Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 20 of 199
Found at i:8147482 original size:25 final size:25
Alignment explanation
Indices: 8147454--8147501 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
8147444 AATAAAATAA
8147454 AATTTATTTTTA-ATATTTTAATAGT
1 AATTTATTTTTATAT-TTTTAATAGT
8147479 AATTTATTTTTATATTTTTAATA
1 AATTTATTTTTATATTTTTAATA
8147502 AAATAGAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
AATTTATTTTTATATTTTTAATAGT
Found at i:8150793 original size:15 final size:14
Alignment explanation
Indices: 8150755--8150795 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
8150745 TGTTTTTTAC
8150755 ATTATCTTTTCAAA
1 ATTATCTTTTCAAA
* *
8150769 ACTGTCTTTTCAAA
1 ATTATCTTTTCAAA
8150783 ATTATTCTTTTCA
1 ATTA-TCTTTTCA
8150796 TAAACCACTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.51
Consensus pattern (14 bp):
ATTATCTTTTCAAA
Found at i:8150910 original size:34 final size:32
Alignment explanation
Indices: 8150866--8150982 Score: 108
Period size: 34 Copynumber: 3.5 Consensus size: 32
8150856 CTAAACACAA
*
8150866 AATTATTTAAAAAAACTAACCCATAATTTAATT
1 AATTTTTTAAAAAAACTAACCC-TAATTTAATT
**
8150899 AATTTTCTTAAAAACCCTAATCCCTAATTTAATT
1 AATTTT-TTAAAAAAACTAA-CCCTAATTTAATT
*** * *
8150933 AATTTATTTAAAATCTCAAAAACCTAATTTAATT
1 AATTT-TTTAAAAAAAC-TAACCCTAATTTAATT
8150967 AATTTTTTTAAAAAAA
1 AA-TTTTTTAAAAAAA
8150983 ATCTTAAACC
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
33 5 0.07
34 55 0.80
35 9 0.13
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (32 bp):
AATTTTTTAAAAAAACTAACCCTAATTTAATT
Found at i:8154680 original size:21 final size:21
Alignment explanation
Indices: 8154654--8154694 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8154644 AGACGAGCAA
* *
8154654 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
8154675 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
8154695 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:8170412 original size:20 final size:20
Alignment explanation
Indices: 8170370--8170412 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
8170360 ATACCCTCAA
*
8170370 AATAATATTAGTTGCTTTAT
1 AATAATATTAGATGCTTTAT
*
8170390 AATAATATTGGAT-CTTTAGT
1 AATAATATTAGATGCTTTA-T
8170410 AAT
1 AAT
8170413 TTCGCAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (20 bp):
AATAATATTAGATGCTTTAT
Found at i:8181008 original size:24 final size:26
Alignment explanation
Indices: 8180950--8181029 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 26
8180940 GAACTTCCCA
* * *
8180950 TTATATGGCTATCCG-GTGCTACCCG
1 TTATATGGCTCTACGTGAGCTACCCG
*
8180975 TTA-ATTGCTCTACG-GAGCTACCCG
1 TTATATGGCTCTACGTGAGCTACCCG
** *
8180999 TTATA-GGCTCTTTGTGAGCTTCCCG
1 TTATATGGCTCTACGTGAGCTACCCG
8181024 TTATAT
1 TTATAT
8181030 TTCTCGGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
24 26 0.59
25 18 0.41
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
TTATATGGCTCTACGTGAGCTACCCG
Found at i:8186248 original size:41 final size:39
Alignment explanation
Indices: 8186200--8186311 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 39
8186190 TCGACCTTGA
8186200 GTCGATGAGACACTGGGTGTCATACTATTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-ACTATTACTTCGGATAG
* ** ** * *
8186240 ATTCGATGAGGTACTGGGTACCAAC--TTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
* *
8186278 GCCGATGAGACACTGGGTGTCAACTATTGCTTCG
1 GTCGATGAGACACTGGGTGTCAACTATTACTTCG
8186312 AACTATCCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
37 18 0.33
38 11 0.20
39 7 0.13
40 2 0.04
41 17 0.31
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
Found at i:8187041 original size:17 final size:17
Alignment explanation
Indices: 8186992--8187042 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
8186982 ATGTGGCATG
*
8186992 TACCTAAGTAATGTACA
1 TACCTAAGTAATGTATA
*
8187009 TACCTAGGTAATGTATA
1 TACCTAAGTAATGTATA
*
8187026 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
8187043 GAGATTAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:8196111 original size:6 final size:6
Alignment explanation
Indices: 8196100--8196134 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
8196090 CATTTAAAAG
8196100 TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTG
1 TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTG
8196135 GATATGGAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.00, G:0.51, T:0.34
Consensus pattern (6 bp):
TGGTGA
Found at i:8209985 original size:23 final size:24
Alignment explanation
Indices: 8209929--8209986 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 24
8209919 TTGCCCATAT
8209929 TAAATATATATATTTGATTAAAAA
1 TAAATATATATATTTGATTAAAAA
*
8209953 TAAAAAATATATATTTGATTAAAAA
1 T-AAATATATATATTTGATTAAAAA
8209978 T-AATATATA
1 TAAATATATA
8209987 AGTCGGGCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 7 0.23
24 1 0.03
25 23 0.74
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (24 bp):
TAAATATATATATTTGATTAAAAA
Found at i:8217425 original size:9 final size:9
Alignment explanation
Indices: 8217411--8217449 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
8217401 TTTAGAAGGA
8217411 AATTAATTT
1 AATTAATTT
8217420 AATTAATTTT
1 AATTAA-TTT
8217430 AATATTAATTT
1 -A-ATTAATTT
8217441 AATTAATTT
1 AATTAATTT
8217450 CAATATTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 14 0.52
10 4 0.15
11 4 0.15
12 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTAATTT
Found at i:8217436 original size:21 final size:21
Alignment explanation
Indices: 8217412--8217456 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
8217402 TTAGAAGGAA
*
8217412 ATTAATTTAATTAATTTTAAT
1 ATTAATTTAATTAATTTCAAT
8217433 ATTAATTTAATTAATTTCAAT
1 ATTAATTTAATTAATTTCAAT
8217454 ATT
1 ATT
8217457 GAAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTAATTTAATTAATTTCAAT
Found at i:8217960 original size:20 final size:20
Alignment explanation
Indices: 8217932--8217979 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
8217922 CAATGAGTAA
8217932 AAAAT-ATTTTT-TTTTTAAT
1 AAAATAATTTTTATTTTT-AT
8217951 AAAATAATTTTTATTTTTAT
1 AAAATAATTTTTATTTTTAT
8217971 AAAA-AATTT
1 AAAATAATTT
8217980 AAATAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.37
20 12 0.44
21 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AAAATAATTTTTATTTTTAT
Found at i:8218144 original size:21 final size:22
Alignment explanation
Indices: 8218119--8218169 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
8218109 CCAATGAGTA
*
8218119 ATTTTATATGTATATTGTAACT
1 ATTTTATATGAATATTGTAACT
* *
8218141 -TTTTGTATGAATATTGTAATT
1 ATTTTATATGAATATTGTAACT
8218162 ATTTTATA
1 ATTTTATA
8218170 ATTAATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (22 bp):
ATTTTATATGAATATTGTAACT
Found at i:8218231 original size:27 final size:25
Alignment explanation
Indices: 8218228--8218275 Score: 55
Period size: 23 Copynumber: 2.0 Consensus size: 25
8218218 TAATTTTGTA
* *
8218228 ATTTTATATGAATATTGTAATATTG
1 ATTTTGTATGAATATTGTAATTTTG
8218253 --TTTGTATGAATATTGTAACTTTT
1 ATTTTGTATGAATATTGTAA-TTTT
8218276 TGTATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.54
Consensus pattern (25 bp):
ATTTTGTATGAATATTGTAATTTTG
Found at i:8218454 original size:15 final size:16
Alignment explanation
Indices: 8218419--8218454 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
8218409 AACATAAAAG
8218419 TTTATATAATGTAACT
1 TTTATATAATGTAACT
*
8218435 TTTATATTATGTAA-T
1 TTTATATAATGTAACT
8218450 TTTAT
1 TTTAT
8218455 TTGATTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTATATAATGTAACT
Found at i:8218793 original size:28 final size:29
