Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 168 of 230
Found at i:49912629 original size:20 final size:20
Alignment explanation
Indices: 49912606--49912701 Score: 85
Period size: 20 Copynumber: 5.0 Consensus size: 20
49912596 TAGAAATTTG
49912606 ATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTA
49912626 ATCTTAATATTATATAAGCT-
1 ATCTTAATATTATATAAG-TA
* * ** *
49912646 AT-GTAAT-TCGA-A-ATTTG
1 ATCTTAATAT-TATATAAGTA
*
49912663 ATCTTAATATTATAAAAGTA
1 ATCTTAATATTATATAAGTA
49912683 ATCTTAATATTATATAAGT
1 ATCTTAATATTATATAAGT
49912702 TATGTAATTC
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
16 1 0.02
17 3 0.05
18 7 0.12
19 7 0.12
20 40 0.68
21 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (20 bp):
ATCTTAATATTATATAAGTA
Found at i:49912652 original size:57 final size:57
Alignment explanation
Indices: 49912574--49912738 Score: 269
Period size: 57 Copynumber: 2.9 Consensus size: 57
49912564 GTAAGTTATG
* *
49912574 TAAT-TTATGTAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCT
1 TAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCT
* *
49912630 TAATATTATATAAGCTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCT
1 TAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCT
* *
49912687 TAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGT
1 TAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGT
49912739 TATGTAATTC
Statistics
Matches: 100, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
56 4 0.04
57 96 0.96
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (57 bp):
TAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCT
Found at i:49912736 original size:37 final size:37
Alignment explanation
Indices: 49912683--49912820 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
49912673 TATAAAAGTA
*
49912683 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGATATTTT
*
49912720 ATCTTAATATTGTATAAGTTATGTAATTCGATATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGATATTTT
*
49912757 ATCTTAATATTGTATAAGTTATGTAATTCGATATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGATATTTT
*
49912794 ATCTTAACATTATATAAGTTATGTAAT
1 ATCTTAATATTATATAAGTTATGTAAT
49912821 ATTATATAAA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (37 bp):
ATCTTAATATTATATAAGTTATGTAATTCGATATTTT
Found at i:49912829 original size:56 final size:57
Alignment explanation
Indices: 49912755--49912890 Score: 202
Period size: 56 Copynumber: 2.4 Consensus size: 57
49912745 ATTCGATATT
* * * *
49912755 TTATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAG
1 TTATCGTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAACATTATATAAG
* *
49912812 TTAT-GTAATATTATATAAATTATGTAATTAGAAATTTTATCTTAATATTATATAAG
1 TTATCGTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAACATTATATAAG
*
49912868 TTATCTTAATATTATATAAGTTA
1 TTATCGTAATATTATATAAGTTA
49912891 AGAAATTTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
56 50 0.71
57 20 0.29
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.49
Consensus pattern (57 bp):
TTATCGTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAACATTATATAAG
Found at i:49915386 original size:19 final size:18
Alignment explanation
Indices: 49915362--49915402 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
49915352 GGACTATGTT
49915362 GGGGAACTGTTAGGGATTA
1 GGGGAA-TGTTAGGGATTA
* *
49915381 GGGGAATTTTAGGGATTT
1 GGGGAATGTTAGGGATTA
49915399 GGGG
1 GGGG
49915403 GATATGAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.22, C:0.02, G:0.46, T:0.29
Consensus pattern (18 bp):
GGGGAATGTTAGGGATTA
Found at i:49916524 original size:20 final size:20
Alignment explanation
Indices: 49916442--49916526 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
49916432 ATTTCCAAAC
* * *
49916442 CCCTAACCTCGAACACTAAA
1 CCCTAACCCCAAAAACTAAA
* * *
49916462 CCATAAACTCAAAAACCTAAA
1 CCCTAACCCCAAAAA-CTAAA
* *
49916483 TCCCAAACCCCAAACCAC-AAA
1 -CCCTAACCCCAAA-AACTAAA
49916504 CCCTAACCCCAAAAACTAAA
1 CCCTAACCCCAAAAACTAAA
49916524 CCC
1 CCC
49916527 CAAACTCAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
19 2 0.04
20 29 0.58
21 8 0.16
22 10 0.20
23 1 0.02
ACGTcount: A:0.47, C:0.41, G:0.01, T:0.11
Consensus pattern (20 bp):
CCCTAACCCCAAAAACTAAA
Found at i:49916536 original size:20 final size:20
Alignment explanation
Indices: 49916456--49916539 Score: 62
Period size: 20 Copynumber: 4.1 Consensus size: 20
49916446 AACCTCGAAC
** *
49916456 ACTAAACCATAAACTCAAAA
1 ACTAAACCCCAAACCCAAAA
* *
49916476 ACCTAAATCCCAAACCCCAAACC
1 A-CTAAACCCCAAA-CCCAAA-A
* *
49916499 AC-AAACCCTAACCCCAAAA
1 ACTAAACCCCAAACCCAAAA
*
49916518 ACTAAACCCCAAACTCAAAA
1 ACTAAACCCCAAACCCAAAA
49916538 AC
1 AC
49916540 CAAAAATCCC
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
19 2 0.04
20 23 0.48
21 16 0.33
22 6 0.12
23 1 0.02
ACGTcount: A:0.52, C:0.38, G:0.00, T:0.10
Consensus pattern (20 bp):
ACTAAACCCCAAACCCAAAA
Found at i:49917587 original size:41 final size:41
Alignment explanation
Indices: 49917528--49917633 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 41
49917518 AGGTTTTTTT
* *
49917528 GCGGCGCTTTTCAGAAAACGCCGCTAAAGACAAGATCATTA
1 GCGGCGCTTTTCAAAAAACGCCGCTAAAGACAAGAGCATTA
* ** * *
49917569 GCGGCGTTTTTTGAAAAACGCCGCTAAAGGCAGGAGCATTA
1 GCGGCGCTTTTCAAAAAACGCCGCTAAAGACAAGAGCATTA
49917610 GCGGCGCTTTTCAAAAAACGCCGC
1 GCGGCGCTTTTCAAAAAACGCCGC
49917634 AACAGGGACA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTTCAAAAAACGCCGCTAAAGACAAGAGCATTA
Found at i:49917813 original size:114 final size:113
Alignment explanation
Indices: 49917602--49917814 Score: 309
Period size: 113 Copynumber: 1.9 Consensus size: 113
49917592 CTAAAGGCAG
49917602 GAGCATTAGCGGCGCTTTTCAAAAAACGCCGCAACAGGGACAAAAACGCAGAAACGACGTCGTTG
1 GAGCATTAGCGGCGCTTTTCAAAAAACGCCGCAACAGGGACAAAAACGCAGAAACGACGTCGTTG
*
49917667 GCCTTAGGTTTTTTGCGGCACTTTTTAGAAATCGTCATTAAGTCTCCC
66 GCCTTAGGTTTTTTGCGGCACTTTTCAGAAATCGTCATTAAGTCTCCC
* * * * ** * *
49917715 GAGCATTAGCGGCGTTTTTCTAAAAACGCTGCTACAGGTCCAAAAACTCAGTAAACGGCGTCGTT
1 GAGCATTAGCGGCGCTTTTCAAAAAACGCCGCAACAGGGACAAAAACGCAG-AAACGACGTCGTT
* * *
49917780 GGCCTTATGTTTTTTGCGGCGCTTTTCATAAATCG
65 GGCCTTAGGTTTTTTGCGGCACTTTTCAGAAATCG
49917815 CCGCTAATGC
Statistics
Matches: 87, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
113 44 0.51
114 43 0.49
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (113 bp):
GAGCATTAGCGGCGCTTTTCAAAAAACGCCGCAACAGGGACAAAAACGCAGAAACGACGTCGTTG
GCCTTAGGTTTTTTGCGGCACTTTTCAGAAATCGTCATTAAGTCTCCC
Found at i:49917883 original size:40 final size:39
Alignment explanation
Indices: 49917795--49917922 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 39
49917785 TATGTTTTTT
49917795 GCGGCGCTTTTCATAAAT-CGCCGCTAATGCTTATTATTA
1 GCGGCG-TTTTCATAAATGCGCCGCTAATGCTTATTATTA
* *
49917834 GCGGCGTTTTCCTAAATGCGCCGCTAATTCTTGATCT-TTA
1 GCGGCGTTTTCATAAATGCGCCGCTAATGCTT-AT-TATTA
* ** * * *
49917874 GCGGTGTTTTTGTATATGCGCCGCTAGTG-TTCGATTTTTA
1 GCGGCGTTTTCATAAATGCGCCGCTAATGCTT--ATTATTA
49917914 GCGGCGTTT
1 GCGGCGTTT
49917923 GTTGTCCAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
38 10 0.13
39 22 0.29
40 42 0.56
41 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.39
Consensus pattern (39 bp):
GCGGCGTTTTCATAAATGCGCCGCTAATGCTTATTATTA
Found at i:49921650 original size:21 final size:21
Alignment explanation
Indices: 49921624--49921668 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
49921614 GTCGAGTCGT
**
49921624 AAAATTATTTAAGTTAAATTA
1 AAAATTAAATAAGTTAAATTA
*
49921645 AAAATTAAATATGTTAAATTA
1 AAAATTAAATAAGTTAAATTA
49921666 AAA
1 AAA
49921669 TTTTGTTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
AAAATTAAATAAGTTAAATTA
Found at i:49924431 original size:13 final size:14
Alignment explanation
Indices: 49924397--49924428 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
49924387 AGTAAGTTAG
*
49924397 TTTTTCAAAAATCA
1 TTTTTCAAAAACCA
49924411 TTTTTCAAAAACCA
1 TTTTTCAAAAACCA
49924425 TTTT
1 TTTT
49924429 CAATGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTTTCAAAAACCA
Found at i:49937248 original size:21 final size:21
Alignment explanation
Indices: 49937207--49937249 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49937197 TTCATTGCAT
* *
49937207 AATCAAATAACAATTATGCTC
1 AATCAAATAACAATAAAGCTC
*
49937228 AATCAAATAGCAATAAAGCTC
1 AATCAAATAACAATAAAGCTC
49937249 A
1 A
49937250 CTCTCTCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.19, G:0.07, T:0.23
Consensus pattern (21 bp):
AATCAAATAACAATAAAGCTC
Found at i:49949696 original size:38 final size:38
Alignment explanation
Indices: 49949645--49949721 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
49949635 GTACATTACA
*
49949645 TAGTCTATTTTAGGGATTGATGACTTACTTATTCCGTG
1 TAGTCCATTTTAGGGATTGATGACTTACTTATTCCGTG
49949683 TAGTCCATTTTAGGGATTGATGACTTACTTATTCCGTG
1 TAGTCCATTTTAGGGATTGATGACTTACTTATTCCGTG
49949721 T
1 T
49949722 CTTTAGAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (38 bp):
TAGTCCATTTTAGGGATTGATGACTTACTTATTCCGTG
Found at i:49952011 original size:25 final size:25
Alignment explanation
Indices: 49951983--49952062 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
49951973 AGCTGTGAAC
*
