Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 177 of 316
Found at i:57042838 original size:29 final size:30
Alignment explanation
Indices: 57042796--57042870 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 30
57042786 CAAGATATGT
* *
57042796 TGGGCCGAAGCCTTTCGTTAA-AC-TATTAC
1 TGGGCCGAAGCCTTTC-ATAATACATATCAC
*
57042825 TGGGCCGAAGCCTTTTCATAATTCATATCAC
1 TGGGCCGAAGCC-TTTCATAATACATATCAC
57042856 TGGGCCGAAGCCTTT
1 TGGGCCGAAGCCTTT
57042871 ACTGTAAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
29 15 0.38
30 8 0.20
31 17 0.43
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (30 bp):
TGGGCCGAAGCCTTTCATAATACATATCAC
Found at i:57043147 original size:25 final size:24
Alignment explanation
Indices: 57043078--57043160 Score: 123
Period size: 24 Copynumber: 3.4 Consensus size: 24
57043068 CTGGAGGCCT
*
57043078 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
57043102 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
*
57043126 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
57043151 AGCCCTTTTG
1 AGCCCTTTTG
57043161 CACTTCTTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 7 0.13
24 25 0.45
25 23 0.42
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:57043218 original size:10 final size:10
Alignment explanation
Indices: 57043205--57043243 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
57043195 ATATATGAAT
57043205 ATATCATGGC
1 ATATCATGGC
57043215 ATATCATGTGC
1 ATATCATG-GC
*
57043226 ATATTATGGC
1 ATATCATGGC
57043236 ATATCATG
1 ATATCATG
57043244 TATAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:57043234 original size:21 final size:21
Alignment explanation
Indices: 57043205--57043244 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
57043195 ATATATGAAT
57043205 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
*
57043226 ATATTATGGCATATCATGT
1 ATATCATGGCATATCATGT
57043245 ATAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:57048607 original size:27 final size:27
Alignment explanation
Indices: 57048577--57048754 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
57048567 ATATTGAGTC
* *
57048577 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
57048604 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
57048631 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
57048659 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
57048686 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
57048713 TGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
57048740 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57048755 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:57054338 original size:25 final size:25
Alignment explanation
Indices: 57054310--57054379 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
57054300 CTATTTTAAT
*
57054310 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
57054335 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
57054360 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
57054380 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:57054438 original size:10 final size:10
Alignment explanation
Indices: 57054425--57054463 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
57054415 ATATATGAAT
57054425 ATATCATGGC
1 ATATCATGGC
57054435 ATATCATGTGC
1 ATATCATG-GC
*
57054446 ATATTATGGC
1 ATATCATGGC
57054456 ATATCATG
1 ATATCATG
57054464 TATAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:57054454 original size:21 final size:21
Alignment explanation
Indices: 57054425--57054464 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
57054415 ATATATGAAT
57054425 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
*
57054446 ATATTATGGCATATCATGT
1 ATATCATGGCATATCATGT
57054465 ATAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:57059202 original size:47 final size:47
Alignment explanation
Indices: 57059134--57059733 Score: 930
Period size: 47 Copynumber: 12.6 Consensus size: 47
57059124 AGTATATGTG
* *
57059134 GAATGTGAAAGTTTATATATATGTGATAAGGCCTAATGGCCTATGTGAT
1 GAATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
57059183 GAATGTGAAAGTGTATATATGTGATAAAGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
57059230 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
57059279 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
57059326 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
57059373 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
57059420 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGTTGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
57059467 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGACGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
57059516 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
57059563 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
57059612 GAATGTGAAGGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * * * *
57059659 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * *
57059706 GGACGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
57059734 TCCCGAAGGG
Statistics
Matches: 510, Mismatches: 35, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
47 366 0.72
49 144 0.28
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:57059247 original size:96 final size:94
Alignment explanation
Indices: 57059134--57059733 Score: 930
Period size: 96 Copynumber: 6.3 Consensus size: 94
57059124 AGTATATGTG
* * *
57059134 GAATGTGAAAGTTTATATATATGTGATAAGGCCTAATGGCCTATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAG--TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
57059199 ATATGTGATAAAGCCTAATAGCCGATGTGAT
64 ATATGTGATAAGGCCTAATGGCCGATGTGAT
*
57059230 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
57059295 ATATGTGATAAGGCCTAATAGCCGATGTGAT
64 ATATGTGATAAGGCCTAATGGCCGATGTGAT
57059326 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATAT
57059391 ATGTGATAAGGCCTAATGGCCGATGTGAT
66 ATGTGATAAGGCCTAATGGCCGATGTGAT
*
57059420 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGTTGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
57059485 ATATGTGATAAGGCCTAATGGACGATGTGAT
64 ATATGTGATAAGGCCTAATGGCCGATGTGAT
*
57059516 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG--TAT
57059581 ATATGTGATAAGGCCTAATGGCCGATGTGAT
64 ATATGTGATAAGGCCTAATGGCCGATGTGAT
* * *
57059612 GAATGTGAAGGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
57059677 ATGTGACAGGGCCGAGTGGCCAACGTGAT
66 ATGTGATAAGGCCTAATGGCCGATGTGAT
* * *
57059706 GGACGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
57059734 TCCCGAAGGG
Statistics
Matches: 476, Mismatches: 24, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
94 191 0.40
96 285 0.60
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:57059387 original size:143 final size:141
Alignment explanation
Indices: 57059134--57059733 Score: 930
Period size: 143 Copynumber: 4.2 Consensus size: 141
57059124 AGTATATGTG
* *
57059134 GAATGTGAAAGTTTATATATATGTGATAAGGCCTAATGGCCTATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
57059199 ATATGTGATAAAGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
64 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCG
*
57059264 AATGGCCGATGTGAT
127 AATGGCCAATGTGAT
*
57059279 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
57059344 ATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
57059409 GCCGATGTGAT
131 GCCAATGTGAT
* *
57059420 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGTTGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
* *
57059485 ATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
64 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
57059550 TGGCCAATGTGAT
129 TGGCCAATGTGAT
*
57059563 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
57059628 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAG
64 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
*
57059693 TGGCCAACGTGAT
129 TGGCCAATGTGAT
* * *
57059706 GGACGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
57059734 TCCCGAAGGG
Statistics
Matches: 426, Mismatches: 25, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
141 105 0.25
143 266 0.62
145 55 0.13
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (141 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
GCCAATGTGAT
Found at i:57072704 original size:20 final size:20
Alignment explanation
Indices: 57072679--57072730 Score: 72
Period size: 18 Copynumber: 2.7 Consensus size: 20
57072669 TATTTTATGT
*
57072679 ATTTAATGTGTCTTGAGTCC
1 ATTTAATATGTCTTGAGTCC
*
57072699 ATTTAATATGT-TCGAG-CC
1 ATTTAATATGTCTTGAGTCC
57072717 ATTTAATATGTCTT
1 ATTTAATATGTCTT
57072731 AAGTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 13 0.46
19 5 0.18
20 10 0.36
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (20 bp):
ATTTAATATGTCTTGAGTCC
Found at i:57074062 original size:28 final size:28
Alignment explanation
Indices: 57073951--57074062 Score: 109
Period size: 28 Copynumber: 4.0 Consensus size: 28
57073941 ACCTATATAT
* * *
57073951 ATATGGCCTACTAGGCCCAATCTCTTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
57073979 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCACTAGGCCCAATCACATTC
* * * *
57074007 ATGTGGCCCATTAGGCGCAAATCGCATTC
1 ATATGGCCCACTAGGC-CCAATCACATTC
57074036 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
57074063 TACAGTCATG
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
27 1 0.01
28 53 0.79
29 13 0.19
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:57075417 original size:286 final size:286
Alignment explanation
Indices: 57074905--57075480 Score: 1143
Period size: 286 Copynumber: 2.0 Consensus size: 286
57074895 CTAAAAAAAA
57074905 TGAATCAAAAACCTGAGTAGAAGAAGAATAAAAATTTGCACAAGAAGAGAAATAAAGAAGCAAGG
1 TGAATCAAAAACCTGAGTAGAAGAAGAATAAAAATTTGCACAAGAAGAGAAATAAAGAAGCAAGG
57074970 GTTTTTGGCTTTTTGGATCTTGAAGAGAAAAGGGTTTTCGGTAACAGAGTGACAAAGATTTTGGC
66 GTTTTTGGCTTTTTGGATCTTGAAGAGAAAAGGGTTTTCGGTAACAGAGTGACAAAGATTTTGGC
57075035 ATTAGCCTGGAAACCTTGCATTCGGCACCTATTTATAGCCCGTATAGCCGAATTCCTCATAGCTA
131 ATTAGCCTGGAAACCTTGCATTCGGCACCTATTTATAGCCCGTATAGCCGAATTCCTCATAGCTA
57075100 AATTCCCATTTCGGCTCCAACACTTCCCCCTTCTCATCTCCTCGTTTTTCTCCCTGATAACTCCC
196 AATTCCCATTTCGGCTCCAACACTTCCCCCTTCTCATCTCCTCGTTTTTCTCCCTGATAACTCCC
57075165 CAATCTATTTCCTAAATTTTCTCTTC
261 CAATCTATTTCCTAAATTTTCTCTTC
57075191 TGAATCAAAAACCTGAGTAGAAGAAGAATAAAAATTTGCACAAGAAGAGAAATAAAGAAGCAAGG
1 TGAATCAAAAACCTGAGTAGAAGAAGAATAAAAATTTGCACAAGAAGAGAAATAAAGAAGCAAGG
57075256 GTTTTTGGCTTTTTGGATCTTGAAGAGAAAAGGGTTTTCGGTAACAGAGTGACAAAGATTTTGGC
66 GTTTTTGGCTTTTTGGATCTTGAAGAGAAAAGGGTTTTCGGTAACAGAGTGACAAAGATTTTGGC
57075321 ATTAGCCTGGAAACCTTGCATTCGGCACCTATTTATAGCCCGTATAGCCGAATTCCTCATAGCTA
131 ATTAGCCTGGAAACCTTGCATTCGGCACCTATTTATAGCCCGTATAGCCGAATTCCTCATAGCTA
*
57075386 AATTCTCATTTCGGCTCCAACACTTCCCCCTTCTCATCTCCTCGTTTTTCTCCCTGATAACTCCC
196 AATTCCCATTTCGGCTCCAACACTTCCCCCTTCTCATCTCCTCGTTTTTCTCCCTGATAACTCCC
57075451 CAATCTATTTCCTAAATTTTCTCTTC
261 CAATCTATTTCCTAAATTTTCTCTTC
57075477 TGAA
1 TGAA
57075481 CACTCCCCTT
Statistics