Alignment explanation
Indices: 8218748--8218813 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
8218738 GATAGGCAAT
8218748 TTTC-GTAAATAATTTTTTTGAC-ACCCTA
1 TTTCAGTAAATAATTTTTTT-ACTACCCTA
*
8218776 TTTCAGTACATAATTTTTTT-CTACCCTA
1 TTTCAGTAAATAATTTTTTTACTACCCTA
*
8218804 TTTGAGTAAA
1 TTTCAGTAAA
8218814 AAACCCTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 1 0.03
28 18 0.55
29 14 0.42
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.47
Consensus pattern (29 bp):
TTTCAGTAAATAATTTTTTTACTACCCTA
Found at i:8234981 original size:22 final size:21
Alignment explanation
Indices: 8234952--8235007 Score: 85
Period size: 22 Copynumber: 2.6 Consensus size: 21
8234942 TGCACTAATG
8234952 AACAGAGAGCACTGAAGTGCT
1 AACAGAGAGCACTGAAGTGCT
*
8234973 ATACAGAGAGCACTGATGTGCT
1 A-ACAGAGAGCACTGAAGTGCT
8234995 AATCAGAGAGCAC
1 AA-CAGAGAGCAC
8235008 CAACGTGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.16
Consensus pattern (21 bp):
AACAGAGAGCACTGAAGTGCT
Found at i:8235015 original size:22 final size:22
Alignment explanation
Indices: 8234953--8235030 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 22
8234943 GCACTAATGA
*
8234953 ACAGAGAGCACTGAAGTGCT-AT
1 ACAGAGAGCAC-CAAGTGCTAAT
* *
8234975 ACAGAGAGCACTGATGTGCTAAT
1 ACAGAGAGCAC-CAAGTGCTAAT
8234998 -CAGAGAGCACCAACGTGCTAAT
1 ACAGAGAGCACCAA-GTGCTAAT
8235020 AATCAGAGAGC
1 -A-CAGAGAGC
8235031 GCGCTAAAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
21 1 0.02
22 37 0.77
23 2 0.04
25 8 0.17
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.17
Consensus pattern (22 bp):
ACAGAGAGCACCAAGTGCTAAT
Found at i:8235790 original size:83 final size:83
Alignment explanation
Indices: 8235691--8235855 Score: 330
Period size: 83 Copynumber: 2.0 Consensus size: 83
8235681 AACCCTTTAC
8235691 TAACTTCTAACTTGAAATTCAATCAATTTAACCCCCAATTCGTCAATTAATTCAACACAACTCAT
1 TAACTTCTAACTTGAAATTCAATCAATTTAACCCCCAATTCGTCAATTAATTCAACACAACTCAT
8235756 GTCTAAAAATCAACTATA
66 GTCTAAAAATCAACTATA
8235774 TAACTTCTAACTTGAAATTCAATCAATTTAACCCCCAATTCGTCAATTAATTCAACACAACTCAT
1 TAACTTCTAACTTGAAATTCAATCAATTTAACCCCCAATTCGTCAATTAATTCAACACAACTCAT
8235839 GTCTAAAAATCAACTAT
66 GTCTAAAAATCAACTAT
8235856 CTTTAAAAAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.32
Consensus pattern (83 bp):
TAACTTCTAACTTGAAATTCAATCAATTTAACCCCCAATTCGTCAATTAATTCAACACAACTCAT
GTCTAAAAATCAACTATA
Found at i:8237260 original size:15 final size:16
Alignment explanation
Indices: 8237240--8237274 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
8237230 ATATTCTAGA
*
8237240 AAAAAAATAT-AAATT
1 AAAAAAATATGAAAAT
8237255 AAAAAAATATGAAAAT
1 AAAAAAATATGAAAAT
8237271 AAAA
1 AAAA
8237275 TTTACAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AAAAAAATATGAAAAT
Found at i:8238875 original size:15 final size:15
Alignment explanation
Indices: 8238837--8238867 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8238827 TTAAAATAAA
*
8238837 TTAAATAATGTTAAG
1 TTAAAAAATGTTAAG
8238852 TTAAAAAATGTTAAG
1 TTAAAAAATGTTAAG
8238867 T
1 T
8238868 ACAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (15 bp):
TTAAAAAATGTTAAG
Found at i:8244218 original size:23 final size:24
Alignment explanation
Indices: 8244192--8244241 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
8244182 TGGAATTTGA
* *
8244192 TGAAAC-GTATAAGTTAAATTGTT
1 TGAAACTGTAAAAGTTAAATTGCT
8244215 TG-AACTGTAAAAGTTAAATTGCT
1 TGAAACTGTAAAAGTTAAATTGCT
8244238 TGAA
1 TGAA
8244242 CAGGTTGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 19 0.83
24 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (24 bp):
TGAAACTGTAAAAGTTAAATTGCT
Found at i:8247600 original size:17 final size:16
Alignment explanation
Indices: 8247563--8247604 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
8247553 TCTTTATGTA
*
8247563 ATTTTATTTTTTTAAT
1 ATTTTATATTTTTAAT
8247579 ATTTTATATTTTTAAGT
1 ATTTTATATTTTTAA-T
*
8247596 CTTTTATAT
1 ATTTTATAT
8247605 AATAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
ATTTTATATTTTTAAT
Found at i:8260051 original size:18 final size:16
Alignment explanation
Indices: 8260014--8260064 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
8260004 AAATTATAAA
8260014 AAATTAATATAAAAAC
1 AAATTAATATAAAAAC
*
8260030 AAATTAATTTAACAATAC
1 AAATTAATATAA-AA-AC
*
8260048 AAA-TAAAATAAATAAC
1 AAATTAATATAAA-AAC
8260064 A
1 A
8260065 TGTAAGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 15 0.52
17 9 0.31
18 5 0.17
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATTAATATAAAAAC
Found at i:8272156 original size:18 final size:18
Alignment explanation
Indices: 8272118--8272153 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8272108 TTATTATTTT
*
8272118 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
8272136 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
8272154 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:8275115 original size:6 final size:6
Alignment explanation
Indices: 8275106--8275130 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8275096 ACATTTTATT
8275106 ATTTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTTA A
8275131 ATAATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATTTTA
Found at i:8277221 original size:25 final size:25
Alignment explanation
Indices: 8277169--8277273 Score: 101
Period size: 25 Copynumber: 4.3 Consensus size: 25
8277159 CACTAATGAA
* *
8277169 CAGAGAGCATTAAAGTGCT--ATAT
1 CAGAGAGCACTAACGTGCTAAATAT
* *
8277192 -AGAGAGCACTGACATGCTAAATAT
1 CAGAGAGCACTAACGTGCTAAATAT
* *
8277216 CAGAGAACACCAACGTGCT-AATAGT
1 CAGAGAGCACTAACGTGCTAAATA-T
* *
8277241 CAGAGAGCACTAACGTGTTAAAAAT
1 CAGAGAGCACTAACGTGCTAAATAT
8277266 CAGAGAGC
1 CAGAGAGC
8277274 GCGCTAAAGT
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
22 14 0.22
24 8 0.12
25 40 0.62
26 3 0.05
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAAATAT
Found at i:8278390 original size:5 final size:5
Alignment explanation
Indices: 8278374--8278410 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
8278364 TTTGTTTTAT
8278374 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA A
8278411 CAACTTACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:8282146 original size:27 final size:27
Alignment explanation
Indices: 8282108--8282163 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
8282098 AAGAGAGGAG
8282108 AAGAAAGAAAGTTTTGCTTTCTTTACA
1 AAGAAAGAAAGTTTTGCTTTCTTTACA
8282135 AAGAAAGAAAGTTTTGCTTTCTTTACA
1 AAGAAAGAAAGTTTTGCTTTCTTTACA
8282162 AA
1 AA
8282164 TTGGTCATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (27 bp):
AAGAAAGAAAGTTTTGCTTTCTTTACA
Found at i:8286014 original size:37 final size:37
Alignment explanation
Indices: 8285963--8286110 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
8285953 TAGCTAGGCT
****
8285963 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
8286000 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
8286037 ACCACTTATCACTTTTTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
8286074 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
8286111 GCTAAAACTA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:8291958 original size:19 final size:18
Alignment explanation
Indices: 8291910--8291949 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
8291900 GTAAATTTTA
8291910 TTAT-ATAATTTAATAAT
1 TTATAATAATTTAATAAT
8291927 TTATAATAATTTAATAAAT
1 TTATAATAATTTAAT-AAT
8291946 TTAT
1 TTAT
8291950 TTTTATTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATAATAATTTAATAAT
Found at i:8292638 original size:19 final size:19
Alignment explanation
