Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 139 of 175
Found at i:42948881 original size:178 final size:178
Alignment explanation
Indices: 42948519--42948882 Score: 489
Period size: 178 Copynumber: 2.0 Consensus size: 178
42948509 CCCTTGCCCG
*
42948519 TGTAACTCTCTGACGTGATTTAAAATTGAAAAAAATTAGCTCATGGTTTCACACGGCCTAAGACA
1 TGTAACTCTCTGACGTGATTTAAAACTGAAAAAAATTAGCTCATGGTTTCACACGGCCTAAGACA
* *
42948584 CACCCGTATGCCCAGGCCGTGTGTGTTTTCCTTCACTTCTCCCACGCCCATGTGAGATCTCATAC
66 CACCCGTATGCCCAGGCCATGTGTGTTTTCCTTCACTTCTCCCACGCCCATGTGAGATCCCATAC
* ** * ** ** *
42948649 GCTCGTGTGGCCAGGCCGTGTCTCTCACACGGCTGTGTGCCTTGCTCG
131 GCTCGTGTGGCCAGGCCGTATAGCTCACACGACCATGTGCCAAGCTCA
* *
42948697 TGTAACTCTCTGACTTGATTTAAAACTGAAAAAAATTAGCTCCA-GGTTTCACACGGCCTAGGAC
1 TGTAACTCTCTGACGTGATTTAAAACTGAAAAAAATTAGCT-CATGGTTTCACACGGCCTAAGAC
* * * * * * *
42948761 ACGCCCGTGTGTCTAGGCCATGTGTGTTTTCCTTCGCTTCTCTCACGCTCATGTGAGATCCCATA
65 ACACCCGTATGCCCAGGCCATGTGTGTTTTCCTTCACTTCTCCCACGCCCATGTGAGATCCCATA
* *
42948826 TGCTCGTGTGGCCAGGCCGTATAGGTCACACGACCATGTCGCCAAG-TCA
130 CGCTCGTGTGGCCAGGCCGTATAGCTCACACGACCATGT-GCCAAGCTCA
42948875 TGTAACTC
1 TGTAACTC
42948883 ACTGTCGATT
Statistics
Matches: 161, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
178 155 0.96
179 6 0.04
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (178 bp):
TGTAACTCTCTGACGTGATTTAAAACTGAAAAAAATTAGCTCATGGTTTCACACGGCCTAAGACA
CACCCGTATGCCCAGGCCATGTGTGTTTTCCTTCACTTCTCCCACGCCCATGTGAGATCCCATAC
GCTCGTGTGGCCAGGCCGTATAGCTCACACGACCATGTGCCAAGCTCA
Found at i:42954116 original size:17 final size:18
Alignment explanation
Indices: 42954083--42954119 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
42954073 TCGAAACCGG
42954083 TCGGTTAACCGAAAAAAT
1 TCGGTTAACCGAAAAAAT
*
42954101 TCGGTTAACCAAAAAAAT
1 TCGGTTAACCGAAAAAAT
42954119 T
1 T
42954120 AATAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (18 bp):
TCGGTTAACCGAAAAAAT
Found at i:42954157 original size:17 final size:18
Alignment explanation
Indices: 42954129--42954178 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
42954119 TAATAAATAA
*
42954129 AATTATCCAACCCAACCC
1 AATTACCCAACCCAACCC
*
42954147 AATTA-CCAACCCAACCT
1 AATTACCCAACCCAACCC
42954164 AATTACCCAACCCAA
1 AATTACCCAACCCAA
42954179 TAAAACTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (18 bp):
AATTACCCAACCCAACCC
Found at i:42954224 original size:33 final size:33
Alignment explanation
Indices: 42954185--42954266 Score: 94
Period size: 38 Copynumber: 2.3 Consensus size: 33
42954175 CCAATAAAAC
42954185 TAAAACTAAAA-TCTACCCAATTACCCAACCCAA
1 TAAAACTAAAAGTCTACCCAATTA-CCAACCCAA
42954218 TAAAACTAAAACTAAAGTCTACCCAATTACCAACCCAA
1 TAAAACT---A--AAAGTCTACCCAATTACCAACCCAA
*
42954256 TAAAAATAAAA
1 TAAAACTAAAA
42954267 CTAAAGTCTA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
33 10 0.24
35 1 0.02
36 1 0.02
38 18 0.43
39 12 0.29
ACGTcount: A:0.54, C:0.27, G:0.01, T:0.18
Consensus pattern (33 bp):
TAAAACTAAAAGTCTACCCAATTACCAACCCAA
Found at i:42954260 original size:38 final size:39
Alignment explanation
Indices: 42954164--42954276 Score: 201
Period size: 39 Copynumber: 2.9 Consensus size: 39
42954154 AACCCAACCT
*
42954164 AATTACCCAACCCAATAAAACTAAAACTAAAATCTACCC
1 AATTACCCAACCCAATAAAACTAAAACTAAAGTCTACCC
42954203 AATTACCCAACCCAATAAAACTAAAACTAAAGTCTACCC
1 AATTACCCAACCCAATAAAACTAAAACTAAAGTCTACCC
*
42954242 AATTA-CCAACCCAATAAAAATAAAACTAAAGTCTA
1 AATTACCCAACCCAATAAAACTAAAACTAAAGTCTA
42954277 ACTCTTAAGT
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 29 0.40
39 43 0.60
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.19
Consensus pattern (39 bp):
AATTACCCAACCCAATAAAACTAAAACTAAAGTCTACCC
Found at i:42954432 original size:37 final size:37
Alignment explanation
Indices: 42954405--42954479 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
42954395 TGTTAACTTC
* *
42954405 AAGAATTATGTAATGCTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATACTTTTAATTATGTAGTAATTCA
* * * *
42954442 AAGACTTATGTAATATTTTTAATTATATAGTGATTCA
1 AAGAATTATGTAATACTTTTAATTATGTAGTAATTCA
42954479 A
1 A
42954480 TTCGGGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.44
Consensus pattern (37 bp):
AAGAATTATGTAATACTTTTAATTATGTAGTAATTCA
Found at i:42955107 original size:26 final size:26
Alignment explanation
Indices: 42955078--42955130 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
42955068 TAGGAGGAAG
42955078 CTGATTATTCTGATTATCACCCATCT
1 CTGATTATTCTGATTATCACCCATCT
42955104 CTGATTATTCTGATTATCACCCATCT
1 CTGATTATTCTGATTATCACCCATCT
42955130 C
1 C
42955131 CTTAGTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.28, G:0.08, T:0.42
Consensus pattern (26 bp):
CTGATTATTCTGATTATCACCCATCT
Found at i:42955214 original size:31 final size:32
Alignment explanation
Indices: 42955165--42955224 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
42955155 AAGCAAAATT
* *
42955165 AAAGAAAAATTAGAATGTAA-AAATTAAACTA
1 AAAGAAAAATTAAAATGTAATAAAATAAACTA
42955196 AAAGCAAAAA-TAAAATGTAATAAAATAAA
1 AAAG-AAAAATTAAAATGTAATAAAATAAA
42955225 TGGCTAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.20
Consensus pattern (32 bp):
AAAGAAAAATTAAAATGTAATAAAATAAACTA
Found at i:42959837 original size:16 final size:17
Alignment explanation
Indices: 42959811--42959842 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
42959801 AAGAAGCAGG
42959811 GAAAGGAAAAAAACAAA
1 GAAAGGAAAAAAACAAA
42959828 GAAA-GAAAAAAACAA
1 GAAAGGAAAAAAACAA
42959843 TATTTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (17 bp):
GAAAGGAAAAAAACAAA
Found at i:42969296 original size:99 final size:99
Alignment explanation
Indices: 42969122--42969314 Score: 305
Period size: 99 Copynumber: 1.9 Consensus size: 99
42969112 CTCAGCATGT
* * *
42969122 CGTTTTAACTTCATCGCCAGAGGAGGAAACATTATTGCACATGCAATGGTGGCAGAGGGTTTGAA
1 CGTTTTAACTTCATCGCCAAAGGAGGAAACACTATTGCACATGCAATGGCGGCAGAGGGTTTGAA
**
42969187 AAACACAAAGGACTGGTTCTGGGTTGAAGTCGCG
66 AAACACAAAGGACCAGTTCTGGGTTGAAGTCGCG
**
42969221 CGTTTTAACTTCATCTTCAAAGGAGGAAACACTATTGCACATGCAATGGCGGCAGAGGGTTTGAA
1 CGTTTTAACTTCATCGCCAAAGGAGGAAACACTATTGCACATGCAATGGCGGCAGAGGGTTTGAA
* *
42969286 AAGCAGAAAGGACCAGTTCTGGGTTGAAG
66 AAACACAAAGGACCAGTTCTGGGTTGAAG
42969315 ATGCGCCTTT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 85 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (99 bp):
CGTTTTAACTTCATCGCCAAAGGAGGAAACACTATTGCACATGCAATGGCGGCAGAGGGTTTGAA
AAACACAAAGGACCAGTTCTGGGTTGAAGTCGCG
Found at i:42971689 original size:2 final size:2
Alignment explanation
Indices: 42971684--42971730 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
42971674 AGGCACCTTT
42971684 TC TC TC TC TC TC TC TC TC TC TC TC 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
42971726 TC TC T
1 TC TC T
42971731 TGTCCCTTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:42979092 original size:3 final size:3
Alignment explanation
Indices: 42979084--42979119 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
42979074 TATCTTAAGA
*
42979084 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
42979120 GGAAGAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:42982074 original size:54 final size:55
Alignment explanation
Indices: 42981949--42982075 Score: 130
Period size: 54 Copynumber: 2.3 Consensus size: 55
42981939 TTGTTTATAG
* * * ** **
42981949 TTCGAAATAGTGTTACATGGCCGTGTCGTTAGACCGTGTGCCCGACCGTGTGCAA
1 TTCGAAATAGGGTCACATGGCCATGTCGACAGACCGTGTGCCAAACCGTGTGCAA
* * * * **
42982004 TTCGAAACATGATCACATGGCCATGTC-ACAGACCGTGTGCCAAACTGTGTGTGA
1 TTCGAAATAGGGTCACATGGCCATGTCGACAGACCGTGTGCCAAACCGTGTGCAA
42982058 TTCGAAATAGGGTCACAT
1 TTCGAAATAGGGTCACAT
42982076 AGCGGTGTAA
Statistics
Matches: 56, Mismatches: 16, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
54 35 0.62
55 21 0.38
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (55 bp):
TTCGAAATAGGGTCACATGGCCATGTCGACAGACCGTGTGCCAAACCGTGTGCAA
Found at i:42990326 original size:43 final size:43
Alignment explanation
Indices: 42990271--42990374 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
42990261 GGGTTACCAA
* * *
42990271 GATTACGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATATGT
1 GATTACATGTAAGACCATGGT-TGGG-CTATTGGCATCGATACGG
*
42990314 GATTTCATGTAAGACCATGGTTGGGCTATTGGCATCGATACGG
1 GATTACATGTAAGACCATGGTTGGGCTATTGGCATCGATACGG
42990357 GATTACATGTAAGACCAT
1 GATTACATGTAAGACCAT
42990375 ATCTAGGATA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 1 0.02
43 51 0.94
44 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATGGTTGGGCTATTGGCATCGATACGG
Found at i:42993238 original size:15 final size:15
Alignment explanation
Indices: 42993218--42993247 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
42993208 TAAATTTAAA
42993218 ATTTTTATTTTAGTC
1 ATTTTTATTTTAGTC
42993233 ATTTTTATTTTAGTC
1 ATTTTTATTTTAGTC
42993248 TACTTCTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (15 bp):
ATTTTTATTTTAGTC
Found at i:42993405 original size:37 final size:37
Alignment explanation
Indices: 42993350--42993474 Score: 122
Period size: 37 Copynumber: 3.6 Consensus size: 37
42993340 TATATACGTT
*
42993350 ATATTTTATTGCAATTTTATTTCCTTCCAACAAAATA
1 ATATTTTATTCCAATTTTATTTCCTTCCAACAAAATA
* ** * *
42993387 ATATTTTATTCCAGTTTTATTTTATT---TC---ATC
1 ATATTTTATTCCAATTTTATTTCCTTCCAACAAAATA
*
42993418 A-A-TTTATTGCAATTTTATTTCCTTCCAACAAAATA
1 ATATTTTATTCCAATTTTATTTCCTTCCAACAAAATA
*
42993453 ATATTTTATTCCAGTTTTATTT
1 ATATTTTATTCCAATTTTATTT
42993475 TATTTCATCA
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
29 18 0.27
30 1 0.02
31 3 0.05
32 1 0.02
34 1 0.02
35 3 0.05
36 1 0.02
37 38 0.58
ACGTcount: A:0.30, C:0.14, G:0.03, T:0.52
Consensus pattern (37 bp):
ATATTTTATTCCAATTTTATTTCCTTCCAACAAAATA
Found at i:42993460 original size:66 final size:66
Alignment explanation
Indices: 42993354--42993485 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
42993344 TACGTTATAT
42993354 TTTATTGCAATTTTATTTCCTTCCAACAAAATAATATTTTATTCCAGTTTTATTTTATTTCATCA
1 TTTATTGCAATTTTATTTCCTTCCAACAAAATAATATTTTATTCCAGTTTTATTTTATTTCATCA
42993419 A
66 A
42993420 TTTATTGCAATTTTATTTCCTTCCAACAAAATAATATTTTATTCCAGTTTTATTTTATTTCATCA
1 TTTATTGCAATTTTATTTCCTTCCAACAAAATAATATTTTATTCCAGTTTTATTTTATTTCATCA
42993485 A
66 A
42993486 ACCAAACATG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (66 bp):
TTTATTGCAATTTTATTTCCTTCCAACAAAATAATATTTTATTCCAGTTTTATTTTATTTCATCA
A
Found at i:42995111 original size:26 final size:26
Alignment explanation
Indices: 42995082--42995171 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 26
42995072 TTGAGAATTT
42995082 TGGCTTTTCCCTTGTTCTGGGGCTTG
1 TGGCTTTTCCCTTGTTCTGGGGCTTG
* * * * *
42995108 TGGC-TTGCTCATTGTCCTTTGGGTGTTTTATT
1 TGGCTTTTC-CCTTGT--TCTGGG-G--CT-TG
42995140 TGGCTTTTCCCTTGTTCTGGGGCTTG
1 TGGCTTTTCCCTTGTTCTGGGGCTTG
42995166 TGGCTT
1 TGGCTT
42995172 GCTCATTGTC
Statistics
Matches: 46, Mismatches: 10, Indels: 16
0.64 0.14 0.22
Matches are distributed among these distances:
25 3 0.07
26 16 0.35
27 1 0.02
28 5 0.11
29 2 0.04
30 5 0.11
31 1 0.02
32 10 0.22
33 3 0.07
ACGTcount: A:0.02, C:0.20, G:0.29, T:0.49
Consensus pattern (26 bp):
TGGCTTTTCCCTTGTTCTGGGGCTTG
Found at i:42995150 original size:58 final size:58
Alignment explanation
