Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 295 of 378
Found at i:89153463 original size:52 final size:52
Alignment explanation
Indices: 89153385--89153488 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
89153375 AGAAGAAAAG
89153385 ATAAGATTTGCTAATTTGGTGAAGTATCTAAAATACGATCAAGTGGAGAGTT
1 ATAAGATTTGCTAATTTGGTGAAGTATCTAAAATACGATCAAGTGGAGAGTT
89153437 ATAAGATTTGCTAATTTGGTGAAGTATCTAAAATACGATCAAGTGGAGAGTT
1 ATAAGATTTGCTAATTTGGTGAAGTATCTAAAATACGATCAAGTGGAGAGTT
89153489 CGACAAGAGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.33
Consensus pattern (52 bp):
ATAAGATTTGCTAATTTGGTGAAGTATCTAAAATACGATCAAGTGGAGAGTT
Found at i:89156643 original size:11 final size:11
Alignment explanation
Indices: 89156627--89156652 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
89156617 CGAAGCGCAC
89156627 ATCACAATAAT
1 ATCACAATAAT
89156638 ATCACAATAAT
1 ATCACAATAAT
89156649 ATCA
1 ATCA
89156653 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:89157186 original size:41 final size:41
Alignment explanation
Indices: 89157141--89157223 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
89157131 TAAAAGCCAC
*
89157141 TGGTGAATCCACGATCATCAAGCAACCATGCGATCCTCAAT
1 TGGTGAATCCACGATCATCAAGCAACCATACGATCCTCAAT
* * *
89157182 TGGTGGATCCACGGTCGTCAAGCAACCATACGATCCTCAAT
1 TGGTGAATCCACGATCATCAAGCAACCATACGATCCTCAAT
89157223 T
1 T
89157224 TCTTCCTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
TGGTGAATCCACGATCATCAAGCAACCATACGATCCTCAAT
Found at i:89157521 original size:27 final size:27
Alignment explanation
Indices: 89157460--89157728 Score: 292
Period size: 27 Copynumber: 10.0 Consensus size: 27
89157450 TTTCACCCTA
* *
89157460 CAAGGGTGTTTTGGTAAATTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
89157486 CCAGTGGTATTTCT-GTAATTTTACAAAT
1 CAAG-GGTATTT-TGGTAATTTTACAAAT
* *
89157514 CAAGGGTATTTTAGTAATTTTTCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
89157541 TAGGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
89157568 CTAGGGTATTTTGGTTATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
89157595 CGAGGGTATTTCGATAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
89157622 CAAAGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
89157649 CGAGGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
89157676 C-AGGGATATTTTGGTAATTTCACAAAT
1 CAAGGG-TATTTTGGTAATTTTACAAAT
* *
89157703 TAGGGGTATTTTGGTAATTTTACAAA
1 CAAGGGTATTTTGGTAATTTTACAAA
89157729 CTAGGGGTAT
Statistics
Matches: 202, Mismatches: 35, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
26 8 0.04
27 187 0.93
28 7 0.03
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:89167740 original size:32 final size:32
Alignment explanation
Indices: 89167699--89167764 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
89167689 ATAAAAGAGT
89167699 GAAAGTAAACATAAAGGTTTTCTGTATTTTTG
1 GAAAGTAAACATAAAGGTTTTCTGTATTTTTG
89167731 GAAAGTAAACATAAAGGTTTTCTGTATTTTTG
1 GAAAGTAAACATAAAGGTTTTCTGTATTTTTG
89167763 GA
1 GA
89167765 CTCAGTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (32 bp):
GAAAGTAAACATAAAGGTTTTCTGTATTTTTG
Found at i:89178895 original size:23 final size:23
Alignment explanation
Indices: 89178869--89178913 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
89178859 ATAATTTTTT
89178869 TAATGTACTAATCAACTATTAAA
1 TAATGTACTAATCAACTATTAAA
* *
89178892 TAATGTATTAATTAACTATTAA
1 TAATGTACTAATCAACTATTAA
89178914 TACTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (23 bp):
TAATGTACTAATCAACTATTAAA
Found at i:89180764 original size:19 final size:19
Alignment explanation
Indices: 89180719--89180764 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
89180709 CATACATTTT
89180719 TATATTATTTCACTATTAG
1 TATATTATTTCACTATTAG
89180738 TATCATTATTATCA-TA-TAG
1 TAT-ATTATT-TCACTATTAG
89180757 TACTATTA
1 TA-TATTA
89180765 ATTGAATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 12 0.50
20 9 0.38
21 3 0.12
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (19 bp):
TATATTATTTCACTATTAG
Found at i:89186903 original size:84 final size:83
Alignment explanation
Indices: 89186794--89186956 Score: 211
Period size: 83 Copynumber: 2.0 Consensus size: 83
89186784 TACGTATTTG
** * * *
89186794 TTTGGAAACAAAACAATATCGAATAAAATATTGTTAAACGGCGGCAGTAAATCTTGAAACAGATT
1 TTTGGAAACAAAACAATATAAAATAAAATATTGTT-AACGACGGCAATAAATCTCGAAACAGATT
89186859 TTATTTAATTCAATTCAAA
65 TTATTTAATTCAATTCAAA
* * * *
89186878 TTTGGAAACAAAATCAA-ATAAAATAAAATCTTGTTAACGATGGGAATAAATCTCGAAACATATT
1 TTTGGAAACAAAA-CAATATAAAATAAAATATTGTTAACGACGGCAATAAATCTCGAAACAGATT
*
89186942 TTATTTAATTTAATT
65 TTATTTAATTCAATT
89186957 TCTCATTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
83 37 0.54
84 28 0.41
85 3 0.04
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (83 bp):
TTTGGAAACAAAACAATATAAAATAAAATATTGTTAACGACGGCAATAAATCTCGAAACAGATTT
TATTTAATTCAATTCAAA
Found at i:89187092 original size:79 final size:79
Alignment explanation
Indices: 89187004--89187506 Score: 735
Period size: 79 Copynumber: 6.4 Consensus size: 79
89186994 CGTTGAACAG
* *
89187004 CGGGAATCAATCTCGAAACGGATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATTTGGAATG
1 CGGGAATCAATCTCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATA
89187069 AAATAGTTAAACGA
66 AAATAGTTAAACGA
* *
89187083 CGGGAATCAATCTCGAAACGGATTTTATTTTACTCCTTTTTGGAAATAAAACAAAATTTGGAATG
1 CGGGAATCAATCTCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATA
* *
89187148 AAATCGTTAAATGA
66 AAATAGTTAAACGA
*
89187162 CGGGAATCAATCTCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAATAAAATTTGGAATA
1 CGGGAATCAATCTCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATA
*
89187227 AAATCGTTAAAC-A
66 AAATAGTTAAACGA
*
89187240 GCGAGAATCAATCTCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAAT
1 -CGGGAATCAATCTCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAAT
*
89187305 AAAATTGTTAAACGA
65 AAAATAGTTAAACGA
** * *
89187320 CACGAATCAATCCCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAATAAAATTTGGAATA
1 CGGGAATCAATCTCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATA
89187385 AAATAGTTAAACGA
66 AAATAGTTAAACGA
* * * * *
89187399 CAGGAATCAATCCCGAAATGGATTTTATTTTACTCGA-TTTTAGAAAT-AAATAAAATTTGGAAT
1 CGGGAATCAATCTCGAAACGGATTTTATTTTACTC-ATTTTTGGAAATAAAACAAAATTTGGAAT
* *
89187462 AAAATCA-TTGAACGG
65 AAAAT-AGTTAAACGA
* * *
89187477 TGGGAATCAATCCCGAAATGGATTTTATTT
1 CGGGAATCAATCTCGAAACGGATTTTATTT
89187507 ACCTTTAATT
Statistics
Matches: 398, Mismatches: 22, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
78 56 0.14
79 340 0.85
80 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (79 bp):
CGGGAATCAATCTCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATA
AAATAGTTAAACGA
Found at i:89187283 original size:237 final size:237
Alignment explanation
Indices: 89186950--89187506 Score: 818
Period size: 237 Copynumber: 2.4 Consensus size: 237
89186940 TTTTATTTAA
* * * * *
89186950 TTTAATTT-CTCATTTTTGGTAACAAAATCAAAA--TGTAATAAATTCGTTGAACAGCGGGAATC
1 TTTATTTTACTCATTTTTGGAAATAAAAT-AAAATTTGGAATAAAATCGTTGAACAGCGGGAATC
* *
89187012 AATCTCGAAACGGATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATTTGGAATGAAATAGTT
65 AATCTCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATAGTT
** * *
89187077 AAACGACGGGAATCAATCTCGAAACGGATTTTATTTTACTCCTTTTTGGAAATAAAACAAAATTT
130 AAACGACACGAATCAATCCCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTT
* * * * *
89187142 GGAATGAAATCGTTAAATGACGGGAATCAATCTCGAAACGGAT
195 GGAATAAAATAGTTAAACGACAGGAATCAATCCCGAAACGGAT
* *
89187185 TTTATTTTACTCATTTTTGGAAATAAAATAAAATTTGGAATAAAATCGTTAAACAGCGAGAATCA
1 TTTATTTTACTCATTTTTGGAAATAAAATAAAATTTGGAATAAAATCGTTGAACAGCGGGAATCA
*
89187250 ATCTCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATTGTTA
66 ATCTCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATAGTTA
*
89187315 AACGACACGAATCAATCCCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAATAAAATTTG
131 AACGACACGAATCAATCCCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTG
*
89187380 GAATAAAATAGTTAAACGACAGGAATCAATCCCGAAATGGAT
196 GAATAAAATAGTTAAACGACAGGAATCAATCCCGAAACGGAT
* * * *
89187422 TTTATTTTACTCGA-TTTTAGAAAT-AAATAAAATTTGGAATAAAATCATTGAACGGTGGGAATC
1 TTTATTTTACTC-ATTTTTGGAAATAAAATAAAATTTGGAATAAAATCGTTGAACAGCGGGAATC
* *
89187485 AATCCCGAAATGGATTTTATTT
65 AATCTCGAAACGGATTTTATTT
89187507 ACCTTTAATT
Statistics
Matches: 289, Mismatches: 29, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
235 11 0.04
236 72 0.25
237 205 0.71
238 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (237 bp):
TTTATTTTACTCATTTTTGGAAATAAAATAAAATTTGGAATAAAATCGTTGAACAGCGGGAATCA
ATCTCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATAGTTA
AACGACACGAATCAATCCCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTG
GAATAAAATAGTTAAACGACAGGAATCAATCCCGAAACGGAT
Found at i:89190415 original size:16 final size:16
Alignment explanation
Indices: 89190394--89190434 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
89190384 TCGAAACAGT
89190394 AAAAAAAATTGAAAAA
1 AAAAAAAATTGAAAAA
* * *
89190410 AAAAAACACTGAAAAC
1 AAAAAAAATTGAAAAA
89190426 AAAAAAAAT
1 AAAAAAAAT
89190435 AAAAAAAGTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (16 bp):
AAAAAAAATTGAAAAA
Found at i:89190607 original size:25 final size:23
Alignment explanation
Indices: 89190579--89190646 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 23
89190569 AATCAGCAGC
**
89190579 AAGGAGAAGAAAATAAAGGGAAAG
1 AAGGAGAAGAAAA-AAAGAAAAAG
**
89190603 AAAGGAGAAGAGAAGGAAGAAAAAG
1 -AAGGAGAAGA-AAAAAAGAAAAAG
89190628 AAGGAGAAGAAAAAAAGAA
1 AAGGAGAAGAAAAAAAGAA
89190647 GGTATAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 7 0.19
24 10 0.28
25 17 0.47
26 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.01
Consensus pattern (23 bp):
AAGGAGAAGAAAAAAAGAAAAAG
Found at i:89196115 original size:72 final size:72
Alignment explanation
Indices: 89195998--89196137 Score: 235
Period size: 72 Copynumber: 1.9 Consensus size: 72
89195988 GCCCCCCGAT
* *
89195998 GAGCCCGGGAAATTGTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
1 GAGCCCAGGAAATAGTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
89196063 CGACGAC
66 CGACGAC
* * *
89196070 GAGCCCAGGAAATAGTCATTGCCTGCCAAATTCGGATGATAAGAAGTATCAGTCGAATGTGAATG
1 GAGCCCAGGAAATAGTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
89196135 CGA
66 CGA
89196138 TCGCTCGGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (72 bp):
GAGCCCAGGAAATAGTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
CGACGAC
Found at i:89198423 original size:145 final size:146
Alignment explanation
Indices: 89198010--89199036 Score: 1125
Period size: 145 Copynumber: 6.9 Consensus size: 146
89198000 ATAAGTAAAA
* * *
89198010 TATTTTCGTATATTATTTTTTATATTATTTTAGCA-AAAATGTTTCAAATG---TA-TTATGGAA
1 TATTTTCGTAT-TTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTATGTAA
* * * *
89198070 GTGTTTTTTATATTAATTTAATAAATAACACTGATTTTGGCACTTT-TTCGTATTTTTTATTTTC
65 GTGTTTTTTATATT-TTTTAATAAATAACCCTGATTTTAGCACTTTATTTGTA----TT-TTTTC
* *
89198134 ATATCTTATTTTTTAAAATATAT
124 GTATATTATTTTTTAAAATATAT
* * *
89198157 TACTTTCGTATTATTTTATTTTAAAACCCTTATTTTAGTACATAATGTTTCAAATGTATTATTTA
1 TATTTTCGTATT-TATT-TTTT-ATA---TTATTTTAGTACATAATGTTTCAAATGTATTATTTA
* *
89198222 AGT--GT-TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTC
60 TGTAAGTGTTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTTGTATTTTTTC
89198284 GTA-ATT-TTTTTTAAAATATAT
124 GTATATTATTTTTTAAAATATAT
*
89198305 TATTTTCGTATTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAATTTA
1 TATTTTCGTATTTATTT-TTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTT-ATGTA
89198370 AGTGTTTTTTATA-TTTTTAATAAATAACCCTGATTTTAGCACTTTATTTGTATTTTTTCGTA-A
64 AGTGTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTTGTATTTTTTCGTATA
89198433 TT-TTTTTTAAAATATAT
129 TTATTTTTTAAAATATAT
89198450 TATTTTCGTATTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTA--T-T-TAA
1 TATTTTCGTATTTATTT-TTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTATGTAA
* * *
89198511 GCGTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTCATATA
65 GTGTTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTTGTATTTTTTCGTATA
89198576 TTATTTTTTAAAATATAT
129 TTATTTTTTAAAATATAT
* * * *
89198594 TATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTAGGTATATTA
1 TATTTTCGTA-TTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTA-T---TAT-TTA
** *
89198659 TGTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTGATTTT-GACACTTTCTTTGTATTTTT
60 TGTAAGTG-TTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTTGTA-TTTT
*
89198723 TTCGTATCTTATTTTTTAAAATATAT
121 TTCGTATATTATTTTTTAAAATATAT
*
89198749 TATTTTCGTATTTTATTTCTTCA-ATTATTTTAGTACATAATGTTTCAAATGTATTA--T-T-TA
1 TATTTTCGTA-TTTATTT-TTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTATGTA
* * *
89198809 AGTATTTTTTATATTTTTTCAATAAATAACCCTAATTTTAGCATTTTATTCT-TATTTTTTTCGT
64 AGTGTTTTTTATATTTTTT-AATAAATAACCCTGATTTTAGCACTTTATT-TGTA-TTTTTTCGT
89198873 ATATTATTTTTTAAAATATAT
126 ATATTATTTTTTAAAATATAT
* * * *
89198894 TATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTAGGTATATTA
1 TATTTTCGTA-TTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTA-T---TAT-TTA
** * * *
89198959 TGTAAGTGTTTTTTTATACTAATTTAATAAATAACCTTGATTTT-GACACTTTCTTTATATTATT
60 TGTAAGTG-TTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTTGTATT-TT
*
89199023 TTCGTATTTTATTT
121 TTCGTATATTATTT
89199037 CTTCATATTA
Statistics
Matches: 768, Mismatches: 58, Indels: 100
0.83 0.06 0.11
Matches are distributed among these distances:
140 14 0.02
141 1 0.00
142 47 0.06
143 39 0.05
144 65 0.08
145 240 0.31
146 14 0.02
147 29 0.04
148 33 0.04
149 6 0.01
150 7 0.01
151 5 0.01
152 12 0.02
153 21 0.03
154 90 0.12
155 132 0.17
156 9 0.01
157 4 0.01
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.56
Consensus pattern (146 bp):
TATTTTCGTATTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTATGTAAG
TGTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTTGTATTTTTTCGTATATT
ATTTTTTAAAATATAT
Found at i:89198582 original size:15 final size:15
Alignment explanation
Indices: 89198562--89198618 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
89198552 ACTTTATTCG
89198562 TATTTTTTCATATAT
1 TATTTTTTCATATAT
* *
89198577 TATTTTTTAAAATA-
1 TATTTTTTCATATAT
* *
89198591 TATTATTTTCTTATTT
1 TATT-TTTTCATATAT
89198607 TATTTTTT-ATAT
1 TATTTTTTCATAT
89198619 TATTTTAGCA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
14 7 0.21
15 22 0.67
16 4 0.12
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTTTCATATAT
Found at i:89198621 original size:12 final size:13
Alignment explanation
Indices: 89198589--89198624 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
89198579 TTTTTTAAAA
89198589 TATATTATTTTCT
1 TATATTATTTTCT
*
89198602 TATTTTATTTT-T
1 TATATTATTTTCT
89198614 TATATTATTTT
1 TATATTATTTT
89198625 AGCAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TATATTATTTTCT
Found at i:89198921 original size:12 final size:13
Alignment explanation
Indices: 89198889--89198924 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
89198879 TTTTTTAAAA
89198889 TATATTATTTTCT
1 TATATTATTTTCT
*
89198902 TATTTTATTTT-T
1 TATATTATTTTCT
89198914 TATATTATTTT
1 TATATTATTTT
89198925 AGCAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TATATTATTTTCT
Found at i:89198973 original size:300 final size:296
Alignment explanation
Indices: 89198010--89199036 Score: 1414
Period size: 300 Copynumber: 3.5 Consensus size: 296
89198000 ATAAGTAAAA
*
89198010 TATTTTCGTATATTATTTTTTATATTATTTTAGC-AAAAATGTTTC-AA---A-T-G-TATTATG
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTAGTTATTATG
* * * * *
89198067 GAAGTGTTTTTTATATTAATTTAATAAATAACACTGATTTTGGCACTTT-TTCGTATTTTTTATT
66 TAAGTGTTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTCTTTGTA---TTT-TT
* * *
89198131 TTCATATCTTATTTTTTAAAATATATTACTTTCGTATTATTTTATTT-TAAAACCCTTATTTTAG
127 TTCGTATCTTATTTTTTAAAATATATTATTTTCG---TATTTTATTTCTTAAA---TTATTTTAG
*
89198195 TACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATAAATAACCCTGATT
186 TACATAATGTTTCAAATGTATTATTTAAGT-ATTTTTTATATTTTTTTAATAAATAACCCTGATT
89198260 TTAGCACTTTATTCGTATTTTTTCGTA-ATT-TTTTTTAAAATATAT
250 TTAGCACTTTATTCGTATTTTTTCGTATATTATTTTTTAAAATATAT
* * * *
89198305 TATTTTCGTA-TTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTA-TT-TAAT
1 TATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTAGTTATTAT
* * *
89198367 TTAAGTGTTTTTTATA-T-TTTTAATAAATAACCCTGATTTT-AGCACTTTATTTGTA-TTTTTT
65 GTAAGTGTTTTTTATACTAATTTAATAAATAACCCTGATTTTGA-CACTTTCTTTGTATTTTTTT
* *
89198428 CGTA-ATT-TTTTTTAAAATATATTATTTTCGTA-TTTATTTCTTTATATTATTTTAGTACATAA
129 CGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTC-TTAAATTATTTTAGTACATAA
**
89198490 TGTTTCAAATGTATTATTTAAGCGTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACT
193 TGTTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACT
*
89198555 TTATTCGTATTTTTTCATATATTATTTTTTAAAATATAT
258 TTATTCGTATTTTTTCGTATATTATTTTTTAAAATATAT
*
89198594 TATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTAGGTATATTA
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTA-GT-TATTA
89198659 TGTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTCTTTGTATTTTTT
64 TGTAAGTG-TTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTCTTTGTATTTTTT
*
89198724 TCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTCAATTATTTTAGTACATAA
128 TCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTAAATTATTTTAGTACATAA
* * *
89198789 TGTTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTCAATAAATAACCCTAATTTTAGCATT
193 TGTTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACT
*
89198854 TTATTCTTATTTTTTTCGTATATTATTTTTTAAAATATAT
258 TTATTCGTA-TTTTTTCGTATATTATTTTTTAAAATATAT
*
89198894 TATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTAGGTATATTA
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTA-GT-TATTA
* * *
89198959 TGTAAGTGTTTTTTTATACTAATTTAATAAATAACCTTGATTTTGACACTTTCTTTATATTATTT
64 TGTAAGTG-TTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTCTTTGTATTTTTT
*
89199024 TCGTATTTTATTT
128 TCGTATCTTATTT
89199037 CTTCATATTA
Statistics
Matches: 662, Mismatches: 41, Indels: 53
0.88 0.05 0.07
Matches are distributed among these distances:
287 59 0.09
288 41 0.06
289 66 0.10
290 9 0.01
291 4 0.01
292 1 0.00
293 31 0.05
294 17 0.03
295 33 0.05
296 45 0.07
297 13 0.02
298 2 0.00
299 139 0.21
300 183 0.28
301 18 0.03
302 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.56
Consensus pattern (296 bp):
TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTAGTTATTATG
TAAGTGTTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTCTTTGTATTTTTTTCG
TATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTAAATTATTTTAGTACATAATGT
TTCAAATGTATTATTTAAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTA
TTCGTATTTTTTCGTATATTATTTTTTAAAATATAT
Found at i:89199374 original size:153 final size:145
Alignment explanation
Indices: 89199014--89199475 Score: 618
Period size: 142 Copynumber: 3.2 Consensus size: 145
89199004 ACACTTTCTT
*
89199014 TATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTT
1 TATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTT
*
89199079 AAGT-ATTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTC-TA-TTTTTT-TG
66 AAGTGTTTTTTATATTTTTT-AATAAATAA-CCTGATTTTAGCACTTTATTCGTATTTTTTTCTG
89199140 TATATTA-TTTTTAAAA
129 TATATTATTTTTTAAAA
* * * * ** *
89199156 TATATTATTTTCTTATTTTA-TT-TTTATATTATTTTAGCAAAAAAAATTTCAAATGTATTACTT
1 TATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTT
* * * *
89199219 AAGTGTTTCTTTATATTAATTTACTAAATAACTCTGATTTT-GATACTTTCTTCGTAATTTTTTT
66 AAGTGTTT-TTTATATT-TTTTAATAAATAAC-CTGATTTTAG-CACTTTATTCGT-A--TTTTT
89199283 ATTCTAGTATATTATTTTTTAAAA
124 -TTCT-GTATATTATTTTTTAAAA
89199307 TATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTT
1 TATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTT
89199372 AAGTGTTTTTTATATTTTTTTAATAAATAACCTTGATTTTAGCACTTTATTCGTATTTTTTTC-G
66 AAGTGTTTTTTATA-TTTTTTAATAAATAACC-TGATTTTAGCACTTTATTCGTATTTTTTTCTG
89199436 TATATTATTTTTTAAAA
129 TATATTATTTTTTAAAA
*
89199453 TATATTATTTTGGTATTTTATTT
1 TATATTATTTTCGTATTTTATTT
89199476 TAGCATAAAT
Statistics
Matches: 276, Mismatches: 25, Indels: 34
0.82 0.07 0.10
Matches are distributed among these distances:
140 38 0.14
141 6 0.02
142 51 0.18
143 4 0.01
144 1 0.00
146 40 0.14
147 4 0.01
148 5 0.02
149 6 0.02
150 8 0.03
151 30 0.11
152 37 0.13
153 46 0.17
