Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 106 of 153
Found at i:32979545 original size:44 final size:45
Alignment explanation
Indices: 32979492--32979612 Score: 129
Period size: 44 Copynumber: 2.7 Consensus size: 45
32979482 ACAGTAGAAT
* * * *
32979492 AGATTAAAGATTACAGATCTTATCTCCCT-AGGCAGTAGTGGAGC
1 AGATTAAAGATGACAAATCTTATCTCCCTGAAGCAGCAGTGGAGC
* * *
32979536 AGATCAAAGATGACAAATTTTATCTCCCTGAAGTAGCAGTGGAGC
1 AGATTAAAGATGACAAATCTTATCTCCCTGAAGCAGCAGTGGAGC
** * *
32979581 AGATTAAAGCCGA-TAATCTTATCTCTCTGAAG
1 AGATTAAAGATGACAAATCTTATCTCCCTGAAG
32979613 TTGCAGAGAG
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
44 41 0.65
45 22 0.35
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (45 bp):
AGATTAAAGATGACAAATCTTATCTCCCTGAAGCAGCAGTGGAGC
Found at i:32979613 original size:44 final size:45
Alignment explanation
Indices: 32979508--32979628 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 45
32979498 AAGATTACAG
* * * *
32979508 ATCTTATCTCCCT-AGGCAGTAGTGGAGCAGATCAAAGATGACAA
1 ATCTTATCTCCCTGAAGTAGCAGTGGAGCAGATCAAAGACGACAA
* * * *
32979552 ATTTTATCTCCCTGAAGTAGCAGTGGAGCAGATTAAAGCCGA-TA
1 ATCTTATCTCCCTGAAGTAGCAGTGGAGCAGATCAAAGACGACAA
* * *
32979596 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATC
1 ATCTTATCTCCCTGAAGTAGCAGTGGAGCAGATC
32979629 CTATTTAGTC
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
43 8 0.13
44 33 0.52
45 22 0.35
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTAGCAGTGGAGCAGATCAAAGACGACAA
Found at i:32981157 original size:21 final size:21
Alignment explanation
Indices: 32981133--32981185 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
32981123 TTAACGAATG
32981133 TTTTTATATATA-TATATATTA
1 TTTTTATATATATTAT-TATTA
*
32981154 TTTTTATGACA-ATTATTATTA
1 TTTTTAT-ATATATTATTATTA
32981175 TTTTTATATAT
1 TTTTTATATAT
32981186 TTTTACGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 20 0.74
22 5 0.19
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTATATATATTATTATTA
Found at i:32981938 original size:98 final size:98
Alignment explanation
Indices: 32981815--32982005 Score: 328
Period size: 98 Copynumber: 1.9 Consensus size: 98
32981805 AAAAATCATG
* *
32981815 AAGGAAATGTTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
32981880 AAATCTTGGATAAGTGGAAGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGAAGTTCTTTTAAAGTA
* *
32981913 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
* *
32981978 AAATCTTGGATGAGTGGATGTTCTTTTA
66 AAATCTTGGATAAGTGGAAGTTCTTTTA
32982006 GTTTTATTCT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 87 1.00
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGAAGTTCTTTTAAAGTA
Found at i:32983211 original size:21 final size:20
Alignment explanation
Indices: 32983177--32983217 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
32983167 TTCACAAATT
*
32983177 AAATAAATATATTTATATTC
1 AAATAAATAAATTTATATTC
*
32983197 AAATAAAATAAATTTGTATTC
1 AAAT-AAATAAATTTATATTC
32983218 TTTATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATAAATAAATTTATATTC
Found at i:32996340 original size:231 final size:231
Alignment explanation
Indices: 32996061--32996538 Score: 893
Period size: 231 Copynumber: 2.1 Consensus size: 231
32996051 GTTAAGCAGA
*
32996061 GTTGAATCATTGGATCTTATTGAAGGACAGCGATTACTGATGCAGAAAGAGCTTGAGAGGTATAA
1 GTTGAATCTTTGGATCTTATTGAAGGACAGCGATTACTGATGCAGAAAGAGCTTGAGAGGTATAA
32996126 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
66 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
32996191 CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAAAGCGCTTGAAGCAGCAAAATCTGAATTGAGT
131 CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAAAGCGCTTGAAGCAGCAAAATCTGAATTGAGT
32996256 AAAGAACGAGAGAGAGCAGTGTCTTTGACGAAAAGG
196 AAAGAACGAGAGAGAGCAGTGTCTTTGACGAAAAGG
*
32996292 GTTGAATCTTTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTGAGAGGTATAA
1 GTTGAATCTTTGGATCTTATTGAAGGACAGCGATTACTGATGCAGAAAGAGCTTGAGAGGTATAA
*
32996357 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAG
66 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
* *
32996422 CTGAATCCAAAGAGAAGCTTAGCGAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
131 CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAAAGCGCTTGAAGCAGCAAAATCTGAATTGAGT
* *
32996487 AAAGAACGAGAGAGGGCAGTGTCTTTGACGGAAAGG
196 AAAGAACGAGAGAGAGCAGTGTCTTTGACGAAAAGG
32996523 GTTGAATCTTTGGATC
1 GTTGAATCTTTGGATC
32996539 ACCTTGAAGA
Statistics
Matches: 240, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
231 240 1.00
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (231 bp):
GTTGAATCTTTGGATCTTATTGAAGGACAGCGATTACTGATGCAGAAAGAGCTTGAGAGGTATAA
AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAAAGCGCTTGAAGCAGCAAAATCTGAATTGAGT
AAAGAACGAGAGAGAGCAGTGTCTTTGACGAAAAGG
Found at i:32996581 original size:231 final size:231
Alignment explanation
Indices: 32996061--32996612 Score: 804
Period size: 231 Copynumber: 2.4 Consensus size: 231
32996051 GTTAAGCAGA
* ** * * * **
32996061 GTTGAATCATTGGATCTTATTGAAGGACAGCGATTACTGATGCAGAAAGAGCTTGAGAGGTATAA
1 GTTGAATCTTTGGATCACATTGAAGGACAGCGACTCCAGAAACAGAAAGAGCTTGAGAGGTATAA
32996126 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
66 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
32996191 CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAAAGCGCTTGAAGCAGCAAAATCTGAATTGAGT
131 CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAAAGCGCTTGAAGCAGCAAAATCTGAATTGAGT
32996256 AAAGAACGAGAGAGAGCAGTGTCTTTGACGAAAAGG
196 AAAGAACGAGAGAGAGCAGTGTCTTTGACGAAAAGG
** * * **
32996292 GTTGAATCTTTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTGAGAGGTATAA
1 GTTGAATCTTTGGATCACATTGAAGGACAGCGACTCCAGAAACAGAAAGAGCTTGAGAGGTATAA
*
32996357 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAG
66 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
* *
32996422 CTGAATCCAAAGAGAAGCTTAGCGAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
131 CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAAAGCGCTTGAAGCAGCAAAATCTGAATTGAGT
* *
32996487 AAAGAACGAGAGAGGGCAGTGTCTTTGACGGAAAGG
196 AAAGAACGAGAGAGAGCAGTGTCTTTGACGAAAAGG
* * * * * *
32996523 GTTGAATCTTTGGATCACCTTGAA-GAGCAGTGGCTCCAGAAACAGGATGAGGTTGAGA-G-ATA
1 GTTGAATCTTTGGATCACATTGAAGGA-CAGCGACTCCAGAAACAGAAAGAGCTTGAGAGGTATA
* * *
32996585 CAAGAAAATGCTTGAGGAAGCATGTAGG
65 -AAG-AAAGGCTTGAGGAGGCATCTAGG
32996613 AGTCGAAGTC
Statistics
Matches: 296, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
229 3 0.01
230 6 0.02
231 287 0.97
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.22
Consensus pattern (231 bp):
GTTGAATCTTTGGATCACATTGAAGGACAGCGACTCCAGAAACAGAAAGAGCTTGAGAGGTATAA
AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAAAGCGCTTGAAGCAGCAAAATCTGAATTGAGT
AAAGAACGAGAGAGAGCAGTGTCTTTGACGAAAAGG
Found at i:33017296 original size:125 final size:126
Alignment explanation
Indices: 33017073--33017320 Score: 426
Period size: 125 Copynumber: 2.0 Consensus size: 126
33017063 TTAGGGTTTT
* *
33017073 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
*
33017138 AGGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCATGGACGCGCTTTTGCTATAG
***
33017199 TAGGTCATGGAAGAAATAATTT-TTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
*
33017263 AGGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCTTCATGGACGCGCTTTTGCTA
66 AGGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCATGGACGCGCTTTTGCTA
33017321 CAATAGCATG
Statistics
Matches: 115, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
125 94 0.82
126 21 0.18
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (126 bp):
TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
AGGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCATGGACGCGCTTTTGCTATAG
Found at i:33020239 original size:45 final size:46
Alignment explanation
Indices: 33020172--33020295 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
33020162 CATATGACCT
*
33020172 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
*
33020215 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
*
33020261 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
33020296 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
Found at i:33020278 original size:46 final size:45
Alignment explanation
Indices: 33020172--33020480 Score: 207
Period size: 37 Copynumber: 7.8 Consensus size: 45
33020162 CATATGACCT
*
33020172 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
33020215 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
33020261 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
33020298 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
33020335 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
33020372 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
33020409 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
33020446 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
33020481 CACTTATCAC
Statistics
Matches: 250, Mismatches: 7, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
37 174 0.70
39 2 0.01
40 3 0.01
42 1 0.00
43 9 0.04
44 6 0.02
45 21 0.08
46 34 0.14
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:33020299 original size:37 final size:37
Alignment explanation
Indices: 33020258--33020507 Score: 446
Period size: 37 Copynumber: 6.8 Consensus size: 37
33020248 GCTAAAGCTA
* **
33020258 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
* *
33020295 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
*
33020332 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
33020369 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
33020406 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
33020443 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
33020480 CCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTTTCTTGATCAGA
33020508 AGTACTCAAA
Statistics
Matches: 208, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 208 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (37 bp):
CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
Found at i:33024412 original size:20 final size:20
Alignment explanation
Indices: 33024375--33024412 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33024365 TTTATTTTTA
*
33024375 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
33024395 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
33024413 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:33025348 original size:12 final size:12
Alignment explanation
Indices: 33025305--33025348 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
33025295 ACTTTTACGG
*
33025305 TTTAAAAAAAT-
1 TTTAAAAAATTA
33025316 TTTAAAAAATTA
1 TTTAAAAAATTA
**
33025328 TTTTTAAAATTA
1 TTTAAAAAATTA
33025340 TTTAAAAAA
1 TTTAAAAAA
