Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 263 of 344
Found at i:87717432 original size:13 final size:13
Alignment explanation
Indices: 87717414--87717440 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87717404 TGTATTATTA
87717414 TATTTTTTATTTT
1 TATTTTTTATTTT
87717427 TATTTTTTATTTT
1 TATTTTTTATTTT
87717440 T
1 T
87717441 GATACATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:87717878 original size:5 final size:5
Alignment explanation
Indices: 87717868--87717892 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
87717858 TGTATGATTG
87717868 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
87717893 ATATATATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:87718990 original size:15 final size:16
Alignment explanation
Indices: 87718969--87719009 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
87718959 TTCTGTTCAT
87718969 ATTTATTTTATAATT-
1 ATTTATTTTATAATTA
*
87718984 TTTTA-TTTATAATTA
1 ATTTATTTTATAATTA
87718999 ATTTATTTTAT
1 ATTTATTTTAT
87719010 TCGCTAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 9 0.41
15 8 0.36
16 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTATTTTATAATTA
Found at i:87720972 original size:21 final size:21
Alignment explanation
Indices: 87720946--87721028 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 21
87720936 TGATCAGTAT
*
87720946 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * ** *
87720967 ACGACACACGAGGTGCCCGAT
1 ACGACACACAAAGTGCCTAAA
* *
87720988 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
* *
87721010 TATGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
87721029 GATCGGTAAA
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
21 32 0.68
22 1 0.02
23 14 0.30
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:87721426 original size:15 final size:15
Alignment explanation
Indices: 87721401--87721458 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
87721391 TCATATATAT
87721401 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
87721417 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
87721432 AATAATTTCAATCAA
1 TATAAATTCAATCAA
87721447 TATAAATTCAAT
1 TATAAATTCAAT
87721459 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:87725677 original size:15 final size:15
Alignment explanation
Indices: 87725657--87725713 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
87725647 CGATGAATTT
*
87725657 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
87725672 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
87725687 ATTGAAATTATATTG
1 ATTGAAATTATATTG
87725702 ATTG-AATTATAT
1 ATTGAAATTATAT
87725714 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:87726123 original size:23 final size:21
Alignment explanation
Indices: 87726097--87726146 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
87726087 AGGCACTTTA
87726097 TGTGTCATATTTCAGGCACCTCG
1 TGTGTCATA--TCAGGCACCTCG
*
87726120 TGTGTCGTATCAGGCACCTCG
1 TGTGTCATATCAGGCACCTCG
87726141 TGTGTC
1 TGTGTC
87726147 GTTTTAGGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 18 0.69
23 8 0.31
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.34
Consensus pattern (21 bp):
TGTGTCATATCAGGCACCTCG
Found at i:87726132 original size:21 final size:21
Alignment explanation
Indices: 87726108--87726171 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
87726098 GTGTCATATT
87726108 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
*
87726129 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTA
* * **
87726150 TTAGGCACTTTATGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
87726171 T
1 T
87726172 ACTGATCAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:87727772 original size:21 final size:22
Alignment explanation
Indices: 87727721--87727775 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
87727711 AATAATTATA
*
87727721 AAATTATAAAAATAAAAATTTC
1 AAATTATAAAAATAAAAATTGC
*
87727743 AAATT-TAAAAA-AAATAA-TGG
1 AAATTATAAAAATAAA-AATTGC
87727763 AAATTATAAAAAT
1 AAATTATAAAAAT
87727776 TATAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 9 0.32
21 14 0.50
22 5 0.18
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
AAATTATAAAAATAAAAATTGC
Found at i:87727775 original size:9 final size:9
Alignment explanation
Indices: 87727763--87727800 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
87727753 AAAATAATGG
87727763 AAATTATAA
1 AAATTATAA
87727772 AAATTATAA
1 AAATTATAA
*
87727781 AAATAAGTAA
1 AAATTA-TAA
87727791 AAATT-TAA
1 AAATTATAA
87727799 AA
1 AA
87727801 GTTTTCCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 5 0.19
9 14 0.54
10 7 0.27
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (9 bp):
AAATTATAA
Found at i:87733602 original size:21 final size:21
Alignment explanation
Indices: 87733565--87733605 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
87733555 ATTTGCTCAA
*
87733565 ACTCCACCTCTTTTGGAGTAC
1 ACTCCACCTCTTGTGGAGTAC
87733586 ACTCCACCTGC-TGTGGAGTA
1 ACTCCACCT-CTTGTGGAGTA
87733606 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.29
Consensus pattern (21 bp):
ACTCCACCTCTTGTGGAGTAC
Found at i:87752918 original size:5 final size:5
Alignment explanation
Indices: 87752908--87752933 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
87752898 AAATATTAAT
87752908 TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA T
87752934 TATAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:87753769 original size:22 final size:22
Alignment explanation
Indices: 87753729--87753770 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
87753719 ATATTTGAGC
**
87753729 ATTGGTATTGAATTTAAATTGA
1 ATTGGTATTGAATCCAAATTGA
*
87753751 ATTGGTATTTAATCCAAATT
1 ATTGGTATTGAATCCAAATT
87753771 TTAATTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
ATTGGTATTGAATCCAAATTGA
Found at i:87758013 original size:30 final size:30
Alignment explanation
Indices: 87757974--87758030 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
87757964 TTTTATAAGT
87757974 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
87758004 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
87758031 AACAACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:87758267 original size:12 final size:13
Alignment explanation
Indices: 87758244--87758270 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87758234 TTTCCAAAGC
87758244 ACTTTTTAAAAAT
1 ACTTTTTAAAAAT
87758257 ACTTTTTAAAAAT
1 ACTTTTTAAAAAT
87758270 A
1 A
87758271 TTGCCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
ACTTTTTAAAAAT
Found at i:87760733 original size:3 final size:3
Alignment explanation
Indices: 87760725--87760758 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
87760715 GCTCTACATT
87760725 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
87760759 ATCCTAGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:87760870 original size:18 final size:18
Alignment explanation
Indices: 87760847--87760883 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
87760837 TATGGAGAAC
87760847 ATTTTATTCTTTTATTTA
1 ATTTTATTCTTTTATTTA
*
87760865 ATTTTATTTTTTTATTTA
1 ATTTTATTCTTTTATTTA
87760883 A
1 A
87760884 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTATTCTTTTATTTA
Found at i:87766310 original size:29 final size:31
Alignment explanation
Indices: 87766260--87766321 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
87766250 TGAGAAATTT
*
87766260 TGGTTGGCCATGTGCCCAACAT-G-GGTGTG
1 TGGTTGGCCATGTGACCAACATGGAGGTGTG
*
87766289 TGGTTGGCCATGTGGAGC-ACATGGAGGTGTG
1 TGGTTGGCCATGT-GACCAACATGGAGGTGTG
87766320 TG
1 TG
87766322 ATTACACGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 17 0.61
30 3 0.11
31 8 0.29
ACGTcount: A:0.15, C:0.16, G:0.42, T:0.27
Consensus pattern (31 bp):
TGGTTGGCCATGTGACCAACATGGAGGTGTG
Found at i:87767037 original size:34 final size:34
Alignment explanation
Indices: 87766947--87767038 Score: 107
Period size: 34 Copynumber: 2.7 Consensus size: 34
87766937 TGTTCTAATT
*
87766947 TAATATGACATTTTAATATGATATATGTTTCTGG
1 TAATATGACATTTTGATATGATATATGTTTCTGG
* * * *
87766981 -AATTAAGATATTCTGATGTGATATATGATTT-TGG
1 TAA-TATGACATTTTGATATGATATATG-TTTCTGG
87767015 TAATATGACATTTTGATATGATAT
1 TAATATGACATTTTGATATGATAT
87767039 TTGTATAAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
33 2 0.04
34 39 0.85
35 5 0.11
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (34 bp):
TAATATGACATTTTGATATGATATATGTTTCTGG
Found at i:87767623 original size:20 final size:19
Alignment explanation
Indices: 87767598--87767636 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
87767588 AGAAATTGTA
87767598 ATTCTTAGAAAATAGAATTT
1 ATTCTTAGAAAATA-AATTT
87767618 ATTCTTAGAAAATAAATTT
1 ATTCTTAGAAAATAAATTT
87767637 TCATTACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTCTTAGAAAATAAATTT
Found at i:87767997 original size:18 final size:17
Alignment explanation
