Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 258 of 279
Found at i:84019317 original size:16 final size:16
Alignment explanation
Indices: 84019284--84019317 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
84019274 GGAGATTGTT
* *
84019284 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
84019300 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
84019316 AA
1 AA
84019318 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:84027158 original size:14 final size:14
Alignment explanation
Indices: 84027139--84027170 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
84027129 TCCAATCACC
84027139 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
84027153 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
84027167 GGGC
1 GGGC
84027171 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:84030205 original size:31 final size:27
Alignment explanation
Indices: 84030147--84030201 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
84030137 AAAGCTTAAG
84030147 AGTATCCATAACCCAAAACATACATAC
1 AGTATCCATAACCCAAAACATACATAC
84030174 AGTATCCATAACCCAAAACATACATAC
1 AGTATCCATAACCCAAAACATACATAC
84030201 A
1 A
84030202 TACATACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.29, G:0.04, T:0.18
Consensus pattern (27 bp):
AGTATCCATAACCCAAAACATACATAC
Found at i:84032240 original size:12 final size:11
Alignment explanation
Indices: 84032207--84032242 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
84032197 ACACATTATT
*
84032207 TCTCAATTTTC
1 TCTCAAATTTC
84032218 TCTCAAATTTC
1 TCTCAAATTTC
84032229 TCTCTAAATTTC
1 TCTC-AAATTTC
84032241 TC
1 TC
84032243 AAAGCTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.22, C:0.28, G:0.00, T:0.50
Consensus pattern (11 bp):
TCTCAAATTTC
Found at i:84034324 original size:24 final size:24
Alignment explanation
Indices: 84034297--84034352 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
84034287 CATTTAATAA
*
84034297 AATAAAAGTTGTTTTTCATA-TTTT
1 AATAAAAGTTATTTTT-ATATTTTT
* *
84034321 AATAGTAATTTATTTTTATATTTTT
1 AATA-AAAGTTATTTTTATATTTTT
84034346 AATAAAA
1 AATAAAA
84034353 TAAAAGTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (24 bp):
AATAAAAGTTATTTTTATATTTTT
Found at i:84038115 original size:126 final size:126
Alignment explanation
Indices: 84037466--84038098 Score: 1007
Period size: 126 Copynumber: 5.0 Consensus size: 126
84037456 TAAGGGCAAA
*
84037466 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGC
* *
84037531 ATCCTGCTTGAAGCGTTTTTTACACTATTTATTCAGAACTGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * *
84037592 CAGGAACTACTGTAGAAAAACAGCATACACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGC
* *
84037657 ATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
** *
84037718 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTATTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGC
* ** * *
84037783 ATCCTACTTGAAATGTTTTTGACACTATTTGTTCATAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * *
84037844 CAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTTAGTAATTTTGCTAACATTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGC
* *
84037909 ATCCTACTTGAAGCGTTTTTTAAACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * *
84037970 CAGGAACTATTGTAGAAAAAGAGCATCCATGCGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGC
* *
84038035 ATCCTGCTTGAAGCGTTTTTTACATTATCTT-TTCAGAACCGTCTTCTTAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTTACACTAT-TTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
84038096 CAG
1 CAG
84038099 ATACTATAGA
Statistics
Matches: 465, Mismatches: 41, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
126 463 1.00
127 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGC
ATCCTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:84038201 original size:34 final size:34
Alignment explanation
Indices: 84038162--84038235 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
84038152 CACAAAATTA
84038162 TTAAAAAAACTAAACTATAATTTAAATAATTT-T
1 TTAAAAAAACTAAACTATAATTTAAATAATTTAT
** * *
84038195 CTTAAAAACCCTAAACTCTAATTTAATTAATTTAT
1 -TTAAAAAAACTAAACTATAATTTAAATAATTTAT
84038230 TTAAAA
1 TTAAAA
84038236 TTTCAAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (34 bp):
TTAAAAAAACTAAACTATAATTTAAATAATTTAT
Found at i:84040656 original size:9 final size:9
Alignment explanation
Indices: 84040639--84040696 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
84040629 TTGAAACAAA
84040639 TTTTATAAT
1 TTTTATAAT
*
84040648 TTTTTTAAT
1 TTTTATAAT
* *
84040657 TTTTAAAAA
1 TTTTATAAT
84040666 TTTTATGAAT
1 TTTTAT-AAT
84040676 TTTTAATAAT
1 TTTT-ATAAT
84040686 TTATT-TAAT
1 TT-TTATAAT
84040695 TT
1 TT
84040697 AAACCGATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 25 0.62
10 11 0.28
11 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:84040669 original size:19 final size:19
Alignment explanation
Indices: 84040645--84040696 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
84040635 CAAATTTTAT
84040645 AATTTTTTTAATTTTTAAA
1 AATTTTTTTAATTTTTAAA
* * *
84040664 AATTTTATGAATTTTTAAT
1 AATTTTTTTAATTTTTAAA
*
84040683 AATTTATTTAATTT
1 AATTTTTTTAATTT
84040697 AAACCGATGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTTTTAATTTTTAAA
Found at i:84042945 original size:165 final size:165
Alignment explanation
Indices: 84042748--84043078 Score: 662
Period size: 165 Copynumber: 2.0 Consensus size: 165
84042738 AAATGATAAA
84042748 TCAATTTCAAAAAAACATTAACTACATCAAAACAAAATTTAAAAGATTTTATTTTAAATACTTTT
1 TCAATTTCAAAAAAACATTAACTACATCAAAACAAAATTTAAAAGATTTTATTTTAAATACTTTT
84042813 TATGATTATTTAATTTCATCTCTATATTCAATTTGCTTTTATTTCTATCTGATTTTATTGTTTTA
66 TATGATTATTTAATTTCATCTCTATATTCAATTTGCTTTTATTTCTATCTGATTTTATTGTTTTA
84042878 GATCCGACAGCCACCATTAATCGTCTGGGTGGTGT
131 GATCCGACAGCCACCATTAATCGTCTGGGTGGTGT
84042913 TCAATTTCAAAAAAACATTAACTACATCAAAACAAAATTTAAAAGATTTTATTTTAAATACTTTT
1 TCAATTTCAAAAAAACATTAACTACATCAAAACAAAATTTAAAAGATTTTATTTTAAATACTTTT
84042978 TATGATTATTTAATTTCATCTCTATATTCAATTTGCTTTTATTTCTATCTGATTTTATTGTTTTA
66 TATGATTATTTAATTTCATCTCTATATTCAATTTGCTTTTATTTCTATCTGATTTTATTGTTTTA
84043043 GATCCGACAGCCACCATTAATCGTCTGGGTGGTGT
131 GATCCGACAGCCACCATTAATCGTCTGGGTGGTGT
84043078 T
1 T
84043079 GTTGGTTATC
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
165 166 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.44
Consensus pattern (165 bp):
TCAATTTCAAAAAAACATTAACTACATCAAAACAAAATTTAAAAGATTTTATTTTAAATACTTTT
TATGATTATTTAATTTCATCTCTATATTCAATTTGCTTTTATTTCTATCTGATTTTATTGTTTTA
GATCCGACAGCCACCATTAATCGTCTGGGTGGTGT
Found at i:84044193 original size:4 final size:4
Alignment explanation
Indices: 84044184--84044232 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
84044174 TTTCATCTCT
84044184 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
84044232 T
1 T
84044233 TAAAAAGGGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:84044405 original size:4 final size:4
Alignment explanation
Indices: 84044390--84044437 Score: 87
Period size: 4 Copynumber: 12.0 Consensus size: 4
84044380 TTTGCATTCC
*
84044390 TCTT TTTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
84044438 CAAACTAGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TCTT
Found at i:84047545 original size:31 final size:31
Alignment explanation
Indices: 84047510--84047572 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
84047500 TTACCATCGT
*
84047510 AGTGACTTAAATAAAAACTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTCTGAATAGTTC
*
84047541 AGTGACTTAAATGAAAACTTCTGAATAGTTC
1 AGTGACTTAAATAAAAACTTCTGAATAGTTC
84047572 A
1 A
84047573 ATGATCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.33
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTCTGAATAGTTC
Found at i:84050326 original size:15 final size:15
Alignment explanation
Indices: 84050302--84050334 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
84050292 TTATTCTATA
84050302 AATTAGTATATTGAG
1 AATTAGTATATTGAG
*
84050317 AATTATTATATTGAG
1 AATTAGTATATTGAG
84050332 AAT
1 AAT
84050335 GCCTTTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (15 bp):
AATTAGTATATTGAG
Found at i:84052088 original size:875 final size:872
Alignment explanation
Indices: 84050372--84052118 Score: 3449
Period size: 875 Copynumber: 2.0 Consensus size: 872
84050362 AAAATTAAGG
*
84050372 AAAGAGTGAGATAATTTAGGAAAAGAGTTGGTCCATAATGATTAATGGAACAGCACATGTGGTAG
1 AAAGAGTGAGATAATTAAGGAAAAGAGTTGGTCCATAATGATTAATGGAACAGCACATGTGGTAG
84050437 TGCCAACATTTGTGGCTGTGGAGGGTGGATATGCTGCTGGTGGCTCATGTAGTTTCCCACTATCA
66 TGCCAACATTTGTGGCTGTGGAGGGTGGATATGCTGCTGGTGGCTCATGTAGTTTCCCACTATCA
84050502 TATAATTTAGGTGACCAATTACGCACGTGAACTTGTGCTTTAAGAAGTTAAAATAATGCTTAATT
131 TATAATTTAGGTGACCAATTACGCACGTGAACTTGTGCTTTAAGAAGTTAAAATAATGCTTAATT
84050567 TGGCTAATTAAATCTTAAATTAGTATCTGTTGGACCATATTAAATTTTAATGCTTCTTTATTTGG
196 TGGCTAATTAAATCTTAAATTAGTATCTGTTGGACCATATTAAATTTTAATGCTTCTTTATTTGG
84050632 ATAGCAGATTTTACGTGGAAACCCTTTCAGGAAAAAAATTACGAGCAGGGTAGAAGAAATTCATT
261 ATAGCAGATTTTACGTGGAAACCCTTTCAGGAAAAAAATTACGAGCAGGGTAGAAGAAATTCATT
84050697 AAGGTTGAAAAACCATATTCTGATTAAAATCAAATAATAGAAATATAGTTTTATATGGGCTCAAC
326 AAGGTTGAAAAACCATATTCTGATTAAAATCAAATAATAGAAATATAGTTTTATATGGGCTCAAC
84050762 TTGTGCGATATGGTCCGTACTGATATAAAAGGTCACACAAAATCTAACATATATTTTGAGAGTTT
391 TTGTGCGATATGGTCCGTACTGATATAAAAGGTCACACAAAATCTAACATATATTTTGAGAGTTT
84050827 ACAAATATAAATACGATACAGTTTAAATATAAATAAAAAATTTCCGAAATATAATGGAACAAAAC
456 ACAAATATAAATACGATACAGTTTAAATATAAATAAAAAATTTCCGAAATATAATGGAACAAAAC
84050892 TCATACATGACAATTGCAGATGCTCGAGTAAAATGTACCATAAATCACTCAATAAAACAGTGCAC
521 TCATACATGACAATTGCAGATGCTCGAGTAAAATGTACCATAAATCACTCAATAAAACAGTGCAC
84050957 CGAAAAGAGGAAAAGAAGGAGGAGGTAACCTTCCTTATCTAATTAAAGGGACTTTGTGCTACTTA
586 CGAAAAGAGGAAAAGAAGGAGGAGGTAACCTTCCTTATCTAATTAAAGGGACTTTGTGCTACTTA
84051022 TTAGCATATGGAATTTCATTGAATACATGTGGGATAACTTGTATTTGGTGTGAAACTTGTTCTTC
651 TTAGCATATGGAATTTCATTGAATACATGTGGGATAACTTGTATTTGGTGTGAAACTTGTTCTTC
84051087 TAAGACTTCTACCCTCCAATAGATCATGTTTGCAATATTTATGTTGAGTTGGAAAATTTAACCGT
716 TAAGACTTCTACCCTCCAATAGATCATGTTTGCAATATTTATGTTGAGTTGGAAAATTTAACCGT
84051152 ATATTATTATATACAGAGGAAAAGAATTATACCGTAATCTAAATCTGTTCGGGTTATTCGCTTAA
781 ATATTATTATATACAGAGGAAAAGAATTATACCGTAATCTAAATCTGTTCGGGTTATTCGCTTAA
84051217 GTTTAAAGATTTATTCGAAATTCGAAA
846 GTTTAAAGATTTATTCGAAATTCGAAA
*
84051244 AAAGAGTGAGATAATTAAAGTAGAAAAGGGTTGGTCCATAATGATTAATGGAACAGCACATGTGG
1 AAAGAGTGAGATAATT-AAG--GAAAAGAGTTGGTCCATAATGATTAATGGAACAGCACATGTGG