Indices: 42995080--42995195 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
42995070 AATTGAGAAT
42995080 TTTGGCTTTTCCCTTGTTCTGGGGCTTGTGGCTTGCTCATTGTCCTTTGGGTGTTTTA
1 TTTGGCTTTTCCCTTGTTCTGGGGCTTGTGGCTTGCTCATTGTCCTTTGGGTGTTTTA
42995138 TTTGGCTTTTCCCTTGTTCTGGGGCTTGTGGCTTGCTCATTGTCCTTTGGGTGTTTTA
1 TTTGGCTTTTCCCTTGTTCTGGGGCTTGTGGCTTGCTCATTGTCCTTTGGGTGTTTTA
42995196 CACTATATTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.03, C:0.19, G:0.28, T:0.50
Consensus pattern (58 bp):
TTTGGCTTTTCCCTTGTTCTGGGGCTTGTGGCTTGCTCATTGTCCTTTGGGTGTTTTA
Found at i:42995180 original size:26 final size:26
Alignment explanation
Indices: 42995093--42995180 Score: 61
Period size: 26 Copynumber: 3.2 Consensus size: 26
42995083 GGCTTTTCCC
42995093 TTGTTCTGGGGCTTGTGGCTTGCTCA
1 TTGTTCTGGGGCTTGTGGCTTGCTCA
* * * * *
42995119 TTGTCCTTTGGGTGTTTTATTTGGCTT-TTCCC
1 TTGT--TCTGGG-G--CT-TGTGGCTTGCT-CA
42995151 TTGTTCTGGGGCTTGTGGCTTGCTCA
1 TTGTTCTGGGGCTTGTGGCTTGCTCA
42995177 TTGT
1 TTGT
42995181 CCTTTGGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 16
0.63 0.14 0.23
Matches are distributed among these distances:
26 16 0.36
27 2 0.05
28 5 0.11
29 2 0.05
30 5 0.11
31 2 0.05
32 12 0.27
ACGTcount: A:0.03, C:0.18, G:0.30, T:0.49
Consensus pattern (26 bp):
TTGTTCTGGGGCTTGTGGCTTGCTCA
Found at i:42998270 original size:2 final size:2
Alignment explanation
Indices: 42998263--42998302 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
42998253 CAATATTGAG
42998263 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A- ATC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A-C AC AC AC
42998303 GCATATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 34 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:43000351 original size:18 final size:18
Alignment explanation
Indices: 43000328--43000364 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
43000318 TATAGTTTGG
*
43000328 TATTTGATTTATTCGAAT
1 TATTTGAGTTATTCGAAT
43000346 TATTTGAGTTATTCGAAT
1 TATTTGAGTTATTCGAAT
43000364 T
1 T
43000365 CGAAAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (18 bp):
TATTTGAGTTATTCGAAT
Found at i:43004213 original size:34 final size:34
Alignment explanation
Indices: 43004165--43004238 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
43004155 AATAGAACAG
*
43004165 TATAATAACATTTTAACCTTTAAACATAT-AATAT
1 TATAACAACATTTTAACCTTTAAA-ATATAAATAT
* *
43004199 TATAACAACTTTTTAGCCTTTAAAATATAAATAT
1 TATAACAACATTTTAACCTTTAAAATATAAATAT
43004233 TA-AACA
1 TATAACA
43004239 CTTGCATGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 8 0.22
34 28 0.78
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (34 bp):
TATAACAACATTTTAACCTTTAAAATATAAATAT
Found at i:43008648 original size:19 final size:19
Alignment explanation
Indices: 43008605--43008648 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
43008595 TTTAACGTAG
43008605 ATAATACAAAAATAATATT
1 ATAATACAAAAATAATATT
* *
43008624 -TAAATACCAAAATTATATT
1 AT-AATACAAAAATAATATT
43008643 ATAATA
1 ATAATA
43008649 TCAATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 1 0.05
19 19 0.90
20 1 0.05
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAATACAAAAATAATATT
Found at i:43013569 original size:21 final size:20
Alignment explanation
Indices: 43013545--43013583 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43013535 GTTTTAATAC
43013545 TAAATAAATTAAAAATATTAT
1 TAAATAAA-TAAAAATATTAT
*
43013566 TAAATCAATAAAAATATT
1 TAAATAAATAAAAATATT
43013584 GTTATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATAAATAAAAATATTAT
Found at i:43013594 original size:15 final size:15
Alignment explanation
Indices: 43013574--43013604 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43013564 ATTAAATCAA
*
43013574 TAAAAATATTGTTAT
1 TAAAAATAATGTTAT
43013589 TAAAAATAATGTTAT
1 TAAAAATAATGTTAT
43013604 T
1 T
43013605 TGATGGGGAT
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:0.06, T:0.45
Consensus pattern (15 bp):
TAAAAATAATGTTAT
Found at i:43014784 original size:8 final size:8
Alignment explanation
Indices: 43014767--43014819 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
43014757 AATGATAAAA
43014767 TATATTAT
1 TATATTAT
*
43014775 TATTTTAT
1 TATATTAT
43014783 TATATTA-
1 TATATTAT
43014790 TA-A--AT
1 TATATTAT
*
43014795 TAAATTGAT
1 TATATT-AT
43014804 TATATTAT
1 TATATTAT
43014812 TATATTAT
1 TATATTAT
43014820 GAAATAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
4 1 0.03
5 2 0.05
6 2 0.05
7 2 0.05
8 23 0.62
9 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
TATATTAT
Found at i:43014805 original size:29 final size:29
Alignment explanation
Indices: 43014764--43014829 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
43014754 TTTAATGATA
* *
43014764 AAATATATT-ATTATTTTATTATATTAT-
1 AAATAAATTGATTATATTATTATATTATG
43014791 AAATTAAATTGATTATATTATTATATTATG
1 AAA-TAAATTGATTATATTATTATATTATG
43014821 AAATAAATT
1 AAATAAATT
43014830 AAGAAAAGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 3 0.09
28 5 0.15
29 23 0.68
30 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (29 bp):
AAATAAATTGATTATATTATTATATTATG
Found at i:43015297 original size:16 final size:15
Alignment explanation
Indices: 43015281--43015311 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
43015271 AACAAAAAGA
43015281 AATAGAAAGAAACAG
1 AATAGAAAGAAACAG
43015296 AATAGAAACGAAACAG
1 AATAGAAA-GAAACAG
43015312 GGAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.65, C:0.10, G:0.19, T:0.06
Consensus pattern (15 bp):
AATAGAAAGAAACAG
Found at i:43015301 original size:15 final size:16
Alignment explanation
Indices: 43015268--43015311 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
43015258 AAGCATAAAA
*
43015268 AGAAAC-AAAAAGAAAT
1 AGAAACGAAACAG-AAT
43015284 AGAAA-GAAACAGAAT
1 AGAAACGAAACAGAAT
43015299 AGAAACGAAACAG
1 AGAAACGAAACAG
43015312 GGAGAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.68, C:0.09, G:0.18, T:0.05
Consensus pattern (16 bp):
AGAAACGAAACAGAAT
Found at i:43015317 original size:26 final size:26
Alignment explanation
Indices: 43015264--43015350 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
43015254 ATGAAAGCAT
* **
43015264 AAAAAGAAACA-AAAAGAAATAGAAAG
1 AAAAAGAAA-AGAAAAGAAAAAGGGAG
* * * *
43015290 AAACAGAATAGAAACGAAACAGGGAG
1 AAAAAGAAAAGAAAAGAAAAAGGGAG
43015316 AAAAAGAAAAGAAAAGAAAAAGGGA-
1 AAAAAGAAAAGAAAAGAAAAAGGGAG
43015341 AAGAAAGAAA
1 AA-AAAGAAA
43015351 TGAGAAATAG
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
25 3 0.06
26 46 0.94
ACGTcount: A:0.71, C:0.05, G:0.22, T:0.02
Consensus pattern (26 bp):
AAAAAGAAAAGAAAAGAAAAAGGGAG
Found at i:43016322 original size:38 final size:39
Alignment explanation
Indices: 43016220--43016328 Score: 105
Period size: 38 Copynumber: 2.8 Consensus size: 39
43016210 AACCTCGAAT
* * *
43016220 CGATGAGACACTTGGTGTCACTATTTTACTTCGGATAGATC
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGATAGAGC
* * * *
43016261 CGGTGAGATACTGGGTATC-ACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
* *
43016298 TGATGAGACACTGGGTGTCAACTTTGCTTCG
1 CGATGAGACACTGGGTGTCAACTTTACTTCG
43016329 AACTATCCGA
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
37 16 0.29
38 24 0.44
41 15 0.27
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:43024383 original size:25 final size:25
Alignment explanation
Indices: 43024349--43024441 Score: 77
Period size: 25 Copynumber: 3.8 Consensus size: 25
43024339 CAACTCTTAT
*
43024349 GAGCGTCCTGATATATGGCTTTCCG
1 GAGCTTCCTGATATATGGCTTTCCG
** **
43024374 GAGCTTCCTGATAT-TGGCTCGCTT
1 GAGCTTCCTGATATATGGCTTTCCG
*
43024398 GAACTT-CTCGATATATGGCTATT-CG
1 GAGCTTCCT-GATATATGGCT-TTCCG
*
43024423 GAGCTTCTTGA-ATATGGCT
1 GAGCTTCCTGATATATGGCT
43024442 CTTATGAGCT
Statistics
Matches: 52, Mismatches: 12, Indels: 9
0.71 0.16 0.12
Matches are distributed among these distances:
23 2 0.04
24 24 0.46
25 25 0.48
26 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (25 bp):
GAGCTTCCTGATATATGGCTTTCCG
Found at i:43026069 original size:41 final size:40
Alignment explanation
Indices: 43026024--43026185 Score: 166
Period size: 41 Copynumber: 4.0 Consensus size: 40
43026014 TTGTATAAAA
* * * *
43026024 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATT
* *
43026064 CCACCGGCACAAAGCCCGCTAGACATAAAGTCTGATACATTT
1 -CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACA-TT
* *
43026106 CACCAGCACT-AAGGCTGCTAGACATAAAGTCTGAAGTA-ATT
1 CACCGGCA-TAAAGCCTGCTAGACATAAAGTCTG-A-TACATT
* * *
43026147 CACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAAACAT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACAT
43026186 CTTATTTTCA
Statistics
Matches: 101, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
39 1 0.01
40 4 0.04
41 90 0.89
42 4 0.04
43 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (40 bp):
CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATT
Found at i:43026854 original size:16 final size:17
Alignment explanation
Indices: 43026833--43026867 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
43026823 ATCTAATAAT
43026833 TTATACAT-GTATATAC
1 TTATACATCGTATATAC
*
43026849 TTATACATCGTTTATAC
1 TTATACATCGTATATAC
43026866 TT
1 TT
43026868 CAACTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (17 bp):
TTATACATCGTATATAC
Found at i:43029021 original size:41 final size:40
Alignment explanation
Indices: 43028976--43029077 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 40
43028966 TGATTCAGTA
43028976 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAA-TATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCT-AAAGTATTT
* *
43029017 CACCGGCATTAAGCCTGCTAGACATTTAGTCTAAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTAAAGTATTT
*
43029058 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
43029078 AGCGCTAAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
40 5 0.09
41 48 0.87
42 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTAAAGTATTT
Found at i:43030679 original size:13 final size:13
Alignment explanation
Indices: 43030661--43030685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43030651 CAATCAAATG
43030661 CACACAAAATAAA
1 CACACAAAATAAA
43030674 CACACAAAATAA
1 CACACAAAATAA
43030686 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:43030750 original size:17 final size:17
Alignment explanation
Indices: 43030728--43030762 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
43030718 CCCGAAACCA
43030728 CTATGTCCGATTAGAGT
1 CTATGTCCGATTAGAGT
43030745 CTATGTCCGATTAGAGT
1 CTATGTCCGATTAGAGT
43030762 C
1 C
43030763 AAAACCGGGT
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:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (17 bp):
CTATGTCCGATTAGAGT
Found at i:43034625 original size:50 final size:49
Alignment explanation
Indices: 43034497--43034690 Score: 210
Period size: 49 Copynumber: 3.9 Consensus size: 49
43034487 GGTAATAACA
* ** * * * **
43034497 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * **
43034546 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATC-G
* * *
43034596 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATC-G
*
43034645 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
43034691 ATCTCAATGA
Statistics
