size:7
Alignment explanation
Indices: 87115766--87115845 Score: 65
Period size: 7 Copynumber: 11.4 Consensus size: 7
87115756 TAAAACTTTA
*
87115766 AAACCAT
1 AAACCCT
87115773 AAACCC-
1 AAACCCT
*
87115779 GAACCACT
1 AAACC-CT
*
87115787 AAATCCT
1 AAACCCT
*
87115794 AAATCCT
1 AAACCCT
*
87115801 AAACACT
1 AAACCCT
87115808 -AACCCTT
1 AAACCC-T
*
87115815 AACCCCT
1 AAACCCT
*
87115822 AAACCTT
1 AAACCCT
87115829 AAACCCT
1 AAACCCT
87115836 AAACCCT
1 AAACCCT
87115843 AAA
1 AAA
87115846 TCACAAACCC
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
6 8 0.14
7 43 0.74
8 7 0.12
ACGTcount: A:0.45, C:0.36, G:0.01, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:87134750 original size:6 final size:6
Alignment explanation
Indices: 87134741--87134782 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
87134731 GTGAAAAAAG
87134741 AAAACAA AAAACAAA AAAACA AAAAC- AAAACA AAAACA AAAA
1 AAAAC-A AAAAC--A AAAACA AAAACA AAAACA AAAACA AAAA
87134783 AGATCATGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.15
6 16 0.48
7 5 0.15
8 7 0.21
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:87134756 original size:19 final size:19
Alignment explanation
Indices: 87134734--87134776 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
87134724 AAGTACAGTG
* *
87134734 AAAAAAGAAAACAAAAAACA
1 AAAAAACAAAA-ACAAAACA
87134754 AAAAAACAAAAACAAAACA
1 AAAAAACAAAAACAAAACA
87134773 AAAA
1 AAAA
87134777 CAAAAAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAAAACAAAAACAAAACA
Found at i:87134764 original size:26 final size:25
Alignment explanation
Indices: 87134735--87134783 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
87134725 AGTACAGTGA
*
87134735 AAAAAGAAAACAAAAAACAAAAAAAC
1 AAAAACAAAAC-AAAAACAAAAAAAC
87134761 AAAAACAAAACAAAAACAAAAAA
1 AAAAACAAAACAAAAACAAAAAA
87134784 GATCATGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (25 bp):
AAAAACAAAACAAAAACAAAAAAAC
Found at i:87134772 original size:11 final size:11
Alignment explanation
Indices: 87134741--87134781 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
87134731 GTGAAAAAAG
87134741 AAAACAAAA-A
1 AAAACAAAACA
87134751 ACAAA-AAAACA
1 A-AAACAAAACA
87134762 AAAACAAAACA
1 AAAACAAAACA
87134773 AAAACAAAA
1 AAAACAAAA
87134782 AAGATCATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAACA
Found at i:87137805 original size:17 final size:18
Alignment explanation
Indices: 87137769--87137806 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
87137759 ATGTGGCCTA
* *
87137769 CCCGTGTGAGCTCGCACG
1 CCCGTGTGAGCCCACACG
87137787 CCCGTGTG-GCCCACACG
1 CCCGTGTGAGCCCACACG
87137804 CCC
1 CCC
87137807 AGGTTGGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.11, C:0.47, G:0.29, T:0.13
Consensus pattern (18 bp):
CCCGTGTGAGCCCACACG
Found at i:87145485 original size:25 final size:25
Alignment explanation
Indices: 87145456--87145504 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
87145446 TCATAAAAAC
*
87145456 AAAGTTAAATAAATTAGGGCGTTAG
1 AAAGTTAAATAAATCAGGGCGTTAG
87145481 AAAGTTAAATAAATCAGGGCGTTA
1 AAAGTTAAATAAATCAGGGCGTTA
87145505 CAAAAACTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.45, C:0.06, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAGTTAAATAAATCAGGGCGTTAG
Found at i:87146616 original size:12 final size:12
Alignment explanation
Indices: 87146599--87146628 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
87146589 CCTGTAAAAT
87146599 AGTAAAAATAAC
1 AGTAAAAATAAC
87146611 AGTAAAAATAAC
1 AGTAAAAATAAC
87146623 AGTAAA
1 AGTAAA
87146629 GGGGAAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (12 bp):
AGTAAAAATAAC
Found at i:87147597 original size:15 final size:15
Alignment explanation
Indices: 87147577--87147606 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87147567 ATAATCCTCA
*
87147577 TAATTATCTTAATAT
1 TAATTATCCTAATAT
87147592 TAATTATCCTAATAT
1 TAATTATCCTAATAT
87147607 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:87148187 original size:11 final size:10
Alignment explanation
Indices: 87148171--87148217 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
87148161 ATTAATATGA
87148171 CTTTTTCTTTT
1 CTTTTT-TTTT
87148182 C--TTTTTTT
1 CTTTTTTTTT
87148190 CTTTTTTGTTT
1 CTTTTTT-TTT
87148201 CTCTTTTTTTT
1 CT-TTTTTTTT
87148212 CTTTTT
1 CTTTTT
87148218 GTTATAGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 5 0.16
9 3 0.09
10 8 0.25
11 11 0.34
12 5 0.16
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:87148190 original size:13 final size:12
Alignment explanation
Indices: 87148172--87148211 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
87148162 TTAATATGAC
87148172 TTTTTCTTTTCTT
1 TTTTTCTTTT-TT
87148185 TTTTTCTTTTTT
1 TTTTTCTTTTTT
*
87148197 GTTTCTCTTTTTT
1 -TTTTTCTTTTTT
87148210 TT
1 TT
