Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 179 of 325
Found at i:58189477 original size:47 final size:47
Alignment explanation
Indices: 58189423--58190062 Score: 1140
Period size: 47 Copynumber: 13.6 Consensus size: 47
58189413 TATTTGAATA
58189423 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58189470 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58189517 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58189564 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58189611 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58189658 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58189705 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58189752 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58189799 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58189848 AATGTGAAAGTGTATATATGTGATAAGGTCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58189895 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
58189944 AATGTGAAA--GTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
58189989 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58190036 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
58190063 TCCCGAAGGG
Statistics
Matches: 573, Mismatches: 14, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
45 44 0.08
47 440 0.77
49 89 0.16
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:58191250 original size:40 final size:40
Alignment explanation
Indices: 58191161--58191590 Score: 550
Period size: 40 Copynumber: 10.9 Consensus size: 40
58191151 CCTTATAATT
* * **
58191161 CCAGCACGAATGC-CTTCGAGG-TTTAG-CCTGATATATGA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATAACA
* * *
58191199 CCAGCAAGAATGCTCTTCGGGACTTAGCCCGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* * *
58191239 CTAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* *
58191279 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* * *
58191319 CTAGCACGAATGCTCTTCGAGACTTAGCCCGGATTTAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* *
58191359 CCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* *
58191399 CCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
58191439 CCAGCTCGAATGCTCTTC-GG---TAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* *
58191475 CCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* * * *
58191515 CCAGCTCGAATGCTCTTCTGGACTTAGCCCGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* *
58191555 CTAGCACGAATGCTCTTCGGGACTTAGCCTGGATAT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
58191591 TTAACTCTCG
Statistics
Matches: 360, Mismatches: 25, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
36 34 0.09
37 2 0.01
38 14 0.04
39 11 0.03
40 299 0.83
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
Found at i:58191271 original size:23 final size:23
Alignment explanation
Indices: 58191206--58191309 Score: 70
Period size: 23 Copynumber: 5.0 Consensus size: 23
58191196 TGACCAGCAA
58191206 GAATGCTCTTCGGGACTTAGCCC
1 GAATGCTCTTCGGGACTTAGCCC
* * *
58191229 GAAT-AT-ATC---AC-TAGCAC
1 GAATGCTCTTCGGGACTTAGCCC
58191246 GAATGCTCTTCGGGACTTAGCCC
1 GAATGCTCTTCGGGACTTAGCCC
* * *
58191269 GAAT-AT-ATC---AC-TAGCAC
1 GAATGCTCTTCGGGACTTAGCCC
58191286 GAATGCTCTTCGGGACTTAGCCC
1 GAATGCTCTTCGGGACTTAGCCC
58191309 G
1 G
58191310 GATATATCAC
Statistics
Matches: 57, Mismatches: 12, Indels: 24
0.61 0.13 0.26
Matches are distributed among these distances:
17 18 0.32
18 6 0.11
19 4 0.07
21 4 0.07
22 6 0.11
23 19 0.33
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (23 bp):
GAATGCTCTTCGGGACTTAGCCC
Found at i:58193099 original size:22 final size:22
Alignment explanation
Indices: 58193073--58193148 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
58193063 TTCCACGTTC
58193073 ATCACATTGGCCATTCTACCTT
1 ATCACATTGGCCATTCTACCTT
* *
58193095 ATCACATATATG-CATGT-TCACATT
1 ATCACAT-T-GGCCAT-TCT-ACCTT
*
58193119 CATCACATTGGCCATTCGACCTT
1 -ATCACATTGGCCATTCTACCTT
58193142 ATCACAT
1 ATCACAT
58193149 ATTTGCATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 14 0.33
23 11 0.26
24 10 0.24
25 7 0.17
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTACCTT
Found at i:58193101 original size:47 final size:47
Alignment explanation
Indices: 58193070--58193250 Score: 308
Period size: 47 Copynumber: 3.9 Consensus size: 47
58193060 CACTTCCACG
*
58193070 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACA
*
58193117 TTCATCACATTGGCCATTCGACCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACA
* *
58193164 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACA
* *
58193211 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCAT
1 TTCATCACATTGGCCATTCGACCTTATCACATATATGCAT
58193251 ATCATCACAT
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACA
Found at i:58193195 original size:22 final size:22
Alignment explanation
Indices: 58193167--58193241 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
58193157 GTTCACATTC
58193167 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
58193189 ATCACATATTTG-CATGTTC-ACATT
1 ATCAC--ATTGGCCA--TTCGGCCTT
58193213 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
58193236 ATCACA
1 ATCACA
58193242 CATATGCATA
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:58196400 original size:37 final size:37
Alignment explanation
Indices: 58196350--58196428 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
58196340 TTATTACGAA
* * *
58196350 GTCTTACCCGGACATAA-TCTCCGCACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
58196387 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
58196424 GTCTT
1 GTCTT
58196429 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:58196625 original size:47 final size:47
Alignment explanation
Indices: 58196547--58196990 Score: 699
Period size: 47 Copynumber: 9.4 Consensus size: 47
58196537 CCCTTCGGGA
* * * * * * *
58196547 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58196594 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58196641 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58196688 CTTATTACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58196735 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58196782 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
58196831 CTTAGAACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58196878 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58196925 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58196972 CTTATCACATGTATACACT
1 CTTATCACATATATACACT
58196991 ATCTTGGCTG
Statistics
Matches: 368, Mismatches: 27, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 324 0.88
49 44 0.12
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58196868 original size:190 final size:190
Alignment explanation
Indices: 58196547--58196986 Score: 695
Period size: 190 Copynumber: 2.3 Consensus size: 190
58196537 CCCTTCGGGA
* * * * * * * * *
58196547 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
** *
58196610 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAGAACATATATACACTTTCACATTCATCACA
* *
58196675 TCGGCCATTAGGCCTTATTACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58196735 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
58196800 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAGAACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAGAACATATATACACTTTCACATTCATCACA
* *
58196865 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58196925 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATGTATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
58196987 CACTATCTTG
Statistics
Matches: 230, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
188 45 0.20
190 185 0.80
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTAGAACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58204730 original size:8 final size:8
Alignment explanation
Indices: 58204717--58204755 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
58204707 ATCAACAAAA
58204717 GCCGAAAT
1 GCCGAAAT
58204725 GCCGAAAT
1 GCCGAAAT
*
58204733 GCTGAAAT
1 GCCGAAAT
*
58204741 GCCGAAAA
1 GCCGAAAT
58204749 GCCGAAA
1 GCCGAAA
58204756 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.41, C:0.23, G:0.26, T:0.10
Consensus pattern (8 bp):
GCCGAAAT
Found at i:58204755 original size:16 final size:16
Alignment explanation
Indices: 58204713--58204755 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
58204703 ATGTATCAAC
58204713 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
* *
58204729 AAATGCTGAAATGCCG
1 AAAAGCCGAAATGCCG
58204745 AAAAGCCGAAA
1 AAAAGCCGAAA
58204756 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:58205025 original size:29 final size:29
Alignment explanation
Indices: 58204982--58205079 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 29
58204972 ATGTACTGGT
*
58204982 CCTAATGGGCTATATAAATGTGATTTGGG
1 CCTAATGGGCCATATAAATGTGATTTGGG
* * *
58205011 CCTGATGGGCCATATACAGGTGATTTGGG
1 CCTAATGGGCCATATAAATGTGATTTGGG
* *
58205040 CCTAATGGGCCATATGAATATGA-TTGGG
1 CCTAATGGGCCATATAAATGTGATTTGGG
*
58205068 CTTAATGGGCCA
1 CCTAATGGGCCA
58205080 GATACAGGTA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 16 0.27
29 43 0.73
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (29 bp):
CCTAATGGGCCATATAAATGTGATTTGGG
Found at i:58205397 original size:26 final size:27
Alignment explanation
Indices: 58205363--58205414 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
58205353 AATCGTAATT
*
58205363 AAGAGAAAATTACCAAAATACCCCTAA
1 AAGAGAAAATGACCAAAATACCCCTAA
58205390 AAGA-AAAATGACCAAAATACCCCTA
1 AAGAGAAAATGACCAAAATACCCCTA
58205415 GGAGTAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.56, C:0.23, G:0.08, T:0.13
Consensus pattern (27 bp):
AAGAGAAAATGACCAAAATACCCCTAA