84051309 TAGTGCCAACATTTGTGGCTGTGGAGGGTGGATATGCTGCTGGTGGCTCATGTAGTTTCCCACTA
63 TAGTGCCAACATTTGTGGCTGTGGAGGGTGGATATGCTGCTGGTGGCTCATGTAGTTTCCCACTA
84051374 TCATATAATTTAGGTGACCAATTACGCACGTGAACTTGTGCTTTAAGAAGTTAAAATAATGCTTA
128 TCATATAATTTAGGTGACCAATTACGCACGTGAACTTGTGCTTTAAGAAGTTAAAATAATGCTTA
84051439 ATTTGGCTAATTAAATCTTAAATTAGTATCTGTTGGACCATATTAAATTTTAATGCTTCTTTATT
193 ATTTGGCTAATTAAATCTTAAATTAGTATCTGTTGGACCATATTAAATTTTAATGCTTCTTTATT
84051504 TGGATAGCAGATTTTACGTGGAAACCCTTTCAGGAAAAAAATTACGAGCAGGGTAGAAGAAATTC
258 TGGATAGCAGATTTTACGTGGAAACCCTTTCAGGAAAAAAATTACGAGCAGGGTAGAAGAAATTC
84051569 ATTAAGGTTGAAAAACCATATTCTGATTAAAATCAAATAATAGAAATATAGTTTTATATGGGCTC
323 ATTAAGGTTGAAAAACCATATTCTGATTAAAATCAAATAATAGAAATATAGTTTTATATGGGCTC
84051634 AACTTGTGCGATATGGTCCGTACTGATATAAAAGGTCACACAAAATCTAACATATATTTTGAGAG
388 AACTTGTGCGATATGGTCCGTACTGATATAAAAGGTCACACAAAATCTAACATATATTTTGAGAG
84051699 TTTACAAATATAAATACGATACAGTTTAAATATAAATAAAAAATTTCCGAAATATAATGGAACAA
453 TTTACAAATATAAATACGATACAGTTTAAATATAAATAAAAAATTTCCGAAATATAATGGAACAA
84051764 AACTCATACATGACAATTGCAGATGCTCGAGTAAAATGTACCATAAATCACTCAATAAAACAGTG
518 AACTCATACATGACAATTGCAGATGCTCGAGTAAAATGTACCATAAATCACTCAATAAAACAGTG
84051829 CACCGAAAAGAGGAAAAGAAGGAGGAGGTAACCTTCCTTATCTAATTAAAGGGACTTTGTGCTAC
583 CACCGAAAAGAGGAAAAGAAGGAGGAGGTAACCTTCCTTATCTAATTAAAGGGACTTTGTGCTAC
84051894 TTATTAGCATATGGAATTTCATTGAATACATGTGGGATAACTTGTATTTGGTGTGAAACTTGTTC
648 TTATTAGCATATGGAATTTCATTGAATACATGTGGGATAACTTGTATTTGGTGTGAAACTTGTTC
84051959 TTCTAAGACTTCTACCCTCCAATAGATCATGTTTGCAATATTTATGTTGAGTTGGAAAATTTAAC
713 TTCTAAGACTTCTACCCTCCAATAGATCATGTTTGCAATATTTATGTTGAGTTGGAAAATTTAAC
84052024 CGTATATTATTATATACAGAGGAAAAGAATTATACCGTAATCTAAATCTGTTCGGGTTATTCGCT
778 CGTATATTATTATATACAGAGGAAAAGAATTATACCGTAATCTAAATCTGTTCGGGTTATTCGCT
84052089 TAAGTTTAAAGATTTATTCGAAATTCGAAA
843 TAAGTTTAAAGATTTATTCGAAATTCGAAA
84052119 GAGTTTAGAC
Statistics
Matches: 870, Mismatches: 2, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
872 16 0.02
873 2 0.00
875 852 0.98
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.32
Consensus pattern (872 bp):
AAAGAGTGAGATAATTAAGGAAAAGAGTTGGTCCATAATGATTAATGGAACAGCACATGTGGTAG
TGCCAACATTTGTGGCTGTGGAGGGTGGATATGCTGCTGGTGGCTCATGTAGTTTCCCACTATCA
TATAATTTAGGTGACCAATTACGCACGTGAACTTGTGCTTTAAGAAGTTAAAATAATGCTTAATT
TGGCTAATTAAATCTTAAATTAGTATCTGTTGGACCATATTAAATTTTAATGCTTCTTTATTTGG
ATAGCAGATTTTACGTGGAAACCCTTTCAGGAAAAAAATTACGAGCAGGGTAGAAGAAATTCATT
AAGGTTGAAAAACCATATTCTGATTAAAATCAAATAATAGAAATATAGTTTTATATGGGCTCAAC
TTGTGCGATATGGTCCGTACTGATATAAAAGGTCACACAAAATCTAACATATATTTTGAGAGTTT
ACAAATATAAATACGATACAGTTTAAATATAAATAAAAAATTTCCGAAATATAATGGAACAAAAC
TCATACATGACAATTGCAGATGCTCGAGTAAAATGTACCATAAATCACTCAATAAAACAGTGCAC
CGAAAAGAGGAAAAGAAGGAGGAGGTAACCTTCCTTATCTAATTAAAGGGACTTTGTGCTACTTA
TTAGCATATGGAATTTCATTGAATACATGTGGGATAACTTGTATTTGGTGTGAAACTTGTTCTTC
TAAGACTTCTACCCTCCAATAGATCATGTTTGCAATATTTATGTTGAGTTGGAAAATTTAACCGT
ATATTATTATATACAGAGGAAAAGAATTATACCGTAATCTAAATCTGTTCGGGTTATTCGCTTAA
GTTTAAAGATTTATTCGAAATTCGAAA
Found at i:84059048 original size:18 final size:17
Alignment explanation
Indices: 84059015--84059048 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
84059005 GTTATTAAAT
*
84059015 TTAAAACAATATATATC
1 TTAAAACAACATATATC
84059032 TTAAAACATACATATAT
1 TTAAAACA-ACATATAT
84059049 ATATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAACAACATATATC
Found at i:84061846 original size:22 final size:22
Alignment explanation
Indices: 84061804--84061846 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
84061794 TATATATCTT
* *
84061804 TATATAATTTTTAATAATTTTA
1 TATATAAATTTTAACAATTTTA
*
84061826 TATATAAATTTTAACATTTTT
1 TATATAAATTTTAACAATTTT
84061847 TTAAATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TATATAAATTTTAACAATTTTA
Found at i:84063389 original size:22 final size:23
Alignment explanation
Indices: 84063337--84063381 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
84063327 TATCTTTATT
84063337 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAATTATAAAAATATA
84063359 TAAATATTAA-TATAAAAATATA
1 TAAATATTAATTATAAAAATATA
84063381 T
1 T
84063382 TTTTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAATATTAATTATAAAAATATA
Found at i:84075083 original size:15 final size:16
Alignment explanation
Indices: 84075063--84075094 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
84075053 TAAAATATAA
84075063 TAGCGGTTTC-GACAG
1 TAGCGGTTTCGGACAG
84075078 TAGCGGTTTCGGACAG
1 TAGCGGTTTCGGACAG
84075094 T
1 T
84075095 GCTGCTACCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (16 bp):
TAGCGGTTTCGGACAG
Found at i:84086933 original size:16 final size:16
Alignment explanation
Indices: 84086912--84086952 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
84086902 GGGTTTGAAT
84086912 TCGATCAATCGACCA-G
1 TCGATCAATCG-CCAGG
84086928 TCGATCAA-CGCCATGG
1 TCGATCAATCGCCA-GG
84086944 TCGATCAAT
1 TCGATCAAT
84086953 GGAGTATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 2 0.09
16 17 0.77
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (16 bp):
TCGATCAATCGCCAGG
Found at i:84106178 original size:28 final size:28
Alignment explanation
Indices: 84106147--84106226 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 28
84106137 AAAATTAAAA
84106147 AAAATTAAAAAGTATTTTAAAAAA-A-TTT
1 AAAATTAAAAA--ATTTTAAAAAAGATTTT
84106175 AAAATTTTAAAAAATTTTAAAAAAGTATTTT
1 AAAA--TTAAAAAATTTTAAAAAAG-ATTTT
* *
84106206 AAAAGT-AAAAATTTAAAAAAA
1 AAAATTAAAAAATTTTAAAAAA
84106227 TAAAAATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
28 29 0.64
29 1 0.02
30 8 0.18
31 7 0.16
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (28 bp):
AAAATTAAAAAATTTTAAAAAAGATTTT
Found at i:84106181 original size:18 final size:18
Alignment explanation
Indices: 84106160--84106196 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
84106150 ATTAAAAAGT
84106160 ATTTTAAAAAAATTTAAA
1 ATTTTAAAAAAATTTAAA
*
84106178 ATTTTAAAAAATTTTAAA
1 ATTTTAAAAAAATTTAAA
84106196 A
1 A
84106197 AAGTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTTAAAAAAATTTAAA
Found at i:84111266 original size:37 final size:38
Alignment explanation
Indices: 84111215--84111291 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 38
84111205 TTACCCACAT
* * *
84111215 AATACTCCGACATGTATACATCTCATTATTTCCCTTTG
1 AATACTCCCACATGTATACATCTCATTAATTCCCTCTG
*
84111253 AATAC-CCCACATGTATGCATCTCATTAATTCCCTCTG
1 AATACTCCCACATGTATACATCTCATTAATTCCCTCTG
84111290 AA
1 AA
84111292 AACTTGGATC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
37 30 0.86
38 5 0.14
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.35
Consensus pattern (38 bp):
AATACTCCCACATGTATACATCTCATTAATTCCCTCTG
Found at i:84114631 original size:11 final size:11
Alignment explanation
Indices: 84114615--84114639 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
84114605 AAATAAATTT
84114615 TTAAAAAAATA
1 TTAAAAAAATA
84114626 TTAAAAAAATA
1 TTAAAAAAATA
84114637 TTA
1 TTA
84114640 TAATTAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TTAAAAAAATA
Found at i:84116630 original size:16 final size:16
Alignment explanation
Indices: 84116609--84116648 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
84116599 GTAAATATAT
84116609 TTGGGCCTTATTGGGC
1 TTGGGCCTTATTGGGC
*
84116625 TTGGGCCTTGTTGGGC
1 TTGGGCCTTATTGGGC
84116641 TTGGGCCT
1 TTGGGCCT
84116649 AATAAGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.03, C:0.20, G:0.40, T:0.38
Consensus pattern (16 bp):
TTGGGCCTTATTGGGC
Found at i:84119238 original size:16 final size:18
Alignment explanation
Indices: 84119206--84119246 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
84119196 TTCAAAAAAA
84119206 TCAAAATATATGTAAA-T
1 TCAAAATATATGTAAATT
84119223 TCAAAA-ATAT-TCAAATT
1 TCAAAATATATGT-AAATT
84119240 TCAAAAT
1 TCAAAAT
84119247 TCAAAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.05
16 7 0.33
17 13 0.62
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (18 bp):
TCAAAATATATGTAAATT
Found at i:84122345 original size:31 final size:31
Alignment explanation
Indices: 84122250--84122346 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
84122240 ATTAAGAGGA
*
84122250 TTAATAAATTTTGA-AGGATATAATTAAAATT
1 TTAA-AAATTTTGAGAGGACATAATTAAAATT
** * *
84122281 TTAAAACCTTTG-GAAGG-CGTAATTAGAATTT
1 TTAAAAATTTTGAG-AGGACATAATTA-AAATT
*
84122312 TTAAAAATTTTGAGAGGACCTAATTAAAATT
1 TTAAAAATTTTGAGAGGACATAATTAAAATT
84122343 TTAA
1 TTAA
84122347 GCAGGTTTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
30 12 0.23
31 32 0.62
32 8 0.15
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.38
Consensus pattern (31 bp):
TTAAAAATTTTGAGAGGACATAATTAAAATT
Found at i:84122565 original size:22 final size:21
Alignment explanation
Indices: 84122537--84122591 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
84122527 CCCGCCTATT
84122537 TTTTTAAAAATATATATTTATA
1 TTTTTAAAAATAT-TATTTATA
* *
84122559 TTTTTAATTTAATATTTTTTATA
1 TTTTTAA--AAATATTATTTATA
84122582 TTTATTAAAA
1 TTT-TTAAAA
84122592 TTTTATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
22 8 0.30
23 10 0.37
24 9 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTAAAAATATTATTTATA
Found at i:84123375 original size:5 final size:6
Alignment explanation
Indices: 84123353--84123382 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
84123343 TTTTTCCCCT
84123353 TTTTTAA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTT-A TTTTTA TTTTTA TTTTTA TTTTT
84123383 TACAAAATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:84132566 original size:21 final size:22
Alignment explanation
Indices: 84132542--84132590 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
84132532 CTTCATGCTG
*
84132542 ATTTTTTTATGGAT-TC-TTATA
1 ATTTTTTT-TGAATATCTTTATA
84132563 ATTTTTTTTGAATATCTTTATA
1 ATTTTTTTTGAATATCTTTATA
84132585 ATTTTT
1 ATTTTT
84132591 AAATTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 10 0.40
22 11 0.44
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.65
Consensus pattern (22 bp):
ATTTTTTTTGAATATCTTTATA
Found at i:84134115 original size:3 final size:3
Alignment explanation
Indices: 84134109--84134134 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
84134099 CCTTCTTCTC
84134109 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
84134135 AAGCAAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:84135350 original size:78 final size:78
Alignment explanation
Indices: 84135128--84135751 Score: 623
Period size: 78 Copynumber: 7.9 Consensus size: 78
84135118 ATTGACTCAT
