Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 279 of 433
Found at i:86819537 original size:37 final size:37
Alignment explanation
Indices: 86819487--86819564 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
86819477 TATAAAAGAA
86819487 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
86819524 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
86819561 GTCT
1 GTCT
86819565 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:86819727 original size:49 final size:49
Alignment explanation
Indices: 86819667--86819789 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
86819657 CATATATTTT
*
86819667 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
86819716 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
86819765 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
86819790 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:86826651 original size:29 final size:30
Alignment explanation
Indices: 86826589--86826708 Score: 142
Period size: 29 Copynumber: 4.2 Consensus size: 30
86826579 TACATGCATG
* * *
86826589 CATATGGCCCACTAGTCCC-AATCTC-ATT
1 CATATGGCCCATTAGGCCCAAATCACTATT
*
86826617 CATATGGCCCATTAGGCCTAAATCA-TATT
1 CATATGGCCCATTAGGCCCAAATCACTATT
*
86826646 CGTATGGCCCATTAGGCCCAAATCACT-TT
1 CATATGGCCCATTAGGCCCAAATCACTATT
* *
86826675 CATACGGCCCATTAGGCCCACATCAC-ATT
1 CATATGGCCCATTAGGCCCAAATCACTATT
86826704 CATAT
1 CATAT
86826709 ACAAGCTTTC
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
28 16 0.21
29 61 0.78
30 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.28
Consensus pattern (30 bp):
CATATGGCCCATTAGGCCCAAATCACTATT
Found at i:86852511 original size:13 final size:13
Alignment explanation
Indices: 86852493--86852517 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86852483 GATTTACCAC
86852493 TTATCATGCAATA
1 TTATCATGCAATA
86852506 TTATCATGCAAT
1 TTATCATGCAAT
86852518 GTAATTACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TTATCATGCAATA
Found at i:86854735 original size:40 final size:40
Alignment explanation
Indices: 86854674--86854772 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
86854664 TTATACTCTC
* * * *
86854674 TGTCTAGTGTGTTTTGGTTGGATTAGCTCTTATGAGCTTA
1 TGTCTAGTGTGTTTCGATTGGACTAGCCCTTATGAGCTTA
*
86854714 TGTCTAGTGTGTTTCGATTGGACTAGCCCTTATGAGCTTT
1 TGTCTAGTGTGTTTCGATTGGACTAGCCCTTATGAGCTTA
* *
86854754 TTTCTGGTGTG-TTCGATTG
1 TGTCTAGTGTGTTTCGATTG
86854773 TATGATGATA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
39 8 0.15
40 44 0.85
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.46
Consensus pattern (40 bp):
TGTCTAGTGTGTTTCGATTGGACTAGCCCTTATGAGCTTA
Found at i:86857233 original size:14 final size:16
Alignment explanation
Indices: 86857199--86857236 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
86857189 AGAGAAAAAA
86857199 GATGAGAGAATGTGATG
1 GATGAGAGAATGT-ATG
86857216 GATGAG-GAATGT-TG
1 GATGAGAGAATGTATG
86857230 GATGAGA
1 GATGAGA
86857237 TGCTTGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.40
16 6 0.30
17 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.42, T:0.24
Consensus pattern (16 bp):
GATGAGAGAATGTATG
Found at i:86858521 original size:23 final size:22
Alignment explanation
Indices: 86858486--86858534 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
86858476 TAACTAACAT
* *
86858486 TTCACAACTTAAT-AAACATTCA
1 TTCACAACATAATCAAA-ATCCA
86858508 TTCACAATCATAATCAAAATCCA
1 TTCACAA-CATAATCAAAATCCA
86858531 TTCA
1 TTCA
86858535 TATGAATCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 13 0.57
24 3 0.13
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (22 bp):
TTCACAACATAATCAAAATCCA
Found at i:86860365 original size:20 final size:21
Alignment explanation
Indices: 86860342--86860400 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
86860332 TAAACATGGT
*
86860342 ATGTATGATATTCACATGA-C
1 ATGTATGATATGCACATGAGC
* *
86860362 ATGTATGCTATGCACAT-AGT
1 ATGTATGATATGCACATGAGC
86860382 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
86860401 TGTATTCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (21 bp):
ATGTATGATATGCACATGAGC
Found at i:86860482 original size:23 final size:23
Alignment explanation
Indices: 86860452--86860590 Score: 192
Period size: 23 Copynumber: 6.0 Consensus size: 23
86860442 AGGAAGTGCA
*
86860452 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
86860475 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
86860498 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
86860521 AAAGGG-TTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
86860543 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
*
86860567 AGAAGAGGC-TAGGCCTCCAGTTAT
1 A-AAG-GGCTTATGCC-CCAGTTAT
86860591 ATGATAAAAC
Statistics
Matches: 105, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
22 15 0.14
23 58 0.55
24 21 0.20
25 11 0.10
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:86860563 original size:69 final size:71
Alignment explanation
Indices: 86860452--86860590 Score: 214
Period size: 69 Copynumber: 2.0 Consensus size: 71
86860442 AGGAAGTGCA
*
86860452 AAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATTA-AAG-GGCTTATGCC-CC
1 AAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATTAGAAGAGGC-TAGGCCTCC
86860514 AGTTATT
65 AGTTATT
*
86860521 AAAGGG-TTATGCCCCAATTATTAAAAGGGCTTTTGCCCCAGTTATTAGAAGAGGCTAGGCCTCC
1 AAAGGGCTTATGCCCCAATTATT-AAAGGGCTTATGCCCCAGTTATTAGAAGAGGCTAGGCCTCC
86860585 AGTTAT
65 AGTTAT
86860591 ATGATAAAAC
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
68 16 0.25
69 29 0.45
70 8 0.12
71 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (71 bp):
AAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATTAGAAGAGGCTAGGCCTCCA
GTTATT
Found at i:86860819 original size:31 final size:31
Alignment explanation
Indices: 86860784--86860847 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
86860774 CGTTTACAGT
* *
86860784 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
**
86860815 AAAGGCTTCGGCCCAATGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
86860846 AA
1 AA
86860848 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:86863672 original size:40 final size:40
Alignment explanation
Indices: 86863617--86863846 Score: 369
Period size: 40 Copynumber: 5.8 Consensus size: 40
86863607 CGGATGATAA
86863617 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
86863657 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
86863697 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
86863737 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* * **
86863777 CCGGGCTAAGTCCCGAA-GCATTTGTCCTAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
*
86863816 CCGGGCTAAGTCCCGAAGG-ATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
86863847 AGCTATATCC
Statistics
Matches: 179, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
39 44 0.25
40 135 0.75
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:86863750 original size:80 final size:80
Alignment explanation
Indices: 86863617--86863872 Score: 380
Period size: 80 Copynumber: 3.2 Consensus size: 80
86863607 CGGATGATAA
86863617 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
86863682 TGCGAGTTACTA-ATT
66 TGCGAGTTACTATA-T
86863697 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
86863762 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* * **
86863777 CCGGGCTAAGTCCCGAA-GCATTTGTCCTAACTACT-ATATCCGGGCTAAGTCCCGAAGG-ATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTT
*
86863839 GAGCGAG-TAGCTATAT
65 GTGCGAGTTA-CTATAT
* *
86863855 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
86863873 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
77 14 0.08
78 21 0.13
79 34 0.21
80 95 0.58
81 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:86867489 original size:79 final size:80
Alignment explanation
Indices: 86867340--86867561 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 80
86867330 CGAATGATGA
* * * * * *
86867340 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCT-ATATCCCGAAGGCATT
* *
86867403 TGTGCGAGTTACTGAAT
64 GGTGCGAGTTACTAAAT
*
86867420 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTA-ATCCCGAAGGCATT
1 CCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTATATCCCGAAGGCATT
86867482 GGTGCGAGTTACTAAAT
64 GGTGCGAGTTACTAAAT
** *
86867499 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATATCCCGAAGGCATT
86867562 TGAACGAGTA
Statistics
Matches: 125, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
78 3 0.02
79 69 0.55
80 45 0.36
81 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATATCCCGAAGGCATTGG
TGCGAGTTACTAAAT
Found at i:86867561 original size:119 final size:120
Alignment explanation
Indices: 86867340--86867563 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
86867330 CGAATGATGA
* *
86867340 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
*
86867405 TGCGAGTTACTGAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATT
66 TGCGAGTTACTGAAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATT
* * **
86867460 CCGGGCTAA-TCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
* *
86867522 TGTGCGAGTTACT-ATAACCGGGCTATG-TCCCGAAGGCATTTG
64 TGTGCGAGTTACTGA-AACCGGACTAAGAT-CCGAAGGCATTTG
86867564 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
118 3 0.03
119 73 0.80
120 15 0.16
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTGAAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:86867570 original size:40 final size:39
Alignment explanation
Indices: 86867339--86867563 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 39
86867329 TCGAATGATG
* *
86867339 ACCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
86867379 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTGAA
1 ACCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
86867419 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 ACCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
* *
86867458 TTCCGGGCTAA-TCCCGAAGGCATTGGTGCGAGTTACTAA
1 -ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
86867497 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
86867538 ACCGGGCTATGTCCCGAAGGCATTTG
1 ACCGGGCTAAGTCCCGAAGGCATTTG
86867564 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.01
39 35 0.21
40 119 0.72
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:86867585 original size:79 final size:77
Alignment explanation
Indices: 86867346--86867596 Score: 260
Period size: 79 Copynumber: 3.2 Consensus size: 77
86867336 ATGACCGGGC
* * *
86867346 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCT-AG-TCCCGAAGGCATTTGTGCG
*
86867409 AGTTACTGAATCCGGAC
63 AGTTACT-AATCCGG-T
* *
86867426 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAATCCCGAAGGCATTGGTGCGA
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAGTCCCGAAGGCATTTGTGCGA
86867489 GTTACTAAATCCGGGT
64 GTTACT-AATCC-GGT
* **
86867505 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTA-GTCCCGAAGGCATTTGTGCGAG
86867570 -TAGCTATATCCGGT
65 TTA-CTA-ATCCGGT
* *
86867584 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
86867597 TAAGTGATTC
Statistics
Matches: 147, Mismatches: 14, Indels: 21
0.81 0.08 0.12
Matches are distributed among these distances:
78 2 0.01
79 84 0.57
80 53 0.36
81 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAGTCCCGAAGGCATTTGTGCGAGT
TACTAATCCGGT
Found at i:86875159 original size:40 final size:40
Alignment explanation
Indices: 86875100--86875301 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 40
86875090 CGGATGATAA
*
86875100 CCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
86875140 CCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
86875180 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * **
86875220 -CGGGCTAAGTCCCAAAGGCATTTGTGCAAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
86875259 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
86875299 CCG
1 CCG
86875302 ATTAAATCCC
Statistics
Matches: 146, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 37 0.25
40 108 0.74
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:86875263 original size:79 final size:79
Alignment explanation
Indices: 86875100--86875299 Score: 289
Period size: 79 Copynumber: 2.5 Consensus size: 79
86875090 CGGATGATAA
*
86875100 CCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTACTA-ATTCCAGGCTAAGTCCCAAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T-CAGGCTAAGTCCCAAAGGCATTT
* **
86875164 GTGCGAGTTACTAATT
64 GTGCAAACTACTAATT
*
86875180 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCAAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCAGGCTAAGTCCCAAAGGCATTTGT
86875245 GCAAACTACT-ATAT
66 GCAAACTACTAAT-T
*
86875259 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
86875300 CGATTAAATC
Statistics
Matches: 111, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
78 4 0.04
79 69 0.62
80 37 0.33
81 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCAGGCTAAGTCCCAAAGGCATTTGT
GCAAACTACTAATT
Found at i:86876914 original size:25 final size:24
Alignment explanation
Indices: 86876872--86876945 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 24
86876862 GCTTTATCAT
*
86876872 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
86876897 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
86876922 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
86876946 CACTTCCTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
24 9 0.20
25 35 0.80
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:86877020 original size:20 final size:20
Alignment explanation
Indices: 86876995--86877033 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
86876985 TATGAATACA
*
86876995 TCATGTGCATATCATACATG
1 TCATGTGCAAATCATACATG
86877015 TCATGTGCAAATCATACAT
1 TCATGTGCAAATCATACAT
86877034 ACCATGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
TCATGTGCAAATCATACATG
Found at i:86877039 original size:20 final size:20
Alignment explanation
Indices: 86876996--86877040 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
86876986 ATGAATACAT
* **
86876996 CATGTGCATATCATACATGT
1 CATGTGCAAATCATACATAC
86877016 CATGTGCAAATCATACATAC
1 CATGTGCAAATCATACATAC
86877036 CATGT
1 CATGT
86877041 TTATCAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTGCAAATCATACATAC
Found at i:86884633 original size:30 final size:31
Alignment explanation
Indices: 86884575--86884636 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
86884565 CTTTTCATAC
86884575 TTCATATTTCATAACACTAGGCCGAAGCCTT
1 TTCATATTTCATAACACTAGGCCGAAGCCTT
** *
86884606 TTCATATTTCATATTACT-GGTCGAAGCCTT
1 TTCATATTTCATAACACTAGGCCGAAGCCTT
86884636 T
1 T
86884637 ACTGTAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (31 bp):
TTCATATTTCATAACACTAGGCCGAAGCCTT
Found at i:86884904 original size:47 final size:49
Alignment explanation
Indices: 86884828--86884923 Score: 128
Period size: 47 Copynumber: 2.0 Consensus size: 49
86884818 ACTTTATCAT
*
86884828 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGG-A-AAGCCCTTTTA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
86884875 ATAACTGG-GGCATAAGCC-CTTTATCATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGAGGCAT-AGCCTCTTT-TAATAACTGGGGCATAAGCCCTTTTA
86884924 CACTTCCTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
46 8 0.19
47 23 0.53
48 1 0.02
49 11 0.26
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:86884908 original size:25 final size:24
Alignment explanation
Indices: 86884828--86884923 Score: 126
Period size: 25 Copynumber: 4.0 Consensus size: 24
86884818 ACTTTATCAT
*
86884828 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
86884853 ATAACTGGGG-A-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
86884875 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
86884900 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
86884924 CACTTCCTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
22 16 0.25
23 5 0.08
24 12 0.19
25 31 0.48
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:86884998 original size:20 final size:20
Alignment explanation
Indices: 86884973--86885011 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
86884963 TATGAATACA
86884973 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
86884993 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
86885012 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:86885017 original size:20 final size:20
Alignment explanation
Indices: 86884974--86885018 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
86884964 ATGAATACAT
**
86884974 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
86884994 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
86885014 CATGT
1 CATGT
86885019 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:86896825 original size:2 final size:2
Alignment explanation
Indices: 86896818--86896850 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
86896808 TCATGACATG
86896818 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
86896851 GACTAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:86900347 original size:41 final size:40
Alignment explanation
Indices: 86900294--86900455 Score: 227
Period size: 41 Copynumber: 4.0 Consensus size: 40
86900284 TTTTAAAATA
* * * *
86900294 CAGAGCAATAGCGGCGTTTTAAGAAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTT-GGTAAAACGCCGCTAAAAAC
*
86900335 CAGATCATTAGCGGCGCTTTGGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTT-GGTAAAACGCCGCTAAAAAC
86900376 TC-GAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
1 -CAGAGCATTAGCGGCGCTTT-GGTAAAACGCCGCTAAAAAC
86900417 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 CAGAGCATTAGCGGCGC-TTTGGTAAAACGCCGCTAAAA
86900456 GTTATAGAAC
Statistics
Matches: 110, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
40 1 0.01
41 105 0.95
42 4 0.04
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (40 bp):
CAGAGCATTAGCGGCGCTTTGGTAAAACGCCGCTAAAAAC