Matches: 289, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
286 289 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (286 bp):
TGAATCAAAAACCTGAGTAGAAGAAGAATAAAAATTTGCACAAGAAGAGAAATAAAGAAGCAAGG
GTTTTTGGCTTTTTGGATCTTGAAGAGAAAAGGGTTTTCGGTAACAGAGTGACAAAGATTTTGGC
ATTAGCCTGGAAACCTTGCATTCGGCACCTATTTATAGCCCGTATAGCCGAATTCCTCATAGCTA
AATTCCCATTTCGGCTCCAACACTTCCCCCTTCTCATCTCCTCGTTTTTCTCCCTGATAACTCCC
CAATCTATTTCCTAAATTTTCTCTTC
Found at i:57082016 original size:24 final size:24
Alignment explanation
Indices: 57081989--57082043 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
57081979 TACCCCTAAG
* *
57081989 TAGGGAAAATTACCATTATAGCCC
1 TAGGGAAAATGACCAATATAGCCC
* *
57082013 TAGGTACAAAATGACCAATATAGCCT
1 TAGG--GAAAATGACCAATATAGCCC
57082039 TAGGG
1 TAGGG
57082044 TTAATTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
24 4 0.17
26 20 0.83
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (24 bp):
TAGGGAAAATGACCAATATAGCCC
Found at i:57090127 original size:27 final size:26
Alignment explanation
Indices: 57090086--57090145 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
57090076 ACATATGTAT
* *
57090086 ATATCTGCTCTGGTGGCCTAGCCACA
1 ATATCTGATCTGGTGACCTAGCCACA
* * *
57090112 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTG-ATCTGGTGACCTAGCCACA
57090139 ATATCTG
1 ATATCTG
57090146 GTAGCCTCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGATCTGGTGACCTAGCCACA
Found at i:57098237 original size:39 final size:40
Alignment explanation
Indices: 57098194--57098361 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
57098184 CTCGTTCAAG
* * * *
57098194 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
57098233 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
57098273 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * * *
57098313 GGCCTTTGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
57098353 TGCCTTCGG
1 TGCCTTCGG
57098362 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
39 26 0.24
40 79 0.72
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:57098374 original size:40 final size:40
Alignment explanation
Indices: 57098231--57098414 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
57098221 TAACTCATAC
* *
57098231 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
57098271 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* *
57098311 AAGGCCTTTGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
57098351 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
57098392 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57098415 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:57098374 original size:80 final size:80
Alignment explanation
Indices: 57098194--57098414 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
57098184 CTCGTTCAAG
* * * * * * * *
57098194 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
*
57098258 TAAAACTCGCACGAA
66 TAAAACTCGCACAAA
* *
57098273 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTTGGGACTTAACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGA
57098335 -ATTAATAACTCGCACAAA
63 TATTAA-AACTCGCACAAA
** *
57098353 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
57098415 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 34 0.29
80 70 0.59
81 10 0.08
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
TAAAACTCGCACAAA
Found at i:57118964 original size:80 final size:79
Alignment explanation
Indices: 57118880--57119051 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
57118870 GGACTAAGAT
* *
57118880 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCAAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTCGTGCGAGATATCAAA-TCCGGGTTAAGCCCCAAAGG-CATTGTGCGAGATACT
* *
57118944 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
57118960 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCAAAGGCATTGTGCGAGATACTAA
*
57119025 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
57119039 CCGAAGGCATTCG
1 CCGAAGGCATTCG
57119052 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 39 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCAAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:57119031 original size:39 final size:39
Alignment explanation
Indices: 57118827--57119049 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
57118817 TTGAATGCTG
* * * * *
57118827 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTAAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
57118867 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* * *
57118906 TTCCGGGTTAAGCCCCAAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
57118947 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
57118987 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
57119026 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57119050 CGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 40 0.26
40 101 0.65
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:57119069 original size:79 final size:80
Alignment explanation
Indices: 57118907--57119084 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
57118897 AGATACAAAT
* * * * *
57118907 TCCGGGTTAAGCCCCAAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
57118972 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
57118987 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
57119051 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
57119066 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
57119085 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 49 0.60
80 17 0.21
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:57123813 original size:67 final size:67
Alignment explanation
Indices: 57123726--57123860 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
57123716 TGCACCTAAA
57123726 TTGTTGCAAAATAGAATGCTCAGTATCGAGACATGGGTATGAGACACGGTCGTGTCTCTCAGCCG
1 TTGTTGCAAAATAGAATGCTCAGTATCGAGACATGGGTATGAGACACGGTCGTGTCTCTCAGCCG
57123791 TG
66 TG
*
57123793 TTGTTGCAAAATAGAATGCTCAGTATCGAGACATGGGTATGAGACACGGTCGTGTCTCTCAGCTG
1 TTGTTGCAAAATAGAATGCTCAGTATCGAGACATGGGTATGAGACACGGTCGTGTCTCTCAGCCG
57123858 TG
66 TG
57123860 T
1 T
57123861 GAAGGACACG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (67 bp):
TTGTTGCAAAATAGAATGCTCAGTATCGAGACATGGGTATGAGACACGGTCGTGTCTCTCAGCCG
TG
Found at i:57126674 original size:21 final size:22
Alignment explanation
Indices: 57126622--57126674 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
57126612 AAATAAAGTC
*
57126622 CATGTA-CAGATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
57126643 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
57126665 CATGTATCAT
1 CATGTATCAT
57126675 CATTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:57134120 original size:68 final size:64
Alignment explanation
Indices: 57134055--57134262 Score: 197
Period size: 67 Copynumber: 3.2 Consensus size: 64
57134045 CATCATGTGT
*
57134055 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
57134120 TAG
62 TAG
* * * * * * *
57134123 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTTCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
57134188 AG
63 AG
* * * * *
57134190 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
57134252 TACAAGAGAGC
1 -ACAAGAGAGC
57134263 CGAACTATAT
Statistics
Matches: 116, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 21 0.18
65 11 0.09
66 18 0.16
67 31 0.27
68 15 0.13
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:57141348 original size:23 final size:24
Alignment explanation
Indices: 57141322--57141373 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
57141312 CCGTGAAATC
*
57141322 CTGTACAT-GTATGCTCACACGAG
1 CTGTACATCGTATGCTCACACAAG
*
57141345 CTGTAGATCGGTATGCTCACACAAG
1 CTGTACATC-GTATGCTCACACAAG
57141370 CTGT
1 CTGT
57141374 GGGTCAGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.28
25 18 0.72
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (24 bp):
CTGTACATCGTATGCTCACACAAG
Found at i:57148257 original size:40 final size:40
Alignment explanation
Indices: 57148187--57148364 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
57148177 AAGCCAAGTA
* * *
57148187 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
57148226 CCTTCGGGATTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57148266 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * **
57148306 CCTTCGGGACTTAGCCCAGA-ACTAGTCACTAGCGTAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
57148346 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
57148365 TTATCATCCA
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 15 0.12
40 110 0.88
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:57156373 original size:40 final size:40
Alignment explanation
Indices: 57156311--57156486 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
57156301 AAGCCAAGTA
* * *
57156311 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
57156350 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57156390 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * **
57156430 CCTTCGGGACTTAG-CC-GAAACTAGTCACTAGCGTAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
57156469 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
57156487 TTATCATCCA
Statistics
Matches: 122, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
38 11 0.09
39 35 0.29
40 76 0.62
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:57162164 original size:39 final size:39
Alignment explanation
Indices: 57162110--57162269 Score: 257
Period size: 39 Copynumber: 4.1 Consensus size: 39
57162100 ATTACCAGCA
* * * *
57162110 CCAGCACGAAGCCTGTGGGTCTTTAGCCTGGACACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
57162149 CCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
57162188 CCAACACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
57162227 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
57162266 CCAG
1 CCAG
57162270 TGTCTTGCAT
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:57165695 original size:48 final size:48
Alignment explanation
Indices: 57165624--57165843 Score: 271
Period size: 48 Copynumber: 4.6 Consensus size: 48
57165614 GTCTTAGAAT
* * *
57165624 GATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATTGGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACGAGATCACATATCGATGCC
* * * * ** *
57165672 GATGCCATGTTCCAGACATGGTCTTTCACTAGCTCACACGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACGAGATCACATATCGATGCC
* *
57165720 GATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACGAG-ATCACATATCGATGCC
* * * *
57165768 GATGCCATGTCCCAGACATGGTCTTATATGAGATCTCATCTCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACGAGATCACATATCGATGCC
*
57165816 AATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
57165844 TGGGATCTCA
Statistics
Matches: 145, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
47 1 0.01
48 144 0.99
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACGAGATCACATATCGATGCC
Found at i:57169358 original size:55 final size:53
Alignment explanation
Indices: 57169265--57169460 Score: 208
Period size: 53 Copynumber: 3.7 Consensus size: 53