Indices: 87767974--87768007 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
87767964 ATGTTTCCAA
*
87767974 AATAAATATTATTTATTT
1 AATAAAT-TTAATTATTT
87767992 AATAAATTTAATTATT
1 AATAAATTTAATTATT
87768008 ACTATTAACT
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAAATTTAATTATTT
Found at i:87772411 original size:39 final size:39
Alignment explanation
Indices: 87772343--87772559 Score: 245
Period size: 39 Copynumber: 5.6 Consensus size: 39
87772333 GTAACCACGA
* * *
87772343 CACAAAAGTGCGATCAAGGATACCGAAGTACAATAGGGG
1 CACAAAAGTGCGATCAGGGGTACCGAAGTACAACAGGGG
* * *
87772382 CACAAAATTGCGATTAGGGGTACCAAAGTACAACAGGGG
1 CACAAAAGTGCGATCAGGGGTACCGAAGTACAACAGGGG
* * *
87772421 CACATAAGTGCGATCAGGGGTATCGAAGTACAATAGGGG
1 CACAAAAGTGCGATCAGGGGTACCGAAGTACAACAGGGG
** * * *
87772460 CACCTATGTGCAATCAGGGGTGCCGAAGTACAACAGGGG
1 CACAAAAGTGCGATCAGGGGTACCGAAGTACAACAGGGG
* ** *
87772499 AACGTAAGTGTGATCAGGGGTACCGAAGTACAACAGGGG
1 CACAAAAGTGCGATCAGGGGTACCGAAGTACAACAGGGG
** *
87772538 CACGTAAGTACGATCAGGGGTA
1 CACAAAAGTGCGATCAGGGGTA
87772560 TCATTATATA
Statistics
Matches: 151, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 151 1.00
ACGTcount: A:0.35, C:0.18, G:0.32, T:0.16
Consensus pattern (39 bp):
CACAAAAGTGCGATCAGGGGTACCGAAGTACAACAGGGG
Found at i:87772429 original size:19 final size:19
Alignment explanation
Indices: 87772397--87772548 Score: 79
Period size: 19 Copynumber: 7.8 Consensus size: 19
87772387 AATTGCGATT
* *
87772397 AGGGGTACCAAAGTACAAC
1 AGGGGCACCTAAGTACAAC
* * *
87772416 AGGGGCACATAAGTGCGATC
1 AGGGGCACCTAAGTAC-AAC
* * * *
87772436 AGGGGTATCGAAGTACAAT
1 AGGGGCACCTAAGTACAAC
* *
87772455 AGGGGCACCTATGTGCAATC
1 AGGGGCACCTAAGTACAA-C
** *
87772475 AGGGGTGCCGAAGTACAAC
1 AGGGGCACCTAAGTACAAC
* * ** *
87772494 AGGGGAACGTAAGTGTGATC
1 AGGGGCACCTAAGT-ACAAC
* *
87772514 AGGGGTACCGAAGTACAAC
1 AGGGGCACCTAAGTACAAC
*
87772533 AGGGGCACGTAAGTAC
1 AGGGGCACCTAAGTAC
87772549 GATCAGGGGT
Statistics
Matches: 91, Mismatches: 39, Indels: 6
0.67 0.29 0.04
Matches are distributed among these distances:
19 52 0.57
20 39 0.43
ACGTcount: A:0.33, C:0.18, G:0.34, T:0.15
Consensus pattern (19 bp):
AGGGGCACCTAAGTACAAC
Found at i:87772554 original size:78 final size:78
Alignment explanation
Indices: 87772348--87772559 Score: 271
Period size: 78 Copynumber: 2.7 Consensus size: 78
87772338 CACGACACAA
* * * * *
87772348 AAGTGCGATCAAGGATACCGAAGTACAATAGGGGCACAAAATTGCGATTAGGGGTACCAAAGTAC
1 AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCACATAAGTGCGATCAGGGGTACCAAAGTAC
*
87772413 AACAGGGGCACAT
66 AACAGGGGAACAT
* * * * * *
87772426 AAGTGCGATCAGGGGTATCGAAGTACAATAGGGGCACCTATGTGCAATCAGGGGTGCCGAAGTAC
1 AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCACATAAGTGCGATCAGGGGTACCAAAGTAC
*
87772491 AACAGGGGAACGT
66 AACAGGGGAACAT
* * * *
87772504 AAGTGTGATCAGGGGTACCGAAGTACAACAGGGGCACGTAAGTACGATCAGGGGTA
1 AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCACATAAGTGCGATCAGGGGTA
87772560 TCATTATATA
Statistics
Matches: 113, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 113 1.00
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.16
Consensus pattern (78 bp):
AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCACATAAGTGCGATCAGGGGTACCAAAGTAC
AACAGGGGAACAT
Found at i:87780747 original size:20 final size:20
Alignment explanation
Indices: 87780711--87780750 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
87780701 TACATTCTTG
87780711 ATATGTTGTTGAAATAAAAA
1 ATATGTTGTTGAAATAAAAA
*
87780731 ATAT-TTGTTTAATATAAAAA
1 ATATGTTGTTGAA-ATAAAAA
87780751 TAGTGATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
ATATGTTGTTGAAATAAAAA
Found at i:87782089 original size:12 final size:13
Alignment explanation
Indices: 87782053--87782090 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
87782043 AAATATTTTA
87782053 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
87782066 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
87782080 CTTG-TCTTAAT
1 CTTGTTCTTAAT
87782091 ATTCTAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:87785178 original size:45 final size:45
Alignment explanation
Indices: 87785108--87785197 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
87785098 ATATTCTTGG
* * *
87785108 AATTCAAATCCTTAGGGATCGAAATAATAAAATGATAGCACTATC
1 AATTCAAATCCTTAGGGAACAAAATAATAAAACGATAGCACTATC
*
87785153 AATTCGAATCCTTAGGGAACAAAATAATAAAACGATAGCACTATC
1 AATTCAAATCCTTAGGGAACAAAATAATAAAACGATAGCACTATC
87785198 TCAAGCTTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (45 bp):
AATTCAAATCCTTAGGGAACAAAATAATAAAACGATAGCACTATC
Found at i:87786107 original size:4 final size:4
Alignment explanation
Indices: 87786100--87786125 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
87786090 TATTTGAATG
87786100 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
87786126 TTAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:87786993 original size:24 final size:25
Alignment explanation
Indices: 87786966--87787015 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
87786956 GTTTATCTTG
*
87786966 AAGATACATAT-TCTATT-ATTTAAT
1 AAGATAAATATGT-TATTAATTTAAT
87786990 AAGATAAATATGTTATTAATTTAAT
1 AAGATAAATATGTTATTAATTTAAT
87787015 A
1 A
87787016 TTAAAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (25 bp):
AAGATAAATATGTTATTAATTTAAT
Found at i:87788982 original size:16 final size:16
Alignment explanation
Indices: 87788941--87788986 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
87788931 TCCCGAACTG
** *
87788941 CCGAAAAGCCAAAATG
1 CCGAAAAGCTGAAATA
87788957 CCGAAAAGCTGAAATA
1 CCGAAAAGCTGAAATA
87788973 CCGAAAAGCTGAAA
1 CCGAAAAGCTGAAA
87788987 GTCTGGCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.50, C:0.22, G:0.20, T:0.09
Consensus pattern (16 bp):
CCGAAAAGCTGAAATA
Found at i:87797314 original size:46 final size:45
Alignment explanation
Indices: 87797247--87797413 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
87797237 CGCCCCTAAG
*
87797247 TGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGAGC-TTCGCATCCATAAA
* * * * **
87797293 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAG-TTACATTTCA
1 TGAACTCGGACTCAACTCAACGAGTTC-GA-GCTTCGCATCCA-TAAA
* *
87797340 CGAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGAG-C-TTCGCATCCATAAA
*
87797386 TGAACTCGGACTCATCTCAACGAGTTCG
1 TGAACTCGGACTCAACTCAACGAGTTCG
87797414 GATGCTCAAC
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 59 0.60
47 35 0.36
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGAGCTTCGCATCCATAAA
Found at i:87797363 original size:93 final size:93
Alignment explanation
Indices: 87797248--87797418 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
87797238 GCCCCTAAGT
*
87797248 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
87797312 ACGAGTTCAGATGCCTAGTTACATTTCAC
65 ACGAGTTCAGATGCCTAGTTACATTTCAC
* * *
87797341 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCATCTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
87797406 CGAGTTCGGATGC
66 CGAGTTCAGATGC
87797419 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:87804551 original size:19 final size:20
Alignment explanation
Indices: 87804527--87804564 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
87804517 GGTACCACCA
87804527 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
87804546 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
87804565 ACCACCTTAT
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:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:87804861 original size:46 final size:45
Alignment explanation
Indices: 87804794--87804959 Score: 181
Period size: 46 Copynumber: 3.6 Consensus size: 45
87804784 GCCCCTAAGT
*
87804794 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAATG
1 AACTCGGACTCAACTCAACGAGTTCGGGC-TTCGTATCCATAAATG
* * * * ** *
87804840 AACTCGGACTCAACTCAACGAGTTCAGATGCCTAGT-TACATTTCACG
1 AACTCGGACTCAACTCAACGAGTTC-G-GGCTTCGTATCCA-TAAATG
* * *
87804887 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGGC-TTCGTATCCATAAATG
87804933 AACTCGGACTCAACTCAACGAGTTCGG
1 AACTCGGACTCAACTCAACGAGTTCGG
87804960 ATGCTCAACC
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 59 0.61
47 35 0.36
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AACTCGGACTCAACTCAACGAGTTCGGGCTTCGTATCCATAAATG
Found at i:87804953 original size:93 final size:93
Alignment explanation
Indices: 87804794--87804963 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
87804784 GCCCCTAAGT
* * *
87804794 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAATGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
87804859 GAGTTCAGATGCCTAGTTACATTTCACG
66 GAGTTCAGATGCCTAGTTACATTTCACG
* *
87804887 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
*
87804952 GAGTTCGGATGC
66 GAGTTCAGATGC
87804964 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCAGATGCCTAGTTACATTTCACG
Found at i:87808220 original size:50 final size:49
Alignment explanation
Indices: 87808102--87808277 Score: 199
Period size: 50 Copynumber: 3.5 Consensus size: 49
87808092 CTGGTACGCA
* * * *
87808102 TAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACG
* * ** * *
87808151 TAGTAACCTGTACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCAGGTACACG
* * *
87808201 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACG
*
87808252 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
87808278 TGCGACCTCA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 30 0.28
50 43 0.40
51 34 0.32
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACG
Found at i:87808285 original size:101 final size:99
Alignment explanation
Indices: 87808102--87808285 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 99
87808092 CTGGTACGCA
* * * * **
87808102 TAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAACCTGTACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAACCTACACTTA
*
87808167 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * *
87808201 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAGGTACACATAGTAACCTACACT
*
87808266 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
87808286 CACAATAGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 28 0.39
100 3 0.04
101 40 0.56
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAACCTACACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:87809977 original size:17 final size:17
Alignment explanation
Indices: 87809946--87809979 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87809936 GATTATAATC
*
87809946 CAACAATTTGAATATAT
1 CAACAATTAGAATATAT
*
87809963 CAACAATTAGCATATAT
1 CAACAATTAGAATATAT
87809980 TAGCTAACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (17 bp):
CAACAATTAGAATATAT
Found at i:87815022 original size:19 final size:18
Alignment explanation
Indices: 87815000--87815039 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
87814990 ATCTCAAGGT
87815000 TATAATCCAACAATTAGAA
1 TATAAT-CAACAATTAGAA
*
87815019 TAT-ATCAACAATTAGCA
1 TATAATCAACAATTAGAA
87815036 TATA
1 TATA
87815040 TTAGCTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 14 0.74
18 2 0.11
19 3 0.16
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (18 bp):
TATAATCAACAATTAGAA
Found at i:87815029 original size:17 final size:17
Alignment explanation
Indices: 87815007--87815040 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
87814997 GGTTATAATC
87815007 CAACAATTAGAATATAT
1 CAACAATTAGAATATAT
*
87815024 CAACAATTAGCATATAT
1 CAACAATTAGAATATAT
87815041 TAGCTAACAA
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:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (17 bp):
CAACAATTAGAATATAT
Found at i:87821038 original size:28 final size:27
Alignment explanation
Indices: 87820931--87821042 Score: 97
Period size: 27 Copynumber: 4.1 Consensus size: 27
87820921 AGCATGGCTG
* *
87820931 CCAGAACAGATA-ATGTGACAGAG-CA
1 CCAGTACAGATATATGTGGCAGAGCCA
** *
87820956 CCAGATACAGATA-ATCGTTACAGAACCA
1 CCAG-TACAGATATAT-GTGGCAGAGCCA
87820984 CCAGTACAGATATATGTGGCAGAGCCA
1 CCAGTACAGATATATGTGGCAGAGCCA
* *
87821011 CCAG-ATCAGATAATTTGTGGCATAGCCA
1 CCAGTA-CAGAT-ATATGTGGCAGAGCCA
87821039 CCAG
1 CCAG
87821043 GACGCTTCCA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
25 4 0.05
26 10 0.14
27 33 0.45
28 26 0.36
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (27 bp):
CCAGTACAGATATATGTGGCAGAGCCA
Found at i:87822490 original size:24 final size:24
Alignment explanation
Indices: 87822470--87822534 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
87822460 CCCTTATCTG
87822470 CTCCTAAATCCTATCCTTTATCAA
1 CTCCTAAATCCTATCCTTTATCAA
*
87822494 CTCCTAAATCCTATCCCTTATCAA
1 CTCCTAAATCCTATCCTTTATCAA
*
87822518 CTCCTAAATCCTCTCCT
1 CTCCTAAATCCTATCCT
87822535 GACAGACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.35
Consensus pattern (24 bp):
CTCCTAAATCCTATCCTTTATCAA
Found at i:87822498 original size:48 final size:47
Alignment explanation
Indices: 87822435--87822534 Score: 112
Period size: 48 Copynumber: 2.1 Consensus size: 47
87822425 CACCTCTTGT
* * **
87822435 TCCTTGATCAGCTCCTAGATTTCC-TCCCTTATCTGCTCCTAAATCCTA
1 TCCTTGATCAACTCCTA-A-ATCCATCCCTTATCAACTCCTAAATCCTA
* *
87822483 TCCTTTATCAACTCCTAAATCCTATCCCTTATCAACTCCTAAATCCTC
1 TCCTTGATCAACTCCTAAATCC-ATCCCTTATCAACTCCTAAATCCTA
87822531 TCCT
1 TCCT
87822535 GACAGACTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
46 3 0.07
47 1 0.02
48 40 0.91
ACGTcount: A:0.22, C:0.37, G:0.04, T:0.37
Consensus pattern (47 bp):
TCCTTGATCAACTCCTAAATCCATCCCTTATCAACTCCTAAATCCTA
Found at i:87825069 original size:27 final size:27
Alignment explanation
Indices: 87825039--87825216 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
87825029 ATATTGAGTC
* *
87825039 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
87825066 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
87825093 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
87825121 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
87825148 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
87825175 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
87825202 CGCTCACTTAGTGCT
1 CGCACACTTAGTGCT
87825217 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:87825178 original size:82 final size:81
Alignment explanation
Indices: 87825060--87825215 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
87825050 TGCTATATAA
* *
87825060 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
87825125 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
87825142 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCT
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
87825206 CACTTAGTGC
65 CACTTAGTGC
87825216 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:87825199 original size:54 final size:54
Alignment explanation
Indices: 87825039--87825215 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
87825029 ATATTGAGTC
* * * *
87825039 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
87825093 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
87825148 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
*
87825202 CGCTCACTTAGTGC
1 CGCACACTTAGTGC
87825216 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 56 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:87827665 original size:70 final size:70
Alignment explanation
Indices: 87827571--87827747 Score: 221
Period size: 70 Copynumber: 2.5 Consensus size: 70
87827561 CTAATGTGCT
* * *
87827571 CAACACTAGTCGAACGAATTGACAATGTTTTGCACCCAGCACTAGTTGGGTAACCGACAATGGAT
1 CAACACTAGTCGAACGAATCGACAATGTTTTGCACCCAGCACTAGTCGGATAACCGACAATGGAT
87827636 GCGCC
66 GCGCC
* * * * * * **
87827641 CAGCATTTGTCGAATGAATCGACAATGTTTTGCACCAAGCGCTAGTCGGATAACCGATGATGGAT
1 CAACACTAGTCGAACGAATCGACAATGTTTTGCACCCAGCACTAGTCGGATAACCGACAATGGAT
*
87827706 GTGCC
66 GCGCC
**
87827711 CAACACTAGTC-AACGAATCGATGATGTTTTGCACCCA
1 CAACACTAGTCGAACGAATCGACAATGTTTTGCACCCA
87827748 TAATAGTCGA
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
69 22 0.25
70 66 0.75
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (70 bp):
CAACACTAGTCGAACGAATCGACAATGTTTTGCACCCAGCACTAGTCGGATAACCGACAATGGAT
GCGCC
Found at i:87827733 original size:34 final size:36
Alignment explanation
Indices: 87827695--87827771 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 36
87827685 GTCGGATAAC
*
87827695 CGATGATGGATGTGC-CCAACACTAGTC-AACGAAT
1 CGATGATGGATGTGCACCAACAATAGTCGAACGAAT
* * * *
87827729 CGATGAT-GTTTTGCACCCATAATAGTCGAACGAAT
1 CGATGATGGATGTGCACCAACAATAGTCGAACGAAT
87827764 CGATGATG
1 CGATGATG
87827772 TCAATTACTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 5 0.14
34 16 0.46
35 14 0.40
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (36 bp):
CGATGATGGATGTGCACCAACAATAGTCGAACGAAT
Found at i:87828681 original size:12 final size:12
Alignment explanation
Indices: 87828664--87828706 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
87828654 GATGATACAC
87828664 TTATTTTTTTAT
1 TTATTTTTTTAT
*
87828676 TTATTTCTTTAT
1 TTATTTTTTTAT
* *
87828688 GTTATTTTATTAA
1 -TTATTTTTTTAT
87828701 TTATTT
1 TTATTT
87828707 ACTTTTATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (12 bp):
TTATTTTTTTAT
Found at i:87832523 original size:47 final size:47
Alignment explanation
Indices: 87832468--87832562 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
87832458 CGATGTCTTT
* * *
87832468 TATGATGCCAATGCCATGGCTTGGACATGGTCTTACATGGGATCACA
1 TATGATGCCAAAGCCATGGCCTAGACATGGTCTTACATGGGATCACA
*
87832515 TATGATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATCACA
1 TATGATGCCAAAGCCATGGCCTAGACATGGTCTTACATGGGATCACA
87832562 T
1 T
87832563 GTTACTGCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
TATGATGCCAAAGCCATGGCCTAGACATGGTCTTACATGGGATCACA
Found at i:87832818 original size:25 final size:25