Found at i:86900705 original size:36 final size:39
Alignment explanation
Indices: 86900635--86900710 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 39
86900625 ATAGTTTAAG
* * *
86900635 ATATATGGTTTAGGGTTTAAGCAGGTTTATGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
86900674 ATATATGGTTTAAGATTT-A-C-GGTTTAGGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
86900710 A
1 A
86900711 GTATTTGAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 16 0.47
37 1 0.03
38 1 0.03
39 16 0.47
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (39 bp):
ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
Found at i:86900898 original size:25 final size:25
Alignment explanation
Indices: 86900869--86900920 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
86900859 GTGATTTTGA
86900869 ATGTGGAATTAGCATTTGTTGAACT
1 ATGTGGAATTAGCATTTGTTGAACT
86900894 ATGTGGAATTAGCATTTGTTGAACT
1 ATGTGGAATTAGCATTTGTTGAACT
86900919 AT
1 AT
86900921 TAGCTAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (25 bp):
ATGTGGAATTAGCATTTGTTGAACT
Found at i:86906358 original size:21 final size:20
Alignment explanation
Indices: 86906319--86906358 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
86906309 ATATTTCCAA
* *
86906319 AAATATTCTATGGAGCTTAT
1 AAATATTCTATCGACCTTAT
86906339 AAATAATTCTATCGACCTTA
1 AAAT-ATTCTATCGACCTTA
86906359 AAAAAGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
AAATATTCTATCGACCTTAT
Found at i:86911640 original size:40 final size:40
Alignment explanation
Indices: 86911595--86911747 Score: 182
Period size: 40 Copynumber: 3.8 Consensus size: 40
86911585 TATAGCCACA
* *
86911595 AGCACAATTGCCTTCGGGTCTTAACCCGGATTTAGTAACT
1 AGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACT
* *
86911635 TGCACAATTGCCTTCGGGTCTTAACCCGGATATAACAACT
1 AGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACT
* * * *
86911675 CGCACGAA-TGCCTTCGGGTCTTAGCCCGGACATAATCACT
1 AGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACT
* * * *
86911715 AGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 AGCACAATTGCCTTCGGGTCTTAACCCGGATAT
86911748 CATTCAAATG
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 94 0.96
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACT
Found at i:86919657 original size:40 final size:40
Alignment explanation
Indices: 86919583--86919760 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
86919573 GAGTCACGTA
* **
86919583 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAACAACTCGCACAATTG
* ** *
86919622 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACAATTG
86919662 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAACAACTCGCAC-AATTG
* * * * *
86919702 CCTTCGGGTCTTAGCCCGGACATAATC-ACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAA-CAACTCGCACAATTG
* *
86919742 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
86919761 TATCATTCAA
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 101 0.85
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAACAACTCGCACAATTG
Found at i:86919744 original size:80 final size:80
Alignment explanation
Indices: 86919583--86919760 Score: 200
Period size: 80 Copynumber: 2.2 Consensus size: 80
86919573 GAGTCACGTA
* **
86919583 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTA
1 CCTTCGGG-TCTTAACCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGACATA
* * *
86919646 GTAACTTGCACAATTG
65 ATAACTAGCACAAATG
** *
86919662 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGACATA
1 CCTTCGGGTCTTAACCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGACATA
* *
86919726 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
* *
86919742 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
86919761 TATCATTCAA
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 12 0.14
80 68 0.82
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCTTCGGGTCTTAACCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGACATAA
TAACTAGCACAAATG
Found at i:86924163 original size:40 final size:40
Alignment explanation
Indices: 86924108--86924271 Score: 195
Period size: 40 Copynumber: 4.1 Consensus size: 40
86924098 TGAATGATAC
* *
86924108 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
86924148 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
86924188 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
86924228 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
86924268 CCGG
1 CCGG
86924272 TTAAATTCCG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 100 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:86926833 original size:21 final size:21
Alignment explanation
Indices: 86926807--86926854 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
86926797 TCAACTTAGA
86926807 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
86926828 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
86926849 GCGGAG
1 GCGGAG
86926855 CAGAACAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.58, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:86927268 original size:86 final size:85
Alignment explanation
Indices: 86927153--86927396 Score: 267
Period size: 86 Copynumber: 2.8 Consensus size: 85
86927143 CTGGGCAAAT
* * * *
86927153 TAGCGGCGTTTTTTAAAAAAGCACCGCTAAAAGTATAGGTCTATAGCGGCGTTTTTTAAAAAAGC
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCT-GGTCTATAGCGGCGTTTTTTAAAAAAGC
86927218 GCCGCTAAAAGTACAGGTCTA
65 GCCGCTAAAAGTACAGGTCTA
* * *
86927239 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTTTCTAGCGGCG-TTTTTATAAAAGC
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGT-CTGGTCTATAGCGGCGTTTTTTAAAAAAGC
* * * * *
86927303 ACCGCTAAAGGTCCTGGTCTT
65 GCCGCTAAAAGTACAGGTCTA
* * * * * * *
86927324 TGGCGCCG-TTTTTATAAGAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTTTAGAAAAAAA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTC-TGGTCTATAGCGGCGTTTTT-TAAAAAAG
86927388 CGCCGCTAA
64 CGCCGCTAA
86927397 TTTTTGTGGC
Statistics
Matches: 132, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
83 1 0.01
84 36 0.27
85 38 0.29
86 56 0.42
87 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (85 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCTGGTCTATAGCGGCGTTTTTTAAAAAAGCG
CCGCTAAAAGTACAGGTCTA
Found at i:86927308 original size:42 final size:42
Alignment explanation
Indices: 86927152--86927396 Score: 235
Period size: 43 Copynumber: 5.7 Consensus size: 42
86927142 ACTGGGCAAA
* * * *
86927152 TTAGCGGCGTTTTTTAAAAAAGCACCGCTAAAAGT-ATAGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCT-GGT-T
* * * * *
86927195 ATAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGT-T
*
86927238 ATAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTT
*
86927280 TCTAGCGGCG-TTTTTATAAAAGCACCGCTAAAGGTCCTGGTCT
1 T-TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGT-T
* * * *
86927323 TTGGCGCCG-TTTTTATAAGAGCGCCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGT-T
* * * *
86927365 TTAGCGGCATTTTTAGAAAAAAACGCCGCTAA
1 TTAGCGGCGTTTTT-TATAAAAGCGCCGCTAA
86927397 TTTTTGTGGC
Statistics
Matches: 175, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
42 73 0.42
43 89 0.51
44 13 0.07
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTT
Found at i:86927372 original size:84 final size:85
Alignment explanation
Indices: 86927153--86927385 Score: 263
Period size: 84 Copynumber: 2.7 Consensus size: 85
86927143 CTGGGCAAAT
* * * * * * *
86927153 TAGCGGCGTTTTTTAAAAAAGCACCGCTAAAAGTATAGGTCTATAGCGGCGTTTTTTAAAAAAGC
1 TAGCGCCGTTTTTTATAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCG-TTTTTAAAAAAGC
*
86927218 GCCGCTAAAAGTACAGGTCTA
65 ACCGCTAAAAGTACAGGTCTA
* * *
86927239 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGT-TTCTAGCGGCGTTTTTATAAAAGC
1 TAGCGCCGTTTTTTATAAAAGCGCCGCTAAAGGTCTTGGTCTT-TAGCGGCGTTTTTAAAAAAGC
* * * *
86927303 ACCGCTAAAGGTCCTGGTCTT
65 ACCGCTAAAAGTACAGGTCTA
* * *
86927324 TGGCGCCG-TTTTTATAAGAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTTTAGAAAAA
1 TAGCGCCGTTTTTTATAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTA-AAAAA
86927386 AACGCCGCTA
Statistics
Matches: 125, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
84 42 0.34
85 41 0.33
86 42 0.34
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (85 bp):
TAGCGCCGTTTTTTATAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTAAAAAAGCA
CCGCTAAAAGTACAGGTCTA
Found at i:86928564 original size:2 final size:2
Alignment explanation
Indices: 86928557--86928589 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
86928547 TCATGACATG
86928557 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
86928590 GACTAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:86929394 original size:20 final size:20
Alignment explanation
Indices: 86929328--86929394 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
86929318 ATTTTAGTAA
*
86929328 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
86929348 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