57169255 GTAAGGTTTC
*
57169265 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTA
1 TAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-A
* * * *
57169320 TAAGGCAAATG-TCCCATGTAAGACCATG-CTAAGGCATGGCATTGGTGAGTTCA
1 TAAGGCAAA-GATACCATGTAAGACCATGTC-AAGACATGGCATTGATAAGTTCA
* * *
57169373 TAAGGCAAAGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT--
1 TAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCA
* *
57169424 TCAA---AAGGATACCATGTAAGACCATGACAAGACATGG
1 T-AAGGCAAAGATACCATGTAAGACCATGTCAAGACATGG
57169461 TAGTGGTAAG
Statistics
Matches: 123, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
49 30 0.24
51 1 0.01
52 3 0.02
53 43 0.35
54 3 0.02
55 42 0.34
56 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
TAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCA
Found at i:57169683 original size:16 final size:16
Alignment explanation
Indices: 57169662--57169692 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57169652 ATAAATTTGA
57169662 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
57169678 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
57169693 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:57173415 original size:23 final size:24
Alignment explanation
Indices: 57173385--57173443 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
57173375 GATCTGATGG
57173385 ACAGTAAGCTCT-ATTGAGCT-AAA
1 ACAGTAAGCTCTGA-TGAGCTGAAA
*
57173408 ACAGTAAGCTCTGATGAGCTGAGA
1 ACAGTAAGCTCTGATGAGCTGAAA
*
57173432 ACAATAAGCTCT
1 ACAGTAAGCTCT
57173444 TACGAACTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 18 0.56
24 14 0.44
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (24 bp):
ACAGTAAGCTCTGATGAGCTGAAA
Found at i:57173453 original size:24 final size:24
Alignment explanation
Indices: 57173407--57173453 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
57173397 ATTGAGCTAA
* * *
57173407 AACAGTAAGCTCTGATGAGCTGAG
1 AACAATAAGCTCTGACGAACTGAG
*
57173431 AACAATAAGCTCTTACGAACTGA
1 AACAATAAGCTCTGACGAACTGA
57173454 CATATCGGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (24 bp):
AACAATAAGCTCTGACGAACTGAG
Found at i:57174743 original size:32 final size:32
Alignment explanation
Indices: 57174697--57174760 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
57174687 TGAAACCATT
*
57174697 GTTCTGATTTGACTAAAAACGGGTTGTTACAA
1 GTTCCGATTTGACTAAAAACGGGTTGTTACAA
*
57174729 GTTCCGATTTGACTAAAAATGGGTTGTTACAA
1 GTTCCGATTTGACTAAAAACGGGTTGTTACAA
57174761 CTCTCTCCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (32 bp):
GTTCCGATTTGACTAAAAACGGGTTGTTACAA
Found at i:57187203 original size:40 final size:41
Alignment explanation
Indices: 57187148--57187245 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
57187138 CGAAAGTGTT
* *
57187148 TGGCACTAAGTGTGCGATTTAATAAAGCTTCGGCTACA-AA
1 TGGCACTAAGTGTGCGATTTAACAAAGCTTCGACTACATAA
* ** * *
57187188 TGGCACTAAGTGTGCGAATTGGCATAGCTTCGACTATATAA
1 TGGCACTAAGTGTGCGATTTAACAAAGCTTCGACTACATAA
57187229 -GGCACTAAGTGTGCGAT
1 TGGCACTAAGTGTGCGAT
57187246 ATAGACTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 47 0.96
41 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGATTTAACAAAGCTTCGACTACATAA
Found at i:57195926 original size:37 final size:37
Alignment explanation
Indices: 57195793--57195939 Score: 104
Period size: 37 Copynumber: 3.9 Consensus size: 37
57195783 AACAAAACAT
* * *
57195793 ATATTAAAGGTGTCTAAACTA-GAACATATTTAAACAT-
1 ATATTAAAGTTGTCTAAATTATG-ACATAATTAAAC-TC
* * * **
57195830 ATATTTAAGATGTCT-TATGCTATGACATAATTAAAAAC
1 ATATTAAAGTTGTCTAAAT--TATGACATAATTAAACTC
*
57195868 ATTTATTAAA-TATGTCCAAATTATGACATAATTAAACTC
1 A--TATTAAAGT-TGTCTAAATTATGACATAATTAAACTC
* *
57195907 ATATTAAAGTTGTCTAAATTATAACTTAATTAA
1 ATATTAAAGTTGTCTAAATTATGACATAATTAA
57195940 TAGCTTAAAC
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
36 1 0.01
37 40 0.47
38 14 0.16
39 18 0.21
40 10 0.12
41 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.37
Consensus pattern (37 bp):
ATATTAAAGTTGTCTAAATTATGACATAATTAAACTC
Found at i:57204948 original size:40 final size:40
Alignment explanation
Indices: 57204862--57204937 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
57204852 TATATATATA
* *
57204862 TAGCCGAATCTATCACAAATCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCACAAATAGCACACCAAGTGCCACATT
**
57204902 TAGCCGAAGCTATTTCAAATAGCACACCAAGTGCCA
1 TAGCCGAAGCTATCACAAATAGCACACCAAGTGCCA
57204938 TTCTTAGCCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.30, G:0.14, T:0.20
Consensus pattern (40 bp):
TAGCCGAAGCTATCACAAATAGCACACCAAGTGCCACATT
Found at i:57206257 original size:42 final size:43
Alignment explanation
Indices: 57206199--57206292 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
57206189 TCCAAACTTT
* *
57206199 TTGAGTGGTCCAAGTTCGTGA-GATATGTG-GCATCCGAGCTCG
1 TTGAGTGGTCCAAGTTCATGATG-GATGTGAGCATCCGAGCTCG
* * * *
57206241 TTGAATGGTCCGAGTTCATTATGGATGTGAGCATTCGAGCTCG
1 TTGAGTGGTCCAAGTTCATGATGGATGTGAGCATCCGAGCTCG
57206284 TTGAGTGGT
1 TTGAGTGGT
57206293 TTGAGTTCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 22 0.51
43 21 0.49
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.32
Consensus pattern (43 bp):
TTGAGTGGTCCAAGTTCATGATGGATGTGAGCATCCGAGCTCG
Found at i:57206299 original size:43 final size:42
Alignment explanation
Indices: 57206223--57206303 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 42
57206213 TTCGTGAGAT
57206223 ATGTGGCATCCGAGCTCGTTGAATGGTCCGAGTTCATTATGG
1 ATGTGGCATCCGAGCTCGTTGAATGGTCCGAGTTCATTATGG
* * **
57206265 ATGTGAGCATTCGAGCTCGTTGAGTGGTTTGAGTTCATT
1 ATGTG-GCATCCGAGCTCGTTGAATGGTCCGAGTTCATT
57206304 GTAGATGCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 5 0.15
43 29 0.85
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.35
Consensus pattern (42 bp):
ATGTGGCATCCGAGCTCGTTGAATGGTCCGAGTTCATTATGG
Found at i:57210129 original size:42 final size:43
Alignment explanation
Indices: 57210048--57210150 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 43
57210038 TCCCAGACTT
* * *
57210048 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAAAG
1 GGTCTTACATGAAATCAAATATCGATGCCAATGTACCAGAAAG
* *
57210091 GGTCTTACATGAAATCAAATA-CGATGCCAATGTACCAGACAT
1 GGTCTTACATGAAATCAAATATCGATGCCAATGTACCAGAAAG
*
57210133 GGTCTTACACGTAAATCA
1 GGTCTTACATG-AAATCA
57210151 TAAATTGATG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 27 0.51
43 26 0.49
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGAAATCAAATATCGATGCCAATGTACCAGAAAG
Found at i:57210149 original size:43 final size:44
Alignment explanation
Indices: 57210040--57210150 Score: 147
Period size: 43 Copynumber: 2.6 Consensus size: 44
57210030 TGCGAACGTC
* * *
57210040 CCAGACTTGGTCTTACATGT-AATCAAATATCGATGCCACTGTC
1 CCAGACATGGTCTTACATGTAAATCAAATATCGATGCCAATGTA
* *
57210083 CCAGAAAGGGTCTTACATG-AAATCAAATA-CGATGCCAATGTA
1 CCAGACATGGTCTTACATGTAAATCAAATATCGATGCCAATGTA
*
57210125 CCAGACATGGTCTTACACGTAAATCA
1 CCAGACATGGTCTTACATGTAAATCA
57210151 TAAATTGATG
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 27 0.47
43 31 0.53
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (44 bp):
CCAGACATGGTCTTACATGTAAATCAAATATCGATGCCAATGTA
Found at i:57211656 original size:21 final size:22
Alignment explanation
Indices: 57211625--57211665 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
57211615 TATGTTTTAG
57211625 TATGTCTTTGAGTTATGAATGT
1 TATGTCTTTGAGTTATGAATGT
* *
57211647 TATGT-TTTGATTTGTGAAT
1 TATGTCTTTGAGTTATGAAT
57211666 TATGAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.22, C:0.02, G:0.22, T:0.54
Consensus pattern (22 bp):
TATGTCTTTGAGTTATGAATGT
Found at i:57215684 original size:27 final size:27
Alignment explanation
Indices: 57215639--57215819 Score: 213
Period size: 27 Copynumber: 6.7 Consensus size: 27
57215629 TTAGTTTACC
*
57215639 AAATTACC-AAATACCCCTGGTATGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
57215665 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
57215692 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
57215719 AAATTACCAAAATACCCTTGATCAGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
57215746 AAATTACCAAAATACCACTAGTTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
57215773 AAATTACCGAAATA-TCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
57215800 AAATTACCAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
57215820 ATTTACAAAG
Statistics
Matches: 128, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
26 10 0.08
27 115 0.90
28 3 0.02
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:57215751 original size:81 final size:81
Alignment explanation
Indices: 57215639--57215821 Score: 246
Period size: 81 Copynumber: 2.3 Consensus size: 81
57215629 TTAGTTTACC
* * * *
57215639 AAATTACC-AAATACCCCTGGTATGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCCTGATATGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCAAA
*
57215703 ATACCC-CTAGTTTGTA
66 ATACCCTC-AATTTGTA
* * *
57215719 AAATTACCAAAATACCCTTGATCA-GTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGA
1 AAATTACCAAAATACCCCTGAT-ATGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCAA
*
57215783 AATATCCTCAATTTGTA
65 AATACCCTCAATTTGTA
57215800 AAATTACCAAAATACCCCTGAT
1 AAATTACCAAAATACCCCTGAT
57215822 TTACAAAGTT
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
80 8 0.09
81 80 0.89
82 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATATGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCAAA
ATACCCTCAATTTGTA
Found at i:57215833 original size:27 final size:25
Alignment explanation
Indices: 57215639--57215842 Score: 135
Period size: 27 Copynumber: 7.6 Consensus size: 25
57215629 TTAGTTTACC
*
57215639 AAATTACC-AAATACCCCTGGTATGTA
1 AAATTACCAAAATACCCCT-G-ATTTA
*
57215665 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCT-GATT-TA
* *
57215692 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCT-GATT-TA
* *
57215719 AAATTACCAAAATACCCTTGATCAGTA
1 AAATTACCAAAATACCCCTGAT--TTA
* * *
57215746 AAATTACCAAAATACCACTAGTTTGTG
1 AAATTACCAAAATACCCCT-GATT-TA
* * *
57215773 AAATTACCGAAATA-TCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-GA-TT-TA
57215800 AAATTACCAAAATACCCCTGATTTA
1 AAATTACCAAAATACCCCTGATTTA
57215825 CAAAGTTA-CAGAAATACC
1 -AAA-TTACCA-AAATACC
57215843 TTTGACTTTC
Statistics
Matches: 144, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
25 2 0.01
26 20 0.14
27 117 0.81
28 5 0.03
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (25 bp):
AAATTACCAAAATACCCCTGATTTA
Found at i:57215839 original size:54 final size:52
Alignment explanation
Indices: 57215639--57215842 Score: 155
Period size: 54 Copynumber: 3.8 Consensus size: 52
57215629 TTAGTTTACC
* **
57215639 AAATTACC-AAATACCCCTGGTATGTAAAATTACCA-AAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCCT-G-ATTTAAAATTA-CAGAAATACCCTC-AATTTGTA
* * ** **
57215692 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCA-AAATACCCTTGATCAGTA
1 AAATTACCAAAATACCCCT-GATT-TAAAATTA-CAGAAATACCCTCAATTTGTA
* * * * *
57215746 AAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATATCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-GATT-TAAAATTACAGAAATACCCTCAATTTGTA