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.57
Consensus pattern (145 bp):
TATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTT
AAGTGTTTTTTATATTTTTTAATAAATAACCTGATTTTAGCACTTTATTCGTATTTTTTTCTGTA
TATTATTTTTTAAAA
Found at i:89199493 original size:133 final size:126
Alignment explanation
Indices: 89199355--89199602 Score: 325
Period size: 133 Copynumber: 1.9 Consensus size: 126
89199345 GTACATAATG
** * *
89199355 TTTCAAATGTATTATTTAAGTGTTTTTTATATTTTTTTAATAAATAACCTTGATTTTAGCACTTT
1 TTTCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACC-TGACTTTAGCACCTT
* * *
89199420 ATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTGGTATTTTATTTTAGCATAAA
65 ATTC--A-TATTTTCG-AT-TT-TTTTTTAAAATATACTATTTTGATATTTTATTTTAGCATAAA
89199485 TTC
124 TTC
* * *
89199488 TTTCAAATGTATTATTTAAGTTTTTTTTATATTAATTTAATAAATAACCTGACTTTGGCACCTTG
1 TTTCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCTGACTTTAGCACCTTA
* *
89199553 TTCATATTTTCGGTTTTTTTTTAAAATATACTATTTTTATATTTTATTTT
66 TTCATATTTTCGATTTTTTTTTAAAATATACTATTTTGATATTTTATTTT
89199603 TATATTATTT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
126 31 0.30
127 2 0.02
128 1 0.01
129 7 0.07
130 1 0.01
132 15 0.15
133 46 0.45
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.57
Consensus pattern (126 bp):
TTTCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCTGACTTTAGCACCTTA
TTCATATTTTCGATTTTTTTTTAAAATATACTATTTTGATATTTTATTTTAGCATAAATTC
Found at i:89199600 original size:13 final size:13
Alignment explanation
Indices: 89199584--89199608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89199574 TAAAATATAC
89199584 TATTTTTATATTT
1 TATTTTTATATTT
89199597 TATTTTTATATT
1 TATTTTTATATT
89199609 ATTTTAACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTTTATATTT
Found at i:89199714 original size:14 final size:14
Alignment explanation
Indices: 89199675--89199718 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
89199665 TATTTTTCTC
89199675 ATATTTTATTTTTTA
1 ATATTTTA-TTTTTA
* *
89199690 ATTAATATATTTTTA
1 A-TATTTTATTTTTA
89199705 ATATTTTATTTTTA
1 ATATTTTATTTTTA
89199719 TACTATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 11 0.46
15 8 0.33
16 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATATTTTATTTTTA
Found at i:89199727 original size:16 final size:16
Alignment explanation
Indices: 89199662--89199727 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
89199652 TTTTTTCGTT
*
89199662 TTTTATTTTTCT-CATA
1 TTTTATTTTTATAC-TA
*
89199678 TTTTATTTTT-TAATTA
1 TTTTATTTTTAT-ACTA
* *
89199694 ATATATTTTTA-A-TA
1 TTTTATTTTTATACTA
89199708 TTTTATTTTTATACTA
1 TTTTATTTTTATACTA
89199724 TTTT
1 TTTT
89199728 TTGTAAAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 11 0.28
15 3 0.08
16 26 0.65
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTATTTTTATACTA
Found at i:89200076 original size:14 final size:14
Alignment explanation
Indices: 89200057--89200119 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
89200047 AAAAAAATAC
89200057 CTTTTTCTTTCCTT
1 CTTTTTCTTTCCTT
* *
89200071 CTTTTTCCTTCCCT
1 CTTTTTCTTTCCTT
*
89200085 CTTCTTCTTCTCCTTCT
1 CTTTTTCTT-TCC-T-T
89200102 CTTTTTCTTT--TT
1 CTTTTTCTTTCCTT
89200114 CTTTTT
1 CTTTTT
89200120 TCTTCTCTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 7 0.17
13 1 0.03
14 19 0.47
15 3 0.08
16 1 0.03
17 9 0.22
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
CTTTTTCTTTCCTT
Found at i:89200090 original size:17 final size:18
Alignment explanation
Indices: 89200068--89200114 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
89200058 TTTTTCTTTC
89200068 CTTCTTTTTCCTTC-CCT
1 CTTCTTTTTCCTTCTCCT
*
89200085 CTTCTTCTTCTCCTTCTCTT
1 CTTCTT-TT-TCCTTCTCCT
*
89200105 TTTCTTTTTC
1 CTTCTTTTTC
89200115 TTTTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 8 0.32
20 7 0.28
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTCTTTTTCCTTCTCCT
Found at i:89200175 original size:3 final size:3
Alignment explanation
Indices: 89200156--89200215 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
89200146 TCCTCCTCTC
* *
89200156 CTT CTT TTT CTTT CTT CTT CTT C-T CTT CTT -TC CTT CTT CTCT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T CTT
*
89200201 TTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT
89200216 TGTTCCCGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 3 0.06
3 38 0.81
4 6 0.13
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:89200177 original size:16 final size:16
Alignment explanation
Indices: 89200156--89200212 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
89200146 TCCTCCTCTC
89200156 CTTCTTTTTCTTTCTT
1 CTTCTTTTTCTTTCTT
89200172 CTTCTTCTCTTCTTTCCTT
1 CTTCTT-T-TTCTTT-CTT
*
89200191 CTTCTCTCTT-TTTCTT
1 CTTCT-TTTTCTTTCTT
89200207 CTTCTT
1 CTTCTT
89200213 CTTTGTTCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 1 0.03
16 14 0.39
17 4 0.11
18 8 0.22
19 8 0.22
20 1 0.03
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
CTTCTTTTTCTTTCTT
Found at i:89200184 original size:38 final size:38
Alignment explanation
Indices: 89200142--89200215 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
89200132 CGCCGGCCTC
89200142 CTTCTCCTCC-TCTCCT-TCTTTTTCTTTCTTCTTCTTCT
1 CTTCT-CTCCTTCTCCTCTCTTTTTC-TTCTTCTTCTTCT
* *
89200180 CTTCTTTCCTTCTTCTCTCTTTTTCTTCTTCTTCTT
1 CTTCTCTCCTTCTCCTCTCTTTTTCTTCTTCTTCTT
89200216 TGTTCCCGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 3 0.09
38 21 0.66
39 8 0.25
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (38 bp):
CTTCTCTCCTTCTCCTCTCTTTTTCTTCTTCTTCTTCT
Found at i:89200352 original size:27 final size:27
Alignment explanation
Indices: 89200322--89200388 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
89200312 ATCTGGCACC
*
89200322 GGTGCCGCCTCTGCCAGAGGCAACACT
1 GGTGCCGCCTCTGCCAAAGGCAACACT
89200349 GGTGCCGCCTCTGCCAAAGGCAACACT
1 GGTGCCGCCTCTGCCAAAGGCAACACT
89200376 GGTGCCGCCTCTG
1 GGTGCCGCCTCTG
89200389 GCACCAACAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.16, C:0.37, G:0.30, T:0.16
Consensus pattern (27 bp):
GGTGCCGCCTCTGCCAAAGGCAACACT
Found at i:89200437 original size:20 final size:18
Alignment explanation
Indices: 89200412--89200458 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
89200402 CCCTTTTTTA
89200412 TTTTTTTTT-TGTTTTCAGCG
1 TTTTTTTTTCT-TTTTCA--G
89200432 TTTTTTTTTCTTTTTCAG
1 TTTTTTTTTCTTTTTCAG
89200450 TTTTTTTTT
1 TTTTTTTTT
89200459 ACTGTTTCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 10 0.38
20 15 0.58
21 1 0.04
ACGTcount: A:0.04, C:0.09, G:0.09, T:0.79
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTCAG
Found at i:89200466 original size:19 final size:18
Alignment explanation
Indices: 89200412--89200466 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
89200402 CCCTTTTTTA
89200412 TTTTTTTTT-TGTTTTCAGCG
1 TTTTTTTTTCTG-TTTCA--G
*
89200432 TTTTTTTTTCTTTTTCAG
1 TTTTTTTTTCTGTTTCAG
89200450 TTTTTTTTTACTGTTTC
1 TTTTTTTTT-CTGTTTC
89200467 GGCTGTCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 10 0.32
19 6 0.19
20 14 0.45
21 1 0.03
ACGTcount: A:0.05, C:0.11, G:0.09, T:0.75
Consensus pattern (18 bp):
TTTTTTTTTCTGTTTCAG
Found at i:89203335 original size:26 final size:26
Alignment explanation
Indices: 89203299--89203408 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
89203289 TGATACAAAT
89203299 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89203325 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
89203351 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
89203377 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89203403 TGATAA
1 TGATAA
89203409 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:89204888 original size:28 final size:26
Alignment explanation
Indices: 89204846--89204920 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
89204836 AAAAGTAGCT
* *
89204846 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* *
89204874 AAATTACTGTTATACCCCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
89204900 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
89204921 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Found at i:89205065 original size:27 final size:27
Alignment explanation
Indices: 89205024--89205163 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
89205014 GAGGAAGCGT
*
89205024 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
89205051 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
89205078 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
89205105 TCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
89205133 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
89205159 TCTGG
1 TCTGG
89205164 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 81 0.81
28 14 0.14
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:89205109 original size:54 final size:55
Alignment explanation
Indices: 89205024--89205163 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
89205014 GAGGAAGCGT
* * * *
89205024 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
* *
89205078 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
* *
89205133 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
89205164 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 59 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
Found at i:89208940 original size:16 final size:17
Alignment explanation
Indices: 89208908--89208946 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
89208898 ATTTAGAATC
*
89208908 ATTTACTTGTCTTATTT
1 ATTTATTTGTCTTATTT
89208925 ATTTATTTGT-TTATTT
1 ATTTATTTGTCTTATTT
*
89208941 TTTTAT
1 ATTTAT
89208947 GTTATTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (17 bp):
ATTTATTTGTCTTATTT
Found at i:89209098 original size:16 final size:16
Alignment explanation
Indices: 89209079--89209109 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89209069 GTTTATTATG
89209079 TATTCTATTCATTTTT
1 TATTCTATTCATTTTT
*
89209095 TATTTTATTCATTTT
1 TATTCTATTCATTTT
89209110 ATATATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTCTATTCATTTTT
Found at i:89213313 original size:74 final size:74
Alignment explanation
Indices: 89213160--89213332 Score: 197
Period size: 74 Copynumber: 2.3 Consensus size: 74
89213150 TTGCGCTCTG
* ** * * * *