Indices: 8292605--8292661 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
8292595 CCTAATTCTA
8292605 AAAAATAT-ATAAATATTTT
1 AAAAATATAAT-AATATTTT
*
8292624 AAAAATATAATAATAAATTT
1 AAAAATATAATAAT-ATTTT
*
8292644 AAATTATATAATAATATT
1 AAA-AATATAATAATATT
8292662 AGTATTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 11 0.34
20 11 0.34
21 10 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATATAATAATATTTT
Found at i:8292643 original size:21 final size:20
Alignment explanation
Indices: 8292621--8292659 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8292611 ATATAAATAT
8292621 TTTAAAAATATAATAATAAA
1 TTTAAAAATATAATAATAAA
*
8292641 TTTAAATTATATAATAATA
1 TTTAAA-AATATAATAATA
8292660 TTAGTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAAAAATATAATAATAAA
Found at i:8295868 original size:38 final size:38
Alignment explanation
Indices: 8295826--8295898 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
8295816 CAGTCACCAA
*
8295826 CGTTATTGAAAAGTGACAAATCAATCACTCATTAATAT
1 CGTTATCGAAAAGTGACAAATCAATCACTCATTAATAT
* *
8295864 CGTTATCGAAAAGTTACAAATCAGTCACTCATTAA
1 CGTTATCGAAAAGTGACAAATCAATCACTCATTAA
8295899 CATTTTCAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (38 bp):
CGTTATCGAAAAGTGACAAATCAATCACTCATTAATAT
Found at i:8296041 original size:25 final size:25
Alignment explanation
Indices: 8296013--8296064 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
8296003 TTTTTTCGTC
8296013 TTTCCTTTTCCT-TTGTTTTAATAAA
1 TTTCCTTTT-CTATTGTTTTAATAAA
8296038 TTTCCTTTTCTATTGTTTTAATAAA
1 TTTCCTTTTCTATTGTTTTAATAAA
8296063 TT
1 TT
8296065 GCCTAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.21, C:0.13, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTCCTTTTCTATTGTTTTAATAAA
Found at i:8298196 original size:27 final size:25
Alignment explanation
Indices: 8298180--8298287 Score: 82
Period size: 24 Copynumber: 4.5 Consensus size: 25
8298170 GCATTCTCTC
*
8298180 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATCT
* *
8298205 GAGCCATGTAACGGGAAGCTTATC-
1 GAGCCATATAACGGGAAGCTCATCT
* * * **
8298229 CAGGC-TATAACAGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATCT
* *
8298253 GAGCCATA-ATCAGGAAGCTCATAC-
1 GAGCCATATAACGGGAAGCTCAT-CT
8298277 GAGCCA-ATAAC
1 GAGCCATATAAC
8298288 AGGTAGGTCT
Statistics
Matches: 65, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
23 15 0.23
24 27 0.42
25 23 0.35
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATCT
Found at i:8298319 original size:73 final size:73
Alignment explanation
Indices: 8298239--8298431 Score: 176
Period size: 73 Copynumber: 2.6 Consensus size: 73
8298229 CAGGCTATAA
* * *
8298239 CAGGAAGCTCATAAGAGCCATAATCAGGAAGCTCATACGAGCCAATAACAGGTAGGTCTGAAAAG
1 CAGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATACGAGCCAATAACAGGTAGCTCCGAAAAG
8298304 CCATTAAT
66 CCATTAAT
* * * * * *
8298312 CAGGAAGCTC-TAGATAGCCATATATCGGGAAGTTCA-AGCGAGTC-ATATCGGGTAGCTCCGGA
1 CAGGAAGCTCATA-AGAGCCATA-ATCGGGAAGCTCATA-CGAGCCAATAACAGGTAGCTCCGAA
**
8298374 GTGCCATTAAT
63 AAGCCATTAAT
* * * *
8298385 TAGGAAGCTCACAAAGAGCCTTTAATCGGGAAGCTCATGAAGAGCCA
1 CAGGAAGCTCA-TAAGAGCC-ATAATCGGGAAGCTCAT-ACGAGCCA
8298432 TACATGAGGA
Statistics
Matches: 93, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
72 2 0.02
73 50 0.54
74 33 0.35
75 7 0.08
76 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (73 bp):
CAGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATACGAGCCAATAACAGGTAGCTCCGAAAAG
CCATTAAT
Found at i:8298410 original size:26 final size:26
Alignment explanation
Indices: 8298380--8298430 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
8298370 CGGAGTGCCA
*
8298380 TTAATTAGGAAGCTCACAAAGAGCCT
1 TTAATCAGGAAGCTCACAAAGAGCCT
* **
8298406 TTAATCGGGAAGCTCATGAAGAGCC
1 TTAATCAGGAAGCTCACAAAGAGCC
8298431 ATACATGAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (26 bp):
TTAATCAGGAAGCTCACAAAGAGCCT
Found at i:8301723 original size:41 final size:41
Alignment explanation
Indices: 8301678--8301852 Score: 165
Period size: 42 Copynumber: 4.2 Consensus size: 41
8301668 TGATTCAGTA
* * *
8301678 CACCGGTACTTAA-CCTACTAGAAATATAGTCTGAAATGTTT
1 CACCGGCA-TTAACCCTACTAGAAGTAAAGTCTGAAATGTTT
* * *
8301719 CACCGGCATTAACCCTGCTAGACGTAAAGTCTGATATTGTTT
1 CACCGGCATTAACCCTACTAGAAGTAAAGTCTGA-AATGTTT
* * *
8301761 TACCGGCATTAAGCCC-ACTAGATGTAAAGTCTGAAATTATTT
1 CACCGGCATTAA-CCCTACTAGAAGTAAAGTCTGAAA-TGTTT
* * * *
8301803 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
1 CACCGGCATTAACCCTACTAGAAGTAAAGTCTGA-AATGTTT
*
8301845 CACTGGCA
1 CACCGGCA
8301853 ATAAGCCTGC
Statistics
Matches: 110, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
40 4 0.04
41 27 0.25
42 75 0.68
43 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (41 bp):
CACCGGCATTAACCCTACTAGAAGTAAAGTCTGAAATGTTT
Found at i:8301768 original size:42 final size:42
Alignment explanation
Indices: 8301705--8301865 Score: 209
Period size: 42 Copynumber: 3.9 Consensus size: 42
8301695 CTAGAAATAT
*
8301705 AGTCTGA-AATGTTTCACCGGCATTAACCCTGCTAGACGTAA
1 AGTCTGATATTGTTTCACCGGCATTAACCCTGCTAGACGTAA
* * *
8301746 AGTCTGATATTGTTTTACCGGCATTAAGCCC-ACTAGATGTAA
1 AGTCTGATATTGTTTCACCGGCATTAA-CCCTGCTAGACGTAA
* * *
8301788 AGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAA
1 AGTCTGATATTGTTTCACCGGCATTAACCCTGCTAGACGTAA
* * *
8301830 AGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAG
1 AGTCTGATATTGTTTCACCGGCATTAACCCTGCTAG
8301866 GCACTAAGCC
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
41 9 0.09
42 91 0.88
43 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (42 bp):
AGTCTGATATTGTTTCACCGGCATTAACCCTGCTAGACGTAA
Found at i:8301821 original size:84 final size:83
Alignment explanation
Indices: 8301705--8301859 Score: 256
Period size: 84 Copynumber: 1.9 Consensus size: 83
8301695 CTAGAAATAT
* * *
8301705 AGTCTGAAATGTTTCACCGGCATTAACCCTGCTAGACGTAAAGTCTGATATTGTTTTACCGGCAT
1 AGTCTGAAATATTTCACCGGCATTAACCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCAA
8301770 TAAGCCCACTAGATGTAA
66 TAAGCCCACTAGATGTAA
* *
8301788 AGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCA
1 AGTCTGAAA-TATTTCACCGGCATTAACCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCA
8301853 ATAAGCC
65 ATAAGCC
8301860 TGCTAGGCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
83 9 0.14
84 57 0.86
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (83 bp):
AGTCTGAAATATTTCACCGGCATTAACCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCAA
TAAGCCCACTAGATGTAA
Found at i:8306121 original size:20 final size:20
Alignment explanation
Indices: 8306096--8306149 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
8306086 ATTTGAAGAA
*
8306096 CAATATTGTCCATTCATATT
1 CAATATTGTTCATTCATATT
8306116 CAATATTGTTCATTCATATT
1 CAATATTGTTCATTCATATT
8306136 CAATATTGTTCATT
1 CAATATTGTTCATT
8306150 TGAACAACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.48
Consensus pattern (20 bp):
CAATATTGTTCATTCATATT
Found at i:8307240 original size:6 final size:6
Alignment explanation
Indices: 8307220--8307258 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
8307210 ACCCTAGCTT
*
8307220 TTTCTC CTT-TC TTTCTC TTTCTC TTTCTC TTT-TC TTTCT
1 TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCT
8307259 TTCCTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 9 0.31
6 20 0.69
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTCTC
Found at i:8307242 original size:17 final size:17
Alignment explanation
Indices: 8307220--8307258 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
8307210 ACCCTAGCTT
8307220 TTTCTCCTTTCT-TTCTC
1 TTTCT-CTTTCTCTTCTC
*