Found at i:58207989 original size:16 final size:16
Alignment explanation
Indices: 58207968--58207999 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58207958 GTTGTAATGC
58207968 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
*
58207984 CCCAAAAATCTTGAAA
1 CCCAAAAATCTCGAAA
58208000 TCCTAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.28, G:0.06, T:0.16
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:58209468 original size:29 final size:28
Alignment explanation
Indices: 58209412--58209525 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 28
58209402 GTGAGCATGA
* * *
58209412 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATAGGCC
58209440 ATATAAATGTGATTTGGGCCTAATAGGCC
1 ATATAAATGTGA-TTGGGCCTAATAGGCC
* *
58209469 ATATACAGGTGATTTGGGCCTAATAGGCC
1 ATATAAATGTGA-TTGGGCCTAATAGGCC
* * *
58209498 ATAT-AATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATAGGCC
58209525 A
1 A
58209526 GCACAGGTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
27 15 0.20
28 15 0.20
29 45 0.60
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATAGGCC
Found at i:58220193 original size:40 final size:40
Alignment explanation
Indices: 58220116--58220338 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 40
58220106 AAACCAAGTA
** * *
58220116 CCTTCGGG-CTTAAACCGG-ATATAGCCACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGAAT-TAGTCACTCGCACAAATG
* * *
58220155 CCATCGAGACTTAGCCCGG-ATATAGT-AGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAT-TAGTCA-CTCGCACAAATG
* *
58220195 TCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAT-TAGTCACTCGCACAAATG
*
58220235 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATTAGTCACTCGCACAAATG
* *
58220275 CCTTCGAGACTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATTAGTCACTCGCACAAATG
58220315 CCTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGGACTTAGCCCGGAATTA
58220339 TCATCCGAAT
Statistics
Matches: 164, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 7 0.04
40 154 0.94
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAATTAGTCACTCGCACAAATG
Found at i:58223759 original size:29 final size:29
Alignment explanation
Indices: 58223697--58223787 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
58223687 TACATACATG
* *
58223697 CATATGGCCCACTAGG-CCTAATC-TCATT
1 CATATGGCCCATTAGGCCCAAATCAT-ATT
58223725 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAAATCATATT
* * * *
58223754 CGTATGACCCATTAAGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCATATT
58223783 CATAT
1 CATAT
58223788 ACATGCTTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 15 0.28
29 38 0.70
30 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCATATT
Found at i:58224018 original size:16 final size:16
Alignment explanation
Indices: 58223997--58224031 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
58223987 GTAGCCAAAC
58223997 TTTTAGCCTTTCGGCA
1 TTTTAGCCTTTCGGCA
**
58224013 TTTTAGTTTTTCGGCA
1 TTTTAGCCTTTCGGCA
58224029 TTT
1 TTT
58224032 CGAGATTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTTAGCCTTTCGGCA
Found at i:58228974 original size:43 final size:43
Alignment explanation
Indices: 58228908--58228991 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
58228898 AAATCGTACA
*
58228908 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
58228951 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCGTAAACACATAT
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATAT
58228992 TAGAATCACA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
42 3 0.08
43 33 0.89
44 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:58233505 original size:4 final size:4
Alignment explanation
Indices: 58233496--58233522 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
58233486 TAGGTGTATT
58233496 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
58233523 TAGTATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:58258238 original size:28 final size:28
Alignment explanation
Indices: 58258159--58258242 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
58258149 GTGAGCATGA
* *
58258159 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATGAATGTGAATGGGCCTAATGGGCC
* *
58258187 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-ATGGGCCTAATGGGCC
* *
58258216 ATATGAATATGAATGGGCTTAATGGGC
1 ATATGAATGTGAATGGGCCTAATGGGC
58258243 TAGTTACAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 24 0.50
29 24 0.50
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGAATGGGCCTAATGGGCC
Found at i:58262139 original size:26 final size:26
Alignment explanation
Indices: 58262103--58262155 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
58262093 CTTAAAGCCC
58262103 TGCAGGCTTGGTACTGGTAACTGGAT
1 TGCAGGCTTGGTACTGGTAACTGGAT
58262129 TGCAGGCTTGGTACTGGTAACTGGAT
1 TGCAGGCTTGGTACTGGTAACTGGAT
58262155 T
1 T
58262156 CGGATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.34, T:0.32
Consensus pattern (26 bp):
TGCAGGCTTGGTACTGGTAACTGGAT
Found at i:58277186 original size:46 final size:47
Alignment explanation
Indices: 58277133--58277386 Score: 376
Period size: 46 Copynumber: 5.5 Consensus size: 47
58277123 TTGAATAAAG
58277133 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAAT
* *
58277179 GTGAAAGTGATATATATGTGAAAAGG-CTAATGGCCGATGTGATGAAT
1 GTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCAATGTGATGAAT
*
58277226 GTG-AAG-GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAAT
*
58277271 GTGAAAGTGTATATATGTGATAA-GCCGAATGGCCAATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAAT
* * * *
58277317 GTGAAAGTGTATATATGTGATAGGGCC-GATGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAAT
*
58277363 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
58277387 TCCCGAAGGG
Statistics
Matches: 192, Mismatches: 10, Indels: 12
0.90 0.05 0.06
Matches are distributed among these distances:
44 15 0.08
45 25 0.13
46 105 0.55
47 47 0.24
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAAT
Found at i:58277246 original size:91 final size:93
Alignment explanation
Indices: 58277133--58277382 Score: 373
Period size: 91 Copynumber: 2.7 Consensus size: 93
58277123 TTGAATAAAG
58277133 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGATATATATG
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-TATATATG
* * *
58277197 TGAAAAGGCTAATGGCCGATGTGATGAAT
65 TGAAAAGCCGAATGGCCAATGTGATGAAT
*
58277226 GTG-AAG-GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGT
*
58277289 GATAAGCCGAATGGCCAATGTGATGAAT
66 GAAAAGCCGAATGGCCAATGTGATGAAT
* * * * *
58277317 GTGAAAGTGTATATATGTGATAGGGCC-GATGGCCAACGTGATGGATGTGAAAGTGTATAAATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGT
58277381 GA
66 GA
58277383 TAAGTCCCGA
Statistics
Matches: 144, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
91 63 0.44
92 60 0.42
93 21 0.15
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (93 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGT
GAAAAGCCGAATGGCCAATGTGATGAAT
Found at i:58280752 original size:3 final size:3
Alignment explanation
Indices: 58280744--58280769 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58280734 TTTAATTTAG
58280744 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
58280770 AATATTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:58281664 original size:21 final size:22
Alignment explanation
Indices: 58281640--58281680 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
58281630 AAACAGGGGA
58281640 GAAAGAAAG-AAAGGGAAAAGG
1 GAAAGAAAGAAAAGGGAAAAGG
58281661 GAAAGAAAGAAAAGGGAAAA
1 GAAAGAAAGAAAAGGGAAAA
58281681 ATAGGGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (22 bp):
GAAAGAAAGAAAAGGGAAAAGG
Found at i:58283074 original size:18 final size:18
Alignment explanation
Indices: 58283036--58283144 Score: 114
Period size: 18 Copynumber: 6.1 Consensus size: 18
58283026 TAAATAAAGG
*
58283036 TACTGAAT-ACTGACTGC
1 TACTGAATAACTGACTGT
*
58283053 TACTGAATAACTGATTGT
1 TACTGAATAACTGACTGT
* * *
58283071 TACTGGATAACTGATTGC
1 TACTGAATAACTGACTGT
*
58283089 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
* * *
58283107 TACTGAATAATTTA-TCAT
1 TACTGAATAACTGACT-GT
58283125 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
58283143 TA
1 TA
58283145 AAGAGTGACT
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
17 9 0.12
18 66 0.87
19 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:58283128 original size:54 final size:53
Alignment explanation
Indices: 58283036--58283138 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 53
58283026 TAAATAAAGG
** *
58283036 TACTGAATACTGACTGCTACTGAATAACTGATTGTTACTGGATAACTGATTGC
1 TACTGAATACTGACTGCTACTGAATAACTGATCATTACTGAATAACTGATTGC
* * * *
58283089 TACTGAATAATTGACTGTTACTGAATAATTTATCATTACTGAATAACTGA
1 TACTGAAT-ACTGACTGCTACTGAATAACTGATCATTACTGAATAACTGA
58283139 CTGTTAAAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.19
54 34 0.81
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (53 bp):
TACTGAATACTGACTGCTACTGAATAACTGATCATTACTGAATAACTGATTGC
Found at i:58284972 original size:46 final size:46
Alignment explanation
Indices: 58284922--58285094 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
58284912 TGGTTGAGCA
58284922 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
58284968 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
58285013 CATCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAAAG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
58285061 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58285095 GGGGCGGATT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58285078 original size:93 final size:93
Alignment explanation
Indices: 58284919--58285089 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
58284909 GGATGGTTGA
* * *