49951983 CGGTATGCTCAT-TTGAGCTA-AAGAT
1 CGGTATGCTC-TCATGAGCTATAA-AT
49952008 CGGTATGCTCTCATGAGCTATAAAT
1 CGGTATGCTCTCATGAGCTATAAAT
* * *
49952033 CAGTATGCTCTCATAAGCCATAAAT
1 CGGTATGCTCTCATGAGCTATAAAT
49952058 CGGTA
1 CGGTA
49952063 ATCCTAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.02
25 45 0.94
26 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (25 bp):
CGGTATGCTCTCATGAGCTATAAAT
Found at i:49956013 original size:16 final size:16
Alignment explanation
Indices: 49955992--49956026 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
49955982 TTGTGTTTTG
*
49955992 TTTTGATTGCATGGCA
1 TTTTGACTGCATGGCA
*
49956008 TTTTGACTGCATGGTA
1 TTTTGACTGCATGGCA
49956024 TTT
1 TTT
49956027 CATCATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.11, G:0.23, T:0.49
Consensus pattern (16 bp):
TTTTGACTGCATGGCA
Found at i:49956527 original size:19 final size:20
Alignment explanation
Indices: 49956484--49956528 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
49956474 CGTCTCTTTT
* *
49956484 TGCA-TACATTTCATACATT
1 TGCATTACATTACATACATA
49956503 TGCATTACATTACAT-CATA
1 TGCATTACATTACATACATA
49956522 TGCATTA
1 TGCATTA
49956529 AAGTCCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (20 bp):
TGCATTACATTACATACATA
Found at i:49959617 original size:11 final size:11
Alignment explanation
Indices: 49959603--49959641 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
49959593 AAATGATGAG
49959603 AAAAGAAAAGA
1 AAAAGAAAAGA
*
49959614 AAAAGAGAAGGA
1 AAAAGA-AAAGA
49959626 AAAAGAAAAGA
1 AAAAGAAAAGA
49959637 AAAAG
1 AAAAG
49959642 GAGATGCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:49961989 original size:51 final size:51
Alignment explanation
Indices: 49961929--49962028 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 51
49961919 GACTGAAAGC
*
49961929 AGCGAATCTTATTTCCCTAGCATTGTAGTGGAACAGATTAAAGCTAAAGGT
1 AGCGAATCTTATTTCCCTAGCATTGCAGTGGAACAGATTAAAGCTAAAGGT
* *
49961980 AGCGAATCTTGTTTCCCTAGCATTGCAGTGGAATAGATTAAAGCTAAAG
1 AGCGAATCTTATTTCCCTAGCATTGCAGTGGAACAGATTAAAGCTAAAG
49962029 TGGAGTAGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (51 bp):
AGCGAATCTTATTTCCCTAGCATTGCAGTGGAACAGATTAAAGCTAAAGGT
Found at i:49963440 original size:27 final size:27
Alignment explanation
Indices: 49963410--49963587 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49963400 ATATTGAGTC
* * * *
49963410 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49963437 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49963464 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49963492 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49963519 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49963546 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49963573 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49963588 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49963549 original size:82 final size:81
Alignment explanation
Indices: 49963431--49963586 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49963421 TGCTATATAA
* *
49963431 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49963496 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49963513 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49963577 CACTTAGTGC
65 CACTTAGTGC
49963587 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49971470 original size:27 final size:27
Alignment explanation
Indices: 49971440--49971614 Score: 181
Period size: 27 Copynumber: 6.4 Consensus size: 27
49971430 ATATTGAGTC
* *
49971440 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
49971467 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
49971494 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
49971522 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
49971549 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
49971576 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
49971603 CGCACACTTAGT
1 CGCACACTTAGT
49971615 TCTGTACAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49971579 original size:82 final size:81
Alignment explanation
Indices: 49971461--49971614 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 81
49971451 TGCTATATAA
* *
49971461 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49971526 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49971543 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49971607 CACTTAGT
65 CACTTAGT
49971615 TCTGTACAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.22
82 51 0.78
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49971600 original size:54 final size:54
Alignment explanation
Indices: 49971440--49971614 Score: 201
Period size: 54 Copynumber: 3.2 Consensus size: 54
49971430 ATATTGAGTC
* * * *
49971440 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
49971494 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
49971549 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
49971603 CGCACACTTAGT
1 CGCACACTTAGT
49971615 TCTGTACAAT
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 55 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:49973400 original size:51 final size:51
Alignment explanation
Indices: 49973324--49973426 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
49973314 TATCTCCTTA
* *
49973324 GTGTTACAGTGGAACAAATTAAAGCTAAAGGTAGCGAATATTGTTTCCATG
1 GTGTTACAGTGGAACAAATTAAAGCTAAAGGCAGCGAATATTATTTCCATG
* * * *
49973375 GTGTTGCAGTGGAACAGATTAAAGCTAAAGGCAGTGAATCTTATTTCCATG
1 GTGTTACAGTGGAACAAATTAAAGCTAAAGGCAGCGAATATTATTTCCATG
49973426 G
1 G
49973427 CATTAAGACT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GTGTTACAGTGGAACAAATTAAAGCTAAAGGCAGCGAATATTATTTCCATG
Found at i:49973654 original size:51 final size:51
Alignment explanation
Indices: 49973550--49973688 Score: 143
Period size: 51 Copynumber: 2.7 Consensus size: 51
49973540 AAGTGGAGTG
* * * *
49973550 GATTAAAGCTGAAGGCAGCGAATCTTATCTCCTTGGCGTTACAGTGGAACA
1 GATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTGGCATTACAGCGGAACA
* * * ** *
49973601 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTTTAGCGGAGCA
1 GATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTGGCATTACAGCGGAACA
* * * * *
49973652 GATTAGAGCTGAACGCAGTGAATCTTATCTCTCTGGC
1 GATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTGGC
49973689 GTTAAGGTTG
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (51 bp):
GATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTGGCATTACAGCGGAACA
Found at i:49973655 original size:123 final size:128
Alignment explanation
Indices: 49973424--49973802 Score: 365
Period size: 138 Copynumber: 2.9 Consensus size: 128
49973414 CTTATTTCCA
* * *
49973424 TGGCATT-AAGACTGAAGGCAGCGAATCTTATTTCCCTGGCATTGTAGTGGAACAGATTAAAGGT
1 TGGCATTAAAG-CTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGTAGTGGAACAGATTAAAGCT
* * * * *
49973488 AAAGGTAGCAAATTTTGTTTCCCTAGCGTTGCAATGGAAAAGATTAAAGCTG-A-AGTG-GA-G
65 AAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAACGGAAAAGATTAAAGCTGAACAGTGAGATC
* **
49973548 TGG-ATTAAAGCTGAAGGCAGCGAATCTTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTA
1 TGGCATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGTAGTGGAACAGATTAAAGCTA
* ** * ** *
49973612 AAGGTAGCGAATCTTGTTTCCCTGGCATTTTAGCGGAGCAGATTAGAGCTGAACGCAGTGAATCT
66 AAGGTAGCGAATCTTGTTTCCCTAGCATTGCAACGGAAAAGATTAAAGCTGAA--CAGTG-A---
*
49973677 TATCTCTC
125 GA----TC
* * * *
49973685 TGGCGTTAAGGTTGAAGGCAGCGAATGTTATTTCCTTGGCGTTGTAGTGGAACAGATTAAAGCTA
1 TGGCATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGTAGTGGAACAGATTAAAGCTA
* ** * *
49973750 AAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGTTGAA
66 AAGGTAGCGAATCTTGTTTCCCTAGCATTGCAACGGAAAAGATTAAAGCTGAA
49973803 GTGGAACAGA
Statistics
Matches: 204, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
123 91 0.45
124 7 0.03
127 4 0.02
132 1 0.00
137 3 0.01
138 98 0.48
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (128 bp):
TGGCATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGTAGTGGAACAGATTAAAGCTA
AAGGTAGCGAATCTTGTTTCCCTAGCATTGCAACGGAAAAGATTAAAGCTGAACAGTGAGATC
Found at i:49973772 original size:261 final size:261
Alignment explanation
Indices: 49973308--49973807 Score: 741
Period size: 261 Copynumber: 1.9 Consensus size: 261
49973298 GGTTGTCACA
*
49973308 GAATCTTATCTCCTTAGTGTTACAGTGGAACAAATTAAAGCTAAAGGTAGCGAATATTGTTTCCA
1 GAATCTTATCTCCTTAGCGTTACAGTGGAACAAATTAAAGCTAAAGGTAGCGAATATTGTTTCCA
** * * *
49973373 TGGTGTTGCAGTGGAACAGATTAAAGCTAAAGGCAGTGAATCTTATTTCCATGGCATTAAGACTG
66 TGGCATTGCAGCGGAACAGATTAAAGCTAAACGCAGTGAATCTTATCTCCATGGCATTAAGACTG
* *
49973438 AAGGCAGCGAATCTTATTTCCCTGGCATTGTAGTGGAACAGATTAAAGGTAAAGGTAGCAAATTT
131 AAGGCAGCGAATCTTATTTCCCTGGCATTGTAGTGGAACAGATTAAAGCTAAAGGTAGCAAATCT
49973503 TGTTTCCCTAGCGTTGCAATGGAAAAGATTAAAGCTGAAGTGGAGTGGATTAAAGCTGAAGGCAG
196 TGTTTCCCTAGCGTTGCAATGGAAAAGATTAAAGCTGAAGTGGAGTGGATTAAAGCTGAAGGCAG
49973568 C
261 C
* * * *
49973569 GAATCTTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
1 GAATCTTATCTCCTTAGCGTTACAGTGGAACAAATTAAAGCTAAAGGTAGCGAATATTGTTTCCA
** * * * * **
49973634 TGGCATTTTAGCGGAGCAGATTAGAGCTGAACGCAGTGAATCTTATCTCTC-TGGCGTTAAGGTT
