Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 28 of 161
Found at i:8790015 original size:6 final size:6
Alignment explanation
Indices: 8789999--8790033 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
8789989 TTTTTGTTTC
*
8789999 TTTTAT CTTTAT TTTTAT TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
8790034 AAACAAGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:8790019 original size:17 final size:17
Alignment explanation
Indices: 8789986--8790033 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
8789976 TTTTTTTACA
*
8789986 ATCTTT-TTGTTTCTTTT
1 ATCTTTATT-TTTATTTT
8790003 ATCTTTATTTTTATTTTT
1 ATCTTTATTTTTA-TTTT
8790021 AT-TTTATTTTTAT
1 ATCTTTATTTTTAT
8790034 AAACAAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 1 0.04
17 19 0.68
18 8 0.29
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (17 bp):
ATCTTTATTTTTATTTT
Found at i:8790025 original size:11 final size:11
Alignment explanation
Indices: 8789999--8790033 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
8789989 TTTTTGTTTC
*
8789999 TTTTATCTTTA
1 TTTTATTTTTA
8790010 TTTTTATTTTTA
1 -TTTTATTTTTA
8790022 TTTTATTTTTA
1 TTTTATTTTTA
8790033 T
1 T
8790034 AAACAAGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:8791045 original size:25 final size:25
Alignment explanation
Indices: 8791002--8791050 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8790992 CTTCAAAAAA
8791002 TATACATATATACACACATACTTTTT
1 TATACATATATACACACATA-TTTTT
**
8791028 TATA-ATATATACGTACATATTTT
1 TATACATATATACACACATATTTT
8791051 AACTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 13 0.62
26 4 0.19
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (25 bp):
TATACATATATACACACATATTTTT
Found at i:8794074 original size:15 final size:15
Alignment explanation
Indices: 8794044--8794083 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
8794034 CTAATCTATT
* *
8794044 AAAATATAAATTACA
1 AAAATAAAAATAACA
*
8794059 AACATAAAAATAACA
1 AAAATAAAAATAACA
8794074 AAAATAAAAA
1 AAAATAAAAA
8794084 CTTCAATCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAAAATAACA
Found at i:8797225 original size:27 final size:28
Alignment explanation
Indices: 8797189--8797257 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
8797179 AAAAATAAAA
*
8797189 ATTTACCAAAATATTAT-CCTTTTTTTT
1 ATTTACCAAAATATTATAACTTTTTTTT
8797216 ATTTACCAAAATATTATAACTTTTTTTT
1 ATTTACCAAAATATTATAACTTTTTTTT
8797244 ATTTACCAAAATAT
1 ATTTACCAAAATAT
8797258 ACCAAAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 17 0.43
28 23 0.57
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTACCAAAATATTATAACTTTTTTTT
Found at i:8797704 original size:18 final size:18
Alignment explanation
Indices: 8797683--8797717 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8797673 AGTAATAACT
*
8797683 CTATTTTAATTTAATAAA
1 CTATTCTAATTTAATAAA
*
8797701 CTATTCTCATTTAATAA
1 CTATTCTAATTTAATAA
8797718 GTTATTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (18 bp):
CTATTCTAATTTAATAAA
Found at i:8797734 original size:18 final size:18
Alignment explanation
Indices: 8797713--8797761 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
8797703 ATTCTCATTT
*
8797713 AATAAGTTATTAAATGAG
1 AATAAGTTATTAAATGAA
** *
8797731 AATATTTTATTAAATTAA
1 AATAAGTTATTAAATGAA
8797749 AATAGAGTTATTA
1 AATA-AGTTATTA
8797762 CTTAATTAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (18 bp):
AATAAGTTATTAAATGAA
Found at i:8798349 original size:27 final size:27
Alignment explanation
Indices: 8798317--8798368 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
8798307 CATTTTAGTC
8798317 CTTTGGCACCATTGGTGCCGCCAATCA
1 CTTTGGCACCATTGGTGCCGCCAATCA
*
8798344 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
8798369 GTGATTGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.29
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCA
Found at i:8798495 original size:26 final size:27
Alignment explanation
Indices: 8798424--8798510 Score: 149
Period size: 27 Copynumber: 3.3 Consensus size: 27
8798414 GTTTTTTTGT
8798424 ATATTTTAGTAAATAAAAAAAATTATA
1 ATATTTTAGTAAATAAAAAAAATTATA
*
8798451 ATATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTAGTAAATAAAAAAAATTATA
*
8798478 ATATTTTAGTAAAT-AAAAAAGTTATA
1 ATATTTTAGTAAATAAAAAAAATTATA
8798504 ATATTTT
1 ATATTTT
8798511 GATTATTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 18 0.32
27 39 0.68
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (27 bp):
ATATTTTAGTAAATAAAAAAAATTATA
Found at i:8803357 original size:20 final size:20
Alignment explanation
Indices: 8803297--8803370 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
8803287 TTGTACAGGA
* *
8803297 TTTGCACTTTGGTGCCTCTA
1 TTTGCACTTCGGTGCCTCTG
8803317 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
*
8803337 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCTCTG
* *
8803357 TATACACTTCGGTG
1 TTTGCACTTCGGTG
8803371 TCCTTTTTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.09, C:0.28, G:0.23, T:0.39
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:8813938 original size:20 final size:20
Alignment explanation
Indices: 8813900--8813940 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
8813890 TATTGAATCG
8813900 AAAATTAGAGAAATTAAAAAT
1 AAAATTAGAGAAA-TAAAAAT
8813921 AAAATTGAGAGAAA-AAAAAT
1 AAAATT-AGAGAAATAAAAAT
8813941 TCTTATGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (20 bp):
AAAATTAGAGAAATAAAAAT
Found at i:8822376 original size:21 final size:21
Alignment explanation
Indices: 8822352--8822399 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
8822342 TATATATTTA
*
8822352 TTAGAATACTTTGTATATGA-T
1 TTAGAATAC-TTGTATAAGAGT
8822373 TTAGGAATACTTGTATAAGAGT
1 TTA-GAATACTTGTATAAGAGT
8822395 TTAGA
1 TTAGA
8822400 GATGTTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.42
Consensus pattern (21 bp):
TTAGAATACTTGTATAAGAGT
Found at i:8822383 original size:22 final size:22
Alignment explanation
Indices: 8822355--8822398 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8822345 ATATTTATTA
*
8822355 GAATACTTTGTATATGA-TTTAG
1 GAATAC-TTGTATAAGAGTTTAG
8822377 GAATACTTGTATAAGAGTTTAG
1 GAATACTTGTATAAGAGTTTAG
8822399 AGATGTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (22 bp):
GAATACTTGTATAAGAGTTTAG
Found at i:8823115 original size:30 final size:30
Alignment explanation
Indices: 8823075--8823210 Score: 218
Period size: 30 Copynumber: 4.5 Consensus size: 30
8823065 CTGGGCATTT
*
8823075 CCACACGGGCTGGCCACACGCTCGTGCGAG
1 CCACACGGGCTGGCCACACGCTCATGCGAG
* *
8823105 CCACATGGGCTGGCCACACGCTCATGTGAG
1 CCACACGGGCTGGCCACACGCTCATGCGAG
8823135 CCACACGGGCTGGCCACACGCTCATGCGAG
1 CCACACGGGCTGGCCACACGCTCATGCGAG
* * *
8823165 CCACACGGGCTGGTCACACGCTCGTGTGAG
1 CCACACGGGCTGGCCACACGCTCATGCGAG
8823195 CCACACGGGCTGGCCA
1 CCACACGGGCTGGCCA
8823211 TATACCCATG
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 97 1.00
ACGTcount: A:0.18, C:0.38, G:0.32, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCTCATGCGAG
Found at i:8823139 original size:17 final size:17
Alignment explanation
Indices: 8823117--8823171 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
8823107 ACATGGGCTG
8823117 GCCACACGCTCATGTGA
1 GCCACACGCTCATGTGA
**
8823134 GCCACACGGGC---TG-
1 GCCACACGCTCATGTGA
*
8823147 GCCACACGCTCATGCGA
1 GCCACACGCTCATGTGA
8823164 GCCACACG
1 GCCACACG
8823172 GGCTGGTCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
13 9 0.31
14 2 0.07
16 1 0.03
17 17 0.59
ACGTcount: A:0.22, C:0.40, G:0.27, T:0.11
Consensus pattern (17 bp):
GCCACACGCTCATGTGA
Found at i:8824065 original size:14 final size:14
Alignment explanation
Indices: 8824042--8824072 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8824032 TGTTGCGTTT
*
8824042 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
8824056 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
8824070 TTA
1 TTA
8824073 AAAACAATCA
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:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:8831335 original size:25 final size:25
Alignment explanation
Indices: 8831307--8831376 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