89213160 CAGATCCGTTTAATTCCTTTCCCTTCAATTAGGTTTTTGAATTTAAGATTTGCGTATTTTCATAG
1 CAGATCCGTTTAATTCTTTTTTCTCCAATTAGGGTTTCGAATTTAAGATTTGCGTATTCTCATAG
*
89213225 CTCTTGTTT
66 ATCTTGTTT
* *
89213234 CAGATCCGTTTAATTCTTTTTTCTCCAATTAGGGTTTCGAATTTATGATTTGCGTATTCTCATGG
1 CAGATCCGTTTAATTCTTTTTTCTCCAATTAGGGTTTCGAATTTAAGATTTGCGTATTCTCATAG
*
89213299 ATTTTGCTTT
66 ATCTTG-TTT
89213309 -AGATCCGCTGTTAATT-TGTTTTTC
1 CAGATCCG-T-TTAATTCT-TTTTTC
89213333 ATCTTTATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
74 67 0.80
75 5 0.06
76 12 0.14
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (74 bp):
CAGATCCGTTTAATTCTTTTTTCTCCAATTAGGGTTTCGAATTTAAGATTTGCGTATTCTCATAG
ATCTTGTTT
Found at i:89223491 original size:25 final size:24
Alignment explanation
Indices: 89223442--89223506 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
89223432 CTTATATATT
*
89223442 ATTTAG-ATTTTTT-AAAAAAAGA
1 ATTTAGAATTTTTTAAAAAAAAAA
*
89223464 A-TTATAATTTTTTAAAAAATATAAA
1 ATTTAGAATTTTTTAAAAAA-A-AAA
89223489 ATTTAGAATTTTTATAAA
1 ATTTAGAATTTTT-TAAA
89223507 TATTTTGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 3 0.09
22 8 0.24
23 5 0.15
24 1 0.03
25 3 0.09
26 10 0.29
27 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.45
Consensus pattern (24 bp):
ATTTAGAATTTTTTAAAAAAAAAA
Found at i:89223539 original size:20 final size:20
Alignment explanation
Indices: 89223514--89223551 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
89223504 AAATATTTTG
89223514 AATTTTAAAAATTATTTTAA
1 AATTTTAAAAATTATTTTAA
*
89223534 AATTTTGAAAATTATTTT
1 AATTTTAAAAATTATTTT
89223552 GAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
AATTTTAAAAATTATTTTAA
Found at i:89223559 original size:20 final size:19
Alignment explanation
Indices: 89223489--89223559 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
89223479 AAAATATAAA
*
89223489 ATTTAGAATTTTTATAAA-T
1 ATTTTGAATTTTTA-AAATT
*
89223508 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTTAAAATT
* *
89223527 ATTTTAAAATTTTGAAAATT
1 ATTTT-GAATTTTTAAAATT
89223547 ATTTTGAATTTTT
1 ATTTTGAATTTTT
89223560 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.07
19 24 0.55
20 17 0.39
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:89223602 original size:26 final size:26
Alignment explanation
Indices: 89223568--89223625 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
89223558 TTTTTTATTT
*
89223568 TTTTGAGATAGAGATCAATTTGTTTA
1 TTTTCAGATAGAGATCAATTTGTTTA
89223594 TTTTCAGATAGAGATCAATTTGTTTA
1 TTTTCAGATAGAGATCAATTTGTTTA
89223620 TTTTCA
1 TTTTCA
89223626 AAATTGATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.48
Consensus pattern (26 bp):
TTTTCAGATAGAGATCAATTTGTTTA
Found at i:89230349 original size:3 final size:3
Alignment explanation
Indices: 89230341--89230365 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
89230331 ACTATTACTG
89230341 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
89230366 AATTTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:89235643 original size:35 final size:35
Alignment explanation
Indices: 89235597--89235666 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
89235587 TTCGAGACTA
89235597 AGAACAACTGACTCTAGGTTGATTAATTGAAATCT
1 AGAACAACTGACTCTAGGTTGATTAATTGAAATCT
89235632 AGAACAACTGACTCTAGGTTGATTAATTGAAATCT
1 AGAACAACTGACTCTAGGTTGATTAATTGAAATCT
89235667 CTTTCTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (35 bp):
AGAACAACTGACTCTAGGTTGATTAATTGAAATCT
Found at i:89236327 original size:26 final size:26
Alignment explanation
Indices: 89236298--89236405 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
89236288 TGGTACAAAT
89236298 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
89236324 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89236350 TGATAATGGGTTAGGTAAATGTTGCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89236376 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89236402 TGAT
1 TGAT
89236406 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89239401 original size:30 final size:30
Alignment explanation
Indices: 89239367--89239424 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
89239357 CACGGACTGG
* *
89239367 CACATGGGCATGTGGCTAGCCCGTGTGGCT
1 CACATGGCCATGTGGCCAGCCCGTGTGGCT
* *
89239397 CACATGGCCGTGTGGCCAGCCTGTGTGG
1 CACATGGCCATGTGGCCAGCCCGTGTGG
89239425 AAATGCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.22
Consensus pattern (30 bp):
CACATGGCCATGTGGCCAGCCCGTGTGGCT
Found at i:89242207 original size:27 final size:27
Alignment explanation
Indices: 89242164--89242225 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
89242154 TTTTATCCCA
89242164 ATAAAA-TTTTGACGATTTTGCCAC-TG
1 ATAAAATTTTTGACGATTTTGCC-CGTG
*
89242190 ATAAAATTTTTGATGATTTTGCCCGTG
1 ATAAAATTTTTGACGATTTTGCCCGTG
*
89242217 GTAAAATTT
1 ATAAAATTT
89242226 CAAGAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 7 0.22
27 25 0.78
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (27 bp):
ATAAAATTTTTGACGATTTTGCCCGTG
Found at i:89249775 original size:11 final size:11
Alignment explanation
Indices: 89249759--89249793 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
89249749 TATAATATTA
89249759 ATATTTTAATT
1 ATATTTTAATT
89249770 ATATTTTAATT
1 ATATTTTAATT
89249781 AATATTTT-ATT
1 -ATATTTTAATT
89249792 AT
1 AT
89249794 GAAAATGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.09
11 14 0.61
12 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATTTTAATT
Found at i:89249788 original size:12 final size:12
Alignment explanation
Indices: 89249755--89249789 Score: 63
Period size: 11 Copynumber: 3.0 Consensus size: 12
89249745 ATGTTATAAT
89249755 ATTAATATTTTA
1 ATTAATATTTTA
89249767 ATT-ATATTTTA
1 ATTAATATTTTA
89249778 ATTAATATTTTA
1 ATTAATATTTTA
89249790 TTATGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTAATATTTTA
Found at i:89249943 original size:11 final size:11
Alignment explanation
Indices: 89249927--89249953 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
89249917 AATCTCACTT
89249927 TTTCTCTCAAA
1 TTTCTCTCAAA
89249938 TTTCTCTCAAA
1 TTTCTCTCAAA
89249949 TTTCT
1 TTTCT
89249954 ATAGCCACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.26, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:89252175 original size:31 final size:31
Alignment explanation
Indices: 89252140--89252201 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
89252130 CCAAACCAAG
*
89252140 ATTCAATCAAATACAAGATTCGAGGATGAAT
1 ATTCAATCAAATACAAGATTCAAGGATGAAT
89252171 ATTCAATCAAATACAAGATTCAAGGATGAAT
1 ATTCAATCAAATACAAGATTCAAGGATGAAT
89252202 CTTTTCGAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.26
Consensus pattern (31 bp):
ATTCAATCAAATACAAGATTCAAGGATGAAT
Found at i:89256157 original size:43 final size:42
Alignment explanation
Indices: 89256102--89256202 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 42
89256092 ATCTCGTACA
* * *
89256102 ATGCCAAAGTCCCAGAT-GTGGTCTTACATGTAATCAAATATTG
1 ATGCCAATGTCCCAGATAG-GGTCTTACATGAAATCAAATA-CG
*
89256145 ATGCCACTGTCCCAGATAGGGTCTTACATGAAATCAAATACG
1 ATGCCAATGTCCCAGATAGGGTCTTACATGAAATCAAATACG
89256187 ATGCCAATGTCCCAGA
1 ATGCCAATGTCCCAGA
89256203 CGCCATCTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
42 16 0.31
43 35 0.67
44 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGATAGGGTCTTACATGAAATCAAATACG
Found at i:89256212 original size:42 final size:42
Alignment explanation
Indices: 89256123--89256247 Score: 112
Period size: 43 Copynumber: 2.9 Consensus size: 42
89256113 CCAGATGTGG
* * * **
89256123 TCTTACATGTAATCAAATATTGATGCCACTGTCCCAGATAGGG
1 TCTTACATGAAATCAAATA-CGATGCCAATGTCCCAGATAGCA
*
89256166 TCTTACATGAAATCAAATACGATGCCAATGTCCCAGA-CGCCA
1 TCTTACATGAAATCAAATACGATGCCAATGTCCCAGATAG-CA
*
89256208 TCTTACACAT-AAATCATAAGT-CGATGCCAACGTCCCAGAT
1 TCTT--ACATGAAATCA-AA-TACGATGCCAATGTCCCAGAT
89256248 GTGGTCTTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 20 0.29
43 24 0.35
44 23 0.33
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
TCTTACATGAAATCAAATACGATGCCAATGTCCCAGATAGCA
Found at i:89261566 original size:22 final size:22
Alignment explanation
Indices: 89261518--89261570 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
89261508 TGAGAGTGGA
*
89261518 AAAAGAAAGTGAAAATGAAAAAG
1 AAAAGAAA-AGAAAATGAAAAAG
* *
89261541 -AAAGAAAAGAAAATGAGAGAG
1 AAAAGAAAAGAAAATGAAAAAG
89261562 AAAAGAAAA
1 AAAAGAAAA
89261571 AGAGTTGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.06
Consensus pattern (22 bp):
AAAAGAAAAGAAAATGAAAAAG
Found at i:89270449 original size:6 final size:6
Alignment explanation
Indices: 89270440--89270538 Score: 171
Period size: 6 Copynumber: 16.5 Consensus size: 6
89270430 AACTAACACT
*
89270440 AAAAGA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
89270488 AAAATA AAAATA AACATA AAAATA AAAATA AAAATA AAAATA AAACTA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
89270536 AAA
1 AAA
89270539 TCAATGGTCT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 89 1.00
ACGTcount: A:0.82, C:0.02, G:0.01, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:89277470 original size:3 final size:3
Alignment explanation
Indices: 89277462--89277556 Score: 102
Period size: 3 Copynumber: 29.3 Consensus size: 3
89277452 AAAGAAATGG
89277462 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
*
89277508 TAAA TAAA TAAA TAAA TAAA TAA TAGA -AA TAA TAA TAAA GAA TAA TAA
1 T-AA T-AA T-AA T-AA T-AA TAA TA-A TAA TAA TAA T-AA TAA TAA TAA
89277556 T
1 T
89277557 TAAAGAAAAT
Statistics
Matches: 86, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
2 1 0.01
3 59 0.69
4 26 0.30
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:89277511 original size:4 final size:4
Alignment explanation
Indices: 89277502--89277530 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
89277492 TAATAATAAT
89277502 AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA A
89277531 TAGAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:89277567 original size:42 final size:42
Alignment explanation
Indices: 89277484--89277567 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
89277474 TAATAATAAT
*
89277484 AATAATAATAATAATAATAATAAATAAATAAATAAATAAATA
1 AATAATAATAATAATAATAATAAATAAATAAATAAAAAAATA
*