33025349 GGGAGTTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TTTAAAAAATTA
Found at i:33025453 original size:12 final size:11
Alignment explanation
Indices: 33025417--33025457 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
33025407 AAGAGAATTT
33025417 TTGA-AGAAAA
1 TTGAGAGAAAA
*
33025427 TTGAGAGGAAA
1 TTGAGAGAAAA
33025438 TTGAGAGAAAA
1 TTGAGAGAAAA
33025449 TTTGAGAGA
1 -TTGAGAGA
33025458 GGATTAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 4 0.15
11 15 0.56
12 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (11 bp):
TTGAGAGAAAA
Found at i:33028022 original size:24 final size:24
Alignment explanation
Indices: 33027955--33028022 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
33027945 GATTTCATAA
* *
33027955 TCAAATACATATGCATAAACAAAT
1 TCAAATACAAATGCATACACAAAT
*
33027979 TCAGATACAAATGCATACACAAAT
1 TCAAATACAAATGCATACACAAAT
* *
33028003 TCAAATACAGATGCAGACAC
1 TCAAATACAAATGCATACAC
33028023 TGATCCTACC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.50, C:0.21, G:0.09, T:0.21
Consensus pattern (24 bp):
TCAAATACAAATGCATACACAAAT
Found at i:33040471 original size:33 final size:33
Alignment explanation
Indices: 33040432--33040499 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
33040422 GGTATGAATC
33040432 TTTGCTTCAACATTGTCTTCAGCTTCCTCTAAT
1 TTTGCTTCAACATTGTCTTCAGCTTCCTCTAAT
* *
33040465 TTTGCTTCAACATTGTCTTCGGCTTCCTCTGAT
1 TTTGCTTCAACATTGTCTTCAGCTTCCTCTAAT
33040498 TT
1 TT
33040500 ATGGTTGTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.15, C:0.26, G:0.12, T:0.47
Consensus pattern (33 bp):
TTTGCTTCAACATTGTCTTCAGCTTCCTCTAAT
Found at i:33046606 original size:90 final size:90
Alignment explanation
Indices: 33046507--33046812 Score: 612
Period size: 90 Copynumber: 3.4 Consensus size: 90
33046497 ATCAATAAAT
33046507 AAACTAATCAATGTTCAAACTTTGAACATGCTTTATTAAACATTCAATTTCATTATACGAAATGA
1 AAACTAATCAATGTTCAAACTTTGAACATGCTTTATTAAACATTCAATTTCATTATACGAAATGA
33046572 AAATTAAATTTAAATTTAAATGTTC
66 AAATTAAATTTAAATTTAAATGTTC
33046597 AAACTAATCAATGTTCAAACTTTGAACATGCTTTATTAAACATTCAATTTCATTATACGAAATGA
1 AAACTAATCAATGTTCAAACTTTGAACATGCTTTATTAAACATTCAATTTCATTATACGAAATGA
33046662 AAATTAAATTTAAATTTAAATGTTC
66 AAATTAAATTTAAATTTAAATGTTC
33046687 AAACTAATCAATGTTCAAACTTTGAACATGCTTTATTAAACATTCAATTTCATTATACGAAATGA
1 AAACTAATCAATGTTCAAACTTTGAACATGCTTTATTAAACATTCAATTTCATTATACGAAATGA
33046752 AAATTAAATTTAAATTTAAATGTTC
66 AAATTAAATTTAAATTTAAATGTTC
33046777 AAACTAATCAATGTTCAAACTTTGAACATGCTTTAT
1 AAACTAATCAATGTTCAAACTTTGAACATGCTTTAT
33046813 AATTTTAAAT
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 216 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.38
Consensus pattern (90 bp):
AAACTAATCAATGTTCAAACTTTGAACATGCTTTATTAAACATTCAATTTCATTATACGAAATGA
AAATTAAATTTAAATTTAAATGTTC
Found at i:33049493 original size:91 final size:91
Alignment explanation
Indices: 33049381--33049587 Score: 360
Period size: 91 Copynumber: 2.3 Consensus size: 91
33049371 ATGATTTTAG
* *
33049381 TAAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
33049446 TTTAATATTAATTATTTTAAATTATA
66 TTTAATAATAATTATTTTAAATTATA
*
33049472 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
33049537 TTTAATAATAATTATTTTAAATTATA
66 TTTAATAATAATTATTTTAAATTATA
* *
33049563 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
33049588 GTTATAATTA
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 110 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATAATAATTATTTTAAATTATA
Found at i:33049527 original size:101 final size:92
Alignment explanation
Indices: 33049473--33049664 Score: 176
Period size: 101 Copynumber: 2.0 Consensus size: 92
33049463 TAAATTATAT
33049473 AAATTCATATAAGAAAATTTATTA-TCAAGAATT-TTATGA--AATTATATATTATTATTAAATT
1 AAATTCATATAAGAAAATTTATTAGT-AAGAATTATT-TGATTAATTATATA-TATTATTAAATT
*
33049534 ATATTTAATAATAATTATTTTAAATTATAC
63 ATATTTAATAATAATTATTTTAAATTATAT
* * * * *
33049564 AAATTCATATAAGATAATTTATTAGTTATAATTATTTTAAATTTTATTAAATCATATATTTTAAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATTA-TTT-GA-TTAATT--AT-ATATA--TT-AT
* *
33049629 TAAAATATATTTAATAATAATTATTTCAAATTATAT
57 TAAATTATATTTAATAATAATTATTTTAAATTATAT
33049665 TTTATAGTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
91 28 0.35
92 2 0.03
93 3 0.04
96 3 0.04
98 4 0.05
99 3 0.04
100 2 0.03
101 35 0.44
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (92 bp):
AAATTCATATAAGAAAATTTATTAGTAAGAATTATTTGATTAATTATATATATTATTAAATTATA
TTTAATAATAATTATTTTAAATTATAT
Found at i:33049597 original size:47 final size:46
Alignment explanation
Indices: 33049381--33049621 Score: 168
Period size: 47 Copynumber: 5.3 Consensus size: 46
33049371 ATGATTTTAG
* *
33049381 TAAATTCATATAAGA-ATATTTATTATTAAGAATT-TTATGAAATTATA
1 TAAATTCATATAAGATA-ATTTATTA-TAATAATTATT-TTAAATTATA
* *
33049428 TATCATT-AT-TAA-ATTATATTTA--ATATTAATTATTTTAAATTATA
1 TA-AATTCATATAAGA-TA-ATTTATTATAATAATTATTTTAAATTATA
* * *
33049472 TAAATTCATATAAGAAAATTTATTATCAAGAATT-TTATGAAATTATA
1 TAAATTCATATAAGATAATTTATTAT-AATAATTATT-TTAAATTATA
*
33049519 TATTATT-AT-TAA-ATTATATTTA--ATAATAATTATTTTAAATTATA
1 TA-AATTCATATAAGA-TA-ATTTATTATAATAATTATTTTAAATTATA
* * *
33049563 CAAATTCATATAAGATAATTTATTAGTTATAATTATTTTAAATTTTA
1 TAAATTCATATAAGATAATTTATTA-TAATAATTATTTTAAATTATA
33049610 TTAAA-TCATATA
1 -TAAATTCATATA
33049622 TTTTAATTAA
Statistics
Matches: 154, Mismatches: 18, Indels: 44
0.71 0.08 0.20
Matches are distributed among these distances:
43 6 0.04
44 47 0.31
45 18 0.12
46 14 0.09
47 60 0.39
48 9 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (46 bp):
TAAATTCATATAAGATAATTTATTATAATAATTATTTTAAATTATA
Found at i:33049680 original size:59 final size:58
Alignment explanation
Indices: 33049614--33049898 Score: 191
Period size: 61 Copynumber: 4.8 Consensus size: 58
33049604 ATTTTATTAA
33049614 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATATTTTATAGT
* * ** * * * * * * * *
33049673 ATCATATATTATGATTTTAGTAAATTCATATAAGAA-TATTGATTATTAAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTA-AATT-A-TATTTTA-TAGT
*
33049734 ATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTTTATAGT
* * ** * * * * * * * *
33049793 ATCATATATTATGATTTGAGTAAATTCATATAAGAA-TATTGATTATTAAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTA-AATT-A-TATTTTA-TAGT
*
33049854 ATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAA
33049899 ATATGATTAA
Statistics
Matches: 162, Mismatches: 49, Indels: 28
0.68 0.21 0.12
Matches are distributed among these distances:
58 5 0.03
59 60 0.37
60 27 0.17
61 62 0.38
62 8 0.05
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTAAATTATATTTTATAGT
Found at i:33049733 original size:120 final size:120
Alignment explanation
Indices: 33049603--33049898 Score: 558
Period size: 120 Copynumber: 2.5 Consensus size: 120
33049593 AATTATTTTA
*
33049603 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
*
33049667 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
33049723 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
33049788 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
33049843 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
33049899 ATATGATTAA
Statistics
Matches: 173, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
120 171 0.99
121 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:33049752 original size:18 final size:17
Alignment explanation
Indices: 33049724--33049758 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33049714 ATTATTAAGA
*
33049724 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33049741 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33049759 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33049872 original size:18 final size:17
Alignment explanation
Indices: 33049844--33049878 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33049834 ATTATTAAGA
*
33049844 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33049861 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33049879 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33050177 original size:9 final size:9
Alignment explanation
Indices: 33050163--33050229 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
33050153 GTAGTGATTC
33050163 AATTCGGTT
1 AATTCGGTT
*
33050172 AATTCGGGT
1 AATTCGGTT
* *
33050181 AATCCGATT
1 AATTCGGTT
33050190 AATTCGGTT
1 AATTCGGTT
*
33050199 AATTTTGG-T
1 AA-TTCGGTT
33050208 AATTCGAG-T
1 AATTCG-GTT
33050217 AATTCGGTT
1 AATTCGGTT
33050226 AATT
1 AATT
33050230 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
8 4 0.09
9 39 0.83
10 4 0.09
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:33050230 original size:27 final size:27
Alignment explanation
Indices: 33050163--33050231 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
33050153 GTAGTGATTC
** *
33050163 AATTCGGTTAATTCGGGTAATCCGATT
1 AATTCGGTTAATTTTGGTAATCCGAGT
*
33050190 AATTCGGTTAATTTTGGTAATTCGAGT
1 AATTCGGTTAATTTTGGTAATCCGAGT
33050217 AATTCGGTTAATTTT
1 AATTCGGTTAATTTT
33050232 TAACCAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.43
Consensus pattern (27 bp):
AATTCGGTTAATTTTGGTAATCCGAGT
Found at i:33052590 original size:17 final size:17
Alignment explanation
Indices: 33052536--33052592 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
33052526 TGTGTATTTG
33052536 AAATATTTCACATATAA
1 AAATATTTCACATATAA
* * * **
33052553 ACATAATT-ATAT-TTG
1 AAATATTTCACATATAA
33052568 AAATATTTCACATATAA
1 AAATATTTCACATATAA
33052585 AAATATTT
1 AAATATTT
33052593 GAAATATCAT
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
15 7 0.25
16 6 0.21
17 15 0.54
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (17 bp):
AAATATTTCACATATAA
Found at i:33052590 original size:26 final size:30
Alignment explanation
Indices: 33052530--33052599 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 30
33052520 TTTGTATGTG
33052530 TATTTGAAATATTTCACATATAAACATAATTA
1 TATTTGAAATATTTCACATAT-AACATAA-TA
33052562 TATTTGAAATATTTCACATAT-A-A-AA-A
1 TATTTGAAATATTTCACATATAACATAATA
33052588 TATTTGAAATAT
1 TATTTGAAATAT
33052600 CATACTCACA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 13 0.34
28 2 0.05
29 1 0.03
30 1 0.03
32 21 0.55
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.41
Consensus pattern (30 bp):
TATTTGAAATATTTCACATATAACATAATA
Found at i:33053665 original size:14 final size:15
Alignment explanation
Indices: 33053643--33053719 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
33053633 CAATCAAACA
33053643 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
33053657 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
33053672 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
33053692 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