58284919 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAAAGCCCGAACTCGTTGAGT
58284984 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
58285012 GCATCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAAAGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAAAGCCCGAACTCGTTGAGT
58285077 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58285090 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAAAGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:58285356 original size:19 final size:20
Alignment explanation
Indices: 58285319--58285356 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58285309 ATAAGGTGGT
58285319 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58285339 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58285357 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58287573 original size:55 final size:55
Alignment explanation
Indices: 58287489--58287600 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
58287479 TTTTGAAAGT
*
58287489 ATTGCCCTCGAAGAGGACTCTTTGATGAGGTAGAGAAAATTACGAGAACGTTACC
1 ATTGCCCTCGAAAAGGACTCTTTGATGAGGTAGAGAAAATTACGAGAACGTTACC
*
58287544 ATTGCCCTCGAAAAGGACTCTTTGATGAGGTAGAGAAAATTATGAGAACGTTACC
1 ATTGCCCTCGAAAAGGACTCTTTGATGAGGTAGAGAAAATTACGAGAACGTTACC
58287599 AT
1 AT
58287601 AATCTCTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (55 bp):
ATTGCCCTCGAAAAGGACTCTTTGATGAGGTAGAGAAAATTACGAGAACGTTACC
Found at i:58288938 original size:42 final size:42
Alignment explanation
Indices: 58288880--58288996 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 42
58288870 TAGGGTTACT
* * * *
58288880 GAGATTACCTTTAAGACCGTGTCTGGGATATGGCATCGATAT
1 GAGATTACATGTAAGACCATGTCTGGGATATGGCATCGATAC
* * *
58288922 GAGACTT-CGTGTAAGACCATAG-CTGGGCTATTGTCATCGATAC
1 GAGA-TTACATGTAAGACCAT-GTCTGGGATA-TGGCATCGATAC
*
58288965 GAGATTACATGTAAGACCATATCTGGGATATG
1 GAGATTACATGTAAGACCATGTCTGGGATATG
58288997 ACATTGTTAC
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
42 25 0.41
43 36 0.59
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATGTCTGGGATATGGCATCGATAC
Found at i:58291442 original size:20 final size:18
Alignment explanation
Indices: 58291417--58291453 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
58291407 ATTGCTAAGT
58291417 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
58291437 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
58291454 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:58292062 original size:46 final size:46
Alignment explanation
Indices: 58292012--58292185 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
58292002 GTTGAGCATC
58292012 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
* * * *
58292058 CGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TT
** * **
58292105 CGAGTTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
*
58292151 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58292186 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
Found at i:58294499 original size:28 final size:28
Alignment explanation
Indices: 58294466--58294528 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
58294456 TCGGGCCGCG
*
58294466 ATGGGCCGAAAGGGGCCATGTGGGCCCA
1 ATGGGCCAAAAGGGGCCATGTGGGCCCA
*
58294494 ATGGGCCAAAAGGGGCCATGTGGGCCTA
1 ATGGGCCAAAAGGGGCCATGTGGGCCCA
58294522 ATGGGCC
1 ATGGGCC
58294529 TATGGGCCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.41, T:0.13
Consensus pattern (28 bp):
ATGGGCCAAAAGGGGCCATGTGGGCCCA
Found at i:58294784 original size:16 final size:16
Alignment explanation
Indices: 58294763--58294793 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58294753 CCAGTTTATA
58294763 AAATTACCCAAATATC
1 AAATTACCCAAATATC
*
58294779 AAATTACCGAAATAT
1 AAATTACCCAAATAT
58294794 TGTCGATTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATTACCCAAATATC
Found at i:58294837 original size:27 final size:26
Alignment explanation
Indices: 58294796--58294881 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
58294786 CGAAATATTG
*
58294796 TCGATTGTAAAATTACTAAAATACCC
1 TCGATTGTAAAATTACCAAAATACCC
*
58294822 TCGACTTGTAAAATTACCAAAGTACCC
1 TCGA-TTGTAAAATTACCAAAATACCC
***
58294849 TCGATT-TACAAAATTACCATTTTACCC
1 TCGATTGT--AAAATTACCAAAATACCC
58294876 TCGATT
1 TCGATT
58294882 TACGGAATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.02
26 6 0.12
27 45 0.87
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
TCGATTGTAAAATTACCAAAATACCC
Found at i:58294882 original size:27 final size:27
Alignment explanation
Indices: 58294844--58295359 Score: 613
Period size: 27 Copynumber: 19.2 Consensus size: 27
58294834 ATTACCAAAG
* *
58294844 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
58294871 TACCCTCGATTTACGGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58294898 TACCCTAGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58294925 TACCCTCTATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
58294952 TACACTCTATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
58294979 TACTCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
58295006 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
58295033 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
58295060 TACTCTC-AATTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58295086 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
58295113 CACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
58295140 TACCCTCAATTTAAAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
58295167 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* ***
58295194 TTCCCTCGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
58295221 TACCCTCGATTTACA-AATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
58295247 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58295274 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
58295301 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
58295328 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
58295355 TACCC
1 TACCC
58295360 CTAGGGTATT
Statistics
Matches: 421, Mismatches: 66, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 48 0.11
27 373 0.89
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:58295171 original size:161 final size:161
Alignment explanation
Indices: 58294844--58295359 Score: 696
Period size: 161 Copynumber: 3.2 Consensus size: 161
58294834 ATTACCAAAG
*
58294844 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACGGAATTATTGTTTTACCCT-AGAT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTATTGTTTTACCCTCA-A-
* * * * * * *
58294908 TTATAGAATTACCGTTTTACCCTCTATTTATAGAATTACCGTTTTACACTCTATTTACAAAATTA
64 TTATAGAATTACTGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTA
* * **
58294973 CTGTTTTACTCTCGATTTATAGAATTACCATTT
129 CTGTTTTACCCTCGATTTAAAGAATTACTGTTT
* * * * *
58295006 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACTCTCAATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTATTGTTTTACCCTCAATT
* * *
58295071 ATAGAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTCACCCTCGATTTATAGAATTACC
66 ATAGAATTACTGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACT
* *
58295136 ATTTTACCCTCAATTTAAAGAATTACTGTTT
131 GTTTTACCCTCGATTTAAAGAATTACTGTTT
* * * *
58295167 TACCCTCGATTTACAAAATTACCGTTTTTCCCTCGATTTACAGAATTATTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTATTGTTTTACCCTCAATT
* * *
58295232 -TACAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTAC
66 ATA-GAATTACTGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTAC
*
58295296 TGTTTTACCCTCGATTTACAGAATTA-TCGTTT
130 TGTTTTACCCTCGATTTAAAGAATTACT-GTTT
*
58295328 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACCATTTTACCC
58295360 CTAGGGTATT
Statistics
Matches: 310, Mismatches: 41, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
160 3 0.01
161 251 0.81
162 55 0.18
163 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (161 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTATTGTTTTACCCTCAATT
ATAGAATTACTGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACT
GTTTTACCCTCGATTTAAAGAATTACTGTTT
Found at i:58295884 original size:6 final size:6
Alignment explanation
Indices: 58295846--58295964 Score: 50
Period size: 6 Copynumber: 19.3 Consensus size: 6
58295836 TTGCATTCAC
* * *
58295846 ATTCTG ATTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTCTA ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
* * * **
58295895 -TCACCTA ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCAC
1 AT--TCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
58295945 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
58295965 AATGTTTCTT
Statistics
Matches: 82, Mismatches: 18, Indels: 26
0.65 0.14 0.21
Matches are distributed among these distances:
5 6 0.07
6 64 0.78
7 8 0.10
8 3 0.04
9 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:58295905 original size:25 final size:25
Alignment explanation
Indices: 58295877--58295942 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
58295867 CCTGATATTG
*
58295877 ATTCTGATTCTAATTTTGTCACCTA
1 ATTCTGATTCTAATTCTGTCACCTA
* *
58295902 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTAATTCTGTCACCTA
*
58295927 ATTCTGATTCTGATTC
1 ATTCTGATTCTAATTC
58295943 ACATTTTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTAATTCTGTCACCTA
Found at i:58295937 original size:31 final size:30
Alignment explanation
Indices: 58295846--58295942 Score: 105
Period size: 31 Copynumber: 3.3 Consensus size: 30
58295836 TTGCATTCAC
* *
58295846 ATTCTGATTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTCTGATTCTGTCACCTGAT-TTG
* *
58295877 ATTCTGATTCTAATTTTGTCACCT-A----
1 ATTCTGATTCTGATTCTGTCACCTGATTTG
58295902 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATT-TG
58295933 ATTCTGATTC
1 ATTCTGATTC