89277526 AATAATAGA-AATAATAATAA-AGAAT-AATAATTAAAGAAAATA
1 AATAATA-ATAATAATAATAATA-AATAAATAAATAAA-AAAATA
89277568 GGGGAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
41 10 0.27
42 26 0.70
43 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (42 bp):
AATAATAATAATAATAATAATAAATAAATAAATAAAAAAATA
Found at i:89277833 original size:17 final size:18
Alignment explanation
Indices: 89277800--89277834 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
89277790 AAAAGGGAGG
89277800 AAGAAAAGGAAAGGGAAA
1 AAGAAAAGGAAAGGGAAA
*
89277818 AAGAAAA-GACAGGGAAA
1 AAGAAAAGGAAAGGGAAA
89277835 GAAGGGGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.03, G:0.31, T:0.00
Consensus pattern (18 bp):
AAGAAAAGGAAAGGGAAA
Found at i:89280121 original size:47 final size:47
Alignment explanation
Indices: 89280049--89280190 Score: 223
Period size: 47 Copynumber: 3.0 Consensus size: 47
89280039 GTTGAATTTA
*
89280049 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATATGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
*
89280095 AAGTTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
* * * *
89280142 AAGCTTGTTAAATTTTCCCTTATTATTTTCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
89280189 AA
1 AA
89280191 ACAAAATTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 11 0.12
47 77 0.88
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.46
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:89281062 original size:45 final size:44
Alignment explanation
Indices: 89280998--89281155 Score: 212
Period size: 45 Copynumber: 3.5 Consensus size: 44
89280988 TGCACAGTAT
*
89280998 TATTCGGGCCTTTGAGCCTAGCAAGCTATAATGCCGGTGAGATAC
1 TATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
89281043 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATGC
1 TATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
89281088 TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGTCGGTGAAATGA-
1 TATTCGGGCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-AC
*
89281133 TA-TCGGGCTTCGAGCCTAGCAGG
1 TATTCGGGCTTTGAGCCTAGCAGG
89281156 TGAAATGCTG
Statistics
Matches: 103, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
43 12 0.12
44 12 0.12
45 79 0.77
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (44 bp):
TATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:89284848 original size:23 final size:23
Alignment explanation
Indices: 89284816--89284863 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
89284806 AGAACTTACA
*
89284816 ATTAAGAATAAGAACAAGTATTT
1 ATTAAAAATAAGAACAAGTATTT
89284839 ATTAAAAATAAGAACAAGTATTT
1 ATTAAAAATAAGAACAAGTATTT
89284862 AT
1 AT
89284864 CATATAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAGAACAAGTATTT
Found at i:89287460 original size:3 final size:3
Alignment explanation
Indices: 89287452--89287507 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
89287442 CAAATAATGA
* *
89287452 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT CAA- AAG AGT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
89287496 AAAT AAT AAT AA
1 -AAT AAT AAT AA
89287508 AAAACAAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.09
3 37 0.80
4 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:89287777 original size:8 final size:8
Alignment explanation
Indices: 89287752--89287785 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
89287742 AACTAAGAAG
89287752 AAAAAAAT
1 AAAAAAAT
89287760 AAAGAAAAT
1 AAA-AAAAT
*
89287769 ATAAAAAT
1 AAAAAAAT
89287777 AAAAAAAT
1 AAAAAAAT
89287785 A
1 A
89287786 TTAATAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (8 bp):
AAAAAAAT
Found at i:89287783 original size:16 final size:16
Alignment explanation
Indices: 89287754--89287819 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 16
89287744 CTAAGAAGAA
89287754 AAAAATAAAGAAAATAT
1 AAAAATAAA-AAAATAT
89287771 AAAAATAAAAAAATATT
1 AAAAATAAAAAAATA-T
* *
89287788 AATAAGAAAAAATATGAAAT
1 AAAAATAAAAAA-AT---AT
89287808 AAAAATAAAAAA
1 AAAAATAAAAAA
89287820 GAAAAGAGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.15
17 20 0.50
18 2 0.05
20 11 0.28
21 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (16 bp):
AAAAATAAAAAAATAT
Found at i:89287791 original size:14 final size:15
Alignment explanation
Indices: 89287756--89287812 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 15
89287746 AAGAAGAAAA
*
89287756 AAATAAAGAAAATATAA
1 AAATAAA-AAAATAT-G
89287773 AAATAAAAAAATAT-
1 AAATAAAAAAATATG
*
89287787 TAATAAGAAAAAATATG
1 AAAT-A-AAAAAATATG
89287804 AAATAAAAA
1 AAATAAAAA
89287813 TAAAAAAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 3 0.09
15 5 0.14
16 17 0.49
17 10 0.29
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.19
Consensus pattern (15 bp):
AAATAAAAAAATATG
Found at i:89288081 original size:14 final size:14
Alignment explanation
Indices: 89288062--89288092 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
89288052 GGAACAAGAA
89288062 AGAGGGGAAAGGGG
1 AGAGGGGAAAGGGG
89288076 AGAGGGGAAAGGGG
1 AGAGGGGAAAGGGG
89288090 AGA
1 AGA
89288093 AGGTGTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (14 bp):
AGAGGGGAAAGGGG
Found at i:89289700 original size:49 final size:48
Alignment explanation
Indices: 89289645--89289771 Score: 136
Period size: 49 Copynumber: 2.7 Consensus size: 48
89289635 ATATCGAGGC
89289645 CAATGCCATGTCCCAGATAGGTCTTACACTAGCTCTCATCTATTGGTGT
1 CAATGCCATGTCCCAGATAGGTCTTACACTAGCTCTCATCTA-TGGTGT
* * * * * * * * *
89289694 CGATGCCATGTCCTAGATAAGTGTTACACTAACACACAAC-A-AGT-T
1 CAATGCCATGTCCCAGATAGGTCTTACACTAGCTCTCATCTATGGTGT
89289739 -AATGCCATGTCCCAGATAGGTCTTACACTAGCT
1 CAATGCCATGTCCCAGATAGGTCTTACACTAGCT
89289772 TGTATATCTC
Statistics
Matches: 63, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
44 27 0.43
45 1 0.02
46 2 0.03
48 1 0.02
49 32 0.51
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (48 bp):
CAATGCCATGTCCCAGATAGGTCTTACACTAGCTCTCATCTATGGTGT
Found at i:89289883 original size:46 final size:43
Alignment explanation
Indices: 89289788--89289917 Score: 143
Period size: 46 Copynumber: 2.9 Consensus size: 43
89289778 TCTCGAGGTT
* * *
89289788 GATGCATGTCCTAGACATATCTTACACTGACTCTCGTCTAAATGTC
1 GATGCATGTCCTAGACATGTCTTACACTGGCTCTC--AT-AATGTC
*
89289834 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGCTCTCATAATGT---C
* * *
89289880 GATGCATGTCTTAGACATGTTTTACACTGGCTCACATA
1 GATGCATGTCCTAGACATGTCTTACACTGGCTCTCATA
89289918 CCACCCAATG
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
43 5 0.07
44 1 0.01
46 67 0.92
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCTCTCATAATGTC
Found at i:89290903 original size:530 final size:530
Alignment explanation
Indices: 89289895--89290957 Score: 1903
Period size: 530 Copynumber: 2.0 Consensus size: 530
89289885 ATGTCTTAGA
*
89289895 CATGTTTTACACTGGCTCACATACCACCCAATGTCATGGTACGAATATCCAAGTCTATTTCAAAT
1 CATGTTTTACACTGGCTCACATACCACCCAATGTCATGGTACGAATATCCAAGTCTATTACAAAT
* * *
89289960 GTTCAACCGGAAGTCTTTATTACATTAATTTCTCGACATGCATTCTCATAATCATAATCCAACAA
66 GTTCAACCGAAAGTCTTTACTACATTAATTTCTCGACATGCATTCTCATAATCACAATCCAACAA
89290025 TTCATGCAATATCAATTCAATCATACATCATAGAAATATAGTTGCACTATTAACATACAACTTAC
131 TTCATGCAATATCAATTCAATCATACATCATAGAAATATAGTTGCACTATTAACATACAACTTAC
89290090 CTCGGATTACAAAATGTAGGCGACTAGACGATTTAATCTACTTACTTGGCCTTCCCTCAATCTAG
196 CTCGGATTACAAAATGTAGGCGACTAGACGATTTAATCTACTTACTTGGCCTTCCCTCAATCTAG
* *
89290155 GTTCGGATTTTGTATTTCTTGATTTGTGAGGGTTACAAGCTGCTGAAATTTTCAATCTTTCAAAC
261 GTTCGGATTTTGTATTTCTTGATTTGTGACGGTTACAAGCTGCTGAAATTTTCAAGCTTTCAAAC
* *
89290220 CTCTATTTTGCTAGTGTTTTTTGGTGGAGAAGAAGATGAACAAGGGATGATATCATCTTTCTTTT
326 CTCTATTTTGCTAGTGTTTTTCGGTGGAGAAGAAGATGAAAAAGGGATGATATCATCTTTCTTTT
* *
89290285 CTTTTATTTTCTTTTTGGCCAAATAAGTCACCAAACTTCACCTAACATTTGACTATTTTAATTTC
391 CTTTTATTTTCTTTATGGCCAAATAAGTCACCAAACTTCACCTAACATTTGACTACTTTAATTTC
* *
89290350 CTTGTCTCATGGCCCGCCAAGCACCATCCTAGGGTCTATTTTCACTTTAAATACCCCTACTTTAT
456 CTTGTCTCATGGCCCGCCAAGCACCATCCTAGGGTCTATTTGCACTTTAAATACCCCTAATTTAT
89290415 AATCCATGGC
521 AATCCATGGC
*
89290425 CATGTTTTACACTGGCTCACATACCACTCAATGTCATGGTACGAATATCCAAGTCTATTACAAAT
1 CATGTTTTACACTGGCTCACATACCACCCAATGTCATGGTACGAATATCCAAGTCTATTACAAAT
*
89290490 GTTCAATCGAAAGTCTTTACTACATTAATTTCTCGACATGCATTCTCATAATCACAATCCAACAA
66 GTTCAACCGAAAGTCTTTACTACATTAATTTCTCGACATGCATTCTCATAATCACAATCCAACAA
*
89290555 TTCATGCAATATCAATTCAATCATACATCATAGCAATATAGTTGCACTATTAA-AGTACAACTTA
131 TTCATGCAATATCAATTCAATCATACATCATAGAAATATAGTTGCACTATTAACA-TACAACTTA
*
89290619 CCTCGGATTACAAAATGTAGGCGACTAGACGATTTAATCTACTTGCTTGGCCTTCCCTCAATCTA
195 CCTCGGATTACAAAATGTAGGCGACTAGACGATTTAATCTACTTACTTGGCCTTCCCTCAATCTA
*
89290684 GGTTCGGATTTTGTATTTCTTGATTTGTGACGGTTACAAGCTGCTGAAATTTTTAAGCTTTCAAA
260 GGTTCGGATTTTGTATTTCTTGATTTGTGACGGTTACAAGCTGCTGAAATTTTCAAGCTTTCAAA
89290749 CCTCTATTTTGCTAGTGTTTTTCGGTGGAGAAGAAGATGAAAAAGGGATGATATCATCTTTCTTT
325 CCTCTATTTTGCTAGTGTTTTTCGGTGGAGAAGAAGATGAAAAAGGGATGATATCATCTTTCTTT
*
89290814 TCTTTTATTTTCTTTATGTCCAAATAAGTCACCAAACTTCACCTAACATTTGACTACTTTAATTT
390 TCTTTTATTTTCTTTATGGCCAAATAAGTCACCAAACTTCACCTAACATTTGACTACTTTAATTT
*** * *
89290879 CCTTGTCTCATGGTTGGTCAAGCACCATCCTATGGTCTATTTGCACTTTAAATACCCCTAATTTA
455 CCTTGTCTCATGGCCCGCCAAGCACCATCCTAGGGTCTATTTGCACTTTAAATACCCCTAATTTA
89290944 TAATCCATGGC
520 TAATCCATGGC
89290955 CAT
1 CAT
89290958 TTAACATTAT
Statistics
Matches: 509, Mismatches: 23, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
529 1 0.00
530 508 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (530 bp):
CATGTTTTACACTGGCTCACATACCACCCAATGTCATGGTACGAATATCCAAGTCTATTACAAAT
GTTCAACCGAAAGTCTTTACTACATTAATTTCTCGACATGCATTCTCATAATCACAATCCAACAA
TTCATGCAATATCAATTCAATCATACATCATAGAAATATAGTTGCACTATTAACATACAACTTAC
CTCGGATTACAAAATGTAGGCGACTAGACGATTTAATCTACTTACTTGGCCTTCCCTCAATCTAG
GTTCGGATTTTGTATTTCTTGATTTGTGACGGTTACAAGCTGCTGAAATTTTCAAGCTTTCAAAC
CTCTATTTTGCTAGTGTTTTTCGGTGGAGAAGAAGATGAAAAAGGGATGATATCATCTTTCTTTT
CTTTTATTTTCTTTATGGCCAAATAAGTCACCAAACTTCACCTAACATTTGACTACTTTAATTTC
CTTGTCTCATGGCCCGCCAAGCACCATCCTAGGGTCTATTTGCACTTTAAATACCCCTAATTTAT
AATCCATGGC
Found at i:89295923 original size:13 final size:13
Alignment explanation
Indices: 89295905--89295932 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
89295895 TACCACGGGA
89295905 TGCAACACGGGCG