33053706 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
33053720 ACTCTCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:33053684 original size:20 final size:20
Alignment explanation
Indices: 33053659--33053698 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33053649 AATATTTTCC
*
33053659 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
33053679 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
33053699 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:33053704 original size:34 final size:35
Alignment explanation
Indices: 33053647--33053713 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
33053637 CAAACACCAG
*
33053647 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
33053682 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
33053714 TATTTTACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:33057016 original size:67 final size:71
Alignment explanation
Indices: 33056944--33057076 Score: 184
Period size: 73 Copynumber: 1.9 Consensus size: 71
33056934 TGTTTTACAT
*
33056944 ATATTAATATACATAT-T-AATAATTTTT-C-TATTAAGCACATTTCTCTTTAAATTTTCTATTA
1 ATATTAATATACATATATGAATAATTTTTACATATTAAGCACATTTCTCTTTAAAATTTCTATTA
33057005 CTATAC
66 CTATAC
* * *
33057011 ATATTAATATACATATATGATTTATTTTTACATATATTAAGCACCTTTCTCTTTAAAATTTCTAT
1 ATATTAATATACATATATGAATAATTTTTAC--ATATTAAGCACATTTCTCTTTAAAATTTCTAT
33057076 T
64 T
33057077 TGTACCTACC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
67 16 0.29
68 1 0.02
69 8 0.14
70 1 0.02
73 30 0.54
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (71 bp):
ATATTAATATACATATATGAATAATTTTTACATATTAAGCACATTTCTCTTTAAAATTTCTATTA
CTATAC
Found at i:33057546 original size:14 final size:14
Alignment explanation
Indices: 33057523--33057558 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
33057513 AAATTGTAGA
*
33057523 AGGAGCAGCACGAT
1 AGGAGGAGCACGAT
*
33057537 AGGAGGAGCACGGT
1 AGGAGGAGCACGAT
33057551 AGGAGGAG
1 AGGAGGAG
33057559 GAAAGATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.47, T:0.06
Consensus pattern (14 bp):
AGGAGGAGCACGAT
Found at i:33061175 original size:43 final size:43
Alignment explanation
Indices: 33061114--33061196 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
33061104 ATCAAATATG
*
33061114 TTAGTTATTCATTTCATGTAAACATCAATAACAAAGATGAGCT
1 TTAGTTATTCATATCATGTAAACATCAATAACAAAGATGAGCT
*
33061157 TTAGTTATTCATATCATGTAAACATCAATAACAAATATGA
1 TTAGTTATTCATATCATGTAAACATCAATAACAAAGATGA
33061197 ACTCATCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (43 bp):
TTAGTTATTCATATCATGTAAACATCAATAACAAAGATGAGCT
Found at i:33061474 original size:25 final size:24
Alignment explanation
Indices: 33061445--33061496 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
33061435 AGCATATAAA
33061445 GGGAAGCTCACAAACAACACTTAAC
1 GGGAAGCTC-CAAACAACACTTAAC
* * *
33061470 GGGAAGCTCCGAAGAGCACTTAAC
1 GGGAAGCTCCAAACAACACTTAAC
33061494 GGG
1 GGG
33061497 TAGCACCGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.37, C:0.25, G:0.27, T:0.12
Consensus pattern (24 bp):
GGGAAGCTCCAAACAACACTTAAC
Found at i:33064488 original size:22 final size:23
Alignment explanation
Indices: 33064458--33064508 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
33064448 AATATTATTA
*
33064458 ATTAATTTAATTCGATT-TT-AAT
1 ATTATTTTAATT-GATTATTAAAT
*
33064480 ATTATTTTAATTGGTTATTAAAT
1 ATTATTTTAATTGATTATTAAAT
33064503 ATTATT
1 ATTATT
33064509 ATTTGTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 13 0.52
23 9 0.36
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (23 bp):
ATTATTTTAATTGATTATTAAAT
Found at i:33065193 original size:24 final size:25
Alignment explanation
Indices: 33065147--33065194 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
33065137 TTTTTCCATT
33065147 ATTCGAATTTTAAAAATTCAACTCG
1 ATTCGAATTTTAAAAATTCAACTCG
33065172 ATTCGAA-TTTAAAAGATT-AACTC
1 ATTCGAATTTTAAAA-ATTCAACTC
33065195 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (25 bp):
ATTCGAATTTTAAAAATTCAACTCG
Found at i:33070385 original size:15 final size:15
Alignment explanation
Indices: 33070365--33070394 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33070355 TCTTTAGAGA
33070365 AAAGATCAATGACAC
1 AAAGATCAATGACAC
*
33070380 AAAGATTAATGACAC
1 AAAGATCAATGACAC
33070395 TCAATATTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (15 bp):
AAAGATCAATGACAC
Found at i:33072284 original size:18 final size:16
Alignment explanation
Indices: 33072252--33072293 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
33072242 AATCATTATT
33072252 TAATTAATTTAATATC
1 TAATTAATTTAATATC
33072268 TAATTATATTGTAATAT-
1 TAATTA-ATT-TAATATC
33072285 TAACTTAAT
1 TAA-TTAAT
33072294 CAATAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 9 0.39
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTAATTTAATATC
Found at i:33073822 original size:13 final size:15
Alignment explanation
Indices: 33073778--33073826 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
33073768 ACAAATTTTT
*
33073778 ATAAAATATAT-TAA
1 ATAATATATATATAA
33073792 A-AACTATATATATAA
1 ATAA-TATATATATAA
33073807 ATAATATA-ATATAA
1 ATAATATATATATAA
33073821 TATAAT
1 -ATAAT
33073827 TTACTTGTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.07
14 13 0.43
15 13 0.43
16 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATATATATATAA
Found at i:33074506 original size:15 final size:16
Alignment explanation
Indices: 33074486--33074529 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
33074476 CTAAAAATTT
33074486 TAAAAATAT-TAAAAA
1 TAAAAATATATAAAAA
*
33074501 TAAAAATTTATAAAAA
1 TAAAAATATATAAAAA
*
33074517 TTCAAAATATATA
1 -TAAAAATATATA
33074530 TGTAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 8 0.33
16 6 0.25
17 10 0.42
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAAATATATAAAAA
Found at i:33074510 original size:23 final size:24
Alignment explanation
Indices: 33074477--33074525 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
33074467 ACAATAATTC
33074477 TAAAAATTTTA-AAAATATTAAAAA
1 TAAAAATTTTATAAAA-ATTAAAAA
*
33074501 TAAAAA-TTTATAAAAATTCAAAA
1 TAAAAATTTTATAAAAATTAAAAA
33074524 TA
1 TA
33074526 TATATGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAAAATTTTATAAAAATTAAAAA
Found at i:33074523 original size:24 final size:24
Alignment explanation
Indices: 33074477--33074523 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33074467 ACAATAATTC
*
33074477 TAAAAATTTTAAAAATATTAAAAA
1 TAAAAATTTTAAAAATATCAAAAA
33074501 TAAAAATTTATAAAAAT-TCAAAA
1 TAAAAATTT-TAAAAATATCAAAA
33074524 TATATATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
TAAAAATTTTAAAAATATCAAAAA
Found at i:33077370 original size:43 final size:42
Alignment explanation
Indices: 33077297--33077519 Score: 293
Period size: 42 Copynumber: 5.2 Consensus size: 42
33077287 ACGTCGCTAA
* *
33077297 CTTTTGCGGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-AG-AAAAAACGCCGCTAAAGATCATGTT
* *
33077341 CTTTAGTGGCGCTAAAGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAAGAAA-AAACGCCGCTAAAGATCATGTT
* *
33077384 CTTTAGCAGCGCTTACGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAAG-AAAAAACGCCGCTAAAGATCATGTT
* * **
33077427 TTTTAGTGGCGCTTGGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTT
* **
33077469 CTTTAGCGGCTCTTGGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTT
33077511 CTTTAGCGG
1 CTTTAGCGG
33077520 ATGATCTTTA
Statistics
Matches: 161, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
42 76 0.47
43 70 0.43
44 15 0.09
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTT
Found at i:33077471 original size:85 final size:86
Alignment explanation
Indices: 33077305--33077516 Score: 320
Period size: 86 Copynumber: 2.5 Consensus size: 86
33077295 AACTTTTGCG
*
33077305 GCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGTGGCGCTAAAGAAATAAACGCCG
1 GCGCTTAC-GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTAAAGAAATAAACGCCG
33077370 CTAAAGATCATGTTCTTTAGCA
65 CTAAAGATCATGTTCTTTAGCA
* ***
33077392 GCGCTTACGAAAAAAACGCCGCTAAAGATCATGTTTTTTAGTGGCGCTTGGGAAA-AAACGCCGC
1 GCGCTTACGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTAAAGAAATAAACGCCGC
*
33077456 TAAAGATCATGTTCTTTAGCG
66 TAAAGATCATGTTCTTTAGCA
* * *
33077477 GCTCTT-GGGAAAAAACGCCGCTAAAGATCATGTTCTTTAG
1 GCGCTTACGAAAAAAACGCCGCTAAAGATCATGTTCTTTAG
33077517 CGGATGATCT
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
84 31 0.27
85 34 0.30
86 42 0.37
87 8 0.07
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (86 bp):
GCGCTTACGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTAAAGAAATAAACGCCGC
TAAAGATCATGTTCTTTAGCA
Found at i:33077529 original size:14 final size:14
Alignment explanation
Indices: 33077510--33077549 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
33077500 AAGATCATGT
33077510 TCTTTAGCGGATGA
1 TCTTTAGCGGATGA
*
33077524 TCTTTAGCGGCGCTGA
1 TCTTTAGC-G-GATGA
33077540 TCTTTAGCGG
1 TCTTTAGCGG
33077550 CGCTTAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 12 0.52
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (14 bp):
TCTTTAGCGGATGA
Found at i:33077542 original size:16 final size:16
Alignment explanation
Indices: 33077521--33077553 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33077511 CTTTAGCGGA
33077521 TGATCTTTAGCGGCGC
1 TGATCTTTAGCGGCGC
33077537 TGATCTTTAGCGGCGC
1 TGATCTTTAGCGGCGC
33077553 T
1 T
33077554 TAGGAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.30, T:0.33
Consensus pattern (16 bp):
TGATCTTTAGCGGCGC
Found at i:33077613 original size:42 final size:43
Alignment explanation
Indices: 33077544--33077640 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 43
33077534 CGCTGATCTT
33077544 TAGCGGCGCTTAGGAAGAAAACGCCGCTAAAAGTAATGTTCTA
1 TAGCGGCGCTTAGGAAGAAAACGCCGCTAAAAGTAATGTTCTA
* * * *
33077587 TAGCGGCGCTT-GGTCA-AAAACGCCGCTAACAGTAGTGTTCTT
1 TAGCGGCGCTTAGG-AAGAAAACGCCGCTAAAAGTAATGTTCTA
33077629 TAGCGGCGCTTA
1 TAGCGGCGCTTA
33077641 TTTCACAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 36 0.75
43 12 0.25
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (43 bp):
TAGCGGCGCTTAGGAAGAAAACGCCGCTAAAAGTAATGTTCTA
Found at i:33083842 original size:41 final size:40
Alignment explanation
Indices: 33083778--33084017 Score: 221
Period size: 41 Copynumber: 5.9 Consensus size: 40
33083768 TTTTGTTACT
* *
33083778 ATTAGCGGCGCTTC-GACAAAAACGCCGCTAAAGGTAAATGC
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGGTAGA-GC
* * * *
33083819 ATTAGCGGCGCTTAGATATAAACGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGG-TAGAGC
* * * * *
33083860 ATTAGTGGCGCTCAGATAAATACGCCACTAAAGATCTGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGT-AGAGC
* * * * * *