58295943 ACATTTTGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
25 22 0.41
26 1 0.02
30 1 0.02
31 30 0.56
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACCTGATTTG
Found at i:58301804 original size:50 final size:46
Alignment explanation
Indices: 58301733--58301848 Score: 126
Period size: 46 Copynumber: 2.4 Consensus size: 46
58301723 TGTCTTCGAC
** *
58301733 ATGGACTTACATGAATTATTCCTGGCTCC-AATGCCATATACATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGGCTCCAAAT-CC--AT--ATATCTAAT
* * *
58301783 ATGGGCTTACATGGCTCATTCCTGTCTCCAAATCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGGCTCCAAATCCATATATCTAAT
58301829 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
58301849 TCTGTCCTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.47
48 2 0.03
50 26 0.45
51 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGGCTCCAAATCCATATATCTAAT
Found at i:58301860 original size:5 final size:5
Alignment explanation
Indices: 58301850--58301884 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
58301840 TGGCTCATTT
58301850 CTGTC CTGTC CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC CTGTC CTGTC
58301885 AACCCCAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:58307901 original size:49 final size:49
Alignment explanation
Indices: 58307793--58308325 Score: 811
Period size: 47 Copynumber: 11.1 Consensus size: 49
58307783 GAAATGATAG
*
58307793 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
58307840 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
58307889 TAGGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
58307938 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
*
58307989 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
58308036 GAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
58308083 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
58308132 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
58308181 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
58308228 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-A-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
58308275 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
58308322 TAAG
1 TAAG
58308326 TCCCTAAGGG
Statistics
Matches: 451, Mismatches: 26, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
46 2 0.00
47 212 0.47
48 1 0.00
49 187 0.41
51 49 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:58308076 original size:145 final size:144
Alignment explanation
Indices: 58307793--58308323 Score: 813
Period size: 145 Copynumber: 3.7 Consensus size: 144
58307783 GAAATGATAG
58307793 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGATAAGGCCTAATGGCCG
* *
58307856 ACGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGCGAA
66 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAA
58307921 AGTGTATATATATGTGA
130 AGTG--TATATATGTGA
*
58307938 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGAGATAAGGCCTAATGGC
* * *
58308003 CGATGTGATGAATGTGAAAGTG-TATATACGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGA
64 CGATGTGATGAATGTGAAAGTGATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGA
*
58308067 AAGTGTATATATGAGA
129 AAGTGTATATATGTGA
*
58308083 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGATAAGGCCTAATGGCCG
58308148 ATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAA
58308213 AGTGTATATATGTGA
130 AGTGTATATATGTGA
* * * * * *
58308228 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-A-GTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGATAAGGCCTAATGGCCG
* * *
58308291 ACGTGATGGATGTGAAAGTG-TATAAATGTGATA
66 ATGTGATGAATGTGAAAGTGATATATATGTGATA
58308324 AGTCCCTAAG
Statistics
Matches: 357, Mismatches: 23, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
141 12 0.03
143 80 0.22
144 1 0.00
145 176 0.49
147 43 0.12
149 45 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (144 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATGTGA
Found at i:58308500 original size:37 final size:37
Alignment explanation
Indices: 58308444--58308522 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
58308434 CCGAGCTCTA
* * *
58308444 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
58308481 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
58308518 AAGAC
1 AAGAC
58308523 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:58310455 original size:29 final size:29
Alignment explanation
Indices: 58310420--58310493 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
58310410 GTTGTGAGAT
* *
58310420 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
58310449 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
58310478 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58310494 TGGATGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:58310917 original size:38 final size:39
Alignment explanation
Indices: 58310804--58310944 Score: 139
Period size: 38 Copynumber: 3.6 Consensus size: 39
58310794 TCGAATGATG
* * *
58310804 TCCGGGCTAAGTCCCGAA-GC-TTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAT
* * *
58310841 ATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAT
*
58310882 TCCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAT
58310920 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
58310945 CATGCTAGTG
Statistics
Matches: 85, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
38 40 0.47
39 19 0.22
40 19 0.22
41 7 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAT
Found at i:58310964 original size:78 final size:78
Alignment explanation
Indices: 58310882--58311111 Score: 247
Period size: 78 Copynumber: 2.9 Consensus size: 78
58310872 AGATACTAAT
*
58310882 TCCGGGCTAAGCCCGAAG-GCATT-GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGCCCGAAGAGCATTCGTGCGAGTTA-TATATCCGGGCTAAGT-CCGAAGAGCATT
*
58310945 CATGCTAGTGATGTA
64 CATGCTAGTGATATA
* * * * *
58310960 TCCGGGCTAAGTTCC-AAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCC-AAGAGCATT
1 TCCGGGCTAAG-CCCGAAGAGCATTCGTGCGAGTTATATATCCGGGCTAAG-TCCGAAGAGCATT
*
58311023 CGTGCTAGTGATATA
64 CATGCTAGTGATATA
* * * *
58311038 TCCGTGCTAAACCCGAAGAGCATTCGTGCTG-GTGT-TATATCCGGGCTAGGTCCGAAGAGCAAT
1 TCCGGGCTAAGCCCGAAGAGCATTCGTGC-GAGT-TATATATCCGGGCTAAGTCCGAAGAGCATT
*
58311101 CATGCTGGTGA
64 CATGCTAGTGA
58311112 CGTGTATTCG
Statistics
Matches: 125, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
77 5 0.04
78 90 0.72
79 22 0.18
80 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGAGCATTCGTGCGAGTTATATATCCGGGCTAAGTCCGAAGAGCATTCA
TGCTAGTGATATA
Found at i:58310987 original size:39 final size:40
Alignment explanation
Indices: 58310919--58311111 Score: 241
Period size: 39 Copynumber: 4.9 Consensus size: 40
58310909 GAGTTACTAA
* *
58310919 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
*
58310959 ATCCGGGCTAAGTTCC-AAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
*
58310998 ATCCGGGCTAAGTTCC-AAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
* ** * * *
58311037 ATCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
* * *
58311076 ATCCGGGCT-AGGTCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGA
58311112 CGTGTATTCG
Statistics
Matches: 137, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
38 3 0.02
39 119 0.87
40 15 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
Found at i:58314627 original size:47 final size:47
Alignment explanation
Indices: 58314558--58315036 Score: 780
Period size: 47 Copynumber: 10.1 Consensus size: 47
58314548 GAAATGATAG
*
58314558 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
58314605 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
58314654 T-AGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
58314702 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
58314749 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
58314796 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
58314845 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
58314892 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
58314939 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
58314986 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
58315033 TAAG
1 TAAG
58315037 TCCCGAAGGG
Statistics
Matches: 408, Mismatches: 19, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
47 272 0.67
48 47 0.12
49 89 0.22
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:58314887 original size:143 final size:143
Alignment explanation
Indices: 58314558--58315036 Score: 802
Period size: 143 Copynumber: 3.4 Consensus size: 143
58314548 GAAATGATAG
*
58314558 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
58314623 GTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGCGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
58314687 TGTATATATATGTGA
129 TGTATATATATGTGA
58314702 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
58314767 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
58314832 TATATATATGAGA
131 TATATATATGTGA
*
58314845 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
58314910 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
58314975 --TATATATGTGA
131 TATATATATGTGA
* * * * * * * *
58314986 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58315037 TCCCGAAGGG
Statistics
Matches: 318, Mismatches: 16, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
141 52 0.16
142 11 0.03
143 173 0.54
144 82 0.26
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTGA
Found at i:58315210 original size:36 final size:37
Alignment explanation
Indices: 58315155--58315232 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
58315145 CCGAGCTCTA
* * *
58315155 AAGACCCGATGACTACGTGTGGGGATTTTGT-CGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
58315191 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