8307237 TTTCTCTTTCTCTTTTC
1 TTTCTCTTTCTCTTCTC
8307254 TTTCT
1 TTTCT
8307259 TTCCTTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTCTCTTTCTCTTCTC
Found at i:8307323 original size:16 final size:16
Alignment explanation
Indices: 8307276--8307327 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
8307266 TCTAGTTTCG
*
8307276 TTTCAATTTATTTCTT
1 TTTCATTTTATTTCTT
*
8307292 TTTCTTTTTCTATTTCTT
1 TTTC-ATTT-TATTTCTT
8307310 TTTCATTTTATTTCTT
1 TTTCATTTTATTTCTT
8307326 TT
1 TT
8307328 GTTTTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 14 0.45
17 5 0.16
18 12 0.39
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCATTTTATTTCTT
Found at i:8307357 original size:13 final size:13
Alignment explanation
Indices: 8307339--8307366 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8307329 TTTTAATTAT
8307339 TATAACAATATAA
1 TATAACAATATAA
8307352 TATAACAATATAA
1 TATAACAATATAA
8307365 TA
1 TA
8307367 ATATTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
TATAACAATATAA
Found at i:8310953 original size:5 final size:5
Alignment explanation
Indices: 8310934--8311022 Score: 54
Period size: 6 Copynumber: 16.4 Consensus size: 5
8310924 ATTATATTAT
* *
8310934 AAAGA TAAAGAA AAAGAA AAAGA AATAGA AAAGA AGGAGA GAAAGA AATGA
1 AAAGA -AAAG-A AAAG-A AAAGA AA-AGA AAAGA A-AAGA -AAAGA AAAGA
* * *
8310985 AACAGA AAAGG AAAG- AAAGG AAAGAA AAAAA AAAGA AA
1 AA-AGA AAAGA AAAGA AAAGA AAAG-A AAAGA AAAGA AA
8311023 GAAGGAGAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
4 4 0.06
5 30 0.44
6 32 0.47
7 2 0.03
ACGTcount: A:0.73, C:0.01, G:0.22, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:8311384 original size:18 final size:18
Alignment explanation
Indices: 8311361--8311398 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
8311351 TTTGTATGAA
*
8311361 AATATAAGATTGACTGTG
1 AATATAAGATTGACTATG
8311379 AATATAAGATTGACTATG
1 AATATAAGATTGACTATG
8311397 AA
1 AA
8311399 GAAATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (18 bp):
AATATAAGATTGACTATG
Found at i:8312797 original size:11 final size:11
Alignment explanation
Indices: 8312781--8312807 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8312771 ACGGGCAGAG
8312781 ATAATTTTACT
1 ATAATTTTACT
8312792 ATAATTTTACT
1 ATAATTTTACT
8312803 ATAAT
1 ATAAT
8312808 GCCAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (11 bp):
ATAATTTTACT
Found at i:8317322 original size:2 final size:2
Alignment explanation
Indices: 8317315--8317347 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8317305 TCATTTCAGG
8317315 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8317348 TAAGATATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8320884 original size:4 final size:4
Alignment explanation
Indices: 8320875--8320911 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
8320865 TCGCCTGTCA
* *
8320875 ACAT ACAT ACAT ACAT ACAT ACAC AGAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
8320912 TAGGAGCACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:8327383 original size:21 final size:22
Alignment explanation
Indices: 8327358--8327413 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
8327348 AAATCTTTAA
8327358 TTTAAAAAATTGT-TAGAAATT
1 TTTAAAAAATTGTATAGAAATT
*
8327379 TTTAAAAAATTTGTATTGAAATT
1 TTTAAAAAA-TTGTATAGAAATT
*
8327402 TATTAATAAATT
1 T-TTAAAAAATT
8327414 TAGGAAGAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 9 0.30
22 4 0.13
23 10 0.33
24 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (22 bp):
TTTAAAAAATTGTATAGAAATT
Found at i:8328049 original size:26 final size:25
Alignment explanation
Indices: 8328004--8328052 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
8327994 ATGCTTTATC
*
8328004 ATTTTAAATTTTTATATTTTTTAAA
1 ATTTTAAATTTTAATATTTTTTAAA
*
8328029 ATTTTGAAATTTTAATTTTTTTTA
1 ATTTT-AAATTTTAATATTTTTTA
8328053 CCAACATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTTAAATTTTAATATTTTTTAAA
Found at i:8342347 original size:5 final size:6
Alignment explanation
Indices: 8342331--8342357 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8342321 CAACTGCCCC
8342331 ATTTTT ATTTTT ATTTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT
8342358 GTAATCCGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:8344679 original size:50 final size:50
Alignment explanation
Indices: 8344604--8344801 Score: 252
Period size: 50 Copynumber: 3.8 Consensus size: 50
8344594 GATAATAACA
* * *
8344604 TGCCAAAGCCATGTCCCAGACATGGTCTTATAGGGGAGCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
8344654 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
8344704 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
8344759 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
8344802 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
50 85 0.66
53 2 0.02
54 1 0.01
55 2 0.02
56 39 0.30
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:8344789 original size:106 final size:100
Alignment explanation
Indices: 8344611--8344801 Score: 283
Period size: 106 Copynumber: 1.9 Consensus size: 100
8344601 ACATGCCAAA
* * *
8344611 GCCATGTCCCAGACATGGTCTTATAGGGGAGCTCTCATCTCGGTGCCAACGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTAGGTGCCAACGCCATGTCCCAGACA
8344676 TGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
66 TGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
8344711 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAATGCCATGTCC
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-AGG-TGCCAACGCCATGTCC
*
8344776 CAGACATGGTCTTACATGGGATCTCT
60 CAGACATGGTCTTACATGGGACCTCT
8344802 TTACCCAAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
100 34 0.43
103 3 0.04
104 1 0.01
105 2 0.03
106 40 0.50
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (100 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTAGGTGCCAACGCCATGTCCCAGACA
TGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:8345162 original size:30 final size:30
Alignment explanation
Indices: 8345126--8345183 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8345116 CATCGACTCT
*
8345126 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
8345156 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
8345184 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:8346696 original size:2 final size:2
Alignment explanation
Indices: 8346689--8346716 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8346679 TGTTATTTTG
8346689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8346717 TACAAATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8351797 original size:15 final size:15
Alignment explanation
Indices: 8351777--8351820 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
8351767 ATTAATTTAG
8351777 AAATTTCAATTAATT
1 AAATTTCAATTAATT
*
8351792 AAATTT-ATTTAATT
1 AAATTTCAATTAATT
**
8351806 AAAAATCAATTAATT
1 AAATTTCAATTAATT
8351821 TATCTAGCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATTTCAATTAATT
Found at i:8357048 original size:27 final size:27
Alignment explanation
Indices: 8357018--8357074 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
8357008 TTTATATACA
8357018 AATACA-TTTATAAAACTAATATTAATT
1 AATACACTTTATAAAA-TAATATTAATT
* * **
8357045 AATATACTTTTTGTAATAATATTAATT
1 AATACACTTTATAAAATAATATTAATT
8357072 AAT
1 AAT
8357075 TTTAATAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (27 bp):
AATACACTTTATAAAATAATATTAATT
Found at i:8365326 original size:19 final size:20
Alignment explanation
Indices: 8365304--8365369 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 20
8365294 TTGAAAGAGC
*
8365304 TTATAAAAATT-ATATAAAA