87148212 CTTTTTGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:87148216 original size:21 final size:19
Alignment explanation
Indices: 87148171--87148220 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
87148161 ATTAATATGA
*
87148171 CTTTTTCTTTTCTTTTTTT
1 CTTTTTGTTTTCTTTTTTT
87148190 CTTTTTTGTTTCTCTTTTTTTT
1 C-TTTTTGTTT-TC-TTTTTTT
87148212 CTTTTTGTT
1 CTTTTTGTT
87148221 ATAGAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 8 0.30
21 10 0.37
22 8 0.30
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (19 bp):
CTTTTTGTTTTCTTTTTTT
Found at i:87148370 original size:98 final size:98
Alignment explanation
Indices: 87148254--87148431 Score: 311
Period size: 98 Copynumber: 1.8 Consensus size: 98
87148244 TATTTTTACT
* * *
87148254 TAGGAATATACTGTACCTTTTGACGCGAAGAGAGATGACAACCCAAGCACCTCACCCCGGTTACT
1 TAGGAACATACTGAACCTTTTGACGCGAAGAGAGATAACAACCCAAGCACCTCACCCCGGTTACT
*
87148319 CAGCCCAGCACATTCCTAATTTTTTTTTATTCC
66 CAGCCCAACACATTCCTAATTTTTTTTTATTCC
*
87148352 TAGGAACATATTGAACCTTTTGACGCGAAGAGAGATAACAACCCAAGCACCTCACCCCGGTTACT
1 TAGGAACATACTGAACCTTTTGACGCGAAGAGAGATAACAACCCAAGCACCTCACCCCGGTTACT
87148417 CAGCCCAACACATTC
66 CAGCCCAACACATTC
87148432 TTAGAAATTA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 75 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (98 bp):
TAGGAACATACTGAACCTTTTGACGCGAAGAGAGATAACAACCCAAGCACCTCACCCCGGTTACT
CAGCCCAACACATTCCTAATTTTTTTTTATTCC
Found at i:87152897 original size:20 final size:20
Alignment explanation
Indices: 87152859--87152898 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
87152849 TAAATTCTAA
* **
87152859 GAAGATAAATACATTTAATT
1 GAAGATAAATAAAGATAATT
87152879 GAAGATAAATAAAGATAATT
1 GAAGATAAATAAAGATAATT
87152899 AAAATAAAAT
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:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (20 bp):
GAAGATAAATAAAGATAATT
Found at i:87152950 original size:15 final size:15
Alignment explanation
Indices: 87152930--87152959 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87152920 ATAATCCTCA
*
87152930 TAATTATCTTAATAT
1 TAATTATCCTAATAT
87152945 TAATTATCCTAATAT
1 TAATTATCCTAATAT
87152960 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:87154419 original size:15 final size:14
Alignment explanation
Indices: 87154399--87154451 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
87154389 TAATATCTGT
87154399 AAATAATAAATAATA
1 AAATAA-AAATAATA
* *
87154414 AAATAATAAGAA-A
1 AAATAAAAATAATA
*
87154427 AAATAAAATAAAATA
1 AAATAAAA-ATAATA
87154442 AAATAAAAAT
1 AAATAAAAAT
87154452 TGGGTTGCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 8 0.26
14 8 0.26
15 15 0.48
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AAATAAAAATAATA
Found at i:87154431 original size:18 final size:18
Alignment explanation
Indices: 87154400--87154437 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
87154390 AATATCTGTA
* *
87154400 AATAATAAATAATAAAAT
1 AATAAGAAAAAATAAAAT
87154418 AATAAGAAAAAATAAAAT
1 AATAAGAAAAAATAAAAT
87154436 AA
1 AA
87154438 AATAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAAGAAAAAATAAAAT
Found at i:87154434 original size:5 final size:5
Alignment explanation
Indices: 87154410--87154449 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
87154400 AATAATAAAT
87154410 AATAA AAT-- AATAA GAA-AA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AATAA AA
87154450 ATTGGGTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
3 3 0.10
4 2 0.06
5 24 0.77
6 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:87158145 original size:20 final size:20
Alignment explanation
Indices: 87158107--87158146 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
87158097 TAAATTCTAA
* **
87158107 GAAGATAAATACATTTAATT
1 GAAGATAAATAAAGATAATT
87158127 GAAGATAAATAAAGATAATT
1 GAAGATAAATAAAGATAATT
87158147 AAAATAAAAT
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:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (20 bp):
GAAGATAAATAAAGATAATT
Found at i:87158965 original size:99 final size:99
Alignment explanation
Indices: 87158848--87159026 Score: 286
Period size: 99 Copynumber: 1.8 Consensus size: 99
87158838 TATTTTTACT
* * * *
87158848 TAGGAATATATTGTACCTTTTAACGCGAAGAGAGATGACAACCCAAGCACCTCACCCTGGTTACT
1 TAGGAACATATCGAACCTTTTAACGCGAAGAAAGATGACAACCCAAGCACCTCACCCTGGTTACT
*
87158913 CAGCCCAGCACATTCCTAATTTTTTTATTATTCC
66 CAGCCCAACACATTCCTAATTTTTTTATTATTCC
* * *
87158947 TAGGAACATATCGAACCTTTTGATGCGAAGAAAGATGACAACCCAAGCACTTCACCCTGGTTACT
1 TAGGAACATATCGAACCTTTTAACGCGAAGAAAGATGACAACCCAAGCACCTCACCCTGGTTACT
87159012 CAGCCCAACACATTC
66 CAGCCCAACACATTC
87159027 TTAGAAATTA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 72 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (99 bp):
TAGGAACATATCGAACCTTTTAACGCGAAGAAAGATGACAACCCAAGCACCTCACCCTGGTTACT