Alignment explanation
Indices: 87832773--87832854 Score: 114
Period size: 25 Copynumber: 3.3 Consensus size: 25
87832763 TTAATTACAC
*
87832773 ACAACTTACCTCGGTAC-AAATATGA
1 ACAA-TTACCTCGGTACAAAATACGA
*
87832798 ACAATTACCTCGGTACAAAATACGG
1 ACAATTACCTCGGTACAAAATACGA
*
87832823 ACAATTACCTCGGTACAAAATACGG
1 ACAATTACCTCGGTACAAAATACGA
87832848 AC-ATTAC
1 ACAATTAC
87832855 TTCGATTTAG
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
24 17 0.31
25 37 0.69
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.22
Consensus pattern (25 bp):
ACAATTACCTCGGTACAAAATACGA
Found at i:87845201 original size:93 final size:93
Alignment explanation
Indices: 87845070--87845241 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
87845060 GCCCATAAGT
* * *
87845070 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
87845135 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
87845163 GAACTCAGACTTAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
87845228 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
87845242 CAAATATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:87845237 original size:46 final size:46
Alignment explanation
Indices: 87845062--87845237 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
87845052 TGTAACCCGC
* * * *
87845062 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
*
87845108 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
87845154 ACATCTCTCGAACTCAGACTTAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
87845201 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
87845238 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 66 0.62
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:87847665 original size:30 final size:31
Alignment explanation
Indices: 87847630--87847709 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 31
87847620 CAAGAAAACC
* *
87847630 GAATAAAGAAATCCAAGATAGAGA-AACCTG
1 GAATAAAGAAATCCAAGATAAAGAGAACCAG
* *
87847660 GAATAAATAAATCC-AGAATAAAGAGATCCAG
1 GAATAAAGAAATCCAAG-ATAAAGAGAACCAG
*
87847691 G-ATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
87847710 TGATACTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
29 2 0.05
30 32 0.78
31 7 0.17
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (31 bp):
GAATAAAGAAATCCAAGATAAAGAGAACCAG
Found at i:87847680 original size:15 final size:15
Alignment explanation
Indices: 87847621--87847700 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
87847611 CAAAGATAAC
*
87847621 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
87847635 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
87847650 GAGAAA-CCTGGAATA
1 AAGAAATCC-AGAATA
*
87847665 AATAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
87847680 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
87847695 AAGAAA
1 AAGAAA
87847701 CCCAAGATAT
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
14 11 0.22
15 37 0.73
16 3 0.06
ACGTcount: A:0.57, C:0.12, G:0.17, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:87847709 original size:15 final size:15
Alignment explanation
Indices: 87847632--87847709 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
87847622 AGAAAACCGA
87847632 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
87847647 ATAGAGAAA-CCTGG
1 ATAAAGAAATCCAAG
*
87847661 AATAAATAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
87847676 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
87847692 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
87847707 ATA
1 ATA
87847710 TGATACTATG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
14 3 0.06
15 42 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:87850708 original size:20 final size:20
Alignment explanation
Indices: 87850680--87850726 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
87850670 CATAAGTGAA
*
87850680 CTCGTACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
87850700 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
*
87850720 TTCGGAC
1 CTCGGAC
87850727 ATTCGCATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (20 bp):
CTCGGACTCAACTCAACGAG
Found at i:87850744 original size:66 final size:66
Alignment explanation
Indices: 87850638--87850771 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 66
87850628 AGTGAACTCA
* * *
87850638 GACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGTACTCAACTCAACGAGCTC
1 GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTC
87850703 G
66 G
* *
87850704 GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTC
87850769 G
66 G
87850770 GA
1 GA
87850772 TGCCCAAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (66 bp):
GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTC
G
Found at i:87854646 original size:123 final size:123
Alignment explanation
Indices: 87854427--87854677 Score: 475
Period size: 123 Copynumber: 2.0 Consensus size: 123
87854417 TATGCTTAAC
*
87854427 AACTTATCAGTGTCTTGGTCCAAGGTTTGCCTAATATTGACTTACCAACCCCACTGCAAAATAGA
1 AACTTATCAGTGTCTTGGTCCAAGATTTGCCTAATATTGACTTACCAACCCCACTGCAAAATAGA
*
87854492 TATTTTGGCATGTGTATAAAATAGCATACATGAGACTTCTTACTGTCGAAGCAAAAGG
66 TATTTTGGCATGTGTATAAAATAACATACATGAGACTTCTTACTGTCGAAGCAAAAGG
*
87854550 AACTTATCAGTGTCTTGGTCCAAGATTTGCCTAATATTGACTTACCAACCCCACTTCAAAATAGA
1 AACTTATCAGTGTCTTGGTCCAAGATTTGCCTAATATTGACTTACCAACCCCACTGCAAAATAGA
87854615 TATTTTGGCATGTGTATAAAATAACATACATGAGACTTCTTACTGTCGAAGCAAAAGG
66 TATTTTGGCATGTGTATAAAATAACATACATGAGACTTCTTACTGTCGAAGCAAAAGG
87854673 AACTT
1 AACTT
87854678 GTAACAGCCC
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 125 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (123 bp):
AACTTATCAGTGTCTTGGTCCAAGATTTGCCTAATATTGACTTACCAACCCCACTGCAAAATAGA
TATTTTGGCATGTGTATAAAATAACATACATGAGACTTCTTACTGTCGAAGCAAAAGG
Found at i:87860503 original size:10 final size:10
Alignment explanation
Indices: 87860484--87860533 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
87860474 TGAAATTCTA
87860484 AAAGATAAAT
1 AAAGATAAAT
87860494 ACAA-ATAAAT
1 A-AAGATAAAT
*
87860504 AAAGATAATT
1 AAAGATAAAT
87860514 AAAGATAAAT
1 AAAGATAAAT
87860524 GAAA-ATAAAT
1 -AAAGATAAAT
87860534 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:87861187 original size:16 final size:17
Alignment explanation
Indices: 87861161--87861199 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
87861151 CTTTTTTTTC
*
87861161 TATTTATTTTATTAATT
1 TATTTAATTTATTAATT
*
87861178 T-TTTAATTTATTTATT
1 TATTTAATTTATTAATT
87861194 TATTTA
1 TATTTA
87861200 TTGTTGCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTTAATTTATTAATT
Found at i:87862678 original size:26 final size:26
Alignment explanation
Indices: 87862599--87862679 Score: 110
Period size: 26 Copynumber: 3.1 Consensus size: 26
87862589 AACACACCAA
*
87862599 TATCGCAACAAAGCTGCCAGTATCAG
1 TATCGCAACAAAGCTGCCAGTATAAG
*
87862625 TAACGCAACAAAGCTGCCAGTA-ATAG
1 TATCGCAACAAAGCTGCCAGTATA-AG
* *
87862651 TATCGCAGCAAAGCTGCCTGTATAAG
1 TATCGCAACAAAGCTGCCAGTATAAG
87862677 TAT
1 TAT
87862680 ATGTGGCCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 47 0.98
27 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (26 bp):
TATCGCAACAAAGCTGCCAGTATAAG
Found at i:87863674 original size:21 final size:21
Alignment explanation
Indices: 87863648--87863689 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
87863638 CCATTCGGCC
87863648 AAAAACCCATGCCAGCATAAT
1 AAAAACCCATGCCAGCATAAT
87863669 AAAAACCCATGCCAGCATAAT
1 AAAAACCCATGCCAGCATAAT
87863690 CTAGTTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.29, G:0.10, T:0.14
Consensus pattern (21 bp):
AAAAACCCATGCCAGCATAAT
Found at i:87868983 original size:20 final size:20
Alignment explanation
Indices: 87868960--87869019 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
87868950 TTAAATTCTA
87868960 AAAGATAAATACAAATAAAT
1 AAAGATAAATACAAATAAAT
* * *
87868980 AAAGATAATTACAGATAATT
1 AAAGATAAATACAAATAAAT
*
87869000 ACAGATAAATGA-AAATAAAT
1 AAAGATAAAT-ACAAATAAAT
87869020 CCTAAAATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.23
Consensus pattern (20 bp):
AAAGATAAATACAAATAAAT
Found at i:87873296 original size:28 final size:27
Alignment explanation
Indices: 87873228--87873315 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
87873218 GGAGGAAGCG
*
87873228 TTCTGGTGACTCTGCCAAAAATATCTG-
1 TTCTGGTGGCTCTGCC-AAAATATCTGT
*
87873255 ATCTGGTGGCTCTGCCATAAATATCTGT
1 TTCTGGTGGCTCTGCCA-AAATATCTGT
*
87873283 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCAAAATATCTGT
87873310 TTCTGG
1 TTCTGG
87873316 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 38 0.69
28 16 0.29
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCAAAATATCTGT
Found at i:87877378 original size:38 final size:38
Alignment explanation
Indices: 87877334--87877487 Score: 184
Period size: 38 Copynumber: 4.0 Consensus size: 38
87877324 ATATGCTAGA
*
87877334 ATTATATACGGGTTAAATCCCGCAAGCTTCGTGCTGGT