57215800 AAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATACC
1 AAATTACCAAAATACCCCTGATTTA-AAA-TTACAGAAATACC
57215843 TTTGACTTTC
Statistics
Matches: 123, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 1 0.01
53 15 0.12
54 107 0.87
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (52 bp):
AAATTACCAAAATACCCCTGATTTAAAATTACAGAAATACCCTCAATTTGTA
Found at i:57215912 original size:27 final size:27
Alignment explanation
Indices: 57215884--57216292 Score: 504
Period size: 27 Copynumber: 15.2 Consensus size: 27
57215874 TGGTTTACAA
*
57215884 AATTACTGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
57215911 AATTACCGAAATACTCATGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
57215938 AATTACCGTAATACCCTTGTAGGGTA-
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57215964 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
57215991 AATTGCCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
57216018 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
57216045 AATTATTGAAATAACCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
57216072 AATTACCGAAATAACCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57216099 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57216126 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
57216153 AATTACTGAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57216180 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
57216207 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
57216234 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
57216261 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
57216287 AATTAC
1 AATTAC
57216293 CATTTTGCCT
Statistics
Matches: 332, Mismatches: 43, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
26 38 0.11
27 293 0.88
28 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:57216763 original size:22 final size:22
Alignment explanation
Indices: 57216720--57216784 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
57216710 TTAAAGCCTT
* * *
57216720 CTGATTATGGCTTTATGTCAAC
1 CTGATTATGGCTATGTGCCAAC
*
57216742 CTGCA-TATGGCTCTGTGCCAAC
1 CTG-ATTATGGCTATGTGCCAAC
*
57216764 TTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTATGTGCCAA
57216785 ACGTATTTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:57216981 original size:27 final size:27
Alignment explanation
Indices: 57216949--57217050 Score: 120
Period size: 27 Copynumber: 3.8 Consensus size: 27
57216939 TAAGTGGCTT
*
57216949 TGCCAC-ATTATCTGTTTCTGGTGACTA
1 TGCCACAAATATCTG-TTCTGGTGACTA
*
57216976 TGCCACAAATATCTGTTCTGGTGGCTA
1 TGCCACAAATATCTGTTCTGGTGACTA
*
57217003 TGCCACAAATATCTGTAT-TCGGTGACTC
1 TGCCACAAATATCTGT-TCT-GGTGACTA
*
57217031 TGTCAC-AATATCTGTTCTGG
1 TGCCACAAATATCTGTTCTGG
57217051 CAGCAATATG
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
26 3 0.05
27 44 0.67
28 19 0.29
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGTGACTA
Found at i:57217001 original size:54 final size:54
Alignment explanation
Indices: 57216942--57217050 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
57216932 ATTCTGTTAA
* *
57216942 GTGGCTTTGCCAC-ATTATCTGT-TTCTGGTGACTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCACAAATATCTGTATTC-GGTGACTATGCCAC-AATATCTGTTCTG
* *
57216996 GTGGCTATGCCACAAATATCTGTATTCGGTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTATGCCACAAATATCTGTATTCGGTGACTATGCCACAATATCTGTTCTG
57217050 G
1 G
57217051 CAGCAATATG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 26 0.53
55 20 0.41
56 3 0.06
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (54 bp):
GTGGCTATGCCACAAATATCTGTATTCGGTGACTATGCCACAATATCTGTTCTG
Found at i:57217209 original size:31 final size:31
Alignment explanation
Indices: 57217163--57217298 Score: 143
Period size: 31 Copynumber: 4.4 Consensus size: 31
57217153 TTGCATTCAC
* *
57217163 ATTCTGATTTTTGATTCTGTTACCTGGTATTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATATTG
* *
57217195 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATATTG
* *
57217226 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
1 ATTCTGATTCTGATTCTGTTACCTGATAT-TG
*
57217257 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATATTG
* *
57217287 TTTCTTATTCTG
1 ATTCTGATTCTG
57217299 TAATGGGTTA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
30 16 0.18
31 65 0.72
32 9 0.10
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATATTG
Found at i:57217226 original size:6 final size:6
Alignment explanation
Indices: 57217193--57217282 Score: 78
Period size: 6 Copynumber: 14.7 Consensus size: 6
57217183 TACCTGGTAT
* *
57217193 TGATTC TGATTT TGATTC TG-TTACC TGATAC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC
* *
57217242 TG-TCACC TAATTC TGATTC TGATTC TGATTC T-AGTTC TGAT
1 TGAT--TC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
57217283 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
5 4 0.06
6 56 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:57238532 original size:14 final size:15
Alignment explanation
Indices: 57238513--57238545 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
57238503 AATTGAGAGC
57238513 AAAAGAAT-AAAAAG
1 AAAAGAATGAAAAAG
*
57238527 AAAAGAGTGAAAAAG
1 AAAAGAATGAAAAAG
57238542 AAAA
1 AAAA
57238546 AGAAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (15 bp):
AAAAGAATGAAAAAG
Found at i:57238533 original size:22 final size:21
Alignment explanation
Indices: 57238508--57238553 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
57238498 TGAAAAATTG
*
57238508 AGAGCAAAAGAATAAAAAGAAA
1 AGAGCAAAA-AAGAAAAAGAAA
**
57238530 AGAGTGAAAAAGAAAAAGAAA
1 AGAGCAAAAAAGAAAAAGAAA
57238551 AGA
1 AGA
57238554 AAATTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.04
Consensus pattern (21 bp):
AGAGCAAAAAAGAAAAAGAAA
Found at i:57241550 original size:27 final size:26
Alignment explanation
Indices: 57241506--57241556 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
57241496 CTCGCTGCAA
*
57241506 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
57241533 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
57241557 AGCAACCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:57246843 original size:15 final size:15
Alignment explanation
Indices: 57246823--57246862 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
57246813 GATATGGTAT
57246823 CTTGGATTTCTGTAC
1 CTTGGATTTCTGTAC
* * *
57246838 CTTGGATATCTTTAT
1 CTTGGATTTCTGTAC
57246853 CTTGGATTTC
1 CTTGGATTTC
57246863 ACTGTCATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.50
Consensus pattern (15 bp):
CTTGGATTTCTGTAC
Found at i:57249316 original size:29 final size:29
Alignment explanation
Indices: 57249282--57249341 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
57249272 CAAGATTCGG
57249282 ACTTAGAATGAGATTGAACAAGGTTAAGC
1 ACTTAGAATGAGATTGAACAAGGTTAAGC
*
57249311 ACTTAGAATGAGATTGAACATGGTTAAGC
1 ACTTAGAATGAGATTGAACAAGGTTAAGC
57249340 AC
1 AC
57249342 AAACTCGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (29 bp):
ACTTAGAATGAGATTGAACAAGGTTAAGC
Found at i:57254806 original size:15 final size:15
Alignment explanation
Indices: 57254786--57254825 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
57254776 GATATGGTAT
57254786 CTTGGATTTCTGTAC
1 CTTGGATTTCTGTAC
* * *
57254801 CTTGGATATCTTTAT
1 CTTGGATTTCTGTAC
57254816 CTTGGATTTC
1 CTTGGATTTC
57254826 ACTGTCATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.50
Consensus pattern (15 bp):
CTTGGATTTCTGTAC
Found at i:57257272 original size:29 final size:29
Alignment explanation
Indices: 57257238--57257297 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
57257228 CAAGATTCGG
57257238 ACTTAGAATGAGATTGAACAAGGTTAAGC
1 ACTTAGAATGAGATTGAACAAGGTTAAGC
*
57257267 ACTTAGAATGAGATTGAACATGGTTAAGC
1 ACTTAGAATGAGATTGAACAAGGTTAAGC
57257296 AC
1 AC
57257298 AAACTCGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (29 bp):
ACTTAGAATGAGATTGAACAAGGTTAAGC
Found at i:57262765 original size:15 final size:15
Alignment explanation
Indices: 57262745--57262784 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
57262735 GATATGGTAT
57262745 CTTGGATTTCTGTAC
1 CTTGGATTTCTGTAC
* * *
57262760 CTTGGATATCTTTAT
1 CTTGGATTTCTGTAC
57262775 CTTGGATTTC
1 CTTGGATTTC
57262785 ACTGTCATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.50
Consensus pattern (15 bp):
CTTGGATTTCTGTAC
Found at i:57265237 original size:29 final size:29
Alignment explanation
Indices: 57265203--57265262 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
57265193 CAAGATTCGG
57265203 ACTTAGAATGAGATTGAACAAGGTTAAGC
1 ACTTAGAATGAGATTGAACAAGGTTAAGC
*
57265232 ACTTAGAATGAGATTGAACATGGTTAAGC
1 ACTTAGAATGAGATTGAACAAGGTTAAGC
57265261 AC
1 AC
57265263 AAACTCGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (29 bp):
ACTTAGAATGAGATTGAACAAGGTTAAGC
Found at i:57270175 original size:16 final size:16
Alignment explanation
Indices: 57270154--57270196 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
57270144 GTAGCCAAAC
57270154 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
* *
57270170 TTTCGGCTTTCCGGCA
1 TTTCGGCTTTTCAGCA
*
57270186 TTTCAGCTTTT
1 TTTCGGCTTTT
57270197 GCCAATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.26, G:0.19, T:0.47
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:57278827 original size:46 final size:46
Alignment explanation
Indices: 57278759--57278931 Score: 274
Period size: 46 Copynumber: 3.8 Consensus size: 46
57278749 TATATATACA
* * * *
57278759 CATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTCCTATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
57278805 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
* *
57278851 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTTATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
57278897 CCTCTCATACACATTTCGCATTAGCCATTCGGCTT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
57278932 CGCCACATAT
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 119 1.00
ACGTcount: A:0.22, C:0.33, G:0.10, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
Found at i:57278986 original size:47 final size:47
Alignment explanation
Indices: 57278955--57279101 Score: 249
Period size: 47 Copynumber: 3.1 Consensus size: 47
57278945 CACTTCCACG
**
57278955 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
** *
57279002 TTCATCACATTAACCATTCGGCCTTATCACATATATGTATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
57279049 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
57279096 TTCATC
1 TTCATC
57279102 TCATAAAATC
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 92 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:57279023 original size:94 final size:94
Alignment explanation
Indices: 57278915--57279101 Score: 261
Period size: 94 Copynumber: 2.0 Consensus size: 94
57278905 ACACATTTCG
* * * *
57278915 CATTAGCCATTCGG-CTTCGCCACATATATACACT-TCCACGTTCATCACATTGGCCATTCTACC
1 CATTAACCATTCGGCCTT-ACCACATATATACA-TGTCCACATTCATCACATTGGCCATTCGACC
57278978 TTATCACATATATGCATGTTCACATTCATCA