CAGCCCAACACATTCCTAATTTTTTTATTATTCC
Found at i:87167563 original size:12 final size:12
Alignment explanation
Indices: 87167546--87167591 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
87167536 GTTGAAAAAG
*
87167546 AAGGTGTAATTT
1 AAGGTGCAATTT
87167558 AAGGTGCAA--T
1 AAGGTGCAATTT
* *
87167568 AAGGTGTAGTTT
1 AAGGTGCAATTT
87167580 AAGGTGCAATTT
1 AAGGTGCAATTT
87167592 GTCAATTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
10 8 0.30
12 19 0.70
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (12 bp):
AAGGTGCAATTT
Found at i:87167574 original size:22 final size:22
Alignment explanation
Indices: 87167546--87167589 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
87167536 GTTGAAAAAG
87167546 AAGGTGTAATTTAAGGTGCAAT
1 AAGGTGTAATTTAAGGTGCAAT
*
87167568 AAGGTGTAGTTTAAGGTGCAAT
1 AAGGTGTAATTTAAGGTGCAAT
87167590 TTGTCAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.32
Consensus pattern (22 bp):
AAGGTGTAATTTAAGGTGCAAT
Found at i:87170628 original size:11 final size:11
Alignment explanation
Indices: 87170612--87170645 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
87170602 CGCATCTAGT
87170612 TTTGTTCTTGA
1 TTTGTTCTTGA
*
87170623 TTTGTTCTTAA
1 TTTGTTCTTGA
*
87170634 TTTATTCTTGA
1 TTTGTTCTTGA
87170645 T
1 T
87170646 GATTTGACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.12, T:0.65
Consensus pattern (11 bp):
TTTGTTCTTGA
Found at i:87178178 original size:26 final size:27
Alignment explanation
Indices: 87178107--87178184 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
87178097 TTTACCCTAC
* * *
87178107 AGGAGTATTTCGATAATCTCAGAAGTCG
1 AGGA-TATTTCGATAATTTCACAAATCG
* *
87178135 AGGGTATTTC-AGTGATTTCACAAATCG
1 AGGATATTTCGA-TAATTTCACAAATCG
*
87178162 A-GATATTTCGATAATTTTACAAA
1 AGGATATTTCGATAATTTCACAAA
87178185 CCGAAGGTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 18 0.45
27 19 0.47
28 3 0.08
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (27 bp):
AGGATATTTCGATAATTTCACAAATCG
Found at i:87183677 original size:51 final size:51
Alignment explanation
Indices: 87183601--87183703 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
87183591 GTCAATTAAG
*
87183601 AAGAAAAATAATTTTTTTATCAGTATCTTTTAAGGTATAATGATAAATTTA
1 AAGAAAAATAAATTTTTTATCAGTATCTTTTAAGGTATAATGATAAATTTA
87183652 AAGAAAAATAAATTTTTTATCAGTATCTTTTAAGGTATAATGATAAATTTA
1 AAGAAAAATAAATTTTTTATCAGTATCTTTTAAGGTATAATGATAAATTTA
87183703 A
1 A
87183704 CTCTTAACAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.42
Consensus pattern (51 bp):
AAGAAAAATAAATTTTTTATCAGTATCTTTTAAGGTATAATGATAAATTTA
Found at i:87184537 original size:24 final size:24
Alignment explanation
Indices: 87184525--87184577 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
87184515 TATGCGTATT
87184525 CAGATTCAGATACAAATGCAAACA
1 CAGATTCAGATACAAATGCAAACA
* *
87184549 CAGATTCAGATACAGATGCAATCA
1 CAGATTCAGATACAAATGCAAACA
87184573 CAGAT
1 CAGAT
87184578 CCTACCCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (24 bp):
CAGATTCAGATACAAATGCAAACA
Found at i:87193058 original size:49 final size:50
Alignment explanation
Indices: 87192992--87193137 Score: 177
Period size: 51 Copynumber: 2.9 Consensus size: 50
87192982 TAGCCAAAGC
* * * *
87192992 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATT
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGT
* * * * * * *
87193042 TTTC-GGTACACGTAGTAGCTTGCACTTAGTACTACATACGTGATCGAAGT
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAAGT
87193092 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
87193138 TCACAATAGA
Statistics
Matches: 77, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
49 32 0.42
50 11 0.14
51 34 0.44
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (50 bp):
TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGT
Found at i:87195273 original size:15 final size:14
Alignment explanation
Indices: 87195217--87195286 Score: 70
Period size: 15 Copynumber: 4.8 Consensus size: 14
87195207 TAAAGATAAC
*
87195217 AAGAAAACCAAATA
1 AAGAAATCCAAATA
87195231 AAGAAATCCAAGATA
1 AAGAAATCCAA-ATA
*
87195246 GAA-AAACCCAGAATA
1 -AAGAAATCCA-AATA
87195261 AAGAAATCCAGAATA
1 AAGAAATCCA-AATA
*
87195276 AAGAAACCCAA
1 AAGAAATCCAA
87195287 GATGCGATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
14 13 0.27
15 32 0.67
16 3 0.06
ACGTcount: A:0.63, C:0.17, G:0.11, T:0.09
Consensus pattern (14 bp):
AAGAAATCCAAATA
Found at i:87195283 original size:30 final size:30
Alignment explanation
Indices: 87195217--87195286 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
87195207 TAAAGATAAC
*
87195217 AAGAAAACCAAATAAAGAAATCCAAGATAG
1 AAGAAACCCAAATAAAGAAATCCAAGATAG
87195247 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCA-AATAAAGAAATCCAAG-ATAG
87195276 AAGAAACCCAA
1 AAGAAACCCAA