66 TGGCATTGCAGCGGAACAGATTAAAGCTAAACGCAGTGAATCTTATCTC-CATGGCATTAAGACT
* * * *
49973698 GAAGGCAGCGAATGTTATTTCCTTGGCGTTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATC
130 GAAGGCAGCGAATCTTATTTCCCTGGCATTGTAGTGGAACAGATTAAAGCTAAAGGTAGCAAATC
* * *
49973763 TTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGTTGAAGTGGA
195 TTGTTTCCCTAGCGTTGCAATGGAAAAGATTAAAGCTGAAGTGGA
49973808 ACAGATTAAA
Statistics
Matches: 211, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
261 210 1.00
262 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (261 bp):
GAATCTTATCTCCTTAGCGTTACAGTGGAACAAATTAAAGCTAAAGGTAGCGAATATTGTTTCCA
TGGCATTGCAGCGGAACAGATTAAAGCTAAACGCAGTGAATCTTATCTCCATGGCATTAAGACTG
AAGGCAGCGAATCTTATTTCCCTGGCATTGTAGTGGAACAGATTAAAGCTAAAGGTAGCAAATCT
TGTTTCCCTAGCGTTGCAATGGAAAAGATTAAAGCTGAAGTGGAGTGGATTAAAGCTGAAGGCAG
C
Found at i:49973785 original size:51 final size:51
Alignment explanation
Indices: 49973699--49973797 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
49973689 GTTAAGGTTG
* * * *
49973699 AAGGCAGCGAATGTTATTTCCTTGGCGTTGTAGTGGAACAGATTAAAGCTA
1 AAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAGCTA
* * *
49973750 AAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAG
1 AAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAG
49973798 TTGAAGTGGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (51 bp):
AAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAGCTA
Found at i:49973805 original size:21 final size:21
Alignment explanation
Indices: 49973776--49973818 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
49973766 TTTCCCTAGC
* *
49973776 GTTGCAGTGGAATAGATTAAA
1 GTTGAAGTGGAACAGATTAAA
49973797 GTTGAAGTGGAACAGATTAAA
1 GTTGAAGTGGAACAGATTAAA
49973818 G
1 G
49973819 CTAAAGTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.26
Consensus pattern (21 bp):
GTTGAAGTGGAACAGATTAAA
Found at i:49973825 original size:21 final size:21
Alignment explanation
Indices: 49973781--49973834 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
49973771 CTAGCGTTGC
* * *
49973781 AGTGGAATAGATTAAAGTTGA
1 AGTGGAACAGATTAAAGCTAA
49973802 AGTGGAACAGATTAAAGCTAA
1 AGTGGAACAGATTAAAGCTAA
* *
49973823 AGTAGAGCAGAT
1 AGTGGAACAGAT
49973835 CATGGCAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.06, G:0.28, T:0.22
Consensus pattern (21 bp):
AGTGGAACAGATTAAAGCTAA
Found at i:49974043 original size:51 final size:51
Alignment explanation
Indices: 49973962--49974062 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 51
49973952 TGGAGCAGAT
*
49973962 TGAAGATAGCGAATCTTATTCCCTTAGCGTTGCAGTGGAACAGATTAAAGA
1 TGAAGATAGCAAATCTTATTCCCTTAGCGTTGCAGTGGAACAGATTAAAGA
* *
49974013 TGAAGGTAGCAAATCTTATTTCCC-TGGCGTTGCAGTGGAACAGATTAAAG
1 TGAAGATAGCAAATCTTA-TTCCCTTAGCGTTGCAGTGGAACAGATTAAAG
49974063 CTACAAATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 41 0.89
52 5 0.11
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (51 bp):
TGAAGATAGCAAATCTTATTCCCTTAGCGTTGCAGTGGAACAGATTAAAGA
Found at i:49975929 original size:25 final size:25
Alignment explanation
Indices: 49975827--49975960 Score: 93
Period size: 23 Copynumber: 5.6 Consensus size: 25
49975817 AAGCTTAATA
* * *
49975827 TATTTTTAAACTTATCAT-CAATAT
1 TATTTTTAAATTTATCATGTATTAT
* *
49975851 TA-TTTT-AATTTATAATATATTAT
1 TATTTTTAAATTTATCATGTATTAT
* * * **
49975874 TA-TTTTAAATCTATGAT-AAACA-
1 TATTTTTAAATTTATCATGTATTAT
49975896 TATTTTTAAATTTATCATGTATT-T
1 TATTTTTAAATTTATCATGTATTAT
* *
49975920 TTTTATTTAAATTCATCATGTATTAT
1 TATT-TTTAAATTTATCATGTATTAT
*
49975946 TATTTTAAAATTTAT
1 TATTTTTAAATTTAT
49975961 TGTCTATGAT
Statistics
Matches: 84, Mismatches: 19, Indels: 13
0.72 0.16 0.11
Matches are distributed among these distances:
22 10 0.12
23 29 0.35
24 14 0.17
25 27 0.32
26 4 0.05
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (25 bp):
TATTTTTAAATTTATCATGTATTAT
Found at i:49976250 original size:24 final size:24
Alignment explanation
Indices: 49976219--49976266 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
49976209 GTTTAAATTC
*
49976219 TCTTTTAAATATGTTTATATATAT
1 TCTTTTAAATATATTTATATATAT
49976243 TCTTTTAAATATATTTATATATAT
1 TCTTTTAAATATATTTATATATAT
49976267 AATTTATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (24 bp):
TCTTTTAAATATATTTATATATAT
Found at i:49988270 original size:26 final size:26
Alignment explanation
Indices: 49988231--49988291 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
49988221 CTGACAGAAG
**
49988231 AAAA-TAAAAGAAAAATTAGA-AAATA
1 AAAATTAAAAGAAAAACAAGATAAA-A
*
49988256 AAAATTAAAATAAAAACAAGATAAAA
1 AAAATTAAAAGAAAAACAAGATAAAA
49988282 AAAATTAAAA
1 AAAATTAAAA
49988292 AAATGGCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.13
26 24 0.77
27 3 0.10
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (26 bp):
AAAATTAAAAGAAAAACAAGATAAAA
Found at i:50006675 original size:44 final size:44
Alignment explanation
Indices: 50006612--50006701 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
50006602 AAATTTTGAA
*
50006612 AATTTTATGGTAGAAAGGTATTTAAGTCTAGTTTCAAATACATC
1 AATTTTATGGTAGAAAGGTAATTAAGTCTAGTTTCAAATACATC
*
50006656 AATTTTATGGTAGAAAGGTAATTGAGTCTAGTTTCAAATACATC
1 AATTTTATGGTAGAAAGGTAATTAAGTCTAGTTTCAAATACATC
50006700 AA
1 AA
50006702 GTGGACTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.37
Consensus pattern (44 bp):
AATTTTATGGTAGAAAGGTAATTAAGTCTAGTTTCAAATACATC
Found at i:50013692 original size:29 final size:29
Alignment explanation
Indices: 50013638--50013693 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
50013628 AACTTTGTTA
*
50013638 AAAGCATTTGTGGTTGTTTCTATTAAATT
1 AAAGCATTTGTGGTTGTTTATATTAAATT
* *
50013667 AAAGCCTTTGTGGTTGTTTATGTTAAA
1 AAAGCATTTGTGGTTGTTTATATTAAA
50013694 AGGATGTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.46
Consensus pattern (29 bp):
AAAGCATTTGTGGTTGTTTATATTAAATT
Found at i:50026522 original size:13 final size:13
Alignment explanation
Indices: 50026504--50026528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50026494 TTGACAGAAT
50026504 TTTAAAAAAATTC
1 TTTAAAAAAATTC
50026517 TTTAAAAAAATT
1 TTTAAAAAAATT
50026529 TCAAATTTTT
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTAAAAAAATTC
Found at i:50030851 original size:12 final size:12
Alignment explanation
Indices: 50030834--50030858 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50030824 AGTTACCATG
50030834 ATTCACTTTGAA
1 ATTCACTTTGAA
50030846 ATTCACTTTGAA
1 ATTCACTTTGAA
50030858 A
1 A
50030859 ATCTAGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTCACTTTGAA
Found at i:50031761 original size:21 final size:21
Alignment explanation
Indices: 50031737--50031788 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
50031727 CAAATAACAT
50031737 ATCATACTTAAAATAATACAG
1 ATCATACTTAAAATAATACAG
* ** *
50031758 ATCATAGTTACCATAATATAG
1 ATCATACTTAAAATAATACAG
50031779 ATCATACTTA
1 ATCATACTTA
50031789 GCTTATAACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (21 bp):
ATCATACTTAAAATAATACAG
Found at i:50037058 original size:40 final size:40
Alignment explanation
Indices: 50036998--50037192 Score: 284
Period size: 40 Copynumber: 4.9 Consensus size: 40
50036988 GTTAATTTTA
* *
50036998 CCTGATTGTACATACGTGCCCCTATTTGAACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGAACTTCGGTACC
* *
50037038 CCTGATTGCACATACATGCCCCTGTTTGAACTTCGGTACT
1 CCTGATTGCACATACGTGCCCCTGTTTGAACTTCGGTACC
* *
50037078 CCTGATTGCACATACGTGCCTCTGTTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGAACTTCGGTACC
* * **
50037118 CCTGATTGCACATACGTGCCCCTGTTTGTATTTTAGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGAACTTCGGTACC
50037158 CCTGATTGCACATACGTGCCCCTGTTT-ATACTTCG
1 CCTGATTGCACATACGTGCCCCTGTTTGA-ACTTCG
50037193 ATAATTTCAA
Statistics
Matches: 138, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.34
Consensus pattern (40 bp):
CCTGATTGCACATACGTGCCCCTGTTTGAACTTCGGTACC
Found at i:50037059 original size:20 final size:20
Alignment explanation
Indices: 50036998--50037181 Score: 108
Period size: 20 Copynumber: 9.2 Consensus size: 20
50036988 GTTAATTTTA
*
50036998 CCTGATTGTACATACGTGCC
1 CCTGATTGCACATACGTGCC
* * *
50037018 CCT-ATTTGAAC-TTCGGTACC
1 CCTGA-TTGCACATAC-GTGCC
*
50037038 CCTGATTGCACATACATGCC
1 CCTGATTGCACATACGTGCC
* * * * *
50037058 CCTGTTTGAAC-TTCGGTACT
1 CCTGATTGCACATAC-GTGCC
50037078 CCTGATTGCACATACGTGCC
1 CCTGATTGCACATACGTGCC
* * * * *
50037098 TCTGTTTGTAC-TTCGGTACC
1 CCTGATTGCACATAC-GTGCC
50037118 CCTGATTGCACATACGTGCC
1 CCTGATTGCACATACGTGCC
* * ** *
50037138 CCTGTTTGTATTTTA-GTACC
1 CCTGATTGCA-CATACGTGCC
50037158 CCTGATTGCACATACGTGCC
1 CCTGATTGCACATACGTGCC
50037178 CCTG
1 CCTG
50037182 TTTATACTTC
Statistics
Matches: 116, Mismatches: 38, Indels: 20
0.67 0.22 0.11
Matches are distributed among these distances:
19 9 0.08
20 98 0.84
21 9 0.08
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.33
Consensus pattern (20 bp):
CCTGATTGCACATACGTGCC
Found at i:50045479 original size:21 final size:21
Alignment explanation
Indices: 50045423--50045508 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
50045413 TTTATATACC
* * *
50045423 TAATTCAGACCATACTTAGCA
1 TAATACAGATCATACTTAACA
* *
50045444 -AATAACATATTATACTTAACA