8831297 TCTATTTTAT
*
8831307 TTATTTGTTTTTTTATTTATTATTC
1 TTATTTGTTTTATTATTTATTATTC
* * * *
8831332 TTATTAGTTATATTATTTTTTATTG
1 TTATTTGTTTTATTATTTATTATTC
*
8831357 TTATTT-TTATTCTTATTTAT
1 TTATTTGTT-TTATTATTTAT
8831377 ATATATACAT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.73
Consensus pattern (25 bp):
TTATTTGTTTTATTATTTATTATTC
Found at i:8831347 original size:18 final size:18
Alignment explanation
Indices: 8831323--8831373 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
8831313 GTTTTTTTAT
8831323 TTATTATTCTTATTAGTTA
1 TTATTATTCTTATT-GTTA
*
8831342 -TATTATTTTTTATTGTTA
1 TTATTA-TTCTTATTGTTA
*
8831360 TTTTTATTCTTATT
1 TTATTATTCTTATT
8831374 TATATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (18 bp):
TTATTATTCTTATTGTTA
Found at i:8831367 original size:37 final size:36
Alignment explanation
Indices: 8831303--8831373 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 36
8831293 TTTGTCTATT
8831303 TTATTTATTTGTTTTTTTATTTATTATTCTTATTAG
1 TTATTTATTTGTTTTTTTATTTATTATTCTTATTAG
8831339 TTATATTATTT-TTTATTGTTATTT-TTATTCTTATT
1 TTAT-TTATTTGTTT-TT-TTATTTATTATTCTTATT
8831374 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
36 7 0.22
37 19 0.59
38 6 0.19
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.73
Consensus pattern (36 bp):
TTATTTATTTGTTTTTTTATTTATTATTCTTATTAG
Found at i:8833043 original size:25 final size:24
Alignment explanation
Indices: 8833010--8833068 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
8833000 TTATTTTATT
* *
8833010 TTATGTTTATTGTTATTTTTTTAGAC
1 TTAT-TTTATTGTTATCTTTTGA-AC
*
8833036 TTATTTTATTTTTATCTTTTGAAC
1 TTATTTTATTGTTATCTTTTGAAC
8833060 TATATTTTA
1 T-TATTTTA
8833069 GTTTTATGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 3 0.10
25 22 0.76
26 4 0.14
ACGTcount: A:0.22, C:0.05, G:0.07, T:0.66
Consensus pattern (24 bp):
TTATTTTATTGTTATCTTTTGAAC
Found at i:8833050 original size:6 final size:5
Alignment explanation
Indices: 8832989--8833028 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
8832979 ATTGAGTCTA
8832989 TTTAT TTTAT TTTAT TTTAT TTTAT GTTTAT TGTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT T-TTAT TTT
8833029 TTTAGACTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:8833824 original size:11 final size:11
Alignment explanation
Indices: 8833808--8833837 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
8833798 CTACATAATT
8833808 AACCCTTAGTG
1 AACCCTTAGTG
8833819 AACCCTTAGTG
1 AACCCTTAGTG
8833830 AACTCCTT
1 AAC-CCTT
8833838 TAAGCCTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (11 bp):
AACCCTTAGTG
Found at i:8836841 original size:19 final size:18
Alignment explanation
Indices: 8836805--8836842 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8836795 TGGTTTTGTC
8836805 AAAATGGAAATGGAAATG
1 AAAATGGAAATGGAAATG
8836823 AAAAT-GAAACTGAGAAATG
1 AAAATGGAAA-TG-GAAATG
8836842 A
1 A
8836843 TTCATTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 7 0.39
19 7 0.39
ACGTcount: A:0.58, C:0.03, G:0.24, T:0.16
Consensus pattern (18 bp):
AAAATGGAAATGGAAATG
Found at i:8838801 original size:25 final size:25
Alignment explanation
Indices: 8838754--8838801 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
8838744 ATTTAGTCTT
*
8838754 ATTTTATTTATTTATTTATTTTTGA
1 ATTTTATTTATTTATTTACTTTTGA
* * *
8838779 ATTTTTTTTATTTTTTTCCTTTT
1 ATTTTATTTATTTATTTACTTTT
8838802 TCAAGTTCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (25 bp):
ATTTTATTTATTTATTTACTTTTGA
Found at i:8847882 original size:23 final size:23
Alignment explanation
Indices: 8847851--8847900 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
8847841 ACCTGATTTC
* * *
8847851 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
8847874 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
8847897 TTAC
1 TTAC
8847901 TCAAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:8854189 original size:26 final size:26
Alignment explanation
Indices: 8854153--8854204 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
8854143 TGCCGAGCTG
8854153 TTAGCTTTTCTTTTTGTTTAATTGAA
1 TTAGCTTTTCTTTTTGTTTAATTGAA
8854179 TTAGCTTTTCTTTTTGTTTAATTGAA
1 TTAGCTTTTCTTTTTGTTTAATTGAA
8854205 GATGGGACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.08, G:0.12, T:0.62
Consensus pattern (26 bp):
TTAGCTTTTCTTTTTGTTTAATTGAA
Found at i:8858287 original size:16 final size:16
Alignment explanation
Indices: 8858248--8858297 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
8858238 TTTTTTTAAA
8858248 AAAATTGGTTGGCTAT
1 AAAATTGGTTGGCTAT
8858264 AAAA-TGGTTGGCTAT
1 AAAATTGGTTGGCTAT
8858279 AAAATTGGTTGGCTAT
1 AAAATTGGTTGGCTAT
8858295 AAA
1 AAA
8858298 GCAGAAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 15 0.45
16 18 0.55
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (16 bp):
AAAATTGGTTGGCTAT
Found at i:8858948 original size:12 final size:12
Alignment explanation
Indices: 8858910--8858967 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
8858900 GTATAGAGTC
8858910 TTAGGATTAGAA
1 TTAGGATTAGAA
* ** *
8858922 ATAGTTTATAAAA
1 TTAGGAT-TAGAA
8858935 TTAGGATTAGAA
1 TTAGGATTAGAA
8858947 TTAGGATTA-AA
1 TTAGGATTAGAA
8858958 TCTAGGATTA
1 T-TAGGATTA
8858968 AGTTTAGAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
11 3 0.08
12 25 0.69
13 8 0.22
ACGTcount: A:0.43, C:0.02, G:0.19, T:0.36
Consensus pattern (12 bp):
TTAGGATTAGAA
Found at i:8858968 original size:12 final size:11
Alignment explanation
Indices: 8858932--8858993 Score: 61
Period size: 12 Copynumber: 5.3 Consensus size: 11
8858922 ATAGTTTATA
8858932 AAATTAGGATT
1 AAATTAGGATT
8858943 AGAATTAGGATT
1 A-AATTAGGATT
8858955 AAATCTAGGATT
1 AAAT-TAGGATT
* *
8858967 AAGTTTAGAATT
1 AA-ATTAGGATT
*
8858979 CAACTTAGGATT
1 -AAATTAGGATT
8858991 AAA
1 AAA
8858994 CACAAAACTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
11 6 0.14
12 33 0.79
13 3 0.07
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.34
Consensus pattern (11 bp):
AAATTAGGATT
Found at i:8859292 original size:156 final size:156
Alignment explanation
Indices: 8859003--8859315 Score: 520
Period size: 156 Copynumber: 2.0 Consensus size: 156
8858993 ACACAAAACT
*
8859003 AGGTTTAGAACTAGAATAAGGATTAAACTTAGACTTAGTATATAAGATTAATATTTTTACTTCAG
1 AGGTTTAGAACTAGAATAAGGATTAAACTTAGACTTAGGATATAAGATTAATATTTTTACTTCAG
* * * *
8859068 CTTAAGACTTTGGAATTCTCGATGGTATCATGCTTTGAATTAATATATCATTTACATACCACTAT
66 ATTAAGACTTTGGAATTCTCAATGGTATCATGCTATGAATTAATATATCATTTACATACCAATAT
8859133 TCCATGACATGTTTATTTGAGCTTAC
131 TCCATGACATGTTTATTTGAGCTTAC
* * *
8859159 AGGTTTAGAACTAGAATTAGGATTAGACTTAGACTTAGGATATAAGATTCATATTTTTACTT-AG
1 AGGTTTAGAACTAGAATAAGGATTAAACTTAGACTTAGGATATAAGATTAATATTTTTACTTCA-
* *
8859223 GATTAAGACTTTGGAATTCTCAATGGTATCATGCTATGAATTGATATATCATTTACATACCAATT
65 GATTAAGACTTTGGAATTCTCAATGGTATCATGCTATGAATTAATATATCATTTACATACCAATA
8859288 TTCCATGACATGTTTATTTGAGCTTAC
130 TTCCATGACATGTTTATTTGAGCTTAC
8859315 A
1 A
8859316 TTTGATATCG
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
155 1 0.01
156 145 0.99
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (156 bp):
AGGTTTAGAACTAGAATAAGGATTAAACTTAGACTTAGGATATAAGATTAATATTTTTACTTCAG
ATTAAGACTTTGGAATTCTCAATGGTATCATGCTATGAATTAATATATCATTTACATACCAATAT
TCCATGACATGTTTATTTGAGCTTAC
Found at i:8861986 original size:20 final size:20
Alignment explanation
Indices: 8861944--8861983 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8861934 GTCCTTCAAA
* *
8861944 ATAAATTTATATTTTTGTTT
1 ATAAATTAATATTTGTGTTT
8861964 ATAAATTAATATTATGTGTT
1 ATAAATTAATATT-TGTGTT
8861984 ATAGGTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATAAATTAATATTTGTGTTT
Found at i:8863445 original size:3 final size:3
Alignment explanation
Indices: 8863437--8863467 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8863427 ATTTCTCTAA
8863437 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
8863468 GTGTACTTGA
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:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:8864035 original size:5 final size:5
Alignment explanation