58315228 AAGAC
1 AAGAC
58315233 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 27 0.73
37 10 0.27
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:58320778 original size:27 final size:27
Alignment explanation
Indices: 58320736--58320887 Score: 105
Period size: 27 Copynumber: 5.6 Consensus size: 27
58320726 TAATAAAGAG
*
58320736 AAATTACCGAAATACCTCC-GAATTGTA
1 AAATTACCGAAATACCCCCAG-ATTGTA
* * *
58320763 AAATTATCGAAGTACCCCCAGCTTGTA
1 AAATTACCGAAATACCCCCAGATTGTA
** * *
58320790 AAATTACAAAAATACCCTCA-ATTTATA
1 AAATTACCGAAATACCCCCAGA-TTGTA
* *
58320817 AAATTACTGAAATACCCTCA-ATTTGTA
1 AAATTACCGAAATACCCCCAGA-TTGTA
* ** *
58320844 AAATTATCGAAATA-CCCTTGTAGTGTA
1 AAATTACCGAAATACCCCCAG-ATTGTA
*
58320871 AAATTACTGAAATACCC
1 AAATTACCGAAATACCC
58320888 TTGTAGTGTA
Statistics
Matches: 98, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
26 2 0.02
27 92 0.94
28 4 0.04
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCCCAGATTGTA
Found at i:58320857 original size:54 final size:54
Alignment explanation
Indices: 58320785--58320888 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
58320775 TACCCCCAGC
*
58320785 TTGTAAAATTACAAAAATACCCTCAAT-TTATAAAATTACTGAAATACCCTCAAT
1 TTGTAAAATTACAAAAATACCCT-AATAGTATAAAATTACTGAAATACCCTCAAT
* ** *
58320839 TTGTAAAATTATC-GAAATACCCTTGTAGTGTAAAATTACTGAAATACCCT
1 TTGTAAAATTA-CAAAAATACCCTAATAGTATAAAATTACTGAAATACCCT
58320889 TGTAGTGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
53 1 0.02
54 41 0.95
55 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (54 bp):
TTGTAAAATTACAAAAATACCCTAATAGTATAAAATTACTGAAATACCCTCAAT
Found at i:58320888 original size:27 final size:27
Alignment explanation
Indices: 58320815--58320901 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
58320805 CCTCAATTTA
** *
58320815 TAAAATTACTGAAATACCC-TCAATTTG
1 TAAAATTACTGAAATACCCTTGTA-GTG
58320842 TAAAATTA-TCGAAATACCCTTGTAGTG
1 TAAAATTACT-GAAATACCCTTGTAGTG
58320869 TAAAATTACTGAAATACCCTTGTAGTG
1 TAAAATTACTGAAATACCCTTGTAGTG
58320896 TAAAAT
1 TAAAAT
58320902 GACCGACATA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
26 1 0.02
27 50 0.93
28 3 0.06
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTTGTAGTG
Found at i:58320926 original size:54 final size:54
Alignment explanation
Indices: 58320815--58320928 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 54
58320805 CCTCAATTTA
* * * * *
58320815 TAAAATTACTGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTTGTAGTG
1 TAAAATTACTGAAATACCCTCAATGTGTAAAATGACCGAAATACCCTTATAGGG
** *
58320869 TAAAATTACTGAAATACCCT-TGTAGTGTAAAATGACCGACATAGCCC-TATAGGG
1 TAAAATTACTGAAATACCCTCAAT-GTGTAAAATGACCGAAATA-CCCTTATAGGG
58320923 TAAAAT
1 TAAAAT
58320929 GACTATTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 1 0.02
54 46 0.92
55 3 0.06
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (54 bp):
TAAAATTACTGAAATACCCTCAATGTGTAAAATGACCGAAATACCCTTATAGGG
Found at i:58333756 original size:48 final size:48
Alignment explanation
Indices: 58333707--58333929 Score: 347
Period size: 48 Copynumber: 4.6 Consensus size: 48
58333697 TGATCCTGTA
* * *
58333707 TAAGACCATGTCTGGGGCATGGCATTGGCATCGTTATGTGAGCCAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
*
58333755 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
* * * *
58333803 TAAGATCATGTTTGGGATATGGCATCGGCATCGTTATGTGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
* *
58333851 TAAGACCATGTCTGGGATATGGCATCGGCATCGTTATATGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
*
58333899 TAAGACTATGTCTGGGACATGGCATCGGCAT
1 TAAGACCATGTCTGGGACATGGCATCGGCAT
58333930 GATGTATTGT
Statistics
Matches: 160, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 160 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
Found at i:58339452 original size:49 final size:49
Alignment explanation
Indices: 58339393--58339624 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
58339383 CTAGTACGCA
* *
58339393 TAGTAACCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
58339442 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * * *
58339492 TAGTAGCCTGCATTTAGTACTACACACGTTATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* * *
58339543 TAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
58339592 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
58339625 TCACAATAGA
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 72 0.47
50 46 0.30
51 35 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:58339566 original size:101 final size:98
Alignment explanation
Indices: 58339393--58339624 Score: 302
Period size: 100 Copynumber: 2.3 Consensus size: 98
58339383 CTAGTACGCA
* * * *
58339393 TAGTAACCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAACCTGCACTTA
* *
58339458 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCCGATACACG
* * * * *
58339492 TAGTAGCCTGCATTTAGTACTACACACGTTATCGAAGTTATCGGGTACGCATAGTAACCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAACCTGCACT
* ** *
58339557 TAGTACTACACATGCGACCAATTATCCGGTACACG
64 TAGTACTACACACGCGACCAACCATCCGATACACG
58339592 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
58339625 TCACAATAGA
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 28 0.25
100 44 0.39
101 41 0.36
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAACCTGCACTTA
GTACTACACACGCGACCAACCATCCGATACACG
Found at i:58345094 original size:48 final size:47
Alignment explanation
Indices: 58345032--58345255 Score: 144
Period size: 48 Copynumber: 4.8 Consensus size: 47
58345022 GGTGACATTT
* * *
58345032 GAGCTAGTATAAGACCATGTCTGGGACATGGCATCTGCCACATT-TCGTA
1 GAGCCAGTGTAAGACCATGT-TGGGACATGGCATCGGCCACATTAT-G-A
* * * *
58345081 -TGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTATATTATGA
1 GAGCCAGTGTAAGACCATG-TTGGGACATGGCATCGGCCACATTATGA
* ** *
58345128 GAGCCAGTGTAAGACCATGTT-AGACATGGCATCGG---TGTTGACTGT
1 GAGCCAGTGTAAGACCATGTTGGGACATGGCATCGGCCACATT-A-TGA
* * *
58345173 GAGCCAGTGTAAGACCATATT-GGACATGGCCTC-G--ACATTGAGACGA
1 GAGCCAGTGTAAGACCATGTTGGGACATGGCATCGGCCACATT---ATGA
* *
58345219 GAGCTAGTGTAAGACCATGTCTGGGACATGACATCGG
1 GAGCCAGTGTAAGACCATGT-TGGGACATGGCATCGG
58345256 TAATTCACCC
Statistics
Matches: 141, Mismatches: 23, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
43 3 0.02
44 2 0.01
45 34 0.24
46 31 0.22
47 6 0.04
48 62 0.44
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTTGGGACATGGCATCGGCCACATTATGA
Found at i:58345199 original size:45 final size:46
Alignment explanation
Indices: 58345082--58345255 Score: 149
Period size: 45 Copynumber: 3.7 Consensus size: 46
58345072 CATTTCGTAT
* *
58345082 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTATATTATGAGA
1 GCCAGTGTAAGACCAT-ATTGG-ACATGGCATCGGCTATATGATGAGA
* * * *
58345130 GCCAGTGTAAGACCATGTTAGACATGGCATCGG-TGT-TGACTGTGA
1 GCCAGTGTAAGACCATATTGGACATGGCATCGGCTATATGA-TGAGA
* * *
58345175 GCCAGTGTAAGACCATATTGGACATGGCCTCGAC-AT-TGAGACGAGA
1 GCCAGTGTAAGACCATATTGGACATGGCATCGGCTATAT--GATGAGA
* * *
58345221 GCTAGTGTAAGACCATGTCTGGGACATGACATCGG
1 GCCAGTGTAAGACCATAT-T-GGACATGGCATCGG
58345256 TAATTCACCC
Statistics
Matches: 103, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
44 2 0.02
45 37 0.36
46 31 0.30
47 6 0.06
48 27 0.26
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACCATATTGGACATGGCATCGGCTATATGATGAGA
Found at i:58357286 original size:131 final size:132
Alignment explanation
Indices: 58357034--58357375 Score: 345
Period size: 131 Copynumber: 2.6 Consensus size: 132
58357024 TCATGTTTTC
* * * * * *
58357034 TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCACGAAATCGTGCCCTAACGT
1 TAAAAATTCTATAAAACGAAGGCAATGTTCGATATTTGGCAATTC-GGGAATCGTGCCCTAATGT
* * * * * * *
58357099 GCTGGGTTGCCATTTTCTCGTTTGCTTAAAATAATCAAATGTTCCTTTGGAATTTCACCCATG--
65 GCTGGGTTGCGATTTCCTCGTTTGATTAAAATAATCAAATATCCCCTTAGAATTTCACCCATGCT
58357162 TCTT
130 TC-T
* * *
58357166 TAAAGATTCTATAAAACGAAGGTAATGTTCGATATTTGGCAATTCGGGAATCGTGCCCTATTGTG
1 TAAAAATTCTATAAAACGAAGGCAATGTTCGATATTTGGCAATTCGGGAATCGTGCCCTAATGTG
** *
58357231 CTGGGTTGCGATTTCCT-G-TTGATTCAAAATAATTGAATATCCCCCTTAGAATTTCACTCATGC
66 CTGGGTTGCGATTTCCTCGTTTGATT-AAAATAATCAAATAT-CCCCTTAGAATTTCACCCATGC
58357294 TTCT
129 TTCT
* * * * * * * *
58357298 TAAAAATTCTA-AAAA-TAAAGCAATGCTCGATGTTTAGAAATTCGAAGAATCGTGCCCTACTGT
1 TAAAAATTCTATAAAACGAAGGCAATGTTCGATATTTGGCAATTCG-GGAATCGTGCCCTAATGT
*
58357361 GCTGGGTTTCGATTT
65 GCTGGGTTGCGATTT
58357376 TACGTTGGAC
Statistics
Matches: 175, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
129 5 0.03
130 35 0.20
131 82 0.47
132 51 0.29
133 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (132 bp):
TAAAAATTCTATAAAACGAAGGCAATGTTCGATATTTGGCAATTCGGGAATCGTGCCCTAATGTG
CTGGGTTGCGATTTCCTCGTTTGATTAAAATAATCAAATATCCCCTTAGAATTTCACCCATGCTT
CT
Found at i:58358439 original size:15 final size:15
Alignment explanation
Indices: 58358419--58358449 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
58358409 ATATCGATTT
58358419 TTTATATCAAAATCA
1 TTTATATCAAAATCA
58358434 TTTATATCAAAATCA
1 TTTATATCAAAATCA
58358449 T
1 T
58358450 GTAAAGACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTATATCAAAATCA
Found at i:58363310 original size:19 final size:18
Alignment explanation
Indices: 58363259--58363314 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
58363249 TGAAAATAAA
58363259 TATAATTG-TAATAATTT
1 TATAATTGTTAATAATTT
*
58363276 T-TAATCAT-TTATTAATTT
1 TATAAT--TGTTAATAATTT
58363294 TATAATTGTTAAATAATTT
1 TATAATTGTT-AATAATTT
58363313 TA
1 TA
58363315 AAAATTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 2 0.06
18 12 0.39
19 13 0.42
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (18 bp):
TATAATTGTTAATAATTT
Found at i:58363741 original size:24 final size:24
Alignment explanation