1 TAAT-ACAGATCATACTTAACA
**
50045465 TAATATGGATCATACTTAACA
1 TAATACAGATCATACTTAACA
* *
50045486 TAATACAGATCATTCTTAGCA
1 TAATACAGATCATACTTAACA
50045507 TA
1 TA
50045509 TAACTTATTA
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 3 0.06
21 44 0.88
22 3 0.06
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (21 bp):
TAATACAGATCATACTTAACA
Found at i:50050185 original size:27 final size:27
Alignment explanation
Indices: 50050149--50050202 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
50050139 TTATTATTGA
50050149 ATTAAAGATTAATTTTATAGTTTACTT
1 ATTAAAGATTAATTTTATAGTTTACTT
* *
50050176 ATTAATGATTAATTTTGTAGTTTACTT
1 ATTAAAGATTAATTTTATAGTTTACTT
50050203 TCATAACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (27 bp):
ATTAAAGATTAATTTTATAGTTTACTT
Found at i:50054174 original size:22 final size:22
Alignment explanation
Indices: 50054130--50054198 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
50054120 TATGCACTAT
* *
50054130 TAAACAGAGAGCATTAAA-GTGC
1 TAAACAGAGAGCA-CAAATATGC
*
50054152 TATACAGAGAGCACAAATATGC
1 TAAACAGAGAGCACAAATATGC
* * *
50054174 TAAACGGAGAGCACTAATGTGC
1 TAAACAGAGAGCACAAATATGC
50054196 TAA
1 TAA
50054199 TAATCAGAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 3 0.08
22 36 0.92
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (22 bp):
TAAACAGAGAGCACAAATATGC
Found at i:50056196 original size:27 final size:27
Alignment explanation
Indices: 50056158--50056213 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
50056148 GCGACATTTC
50056158 TTGTCTTGTTTCCTTGATGCTACCAAA
1 TTGTCTTGTTTCCTTGATGCTACCAAA
50056185 TTGTCTTGTTTCCTTGATGCTACCAAA
1 TTGTCTTGTTTCCTTGATGCTACCAAA
50056212 TT
1 TT
50056214 CAAGGTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.46
Consensus pattern (27 bp):
TTGTCTTGTTTCCTTGATGCTACCAAA
Found at i:50061125 original size:27 final size:27
Alignment explanation
Indices: 50061095--50061190 Score: 77
Period size: 27 Copynumber: 3.6 Consensus size: 27
50061085 GCCTGATCAA
*
50061095 GCCAATCACATTGGCGACACCAAAGGT
1 GCCAAACACATTGGCGACACCAAAGGT
*** *
50061122 GCCAAAGTGATTGGCGGCACCAAAGGT
1 GCCAAACACATTGGCGACACCAAAGGT
*** *
50061149 GCCAAAGTGATTGGCCTA-ACCAAAGGT
1 GCCAAACACATTGG-CGACACCAAAGGT
* *
50061176 GCCAAAGAGATTGGC
1 GCCAAACACATTGGC
50061191 CTGACCGGAC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.02
27 58 0.97
28 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.28, T:0.16
Consensus pattern (27 bp):
GCCAAACACATTGGCGACACCAAAGGT
Found at i:50061191 original size:27 final size:27
Alignment explanation
Indices: 50061113--50061192 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
50061103 CATTGGCGAC
***
50061113 ACCAAAGGTGCCAAAGTGATTGGCGGC
1 ACCAAAGGTGCCAAAGTGATTGGCCTA
50061140 ACCAAAGGTGCCAAAGTGATTGGCCTA
1 ACCAAAGGTGCCAAAGTGATTGGCCTA
*
50061167 ACCAAAGGTGCCAAAGAGATTGGCCT
1 ACCAAAGGTGCCAAAGTGATTGGCCT
50061193 GACCGGACTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.33, C:0.23, G:0.29, T:0.16
Consensus pattern (27 bp):
ACCAAAGGTGCCAAAGTGATTGGCCTA
Found at i:50061890 original size:19 final size:19
Alignment explanation
Indices: 50061866--50061928 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
50061856 TCTAATTAAG
50061866 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
* * ** ***
50061885 TAATAAGTTTATTAAAAAG
1 TAATAACTCTATTTTACTT
50061904 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
50061923 TAATAA
1 TAATAA
50061929 ACTATTGCTT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATAACTCTATTTTACTT
Found at i:50061992 original size:18 final size:17
Alignment explanation
Indices: 50061963--50061997 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
50061953 GTAATGTTTC
*
50061963 AAAAAATGTTTTTAGGA
1 AAAAAATGTTTTAAGGA
50061980 AAAAAATGTTTTTAAGGA
1 AAAAAATG-TTTTAAGGA
50061998 GAAGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
AAAAAATGTTTTAAGGA
Found at i:50062382 original size:27 final size:27
Alignment explanation
Indices: 50062352--50062408 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
50062342 ATTTTAGTCC
50062352 GGTCAGGCCAATCTA-TTTGGCACCTTT
1 GGTCAGGCCAATC-ACTTTGGCACCTTT
50062379 GGTCAGGCCAATCACTTTGGCACCTTT
1 GGTCAGGCCAATCACTTTGGCACCTTT
50062406 GGT
1 GGT
50062409 GCCGCCAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.32
Consensus pattern (27 bp):
GGTCAGGCCAATCACTTTGGCACCTTT
Found at i:50062415 original size:27 final size:27
Alignment explanation
Indices: 50062352--50062417 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
50062342 ATTTTAGTCC
*
50062352 GGTCAGGCCAATCTATTTGGCACCTTT
1 GGTCACGCCAATCTATTTGGCACCTTT
*
50062379 GGTCAGGCCAATC-ACTTTGGCACCTTT
1 GGTCACGCCAATCTA-TTTGGCACCTTT
50062406 GGTGC-CGCCAAT
1 GGT-CACGCCAAT
50062418 GTGATTGGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 1 0.03
27 34 0.94
28 1 0.03
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (27 bp):
GGTCACGCCAATCTATTTGGCACCTTT
Found at i:50062513 original size:28 final size:28
Alignment explanation
Indices: 50062473--50062530 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
50062463 TTATTTTTTT
**
50062473 ATTTTGATATATTTTGGTAAATAAAAAA
1 ATTTTGATATATTTTAATAAATAAAAAA
50062501 ATTTT-ATAATATTTTAATAAATAAAAAA
1 ATTTTGAT-ATATTTTAATAAATAAAAAA
50062529 AT
1 AT
50062531 AACATTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (28 bp):
ATTTTGATATATTTTAATAAATAAAAAA
Found at i:50063152 original size:7 final size:7
Alignment explanation
Indices: 50063140--50063167 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
50063130 TAAAATAATT
50063140 ATCTATA
1 ATCTATA
50063147 ATCTATA
1 ATCTATA
50063154 ATCTATA
1 ATCTATA
50063161 ATCTATA
1 ATCTATA
50063168 TAAAAACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (7 bp):
ATCTATA
Found at i:50063278 original size:41 final size:40
Alignment explanation
Indices: 50063234--50063320 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
50063224 TTAAAAATAA
50063234 AAAAATTA-AAGTAAAATAAAATTTATGATAATTATACATT
1 AAAAATTATAA-TAAAATAAAATTTATGATAATTATACATT
** * * *
50063274 AAAAATTATAATTTAATAGAATTTGTGATAATTATATATTT
1 AAAAATTATAATAAAATAAAATTTATGATAATTATACA-TT
50063315 AAAAAT
1 AAAAAT
50063321 AATTATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 30 0.75
41 10 0.25
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (40 bp):
AAAAATTATAATAAAATAAAATTTATGATAATTATACATT
Found at i:50063297 original size:40 final size:43
Alignment explanation
Indices: 50063248--50063334 Score: 117
Period size: 40 Copynumber: 2.1 Consensus size: 43
50063238 ATTAAAGTAA
50063248 AATAAAATTTATGATAATTATACA-TT-AAA-AATTATAATTT
1 AATAAAATTTATGATAATTATACATTTAAAATAATTATAATTT
* * *
50063288 AATAGAATTTGTGATAATTATATATTTAAAAATAATTATAATTT
1 AATAAAATTTATGATAATTATACATTT-AAAATAATTATAATTT
50063332 AAT
1 AAT
50063335 TTATAATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
40 21 0.52
41 2 0.05
43 3 0.08
44 14 0.35
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.44
Consensus pattern (43 bp):
AATAAAATTTATGATAATTATACATTTAAAATAATTATAATTT
Found at i:50063324 original size:18 final size:18
Alignment explanation
Indices: 50063301--50063355 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
50063291 AGAATTTGTG
50063301 ATAATTATATATTTAAAA
1 ATAATTATATATTTAAAA
**
50063319 ATAATTATA-ATTTAATTT
1 ATAATTATATATTTAA-AA
*
50063337 ATAATTAT-TAGTTAAAA
1 ATAATTATATATTTAAAA
50063354 AT
1 AT
50063356 TGTGCTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATAATTATATATTTAAAA
Found at i:50063436 original size:6 final size:6
Alignment explanation
Indices: 50063425--50063482 Score: 116
Period size: 6 Copynumber: 9.7 Consensus size: 6
50063415 AAAGGATATG
50063425 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
50063473 ATAATT ATAA
1 ATAATT ATAA
50063483 GTTAATTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:50069158 original size:15 final size:16
Alignment explanation
Indices: 50069123--50069164 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
50069113 AAAAAATATA
50069123 TATTTTATTTTAAATT
1 TATTTTATTTTAAATT
*
50069139 AATTTTATTTT-AATT
1 TATTTTATTTTAAATT
*
50069154 TATTTTCTTTT
1 TATTTTATTTT
50069165 CCCGAATCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTTATTTTAAATT
Found at i:50074799 original size:3 final size:3
Alignment explanation
Indices: 50074769--50074833 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
50074759 ATAAAAAATT
* * * * *
50074769 ATA ATA TTA ATA ATA TTA ACA ACTTA ATA ATT ATA TTA ATTA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA A-TA ATA ATA
50074816 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
50074834 TTTTCTTACC
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.04
3 41 0.85
4 3 0.06
5 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:50075119 original size:19 final size:19
Alignment explanation
Indices: 50075095--50075139 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
50075085 AGGTCTATAT
*
50075095 AAAAAAAT-AACCGTTTGAA
1 AAAAAAATGAACC-ATTGAA
*
50075114 AAAAAAATGAATCATTGAA
1 AAAAAAATGAACCATTGAA
50075133 AAAAAAA
1 AAAAAAA
50075140 GGTGACGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.67, C:0.07, G:0.09, T:0.18