1 TTATAAAAATTCATACAAAA
*
8365323 TTATAAAAATTCATACAAAC
1 TTATAAAAATTCATACAAAA
*
8365343 TTAT-AAAATTCTTA-AAAA
1 TTATAAAAATTCATACAAAA
*
8365361 GTATAAAAA
1 TTATAAAAA
8365370 AATTATGTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
18 6 0.15
19 24 0.60
20 10 0.25
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (20 bp):
TTATAAAAATTCATACAAAA
Found at i:8365331 original size:9 final size:9
Alignment explanation
Indices: 8365304--8365369 Score: 62
Period size: 10 Copynumber: 7.0 Consensus size: 9
8365294 TTGAAAGAGC
8365304 TTATAAAAA
1 TTATAAAAA
8365313 TTATATAAAA
1 TTATA-AAAA
8365323 TTATAAAAA
1 TTATAAAAA
*
8365332 TTCATACAAAC
1 TT-ATA-AAAA
8365343 TTAT-AAAA
1 TTATAAAAA
*
8365351 TTCTTAAAAA
1 TT-ATAAAAA
*
8365361 GTATAAAAA
1 TTATAAAAA
8365370 AATTATGTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
8 5 0.11
9 18 0.38
10 19 0.40
11 5 0.11
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (9 bp):
TTATAAAAA
Found at i:8365346 original size:20 final size:19
Alignment explanation
Indices: 8365303--8365350 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
8365293 ATTGAAAGAG
*
8365303 CTTATAAAAATTATATAAA
1 CTTATAAAAATTATACAAA
*
8365322 ATTATAAAAATTCATACAAA
1 CTTATAAAAATT-ATACAAA
8365342 CTTATAAAA
1 CTTATAAAA
8365351 TTCTTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (19 bp):
CTTATAAAAATTATACAAA
Found at i:8367698 original size:6 final size:7
Alignment explanation
Indices: 8367687--8367713 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
8367677 GCTCTATTCT
8367687 CTTTTTA
1 CTTTTTA
8367694 CTTTTTA
1 CTTTTTA
8367701 CTTTTTA
1 CTTTTTA
8367708 CTTTTT
1 CTTTTT
8367714 CATTATAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (7 bp):
CTTTTTA
Found at i:8370358 original size:43 final size:43
Alignment explanation
Indices: 8370297--8370384 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
8370287 TTCAATTGAG
8370297 CTGATTTTTCTCAATTAACACTATATTCCATCACTTTAAACTA
1 CTGATTTTTCTCAATTAACACTATATTCCATCACTTTAAACTA
8370340 CTGATTTTTCTCAATTAACACTATATTCCATCACTTTAAACTA
1 CTGATTTTTCTCAATTAACACTATATTCCATCACTTTAAACTA
8370383 CT
1 CT
8370385 TTATAACCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.42
Consensus pattern (43 bp):
CTGATTTTTCTCAATTAACACTATATTCCATCACTTTAAACTA
Found at i:8370362 original size:23 final size:23
Alignment explanation
Indices: 8370297--8370362 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 23
8370287 TTCAATTGAG
8370297 CTGATTTTTCTCAATTAACACTA
1 CTGATTTTTCTCAATTAACACTA
* *
8370320 -T-A--TTCCATCACTTTAA-ACTA
1 CTGATTTTTC-TCA-ATTAACACTA
8370340 CTGATTTTTCTCAATTAACACTA
1 CTGATTTTTCTCAATTAACACTA
8370363 TATTCCATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
19 3 0.09
20 7 0.22
21 6 0.19
22 6 0.19
23 7 0.22
24 3 0.09
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (23 bp):
CTGATTTTTCTCAATTAACACTA
Found at i:8370378 original size:21 final size:21
Alignment explanation
Indices: 8370311--8370382 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 21
8370301 TTTTTCTCAA
8370311 TTAACACTATATTCCATCACT
1 TTAACACTATATTCCATCACT
* * *
8370332 TTAAACTACTGATTTTTC-TCA-A
1 TT-AAC-ACT-ATATTCCATCACT
8370354 TTAACACTATATTCCATCACT
1 TTAACACTATATTCCATCACT
8370375 TTAA-ACTA
1 TTAACACTA
8370383 CTTTATAACC
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
19 5 0.12
20 10 0.25
21 9 0.22
22 5 0.12
23 6 0.15
24 5 0.12
ACGTcount: A:0.35, C:0.24, G:0.01, T:0.40
Consensus pattern (21 bp):
TTAACACTATATTCCATCACT
Found at i:8373891 original size:7 final size:6
Alignment explanation
Indices: 8373860--8373890 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
8373850 GAAATAAACT
*
8373860 ATTAAA ATAAAA ATTAAA ATTAAA ATTAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
8373891 AATATACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
ATTAAA
Found at i:8389210 original size:13 final size:13
Alignment explanation
Indices: 8389189--8389222 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
8389179 TATCCAACCA
8389189 AACCCAATTACCC
1 AACCCAATTACCC
*
8389202 AATCCAATTACCC
1 AACCCAATTACCC
8389215 AACCCAAT
1 AACCCAAT
8389223 AAAACTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:8389303 original size:38 final size:39
Alignment explanation
Indices: 8389205--8389318 Score: 169
Period size: 39 Copynumber: 3.0 Consensus size: 39
8389195 ATTACCCAAT
*
8389205 CCAATTACCCAACCCAATAAAACTAAAATTAAAGTCTAC
1 CCAATTACCCAACCCAATAAAACTAAAACTAAAGTCTAC
* * *
8389244 CCAACTACCCAACTCAATAAAACTAAAACTAGAGTCTAC
1 CCAATTACCCAACCCAATAAAACTAAAACTAAAGTCTAC
*
8389283 CCAATTA-CCAACCCAATAAAAATAAAACTAAA-TCTA
1 CCAATTACCCAACCCAATAAAACTAAAACTAAAGTCTA
8389319 ACTCTTAAGT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
37 4 0.06
38 22 0.33
39 41 0.61
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.19
Consensus pattern (39 bp):
CCAATTACCCAACCCAATAAAACTAAAACTAAAGTCTAC
Found at i:8389474 original size:17 final size:17
Alignment explanation
Indices: 8389454--8389516 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
8389444 TAATTTCAAG
8389454 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
8389471 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
8389489 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
8389508 AATTATGTA
1 AATTATGTA
8389517 GTGATTCAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:8389478 original size:37 final size:37
Alignment explanation
Indices: 8389451--8389525 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
8389441 TGTTAATTTC
* *
8389451 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
* *
8389488 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
8389525 A
1 A
8389526 TTCGGGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
Found at i:8390959 original size:17 final size:18
Alignment explanation
Indices: 8390939--8390973 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8390929 TTTTCGTTAA
8390939 TAAATAATT-TAAATTAT
1 TAAATAATTATAAATTAT
*
8390956 TAAATATTTATAAATTAT
1 TAAATAATTATAAATTAT
8390974 ACTAAATAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAATAATTATAAATTAT
Found at i:8395494 original size:18 final size:18
Alignment explanation
Indices: 8395471--8395507 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8395461 TTGCATCACT
8395471 GCAAAATAAAGGAATGAG
1 GCAAAATAAAGGAATGAG
8395489 GCAAAATAAAGGAATGAG
1 GCAAAATAAAGGAATGAG
8395507 G
1 G
8395508 TCAACAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.30, T:0.11
Consensus pattern (18 bp):
GCAAAATAAAGGAATGAG
Found at i:8403852 original size:6 final size:6
Alignment explanation
Indices: 8403843--8403912 Score: 52
Period size: 6 Copynumber: 11.7 Consensus size: 6
8403833 CTCCTCTTCC
** * * ** *
8403843 TCCTCT TCCTCT TCCAGT TCCACT TCCTCT TCTTCT TCAACC TCCTCT
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT
*
8403891 T-CTACT TCCTCT TCCACT TCCT
1 TCCT-CT TCCTCT TCCTCT TCCT
8403913 GTAGTTTCTG
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
5 2 0.04
6 45 0.92
7 2 0.04
ACGTcount: A:0.09, C:0.46, G:0.01, T:0.44
Consensus pattern (6 bp):
TCCTCT
Found at i:8403909 original size:12 final size:12
Alignment explanation
Indices: 8403847--8403912 Score: 69
Period size: 12 Copynumber: 5.5 Consensus size: 12
8403837 TCTTCCTCCT
8403847 CTTCCTCTTCCA
1 CTTCCTCTTCCA
* * *
8403859 GTTCCACTTCCT
1 CTTCCTCTTCCA
* *
8403871 CTTCTTCTTCAA
1 CTTCCTCTTCCA
* *
8403883 CCTCCTCTTCTA
1 CTTCCTCTTCCA
8403895 CTTCCTCTTCCA
1 CTTCCTCTTCCA
8403907 CTTCCT
1 CTTCCT
8403913 GTAGTTTCTG
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.09, C:0.45, G:0.02, T:0.44