33083901 ATTAGCGGCGCTTAGACAAAAACGCCGCTAACGGCCATAGG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGG-TAGAGC
* * * *
33083942 ATTAGCGACGCACAGATAAAAACGCCGCTAAAGATCTGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGT-AGAGC
*
33083983 ATTAGCGGCGCTCAAATAAAAACGCCGCTAAAGGT
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGT
33084018 TTAAAAATCG
Statistics
Matches: 154, Mismatches: 40, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
40 1 0.01
41 151 0.98
42 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (40 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGTAGAGC
Found at i:33083915 original size:82 final size:82
Alignment explanation
Indices: 33083817--33084016 Score: 292
Period size: 82 Copynumber: 2.4 Consensus size: 82
33083807 AAAGGTAAAT
* * * * *
33083817 GCATTAGCGGCGCTTAGATATAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAATA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGACGCACAGATAAAAA
33083882 CGCCACTAAAGATCTGA
66 CGCCACTAAAGATCTGA
* * * *
33083899 GCATTAGCGGCGCTTAGACAAAAACGCCGCTAACGGCCATAGGATTAGCGACGCACAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGACGCACAGATAAAAA
*
33083964 CGCCGCTAAAGATCTGA
66 CGCCACTAAAGATCTGA
* *
33083981 GCATTAGCGGCGCTCAAATAAAAACGCCGCTAAAGG
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG
33084017 TTTAAAAATC
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 104 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (82 bp):
GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGACGCACAGATAAAAA
CGCCACTAAAGATCTGA
Found at i:33084002 original size:123 final size:123
Alignment explanation
Indices: 33083778--33084015 Score: 307
Period size: 123 Copynumber: 1.9 Consensus size: 123
33083768 TTTTGTTACT
* * * ** *
33083778 ATTAGCGGCGCTTCGACAAAAACGCCGCTAAAGGTAAATGCATTAGCGGCGCTTAGATATAAACG
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCAAATGCATTAGCGACGCACAGATAAAAACG
* * * *
33083843 CCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAATACGCCACTAAAGATCTGAGC
66 CCGCTAAAGACCAGAGAATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCTGAGC
* * *
33083901 ATTAGCGGCGCTTAGACAAAAACGCCGCTAACGGC-CATAGGATTAGCGACGCACAGATAAAAAC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCAAAT-GCATTAGCGACGCACAGATAAAAAC
* * * *
33083965 GCCGCTAAAGATCTGAGCATTAGCGGCGCTCAAATAAAAACGCCGCTAAAG
65 GCCGCTAAAGACCAGAGAATTAGCGGCGCTCAAATAAAAACGCCACTAAAG
33084016 GTTTAAAAAT
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
122 2 0.02
123 95 0.98
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (123 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCAAATGCATTAGCGACGCACAGATAAAAACG
CCGCTAAAGACCAGAGAATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCTGAGC
Found at i:33084979 original size:114 final size:113
Alignment explanation
Indices: 33084767--33084979 Score: 295
Period size: 114 Copynumber: 1.9 Consensus size: 113
33084757 AAAATAAGCA
* * *
33084767 TTAGCGGCGTTTTCTAGAAAGCGCTGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATT
1 TTAGCGGCATTTTCTAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCATT
* *
33084832 CAGGGATTTAGCGGCATTTTTGAGGAAGTGCCGCTAATGCTCAGGGCT
66 CAGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGCT
* *
33084880 TTAGCGGCATTTT-TGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCT
1 TTAGCGGCATTTTCT-AGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCA
* * *
33084944 TTCGGGGCTTTAGCGGCGTTTTTG-GTAAAGCGCCGC
64 TTCAGGGATTTAGCGGCATTTTTGAG-AAAGCGCCGC
33084980 AAAAAAACAT
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
112 1 0.01
113 23 0.26
114 63 0.72
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (113 bp):
TTAGCGGCATTTTCTAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCATT
CAGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:33084994 original size:73 final size:74
Alignment explanation
Indices: 33084875--33085040 Score: 282
Period size: 73 Copynumber: 2.3 Consensus size: 74
33084865 CTAATGCTCA
* * *
33084875 GGGCTTTAGCGGCATTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTG
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTG
33084940 ACCTTTC-G
66 ACCTTTCGG
33084948 GGGCTTTAGCGGCGTTTTTG-GTAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCT
1 GGGCTTTAGCGGCGTTTTTGAG-AAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCT
33085012 GACCTTTCGG
65 GACCTTTCGG
33085022 GGGCTTTAGCGGCGTTTTT
1 GGGCTTTAGCGGCGTTTTT
33085041 AATACAGCAC
Statistics
Matches: 88, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
72 1 0.01
73 67 0.76
74 20 0.23
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.27
Consensus pattern (74 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTG
ACCTTTCGG
Found at i:33087451 original size:66 final size:66
Alignment explanation
Indices: 33087328--33087457 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
33087318 ACAGTTGAGA
* * * * *
33087328 TTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCTGTAGCGAGAGAAACAGAG
1 TTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAACAGAGGCGGCAGCAAGAGAAACAGAG
33087393 G
66 G
* * * *
33087394 TTCAAAAGAAATATTAAGAACTCCAGCTACAACTTAAAACAGATGCGGCATCAAGAGAAGCAGA
1 TTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAACAGAGGCGGCAGCAAGAGAAACAGA
33087458 CAATGCAGCG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (66 bp):
TTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAACAGAGGCGGCAGCAAGAGAAACAGAG
G
Found at i:33087903 original size:43 final size:42
Alignment explanation
Indices: 33087828--33087986 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 42
33087818 ACCAAACAAA
* * *
33087828 TAGCGGCGTTTGTGTAAAAACGCCGCTAAAAGAACATGACCTT
1 TAGCGGCGTTTGAGGAAAAGCGCCGCT-AAAGAACATGACCTT
* *
33087871 TAGTGGCGTTTGAGGAAGAAGCGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGAGGAA-AAGCGCCGCTAAAGAACATGACCTT
* * * * *
33087914 TAGCGGCGTTTGTTGAAAAAGCGCCACTAACGAACATGACATT
1 TAGCGGCGTTTG-AGGAAAAGCGCCGCTAAAGAACATGACCTT
*
33087957 TAGCGGCGTTTGTAGGAAAA-CGCAGCTAAA
1 TAGCGGCGTTTG-AGGAAAAGCGCCGCTAAA
33087987 ACGCCGCTAA
Statistics
Matches: 97, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 7 0.07
43 78 0.80
44 12 0.12
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (42 bp):
TAGCGGCGTTTGAGGAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:33087949 original size:86 final size:85
Alignment explanation
Indices: 33087828--33087986 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 85
33087818 ACCAAACAAA
* * *
33087828 TAGCGGCGTTTGTGTAAAAACGCCGCTAAAAGAACATGACCTTTAGTGGCGTTTG-AGGAAGAAG
1 TAGCGGCGTTTGTGTAAAAACGCCACTAAAAGAACATGACATTTAGCGGCGTTTGTAGGAA-AA-
*
33087892 CGCCGCTAAAGAACATGATCTT
64 CGCAGCTAAAGAACATGATCTT
*
33087914 TAGCGGCGTTTGT-TGAAAAAGCGCCACT-AACGAACATGACATTTAGCGGCGTTTGTAGGAAAA
1 TAGCGGCGTTTGTGT-AAAAA-CGCCACTAAAAGAACATGACATTTAGCGGCGTTTGTAGGAAAA
33087977 CGCAGCTAAA
64 CGCAGCTAAA
33087987 ACGCCGCTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
85 10 0.15
86 44 0.68
87 11 0.17
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (85 bp):
TAGCGGCGTTTGTGTAAAAACGCCACTAAAAGAACATGACATTTAGCGGCGTTTGTAGGAAAACG
CAGCTAAAGAACATGATCTT
Found at i:33088540 original size:29 final size:29
Alignment explanation
Indices: 33088507--33088586 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
33088497 TAAAAAAACC
* **
33088507 AATAAAAATTATAAAAGTTGTTAAATTTT
1 AATAAAAATTATAAAAATAATTAAATTTT
*
33088536 AATAAAAA-TATAAGAAATAATTAATTTTT
1 AATAAAAATTATAA-AAATAATTAAATTTT
* * *
33088565 ATTAAAAATTAGAAAAAAAATT
1 AATAAAAATTATAAAAATAATT
33088587 GTAAAAATTG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
28 5 0.12
29 33 0.79
30 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
AATAAAAATTATAAAAATAATTAAATTTT
Found at i:33088611 original size:9 final size:9
Alignment explanation
Indices: 33088580--33088712 Score: 56
Period size: 9 Copynumber: 14.0 Consensus size: 9
33088570 AAATTAGAAA
*
33088580 AAAAATTGT
1 AAAAATTAT
*
33088589 AAAAATTGT
1 AAAAATTAT
33088598 AAAAAATTAT
1 -AAAAATTAT
33088608 -AAAATATAT
1 AAAAAT-TAT
* *
33088617 AGAAATATAG
1 AAAAAT-TAT
*
33088627 AAAAAATAT
1 AAAAATTAT
*
33088636 AAAAATTTT
1 AAAAATTAT
* *
33088645 ATAAAGTTGT
1 A-AAAATTAT
*
33088655 AAGGAAATGAT
1 AA--AAATTAT
33088666 AAAAA-TAT
1 AAAAATTAT
*
33088674 AAAGAAATAT
1 AAA-AATTAT
*
33088684 -AAAATTCGT
1 AAAAATT-AT
33088693 AAAATAATTAT
1 -AAA-AATTAT
33088704 AAAAATTAT
1 AAAAATTAT
33088713 CATACCAAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
8 13 0.14
9 37 0.39
10 32 0.34
11 9 0.09
12 4 0.04
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:33088913 original size:20 final size:20
Alignment explanation
Indices: 33088890--33088952 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
33088880 TTGATGCATA
33088890 TTATAATTTTTTAATGATTT
1 TTATAATTTTTTAATGATTT
**
33088910 TTATAAAATTTTACA--ATTT
1 TTATAATTTTTTA-ATGATTT
33088929 TT-TATATTTTTT-ATGATTT
1 TTATA-ATTTTTTAATGATTT
33088948 TTATA
1 TTATA
33088953 TTGTTTTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 17 0.50
20 13 0.38
21 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (20 bp):
TTATAATTTTTTAATGATTT
Found at i:33088997 original size:10 final size:10
Alignment explanation
Indices: 33088890--33088999 Score: 59
Period size: 10 Copynumber: 11.1 Consensus size: 10
33088880 TTGATGCATA
33088890 TTATAATTTT
1 TTATAATTTT
*
33088900 TTAATGA-TTT
1 TT-ATAATTTT
**
33088910 TTATAAAATT
1 TTATAATTTT
*
33088920 TTACAATTTT
1 TTATAATTTT
33088930 TTAT-ATTTT
1 TTATAATTTT
*
33088939 TTATGA-TTT
1 TTATAATTTT
*
33088948 TTATATTGTTT
1 TTATAAT-TTT
* *
33088959 TTCTAA-GTT
1 TTATAATTTT
*
33088968 TTAGTAA-ATT
1 TTA-TAATTTT
*
33088978 TTAAATATTTT
1 TTATA-ATTTT
33088989 TTATAATTTT
1 TTATAATTTT
33088999 T
1 T
33089000 ATTAAAGTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
9 24 0.32
10 35 0.47
11 16 0.21
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (10 bp):
TTATAATTTT
Found at i:33088998 original size:9 final size:9
Alignment explanation
Indices: 33088890--33089054 Score: 64
Period size: 9 Copynumber: 17.2 Consensus size: 9
33088880 TTGATGCATA
33088890 TTATAATTTT
1 TTATAA-TTT
*
33088900 TTAATGATTT
1 TT-ATAATTT
*
33088910 TTATAAAATT
1 TTAT-AATTT
*
33088920 TTACAATTTT
1 TTATAA-TTT
*
33088930 TTATATTTT
1 TTATAATTT
*
33088939 TTATGATTT
1 TTATAATTT
*
33088948 TTATATTGTTT
1 TTATA--ATTT
* *
33088959 TTCTAAGTT
1 TTATAATTT
33088968 TTAGTAAATTT
1 TTA-T-AATTT
* *
33088979 TAAATATTTT
1 T-TATAATTT
33088989 TTATAATTT
1 TTATAATTT
*
33088998 TTATTAAAGTT
1 TTA-T-AATTT
* *
33089009 TAATAACTT
1 TTATAATTT
*
33089018 TTATAACTT
1 TTATAATTT
**
33089027 TTATTTGTTT
1 TTA-TAATTT
33089037 TTAT-A-TT
1 TTATAATTT
33089044 TTATAATTT
1 TTATAATTT
33089053 TT
1 TT
33089055 TTACCACATG
Statistics
Matches: 114, Mismatches: 28, Indels: 27