Consensus pattern (19 bp):
AAAAAAATGAACCATTGAA
Found at i:50077170 original size:29 final size:30
Alignment explanation
Indices: 50077115--50077181 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 30
50077105 ATCCCAAAAT
50077115 TATACATGAACTTTGATTTAATATGCAATTA
1 TATACATGAACTTTGATTT-ATATGCAATTA
* *
50077146 TATACATGAACTTTGATTT-TGTGCAATTT
1 TATACATGAACTTTGATTTATATGCAATTA
50077175 TATACAT
1 TATACAT
50077182 AAAAGTTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 15 0.44
31 19 0.56
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATATGCAATTA
Found at i:50077195 original size:29 final size:30
Alignment explanation
Indices: 50077114--50077209 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 30
50077104 TATCCCAAAA
*
50077114 TTATACATGAACTTTGATTTAAT-ATGCAATT
1 TTATACATAAACTTTGATTT--TGATGCAATT
* *
50077145 ATATACATGAACTTTGATTTTG-TGCAATT
1 TTATACATAAACTTTGATTTTGATGCAATT
* *
50077174 TTATACATAAAAGTTTGA-TTTGATCCAATT
1 TTATACAT-AAACTTTGATTTTGATGCAATT
50077204 CTTATA
1 -TTATA
50077210 AATTATTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
29 19 0.34
30 13 0.23
31 24 0.43
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (30 bp):
TTATACATAAACTTTGATTTTGATGCAATT
Found at i:50078081 original size:18 final size:18
Alignment explanation
Indices: 50078050--50078084 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50078040 AAAAATTAAT
* *
50078050 AAAAATATTTAAAAAACA
1 AAAAAAATTAAAAAAACA
50078068 AAAAAAATTAAAAAAAC
1 AAAAAAATTAAAAAAAC
50078085 CTTCATACAA
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:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAAAATTAAAAAAACA
Found at i:50078436 original size:20 final size:20
Alignment explanation
Indices: 50078401--50078455 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
50078391 TAAATTGTTG
*
50078401 AATATC-ATTAAAATA-TATT
1 AATATCAATTCAAATATTA-T
50078420 AATATCAATTCAAATATTAT
1 AATATCAATTCAAATATTAT
*
50078440 AATAGACAATTCAAAT
1 AATA-TCAATTCAAAT
50078456 CATAATCTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.19
20 13 0.42
21 12 0.39
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (20 bp):
AATATCAATTCAAATATTAT
Found at i:50079760 original size:9 final size:9
Alignment explanation
Indices: 50079743--50079779 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
50079733 TGAGTTTTCG
50079743 AATTCGAAT
1 AATTCGAAT
*
50079752 AACTCGAAT
1 AATTCGAAT
*
50079761 AATTTGAAT
1 AATTCGAAT
50079770 AATTCGAAT
1 AATTCGAAT
50079779 A
1 A
50079780 TCAAGCTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50080042 original size:30 final size:30
Alignment explanation
Indices: 50079990--50080047 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
50079980 AAACCTTTTA
50079990 TTTCCCCCAAAATTTTACTCCC-TCCCACT
1 TTTCCCCCAAAATTTTACTCCCTTCCCACT
* *
50080019 TTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTCCCCCAAAA-TTTTACTCCCTTCCCA
50080048 TTCCACCTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.44
30 9 0.36
31 5 0.20
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (30 bp):
TTTCCCCCAAAATTTTACTCCCTTCCCACT
Found at i:50085231 original size:11 final size:11
Alignment explanation
Indices: 50085215--50085261 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
50085205 AATTGCATAT
50085215 ATATAATGTTC
1 ATATAATGTTC
50085226 ATATAATGTTC
1 ATATAATGTTC
* *
50085237 ATAAACAT-ATC
1 ATATA-ATGTTC
50085248 ATATAATGTTC
1 ATATAATGTTC
50085259 ATA
1 ATA
50085262 ATTAACAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 2 0.07
11 26 0.87
12 2 0.07
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (11 bp):
ATATAATGTTC
Found at i:50085425 original size:45 final size:45
Alignment explanation
Indices: 50085354--50085571 Score: 242
Period size: 45 Copynumber: 4.8 Consensus size: 45
50085344 AATTGTTCAA
* * * * **
50085354 GATGCCATAGCGTCTTTCAGCCATGGTCTTATTTATTTCTAACAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCAT
* *
50085399 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGTCAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCAT
* * * * *
50085444 GTTGCCATAGTGTTTTTCAACTATAGTCTTATTCATTTCTCGTAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCAT
* * *
50085489 -AGTGCCATAGTGTCCTTCACCTATGGTCTTATTCATTTCTGGGAT
1 GA-TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCAT
* *
50085534 -AGTGCCATGGTGCCTTTCAACTATGGTCTTATTCATTT
1 GA-TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
50085572 TTCAAGCCAA
Statistics
Matches: 147, Mismatches: 25, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
45 147 1.00
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.43
Consensus pattern (45 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCAT
Found at i:50086753 original size:17 final size:17
Alignment explanation
Indices: 50086728--50086771 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
50086718 AATTCGTTTG
* *
50086728 TTTATTTTTCTTTATTTC
1 TTTATTTTT-GTTATTTA
50086746 TTTATTTTTGTTATTTA
1 TTTATTTTTGTTATTTA
50086763 TTTATTTTT
1 TTTATTTTT
50086772 ATTCCCCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTATTTTTGTTATTTA
Found at i:50107791 original size:27 final size:28
Alignment explanation
Indices: 50107761--50107818 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
50107751 GCACCTCTAA
*
50107761 TGGAT-GGTTGGGCTTATTTCTCCCTAG
1 TGGATAGGTTGGGCTCATTTCTCCCTAG
* *
50107788 TGGATAGTTTGGGCTCATTTCTCCTTAG
1 TGGATAGGTTGGGCTCATTTCTCCCTAG
50107816 TGG
1 TGG
50107819 GCTATCTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.12, C:0.17, G:0.29, T:0.41
Consensus pattern (28 bp):
TGGATAGGTTGGGCTCATTTCTCCCTAG
Found at i:50111769 original size:96 final size:96
Alignment explanation
Indices: 50111605--50111796 Score: 330
Period size: 96 Copynumber: 2.0 Consensus size: 96
50111595 ACCCAACCAA
** * *
50111605 AAACCGAAAGGGACGACCTCTAGACAAGGTAACCTCTGGGAAAAGGGAGATGAGAAGTGGTCTAT
1 AAACCGAAAGGGACGACCTCTAGACAAGGTAACCTCCAGGAAAAGGGAGAGGAGAAGGGGTCTAT
50111670 GATCAGACTTGATCTTTGGAAGGTAAGTAAT
66 GATCAGACTTGATCTTTGGAAGGTAAGTAAT
*
50111701 AAACCGAAAGGGACGACCTCTAGACAAGGTAACCTCCAGGAAATGGGAGAGGAGAAGGGGTCTAT
1 AAACCGAAAGGGACGACCTCTAGACAAGGTAACCTCCAGGAAAAGGGAGAGGAGAAGGGGTCTAT
*
50111766 GATCAGACTTGATCTTTGGAAGGTGAGTAAT
66 GATCAGACTTGATCTTTGGAAGGTAAGTAAT
50111797 CGAACAAGTC
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (96 bp):
AAACCGAAAGGGACGACCTCTAGACAAGGTAACCTCCAGGAAAAGGGAGAGGAGAAGGGGTCTAT
GATCAGACTTGATCTTTGGAAGGTAAGTAAT
Found at i:50121374 original size:31 final size:29
Alignment explanation
Indices: 50121334--50121407 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
50121324 TTAATGGCTC
*
50121334 AGTGCCTAAAATGTTACAACACGTT-AACATA
1 AGTGACTAAAATGTT--AACA-GTTAAACATA
* *
50121365 AGTGACTAAAACG-TAACATTTGAAACATA
1 AGTGACTAAAATGTTAACAGTT-AAACATA
50121394 AGTGACTAAAATGT
1 AGTGACTAAAATGT
50121408 AACCTGAGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
27 2 0.06
28 4 0.11
29 18 0.50
30 1 0.03
31 11 0.31
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTTAACAGTTAAACATA
Found at i:50121647 original size:24 final size:24
Alignment explanation
Indices: 50121617--50121671 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
50121607 TTAATTTTCA
*
50121617 TAATATA-AATTCACCATAATTAGT
1 TAATATATAATT-ACCATAATTAAT
**
50121641 TAATATATAATTGTCATAATTAAT
1 TAATATATAATTACCATAATTAAT
50121665 TAATATA
1 TAATATA
50121672 GGCTAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (24 bp):
TAATATATAATTACCATAATTAAT
Found at i:50123540 original size:3 final size:3
Alignment explanation
Indices: 50123532--50123572 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
50123522 GTCATTTCAT
*
50123532 TTC TTC TTC TCC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
50123573 TTGCATTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:50126453 original size:45 final size:45
Alignment explanation
Indices: 50126363--50126455 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 45
50126353 GCTACATGTG
* * *
50126363 AAGAGGAGGATAAGTTTTTATGGCTGTCTTAGTTTGTGTTTGGTTT
1 AAGAGGAGGATAAGTTTCTATGCCTG-CTTAGTTTATGTTTGGTTT
50126409 AAGAGGAGGATAAGTTTCTATGACCTG-TTAGTTTATGTTTGGTTT
1 AAGAGGAGGATAAGTTTCTATG-CCTGCTTAGTTTATGTTTGGTTT
50126454 AA
1 AA
50126456 AAGAATTATG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
45 19 0.44
46 21 0.49
47 3 0.07
ACGTcount: A:0.24, C:0.05, G:0.28, T:0.43
Consensus pattern (45 bp):
AAGAGGAGGATAAGTTTCTATGCCTGCTTAGTTTATGTTTGGTTT
Found at i:50129379 original size:12 final size:12
Alignment explanation
Indices: 50129362--50129412 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
50129352 ACTTAATCAT
50129362 TTTAATATTAAA
1 TTTAATATTAAA
*
50129374 TTTAATCTAATAAA
1 TTTAA--TATTAAA
*
50129388 TATT-AGATTAAA
1 T-TTAATATTAAA
50129400 TTTAATATTAAA
1 TTTAATATTAAA
50129412 T
1 T
50129413 ATTATTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
11 2 0.06
12 19 0.61
14 8 0.26
15 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:50129389 original size:21 final size:21
Alignment explanation
Indices: 50129365--50129406 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50129355 TAATCATTTT
*