Consensus pattern (12 bp):
CTTCCTCTTCCA
Found at i:8403910 original size:18 final size:18
Alignment explanation
Indices: 8403847--8403910 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
8403837 TCTTCCTCCT
* *
8403847 CTTCCTCTTCCAGTTCCA
1 CTTCCTCTTCTACTTCCA
* *
8403865 CTTCCTCTTCTTCTTCAA
1 CTTCCTCTTCTACTTCCA
* *
8403883 CCTCCTCTTCTACTTCCT
1 CTTCCTCTTCTACTTCCA
*
8403901 CTTCCACTTC
1 CTTCCTCTTC
8403911 CTGTAGTTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.09, C:0.45, G:0.02, T:0.44
Consensus pattern (18 bp):
CTTCCTCTTCTACTTCCA
Found at i:8404531 original size:33 final size:33
Alignment explanation
Indices: 8404494--8404559 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
8404484 TTTTTATTAA
8404494 ATGTATATAGATATATTAAACTGATGATTATTT
1 ATGTATATAGATATATTAAACTGATGATTATTT
8404527 ATGTATATAGATATATTAAACTGATGATTATTT
1 ATGTATATAGATATATTAAACTGATGATTATTT
8404560 TACTTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (33 bp):
ATGTATATAGATATATTAAACTGATGATTATTT
Found at i:8405371 original size:19 final size:20
Alignment explanation
Indices: 8405338--8405376 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8405328 GTTAATTTTA
*
8405338 ATTTTTTAATATTATTTAAT
1 ATTTTTTAATATTATGTAAT
*
8405358 ATTTTTTCAT-TTATGTAAT
1 ATTTTTTAATATTATGTAAT
8405377 TTTAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTTTTAATATTATGTAAT
Found at i:8405405 original size:26 final size:26
Alignment explanation
Indices: 8405329--8405406 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 26
8405319 ATGGTAAGGG
* *
8405329 TTAATTTTAATTTTTTAATATTATTTAA
1 TTAATTTTTATTTTATAA-ATT-TTTAA
* *
8405357 -TATTTTTTCA-TTTATGTAA-TTTTAA
1 TTAATTTTT-ATTTTAT-AAATTTTTAA
8405382 TTAATTTTTATTTTATAAATTTTTA
1 TTAATTTTTATTTTATAAATTTTTA
8405407 TAACAGTCTG
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
25 8 0.21
26 18 0.46
27 11 0.28
28 2 0.05
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (26 bp):
TTAATTTTTATTTTATAAATTTTTAA
Found at i:8406232 original size:17 final size:17
Alignment explanation
Indices: 8406195--8406242 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
8406185 GAATTTAGAA
*
8406195 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
8406211 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
8406228 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
8406243 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:8409345 original size:3 final size:3
Alignment explanation
Indices: 8409339--8409366 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8409329 GTTGGTTTTT
8409339 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
8409367 CTCTTTTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:8411511 original size:2 final size:2
Alignment explanation
Indices: 8411506--8411531 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8411496 TTGATATATA
8411506 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
8411532 CTAGAGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8417778 original size:22 final size:21
Alignment explanation
Indices: 8417753--8417797 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
8417743 AATAGAATAA
8417753 ATTTAATATTA-ATTGTGAATTT
1 ATTTAATATTACATT-T-AATTT
*
8417775 ATTTAATCTTACATTTAATTT
1 ATTTAATATTACATTTAATTT
8417796 AT
1 AT
8417798 CAAATACAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 11 0.52
23 3 0.14
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
ATTTAATATTACATTTAATTT
Found at i:8419939 original size:6 final size:7
Alignment explanation
Indices: 8419923--8419948 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8419913 ATAAAATACT
8419923 AAAAAGA
1 AAAAAGA
8419930 AAAAAGA
1 AAAAAGA
8419937 AAAAAGA
1 AAAAAGA
8419944 AAAAA
1 AAAAA
8419949 AATGGTTTTT
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:8442061 original size:19 final size:19
Alignment explanation
Indices: 8442037--8442075 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8442027 TTTCCTCAGA
8442037 TATACTTCTTTCAACTTAC
1 TATACTTCTTTCAACTTAC
8442056 TATACTTCTTTCAACTTAC
1 TATACTTCTTTCAACTTAC
8442075 T
1 T
8442076 GCAGTGCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (19 bp):
TATACTTCTTTCAACTTAC
Found at i:8443125 original size:19 final size:19
Alignment explanation
Indices: 8443101--8443168 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 19
8443091 TAATAAATAT
8443101 TAAAAAATTATTTTAAAAA
1 TAAAAAATTATTTTAAAAA
*
8443120 TAAAAAAATATTTTAAAAA
1 TAAAAAATTATTTTAAAAA
*
8443139 TATTTTAAAAA-TATTTTAAAAT
1 TA----AAAAATTATTTTAAAAA
8443161 TAAAAAAT
1 TAAAAAAT
8443169 AAAAATAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
18 5 0.12
19 20 0.48
22 12 0.29
23 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAAATTATTTTAAAAA
Found at i:8443131 original size:30 final size:30
Alignment explanation
Indices: 8443095--8443151 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8443085 AATTTTTAAT
8443095 AAATA-TTAAAAAATTATTTTAAAAATAAAA
1 AAATATTTAAAAAA-TATTTTAAAAATAAAA
*
8443125 AAATATTTTAAAAATATTTTAAAAATA
1 AAATATTTAAAAAATATTTTAAAAATA
8443152 TTTTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
AAATATTTAAAAAATATTTTAAAAATAAAA
Found at i:8443137 original size:11 final size:11
Alignment explanation
Indices: 8443088--8443159 Score: 80
Period size: 11 Copynumber: 6.7 Consensus size: 11
8443078 CCAGACCAAT
8443088 TTTTAATAAATA
1 TTTTAA-AAATA
*
8443100 -TTAAAAAATTA
1 TTTTAAAAA-TA
8443111 TTTTAAAAATA
1 TTTTAAAAATA
*
8443122 ---AAAAAATA
1 TTTTAAAAATA
8443130 TTTTAAAAATA
1 TTTTAAAAATA
8443141 TTTTAAAAATA
1 TTTTAAAAATA
8443152 TTTTAAAA
1 TTTTAAAA
8443160 TTAAAAAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
8 7 0.14
10 3 0.06
11 34 0.67
12 7 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:8443154 original size:41 final size:42
Alignment explanation
Indices: 8443088--8443167 Score: 119
Period size: 41 Copynumber: 1.9 Consensus size: 42
8443078 CCAGACCAAT
8443088 TTTTAATAAATATTAAAAAATTATTTTAAAAATAAAAAAATA
1 TTTTAATAAATATTAAAAAATTATTTTAAAAATAAAAAAATA
* *
8443130 TTTTAA-AAATATTTTAAAAA-TATTTTAAAATTAAAAAA
1 TTTTAATAAATA-TTAAAAAATTATTTTAAAAATAAAAAA
8443168 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (42 bp):
TTTTAATAAATATTAAAAAATTATTTTAAAAATAAAAAAATA
Found at i:8454186 original size:21 final size:20
Alignment explanation
Indices: 8454162--8454203 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 20
8454152 ACCAAAAATT
8454162 TATTTTAAAAATTAAAAAAAA
1 TATTTT-AAAATTAAAAAAAA
8454183 TATTTTAAAATTAAAAAAAA
1 TATTTTAAAATTAAAAAAAA
8454203 T
1 T
8454204 TAAAAATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TATTTTAAAATTAAAAAAAA
Found at i:8454215 original size:29 final size:30
Alignment explanation
Indices: 8454168--8454269 Score: 129
Period size: 29 Copynumber: 3.4 Consensus size: 30
8454158 AATTTATTTT
*
8454168 AAAAATTAAAAAAAATATTTTAAAATTAAA
1 AAAAATTAAAAAAAGTATTTTAAAATTAAA
*
8454198 AAAAATT-AAAAATGTATTTTAAAATTTAAA
1 AAAAATTAAAAAAAGTATTTTAAAA-TTAAA
**
8454228 AAATTTTAAAAAAAAGTATTTTAAAATT--A
1 AAAAATT-AAAAAAAGTATTTTAAAATTAAA
8454257 AAAAATTAAAAAA
1 AAAAATTAAAAAA
8454270 TAAAAATATT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
28 6 0.10
29 21 0.34
30 17 0.27
31 2 0.03
32 16 0.26
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (30 bp):
AAAAATTAAAAAAAGTATTTTAAAATTAAA
Found at i:8454280 original size:32 final size:33
Alignment explanation
Indices: 8454197--8454280 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 33
8454187 TTAAAATTAA
8454197 AAAAAATTAAAAATGTATTTTAAAATTTAAAAAATT
1 AAAAAA-TAAAAA--TATTTTAAAATTTAAAAAATT