Matches: 119, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
49 80 0.67
50 39 0.33
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:43034649 original size:99 final size:99
Alignment explanation
Indices: 43034504--43034690 Score: 241
Period size: 99 Copynumber: 1.9 Consensus size: 99
43034494 ACATGCCAAA
* ** * * * * * * *
43034504 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTATTGCCAATGTCATATCCCAGATAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTAGTGCCAACGCCATATCCCAGACAT
**
43034569 GGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
66 GGTCTTACATGGGACCTCTCATATCGGTGCCCAT
*
43034603 GCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCT-AGTGCCAACGCCATATCCCAGACA
43034667 TGGTCTTACATGGGACCTCTCATA
65 TGGTCTTACATGGGACCTCTCATA
43034691 ATCTCAATGA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
98 9 0.12
99 65 0.88
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (99 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTAGTGCCAACGCCATATCCCAGACAT
GGTCTTACATGGGACCTCTCATATCGGTGCCCAT
Found at i:43034715 original size:56 final size:50
Alignment explanation
Indices: 43034499--43034742 Score: 186
Period size: 49 Copynumber: 4.8 Consensus size: 50
43034489 TAATAACATG
* ** * * * * *
43034499 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGT-ATTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTA
* * * * ** * * *
43034548 CCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTA
* * * *
43034598 CCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCAGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTA
43034647 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATA
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC-A-G-TA
** * * *
43034703 CCAGTGTCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
43034743 TTACCCAAAT
Statistics
Matches: 158, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
49 78 0.49
50 37 0.23
53 5 0.03
54 1 0.01
55 1 0.01
56 36 0.23
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTA
Found at i:43041131 original size:24 final size:24
Alignment explanation
Indices: 43041099--43041144 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
43041089 AATCAATTTT
43041099 CTCACTAAGGAATCTAGAAATAGA
1 CTCACTAAGGAATCTAGAAATAGA
43041123 CTCACTAAGGAATCTAGAAATA
1 CTCACTAAGGAATCTAGAAATA
43041145 TACATTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (24 bp):
CTCACTAAGGAATCTAGAAATAGA
Found at i:43043014 original size:10 final size:9
Alignment explanation
Indices: 43042999--43043055 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 9
43042989 CTATATGTTT
43042999 ATATTTTATA
1 ATATTTT-TA
43043009 ATATTTTTA
1 ATATTTTTA
43043018 ATAATTTTCT-
1 AT-ATTTT-TA
43043028 ATATTTTTA
1 ATATTTTTA
*
43043037 GTAATTTTTA
1 AT-ATTTTTA
43043047 AT-TTTTTA
1 ATATTTTTA
43043055 A
1 A
43043056 ATAAAATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 8 0.20
9 10 0.24
10 22 0.54
11 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
ATATTTTTA
Found at i:43043033 original size:19 final size:19
Alignment explanation
Indices: 43042987--43043052 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
43042977 TTTCAAATAA
*
43042987 TTCTATATGTTT-AT-ATT
1 TTCTATATTTTTAATAATT
*
43043004 TTATAATATTTTTAATAATT
1 TTCT-ATATTTTTAATAATT
*
43043024 TTCTATATTTTTAGTAATT
1 TTCTATATTTTTAATAATT
43043043 TT-TA-ATTTTT
1 TTCTATATTTTT
43043053 TAAATAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.21
18 9 0.21
19 18 0.43
20 6 0.14
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTCTATATTTTTAATAATT
Found at i:43043053 original size:19 final size:20
Alignment explanation
Indices: 43043001--43043075 Score: 77
Period size: 19 Copynumber: 3.9 Consensus size: 20
43042991 ATATGTTTAT
43043001 ATTTTATAATATTTTTAATA
1 ATTTTATAATATTTTTAATA
* *
43043021 ATTTTCT-ATATTTTTAGTA
1 ATTTTATAATATTTTTAATA
43043040 ATTTT-TAAT-TTTTTAAATAA
1 ATTTTATAATATTTTT-AAT-A
*
43043060 AATTTA-AATATTTTTA
1 ATTTTATAATATTTTTA
43043076 TTGAGTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 6 0.13
19 20 0.43
20 15 0.33
21 5 0.11
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (20 bp):
ATTTTATAATATTTTTAATA
Found at i:43045676 original size:3 final size:3
Alignment explanation
Indices: 43045668--43045696 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
43045658 AAAGAACATA
43045668 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
43045697 AAGGGGAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:43054616 original size:22 final size:22
Alignment explanation
Indices: 43054591--43054632 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
43054581 TGTCTGATTA
43054591 GTCATCTAATCAGTCAAGACTT
1 GTCATCTAATCAGTCAAGACTT
*
43054613 GTCATCTGATCAGTCAAGAC
1 GTCATCTAATCAGTCAAGAC
43054633 ATGATCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (22 bp):
GTCATCTAATCAGTCAAGACTT
Found at i:43056618 original size:20 final size:20
Alignment explanation
Indices: 43056576--43056618 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
43056566 TGAAAACGCA
* *
43056576 AATTAATAAACAAATGAAGG
1 AATTAATAAAAAAATGAAAG
43056596 AATTAAATAAAAAAAT-AAAG
1 AATT-AATAAAAAAATGAAAG
43056616 AAT
1 AAT
43056619 AAAAGGTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.21
Consensus pattern (20 bp):
AATTAATAAAAAAATGAAAG
Found at i:43057394 original size:129 final size:126
Alignment explanation
Indices: 43057240--43057471 Score: 279
Period size: 127 Copynumber: 1.8 Consensus size: 126
43057230 TCGTTTTAAT
*
43057240 TTTAAAAGGATATTCGATTATTTAGG-ATAACGCAAAAAAAATCGA-AGCCCAGTAAGTTAGGGC
1 TTTAAAAGGATATTCGACTATTTAGGTATAACG---AAAAAATCGAGA-CCCAGTAAGTTAGGGC
* * * **
43057303 ACGATTTCTCGAATTTTCTAAATACGGAATATTGCCTTTATTTTTAAAATTTTATGTGTTTGGAA
62 ACAATTTCTCGAATTTCCAAAATACAAAATATTGCC-TTATTTTTAAAATTTTATGTGTTTGGAA
43057368 A
126 A
** * * * **
43057369 TTTAAAAGGATATTTTACTATTTAGGTTTAACGAGAAAATCGGGACCCAGTAAGTTAGGTTACAA
1 TTTAAAAGGATATTCGACTATTTAGGTATAACGAAAAAATCGAGACCCAGTAAGTTAGGGCACAA
*
43057434 TTTCTCGAATTTCCAAAATGCAAAATATTGCCTTATTT
66 TTTCTCGAATTTCCAAAATACAAAATATTGCCTTATTT
43057472 GAAATTTGTT
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
126 6 0.07
127 52 0.60
128 1 0.01
129 23 0.26
130 5 0.06
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (126 bp):
TTTAAAAGGATATTCGACTATTTAGGTATAACGAAAAAATCGAGACCCAGTAAGTTAGGGCACAA
TTTCTCGAATTTCCAAAATACAAAATATTGCCTTATTTTTAAAATTTTATGTGTTTGGAAA
Found at i:43059555 original size:127 final size:125
Alignment explanation
Indices: 43059329--43059970 Score: 987
Period size: 127 Copynumber: 5.1 Consensus size: 125
43059319 GGATGAGATT
* * *
43059329 TGGTTTTAATCCGCTCCACTGCAAATTCAGGGAGATAGGATTGATTTCTTCCATCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT-CGTCTGCTCCACTA
* * *
43059394 CTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGA-CTG
* * * *
43059456 TGGTTTTAATCCGTTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCCTTTGTCTGCTCTACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT-CTTCGTCTGCTCCACTA
43059521 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGAC-TG
* *
43059583 TGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTCTCGTTTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT-TCGTCTGCTCCACTA
*
43059648 CTGCTTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGA-CTG
* * * *
43059710 TGGTTTTAATCCACTCCACTGTAACTTCAGGGAGATAAGATTAGTTTCTCTCGTCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT-TCGTCTGCTCCACTA
* *
43059775 CTGCTTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTATTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGA-CTG
*
43059837 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTTGTCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT-CTTCGTCTGCTCCACTA
* * *
43059902 CTACTTAGGGAGATAAGACTTGAGGTGATCTGCTCCACTACTGCTTAGGGAGATAAGACTTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGAC-TG
43059964 TGGTTTT
1 TGGTTTT
43059971 GTCTGCTCCA
Statistics
Matches: 477, Mismatches: 32, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
126 4 0.01
127 467 0.98
128 6 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (125 bp):
TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCGTCTGCTCCACTAC
TGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTG
Found at i:43059643 original size:87 final size:84
Alignment explanation
Indices: 43059524--43059985 Score: 294
Period size: 87 Copynumber: 5.5 Consensus size: 84
43059514 TCTACTACTG
* * *
43059524 CTTAGGGAGATAAGACTT-GATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTT
1 CTTAGGGAGATAAGACTTGGTTTCTATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTT
43059588 TTAATCCACTCCACTGCAA
66 TTAATCCACTCCACTGCAA
* *
43059607 CTTCAGGGAGATAGGA-TTGGTTTCTCTCGTTTGCTCCACTACTGCTTAGGGAGATAAGACTTGT
1 CTT-AGGGAGATAAGACTTGGTTTCTATC---TGCTCCACTACTGCTTAGGGAGATAAGACTTG-
* * **
43059671 TGCGATCTGCTCCACT--ACTG---
61 TG-GTTTTAATCCACTCCACTGCAA
** * *
43059691 CTTAGGGAGATAAGACCTGTGGTTT-TAATCCACTCCACT-GTAACTTCAGGGAGATAAGA-TTA
1 CTTAGGGAGATAAGA-CT-TGGTTTCT-ATCTGCTCCACTACT-GCTT-AGGGAGATAAGACTT-
** ** * **
43059753 GT--TTCTCTCGTCTGCTCCACTACTG
60 GTGGTT-T-TAATCCACTCCACTGCAA
* * * *
43059778 CTTAGGGAGATAAGACTT-GTTGCGATCTGCTCCACTATTGCTTAGGGAGATAAGACCTGTGGTT
1 CTTAGGGAGATAAGACTTGGTTTCTATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTT
*
43059842 TTAATCCGCTCCACTGCAA
66 TTAATCCACTCCACTGCAA
* * * *
43059861 CTTCAGGGAGATAGGA-TTGGTTTCCTTTGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGA
1 CTT-AGGGAGATAAGACTTGGTTT-C--TATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGT
* ** * **
43059925 GG---TGATCTGCTCCACTACTG
62 GGTTTTAATCCACTCCACTGCAA
*
43059945 CTTAGGGAGATAAGACTTGTGGTTT-TGTCTGCTCCACTACT
1 CTTAGGGAGATAAGAC-T-TGGTTTCTATCTGCTCCACTACT
43059986 TCAGGGATGT
Statistics
Matches: 296, Mismatches: 49, Indels: 69
0.71 0.12 0.17
Matches are distributed among these distances:
80 1 0.00
82 22 0.07
83 71 0.24
84 83 0.28
85 8 0.03
86 16 0.05
87 84 0.28
88 2 0.01
89 9 0.03
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (84 bp):
CTTAGGGAGATAAGACTTGGTTTCTATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTT
TTAATCCACTCCACTGCAA
Found at i:43059963 original size:40 final size:40
Alignment explanation
Indices: 43059381--43059985 Score: 284
Period size: 40 Copynumber: 14.4 Consensus size: 40
43059371 GATTTCTTCC
* *
43059381 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTAAT-GCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTT-GTGGTG
* * *
43059421 ATCTGCTCCACTACTGCTTAAGGAGACAAGA-TCTGTGGTTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACT-TGTGG---TG
* * * ** * * **
43059464 ATCCGTTCCACTGCAACTTCAGAGAGATAGGA-TTGGTTTCCTTTG
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGACTT-G--T--GGTG
* *
43059509 -TCTGCTCTACTACTGCTTAGGGAGATAAGACTTGAT-GCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTG-TGGTG
*
43059548 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGG---TG
** * ** * **
43059591 ATCCACTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTCTCG
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGACTT-G--T-GGT-G
* * *
43059636 -TTTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTG
*
43059675 ATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTGGT-