Indices: 8864027--8864062 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
8864017 TTACTCAGGT
8864027 TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC T
1 TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC T
8864063 CTCTTCGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (5 bp):
TTCCC
Found at i:8865150 original size:3 final size:3
Alignment explanation
Indices: 8865142--8865171 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8865132 CCTTAATCCC
8865142 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
8865172 CCCCCACCCC
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:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:8869226 original size:78 final size:77
Alignment explanation
Indices: 8869125--8869279 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 77
8869115 ATCTCTGTCG
*
8869125 AACTAAACACATAATAATGGATATGC-CAAAGATTGTAGAGCACAAACCCACACTCCAAGTTATC
1 AACTAAACACATAATAATGGATAT-CTCAAAGATTGTAGAGCACAAACCCACACTCCAAGCTATC
8869189 TTCTCTTGTCCCAA
65 TTCTCTT-TCCCAA
8869203 AACTAAACACATAATAATGGATATCTCAAAGATTGTAGAGCACAAACCCACACTCCAAGCTATCT
1 AACTAAACACATAATAATGGATATCTCAAAGATTGTAGAGCACAAACCCACACTCCAAGCTATCT
8869268 TCTCTTTCCCAA
66 TCTCTTTCCCAA
8869280 GCTATCATTT
Statistics
Matches: 75, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
77 7 0.09
78 68 0.91
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.25
Consensus pattern (77 bp):
AACTAAACACATAATAATGGATATCTCAAAGATTGTAGAGCACAAACCCACACTCCAAGCTATCT
TCTCTTTCCCAA
Found at i:8869675 original size:9 final size:9
Alignment explanation
Indices: 8869661--8869694 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
8869651 AACCAAACTC
8869661 ATTTTCTTT
1 ATTTTCTTT
8869670 ATTTTCTTT
1 ATTTTCTTT
*
8869679 ATTCTCTTT
1 ATTTTCTTT
8869688 ATTTTCT
1 ATTTTCT
8869695 ATCCTACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTCTTT
Found at i:8876915 original size:22 final size:22
Alignment explanation
Indices: 8876890--8876981 Score: 112
Period size: 22 Copynumber: 4.2 Consensus size: 22
8876880 AAATTCAATA
* *
8876890 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
8876912 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
8876934 TCAATTCCCTTCAAAATTTCTA
1 TCAATTCCCTTCAAAAATTCTC
* *
8876956 TCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
8876978 TCAA
1 TCAA
8876982 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:8876997 original size:52 final size:51
Alignment explanation
Indices: 8876931--8877033 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
8876921 TTCAAAATTT
* * *
8876931 CTCTCAATTCCCTT-CAAAATTTCTATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
8876983 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
8877034 TCCATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:8877022 original size:21 final size:22
Alignment explanation
Indices: 8876983--8877024 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8876973 TTCTCTCAAA
8876983 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
8877005 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
8877025 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:8878747 original size:17 final size:18
Alignment explanation
Indices: 8878725--8878759 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8878715 TAAAATCCCT
8878725 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
8878742 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
8878760 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:8878747 original size:23 final size:24
Alignment explanation
Indices: 8878713--8878806 Score: 77
Period size: 23 Copynumber: 3.8 Consensus size: 24
8878703 ATATTATTTG
*
8878713 ATTAAAATCCCT-AACCCTACTTA
1 ATTAAAAACCCTAAACCCTACTTA
** *
8878736 ATTAAAAACCCT-AA-TTTAATTAA
1 ATTAAAAACCCTAAACCCTACTT-A
*
8878759 ATTAAAAACCCTAAACCCTAACCTA
1 ATTAAAAACCCTAAACCCT-ACTTA
8878784 ATTTAATTAAACCCTAAACCCTA
1 A-TTAA--AAACCCTAAACCCTA
8878807 ACTCTATTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
22 4 0.07
23 26 0.46
24 2 0.04
25 3 0.05
26 6 0.11
27 1 0.02
28 14 0.25
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTAAAAACCCTAAACCCTACTTA
Found at i:8878804 original size:28 final size:28
Alignment explanation
Indices: 8878741--8879201 Score: 186
Period size: 28 Copynumber: 15.8 Consensus size: 28
8878731 ACTTAATTAA
** *
8878741 AAACCCTAATTTAATTAAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATT--AAACCCT
8878771 AAACCCTAACCTAATTTAATTAAACCCT
1 AAACCCTAACCTAATTTAATTAAACCCT
****
8878799 AAACCCTAACTCT-ATTTAATTAAATTAA
1 AAACCCTAAC-CTAATTTAATTAAACCCT
* *
8878827 AAACCTTAACCTTATTTAATTAAATTAAAAACCCT
1 AAACCCTAACC-----TAATTTAATT--AAACCCT
8878862 AAACCCTAACCTAATTTAATTAAACCCT
1 AAACCCTAACCTAATTTAATTAAACCCT
****
8878890 AAACCCTAACTCT-ATTTAATTAAATTAA
1 AAACCCTAAC-CTAATTTAATTAAACCCT
* * ****
8878918 AAACCTTAACCTTATTTAATTAAATTAA
1 AAACCCTAACCTAATTTAATTAAACCCT
*
8878946 AAACCCTAAACCCT-ACTTAATTAAAAACCCT
1 AAACCCT-AA-CCTAATTTAATT--AAACCCT
* ****
8878977 -AACCCTAACCTGATTTAATTAAATTAA
1 AAACCCTAACCTAATTTAATTAAACCCT
*
8879004 AAACCCTAACCTTATTTAATT---CCCT
1 AAACCCTAACCTAATTTAATTAAACCCT
** *
8879029 ACTTAATTCTAAACGAAGTGCAAATTTAATTAAACCCT
1 A---AACCCT-AAC------CTAATTTAATTAAACCCT
****
8879067 AAACCCTAACCCT-ATTTAATTAAATTAA
1 AAACCCTAA-CCTAATTTAATTAAACCCT
* ****
8879095 AAACCCTAACCTTATTTAATTAAATTAA
1 AAACCCTAACCTAATTTAATTAAACCCT
*
8879123 AAACCCTAAACCCT-ACTTAATTAAAAACCCT
1 AAACCCT-AA-CCTAATTTAATT--AAACCCT
* ****
8879154 -AACCCTAACCTGATTTAATTAAATTAA
1 AAACCCTAACCTAATTTAATTAAACCCT
8879181 AAACCCTAACCTAATTTAATT
1 AAACCCTAACCTAATTTAATT
8879202 TAATTAAAAA
Statistics
Matches: 335, Mismatches: 58, Indels: 78
0.71 0.12 0.17
Matches are distributed among these distances:
25 1 0.00
27 12 0.04
28 185 0.55
29 44 0.13
30 45 0.13
31 6 0.02
32 1 0.00
33 7 0.02
34 2 0.01
35 27 0.08
38 5 0.01
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (28 bp):
AAACCCTAACCTAATTTAATTAAACCCT
Found at i:8878885 original size:91 final size:90
Alignment explanation
Indices: 8878749--8879272 Score: 687
Period size: 91 Copynumber: 5.8 Consensus size: 90
8878739 AAAAACCCTA
8878749 ATTTAATTAAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAACCCTAAACCCTAACTCTAT
1 ATTTAATTAAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAACCCTAAACCCTAAC-CTAT
*
8878814 TTAATTAAATTAAAAACCTTAACCTT
65 TTAATTAAATTAAAAACCCTAACCTT
8878840 ATTTAATTAAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAACCCTAAACCCTAACTCTAT
1 ATTTAATTAAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAACCCTAAACCCTAAC-CTAT
*
8878905 TTAATTAAATTAAAAACCTTAACCTT
65 TTAATTAAATTAAAAACCCTAACCTT
*
8878931 ATTTAATTAAATTAAAAACCCTAAACCCT-ACTTAA-TTAA--AAACCCT-AACCCTAACCTGAT
1 ATTTAATTAAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAACCCTAAACCCTAACCT-AT
8878991 TTAATTAAATTAAAAACCCTAACCTT
65 TTAATTAAATTAAAAACCCTAACCTT
*** ** ** * * *
8879017 ATTTAATT-CCCTACTTAATTCTAAA--CGAAGTGCAAATTTAATTAAACCCTAAACCCTAACCC
1 ATTTAATTAAATTA-AAAACCCTAAACCCTAA--CCTAATTTAATTAAACCCTAAACCCTAA-CC
8879079 TATTTAATTAAATTAAAAACCCTAACCTT
62 TATTTAATTAAATTAAAAACCCTAACCTT
*
8879108 ATTTAATTAAATTAAAAACCCTAAACCCT-ACTTAA-TTAA--AAACCCT-AACCCTAACCTGAT
1 ATTTAATTAAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAACCCTAAACCCTAACCT-AT
*
8879168 TTAATTAAATTAAAAACCCTAACCTA
65 TTAATTAAATTAAAAACCCTAACCTT
*
8879194 ATTTAATTTAATTAAAAACCCTACCCTAAACCCTAACCTAATTTAATTAAACCCTAAACCCTAAC
1 ATTTAATTAAATT-AAAA----ACCCTAAACCCTAACCTAATTTAATTAAACCCTAAACCCTAA-
8879259 CCTATTTAATTAAA
60 CCTATTTAATTAAA
8879273 AACCCTAATT
Statistics
Matches: 381, Mismatches: 27, Indels: 45
0.84 0.06 0.10
Matches are distributed among these distances:
84 1 0.00
85 8 0.02
86 98 0.26
87 20 0.05
88 4 0.01
89 8 0.02
90 14 0.04
91 183 0.48
92 11 0.03
93 5 0.01
95 7 0.02
96 19 0.05
97 3 0.01
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (90 bp):
ATTTAATTAAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAACCCTAAACCCTAACCTATT
TAATTAAATTAAAAACCCTAACCTT
Found at i:8879016 original size:177 final size:176
Alignment explanation
Indices: 8878749--8879272 Score: 748
Period size: 177 Copynumber: 2.9 Consensus size: 176