1 TGCAACACGGGCG
89295918 TGCAACACGGGCG
1 TGCAACACGGGCG
89295931 TG
1 TG
89295933 AGCCTACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.29, G:0.39, T:0.11
Consensus pattern (13 bp):
TGCAACACGGGCG
Found at i:89297326 original size:21 final size:21
Alignment explanation
Indices: 89297301--89297369 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
89297291 TATAATGATT
89297301 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
89297322 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
89297342 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
89297362 ATTATTAT
1 ATTATTAT
89297370 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:89297382 original size:15 final size:14
Alignment explanation
Indices: 89297356--89297386 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
89297346 TATGGTTTTA
89297356 TATTAGATTATTAT
1 TATTAGATTATTAT
89297370 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
89297385 TA
1 TA
89297387 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:89297780 original size:12 final size:12
Alignment explanation
Indices: 89297763--89297793 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
89297753 GAAGCATGGG
89297763 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
89297775 AGAAAAAGGGAA
1 AGAAAAAGAGAA
89297787 AGAAAAA
1 AGAAAAA
89297794 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:89306809 original size:14 final size:14
Alignment explanation
Indices: 89306790--89306821 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
89306780 AGCCATTGGA
89306790 AACACTCAAAAAAT
1 AACACTCAAAAAAT
89306804 AACACTCAAAAAAT
1 AACACTCAAAAAAT
89306818 AACA
1 AACA
89306822 GTAGAACCTC
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:0.66, C:0.22, G:0.00, T:0.12
Consensus pattern (14 bp):
AACACTCAAAAAAT
Found at i:89311241 original size:2 final size:2
Alignment explanation
Indices: 89311234--89311261 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
89311224 ACAATTAATC
89311234 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89311262 CGAGTGCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89311797 original size:26 final size:23
Alignment explanation
Indices: 89311781--89311830 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
89311771 AGTAAGCTTG
89311781 AAATTATTAATTAACTAAAGTTA
1 AAATTATTAATTAACTAAAGTTA
*
89311804 AAATTATTAA-TAA-TTAAGTTA
1 AAATTATTAATTAACTAAAGTTA
89311825 ACAATT
1 A-AATT
89311831 TCAATTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 8 0.32
22 7 0.28
23 10 0.40
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (23 bp):
AAATTATTAATTAACTAAAGTTA
Found at i:89321176 original size:29 final size:29
Alignment explanation
Indices: 89321121--89321177 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
89321111 CATAAATCAT
* * *
89321121 ACTTTTGCAAATTTACATTTTGACCCTAA
1 ACTTTTACAAATTTACAGTTAGACCCTAA
* *
89321150 ACTTTTACATATTTACAGTTAGCCCCTA
1 ACTTTTACAAATTTACAGTTAGACCCTA
89321178 GGCTCGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (29 bp):
ACTTTTACAAATTTACAGTTAGACCCTAA
Found at i:89326261 original size:26 final size:22
Alignment explanation
Indices: 89326209--89326263 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 22
89326199 ATAATTAATT
*
89326209 AATAATAAAATAATGTATATTT
1 AATAATAAAATAATGTATATTG
*
89326231 TATAATAAAATAAATGTAATATATGG
1 AATAATAAAAT-AATGT-ATAT-T-G
89326257 AATAATA
1 AATAATA
89326264 TATGGTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 10 0.38
23 5 0.19
24 4 0.15
25 1 0.04
26 6 0.23
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.36
Consensus pattern (22 bp):
AATAATAAAATAATGTATATTG
Found at i:89326487 original size:23 final size:24
Alignment explanation
Indices: 89326437--89326491 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
89326427 ATAGAATGTG
*
89326437 TAATA-TA-TATATAAATGAAATA
1 TAATATTATTATATAAATGAAAGA
89326459 TGAATATTATTATATAAAT-AAAGA
1 T-AATATTATTATATAAATGAAAGA
89326483 TAATATTAT
1 TAATATTAT
89326492 CTATTAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 12 0.41
24 7 0.24
25 9 0.31
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (24 bp):
TAATATTATTATATAAATGAAAGA
Found at i:89326587 original size:12 final size:12
Alignment explanation
Indices: 89326552--89326595 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
89326542 CGATACATAA
*
89326552 AAATAATATAAGG
1 AAAT-ATATAATG
89326565 AAATATATAATG
1 AAATATATAATG
* *
89326577 AAATTTATAATA
1 AAATATATAATG
89326589 AAATATA
1 AAATATA
89326596 ATTTATAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (12 bp):
AAATATATAATG
Found at i:89326600 original size:17 final size:18
Alignment explanation
Indices: 89326578--89326613 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
89326568 TATATAATGA
89326578 AATTTATA-ATAAAATAT
1 AATTTATAGATAAAATAT
89326595 AATTTATAGATAAAATAT
1 AATTTATAGATAAAATAT
89326613 A
1 A
89326614 CAATAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AATTTATAGATAAAATAT
Found at i:89327795 original size:16 final size:17
Alignment explanation
Indices: 89327760--89327798 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
89327750 TTCCAGATTC
89327760 TGTTTAGGCATTGGGCCT
1 TGTTTAGG-ATTGGGCCT
*
89327778 TGTTTAGG-TTGGGTCT
1 TGTTTAGGATTGGGCCT
89327794 TGTTT
1 TGTTT
89327799 GGGCCATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.08, C:0.10, G:0.33, T:0.49
Consensus pattern (17 bp):
TGTTTAGGATTGGGCCT
Found at i:89329920 original size:26 final size:26
Alignment explanation
Indices: 89329891--89330050 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
89329881 TGGTACAAAT
89329891 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
89329917 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
89329943 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
89329969 GGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
89329995 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
89330021 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
89330047 TGAT
1 TGAT
89330051 GGGCATTTCA
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 122 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:89331750 original size:54 final size:53
Alignment explanation
Indices: 89331668--89331808 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 53
89331658 AGGAAGCGTC
89331668 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
89331722 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
89331776 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
89331809 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 7 0.08
54 76 0.92
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:89331819 original size:27 final size:27
Alignment explanation
Indices: 89331668--89331826 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
89331658 AGGAAGCGTC
*
89331668 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
89331695 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
89331722 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
89331749 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
89331776 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
89331803 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
89331827 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:89337113 original size:26 final size:26
Alignment explanation
Indices: 89337030--89337184 Score: 242
Period size: 26 Copynumber: 6.0 Consensus size: 26
89337020 TGGTACAAAT
*
89337030 TGATAATGGGTTAGGTAAAT-ATCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
89337055 TGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
89337080 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
89337106 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89337132 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89337158 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89337184 T
1 T
89337185 AATGGGCATT
Statistics
Matches: 119, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
25 42 0.35
26 77 0.65
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89337156 original size:52 final size:52
Alignment explanation
Indices: 89337030--89337184 Score: 269
Period size: 52 Copynumber: 3.0 Consensus size: 52
89337020 TGGTACAAAT
*
89337030 TGATAATGGGTTAGGTAAAT-ATCCATGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
89337080 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
89337132 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
89337184 T
1 T
89337185 AATGGGCATT
Statistics
Matches: 100, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 20 0.20
51 27 0.27
52 53 0.53
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:89338844 original size:27 final size:27
Alignment explanation
Indices: 89338804--89338962 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
89338794 AGGAAGCGTC
*
89338804 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
89338831 CTGGTGGCTCTGCCAC-ATATATCT-ATT
1 CTGGTGGCTCTGCCACAAT-TATCTGA-T
* *
89338858 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
89338885 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
89338912 CTGGTGGATCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
89338939 CTGGTGACTTTGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
89338963 GAAGCCTCGC
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.10
27 100 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:89338886 original size:54 final size:53
Alignment explanation
Indices: 89338804--89338961 Score: 219
Period size: 54 Copynumber: 2.9 Consensus size: 53
89338794 AGGAAGCGTC
89338804 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
*
89338858 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
* * * * * *
89338912 CTGGTGGATCTGCCACAATATCTGTATCTGGTGACTTTGTCACA-ATATCT
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
89338962 GGAAGCCTCG
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
53 13 0.14
54 82 0.86
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
Found at i:89344875 original size:40 final size:40
Alignment explanation
Indices: 89344831--89344915 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
89344821 TAGATTGAGA
* *
89344831 ATTAGCGGCGCTTT-TCGAAAAACGCCGCTAAAGATCAAGC