Indices: 58363714--58363765 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
58363704 TTAGTAAGTC
*
58363714 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
58363738 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
58363762 AAAT
1 AAAT
58363766 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:58365703 original size:24 final size:24
Alignment explanation
Indices: 58365676--58365727 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
58365666 TTAGTAAGTC
*
58365676 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
58365700 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
58365724 AAAT
1 AAAT
58365728 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:58365867 original size:21 final size:21
Alignment explanation
Indices: 58365841--58365893 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
58365831 TGCTGTTTCT
* *
58365841 AATCTCACTGCTACAATACCC
1 AATCTCACCGCTACAATAACC
* *
58365862 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
58365883 AATCTCACCGC
1 AATCTCACCGC
58365894 CACCGCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:58366070 original size:21 final size:22
Alignment explanation
Indices: 58366030--58366075 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
58366020 AAGTTTTTTG
* **
58366030 AAAGATATATGTTTGGATGA-A
1 AAAGAAATATGTTTACATGAGA
58366051 AAAGAAATATGTTTACATGAGA
1 AAAGAAATATGTTTACATGAGA
58366073 AAA
1 AAA
58366076 AAAAAACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.50, C:0.02, G:0.20, T:0.28
Consensus pattern (22 bp):
AAAGAAATATGTTTACATGAGA
Found at i:58367031 original size:8 final size:9
Alignment explanation
Indices: 58367012--58367041 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
58367002 ATTTTAATGA
58367012 TTTTGAATT
1 TTTTGAATT
58367021 TTTTGAATT
1 TTTTGAATT
*
58367030 TTTTAAATT
1 TTTTGAATT
58367039 TTT
1 TTT
58367042 AAAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (9 bp):
TTTTGAATT
Found at i:58367177 original size:20 final size:20
Alignment explanation
Indices: 58367152--58367189 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58367142 TGATTTAATA
58367152 AAAAACATAAAAA-TAAAAAT
1 AAAAAC-TAAAAACTAAAAAT
58367172 AAAAACTAAAAACTAAAA
1 AAAAACTAAAAACTAAAA
58367190 GAATAGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (20 bp):
AAAAACTAAAAACTAAAAAT
Found at i:58368433 original size:3 final size:3
Alignment explanation
Indices: 58368425--58368451 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
58368415 ATAGTGCAAT
58368425 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
58368452 AACAACAAAG
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:58368595 original size:22 final size:20
Alignment explanation
Indices: 58368553--58368597 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
58368543 TGAAAATATA
* *
58368553 AAAGAAATTTGTGAGGCAAG
1 AAAGAAATTTGAGAGGAAAG
58368573 AAAGAAAATTCTGAGAGGAAAG
1 AAAG-AAATT-TGAGAGGAAAG
58368595 AAA
1 AAA
58368598 TAGATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 5 0.24
22 12 0.57
ACGTcount: A:0.53, C:0.04, G:0.27, T:0.16
Consensus pattern (20 bp):
AAAGAAATTTGAGAGGAAAG
Found at i:58375710 original size:20 final size:21
Alignment explanation
Indices: 58375687--58375727 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58375677 AAAATGGCTC
*
58375687 GAAAAT-GGTAAAAAAAATTG
1 GAAAATAGGAAAAAAAAATTG
*
58375707 GAAATTAGGAAAAAAAAATTG
1 GAAAATAGGAAAAAAAAATTG
58375728 AAGATTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.20, T:0.20
Consensus pattern (21 bp):
GAAAATAGGAAAAAAAAATTG
Found at i:58388262 original size:81 final size:82
Alignment explanation
Indices: 58388126--58388321 Score: 299
Period size: 81 Copynumber: 2.4 Consensus size: 82
58388116 TTTATCGTTA
* * * *
58388126 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
58388191 TAGCAGGCTTAATGCCG
66 TAGCAGGCTTAATGCCG
*
58388208 GTGACACATTTCAG-CTATAAGTCTAGCAGGCTTAATGCCGGTGACACA-T-TTCAGACTATAAG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGA-A-ATTATTCAGACTATAAG
58388270 TCTAGCAGGCTTAATGCCG
64 TCTAGCAGGCTTAATGCCG
*
58388289 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
58388322 AAGAGCCGGT
Statistics
Matches: 105, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
81 72 0.69
82 32 0.30
83 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (82 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
TAGCAGGCTTAATGCCG
Found at i:58388332 original size:41 final size:41
Alignment explanation
Indices: 58388126--58388321 Score: 299
Period size: 41 Copynumber: 4.8 Consensus size: 41
58388116 TTTATCGTTA
* * * * *
58388126 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58388167 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58388208 GTGACACATTTCAG-CTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58388248 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
58388289 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
58388322 AAGAGCCGGT
Statistics
Matches: 145, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
39 1 0.01
40 41 0.28
41 100 0.69
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:58388592 original size:33 final size:33
Alignment explanation
Indices: 58388536--58388633 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
58388526 ATAGATATGT
*
58388536 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
58388568 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
58388601 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
58388634 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:58395932 original size:81 final size:82
Alignment explanation
Indices: 58395796--58395991 Score: 299
Period size: 81 Copynumber: 2.4 Consensus size: 82
58395786 TTTATCGTTA
* * * *
58395796 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
58395861 TAGCAGGCTTAATGCCG
66 TAGCAGGCTTAATGCCG
*
58395878 GTGACACATTTCAG-CTATAAGTCTAGCAGGCTTAATGCCGGTGACACA-T-TTCAGACTATAAG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGA-A-ATTATTCAGACTATAAG
58395940 TCTAGCAGGCTTAATGCCG
64 TCTAGCAGGCTTAATGCCG
*
58395959 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
58395992 AAGAGCCGGT
Statistics
Matches: 105, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
81 72 0.69
82 32 0.30
83 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (82 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
TAGCAGGCTTAATGCCG
Found at i:58396002 original size:41 final size:41
Alignment explanation
Indices: 58395796--58395991 Score: 299
Period size: 41 Copynumber: 4.8 Consensus size: 41
58395786 TTTATCGTTA
* * * * *
58395796 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58395837 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58395878 GTGACACATTTCAG-CTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58395918 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
58395959 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
58395992 AAGAGCCGGT
Statistics
Matches: 145, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
39 1 0.01
40 41 0.28
41 100 0.69
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:58396260 original size:33 final size:33
Alignment explanation
Indices: 58396204--58396301 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
58396194 ATAGATATGT
*
58396204 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
58396236 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
58396269 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
58396302 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:58399326 original size:2 final size:2
Alignment explanation
Indices: 58399319--58399344 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58399309 ACTTCACTTT
58399319 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
58399345 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:58408147 original size:15 final size:15
Alignment explanation
Indices: 58408127--58408159 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
58408117 TTGGGTTGGT
*
58408127 TTTGGGTCAAGTCAA
1 TTTGGGCCAAGTCAA
58408142 TTTGGGCCAAGTCAA
1 TTTGGGCCAAGTCAA
58408157 TTT
1 TTT
58408160 ATGTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (15 bp):
TTTGGGCCAAGTCAA
Found at i:58409911 original size:48 final size:48
Alignment explanation
Indices: 58409839--58410013 Score: 269
Period size: 48 Copynumber: 3.6 Consensus size: 48
58409829 ATGAGATCGC
* * * *
58409839 GTGTAAGACCATGTTTGGGACATGGCATCGATGTTGATATGTAAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCTA
* *
58409887 ATGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCTA
* *
58409935 GTGTAAGACCATGTCTGGAACATGGCATCGGTGTTGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCTA
*
58409983 GTGTAAGACCATGTTTGGGACATGGCATCGG
1 GTGTAAGACCATGTCTGGGACATGGCATCGG
58410014 CATTGACATA
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCTA
Found at i:58410003 original size:96 final size:96
Alignment explanation
Indices: 58409839--58410062 Score: 288
Period size: 96 Copynumber: 2.3 Consensus size: 96
58409829 ATGAGATCGC
* *
58409839 GTGTAAGACCATGTTTGGGACATGGCATCGATGTTGATATGTAAGCCAATGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGAACATGGCATCGATGTTGATATGTAAGCCAATGTAAGACCATGTCTG
* * **
58409904 GGACATGGCATCGGCGTTGATATGTGAGC-TA
66 GGACATGGCATCGGCATTGACATAAGA-CTTA
* ** * * *
58409935 GTGTAAGACCATGTCTGGAACATGGCATCGGTGTTGATATGTGTGCTAGTGTAAGACCATGTTTG
1 GTGTAAGACCATGTCTGGAACATGGCATCGATGTTGATATGTAAGCCAATGTAAGACCATGTCTG
*
58410000 GGACATGGCATCGGCATTGACATAAGACTTT
66 GGACATGGCATCGGCATTGACATAAGACTTA
* * *
58410031 GTATAAGACCATATCTGGAATATGGCATCGAT
1 GTGTAAGACCATGTCTGGAACATGGCATCGAT
58410063 ATGTGGATCC
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 1 0.01
96 109 0.99
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (96 bp):