8878739 AAAAACCCTA
*
8878749 ATTTAATTAAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAACCCTAAACCCTAACTCT-A
1 ATTTAATTAAATTAAAAACCCTAAACCCT-ACTTAA-TTAA--AAACCCT-AACCCTAAC-CTGA
*
8878813 TTTAATTAAATTAAAAACCTTAACCTTATTTAATTAAATTAAAAACCCTAAACCCTAACCTAATT
60 TTTAATTAAATTAAAAACCCTAACCTTATTTAATT-AATTAAAAACCCTAAACCCTAACCTAATT
* *
8878878 TAATTAAACCCTAAACCCTAACTCTATTTAATTAAATTAAAAACCTTAACCTT
124 TAATTAAACCCTAAACCCTAACCCTATTTAATTAAATTAAAAACCCTAACCTT
8878931 ATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTGATTTAAT
1 ATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTGATTTAAT
*** ** ** * * *
8878996 TAAATTAAAAACCCTAACCTTATTTAATTCCCTACTTAATTCTAAA--CGAAGTGCAAATTTAAT
66 TAAATTAAAAACCCTAACCTTATTTAATTAATTA-AAAACCCTAAACCCTAA--CCTAATTTAAT
8879059 TAAACCCTAAACCCTAACCCTATTTAATTAAATTAAAAACCCTAACCTT
128 TAAACCCTAAACCCTAACCCTATTTAATTAAATTAAAAACCCTAACCTT
8879108 ATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTGATTTAAT
1 ATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTGATTTAAT
*
8879173 TAAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTACCCTAAACCCTAACCTAATTT
66 TAAATTAAAAACCCTAACCTTATTTAA-TTAATT-AAAA----ACCCTAAACCCTAACCTAATTT
8879238 AATTAAACCCTAAACCCTAACCCTATTTAATTAAA
125 AATTAAACCCTAAACCCTAACCCTATTTAATTAAA
8879273 AACCCTAATT
Statistics
Matches: 305, Mismatches: 25, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
175 3 0.01
176 4 0.01
177 198 0.65
178 11 0.04
179 1 0.00
180 4 0.01
181 5 0.02
182 76 0.25
184 3 0.01
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (176 bp):
ATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTGATTTAAT
TAAATTAAAAACCCTAACCTTATTTAATTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
ACCCTAAACCCTAACCCTATTTAATTAAATTAAAAACCCTAACCTT
Found at i:8879222 original size:28 final size:27
Alignment explanation
Indices: 8879067--8879221 Score: 179
Period size: 28 Copynumber: 5.5 Consensus size: 27
8879057 ATTAAACCCT
8879067 AAACCCTAACCCTATTTAATTAAATTAA
1 AAACCCTAA-CCTATTTAATTAAATTAA
8879095 AAACCCTAACCTTATTTAATTAAATTAA
1 AAACCCTAACC-TATTTAATTAAATTAA
*
8879123 AAACCCTAAACCCTACTTAATTAAA--AA
1 AAACCCT-AA-CCTATTTAATTAAATTAA
*
8879150 CCCTAACCCTAACCTGATTTAATTAAATTAA
1 ---AAACCCTAACCT-ATTTAATTAAATTAA
*
8879181 AAACCCTAACCTAATTTAATTTAATTAA
1 AAACCCTAACCT-ATTTAATTAAATTAA
*
8879209 AAACCCTACCCTA
1 AAACCCTAACCTA
8879222 AACCCTAACC
Statistics
Matches: 111, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.05
28 71 0.64
29 25 0.23
30 8 0.07
31 2 0.02
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (27 bp):
AAACCCTAACCTATTTAATTAAATTAA
Found at i:8879236 original size:63 final size:61
Alignment explanation
Indices: 8879051--8879279 Score: 190
Period size: 63 Copynumber: 3.8 Consensus size: 61
8879041 ACGAAGTGCA
* ** * **
8879051 AATTTAATTAAACCCTAAACCCTAACCCTATTTAATTAAATTAA--AAACCCTAACCTTATTT
1 AATTAAATTAAACCCTAAACCCTAACCCTATTTAATTAAA--AACCCTACCCTAACCTAACCT
* * **
8879112 AATTAAATT-AA----AAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTGATTT
1 AATTAAATTAAACCCTAAACCCT-AACCCTATTTAATTAAAAACCCT-ACCCTAACCTAACCT
**
8879170 AATTAAATTAAAAACCCT-AA-CCTAA-TTTAATTTAATTAAAAACCCTACCCTAAACCCTAACC
1 AATTAAATT--AAACCCTAAACCCTAACCCT-ATTTAATTAAAAACCCTACCCT-AA-CCTAACC
8879232 T
61 T
*
8879233 AATTTAATTAAACCCTAAACCCTAACCCTATTTAATTAAAAACCCTA
1 AATTAAATTAAACCCTAAACCCTAACCCTATTTAATTAAAAACCCTA
8879280 ATTAAATTGT
Statistics
Matches: 137, Mismatches: 14, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
55 2 0.01
56 7 0.05
57 16 0.12
58 23 0.17
60 2 0.01
61 23 0.17
62 22 0.16
63 39 0.28
64 3 0.02
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (61 bp):
AATTAAATTAAACCCTAAACCCTAACCCTATTTAATTAAAAACCCTACCCTAACCTAACCT
Found at i:8879247 original size:28 final size:28
Alignment explanation
Indices: 8879216--8879272 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
8879206 TAAAAACCCT
8879216 ACCCTAAACCCTAA-CCTAATTTAATTAA
1 ACCCTAAACCCTAACCCT-ATTTAATTAA
8879244 ACCCTAAACCCTAACCCTATTTAATTAA
1 ACCCTAAACCCTAACCCTATTTAATTAA
8879272 A
1 A
8879273 AACCCTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 25 0.89
29 3 0.11
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (28 bp):
ACCCTAAACCCTAACCCTATTTAATTAA
Found at i:8879253 original size:40 final size:41
Alignment explanation
Indices: 8879181--8879262 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
8879171 ATTAAATTAA
* **
8879181 AAACCCTAACCTAATTTAATTTAATTAAAAACCCT-ACCCT
1 AAACCCTAACCTAATTTAATTAAACCAAAAACCCTAACCCT
**
8879221 AAACCCTAACCTAATTTAATTAAACCCTAAACCCTAACCCT
1 AAACCCTAACCTAATTTAATTAAACCAAAAACCCTAACCCT
8879262 A
1 A
8879263 TTTAATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 30 0.83
41 6 0.17
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (41 bp):
AAACCCTAACCTAATTTAATTAAACCAAAAACCCTAACCCT
Found at i:8885159 original size:50 final size:50
Alignment explanation
Indices: 8885097--8885266 Score: 137
Period size: 50 Copynumber: 3.4 Consensus size: 50
8885087 GATCTGTAAT
* *
8885097 CTTCAATTTGTTCAACTGCAATGTTGGGGAAACCAGATCCGCTGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAACCAGATCCGCTGTCGTAG
* * ** * ** * * *
8885147 CTTCAATCTGTTCCACCGCACCGTCA-GGAAAGTAAGATCTGCCT-TTGTGG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAA-CCAGATCCG-CTGTCGTAG
* * * * * *
8885197 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAACCAGATCCGCTGTCGTAG
*
8885247 CTTCAATCTGTTCCACTGCA
1 CTTCAATCTGTTCAACTGCA
8885267 CTGCTAAGGA
Statistics
Matches: 86, Mismatches: 30, Indels: 8
0.69 0.24 0.06
Matches are distributed among these distances:
49 6 0.07
50 73 0.85
51 7 0.08
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTGCAATGTTAGGGAAACCAGATCCGCTGTCGTAG
Found at i:8885280 original size:100 final size:99
Alignment explanation
Indices: 8885123--8885399 Score: 403
Period size: 99 Copynumber: 2.8 Consensus size: 99
8885113 TGCAATGTTG
* * * * *
8885123 GGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGGAAAGTAAGATCT
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGG-AAGTAAGATCC
*
8885187 GCCTTTGTGGCTTCAATCTTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATC-TTTTAATTGCAATATCA
8885223 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
* *
8885288 TCGTTGTGGCTTCAATCTTTTAATTGTAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
* ** * * *
8885322 GAGAAACCAGATCTTCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCA
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
8885387 CCGTTGTGGCTTC
66 CCGTTGTGGCTTC
8885400 TAACTAGGCA
Statistics
Matches: 161, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
99 87 0.54
100 70 0.43
101 4 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (99 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
Found at i:8885285 original size:50 final size:50
Alignment explanation
Indices: 8885131--8885399 Score: 159
Period size: 50 Copynumber: 5.4 Consensus size: 50
8885121 TGGGGAAACC
* * * * *
8885131 AGATCCGCTGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGGAAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGATAAGG-AAGTA
* * * * ** * * * ***
8885181 AGATCTGCCTTTGTGGCTTCAATCTTTTTAATTGCAAT-ATCAGGGAAACC
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGAT-AAGGAAGTA
* *
8885231 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGATAAGGAAGTA
* * ** * * * * ***
8885281 AGATCCGTCGTTGTGGCTTCAATCT-TTTAATTGTAAT-ATCAGAGAAACC
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGATAAG-GAAGTA
** * *
8885330 AGATCTTCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGATAAGGAAGTA
* *
8885380 AGATCCACCGTTGTGGCTTC
1 AGATCCGCCGTTGTAGCTTC
8885400 TAACTAGGCA
Statistics
Matches: 151, Mismatches: 62, Indels: 12
0.67 0.28 0.05
Matches are distributed among these distances:
48 3 0.02
49 31 0.21
50 111 0.74
51 6 0.04
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (50 bp):
AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGATAAGGAAGTA
Found at i:8908034 original size:32 final size:32
Alignment explanation
Indices: 8907998--8908062 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
8907988 CATTAAACTT
* *