0.67 0.17 0.16
Matches are distributed among these distances:
7 6 0.05
8 1 0.01
9 51 0.45
10 33 0.29
11 22 0.19
12 1 0.01
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (9 bp):
TTATAATTT
Found at i:33096065 original size:15 final size:16
Alignment explanation
Indices: 33096034--33096065 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33096024 GTATAAGATC
33096034 TATTTTTTTTTCTCTT
1 TATTTTTTTTTCTCTT
33096050 TATTTTTTTTTC-CTT
1 TATTTTTTTTTCTCTT
33096065 T
1 T
33096066 CGAAGCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (16 bp):
TATTTTTTTTTCTCTT
Found at i:33099250 original size:19 final size:18
Alignment explanation
Indices: 33099209--33099251 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
33099199 ACGTCTTTTT
33099209 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
33099228 TGCATTGCATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
33099247 TGCAT
1 TGCAT
33099252 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:33101093 original size:9 final size:9
Alignment explanation
Indices: 33101077--33101126 Score: 75
Period size: 9 Copynumber: 5.6 Consensus size: 9
33101067 TCTCATGAGT
33101077 TCAAAAAAA
1 TCAAAAAAA
*
33101086 TAAAAAAAAA
1 T-CAAAAAAA
33101096 TCAAAAAAA
1 TCAAAAAAA
33101105 TC-AAAAAA
1 TCAAAAAAA
33101113 TCAAAAAAA
1 TCAAAAAAA
33101122 TCAAA
1 TCAAA
33101127 GTCAAAATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
8 8 0.22
9 21 0.57
10 8 0.22
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (9 bp):
TCAAAAAAA
Found at i:33101110 original size:17 final size:17
Alignment explanation
Indices: 33101090--33101126 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
33101080 AAAAAATAAA
33101090 AAAAAATCAAAAAAATC
1 AAAAAATCAAAAAAATC
33101107 AAAAAATCAAAAAAATC
1 AAAAAATCAAAAAAATC
33101124 AAA
1 AAA
33101127 GTCAAAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAAATCAAAAAAATC
Found at i:33102116 original size:21 final size:21
Alignment explanation
Indices: 33102090--33102136 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
33102080 GCTCAAATGT
33102090 TGATCAGAATGGGGCATGAAG
1 TGATCAGAATGGGGCATGAAG
* *
33102111 TGATCAGATTGGGGCATGATG
1 TGATCAGAATGGGGCATGAAG
33102132 TGATC
1 TGATC
33102137 TTGTTATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.11, G:0.36, T:0.26
Consensus pattern (21 bp):
TGATCAGAATGGGGCATGAAG
Found at i:33103257 original size:46 final size:46
Alignment explanation
Indices: 33103190--33103773 Score: 943
Period size: 46 Copynumber: 12.7 Consensus size: 46
33103180 TATCAATGAG
*
33103190 GATAGCAGATCTTATGTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
33103236 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
33103282 GATAGCGGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
33103328 GATAGCAGATCTTATCTTCCAGTATTTGGCAGCGGAGGAGATCAAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
33103374 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * * *
33103420 GATAGCAGATCTTATCTTCCTATATGTGGCAGTGGAGGAGATCAAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
33103466 GATAGCCGATCTTATCTTCCTGTATTTGGCAGCCGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
33103512 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * * *
33103558 GATAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGAAGATCAAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
33103604 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAAGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * * *
33103650 GATAGTAGATATTATCTTCCTGTATTTAGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
33103696 GATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAG
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
33103742 GATAGCAGATCTTGTCTTCCTGTAATTGGCAG
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAG
33103774 TAGAGGGATT
Statistics
Matches: 495, Mismatches: 43, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 495 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (46 bp):
GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
Found at i:33103939 original size:132 final size:132
Alignment explanation
Indices: 33103785--33104753 Score: 1497
Period size: 132 Copynumber: 7.3 Consensus size: 132
33103775 AGAGGGATTT
* * * *
33103785 AAGATTACAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTAAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAAATATTATCTTC
* *
33103850 CCAATACAGTGAAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
33103915 CG
131 CG
* * * *
33103917 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAAATCGAATATAGTAAATATTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAAATATTATCTTC
* * *
33103982 CCAATACAGTGGAGAAGCAGATTTAAGTCGTTAGTCCTATCACCTTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
**
33104047 TA
131 CG
* * * *
33104049 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAAATCGAATATAGTAAATATTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAAATATTATCTTC
*
33104114 CCAATACAGTGGAGAAGCAGATTTAAGCCATTTGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
*
33104179 TG
131 CG
* * * * * *
33104181 AAGATTGCAGATTCTGTTACCCTAATCAGTAGTGGAGTAGATCAAAGATAGTGAATTTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAAATATTATCTTC
*
33104246 CCAATACAGTGGAGAAGCAGATTTAAGCCATTTGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
*
33104311 TG
131 CG
* * *
33104313 AAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAAATATTATCTTC
*
33104378 CCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
33104443 CG
131 CG
* * * *
33104445 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAAATATTATCTTC
* *
33104510 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGTAGTAGTGGAATAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
33104575 CG
131 CG
* * * *
33104577 AAAATTACAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGTAAATATTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAAATATTATCTTC
* *
33104642 CCAATACAGTGGAGAAGCAGATTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
33104707 CG
131 CG
* * * *
33104709 AAAATTGTAGATTCTGTCACCCTAAGCAGTAGTAGAGCAAATCAA
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAA
33104754 CAATAACGAA
Statistics
Matches: 783, Mismatches: 54, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 783 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (132 bp):
AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAAATATTATCTTC
CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
CG
Found at i:33104335 original size:44 final size:44
Alignment explanation
Indices: 33104282--33104622 Score: 162
Period size: 44 Copynumber: 7.8 Consensus size: 44
33104272 GCCATTTGTC
* *
33104282 CTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
* * * * ** *
33104326 CTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
* * * * * ** *
33104369 CTTATCTTCCC-AATACAGTGGAGAAGTAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATCGAAG--ATTGCAGATT
*
33104414 CTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
* * * ** *
33104458 CTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
* * * * * * ** *
33104501 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATCGAAG--ATTGCAGATT
* * * * *
33104546 CTATCACCCTAAGTAGTAGTGGAATAGGTCGAAAATTACAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
* *
33104590 CTGTCACCCTAAGCAGTAGTGGAGCAGATCGAA
1 CTATCACCCTAAGCAGTAGTGGAGTAGATCGAA
33104623 TATGGTAAAT
Statistics
Matches: 210, Mismatches: 67, Indels: 40
0.66 0.21 0.13
Matches are distributed among these distances:
41 6 0.03
43 47 0.22
44 113 0.54
45 39 0.19
46 2 0.01
47 2 0.01
48 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGGAGTAGATCGAAGATTGCAGATT
Found at i:33105579 original size:488 final size:488
Alignment explanation
Indices: 33104663--33105638 Score: 1907
Period size: 488 Copynumber: 2.0 Consensus size: 488
33104653 GAGAAGCAGA
*
33104663 TTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGTCGAAAATTGTAGATTCTGTCA
1 TTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGTCGAAAATTGTAAATTCTGTCA
33104728 CCCTAAGCAGTAGTAGAGCAAATCAACAATAACGAATTTAAACCACAAACCTCGCCACCTAAAGT
66 CCCTAAGCAGTAGTAGAGCAAATCAACAATAACGAATTTAAACCACAAACCTCGCCACCTAAAGT
33104793 TATAACAGAGTGGATTGAAGATACAAGTCAGAGCTCTCTGAAGAGTAGTGCAGTGGATCAAAGCA
131 TATAACAGAGTGGATTGAAGATACAAGTCAGAGCTCTCTGAAGAGTAGTGCAGTGGATCAAAGCA
33104858 ACAAGACACAGTGGACTGGAGTGAAACTACTTGAAGAAGAGGAGTGTCAGAAGAAGTCGAGACTC
196 ACAAGACACAGTGGACTGGAGTGAAACTACTTGAAGAAGAGGAGTGTCAGAAGAAGTCGAGACTC
33104923 AGCAAGACCGGGCAAAATTGGTCTTTCTTAGTCTTTGCTCTGTTATCGTTACACGACAACGAGCA
261 AGCAAGACCGGGCAAAATTGGTCTTTCTTAGTCTTTGCTCTGTTATCGTTACACGACAACGAGCA
33104988 AAGAGGGGCAGCTGTACAAGCCCAATTTAGCCCGGGCCCACTATCCTAAAATTTCAAAACCCATT
326 AAGAGGGGCAGCTGTACAAGCCCAATTTAGCCCGGGCCCACTATCCTAAAATTTCAAAACCCATT
33105053 ACAACCAAATCAGGCCCAAACATTAAAAAATGTGGCCCAAACCCAATGAAAAAAAACTAGGGTTT
391 ACAACCAAATCAGGCCCAAACATTAAAAAATGTGGCCCAAACCCAATGAAAAAAAACTAGGGTTT
33105118 CAGAACCCTATCCCCTGCTTCTCATGTGCCGCT
456 CAGAACCCTATCCCCTGCTTCTCATGTGCCGCT
*
33105151 TTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGTCGAAGATTGTAAATTCTGTCA
1 TTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGTCGAAAATTGTAAATTCTGTCA
* *
33105216 CCCTAAGCAGTAGTAGAGCAAATCAACAATAATGAATTTAAACCACAAACCTCGCCCCCTAAAGT
66 CCCTAAGCAGTAGTAGAGCAAATCAACAATAACGAATTTAAACCACAAACCTCGCCACCTAAAGT
33105281 TATAACAGAGTGGATTGAAGATACAAGTCAGAGCTCTCTGAAGAGTAGTGCAGTGGATCAAAGCA
131 TATAACAGAGTGGATTGAAGATACAAGTCAGAGCTCTCTGAAGAGTAGTGCAGTGGATCAAAGCA
33105346 ACAAGACACAGTGGACTGGAGTGAAACTACTTGAAGAAGAGGAGTGTCAGAAGAAGTCGAGACTC
196 ACAAGACACAGTGGACTGGAGTGAAACTACTTGAAGAAGAGGAGTGTCAGAAGAAGTCGAGACTC
*
33105411 AGCAAGACCGGGCAAAATTGGTCTTTCTTAGTCTTTGCTCTGTTATCGTTACACGACAATGAGCA
261 AGCAAGACCGGGCAAAATTGGTCTTTCTTAGTCTTTGCTCTGTTATCGTTACACGACAACGAGCA
33105476 AAGAGGGGCAGCTGTACAAGCCCAATTTAGCCCGGGCCCACTATCCTAAAATTTCAAAACCCATT
326 AAGAGGGGCAGCTGTACAAGCCCAATTTAGCCCGGGCCCACTATCCTAAAATTTCAAAACCCATT
33105541 ACAACCAAATCAGGCCCAAACATTAAAAAATGTGGCCCAAACCCAATGAAAAAAAACTAGGGTTT
391 ACAACCAAATCAGGCCCAAACATTAAAAAATGTGGCCCAAACCCAATGAAAAAAAACTAGGGTTT
33105606 CAGAACCCTATCCCCTGCTTCTCATGTGCCGCT
456 CAGAACCCTATCCCCTGCTTCTCATGTGCCGCT
33105639 CCTAATCCCT
Statistics
Matches: 483, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
488 483 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (488 bp):
TTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGTCGAAAATTGTAAATTCTGTCA
CCCTAAGCAGTAGTAGAGCAAATCAACAATAACGAATTTAAACCACAAACCTCGCCACCTAAAGT
TATAACAGAGTGGATTGAAGATACAAGTCAGAGCTCTCTGAAGAGTAGTGCAGTGGATCAAAGCA
ACAAGACACAGTGGACTGGAGTGAAACTACTTGAAGAAGAGGAGTGTCAGAAGAAGTCGAGACTC
AGCAAGACCGGGCAAAATTGGTCTTTCTTAGTCTTTGCTCTGTTATCGTTACACGACAACGAGCA