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTG
* ** **
43059714 -TTTAATCCACTCCACTGTAACTTCAGGGAGATAAGA-TTAGTTTCTCTCG
1 ATCTGCTCCACT--ACTG---CTT-AGGGAGATAAGACTT-G--T-GGT-G
* *
43059763 -TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTG
* * *
43059802 ATCTGCTCCACTATTGCTTAGGGAGATAAGACCTGTGGTTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGG---TG
* * ** * **
43059845 ATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCCTTTG
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGACTT-G--T--GGTG
* *
43059890 -TCTGCTCCACTACTACTTAGGGAGATAAGACTTGAGGTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTG
43059929 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGG---TG
43059972 -TCTGCTCCACTACT
1 ATCTGCTCCACTACT
43059986 TCAGGGATGT
Statistics
Matches: 424, Mismatches: 88, Indels: 104
0.69 0.14 0.17
Matches are distributed among these distances:
38 8 0.02
39 8 0.02
40 174 0.41
41 2 0.00
42 15 0.04
43 100 0.24
44 98 0.23
45 2 0.00
46 4 0.01
47 5 0.01
49 8 0.02
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (40 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTG
Found at i:43073065 original size:16 final size:15
Alignment explanation
Indices: 43073035--43073074 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
43073025 AGGAAAAGGA
43073035 AAATAAAAATAAAAT
1 AAATAAAAATAAAAT
43073050 AAGATAACAAAT-AAAT
1 AA-ATAA-AAATAAAAT
43073066 AAATAAAAA
1 AAATAAAAA
43073075 AGGAAAAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.13
15 6 0.26
16 10 0.43
17 4 0.17
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (15 bp):
AAATAAAAATAAAAT
Found at i:43073745 original size:3 final size:3
Alignment explanation
Indices: 43073737--43073807 Score: 67
Period size: 3 Copynumber: 23.7 Consensus size: 3
43073727 TATAGAAATG
* * *
43073737 ATA ATA ATAA ATA ATA AGA AGA ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
43073783 ATA ACT- ATA ATA A-A A-A ATAA ATA AT
1 ATA A-TA ATA ATA ATA ATA AT-A ATA AT
43073808 GGTATAATAT
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
2 5 0.08
3 47 0.80
4 7 0.12
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:43076062 original size:26 final size:27
Alignment explanation
Indices: 43076024--43076076 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
43076014 TAGAAGGAGA
*
43076024 GAATGAAGTTTTCTAAATTATTTTTCG
1 GAATGAAGATTTCTAAATTATTTTTCG
*
43076051 GAAT-AAGATTTCTATATTATTTTTCG
1 GAATGAAGATTTCTAAATTATTTTTCG
43076077 ATGCCTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (27 bp):
GAATGAAGATTTCTAAATTATTTTTCG
Found at i:43077054 original size:18 final size:18
Alignment explanation
Indices: 43077033--43077090 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
43077023 TATAAAAAAA
43077033 TTTAATTTTTAATAAATT
1 TTTAATTTTTAATAAATT
* *
43077051 TTTAATTTTTATTAAA-A
1 TTTAATTTTTAATAAATT
*
43077068 TTTAATCATTTTTATAAATT
1 TTTAAT--TTTTAATAAATT
43077088 TTT
1 TTT
43077091 TTATCTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 6 0.19
18 15 0.47
19 8 0.25
20 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTAATTTTTAATAAATT
Found at i:43077059 original size:37 final size:36
Alignment explanation
Indices: 43077018--43077090 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
43077008 ATTTTTTATG
43077018 ATTTTTATAAAAAAATTTAAT-TTTTAATAAATTTTTA
1 ATTTTTAT--AAAAATTTAATATTTTAATAAATTTTTA
* *
43077055 ATTTTTATTAAAATTTAATCATTTTTATAAATTTTT
1 ATTTTTATAAAAATTTAAT-ATTTTAATAAATTTTT
43077091 TTATCTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 10 0.31
37 22 0.69
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (36 bp):
ATTTTTATAAAAATTTAATATTTTAATAAATTTTTA
Found at i:43077068 original size:19 final size:19
Alignment explanation
Indices: 43077018--43077101 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 19
43077008 ATTTTTTATG
* **
43077018 ATTTTTATAAAAAAATTTA
1 ATTTTTATTAAAATTTTTA
*
43077037 ATTTTTAAT-AAATTTTTA
1 ATTTTTATTAAAATTTTTA
* *
43077055 ATTTTTATTAAAATTTAATC
1 ATTTTTATTAAAATTT-TTA
* *
43077075 ATTTTTA-TAAATTTTTTT
1 ATTTTTATTAAAATTTTTA
43077093 ATCTTTTAT
1 AT-TTTTAT
43077102 AATTTTTTTC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
18 18 0.35
19 25 0.49
20 8 0.16
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTATTAAAATTTTTA
Found at i:43077118 original size:20 final size:19
Alignment explanation
Indices: 43077077--43077120 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
43077067 ATTTAATCAT
*
43077077 TTTTATAAATTTTTTTATC
1 TTTTATAAATTTTTTTAAC
*
43077096 TTTTATAATTTTTTTCTAAC
1 TTTTATAAATTTTTT-TAAC
43077116 TTTTA
1 TTTTA
43077121 ATAAGAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTATAAATTTTTTTAAC
Found at i:43086677 original size:20 final size:20
Alignment explanation
Indices: 43086652--43086698 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
43086642 GATATTTGTC
43086652 TTTATATTGATATT-ACTA-TA
1 TTTATATT-ATATTGA-TATTA
43086672 TTTATATTATATTGATATTA
1 TTTATATTATATTGATATTA
43086692 TTTATAT
1 TTTATAT
43086699 CCTTCTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATATTATATTGATATTA
Found at i:43087021 original size:16 final size:16
Alignment explanation
Indices: 43087002--43087032 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43086992 ATATACATAC
*
43087002 TTATATTTTTTATATT
1 TTATAATTTTTATATT
43087018 TTATAATTTTTATAT
1 TTATAATTTTTATAT
43087033 ACATATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATAATTTTTATATT
Found at i:43087043 original size:10 final size:10
Alignment explanation
Indices: 43087028--43087053 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
43087018 TTATAATTTT
43087028 TATATACATA
1 TATATACATA
43087038 TATATACATA
1 TATATACATA
43087048 TATATA
1 TATATA
43087054 TCTTTTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (10 bp):
TATATACATA
Found at i:43093672 original size:67 final size:67
Alignment explanation
Indices: 43093530--43093678 Score: 167
Period size: 67 Copynumber: 2.2 Consensus size: 67
43093520 ATTTGAGTCA
** *
43093530 GCTGATTTAAGATCGCAACTCCAAACAGTTCACTGATTTAAGATCGCAACTAATATATTTAAGGT
1 GCTGATTTAAGATCGCAACTCCAAACAACTCACTGATTTAAGATCACAACTAATATATTTAAGGT
43093595 TT
66 TT
* * ** * * *
43093597 GCTAATTTAAGATCGCAAGTCCAAACAACTCGTTGATTTAATATCACGACTGATAT-TGTTAAGG
1 GCTGATTTAAGATCGCAACTCCAAACAACTCACTGATTTAAGATCACAACTAATATAT-TTAAGG
43093661 TTCT
65 TT-T
*
43093665 -CTGATTTAATATCG
1 GCTGATTTAAGATCG
43093679 TAACCTAAGT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
66 1 0.01
67 66 0.97
68 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (67 bp):
GCTGATTTAAGATCGCAACTCCAAACAACTCACTGATTTAAGATCACAACTAATATATTTAAGGT
TT
Found at i:43093742 original size:131 final size:131
Alignment explanation
Indices: 43093601--43094115 Score: 620
Period size: 131 Copynumber: 3.9 Consensus size: 131
43093591 AGGTTTGCTA
* * **
43093601 ATTTAAGATCGCAAGTCCAAACAACTCGTTGATTTAATATCAC-GACTGATATTGTTAAGGTTC-
1 ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAG-CTGATATCATTAAGGTTCG
** *
43093664 TCTGATTTAATATCGTAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGACTTAA
65 T-TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAA
*
43093729 ATG
129 CTG
* * ** ** ** * *
43093732 ATTTAAGATCGCAACTCTAAATAGTTCATTGATTTAATATCGTAGTTGATATCATTGAGGTTCGT
1 ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAGCTGATATCATTAAGGTTCGT
* * * * * *
43093797 TGATTTAAGATCACAACCTAAGTTCATTTGATTTAATACCATGAACAATCTTGTTTGAGTTACCT
66 TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAACT
43093862 G
131 G
* * *
43093863 ATTTAAGATCGCAACTCCAAACAACTAGCTGATTTAATATCGCAGCTGATATCATTAAGGTTCAT
1 ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAGCTGATATCATTAAGGTTCGT
* * * * *
43093928 TGATTTAATATCGCAACGTAAGTTCATTCGATTTAATTTCATGAACAATCCTATTTGAATTAGCT
66 TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAACT
43093993 G
131 G
* * * * * * *
43093994 ATTCAAGATCGCATCTCAAAACAACTCGCTGATTAAAAATCACAGCTAATATCGTTAAGGTTCGT
1 ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAGCTGATATCATTAAGGTTCGT
* * *
43094059 TGATTTAATATCACAATCTAAGTTAATTCGATTTAATATCATGAACAATCTCATTTG
66 TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTG
43094116 TGTTAGCCGA
Statistics
Matches: 323, Mismatches: 59, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
131 321 0.99
132 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (131 bp):
ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAGCTGATATCATTAAGGTTCGT
TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAACT
G
Found at i:43093771 original size:67 final size:64
Alignment explanation
Indices: 43093666--43093879 Score: 186
Period size: 64 Copynumber: 3.3 Consensus size: 64
43093656 TAAGGTTCTC
* * *
43093666 TGATTTAATATCGTAAC-CTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGACTTAAA
1 TGATTTAAGATCGCAACTCTAAGTTCATT-GATTTAATATCATGAACAATCTTATTTGAGTTAAA
* ***
43093730 TGATTTAAGATCGCAACTCTAAATAGTTCATTGATTTAATATCGTAGTTGATATC--A-TTGAGG
1 TGATTTAAGATCGCAACTCT--A-AGTTCATTGATTTAATATCAT-GAACA-ATCTTATTTGA-G
***
43093792 TTCGT
60 TTAAA
* * * **
43093797 TGATTTAAGATCACAAC-CTAAGTTCATTTGATTTAATACCATGAACAATCTTGTTTGAGTTACC
1 TGATTTAAGATCGCAACTCTAAGTTCA-TTGATTTAATATCATGAACAATCTTATTTGAGTTAAA
43093861 TGATTTAAGATCGCAACTC
1 TGATTTAAGATCGCAACTC
43093880 CAAACAACTA
Statistics
Matches: 117, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
62 3 0.03
63 8 0.07
64 48 0.41
65 7 0.06
66 6 0.05
67 32 0.27
68 10 0.09
69 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (64 bp):
TGATTTAAGATCGCAACTCTAAGTTCATTGATTTAATATCATGAACAATCTTATTTGAGTTAAA
Found at i:43109662 original size:23 final size:23
Alignment explanation
Indices: 43109619--43109663 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
43109609 CGTACTTCGG
*
43109619 TGTTGTCCCGTTACACGCTTTGA
1 TGTTGTCCCGTTACACACTTTGA
*
43109642 TGTTGTCCCGTTACGCACTTTG
1 TGTTGTCCCGTTACACACTTTG
43109664 GTACTGTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.27, G:0.22, T:0.40
Consensus pattern (23 bp):
TGTTGTCCCGTTACACACTTTGA
Found at i:43109671 original size:23 final size:23
Alignment explanation
Indices: 43109622--43109671 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
43109612 ACTTCGGTGT
* **
43109622 TGTCCCGTTACACGCTTTGATGT
1 TGTCCCGTTACACACTTTGATAC
* *
43109645 TGTCCCGTTACGCACTTTGGTAC
1 TGTCCCGTTACACACTTTGATAC
43109668 TGTC
1 TGTC
43109672 TTGTTATACG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.12, C:0.28, G:0.22, T:0.38
Consensus pattern (23 bp):
TGTCCCGTTACACACTTTGATAC
Found at i:43110850 original size:6 final size:6
Alignment explanation
Indices: 43110839--43110892 Score: 108
Period size: 6 Copynumber: 9.0 Consensus size: 6
43110829 GCTTATTCGG
43110839 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
43110887 TAAGTT
1 TAAGTT
43110893 ATACGAGCTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TAAGTT
Found at i:43113692 original size:24 final size:23
Alignment explanation
Indices: 43113656--43113710 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
43113646 GTTTTATCTT
43113656 TATTTCTTAATTTT-TATATACATA
1 TATTT-TTAATTTTATA-ATACATA
43113680 TATTTTTACATTTTATAATACATA
1 TATTTTTA-ATTTTATAATACATA
*
43113704 TGTTTTT
1 TATTTTT