64 TTATCACATATATGCATGTTCACATTCATCA
* ** * *
57279009 CATTAACCATTCGGCCTTATCACATATATGTATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAACCATTCGGCCTTACCACATATATACATGTCCACATTCATCACATTGGCCATTCGACCTT
57279074 ATCACATATATGCATGTTCACATTCATC
66 ATCACATATATGCATGTTCACATTCATC
57279102 TCATAAAATC
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
93 1 0.01
94 78 0.95
95 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (94 bp):
CATTAACCATTCGGCCTTACCACATATATACATGTCCACATTCATCACATTGGCCATTCGACCTT
ATCACATATATGCATGTTCACATTCATCA
Found at i:57282481 original size:25 final size:25
Alignment explanation
Indices: 57282447--57282501 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
57282437 CGGTTAAAGA
57282447 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
*
57282472 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
57282497 ATTCG
1 ATTCG
57282502 TTATTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:57282731 original size:40 final size:40
Alignment explanation
Indices: 57282665--57283143 Score: 724
Period size: 40 Copynumber: 12.0 Consensus size: 40
57282655 GATTACACAT
* * ** *
57282665 CACCGGCACGAATGCCCTTCAAGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
57282705 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
57282745 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
57282785 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
57282825 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
57282865 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
57282905 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
57282945 CACCAGCACGAATGCTCTCCAGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
57282985 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
57283025 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
57283065 CACTAGTACGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
57283105 CACTAGCACGAATGCTCTTCGGGACTTAGACCGGATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
57283144 TATAACTCTC
Statistics
Matches: 401, Mismatches: 38, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 401 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:57282887 original size:120 final size:120
Alignment explanation
Indices: 57282665--57283143 Score: 832
Period size: 120 Copynumber: 4.0 Consensus size: 120
57282655 GATTACACAT
* * ** *
57282665 CACCGGCACGAATGCCCTTCAAGACTTAGCCCGGATGTAACACCAGCACGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
57282730 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
66 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
57282785 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
57282850 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
66 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
57282905 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTCCAGGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
57282970 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
66 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
57283025 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATACATCACTAGTACGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
*
57283090 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGACCGGATATA
66 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
57283144 TATAACTCTC
Statistics
Matches: 342, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 342 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (120 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:57284801 original size:46 final size:46
Alignment explanation
Indices: 57284619--57284791 Score: 265
Period size: 46 Copynumber: 3.8 Consensus size: 46
57284609 TATATATACA
** * *
57284619 CATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
57284665 CATCTCATACACGTTTCGCATTAGCCATTCGACTTTACCTCATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
57284711 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
* * * *
57284757 CCTCTCATACACATTCCGCATTAGCCATTCAGCTT
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTT
57284792 CGCCACATAT
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 117 1.00
ACGTcount: A:0.24, C:0.34, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
Found at i:57284846 original size:47 final size:47
Alignment explanation
Indices: 57284815--57284961 Score: 258
Period size: 47 Copynumber: 3.1 Consensus size: 47
57284805 CACTTCCACG
**
57284815 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
57284862 TTCATCACATTAGCCATTCGGCCTTATCACATATATGTATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
57284909 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
57284956 TTCATC
1 TTCATC
57284962 TCATAAAATC
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 94 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:57284880 original size:94 final size:94
Alignment explanation
Indices: 57284775--57284961 Score: 261
Period size: 94 Copynumber: 2.0 Consensus size: 94
57284765 ACACATTCCG
* * *
57284775 CATTAGCCATTCAG-CTTCGCCACATATATACACT-TCCACGTTCATCACATTGGCCATTCTACC
1 CATTAGCCATTCAGCCTT-ACCACATATATACA-TGTCCACATTCATCACATTGGCCATTCGACC
57284838 TTATCACATATATGCATGTTCACATTCATCA
64 TTATCACATATATGCATGTTCACATTCATCA
* * ** * *
57284869 CATTAGCCATTCGGCCTTATCACATATATGTATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCAGCCTTACCACATATATACATGTCCACATTCATCACATTGGCCATTCGACCTT
57284934 ATCACATATATGCATGTTCACATTCATC
66 ATCACATATATGCATGTTCACATTCATC
57284962 TCATAAAATC
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
93 1 0.01
94 78 0.95
95 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (94 bp):
CATTAGCCATTCAGCCTTACCACATATATACATGTCCACATTCATCACATTGGCCATTCGACCTT
ATCACATATATGCATGTTCACATTCATCA
Found at i:57287523 original size:46 final size:46
Alignment explanation
Indices: 57287470--57287645 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
57287460 TGGTTGAGCA
57287470 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
57287516 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAT--ATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57287561 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* **
57287609 CCCGAGGTCGTTGAGTTGAGTCCGAGTTCGA-TTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGG
57287646 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 60 0.56
47 29 0.27
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57287626 original size:93 final size:93
Alignment explanation
Indices: 57287467--57287638 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
57287457 GGATGGTTGA
* * *
57287467 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57287532 TGAGTCCGAGTTCGTGATATGTAACTAG
66 TGAGTCCGAGTTCGTGATATGTAACTAG
**
57287560 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGGTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57287625 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
57287639 ATTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGATATGTAACTAG
Found at i:57290943 original size:40 final size:40
Alignment explanation
Indices: 57290898--57291165 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
57290888 GCAAACACAT
* *
57290898 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
57290938 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
57290978 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
* *
57291018 TTGCCTTCGGGTCATAGCCCGGATATATTATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
57291058 TTGCCTTCGGGTCATAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
57291098 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
57291138 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
57291166 TCCAATGCTC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
Found at i:57299495 original size:40 final size:40
Alignment explanation
Indices: 57299447--57299711 Score: 462
Period size: 40 Copynumber: 6.7 Consensus size: 40
57299437 GCAAACACAT
* *
57299447 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
57299487 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
57299527 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
57299567 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
57299607 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
57299647 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
57299687 TTGCCTTC-GGTC-TAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
57299712 ATCCAATGCT
Statistics
Matches: 215, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
38 13 0.06
39 4 0.02
40 198 0.92
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:57307509 original size:27 final size:27
Alignment explanation
Indices: 57307479--57307656 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
57307469 ATATTGAGTC
* *
57307479 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
57307506 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
57307533 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** *** *
57307561 CGCACACTTAGTGCCGCATGGCCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
57307588 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
57307615 TGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
57307642 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57307657 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:57310411 original size:79 final size:81
Alignment explanation
Indices: 57310275--57310459 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
57310265 TTGAATGATG
* *
57310275 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAAGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAAGCAAT
57310339 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * ** *
57310354 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAAGCA
*
57310416 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
57310434 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57310460 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAAGCAAT
TGTGCGAGATACTATA
Found at i:57310466 original size:40 final size:40
Alignment explanation
Indices: 57310275--57310459 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
57310265 TTGAATGATG
* * * *
57310275 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
57310315 TCCGGACTAAGAT-CCGAAAGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
57310355 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57310394 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
57310435 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57310460 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57310490 original size:79 final size:78
Alignment explanation
Indices: 57310276--57310492 Score: 190
Period size: 79 Copynumber: 2.7 Consensus size: 78
57310266 TGAATGATGT
** * * * * *
57310276 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGA-TCCGAAAGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTATATCCGG-CTAA-ATTCCGAAGGCAAT
*
57310339 TGTGCGAGATACTAATT
62 TGTGCGAGATACTAATA
** * * * *
57310356 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCC-GGCTAAATTCCGAAGGCAATTGT