1 ATTAGCGGCACTTTCCCG-AAAACGCCGCTAAAGATCAAGC
* *
89344871 ATTAGTGGCACTTTCCCGAAAACGTCGCTAAAGATCAAGC
1 ATTAGCGGCACTTTCCCGAAAACGCCGCTAAAGATCAAGC
89344911 ATTAG
1 ATTAG
89344916 TGGAAGATCG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 38 0.95
41 2 0.05
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (40 bp):
ATTAGCGGCACTTTCCCGAAAACGCCGCTAAAGATCAAGC
Found at i:89344924 original size:18 final size:18
Alignment explanation
Indices: 89344901--89344936 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
89344891 AACGTCGCTA
89344901 AAGATCAAGCATTAGTGG
1 AAGATCAAGCATTAGTGG
*
89344919 AAGATCGAGCATTAGTGG
1 AAGATCAAGCATTAGTGG
89344937 CGCTTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (18 bp):
AAGATCAAGCATTAGTGG
Found at i:89345456 original size:7 final size:6
Alignment explanation
Indices: 89345425--89345455 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
89345415 TTATGATTTA
89345425 GGGGTT GGGGTT GGGGTT GGGGTTT GGGGTT
1 GGGGTT GGGGTT GGGGTT GGGG-TT GGGGTT
89345456 TATGGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (6 bp):
GGGGTT
Found at i:89346274 original size:9 final size:8
Alignment explanation
Indices: 89346258--89346343 Score: 65
Period size: 8 Copynumber: 10.9 Consensus size: 8
89346248 TTTATATTTT
89346258 AATTTAAA
1 AATTTAAA
89346266 AATTATAAA
1 AATT-TAAA
89346275 AATCTTCAAAA
1 AAT-TT--AAA
*
89346286 AATTTTAA
1 AATTTAAA
89346294 AATTTAAA
1 AATTTAAA
89346302 AA--TAAA
1 AATTTAAA
89346308 AA--TAAA
1 AATTTAAA
*
89346314 AAATTAAA
1 AATTTAAA
*
89346322 AACTT-AA
1 AATTTAAA
*
89346329 AACTTAAA
1 AATTTAAA
89346337 AATTTAA
1 AATTTAA
89346344 TATTTTAGTC
Statistics
Matches: 67, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
6 12 0.18
7 7 0.10
8 31 0.46
9 8 0.12
10 3 0.04
11 6 0.09
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (8 bp):
AATTTAAA
Found at i:89350965 original size:15 final size:16
Alignment explanation
Indices: 89350945--89350974 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
89350935 TTTTTGTCTC
89350945 ATATATGAT-TAAAAT
1 ATATATGATCTAAAAT
89350960 ATATATGATCTAAAA
1 ATATATGATCTAAAA
89350975 GCAAGAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (16 bp):
ATATATGATCTAAAAT
Found at i:89356329 original size:32 final size:32
Alignment explanation
Indices: 89356287--89356351 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
89356277 TTGTGGTCAT
*
89356287 CAACTTAGTTCACACCAAATCTTCCAGTTAAC
1 CAACTCAGTTCACACCAAATCTTCCAGTTAAC
89356319 CAACTCAGTTCACACCAAATCTTCCAGTTAAC
1 CAACTCAGTTCACACCAAATCTTCCAGTTAAC
89356351 C
1 C
89356352 TAGGCAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.26
Consensus pattern (32 bp):
CAACTCAGTTCACACCAAATCTTCCAGTTAAC
Found at i:89356713 original size:49 final size:50
Alignment explanation
Indices: 89356638--89356733 Score: 151
Period size: 49 Copynumber: 1.9 Consensus size: 50
89356628 TATGTAGTCT
*
89356638 TTCCAGATAATACCCCACAAAAGC-TTTCATAAGATTAG-TCATAAAGGCA
1 TTCCAGATAATACACCACAAAAGCTTTTCATAAGATTAGAT-ATAAAGGCA
*
89356687 TTCCAGATAATACACCACAAAGGCTTTTCATAAGATTAGATATAAAG
1 TTCCAGATAATACACCACAAAAGCTTTTCATAAGATTAGATATAAAG
89356734 CCTTCTTAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
49 22 0.51
50 20 0.47
51 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (50 bp):
TTCCAGATAATACACCACAAAAGCTTTTCATAAGATTAGATATAAAGGCA
Found at i:89356745 original size:50 final size:50
Alignment explanation
Indices: 89356638--89356766 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
89356628 TATGTAGTCT
* *
89356638 TTCCAGATAATACCCCACAAAAGC-TTTCATAAGATTAGTCATAAAGGCA
1 TTCCAGATAATACACCACAAAGGCTTTTCATAAGATTAGTCATAAAGGCA
*
89356687 TTCCAGATAATACACCACAAAGGCTTTTCATAAGATTAGAT-ATAAA-GCC
1 TTCCAGATAATACACCACAAAGGCTTTTCATAAGATTAG-TCATAAAGGCA
* * * *
89356736 TTCTTAGATAATACGCCATAAAGACTTTTCA
1 TTC-CAGATAATACACCACAAAGGCTTTTCA
89356767 GATAATACAC
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
49 27 0.39
50 42 0.60
51 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (50 bp):
TTCCAGATAATACACCACAAAGGCTTTTCATAAGATTAGTCATAAAGGCA
Found at i:89356756 original size:25 final size:25
Alignment explanation
Indices: 89356728--89356788 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
89356718 AAGATTAGAT
* *
89356728 ATAAAGCCTTCTT-AGATAATACGCC
1 ATAAAGACTT-TTCAGATAATACACC
89356753 ATAAAGACTTTTCAGATAATACACC
1 ATAAAGACTTTTCAGATAATACACC
* *
89356778 ACAAAGGCTTT
1 ATAAAGACTTT
89356789 CTATAAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 2 0.06
25 29 0.94
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.28
Consensus pattern (25 bp):
ATAAAGACTTTTCAGATAATACACC
Found at i:89358098 original size:498 final size:498
Alignment explanation
Indices: 89357161--89358158 Score: 1978
Period size: 498 Copynumber: 2.0 Consensus size: 498
89357151 ATGACCATGC
89357161 ACACACCAGTAATAACATCTTATATCACGCACATCATATCATGTTTCTCTTTGTTTAGCTCATTT
1 ACACACCAGTAATAACATCTTATATCACGCACATCATATCATGTTTCTCTTTGTTTAGCTCATTT
89357226 ACATATTTGTGGATATCTCTCAACAAACACATATACACATATTTACATGACATGCAGCACTCAAG
66 ACATATTTGTGGATATCTCTCAACAAACACATATACACATATTTACATGACATGCAGCACTCAAG
89357291 TTTAGAGACTCACTATAGACCTACCTTTATTTTTACCAGAAGTTTTGTTTCGATTGTCTTTCCTA
131 TTTAGAGACTCACTATAGACCTACCTTTATTTTTACCAGAAGTTTTGTTTCGATTGTCTTTCCTA
89357356 ATCCAGTAGCAGCAACTACTTAAAAGGTCATAAGATTTCCATTAGAATCCCTATTACAGACATTT
196 ATCCAGTAGCAGCAACTACTTAAAAGGTCATAAGATTTCCATTAGAATCCCTATTACAGACATTT
89357421 TACTAACATTTCAACTACATATAACCCCCATACAAGGCCTTCCAGTATCATTCTTCCCTTCTCTA
261 TACTAACATTTCAACTACATATAACCCCCATACAAGGCCTTCCAGTATCATTCTTCCCTTCTCTA
89357486 ATCGTAAAGTACAAATTTGTAAGACTTACTAGAATGTAGAATCATCTACTCATTTGACGAGATCT
326 ATCGTAAAGTACAAATTTGTAAGACTTACTAGAATGTAGAATCATCTACTCATTTGACGAGATCT
89357551 AAGTCTGATCTTAATCAAATAAGAAGAAGAGAACGTGAAGGTTAGAAAGAAAAACATGAACATTA
391 AAGTCTGATCTTAATCAAATAAGAAGAAGAGAACGTGAAGGTTAGAAAGAAAAACATGAACATTA
89357616 AACAAATGGACAAACCATCAGAAATACCTATTCTCATAAATAT
456 AACAAATGGACAAACCATCAGAAATACCTATTCTCATAAATAT
89357659 ACACACCAGTAATAACATCTTATATCACGCACATCATATCATGTTTCTCTTTGTTTAGCTCATTT
1 ACACACCAGTAATAACATCTTATATCACGCACATCATATCATGTTTCTCTTTGTTTAGCTCATTT
89357724 ACATATTTGTGGATATCTCTCAACAAACACATATACACATATTTACATGACATGCAGCACTCAAG
66 ACATATTTGTGGATATCTCTCAACAAACACATATACACATATTTACATGACATGCAGCACTCAAG
89357789 TTTAGAGACTCACTATAGACCTACCTTTATTTTTACCAGAAGTTTTGTTTCGATTGTCTTTCCTA
131 TTTAGAGACTCACTATAGACCTACCTTTATTTTTACCAGAAGTTTTGTTTCGATTGTCTTTCCTA
89357854 ATCCAGTAGCAGCAACTACTTAAAAGGTCATAAGATTTCCATTAGAATCCCTATTACAGACATTT
196 ATCCAGTAGCAGCAACTACTTAAAAGGTCATAAGATTTCCATTAGAATCCCTATTACAGACATTT
*
89357919 TACTAACATTTCAACTACATGTAACCCCCATACAAGGCCTTCCAGTATCATTCTTCCCTTCTCTA
261 TACTAACATTTCAACTACATATAACCCCCATACAAGGCCTTCCAGTATCATTCTTCCCTTCTCTA
89357984 ATCGTAAAGTACAAATTTGTAAGACTTACTAGAATGTAGAATCATCTACTCATTTGACGAGATCT
326 ATCGTAAAGTACAAATTTGTAAGACTTACTAGAATGTAGAATCATCTACTCATTTGACGAGATCT
*
89358049 AAGTCTGATCTTAATCAAATAAGAAGAAGAGAACGTGAAGGTTAGAAAGAAAAACATGAACGTTA
391 AAGTCTGATCTTAATCAAATAAGAAGAAGAGAACGTGAAGGTTAGAAAGAAAAACATGAACATTA
89358114 AACAAATGGACAAACCATCAGAAATACCTATTCTCATAAATAT
456 AACAAATGGACAAACCATCAGAAATACCTATTCTCATAAATAT
89358157 AC
1 AC
89358159 TCTTGGTCCC
Statistics
Matches: 498, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
498 498 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (498 bp):
ACACACCAGTAATAACATCTTATATCACGCACATCATATCATGTTTCTCTTTGTTTAGCTCATTT
ACATATTTGTGGATATCTCTCAACAAACACATATACACATATTTACATGACATGCAGCACTCAAG
TTTAGAGACTCACTATAGACCTACCTTTATTTTTACCAGAAGTTTTGTTTCGATTGTCTTTCCTA
ATCCAGTAGCAGCAACTACTTAAAAGGTCATAAGATTTCCATTAGAATCCCTATTACAGACATTT
TACTAACATTTCAACTACATATAACCCCCATACAAGGCCTTCCAGTATCATTCTTCCCTTCTCTA
ATCGTAAAGTACAAATTTGTAAGACTTACTAGAATGTAGAATCATCTACTCATTTGACGAGATCT
AAGTCTGATCTTAATCAAATAAGAAGAAGAGAACGTGAAGGTTAGAAAGAAAAACATGAACATTA
AACAAATGGACAAACCATCAGAAATACCTATTCTCATAAATAT
Found at i:89361082 original size:33 final size:33
Alignment explanation
Indices: 89361035--89361126 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
89361025 TGAGCCCTGA
*
89361035 TATGCGAGCTATGCCATATACAAACTAAGATTG
1 TATGCGAGCTATGCCATATACGAACTAAGATTG
* * * *
89361068 TATGAGAGCTATGCCATATGA-GAACTCAGCTTT
1 TATGCGAGCTATGCCATAT-ACGAACTAAGATTG
*
89361101 TATGCGAGCTATGCCGTATACGAACT
1 TATGCGAGCTATGCCATATACGAACT
89361127 GTAACAACCC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
32 1 0.02
33 48 0.96
34 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (33 bp):
TATGCGAGCTATGCCATATACGAACTAAGATTG
Found at i:89367559 original size:23 final size:23
Alignment explanation
Indices: 89367533--89367579 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
89367523 CCAAAGTGTC
89367533 CAAGCTCTAGCATATCAATCTAT
1 CAAGCTCTAGCATATCAATCTAT
89367556 CAAGCTCTAGCATATCAATCTAT
1 CAAGCTCTAGCATATCAATCTAT
89367579 C
1 C
89367580 TCCTCCACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.30
Consensus pattern (23 bp):
CAAGCTCTAGCATATCAATCTAT
Found at i:89369260 original size:3 final size:3
Alignment explanation
Indices: 89369252--89369284 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
89369242 TGTTTCAGAG
89369252 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
89369285 ATAGGCTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:89372351 original size:20 final size:20
Alignment explanation
Indices: 89372314--89372351 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89372304 ATAGTGAGAA
*
89372314 TTTATTTTCTAAGCATAAAT
1 TTTATTTTCTAAGAATAAAT
*
89372334 TTTATTTTCTAGGAATAA
1 TTTATTTTCTAAGAATAA
89372352 TAATTCTACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTATTTTCTAAGAATAAAT
Found at i:89378183 original size:15 final size:15
Alignment explanation
Indices: 89378163--89378195 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
89378153 CCTCTTACAC
89378163 TTTTAAAT-TTATTTA
1 TTTTAAATATTA-TTA
89378178 TTTTAAATATTATTA
1 TTTTAAATATTATTA
89378193 TTT
1 TTT
89378196 ATTTACTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAAATATTATTA
Found at i:89378225 original size:18 final size:21
Alignment explanation
Indices: 89378184--89378228 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
89378174 TTTATTTTAA
*
89378184 ATATTATTATTTATTTACTGT
1 ATATTATTATTTATATACTGT
89378205 ATATTATTATTT-TATA-T-T
1 ATATTATTATTTATATACTGT
