Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 334 of 352
Found at i:107254773 original size:15 final size:15
Alignment explanation
Indices: 107254747--107254803 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
107254737 CATATATATT
107254747 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
107254761 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
107254776 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
107254791 ATATAAATTCAAT
1 ATATAATTTCAAT
107254804 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:107261554 original size:26 final size:25
Alignment explanation
Indices: 107261524--107261617 Score: 73
Period size: 26 Copynumber: 3.6 Consensus size: 25
107261514 ATTAGGAAAC
107261524 GTACATAAAAAATATATATAAAATAT
1 GTACA-AAAAAATATATATAAAATAT
* * * *
107261550 TTACAACAATAATATAAAATAATGATAT
1 GTACAA-AAAAATAT-ATATAA-AATAT
* *
107261578 GTACAAAAATATATATATATACATAT
1 GTACAAAAAAATATATATA-AAATAT
*
107261604 GTAC-ATAAAATATA
1 GTACAAAAAAATATA
107261618 CACTAATATA
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
25 9 0.17
26 23 0.43
27 12 0.23
28 9 0.17
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.32
Consensus pattern (25 bp):
GTACAAAAAAATATATATAAAATAT
Found at i:107261589 original size:25 final size:27
Alignment explanation
Indices: 107261555--107261617 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
107261545 AATATTTACA
* *
107261555 ACAATAATATAAAATA-AT-GATATGT
1 ACAAAAATATAAAATATATACATATGT
*
107261580 ACAAAAATAT-ATATATATACATATGT
1 ACAAAAATATAAAATATATACATATGT
107261606 ACATAAAATATA
1 ACA-AAAATATA
107261618 CACTAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 4 0.13
25 11 0.35
26 9 0.29
27 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (27 bp):
ACAAAAATATAAAATATATACATATGT
Found at i:107262100 original size:11 final size:11
Alignment explanation
Indices: 107262066--107262107 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
107262056 AAATCATTTT
107262066 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
107262077 GAA-AAAAAAA
1 GAAGAGAGAAA
*
107262087 GAAGGGAGAAA
1 GAAGAGAGAAA
107262098 GAAGAGAGAA
1 GAAGAGAGAA
107262108 GGGAGGGGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:107263721 original size:13 final size:13
Alignment explanation
Indices: 107263703--107263736 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
107263693 GATAAATGAG
107263703 TTTAATTTTAATA
1 TTTAATTTTAATA
107263716 TTTAA-TTTAATA
1 TTTAATTTTAATA
*
107263728 TATAATTTT
1 TTTAATTTT
107263737 TTTAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAATTTTAATA
Found at i:107263767 original size:27 final size:28
Alignment explanation
Indices: 107263709--107263767 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
107263699 TGAGTTTAAT
* *
107263709 TTTAATATTTAATTTAATATATAATTTT
1 TTTAATATTTAATTTAATATATAATATA
* * *
107263737 TTTAAT-TTTAATTTGATATTTGATATA
1 TTTAATATTTAATTTAATATATAATATA
107263764 TTTA
1 TTTA
107263768 CTCTAATGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTAATATTTAATTTAATATATAATATA
Found at i:107267582 original size:30 final size:30
Alignment explanation
Indices: 107267546--107267616 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
107267536 GGTGGGTTTG
*
107267546 ATTTTAAAATAAATAATTTATTGTGGTTCA
1 ATTTTAAAATAAATAATTTATTGTGGCTCA
* *
107267576 ATTTTAAAATAAATAATTTTTTGTGGCTCG
1 ATTTTAAAATAAATAATTTATTGTGGCTCA
*
107267606 ATATTAAAATA
1 ATTTTAAAATA
107267617 TGTTTTGGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (30 bp):
ATTTTAAAATAAATAATTTATTGTGGCTCA
Found at i:107267730 original size:26 final size:27
Alignment explanation
Indices: 107267701--107267767 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 27
107267691 TTGAGGGTTA
107267701 AATATATTTAAA-ATTAAAAGTGAATT
1 AATATATTTAAATATTAAAAGTGAATT
*
107267727 AATATAATTAATAAATATTGAAAGTGAATT
1 AATAT-ATT--TAAATATTAAAAGTGAATT