86929368 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
86929388 ACATGAT
1 ACATGAT
86929395 GTAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:86930872 original size:40 final size:40
Alignment explanation
Indices: 86930802--86930967 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
86930792 GAATCACGTA
* * * * *
86930802 CCTTCGGAATTTAA-CCGGATATAGCTACTCG-TTCAAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAT-AAATG
* * *
86930841 CCTTCGGGACATAGCCC-GATTATAGCAACTCGCATAAACG
1 CCTTCGGGACTTAACCCGGATT-TAGCAACTCGCATAAATG
* *
86930881 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTATAAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCATAAATG
*
86930921 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCATAAATG
86930961 CCTTCGG
1 CCTTCGG
86930968 ATCCTAGTCC
Statistics
Matches: 109, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 13 0.12
40 91 0.83
41 5 0.05
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCATAAATG
Found at i:86930951 original size:80 final size:79
Alignment explanation
Indices: 86930802--86930968 Score: 214
Period size: 80 Copynumber: 2.1 Consensus size: 79
86930792 GAATCACGTA
* *
86930802 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGATTATAGC
1 CCTTCGGAACTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAACCCGATTATAGC
86930867 AACTCGCATAAACG
66 AACTCGCATAAACG
* * *
86930881 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTAT-AAATGCCTTCGGGACTTAACCCGGATT-
1 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCGT-TCAAATGCCTTCGGGACATAACCC-GATTA
* *
86930943 TAGTAACTCGCATAAATG
62 TAGCAACTCGCATAAACG
86930961 CCTTCGGA
1 CCTTCGGA
86930969 TCCTAGTCCG
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 13 0.17
80 58 0.76
81 5 0.07
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAACCCGATTATAGC
AACTCGCATAAACG
Found at i:86935786 original size:40 final size:40
Alignment explanation
Indices: 86935737--86935888 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
86935727 CAAAATTTAA
* * *
86935737 CCGGATATAGCTACTCG-TTCAAACGCCTTCGGGACATAGC
1 CCGGATATAGCAACTCGCAT-AAACGCCTTCGGGACATAAC
* *
86935777 CCGGTTATAGCAACTCGCATAAACGCCTTCGGGACTTAAC
1 CCGGATATAGCAACTCGCATAAACGCCTTCGGGACATAAC
* * * *
86935817 CCGGATTTAGTAACTCGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAGCAACTCGCATAAACGCCTTCGGGACATAAC
* * * *
86935857 CCAGATTTAGTAACTCGCATAAATGCCTTCGG
1 CCGGATATAGCAACTCGCATAAACGCCTTCGG
86935889 ATCCTAGTCC
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 100 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCATAAACGCCTTCGGGACATAAC
Found at i:86935902 original size:40 final size:40
Alignment explanation
Indices: 86935761--86935888 Score: 186
Period size: 40 Copynumber: 3.2 Consensus size: 40
86935751 TCGTTCAAAC
* * * * *
86935761 GCCTTCGGGACATAGCCC-GGTTATAGCAACTCGCATAAAC
1 GCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCATAAAT
*
86935801 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAACCCAGATTTAGTAACTCGCATAAAT
86935841 GCCTTCGGGACTTAACCCAGATTTAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAACCCAGATTTAGTAACTCGCATAAAT
86935881 GCCTTCGG
1 GCCTTCGG
86935889 ATCCTAGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 78 0.96
41 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCAGATTTAGTAACTCGCATAAAT
Found at i:86937963 original size:31 final size:31
Alignment explanation
Indices: 86937925--86937988 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
86937915 CGTTTATAGT
86937925 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* **
86937956 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
86937987 AA
1 AA
86937989 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:86942292 original size:39 final size:39
Alignment explanation
Indices: 86942245--86942426 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
86942235 AATGTTCGAG
86942245 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
86942284 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
86942323 TGATATCCGGGCTAAGCCCGAAGGCAA-TGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
86942361 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
86942401 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
86942427 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 22 0.18
39 74 0.60
40 28 0.23
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:86942470 original size:117 final size:116
Alignment explanation
Indices: 86942244--86942464 Score: 250
Period size: 117 Copynumber: 1.9 Consensus size: 116
86942234 GAATGTTCGA
** *
86942244 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGCCCGAAGGC
** * *
86942309 AATTGGGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATGTGCAAATT
66 AATTGAACGAGTTATGATATCCGGGATAAACCCGAAGGCAATGTGCAAATT
* ** * *
86942360 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAG-CCCGAAG
**
86942425 GCGTTTGAACGAG-TA-GCTATATCC-GGATAAACTCCGAAGG
64 GCAATTGAACGAGTTATG--ATATCCGGGATAAAC-CCGAAGG
86942465 TATGTGATTC
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
116 17 0.20
117 40 0.47
118 29 0.34
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (116 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGCCCGAAGGC
AATTGAACGAGTTATGATATCCGGGATAAACCCGAAGGCAATGTGCAAATT
Found at i:86945303 original size:15 final size:15
Alignment explanation
Indices: 86945283--86945338 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
86945273 GTATCTTGGG
86945283 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
86945298 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
86945313 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
86945328 TTTCTTTATTC
1 TTTCTTTATTC
86945339 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:86947792 original size:46 final size:46
Alignment explanation
Indices: 86947742--86947914 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
86947732 TGGTTGAGCA
*
86947742 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
86947788 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
86947833 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
86947881 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
86947915 GGGGTGGGTT
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 59 0.56
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:86947898 original size:93 final size:93
Alignment explanation
Indices: 86947739--86947909 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
86947729 GGATGGTTGA
* * * *
86947739 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
86947804 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
86947832 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
86947897 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
86947910 ACTTAGGGGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:86949534 original size:55 final size:55
Alignment explanation
Indices: 86949445--86949561 Score: 153
Period size: 55 Copynumber: 2.1 Consensus size: 55
86949435 TGCCAAAATG
** **
86949445 ACACGGGTGTGTGACACGCCCGTGCCTTGAAACCGTGGCCAAACCTGTCAAATTA
1 ACACGGGTGTGCCACACGCCCGTGCCAAGAAACCGTGGCCAAACCTGTCAAATTA
* * * * *
86949500 ACACGGGTGTGCCACACGCTCGTGCCAAGCAACCGTGGTCAAACCTGTTAGATTA
1 ACACGGGTGTGCCACACGCCCGTGCCAAGAAACCGTGGCCAAACCTGTCAAATTA
86949555 ACACGGG
1 ACACGGG
86949562 CGTGGGACTA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.19
Consensus pattern (55 bp):
ACACGGGTGTGCCACACGCCCGTGCCAAGAAACCGTGGCCAAACCTGTCAAATTA
Found at i:86957841 original size:27 final size:28
Alignment explanation
Indices: 86957711--86957840 Score: 178
Period size: 27 Copynumber: 4.8 Consensus size: 28
86957701 AGACCCCGGT
*
86957711 TTGTAAAATTACTGAAATACCCCCAAT-
1 TTGTAAAATTACTGAAATACCCCCAGTA
86957738 TTGTAAAATTACTGAAATACCCCCAG-A
1 TTGTAAAATTACTGAAATACCCCCAGTA
86957765 TTGTAAAATTACTGAAATACCCCCAGT-
1 TTGTAAAATTACTGAAATACCCCCAGTA
* **
86957792 TTGTAAAATTACCGAAATA-CCCTTGTA
1 TTGTAAAATTACTGAAATACCCCCAGTA
* *
86957819 GTGTAAAATTAATGAAATACCC
1 TTGTAAAATTACTGAAATACCC
86957841 TATAGGGTAA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
26 5 0.05
27 85 0.92
28 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (28 bp):
TTGTAAAATTACTGAAATACCCCCAGTA
Found at i:86970589 original size:50 final size:50
Alignment explanation
Indices: 86970466--86970655 Score: 231
Period size: 50 Copynumber: 3.8 Consensus size: 50
86970456 CTGGTACGCA
* * * *
86970466 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACTAT-TCAGTACAAG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA-TACACG
*
86970515 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
* * * * * * *
86970565 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTATCTGATACACG
*
86970616 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACTAT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTAT
86970656 AGCTCATTCG
Statistics
Matches: 121, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
49 31 0.26
50 47 0.39
51 43 0.36