AAGAGGGGCAGCTGTACAAGCCCAATTTAGCCCGGGCCCACTATCCTAAAATTTCAAAACCCATT
ACAACCAAATCAGGCCCAAACATTAAAAAATGTGGCCCAAACCCAATGAAAAAAAACTAGGGTTT
CAGAACCCTATCCCCTGCTTCTCATGTGCCGCT
Found at i:33106047 original size:23 final size:23
Alignment explanation
Indices: 33106020--33106067 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
33106010 TTGAATTTTT
33106020 CGGCCACCGTGTACGGTGGCCGG
1 CGGCCACCGTGTACGGTGGCCGG
*
33106043 CGGCCACCGTGTATGGTGGCCGG
1 CGGCCACCGTGTACGGTGGCCGG
33106066 CG
1 CG
33106068 AGACGGCGGC
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:0.08, C:0.33, G:0.44, T:0.15
Consensus pattern (23 bp):
CGGCCACCGTGTACGGTGGCCGG
Found at i:33111666 original size:24 final size:24
Alignment explanation
Indices: 33111639--33111685 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33111629 ACCGATGGCG
33111639 ACACCAAT-ACCATCATCAATGCTA
1 ACACCAATGACCA-CATCAATGCTA
*
33111663 ACACCAATGCCCACATCAATGCT
1 ACACCAATGACCACATCAATGCT
33111686 GATGTATTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.38, C:0.36, G:0.06, T:0.19
Consensus pattern (24 bp):
ACACCAATGACCACATCAATGCTA
Found at i:33117914 original size:25 final size:25
Alignment explanation
Indices: 33117883--33117969 Score: 129
Period size: 25 Copynumber: 3.5 Consensus size: 25
33117873 ACAAGCTTTA
* * * *
33117883 AACGGTAAACTCTTTCGAGCTGAAT
1 AACGGTAAGCTCCTCCGAGCTAAAT
*
33117908 AATGGTAAGCTCCTCCGAGCTAAAT
1 AACGGTAAGCTCCTCCGAGCTAAAT
33117933 AACGGTAAGCTCCTCCGAGCTAAAT
1 AACGGTAAGCTCCTCCGAGCTAAAT
33117958 AACGGTAAGCTC
1 AACGGTAAGCTC
33117970 ATATGAGCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (25 bp):
AACGGTAAGCTCCTCCGAGCTAAAT
Found at i:33117977 original size:25 final size:25
Alignment explanation
Indices: 33117883--33118008 Score: 108
Period size: 25 Copynumber: 5.0 Consensus size: 25
33117873 ACAAGCTTTA
* * * *
33117883 AACGGTAAACTCTTTCGAGCTGAAT
1 AACGGTAAGCTCATACGAGCTAAAT
* * *
33117908 AATGGTAAGCTCCTCCGAGCTAAAT
1 AACGGTAAGCTCATACGAGCTAAAT
* *
33117933 AACGGTAAGCTCCTCCGAGCTAAAT
1 AACGGTAAGCTCATACGAGCTAAAT
* * *
33117958 AACGGTAAGCTCATATGAGCTGAGT
1 AACGGTAAGCTCATACGAGCTAAAT
* * *
33117983 ATCGATAAGCTCATAAGAGCTGAAAT
1 AACGGTAAGCTCATACGAGCT-AAAT
33118009 CGATAACCCT
Statistics
Matches: 84, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
25 82 0.98
26 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTAAAT
Found at i:33120942 original size:18 final size:18
Alignment explanation
Indices: 33120898--33120944 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
33120888 TAATATAAAT
* *
33120898 TAAATAGTAAATTATTTA
1 TAAATATTAAAATATTTA
* *
33120916 GAAAT-TTAAAATATTTC
1 TAAATATTAAAATATTTA
33120933 TAAATATTAAAA
1 TAAATATTAAAA
33120945 ATTCCGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (18 bp):
TAAATATTAAAATATTTA
Found at i:33122059 original size:140 final size:139
Alignment explanation
Indices: 33121752--33122212 Score: 531
Period size: 140 Copynumber: 3.3 Consensus size: 139
33121742 TATTTTTAAA
* * * * * *
33121752 ATTTTTGTTTTAACCAAGCGCAGCCTCTCAATTTTCAAGTCCAAGATTCAAC-ACTTTGAAGTCC
1 ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATACAACAAATTTAAAGTCC
*
33121816 AAGATCCAACTTCAAATATAACTACTTATT---C-AA--CATGCAATTTTTGTAATTTTACAGTT
66 AAGATCCAACTTCAAATATAACTACTTATTCAACTAACTCATGCAATTTTTGTAA--TTACACTT
*
33121875 CATATGCTAAT
129 CATATACTAAT
* * * *
33121886 ATTTTTGTTTTAAACAAATGCAGCCTCTCAACTCTTAAGTCTAAGATACAACAAATTCTAAAGTC
1 ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATACAACAAATT-TAAAGTC
* * *
33121951 CAGGATCAAACTTCAAATGTAACTACTTATTCAACTAACTCATGCAATTTTTGTAATTACACTTC
65 CAAGATCCAACTTCAAATATAACTACTTATTCAACTAACTCATGCAATTTTTGTAATTACACTTC
*
33122016 ATATACTAGT
130 ATATACTAAT
* * * * * * *
33122026 ATTTTTGCTTTAACCAAGTGTAGCCTCTTAACTCTCAAGTCCAAGATCCAATAGATTTTTAAGTC
1 ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATACAACA-AATTTAAAGTC
* ** ** * *
33122091 CAAGATCCAACTTCAAATATAACTACTTATCCAACTAACTTGTGCAAAATTTGTAATTCCACTTT
65 CAAGATCCAACTTCAAATATAACTACTTATTCAACTAACTCATGCAATTTTTGTAATTACACTTC
33122156 ATATACTAAT
130 ATATACTAAT
* * * *
33122166 ATTTTTGTTTTAACTAAGTGAAACCTCTCAACTCTCAAGTTCAAGAT
1 ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGAT
33122213 CCAAATCTAT
Statistics
Matches: 274, Mismatches: 44, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
134 44 0.16
135 3 0.01
136 34 0.12
139 1 0.00
140 173 0.63
141 3 0.01
142 16 0.06
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (139 bp):
ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATACAACAAATTTAAAGTCC
AAGATCCAACTTCAAATATAACTACTTATTCAACTAACTCATGCAATTTTTGTAATTACACTTCA
TATACTAAT
Found at i:33122339 original size:22 final size:22
Alignment explanation
Indices: 33122288--33122332 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
33122278 CACATTAGCG
33122288 AACAAATATATAAATATAAATA
1 AACAAATATATAAATATAAATA
* *
33122310 AACAAATATTTATATA-AAATA
1 AACAAATATATAAATATAAATA
33122331 AA
1 AA
33122333 ATAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AACAAATATATAAATATAAATA
Found at i:33126147 original size:77 final size:77
Alignment explanation
Indices: 33126047--33126272 Score: 224
Period size: 77 Copynumber: 2.8 Consensus size: 77
33126037 TAAAATTATG
* * * * *
33126047 AAACAAAATCAAAATCAATTCTGTTGAATGGCAAGATTAAATC-CTGAAACAAAATTATTTAATT
1 AAACAAAATCAAAATAAAATCTGTTAAACGGCAAGAATAAATCTC-GAAACAAAATTATTTAATT
33126111 AAATCTTGTTTGC
65 AAATCTTGTTTGC
* *
33126124 AAACAAAATCAAAATAAAATCTGTTAAACGGCAGGAATAAATCTCGAAACATAATTATTTAATTA
1 AAACAAAATCAAAATAAAATCTGTTAAACGGCAAGAATAAATCTCGAAACAAAATTATTTAATTA
33126189 AATCTTCTCGTTTAG-
66 AATC-T-T-GTTT-GC
* * * * * *
33126204 AAAGAAAATCAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATCCCGAAAC-AGATTATTC
1 AAACAAAATC--AA---AATAAAATCTGTTAAACGGCAAGAATAAATCTCGAAACAAAATTATTT
33126268 AATTA
61 AATTA
33126273 TTTGTCATTT
Statistics
Matches: 126, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
77 60 0.48
78 2 0.02
79 1 0.01
80 13 0.10
81 1 0.01
82 2 0.02
84 11 0.09
85 36 0.29
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (77 bp):
AAACAAAATCAAAATAAAATCTGTTAAACGGCAAGAATAAATCTCGAAACAAAATTATTTAATTA
AATCTTGTTTGC
Found at i:33126327 original size:81 final size:81
Alignment explanation
Indices: 33126127--33126570 Score: 460
Period size: 81 Copynumber: 5.3 Consensus size: 81
33126117 TGTTTGCAAA
* * * * *
33126127 CAAAATCAAAATAAAATCTGTTAAACGGCAGGAATAAATCTCGAAACATAATTATTTAATTAAAT
1 CAAAATC-GAATAAAATCTGTTAAACGGCGGGAATAAATCTCAAAACA-GATTATTCAATT--AT
* *
33126192 CTTCTCGTTTAGAAAGAAAAT
62 -TTCTCGTTTGGAAACAAAAT
* * * * *
33126213 CAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATCCCGAAACAGATTATTCAATTATTTGT
1 CAAAATCGAATAAAATCTGTTAAACGGCGGGAATAAATCTCAAAACAGATTATTCAATTATTTCT
* **
33126278 CATTTGGAAGGAAAAT
66 CGTTTGGAAACAAAAT
* ** *
33126294 AAAAATTAAATAAAATCTATTAAACGGCGGGAATAAATCTCAAAACAGATTATTCAATTATTTCT
1 CAAAATCGAATAAAATCTGTTAAACGGCGGGAATAAATCTCAAAACAGATTATTCAATTATTTCT
33126359 CGTTTGGAAACAAAAT
66 CGTTTGGAAACAAAAT
* * *
33126375 CAAAATCGAATAAAATCTGTTAAACGACGGGAATAAATC-CAAAAACAAATTATTCAACTATTTC
1 CAAAATCGAATAAAATCTGTTAAACGGCGGGAATAAATCTC-AAAACAGATTATTCAATTATTTC
33126439 TCGTTTGGAAACAAAAT
65 TCGTTTGGAAACAAAAT
* * * * * *
33126456 CAAAATCGAATAAATTTTGTTAAAAGGCGAGAATAAATCTCAAAACAGGTTTTATTTAATTTTAA
1 CAAAATCGAATAAAATCTGTTAAACGGCGGGAATAAATCTCAAAACA-G-ATTATTCAA--TT-A
* *
33126521 ATTCTCATTTGGCAAA-AAAATT
61 TTTCTCGTTTGG-AAACAAAA-T
* * *
33126543 AAAAATGGAATAAAATCTGTTGAACGGC
1 CAAAATCGAATAAAATCTGTTAAACGGC
33126571 AAGATTAAAT
Statistics
Matches: 304, Mismatches: 45, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.00
81 197 0.65
82 3 0.01
83 7 0.02
84 10 0.03
85 38 0.12
86 22 0.07
87 26 0.09
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (81 bp):
CAAAATCGAATAAAATCTGTTAAACGGCGGGAATAAATCTCAAAACAGATTATTCAATTATTTCT
CGTTTGGAAACAAAAT
Found at i:33126580 original size:87 final size:87
Alignment explanation
Indices: 33126436--33126698 Score: 275
Period size: 88 Copynumber: 3.0 Consensus size: 87
33126426 ATTCAACTAT
* * * * * *
33126436 TTCTCGTTTGGAAACAAAA-TCAAAATCGAATAAATTTTGTTAAAAGGCGAGAATAAATCTCAAA
1 TTCTCGTTTGGAAACAAAATTAAAAATGGAATAAAATCTGTTGAAAGGCAAGAATAAATCTCAAA
**
33126500 ACAGGTTTTATTTAATTTTAAA
66 ACAAATTTTATTTAATTTTAAA
* * *
33126522 TTCTCATTTGGCAAA-AAAATTAAAAATGGAATAAAATCTGTTGAACGGCAAGATTAAAT-TCCG
1 TTCTCGTTTGG-AAACAAAATTAAAAATGGAATAAAATCTGTTGAAAGGCAAGAATAAATCT-C-
33126585 AAAA-AAATTTTATTTAATTTT-AA
63 AAAACAAATTTTATTTAATTTTAAA
* * * * * * *
33126608 TACTCGTTTGGAAACAAAATAAAAAAAATGGAATAAAATCTGTTGAATGGCAGGAATAGATCCCG
1 TTCTCGTTTGGAAACAAAAT--TAAAAATGGAATAAAATCTGTTGAAAGGCAAGAATAAATCTCA
*
33126673 AAACAAATTTTATTCAATTTTAAA
64 AAACAAATTTTATTTAATTTTAAA
33126697 TT
1 TT
33126699 TTATTTTCAA
Statistics
Matches: 145, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
85 3 0.02
86 31 0.21
87 53 0.37
88 55 0.38
89 3 0.02
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.32
Consensus pattern (87 bp):
TTCTCGTTTGGAAACAAAATTAAAAATGGAATAAAATCTGTTGAAAGGCAAGAATAAATCTCAAA
ACAAATTTTATTTAATTTTAAA
Found at i:33126839 original size:22 final size:22
Alignment explanation
Indices: 33126789--33126839 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
33126779 CACGTTAGCC
33126789 AATAAATATATAAATATAAATA
1 AATAAATATATAAATATAAATA
* * *
33126811 AACAAATATTTATATA-AAATAA
1 AATAAATATATAAATATAAAT-A
33126833 AATAAAT
1 AATAAAT
33126840 TGAATAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AATAAATATATAAATATAAATA
Found at i:33127304 original size:20 final size:20
Alignment explanation
Indices: 33127281--33127321 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
33127271 TTAAATCAGT
*
33127281 TTGATTAAAATCAAATCAAA
1 TTGATTAAAATCAAATAAAA
**
33127301 TTGATTGGAATCAAATAAAA
1 TTGATTAAAATCAAATAAAA
33127321 T
1 T
33127322 CATGATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (20 bp):
TTGATTAAAATCAAATAAAA
Found at i:33129927 original size:25 final size:25
Alignment explanation
Indices: 33129897--33129995 Score: 108
Period size: 25 Copynumber: 4.0 Consensus size: 25
33129887 GGTCACCGAT
** *
33129897 TTCAGCTCTTATGAGCTTCCCGATA
1 TTCAGCTCACATGAGCTTCCCGTTA
* *
33129922 CTCAGCTCACATGAGCTTCCTGTTA
1 TTCAGCTCACATGAGCTTCCCGTTA
* *
33129947 TTCAGCTCGCATAAGCTTCCCGTTA
1 TTCAGCTCACATGAGCTTCCCGTTA
* * *
33129972 TTCAGCTAATATGAACTTCCCGTT
1 TTCAGCTCACATGAGCTTCCCGTT
33129996 TACAACTCGT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.34
Consensus pattern (25 bp):
TTCAGCTCACATGAGCTTCCCGTTA
Found at i:33147317 original size:69 final size:69
Alignment explanation
Indices: 33147205--33147398 Score: 205
Period size: 69 Copynumber: 2.8 Consensus size: 69
33147195 TGAAAAATAG
* * ** * *