89378223 ATATTA
1 ATATTA
89378229 ATACTCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 1 0.04
20 3 0.13
21 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
ATATTATTATTTATATACTGT
Found at i:89378361 original size:21 final size:22
Alignment explanation
Indices: 89378308--89378364 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
89378298 TGCATTTATT
89378308 TATTATATTATATATTATTTTA
1 TATTATATTATATATTATTTTA
** *
89378330 TATGGT-GTATATATTA-TTTA
1 TATTATATTATATATTATTTTA
*
89378350 TATTTTATTATATAT
1 TATTATATTATATAT
89378365 AAAAATATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 8 0.29
21 16 0.57
22 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.61
Consensus pattern (22 bp):
TATTATATTATATATTATTTTA
Found at i:89380708 original size:39 final size:39
Alignment explanation
Indices: 89380645--89380726 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 39
89380635 CATCATCTTG
* *
89380645 TGCATAGAGGGTACAGGTTTTAACTTCTTGGGGTTGGGA
1 TGCATAGAGGGTACAAGTTCTAACTTCTTGGGGTTGGGA
* * *
89380684 TGCATAGGGGGTGCAAGTTCTAACTTCTTGGGGTTGGGG
1 TGCATAGAGGGTACAAGTTCTAACTTCTTGGGGTTGGGA
89380723 TGCA
1 TGCA
89380727 CCTACACGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.18, C:0.12, G:0.38, T:0.32
Consensus pattern (39 bp):
TGCATAGAGGGTACAAGTTCTAACTTCTTGGGGTTGGGA
Found at i:89382910 original size:48 final size:46
Alignment explanation
Indices: 89382839--89383049 Score: 149
Period size: 46 Copynumber: 4.5 Consensus size: 46
89382829 TGACGCCATC
* * * * *
89382839 TCCCAGACAGGTCCTACACTAGCTTGTATATTGCAAGGCTGAAGCATG
1 TCCCAGACATGTCTTACAGTAGCTTG-ATATT-CAAGGCAGATGCATG
* * * *
89382887 TCCCAAACATGTCTTACAGTAGCTCTCG-T-CTCAATGCCGATGCATG
1 TCCCAGACATGTCTTACAGTAGCT-T-GATATTCAAGGCAGATGCATG
* * *
89382933 TCCCGGACATGTCTTACAGTAGCTTCAATATCTCGAGGCAGATGCATG
1 TCCCAGACATGTCTTACAGTAGCTT-GATAT-TCAAGGCAGATGCATG
* * * ** * **
89382981 TCCCAGACATGTCTTACACTGGCTCTCATGCT-ATGGTTGATGCATG
1 TCCCAGACATGTCTTACAGTAGCT-TGATATTCAAGGCAGATGCATG
*
89383027 TCCCAGACATGTCTTACACTAGC
1 TCCCAGACATGTCTTACAGTAGC
89383050 ACACATATCA
Statistics
Matches: 131, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.02
46 67 0.51
47 2 0.02
48 57 0.44
49 2 0.02
50 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (46 bp):
TCCCAGACATGTCTTACAGTAGCTTGATATTCAAGGCAGATGCATG
Found at i:89382943 original size:46 final size:45
Alignment explanation
Indices: 89382882--89383049 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
89382872 CAAGGCTGAA
* * * *
89382882 GCATGTCCCAAACATGTCTTACAGTAGCTCTCGTCTCAATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-ATGCAGAT
* * *
89382928 GCATGTCCCGGACATGTCTTACAGTAGCT-TCAATATCTCGAGGCAGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTC---ATCTC-ATGCAGAT
* **
89382976 GCATGTCCCAGACATGTCTTACACTGGCTCTCATGCT-ATGGTTGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTCAT-GCAGAT
89383022 GCATGTCCCAGACATGTCTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
89383050 ACACATATCA
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
45 3 0.03
46 60 0.58
47 2 0.02
48 36 0.35
49 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATGCAGAT
Found at i:89383058 original size:94 final size:93
Alignment explanation
Indices: 89382882--89383058 Score: 223
Period size: 94 Copynumber: 1.9 Consensus size: 93
89382872 CAAGGCTGAA
* * *
89382882 GCATGTCCCAAACATGTCTTACAGTAGCTCTCGTCTCAATGCCGATGCATGTCCCGGACATGTCT
1 GCATGTCCCAAACATGTCTTACACTAGCTCTCATCT-AATGCCGATGCATGTCCCAGACATGTCT
* *
89382947 TACAGTAGCTTCAATATCTCGAGGCAGAT
65 TACACTAGCTACAATATCTCGAGGCAGAT
* * **
89382976 GCATGTCCCAGACATGTCTTACACTGGCTCTCATGCT-ATGGTTGATGCATGTCCCAGACATGTC
1 GCATGTCCCAAACATGTCTTACACTAGCTCTCAT-CTAAT-GCCGATGCATGTCCCAGACATGTC
89383040 TTACACTAGC-ACACATATC
64 TTACACTAGCTACA-ATATC
89383059 ACCTATTATC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
93 4 0.06
94 65 0.92
95 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (93 bp):
GCATGTCCCAAACATGTCTTACACTAGCTCTCATCTAATGCCGATGCATGTCCCAGACATGTCTT
ACACTAGCTACAATATCTCGAGGCAGAT
Found at i:89386670 original size:52 final size:52
Alignment explanation
Indices: 89386610--89386712 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
89386600 AATCATCAAG
89386610 AAAGACCATCAAAATCACTTATTTGAAAGGGTTACAAGTTGCTGAAATTTTC
1 AAAGACCATCAAAATCACTTATTTGAAAGGGTTACAAGTTGCTGAAATTTTC
*
89386662 AAAGACCATCAAAATCACTTATTTGAGAGGGTTACAAGTTGCTGAAATTTT
1 AAAGACCATCAAAATCACTTATTTGAAAGGGTTACAAGTTGCTGAAATTTT
89386713 TAACCTTTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (52 bp):
AAAGACCATCAAAATCACTTATTTGAAAGGGTTACAAGTTGCTGAAATTTTC
Found at i:89390411 original size:40 final size:39
Alignment explanation
Indices: 89390180--89390404 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 39
89390170 TCGAATAATG
* *
89390180 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
89390220 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
* *
89390259 TTTCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTGAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
89390299 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTGAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
89390339 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
89390379 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
89390405 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 34 0.20
40 124 0.75
41 8 0.05
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:89390418 original size:40 final size:40
Alignment explanation
Indices: 89390180--89390437 Score: 271
Period size: 40 Copynumber: 6.5 Consensus size: 40
89390170 TCGAATAATG
* * *
89390180 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
**
89390220 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
89390259 TTTCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTGA-A
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
89390299 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTGA-A
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
89390339 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * * **
89390379 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
* *
89390419 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
89390438 TACGTGATTC
Statistics
Matches: 191, Mismatches: 19, Indels: 17
0.84 0.08 0.07
Matches are distributed among these distances:
39 48 0.25
40 135 0.71
41 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:89390427 original size:119 final size:119
Alignment explanation
Indices: 89390180--89390411 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 119
89390170 TCGAATAATG
*
89390180 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
** ***
89390245 GTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGTGAGTTACTGAA
66 GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTGAA
* * **
89390299 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTGA-ATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCCGGACTAAGAT-CCGAAGGCA
*
89390361 TTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
63 TTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGT
89390412 AGCTATATCC
Statistics
Matches: 97, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 3 0.03
119 68 0.70
120 26 0.27
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTGAA
Found at i:89398489 original size:40 final size:39
Alignment explanation
Indices: 89398258--89398482 Score: 303
Period size: 40 Copynumber: 5.7 Consensus size: 39
89398248 TCGAATGATG
* *
89398258 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
89398298 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
89398337 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTGAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
89398377 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTGAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
89398417 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
89398457 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
89398483 AACGAGTAGA
Statistics
Matches: 170, Mismatches: 8, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
39 36 0.21
40 126 0.74
41 8 0.05
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:89411015 original size:48 final size:48
Alignment explanation
Indices: 89410957--89411049 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
89410947 GCTAGCTTGT
*
89410957 ATATCGCGAGGCCGATGCATGTCCTAGACATGTCTTACACTGGCTTAA
1 ATATCGCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAA
* *
89411005 ATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACATTGGCT
1 ATATCGCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
89411050 CTCATGCTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (48 bp):
ATATCGCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAA
Found at i:89414390 original size:46 final size:46
Alignment explanation
Indices: 89414323--89414451 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
89414313 TGTAACCCGC
* * * * *
89414323 CCATAAGCGAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
89414369 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
89414415 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
89414452 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:89418092 original size:33 final size:33
Alignment explanation
Indices: 89418055--89418120 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
89418045 ATTGATGGTT
*
89418055 TACTTGGTTCTACTCAGGTACATACAGTAATGA
1 TACTTGGTTCTACTCAGGTACATACAATAATGA
89418088 TACTTGGTTCTACTCAGGTACATACAATAATGA
1 TACTTGGTTCTACTCAGGTACATACAATAATGA
89418121 GGTGCGAGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (33 bp):
TACTTGGTTCTACTCAGGTACATACAATAATGA
Found at i:89419738 original size:40 final size:40
Alignment explanation
Indices: 89419693--89419860 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
89419683 CGGAATATAA
89419693 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
89419733 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
89419773 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
89419813 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
89419853 CCGGATAT
1 CCGGATAT
89419861 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Done.