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
Found at i:86970935 original size:27 final size:27
Alignment explanation
Indices: 86970895--86970948 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
86970885 GCATACAACC
* *
86970895 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
86970922 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
86970949 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:86972653 original size:27 final size:27
Alignment explanation
Indices: 86972339--86972651 Score: 385
Period size: 27 Copynumber: 11.6 Consensus size: 27
86972329 AAAGTACTCC
* *
86972339 CGATTTATAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
86972366 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
86972393 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
86972420 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
86972447 CAATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
86972474 CGATTTACAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
86972501 CAATTTACATAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
*
86972528 CGATTTACATAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
86972555 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
86972582 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * ** *
86972609 TGATTTATAGAATTACTATTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
*
86972636 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
86972652 TAAAATACCC
Statistics
Matches: 254, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 252 0.99
28 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:86973923 original size:25 final size:25
Alignment explanation
Indices: 86973894--86973941 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
86973884 TTATAATATG
* * *
86973894 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
86973919 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
86973942 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:86974010 original size:20 final size:20
Alignment explanation
Indices: 86973985--86974043 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
86973975 TAAATATGGT
86973985 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
86974005 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
86974025 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
86974044 GATAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:86974121 original size:24 final size:24
Alignment explanation
Indices: 86974094--86974236 Score: 193
Period size: 24 Copynumber: 6.0 Consensus size: 24
86974084 GAGGAAGTGA
86974094 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
86974118 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
86974142 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
86974165 AAAAGGGCTTATTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
86974189 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATC
*
86974213 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
86974237 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.21
24 75 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:86974187 original size:47 final size:47
Alignment explanation
Indices: 86974094--86974236 Score: 191
Period size: 47 Copynumber: 3.0 Consensus size: 47
86974084 GAGGAAGTGA
86974094 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
* *
86974142 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* *
86974189 GAAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTAT-GCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
86974237 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
46 1 0.01
47 41 0.48
48 33 0.38
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:86974210 original size:71 final size:72
Alignment explanation
Indices: 86974094--86974237 Score: 204
Period size: 71 Copynumber: 2.0 Consensus size: 72
86974084 GAGGAAGTGA
*
86974094 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
86974157 CCAGTTAT
65 CCAGTTAT
* ** *
86974165 AAAAGGGCTTATTCCCCAGTTATTGAAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAT-GCCCCAGTTATCAAAAGAGGCTAGGCCT
86974229 CCAGTTAT
65 CCAGTTAT
86974237 A
1 A
86974238 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
70 1 0.02
71 52 0.80
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:86974463 original size:31 final size:31
Alignment explanation
Indices: 86974428--86974491 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
86974418 CGTTTACAGT
86974428 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
86974459 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
86974490 AA
1 AA
86974492 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:86977622 original size:19 final size:19
Alignment explanation
Indices: 86977598--86977635 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
86977588 ACCATGATAT
86977598 GTACATTACAAAACTTTTC
1 GTACATTACAAAACTTTTC
86977617 GTACATTACAAAACTTTTC
1 GTACATTACAAAACTTTTC
86977636 CATATACTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (19 bp):
GTACATTACAAAACTTTTC
Found at i:86978228 original size:42 final size:43
Alignment explanation
Indices: 86978135--86978254 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
86978125 ACAATGTCAA
***
86978135 TGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCAC
1 TGTCCCAGACGTGGTCTTACACAAAATCAAATATCGATGCCAC
*
86978178 TGTCCCAGACAG-GGTCTTACACAAAATCAAGTA-CGATGCCAAC
1 TGTCCCAGAC-GTGGTCTTACACAAAATCAAATATCGATGCC-AC
* *
86978221 -GTCCCAGACGTGCTCTTACACGAAAA-CACATATC
1 TGTCCCAGACGTGGTCTTACAC-AAAATCAAATATC
86978255 AGATCCTATG
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 29 0.45
43 34 0.52
44 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
TGTCCCAGACGTGGTCTTACACAAAATCAAATATCGATGCCAC
Found at i:86978407 original size:27 final size:29
Alignment explanation
Indices: 86978362--86978416 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
86978352 ATTTTCAACA
*
86978362 CATATAATCATTCAAAATT-A-TTCAAAG
1 CATATAATCAATCAAAATTCAGTTCAAAG
86978389 CATATAATCAAT-AATAATTCAGTTCAAA
1 CATATAATCAATCAA-AATTCAGTTCAAA
86978417 ATACATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.08
27 15 0.62
28 1 0.04
29 6 0.25
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.33
Consensus pattern (29 bp):
CATATAATCAATCAAAATTCAGTTCAAAG
Found at i:86985872 original size:44 final size:45
Alignment explanation
Indices: 86985800--86985884 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 45
86985790 TACATGAATC
* *
86985800 AAGTATGATGCCAATGTCCCAGACGTGGTCTTACACGAAAATTAT
1 AAGTATGATGCCAACGTCCCAGACGTGGTCTTACACAAAAATTAT
* *
86985845 AAGT-TGATGCCAACGTCCTAGATGTGGTCTTACACAAAAA
1 AAGTATGATGCCAACGTCCCAGACGTGGTCTTACACAAAAA
86985885 CACATATCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 32 0.89
45 4 0.11
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (45 bp):
AAGTATGATGCCAACGTCCCAGACGTGGTCTTACACAAAAATTAT
Found at i:86990111 original size:40 final size:40
Alignment explanation
Indices: 86989987--86990171 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
86989977 TATTCGAATG
* *
86989987 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * * *
86990028 ATAACCGGACTAAGATCCAAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * *
86990068 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
86990108 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
86990148 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
86990172 CTTGCGCAAG
Statistics
Matches: 117, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 88 0.75
41 28 0.24
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:86996564 original size:40 final size:39
Alignment explanation
Indices: 86996453--86996603 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
86996443 TATAACATGT
* ** *
86996453 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
*
86996493 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *** *
86996533 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *
86996573 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
86996604 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:86996587 original size:80 final size:79
Alignment explanation
Indices: 86996453--86996603 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
86996443 TATAACATGT
*
86996453 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
86996518 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
86996533 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
86996596 CCGGATAT
64 CCGGATAT
86996604 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:87004570 original size:40 final size:39
Alignment explanation
Indices: 87004444--87004609 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
87004434 CGGAATATAA
87004444 CCGGATATAA-CACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* ** *
87004483 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCAC-AATGCCTTCGGGTCTTAGC
* *