*
107267757 AATATAATTAA
1 AATATATTTAA
107267768 TAAATATTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
26 5 0.14
27 6 0.17
29 6 0.17
30 18 0.51
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.37
Consensus pattern (27 bp):
AATATATTTAAATATTAAAAGTGAATT
Found at i:107267751 original size:30 final size:30
Alignment explanation
Indices: 107267709--107267777 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
107267699 TAAATATATT
*
107267709 TAAA-ATTAAAAGTGAATTAATATAATTAA
1 TAAATATTGAAAGTGAATTAATATAATTAA
107267738 TAAATATTGAAAGTGAATTAATATAATTAA
1 TAAATATTGAAAGTGAATTAATATAATTAA
107267768 TAAATATTGA
1 TAAATATTGA
107267778 GTGATTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (30 bp):
TAAATATTGAAAGTGAATTAATATAATTAA
Found at i:107269381 original size:58 final size:56
Alignment explanation
Indices: 107269291--107269408 Score: 209
Period size: 56 Copynumber: 2.1 Consensus size: 56
107269281 TGAACCACCC
107269291 TTAAAAGAGTATTCTAAAAGTACTCTTGCAAAACACCCTGTTATTATTAATTTTCAAG
1 TTAAAAGAGTATTCTAAAAGTACTCTTGC-AAA-ACCCTGTTATTATTAATTTTCAAG
*
107269349 TTAAAAGAGTATTCTAAATGTACTCTTGCAAAACCCTGTTATTATTAATTTTCAAG
1 TTAAAAGAGTATTCTAAAAGTACTCTTGCAAAACCCTGTTATTATTAATTTTCAAG
107269405 TTAA
1 TTAA
107269409 TATTGTGTAG
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 28 0.47
57 3 0.05
58 28 0.47
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (56 bp):
TTAAAAGAGTATTCTAAAAGTACTCTTGCAAAACCCTGTTATTATTAATTTTCAAG
Found at i:107274635 original size:29 final size:30
Alignment explanation
Indices: 107274571--107274646 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
107274561 ACCTGCCAAG
* *
107274571 TCCCTCTATTATATAAACTGGATCACATTAG
1 TCCCTCTACTAT-TAAACTGGATCACATTAA
*
107274602 TCCCTCTACTATTAAA-TGTATCA-ATTTAA
1 TCCCTCTACTATTAAACTGGATCACA-TTAA
*
107274631 TCCCTATACTATTAAA
1 TCCCTCTACTATTAAA
107274647 AAGAATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 24 0.60
30 4 0.10
31 11 0.28
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.38
Consensus pattern (30 bp):
TCCCTCTACTATTAAACTGGATCACATTAA
Found at i:107283771 original size:18 final size:18
Alignment explanation
Indices: 107283748--107283802 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
107283738 TTTTTAAAAA
107283748 TATAAAT-TTTGGAAATTT
1 TATAAATATTT-GAAATTT
*
107283766 TATAAATATTTTAAATTT
1 TATAAATATTTGAAATTT
*
107283784 TAAAAATACTTTG-AATTT
1 TATAAATA-TTTGAAATTT
107283802 T
1 T
107283803 TTGGTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 26 0.81
19 6 0.19
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (18 bp):
TATAAATATTTGAAATTT
Found at i:107283771 original size:26 final size:26
Alignment explanation
Indices: 107283715--107283771 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
107283705 TATATATTAC
* *
107283715 TTAAAAAAATAAATTTTGTATAGTTT
1 TTAAAAAAATAAATTTTGGATAATTT
*
107283741 TTAAAAATATAAATTTTGGA-AATTT
1 TTAAAAAAATAAATTTTGGATAATTT
107283766 TATAAA
1 T-TAAA
107283772 TATTTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (26 bp):
TTAAAAAAATAAATTTTGGATAATTT
Found at i:107284828 original size:30 final size:30
Alignment explanation
Indices: 107284779--107284838 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
107284769 AACCTCTTAT
*
107284779 AAATTTATAATTCAATTTTGATCACTTAAAA
1 AAATTTATAATTCAATTTTGAT-ACTCAAAA
**
107284810 AAATTTA-AATTCGCTTTTGATACTCAAAA
1 AAATTTATAATTCAATTTTGATACTCAAAA
107284839 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 7 0.27
30 12 0.46
31 7 0.27
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (30 bp):
AAATTTATAATTCAATTTTGATACTCAAAA
Found at i:107286629 original size:69 final size:69
Alignment explanation
Indices: 107286524--107286654 Score: 169
Period size: 69 Copynumber: 1.9 Consensus size: 69
107286514 TAATAATACT
* *
107286524 AAATATATATATACATAATATATATAAAATGAACATATACAATATATTAGAAATAC-TAATAACA