GTGTAAGACCATGTCTGGAACATGGCATCGATGTTGATATGTAAGCCAATGTAAGACCATGTCTG
GGACATGGCATCGGCATTGACATAAGACTTA
Found at i:58410038 original size:48 final size:47
Alignment explanation
Indices: 58409839--58410060 Score: 212
Period size: 48 Copynumber: 4.6 Consensus size: 47
58409829 ATGAGATCGC
* ** *
58409839 GTGTAAGACCATGTTTGGGACATGGCATCGATGTTGATATGTAAG-CCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATA--TAAGACTA
* **
58409887 ATGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATAAGA-CTA
* * ** *
58409935 GTGTAAGACCATGTCTGGAACATGGCATCGGTGTTGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATAAG-ACTA
* * * *
58409983 GTGTAAGACCATGTTTGGGACATGGCATCGGCATTGACATAAGACTTT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATAAGAC-TA
* * * *
58410031 GTATAAGACCATATCTGGAATATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
58410061 ATATGTGGAT
Statistics
Matches: 145, Mismatches: 25, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
46 2 0.01
47 1 0.01
48 142 0.98
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (47 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATAAGACTA
Found at i:58412113 original size:20 final size:20
Alignment explanation
Indices: 58412081--58412127 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
58412071 TATTGTTATT
*
58412081 TCAGAATATATAATTTATAC
1 TCAGAAAATATAATTTATAC
*
58412101 TCGGAAAATATAATTTATAC
1 TCAGAAAATATAATTTATAC
58412121 TCAGAAA
1 TCAGAAA
58412128 TTAAATCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.34
Consensus pattern (20 bp):
TCAGAAAATATAATTTATAC
Found at i:58412506 original size:16 final size:18
Alignment explanation
Indices: 58412480--58412512 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
58412470 TTTAAATAAA
58412480 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
58412497 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
58412513 CTCGATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:58417814 original size:26 final size:25
Alignment explanation
Indices: 58417785--58417861 Score: 86
Period size: 23 Copynumber: 3.1 Consensus size: 25
58417775 ATTCCAAAAA
58417785 TAATAATATTTTAATAGATTTAATAT
1 TAATAATATTTTAATA-ATTTAATAT
* * * *
58417811 TAATATTAATTTAAT-ACTT-ATCT
1 TAATAATATTTTAATAATTTAATAT
*
58417834 TAATAATATTTTATTAATTTAATAT
1 TAATAATATTTTAATAATTTAATAT
58417859 TAA
1 TAA
58417862 AGTGATTATC
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
23 15 0.38
24 6 0.15
25 6 0.15
26 13 0.32
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (25 bp):
TAATAATATTTTAATAATTTAATAT
Found at i:58417826 original size:11 final size:11
Alignment explanation
Indices: 58417804--58417861 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
58417794 TTTAATAGAT
58417804 TTAATATTAATA
1 TTAAT-TTAATA
58417816 TTAATTTAATA
1 TTAATTTAATA
58417827 CTT-ATCTTAATA
1 -TTAAT-TTAATA
*
58417839 AT-ATTT--TA
1 TTAATTTAATA
58417847 TTAATTTAATA
1 TTAATTTAATA
58417858 TTAA
1 TTAA
58417862 AGTGATTATC
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
8 3 0.08
9 4 0.10
10 2 0.05
11 17 0.44
12 13 0.33
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAATTTAATA
Found at i:58419555 original size:3 final size:3
Alignment explanation
Indices: 58419547--58419576 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
58419537 TCGCTCTTCC
58419547 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
58419577 TTTTTGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:58425813 original size:24 final size:24
Alignment explanation
Indices: 58425782--58425835 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
58425772 ACCTATCTCA
*
58425782 TTAT-ATATTTATTTTAT-AAATGT
1 TTATAATATTTATATTATGAAAT-T
*
58425805 TTATAATATTTATATTATGTAATT
1 TTATAATATTTATATTATGAAATT
58425829 TTATAAT
1 TTATAAT
58425836 TGTGATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 4 0.15
24 20 0.74
25 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
TTATAATATTTATATTATGAAATT
Found at i:58448890 original size:20 final size:20
Alignment explanation
Indices: 58448865--58448936 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
58448855 CGGGTAGGGG
58448865 ACACGGGCGTGTCAC-AAAGC
1 ACACGGGCGTGTC-CTAAAGC
58448885 ACACGGGCGTGTCCTAAAGC
1 ACACGGGCGTGTCCTAAAGC
*
58448905 ACACGGGCGTGTCCTAAAAC
1 ACACGGGCGTGTCCTAAAGC
58448925 ACACGGGCGTGT
1 ACACGGGCGTGT
58448937 GCATTGTCTC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 1 0.02
20 49 0.98
ACGTcount: A:0.26, C:0.29, G:0.31, T:0.14
Consensus pattern (20 bp):
ACACGGGCGTGTCCTAAAGC
Found at i:58453608 original size:12 final size:13
Alignment explanation
Indices: 58453591--58453622 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58453581 ATAGCACATT
58453591 TCAAAAC-ATGCA
1 TCAAAACTATGCA
58453603 TCAAAACTATGCA
1 TCAAAACTATGCA
58453616 -CAAAACT
1 TCAAAACT
58453623 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:58466923 original size:52 final size:52
Alignment explanation
Indices: 58466861--58466964 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
58466851 ACACATAGTA
58466861 GCCATAATCATTCAACCATCAATAACCAATAGCCATATCATAATGGAATTGG
1 GCCATAATCATTCAACCATCAATAACCAATAGCCATATCATAATGGAATTGG
58466913 GCCATAATCATTCAACCATCAATAACCAATAGCCATATCATAATGGAATTGG
1 GCCATAATCATTCAACCATCAATAACCAATAGCCATATCATAATGGAATTGG
58466965 CACATACATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (52 bp):
GCCATAATCATTCAACCATCAATAACCAATAGCCATATCATAATGGAATTGG
Found at i:58467804 original size:48 final size:48
Alignment explanation
Indices: 58467595--58467873 Score: 228
Period size: 48 Copynumber: 5.9 Consensus size: 48
58467585 CACATAGTAG
* * ** * * * *
58467595 GATGTCAATGCCATATCCTGGATATGGTCTTATATGGGACCACTTATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * * *
58467643 GATGCCAAAGCCATATCCTAGACATGGTCTTACATGGGACCACACAT-
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * * * *
58467690 -AT-CGAA-GTCGATAG-CCCA-ACTATGGTCTTACACGATGTTCTCATATC
1 GATGCCAATG-CCAT-GTCCCAGAC-ATGGTCTTACATG-GGATCACATATC
* *
58467737 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAAC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
58467785 GATACCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * ** *
58467833 GATGTCGATGCCATATCCCAGATGTGGTCTTACACGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
58467874 TCATCAACCT
Statistics
Matches: 187, Mismatches: 34, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
44 3 0.02
45 21 0.11
46 8 0.04
48 130 0.70
49 22 0.12
50 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:58477122 original size:47 final size:47
Alignment explanation
Indices: 58477064--58477320 Score: 397
Period size: 47 Copynumber: 5.5 Consensus size: 47
58477054 ATTCAGCCAA
58477064 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
58477111 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
58477158 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
58477205 GAAAGTGTATATATGTGATAAGGCCTAGTGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
58477252 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
58477299 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
58477321 TCCCGAAGGG
Statistics
Matches: 193, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 193 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:58477508 original size:37 final size:37
Alignment explanation
Indices: 58477439--58477517 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
58477429 CCGAGCTCTA
* *
58477439 AAGACCCGATGACTACGTATGGGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTATGGGAATTATGTCCGGGT
* *
58477476 AAGACCCGATAACTTCGTGT-GGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTATGGGA-ATTATGTCCGGGT
58477513 AAGAC
1 AAGAC
58477518 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 3 0.08
37 34 0.92
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTATGGGAATTATGTCCGGGT
Found at i:58479428 original size:43 final size:43
Alignment explanation
Indices: 58479380--58479482 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
58479370 TTGGTTTTCA
58479380 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
58479423 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
58479466 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
58479483 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:58479499 original size:29 final size:29
Alignment explanation
Indices: 58479464--58479537 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
58479454 GTTGTGAGAT
* *
58479464 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
58479493 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
58479522 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58479538 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:58483673 original size:47 final size:47
Alignment explanation
Indices: 58483615--58483916 Score: 464
Period size: 47 Copynumber: 6.5 Consensus size: 47
58483605 ATTCAGCCAA
58483615 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
58483662 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
58483709 GAAAGTG--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
58483754 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
58483801 GAAAGTGTATATATGTGATAAGGCCTAGTGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
58483848 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
58483895 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
58483917 TCCCGAAGGG
Statistics
Matches: 236, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
45 44 0.19
47 192 0.81
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:58483747 original size:22 final size:22
Alignment explanation
Indices: 58483675--58483747 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
58483665 AGTGTATATG