87195287 GATGCGATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 11 0.31
30 25 0.69
ACGTcount: A:0.63, C:0.17, G:0.11, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAAATAAAGAAATCCAAGATAG
Found at i:87198349 original size:49 final size:49
Alignment explanation
Indices: 87198288--87198522 Score: 280
Period size: 51 Copynumber: 4.7 Consensus size: 49
87198278 ATCTGGTATG
*
87198288 CATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTC-GGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTA-TCGGGTACA
* * *
87198337 CGTAGTAGCCTGCACTTAGTACTACATACATGATCGA--AGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTAC--ACATG--CGACCAATTATCGGGTACA
87198388 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC-GGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTA-TCGGGTACA
* * * * * *
87198437 CGTAGTAGCCTGCACTTAGTACTACATACGTGATCGAAGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCGGGTACA
87198488 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
87198523 TCACAATAGA
Statistics
Matches: 157, Mismatches: 18, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
47 3 0.02
49 66 0.42
50 10 0.06
51 75 0.48
53 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACA
Found at i:87198418 original size:100 final size:100
Alignment explanation
Indices: 87198277--87198522 Score: 456
Period size: 100 Copynumber: 2.5 Consensus size: 100
87198267 TAGCCAAAGC
* * *
87198277 TATCTGGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAG
87198342 TAGCCTGCACTTAGTACTACATACATGATCGAAGT
66 TAGCCTGCACTTAGTACTACATACATGATCGAAGT
87198377 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAG
*
87198442 TAGCCTGCACTTAGTACTACATACGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACATACATGATCGAAGT
87198477 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
87198523 TCACAATAGA
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 142 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAG
TAGCCTGCACTTAGTACTACATACATGATCGAAGT
Found at i:87204941 original size:39 final size:38
Alignment explanation
Indices: 87204898--87204995 Score: 126
Period size: 38 Copynumber: 2.6 Consensus size: 38
87204888 ATATTCACTA
* *
87204898 TTAAGCATATATCACATTACAT-ATATAATTACATAATGT
1 TTAAGCATATATCACAATAC-TCAT-TAATCACATAATGT
*
87204937 TTAAGCACATATCACAATACTCATTAATCACATAATGT
1 TTAAGCATATATCACAATACTCATTAATCACATAATGT
* *
87204975 TCAAGCATATATCGCAATACT
1 TTAAGCATATATCACAATACT
87204996 TATAGATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
38 32 0.62
39 20 0.38
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (38 bp):
TTAAGCATATATCACAATACTCATTAATCACATAATGT
Found at i:87208948 original size:13 final size:13
Alignment explanation
Indices: 87208930--87208954 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87208920 ATTTATGATC
87208930 TCAAGTCCAATTT
1 TCAAGTCCAATTT
87208943 TCAAGTCCAATT
1 TCAAGTCCAATT
87208955 ACCTATTGGG
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:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (13 bp):
TCAAGTCCAATTT
Found at i:87220476 original size:13 final size:12
Alignment explanation
Indices: 87220453--87220493 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
87220443 GTTGAAGACT
*
87220453 TTTTTATTTTTA
1 TTTTTACTTTTA
87220465 TCTTTTACTTTTA
1 T-TTTTACTTTTA
87220478 TTTTTA--TTTA
1 TTTTTACTTTTA
87220488 TTTTTA
1 TTTTTA
87220494 AAGTACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 10 0.37
12 6 0.22
13 11 0.41
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTACTTTTA
Found at i:87220493 original size:6 final size:6
Alignment explanation
Indices: 87220453--87220486 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
87220443 GTTGAAGACT
*
87220453 TTTTTA TTTTTA TCTTTTA CTTTTA TTTTTA TTT
1 TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTT
87220487 ATTTTTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:87225879 original size:21 final size:20
Alignment explanation
Indices: 87225845--87225897 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 20
87225835 TAAGTGATAC
87225845 TTTAA-TTTATTTATGCAAA
1 TTTAATTTTATTTATGCAAA
87225864 TTTAATTTTCATTTATGCAAA
1 TTTAATTTT-ATTTATGCAAA
87225885 TTTAATTTT-TTTA
1 TTTAATTTTATTTA
87225898 ATTTAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.28
20 3 0.09
21 20 0.62
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTAATTTTATTTATGCAAA
Found at i:87225888 original size:35 final size:35
Alignment explanation
Indices: 87225848--87225915 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
87225838 GTGATACTTT
*
87225848 AATTT-ATTTATGCAAATTTAATTTTCATTTATGCA
1 AATTTAATTT-TGCAAATTTAATTTTCAGTTATGCA
***
87225883 AATTTAATTTTTTTAATTTAATTTTCAGTTATG
1 AATTTAATTTTGCAAATTTAATTTTCAGTTATG
87225916 ATGTTTGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 24 0.86