*
57310421 GCGAGTTACT-ATAA
65 GCGAGATACTAAT-A
*
57310435 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGCTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTATATCCGGCTAAATTCCGAAGG
57310493 TACGTGATTT
Statistics
Matches: 113, Mismatches: 18, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
78 2 0.02
79 67 0.59
80 44 0.39
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGCTAAATTCCGAAGGCAATTGTG
CGAGATACTAATA
Found at i:57313667 original size:10 final size:10
Alignment explanation
Indices: 57313652--57313678 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
57313642 AGACAAGGAT
57313652 ACCATGTAAG
1 ACCATGTAAG
57313662 ACCATGTAAG
1 ACCATGTAAG
57313672 ACCATGT
1 ACCATGT
57313679 TTGGAACATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (10 bp):
ACCATGTAAG
Found at i:57313787 original size:101 final size:101
Alignment explanation
Indices: 57313662--57314197 Score: 596
Period size: 101 Copynumber: 5.2 Consensus size: 101
57313652 ACCATGTAAG
* *
57313662 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATACT
1 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCC
*
57313727 AAGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
66 AAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAT
* *
57313763 ACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGATATCATGTAAAACCATGCC
1 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCC
*
57313828 AAGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
66 AAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAT
*
57313864 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCGTGCC
1 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCC
* * *
57313929 AAGGCATGTCATTGATAAGTACTATAAGGCAAGGAA
66 AAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAT
* *** ** * *
57313965 ATCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTATTATAAGGCAAAGGTCCCATTTAA
1 ACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G-TAAGATAAGG-ATA--T--CATGTAA
* *
57314029 GACCATGCCAAGTCATGGCATTGGA-GAGTTC-ATAAGGCAAGGAT
57 GACCATGCCAAGGCATGGCATT-GATAAGTTCTATAAGGCAAGGAT
*** ** *
57314073 ACCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTACCATAAGGAAAATGTCCCATGTAA
1 ACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G-TAAGATAAGG---ATAT--CATGTAA
* *
57314137 GACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGAT
57 GACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAT
* *
57314181 ACCACGGAAGACCATGT
1 ACCATGTAAGACCATGT
57314198 CAAGACATGG
Statistics
Matches: 386, Mismatches: 36, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
100 10 0.03
101 208 0.54
102 2 0.01
103 1 0.00
104 8 0.02
105 2 0.01
107 2 0.01
108 121 0.31
109 29 0.08
110 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (101 bp):
ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCC
AAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAT
Found at i:57313808 original size:47 final size:47
Alignment explanation
Indices: 57313751--57313923 Score: 159
Period size: 47 Copynumber: 3.5 Consensus size: 47
57313741 ATAAGTTCTA
57313751 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* * * *** * * *
57313798 TAAGATAAGGATATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCT-A
1 TAAGACAAGGATACCATGTAAGACCATG-TTTGG-A--ACA-TGA-CA-TT-TGG
*
57313852 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* *
57313899 TAAGATAAGGATATCATGTAAGACC
1 TAAGACAAGGATACCATGTAAGACC
57313924 GTGCCAAGGC
Statistics
Matches: 96, Mismatches: 21, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
46 1 0.01
47 50 0.52
48 3 0.03
49 3 0.03
50 2 0.02
51 2 0.02
52 4 0.04
53 3 0.03
54 27 0.28
55 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
Found at i:57314031 original size:55 final size:53
Alignment explanation
Indices: 57313703--57314209 Score: 375
Period size: 55 Copynumber: 9.7 Consensus size: 53
57313693 TTGGTAAGAT
* * * * *
57313703 AAGGATATCATGTAAGACCAT-ACTAAGGCATGGCATTGATAAGTTCTATAAGAC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGATGAGTTC-ATAAGGC
*** * **
57313757 AAGGATACCATGTAAGACCATGTTTGGAACATGACATT--TG-G----TAAGAT
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTCATAAGGC
* * * * * *
57313804 AAGGATATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTC-ATAAGGC
*** **
57313858 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G----TAAGAT
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTCATAAGGC
* * * * * * *
57313905 AAGGATATCATGTAAGACCGTGCCAAGGCATGTCATTGATAAGTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTC-ATAAGGC
* * *
57313959 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTATTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAG-T-TCATAAGGC
* * * *
57314014 AAAGG-TCCCATTTAAGACCATGCCAAGTCATGGCATTGGA-GAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATT-GATGAGTTCATAAGGC
*
57314067 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACCATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT--CATAAGG-C
* * * * *
57314123 AATG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGC
* *
57314175 AAGGATACCACGGAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
57314210 ATGGTAAGTT
Statistics
Matches: 353, Mismatches: 71, Indels: 59
0.73 0.15 0.12
Matches are distributed among these distances:
46 16 0.05
47 52 0.15
48 2 0.01
49 2 0.01
52 11 0.03
53 75 0.21
54 89 0.25
55 97 0.27
56 9 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGC
Found at i:57314081 original size:108 final size:108
Alignment explanation
Indices: 57313913--57314209 Score: 434
Period size: 108 Copynumber: 2.7 Consensus size: 108
57313903 ATAAGGATAT
* * * * * *
57313913 CATGTAAGACCGTGCCAAGGCATGTCATT-GATAAGTACTATAAGGCAAGGAAATCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGA-GAGTTC-ATAAGGCAAGGATACCATGTAAGAC
** *
57313977 CATGTCAAGACATGGCATTGATGAGTTATTATAAGGCAAAGGTCC
64 CATGTCAAGACATGGCATTGATGAGTTACCATAAGGAAAAGGTCC
* *
57314022 CATTTAAGACCATGCCAAGTCATGGCATTGGAGAGTTCATAAGGCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGAGAGTTCATAAGGCAAGGATACCATGTAAGACCA
*
57314087 TGTCAAGACATGGCATTGATGAGTTACCATAAGGAAAATGTCC
66 TGTCAAGACATGGCATTGATGAGTTACCATAAGGAAAAGGTCC
* * *
57314130 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGGAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGAGAGTTCATAAGGCAAGGATACCATGTAAGACCA
57314195 TGTCAAGACATGGCA
66 TGTCAAGACATGGCA
57314210 ATGGTAAGTT
Statistics
Matches: 170, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
108 139 0.82
109 29 0.17
110 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGAGAGTTCATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATTGATGAGTTACCATAAGGAAAAGGTCC
Found at i:57317872 original size:17 final size:18
Alignment explanation
Indices: 57317841--57317874 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57317831 TTTCCCTGAT
57317841 TTTTTTAATATATTTTAA
1 TTTTTTAATATATTTTAA
57317859 TTTTTTAATA-ATTTTA
1 TTTTTTAATATATTTTA
57317875 GTATCATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTAATATATTTTAA
Found at i:57327668 original size:27 final size:27
Alignment explanation
Indices: 57327637--57327814 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57327627 TAAATTGTAC
57327637 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57327664 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57327690 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57327718 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57327746 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57327773 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57327800 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57327815 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57327751 original size:82 final size:81
Alignment explanation
Indices: 57327638--57327793 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57327628 AAATTGTACA
* *
57327638 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57327702 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57327719 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57327784 TGCGAGTTGA
65 TGCGAATTGA
57327794 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57327805 original size:82 final size:81
Alignment explanation
Indices: 57327634--57327814 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57327624 GATTAAATTG
* *
57327634 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57327699 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57327715 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57327779 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57327797 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57327815 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57327825 original size:27 final size:27
Alignment explanation
Indices: 57327719--57327825 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
57327709 TGACCATGCG
* * * *
57327719 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
57327747 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
57327774 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
57327801 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
57327826 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:57331366 original size:32 final size:32
Alignment explanation
Indices: 57331325--57331389 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
57331315 GAGAGAAAGC
57331325 ATGATTATACACTTGTAAATAATCTAAATGAA
1 ATGATTATACACTTGTAAATAATCTAAATGAA
57331357 ATGATTATACACTTGTAAATAATCTAAATGAA
1 ATGATTATACACTTGTAAATAATCTAAATGAA
57331389 A
1 A
57331390 ATAGTTGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (32 bp):
ATGATTATACACTTGTAAATAATCTAAATGAA
Found at i:57336700 original size:37 final size:37
Alignment explanation
Indices: 57336650--57336729 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
57336640 CTTATTACGA
* *
57336650 AGTCTCACCCGGACAAAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
57336687 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
57336724 GGTCTT
1 AGTCTT
57336730 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:57336919 original size:47 final size:47
Alignment explanation
Indices: 57336860--57337204 Score: 516
Period size: 47 Copynumber: 7.4 Consensus size: 47
57336850 TATCACATTT
* * *
57336860 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
57336905 ATACACATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
57336952 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
57336999 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
57337046 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
57337093 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
** *
57337140 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCTTTATTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCACAC
*
57337188 ATATACACT-TTCACATT
1 ATACACA-TGTTCACATT
57337205 TATTCAATTA
Statistics
Matches: 279, Mismatches: 17, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
45 6 0.02
46 1 0.00
47 253 0.91
48 18 0.06