58483675 TGTGATAAGGCCTAATAGCCGA
1 TGTGATAAGGCCTAATAGCCGA
* *** ***
58483697 TGTGATGAATGTGAAAGT-GTATA
1 TGTGAT-AAGGCCTAA-TAGCCGA
58483720 TGTGATAAGGCCTAATAGCCGA
1 TGTGATAAGGCCTAATAGCCGA
58483742 TGTGAT
1 TGTGAT
58483748 GAATGTGAAA
Statistics
Matches: 34, Mismatches: 14, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
21 1 0.03
22 19 0.56
23 13 0.38
24 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.29
Consensus pattern (22 bp):
TGTGATAAGGCCTAATAGCCGA
Found at i:58484091 original size:37 final size:37
Alignment explanation
Indices: 58484035--58484113 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
58484025 CCGAGCTCTA
* *
58484035 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
58484072 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
58484109 AAGAC
1 AAGAC
58484114 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:58485717 original size:28 final size:28
Alignment explanation
Indices: 58485685--58485740 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
58485675 GATACGCAGA
*
58485685 TAGCTTGGAAAGCTCATACAATGCCAAC
1 TAGCTCGGAAAGCTCATACAATGCCAAC
*
58485713 TAGCTCGGAAAGCTTATACAATGCCAAC
1 TAGCTCGGAAAGCTCATACAATGCCAAC
58485741 GTTCCAGACG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (28 bp):
TAGCTCGGAAAGCTCATACAATGCCAAC
Found at i:58485841 original size:42 final size:43
Alignment explanation
Indices: 58485733--58485892 Score: 143
Period size: 43 Copynumber: 3.7 Consensus size: 43
58485723 AGCTTATACA
* * *
58485733 ATGCCAACGTTCC-AGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACG-TCCTAGACGTGGTCTTACACGAAATCATATATCG
*
58485776 ATGCC-AC-TATCTCAGACAG-GGTCTTACACGAAATCATATA-CG
1 ATGCCAACGT-CCT-AGAC-GTGGTCTTACACGAAATCATATATCG
*
58485818 ATGCCAACGTCCTAGACGTGGTCTTACACGTAAATCATA-AGTTG
1 ATGCCAACGTCCTAGACGTGGTCTTACACG-AAATCATATA-TCG
* * * *
58485862 ATACTAATGTCCCAGACGTGGTCTTACACGA
1 ATGCCAACGTCCTAGACGTGGTCTTACACGA
58485893 GAACACATAT
Statistics
Matches: 97, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 25 0.26
43 40 0.41
44 29 0.30
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCTAGACGTGGTCTTACACGAAATCATATATCG
Found at i:58504599 original size:11 final size:11
Alignment explanation
Indices: 58504583--58504607 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58504573 ATATCTAGAA
58504583 TTCTCTTCATT
1 TTCTCTTCATT
58504594 TTCTCTTCATT
1 TTCTCTTCATT
58504605 TTC
1 TTC
58504608 ATCAGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:58509040 original size:20 final size:21
Alignment explanation
Indices: 58508983--58509043 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
58508973 TAAGTGTCAT
*
58508983 ATTTCAGGCACCTCGTGTGTC
1 ATTTCAGGCACCTCATGTGTC
* *
58509004 GTATC-GGCACCTCATGTGTC
1 ATTTCAGGCACCTCATGTGTC
*
58509024 ATTTCAGGCA-CTTATGTGTC
1 ATTTCAGGCACCTCATGTGTC
58509044 GTATACTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 26 0.79
21 7 0.21
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.34
Consensus pattern (21 bp):
ATTTCAGGCACCTCATGTGTC
Found at i:58509245 original size:18 final size:19
Alignment explanation
Indices: 58509222--58509260 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
58509212 TGGAATTATG
*
58509222 AATTGAAATGTGA-ATTGA
1 AATTGAAATATGAGATTGA
*
58509240 AATTGAGATATGAGATTGA
1 AATTGAAATATGAGATTGA
58509259 AA
1 AA
58509261 ACTTGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (19 bp):
AATTGAAATATGAGATTGA
Found at i:58511895 original size:11 final size:11
Alignment explanation
Indices: 58511879--58511903 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58511869 ATATCTAGAA
58511879 TTCTCTTCATT
1 TTCTCTTCATT
58511890 TTCTCTTCATT
1 TTCTCTTCATT
58511901 TTC
1 TTC
58511904 ATCAGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:58514914 original size:56 final size:56
Alignment explanation
Indices: 58514828--58514943 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
58514818 GCATTACCAT
*
58514828 ACTTAACCACATGAATATAATCATTTTCGAGTCACCAAGACTTGATCAACTTTAAA
1 ACTTAACCACATGAATATAATCATTTTCGAGTCACCAAGACTTGATCAACATTAAA
58514884 ACTTAACCACATGAATATAATCATTTTCGAGTCACCAAGACTTGATCAACATTAAA
1 ACTTAACCACATGAATATAATCATTTTCGAGTCACCAAGACTTGATCAACATTAAA
58514940 ACTT
1 ACTT
58514944 TTCTGACCTT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (56 bp):
ACTTAACCACATGAATATAATCATTTTCGAGTCACCAAGACTTGATCAACATTAAA
Found at i:58516366 original size:49 final size:49
Alignment explanation
Indices: 58516309--58516437 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 49
58516299 GCACATTAAA
*
58516309 GTCGATGCCGTGTCCCAGAAAAGTCTTACACTAACTTTCATATATCAAG-
1 GTCGATGCCATGTCCCAGAAAAGTCTTACACTAACTTTCATATATC-AGT
* * * ** * *
58516358 GTCGATGCCATGTCCCAG-ACAGCCTTATACTGGCTTTCATTTATCGGT
1 GTCGATGCCATGTCCCAGAAAAGTCTTACACTAACTTTCATATATCAGT
* *
58516406 GTCGATGCCATGTCCCAGACAGGTCTTACACT
1 GTCGATGCCATGTCCCAGAAAAGTCTTACACT
58516438 GACACACAAC
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
47 1 0.02
48 39 0.60
49 25 0.38
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGAAAAGTCTTACACTAACTTTCATATATCAGT
Found at i:58516517 original size:48 final size:47
Alignment explanation
Indices: 58516453--58516579 Score: 157
Period size: 46 Copynumber: 2.7 Consensus size: 47
58516443 ACAACAAGCT
* * * * *
58516453 GATGCCATGTCCCAGACAGGTTTTACACTAGCTTGTATGTCCCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTCT-CGTCCCAAGGCC
* * *
58516502 GATGCATGTCCCAGACATGTCTTACACTATC-TCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTCTCGTCCCAAGGCC
58516548 GATGCATGTCCCAGACATGTCTTACACTAGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCT
58516580 CACATACCAC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 38 0.56
47 2 0.03
48 24 0.35
49 4 0.06
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTCTCGTCCCAAGGCC
Found at i:58520320 original size:17 final size:17
Alignment explanation
Indices: 58520280--58520313 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
58520270 ACTAACAATT
58520280 AGACTTAACAGCCTAAC
1 AGACTTAACAGCCTAAC
*
58520297 AGACTTAACAGTCTAAC
1 AGACTTAACAGCCTAAC
58520314 TAACTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (17 bp):
AGACTTAACAGCCTAAC
Found at i:58526810 original size:9 final size:10
Alignment explanation
Indices: 58526788--58526825 Score: 55
Period size: 9 Copynumber: 4.1 Consensus size: 10
58526778 CCTTCTATCC
58526788 TCTTTCTATT
1 TCTTTCTATT
58526798 TCTTTCT-TT
1 TCTTTCTATT
58526807 TCTTT-TATT
1 TCTTTCTATT
58526816 TCTTT-TATT
1 TCTTTCTATT
58526825 T
1 T
58526826 AATTATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 1 0.04
9 19 0.70
10 7 0.26
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (10 bp):
TCTTTCTATT
Found at i:58526870 original size:16 final size:17
Alignment explanation
Indices: 58526849--58526880 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
58526839 TAACATATAT
58526849 ATTATTAT-ATTATTAA
1 ATTATTATAATTATTAA
58526865 ATTATTATAATTATTA
1 ATTATTATAATTATTA
58526881 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATAATTATTAA
Found at i:58526877 original size:25 final size:25
Alignment explanation
Indices: 58526820--58526881 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 25
58526810 TTTATTTCTT
*
58526820 TTATT-TAATTATTTTATTTTAACA
1 TTATTATAATTATTATATTTTAACA
58526844 -TA-TAT-ATTATTATATTATTAA-A
1 TTATTATAATTATTATATT-TTAACA
58526866 TTATTATAATTATTAT
1 TTATTATAATTATTAT
58526882 TTCTTATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
22 12 0.38
23 9 0.28
24 3 0.09
25 8 0.25
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TTATTATAATTATTATATTTTAACA
Found at i:58527402 original size:55 final size:55
Alignment explanation
Indices: 58527281--58527475 Score: 209
Period size: 55 Copynumber: 3.6 Consensus size: 55
58527271 TTTCTAAGAT
* * * * *
58527281 AAGGATATCATGTAAGACCATGCCAAGGCATGACATTTATAAGTTCTATAAGGC-
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
* * *
58527335 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCA
* * * * *
58527391 AAGG-TCCCATGTAAGACTATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGG-A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
* * *
58527443 AAGGATACCACGTAAGGCCATGTCAAGACATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
58527476 AAATGGTAAG
Statistics
Matches: 118, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 5 0.04
53 28 0.24
54 40 0.34
55 41 0.35
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
Found at i:58527475 original size:53 final size:54
Alignment explanation
Indices: 58527281--58527498 Score: 197
Period size: 54 Copynumber: 4.0 Consensus size: 54
58527271 TTTCTAAGAT
* * * * * ** * *
58527281 AAGGATATCATGTAAGACCATGCCAAGGCATGACATTTATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTGAGTTCTATAAGGA
* * * *
58527335 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTGAGTT-CTATAAGG-A
* * * *
58527391 AAGG-TCCCATGTAAGACTATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTGAGTTCTATAAGGA
* * * * * *
58527443 AAGGATACCACGTAAGGCCATGTCAAGACATGGAAATGGTAAGTTCAAAAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTGAGTTCTATAAGGA
58527497 AA
1 AA
58527499 AGGTTCCTGA
Statistics
Matches: 136, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
52 5 0.04
53 39 0.29
54 48 0.35
55 40 0.29
56 4 0.03
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTGAGTTCTATAAGGA
Found at i:58530834 original size:17 final size:18
Alignment explanation
Indices: 58530791--58530835 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
58530781 ACCAACTAAC
58530791 AACTAGACTTAACAGCCT
1 AACTAGACTTAACAGCCT
*
58530809 AA-TAGACTTAACAGTCT
1 AACTAGACTTAACAGCCT
58530826 AACTA-ACTTA
1 AACTAGACTTA
58530836 TTAGCTACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (18 bp):
AACTAGACTTAACAGCCT
Done.