33147205 GGACACAATCTTAAATCTTCGTCCTATGTAGATCT-GTCGTGATCTTAAATCAGCGGACTGT-AA
1 GGACACGATATTAAATCAGCGTGCTATGTAGAT-TAGTCGTGATCTTAAATCAGCGGACTATAAA
*
33147268 AATAA
65 AAAAA
* * * *
33147273 GGGCACGATTTTTAAATCAGCGTGCTATGTAGATTAGTCATGATCTAAAATCAGCGGACTATAAA
1 GGACACGA-TATTAAATCAGCGTGCTATGTAGATTAGTCGTGATCTTAAATCAGCGGACTATAAA
33147338 AAAAA
65 AAAAA
* * * *
33147343 GTACACTATATTAAATCTGCGTGCTATGTAGATTAG-CTGTGAGCTTAAATCAGCGG
1 GGACACGATATTAAATCAGCGTGCTATGTAGATTAGTC-GTGATCTTAAATCAGCGG
33147399 GTTACAAAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
68 8 0.08
69 85 0.82
70 11 0.11
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (69 bp):
GGACACGATATTAAATCAGCGTGCTATGTAGATTAGTCGTGATCTTAAATCAGCGGACTATAAAA
AAAA
Found at i:33154333 original size:13 final size:13
Alignment explanation
Indices: 33154315--33154339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33154305 CTGATGGTCG
33154315 AAAATGTGTCCAT
1 AAAATGTGTCCAT
33154328 AAAATGTGTCCA
1 AAAATGTGTCCA
33154340 CAGTCATCGC
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
AAAATGTGTCCAT
Found at i:33155420 original size:82 final size:80
Alignment explanation
Indices: 33155281--33155430 Score: 183
Period size: 82 Copynumber: 1.9 Consensus size: 80
33155271 AATCATCCAC
* * * ** *
33155281 ATCTATACTACTATATAAAAGATAGGCCTAAGGCCTTCCTTAAAAGATATTTTTCCATTCTTATC
1 ATCTATACTACCATATAAAAGATAGCCCTAAGGCCTTCCTAAAAAGATACATGTCCATTCTTATC
33155346 TTTTGCATCAAAAAA
66 TTTTGCATCAAAAAA
* * ** *
33155361 ATCTATACTTACCGTATAAAAGTTAAGCCCTAAGGCCTTTGTAAAAAGATACATGTCCATTCTTT
1 ATCTATAC-TACCATATAAAAGAT-AGCCCTAAGGCCTTCCTAAAAAGATACATGTCCATTCTTA
33155426 TCTTT
64 TCTTT
33155431 CACATGAGAA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 8 0.14
81 12 0.21
82 37 0.65
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (80 bp):
ATCTATACTACCATATAAAAGATAGCCCTAAGGCCTTCCTAAAAAGATACATGTCCATTCTTATC
TTTTGCATCAAAAAA
Found at i:33157846 original size:25 final size:25
Alignment explanation
Indices: 33157817--33157907 Score: 107
Period size: 25 Copynumber: 3.8 Consensus size: 25
33157807 TTAAGGAATC
*
33157817 TTAGTGCGCTCTGATTATTAGCACG
1 TTAGTGCTCTCTGATTATTAGCACG
33157842 TTAGTGCTCTCTGATTATTAGCACG
1 TTAGTGCTCTCTGATTATTAGCACG
** *
33157867 CCAGTGCTCTCTG---ATTAGCACA
1 TTAGTGCTCTCTGATTATTAGCACG
* *
33157889 TTTGTGCTCTCTGTTTATT
1 TTAGTGCTCTCTGATTATT
33157908 CGCTTCAGTG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
22 18 0.32
25 38 0.68
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.41
Consensus pattern (25 bp):
TTAGTGCTCTCTGATTATTAGCACG
Found at i:33162414 original size:6 final size:6
Alignment explanation
Indices: 33162403--33162428 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
33162393 GATGACTCAC
33162403 CAAAGA CAAAGA CAAAGA CAAAGA CA
1 CAAAGA CAAAGA CAAAGA CAAAGA CA
33162429 TGAATGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.19, G:0.15, T:0.00
Consensus pattern (6 bp):
CAAAGA
Found at i:33163489 original size:16 final size:17
Alignment explanation
Indices: 33163468--33163500 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
33163458 TTGAATCAAT
33163468 TTTTTAAT-ATTTTTTA
1 TTTTTAATGATTTTTTA
33163484 TTTTTAATGATTTTTTA
1 TTTTTAATGATTTTTTA
33163501 ATTGAACTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTTAATGATTTTTTA
Found at i:33171804 original size:8 final size:7
Alignment explanation
Indices: 33171780--33171828 Score: 54
Period size: 6 Copynumber: 7.6 Consensus size: 7
33171770 CCAAAGAGGG
33171780 AAAAATT
1 AAAAATT
33171787 AAAAA-T
1 AAAAATT
33171793 -AAAATT
1 AAAAATT
33171799 GAAAAATT
1 -AAAAATT
33171807 -AAAATT
1 AAAAATT
33171813 -AAAATT
1 AAAAATT
33171819 -AAAATT
1 AAAAATT
33171825 AAAA
1 AAAA
33171829 TGAGCCAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.11
6 20 0.53
7 8 0.21
8 6 0.16
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:33171804 original size:20 final size:20
Alignment explanation
Indices: 33171779--33171828 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
33171769 CCCAAAGAGG
33171779 GAAAAATTAAAAATAAAATT
1 GAAAAATTAAAAATAAAATT
*
33171799 GAAAAATTAAAATTAAAATT
1 GAAAAATTAAAAATAAAATT
33171819 --AAAATTAAAA
1 GAAAAATTAAAA
33171829 TGAGCCAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 10 0.34
20 19 0.66
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (20 bp):
GAAAAATTAAAAATAAAATT
Found at i:33171829 original size:12 final size:12
Alignment explanation
Indices: 33171781--33171829 Score: 71
Period size: 12 Copynumber: 3.9 Consensus size: 12
33171771 CAAAGAGGGA
*
33171781 AAAATTAAAAAT
1 AAAATTAAAATT
33171793 AAAATTGAAAAATT
1 AAAATT--AAAATT
33171807 AAAATTAAAATT
1 AAAATTAAAATT
33171819 AAAATTAAAAT
1 AAAATTAAAAT
33171830 GAGCCAAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
12 23 0.68
14 11 0.32
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
AAAATTAAAATT
Found at i:33175608 original size:174 final size:179
Alignment explanation
Indices: 33175296--33175615 Score: 461
Period size: 174 Copynumber: 1.8 Consensus size: 179
33175286 GTATCACTAG
* * * * * * *
33175296 TTATGCCTTTTTAGGCCTCTTAAATCTGTCAACTGCTTGTACTTCTTTCAATTTTTCTTGTATTG
1 TTATGCCTTTCTAGGCCTCTCAAATATATCAACTGCTTCTACTTCTTTCAATTTTTCTTATATCG
* * * *
33175361 GGACTTTGCTGCATTTGGCTTGTCTGTCTGTATAATTAGAATGACTAGTGATTACTTTAGACGGT
66 AGACTTTGCTGCATTTGGCTTATCTCTCTGTATAATTAGAATGACTAGTGATTACTTTAGACGGA
*
33175426 TTGATGATTCATCATTGATATGATATGTCTTTAATTATTTTAGTCTGTA
131 TCGATGATTCATCATTGATATGATATGTCTTTAATTATTTTAGTCTGTA
*
33175475 TTATGCCTTTCTAGGCCTCTCAAATATATCAATTGCTTCTAC-T-TTTCAA-TTTTCTTATATCG
1 TTATGCCTTTCTAGGCCTCTCAAATATATCAACTGCTTCTACTTCTTTCAATTTTTCTTATATCG
* * *
33175537 AGACTTTGCTGCATTTGGCTTATTTCTTTGTAT-A-TAGAATGACTAGTGATTACTTTTGACGGA
66 AGACTTTGCTGCATTTGGCTTATCTCTCTGTATAATTAGAATGACTAGTGATTACTTTAGACGGA
33175600 TCGATGATTCATCATT
131 TCGATGATTCATCATT
33175616 ATTTATATGA
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
174 42 0.34
175 1 0.01
176 39 0.31
177 6 0.05
178 1 0.01
179 36 0.29
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (179 bp):
TTATGCCTTTCTAGGCCTCTCAAATATATCAACTGCTTCTACTTCTTTCAATTTTTCTTATATCG
AGACTTTGCTGCATTTGGCTTATCTCTCTGTATAATTAGAATGACTAGTGATTACTTTAGACGGA
TCGATGATTCATCATTGATATGATATGTCTTTAATTATTTTAGTCTGTA
Found at i:33179433 original size:48 final size:48
Alignment explanation
Indices: 33179377--33179474 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
33179367 GGGCATTTCA
33179377 TACTATCGCTATGGTAGAATGCTTTACTTTTTATGATAATTACAGATT
1 TACTATCGCTATGGTAGAATGCTTTACTTTTTATGATAATTACAGATT
33179425 TACTATCGCTATGGTAGAATGCTTTACTTTTTATGATAATTACAGATT
1 TACTATCGCTATGGTAGAATGCTTTACTTTTTATGATAATTACAGATT
33179473 TA
1 TA
33179475 GATGGTCTGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (48 bp):
TACTATCGCTATGGTAGAATGCTTTACTTTTTATGATAATTACAGATT
Found at i:33200342 original size:18 final size:18
Alignment explanation
Indices: 33200319--33200353 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
33200309 CATTAGACCA
33200319 TTTAAATAGTTAGTGGAG
1 TTTAAATAGTTAGTGGAG
33200337 TTTAAATAGTTAGTGGA
1 TTTAAATAGTTAGTGGA
33200354 CTTTTATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (18 bp):
TTTAAATAGTTAGTGGAG
Found at i:33208009 original size:14 final size:13
Alignment explanation
Indices: 33207990--33208026 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
33207980 ATTTTGATTA
33207990 AATAAAATTAAATT
1 AATAAAATT-AATT
33208004 AATAAAATTAATT
1 AATAAAATTAATT
33208017 -A-AAAATTAAT
1 AATAAAATTAAT
33208027 ATGGTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.39
12 1 0.04
13 4 0.17
14 9 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATAAAATTAATT
Found at i:33208602 original size:58 final size:61
Alignment explanation
Indices: 33208488--33208603 Score: 168
Period size: 61 Copynumber: 2.0 Consensus size: 61
33208478 AGTGATTATC
*
33208488 TTAATATTAAATTTTATTCAATATTTACCTTGTAGATAAATATTATATTAATTTAATAGAT
1 TTAATATTAAATTTAATTCAATATTTACCTTGTAGATAAATATTATATTAATTTAATAGAT
* *
33208549 TTAATATTAAATTTAA-TCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATTC-AATATTTACCTTGTAGATAAATATTATATTAATTTAATA
33208604 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 23 0.45
59 1 0.02
60 3 0.06
61 24 0.47
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (61 bp):
TTAATATTAAATTTAATTCAATATTTACCTTGTAGATAAATATTATATTAATTTAATAGAT
Found at i:33209076 original size:17 final size:17
Alignment explanation
Indices: 33209039--33209086 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
33209029 GAATTTAGAA
*
33209039 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
33209055 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
33209072 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
33209087 AAAATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:33210379 original size:46 final size:46
Alignment explanation
Indices: 33210312--33210490 Score: 216
Period size: 46 Copynumber: 3.9 Consensus size: 46
33210302 CATGGCAAAG
*
33210312 TGTGAAACGTAGGTATGGTATTCCAATGAAGAAAACCATACAGAGT
1 TGTGAAAAGTAGGTATGGTATTCCAATGAAGAAAACCATACAGAGT
* ** *
33210358 TGTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATATTGCGT
1 TGTGAAAAGTAGGTATGGTATTCCAATGAAGAAAACCATACAGAGT
* * ** * * *
33210404 TGTGAAAAGTAAGTATGGTATTTCGGTAAAGAAAATCATACCGAGT
1 TGTGAAAAGTAGGTATGGTATTCCAATGAAGAAAACCATACAGAGT
* *
33210450 TGTGAAAAGTAGGTATGGTATTTCC-GTGAAGAAAATCATAC
1 TGTGAAAAGTAGGTATGGTA-TTCCAATGAAGAAAACCATAC
33210491 TGATTTATAG
Statistics
Matches: 116, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
46 113 0.97
47 3 0.03
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTCCAATGAAGAAAACCATACAGAGT
Found at i:33210469 original size:92 final size:92
Alignment explanation
Indices: 33210312--33210489 Score: 257
Period size: 92 Copynumber: 1.9 Consensus size: 92
33210302 CATGGCAAAG
* * *
33210312 TGTGAAACGTAGGTATGGTATTCCAATGAAGAAAACCATACAGAGTTGTGAAAAGTAGGTATGGT
1 TGTGAAAAGTAAGTATGGTATTCCAATAAAGAAAACCATACAGAGTTGTGAAAAGTAGGTATGGT
33210377 ATTTCAATGAAGAAAACCATATTGCGT
66 ATTTCAATGAAGAAAACCATATTGCGT
* ** * *
33210404 TGTGAAAAGTAAGTATGGTATTTCGGTAAAGAAAATCATACCGAGTTGTGAAAAGTAGGTATGGT
1 TGTGAAAAGTAAGTATGGTATTCCAATAAAGAAAACCATACAGAGTTGTGAAAAGTAGGTATGGT
** *
33210469 ATTTCCGTGAAGAAAATCATA
66 ATTTCAATGAAGAAAACCATA
33210490 CTGATTTATA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (92 bp):
TGTGAAAAGTAAGTATGGTATTCCAATAAAGAAAACCATACAGAGTTGTGAAAAGTAGGTATGGT
ATTTCAATGAAGAAAACCATATTGCGT
Found at i:33217715 original size:3 final size:3
Alignment explanation
Indices: 33217707--33217746 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
33217697 AGAACGACAT
33217707 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
33217747 ATGGACGCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:33223034 original size:30 final size:30