36 4 0.14
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (35 bp):
AATTTAATTTTGCAAATTTAATTTTCAGTTATGCA
Found at i:87226914 original size:7 final size:7
Alignment explanation
Indices: 87226902--87226926 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
87226892 AGTCGTTTCA
87226902 TATTTAG
1 TATTTAG
87226909 TATTTAG
1 TATTTAG
87226916 TATTTAG
1 TATTTAG
87226923 TATT
1 TATT
87226927 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:87228930 original size:127 final size:126
Alignment explanation
Indices: 87228705--87229241 Score: 456
Period size: 126 Copynumber: 4.4 Consensus size: 126
87228695 ATAGCCTCAG
*
87228705 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTTCGAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTTCGAAATTATGCTGA
87228770 CAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCGGAATTA
66 CAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCGGAATTA
* *
87228831 TTTTTTTACGAACTAGTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTTCTGAAATTATGCTG
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTTC-GAAATTATGCTG
* *
87228896 ACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTA--C-GAACTA
65 ACAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCGGAATTA
* * * * * * *** * * **** ** ** ** * *
87228955 ---CTGTAGCAAAC-GCGCGT-CCACGTGGGAG-CTTTTTTCCGAAATTTTGCT-GACAGTGCAT
1 TTTTTCTA-CGAACTAC-TGTAGCAAAAGCGCGTC-CACGTGGGAGCTTTTTTTCGA-AAT-TAT
* * * * * ** * *
87229013 CCTG-C-TTGAAGCGTTTTTG-A-CATTATTTG--------T--TCAGAAACGTCTACTCAGAAT
61 GCTGACAGTGCATCCTACTTGAAGCGTT-TTTGACACTATTTGTTCAGAAACGTCTACTCGGAAT
87229064 TA
125 TA
** * *
87229066 TTTTTCTACGAACTACTGTAGCAAAAATGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTTCGAAATTATGCTGA
* *
87229131 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
66 CAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCGGAATTA
87229192 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTT
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTT
87229242 CTTGAAGCGT
Statistics
Matches: 306, Mismatches: 74, Indels: 62
0.69 0.17 0.14
Matches are distributed among these distances:
108 13 0.04
110 2 0.01
111 5 0.02
113 10 0.03
114 18 0.06
115 11 0.04
116 5 0.02
117 6 0.02
118 5 0.02
119 10 0.03
120 4 0.01
121 21 0.07
122 6 0.02
124 6 0.02
125 1 0.00
126 121 0.40
127 62 0.20
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (126 bp):
TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTTCGAAATTATGCTGA
CAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCGGAATTA
Found at i:87229027 original size:108 final size:109
Alignment explanation
Indices: 87228837--87229056 Score: 388
Period size: 108 Copynumber: 2.0 Consensus size: 109
87228827 ATTATTTTTT
* *
87228837 TACGAACTAGTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTTCTGAAATTATGCTGACAGTG
1 TACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTTCCGAAATTATGCTGACAGTG
87228902 CATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTC
66 CATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTC
* *
87228946 TACGAACTACTGTAGCAAACGCGCGTCCACGTGGGAGC-TTTTTTCCGAAATTTTGCTGACAGTG
1 TACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTTCCGAAATTATGCTGACAGTG
*
87229010 CATCCTGCTTGAAGCGTTTTTGACATTATTTGTTCAGAAACGTC
66 CATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTC
87229054 TAC
1 TAC
87229057 TCAGAATTAT
Statistics
Matches: 106, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
108 70 0.66
109 36 0.34
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (109 bp):
TACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTTCCGAAATTATGCTGACAGTG
CATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTC
Found at i:87229169 original size:126 final size:126
Alignment explanation
Indices: 87228944--87229242 Score: 562
Period size: 126 Copynumber: 2.4 Consensus size: 126
87228934 TTCAGAAACG
*
87228944 TCTACGAACTACTGTAGCAAACGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGACAGT
1 TCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGACAGT
*
87229009 GCATCCTGCTTGAAGCGTTTTTGACATTATTTGTTCAGAAACGTCTACTCAGAATTATTTT
66 GCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTTT
**
87229070 TCTACGAACTACTGTAGCAAAAATGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGACAGT
1 TCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGACAGT
87229135 GCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTTT
66 GCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTTT
87229196 TCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTC
1 TCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTC
87229243 TTGAAGCGTT
Statistics
Matches: 167, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 167 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (126 bp):
TCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGACAGT
GCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTTT
Found at i:87229314 original size:99 final size:99
Alignment explanation
Indices: 87229143--87229341 Score: 380
Period size: 99 Copynumber: 2.0 Consensus size: 99
87229133 GTGCATCCTG
87229143 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTTTTCTACGAACTAC
1 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTTTTCTACGAACTAC
*
87229208 TGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTT
66 TGTAGCAAAAGCACGTCCACGTGGGAGCTTTTTT
*
87229242 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAATGTCTACTCAGAATTATTTTTCTACGAACTAC
1 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTTTTCTACGAACTAC
87229307 TGTAGCAAAAGCACGTCCACGTGGGAGCTTTTTT
66 TGTAGCAAAAGCACGTCCACGTGGGAGCTTTTTT
87229341 C
1 C
87229342 CGAAATTTTG
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (99 bp):
CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTTTTCTACGAACTAC
TGTAGCAAAAGCACGTCCACGTGGGAGCTTTTTT
Found at i:87229467 original size:126 final size:126
Alignment explanation
Indices: 87229242--87229536 Score: 536
Period size: 126 Copynumber: 2.3 Consensus size: 126
87229232 GAGCTTTTTT
*
87229242 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAATGTCTACTCAGAATTATTTTTCTACGAACTAC
1 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTTTTCTACGAACTAC
* *
87229307 TGTAGCAAAAGCACGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGACAGTGCATCCTG
66 TGTAGCAAAAGCACATCCACGTGGAAGCTTTTTTCCGAAATTTTGCTGACAGTGCATCCTG
*
87229368 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTACTCAGAATTATTTTTCTACGAACTAC
1 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTTTTCTACGAACTAC
* *
87229433 TGTAGCAAAAGCGCATCCACGTGGAAGCTTTTTTCTGAAATTTTGCTGACAGTGCATCCTG
66 TGTAGCAAAAGCACATCCACGTGGAAGCTTTTTTCCGAAATTTTGCTGACAGTGCATCCTG
87229494 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCA
1 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCA
87229537 ATTAACCTAA
Statistics
Matches: 162, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 162 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (126 bp):
CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTTTTCTACGAACTAC
TGTAGCAAAAGCACATCCACGTGGAAGCTTTTTTCCGAAATTTTGCTGACAGTGCATCCTG
Found at i:87229682 original size:19 final size:19
Alignment explanation
Indices: 87229658--87229716 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
87229648 ACCATTATGT
*
87229658 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAATTTA
* *
87229677 ATCAATTAACGCTCATTTA
1 ATCAATTAACCCTAATTTA
87229696 ATCTAA-TAACCCTAATTTA
1 ATC-AATTAACCCTAATTTA
87229715 AT
1 AT
87229717 TAACTAATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 32 0.94
20 2 0.06
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:87235754 original size:14 final size:14
Alignment explanation
Indices: 87235719--87235759 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
87235709 TTTGTTTTAT
*
87235719 TGAAAAATGACTTC
1 TGAAAAATGATTTC
87235733 TGAAAAATGATTTC
1 TGAAAAATGATTTC
87235747 T-AGAAAATGATTT
1 TGA-AAAATGATTT
87235760 ACTTTTCTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 1 0.04
14 24 0.96
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (14 bp):
TGAAAAATGATTTC
Found at i:87236320 original size:16 final size:16
Alignment explanation
Indices: 87236289--87236324 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
87236279 ATGTAAATAG
87236289 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
87236305 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
87236321 TATT
1 TATT
87236325 GAAATATTAA
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:87236350 original size:21 final size:23
Alignment explanation
Indices: 87236326--87236368 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
87236316 TTTATTATTG
*
87236326 AAATATTAAA-TA-ATTTATTAA
1 AAATAATAAATTATATTTATTAA
87236347 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
87236369 TATTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 2 0.11
23 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATAATAAATTATATTTATTAA
Found at i:87238963 original size:19 final size:18
Alignment explanation
Indices: 87238939--87238975 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
87238929 GAATTAGAAC
87238939 AGAGAAAGAAACGAAAAAG
1 AGAGAAAGAAA-GAAAAAG
87238958 AGAGAAAGAAAGAAAAAG
1 AGAGAAAGAAAGAAAAAG
87238976 GGAAAATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.70, C:0.03, G:0.27, T:0.00
Consensus pattern (18 bp):
AGAGAAAGAAAGAAAAAG
Found at i:87247299 original size:44 final size:44
Alignment explanation
Indices: 87247250--87247347 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
87247240 TTCAGGATAA
* *
87247250 TTTGACCTT-GAGTCGATGAGGCACTATAAGTGTCGTACTGTTAC