1 ATTATATACGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
87877372 AATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATACGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* * * *
87877410 ATTATATATGGGTTAAATCCTGCAGGCCTAGTGCTGGT
1 ATTATATACGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* * *
87877448 ATTATAT-CTGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 ATTATATAC-G-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
87877488 GACTGGATTC
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
38 75 0.77
39 6 0.06
40 17 0.17
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (38 bp):
ATTATATACGGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:87877397 original size:76 final size:77
Alignment explanation
Indices: 87877298--87877475 Score: 207
Period size: 76 Copynumber: 2.3 Consensus size: 77
87877288 ATTTGATGTG
* *
87877298 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTAGAATTATATACGGGTTAAATCCCGCAAGCT
1 TATCCGGG-TTAAAGTCCCGCAGGCT-TCATGCTAGAATTATATACGGGTTAAATCCCGCAAGCC
*
87877362 TCGTGCTGGTAATA
64 TAGTGCTGGTAATA
* * * * * *
87877376 TATCCGGGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATATGGGTTAAATCCTGCAGGCCTA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCATGCTAGAATTATATACGGGTTAAATCCCGCAAGCCTA
*
87877440 GTGCTGGTATTA
66 GTGCTGGTAATA
* *
87877452 TATCTGAGCTTAAAGTCCCGCAGG
1 TATCCG-GGTTAAAGTCCCGCAGG
87877476 TTTTGTGCTG
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
75 1 0.01
76 56 0.66
77 11 0.13
78 17 0.20
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (77 bp):
TATCCGGGTTAAAGTCCCGCAGGCTTCATGCTAGAATTATATACGGGTTAAATCCCGCAAGCCTA
GTGCTGGTAATA
Found at i:87882986 original size:3 final size:3
Alignment explanation
Indices: 87882978--87883032 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
87882968 ATATATTAGT
*
87882978 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TACA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
*
87883024 TTA TAA TAA
1 TAA TAA TAA
87883033 ATATCTATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:87883545 original size:5 final size:5
Alignment explanation
Indices: 87883537--87883602 Score: 66
Period size: 5 Copynumber: 13.4 Consensus size: 5
87883527 TTTATTTATA
* *
87883537 ATAAT ATAAT ATAAT ATAAT ATAAT -TAAT ATAAT TTAAA AT-AT GAT-AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT
*
87883585 AATAAT ATAAT TTAAT AT
1 -ATAAT ATAAT ATAAT AT
87883603 TTAACCAACA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
4 5 0.10
5 44 0.86
6 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:87885231 original size:101 final size:101
Alignment explanation
Indices: 87885056--87885254 Score: 344
Period size: 101 Copynumber: 2.0 Consensus size: 101
87885046 CAAGTCGGGC
* * * *
87885056 ATTTACTAACAAATTCAACTATATCTTTCTTCATCCCTGGCCACTAATACAATTCTCGTAGGTCA
1 ATTTACTAACAAATTCAACTATATCTTTCTGCATCCCTAGCCACTAATACAATTCTCGCAAGTCA
*
87885121 CAATACATCTTTATTTCACCAAGGTGCAAAGCAGGG
66 CAATACATCTTTATTTCACCAAGGTACAAAGCAGGG
*
87885157 ATTTACTAACACATTCAACTATATCTTTCTGCATCCCTAGCCACTAATACAATTCTCGCAAGTCA
1 ATTTACTAACAAATTCAACTATATCTTTCTGCATCCCTAGCCACTAATACAATTCTCGCAAGTCA
87885222 CAATACATCTTTATTTCACCAAGGTACAAAGCA
66 CAATACATCTTTATTTCACCAAGGTACAAAGCA
87885255 AAAGCGTTAT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (101 bp):
ATTTACTAACAAATTCAACTATATCTTTCTGCATCCCTAGCCACTAATACAATTCTCGCAAGTCA
CAATACATCTTTATTTCACCAAGGTACAAAGCAGGG
Found at i:87889494 original size:5 final size:5
Alignment explanation
Indices: 87889486--87889514 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
87889476 TTTATTTATA
87889486 ATAAT ATAAT ATAAT ATAAT -TAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
87889515 TTAAAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:87889528 original size:26 final size:25
Alignment explanation
Indices: 87889493--87889543 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
87889483 ATAATAATAT
87889493 AATATAATATAATTAATATAATTTAA
1 AATATAATATAA-TAATATAATTTAA
* *
87889519 AATATGATATAATAATATTATTTAA
1 AATATAATATAATAATATAATTTAA
87889544 TATTTAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AATATAATATAATAATATAATTTAA
Found at i:87893046 original size:27 final size:27
Alignment explanation
Indices: 87893016--87893307 Score: 368
Period size: 27 Copynumber: 10.8 Consensus size: 27
87893006 ATTACCAAAG
*
87893016 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
87893043 TACCCTCGATTTACAGAGTTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
87893070 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
87893097 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
87893124 TACTCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
87893151 TACCCTCAATTCACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
87893178 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
87893205 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
87893232 TACCTTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
87893259 TACCCTCGATTTAAAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
** *
87893286 TACCCTTAATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
87893308 TGAAATACCC
Statistics
Matches: 233, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 233 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:87893340 original size:27 final size:26
Alignment explanation
Indices: 87893295--87893505 Score: 145
Period size: 27 Copynumber: 7.9 Consensus size: 26
87893285 TTACCCTTAA
* **
87893295 TTTACAAAATTACTGAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCC-TGG
* * *
87893322 TTTACAAAATTTCCAAAATACCCTCG
1 TTTATAAAATTACCAAAATACCCTGG
* *
87893348 ATCAGTAAAATTACCAAAATACCCCTGG
1 TTTA-TAAAATTACCAAAATA-CCCTGG
* *
87893376 TTTGTAAAATTACTAAAATATCCCTGG
1 TTTATAAAATTACCAAAATA-CCCTGG
*
87893403 TTTGTAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATA-CCCTGG
* * * *
87893430 CTTGTAAAATTACTAAAATACCCCTGA
1 TTTATAAAATTACCAAAATA-CCCTGG
* * * * * *
87893457 TTTGTGAAATTATCGAAATACTCTGAA
1 TTTATAAAATTACCAAAATACCCTG-G
* *
87893484 TTTACAAAA-TATCAAAATACCC
1 TTTATAAAATTACCAAAATACCC
87893506 CTGTAGGGTA
Statistics
Matches: 151, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
26 19 0.13
27 126 0.83
28 6 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (26 bp):
TTTATAAAATTACCAAAATACCCTGG
Found at i:87893385 original size:54 final size:53
Alignment explanation
Indices: 87893300--87893457 Score: 190
Period size: 54 Copynumber: 2.9 Consensus size: 53
87893290 CTTAATTTAC
** * ** * *
87893300 AAAATTACTGAAATACCCTTGGTTTACAAAATTTCCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT-GATCAGT
* **
87893354 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATATCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATA-CCCTGATCAGT
*
87893408 AAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGAT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATA-CCCTGAT
87893458 TTGTGAAATT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 86 0.96
55 4 0.04
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTGATCAGT
Found at i:87893461 original size:54 final size:54
Alignment explanation
Indices: 87893352--87893477 Score: 198
Period size: 54 Copynumber: 2.3 Consensus size: 54
87893342 CCCTCGATCA
* * *
87893352 GTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATATCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGATTT
87893406 GTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGATTT
1 GTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGATTT
* * *
87893460 GTGAAATTATCGAAATAC
1 GTAAAATTACCAAAATAC
87893478 TCTGAATTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (54 bp):
GTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGATTT
Found at i:87893476 original size:81 final size:81
Alignment explanation
Indices: 87893300--87893505 Score: 224
Period size: 81 Copynumber: 2.6 Consensus size: 81
87893290 CTTAATTTAC
*
87893300 AAAATTACTGAAATACCCTTGGTTTACAAAATTTCCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
*
87893365 AATACCCCTGGTTTGT
66 AATACCCCTGATTTGT
* ** * * * *
87893381 AAAATTACTAAAATATCCC-TGGTTTGTAAAATTACCAAAATACCCCTGGCT-TGTAAAATTACT
1 AAAATTACTGAAATA-CCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACC
87893444 AAAATACCCCTGATTTGT
64 AAAATACCCCTGATTTGT
* * * *
87893462 GAAATTA-TCGAAATACTC-TGAATTTACAAAA-TATCAAAATACCC
1 AAAATTACT-GAAATACCCTTG-GTTTACAAAATTACCAAAATACCC
87893506 CTGTAGGGTA
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
79 3 0.03
80 14 0.13
81 79 0.75
82 9 0.09
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:87893493 original size:54 final size:54
Alignment explanation
Indices: 87893352--87893535 Score: 178
Period size: 54 Copynumber: 3.4 Consensus size: 54
87893342 CCCTCGATCA