Alignment explanation
Indices: 33222994--33223053 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
33222984 ATGCCATAAA
*
33222994 ACACTTCTTTAACATAAACTAGCACCATGG
1 ACACTCCTTTAACATAAACTAGCACCATGG
33223024 ACACTCCTTTAACATAAACTAGCACCATGG
1 ACACTCCTTTAACATAAACTAGCACCATGG
33223054 CTGAATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.28, G:0.10, T:0.25
Consensus pattern (30 bp):
ACACTCCTTTAACATAAACTAGCACCATGG
Found at i:33224261 original size:48 final size:48
Alignment explanation
Indices: 33224202--33224386 Score: 235
Period size: 48 Copynumber: 3.9 Consensus size: 48
33224192 AATAGATTTC
* * * * * *
33224202 TCGGTGGCCTGCACACAGTCCGTACCAGCTTTGTGTAATAACAGATTC
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * *
33224250 TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGGTTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * *
33224298 TTGGTGGCCTGCACACATTCCGTGCCACCCTTGTATCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * *
33224346 TCGGTGGCCTACACACAATCCGTGCCACCCTTGTGTCATAA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAA
33224387 TAAAATATCG
Statistics
Matches: 118, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
Found at i:33231160 original size:3 final size:3
Alignment explanation
Indices: 33231154--33231180 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
33231144 CATCATCATC
33231154 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
33231181 TGGTTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:33231316 original size:13 final size:14
Alignment explanation
Indices: 33231286--33231320 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
33231276 TGTTTTATTG
*
33231286 AAAATGGTTTTTGA
1 AAAATGATTTTTGA
*
33231300 AAAATGATTTTTAA
1 AAAATGATTTTTGA
33231314 AAAATGA
1 AAAATGA
33231321 CTTACTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (14 bp):
AAAATGATTTTTGA
Found at i:33231544 original size:21 final size:20
Alignment explanation
Indices: 33231492--33231560 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
33231482 TTATTTCATA
33231492 AATCTT-ATTATATTTTAATT
1 AATCTTAATT-TATTTTAATT
* **
33231512 AATCATGTTTTAGTTTTAATT
1 AATCTTAATTTA-TTTTAATT
*
33231533 AATCTTAATTTA-CTTAATT
1 AATCTTAATTTATTTTAATT
*
33231552 AAGCTTAAT
1 AATCTTAAT
33231561 CATTAATTCG
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
19 14 0.35
20 7 0.17
21 19 0.47
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (20 bp):
AATCTTAATTTATTTTAATT
Found at i:33233460 original size:49 final size:49
Alignment explanation
Indices: 33233385--33233481 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
33233375 TCTAGAAGGG
* * *
33233385 ATAAATAGTGATAAGAGTGTAAACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGCAAACAGTGGAAGACCAAGTTTAGAAATGT
*
33233434 ATAAATAGTGATAAGAGTGCAGACAGTGGAAGACCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGTGCAAACAGTGGAAGACCAAGTTTAGAAATG
33233482 CATAGCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGCAAACAGTGGAAGACCAAGTTTAGAAATGT
Found at i:33256763 original size:21 final size:21
Alignment explanation
Indices: 33256724--33256775 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
33256714 GGTCTACAAA
33256724 CCCGTGTGGAAAGAGACACACG
1 CCCGTGT-GAAAGAGACACACG
**
33256746 CCCGTGTGAAAGTTACACACG
1 CCCGTGTGAAAGAGACACACG
* *
33256767 ACAGTGTGA
1 CCCGTGTGA
33256776 TCGAGTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.31, C:0.25, G:0.29, T:0.15
Consensus pattern (21 bp):
CCCGTGTGAAAGAGACACACG
Found at i:33256893 original size:21 final size:21
Alignment explanation
Indices: 33256869--33256923 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
33256859 TAGAAAGCTC
33256869 ACACGTCTGTGTGGC-TAAGGA
1 ACACGTC-GTGTGGCTTAAGGA
*
33256890 ACACGGTCGTGT-GCTTAAGGC
1 ACAC-GTCGTGTGGCTTAAGGA
33256911 ACACGTCCGTGTG
1 ACACGT-CGTGTG
33256924 AAAATTGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 4 0.14
21 22 0.76
22 3 0.10
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.24
Consensus pattern (21 bp):
ACACGTCGTGTGGCTTAAGGA
Found at i:33258534 original size:205 final size:204
Alignment explanation
Indices: 33258182--33258558 Score: 673
Period size: 205 Copynumber: 1.8 Consensus size: 204
33258172 TATCATCATT
* * *
33258182 ATATTACACAACCCCATTTCATCATTAAACACACATATTGCATATTAGAAGATATATTTCAATTT
1 ATATTACACAACCCCATTTCACCATCAAACACACATATTGCATATTAGAAGATATATTTCAATAT
* *
33258247 AATTTTCACATCACATATCATAATTTAAGTATTTCATATCATTTCTCATTTTATCCTTTTTAGTC
66 AATTTTCACATCACATATCATAATTTAAGTATTTCATATCATTTCCCATTTTATCCATTTTAGTC
33258312 CTCTACCTCGATGTTTCATATCAAAATTCAATCAAACATTTCAATATACCCGAAACTACTAGACC
131 CTCTACCTCGATGTTTCATATC-AAATTCAATCAAACATTTCAATATACCCGAAACTACTAGACC
33258377 CGGTTTAGGA
195 CGGTTTAGGA
*
33258387 ATATTACACAACCCTATTTCACCATCAAACACACATATTGCATATTAGAAGATATATTTCAATAT
1 ATATTACACAACCCCATTTCACCATCAAACACACATATTGCATATTAGAAGATATATTTCAATAT
*
33258452 AATTTTCATATCACATATCATAATTTAAGTATTTCATATCATTTCCCATTTTATCCATTTTAGTC
66 AATTTTCACATCACATATCATAATTTAAGTATTTCATATCATTTCCCATTTTATCCATTTTAGTC
*
33258517 CTCTACCTTGATGTTTCATATCAAATTCAATCAAACATTTCA
131 CTCTACCTCGATGTTTCATATCAAATTCAATCAAACATTTCA
33258559 TATTATCATA
Statistics
Matches: 164, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
204 20 0.12
205 144 0.88
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.38
Consensus pattern (204 bp):
ATATTACACAACCCCATTTCACCATCAAACACACATATTGCATATTAGAAGATATATTTCAATAT
AATTTTCACATCACATATCATAATTTAAGTATTTCATATCATTTCCCATTTTATCCATTTTAGTC
CTCTACCTCGATGTTTCATATCAAATTCAATCAAACATTTCAATATACCCGAAACTACTAGACCC
GGTTTAGGA
Found at i:33259348 original size:22 final size:24
Alignment explanation
Indices: 33259319--33259372 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
33259309 TTTAATTTAT
*
33259319 TTAATTAATTATGA-TTTCTTAAC
1 TTAATTAATCATGACTTTCTTAAC
*
33259342 -TAATTAATCATTACTTTCTTAAC
1 TTAATTAATCATGACTTTCTTAAC
33259365 TTAATTAA
1 TTAATTAA
33259373 CACATGCACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 11 0.41
23 9 0.33
24 7 0.26
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (24 bp):
TTAATTAATCATGACTTTCTTAAC
Found at i:33263589 original size:20 final size:19
Alignment explanation
Indices: 33263546--33263594 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
33263536 TCCAAAATTA
*
33263546 GTATCGATATAAATTTTTG
1 GTATCGATATAAATTTTAG
33263565 GTATCGATAT-AATTTTCAAG
1 GTATCGATATAAATTTT--AG
33263585 GTATCGATAT
1 GTATCGATAT
33263595 TTATTGTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 6 0.22
19 10 0.37
20 11 0.41
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (19 bp):
GTATCGATATAAATTTTAG
Found at i:33271849 original size:47 final size:47
Alignment explanation
Indices: 33271780--33271872 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
33271770 GGTTCGGCCC
33271780 CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAATATTTTCT
1 CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAATATTTTCT
*
33271827 CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAGATATTTTC
1 CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAATATTTTC
33271873 CCAAATTCAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.27, C:0.32, G:0.05, T:0.35
Consensus pattern (47 bp):
CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAATATTTTCT
Found at i:33280683 original size:21 final size:20
Alignment explanation
Indices: 33280659--33280700 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
33280649 ATTGTTATTT
33280659 TCTTAACAATAAAATTTAAAA
1 TCTTAA-AATAAAATTTAAAA
* *
33280680 TCTTAAAGTAAAATTTGAAA
1 TCTTAAAATAAAATTTAAAA
33280700 T
1 T
33280701 GTTTAGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (20 bp):
TCTTAAAATAAAATTTAAAA
Found at i:33285443 original size:9 final size:9
Alignment explanation
Indices: 33285429--33285465 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33285419 GTAGTGATTC
33285429 AATTCGGTT
1 AATTCGGTT
*
33285438 AATTCGGAT
1 AATTCGGTT
*
33285447 AATTCTGTT
1 AATTCGGTT
33285456 AATTCGGTT
1 AATTCGGTT
33285465 A
1 A
33285466 TTTTTTAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:33304230 original size:29 final size:28
Alignment explanation
Indices: 33304180--33304252 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
33304170 TGGAGTCTCG
*
33304180 CCACAAAGG-TGTCCTTT-AAGAGGTTTA
1 CCACAAAGGTTGT-CTTTCTAGAGGTTTA
** * *
33304207 CCATGAAGGCTTGTCTTTCTAGAGTTTTG
1 CCACAAAGG-TTGTCTTTCTAGAGGTTTA
33304236 CCACAAAGGTTGTCTTT
1 CCACAAAGGTTGTCTTT
33304253 TTACAAGTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
27 7 0.19
28 12 0.33
29 17 0.47
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (28 bp):
CCACAAAGGTTGTCTTTCTAGAGGTTTA
Found at i:33304505 original size:53 final size:53
Alignment explanation
Indices: 33304448--33304563 Score: 153
Period size: 53 Copynumber: 2.2 Consensus size: 53
33304438 CACAAATATG
* * *
33304448 GTCTTCTTTCCATATGATGCCATAACCCGCCAGTTAC-GATTTTACATGAAATA
1 GTCTTCTTTCCATATGATGCCATAACCCACCAGTTACAG-TCTTACACGAAATA
* * * *
33304501 GTCTTGTTTCCATATGATGCCATAACCCATCAGTTACAGTCTTACACGACATG
1 GTCTTCTTTCCATATGATGCCATAACCCACCAGTTACAGTCTTACACGAAATA
33304554 GTCTTCTTTC
1 GTCTTCTTTC
33304564 AGTGTCATGG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
53 53 0.98
54 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (53 bp):
GTCTTCTTTCCATATGATGCCATAACCCACCAGTTACAGTCTTACACGAAATA
Found at i:33305942 original size:21 final size:20
Alignment explanation
Indices: 33305886--33305942 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
33305876 AGAATTACTT
*
33305886 AAAAAT-TAAAAAAACTAG-A
1 AAAAATATAAAAATA-TAGAA
* *
33305905 AAAATTATAAAATTATAGAA
1 AAAAATATAAAAATATAGAA
33305925 AAAAATATAACAAATATA
1 AAAAATATAA-AAATATA
33305943 AAATTTACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 8 0.27
20 16 0.53
21 6 0.20
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (20 bp):
AAAAATATAAAAATATAGAA
Found at i:33306204 original size:15 final size:15
Alignment explanation
Indices: 33306167--33306204 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
33306157 ATTATTTTTT
33306167 ATTATTTAAATAATA
1 ATTATTTAAATAATA
33306182 ATTTATTTGAAATAA-A
1 A-TTATTT-AAATAATA
33306198 ATTATTT
1 ATTATTT
33306205 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 8 0.38
17 6 0.29
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTATTTAAATAATA
Found at i:33306372 original size:17 final size:17
Alignment explanation
Indices: 33306339--33306372 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33306329 ATGTGATTTA
*
33306339 TAAAATTTTTAAAATAT
1 TAAAATTTCTAAAATAT
*
33306356 TAAAATTTCTAATATAT
1 TAAAATTTCTAAAATAT
33306373 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATTTCTAAAATAT
Done.