87004523 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * *
87004563 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAA-TGCCTTCGGGTCTTAGC
87004602 CCGGATAT
1 CCGGATAT
87004610 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 25 0.23
40 82 0.77
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:87004593 original size:80 final size:79
Alignment explanation
Indices: 87004459--87004609 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
87004449 TATAACACGT
*
87004459 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
87004524 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
87004539 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
87004602 CCGGATAT
64 CCGGATAT
87004610 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:87009333 original size:40 final size:40
Alignment explanation
Indices: 87009239--87009423 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
87009229 TATTCGAATG
*
87009239 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
87009280 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
87009320 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
87009360 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
87009400 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
87009424 CTTGCGCAAG
Statistics
Matches: 120, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 89 0.74
41 29 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:87009414 original size:80 final size:81
Alignment explanation
Indices: 87009241--87009423 Score: 228
Period size: 80 Copynumber: 2.3 Consensus size: 81
87009231 TTCGAATGAT
* * *
87009241 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCAT
* * *
87009306 TCGTGCGAGTTGCTAT
66 TCATGCGAGTTGCCAC
* * *
87009322 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGATTATATCCGGGCTAAG-TCCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGGCA
* *
87009385 TTTATGCTAG-TGACCAC
65 TTCATGCGAGTTG-CCAC
87009402 ATCCGGGCTAAGACCCGAAGGC
1 ATCCGGGCTAAGACCCGAAGGC
87009424 CTTGCGCAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 3 0.03
80 56 0.63
81 30 0.34
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (81 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCAT
TCATGCGAGTTGCCAC
Found at i:87012680 original size:27 final size:28
Alignment explanation
Indices: 87012646--87012759 Score: 146
Period size: 27 Copynumber: 4.2 Consensus size: 28
87012636 ACTTTTTAAA
87012646 AATTACT-GAAATACCCCTATAGGGTAG
1 AATTACTCGAAATACCCCTATAGGGTAG
87012673 AATTACT-GAAATACCCCTATAGGGTAG
1 AATTACTCGAAATACCCCTATAGGGTAG
* * *
87012700 AATTA-TCGAAATACCCTTGTAGAGTAG
1 AATTACTCGAAATACCCCTATAGGGTAG
* * *
87012727 AAATA-TCGAAATACCCCTGTAGGGTAA
1 AATTACTCGAAATACCCCTATAGGGTAG
87012754 AATTAC
1 AATTAC
87012760 CATTTTTCCC
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 76 0.99
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (28 bp):
AATTACTCGAAATACCCCTATAGGGTAG
Found at i:87013163 original size:20 final size:20
Alignment explanation
Indices: 87013123--87013163 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
87013113 TATGTGACTT
*
87013123 TATTGTGGGCTTCATATCGA
1 TATTGTGGGCTTCATACCGA
*
87013143 TATTGTGGGCTTCGTACCGA
1 TATTGTGGGCTTCATACCGA
87013163 T
1 T
87013164 TATAGACCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (20 bp):
TATTGTGGGCTTCATACCGA
Found at i:87013209 original size:98 final size:98
Alignment explanation
Indices: 87013078--87013283 Score: 270
Period size: 98 Copynumber: 2.1 Consensus size: 98
87013068 CTATGGACCG
* * * *
87013078 ATCGATGGCTGAGTGTCGATCCTGTTACCGAAGGCTATGTGACTTTATTGTGGGCTTCATATCGA
1 ATCGATGGCTGAGTGTCGATCATGCTACCGAAGGCTATGTGACATTATTGTGGGATTCATATCGA
* *
87013143 TATTGTGGGCTTCGTACCGATTATAGACCCGTT
66 TATTGTGGGCTTCATACCGATTATAAACCCGTT
* * * ** *
87013176 ATCGATGGTTGAGTG-CTGATCATGCTACCGAAGGTTGTGTTCCATTATTGTGGGATTCGTATCG
1 ATCGATGGCTGAGTGTC-GATCATGCTACCGAAGGCTATGTGACATTATTGTGGGATTCATATCG
* *
87013240 ATATTGTGGGCTTTATGCCGATTATAAACCCGTT
65 ATATTGTGGGCTTCATACCGATTATAAACCCGTT
87013274 ATCGATGGCT
1 ATCGATGGCT
87013284 TTGTGCCACG
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
97 1 0.01
98 91 0.99
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (98 bp):
ATCGATGGCTGAGTGTCGATCATGCTACCGAAGGCTATGTGACATTATTGTGGGATTCATATCGA
TATTGTGGGCTTCATACCGATTATAAACCCGTT
Found at i:87013490 original size:6 final size:6
Alignment explanation
Indices: 87013473--87013560 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
87013463 AATCATTCAC
* * *
87013473 ATTCTA ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
87013523 ATTCTG ACTCTG AGTCTG ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
87013561 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (6 bp):
ATTCTG
Found at i:87013513 original size:25 final size:25
Alignment explanation
Indices: 87013479--87013540 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
87013469 TCACATTCTA
*
87013479 ATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGTCACCTGATACTG
*
87013504 ATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGTCACCTGATACTG
* *
87013529 ACTCTGAGTCTG
1 ATTCTGATTCTG
87013541 ATTTTGATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (25 bp):
ATTCTGATTCTGTCACCTGATACTG
Found at i:87015971 original size:28 final size:28
Alignment explanation
Indices: 87015902--87016002 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
87015892 GACAAGATTG
* * * *
87015902 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
87015932 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
87015960 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
87015989 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
87016003 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:87022727 original size:46 final size:46
Alignment explanation
Indices: 87022677--87022852 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
87022667 TGGTTGAGCA
87022677 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87022723 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
87022768 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87022816 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87022853 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87022833 original size:93 final size:93
Alignment explanation
Indices: 87022674--87022845 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
87022664 GGATGGTTGA
* *
87022674 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87022739 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
87022767 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87022832 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
87022846 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:87024854 original size:24 final size:23
Alignment explanation
Indices: 87024818--87024863 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
87024808 TATATTAGTG
*
87024818 AAAGATTTATTGATCAGAAGCAT
1 AAAGATTTATTGAGCAGAAGCAT
* *
87024841 AAAGAATTTCTTGAGCTGAAGCA
1 AAAG-ATTTATTGAGCAGAAGCA
87024864 AGGTAATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (23 bp):
AAAGATTTATTGAGCAGAAGCAT
Found at i:87030277 original size:46 final size:46
Alignment explanation
Indices: 87030227--87030402 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
87030217 TGGTTGAGCA
87030227 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87030273 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
87030318 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87030366 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87030403 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87030383 original size:93 final size:93
Alignment explanation
Indices: 87030224--87030395 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
87030214 GGATGGTTGA
* *
87030224 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87030289 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
87030317 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87030382 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
87030396 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:87035074 original size:40 final size:40
Alignment explanation
Indices: 87034991--87035143 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
87034981 TCGAATGATG
* *
87034991 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
87035031 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
87035071 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
87035112 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
87035144 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:87053041 original size:24 final size:24
Alignment explanation
Indices: 87053009--87053069 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
87052999 AAAATCCAAT
* * *
87053009 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAATA-A
87053033 GCACTATGTGTGCGAGTGTAATAA
1 GCACTATGTGTGCGAGTGTAATAA
87053057 GCACTATGTGTGC
1 GCACTATGTGTGC