** *
8454233 TTAAAA-AAAAGTATTTTAAAA-TTAAAAAATT
1 AAAAAATAAAAATATTTTAAAATTTAAAAAATT
8454264 AAAAAATAAAAATATTT
1 AAAAAATAAAAATATTT
8454281 ATTATATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
31 14 0.34
32 19 0.46
34 4 0.10
36 4 0.10
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (33 bp):
AAAAAATAAAAATATTTTAAAATTTAAAAAATT
Found at i:8455330 original size:25 final size:25
Alignment explanation
Indices: 8455302--8455357 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
8455292 AAGTATTATA
8455302 CAGAGAACACAAATGTGCTAATAAT
1 CAGAGAACACAAATGTGCTAATAAT
* **
8455327 CAGAGAGCACCGATGTGCTAATAAT
1 CAGAGAACACAAATGTGCTAATAAT
8455352 CAGAGA
1 CAGAGA
8455358 GCAAGCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (25 bp):
CAGAGAACACAAATGTGCTAATAAT
Found at i:8457360 original size:33 final size:35
Alignment explanation
Indices: 8457314--8457418 Score: 97
Period size: 38 Copynumber: 2.9 Consensus size: 35
8457304 TCGGATAGTT
*
8457314 CGAAGCAATAGTTGACACCCAGTGTCTCATCTATC
1 CGAAGAAATAGTTGACACCCAGTGTCTCATCTATC
** *
8457349 CGAAG-AA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGAAATAGTTGACACCCAGT--GTC-TC--ATCTATC
*
8457387 CGAAGAAATATTGTGACACCCAGTGTCTCATC
1 CGAAGAAATAGT-TGACACCCAGTGTCTCATC
8457419 GACTTGAGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
33 12 0.22
34 2 0.04
35 7 0.13
36 5 0.09
38 14 0.25
39 4 0.07
40 2 0.04
41 9 0.16
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (35 bp):
CGAAGAAATAGTTGACACCCAGTGTCTCATCTATC
Found at i:8457745 original size:6 final size:6
Alignment explanation
Indices: 8457734--8457796 Score: 74
Period size: 6 Copynumber: 10.5 Consensus size: 6
8457724 ATTCCCACTC
* *
8457734 ATAATA ATAATA ATAATA ATAATA ATACTA ATAATA ATACTA ATACA-A
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATA-ATA
* *
8457782 ATACTA ATATTA ATA
1 ATAATA ATAATA ATA
8457797 CTTACATCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAATA
Found at i:8457751 original size:12 final size:12
Alignment explanation
Indices: 8457738--8457798 Score: 88
Period size: 12 Copynumber: 5.1 Consensus size: 12
8457728 CCACTCATAA
*
8457738 TAATAATAATAA
1 TAATAATAATAC
8457750 TAATAATAATAC
1 TAATAATAATAC
8457762 TAATAATAATAC
1 TAATAATAATAC
8457774 TAATACA-AATAC
1 TAATA-ATAATAC
*
8457786 TAATATTAATAC
1 TAATAATAATAC
8457798 T
1 T
8457799 TACATCACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
12 44 0.98
13 1 0.02
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.34
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:8460110 original size:3 final size:3
Alignment explanation
Indices: 8460102--8460133 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8460092 TTATTTATTT
*
8460102 TCC TCC TCC TCC TCC TGC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
8460134 TCCATTCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.62, G:0.03, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:8465121 original size:276 final size:276
Alignment explanation
Indices: 8464587--8465416 Score: 1563
Period size: 276 Copynumber: 3.0 Consensus size: 276
8464577 TAGACAAAAA
*
8464587 TGGGCATGAGATAAGTGAAATACGAAATTTTTAAGTTAGGGGCAATTTGGTAATCTAGTAATTAA
1 TGGGCATGAGATAAGTGAAATAGGAAATTTTTAAGTTAGGGGCAATTTGGTAATCTAGTAATTAA
* *
8464652 AATGAATTAAAAGGGAAAAAGATGACAAATTGTGCTCATATTCTTCATTTGGACGAAATCAGCAA
66 AATGAATTAAAAGGGAAAAAGATGACAAATTGTGCTCATCTTCTTCATTTGGACGAAATCAACAA
8464717 -GGGGGAAGCCATTGTTAGGGTTTTCAAGCTTCCAAGCTCCATAATAAGTGATTCTAAGCCCCGT
131 GGGGGGAAGCCATTGTTAGGGTTTTCAAGCTTCCAAGCTCCATAATAAGTGATTCTAAGCCCCGT
8464781 TTTTAATGTTCTTTACGTTTTTGGAGTCCCGGTAACTTGATTTTGCTTCTTCTAGCAATAATTTA
196 TTTTAATGTTCTTTACGTTTTTGGAGTCCCGGTAACTTGATTTTGCTTCTTCTAGCAATAATTTA
8464846 ATCTAGGGTTTATATT
261 ATCTAGGGTTTATATT
*
8464862 TTGGCATGAGATAAGTGAAATAGGAAATTTTTAAGTTAGGGGCAATTTGGTAATCTAGTAATTAA
1 TGGGCATGAGATAAGTGAAATAGGAAATTTTTAAGTTAGGGGCAATTTGGTAATCTAGTAATTAA
* *
8464927 AATGAATTAAAAGGGAAAAAGATGACAAATTGTGCTCATCTTCTTCATTTGGATGAAATCAATAA
66 AATGAATTAAAAGGGAAAAAGATGACAAATTGTGCTCATCTTCTTCATTTGGACGAAATCAACAA
*
8464992 GGGGGGAAGCCATTGTTAGGGTTTTCAAGCTTCCAAGCTCTATAATAAGTGATTCTAAGCCCCGT
131 GGGGGGAAGCCATTGTTAGGGTTTTCAAGCTTCCAAGCTCCATAATAAGTGATTCTAAGCCCCGT
8465057 TTTTAATGTTCTTTACGTTTTTGGAGTCCCGGTAACTTGATTTTGCTTCTTCTAGCAATAATTTA
196 TTTTAATGTTCTTTACGTTTTTGGAGTCCCGGTAACTTGATTTTGCTTCTTCTAGCAATAATTTA
*
8465122 ATCTAGGGTTTATAGT
261 ATCTAGGGTTTATATT
8465138 TGGGCATGAGATAAGTGAAATAGGAAATTTTTAAGTTAGGGGCAATTTGGTAATCTAGTAATTAA
1 TGGGCATGAGATAAGTGAAATAGGAAATTTTTAAGTTAGGGGCAATTTGGTAATCTAGTAATTAA
8465203 AATGAATTAAAAGGGAAAAAGATGACAAATTGTGCTCATCTTCTTCATTTGGACGAAATCAACAA
66 AATGAATTAAAAGGGAAAAAGATGACAAATTGTGCTCATCTTCTTCATTTGGACGAAATCAACAA
*
8465268 GGGGGGAAGCCATTGTTAGGGTTTTCAAGCTTCCAAGCTCCATAATAAGTGATTCTAAGCCTCGT
131 GGGGGGAAGCCATTGTTAGGGTTTTCAAGCTTCCAAGCTCCATAATAAGTGATTCTAAGCCCCGT
*
8465333 TTTTAATGTTCTTTACGTTTTTGGAGTCCCGATAACTTGATTTTGCTTCTTCTAGCAATAATTTA
196 TTTTAATGTTCTTTACGTTTTTGGAGTCCCGGTAACTTGATTTTGCTTCTTCTAGCAATAATTTA
8465398 ATCTAGGGTTTATATT
261 ATCTAGGGTTTATATT
8465414 TGG
1 TGG
8465417 AAAAATACCC
Statistics
Matches: 539, Mismatches: 15, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
275 124 0.23
276 415 0.77
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (276 bp):
TGGGCATGAGATAAGTGAAATAGGAAATTTTTAAGTTAGGGGCAATTTGGTAATCTAGTAATTAA
AATGAATTAAAAGGGAAAAAGATGACAAATTGTGCTCATCTTCTTCATTTGGACGAAATCAACAA
GGGGGGAAGCCATTGTTAGGGTTTTCAAGCTTCCAAGCTCCATAATAAGTGATTCTAAGCCCCGT
TTTTAATGTTCTTTACGTTTTTGGAGTCCCGGTAACTTGATTTTGCTTCTTCTAGCAATAATTTA
ATCTAGGGTTTATATT
Found at i:8466194 original size:23 final size:23
Alignment explanation
Indices: 8466168--8466243 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
8466158 AGTGTTATTG
8466168 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8466191 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
8466214 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8466237 ATCAGTG
1 ATCAGTG
8466244 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:8466415 original size:38 final size:37
Alignment explanation
Indices: 8466373--8466445 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
8466363 ATGTATGGAA
* *
8466373 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
8466411 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
8466446 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:8468253 original size:28 final size:28
Alignment explanation
Indices: 8468213--8468271 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
8468203 AAATTTAACT
8468213 TACCATTATTTCACACATAAGGTAAGCA
1 TACCATTATTTCACACATAAGGTAAGCA
8468241 TACCATTATTTCACACATAAGGTAAGCA
1 TACCATTATTTCACACATAAGGTAAGCA
8468269 TAC
1 TAC
8468272 AAATATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (28 bp):
TACCATTATTTCACACATAAGGTAAGCA
Found at i:8468278 original size:28 final size:28
Alignment explanation
Indices: 8468219--8468279 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
8468209 AACTTACCAT
* *
8468219 TATTTCACACATAAGGTAAGCATACCAT
1 TATTTCACACATAAGGTAAGCATACAAA
8468247 TATTTCACACATAAGGTAAGCATACAAA
1 TATTTCACACATAAGGTAAGCATACAAA
8468275 TATTT
1 TATTT
8468280 ATCCAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (28 bp):
TATTTCACACATAAGGTAAGCATACAAA
Found at i:8468635 original size:23 final size:23
Alignment explanation
Indices: 8468609--8468673 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
8468599 TCTCGAGCCA
* *
8468609 TATAACAGGAAGCTCGTGTGAGC
1 TATAACAGGAAGCTCATCTGAGC
* *
8468632 TATATAGCAGGAAGCTTATCTGGGC
1 TATA-A-CAGGAAGCTCATCTGAGC
*
8468657 TATAACAGGAAACTCAT