8907998 ATTCAGCCTCATTTTTACATTCAAGTTAGCTA
1 ATTCAGCCACATTTTTACATTAAAGTTAGCTA
*
8908030 ATTCAGTCACATTTTTACATTAAAGTTAGCTA
1 ATTCAGCCACATTTTTACATTAAAGTTAGCTA
8908062 A
1 A
8908063 GTCTATGAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.40
Consensus pattern (32 bp):
ATTCAGCCACATTTTTACATTAAAGTTAGCTA
Found at i:8909273 original size:3 final size:3
Alignment explanation
Indices: 8909265--8909313 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
8909255 AGAAACCAGA
8909265 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8909313 A
1 A
8909314 TTCAAGGGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8912701 original size:16 final size:15
Alignment explanation
Indices: 8912680--8912710 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
8912670 TCGCTAACTG
8912680 TAGAAAACAAGAATCA
1 TAGAAAACAA-AATCA
8912696 TAGAAAACAAAATCA
1 TAGAAAACAAAATCA
8912711 AAGGACACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.65, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
TAGAAAACAAAATCA
Found at i:8914987 original size:18 final size:18
Alignment explanation
Indices: 8914964--8915000 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8914954 TTATTAGGGA
*
8914964 AGTACCAAAAATAATAAT
1 AGTACCAAAAACAATAAT
*
8914982 AGTACCAATAACAATAAT
1 AGTACCAAAAACAATAAT
8915000 A
1 A
8915001 ATAAAAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (18 bp):
AGTACCAAAAACAATAAT
Found at i:8918199 original size:5 final size:5
Alignment explanation
Indices: 8918189--8918214 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8918179 GAAAGTCTAA
8918189 GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT G
8918215 CCTAATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:8921641 original size:18 final size:18
Alignment explanation
Indices: 8921615--8921657 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
8921605 CAATCATCTG
* *
8921615 ATATAATTAAATAACTTA
1 ATATTATTAAATAAATTA
*
8921633 ATATTATTAATTAAATTA
1 ATATTATTAAATAAATTA
8921651 ATATTAT
1 ATATTAT
8921658 ATAACATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATTAAATAAATTA
Found at i:8930676 original size:3 final size:3
Alignment explanation
Indices: 8930670--8930723 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
8930660 AAGAAACGGA
8930670 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
8930718 AGT AGT
1 AGT AGT
8930724 TGGAAGATGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
AGT
Found at i:8931143 original size:6 final size:6
Alignment explanation
Indices: 8931134--8931170 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
8931124 TCGCTTCCCT
8931134 TTTTTA TTTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
8931171 TATTATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:8931145 original size:7 final size:7
Alignment explanation
Indices: 8931133--8931184 Score: 72
Period size: 7 Copynumber: 7.4 Consensus size: 7
8931123 TTCGCTTCCC
8931133 TTTTTTA
1 TTTTTTA
8931140 TTTTTTA
1 TTTTTTA
8931147 TTTTTTA
1 TTTTTTA
8931154 -TTTTTA
1 TTTTTTA
8931160 -TTTTTA
1 TTTTTTA
8931166 TTTTTTA
1 TTTTTTA
8931173 TTATTTTGA
1 TT-TTTT-A
8931182 TTT
1 TTT
8931185 ATGCTTACGT
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.29
7 22 0.52
8 5 0.12
9 3 0.07
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:8931157 original size:13 final size:13
Alignment explanation
Indices: 8931134--8931174 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
8931124 TCGCTTCCCT
8931134 TTTTTATTTTTTA
1 TTTTTATTTTTTA
8931147 TTTTT-TATTTTTA
1 TTTTTAT-TTTTTA
8931160 TTTTTATTTTTTA
1 TTTTTATTTTTTA
8931173 TT
1 TT
8931175 ATTTTGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:8931186 original size:26 final size:25
Alignment explanation
Indices: 8931134--8931184 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 25
8931124 TCGCTTCCCT
8931134 TTTTTATTTTTTATTTTTTATTTTTA
1 TTTTTATTTTTTATTTTTTA-TTTTA
8931160 TTTTTATTTTTTATTATTTTGATTT
1 TTTTTATTTTTTATT-TTTT-ATTT
8931185 ATGCTTACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 15 0.65
27 7 0.30
28 1 0.04
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (25 bp):
TTTTTATTTTTTATTTTTTATTTTA
Found at i:8938879 original size:28 final size:28
Alignment explanation
Indices: 8938843--8938899 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
8938833 TAAGGGTGTT
8938843 GAATGGCTTAGTTTAGCTTGTGCTTTGA
1 GAATGGCTTAGTTTAGCTTGTGCTTTGA
*
8938871 GAATTGCTTAGTTTAGCTTGTGCTTTGA
1 GAATGGCTTAGTTTAGCTTGTGCTTTGA
8938899 G
1 G
8938900 TCTTTTCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.11, G:0.28, T:0.44
Consensus pattern (28 bp):
GAATGGCTTAGTTTAGCTTGTGCTTTGA
Found at i:8942989 original size:15 final size:15
Alignment explanation
Indices: 8942969--8943010 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
8942959 ATAAATATAA
*
8942969 ATAATTTTAAAACCT
1 ATAATTTTAAAACCG
*
8942984 ATAATTTCAAAACCG
1 ATAATTTTAAAACCG
*
8942999 ATAAATTTAAAA
1 ATAATTTTAAAA
8943011 TATTTTAACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.33
Consensus pattern (15 bp):
ATAATTTTAAAACCG
Found at i:8943587 original size:15 final size:16
Alignment explanation
Indices: 8943567--8943598 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8943557 TAACTTTCAA
8943567 ATTTTAG-AATTTTTT
1 ATTTTAGTAATTTTTT
8943582 ATTTTAGTAATTTTTT
1 ATTTTAGTAATTTTTT
8943598 A
1 A
8943599 GAAACTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
ATTTTAGTAATTTTTT
Found at i:8945054 original size:3 final size:3
Alignment explanation
Indices: 8945046--8945092 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
8945036 GGGAGAAGGG
8945046 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
8945093 GTGATAGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:8950769 original size:25 final size:25
Alignment explanation
Indices: 8950666--8950770 Score: 97
Period size: 25 Copynumber: 4.2 Consensus size: 25
8950656 TATGTCCATA
* * *
8950666 CGAGCATGTA-AACGAAAAGCTCTTT
1 CGAGC-TGTATAACGAGAAGCTCATG
**
8950691 CGAGCCATATAACGAGAAGCTCATG
1 CGAGCTGTATAACGAGAAGCTCATG
**
8950716 TAAGCTGTATAACGAGAAGCTCAAT-
1 CGAGCTGTATAACGAGAAGCTC-ATG
* *
8950741 CGAGCTGTATATCGAGCAGCTCATG
1 CGAGCTGTATAACGAGAAGCTCATG
8950766 CGAGC
1 CGAGC
8950771 CAAATATCAG
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
24 4 0.06
25 58 0.91
26 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (25 bp):
CGAGCTGTATAACGAGAAGCTCATG
Found at i:8962646 original size:25 final size:25
Alignment explanation
Indices: 8962593--8962697 Score: 74
Period size: 24 Copynumber: 4.3 Consensus size: 25
8962583 GCTCTCTTTC
* ***
8962593 GAGCCATATAATGGGAAGCTCATGT
1 GAGCCATGTAATGGGAAGCTCAAAA
*
8962618 GAGCCATGTAATAGGAAGCTCAAAA
1 GAGCCATGTAATGGGAAGCTCAAAA
* *
8962643 GAG-C-TGTAATTGGGAAGTTCAAAC
1 GAGCCATGTAA-TGGGAAGCTCAAAA
* * *
8962667 GAGCCA-AT-ATCGGGAAGCTCCAGA
1 GAGCCATGTAAT-GGGAAGCTCAAAA
8962691 GAGCCAT
1 GAGCCAT
8962698 ATATCGGGAC
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
23 6 0.10
24 31 0.50
25 25 0.40
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (25 bp):
GAGCCATGTAATGGGAAGCTCAAAA
Found at i:8962681 original size:24 final size:25
Alignment explanation
Indices: 8962631--8962711 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 25
8962621 CCATGTAATA
* ** *
8962631 GGAAGCTCAAAAGAGCTGTA-ATTG
1 GGAAGCTCCAAAGAGCCATATATCG
*
8962655 GGAAG-TTCAAACGAGCCA-ATATCG
1 GGAAGCTCCAAA-GAGCCATATATCG
*
8962679 GGAAGCTCCAGAGAGCCATATATCG
1 GGAAGCTCCAAAGAGCCATATATCG
*
8962704 GGACGCTC
1 GGAAGCTC
8962712 ATAAGAGTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
23 5 0.11
24 23 0.51
25 17 0.38
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.17
Consensus pattern (25 bp):
GGAAGCTCCAAAGAGCCATATATCG
Found at i:8962718 original size:25 final size:24
Alignment explanation
Indices: 8962654--8962711 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
8962644 AGCTGTAATT
*
8962654 GGGAAG-TTCAAACGAGCCAATATC
1 GGGAAGCTCCAAA-GAGCCAATATC
*
8962678 GGGAAGCTCCAGAGAGCCATATATC
1 GGGAAGCTCCAAAGAGCCA-ATATC
*
8962703 GGGACGCTC
1 GGGAAGCTC
8962712 ATAAGAGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.31, C:0.24, G:0.29, T:0.16