* * *
84135128 ACCACTCATTTAAGATTTTTTTTGAACAATCTCATCATAGATTCTGATCATATCTGTTCTTTTTT
1 ACCACCCATTTAAGATTTTTTTTGAACAATCTCATTATAGATTCTGATCATATCTGTT-TTTTTG
*
84135193 ACACAACGTCTAGA
65 ACACAATGTCTAGA
* * * *
84135207 ATCACCCATTTAAGATATTTTTTTTGAACAATCTCATTATAGGTTTTGATCATATCTGCTATTTT
1 ACCACCCATTTAAG--ATTTTTTTTGAACAATCTCATTATAGATTCTGATCATATCTG-TTTTTT
* *
84135272 TAACACAATGGCTAGA
63 TGACACAATGTCTAGA
* *
84135288 ACCACCCATTTAACATTTTTTTT-AACAATCTCATTATAGATTCTGATCATATATGTATTTTTTG
1 ACCACCCATTTAAGATTTTTTTTGAACAATCTCATTATAGATTCTGATCATATCTGT-TTTTTTG
*
84135352 ACACAATGCCTAGA
65 ACACAATGTCTAGA
* * * * * * *
84135366 A-CA--AATTCAAGAGTTTTTTTTTAACAATATCATTATAGGTTTTGATCATATCTGCTCTTTTT
1 ACCACCCATTTAAGA-TTTTTTTTGAACAATCTCATTATAGATTCTGATCATATCTG-TTTTTTT
*
84135428 GACACAATGACTAGA
64 GACACAATGTCTAGA
* * * *
84135443 ACCATCCATTTAAGATTTTTTTTGAACAATCTTATTATA-AGTTCTGATCATATATGTTCTTTTG
1 ACCACCCATTTAAGATTTTTTTTGAACAATCTCATTATAGA-TTCTGATCATATCTGTTTTTTTG
*
84135507 ACACAATGCCTAGAAGA
65 ACACAATGTCT---AGA
* * *
84135524 ACCACCCATTTAAGATTATTTTTTGAACAATCTAATTATA-AGTTTTAATCATATCTGTTTTTTT
1 ACCACCCATTTAAGATT-TTTTTTGAACAATCTCATTATAGA-TTCTGATCATATCTGTTTTTTT
* * * *
84135588 TACATAATATCTTGA
64 GACACAATGTCTAGA
* * * * * * *
84135603 ACCACGCATTCAAGATTTTTTTTGAACAATCTCTTTATAAATTCTAATCATCTAT-TTTTTTTGA
1 ACCACCCATTTAAGATTTTTTTTGAACAATCTCATTATAGATTCTGATCATATCTGTTTTTTTGA
*
84135667 CATAATGTCTAGA
66 CACAATGTCTAGA
* * * * ** * * *
84135680 ACCACACATTTAAGATGTTTTTTTAAACAATCTCATTGTAAATTCCAATCATATTTGCTTTTTAG
1 ACCACCCATTTAAGAT-TTTTTTTGAACAATCTCATTATAGATTCTGATCATATCTGTTTTTTTG
84135745 ACACAAT
65 ACACAAT
84135752 ACTTAAAACT
Statistics
Matches: 458, Mismatches: 69, Indels: 36
0.81 0.12 0.06
Matches are distributed among these distances:
75 6 0.01
76 8 0.02
77 84 0.18
78 131 0.29
79 85 0.19
80 7 0.02
81 87 0.19
82 50 0.11
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (78 bp):
ACCACCCATTTAAGATTTTTTTTGAACAATCTCATTATAGATTCTGATCATATCTGTTTTTTTGA
CACAATGTCTAGA
Found at i:84135730 original size:156 final size:157
Alignment explanation
Indices: 84135128--84135754 Score: 650
Period size: 155 Copynumber: 4.0 Consensus size: 157
84135118 ATTGACTCAT
* * *
84135128 ACCACTCATTTAAGATTTTTTTTGAACAATCTCATCATAGATTCTGATCATATCTGT-TCTTTTT
1 ACCAC-CATTTAAGATTTTTTTTGAACAATCTCATTATAAATTCTGATCATATATGTAT-TTTTT
* * * * * * * *
84135192 TACACAACGTCTAGAATCACCCATTTAAGATATTTTTTTTGAACAATCTCATTATAGGTTTTGAT
64 GACACAATGCCTAGAACCACACATTTAAGAT-GTTTTTTTGAACAATCTCATTATAAGTTTTAAT
* *
84135257 CATATCTGCTATTTTTAACACAATGGCTAGA
128 CATATCTGCTTTTTTTAACACAAT-ACTAGA
* *
84135288 ACCACCCATTTAACATTTTTTTT-AACAATCTCATTATAGATTCTGATCATATATGTATTTTTTG
1 ACCA-CCATTTAAGATTTTTTTTGAACAATCTCATTATAAATTCTGATCATATATGTATTTTTTG
* * * * *
84135352 ACACAATGCCTAGAA-CA-A-ATTCAAGA-GTTTTTTTTTAACAATATCATTATAGGTTTTGATC
65 ACACAATGCCTAGAACCACACATTTAAGATG-TTTTTTTGAACAATCTCATTATAAGTTTTAATC
* *
84135413 ATATCTGCTCTTTTTGACACAATGACTAGA
129 ATATCTGCTTTTTTTAACACAAT-ACTAGA
* * *
84135443 ACCATCCATTTAAGATTTTTTTTGAACAATCTTATTATAAGTTCTGATCATATATGT-TCTTTTG
1 ACCA-CCATTTAAGATTTTTTTTGAACAATCTCATTATAAATTCTGATCATATATGTATTTTTTG
* *
84135507 ACACAATGCCTAGAAGAACCACCCATTTAAGAT-TATTTTTTGAACAATCTAATTATAAGTTTTA
65 ACACAATGCCT---AGAACCACACATTTAAGATGT-TTTTTTGAACAATCTCATTATAAGTTTTA
* * *
84135571 ATCATATCTG-TTTTTTTTACATAATATCTTGA
126 ATCATATCTGCTTTTTTTAACACAATA-CTAGA
* * * *
84135603 ACCACGCATTCAAGATTTTTTTTGAACAATCTCTTTATAAATTCTAATCATCTAT-T-TTTTTTG
1 ACCAC-CATTTAAGATTTTTTTTGAACAATCTCATTATAAATTCTGATCATATATGTATTTTTTG
* * * * * **
84135666 ACATAATGTCTAGAACCACACATTTAAGATGTTTTTTTAAACAATCTCATTGTAAATTCCAATCA
65 ACACAATGCCTAGAACCACACATTTAAGATGTTTTTTTGAACAATCTCATTATAAGTTTTAATCA
*
84135731 TATTTGC--TTTTTAGACACAATACT
130 TATCTGCTTTTTTTA-ACACAATACT
84135755 TAAAACTACT
Statistics
Matches: 400, Mismatches: 50, Indels: 39
0.82 0.10 0.08
Matches are distributed among these distances:
155 103 0.26
156 94 0.23
157 1 0.00
158 6 0.01
159 69 0.17
160 85 0.21
161 42 0.10
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (157 bp):
ACCACCATTTAAGATTTTTTTTGAACAATCTCATTATAAATTCTGATCATATATGTATTTTTTGA
CACAATGCCTAGAACCACACATTTAAGATGTTTTTTTGAACAATCTCATTATAAGTTTTAATCAT
ATCTGCTTTTTTTAACACAATACTAGA
Found at i:84139815 original size:21 final size:21
Alignment explanation
Indices: 84139791--84139857 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
84139781 TTTTTCCATT
84139791 CCAACGTACCGGATTGTCCAA
1 CCAACGTACCGGATTGTCCAA
* **** * *
84139812 CCAA-TTTTTTGATTTTCCATT
1 CCAACGTACCGGATTGTCCA-A
84139833 CCAACGTACCGGATTGTCCAA
1 CCAACGTACCGGATTGTCCAA
84139854 CCAA
1 CCAA
84139858 TTTTTTGATT
Statistics
Matches: 30, Mismatches: 14, Indels: 4
0.62 0.29 0.08
Matches are distributed among these distances:
20 9 0.30
21 12 0.40
22 9 0.30
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (21 bp):
CCAACGTACCGGATTGTCCAA
Found at i:84139832 original size:42 final size:42
Alignment explanation
Indices: 84139782--84139867 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
84139772 GGTGATTTTT
84139782 TTTTCCATTCCAACGTACCGGATTGTCCAACCAATTTTTTGA
1 TTTTCCATTCCAACGTACCGGATTGTCCAACCAATTTTTTGA
84139824 TTTTCCATTCCAACGTACCGGATTGTCCAACCAATTTTTTGA
1 TTTTCCATTCCAACGTACCGGATTGTCCAACCAATTTTTTGA
84139866 TT
1 TT
84139868 CGAGTTTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.40
Consensus pattern (42 bp):
TTTTCCATTCCAACGTACCGGATTGTCCAACCAATTTTTTGA
Found at i:84139852 original size:22 final size:22
Alignment explanation
Indices: 84139785--84139852 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
84139775 GATTTTTTTT
84139785 TCCATTCCAACGTACCGGATTG
1 TCCATTCCAACGTACCGGATTG
* * **** *
84139807 TCCA-ACCAA-TTTTTTGATTT
1 TCCATTCCAACGTACCGGATTG
84139827 TCCATTCCAACGTACCGGATTG
1 TCCATTCCAACGTACCGGATTG
84139849 TCCA
1 TCCA
84139853 ACCAATTTTT
Statistics
Matches: 30, Mismatches: 14, Indels: 4
0.62 0.29 0.08
Matches are distributed among these distances:
20 9 0.30
21 8 0.27
22 13 0.43
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (22 bp):
TCCATTCCAACGTACCGGATTG
Found at i:84148371 original size:27 final size:29
Alignment explanation
Indices: 84148341--84148397 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
84148331 AAAATTTCTG
*
84148341 AAAATTAAAA-ATTCATTAAAA-TTATAA
1 AAAATAAAAATATTCATTAAAATTTATAA
**
84148368 AAAATAAAAATATTTTTTAAAATTTATAA
1 AAAATAAAAATATTCATTAAAATTTATAA
84148397 A
1 A
84148398 CATGAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.36
28 9 0.36
29 7 0.28
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAATAAAAATATTCATTAAAATTTATAA
Found at i:84148658 original size:21 final size:20
Alignment explanation
Indices: 84148630--84148670 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
84148620 CACCATAATA
*
84148630 TATGTAAATAGGTATTTTTT
1 TATGTAAATAGATATTTTTT
*
84148650 TATGATAAATATATATTTTTT
1 TATG-TAAATAGATATTTTTT
84148671 GTTATGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
TATGTAAATAGATATTTTTT
Found at i:84159773 original size:174 final size:174
Alignment explanation
Indices: 84159483--84159937 Score: 712
Period size: 174 Copynumber: 2.6 Consensus size: 174
84159473 TACTTTTACC
* * * *
84159483 GGATTACACATTAAGTTTTCAAGTTCTATGAGCTCACATACTTGGATTATACTAGTATTAACAAG
1 GGATTACACATTAAGTTTTCAAGTTCTATGAGCTCATAGACATGGAATATACTAGTATTAACAAG
* * * ** *
84159548 CTTACATTCACCATTTTGAAACGATACAATTTCGTTTCCATTGAGAAAACAATGACAACGAGGTT
66 CTTACCTTCACCATTTCGAAACGATACAATTTCATTTCCATCAAGAAAACAATGACAACGAGGTA
*
84159613 ATTGCAACCAAATTTAGTACTGATTTGAGCACTTAATGAATTAA
131 ATTGCAACCAAATTTAGTACTGATTCGAGCACTTAATGAATTAA
* * * * *
84159657 GGATTACACATCAAGTTTTCATGTTCTATGAGCTCATAGACATGGAGTATACTGGTATCAACAAG
1 GGATTACACATTAAGTTTTCAAGTTCTATGAGCTCATAGACATGGAATATACTAGTATTAACAAG
* *
84159722 CTTACCTTCACCATTTCGAAACAAAACAATTTCATTTCCATCAAGAAAACAATGACAACGAGGTA
66 CTTACCTTCACCATTTCGAAACGATACAATTTCATTTCCATCAAGAAAACAATGACAACGAGGTA
84159787 ATTGCAACCAAATTTAGTACTGATTCGAGCACTTAATGAATTAA
131 ATTGCAACCAAATTTAGTACTGATTCGAGCACTTAATGAATTAA
* * *
84159831 GGATCACACATTAAGTTTTCAAGTTCCATGAGCTCCTAGACATGGAATATACTAGTATTAACAAG
1 GGATTACACATTAAGTTTTCAAGTTCTATGAGCTCATAGACATGGAATATACTAGTATTAACAAG
*
84159896 CTTACCTTCACCATTTCGAATCGATACAATTTCATTTCCATC
66 CTTACCTTCACCATTTCGAAACGATACAATTTCATTTCCATC
84159938 TGAAAATAAC
Statistics
Matches: 253, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
174 253 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.31
Consensus pattern (174 bp):
GGATTACACATTAAGTTTTCAAGTTCTATGAGCTCATAGACATGGAATATACTAGTATTAACAAG
CTTACCTTCACCATTTCGAAACGATACAATTTCATTTCCATCAAGAAAACAATGACAACGAGGTA
ATTGCAACCAAATTTAGTACTGATTCGAGCACTTAATGAATTAA
Found at i:84167807 original size:54 final size:55
Alignment explanation
Indices: 84167749--84167894 Score: 158
Period size: 54 Copynumber: 2.7 Consensus size: 55
84167739 TAATGACCCC
* *
84167749 ATCAGAAGT-AGAGGTTGATTCCCTTCTAGAAATTC-GATTTATG-GTAACGATCCT
1 ATCAGAAGTGA-AGGTTGATTCCCTTCTAGAAATTCTGATTT-CGAGCAACGATCCT
* * **
84167803 ATCAGAAGCGAAGGTTGATTCCTTTCTAG-AATTCTGATTTCGAGCAATTATCCT
1 ATCAGAAGTGAAGGTTGATTCCCTTCTAGAAATTCTGATTTCGAGCAACGATCCT
* * *
84167857 ACCGGGAGTGAAGGTTGATTCCCTTCTAGAAATT-TGAT
1 ATCAGAAGTGAAGGTTGATTCCCTTCTAGAAATTCTGAT
84167895 CTCCAGAAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
53 6 0.08
54 66 0.86
55 5 0.06
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (55 bp):
ATCAGAAGTGAAGGTTGATTCCCTTCTAGAAATTCTGATTTCGAGCAACGATCCT
Found at i:84170566 original size:13 final size:13
Alignment explanation
Indices: 84170548--84170573 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84170538 TGTCCATATA
84170548 CAGGCTAAGGAAG
1 CAGGCTAAGGAAG
84170561 CAGGCTAAGGAAG
1 CAGGCTAAGGAAG
84170574 TCTATCAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.38, T:0.08
Consensus pattern (13 bp):
CAGGCTAAGGAAG
Found at i:84171965 original size:41 final size:42
Alignment explanation
Indices: 84171918--84172022 Score: 176
Period size: 41 Copynumber: 2.5 Consensus size: 42
84171908 AATTCGTAAT
*
84171918 AAAATGCAAAATAAGCTACGAACTAACTTCA-AAATTAAATA
1 AAAATGCAAAATAAGCTAAGAACTAACTTCAGAAATTAAATA
*
84171959 AAAATGCAAAATAAGCTAAGAACTAACTTCAGAAATTGAATA
1 AAAATGCAAAATAAGCTAAGAACTAACTTCAGAAATTAAATA
84172001 AAAATGCAAAAATAAGCTAAGA
1 AAAATGC-AAAATAAGCTAAGA
84172023 GAAAACAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
41 30 0.50
42 16 0.27
43 14 0.23
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.20
Consensus pattern (42 bp):
AAAATGCAAAATAAGCTAAGAACTAACTTCAGAAATTAAATA