49 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:57336974 original size:25 final size:25
Alignment explanation
Indices: 57336945--57337022 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
57336935 ATTCGGCCTT
57336945 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
* *** * *
57336970 ATCACA-TTGGCCA--TTCGGCCTT-
1 ATCACACATATACATGTTC-ACTTTC
57336992 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
57337017 ATCACA
1 ATCACA
57337023 TTGGCCATTC
Statistics
Matches: 36, Mismatches: 12, Indels: 10
0.62 0.21 0.17
Matches are distributed among these distances:
22 9 0.25
23 6 0.17
24 6 0.17
25 15 0.42
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (25 bp):
ATCACACATATACATGTTCACTTTC
Found at i:57337243 original size:141 final size:140
Alignment explanation
Indices: 57336848--57337235 Score: 437
Period size: 141 Copynumber: 2.8 Consensus size: 140
57336838 CCCTTCGGGA
** * * *
57336848 CTTATCACATTTATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCACATACACA
1 CTTATCACACATATACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA
* * * * * * * * *
57336912 TGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACTTTCATCACAT
65 TGTTCACTTTCATCACATTAGACATTC-GACATACCACACATACACATGTTCACATTCATCACAT
57336977 TGGCCATTCGGC
129 TGGCCATTCGGC
*
57336989 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACACAT
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT
* * * * *
57337054 GTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATT
66 GTTCACTTTCATCACATTAGACATTC-GACATACCACACATACACATGTTCACATTCATCACATT
57337119 GGCCATTCGGC
130 GGCCATTCGGC
* * * * *
57337130 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCTTTATTCACACATATACA
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCACACATACACA
*
57337195 CT-TTCACATTT-ATTCA-ATTAGAC-TTC-ACATACCACATATAC
65 -TGTTCAC-TTTCA-TCACATTAGACATTCGACATACCACACATAC
57337236 TATCATGTAC
Statistics
Matches: 220, Mismatches: 22, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
139 11 0.05
140 1 0.00
141 178 0.81
142 23 0.10
143 7 0.03
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (140 bp):
CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT
GTTCACTTTCATCACATTAGACATTCGACATACCACACATACACATGTTCACATTCATCACATTG
GCCATTCGGC
Found at i:57352715 original size:40 final size:40
Alignment explanation
Indices: 57352670--57352937 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
57352660 GCAAACACAT
* *
57352670 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
57352710 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
57352750 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
* *
57352790 TTGCCTTCGGGTCATAGCCCGGATATATTATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
57352830 TTGCCTTCGGGTCATAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
57352870 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
57352910 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
57352938 TCCAATGCTC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
Found at i:57358814 original size:17 final size:17
Alignment explanation
Indices: 57358788--57358828 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
57358778 GAGTAGACCT
*
57358788 CAACCAATACTCAACCA
1 CAACCGATACTCAACCA
57358805 CAACCGATACTCAACCA
1 CAACCGATACTCAACCA
57358822 CAACCGA
1 CAACCGA
57358829 ATTACCAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.44, C:0.41, G:0.05, T:0.10
Consensus pattern (17 bp):
CAACCGATACTCAACCA
Found at i:57359562 original size:29 final size:29
Alignment explanation
Indices: 57359528--57359601 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
57359518 TAATCAACCG
*
57359528 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
57359557 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
57359586 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
57359602 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:57371943 original size:37 final size:37
Alignment explanation
Indices: 57371901--57371974 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
57371891 GTGAGATGTA
57371901 ACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 ACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
57371938 ACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 ACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
57371975 GTGAGATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (37 bp):
ACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
Found at i:57375260 original size:26 final size:26
Alignment explanation
Indices: 57375224--57375276 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
57375214 AACATCCCAA
*
57375224 TACGTAAAGTATCTGCCAAATTAAAG
1 TACGTAAAGTATCTACCAAATTAAAG
*
57375250 TACGTAGAGTATCTACCAAATTAAAG
1 TACGTAAAGTATCTACCAAATTAAAG
57375276 T
1 T
57375277 GTTGGAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (26 bp):
TACGTAAAGTATCTACCAAATTAAAG
Found at i:57379512 original size:18 final size:18
Alignment explanation
Indices: 57379489--57379579 Score: 78
Period size: 18 Copynumber: 4.9 Consensus size: 18
57379479 CTCAAACCAA
57379489 ATACCAAAATATCTAATG
1 ATACCAAAATATCTAATG
* *
57379507 ATACCAAAATTTCTAATAA
1 ATACCAAAATATCTAAT-G
*
57379526 ATAACAAAA-ATCTGTAAATG
1 ATACCAAAATATC--T-AATG
*
57379546 ATACC-AAATCTCTAATG
1 ATACCAAAATATCTAATG
*
57379563 TATAACAAAATATCTAA
1 -ATACCAAAATATCTAA
57379580 CAGAAATACC
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
17 4 0.07
18 23 0.40
19 20 0.35
20 7 0.12
21 3 0.05
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.29
Consensus pattern (18 bp):
ATACCAAAATATCTAATG
Found at i:57379560 original size:38 final size:40
Alignment explanation
Indices: 57379487--57379577 Score: 111
Period size: 38 Copynumber: 2.4 Consensus size: 40
57379477 ATCTCAAACC
* *
57379487 AAATACCAAAATATC--T-AATGATACCAAAATTTCTAAT
1 AAATAACAAAATATCTGTAAATGATACCAAAATCTCTAAT
57379524 AAATAACAAAA-ATCTGTAAATGATACC-AAATCTCTAAT
1 AAATAACAAAATATCTGTAAATGATACCAAAATCTCTAAT
**
57379562 GTATAACAAAATATCT
1 AAATAACAAAATATCT
57379578 AACAGAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
36 3 0.07
37 10 0.22
38 20 0.43
39 13 0.28
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.29
Consensus pattern (40 bp):
AAATAACAAAATATCTGTAAATGATACCAAAATCTCTAAT
Found at i:57380249 original size:263 final size:250
Alignment explanation
Indices: 57379897--57380402 Score: 579
Period size: 250 Copynumber: 2.0 Consensus size: 250
57379887 TTGTAAACTA
* * *
57379897 AAAAATTTCAATACAGCTCTGATATTTTTTAGATTTAAAATCAACACCCAAAATAATTTTTTTAT
1 AAAAATTTCAATACAACTCTCATATTTTTTA-ATTCAAAATCAACACCCAAAATAATTTTTTTAT
* *** * *
57379962 AAAACATTTTTTAAATTTTTAACACCAAAATCTCTCTCTTCAAAAACAAAAAAAAAATTGAAAAT
65 AAAAAATTTCGAAAAATTTTAACACCAAAA--TCT-T-TTC----A-AAAAAAAAAA-GGAAAA-
* * * *
57380027 TTCTTAAAACT-ATTTGGCAATGAAGATGAGTAAGAGCAACTATAATTTGTAAGAGAAGTCAGCA
119 TT-TGAAAACTGA-TTGGCAATGAAAATGAGCAAGAACAAC-ATAATTTGTAAGAGAAGTCAGCA
* ** * * *
57380091 ACATAAATCGATTGGAGTTGTTGACTTTTCATTTATATTTTAGTATTTATTACA-AATTTCGATG
181 ACATAAATCAAGAGGAGTTGGTGACTTTTCATTTATATTTCAGTATTCATTACAGAATTTCGATG
57380155 TCTTC
246 TCTTC
* *
57380160 AAAAATTTCAATACAACTCTCAT-TTTTTT-ATTCAAAATCAACGCTCAAAATAAATTTTGTTTA
1 AAAAATTTCAATACAACTCTCATATTTTTTAATTCAAAATCAACACCCAAAAT-AATTTT-TTTA
* ** *
57380223 TAAAAAAATTTCGAAAAATTTTAACACTAAAATCTTTTCATTAAAAAAAAGGGAAATTTGAAAAC
64 T-AAAAAATTTCGAAAAATTTTAACACCAAAATCTTTTCAAAAAAAAAAAGGAAAATTTGAAAAC
**
57380288 TGATTGTTAATGAAAATGAGCAAGAACAACATAATTTGTAAGAGAAGTCAGCAACATAAATCAAG
128 TGATTGGCAATGAAAATGAGCAAGAACAACATAATTTGTAAGAGAAGTCAGCAACATAAATCAAG
57380353 AGGAGTTGGTGACTTTTCATTTATATTTCAGTATTCATTACAGAATTTCG
193 AGGAGTTGGTGACTTTTCATTTATATTTCAGTATTCATTACAGAATTTCG
57380403 TATCTTTTAA
Statistics
Matches: 211, Mismatches: 27, Indels: 22
0.81 0.10 0.08
Matches are distributed among these distances:
250 71 0.34
251 36 0.17
252 3 0.01
253 4 0.02
254 8 0.04
255 1 0.00
259 3 0.01
260 20 0.09
261 9 0.04
262 11 0.05
263 45 0.21
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (250 bp):
AAAAATTTCAATACAACTCTCATATTTTTTAATTCAAAATCAACACCCAAAATAATTTTTTTATA
AAAAATTTCGAAAAATTTTAACACCAAAATCTTTTCAAAAAAAAAAAGGAAAATTTGAAAACTGA
TTGGCAATGAAAATGAGCAAGAACAACATAATTTGTAAGAGAAGTCAGCAACATAAATCAAGAGG
AGTTGGTGACTTTTCATTTATATTTCAGTATTCATTACAGAATTTCGATGTCTTC
Found at i:57380458 original size:20 final size:21
Alignment explanation
Indices: 57380411--57380460 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
57380401 CGTATCTTTT
57380411 AAAATTTTTACTATTGCTTTAG
1 AAAA-TTTTACTATTGCTTTAG
* *
57380433 -AGATTTTATTATTGC-TTAG
1 AAAATTTTACTATTGCTTTAG
57380452 AAAATTTTA
1 AAAATTTTA
57380461 AAAACAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.17
20 18 0.75
21 2 0.08
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (21 bp):
AAAATTTTACTATTGCTTTAG
Found at i:57391030 original size:38 final size:38
Alignment explanation
Indices: 57390988--57391069 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
57390978 GATAGGAATC
*
57390988 TTGAATCAAAGACTTGTATGAGAAAAGAACCAATGTTA
1 TTGAATCAAAGACTTGTATGAGAAAAGAAACAATGTTA
*
57391026 TTGAATCAAAGACTTGTATGAGAAAAGAAATAATGTTA
1 TTGAATCAAAGACTTGTATGAGAAAAGAAACAATGTTA
57391064 TTGAAT
1 TTGAAT
57391070 GTGACCCGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.29
Consensus pattern (38 bp):
TTGAATCAAAGACTTGTATGAGAAAAGAAACAATGTTA
Found at i:57400194 original size:46 final size:46
Alignment explanation
Indices: 57400144--57400316 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
57400134 TGGTTGAGCA
57400144 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
57400190 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
57400235 CATCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57400283 CCCGAGCTCGTTGAGTTGAGTCCGAGGTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57400317 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 27 0.27
48 3 0.03
50 2 0.02
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57402132 original size:49 final size:47
Alignment explanation
Indices: 57401864--57402511 Score: 1053
Period size: 47 Copynumber: 13.6 Consensus size: 47
57401854 CCCTTCGGGA
* * * * * *
57401864 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
57401911 CCTGTCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57401958 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57402005 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57402052 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57402099 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57402148 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57402195 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57402244 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57402293 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57402340 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57402389 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57402436 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57402485 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
57402512 TATTCAAATA
Statistics
Matches: 565, Mismatches: 28, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