** * *
87893352 GTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATATCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGAATTGTAAAATTACTAAAATACCCCTGATTT
**
87893406 GTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGATTT
1 GTAAAATTACCAAAATACCCCTGAATTGTAAAATTACTAAAATACCCCTGATTT
* * * * * **
87893460 GTGAAATTATCGAAATA-CTCTGAATT-TACAAAATA-TCAAAATACCCCTG-TAGG
1 GTAAAATTACCAAAATACCCCTGAATTGTA-AAATTACT-AAAATACCCCTGAT-TT
* *
87893513 GTAGAATTACCGAAATACCCCTG
1 GTAAAATTACCAAAATACCCCTG
87893536 TAGGGTAGAA
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.04
53 37 0.34
54 69 0.63
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (54 bp):
GTAAAATTACCAAAATACCCCTGAATTGTAAAATTACTAAAATACCCCTGATTT
Found at i:87893536 original size:27 final size:27
Alignment explanation
Indices: 87893498--87893631 Score: 198
Period size: 27 Copynumber: 5.0 Consensus size: 27
87893488 CAAAATATCA
87893498 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
87893525 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
87893552 AAATACCCTTGTAAGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
87893579 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
87893606 AGATACCCTTGT-GGGATAAAATTACC
1 AAATACCCCTGTAGGG-TAGAATTACC
87893632 ATTTTTCCCC
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 3 0.03
27 94 0.97
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:87893870 original size:26 final size:25
Alignment explanation
Indices: 87893836--87893906 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
87893826 AGGAAGTGCT
*
87893836 AAAAGGGCTTTGCCCTAGTTTACCAA
1 AAAAGGGCTTTGCCCCAGTTTACC-A
* * *
87893862 AAAAAGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
87893887 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
87893907 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 19 0.49
26 20 0.51
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:87893919 original size:24 final size:24
Alignment explanation
Indices: 87893835--87893933 Score: 67
Period size: 25 Copynumber: 4.0 Consensus size: 24
87893825 GAGGAAGTGC
* *
87893835 TAAAAG-GGCTTTGCCCTAGTTTACC
1 TAAAAGAGGCTTTGCCCCAG-TTA-T
* * *
87893860 AAAAAAAGGCTTTGCCCCAATTTAT
1 TAAAAGAGGCTTTGCCCC-AGTTAT
*
87893885 CAAAA-AGGGCTTTGCCCCAGTTAT
1 TAAAAGA-GGCTTTGCCCCAGTTAT
**
87893909 TAAAAGAGGCTAGGCCTCCAGTTAT
1 TAAAAGAGGCTTTGCC-CCAGTTAT
87893934 ATGATAAAGC
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
24 17 0.29
25 28 0.47
26 13 0.22
27 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (24 bp):
TAAAAGAGGCTTTGCCCCAGTTAT
Found at i:87896120 original size:21 final size:21
Alignment explanation
Indices: 87896094--87896136 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
87896084 TCTCATACCT
87896094 TACCTCCAGATCTTGAACTGC
1 TACCTCCAGATCTTGAACTGC
87896115 TACCTCCAGATCTTGAACTGC
1 TACCTCCAGATCTTGAACTGC
87896136 T
1 T
87896137 TGTTCCCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (21 bp):
TACCTCCAGATCTTGAACTGC
Found at i:87898329 original size:19 final size:18
Alignment explanation
Indices: 87898305--87898342 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
87898295 AGAATAAGTT
87898305 AAAATACACAAGATGCAGC
1 AAAATACACAAGATG-AGC
*
87898324 AAAATATACAAGATGAGC
1 AAAATACACAAGATGAGC
87898342 A
1 A
87898343 CACAAAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (18 bp):
AAAATACACAAGATGAGC
Found at i:87900943 original size:15 final size:14
Alignment explanation
Indices: 87900925--87900966 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 14
87900915 AATATTAAAA
87900925 TTTTAAGTTTTTAAGT
1 TTTTAA-TTTTTAA-T
87900941 TTTTAATTTTTAAT
1 TTTTAATTTTTAAT
87900955 TTTTCAATTTTT
1 TTTT-AATTTTT
87900967 TTGAAGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.20
15 14 0.56
16 6 0.24
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (14 bp):
TTTTAATTTTTAAT
Found at i:87900965 original size:7 final size:7
Alignment explanation
Indices: 87900925--87900966 Score: 57
Period size: 8 Copynumber: 5.6 Consensus size: 7
87900915 AATATTAAAA
87900925 TTTTAAGT
1 TTTTAA-T
87900933 TTTTAAGT
1 TTTTAA-T
87900941 TTTTAAT
1 TTTTAAT
87900948 TTTTAAT
1 TTTTAAT
87900955 TTTTCAAT
1 TTTT-AAT
87900963 TTTT
1 TTTT
87900967 TTGAAGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 12 0.36
8 21 0.64
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (7 bp):
TTTTAAT
Found at i:87902162 original size:40 final size:40
Alignment explanation
Indices: 87902118--87902339 Score: 225
Period size: 40 Copynumber: 5.5 Consensus size: 40
87902108 ACCTCAATCT
*
87902118 ATAGCGGCGTTTTTCCAAAAGCGTCGCTAAAAATTGAGTA
1 ATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAAATTGAGTA
* * *
87902158 ATAGCGGTGTTTTTCCAAAAGCGCCGCTAAAACCTCGA-TA
1 ATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAA-ATTGAGTA
* * * *
87902198 TATAGTGGTGTTTTTCCAAAAGCCCCGCTAAAAATTGAGCA
1 -ATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAAATTGAGTA
* * * *
87902239 ATAGCGGCGTTTTTCTAAAAGCGCCGCTAAAACCTCGA-TCT
1 ATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAA-ATTGAGT-A
* * * *
87902280 ATAACGGCGGTTTTT-CAAAAGCACCGCTAAAAACTGAGCA
1 ATAGCGGC-GTTTTTCCAAAAGCGCCGCTAAAAATTGAGTA
*
87902320 ATAGCGGCGTTTCTCCAAAA
1 ATAGCGGCGTTTTTCCAAAA
87902340 ACACCACTAT
Statistics
Matches: 147, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
39 5 0.03
40 77 0.52
41 59 0.40
42 6 0.04
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (40 bp):
ATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAAATTGAGTA
Found at i:87902242 original size:81 final size:81
Alignment explanation
Indices: 87902106--87902339 Score: 335
Period size: 81 Copynumber: 2.9 Consensus size: 81
87902096 TCTAAACCCT
* ** * *
87902106 AAACCTCAATCTATAGCGGCGTTTTTCCAAAAGCGTCGCTAAAAATTGAGTAATAGCGGTGTTTT
1 AAACCTCGATCTATAGCGGCGTTTTTCCAAAAGCACCGCTAAAAATTGAGCAATAGCGGCGTTTT
87902171 TCCAAAAGCGCCGCTA
66 TCCAAAAGCGCCGCTA
* * * *
87902187 AAACCTCGATATATAGTGGTGTTTTTCCAAAAGCCCCGCTAAAAATTGAGCAATAGCGGCGTTTT
1 AAACCTCGATCTATAGCGGCGTTTTTCCAAAAGCACCGCTAAAAATTGAGCAATAGCGGCGTTTT
*
87902252 TCTAAAAGCGCCGCTA
66 TCCAAAAGCGCCGCTA
* *
87902268 AAACCTCGATCTATAACGGCGGTTTTT-CAAAAGCACCGCTAAAAACTGAGCAATAGCGGCGTTT
1 AAACCTCGATCTATAGCGGC-GTTTTTCCAAAAGCACCGCTAAAAATTGAGCAATAGCGGCGTTT
*
87902332 CTCCAAAA
65 TTCCAAAA
87902340 ACACCACTAT
Statistics
Matches: 135, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 129 0.96
82 6 0.04
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (81 bp):
AAACCTCGATCTATAGCGGCGTTTTTCCAAAAGCACCGCTAAAAATTGAGCAATAGCGGCGTTTT
TCCAAAAGCGCCGCTA
Found at i:87902367 original size:40 final size:41
Alignment explanation
Indices: 87902323--87902412 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
87902313 CTGAGCAATA
* *
87902323 GCGGCGTTT-CTCCAAAAACACCACTATTGTTCAGTTTTTC
1 GCGGCGTTTGCACCAAAAACACCACTATTGCTCAGTTTTTC
* * * *
87902363 GCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTT
1 GCGGCGTTTGCACCAAAAACACCACTATTGCTCAGTTTTTC
*
87902404 GTGGCGTTT
1 GCGGCGTTT
87902413 TCAATAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 9 0.21
41 33 0.79
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (41 bp):
GCGGCGTTTGCACCAAAAACACCACTATTGCTCAGTTTTTC
Found at i:87902391 original size:41 final size:41
Alignment explanation
Indices: 87902334--87902412 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
87902324 CGGCGTTTCT
*
87902334 CCAAAAACACCACTATTGTTCAGTTTTTCGCGGCGTTTGGA
1 CCAAAAACACCACTATTGCTCAGTTTTTCGCGGCGTTTGGA
* * * *
87902375 CCAAAAACGCCGCTATTGCTCAGTTTTTTGTGGCGTTT
1 CCAAAAACACCACTATTGCTCAGTTTTTCGCGGCGTTT
87902413 TCAATAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (41 bp):
CCAAAAACACCACTATTGCTCAGTTTTTCGCGGCGTTTGGA
Found at i:87905079 original size:19 final size:19
Alignment explanation
Indices: 87905052--87905090 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
87905042 TTCTAGAAAA
*
87905052 AGAATTATGAGTAAGTCAC
1 AGAACTATGAGTAAGTCAC
87905071 AGAACTATGAGTAAGTCAC
1 AGAACTATGAGTAAGTCAC
87905090 A
1 A
87905091 ATCATTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.23
Consensus pattern (19 bp):
AGAACTATGAGTAAGTCAC
Found at i:87909470 original size:17 final size:18
Alignment explanation
Indices: 87909444--87909477 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
87909434 GGTAAATTTA
87909444 GGACGCGTGGG-CCACAC
1 GGACGCGTGGGTCCACAC
*
87909461 GGACGTGTGGGTCCACA
1 GGACGCGTGGGTCCACA
87909478 TGGGCGTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.29, G:0.41, T:0.12
Consensus pattern (18 bp):
GGACGCGTGGGTCCACAC
Found at i:87915280 original size:13 final size:14
Alignment explanation
Indices: 87915262--87915296 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
87915252 TTCCTGGCCA
87915262 TTCTTCATTTTT-T
1 TTCTTCATTTTTCT
87915275 TTCTTCATTTTTCT
1 TTCTTCATTTTTCT
*
87915289 CTCTTCAT
1 TTCTTCAT
87915297 CAACTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCTTCATTTTTCT
Found at i:87916337 original size:27 final size:26
Alignment explanation
Indices: 87916294--87916405 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
87916284 AGGAAATGTC
* *
87916294 CTGGTGGCTATGGCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
87916321 CTGGTGGCTCTGCCACATATAACTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
87916348 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-GAT
* * *
87916376 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
87916402 CTGG
1 CTGG
87916406 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 47 0.66
28 17 0.24
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:87916401 original size:54 final size:54
Alignment explanation
Indices: 87916294--87916405 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
87916284 AGGAAATGTC
* *
87916294 CTGGTGGCTATGGCACAATTATCTGATCTGGTGGCTCTGCCACATATAACTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATAACTGTT
* * * * *
87916348 CTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-GATCTGGTGACTCTGCCACATATAACTGTT
87916402 CTGG
1 CTGG
87916406 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATAACTGTT
Found at i:87922445 original size:7 final size:7
Alignment explanation
Indices: 87922433--87922480 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
87922423 AGTTAACACT
87922433 CTAAACC
1 CTAAACC
87922440 CTAAACC
1 CTAAACC
* *
87922447 CTAGATC
1 CTAAACC
*
87922454 CTAAATC
1 CTAAACC
87922461 CTAAACC
1 CTAAACC
87922468 CTAAACC
1 CTAAACC
87922475 CTAAAC
1 CTAAAC
87922481 TGGGATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.42, C:0.38, G:0.02, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:87923261 original size:31 final size:31
Alignment explanation
Indices: 87923225--87923332 Score: 110
Period size: 31 Copynumber: 3.5 Consensus size: 31
87923215 AAGAAACATT
* *
87923225 ATCAGAA-CTAGAATCAGAATTAGGTGACAGA
1 ATCAGAATC-AGAATCAGAATCAGGTAACAGA
* *
87923256 ATCAGAATCGGAATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
* * * *
87923287 ATCAAAATCAAAATCAGTATCAGGTAATAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
87923318 ATCAAAAATCAGAAT
1 ATC-AGAATCAGAAT
87923333 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
31 55 0.83
32 11 0.17
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGAATCAGGTAACAGA
Found at i:87923506 original size:27 final size:26
Alignment explanation
Indices: 87923467--87923570 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 26
87923457 CTGCTCAGTT
* * *
87923467 ATCAGATACTGTGACAGAGTCACCAG
1 ATCAGATATTGTGGCAGAGCCACCAG
87923493 ATTCAGATATTGTGGCAGAGCCACCAG
1 A-TCAGATATTGTGGCAGAGCCACCAG
* *
87923520 AACAGATATTTGTGGCATAGCCACCAG
1 ATCAGATA-TTGTGGCAGAGCCACCAG
* * *
87923547 AAACAGATAATGTGGCAAAGCCAC
1 -ATCAGATATTGTGGCAGAGCCAC
87923571 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
ATCAGATATTGTGGCAGAGCCACCAG
Found at i:87923763 original size:22 final size:22
Alignment explanation
Indices: 87923729--87923793 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
87923719 GCAAATACGT
* *
87923729 TTGGCAGACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
87923751 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
87923773 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
87923794 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:87924258 original size:27 final size:27
Alignment explanation
Indices: 87924224--87924628 Score: 537
Period size: 27 Copynumber: 15.0 Consensus size: 27
87924214 CAAAATGATA
* * *
87924224 ATTT-TACCCCACGAGGGTATCTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
** * *
87924250 AACTCTACCCTACAGGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
87924277 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * **
87924304 ATTTCTATCCTACAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
87924331 AATTCTACCCTACAAGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
87924358 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
87924385 ATTTC-ATCCCTACAAGGGTATTTCGGT
1 ATTTCTA-CCCTACAAGGGTATTTCGGT
87924412 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
87924439 AATTCTACCCTAC-AGGGTTATTTCGGT
1 ATTTCTACCCTACAAGGG-TATTTCGGT
87924466 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
87924493 ATTTCAACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
87924520 AATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * **
87924547 AATTCTACCCTACAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
87924574 AATTCTATCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
** *
87924601 ATTTCTACCCTGTAAGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
87924628 A
1 A
87924629 ATTTTACAAA
Statistics
Matches: 336, Mismatches: 38, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
26 7 0.02
27 324 0.96
28 5 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATTTCGGT
Found at i:87924647 original size:27 final size:27
Alignment explanation
Indices: 87924617--87924686 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
87924607 ACCCTGTAAG
87924617 GGTATTTTGGTAATTTTACAAACTAGA
1 GGTATTTTGGTAATTTTACAAACTAGA
* *
87924644 GGTATTTGGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGA
*
87924671 GGCATTTTGGTAATTT
1 GGTATTTTGGTAATTT
87924687 GGTAAACTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAGA
Found at i:87933006 original size:96 final size:97
Alignment explanation
Indices: 87932840--87933071 Score: 335
Period size: 96 Copynumber: 2.4 Consensus size: 97
87932830 TAAGATACCA
* *
87932840 ATGCCATGTCCCAGACATGGT-TTACATTAGCTCTCATATATAGGTGCCGATGCCATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATA-GTGCCGATGCCATGTCCCAAA
* *
87932904 CATGGTCTTGCACTAGCCCACATGTCGAGGCCG
65 CATGGTCTTACACTAGCCCACATATCGAGGCCG
* *
87932937 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA-A-TGCCGATGTCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-ATAGTGCCGATGCCATGTCCCAAA
*
87933000 CATGGTCTTACACTAGCTCACATATCGAGGCCG
65 CATGGTCTTACACTAGCCCACATATCGAGGCCG
* * *
87933033 ATACCATGTCCCAAACATTGTCTTACACTAGCTCTCATA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
87933072 ACCCTAGTAT
Statistics
Matches: 123, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
96 83 0.67
97 21 0.17
98 18 0.15
99 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (97 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATAGTGCCGATGCCATGTCCCAAAC
ATGGTCTTACACTAGCCCACATATCGAGGCCG
Found at i:87933065 original size:48 final size:48
Alignment explanation
Indices: 87932840--87933071 Score: 295
Period size: 48 Copynumber: 4.8 Consensus size: 48
87932830 TAAGATACCA
* **
87932840 ATGCCATGTCCCAGACATGGT-TTACATTAGCTCTCATATATAGGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGA-G-GCCG
* * * * * *
87932889 ATGCCATGTTCCAAACATGGTCTTGCACTAGCCCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAGGCCG
* *
87932937 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAGGCCG
* *
87932985 ATGTCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAGGCCG
* * *
87933033 ATACCATGTCCCAAACATTGTCTTACACTAGCTCTCATA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
87933072 ACCCTAGTAT
Statistics
Matches: 156, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
48 122 0.78
49 20 0.13
50 14 0.09
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAGGCCG
Found at i:87938218 original size:25 final size:25
Alignment explanation
Indices: 87938190--87938237 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
87938180 ATAATTAAAC
* * *
87938190 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
87938215 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
87938238 CATATTATAA
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:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:87940576 original size:17 final size:17
Alignment explanation
Indices: 87940554--87940586 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
87940544 TGTCTTTGGT
87940554 CGTGTGAGACACACGGA
1 CGTGTGAGACACACGGA
87940571 CGTGTGAGACACACGG
1 CGTGTGAGACACACGG
87940587 CCGAACCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.24, G:0.36, T:0.12
Consensus pattern (17 bp):
CGTGTGAGACACACGGA
Found at i:87953277 original size:16 final size:17
Alignment explanation
Indices: 87953248--87953284 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
87953238 CGGTATTTTT
*
87953248 GGGCTTAATGGGCCAAC
1 GGGCTTAATAGGCCAAC
87953265 GGGC-TAATAGGCCAAC
1 GGGCTTAATAGGCCAAC
87953281 GGGC
1 GGGC
87953285 CCACTTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.24, C:0.24, G:0.38, T:0.14
Consensus pattern (17 bp):
GGGCTTAATAGGCCAAC
Found at i:87953585 original size:27 final size:26
Alignment explanation
Indices: 87953541--87953591 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
87953531 CTCGCTGTAA
*
87953541 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