Found at i:84173687 original size:15 final size:16
Alignment explanation
Indices: 84173662--84173694 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
84173652 ATAAAATGCA
84173662 TTTATATTATTTTAAT
1 TTTATATTATTTTAAT
*
84173678 TTTATA-TATTTTTAT
1 TTTATATTATTTTAAT
84173693 TT
1 TT
84173695 AATAAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATATTATTTTAAT
Found at i:84175312 original size:17 final size:17
Alignment explanation
Indices: 84175290--84175323 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
84175280 ATTGCATGAT
84175290 CATCAAACATACAAAGG
1 CATCAAACATACAAAGG
84175307 CATCAAACATACAAAGG
1 CATCAAACATACAAAGG
84175324 GGCACTTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.24, G:0.12, T:0.12
Consensus pattern (17 bp):
CATCAAACATACAAAGG
Found at i:84178607 original size:122 final size:122
Alignment explanation
Indices: 84178462--84178686 Score: 423
Period size: 122 Copynumber: 1.8 Consensus size: 122
84178452 AAAGAAAGAA
*
84178462 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTATATAAAGGCATAGCTAA
1 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTACATAAAGGCATAGCTAA
*
84178527 CTTCTAATCTATATGTATGAACTAAAACAACTTCAAATAACAACTTCTAATCTATAT
66 CTTCTAATCTATATATATGAACTAAAACAACTTCAAATAACAACTTCTAATCTATAT
*
84178584 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTACATAAGGGCATAGCTAA
1 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTACATAAAGGCATAGCTAA
84178649 CTTCTAATCTATATATATGAACTAAAACAACTTCAAAT
66 CTTCTAATCTATATATATGAACTAAAACAACTTCAAAT
84178687 TCTTAAAACA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
122 100 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.34
Consensus pattern (122 bp):
AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTACATAAAGGCATAGCTAA
CTTCTAATCTATATATATGAACTAAAACAACTTCAAATAACAACTTCTAATCTATAT
Found at i:84178831 original size:307 final size:307
Alignment explanation
Indices: 84178277--84178871 Score: 1061
Period size: 307 Copynumber: 1.9 Consensus size: 307
84178267 ACAGAAAGAA
* *
84178277 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAGAATTTCTTTATATATGGGCATAGCT
1 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAGAATTTCTTTACATAAGGGCATAGCT
* *
84178342 AACTTCTAATTTATATATGAACTAAAACAATTTCAAATTCTTAAAACAAGAGTAAAACAATTGAT
66 AACTTCTAATTTATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAAACAATTGAC
84178407 CAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAAAGATACCATT
131 CAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAAAGATACCATT
*
84178472 TGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTATATAAAGGCATAGCTAACTTCTAATCT
196 TGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTACATAAAGGCATAGCTAACTTCTAATCT
*
84178537 ATATGTATGAACTAAAACAACTTCAAATAACAACTTCTAATCTATAT
261 ATATATATGAACTAAAACAACTTCAAATAACAACTTCTAATCTATAT
84178584 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAA-AATTTC-TTACATAAGGGCATAGCT
1 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAGAATTTCTTTACATAAGGGCATAGCT
84178647 AACTTCTAATCTATATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAATA-AATT
66 AACTTCTAAT-T-TATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAA-ACAATT
*
84178711 GACCAAATTATCCATAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAAAGATACC
128 GACCAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAAAGATACC
* *
84178776 ATTTGTTCTTGGATTTCAGCTAATAGAACAAAAATTTCTTACATAAGGGCATAGCTAACTTCTAA
193 ATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTACATAAAGGCATAGCTAACTTCTAA
84178841 TCTATATATATGAACTAAAACAACTTCAAAT
258 TCTATATATATGAACTAAAACAACTTCAAAT
84178872 TCTTAAAACA
Statistics
Matches: 276, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
305 26 0.09
306 7 0.03
307 242 0.88
308 1 0.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (307 bp):
AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAGAATTTCTTTACATAAGGGCATAGCT
AACTTCTAATTTATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAAACAATTGAC
CAAATTATCCACAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAAAGATACCATT
TGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTACATAAAGGCATAGCTAACTTCTAATCT
ATATATATGAACTAAAACAACTTCAAATAACAACTTCTAATCTATAT
Found at i:84178905 original size:185 final size:184
Alignment explanation
Indices: 84178584--84179352 Score: 1289
Period size: 185 Copynumber: 4.2 Consensus size: 184
84178574 TAATCTATAT
84178584 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTACATAAGGGCATAGCTAA
1 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTACATAAGGGCATAGCTAA
*
84178649 CTTCTAATCTATATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAATAAATTGAC
66 CTTCTAATCTATATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAA-AAATTGAT
84178714 CAAATTATCCATAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAA
130 CAAATTATCCATAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAA
*
84178769 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAACAAAAATTTCTTACATAAGGGCATAGCTAA
1 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTACATAAGGGCATAGCTAA
84178834 CTTCTAATCTATATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAAAAGATTGAT
66 CTTCTAATCTATATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAAAA-ATTGAT
* *
84178899 CAAATTATCCACAGTTATCAAATCAAAATTAATAAACAAAAACAGAAAG--A-AA
130 CAAATTATCCATAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAA
* * *
84178951 ATATATCATTTGTTCTTGAATTTCAGCTAATAGAAAAAAAAATTTCTTGACATAAGGGCATAGCT
1 AGATACCATTTGTTCTTGGATTTCAGCTAATAG-AAAAAAAATTTCTT-ACATAAGGGCATAGCT
*
84179016 AACTTCTAAT-TTTATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAAAAAATTT
64 AACTTCTAATCTATATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGT-AAAAAA-TT
*
84179080 GATCAAATTGTCCATAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAA
127 GATCAAATTATCCATAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAA
* *
84179138 AGAAACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAATTT-AT-CATATAGGGCATAGCTA
1 AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTACATA-AGGGCATAGCTA
*
84179201 ACTTCTAATATATATATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAAAATATT
65 ACTTCT-A-ATCTATATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAAAA-ATT
84179266 GATCAAATTATCCATAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAA
127 GATCAAATTATCCATAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAA
*
84179324 AGATACCATTTGTTCTTGAATTTCAGCTA
1 AGATACCATTTGTTCTTGGATTTCAGCTA
84179353 GTTGAGGAAT
Statistics
Matches: 550, Mismatches: 21, Indels: 25
0.92 0.04 0.04
Matches are distributed among these distances:
182 32 0.06
183 62 0.11
184 102 0.19
185 174 0.32
186 105 0.19
187 75 0.14
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (184 bp):
AGATACCATTTGTTCTTGGATTTCAGCTAATAGAAAAAAAATTTCTTACATAAGGGCATAGCTAA
CTTCTAATCTATATATATGAACTAAAACAACTTCAAATTCTTAAAACAAGAGTAAAAAATTGATC
AAATTATCCATAATTATCAAATCAAAATTAATAAACAAAAACAGAAAGAAAGAA
Found at i:84179482 original size:21 final size:20
Alignment explanation
Indices: 84179449--84179487 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
84179439 TCCCTGCCAA
*
84179449 AAAAAAGACCCAATTTTTTT
1 AAAAAAGACCCAAGTTTTTT
*
84179469 AAAAAAGATTCCAAGTTTT
1 AAAAAAGA-CCCAAGTTTT
84179488 AATCTCCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (20 bp):
AAAAAAGACCCAAGTTTTTT
Found at i:84183883 original size:14 final size:15
Alignment explanation
Indices: 84183857--84183888 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
84183847 CAGGGAATTG
84183857 ATTTAGGGTTTTTGA
1 ATTTAGGGTTTTTGA
84183872 ATTTAGGGTTTTT-A
1 ATTTAGGGTTTTTGA
84183886 ATT
1 ATT
84183889 ATAGAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (15 bp):
ATTTAGGGTTTTTGA
Found at i:84185623 original size:18 final size:20
Alignment explanation
Indices: 84185602--84185642 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
84185592 CTTTTTATAA
84185602 TTTATTTTT-GAAT-ATTTT
1 TTTATTTTTAGAATCATTTT
*
84185620 TTTATTTTTATAATCATTTT
1 TTTATTTTTAGAATCATTTT
84185640 TTT
1 TTT
84185643 GACGTAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 3 0.15
20 8 0.40
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTATTTTTAGAATCATTTT
Found at i:84188608 original size:29 final size:29
Alignment explanation
Indices: 84188566--84188623 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
84188556 TGACAGAGAT
* *
84188566 TGGATCAAATTAGTACCTCTATTATTAAA
1 TGGATCAAATTAGTACCTATACTATTAAA
* *
84188595 TGGATCAATTTAGTCCCTATACTATTAAA
1 TGGATCAAATTAGTACCTATACTATTAAA
84188624 AAGAATCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (29 bp):
TGGATCAAATTAGTACCTATACTATTAAA
Found at i:84194159 original size:84 final size:82
Alignment explanation
Indices: 84194019--84194346 Score: 316
Period size: 84 Copynumber: 3.8 Consensus size: 82
84194009 CAGTTTCACG
* * * *
84194019 CTAGAATCTAGATTGAAATTT-AAAAATCCATCGCAAAATTAACACTTCCCAGATGCCCAAATAA
1 CTAGAATCTACA-TCAAATTTCAAAAATCCAT-GCAAAATTAACACTACCCAGATGCCCAAATCA
* *
84194083 ATAATCCGTTTGAATCATA
64 ATAGTCCATTTGAATCATA
* **
84194102 CTAGAATCTACATCAAAATTCCAAAAATCCATAAAAAATTTAACACTACCCAGATGCCCAAATCA
1 CTAGAATCTACATC-AAATTTCAAAAATCCATGCAAAA-TTAACACTACCCAGATGCCCAAATCA
84194167 ATAGTCCATTTGAATAAAAAAAACAGTCA
64 ATAGTCCATTTGAAT--------CA-T-A
* * *
84194196 TGTTAGAATCTACATTCAAATTTCAAAAATCGATCGCAAAATTAACACTTCCCAGATGCCCAAAA
1 --CTAGAATCTACAT-CAAATTTCAAAAATCCAT-GCAAAATTAACACTACCCAGATGCCC-AAA
*
84194261 TCACTAGTCCATTTGAATCATA
61 TCAATAGTCCATTTGAATCATA
* ** *
84194283 CTAGAATCTACATCCAAATTTCAATAATCCCCGCAAAATTAACATTACCCAGATGCCCAAATCA
1 CTAGAATCTACAT-CAAATTTCAAAAATCCATGCAAAATTAACACTACCCAGATGCCCAAATCA
84194347 CTAAATTTGC
Statistics
Matches: 203, Mismatches: 24, Indels: 36
0.77 0.09 0.14
Matches are distributed among these distances:
82 1 0.00
83 26 0.13
84 71 0.35
85 26 0.13
87 1 0.00
88 1 0.00
89 2 0.01
92 2 0.01
93 1 0.00
94 1 0.00
96 46 0.23
97 25 0.12
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (82 bp):
CTAGAATCTACATCAAATTTCAAAAATCCATGCAAAATTAACACTACCCAGATGCCCAAATCAAT
AGTCCATTTGAATCATA
Found at i:84194217 original size:96 final size:97
Alignment explanation
Indices: 84194103--84194278 Score: 259
Period size: 96 Copynumber: 1.8 Consensus size: 97
84194093 TGAATCATAC
84194103 TAGAATCTACATCAAAATTCCAAAAATCCAT-AAAAAATTTAACACTACCCAGATGCCC-AAATC
1 TAGAATCTACATCAAAATTCCAAAAATCCATCAAAAAA-TTAACACTACCCAGATGCCCAAAATC
84194166 AATAGTCCATTTGAATAAAAAAAACAGTCATGT
65 AATAGTCCATTTGAATAAAAAAAACAGTCATGT
* * ** *