43113711 TTTGAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 3 0.11
24 23 0.82
25 2 0.07
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTTTTAATTTTATAATACATA
Found at i:43120352 original size:44 final size:45
Alignment explanation
Indices: 43120260--43120808 Score: 400
Period size: 44 Copynumber: 12.5 Consensus size: 45
43120250 GCAGATCAGT
* * *
43120260 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
43120304 GAAGATA-CAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * *
43120348 GAAGAAAGTAGATCTTGTCTT-C---GTTGG-CGTGAAGTAAATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * *
43120388 GAATATAGCAGGTCCTGTCTTCCTATATTGGCAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * *
43120432 GAAGAT-GCAAATATTCTCTTCCCATATTGGT-GACGGAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAG-CGAAGTAGATC
* * * * *
43120476 GAAGAAAGCAAATCTTGTCTTCATGTATT-G-A-CGTAAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCG--AAGTAGATC
* * * *
43120520 GAAGATAACAGATCATGTCTTCTTATATTGGTAGCGAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *
43120565 GAAGAT-GCAGATCTTGTTTTCCTAT-TCTGGTGGCGAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATAT-TGGTAGCGAAGTAGATC
* * * * *
43120609 G-AGAAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * **
43120653 GAATATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGCGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * *
43120697 GAAGATA-CAGATCTTATCTTCCCATACTGGTGGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * *
43120741 GAAGAAAGTAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
*
43120785 GAAGATAGCAGATCTTGCCTTCCT
1 GAAGATAGCAGATCTTGTCTTCCT
43120809 GCACCGACAG
Statistics
Matches: 384, Mismatches: 97, Indels: 48
0.73 0.18 0.09
Matches are distributed among these distances:
40 24 0.06
41 5 0.01
42 3 0.01
43 63 0.16
44 203 0.53
45 82 0.21
46 2 0.01
47 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
Found at i:43120763 original size:265 final size:260
Alignment explanation
Indices: 43120260--43120808 Score: 760
Period size: 265 Copynumber: 2.1 Consensus size: 260
43120250 GCAGATCAGT
* *
43120260 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
1 GAAGATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
* * * *
43120325 CCATATTGGTGGCGGAGTAGATTGAAGAAAGTAGATCTTGTCTTCGTTGGCGTGAAGTAAATCGA
66 CCATATTGGTGGCGAAATAGATCGAAGAAAGCAGATCTTGTCTTCGTTGGCGTGAAGTAAATCGA
* * *
43120390 ATATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGTGGATCGAAGATGCAAATATTCTCTTCCC
131 ATATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATATTATCTTCCC
* **
43120455 ATATTGGTGACGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAATAGATC
196 ATACTGGTGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAATAGATC
* * * *
43120520 GAAGATAACAGATCATGTCTTCTTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTTTT
1 GAAGATAGCAGATCATGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATACAGATCTTGTCTT
*
43120585 CCTAT-TCTGGTGGCGAAATAGATCG-AGAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
65 CCCATAT-TGGTGGCGAAATAGATCGAAG-AAAGCAGATCTTGTCTTC--G--TTGGCGTGAAGT
* * * *
43120648 AGATCGAATATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGCGGATCGAAGATACAGATCTTA
124 AAATCGAATATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATATTA
* * * * *
43120713 TCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAA
189 TCTTCCCATACTGGTGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAA
*
43120778 GTAGATC
254 ATAGATC
* *
43120785 GAAGATAGCAGATCTTGCCTTCCT
1 GAAGATAGCAGATCATGTCTTCCT
43120809 GCACCGACAG
Statistics
Matches: 251, Mismatches: 31, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
260 33 0.13
261 64 0.25
263 1 0.00
265 153 0.61
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (260 bp):
GAAGATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
CCATATTGGTGGCGAAATAGATCGAAGAAAGCAGATCTTGTCTTCGTTGGCGTGAAGTAAATCGA
ATATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATATTATCTTCCC
ATACTGGTGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAATAGATC
Found at i:43120808 original size:132 final size:132
Alignment explanation
Indices: 43120260--43120795 Score: 715
Period size: 132 Copynumber: 4.1 Consensus size: 132
43120250 GCAGATCAGT
43120260 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
* ** * * *
43120325 CCATATTGGTGGCGGAGTAGATTGAAGAAAGTAGATCTTGTCTTC--G--TTGGCGTGAAGTAAA
66 CCATACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
43120386 TC
131 TC
* * * * * *
43120388 GAATATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGTGGATCGAAGATGCAAATATTCTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
* * ** * * * *
43120453 CCATATTGGTGACGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAATAGA
66 CCATACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
43120518 TC
131 TC
* * * * * *
43120520 GAAGATAACAGATCATGTCTTCTTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTTTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATACAGATCTTGTCTT
* *
43120585 CCTATTCTGGTGGCGAAA-TAGATCG-AGAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
65 CCCATACTGGTGGC-AAAGTAGATCGAAG-AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
43120648 AGATC
128 AGATC
* * *
43120653 GAATATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGCGGATCGAAGATACAGATCTTATCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
*
43120718 CCATACTGGTGGCAAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
43120783 TC
131 TC
43120785 GAAGATAGCAG
1 GAAGATAGCAG
43120796 ATCTTGCCTT
Statistics
Matches: 352, Mismatches: 47, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
128 100 0.28
130 1 0.00
131 3 0.01
132 137 0.39
133 110 0.31
134 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
CCATACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
TC
Found at i:43120901 original size:88 final size:88
Alignment explanation
Indices: 43120789--43121106 Score: 501
Period size: 88 Copynumber: 3.6 Consensus size: 88
43120779 TAGATCGAAG
43120789 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* *
43120854 GATTGCAGCGGAGCAGACTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
** * *
43120877 ATAGCAGATCTTGTATTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCTTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
43120942 GGTTGCAGCGGAGCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* *
43120965 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* ** *
43121030 GGTTACAGTTGAGCAGGTTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* * *
43121053 ATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGATGACCCCAGCC
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
43121107 CTATCTACCT
Statistics
Matches: 209, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 209 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTGCAGCGGAGCAGGCTAAAA
Found at i:43120919 original size:265 final size:265
Alignment explanation
Indices: 43120385--43120920 Score: 560
Period size: 265 Copynumber: 2.0 Consensus size: 265
43120375 CGTGAAGTAA
* * *
43120385 ATCGAATATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGTGGATCGAAGATGCAAATATTCTC
1 ATCGAATATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATATTATC
* **
43120450 TTCCCATATTGGTGACGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAAT
66 TTCCCATACTGGTGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAAT
* * * ** ** ** ** *
43120515 AGATCGAAGATAACAGATCATGTCTTCTTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTT
131 AGATCGAAGATAACAGATCATGCCTTCCTACACCGACAGCGAAGCAGATCGAAGAACCAGACCTT
** * ** * * * * ** * *
43120580 GTTTTCCTATTCTGGTGGCGAAATAGATCGAGAAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
196 GCCTCCCTATTCTGGCAGCGAAACAGATCGAAAAAAGCAGATCTTGTATTCATGCACCGACGCGA
*
43120645 AGTAG
261 AGCAG
* * *
43120650 ATCGAATATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGCGGATCGAAGATACAGATCTTATC
1 ATCGAATATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATATTATC
* * * * * *
43120715 TTCCCATACTGGTGGCAAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGT
66 TTCCCATACTGGTGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAAT
* * *
43120780 AGATCGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAG-CCT
131 AGATCGAAGATAACAGATCATGCCTTCCTACACCGACAGCGAAGCAGATCGAAGA-ACCAGACCT
* * * *
43120844 TGCCTCCCTGGA-T-T-GCAGCGGAGCAGA-CTAAAAATAGCAGATCTTGTATTCCTGCACCGAC
195 TGCCTCCCT--ATTCTGGCAGCGAAACAGATCGAAAAA-AGCAGATCTTGTATTCATGCACCGAC
43120905 AGCGAAGCAG
257 -GCGAAGCAG
43120915 ATCGAA
1 ATCGAA
43120921 GACACCAGCC
Statistics
Matches: 218, Mismatches: 48, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
263 5 0.02
264 28 0.13
265 180 0.83
266 4 0.02
267 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (265 bp):
ATCGAATATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATATTATC
TTCCCATACTGGTGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAAT
AGATCGAAGATAACAGATCATGCCTTCCTACACCGACAGCGAAGCAGATCGAAGAACCAGACCTT
GCCTCCCTATTCTGGCAGCGAAACAGATCGAAAAAAGCAGATCTTGTATTCATGCACCGACGCGA
AGCAG
Found at i:43121169 original size:44 final size:43
Alignment explanation
Indices: 43121106--43121271 Score: 197
Period size: 44 Copynumber: 3.8 Consensus size: 43
43121096 TGACCCCAGC
*
43121106 CCTATCTACCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGG-CAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
43121150 CCTATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTGAGAAT
1 CCTATCTCCCTGG-CAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * *
43121194 TCTATCTCTCTAGGCAGCAGTGGAATAGATTGAAGATTGTGAAT
1 CCTATCTCCCT-GGCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
43121238 CTTATCTCCCTGAGCAGTAGTGGATTAGGTTAAA
1 CCTATCTCCCTG-GCAGCAGTGGAATAGGTTAAA
43121272 AATAGTAGAT
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
43 1 0.01
44 101 0.97
45 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (43 bp):
CCTATCTCCCTGGCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:43121401 original size:88 final size:88
Alignment explanation
Indices: 43121237--43121404 Score: 201
Period size: 88 Copynumber: 1.9 Consensus size: 88
43121227 AGATTGTGAA
* * * * *
43121237 TCTTATCTCCCTGAGCAGTAGTGGATTAGGTTAAAAATAGTAGATCTTGCATTCATGTACCGGCA
1 TCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCATTCATGTACCAGCA
*
43121302 GCGAAGCAGATCGAAAACTCCAG
66 ACGAAGCAGATCGAAAACTCCAG
* * * * * * *
43121325 TCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGGTCTTTCCTTCCTGTACTAGCA
1 TCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCATTCATGTACCAGCA
* *
43121390 ATGAAGTAGATCGAA
66 ACGAAGCAGATCGAA
43121405 GACATCAGTT
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
88 65 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCATTCATGTACCAGCA
ACGAAGCAGATCGAAAACTCCAG
Found at i:43121996 original size:44 final size:44
Alignment explanation
Indices: 43121926--43122434 Score: 214
Period size: 44 Copynumber: 11.7 Consensus size: 44
43121916 TAATGGCGAA
* *
43121926 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-GATAAG
* * **
43121971 TC-TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA--AATTTGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGA-TAAG
* * *** *