50129365 AATATTAAATTTAATCTAATA
1 AATATTAAATTAAATCTAATA
* *
50129386 AATATTAGATTAAATTTAATA
1 AATATTAAATTAAATCTAATA
50129407 TTAAATATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
AATATTAAATTAAATCTAATA
Found at i:50129927 original size:19 final size:19
Alignment explanation
Indices: 50129889--50129928 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50129879 AAAATATCAT
* *
50129889 ATTAATTTTAATTGATTTG
1 ATTAATTTAAATTGACTTG
*
50129908 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTGACTTG
50129927 AT
1 AT
50129929 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTGACTTG
Found at i:50138587 original size:188 final size:188
Alignment explanation
Indices: 50138219--50139160 Score: 1566
Period size: 187 Copynumber: 5.0 Consensus size: 188
50138209 ATTAGATACC
* * * * *
50138219 TTAAGCTCTTATGGTCTGAAAACACACGACACTTCTCCCTATAAAGGTAGTGTCTTTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
** ** * * *
50138284 AGTGCCAACACTACCGTTGC-AGCTTTAAGTCTTGAGTTGGATAATTCTTTTAATGTGGCTTGAG
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
* * ** *
50138348 CTAGCGAGATGTATAGGCCACAACCTTTTCTCTTTGAATAAGCACACACCCTAGCCCA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
*
50138406 TTAAGCTCTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
* *
50138471 AGCACCAACACTACCACTGAAAGCTTTATGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
* * *
50138536 CTGGCGAGATGTATACACCACAACCTTTTCTCTTTGCATAAGTATACACCCTAGCCCA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
*
50138594 TTAAGCTTTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
50138659 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
* *
50138724 CTGGTGAGATGCATACACCATAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
*
50138782 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCT-CACATAAAGGTAGTGTCTCTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
50138846 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
*
50138911 CTGGCGAGATGCATAAACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
* *
50138969 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCT-CCCATAAAAGTAGTGTCTCTAGATTTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
50139033 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
* * *
50139098 CTGGCGAGATGCATACACCACAACCTTTTCTTTTTGCATAAGCACACATCCTAACCCA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
50139156 TTAAG
1 TTAAG
50139161 GGATGCATTA
Statistics
Matches: 714, Mismatches: 40, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
187 408 0.57
188 306 0.43
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (188 bp):
TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
Found at i:50138909 original size:375 final size:376
Alignment explanation
Indices: 50138219--50139160 Score: 1566
Period size: 375 Copynumber: 2.5 Consensus size: 376
50138209 ATTAGATACC
* * * * *
50138219 TTAAGCTCTTATGGTCTGAAAACACACGACACTTCTCCCTATAAAGGTAGTGTCTTTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
** ** * * *
50138284 AGTGCCAACACTACCGTTGC-AGCTTTAAGTCTTGAGTTGGATAATTCTTTTAATGTGGCTTGAG
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
* * ** *
50138348 CTAGCGAGATGTATAGGCCACAACCTTTTCTCTTTGAATAAGCACACACCCTAGCCCATTAAGCT
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCATTAAGCT
*
50138413 CTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTTAGCACCA
196 CTTATGGTCTAAAAACACATGACACTTCTCCACATAAAGGTAGTGTCTCTAGATCTTTAGCACCA
*
50138478 ACACTACCACTGAAAGCTTTATGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGATCTGGCGA
261 ACACTACCACTGAAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGATCTGGCGA
* * * *
50138543 GATGTATACACCACAACCTTTTCTCTTTGCATAAGTATACACCCTAGCCCA
326 GATGCATAAACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
*
50138594 TTAAGCTTTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
50138659 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
* *
50138724 CTGGTGAGATGCATACACCATAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCATTAAGCT
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCATTAAGCT
*
50138789 CTTATGGTCTAAAAACACATGACCCTTCT-CACATAAAGGTAGTGTCTCTAGATCTTTAGCACCA
196 CTTATGGTCTAAAAACACATGACACTTCTCCACATAAAGGTAGTGTCTCTAGATCTTTAGCACCA
*
50138853 ACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGATCTGGCGA
261 ACACTACCACTGAAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGATCTGGCGA
50138918 GATGCATAAACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
326 GATGCATAAACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
* *
50138969 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCT-CCCATAAAAGTAGTGTCTCTAGATTTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
50139033 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
* * *
50139098 CTGGCGAGATGCATACACCACAACCTTTTCTTTTTGCATAAGCACACATCCTAACCCATTAAG
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCATTAAG
50139161 GGATGCATTA
Statistics
Matches: 530, Mismatches: 36, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
374 149 0.28
375 254 0.48
376 127 0.24
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (376 bp):
TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCATTAAGCT
CTTATGGTCTAAAAACACATGACACTTCTCCACATAAAGGTAGTGTCTCTAGATCTTTAGCACCA
ACACTACCACTGAAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGATCTGGCGA
GATGCATAAACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
Found at i:50148333 original size:20 final size:20
Alignment explanation
Indices: 50148294--50148332 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
50148284 TTTAATAAGG
50148294 TATCGATACCCAACATAAAA
1 TATCGATACCCAACATAAAA
*
50148314 TATCGATA-CCAACTTAAAA
1 TATCGATACCCAACATAAAA
50148333 ACTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (20 bp):
TATCGATACCCAACATAAAA
Found at i:50153005 original size:4 final size:4
Alignment explanation
Indices: 50152996--50153020 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
50152986 TAATGAAGAA
50152996 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
50153021 TACCCACCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:50158921 original size:9 final size:9
Alignment explanation
Indices: 50158907--50158940 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
50158897 CTTTTCAAAT
*
50158907 TCGAATAAC
1 TCGAATAAA
*
50158916 TCGAATAAT
1 TCGAATAAA
50158925 TCGAATAAA
1 TCGAATAAA
50158934 TCGAATA
1 TCGAATA
50158941 TTAAACAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:50158927 original size:18 final size:18
Alignment explanation
Indices: 50158904--50158940 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
50158894 TTGCTTTTCA
*
50158904 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
50158922 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
50158940 A
1 A
50158941 TTAAACAATA
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:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:50165057 original size:24 final size:23
Alignment explanation
Indices: 50165019--50165066 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
50165009 TTTTTTTGTA
50165019 ATTTTATTAAATTTTAAATATTT
1 ATTTTATTAAATTTTAAATATTT
* *
50165042 ATTTTTTTAAAGTTTTATATATTT
1 ATTTTATTAAA-TTTTAAATATTT
50165066 A
1 A
50165067 CCTGAACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTTTATTAAATTTTAAATATTT
Found at i:50170924 original size:15 final size:15
Alignment explanation
Indices: 50170904--50170941 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
50170894 ATTAAACTAG
50170904 TTTAATTAACTTAA-C
1 TTTAATTAA-TTAAGC
50170919 TTTAATTAATTAAGC
1 TTTAATTAATTAAGC
50170934 TTTAATTA
1 TTTAATTA
50170942 TCAATTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (15 bp):
TTTAATTAATTAAGC
Found at i:50181664 original size:6 final size:6
Alignment explanation
Indices: 50181655--50181679 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50181645 AATTTAAATA
50181655 TTATAT TTATAT TTATAT TTATAT T
1 TTATAT TTATAT TTATAT TTATAT T
50181680 AAATAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:50181690 original size:25 final size:25
Alignment explanation
Indices: 50181662--50181715 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
50181652 ATATTATATT
*
50181662 TATATTTATATT-TATATTAAATAAA
1 TATAATTATATTAT-TATTAAATAAA
*
50181687 TATAATTATATTATTATTAAGTAAA
1 TATAATTATATTATTATTAAATAAA
50181712 -ATAA
1 TATAA
50181716 AAATTCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 4 0.15
25 21 0.81
26 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TATAATTATATTATTATTAAATAAA
Found at i:50185188 original size:13 final size:13
Alignment explanation
Indices: 50185170--50185203 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
50185160 TAAATTTTGG
50185170 GTTTCAAATTTTT
1 GTTTCAAATTTTT
50185183 GTTTCAAATTTTT
1 GTTTCAAATTTTT
50185196 GTTTCAAA
1 GTTTCAAA
50185204 AAGAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (13 bp):
GTTTCAAATTTTT
Found at i:50190273 original size:43 final size:43
Alignment explanation
Indices: 50190222--50190336 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 43
50190212 ATGTTCCAAT
*
50190222 ATCGATTTGAGATTTTGTGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
* *
50190265 ATTGATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
** *
50190308 ATCGATACGAGATTTCCATGTAAGACCAT
1 ATCGATTTGAGATTT-CGTGTAAGACCAT
50190337 GTCTGAGACA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
43 52 0.81
44 12 0.19
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
Found at i:50197322 original size:32 final size:32
Alignment explanation
Indices: 50197286--50197370 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
50197276 AGGCTGATAA
50197286 TAAAACTCAGCATTTTATTAACAGATTGATTG
1 TAAAACTCAGCATTTTATTAACAGATTGATTG
50197318 TAAAACTCAGCATTTTATTAACAGATTGATTG
1 TAAAACTCAGCATTTTATTAACAGATTGATTG
* *
50197350 TAAAACTCAGCGTTTCATTAA
1 TAAAACTCAGCATTTTATTAA
50197371 TAGGAAACTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (32 bp):
TAAAACTCAGCATTTTATTAACAGATTGATTG
Found at i:50199422 original size:25 final size:24
Alignment explanation
Indices: 50199389--50199442 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
50199379 GAGGGGATTT
*
50199389 TTATTTTATTTAATAATAATATAA
1 TTATTTTATTTAATAATAACATAA
*
50199413 TTATATTTATTTAATATTAACATAA
1 TTAT-TTTATTTAATAATAACATAA
*
50199438 ATATT
1 TTATT
50199443 AATATAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TTATTTTATTTAATAATAACATAA
Found at i:50199472 original size:18 final size:19
Alignment explanation
Indices: 50199435--50199472 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
50199425 AATATTAACA
50199435 TAAATATTAATATAATATT
1 TAAATATTAATATAATATT
* *
50199454 TAAAT-TTATTATCATATT
1 TAAATATTAATATAATATT
50199472 T
1 T
50199473 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATATTAATATAATATT
Found at i:50201473 original size:23 final size:22
Alignment explanation
Indices: 50201447--50201494 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
50201437 AAAATAAGAC
50201447 TTATTTAAGTACAAATTAAAACA
1 TTATTTAAGTACAAATTAAAA-A
**
50201470 TTATTTTGGTACAAATTAAAAA
1 TTATTTAAGTACAAATTAAAAA
50201492 TTA
1 TTA
50201495 AGCATTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (22 bp):
TTATTTAAGTACAAATTAAAAA
Found at i:50207102 original size:10 final size:9
Alignment explanation
Indices: 50207079--50207103 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
50207069 AATCAAATTA
50207079 ATTTTTTCG
1 ATTTTTTCG
50207088 ATTTTTTCG
1 ATTTTTTCG
50207097 ATTTTTT
1 ATTTTTT
50207104 GAATAAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.72
Consensus pattern (9 bp):
ATTTTTTCG
Found at i:50207310 original size:29 final size:27
Alignment explanation
Indices: 50207257--50207332 Score: 71
Period size: 29 Copynumber: 2.7 Consensus size: 27
50207247 AAAATCAATT
*
50207257 CAAATTTCAAAACATTTATAAAAAAAC
1 CAAATTTCAAAAAATTTATAAAAAAAC
**
50207284 CAAATTTTCATAAAAATTTATTTAAAAAATT
1 CAAA-TTTCA-AAAAATTTA--TAAAAAAAC
* *
50207315 AAAATTTTAAAAAATTTA
1 CAAATTTCAAAAAATTTA
50207333 AAATTCTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 4 0.10
28 5 0.12
29 17 0.43
30 4 0.10
31 10 0.25
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (27 bp):
CAAATTTCAAAAAATTTATAAAAAAAC
Found at i:50207323 original size:16 final size:17
Alignment explanation
Indices: 50207304--50207342 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
50207294 TAAAAATTTA
50207304 TTTAAAAAA-TTAAAAT
1 TTTAAAAAATTTAAAAT
50207320 TTTAAAAAATTTAAAAT
1 TTTAAAAAATTTAAAAT
*
50207337 TCTAAA
1 TTTAAA
50207343 GAAGATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTAAAAAATTTAAAAT
Found at i:50211180 original size:26 final size:26
Alignment explanation
Indices: 50211144--50211198 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
50211134 ATATGAAATG
*
50211144 ATAATAGTAAT-GCAACTATTATAATA
1 ATAATAATAATAGCAA-TATTATAATA
* *
50211170 ATAATAATAATATCAATTTTATAATA
1 ATAATAATAATAGCAATATTATAATA
50211196 ATA
1 ATA
50211199 TCGATAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (26 bp):
ATAATAATAATAGCAATATTATAATA
Found at i:50211557 original size:19 final size:18
Alignment explanation
Indices: 50211539--50211583 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
50211529 CCATACAAAT
50211539 TAAAAAAAAACAAGAAAA
1 TAAAAAAAAACAAGAAAA
* * *
50211557 TAATAAATAAATAAGCAAA
1 TAA-AAAAAAACAAGAAAA
50211576 TAAAAAAA
1 TAAAAAAA
50211584 TCATGAAAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (18 bp):
TAAAAAAAAACAAGAAAA
Found at i:50214900 original size:2 final size:2
Alignment explanation
Indices: 50214893--50214919 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50214883 AAGAATGTCC
50214893 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 A
50214920 CTTCTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50215764 original size:19 final size:19
Alignment explanation
Indices: 50215742--50215785 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
50215732 TTATTTTTTT
50215742 ATTTTTATGAACTTTT-ATA
1 ATTTTTATGAA-TTTTGATA
* *
50215761 ATTTTTTTTAATTTTGATA
1 ATTTTTATGAATTTTGATA
50215780 ATTTTT
1 ATTTTT
50215786 CATAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (19 bp):
ATTTTTATGAATTTTGATA
Found at i:50215774 original size:29 final size:28
Alignment explanation
Indices: 50215735--50215792 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
50215725 TTTCATGTTA
*
50215735 TTTTTTTATTTTTATGAACTTTT-ATAAT
1 TTTTTTTATTTTGAT-AACTTTTCATAAT
*
50215763 TTTTTTTAATTTTGATAATTTTTCATAAT
1 TTTTTTT-ATTTTGATAACTTTTCATAAT
50215792 T
1 T
50215793 ATTAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (28 bp):
TTTTTTTATTTTGATAACTTTTCATAAT
Found at i:50215791 original size:19 final size:18
Alignment explanation
Indices: 50215754--50215792 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
50215744 TTTTATGAAC
**
50215754 TTTTATAATTTTTTTTAA
1 TTTTATAATTTTTCATAA
50215772 TTTTGATAATTTTTCATAA
1 TTTT-ATAATTTTTCATAA
50215791 TT
1 TT
50215793 ATTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTATAATTTTTCATAA
Found at i:50216273 original size:18 final size:18
Alignment explanation
Indices: 50216228--50216274 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
50216218 AAACTACAAA
50216228 TAATAAAAAAATATGTTT
1 TAATAAAAAAATATGTTT
50216246 TAA-AGGAAAAAATTAT-TTT
1 TAATA--AAAAAA-TATGTTT
50216265 TAATAAAAAA
1 TAATAAAAAA
50216275 TGAGAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 1 0.04
18 8 0.32
19 12 0.48
20 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (18 bp):
TAATAAAAAAATATGTTT
Found at i:50223912 original size:49 final size:49
Alignment explanation
Indices: 50223851--50223994 Score: 225
Period size: 49 Copynumber: 2.9 Consensus size: 49
50223841 ATGTGAACAT
* *
50223851 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
50223901 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
50223950 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
50223995 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 84 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.33
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:50231450 original size:3 final size:3
Alignment explanation
Indices: 50231436--50231473 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
50231426 TAATAGAAAA
*
50231436 TAG TAA TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
50231474 TAACAGAGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:50236688 original size:21 final size:21
Alignment explanation
Indices: 50236664--50236790 Score: 76
Period size: 21 Copynumber: 6.0 Consensus size: 21
50236654 GCTCCTGTTT
* *
50236664 AACTCATATGAGTTTCCGTTC
1 AACTCTTATGAGCTTCCGTTC
** *
50236685 AACTC-TATTGAGCTTATGTTT
1 AACTCTTA-TGAGCTTCCGTTC
* *
50236706 AACTCTTATGGGTTTCCGTTC
1 AACTCTTATGAGCTTCCGTTC
* * *
50236727 AGCTCTTACGAGCTTCCATTC
1 AACTCTTATGAGCTTCCGTTC
* * * * *
50236748 AACCCTTATGGGTTTCTGTTT
1 AACTCTTATGAGCTTCCGTTC
* * *
50236769 AGCTCTCATGAGCTTCTGTTC
1 AACTCTTATGAGCTTCCGTTC
50236790 A
1 A
50236791 GCCTTCGGGC
Statistics
Matches: 76, Mismatches: 28, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
20 2 0.03
21 72 0.95
22 2 0.03
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.41
Consensus pattern (21 bp):
AACTCTTATGAGCTTCCGTTC
Found at i:50236740 original size:42 final size:42
Alignment explanation
Indices: 50236653--50236788 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 42
50236643 AGCTCTCACA
* * * *
50236653 AGCTCCTGTTTAACTCATATGAGTTTCCGTTCAACTC-TATTG
1 AGCTTCTGTTTAACTCTTATGGGTTTCCGTTCAGCTCTTA-TG
* *
50236695 AGCTTATGTTTAACTCTTATGGGTTTCCGTTCAGCTCTTACG
1 AGCTTCTGTTTAACTCTTATGGGTTTCCGTTCAGCTCTTATG
** * * * * *
50236737 AGCTTCCATTCAACCCTTATGGGTTTCTGTTTAGCTCTCATG
1 AGCTTCTGTTTAACTCTTATGGGTTTCCGTTCAGCTCTTATG
50236779 AGCTTCTGTT
1 AGCTTCTGTT
50236789 CAGCCTTCGG
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 74 0.97
43 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.42
Consensus pattern (42 bp):
AGCTTCTGTTTAACTCTTATGGGTTTCCGTTCAGCTCTTATG
Found at i:50237422 original size:14 final size:14
Alignment explanation
Indices: 50237403--50237432 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50237393 TTTTGACCGT
50237403 AATATATTTCAAAA
1 AATATATTTCAAAA
50237417 AATATATTTCAAAA
1 AATATATTTCAAAA
50237431 AA