87053070 AAATTCGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 27 0.82
25 6 0.18
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATAA
Found at i:87057557 original size:24 final size:24
Alignment explanation
Indices: 87057525--87057585 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
87057515 AAAACCCAAT
* * *
87057525 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAATA-A
87057549 GCACTATGTGTGCGAGTGTAATAA
1 GCACTATGTGTGCGAGTGTAATAA
87057573 GCACTATGTGTGC
1 GCACTATGTGTGC
87057586 AAATTTGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 27 0.82
25 6 0.18
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATAA
Found at i:87058622 original size:18 final size:18
Alignment explanation
Indices: 87058599--87058637 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
87058589 AGTATTTGAT
87058599 TCGGTAATATCTCATAAC
1 TCGGTAATATCTCATAAC
87058617 TCGGTAATATCTCATAAC
1 TCGGTAATATCTCATAAC
87058635 TCG
1 TCG
87058638 TTCCAGCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (18 bp):
TCGGTAATATCTCATAAC
Found at i:87069005 original size:18 final size:18
Alignment explanation
Indices: 87068982--87069016 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
87068972 GCCAAGAAAA
*
87068982 AATAAAAAAAATTAAATT
1 AATAAAAAAAATAAAATT
*
87069000 AATAAATAAAATAAAAT
1 AATAAAAAAAATAAAAT
87069017 AGAATTAGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAAAAAAAATAAAATT
Found at i:87078804 original size:26 final size:27
Alignment explanation
Indices: 87078768--87078820 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
87078758 TGTCAGCTAG
* *
87078768 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
87078794 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
87078821 CAGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:87080149 original size:48 final size:48
Alignment explanation
Indices: 87080085--87080280 Score: 302
Period size: 48 Copynumber: 4.1 Consensus size: 48
87080075 TTGATGTACA
87080085 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
87080133 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
* * *
87080181 AGATATATATATGTGGTAAAGTCGAAAGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
** ** * * *
87080229 AGCCATGCATATGTGGTAAAGCCAAATGGATAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
87080277 AGAT
1 AGAT
87080281 GTGTATATAT
Statistics
Matches: 135, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 135 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
Found at i:87083580 original size:28 final size:28
Alignment explanation
Indices: 87083511--87083611 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
87083501 GACAAGATTG
* * * *
87083511 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
87083541 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
87083569 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
87083598 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
87083612 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:87088584 original size:8 final size:8
Alignment explanation
Indices: 87088571--87088600 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
87088561 GTTGGAGATC
*
87088571 CTATCAAA
1 CTATCAAG
87088579 CTATCAAG
1 CTATCAAG
87088587 CTATCAAG
1 CTATCAAG
87088595 CTATCA
1 CTATCA
87088601 TATTAGGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (8 bp):
CTATCAAG
Found at i:87092292 original size:44 final size:46
Alignment explanation
Indices: 87092242--87092405 Score: 163
Period size: 47 Copynumber: 3.6 Consensus size: 46
87092232 TGTAACCCGC
*
87092242 CCATAAGTGAACTCGGACTCAACTCAAC-AGCTAGG-TGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGTTCGCAT
* * * *
87092286 CCATAAGTGAACTCAGACTCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATG-TTCGCAT
* *** * * **
87092332 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACAAGCTCGGATGTTCGCAT
*
87092379 CCATAAGTGAACACGGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
87092406 TGAGTTCGGA
Statistics
Matches: 93, Mismatches: 22, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
44 27 0.29
45 6 0.06
46 27 0.29
47 33 0.35
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGTTCGCAT
Found at i:87092434 original size:46 final size:45
Alignment explanation
Indices: 87092341--87092426 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
87092331 TACATCTCTC
* * *
87092341 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACACGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
* *
87092387 GAACACGGACTCAACTCAATGAGTTCGG-ATGCTCAACCAT
1 GAACACGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
87092427 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 9 0.26
46 26 0.74
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACACGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:87097887 original size:46 final size:45
Alignment explanation
Indices: 87097794--87097879 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
87097784 TACATCTCTC
* *
87097794 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
87097840 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
87097880 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:87099326 original size:18 final size:18
Alignment explanation
Indices: 87099303--87099358 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
87099293 TATATCGAAA
87099303 AAATATTATCTCTGTTAC
1 AAATATTATCTCTGTTAC
* * * *
87099321 AAATATATATATTTG-GAA
1 AAATAT-TATCTCTGTTAC
87099339 AAATATTATCTCTGTTAC
1 AAATATTATCTCTGTTAC
87099357 AA
1 AA
87099359 TTGATTCCAG
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
17 6 0.21
18 16 0.57
19 6 0.21
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (18 bp):
AAATATTATCTCTGTTAC
Found at i:87099348 original size:36 final size:37
Alignment explanation
Indices: 87099286--87099358 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 37
87099276 GTTTTGTTTT
87099286 ATATATATATATCGAAAAAATATTATCTCTGTTACAA
1 ATATATATATATCGAAAAAATATTATCTCTGTTACAA
* *
87099323 ATATATATAT-TTGGAAAAATATTATCTCTGTTACAA
1 ATATATATATATCGAAAAAATATTATCTCTGTTACAA
87099359 TTGATTCCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 24 0.71
37 10 0.29
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.40
Consensus pattern (37 bp):
ATATATATATATCGAAAAAATATTATCTCTGTTACAA
Found at i:87101640 original size:44 final size:46
Alignment explanation
Indices: 87101591--87101709 Score: 145
Period size: 44 Copynumber: 2.6 Consensus size: 46
87101581 ATATATGCAT
*
87101591 GCTGATGCATGTCCTAGACATGTCTTACACTAGCACAACTCT-T-A-
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC-CAACTCTGTAAG
* * * *
87101635 GCTGATGCGTGTCCCAGACACGTCTTACACTAGCTATCTCTGTCAAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGT-AAG
*
87101682 GTTGATGCATGTCCCAGACATGTCTTAC
1 GCTGATGCATGTCCCAGACATGTCTTAC
87101710 TCTGGCACTC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
43 5 0.08
44 32 0.51
46 1 0.02
47 25 0.40
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTAAG
Found at i:87105160 original size:42 final size:42
Alignment explanation
Indices: 87105099--87105256 Score: 183
Period size: 42 Copynumber: 3.7 Consensus size: 42
87105089 TTAGGGGTAC
*
87105099 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCTATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
* * * *
87105141 TAAGATTTCGTGTAAGACCATATCTGGGATATAGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
* * *
87105183 TGAGACTT-TGTGTAAGACCATAGCTGGGTTATTGGCATCAATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCAATA
* * * *
87105226 CGAGATTACATATAAGACCATATCTAGGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATA
87105257 CGACATTGGT
Statistics
Matches: 96, Mismatches: 17, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
42 64 0.67
43 32 0.33
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:87105677 original size:25 final size:25
Alignment explanation
Indices: 87105648--87105697 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
87105638 AAGTTAGAGA
87105648 TTAAATTGAATAAATTTCAAAAATT
1 TTAAATTGAATAAATTTCAAAAATT
87105673 TTAAATTGAATAAATTTCAAAAATT
1 TTAAATTGAATAAATTTCAAAAATT
87105698 ATGTTCTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (25 bp):
TTAAATTGAATAAATTTCAAAAATT
Found at i:87118854 original size:42 final size:42
Alignment explanation
Indices: 87118744--87118897 Score: 218
Period size: 42 Copynumber: 3.6 Consensus size: 42
87118734 TACCACACCA
* ** *
87118744 ATGCCATATCCCAGATATGGTCTTATATGGGATCTCATTTTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATTG
* *
87118786 ATGCCAATAGCCCAGCTATGGTCTTACATGAAATCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATATTG
* *
87118829 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAATG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATTG
*
87118871 ATGCCATATCCCAAATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
87118898 CATAGTCTTA
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 64 0.64