43122013 ATCTTATCTCTCTAAAGTTGCAG-GGAGCAGATCGCA-T-CT-AG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGATAAG
* * * *
43122054 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-AAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGA-TAAG
* * * *
43122098 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-TGATAAG
* *
43122143 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCTGATAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TGATAAG
* * * * ** *
43122187 TCCTATCTCCCTGAAGTTACAGTGAAGCGGATTGAAA-CCA-CAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGTGATAAG
* * *** * *
43122230 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCA-T-CT-GG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGATAAG
* * * *
43122271 TCTTATTTCCCTGAAGTTGTAGTGGAGCAGACT-GAGTAAGA-AAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT--GATAAG
* * * * * * *
43122315 TCTTATCCCCCTGAAATTGCAGTAGG-GCGGACTGAA-TGAACAAA
1 TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTAAAGTG-ATAAG
* * * ** * **
43122359 TCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAAAATGATGGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGATAAG
** **
43122403 TCTTATCTATCTGAAGTTGCAGCAGAGCAGAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
43122435 CACATCAAAT
Statistics
Matches: 347, Mismatches: 86, Indels: 63
0.70 0.17 0.13
Matches are distributed among these distances:
40 42 0.12
41 20 0.06
42 5 0.01
43 24 0.07
44 201 0.58
45 50 0.14
46 5 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGATAAG
Found at i:43122196 original size:217 final size:216
Alignment explanation
Indices: 43121924--43122377 Score: 635
Period size: 217 Copynumber: 2.1 Consensus size: 216
43121914 TGTAATGGCG
* * * * *
43121924 AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATTCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTA
* **** *
43121989 CAGTGGAGCGGATTAAAAATTTGGATCTTATCTCTCTAAAGTTGCAGGGAGCAGATCGCATCTAG
66 CAGTGAAGCGGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCTAG
* * *
43122054 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
131 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGAAAGTCTTATCCCCCTGAAATTGCA
43122119 GT-GAGGCAGACTGAA-GATGACA
196 GTAG-GGCAGACTGAATGA--ACA
43122141 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAG-CTGATAATCCTATCTCCCTGAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGTC-GATAATCCTATCTCCCTGAAGTT
* * * *
43122205 ACAGTGAAGCGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTG
65 ACAGTGAAGCGGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCTA
* * * *
43122270 GTCTTATTTCCCTGAAGTTGTAGTGGAGCAGACTGAGTAAGAAAGTCTTATCCCCCTGAAATTGC
130 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGAAAGTCTTATCCCCCTGAAATTGC
*
43122335 AGTAGGGCGGACTGAATGAACA
195 AGTAGGGCAGACTGAATGAACA
*
43122357 AATCCTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTAAAGTTG
43122378 TAGTGGAGTG
Statistics
Matches: 210, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
216 24 0.11
217 183 0.87
218 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (216 bp):
AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTA
CAGTGAAGCGGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCTAG
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGAAAGTCTTATCCCCCTGAAATTGCA
GTAGGGCAGACTGAATGAACA
Found at i:43122200 original size:89 final size:88
Alignment explanation
Indices: 43122054--43122261 Score: 226
Period size: 89 Copynumber: 2.4 Consensus size: 88
43122044 TCGCATCTAG
* * * *
43122054 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAGTAAGCAAGTCCTATCCTCCTGAAGTTACA
* **
43122119 GTGAGGCAGACTGAAGATGACAAA
66 GTGAAGCAGACTGAA-ACCACAAA
* *
43122143 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCTGA-TAA-TCCTAT-CTCCCTGAAGTT
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATT-AAG-TAAGCAAGTCCTATCCT-CCTGAAGTT
* * *
43122205 ACAGTGAAGCGGATTGAAACCACAGA
63 ACAGTGAAGCAGACTGAAACCACAAA
* *
43122231 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGAT
43122262 CGCATCTGGT
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
87 9 0.09
88 27 0.26
89 59 0.58
90 5 0.05
91 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (88 bp):
TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAGTAAGCAAGTCCTATCCTCCTGAAGTTACA
GTGAAGCAGACTGAAACCACAAA
Found at i:43124358 original size:19 final size:20
Alignment explanation
Indices: 43124317--43124358 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
43124307 ATTTCTATGT
* *
43124317 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
43124337 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
43124356 CAT
1 CAT
43124359 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:43139892 original size:16 final size:16
Alignment explanation
Indices: 43139867--43139902 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
43139857 GACGAAAATC
* *
43139867 AAAAAGAAAAAAATGG
1 AAAAACAAAAAAAAGG
43139883 AAAAACAAAAAAAAGG
1 AAAAACAAAAAAAAGG
43139899 AAAA
1 AAAA
43139903 TAAGTAAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.03
Consensus pattern (16 bp):
AAAAACAAAAAAAAGG
Found at i:43140275 original size:3 final size:3
Alignment explanation
Indices: 43140267--43140319 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
43140257 ATGAAAGGAA
43140267 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
43140315 AAT AA
1 AAT AA
43140320 GAAAGGAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:43140748 original size:19 final size:19
Alignment explanation
Indices: 43140724--43140763 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
43140714 ATTTTCTTTA
43140724 TATATTCTTTAGAATTTTT
1 TATATTCTTTAGAATTTTT
* *
43140743 TATATTTTTTATAATTTTT
1 TATATTCTTTAGAATTTTT
43140762 TA
1 TA
43140764 AAAATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
TATATTCTTTAGAATTTTT
Found at i:43140751 original size:10 final size:10
Alignment explanation
Indices: 43140720--43140763 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
43140710 TTTAATTTTC
*
43140720 TTTATATATTC
1 TTTATA-ATTT
*
43140731 TTTAGAATTT
1 TTTATAATTT
43140741 TTTAT-ATTT
1 TTTATAATTT
43140750 TTTATAATTT
1 TTTATAATTT
43140760 TTTA
1 TTTA
43140764 AAAATATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 9 0.31
10 15 0.52
11 5 0.17
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTATAATTT
Found at i:43140952 original size:24 final size:24
Alignment explanation
Indices: 43140924--43140978 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
43140914 TTTGAGTTAT
*
43140924 TTGAATTGTAAAATTCAAATCGAC
1 TTGAATCGTAAAATTCAAATCGAC
43140948 TTGAATCGTAAAATTCAAATCGAC
1 TTGAATCGTAAAATTCAAATCGAC
43140972 TTGAATC
1 TTGAATC
43140979 TCAGATTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (24 bp):
TTGAATCGTAAAATTCAAATCGAC
Found at i:43152614 original size:28 final size:28
Alignment explanation
Indices: 43152578--43152649 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
43152568 TAATGAGATT
* * *
43152578 AGCACTAAGTATGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGATTAATTATAA
* * *
43152606 AGCATTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTAATTATAA
43152634 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
43152650 ACTTATTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTAATTATAA
Found at i:43153402 original size:23 final size:23
Alignment explanation
Indices: 43153373--43153689 Score: 242
Period size: 23 Copynumber: 13.5 Consensus size: 23
43153363 TGATGCTTAA
43153373 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
43153396 ATACTGCTCAATTTGTTGCATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
43153419 ATGCTGTCCAATTTTTTATGCT-TAA
1 ATGCTGCCCAA-TTTGT-TG-TATAT
*
43153444 ATGCTGCCCAATTTGTTGTATTT
1 ATGCTGCCCAATTTGTTGTATAT
** *
43153467 ATGCTGCCCAAAATGTTATATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
43153490 ATGCTGCCCAATTTTTGGTGTAAAA
1 ATGCTGCCCAA--TTTGTTGTATAT
* * * *
43153515 ATGATGCTCAATTTGTTGTTTTT
1 ATGCTGCCCAATTTGTTGTATAT
43153538 ATGCTGCCCAGA-TTGTTGTATAT
1 ATGCTGCCCA-ATTTGTTGTATAT
* * * *
43153561 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAA-TTTGTTGTATAT
* * * * *
43153585 ATGTTGCTCAATTTGGTATATAA
1 ATGCTGCCCAATTTGTTGTATAT
43153608 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
43153631 ATGCTGTCCAATTTTTGGTGTAAAA
1 ATGCTGCCCAA--TTTGTTGTATAT
* *
43153656 ATGCTACTCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
*
43153679 ATGCTGTCCAA
1 ATGCTGCCCAA
43153690 ATTTTGGTGT
Statistics
Matches: 221, Mismatches: 62, Indels: 22
0.72 0.20 0.07
Matches are distributed among these distances:
22 2 0.01
23 148 0.67
24 25 0.11
25 46 0.21
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (23 bp):
ATGCTGCCCAATTTGTTGTATAT
Found at i:43153461 original size:71 final size:71
Alignment explanation
Indices: 43153371--43153689 Score: 392
Period size: 71 Copynumber: 4.5 Consensus size: 71
43153361 TTTGATGCTT
* * * * *
43153371 AAATGCTGCCCAATTTGTTGTATATATACTGCTCAATTTGTTGCATATATGCTGTCCAATTTTTT
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
*
43153436 ATGCT-T
66 ATG-TAA
* * ** * *
43153442 AAATGCTGCCCAATTTGTTGTATTTATGCTGCCCAAAATGTTATATATATGCTGCCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
*
43153507 GTGTAA
66 ATGTAA
* * *
43153513 AAATGATGCTCAATTTGTTGTTTTTATGCTGCCCAGA-TTGTTGTATATATGCTGTCCAA-TTTT
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCA-ATTTGTTGTATATATGCTGTCCAATTTTT
43153576 GATGTAA
65 GATGTAA
* * * *
43153583 AAATGTTGCTCAATTTGGTATATAAATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
*
43153648 GTGTAA
66 ATGTAA
* *
43153654 AAATGCTACTCAATTTGTTGTATATATGCTGTCCAA
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAA
43153690 ATTTTGGTGT
Statistics
Matches: 213, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
69 1 0.00
70 62 0.29
71 149 0.70
72 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (71 bp):
AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
ATGTAA
Found at i:43153660 original size:48 final size:47
Alignment explanation
Indices: 43153371--43153706 Score: 234
Period size: 48 Copynumber: 7.1 Consensus size: 47
43153361 TTTGATGCTT
* * * * *
43153371 AAATGCTGCCCAATTTGTTGTATATATACTGCTCAA-TTTGTTGCAT
1 AAATGCTGCCCAATTTGTTGTATATATGCTGCCCAATTTTGGTGTAA
* * * * * *
43153417 ATATGCTGTCCAATTTTTTATGCT-TAAATGCTGCCCAA-TTTGTTGTAT
1 AAATGCTGCCCAA-TTTGT-TG-TATATATGCTGCCCAATTTTGGTGTAA
** ** *
43153465 TTATGCTGCCCAAAATGTTATATATATGCTGCCCAATTTTTGGTGTAA
1 AAATGCTGCCCAATTTGTTGTATATATGCTGCCCAA-TTTTGGTGTAA
* * * * * *
43153513 AAATGATGCTCAATTTGTTGTTTTTATGCTGCCCAGA--TTGTTGTAT
1 AAATGCTGCCCAATTTGTTGTATATATGCTGCCCA-ATTTTGGTGTAA
* * * * * * * * *
43153559 ATATGCTGTCCAATTTTGATGTAAAAATGTTGCTCAA-TTTGGTATAT
1 AAATGCTGCCCAA-TTTGTTGTATATATGCTGCCCAATTTTGGTGTAA
*
43153606 AAATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAA
1 AAATGCTGCCCAATTTGTTGTATATATGCTGCCCAA-TTTTGGTGTAA
* * * *
43153654 AAATGCTACTCAATTTGTTGTATATATGCTGTCCAAATTTTGGTGTGA
1 AAATGCTGCCCAATTTGTTGTATATATGCTG-CCCAATTTTGGTGTAA
43153702 AAATG
1 AAATG
43153707 TTGTCTTGTT
Statistics
Matches: 223, Mismatches: 55, Indels: 22
0.74 0.18 0.07
Matches are distributed among these distances:
45 1 0.00
46 59 0.26