1 TTTGA-CTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGCTAC
**
87247294 TTTGACTTCGAGTCGATGAGGCACCATGTGTGTCGTACTGCTAC
1 TTTGACTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGCTAC
87247338 TGTT-ACTTCG
1 T-TTGACTTCG
87247348 GTTTAATCCG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 3 0.06
44 43 0.90
45 2 0.04
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (44 bp):
TTTGACTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGCTAC
Found at i:87247424 original size:47 final size:48
Alignment explanation
Indices: 87247307--87247424 Score: 116
Period size: 47 Copynumber: 2.5 Consensus size: 48
87247297 GACTTCGAGT
* * * ** *
87247307 CGATGAGGCACCATGTGTGTCGTACTGCTACTGTTACTTCGGTTTAATC
1 CGATGAGGCACTA-GAGTGCCGTACTGCTACTGTTACTTCGGTCAAAGC
* * *
87247356 CGATGAGGTACT-GAGTACCGTACTGTTACTGTTTACTTCGG-CAAAGC
1 CGATGAGGCACTAGAGTGCCGTACTGCTACTG-TTACTTCGGTCAAAGC
87247403 CGATGAGGCACTAG-GTGCCGTA
1 CGATGAGGCACTAGAGTGCCGTA
87247425 TTGGTGTGTT
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
47 36 0.64
48 10 0.18
49 10 0.18
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (48 bp):
CGATGAGGCACTAGAGTGCCGTACTGCTACTGTTACTTCGGTCAAAGC
Found at i:87264189 original size:174 final size:175
Alignment explanation
Indices: 87263888--87264372 Score: 773
Period size: 174 Copynumber: 2.8 Consensus size: 175
87263878 CAGACCAAAG
* *
87263888 CATAACAGATCTAACCTTCAGATGTTTTTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTG
1 CATAGCAGATCTAACCTTTAGATGTTTTTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTG
87263953 TTTACAAGGAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACA-ACAAAGCAGA
66 TTTACAAGGAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATA-AAAGCAGA
* *
87264017 TCCAAGATAACAGATTTGGCGTCTCC-ATTCGACGGAGAGCAGACA
130 TCCAAGATAACAGATCTGGCATCTCCAATTCGACGGAGAGCAGACA
87264062 CATAGCAGATCTAACCTTTAGATGTTTTTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTG
1 CATAGCAGATCTAACCTTTAGATGTTTTTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTG
* **
87264127 TTTACAAGGAGCAAATAGAAGACACGGCAGATCTGACTTTCAGATGTTTTCACATAAAAGCAGAT
66 TTTACAAGGAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATAAAAGCAGAT
87264192 CCAAGATAACAGATCTGGCATCTCCATATTCGACGGAGAGCAGACA
131 CCAAGATAACAGATCTGGCATCTCCA-ATTCGACGGAGAGCAGACA
* * *
87264238 CATAGCAGATCTAACCTTTAGATCTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTAACCTTTAGATGTTTTTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTG
* * * * *
87264303 TTTACAAGAAGCAAATCGAAGAAATAGCAGGTCTGACCTTCAGATGTTTAT-AC-T-GAAGCAGA
66 TTTACAAGGAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTT-TCACATAAAAGCAGA
87264365 TCCAAGAT
130 TCCAAGAT
87264373 GATTTGGCAT
Statistics
Matches: 289, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
174 161 0.56
175 2 0.01
176 125 0.43
177 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (175 bp):
CATAGCAGATCTAACCTTTAGATGTTTTTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTG
TTTACAAGGAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATAAAAGCAGAT
CCAAGATAACAGATCTGGCATCTCCAATTCGACGGAGAGCAGACA
Found at i:87264412 original size:87 final size:88
Alignment explanation
Indices: 87263888--87264411 Score: 391
Period size: 87 Copynumber: 6.0 Consensus size: 88
87263878 CAGACCAAAG
* *
87263888 CATAACAGATCTAACCTTCAGATGTTTTTACTGAAGCAGATCCAAGATGATTTGGCAT-TCTTGT
1 CATAGCAGATCTGACCTTCAGATG-TTTTACTGAAGCAGATCCAAGATGATTTGGCATCTCTTGT
*
87263952 GTTTACAAGG-AGCAAATCGAAGA
65 ATTTACAAGGAAGCAAATCGAAGA
* ** *
87263975 CATAGCAGATCTGACTTTCAGATGTTTTCACAACAAAGCAGATCCAAGATAACAGATTTGGCGTC
1 CATAGCAGATCTGACCTTCAGATGTTTT-AC--TGAAGCAGATCCAAGAT----GATTTGGCATC
* * *
87264040 TC---CA-TT-CGACGGAGAGC--A--G-ACA
59 TCTTGTATTTAC-AAGGA-AGCAAATCGAAGA
* *
87264062 CATAGCAGATCTAACCTTTAGATGTTTTTACTGAAGCAGATCCAAGATGATTTGGCAT-TCTTGT
1 CATAGCAGATCTGACCTTCAGATG-TTTTACTGAAGCAGATCCAAGATGATTTGGCATCTCTTGT
* *
87264126 GTTTACAAGG-AGCAAATAGAAGA
65 ATTTACAAGGAAGCAAATCGAAGA
** * * *
87264149 CACGGCAGATCTGACTTTCAGATGTTTTCACATAAAAGCAGATCCAAGATAACAGATCTGGCATC
1 CATAGCAGATCTGACCTTCAGATGTTTT-AC-T-GAAGCAGATCCAAGAT----GATTTGGCATC
** * *
87264214 TC-CATA-TT-CGACGGAGAGC--A--G-ACA
59 TCTTGTATTTAC-AAGGA-AGCAAATCGAAGA
* * *
87264238 CATAGCAGATCTAACCTTTAGATCTTTATACTGAAGCAGATCCAAGATGATTTGGCATC-CTTGT
1 CATAGCAGATCTGACCTTCAGATGTTT-TACTGAAGCAGATCCAAGATGATTTGGCATCTCTTGT
*
87264302 GTTTACAA-GAAGCAAATCGAAGA
65 ATTTACAAGGAAGCAAATCGAAGA
* *
87264325 AATAGCAGGTCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCTC-TGT
1 CATAGCAGATCTGACCTTCAGATGTTT-TACTGAAGCAGATCCAAGATGATTTGGCATCTCTTGT
87264389 ATTGT-CAAGGAA-CAAATCGAAGA
65 ATT-TACAAGGAAGCAAATCGAAGA
87264412 AGCAGATTTA
Statistics
Matches: 341, Mismatches: 51, Indels: 90
0.71 0.11 0.19
Matches are distributed among these distances:
80 2 0.01
81 9 0.03
82 7 0.02
83 13 0.04
84 10 0.03
85 17 0.05
86 10 0.03
87 161 0.47
88 12 0.04
89 56 0.16
90 8 0.02
91 1 0.00
92 9 0.03
93 19 0.06
94 7 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (88 bp):
CATAGCAGATCTGACCTTCAGATGTTTTACTGAAGCAGATCCAAGATGATTTGGCATCTCTTGTA
TTTACAAGGAAGCAAATCGAAGA
Found at i:87269777 original size:87 final size:87
Alignment explanation
Indices: 87269621--87269857 Score: 259
Period size: 86 Copynumber: 2.7 Consensus size: 87
87269611 GTTAAACAGC
* * * * * *
87269621 TTTTTTAAGGCATTTT-ACAGTTGAAGTAACTAATTGAGTGTAAAAAAAATCAGGGGCTTAATT-
1 TTTTTTAATGCATTTTGAAAGTTCAAGTATCCAATTGAGTG-AAAAAAAAT-AGGGACTTAATTC
**
87269684 TTTTTTTGAAAACA-ATTGA-GGGA
64 TTTTTTTGAAAA-AGATTGATGACA
87269707 TTTTTTAATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGAAAAAAAAGTAGGGACTTAATTGC
1 TTTTTTAATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGAAAAAAAA-TAGGGACTTAATT-C
*
87269772 TTTTTTTGAAAAAGTTTGATGACA
64 TTTTTTTGAAAAAGATTGATGACA
* * * * **
87269796 TTTTTTTATGCATTTTGAAAGTTTAAATAT-CAATTGAGTGCAAAAAAATAGGGGTTTAATTC
1 TTTTTTAATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGAAAAAAAATAGGGACTTAATTC
87269858 AAATTTTTTA
Statistics
Matches: 130, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
86 35 0.27
87 33 0.25
88 33 0.25
89 29 0.22
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (87 bp):
TTTTTTAATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGAAAAAAAATAGGGACTTAATTCTT
TTTTTGAAAAAGATTGATGACA
Found at i:87272000 original size:13 final size:13
Alignment explanation
Indices: 87271961--87272016 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
87271951 TAACTAAGCC
87271961 AAATAAAAAA-ATA
1 AAATAAAAAAGA-A
* *
87271974 AATTAAAATTAGAA
1 AAATAAAA-AAGAA
87271988 AAATAAAAAAG-A
1 AAATAAAAAAGAA
*
87272000 AAATAAAAAAGAT
1 AAATAAAAAAGAA
87272013 AAAT
1 AAAT
87272017 GGAACAGATG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 12 0.34
13 13 0.37
14 9 0.26
15 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (13 bp):
AAATAAAAAAGAA
Found at i:87272004 original size:12 final size:12
Alignment explanation
Indices: 87271987--87272016 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
87271977 TAAAATTAGA
87271987 AAAATAAAAAAG
1 AAAATAAAAAAG
87271999 AAAATAAAAAAG
1 AAAATAAAAAAG
87272011 ATAAAT
1 A-AAAT
87272017 GGAACAGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (12 bp):
AAAATAAAAAAG
Found at i:87277045 original size:12 final size:13
Alignment explanation
Indices: 87277030--87277063 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
87277020 AAAATTAAAT
87277030 TTTTATTTTTA-A
1 TTTTATTTTTAGA
87277042 TTTTATTTTTAGA
1 TTTTATTTTTAGA
87277055 -TTTATTTTT
1 TTTTATTTTT
87277064 TTACATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 20 0.95
13 1 0.05
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTAGA
Found at i:87277072 original size:14 final size:13
Alignment explanation
Indices: 87277027--87277076 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
87277017 TTTAAAATTA
*
87277027 AATTTTTATTTTT
1 AATTTATATTTTT
87277040 AATTT-TATTTTT
1 AATTTATATTTTT
*
87277052 AGATTTATTTTTTT
1 A-ATTTATATTTTT
87277066 ACATTTA-ATTT
1 A-ATTTATATTT
87277077 CAATTTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 8 0.25
13 12 0.38
14 12 0.38
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (13 bp):
AATTTATATTTTT
Found at i:87279451 original size:7 final size:7
Alignment explanation
Indices: 87279439--87279464 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
87279429 AAACATTCAT
87279439 TTCAACA
1 TTCAACA
87279446 TTCAACA
1 TTCAACA
87279453 TTCAACA
1 TTCAACA
87279460 TTCAA
1 TTCAA
87279465 TACCTCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.31
Consensus pattern (7 bp):
TTCAACA
Found at i:87282772 original size:30 final size:31
Alignment explanation
Indices: 87282738--87282806 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
87282728 TGGCCCAAGA
* * *
87282738 GTAAATACTTAAAA-TTTGAGGGATTAA-AGT
1 GTAAATA-TGAAAATTTTGAAGGACTAATAGT
87282768 GTAAATATGAAAATTTTGAAGGACTAATAGT
1 GTAAATATGAAAATTTTGAAGGACTAATAGT
87282799 GTAAATAT
1 GTAAATAT
87282807 TTTAAGGGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 18 0.53
31 11 0.32
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.33
Consensus pattern (31 bp):
GTAAATATGAAAATTTTGAAGGACTAATAGT
Found at i:87285955 original size:25 final size:26
Alignment explanation
Indices: 87285927--87285975 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
87285917 CTGAGATATG
*
87285927 GATCTTCG-AAGCTTCTCGATTAAAA
1 GATCTTCGTAAGCTTCCCGATTAAAA
* *
87285952 GATCTTTGTGAGCTTCCCGATTAA
1 GATCTTCGTAAGCTTCCCGATTAA
87285976 TGGCTCTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (26 bp):
GATCTTCGTAAGCTTCCCGATTAAAA
Done.