84194199 TAGAATCTACATTC-AAATTTCAAAAATCGATCGCAAAATTAACACTTCCCAGATGCCCAAAATC
1 TAGAATCTACA-TCAAAATTCCAAAAATCCATCAAAAAATTAACACTACCCAGATGCCCAAAATC
*
84194263 ACTAGTCCATTTGAAT
65 AATAGTCCATTTGAAT
84194279 CATACTAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
96 45 0.63
97 26 0.37
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (97 bp):
TAGAATCTACATCAAAATTCCAAAAATCCATCAAAAAATTAACACTACCCAGATGCCCAAAATCA
ATAGTCCATTTGAATAAAAAAAACAGTCATGT
Found at i:84194334 original size:180 final size:179
Alignment explanation
Indices: 84194020--84194346 Score: 494
Period size: 180 Copynumber: 1.8 Consensus size: 179
84194010 AGTTTCACGC
* *
84194020 TAGAATCTAGATTGAAATTTAAAAATCCATCGCAAAATTAACACTTCCCAGATGCCCAAATAAAT
1 TAGAATCTACATTCAAATTTAAAAATCCATCGCAAAATTAACACTTCCCAGATGCCCAAATAAAT
* *
84194085 AATCCGTTTGAATCATACTAGAATCTACATCAAAATTCCAAAAATCCATAAAAAATTTAACACTA
66 AATCCATTTGAATCATACTAGAATCTACATCAAAATTCCAAAAATCCACAAAAAATTTAACACTA
84194150 CCCAGATGCCCAAATCAATAGTCCATTTGAATAAAAAAAACAGTCATGT
131 CCCAGATGCCCAAATCAATAGTCCATTTGAATAAAAAAAACAGTCATGT
* *
84194199 TAGAATCTACATTCAAATTTCAAAAATCGATCGCAAAATTAACACTTCCCAGATGCCCAAAATCA
1 TAGAATCTACATTCAAATTT-AAAAATCCATCGCAAAATTAACACTTCCCAGATGCCC-AAATAA
* * * * * * ** *
84194264 CTAGTCCATTTGAATCATACTAGAATCTACATCCAAATTTCAATAATCCCCGCAAAA-TTAACAT
64 ATAATCCATTTGAATCATACTAGAATCTACATCAAAATTCCAAAAATCCACAAAAAATTTAACAC
84194328 TACCCAGATGCCCAAATCA
129 TACCCAGATGCCCAAATCA
84194347 CTAAATTTGC
Statistics
Matches: 131, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
179 18 0.14
180 61 0.47
181 52 0.40
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (179 bp):
TAGAATCTACATTCAAATTTAAAAATCCATCGCAAAATTAACACTTCCCAGATGCCCAAATAAAT
AATCCATTTGAATCATACTAGAATCTACATCAAAATTCCAAAAATCCACAAAAAATTTAACACTA
CCCAGATGCCCAAATCAATAGTCCATTTGAATAAAAAAAACAGTCATGT
Found at i:84196594 original size:9 final size:9
Alignment explanation
Indices: 84196580--84196628 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
84196570 TTTGGTTAAA
84196580 AATTAACCG
1 AATTAACCG
*
84196589 AATTAATCG
1 AATTAACCG
*
84196598 GATT-ACACG
1 AATTAAC-CG
*
84196607 AATTACCCG
1 AATTAACCG
84196616 AATTAACCG
1 AATTAACCG
84196625 AATT
1 AATT
84196629 GAATCACTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
8 1 0.03
9 30 0.94
10 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:84198661 original size:86 final size:89
Alignment explanation
Indices: 84198551--84198899 Score: 309
Period size: 94 Copynumber: 3.9 Consensus size: 89
84198541 TTTTCTTTTA
* * *
84198551 GTAATATTTTTGTCTAAGACGGGAAAATTAGGGGGAAAAATCGAAAACCAACAGATTTCTGGATC
1 GTAATATTTTTCTCTAAGACGGGAAAATTAGGGGGAAAAATCGAAAACCAACAAAATTCTGGATC
*
84198616 TA-T-TTTTTTTTTATGTTTTTC-T
66 TAGTATTTTTTTCT-TGTTTTTCTT
* *
84198638 -TAATATTTTTCTCTAAGACGGGAAAATTAGGGGGGAAAATCGAAAATCAACAAAATTCTGGATC
1 GTAATATTTTTCTCTAAGACGGGAAAATTAGGGGGAAAAATCGAAAACCAACAAAATTCTGGATC
84198702 TAGGGTATTTTTTTCTTGTTTTTCTTTT
66 TA--GTATTTTTTTCTTGTTTTTC--TT
* ** * ** * * *
84198730 GGTAATATTTTTTCTCTGAGACGGGAAAATTA-GGGGAAATTTTGAAAATTAACAAATTTATGGC
1 -GTAATA-TTTTTCTCTAAGACGGGAAAATTAGGGGGAAAAATCGAAAACCAACAAAATTCTGGA
* * *
84198794 TTTCG-ATTCTTTTCCCTGTTGTTTTTCTTGT
64 TCTAGTATT-TTTT---TCTTGTTTTTC-T-T
* * ** *
84198825 AGTAATATTTTTCTCTGAGACGGGAAAATTAGGGGG-AAAATTGAAAATTAACAAATTTCTGGAT
1 -GTAATATTTTTCTCTAAGACGGGAAAATTAGGGGGAAAAATCGAAAACCAACAAAATTCTGGAT
84198889 CTAG-ATTTTTT
65 CTAGTATTTTTT
84198900 CCCCGCTGTT
Statistics
Matches: 221, Mismatches: 25, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
86 61 0.28
89 9 0.04
90 8 0.04
91 3 0.01
92 6 0.03
93 4 0.02
94 86 0.39
95 44 0.20
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.40
Consensus pattern (89 bp):
GTAATATTTTTCTCTAAGACGGGAAAATTAGGGGGAAAAATCGAAAACCAACAAAATTCTGGATC
TAGTATTTTTTTCTTGTTTTTCTT
Found at i:84198855 original size:94 final size:94
Alignment explanation
Indices: 84198638--84198915 Score: 325
Period size: 94 Copynumber: 3.0 Consensus size: 94
84198628 ATGTTTTTCT
* * * * *
84198638 TAATA-TTTTTCTCTAAGACGGGAAAATTAGGGGGGAAAATCGAAAATCAACAAAATTCTGGATC
1 TAATATTTTTTCTCTGAGACGGGAAAATTA-GGGGGAAAATTGAAAATTAACAAATTTATGGATC
* * *
84198702 TAGGGTATTTTTT--TC-TTGTTTTTCTTTTGG
65 TA--G-ATTTTTTCCCCGTTGTTTTTCTTGTAG
* * *
84198732 TAATATTTTTTCTCTGAGACGGGAAAATTA-GGGGAAATTTTGAAAATTAACAAATTTATGGCTT
1 TAATATTTTTTCTCTGAGACGGGAAAATTAGGGGGAAA-ATTGAAAATTAACAAATTTATGGATC
* *
84198796 TCGATTCTTTTCCCTGTTGTTTTTCTTGTAG
65 TAGATT-TTTTCCCCGTTGTTTTTCTTGTAG
*
84198827 TAATA-TTTTTCTCTGAGACGGGAAAATTAGGGGGAAAATTGAAAATTAACAAATTTCTGGATCT
1 TAATATTTTTTCTCTGAGACGGGAAAATTAGGGGGAAAATTGAAAATTAACAAATTTATGGATCT
*
84198891 AGATTTTTTCCCCGCTGTTTTTCTT
66 AGATTTTTTCCCCGTTGTTTTTCTT
84198916 TCTTTGAGAC
Statistics
Matches: 157, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
91 3 0.02
92 5 0.03
93 25 0.16
94 76 0.48
95 48 0.31
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (94 bp):
TAATATTTTTTCTCTGAGACGGGAAAATTAGGGGGAAAATTGAAAATTAACAAATTTATGGATCT
AGATTTTTTCCCCGTTGTTTTTCTTGTAG
Found at i:84206939 original size:12 final size:12
Alignment explanation
Indices: 84206922--84206946 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84206912 AATTCTCATA
84206922 AATTATTAATAT
1 AATTATTAATAT
84206934 AATTATTAATAT
1 AATTATTAATAT
84206946 A
1 A
84206947 GCATCATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTATTAATAT
Found at i:84220816 original size:10 final size:10
Alignment explanation
Indices: 84220783--84220862 Score: 82
Period size: 11 Copynumber: 8.2 Consensus size: 10
84220773 TAAAAAAAGT
84220783 ATTTTAAAAA
1 ATTTTAAAAA
84220793 TATTTT--AAA
1 -ATTTTAAAAA
84220802 A-TTTAAAAA
1 ATTTTAAAAA
84220811 ATTTTAAAAAA
1 ATTTT-AAAAA
84220822 TATTTTAAAAA
1 -ATTTTAAAAA
84220833 TATTTT--AAA
1 -ATTTTAAAAA
84220842 A-TTTAAAAA
1 ATTTTAAAAA
84220851 ATTTTAAAAA
1 ATTTTAAAAA
84220861 AT
1 AT
84220863 AAATATATTT
Statistics
Matches: 61, Mismatches: 0, Indels: 17
0.78 0.00 0.22
Matches are distributed among these distances:
7 6 0.10
8 2 0.03
9 14 0.23
10 13 0.21
11 21 0.34
12 5 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:84220820 original size:40 final size:40
Alignment explanation
Indices: 84220762--84220863 Score: 170
Period size: 40 Copynumber: 2.5 Consensus size: 40
84220752 CTAAAATTTT
* *
84220762 ATTTTAAAAA-TTAAAAAAAGTATTTTAAAAATATTTTAAA
1 ATTTAAAAAATTTTAAAAAA-TATTTTAAAAATATTTTAAA
84220802 ATTTAAAAAATTTTAAAAAATATTTTAAAAATATTTTAAA
1 ATTTAAAAAATTTTAAAAAATATTTTAAAAATATTTTAAA
84220842 ATTTAAAAAATTTTAAAAAATA
1 ATTTAAAAAATTTTAAAAAATA
84220864 AATATATTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 51 0.86
41 8 0.14
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (40 bp):
ATTTAAAAAATTTTAAAAAATATTTTAAAAATATTTTAAA
Found at i:84220872 original size:18 final size:17
Alignment explanation
Indices: 84220829--84220872 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
84220819 AAATATTTTA
**
84220829 AAAATATTTTAAAATTT
1 AAAATATTTTAAAAAAT
*
84220846 AAAAAATTTTAAAAAAT
1 AAAATATTTTAAAAAAT
84220863 AAATATATTT
1 AAA-ATATTT
84220873 ATTATATCGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATATTTTAAAAAAT
Found at i:84220977 original size:45 final size:45
Alignment explanation
Indices: 84220926--84221016 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
84220916 CGAGGCCCGA
* * *
84220926 CCCGTTTTTTAATCAGCCCTCGTTTTTTTGCCCAAGCCCATATTT
1 CCCGTTTTCTAAACAGCCCTCATTTTTTTGCCCAAGCCCATATTT
* * *
84220971 CCCGTTTTCTAAACGGGCCTCATTTTTTTGCCCAAGCTCATATTT
1 CCCGTTTTCTAAACAGCCCTCATTTTTTTGCCCAAGCCCATATTT
84221016 C
1 C
84221017 GGGCGGGCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.16, C:0.31, G:0.12, T:0.41
Consensus pattern (45 bp):
CCCGTTTTCTAAACAGCCCTCATTTTTTTGCCCAAGCCCATATTT
Found at i:84223287 original size:313 final size:312
Alignment explanation
Indices: 84222694--84223307 Score: 934
Period size: 313 Copynumber: 2.0 Consensus size: 312
84222684 CAGTTTATAC
*
84222694 GATACGTTATTGTTGCATTCTTCATTATTTGTGTTGATCGTCATTTCCATGCTTACTTGAGTTCA
1 GATACGTTATTGTTGCATTCTTCATTATTTGTGTTGATCGTCATTTCCATACTTACTTGAGTTCA
* * **
84222759 AAATTAGTTGTTAATCTCTATATATTGTTAAAAATTAAATATGTTCTGCAAGTTCAGTGAAATTA
66 AAATTAGTTGTTAACCTCTATATATTCTTAAAAATTAAATATACTCTGCAAGTTCAGTGAAATTA
84222824 TGAATTTGAAGTCATAAAGTTTGTCTATGTTGTTTGCGATGGATAATTTAGTAGATGTAAGTTGT
131 TGAATTTGAAGTCATAAAGTTTGTCTATGTTGTTTGCGATGGATAATTTAGTAGATGTAAGTTGT
* * *
84222889 TTATTAATTGTTTTTCACTTAATTAGGAATATGAAATTTTTTATTATTTTTGCTTTTTCTTTTTG
196 TTAGT-ATTGTTTTTCACTTAATTAAGAATATGAAATTTTTTATTATTTTTGCTTTTTCTTTTCG
*
84222954 ATTAAAATGAGATCATTATCCATGTTTGGAAATCTTATTTTTTTATTTTAGAT
260 ATTAAAATAAGATCATTATCCATGTTTGGAAATCTTATTTTTTTATTTTAGAT
* * * * * *
84223007 GATACGTTATTGTTGCATTCTTCA-TATTTTTTTTTATGGTCATTTCCTTACTTACTTGAGTTGA
1 GATACGTTATTGTTGCATTCTTCATTATTTGTGTTGATCGTCATTTCCATACTTACTTGAGTTCA
* *
84223071 AAATTAGTTGTTAACCTCTATGTATTCTTAAAAATTAAATATACTCTGCAAGTTTGAGTGAAATT
66 AAATTAGTTGTTAACCTCTATATATTCTTAAAAATTAAATATACTCTGCAAG-TTCAGTGAAATT
84223136 ATGAAATTTGAAGTCATAAAGTTTGTCTATGTTGTTTGCGATGGATAATTTAGTAGATGTAAGTT
130 ATG-AATTTGAAGTCATAAAGTTTGTCTATGTTGTTTGCGATGGATAATTTAGTAGATGTAAGTT
* *
84223201 G-TT-GT-TT-TTTTTCACTTACTTAAGAATA-GGAATTTTATTATTTTTATTTTTTGCTTTTTC
194 GTTTAGTATTGTTTTTCACTTAATTAAGAATATGAAATTTT-TTA---TTA-TTTTTGCTTTTTC
*
84223261 TTTTCGATTAAAATAAGATGATTATCCATGTTTGGAAATCTTATTTT
254 TTTTCGATTAAAATAAGATCATTATCCATGTTTGGAAATCTTATTTT
84223308 CAGTTTTAAG
Statistics
Matches: 274, Mismatches: 20, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
308 7 0.03
309 22 0.08
310 2 0.01
312 84 0.31
313 97 0.35
314 62 0.23
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.49
Consensus pattern (312 bp):
GATACGTTATTGTTGCATTCTTCATTATTTGTGTTGATCGTCATTTCCATACTTACTTGAGTTCA
AAATTAGTTGTTAACCTCTATATATTCTTAAAAATTAAATATACTCTGCAAGTTCAGTGAAATTA
TGAATTTGAAGTCATAAAGTTTGTCTATGTTGTTTGCGATGGATAATTTAGTAGATGTAAGTTGT
TTAGTATTGTTTTTCACTTAATTAAGAATATGAAATTTTTTATTATTTTTGCTTTTTCTTTTCGA
TTAAAATAAGATCATTATCCATGTTTGGAAATCTTATTTTTTTATTTTAGAT
Found at i:84231931 original size:17 final size:17
Alignment explanation
Indices: 84231911--84231973 Score: 74
Period size: 18 Copynumber: 3.7 Consensus size: 17
84231901 AAAAAGTATT
*
84231911 TTAAAAATATTTTTAAA
1 TTAAAAATATTTTAAAA
84231928 TTAAAAAATATTTTAAAA
1 TT-AAAAATATTTTAAAA
*
84231946 TTAAAAA-AATTTAAAA
1 TTAAAAATATTTTAAAA
* *
84231962 ATAAATATATTT
1 TTAAAAATATTT
84231974 ATTATATTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
16 13 0.33
17 10 0.26
18 16 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:84231936 original size:18 final size:18