Consensus pattern (24 bp):
GGGAAGCTCCAAAGAGCCAATATC
Found at i:8966988 original size:9 final size:9
Alignment explanation
Indices: 8966974--8967004 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8966964 GTTAAACGAA
8966974 TCGAGTTAT
1 TCGAGTTAT
*
8966983 TCGAGTTAA
1 TCGAGTTAT
8966992 TCGAGTTAT
1 TCGAGTTAT
8967001 TCGA
1 TCGA
8967005 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:8967345 original size:7 final size:7
Alignment explanation
Indices: 8967333--8967358 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8967323 TCTCTTCCCA
8967333 TCCCACC
1 TCCCACC
8967340 TCCCACC
1 TCCCACC
8967347 TCCCACC
1 TCCCACC
8967354 TCCCA
1 TCCCA
8967359 TCAACCCCAA
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:0.15, C:0.69, G:0.00, T:0.15
Consensus pattern (7 bp):
TCCCACC
Found at i:8967478 original size:20 final size:19
Alignment explanation
Indices: 8967426--8967486 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
8967416 ACTCCCCCTA
* *
8967426 TTTACTTTCCCTC-AAACT
1 TTTATTTTCCCCCAAAACT
8967444 TTTA--TT-CCCCAAAACTT
1 TTTATTTTCCCCCAAAAC-T
*
8967461 TTTATTTTCCCCCTAAACT
1 TTTATTTTCCCCCAAAACT
8967480 TTTATTT
1 TTTATTT
8967487 CTCACCCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 3 0.08
16 6 0.17
17 5 0.14
18 4 0.11
19 10 0.28
20 8 0.22
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATTTTCCCCCAAAACT
Found at i:8967494 original size:20 final size:20
Alignment explanation
Indices: 8967455--8967494 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8967445 TTATTCCCCA
*
8967455 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
8967475 AAAC-TTTTATTTCTCACCCT
1 AAACTTTTTATTT-TCACCCT
8967495 TTACTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:8969317 original size:3 final size:3
Alignment explanation
Indices: 8969309--8969360 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
8969299 ATAAGTAAGT
*
8969309 ATA ATA ATA TATA AT- ATA ATA ATA A-A CTA ATA ATA ATA CAGTA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA
8969355 ATA ATA
1 ATA ATA
8969361 TAAATAAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 3 0.07
3 32 0.76
4 5 0.12
5 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8969330 original size:8 final size:8
Alignment explanation
Indices: 8969297--8969363 Score: 57
Period size: 8 Copynumber: 7.8 Consensus size: 8
8969287 ATATACGCAT
8969297 ATATAAGTA
1 ATATAA-TA
8969306 AGTATAATA
1 A-TATAATA
8969315 ATAT-ATA
1 ATATAATA
8969322 ATATAATA
1 ATATAATA
8969330 ATA-AACTA
1 ATATAA-TA
8969338 ATAATAATA
1 AT-ATAATA
8969347 CAGTAATAATA
1 -A-T-ATAATA
8969358 ATATAA
1 ATATAA
8969364 ATAAACAGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
7 9 0.18
8 17 0.33
9 8 0.16
10 9 0.18
11 8 0.16
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (8 bp):
ATATAATA
Found at i:8969339 original size:11 final size:13
Alignment explanation
Indices: 8969309--8969360 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
8969299 ATAAGTAAGT
8969309 ATAATAATATATA-
1 ATAATAATA-ATAC
*
8969322 AT-ATAATAATAA
1 ATAATAATAATAC
8969334 ACTAATAATAATAC
1 A-TAATAATAATAC
8969348 AGTAATAATAATA
1 A-TAATAATAATA
8969361 TAAATAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 3 0.09
12 7 0.21
13 3 0.09
14 21 0.62
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (13 bp):
ATAATAATAATAC
Found at i:8969343 original size:14 final size:14
Alignment explanation
Indices: 8969324--8969360 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8969314 AATATATAAT
8969324 ATAATAATAAACTA
1 ATAATAATAAACTA
* *
8969338 ATAATAATACAGTA
1 ATAATAATAAACTA
8969352 ATAATAATA
1 ATAATAATA
8969361 TAAATAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (14 bp):
ATAATAATAAACTA
Found at i:8969363 original size:22 final size:22
Alignment explanation
Indices: 8969309--8969388 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
8969299 ATAAGTAAGT
* *
8969309 ATAATAATAT-ATAATATAATA
1 ATAATAATATAATAATACAGTA
*
8969330 ATAA-ACTAATAATAATACAGTA
1 ATAATAAT-ATAATAATACAGTA
8969352 ATAATAATATAAATAA-ACAGTA
1 ATAATAATAT-AATAATACAGTA
* *
8969374 TTAACAATATAATAA
1 ATAATAATATAATAA
8969389 AAAAACTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
20 2 0.04
21 11 0.22
22 29 0.59
23 7 0.14
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (22 bp):
ATAATAATATAATAATACAGTA
Found at i:8972188 original size:44 final size:44
Alignment explanation
Indices: 8972140--8972228 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
8972130 TTGTTTGGAC
8972140 TATAGCTATGGTACCTACAGATAAGGTTACTTGGTTGGATTTCT
1 TATAGCTATGGTACCTACAGATAAGGTTACTTGGTTGGATTTCT
8972184 TATAGCTATGGTACCTACAGATAAGGTTACTTGGTTGGATTTCT
1 TATAGCTATGGTACCTACAGATAAGGTTACTTGGTTGGATTTCT
8972228 T
1 T
8972229 GTAGAGATTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.39
Consensus pattern (44 bp):
TATAGCTATGGTACCTACAGATAAGGTTACTTGGTTGGATTTCT
Found at i:8982068 original size:37 final size:37
Alignment explanation
Indices: 8982024--8982110 Score: 138
Period size: 37 Copynumber: 2.4 Consensus size: 37
8982014 CACTTGTCCC
* *
8982024 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTAACACTTTGTCTCT
*
8982061 TGATCAGATAAGTGTAGCCACTTAACACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACCTAACACTTTGTCTCT
*
8982098 TGATCATATAAGT
1 TGATCAGATAAGT
8982111 ATTGCCGAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTAACACTTTGTCTCT
Found at i:8984456 original size:2 final size:2
Alignment explanation
Indices: 8984449--8984492 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
8984439 TCATTACCAT
8984449 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8984491 CA
1 CA
8984493 TACATATTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:8991761 original size:21 final size:20
Alignment explanation
Indices: 8991737--8991775 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
8991727 GCATAAGAAA
8991737 GAAAAGGGAGGAAGAGAGGTG
1 GAAAAGGGAGGAA-AGAGGTG
* *
8991758 GAAATGGGGGGAAAGAGG
1 GAAAAGGGAGGAAAGAGG
8991776 AGACTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.00, G:0.54, T:0.05
Consensus pattern (20 bp):
GAAAAGGGAGGAAAGAGGTG
Found at i:8995676 original size:41 final size:41
Alignment explanation
Indices: 8995629--8995745 Score: 153
Period size: 41 Copynumber: 2.9 Consensus size: 41
8995619 ATTAGCCTGT
* * *
8995629 TAGACTTAAAGTCCGAATTATTTCACCGGCCTTAAACCTAC
1 TAGACTTTAAGTCTGAATTATATCACCGGCCTTAAACCTAC
* * *
8995670 TGGACTTTAAGTCTGAATTATATCACCGGCCTTAAGCCTGC
1 TAGACTTTAAGTCTGAATTATATCACCGGCCTTAAACCTAC
* * *
8995711 TAGATTTTAAGGCTGAATTATATCACCAGCCTTAA
1 TAGACTTTAAGTCTGAATTATATCACCGGCCTTAA
8995746 GCCTTCTGAA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (41 bp):
TAGACTTTAAGTCTGAATTATATCACCGGCCTTAAACCTAC
Found at i:8995755 original size:28 final size:28
Alignment explanation
Indices: 8995723--8995777 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
8995713 GATTTTAAGG
8995723 CTGAATTATATCACC-AGCCTTAAGCCTT
1 CTGAATTATATCACCGA-CCTTAAGCCTT
8995751 CTGAATTATATCACCGACCTTAAGCCT
1 CTGAATTATATCACCGACCTTAAGCCT
8995778 GCTAGACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (28 bp):
CTGAATTATATCACCGACCTTAAGCCTT
Found at i:8995763 original size:69 final size:69
Alignment explanation
Indices: 8995681--8995814 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 69
8995671 GGACTTTAAG
* *
8995681 TCTGAATTATATCACCGGCCTTAAGCCTGCTAGATTTTAAGGCTGAATTATATCACCAGCCTTAA
1 TCTGAATTATATCACCGACCTTAAGCCTGCTAGACTTTAAGGCTGAATTATATCACCAGCCTTAA
8995746 GCCT
66 GCCT
** *
8995750 TCTGAATTATATCACCGACCTTAAGCCTGCTAGACTTTAAGTTTGAATTATATCACCGGCCTTAA
1 TCTGAATTATATCACCGACCTTAAGCCTGCTAGACTTTAAGGCTGAATTATATCACCAGCCTTAA
8995815 ACCTGCTAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (69 bp):
TCTGAATTATATCACCGACCTTAAGCCTGCTAGACTTTAAGGCTGAATTATATCACCAGCCTTAA
GCCT
Found at i:8995802 original size:41 final size:41
Alignment explanation
Indices: 8995752--8995832 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
8995742 TTAAGCCTTC
*
8995752 TGAATTATATCACCGACCTTAAGCCTGCTAGACTTTAAGTT
1 TGAATTATATCACCGACCTTAAACCTGCTAGACTTTAAGTT