47 335 0.59
49 230 0.41
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57402149 original size:96 final size:94
Alignment explanation
Indices: 57401864--57402511 Score: 1053
Period size: 96 Copynumber: 6.8 Consensus size: 94
57401854 CCCTTCGGGA
* * * * * * * *
57401864 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
57401929 TTTCACATTCATTACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
57401958 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
57402023 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
57402052 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
57402117 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
57402148 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
57402213 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
57402244 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57402309 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
57402340 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57402405 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
57402436 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57402501 ACTTTCACATT
64 ACTTTCACATT
57402512 TATTCAAATA
Statistics
Matches: 529, Mismatches: 21, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
94 139 0.26
96 346 0.65
98 44 0.08
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:57404644 original size:85 final size:85
Alignment explanation
Indices: 57404537--57404713 Score: 336
Period size: 85 Copynumber: 2.1 Consensus size: 85
57404527 TTTTATTGCT
* *
57404537 CATGCCCTTTATTTTTTTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTA
1 CATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTA
57404602 GCCATAACATCTTGTCCACC
66 GCCATAACATCTTGTCCACC
57404622 CATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTA
1 CATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTA
57404687 GCCATAACATCTTGTCCACC
66 GCCATAACATCTTGTCCACC
57404707 CATGCTC
1 CATGCTC
57404714 ATGGCCGGCC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 90 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTA
GCCATAACATCTTGTCCACC
Found at i:57409838 original size:46 final size:46
Alignment explanation
Indices: 57409788--57409960 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
57409778 TGGTTGAGCA
57409788 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
57409834 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57409879 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
57409927 CCCGAGCTTGTTGAGTTGAGTCCGAGGTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57409961 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57411910 original size:23 final size:24
Alignment explanation
Indices: 57411879--57411940 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
57411869 ACACATACAA
* *
57411879 TTGATTTTTTTTAA-TAATT-CTC
1 TTGAGTTTTTTTAAGGAATTACTC
57411901 TTTGAGTTTTTCTTAAGGAATTACTC
1 -TTGAGTTTTT-TTAAGGAATTACTC
57411927 TTGAGTTTCTTTTA
1 TTGAGTTT-TTTTA
57411941 GAAGCTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 9 0.27
24 4 0.12
25 15 0.45
26 5 0.15
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (24 bp):
TTGAGTTTTTTTAAGGAATTACTC
Found at i:57416014 original size:48 final size:48
Alignment explanation
Indices: 57415959--57416337 Score: 300
Period size: 48 Copynumber: 7.9 Consensus size: 48
57415949 GTGAGTTGCC
* * * * *
57415959 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCAAATGTCGAGGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCT
* * * * *
57416007 GATGCCATG-TCTCAAACATGGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATATCAATGCT
* * * *
57416055 GATGCCATG-TCCTAGACATGGTCTTACACTAGCGCACATATCAATGTT
1 GATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATATCAATGCT
* * * * * * * *
57416103 GATGCCATGTCCCAGACATGGTCTTACATTTGCTCTCACAAC-ATCGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAT-GCT
* * * *
57416151 GATGCCATGTTCGAAACATGGTCTTACACTGGCTCTCATATC-GTGGT
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCT
* * * * * * * *
57416198 CGATGCCATATCCCAGACATAGTCTTACACTGGCTCTCAAAACAATGCC
1 -GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCT
* * *
57416247 AATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATC-GTAGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAT-GCT
* * * * *
57416295 GATGTCATGTCCCAGACGTGGTCTTACACTGGCACACATATCA
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCA
57416338 CCCAAATGTC
Statistics
Matches: 262, Mismatches: 61, Indels: 15
0.78 0.18 0.04
Matches are distributed among these distances:
47 7 0.03
48 251 0.96
49 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCT
Found at i:57416304 original size:144 final size:143
Alignment explanation
Indices: 57415955--57416337 Score: 392
Period size: 144 Copynumber: 2.7 Consensus size: 143
57415945 GAGGGTGAGT
* ** *
57415955 TGCCGATGCCATGTTCCAAACATAGTCTTACACTGGCTCAAATGTCG-AGGCTGATGCCATGTCT
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTA-GCTGATGCCATGT-T
* * * * * *
57416019 CAAACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCTAGACATGGTCTTACAC
64 CAAACATGGTCTTACACTGGCTCTCATATCAATGCCGATGCCATATCCCAGACATAGTCTTACAC
* *
57416084 TAGCGCACATATCAA
129 TAGCGCACAAAACAA
** * * * * * * * * *
57416099 TGTTGATGCCATGTCCCAGACATGGTCTTACATTTGCTCTCACAACATCGCCGATGCCATGTTCG
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCTGATGCCATGTTC-
* *
57416164 AAACATGGTCTTACACTGGCTCTCATATC-GTGGTCGATGCCATATCCCAGACATAGTCTTACAC
65 AAACATGGTCTTACACTGGCTCTCATATCAAT-GCCGATGCCATATCCCAGACATAGTCTTACAC
* * *
57416228 TGGCTCTCAAAACAA
129 TAGCGCACAAAACAA
* * *
57416243 TGCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCTGATGTCATGTCCC
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCTGATGCCATGT-TC
* * * *
57416308 AGACGTGGTCTTACACTGGCACACATATCA
65 AAACATGGTCTTACACTGGCTCTCATATCA
57416338 CCCAAATGTC
Statistics
Matches: 188, Mismatches: 46, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
143 3 0.02
144 184 0.98
145 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (143 bp):
TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCTGATGCCATGTTCA
AACATGGTCTTACACTGGCTCTCATATCAATGCCGATGCCATATCCCAGACATAGTCTTACACTA
GCGCACAAAACAA
Found at i:57416325 original size:96 final size:97
Alignment explanation
Indices: 57415955--57416327 Score: 427
Period size: 96 Copynumber: 3.9 Consensus size: 97
57415945 GAGGGTGAGT
* * * *
57415955 TGCCGATGCCATGTTCCAAACATAGTCTTACACTGGCTCAAATGTCG-AGGCTGATGCCATGTCT
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGTAGGCTGATGCCATGTCC
* * ****
57416019 CAAACATGGTCTTACACTAGCTCTCGTCTCAA
66 CAGACATGGTCTTACACTGGCTCTCAAAACAA
* * * * * *
57416051 TGCCGATGCCATG-TCCTAGACATGGTCTTACACTAGCGCACATATC-AATGTTGATGCCATGTC
1 TGCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATATCGTAGGCTGATGCCATGTC
* * *
57416114 CCAGACATGGTCTTACATTTGCTCTCACAAC-A
65 CCAGACATGGTCTTACACTGGCTCTCAAAACAA
* * *
57416146 TCGCCGATGCCATGTTCGAAACATGGTCTTACACTGGCTCTCATATCGT-GG-TCGATGCCATAT
1 T-GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGTAGGCT-GATGCCATGT
*
57416209 CCCAGACATAGTCTTACACTGGCTCTCAAAACAA
64 CCCAGACATGGTCTTACACTGGCTCTCAAAACAA
* * *
57416243 TGCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTA-GCTGATGTCATGTCC
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGTAGGCTGATGCCATGTCC
*
57416307 CAGACGTGGTCTTACACTGGC
66 CAGACATGGTCTTACACTGGC
57416328 ACACATATCA
Statistics
Matches: 234, Mismatches: 34, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
95 6 0.03
96 223 0.95
97 5 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (97 bp):
TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGTAGGCTGATGCCATGTCC
CAGACATGGTCTTACACTGGCTCTCAAAACAA
Found at i:57418040 original size:43 final size:43
Alignment explanation
Indices: 57417993--57418151 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
57417983 GATTAACGAG
*
57417993 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTATGTGTAAGACCATATCTGGGACATTGGCATCATT
* *
57418036 ATGTGATTATGTGTAAGGCCATATCTGGGACATTGGCATCGTT
1 ATGTGATTATGTGTAAGACCATATCTGGGACATTGGCATCATT
* * * * * *
57418079 ATTTGATT-TCGTATAAGACCATAGCTGAG-CTATTGGCTTTGA-T
1 ATGTGATTAT-GTGTAAGACCATATCTGGGAC-ATTGGC-ATCATT
* **
57418122 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTATGTGTAAGACCATATCTGGGA
57418152 TATGGAATTG
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 2 0.02
43 90 0.97
44 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.35
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATATCTGGGACATTGGCATCATT
Found at i:57430266 original size:43 final size:43
Alignment explanation
Indices: 57430214--57430332 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 43
57430204 ACATATCGAT
* *
57430214 GCCACTGTCCCAGACA-GCGTCTTACACG-AA-CTCGATTAACAAC
1 GCCAATGTCCCAGACATG-GTCTTACACGTAATCTC-AAT-ACAAC
*
57430257 GCCAATGTCCCAGACATGGTCTTACACGTAATCTCAATACAAT
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCTCAATACAAC
* *
57430300 GCCAATGTCCTAGACATGGTCTTACATGTAATC
1 GCCAATGTCCCAGACATGGTCTTACACGTAATC
57430333 ACATCTCGAT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
43 60 0.88
44 5 0.07
45 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGTAATCTCAATACAAC
Found at i:57435064 original size:20 final size:20
Alignment explanation
Indices: 57435039--57435078 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
57435029 ACACATGGTG
*
57435039 GATGTTTTCGATAAGATAAA
1 GATGTTTGCGATAAGATAAA
*
57435059 GATGTTTGCGGTAAGATAAA
1 GATGTTTGCGATAAGATAAA
57435079 TCTTGTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (20 bp):
GATGTTTGCGATAAGATAAA
Found at i:57437105 original size:3 final size:3
Alignment explanation
Indices: 57437099--57437123 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
57437089 TGATGATTAA
57437099 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
57437124 AATATGCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:57441474 original size:37 final size:37
Alignment explanation
Indices: 57441416--57441597 Score: 310
Period size: 37 Copynumber: 4.9 Consensus size: 37
57441406 GCTCAGACGA
* * *
57441416 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
57441453 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
57441490 AATCTCTACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
57441527 AATCACCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
57441564 AATCACCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
57441598 ATATATTTCC
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 139 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:57441798 original size:48 final size:48
Alignment explanation
Indices: 57441744--57441878 Score: 261
Period size: 48 Copynumber: 2.8 Consensus size: 48
57441734 GCACATCGCC
*
57441744 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
57441792 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
57441840 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
57441879 TGCATGTTCA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Done.