Alignment explanation
Indices: 84231913--84231963 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
84231903 AAAGTATTTT
*
84231913 AAAAATATTTTTAAATTA
1 AAAAATATTTTAAAATTA
84231931 AAAAATATTTTAAAATTA
1 AAAAATATTTTAAAATTA
*
84231949 AAAAA-ATTTAAAAAT
1 AAAAATATTTTAAAAT
84231964 AAATATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 9 0.29
18 22 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATATTTTAAAATTA
Found at i:84233181 original size:16 final size:17
Alignment explanation
Indices: 84233162--84233195 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
84233152 TTTTAAGAAG
*
84233162 CATTTTTG-GGACAAAA
1 CATTTTTGAGGAAAAAA
84233178 CATTTTTGAGGAAAAAA
1 CATTTTTGAGGAAAAAA
84233195 C
1 C
84233196 TAAAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (17 bp):
CATTTTTGAGGAAAAAA
Found at i:84234892 original size:15 final size:13
Alignment explanation
Indices: 84234861--84234896 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
84234851 TTACATTTTC
84234861 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
*
84234874 TTTTTATTTTTCCA
1 TTTTT-TTTTTCAA
84234888 TTTTTTTTT
1 TTTTTTTTT
84234897 ACTATACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTTTTTCAA
Found at i:84237639 original size:12 final size:12
Alignment explanation
Indices: 84237610--84237654 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
84237600 GTTAAATAAA
84237610 ATTTATA-T-AT
1 ATTTATATTAAT
*
84237620 ATTAATATTAAT
1 ATTTATATTAAT
*
84237632 ATTTATATTTAT
1 ATTTATATTAAT
84237644 ATTTATATTAA
1 ATTTATATTAA
84237655 ATTATTAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 6 0.21
11 1 0.03
12 22 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTATATTAAT
Found at i:84237640 original size:18 final size:18
Alignment explanation
Indices: 84237617--84237652 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
84237607 AAAATTTATA
84237617 TATATTAATATTAATATT
1 TATATTAATATTAATATT
* *
84237635 TATATTTATATTTATATT
1 TATATTAATATTAATATT
84237653 AAATTATTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATTAATATTAATATT
Found at i:84237659 original size:22 final size:22
Alignment explanation
Indices: 84237608--84237659 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
84237598 ATGTTAAATA
84237608 AAATT-TATATATATTAATATT
1 AAATTATATATATATTAATATT
* *
84237629 AATATTTATATTTATATTTATATT
1 AA-A-TTATATATATATTAATATT
84237653 AAATTAT
1 AAATTAT
84237660 TAGTGTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.08
22 5 0.19
23 3 0.12
24 16 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATTATATATATATTAATATT
Found at i:84239140 original size:60 final size:60
Alignment explanation
Indices: 84239037--84239153 Score: 189
Period size: 60 Copynumber: 1.9 Consensus size: 60
84239027 TACTAGAGTT
* * *
84239037 TACACTAATAATTAAGTCTAGGATCATCTAGAAGCAATTAATCATTGTTATCCAAGGCCG
1 TACACTAATAATTAAGTCTAGGATCATATAGAAACAATCAATCATTGTTATCCAAGGCCG
* *
84239097 TACACTAATAATTAAGTCTAGGATCATATGGAAACAATCAATCATTGTTATGCAAGG
1 TACACTAATAATTAAGTCTAGGATCATATAGAAACAATCAATCATTGTTATCCAAGG
84239154 GCATAGTTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (60 bp):
TACACTAATAATTAAGTCTAGGATCATATAGAAACAATCAATCATTGTTATCCAAGGCCG
Found at i:84241309 original size:22 final size:21
Alignment explanation
Indices: 84241279--84241320 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
84241269 GTAACTTTTA
*
84241279 AAATAAAAACTAAAAACAAAGT
1 AAATAAAAA-TAAAAAAAAAGT
*
84241301 AAATTAAAATAAAAAAAAAG
1 AAATAAAAATAAAAAAAAAG
84241321 AGGGAGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (21 bp):
AAATAAAAATAAAAAAAAAGT
Found at i:84243132 original size:60 final size:60
Alignment explanation
Indices: 84243033--84243145 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 60
84243023 AGAGTTTACA
* * *
84243033 CTAATAATTAAGTCTAGAATCATCTAGAAGCAATTAATCATTGTTATCCAAGGTCGTACG
1 CTAATAATTAAGTCTAGAATCATATAGAAACAATCAATCATTGTTATCCAAGGTCGTACG
* * *
84243093 CTAATAATTAAGTCTAGGATCATATGGAAACAATCAATCATTGTTATGCAAGG
1 CTAATAATTAAGTCTAGAATCATATAGAAACAATCAATCATTGTTATCCAAGG
84243146 GCATAGTTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (60 bp):
CTAATAATTAAGTCTAGAATCATATAGAAACAATCAATCATTGTTATCCAAGGTCGTACG
Found at i:84244590 original size:6 final size:6
Alignment explanation
Indices: 84244579--84244608 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
84244569 TTTGAAATTT
84244579 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
84244609 TGTTTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:84254342 original size:14 final size:15
Alignment explanation
Indices: 84254323--84254356 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
84254313 CAATTGCCTG
84254323 CAAAAAAACAAAAA-
1 CAAAAAAACAAAAAT
84254337 CAAAAAAACAAAAAT
1 CAAAAAAACAAAAAT
84254352 CAAAA
1 CAAAA
84254357 CAAAATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (15 bp):
CAAAAAAACAAAAAT
Found at i:84254350 original size:21 final size:21
Alignment explanation
Indices: 84254325--84254367 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
84254315 ATTGCCTGCA
84254325 AAAAAACAAAAACAAAA-AAAC
1 AAAAAAC-AAAACAAAATAAAC
*
84254346 AAAAATCAAAACAAAATAAAC
1 AAAAAACAAAACAAAATAAAC
84254367 A
1 A
84254368 TATAAAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.81, C:0.14, G:0.00, T:0.05
Consensus pattern (21 bp):
AAAAAACAAAACAAAATAAAC
Found at i:84261347 original size:9 final size:9
Alignment explanation
Indices: 84261330--84261372 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
84261320 GCCATGTCAA
*
84261330 TAAATAATT
1 TAAAAAATT
84261339 TAAAAAATT
1 TAAAAAATT
84261348 ATAAAAAATT
1 -TAAAAAATT
*
84261358 T-AAAAATA
1 TAAAAAATT
84261366 TAAAAAA
1 TAAAAAA
84261373 GTTCATCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 7 0.23
9 14 0.47
10 9 0.30
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
TAAAAAATT
Found at i:84261357 original size:19 final size:17
Alignment explanation
Indices: 84261329--84261372 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
84261319 CGCCATGTCA
*
84261329 ATAAATAATTTAAAAAATT
1 ATAAAAAATTT-AAAAA-T
84261348 ATAAAAAATTTAAAAAT
1 ATAAAAAATTTAAAAAT
84261365 ATAAAAAA
1 ATAAAAAA
84261373 GTTCATCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.38
18 5 0.21
19 10 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAAAAATTTAAAAAT
Found at i:84265452 original size:40 final size:39
Alignment explanation
Indices: 84265319--84265453 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 39
84265309 GACTTCGAGT
*
84265319 CGATGAGACACTGGGTGTCAATCTATTACTTCAGATTAATT
1 CGATGAGACACTGGGTGTCAAT-TATTACTTCAGATT-ATC
* * * * * *
84265360 CAATGAGGCATTGTGTGTCAA-T-TTACTTCAGTTTAGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCAGATTATC
* *
84265397 CGATGAGATATTGGGTGTCAAATTATTACTTC-GAATTATC
1 CGATGAGACACTGGGTGTC-AATTATTACTTCAG-ATTATC
*
84265437 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
84265454 CCAAACTGGT
Statistics
Matches: 74, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
37 16 0.22
38 13 0.18
39 3 0.04
40 25 0.34
41 17 0.23
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCAGATTATC
Found at i:84269642 original size:28 final size:27
Alignment explanation
Indices: 84269584--84269642 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
84269574 GATTTCGCGG
84269584 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGGTAAAT-ATTAA
* *
84269612 AAAAGTGGCCTATTTCGGTAAAT-TTAA
1 AAAA-TGGCCCATTCCGGTAAATATTAA
84269639 AAAA
1 AAAA
84269643 AAGGGCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.29
28 4 0.14
29 16 0.57
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATGGCCCATTCCGGTAAATATTAA
Found at i:84271320 original size:11 final size:11
Alignment explanation
Indices: 84271304--84271353 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
84271294 TATTTTTTTA
84271304 TTTTAAAATAT
1 TTTTAAAATAT
84271315 TTTTAAAATACT
1 TTTTAAAATA-T
* *
84271327 TTTTTAAATTT
1 TTTTAAAATAT
84271338 TTTTAAAATAAT
1 TTTTAAAAT-AT
84271350 TTTT
1 TTTT
84271354 TGGTGTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 19 0.58
12 14 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:84271354 original size:23 final size:23
Alignment explanation
Indices: 84271304--84271354 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
84271294 TATTTTTTTA
* *
84271304 TTTTAAAATATTTTTAAAATACT
1 TTTTTAAATATTTTTAAAATAAT
*
84271327 TTTTTAAATTTTTTTAAAATAAT
1 TTTTTAAATATTTTTAAAATAAT
84271350 TTTTT
1 TTTTT
84271355 GGTGTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTTAAATATTTTTAAAATAAT
Found at i:84281864 original size:18 final size:17
Alignment explanation
Indices: 84281833--84281866 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
84281823 GTGAATAGAA
*
84281833 TATATTTTTTTATATAT
1 TATATTTTTATATATAT
84281850 TATACTTTTTATATATA
1 TATA-TTTTTATATATA
84281867 ATAATTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TATATTTTTATATATAT
Found at i:84283628 original size:30 final size:31
Alignment explanation
Indices: 84283553--84283628 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
84283543 GGATAAAAAA
* *
84283553 AAGTTTAGGCCCCAATCTAGAAACAATTGTC
1 AAGTTTAGGCCCCAATATAGAAACAATTGAC
* *
84283584 AAGTTCAGGTCCCAATATA-AAA-AATTTGAC
1 AAGTTTAGGCCCCAATATAGAAACAA-TTGAC
84283614 AAGTTTAGGCCCCAA
1 AAGTTTAGGCCCCAA
84283629 AAAATAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 2 0.05
30 20 0.53
31 16 0.42
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (31 bp):
AAGTTTAGGCCCCAATATAGAAACAATTGAC
Found at i:84284928 original size:15 final size:15
Alignment explanation
Indices: 84284910--84284939 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84284900 AAATGATGAA
84284910 ATAATAAATTAATAT
1 ATAATAAATTAATAT
*
84284925 ATAATAAATTTATAT
1 ATAATAAATTAATAT
84284940 TCTGATCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATAAATTAATAT
Found at i:84296505 original size:43 final size:43
Alignment explanation
Indices: 84296446--84296544 Score: 162
Period size: 43 Copynumber: 2.3 Consensus size: 43
84296436 CCCCCCAAAA
* *
84296446 CTTTTCTTTGTGCCTCTTGTTAGCTTTCAAGACCCAACCTCTC
1 CTTTTCTTTGTTCCTCTTGTTAGCTTTCAAGACCCAACCTCCC
* *
84296489 CTTTTCTCTGTTCCTCTTGTTAGCTTTCAAGACCCAACTTCCC
1 CTTTTCTTTGTTCCTCTTGTTAGCTTTCAAGACCCAACCTCCC
84296532 CTTTTCTTTGTTC
1 CTTTTCTTTGTTC
84296545 TTTCGTTTCG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.12, C:0.32, G:0.10, T:0.45
Consensus pattern (43 bp):