43 36 0.36
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATTG
Found at i:87131919 original size:27 final size:27
Alignment explanation
Indices: 87131889--87131955 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
87131879 TTGTCACATT
*
87131889 TCACTTTGCCATATTTGGCACACTTTA
1 TCACTTTGCCATATTTAGCACACTTTA
*
87131916 TCACTTTGCCATGTTTAGCACACTTTA
1 TCACTTTGCCATATTTAGCACACTTTA
87131943 TCACTTTGCCATA
1 TCACTTTGCCATA
87131956 GTTCAACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.40
Consensus pattern (27 bp):
TCACTTTGCCATATTTAGCACACTTTA
Found at i:87132195 original size:2 final size:2
Alignment explanation
Indices: 87132188--87132218 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
87132178 TCAATAACAA
87132188 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87132219 ATAATACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87137103 original size:17 final size:18
Alignment explanation
Indices: 87137083--87137116 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
87137073 TACCAAAGCA
*
87137083 TGAATTATG-GATTGATT
1 TGAATAATGTGATTGATT
87137100 TGAATAATGTGATTGAT
1 TGAATAATGTGATTGAT
87137117 AAACAAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (18 bp):
TGAATAATGTGATTGATT
Found at i:87138701 original size:20 final size:20
Alignment explanation
Indices: 87138676--87138745 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
87138666 GAGGCAAAGC
87138676 ACACGCCCGTGTGCTTAGGG
1 ACACGCCCGTGTGCTTAGGG
87138696 ACACGCCCGTGTGCTTAGGG
1 ACACGCCCGTGTGCTTAGGG
87138716 ACACGCCCGTGTGCTTAGGG
1 ACACGCCCGTGTGCTTAGGG
*
87138736 AAACGCCCGT
1 ACACGCCCGT
87138746 ATCCCTCACC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTAGGG
Found at i:87147559 original size:27 final size:27
Alignment explanation
Indices: 87147528--87147582 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
87147518 TTATGATAAA
87147528 TGTTAATAATACAAATACAAAAAGTTT
1 TGTTAATAATACAAATACAAAAAGTTT
* *
87147555 TGTTAATGATACAAATACAAAAATTTT
1 TGTTAATAATACAAATACAAAAAGTTT
87147582 T
1 T
87147583 CTTACATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (27 bp):
TGTTAATAATACAAATACAAAAAGTTT
Found at i:87153282 original size:93 final size:93
Alignment explanation
Indices: 87153170--87153341 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
87153160 GCCCATAAGC
* * *
87153170 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87153235 CGAGCTCGGATGCCTAGTTACATCTTTT
66 CGAGCTCGGATGCCTAGTTACATCTTTT
* * *
87153263 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
87153328 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
87153342 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTTTT
Found at i:87153334 original size:46 final size:46
Alignment explanation
Indices: 87153162--87153331 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
87153152 TGTAACCCGC
* * * * *
87153162 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
* *
87153208 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--A-GAC-A-TTCGCAT
** *
87153258 -C-T-TTTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
*
87153301 CCATAAGTGAACTTGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
87153332 TTCGGATGCC
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 2 0.02
46 55 0.54
47 26 0.26
48 1 0.01
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
Found at i:87158513 original size:29 final size:27
Alignment explanation
Indices: 87158477--87158546 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 27
87158467 AATTAAAAGT
*
87158477 TTAAAAATTATTAAATTTTAATAAAAA
1 TTAAAAAATATTAAATTTTAATAAAAA
* * *
87158504 TATAAGAAATATTTAATTTTTATTAAAAA
1 T-TAAAAAATA-TTAAATTTTAATAAAAA
87158533 TTAAAAAAATATTA
1 TT-AAAAAATATTA
87158547 TAAAAATCGT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.03
28 11 0.31
29 23 0.66
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (27 bp):
TTAAAAAATATTAAATTTTAATAAAAA
Found at i:87158872 original size:28 final size:28
Alignment explanation
Indices: 87158841--87158920 Score: 72
Period size: 29 Copynumber: 2.8 Consensus size: 28
87158831 CTTTTGATTC
87158841 ATTTTATATTTTTTTAATTTTTAGTAAA
1 ATTTTATATTTTTTTAATTTTTAGTAAA
* * *
87158869 A-TTTAAATAATTTTTATATTTTTATTAAA
1 ATTTTATAT-TTTTTTA-ATTTTTAGTAAA
* * * *
87158898 GTTTAATAATTTTATAATTTTTA
1 ATTTTATATTTTTTTAATTTTTA
87158921 TTGGTTTTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
27 6 0.15
28 14 0.35
29 16 0.40
30 4 0.10
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (28 bp):
ATTTTATATTTTTTTAATTTTTAGTAAA
Found at i:87158919 original size:9 final size:9
Alignment explanation
Indices: 87158842--87158945 Score: 56
Period size: 9 Copynumber: 11.4 Consensus size: 9
87158832 TTTTGATTCA
87158842 TTTTAT-AT
1 TTTTATAAT
*
87158850 TTTTTTAAT
1 TTTTATAAT
87158859 TTTTAGTAAAAT
1 TTTTA-T--AAT
**
87158871 TTAAATAAT
1 TTTTATAAT
87158880 TTTTAT-AT
1 TTTTATAAT
*
87158888 TTTTATTAAAG
1 TTTTA-T-AAT
*
87158899 TTTAATAA-
1 TTTTATAAT
87158907 TTTTATAAT
1 TTTTATAAT
**
87158916 TTTTATTGGT
1 TTTTA-TAAT
87158926 TTTTAT--T
1 TTTTATAAT
87158933 TTTTATAAT
1 TTTTATAAT
87158942 TTTT
1 TTTT
87158946 TGTCACATGT
Statistics
Matches: 74, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
7 7 0.09
8 19 0.26
9 27 0.36
10 9 0.12
11 6 0.08
12 6 0.08
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:87158921 original size:28 final size:28
Alignment explanation
Indices: 87158851--87158922 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
87158841 ATTTTATATT
*
87158851 TTTTTAATTTTTAGTAAAATTTAAATAA
1 TTTTTAATTTTTATTAAAATTTAAATAA
*
87158879 TTTTTATATTTTTATTAAAGTTT-AATAA
1 TTTTTA-ATTTTTATTAAAATTTAAATAA
87158907 TTTTATAATTTTTATT
1 TTTT-TAATTTTTATT
87158923 GGTTTTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 24 0.60
29 16 0.40
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTTTAATTTTTATTAAAATTTAAATAA
Found at i:87159767 original size:24 final size:26
Alignment explanation
Indices: 87159730--87159787 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 26
87159720 TGACATAATG
87159730 ATTTAATTTTTTGA-CAT-GTAACAT-
1 ATTT-ATTTTTTGACCATAGTAACATA
87159754 ATTTATTTTATTGACGCATAGTAACATA
1 ATTTATTTT-TTGAC-CATAGTAACATA
87159782 ATTTAT
1 ATTTAT
87159788 CTATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.17
24 8 0.28
26 3 0.10
27 7 0.24
28 6 0.21
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (26 bp):
ATTTATTTTTTGACCATAGTAACATA
Found at i:87160211 original size:38 final size:38
Alignment explanation
Indices: 87160122--87160204 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
87160112 AACCCTAATC
87160122 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
*
87160160 CCACCTACTCCACCACCCTTGTTGGCTACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
87160198 CCACCTA
1 CCACCTA
87160205 AACCACCCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (38 bp):
CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
Found at i:87160629 original size:3 final size:3
Alignment explanation
Indices: 87160618--87160697 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
87160608 TTTATTTTTT
* *
87160618 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
87160661 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
87160698 ATATGCCCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 46 0.74
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:87160675 original size:21 final size:18
Alignment explanation
Indices: 87160622--87160697 Score: 82
Period size: 18 Copynumber: 4.1 Consensus size: 18
87160612 TTTTTTTTAT
* *
87160622 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
87160641 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
87160659 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
87160680 TTTATATTATTA-TATTA
1 TTTATATTATTATTATTA
87160697 T
1 T
87160698 ATATGCCCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
17 6 0.12
18 18 0.36
19 9 0.18
20 5 0.10
21 12 0.24
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:87160698 original size:27 final size:26
Alignment explanation
Indices: 87160609--87160701 Score: 82
Period size: 26 Copynumber: 3.6 Consensus size: 26
87160599 GAGCTTTGTT
* * * *
87160609 TTATTTTTTTTATTTTATTATTTTTA
1 TTATTATTTATATATTATTATTTATA
*
87160635 CTATTATTTATATTATTATTA-TTAT-
1 TTATTATTTATA-TATTATTATTTATA
* * *
87160660 TTCTCATGTATATATTATTATTTATA
1 TTATTATTTATATATTATTATTTATA
87160686 TTATTATATTATATAT
1 TTATTAT-TTATATAT
87160702 GCCCTCTCCA
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
24 8 0.16
25 12 0.24
26 17 0.33
27 14 0.27
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (26 bp):
TTATTATTTATATATTATTATTTATA
Found at i:87161057 original size:2 final size:2
Alignment explanation
Indices: 87161045--87161078 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
87161035 GTATTTCTAT
*
87161045 TA TA TA CA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87161079 TTAGTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.