1 AA
50237433 GAAAAGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AATATATTTCAAAA
Found at i:50239290 original size:50 final size:50
Alignment explanation
Indices: 50239236--50239891 Score: 571
Period size: 50 Copynumber: 13.2 Consensus size: 50
50239226 ACAATTAAAT
* * * *
50239236 AGATTAAAGCTACAACAGCGAATCTTACTTCCATGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * * **
50239286 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAGTTAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * * *
50239336 AGTTTGAAGCTATAACAGTGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * * * ** *
50239386 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * * *
50239436 AGATTGAAGCTA-AGACAGCGAATGTTACTTCCTTCG-CGGTGAAGTGGAAC
1 AGATTGAAGCTACA-ACAGCGAATCTTACTTCCCT-GACAGTGCAGTGGAAC
* * * * * * * ** *
50239486 AGATTGAAGCTACAACGGCAAATCTTGCATCCCCGACATTACAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
** *
50239536 AGATTGAAGCTATGACAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * * * * **
50239586 AAATTGAAGCTAAAACGGTGAATCTTACTTCCGC-GACATTGCAGTTAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCC-CTGACAGTGCAGTGGAAC
* * *
50239636 AGATTGAAGCTACGACAGCAAATCTTACTTCCCT-AGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGA-CAGTGCAGTGGAAC
* * * ** * * **
50239686 AGATTGAAGCTACAACGGCCAATTTTGTTTCCCCGACATTGCAGTTAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* *
50239736 AGATTGAAGCTACGACAGCGAATCTTACTTCCCTGACAGTGCAATGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
** * * * ** *
50239786 AGATTGAAGCTACAATGGCGAATCTTGCTTCCC-GACATTGTAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
*
50239835 AGATTGAA---A-ATA-A-CGAATCTTATTTCCCTGA-AGTTGCAGTGGAAC
1 AGATTGAAGCTACA-ACAGCGAATCTTACTTCCCTGACAG-TGCAGTGGAAC
50239880 AGATTGAAGCTA
1 AGATTGAAGCTA
50239892 TAAATTACAT
Statistics
Matches: 466, Mismatches: 126, Indels: 30
0.75 0.20 0.05
Matches are distributed among these distances:
44 14 0.03
45 18 0.04
46 2 0.00
48 1 0.00
49 22 0.05
50 405 0.87
51 4 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
Found at i:50239359 original size:100 final size:100
Alignment explanation
Indices: 50239230--50239891 Score: 872
Period size: 100 Copynumber: 6.7 Consensus size: 100
50239220 GGCATTACAA
* * *
50239230 TTAAATAGATTAAAGCTACAACAGCGAATCTTACTTCCATGGCGGTGCAGTGGAACAGATTGAAG
1 TTAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
*
50239295 CTACAACGGCGAATCTTGCTTCCCTGACATTGCAG
66 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * * *
50239330 TTAAACAGTTTGAAGCTATAACAGTGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAG
1 TTAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
50239395 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
66 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * * * *
50239430 TTAAATAGATTGAAGCTA-AGACAGCGAATGTTACTTCCTTCGCGGTGAAGTGGAACAGATTGAA
1 TTAAACAGATTGAAGCTACA-ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAA
* * *
50239494 GCTACAACGGCAAATCTTGCATCCCCGACATTACAG
65 GCTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* ** * *
50239530 TTAAATAGATTGAAGCTATGACAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAACAAATTGAAG
1 TTAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
* * * *
50239595 CTAAAACGGTGAATCTTACTTCCGCGACATTGCAG
66 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * *
50239630 TTAAACAGATTGAAGCTACGACAGCAAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTGAAG
1 TTAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
* * *
50239695 CTACAACGGCCAATTTTGTTTCCCCGACATTGCAG
66 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * * *
50239730 TTAAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTGAAG
1 TTAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
* *
50239795 CTACAATGGCGAATCTTGCTT-CCCGACATTGTAG
66 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * ** *
50239829 TTAAATAGATTGAA---A-ATA-A-CGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAA
1 TTAAACAGATTGAAGCTACA-ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAA
50239888 GCTA
65 GCTA
50239892 TAAATTACAT
Statistics
Matches: 496, Mismatches: 63, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
94 39 0.08
95 1 0.00
96 2 0.00
99 26 0.05
100 428 0.86
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (100 bp):
TTAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
Found at i:50241515 original size:3 final size:3
Alignment explanation
Indices: 50241509--50241549 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
50241499 AAACTAATAA
* * *
50241509 ATT ATT ATT GTT ATT ATT ATT ATT AAT ATT ATT TTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
50241550 CATCATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:50243400 original size:19 final size:20
Alignment explanation
Indices: 50243351--50243404 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 20
50243341 TAAATTTTAG
* *
50243351 AAAATTTATTAAATTTTAAT
1 AAAATTTATTAAAATATAAT
*
50243371 AAAA-ATA-TAAAATATAA-
1 AAAATTTATTAAAATATAAT
50243388 AAAATTTATTAAAATAT
1 AAAATTTATTAAAATAT
50243405 TTTTTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 10 0.36
20 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTTATTAAAATATAAT
Found at i:50243433 original size:33 final size:31
Alignment explanation
Indices: 50243375--50243458 Score: 102
Period size: 30 Copynumber: 2.7 Consensus size: 31
50243365 TTTAATAAAA
50243375 ATATAAAAT-ATAAAAAATTTATTAAAATATTTT
1 ATATAAAATCATAAAAAA-TTATT-AAAT-TTTT
*
50243408 TTATAAAATCATAAATAAATT-TTAAATTTTT
1 ATATAAAATCATAAA-AAATTATTAAATTTTT
50243439 ATA-AAAATCATAAAAAATTA
1 ATATAAAATCATAAAAAATTA
50243459 ATGACCCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
29 5 0.11
30 11 0.24
31 6 0.13
32 4 0.09
33 10 0.22
34 7 0.15
35 3 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (31 bp):
ATATAAAATCATAAAAAATTATTAAATTTTT
Found at i:50243689 original size:58 final size:58
Alignment explanation
Indices: 50243612--50243754 Score: 143
Period size: 58 Copynumber: 2.5 Consensus size: 58
50243602 TTTTTCGAAA
* * * *
50243612 TTTATATTTCTTTACATTTTGTATAATTTTCTTACTA-TTTTATAAACTTTTATATTTT
1 TTTATATTTCTATACATTTTATAT-ATTTTCTTACGATTTTTATAAAATTTTATATTTT
* * * *
50243670 TTTATGTTTCTATATATTTTATATATTTTTTTACGATTTTTATAAAATTTTACCA--TT
1 TTTATATTTCTATACATTTTATATATTTTCTTACGATTTTTATAAAATTTTA-TATTTT
*
50243727 TTTATATTT-TTTACGATTTT-TATATTTT
1 TTTATATTTCTATAC-ATTTTATATATTTT
50243755 TTTCTAATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
56 11 0.15
57 25 0.35
58 34 0.48
59 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (58 bp):
TTTATATTTCTATACATTTTATATATTTTCTTACGATTTTTATAAAATTTTATATTTT
Found at i:50243694 original size:9 final size:9
Alignment explanation
Indices: 50243647--50243698 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
50243637 ATTTTCTTAC
50243647 TATTTTATA
1 TATTTTATA
*
50243656 AACTTTTATA
1 TA-TTTTATA
*
50243666 T-TTTTTTA
1 TATTTTATA
*
50243674 TGTTTCTATA
1 TATTT-TATA
50243684 TATTTTATA
1 TATTTTATA
50243693 TATTTT
1 TATTTT
50243699 TTTACGATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 7 0.20
9 14 0.40
10 14 0.40
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (9 bp):
TATTTTATA
Found at i:50243738 original size:18 final size:18
Alignment explanation
Indices: 50243685--50243756 Score: 90
Period size: 18 Copynumber: 3.8 Consensus size: 18
50243675 GTTTCTATAT
50243685 ATTTTATATATTTTTTTACG
1 ATTTT-TATA-TTTTTTACG
** *
50243705 ATTTTTATAAAATTTTACC
1 ATTTTTAT-ATTTTTTACG
50243724 ATTTTTATATTTTTTACG
1 ATTTTTATATTTTTTACG
50243742 ATTTTTATATTTTTT
1 ATTTTTATATTTTTT
50243757 TCTAATTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 22 0.49
19 17 0.38
20 6 0.13
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTTATATTTTTTACG
Found at i:50243757 original size:58 final size:55
Alignment explanation
Indices: 50243612--50243791 Score: 158
Period size: 56 Copynumber: 3.2 Consensus size: 55
50243602 TTTTTCGAAA
* * *
50243612 TTTATATTTCTTTACATTTTGTATA-ATTTTCTTAC-TATTTTATAAACTTTTATATT
1 TTTATATTT-TTTACATTTT-TATATATTTTTTTACAT-TTTTATAAAATTTTACATT
* * *
50243668 TTTTTATGTTTCTATATATTTTATATATTTTTTTACGATTTTTATAAAATTTTACCATT
1 TTTATAT-TTTTTACAT-TTTTATATATTTTTTTAC-ATTTTTATAAAATTTTA-CATT
*
50243727 TTTATATTTTTTACGATTTTTATAT-TTTTTTCTA-ATTTTTA-ATAAATTTTA-ATA
1 TTTATATTTTTTAC-ATTTTTATATATTTTTT-TACATTTTTATA-AAATTTTACATT
50243781 TTTA-ATTTTTT
1 TTTATATTTTTT
50243792 TATTAAAATT
Statistics
Matches: 105, Mismatches: 10, Indels: 21
0.77 0.07 0.15
Matches are distributed among these distances:
53 7 0.07
54 6 0.06
55 1 0.01
56 30 0.29
57 20 0.19
58 29 0.28
59 12 0.11
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.64
Consensus pattern (55 bp):
TTTATATTTTTTACATTTTTATATATTTTTTTACATTTTTATAAAATTTTACATT
Found at i:50243805 original size:10 final size:10
Alignment explanation
Indices: 50243790--50243814 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
50243780 ATTTAATTTT
50243790 TTTATTAAAA
1 TTTATTAAAA
50243800 TTTATTAAAA
1 TTTATTAAAA
50243810 TTTAT
1 TTTAT
50243815 AGCTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTATTAAAA
Done.