87953568 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
87953592 GCCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:87959769 original size:46 final size:45
Alignment explanation
Indices: 87959702--87959871 Score: 162
Period size: 46 Copynumber: 3.7 Consensus size: 45
87959692 TGTAACCCGC
** * *
87959702 CCATAAGCAAACTCAGACTCAACTCAAAGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
87959748 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * *
87959794 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
87959841 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
87959872 TTTGGATGCC
Statistics
Matches: 98, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 62 0.63
47 33 0.34
48 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:87959838 original size:93 final size:93
Alignment explanation
Indices: 87959711--87959881 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
87959701 CCCATAAGCA
* * *
87959711 AACTCAGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAAAGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
87959776 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAGTTACATCTCTCG
* * *
87959804 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAAAGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
* *
87959869 GAGTTTGGATGCC
66 GAGCTCGGATGCC
87959882 CAAACATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAAAGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCG
Found at i:87959896 original size:46 final size:46
Alignment explanation
Indices: 87959753--87959896 Score: 116
Period size: 46 Copynumber: 3.1 Consensus size: 46
87959743 CGCATCCATA
* * *
87959753 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTAGGATGCCCA--TACATC-CT
* * * * * *
87959802 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTT-AG-GATGCCCATACATCCT
* *
87959846 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTAGGATGCCCATACATCCT
87959892 AGTGA
1 AGTGA
87959897 CATGTCACTT
Statistics
Matches: 72, Mismatches: 17, Indels: 15
0.69 0.16 0.14
Matches are distributed among these distances:
44 8 0.11
45 1 0.01
46 30 0.42
47 28 0.39
48 1 0.01
49 4 0.06
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTAGGATGCCCATACATCCT
Found at i:87963125 original size:46 final size:45
Alignment explanation
Indices: 87963072--87963246 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
87963062 TGATTGAGCA
87963072 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-ATGCGAATG
* * * *
87963118 TCCGAACTCGTTGAGTTGGGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAA-T--G
*
87963163 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* *
87963211 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
87963247 GGCGGGTTAC
Statistics
Matches: 108, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 6 0.06
46 58 0.54
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
Found at i:87963228 original size:93 final size:93
Alignment explanation
Indices: 87963069--87963240 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
87963059 GGATGATTGA
*
87963069 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGTCCGAACTCGTTGAGT
*
87963134 TGGGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
87963162 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGTCC-GAACTCGTTGAG
87963226 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
87963241 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:87970779 original size:93 final size:92
Alignment explanation
Indices: 87970621--87970790 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
87970611 GGATGATTGA
*
87970621 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
87970686 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
87970713 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
87970777 TTGAGTCCGAGTTC
64 TTGAGTCCGAGTTC
87970791 ACTTATGGAT
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
92 26 0.35
93 48 0.65
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:87970789 original size:46 final size:46
Alignment explanation
Indices: 87970627--87970843 Score: 259
Period size: 46 Copynumber: 4.7 Consensus size: 46
87970617 TTGAGCATCC
*
87970627 GAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGTCC-
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCT
* * * *
87970672 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--CT
87970719 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
*
87970765 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
* *
87970811 GAGCTCGTTGAG-TGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87970844 GCGGGTTACA
Statistics
Matches: 151, Mismatches: 10, Indels: 22
0.83 0.05 0.12
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 1 0.01
45 41 0.27
46 66 0.44
47 26 0.17
48 4 0.03
50 4 0.03
51 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
Found at i:87972673 original size:30 final size:30
Alignment explanation
Indices: 87972631--87972718 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
87972621 CAAAGATAAC
87972631 AAGAAA-CC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
* *
87972659 GAGAAACCCGGAATAAATAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
87972689 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
87972719 CGATACTATG
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
28 5 0.10
29 4 0.08
30 32 0.67
31 7 0.15
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:87972689 original size:15 final size:15
Alignment explanation
Indices: 87972631--87972709 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
87972621 CAAAGATAAC
87972631 AAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
87972644 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
87972659 GAGAAACCCGGAATA
1 AAGAAATCCAGAATA
*
87972674 AATAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
87972689 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
87972704 AAGAAA
1 AAGAAA
87972710 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
13 6 0.12
14 3 0.06
15 41 0.80
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.18, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:87972718 original size:15 final size:15
Alignment explanation
Indices: 87972641--87972718 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
87972631 AAGAAACCGA
87972641 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
87972656 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
*
87972670 AATAAATAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
87972685 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
87972701 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
87972716 ATA
1 ATA
87972719 CGATACTATG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
14 3 0.06
15 42 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:87975755 original size:93 final size:93
Alignment explanation
Indices: 87975647--87975819 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
87975637 CGCCCATAAG
* * *
87975647 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
87975712 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
87975740 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
87975805 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
87975820 CAAACATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:87975815 original size:46 final size:46
Alignment explanation
Indices: 87975640--87975815 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
87975630 TGTAACCCGC
* * * *
87975640 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
87975686 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
87975732 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
87975779 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
87975816 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
46 68 0.64
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:87978364 original size:27 final size:26
Alignment explanation
Indices: 87978320--87978370 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
87978310 CTCGCTGCAA
*
87978320 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
87978347 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
87978371 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:87991967 original size:15 final size:15
Alignment explanation
Indices: 87991928--87992007 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
87991918 GTATCTTGGG
*
87991928 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
87991943 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
87991958 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
87991973 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
87991988 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
87992002 TTTCTT
1 TTTCTT
87992008 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Done.