CTTTTCTTTGTTCCTCTTGTTAGCTTTCAAGACCCAACCTCCC
Found at i:84297892 original size:293 final size:294
Alignment explanation
Indices: 84297360--84297945 Score: 951
Period size: 293 Copynumber: 2.0 Consensus size: 294
84297350 TCTGCTCAGG
* ** * *
84297360 TGATTGTTTGAGGAATTTAAGGTCATGTTGTGCTATATGCTTCTTAATTTGTGAAAACCATCATA
1 TGATTGTTTGAGGAATTTAAGATCATGTACTGCTATATACTTATTAATTTGTGAAAACCATCATA
* * *
84297425 GTCCTTTTCCTCATTAATGACTGATTTGCGATGAATCAGATGAGTAAACAAATGATGCAAACCGA
66 GTCCTTTTCCCCATTAAAGACTGATTT-CGATAAATCAGATGAGTAAACAAATGATGCAAACCGA
*
84297490 AGAACATCAAAACACAGATGATATGCTACAGCAACAGCAGGTAATATGCGATCAGTCATGAGGTT
130 AGAACATCAAAACACAGATGATATGCTACAGCAACAGCAGGTAATATGCGACCAGTCATGAGGTT
*
84297555 TCTTTACCAAAGATGGCAAATTCCATGTCAGTGGAAAGTGTCATACAGATTTGCATCATAAACGT
195 TCTTTACCAAAGATAGCAAATTCCATGTCAGTGGAAAGTGTCATACAGATTTGCATCATAAACGT
*
84297620 TGGCTACTTAATGAAAAT-TTCATCTGCAGGATTAA
260 TGGCTACTAAATG-AAATGTTCATCTGCAGGATTAA
*
84297655 TGATTGTTTGTGGAATTTAAGATCATGTACTGCTATATACTTATTAATTTGTGAAAACCATCATA
1 TGATTGTTTGAGGAATTTAAGATCATGTACTGCTATATACTTATTAATTTGTGAAAACCATCATA
* * * *
84297720 GTTCTTTTCCCCATTAAAGACTGATTT-GTTAAATCAGATGAGTAACCACATGATGCAAACCGAA
66 GTCCTTTTCCCCATTAAAGACTGATTTCGATAAATCAGATGAGTAAACAAATGATGCAAACCGAA
* *
84297784 GAACATCAAAACACAGATGATATGCTACAGCAACAGCAGGTAATATGTGACCAGTCATTAGGTTT
131 GAACATCAAAACACAGATGATATGCTACAGCAACAGCAGGTAATATGCGACCAGTCATGAGGTTT
* * *
84297849 CTTTACCAAAGATAGCAAATTCCATGTCAGTGGAAATTGTCATACAGATTTGCATCGTAAATGTT
196 CTTTACCAAAGATAGCAAATTCCATGTCAGTGGAAAGTGTCATACAGATTTGCATCATAAACGTT
84297914 GGCTACTAAATGAAATGTTCATCTGCAGGATT
261 GGCTACTAAATGAAATGTTCATCTGCAGGATT
84297946 CTGTTGGTAA
Statistics
Matches: 269, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
292 4 0.01
293 182 0.68
295 83 0.31
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (294 bp):
TGATTGTTTGAGGAATTTAAGATCATGTACTGCTATATACTTATTAATTTGTGAAAACCATCATA
GTCCTTTTCCCCATTAAAGACTGATTTCGATAAATCAGATGAGTAAACAAATGATGCAAACCGAA
GAACATCAAAACACAGATGATATGCTACAGCAACAGCAGGTAATATGCGACCAGTCATGAGGTTT
CTTTACCAAAGATAGCAAATTCCATGTCAGTGGAAAGTGTCATACAGATTTGCATCATAAACGTT
GGCTACTAAATGAAATGTTCATCTGCAGGATTAA
Found at i:84305554 original size:6 final size:6
Alignment explanation
Indices: 84305543--84305574 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
84305533 GGTTTACTTC
*
84305543 ATGTAT ATGTAT ATGTAT TTGTAT ATGTAT AT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT AT
84305575 CATACATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (6 bp):
ATGTAT
Found at i:84312977 original size:31 final size:31
Alignment explanation
Indices: 84312942--84313005 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
84312932 ACAACCCAAA
*
84312942 GACTTAAATAAAAAGT-TCTGAATAGTTCAGT
1 GACTTAAATAAAAACTAT-TGAATAGTTCAGT
*
84312973 GACTTAAATGAAAACTATTGAATAGTTCAGT
1 GACTTAAATAAAAACTATTGAATAGTTCAGT
84313004 GA
1 GA
84313006 TCATTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.31
Consensus pattern (31 bp):
GACTTAAATAAAAACTATTGAATAGTTCAGT
Found at i:84320603 original size:20 final size:21
Alignment explanation
Indices: 84320566--84320604 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
84320556 TAATTTTTAA
*
84320566 ATTTTTATTCTATTTTTCTAG
1 ATTTTAATTCTATTTTTCTAG
84320587 ATTTTAATTCT-TTTTTCT
1 ATTTTAATTCTATTTTTCT
84320605 CTTCTTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.18, C:0.10, G:0.03, T:0.69
Consensus pattern (21 bp):
ATTTTAATTCTATTTTTCTAG
Found at i:84321678 original size:22 final size:21
Alignment explanation
Indices: 84321652--84321693 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
84321642 AGTAGGTGTT
*
84321652 ATTAAGATTTTTTGAAAATTTA
1 ATTAAAATTTTTT-AAAATTTA
84321674 ATTAAAATTTTTTAAAATTT
1 ATTAAAATTTTTTAAAATTT
84321694 TGAAAGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
ATTAAAATTTTTTAAAATTTA
Found at i:84325601 original size:29 final size:29
Alignment explanation
Indices: 84325563--84325635 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
84325553 AATTTCGAAA
* *
84325563 AGTTGAGTGACTAAAACGAGAA-AATTAAT
1 AGTTGGGTGACTAAAA-GAGAAGAATGAAT
* *
84325592 AGTTGGGTGACCAAAATAGAACGGAATGAAT
1 AGTTGGGTGACTAAAAGAGAA--GAATGAAT
84325623 AGTTGGGTGACTA
1 AGTTGGGTGACTA
84325636 TTCTTGTACT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 4 0.11
29 14 0.39
31 18 0.50
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.23
Consensus pattern (29 bp):
AGTTGGGTGACTAAAAGAGAAGAATGAAT
Found at i:84328100 original size:13 final size:14
Alignment explanation
Indices: 84328076--84328104 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
84328066 AAAAATTATT
84328076 AAAAATTCATAAAA
1 AAAAATTCATAAAA
84328090 AAAAATT-ATAAAA
1 AAAAATTCATAAAA
84328103 AA
1 AA
84328105 TCGTTCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATTCATAAAA
Found at i:84328279 original size:2 final size:2
Alignment explanation
Indices: 84328272--84328304 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
84328262 GCAACCTTTC
*
84328272 AT AT AT AT AT AT AT CT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84328305 CTTTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84329491 original size:12 final size:12
Alignment explanation
Indices: 84329471--84329509 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
84329461 ATTGAGCTGT
* *
84329471 TATGTATATGTA
1 TATGGATATGGA
84329483 TATGGATATGGA
1 TATGGATATGGA
84329495 TATGGATATGGA
1 TATGGATATGGA
84329507 TAT
1 TAT
84329510 ACGTATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (12 bp):
TATGGATATGGA
Found at i:84329497 original size:18 final size:18
Alignment explanation
Indices: 84329471--84329509 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
84329461 ATTGAGCTGT
* *
84329471 TATGTATATGTATATGGA
1 TATGGATATGGATATGGA
84329489 TATGGATATGGATATGGA
1 TATGGATATGGATATGGA
84329507 TAT
1 TAT
84329510 ACGTATACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (18 bp):
TATGGATATGGATATGGA
Found at i:84341252 original size:15 final size:15
Alignment explanation
Indices: 84341232--84341281 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
84341222 TTCAGAGTCT
84341232 TCATCTCTTTCAACA
1 TCATCTCTTTCAACA
* *
84341247 TCATCTCTTTCCACC
1 TCATCTCTTTCAACA
*
84341262 TCATCTCTTTCAACT
1 TCATCTCTTTCAACA
84341277 TCATC
1 TCATC
84341282 AGCATCTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (15 bp):
TCATCTCTTTCAACA
Found at i:84346512 original size:22 final size:22
Alignment explanation
Indices: 84346471--84346512 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
84346461 ATAAGCTTTT
* *
84346471 CTTTATCCCTTTTTTTTCTCTC
1 CTTTATCCCTTTTCTCTCTCTC
*
84346493 CTTTATTCCTTTTCTCTCTC
1 CTTTATCCCTTTTCTCTCTC
84346513 AAAAAAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.05, C:0.33, G:0.00, T:0.62
Consensus pattern (22 bp):
CTTTATCCCTTTTCTCTCTCTC
Found at i:84346689 original size:17 final size:17
Alignment explanation
Indices: 84346660--84346692 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
84346650 GAATAATTAA
84346660 TCTTTATTTTTTCTTTT
1 TCTTTATTTTTTCTTTT
84346677 TCTTT-TTTGTTTCTTT
1 TCTTTATTT-TTTCTTT
84346693 ATTGAATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (17 bp):
TCTTTATTTTTTCTTTT
Found at i:84349063 original size:42 final size:42
Alignment explanation
Indices: 84349004--84349086 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
84348994 AAATTCAAAG
84349004 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
84349046 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
84349087 CACACATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.33
Consensus pattern (42 bp):
GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
Found at i:84372191 original size:24 final size:24
Alignment explanation
Indices: 84372162--84372209 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
84372152 TTCTTTTTAG
*
84372162 CTCTTCTCTCATTTCAAGTTTCAA
1 CTCTTCTCTAATTTCAAGTTTCAA
84372186 CTCTTCTCTAATTTCAAGTTTCAA
1 CTCTTCTCTAATTTCAAGTTTCAA
84372210 ACTTAGTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.27, G:0.04, T:0.46
Consensus pattern (24 bp):
CTCTTCTCTAATTTCAAGTTTCAA
Found at i:84372977 original size:146 final size:143
Alignment explanation
Indices: 84372572--84373049 Score: 645
Period size: 146 Copynumber: 3.3 Consensus size: 143
84372562 GTTAGAATAT
* * * *
84372572 AGCTAAGCAATTAGTAAATTGTGTTATGAAAG--ATAAAAAAAAAGGTCCTTAATGCTGATTGAG
1 AGCTAAGTAATTAGTAAATTGTGTCATGAAAGACAAAAAAAAAAAGGTCCTTAACGCTGATTGAG
* * * * * * **
84372635 TGGTTAACATTAGACAAAAATGTATCTGGTAGGGTGTACTTTTTTAGTTAACAAATGCACTTTTT
66 TGGTTGACGTTAGACAAAAACGTATCTGGTAAGGCGTGCTTTACTAGTTAACAAATGCACTTTTT
*
84372700 AAATTAAATTTAT
131 AAATTAAATTTAC
* * *
84372713 AGCTAAGCAATTAGTAAATTGTGTCAAGAAAGACAAAAAAAAATTAGGGTCCTTAACGCTGATTG
1 AGCTAAGTAATTAGTAAATTGTGTCATGAAAGACAAAAAAAAA--AAGGTCCTTAACGCTGATTG
* * * * *
84372778 AGTGGTTGACGTTATACAAAAACGTAGCTGGTAAAGCGTGCTTTCCTAGTTAACAAATGTACTTT
64 AGTGGTTGACGTTAGACAAAAACGTATCTGGTAAGGCGTGCTTTACTAGTTAACAAATGCACTTT
84372843 TTAAATTAAATTTAC
129 TTAAATTAAATTTAC
* * *
84372858 AGCTTAGTAATAAGTAAATTGTGTCATGAAAGACAAAAAAAAAACCAGAGTCCTTAACGCTAATT
1 AGCTAAGTAATTAGTAAATTGTGTCATGAAAGACAAAAAAAAAA--AG-GTCCTTAACGCTGATT
* *
84372923 GGGTGGTTGACGTTAGACAAAAACGTATCTGGTAAGGCGTGCTTTACTAATTAACAAATGCACTT
63 GAGTGGTTGACGTTAGACAAAAACGTATCTGGTAAGGCGTGCTTTACTAGTTAACAAATGCACTT
84372988 TTTAAATTAAATTTAC
128 TTTAAATTAAATTTAC
* *
84373004 AGCTAAGTAATTAGTAATTTGTATCATGAAAGACAAAAAAAAAAAG
1 AGCTAAGTAATTAGTAAATTGTGTCATGAAAGACAAAAAAAAAAAG
84373050 AAAAAGAAAA
Statistics
Matches: 295, Mismatches: 35, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
141 30 0.10
143 9 0.03
144 2 0.01
145 125 0.42
146 129 0.44
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (143 bp):
AGCTAAGTAATTAGTAAATTGTGTCATGAAAGACAAAAAAAAAAAGGTCCTTAACGCTGATTGAG
TGGTTGACGTTAGACAAAAACGTATCTGGTAAGGCGTGCTTTACTAGTTAACAAATGCACTTTTT
AAATTAAATTTAC
Found at i:84373196 original size:163 final size:150
Alignment explanation
Indices: 84372644--84373317 Score: 754
Period size: 146 Copynumber: 4.5 Consensus size: 150
84372634 GTGGTTAACA
* * * * **
84372644 TTAGACAAAAATGTATCTGGTAGGGTGTACTTTTTTAGTTAACAAATGCACTTTTTAAATTAAAT
1 TTAGACAAAAACGTATTTGGTAGGGCGTGCTTTCCTAGTTAACAAATGCACTTTTTAAATTAAAT
* * * * * *
84372709 TTATAGCTAAGCAATTAGTAAATTGTGTCAAGAAAGAC----AAAAAAA-AATTAGGGTCCTTAA
66 TTACAGCTAAGTAATTAGTAAATTGTATCATGAAAGACAAAAAAAAAAAGAATCAGGGTCCTCAA
* * *
84372769 CGCTGATTGAGTGGTTGACG
131 CGCTGACTGGGTGGCTGACG