1 TATAACAGGAAGCTCAT
8468674 AAGAGTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 14 0.41
24 2 0.06
25 18 0.53
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (23 bp):
TATAACAGGAAGCTCATCTGAGC
Found at i:8476949 original size:75 final size:76
Alignment explanation
Indices: 8476841--8476995 Score: 267
Period size: 75 Copynumber: 2.0 Consensus size: 76
8476831 GATATATATT
*
8476841 TAAATATATCTGGGTGTTCTTGTTGTTTTGTATCGATTTTCTCTTTTTCTTTTCGATGTTTTGAA
1 TAAATATATCTGGGTG-T-GTGTTGTTTTGTATCGATTTTCTCTTTTTCTTTTCGATGTTTTGAA
8476906 TTTTAATTTTTTA
64 TTTTAATTTTTTA
*
8476919 TAAATATATCTGGGTG-GTGTTGTTTTGTATCGATTTTCTCTTTTTCTTTTTGATGTTTTGAATT
1 TAAATATATCTGGGTGTGTGTTGTTTTGTATCGATTTTCTCTTTTTCTTTTCGATGTTTTGAATT
8476983 TTAATTTTTTA
66 TTAATTTTTTA
8476994 TA
1 TA
8476996 CATCCTAGCA
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
75 59 0.79
78 16 0.21
ACGTcount: A:0.17, C:0.08, G:0.15, T:0.60
Consensus pattern (76 bp):
TAAATATATCTGGGTGTGTGTTGTTTTGTATCGATTTTCTCTTTTTCTTTTCGATGTTTTGAATT
TTAATTTTTTA
Found at i:8477188 original size:36 final size:36
Alignment explanation
Indices: 8477141--8477212 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
8477131 TCGTTGGTAT
8477141 ATCCTCTGAATGTTGAGGAGAACTTGAGTGTTTATC
1 ATCCTCTGAATGTTGAGGAGAACTTGAGTGTTTATC
8477177 ATCCTCTGAATGTTGAGGAGAACTTGAGTGTTTATC
1 ATCCTCTGAATGTTGAGGAGAACTTGAGTGTTTATC
8477213 TTATAATTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (36 bp):
ATCCTCTGAATGTTGAGGAGAACTTGAGTGTTTATC
Found at i:8481949 original size:24 final size:24
Alignment explanation
Indices: 8481841--8481972 Score: 171
Period size: 25 Copynumber: 5.5 Consensus size: 24
8481831 ATACGGAACA
* *
8481841 AATA-CAGAGAGCACAAATGTGCT
1 AATATCAGAGAGCACCAACGTGCT
**
8481864 AA-A-CAGAGAGCACTGACGTGCT
1 AATATCAGAGAGCACCAACGTGCT
*
8481886 AAATACCAGAGAGCACCAACGTGCT
1 -AATATCAGAGAGCACCAACGTGCT
8481911 AATAATCAGAGAGCACCAACGTGCT
1 AAT-ATCAGAGAGCACCAACGTGCT
*
8481936 AATATCAGATAGCACCAACGTGCT
1 AATATCAGAGAGCACCAACGTGCT
8481960 AATATCAGAGAGC
1 AATATCAGAGAGC
8481973 GCGCTAAAGT
Statistics
Matches: 97, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
22 17 0.18
23 4 0.04
24 36 0.37
25 40 0.41
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (24 bp):
AATATCAGAGAGCACCAACGTGCT
Found at i:8482817 original size:12 final size:13
Alignment explanation
Indices: 8482800--8482831 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8482790 GATTTCCATC
8482800 AATTCAAT-CACT
1 AATTCAATCCACT
8482812 AATTC-ATCCACT
1 AATTCAATCCACT
8482824 AATTCAAT
1 AATTCAAT
8482832 ATAAGCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 14 0.78
13 2 0.11
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (13 bp):
AATTCAATCCACT
Found at i:8483098 original size:21 final size:22
Alignment explanation
Indices: 8483069--8483112 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
8483059 CTTTTGCTTT
8483069 ATATATATAATAATATAACATA
1 ATATATATAATAATATAACATA
*
8483091 ATAT-TATAATAATATAATATA
1 ATATATATAATAATATAACATA
8483112 A
1 A
8483113 CAACTCACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATATATAATAATATAACATA
Found at i:8497912 original size:13 final size:14
Alignment explanation
Indices: 8497894--8497922 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8497884 TCTTCTACTC
8497894 TACTCACATG-ATT
1 TACTCACATGTATT
8497907 TACTCACATGTATT
1 TACTCACATGTATT
8497921 TA
1 TA
8497923 AGATTTCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (14 bp):
TACTCACATGTATT
Found at i:8505886 original size:25 final size:25
Alignment explanation
Indices: 8505844--8505904 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
8505834 AACTCTGAAG
8505844 AAACTATAAAATAAGCACTATACGATT
1 AAACTAT--AATAAGCACTATACGATT
8505871 AAACTATAATAAGCACTATACGATT
1 AAACTATAATAAGCACTATACGATT
8505896 AAACTATAA
1 AAACTATAA
8505905 AATCAAGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 27 0.79
27 7 0.21
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (25 bp):
AAACTATAATAAGCACTATACGATT
Found at i:8517532 original size:27 final size:27
Alignment explanation
Indices: 8517494--8517549 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
8517484 GTAGTCTAAC
8517494 TTTCCTATATCTGATCCGATTACCAAG
1 TTTCCTATATCTGATCCGATTACCAAG
8517521 TTTCCTATATCTGATCCGATTACCAAG
1 TTTCCTATATCTGATCCGATTACCAAG
8517548 TT
1 TT
8517550 GAATGTAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (27 bp):
TTTCCTATATCTGATCCGATTACCAAG
Found at i:8519625 original size:27 final size:27
Alignment explanation
Indices: 8519574--8519625 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
8519564 TATATATATT
***
8519574 TTTTTTATTTTTAAAATATTTTTTTTA
1 TTTTTTATTTTTAAAATAAAATTTTTA
8519601 TTTTTTATTTTTAAAATAAAATTTT
1 TTTTTTATTTTTAAAATAAAATTTT
8519626 GGTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTTTATTTTTAAAATAAAATTTTTA
Found at i:8519934 original size:19 final size:19
Alignment explanation
Indices: 8519912--8519952 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8519902 TATTGTTAAT
*
8519912 ATTTTAAT-ATATAATATTA
1 ATTTTAATAAT-TAATAGTA
8519931 ATTTTAATAATTAATAGTA
1 ATTTTAATAATTAATAGTA
8519950 ATT
1 ATT
8519953 ATTTATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTTAATAATTAATAGTA
Found at i:8520912 original size:31 final size:31
Alignment explanation
Indices: 8520868--8520934 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
8520858 CATAATAGTG
* * *
8520868 AAATAGTAGCAAAATAGTGAAAAA-AACAAGA
1 AAATAGCAACAAAATAG-AAAAAATAACAAGA
*
8520899 AAATAGCAACAAAATAGAAAAAATAACAATA
1 AAATAGCAACAAAATAGAAAAAATAACAAGA
8520930 AAATA
1 AAATA
8520935 AATAAAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.69, C:0.07, G:0.10, T:0.13
Consensus pattern (31 bp):
AAATAGCAACAAAATAGAAAAAATAACAAGA
Found at i:8520941 original size:20 final size:20
Alignment explanation
Indices: 8520898--8520949 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
8520888 AAAAAACAAG
*
8520898 AAAATAGCAACAAAATAGAA
1 AAAATAACAACAAAATAGAA
*
8520918 AAAATAACAATAAAATA-AA
1 AAAATAACAACAAAATAGAA
8520937 TAAAA-AACAACAA
1 -AAAATAACAACAA
8520950 TTTTTTTTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.75, C:0.10, G:0.04, T:0.12
Consensus pattern (20 bp):
AAAATAACAACAAAATAGAA
Found at i:8521199 original size:34 final size:35
Alignment explanation
Indices: 8521134--8521201 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
8521124 CTATATTTTT
* * *
8521134 TTAATAATATATTATATTAATTAATTAATTAAATG
1 TTAATAATATATTATAATAATAAAATAATTAAATG
8521169 TTAA-AATATATTATAAATAATAAAAT-ATTAAAT
1 TTAATAATATATTAT-AATAATAAAATAATTAAAT
8521202 CAATCAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (35 bp):
TTAATAATATATTATAATAATAAAATAATTAAATG
Found at i:8525563 original size:30 final size:31
Alignment explanation
Indices: 8525529--8525594 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
8525519 AGCATCTTAG
8525529 TGACTTAAA-AAAAACTTTCAAATAATTTAA
1 TGACTTAAATAAAAACTTTCAAATAATTTAA
* * * * *
8525559 TGACTTAAATGATAGCTTTTAAATAGTTTAA
1 TGACTTAAATAAAAACTTTCAAATAATTTAA
8525590 TGACT
1 TGACT
8525595 ATTTGATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAATTTAA
Found at i:8538843 original size:23 final size:23
Alignment explanation
Indices: 8538810--8538860 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
8538800 TATTAATAGG
*
8538810 AATAAAAAAATATTA-AAGATTAA
1 AATAAAAAAATAGTAGAA-ATTAA
*
8538833 AATAAACAAATAGTAGAAATTAA
1 AATAAAAAAATAGTAGAAATTAA
8538856 AATAA
1 AATAA
8538861 TGCTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.24
Consensus pattern (23 bp):
AATAAAAAAATAGTAGAAATTAA
Done.