47 39 0.17
48 119 0.53
49 5 0.02
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.42
Consensus pattern (47 bp):
AAATGCTGCCCAATTTGTTGTATATATGCTGCCCAATTTTGGTGTAA
Found at i:43156615 original size:24 final size:23
Alignment explanation
Indices: 43156588--43156638 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
43156578 CATTGTGGCC
43156588 TCTTAAATTACA-ATCAATTATGAA
1 TCTTAAATTACACA--AATTATGAA
* *
43156612 TCTTTAATTTCACAAATTATGAA
1 TCTTAAATTACACAAATTATGAA
43156635 TCTT
1 TCTT
43156639 CTTGTTGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.54
24 10 0.42
25 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (23 bp):
TCTTAAATTACACAAATTATGAA
Found at i:43167042 original size:47 final size:47
Alignment explanation
Indices: 43166989--43167083 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
43166979 AATGATTAAA
43166989 ACTGTAGTTTACTCATTTTATAATGGATTAATATGTAATTTTCTCAT
1 ACTGTAGTTTACTCATTTTATAATGGATTAATATGTAATTTTCTCAT
43167036 ACTGTAGTTTACTCATTTTATAATGGATTAATATGTAATTTTCTCAT
1 ACTGTAGTTTACTCATTTTATAATGGATTAATATGTAATTTTCTCAT
43167083 A
1 A
43167084 TTTATCTAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.48
Consensus pattern (47 bp):
ACTGTAGTTTACTCATTTTATAATGGATTAATATGTAATTTTCTCAT
Found at i:43167077 original size:23 final size:23
Alignment explanation
Indices: 43167003--43167077 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
43166993 TAGTTTACTC
43167003 ATTTTATAATGGATTAATATGTA
1 ATTTTATAATGGATTAATATGTA
* * * *
43167026 ATTTTCTCATACTGTAGTT--TA-CTC
1 A-TTT-T-ATAATGGA-TTAATATGTA
43167050 ATTTTATAATGGATTAATATGTA
1 ATTTTATAATGGATTAATATGTA
43167073 ATTTT
1 ATTTT
43167078 CTCATATTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
20 2 0.05
21 6 0.16
22 3 0.08
23 10 0.27
24 5 0.14
25 3 0.08
26 6 0.16
27 2 0.05
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.51
Consensus pattern (23 bp):
ATTTTATAATGGATTAATATGTA
Found at i:43172610 original size:31 final size:29
Alignment explanation
Indices: 43172572--43172641 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
43172562 ACTACTAAAA
* *
43172572 TAGTCACTTTTGTTTGACTCAGGTTACATTT
1 TAGTCACTTATGTTTGA--AAGGTTACATTT
* *
43172603 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
43172632 TAGTCACTTA
1 TAGTCACTTA
43172642 CGTTATCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:43176235 original size:129 final size:129
Alignment explanation
Indices: 43176004--43176264 Score: 335
Period size: 129 Copynumber: 2.0 Consensus size: 129
43175994 AGAGAATTTT
* * ** * *
43176004 GTTCTTTGTTTTGAAGGATTTTTTCTTGCGGGGCTTCGGGTTTTTCTTTTAATTCTCTTCATCTT
1 GTTCTTTGTTTCGAAGGAGTTTTTCTTGCGGGGCTTCAAGTTTTTCTTTTAATTCTCTCCATATT
* * *
43176069 CTGTACTCTAATTTATTATAGCAAAATATTCTTTTGTCCATAGTTTTTTAATCCTCTCTTGAGGA
66 CTGTACTCTAACTTATTATAGCAAAATATCCTTTTGTCCATAGTTTTTT-ATCCTCTCTTGAGAA
* *
43176134 GTTCTTTGTTTCGAAGG-GTTTTTCTTGTGGGGTTTCAAGTTTTTCTTTTAATTCTCTCCATATT
1 GTTCTTTGTTTCGAAGGAGTTTTTCTTGCGGGGCTTCAAGTTTTTCTTTTAATTCTCTCCATATT
* * * * * ** *
43176198 TTGTTCTCTCACTTATTATAGTAAAATCTCCTTTTGTCTGTAGTTTTTTATCCTCTTTTGAGAA
66 CTGTACTCTAACTTATTATAGCAAAATATCCTTTTGTCCATAGTTTTTTATCCTCTCTTGAGAA
43176262 GTT
1 GTT
43176265 TTTCCACATA
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
128 16 0.14
129 80 0.71
130 16 0.14
ACGTcount: A:0.17, C:0.16, G:0.15, T:0.52
Consensus pattern (129 bp):
GTTCTTTGTTTCGAAGGAGTTTTTCTTGCGGGGCTTCAAGTTTTTCTTTTAATTCTCTCCATATT
CTGTACTCTAACTTATTATAGCAAAATATCCTTTTGTCCATAGTTTTTTATCCTCTCTTGAGAA
Found at i:43180277 original size:29 final size:26
Alignment explanation
Indices: 43180229--43180282 Score: 63
Period size: 29 Copynumber: 2.0 Consensus size: 26
43180219 AAGCCATTTT
*
43180229 TAAAAAAAATTACTGAAATGGACCCAG
1 TAAAAAAAATTACCGAAAT-GACCCAG
*
43180256 TAAAAAATTAATTACCGGAATGACCCA
1 TAAAAAA--AATTACCGAAATGACCCA
43180283 AATCCCCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 6 0.26
29 10 0.43
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (26 bp):
TAAAAAAAATTACCGAAATGACCCAG
Found at i:43180461 original size:21 final size:21
Alignment explanation
Indices: 43180417--43180459 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
43180407 CTCTTGCTGG
* *
43180417 TTAGGGTTTTGGGTTTTTGGT
1 TTAGGGTTTAGGGTTTATGGT
43180438 TTAGGGTTTAGGG-TTATGGT
1 TTAGGGTTTAGGGTTTATGGT
43180458 TT
1 TT
43180460 TAAGGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.09, C:0.00, G:0.37, T:0.53
Consensus pattern (21 bp):
TTAGGGTTTAGGGTTTATGGT
Found at i:43180830 original size:126 final size:126
Alignment explanation
Indices: 43180675--43181091 Score: 656
Period size: 126 Copynumber: 3.3 Consensus size: 126
43180665 AGTGTTAATT
* ** * *
43180675 TAAAA-AAGCTCTCACGTGGACGCTTTTTTGCTACAGTAGCTGCTGAAAAAATAATTTCGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
* *
43180739 ACGTTTCTAAGCAAATAGAGTCAAGAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
*
43180800 TGAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
*
43180865 ACGTTTCTAAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
* * *
43180926 TAAAAGAAGCTTCTACGTGGACGCGCTTTTGCTATAGTAGCTCCTGAAAAAATAATTTCGAGTAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
* * * * * *
43180991 ACATTTTTGAGCAAATAGTTTCAAAAACACTTTAAGCAAGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
*
43181052 TAAAAGAAGCTCCTACGTGGACGCGCTTTTGCTACAGTAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
43181092 TTTCTGTTTG
Statistics
Matches: 269, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
125 4 0.01
126 265 0.99
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
Found at i:43182874 original size:34 final size:35
Alignment explanation
Indices: 43182835--43182902 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
43182825 TGTAAAAGTA
*
43182835 AATTTCTATTTTATTACATGAAATAATA-CAAAAG
1 AATTTCTATTTTATTACATCAAATAATATCAAAAG
43182869 AATTTCTATTTTATTACATCAAATAATATCAAAA
1 AATTTCTATTTTATTACATCAAATAATATCAAAA
43182903 TATTCAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 27 0.84
35 5 0.16
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (35 bp):
AATTTCTATTTTATTACATCAAATAATATCAAAAG
Found at i:43183979 original size:7 final size:7
Alignment explanation
Indices: 43183969--43183994 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
43183959 CATAATACAT
43183969 AATACTA
1 AATACTA
43183976 AATACTA
1 AATACTA
43183983 AATACTA
1 AATACTA
43183990 AATAC
1 AATAC
43183995 CAATCGACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:43185214 original size:11 final size:11
Alignment explanation
Indices: 43185200--43185291 Score: 100
Period size: 11 Copynumber: 8.4 Consensus size: 11
43185190 GGTTTTTTAA
43185200 AGAGGAAATTG
1 AGAGGAAATTG
*
43185211 AGAGAAAATTG
1 AGAGGAAATTG
*
43185222 AGAGGAATTTG
1 AGAGGAAATTG
43185233 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
43185244 AAAGGAAATTG
1 AGAGGAAATTG
*
43185255 AGAGGAATTTG
1 AGAGGAAATTG
43185266 AGA-GAATATTG
1 AGAGGAA-ATTG
43185277 -GAGAGAAATTG
1 AGAG-GAAATTG
43185288 AGAG
1 AGAG
43185292 AAAGGATTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
10 8 0.12
11 49 0.73
12 10 0.15
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:43185254 original size:33 final size:33
Alignment explanation
Indices: 43185216--43185291 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
43185206 AATTGAGAGA
*
43185216 AAATTGAGAGGAATTTGAGAGAA-ATTTGAAAGG
1 AAATTGAGAGGAATTTGAGAGAATATTGGAAA-G
*
43185249 AAATTGAGAGGAATTTGAGAGAATATTGGAGAG
1 AAATTGAGAGGAATTTGAGAGAATATTGGAAAG
43185282 AAATTGAGAG
1 AAATTGAGAG
43185292 AAAGGATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 34 0.85
34 6 0.15
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.24
Consensus pattern (33 bp):
AAATTGAGAGGAATTTGAGAGAATATTGGAAAG
Found at i:43186161 original size:14 final size:14
Alignment explanation
Indices: 43186125--43186162 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
43186115 ATTTATTAAT
*
43186125 ATTATAATAAATAA
1 ATTATAATAAACAA
*
43186139 AATAT-ATAAACAA
1 ATTATAATAAACAA
43186152 ATTATAATAAA
1 ATTATAATAAA
43186163 AATACTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
ATTATAATAAACAA
Found at i:43204417 original size:76 final size:76
Alignment explanation
Indices: 43204328--43204574 Score: 467
Period size: 76 Copynumber: 3.2 Consensus size: 76
43204318 AAGTTATACG
43204328 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
*
43204393 TGACATGACTC
66 GGACATGACTC
*
43204404 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAAACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
43204469 GGACATGACTC
66 GGACATGACTC
*
43204480 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGGCTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
43204545 GGACATGACTC
66 GGACATGACTC
43204556 AGCAGATAGATAGGAATCT
1 AGCAGATAGATAGGAATCT
43204575 TATCTTGATG
Statistics
Matches: 167, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 167 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.21
Consensus pattern (76 bp):
AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
GGACATGACTC
Found at i:43211804 original size:76 final size:76
Alignment explanation
Indices: 43211715--43211885 Score: 333
Period size: 76 Copynumber: 2.2 Consensus size: 76
43211705 AAGTTATACG
*
43211715 AGCAGATAGATAGGAATCTGCTTTACAAATATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
43211780 GGACATGACTC
66 GGACATGACTC
43211791 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
43211856 GGACATGACTC
66 GGACATGACTC
43211867 AGCAGATAGATAGGAATCT
1 AGCAGATAGATAGGAATCT
43211886 TATCCTGATG
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 94 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (76 bp):
AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
GGACATGACTC
Found at i:43217875 original size:11 final size:11
Alignment explanation
Indices: 43217859--43217895 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
43217849 AAGAGAGAAT
*
43217859 GATGCTTGATG
1 GATGCTTGAGG
43217870 GATGCTTGAGG
1 GATGCTTGAGG
43217881 GATGCTTGAGG
1 GATGCTTGAGG
43217892 GATG
1 GATG
43217896 ATGAATGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.19, C:0.08, G:0.43, T:0.30
Consensus pattern (11 bp):
GATGCTTGAGG
Found at i:43218509 original size:38 final size:38
Alignment explanation
Indices: 43218462--43218537 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
43218452 TTGCATGAAA
*
43218462 ACTATATAATAAAGTATAAAATAACATTTTAATAATTT
1 ACTATATAATAAAGCATAAAATAACATTTTAATAATTT
* *
43218500 ACTATATAATAAAGCATAAAATCACATTTTAGTAATTT
1 ACTATATAATAAAGCATAAAATAACATTTTAATAATTT
43218538 TTATGTCCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (38 bp):
ACTATATAATAAAGCATAAAATAACATTTTAATAATTT
Found at i:43221277 original size:21 final size:22
Alignment explanation
Indices: 43221253--43221293 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
43221243 CCTCAAAGCT
*
43221253 CAATGGTACT-CATACAAATTC
1 CAATGATACTACATACAAATTC
*
43221274 CAATGATACTATATACAAAT
1 CAATGATACTACATACAAAT
43221294 GCACAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (22 bp):
CAATGATACTACATACAAATTC
Found at i:43225567 original size:13 final size:14
Alignment explanation
Indices: 43225533--43225566 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