*
8995793 TGAATTATATCACCGGCCTTAAACCTGCTAGACTTTAAGT
1 TGAATTATATCACCGACCTTAAACCTGCTAGACTTTAAGT
8995833 CTAAAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (41 bp):
TGAATTATATCACCGACCTTAAACCTGCTAGACTTTAAGTT
Found at i:8998726 original size:23 final size:22
Alignment explanation
Indices: 8998674--8998727 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
8998664 TATTATATCA
8998674 ATATATATAATACTATAATACT
1 ATATATATAATACTATAATACT
* *
8998696 ATAATATATGATA-TATTAATAGTT
1 AT-ATATATAATACTA-TAATA-CT
8998720 ATATATAT
1 ATATATAT
8998728 TTAACTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
23 20 0.74
24 3 0.11
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (22 bp):
ATATATATAATACTATAATACT
Found at i:9000182 original size:102 final size:102
Alignment explanation
Indices: 9000006--9000203 Score: 387
Period size: 102 Copynumber: 1.9 Consensus size: 102
8999996 AGAATGCATT
9000006 TGACACCTCAAACTCTTAGTAGCCAGCAACTATACCAAGATTCCCAACCAAAGCCGTACCCATCT
1 TGACACCTCAAACTCTTAGTAGCCAGCAACTATACCAAGATTCCCAACCAAAGCCGTACCCATCT
9000071 TCTTGTTAGATATCCGTGTAACTCTCGACTCTGGTTC
66 TCTTGTTAGATATCCGTGTAACTCTCGACTCTGGTTC
*
9000108 TGACACCTCAAACTCTTAGTGGCCAGCAACTATACCAAGATTCCCAACCAAAGCCGTACCCATCT
1 TGACACCTCAAACTCTTAGTAGCCAGCAACTATACCAAGATTCCCAACCAAAGCCGTACCCATCT
9000173 TCTTGTTAGATATCCGTGTAACTCTCGACTC
66 TCTTGTTAGATATCCGTGTAACTCTCGACTC
9000204 CGGTCTCCTT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.27
Consensus pattern (102 bp):
TGACACCTCAAACTCTTAGTAGCCAGCAACTATACCAAGATTCCCAACCAAAGCCGTACCCATCT
TCTTGTTAGATATCCGTGTAACTCTCGACTCTGGTTC
Found at i:9002891 original size:21 final size:21
Alignment explanation
Indices: 9002867--9002913 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
9002857 ACAAAAATTA
9002867 TAAAAA-ATAAAAATAATTTT
1 TAAAAAGATAAAAATAATTTT
*
9002887 CTAAAAAGTTAAAAATAATTTT
1 -TAAAAAGATAAAAATAATTTT
9002909 TAAAA
1 TAAAA
9002914 TTCAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAAAGATAAAAATAATTTT
Found at i:9002922 original size:19 final size:20
Alignment explanation
Indices: 9002874--9002931 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
9002864 TTATAAAAAA
9002874 TAAAAATAATTTTCTAAAAAGT
1 TAAAAATAATTTT-T-AAAAGT
9002896 TAAAAATAATTTTTAAAA-T
1 TAAAAATAATTTTTAAAAGT
* *
9002915 TCAAAAT-ATTTATAAAA
1 TAAAAATAATTTTTAAAA
9002932 ATTTCAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.26
19 7 0.21
20 4 0.12
21 1 0.03
22 13 0.38
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAAATAATTTTTAAAAGT
Found at i:9002932 original size:19 final size:21
Alignment explanation
Indices: 9002864--9002932 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 21
9002854 TCAACAAAAA
*
9002864 TTATAAAAA-ATAAAAATAATT
1 TTATAAAAAGTTAAAAATAA-T
*
9002885 TTCTAAAAAGTTAAAAATAAT
1 TTATAAAAAGTTAAAAATAAT
* *
9002906 TT-TTAAAA-TTCAAAAT-AT
1 TTATAAAAAGTTAAAAATAAT
9002924 TTATAAAAA
1 TTATAAAAA
9002933 TTTCAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 4 0.10
19 12 0.29
20 5 0.12
21 11 0.27
22 9 0.22
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (21 bp):
TTATAAAAAGTTAAAAATAAT
Found at i:9002937 original size:20 final size:19
Alignment explanation
Indices: 9002862--9002939 Score: 59
Period size: 19 Copynumber: 3.9 Consensus size: 19
9002852 TCTCAACAAA
* * *
9002862 AATTATAAAAAATAAAAAT
1 AATTTTAAAAATTCAAAAT
*
9002881 AATTTTCTAAAAAGTTAAAAAT
1 AA-TTT-TAAAAA-TTCAAAAT
*
9002903 AATTTTTAAAATTCAAAAT
1 AATTTTAAAAATTCAAAAT
9002922 -ATTTATAAAAATTTCAAA
1 AATTT-TAAAAA-TTCAAA
9002940 TTTTATATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.08
19 14 0.29
20 13 0.27
21 9 0.18
22 9 0.18
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (19 bp):
AATTTTAAAAATTCAAAAT
Found at i:9003259 original size:14 final size:14
Alignment explanation
Indices: 9003240--9003266 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9003230 GGGTGAGCAA
9003240 AACTCGAATAATTT
1 AACTCGAATAATTT
9003254 AACTCGAATAATT
1 AACTCGAATAATT
9003267 CGAATAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (14 bp):
AACTCGAATAATTT
Found at i:9003271 original size:9 final size:9
Alignment explanation
Indices: 9003257--9003281 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9003247 ATAATTTAAC
9003257 TCGAATAAT
1 TCGAATAAT
9003266 TCGAATAAT
1 TCGAATAAT
9003275 TCGAATA
1 TCGAATA
9003282 TCAAACTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (9 bp):
TCGAATAAT
Found at i:9003548 original size:26 final size:26
Alignment explanation
Indices: 9003493--9003548 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
9003483 CAAAACCTTT
* *
9003493 TATTTTCCCTCAAAATTTTTACTCTC
1 TATTTTCCCTCAAAATTTTTACCCCC
*
9003519 -ATTTTTCCTCCAAAA-TTTTACCCCC
1 TATTTTCCCT-CAAAATTTTTACCCCC
9003544 TATTT
1 TATTT
9003549 ACTTTCCCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (26 bp):
TATTTTCCCTCAAAATTTTTACCCCC
Found at i:9004829 original size:12 final size:12
Alignment explanation
Indices: 9004812--9004836 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9004802 TAATCCTCTC
9004812 AATTTCCTTCCA
1 AATTTCCTTCCA
9004824 AATTTCCTTCCA
1 AATTTCCTTCCA
9004836 A
1 A
9004837 CTCTCTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTTCCTTCCA
Found at i:9004903 original size:51 final size:49
Alignment explanation
Indices: 9004810--9004929 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 49
9004800 TCTAATCCTC
* *
9004810 TCAATTTCCTTCCAAATTTCCTTCCAACTCTCTCAAACCCATATTTAATT
1 TCAATTTCCTTTC-AATTTCCTTCAAACTCTCTCAAACCCATATTTAATT
* *
9004860 TCAATTTCCTTTCAATTTCCTTCTAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTTTCAATTTCCTTC--AAACTCTCTCAAACCCATATTTAATT
**
9004911 TCAATTTCCCCTCAATTTC
1 TCAATTTCCTTTCAATTTC
9004930 ATTTTTTAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
49 10 0.16
50 12 0.19
51 40 0.65
ACGTcount: A:0.28, C:0.29, G:0.00, T:0.43
Consensus pattern (49 bp):
TCAATTTCCTTTCAATTTCCTTCAAACTCTCTCAAACCCATATTTAATT
Found at i:9004963 original size:29 final size:30
Alignment explanation
Indices: 9004930--9004992 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
9004920 CCTCAATTTC
9004930 ATTTTTT-AAAATAA-TTTAAATTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTAT
*
9004958 ATTTTTTAAAAATAATTTTAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTAT
9004988 ATTTT
1 ATTTT
9004993 CATCAATGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 7 0.22
29 7 0.22
30 18 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (30 bp):
ATTTTTTAAAAATAATTTTAAATTTTTTAT
Found at i:9005434 original size:22 final size:23
Alignment explanation
Indices: 9005408--9005450 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
9005398 GGAAAATATT
9005408 AAATAT-ATATTTTTTATTTTTA
1 AAATATAATATTTTTTATTTTTA
9005430 AAATATAATATTTTTTATTTT
1 AAATATAATATTTTTTATTTT
9005451 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
AAATATAATATTTTTTATTTTTA
Found at i:9005659 original size:16 final size:16
Alignment explanation
Indices: 9005638--9005679 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
9005628 AATAATTTGA
*
9005638 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
9005654 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
9005670 TAGTTTTAAT
1 TAATTTTAAT
9005680 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:9005663 original size:22 final size:23
Alignment explanation
Indices: 9005653--9005714 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
9005643 TTACTAACAA
* * *
9005653 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
9005675 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
9005698 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
9005715 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:9006675 original size:7 final size:7
Alignment explanation
Indices: 9006663--9006687 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9006653 AGTCGATTGA
9006663 TATTTAG
1 TATTTAG
9006670 TATTTAG
1 TATTTAG
9006677 TATTTAG
1 TATTTAG
9006684 TATT
1 TATT
9006688 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:9007860 original size:10 final size:10
Alignment explanation