* ** ** *
84372789 TTATACAAAAACGTAGCTGGTAAAGCGTGCTTTCCTAGTTAACAAATGTACTTTTTAAATTAAAT
1 TTAGACAAAAACGTATTTGGTAGGGCGTGCTTTCCTAGTTAACAAATGCACTTTTTAAATTAAAT
* * * * * *
84372854 TTACAGCTTAGTAATAAGTAAATTGTGTCATGAAAGAC---AAAAAAAA-AACCAGAGTCCTTAA
66 TTACAGCTAAGTAATTAGTAAATTGTATCATGAAAGACAAAAAAAAAAAGAATCAGGGTCCTCAA
* * *
84372915 CGCTAATTGGGTGGTTGACG
131 CGCTGACTGGGTGGCTGACG
* * * *
84372935 TTAGACAAAAACGTATCTGGTAAGGCGTGCTTTACTAATTAACAAATGCACTTTTTAAATTAAAT
1 TTAGACAAAAACGTATTTGGTAGGGCGTGCTTTCCTAGTTAACAAATGCACTTTTTAAATTAAAT
*
84373000 TTACAGCTAAGTAATTAGTAATTTGTATCATGAAAGACAAAAAAAAAAAGAAAAAGAAAAAAGAA
66 TTACAGCTAAGTAATTAGTAAATTGTATCATGAAAGAC------------AAAAA-AAAAAAGAA
* *
84373065 TTAGGGTCCTCAATGCTGACTGGGTGGCTGACG
118 TCAGGGTCCTCAACGCTGACTGGGTGGCTGACG
* * *
84373098 TTAAACAAAAACGTATTTAGTAGGGTGTGCTTTCCTAGTTAACAAATGCACTTTTTAAATTAAAT
1 TTAGACAAAAACGTATTTGGTAGGGCGTGCTTTCCTAGTTAACAAATGCACTTTTTAAATTAAAT
* *
84373163 TTATAGCTAAGTAATTAGTAAATTGTGTCATGAAAGACAAAAAAAAAAAGAATCAGGGTCCTCAA
66 TTACAGCTAAGTAATTAGTAAATTGTATCATGAAAGACAAAAAAAAAAAGAATCAGGGTCCTCAA
*
84373228 CGCTGACTGGGTGGCTAACG
131 CGCTGACTGGGTGGCTGACG
* **
84373248 TTAGACAAAAATGTATTTGGTAGGGCGTGCTTTCCTAGTTAACAAATATACTTTTTAAATTAAAT
1 TTAGACAAAAACGTATTTGGTAGGGCGTGCTTTCCTAGTTAACAAATGCACTTTTTAAATTAAAT
84373313 TTACA
66 TTACA
84373318 TAAAATATAT
Statistics
Matches: 453, Mismatches: 58, Indels: 31
0.84 0.11 0.06
Matches are distributed among these distances:
145 88 0.19
146 130 0.29
150 102 0.23
151 5 0.01
161 2 0.00
162 6 0.01
163 120 0.26
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (150 bp):
TTAGACAAAAACGTATTTGGTAGGGCGTGCTTTCCTAGTTAACAAATGCACTTTTTAAATTAAAT
TTACAGCTAAGTAATTAGTAAATTGTATCATGAAAGACAAAAAAAAAAAGAATCAGGGTCCTCAA
CGCTGACTGGGTGGCTGACG
Found at i:84376302 original size:71 final size:71
Alignment explanation
Indices: 84376217--84376352 Score: 254
Period size: 71 Copynumber: 1.9 Consensus size: 71
84376207 AGGCAAAAGG
*
84376217 TTTTGCAGGAAGAATACTTGAGAGTAAGAATATTTTGCAAATGATGTCCTGACCTTAATCATAAG
1 TTTTGCAGAAAGAATACTTGAGAGTAAGAATATTTTGCAAATGATGTCCTGACCTTAATCATAAG
84376282 ACAAGT
66 ACAAGT
*
84376288 TTTTGCAGAAAGAATGCTTGAGAGTAAGAATATTTTGCAAATGATGTCCTGACCTTAATCATAAG
1 TTTTGCAGAAAGAATACTTGAGAGTAAGAATATTTTGCAAATGATGTCCTGACCTTAATCATAAG
84376353 TGATGAATAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (71 bp):
TTTTGCAGAAAGAATACTTGAGAGTAAGAATATTTTGCAAATGATGTCCTGACCTTAATCATAAG
ACAAGT
Found at i:84376390 original size:31 final size:31
Alignment explanation
Indices: 84376353--84376417 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
84376343 TAATCATAAG
*
84376353 TGATGAATATTTTCTTTCTCCTTTTTAGTCA
1 TGATGAATATTTTCTTTCTCCTTTATAGTCA
84376384 TGATGAATATTTTCTTTCTCCTTTATAGTCA
1 TGATGAATATTTTCTTTCTCCTTTATAGTCA
84376415 TGA
1 TGA
84376418 CTTATAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (31 bp):
TGATGAATATTTTCTTTCTCCTTTATAGTCA
Found at i:84379421 original size:15 final size:15
Alignment explanation
Indices: 84379403--84379443 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
84379393 TGATGAAGTT
84379403 GAAAGAGATGAGGTG
1 GAAAGAGATGAGGTG
* *
84379418 GAAAGAGATGATGTT
1 GAAAGAGATGAGGTG
84379433 GAAAGAGATGA
1 GAAAGAGATGA
84379444 AGACTCTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.39, T:0.17
Consensus pattern (15 bp):
GAAAGAGATGAGGTG
Found at i:84383452 original size:22 final size:22
Alignment explanation
Indices: 84383409--84383453 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
84383399 AATTTTCAAA
* *
84383409 ATATATTTTTATATTGATATTT
1 ATATATTCTTATATTGAAATTT
84383431 ATATATTCTTATAATT-AAATTT
1 ATATATTCTTAT-ATTGAAATTT
84383453 A
1 A
84383454 AAATCATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATATTCTTATATTGAAATTT
Found at i:84386175 original size:163 final size:165
Alignment explanation
Indices: 84385881--84386203 Score: 399
Period size: 163 Copynumber: 2.0 Consensus size: 165
84385871 TGATTGCTTG
*
84385881 TTGAAGAAGCTTTTTATAGGTGTTTAGATTTTGATGGTGATACGGTGGTTTAGTGTTTGTATCAA
1 TTGAAGAAGC-TTTTATAGGTGTTTAGATTTTGATGGTGATA-GGTGCTTTAG-GTTTGTATCAA
* * * * *
84385946 GATAATAAAGGATAAACACTATAATTATTGACAAGAATAACTCTGACCCTGAACATAAATTATAA
63 GATAATAAACGATAAACACCATAATTATTGACAAGAATAACTCTGAACCTGAAAATAAACTATAA
* *
84386011 AACGGATATGGACTCGA-TGTAAAAAAAAAATTACTTA
128 AACGGACATGGACCCGATTGTAAAAAAAAAATTACTTA
*
84386048 TTGAAGAAGC-TTTATGGGTGTTTAGATTTTGATGAG-GAT-GGAATGCTTTA-GTTTGTATCAA
1 TTGAAGAAGCTTTTATAGGTGTTTAGATTTTGATG-GTGATAGG--TGCTTTAGGTTTGTATCAA
* * * * *
84386109 GATAATAAACGATAAACACCATGATTGTTGAGAATG-ATAAC-CTCGAACTTGAAAATGAACTAT
63 GATAATAAACGATAAACACCATAATTATTGACAA-GAATAACTCT-GAACCTGAAAATAAACTAT
84386172 AAAACGGACATGGACCCGATTGTAAAAAAAAA
126 AAAACGGACATGGACCCGATTGTAAAAAAAAA
84386204 TCAATACTGG
Statistics
Matches: 136, Mismatches: 14, Indels: 15
0.82 0.08 0.09
Matches are distributed among these distances:
162 2 0.01
163 78 0.57
164 13 0.10
165 32 0.24
166 1 0.01
167 10 0.07
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (165 bp):
TTGAAGAAGCTTTTATAGGTGTTTAGATTTTGATGGTGATAGGTGCTTTAGGTTTGTATCAAGAT
AATAAACGATAAACACCATAATTATTGACAAGAATAACTCTGAACCTGAAAATAAACTATAAAAC
GGACATGGACCCGATTGTAAAAAAAAAATTACTTA
Found at i:84386890 original size:31 final size:31
Alignment explanation
Indices: 84386826--84386896 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
84386816 CCAAGATTAC
84386826 TAAACTATTAATAAATTTACGTTTTCATCAT
1 TAAACTATTAATAAATTTACGTTTTCATCAT
* * ** *
84386857 TAAATTATTAATAAGTTTACGTTTTGGTTAT
1 TAAACTATTAATAAATTTACGTTTTCATCAT
84386888 TAAACTATT
1 TAAACTATT
84386897 CGAAATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (31 bp):
TAAACTATTAATAAATTTACGTTTTCATCAT
Found at i:84387303 original size:12 final size:12
Alignment explanation
Indices: 84387286--84387311 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84387276 AAGCAAAATG
84387286 ACGATAACGTAA
1 ACGATAACGTAA
84387298 ACGATAACGTAA
1 ACGATAACGTAA
84387310 AC
1 AC
84387312 CAACTATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.19, G:0.15, T:0.15
Consensus pattern (12 bp):
ACGATAACGTAA
Found at i:84389008 original size:22 final size:22
Alignment explanation
Indices: 84388967--84389010 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
84388957 GTTTCTTATA
* * *
84388967 TTTCAATTTGGTATTTGAGTTT
1 TTTCAATTTGATACTCGAGTTT
84388989 TTTCAATTTGATACTCGAGTTT
1 TTTCAATTTGATACTCGAGTTT
84389011 CTTTTGTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.55
Consensus pattern (22 bp):
TTTCAATTTGATACTCGAGTTT
Found at i:84396825 original size:21 final size:21
Alignment explanation
Indices: 84396799--84396841 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
84396789 AGCACTCGAG
84396799 TTTGTCTAGAATTTGTATTTT
1 TTTGTCTAGAATTTGTATTTT
84396820 TTTGTCTAGAATTTGTATTTT
1 TTTGTCTAGAATTTGTATTTT
84396841 T
1 T
84396842 GTGGAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.63
Consensus pattern (21 bp):
TTTGTCTAGAATTTGTATTTT
Found at i:84398249 original size:21 final size:21
Alignment explanation
Indices: 84398208--84398249 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
84398198 ATGAATGATT
*
84398208 TTGTAAATATGTTTTTCCAAA
1 TTGTAAATATGTTTTTACAAA
*
84398229 TTGT-AATATTTTCTTTACAAA
1 TTGTAAATATGTT-TTTACAAA
84398250 ATTTGATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (21 bp):
TTGTAAATATGTTTTTACAAA
Found at i:84399677 original size:20 final size:19
Alignment explanation
Indices: 84399640--84399699 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
84399630 TGAATTGGAA
*
84399640 TGAAATTGTGATATTGAAT
1 TGAAATTATGATATTGAAT
84399659 GTGAAATTAT-ATATATGAAT
1 -TGAAATTATGATAT-TGAAT
84399679 TG-AA-T-TGA-ATTGAAT
1 TGAAATTATGATATTGAAT
84399694 TGAAAT
1 TGAAAT
84399700 GAAATGAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
15 7 0.20
16 5 0.14
17 2 0.06
18 2 0.06
19 6 0.17
20 13 0.37
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (19 bp):
TGAAATTATGATATTGAAT
Found at i:84399684 original size:5 final size:5
Alignment explanation
Indices: 84399674--84399707 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
84399664 ATTATATATA
* *
84399674 TGAAT TGAAT TGAAT TGAAT TGAAA TGAAA TGAA
1 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAA
84399708 ATAAATGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (5 bp):
TGAAT
Found at i:84405885 original size:20 final size:20
Alignment explanation
Indices: 84405839--84405885 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
84405829 ATTTTAATAA
*
84405839 AATATT-TATTAAAATTATT
1 AATATTGTAATAAAATTATT
*
84405858 -ATACTTGTAATAATATTATT
1 AATA-TTGTAATAAAATTATT
84405878 AATATTGT
1 AATATTGT
84405886 TATACTTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 3 0.13
19 2 0.09
20 15 0.65
21 3 0.13
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (20 bp):
AATATTGTAATAAAATTATT
Found at i:84406265 original size:14 final size:14
Alignment explanation
Indices: 84406246--84406275 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
84406236 AGTCACCTTT
84406246 CTTCCTCCAGAACA
1 CTTCCTCCAGAACA
*
84406260 CTTCCTCCTGAACA
1 CTTCCTCCAGAACA
84406274 CT
1 CT
84406276 CATAACACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.43, G:0.07, T:0.27
Consensus pattern (14 bp):
CTTCCTCCAGAACA
Found at i:84407255 original size:19 final size:20
Alignment explanation
Indices: 84407233--84407271 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
84407223 AATTTTAAAA
84407233 TATTTTTAAAAT-AATTTTT
1 TATTTTTAAAATAAATTTTT
84407252 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAATAAATTTTT
84407272 GGTGTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAAATTTTT
Found at i:84407279 original size:20 final size:19
Alignment explanation
Indices: 84407237--84407279 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
84407227 TTAAAATATT
* *
84407237 TTTAAAATAATTTTTTATT
1 TTTAAAATAATTTTTGATG
*
84407256 TTTAAAATAAATTTTTGGTG
1 TTTAAAAT-AATTTTTGATG
84407276 TTTA
1 TTTA
84407280 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
TTTAAAATAATTTTTGATG
Found at i:84409327 original size:28 final size:28
Alignment explanation
Indices: 84409286--84409343 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
84409276 CAAATAATCT
*
84409286 AAAATTTATAAAATATTCAAAGAACAAA
1 AAAATTTATAAAATATTCAAAAAACAAA
*
84409314 AAAAGTTTAT-AAATATTCAAAAAAGAAA
1 AAAA-TTTATAAAATATTCAAAAAACAAA
84409342 AA
1 AA
84409344 GAATGAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (28 bp):
AAAATTTATAAAATATTCAAAAAACAAA
Done.