43225523 GTGCTTCTTG
43225533 AACTTTTAACCCTA
1 AACTTTTAACCCTA
43225547 AACTTTTAA-CCTA
1 AACTTTTAACCCTA
43225560 ACACTTT
1 A-ACTTT
43225567 ATAATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTTTTAACCCTA
Found at i:43231171 original size:20 final size:20
Alignment explanation
Indices: 43231133--43231171 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43231123 ACATATTATC
* * *
43231133 ATTGTTCATGATTTGACTCT
1 ATTGTTCATAACTTAACTCT
43231153 ATTGTTCATAACTTAACTC
1 ATTGTTCATAACTTAACTC
43231172 CACTATTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (20 bp):
ATTGTTCATAACTTAACTCT
Found at i:43234445 original size:70 final size:70
Alignment explanation
Indices: 43234370--43235166 Score: 322
Period size: 70 Copynumber: 11.4 Consensus size: 70
43234360 GCTACAATTG
* * * *
43234370 GGAGCTTTAGCTCGT-ACTAACTGTTTTGGAGGCTGCGGTGTTGAACCTATGAGCCTTAAGATCA
1 GGAGCTTTAGCTC-TCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCA
43234434 CAACTA
65 CAACTA
* * * * * * * *
43234440 AGAGCTTGAGCTCTCACTAACAGTTTTAGAGGCTGTGACATCGATCTTGTGAGCCTTAAGATCAC
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCAC
*
43234505 AACTT
66 AACTA
* * * * * * *
43234510 GGAGCTTGAGCTTTCGCTAACTATTTTAGAGGCAGCGATATTGAACCTGCGAGCCTTAAGATCAG
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCAC
* *
43234575 AGCTG
66 AACTA
* * * * * * *
43234580 GGAGCCTTAACTCTCGCTAAATATTTTAGAGGATAC-AGTATTGAACCTGTGAGCCTTAAGATCA
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGA-TATTGAACCTGTGAGCCTTAAGATCA
*
43234644 AAACTA
65 CAACTA
* * * * * * *
43234650 GGAGCCTTAGCTCTCGCTAACTATTTTTGGGGACTGCGGTATTGAACCTGCT-AGCATTAAGATC
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGG-CTGCGATATTGAACCTG-TGAGCCTTAAGATC
* * *
43234714 GC-AGTT
64 ACAACTA
* * * * * * * * * *
43234720 GAGAGCTTTAGCCCTCGC-AACTATTTTTGGGGGTTGCGATATTGAATCTGCGAGCCCTAAGATT
1 G-GAGCTTTAGCTCTCACTAACT-GTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATC
* ** *
43234784 ATAGTTG
64 ACAACTA
* * * * * * * *** * * * *
43234791 GGAGC-TTAGCTCTCGCTAACTATTTTAAAGGTTGTGGTATTGAACTTACAAACATTAATATCAT
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCAC
*
43234855 AGA-TG
66 A-ACTA
* ** * * * * * ** *
43234860 GGAGCTTTAGCTTTCGTTAACTATTTTTCG-GGCTACGGTATTGAAACTGCAAGCCCTAAGATCA
1 GGAGCTTTAGCTCTCACTAACT-GTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCA
* *
43234924 TACCTTA
65 CAAC-TA
* * * * * * * *
43234931 -GAGCTTGAGCTCTTACTAACT-ATTTAGAGGTTGTGGTATTCAACCTGTGAGCCTTAAGATCAT
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCAC
* *
43234994 AGCTG
66 AACTA
* * * * * * ** * * * *
43234999 GGAGCCTTAGTTCTCCCTATCTATTTTAGATGCTATGGTATTAAACCTGCGAGCCATAAGATCAC
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCAC
*
43235064 AAAT-
66 AACTA
* * ** * * * * * *
43235068 GAGAGCATTAGCTTTTGCTAAATATTTTTGAGAGCTG-TAGTATTGAACATGTGAGCCCTAAGAT
1 G-GAGCTTTAGCTCTCACTAACTGTTTTAGAG-GCTGCGA-TATTGAACCTGTGAGCCTTAAGAT
* *
43235132 TACAACTT
63 CACAACTA
* * *
43235140 GGAGCTTTAGCTTTCGCTAACTATTTT
1 GGAGCTTTAGCTCTCACTAACTGTTTT
43235167 CTTTTAGAGG
Statistics
Matches: 549, Mismatches: 156, Indels: 43
0.73 0.21 0.06
Matches are distributed among these distances:
68 5 0.01
69 93 0.17
70 345 0.63
71 104 0.19
72 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (70 bp):
GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCAC
AACTA
Found at i:43234745 original size:140 final size:140
Alignment explanation
Indices: 43234487--43234817 Score: 346
Period size: 141 Copynumber: 2.4 Consensus size: 140
43234477 ACATCGATCT
* * *
43234487 TGTGAGCCTTAAGATCACAACTTGGAGCTTGAGCTTTCGCTAACTATTTTAGAGGCAGCGATATT
1 TGTGAGCCTTAAGATCAAAACTAGGAGCTT-AGCTCTCGCTAACTATTTTAGAGGCAGCGATATT
* * *
43234552 GAACCTGCGAGCCTTAAGATCAGAGCTGGGAGCCTTAACTCTCGCTAAATA-TTTTAGAGGATAC
65 GAACCTGCGAGCATTAAGATCAGAGCTGAGAGCCTTAACCCTCGCTAAATATTTTTAGAGGATAC
43234616 -AGTATTGAACC
130 GA-TATTGAACC
* * * *
43234627 TGTGAGCCTTAAGATCAAAACTAGGAGCCTTAGCTCTCGCTAACTATTTTTGGGGACTGCGGTAT
1 TGTGAGCCTTAAGATCAAAACTAGGAG-CTTAGCTCTCGCTAACTATTTTAGAGG-CAGCGATAT
* * * * * * * *
43234692 TGAACCTGCTAGCATTAAGATC-GCAGTTGAGAGCTTTAGCCCTCGC-AACTATTTTTGGGGGTT
64 TGAACCTGCGAGCATTAAGATCAG-AGCTGAGAGCCTTAACCCTCGCTAAATATTTTTAGAGGAT
* *
43234755 GCGATATTGAATC
128 ACGATATTGAACC
* * * * ** *
43234768 TGCGAGCCCTAAGATTATAGTTGGGAGCTTAGCTCTCGCTAACTATTTTA
1 TGTGAGCCTTAAGATCAAAACTAGGAGCTTAGCTCTCGCTAACTATTTTA
43234818 AAGGTTGTGG
Statistics
Matches: 158, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
140 73 0.46
141 84 0.53
142 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (140 bp):
TGTGAGCCTTAAGATCAAAACTAGGAGCTTAGCTCTCGCTAACTATTTTAGAGGCAGCGATATTG
AACCTGCGAGCATTAAGATCAGAGCTGAGAGCCTTAACCCTCGCTAAATATTTTTAGAGGATACG
ATATTGAACC
Found at i:43235023 original size:139 final size:139
Alignment explanation
Indices: 43234759--43235025 Score: 297
Period size: 139 Copynumber: 1.9 Consensus size: 139
43234749 GGGGTTGCGA
* * * * * *
43234759 TATTGAATCTGCGAGCCCTAAGATTATAGTTGGGAGCTTAGCTCTCGCTAACTATTTTAAAGGTT
1 TATTGAAACTGCAAGCCCTAAGATCATACTTGAGAGCTTAGCTCTCACTAACTATTTTAAAGGTT
* * * * **
43234824 GTGGTATTGAACTTACAAACATTAATATCATAGATGGGAGCTTTAGCTTTCGTTAACTATTTTTC
66 GTGGTATTCAACCTACAAACATTAAGATCATAGATGGGAGCCTTAGCTTTCCCTAACTATTTTTC
43234889 GGGCTACGG
131 GGGCTACGG
* *
43234898 TATTGAAACTGCAAGCCCTAAGATCATACCTT-AGAGCTTGAGCTCTTACTAACTA-TTTAGAGG
1 TATTGAAACTGCAAGCCCTAAGATCATA-CTTGAGAGCTT-AGCTCTCACTAACTATTTTAAAGG
*** * * * *
43234961 TTGTGGTATTCAACCTGTGAGCCTTAAGATCATAGCTGGGAGCCTTAG-TTCTCCCTATCTATTT
64 TTGTGGTATTCAACCTACAAACATTAAGATCATAGATGGGAGCCTTAGCTT-TCCCTAACTATTT
43235025 T
128 T
43235026 AGATGCTATG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
138 2 0.02
139 87 0.84
140 15 0.14
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (139 bp):
TATTGAAACTGCAAGCCCTAAGATCATACTTGAGAGCTTAGCTCTCACTAACTATTTTAAAGGTT
GTGGTATTCAACCTACAAACATTAAGATCATAGATGGGAGCCTTAGCTTTCCCTAACTATTTTTC
GGGCTACGG
Found at i:43236756 original size:20 final size:20
Alignment explanation
Indices: 43236728--43236777 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
43236718 TACATATTAT
* * * *
43236728 CACTGTTCATGATTTGACTC
1 CACTATTCATGACTTAACCC
43236748 CACTATTCATGACTTAACCC
1 CACTATTCATGACTTAACCC
43236768 CACTATTCAT
1 CACTATTCAT
43236778 AAGACTAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.08, T:0.36
Consensus pattern (20 bp):
CACTATTCATGACTTAACCC
Found at i:43239246 original size:167 final size:167
Alignment explanation
Indices: 43238953--43239270 Score: 555
Period size: 167 Copynumber: 1.9 Consensus size: 167
43238943 CTAAAATAGA
* *
43238953 CATATTGTTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTGTACATTACAGATACTGTGGCCA
1 CATACTGTTAGTTCATGCCATTGTTCTAGATGTCAATTTTCTGTACATTACAGATACTGTGGCCA
* * *
43239018 GGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTTTAATCGATCTGCAGCA
66 AGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
*
43239083 TACATTTCATGTCTTTTTTTTTGCAATCGATCTGCAG
131 TACATTTCATGTCTTCTTTTTTGCAATCGATCTGCAG
* *
43239120 CATACTGTTAGTTTATGCCATTGTTCTAGATGTCAATTTTCTGTACATTATAGATACTGTGGCCA
1 CATACTGTTAGTTCATGCCATTGTTCTAGATGTCAATTTTCTGTACATTACAGATACTGTGGCCA
*
43239185 AGGAAACATTAGATCAAGTTATGGTTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
66 AGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
43239250 TACATTTCATGTCTTCTTTTT
131 TACATTTCATGTCTTCTTTTT
43239271 GTAATGGCAT
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
167 142 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (167 bp):
CATACTGTTAGTTCATGCCATTGTTCTAGATGTCAATTTTCTGTACATTACAGATACTGTGGCCA
AGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
TACATTTCATGTCTTCTTTTTTGCAATCGATCTGCAG
Found at i:43240300 original size:16 final size:16
Alignment explanation
Indices: 43240268--43240341 Score: 71
Period size: 16 Copynumber: 4.7 Consensus size: 16
43240258 ACAATTGAAT
*
43240268 TATTT-ATTACAGTTC
1 TATTTCATTACAGCTC
*
43240283 TATTTCATTATAGCTC
1 TATTTCATTACAGCTC
*
43240299 TATTTCATTACAACTC
1 TATTTCATTACAGCTC
* *
43240315 TATTAT-ATTACAGTTT
1 TATT-TCATTACAGCTC
*
43240331 TATTTTATTAC
1 TATTTCATTAC
43240342 GACGAACCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
15 6 0.12
16 42 0.86
17 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (16 bp):
TATTTCATTACAGCTC
Found at i:43252099 original size:13 final size:13
Alignment explanation
Indices: 43252078--43252122 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
43252068 TTCCTTAATC
*
43252078 TTTAATTTATTAT
1 TTTATTTTATTAT
43252091 TTTATTTTAGTTA-
1 TTTATTTTA-TTAT
43252104 TTTATTTTAATTAT
1 TTTATTTT-ATTAT
43252118 TTTAT
1 TTTAT
43252123 CTGACTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 19 0.68
14 9 0.32
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:43253649 original size:21 final size:21
Alignment explanation
Indices: 43253602--43253649 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
43253592 ACATCGATCC
* * *
43253602 TAAACCTTGAACTCTAGACCT
1 TAAACCCTGAACCCTAAACCT
* *
43253623 TGAACCCTGAACCCTAAATCT
1 TAAACCCTGAACCCTAAACCT
43253644 TAAACC
1 TAAACC
43253650 TTCGACCTTG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.25
Consensus pattern (21 bp):
TAAACCCTGAACCCTAAACCT
Found at i:43253690 original size:21 final size:21
Alignment explanation
Indices: 43253644--43253704 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
43253634 CCCTAAATCT
*
43253644 TAAACCTTCG-ACCTTGGACCC
1 TAAACCTT-GAACCTTGGATCC
* *
43253665 CAAACCTTGAACCTTGGATGC
1 TAAACCTTGAACCTTGGATCC
*
43253686 TAAACCCT-AGACCTTGGAT
1 TAAACCTTGA-ACCTTGGAT
43253705 TTTGAACCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (21 bp):
TAAACCTTGAACCTTGGATCC
Found at i:43255034 original size:43 final size:43
Alignment explanation
Indices: 43254971--43255295 Score: 472
Period size: 43 Copynumber: 7.6 Consensus size: 43
43254961 AGAAATAAAT
*
43254971 GCCGCTAAAGACCAAT-ACCTTTAGCGGCGCTTTTCCCACAATC
1 GCCGCTAAAGACC-ATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
43255014 GCCGCTAAATACCATGACCTTTAGCGGCACCTTTCCCCCAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
*
43255057 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTACCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * ** * *
43255100 GCCGCTATAGACCACGATCTTTAGCGATGCTTTTACCACAAAT
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
43255143 GCCGCTAAAGACCATGACCTTTAGTGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
43255186 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
*
43255229 GCCGCTAAAGACCATGACCTTTAGCTGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
43255272 GCCACTAAAGACCATGACTTTTAG
1 GCCGCTAAAGACCATGACCTTTAG
43255296 TGGCATTTTT
Statistics
Matches: 252, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 2 0.01
43 250 0.99
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:43255528 original size:19 final size:19
Alignment explanation
Indices: 43255504--43255541 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
43255494 TACAAAAATG
*
43255504 TTAAAAGTTAAAATGATAA
1 TTAAAAGTCAAAATGATAA
43255523 TTAAAAGTCAAAATGATAA
1 TTAAAAGTCAAAATGATAA
43255542 AAATATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (19 bp):
TTAAAAGTCAAAATGATAA
Done.