Indices: 9007845--9007869 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9007835 TTTGGACTTA
9007845 ATAATTTTAC
1 ATAATTTTAC
9007855 ATAATTTTAC
1 ATAATTTTAC
9007865 ATAAT
1 ATAAT
9007870 ATTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:9011001 original size:105 final size:106
Alignment explanation
Indices: 9010876--9011076 Score: 323
Period size: 105 Copynumber: 1.9 Consensus size: 106
9010866 AGCAAAATTG
* * *
9010876 CGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATTATGGTAAAAGCGATTTTATAT
1 CGTCCACGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATTATAGTAAAAGCGATTTTATAC
9010941 TATTTGCTCAAAAACGTC-AAAAAAATTATTAGTAAAATCA
66 TATTTGCTCAAAAACGTCAAAAAAAATTATTAGTAAAATCA
* * * *
9010981 CGTCCATGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATTTTAGTAGAAGCGATTTTATAC
1 CGTCCACGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATTATAGTAAAAGCGATTTTATAC
*
9011046 TATTTGCTCAGAAACGTCAAAAAAAATTATT
66 TATTTGCTCAAAAACGTCAAAAAAAATTATT
9011077 TTTTACATGA
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
105 75 0.86
106 12 0.14
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (106 bp):
CGTCCACGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATTATAGTAAAAGCGATTTTATAC
TATTTGCTCAAAAACGTCAAAAAAAATTATTAGTAAAATCA
Found at i:9012379 original size:18 final size:19
Alignment explanation
Indices: 9012327--9012380 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
9012317 AATTCAATAT
*
9012327 TCATACTCAATAATCAT-AA
1 TCATATTCAAT-ATCATAAA
* *
9012346 TCATATTCTATTTCATAAA
1 TCATATTCAATATCATAAA
9012365 T-ATATTCAATATCATA
1 TCATATTCAATATCATA
9012381 CTTACTTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 17 0.59
19 12 0.41
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.41
Consensus pattern (19 bp):
TCATATTCAATATCATAAA
Found at i:9012864 original size:35 final size:35
Alignment explanation
Indices: 9012818--9012889 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
9012808 ACAAGAGTAC
9012818 TTAGTGAGCTCATTAACCATACCTTAATGGATGTT
1 TTAGTGAGCTCATTAACCATACCTTAATGGATGTT
9012853 TTAGTGAGCTCATTAACCATACCTTAATGGATGTT
1 TTAGTGAGCTCATTAACCATACCTTAATGGATGTT
9012888 TT
1 TT
9012890 GCAATCTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (35 bp):
TTAGTGAGCTCATTAACCATACCTTAATGGATGTT
Found at i:9013685 original size:27 final size:27
Alignment explanation
Indices: 9013652--9013722 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
9013642 TCATATAGAG
*
9013652 TATGCCACCAAGGCATTCCATTCAGAA
1 TATGCCACAAAGGCATTCCATTCAGAA
* * ** *
9013679 TTTGCCACAAAGGTATTCTTTTCAGAG
1 TATGCCACAAAGGCATTCCATTCAGAA
9013706 TATGCCACAAAGGCATT
1 TATGCCACAAAGGCATT
9013723 TCTTAGTTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (27 bp):
TATGCCACAAAGGCATTCCATTCAGAA
Found at i:9016012 original size:2 final size:2
Alignment explanation
Indices: 9016005--9016126 Score: 112
Period size: 2 Copynumber: 64.0 Consensus size: 2
9015995 TTCCATTTAA
* * *
9016005 TC TC TC TC TC TA TC TC TA TC TC TC TC -C CC TC -C TC TC TC -C
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* *
9016044 TC TC TC CC TC TC CC TC T- TC -C T- TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * *
9016083 TC TC TC CC TC TC TC TC TC CC TC CC TC TC TC TC CC TC CC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9016125 TC
1 TC
9016127 ATAGTCTCTT
Statistics
Matches: 95, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
1 6 0.06
2 89 0.94
ACGTcount: A:0.02, C:0.56, G:0.00, T:0.43
Consensus pattern (2 bp):
TC
Found at i:9018965 original size:13 final size:12
Alignment explanation
Indices: 9018947--9018984 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
9018937 ATAGTAAAAA
9018947 AAAAAAAACAAC
1 AAAAAAAACAAC
*
9018959 -AAGAAAACAAC
1 AAAAAAAACAAC
9018970 AAACAAAAACAAC
1 AAA-AAAAACAAC
9018983 AA
1 AA
9018985 TTTTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 10 0.45
12 2 0.09
13 10 0.45
ACGTcount: A:0.79, C:0.18, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAC
Found at i:9019746 original size:18 final size:17
Alignment explanation
Indices: 9019710--9019749 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
9019700 TAGTAAAAAT
9019710 ATAATTTTATCATTTTA
1 ATAATTTTATCATTTTA
9019727 ATAA-TTTAT-ATCTTT-
1 ATAATTTTATCAT-TTTA
9019742 ATAATTTT
1 ATAATTTT
9019750 TAAAGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.29
16 11 0.52
17 4 0.19
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAATTTTATCATTTTA
Found at i:9020886 original size:17 final size:17
Alignment explanation
Indices: 9020864--9020898 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9020854 CTAACATTTA
9020864 AGCATATATTCATTGTC
1 AGCATATATTCATTGTC
9020881 AGCATATATTCATTGTC
1 AGCATATATTCATTGTC
9020898 A
1 A
9020899 TTATAGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (17 bp):
AGCATATATTCATTGTC
Found at i:9048058 original size:16 final size:16
Alignment explanation
Indices: 9048033--9048087 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
9048023 TGGATTGGAT
*
9048033 TTTTAAATTATTATTA
1 TTTTATATTATTATTA
9048049 TTTTATATTA-TATTA
1 TTTTATATTATTATTA
9048064 TTTT-TATATATTATGTA
1 TTTTATAT-TATTAT-TA
*
9048081 ATTTATA
1 TTTTATA
9048088 ATACATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 3 0.09
15 11 0.33
16 12 0.36
17 5 0.15
18 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTATATTATTATTA
Found at i:9048059 original size:13 final size:13
Alignment explanation
Indices: 9048040--9048077 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
9048030 GATTTTTAAA
9048040 TTAT-TATTATTT
1 TTATATATTATTT
9048052 TATATTATATTATTT
1 T-TA-TATATTATTT
9048067 TTATATATTAT
1 TTATATATTAT
9048078 GTAATTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 3 0.13
15 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATATATTATTT
Found at i:9048064 original size:18 final size:18
Alignment explanation
Indices: 9048041--9048077 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9048031 ATTTTTAAAT
9048041 TATTATTATTT-TATATTA
1 TATTATT-TTTATATATTA
9048059 TATTATTTTTATATATTA
1 TATTATTTTTATATATTA
9048077 T
1 T
9048078 GTAATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTTTTATATATTA
Found at i:9051968 original size:16 final size:16
Alignment explanation
Indices: 9051939--9052003 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
9051929 TTGATTTGCT
9051939 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* *
9051955 ATTACACCTTTATTCC
1 ATTACGCCTCTATTCC
9051971 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
9051987 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
9052003 A
1 A
9052004 ATACAGCGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.22, C:0.34, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:9053531 original size:20 final size:19
Alignment explanation
Indices: 9053506--9053547 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
9053496 TGTCAAATTT
*
9053506 TTTTTTTTTTGAAAATTAAC
1 TTTTTTTCTTGAAAATT-AC
*
9053526 TTTTTTTCTTGGAAATTAC
1 TTTTTTTCTTGAAAATTAC
9053545 TTT
1 TTT
9053548 CAGGTAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTTTTTCTTGAAAATTAC
Found at i:9054210 original size:20 final size:20
Alignment explanation
Indices: 9054163--9054211 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
9054153 TTTTATTTTC
* *
9054163 AATTAAAATTAAAAATTATA
1 AATTAAATTTAAAAACTATA
* *
9054183 AAAT-AATTTAAAAACTATT
1 AATTAAATTTAAAAACTATA
9054202 AATTAAATTT
1 AATTAAATTT
9054212 TATTATTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTAAATTTAAAAACTATA
Found at i:9055273 original size:3 final size:3
Alignment explanation
Indices: 9055230--9055310 Score: 67
Period size: 3 Copynumber: 26.0 Consensus size: 3
9055220 TTTAGCAATC
* *
9055230 TTA TTA TT- TTT TTAA TTA TT- TTAA TGTA TTA TCA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TT-A T-TA TTA TTA -TTA TTA TTA TTA
* *
9055277 TTA TTA CTA TTA TTA TCA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
9055311 GTTTTATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
2 4 0.06
3 49 0.77
4 10 0.16
5 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Done.