1 AAATATATATATACATAATATACATAAAATGAACATATACAATATAATA-AAATACATAATAACA
107286588 TAAAA
65 TAAAA
* * *
107286593 AAATATATAT-TA-ATAATACTACATAGATATGTACATATACATTATAATAAAATACATAATAA
1 AAATATATATATACATAATA-TACATA-AAATGAACATATACAATATAATAAAATACATAATAA
107286655 TATTAAAGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
67 6 0.11
68 13 0.24
69 35 0.65
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (69 bp):
AAATATATATATACATAATATACATAAAATGAACATATACAATATAATAAAATACATAATAACAT
AAAA
Found at i:107286822 original size:55 final size:54
Alignment explanation
Indices: 107286751--107286903 Score: 154
Period size: 62 Copynumber: 2.8 Consensus size: 54
107286741 AATGTTAAAA
107286751 ACAACTATTAATAATATTACATAAATATACACATATATATATTAAAAAAATACAT
1 ACAA-TATTAATAATATTACATAAATATACACATATATATATTAAAAAAATACAT
* * *
107286806 AATAATATTAAAAATATGTACATAATATATATACATATAATATAGTTATTAAAAAAATACAT
1 -ACAATATTAATAATAT-TACAT-A-A-ATATACACAT-ATATA--TATTAAAAAAATACAT
*
107286868 ACAATA-T-ATAATATTA-A-GAATATACACA-ATATATAT
1 ACAATATTAATAATATTACATAAATATACACATATATATAT
107286904 GGTATTAAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
49 3 0.04
51 5 0.06
53 8 0.10
54 1 0.01
55 11 0.13
56 8 0.10
57 2 0.02
58 3 0.04
59 15 0.18
60 6 0.07
61 5 0.06
62 16 0.19
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (54 bp):
ACAATATTAATAATATTACATAAATATACACATATATATATTAAAAAAATACAT
Found at i:107286985 original size:15 final size:15
Alignment explanation
Indices: 107286962--107287022 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
107286952 ATTGATTAAA
* *
107286962 AATAATAATACTAAT
1 AATAGTAATAGTAAT
107286977 AATAGTAATAGTAA-
1 AATAGTAATAGTAAT
*
107286991 AATACTAATA--AAT
1 AATAGTAATAGTAAT
107287004 AATAG-ATATAGTAAT
1 AATAGTA-ATAGTAAT
107287019 AATA
1 AATA
107287023 AGAACGTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 3 0.08
13 7 0.18
14 9 0.24
15 19 0.50
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (15 bp):
AATAGTAATAGTAAT
Found at i:107288467 original size:13 final size:15
Alignment explanation
Indices: 107288438--107288466 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
107288428 TATTAACAAC
107288438 ACGTACATAATATAT
1 ACGTACATAATATAT
107288453 ACGTACATAATATA
1 ACGTACATAATATA
107288467 CAAAATGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (15 bp):
ACGTACATAATATAT
Found at i:107289042 original size:14 final size:15
Alignment explanation
Indices: 107289009--107289055 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
107288999 AGGAATATAC
*
107289009 TAATAATGATAAGA-A
1 TAATAATAATAA-ATA
*
107289024 TAATAGTAAT-AATA
1 TAATAATAATAAATA
107289038 TAATAATAATAAATA
1 TAATAATAATAAATA
107289053 TAA
1 TAA
107289056 AAAAACAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 11 0.41
15 15 0.56
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
TAATAATAATAAATA
Found at i:107290292 original size:14 final size:15
Alignment explanation
Indices: 107290266--107290322 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
107290256 AATATAATAT
107290266 AATAAATATATT-AA
1 AATAAATATATTAAA
107290280 AATAAAGTA-ATTAAA
1 AATAAA-TATATTAAA
*
107290295 AATAAACTATGTATAAA
1 AATAAA-TATAT-TAAA
*
107290312 AATATATATAT
1 AATAAATATAT
107290323 ACATATATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 9 0.26
15 12 0.34
16 5 0.14
17 9 0.26
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (15 bp):
AATAAATATATTAAA
Found at i:107290765 original size:17 final size:17
Alignment explanation
Indices: 107290719--107290765 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
107290709 TGAGGGGGGG
* *
107290719 AGCAAAAAAAAAATTCG
1 AGCAAAAAAAAACTTCC
107290736 AGCAAAAAAAAACTTCC
1 AGCAAAAAAAAACTTCC
*
107290753 AGCAAATAAAAAC
1 AGCAAAAAAAAAC
107290766 CAAAAAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.64, C:0.17, G:0.09, T:0.11
Consensus pattern (17 bp):
AGCAAAAAAAAACTTCC
Found at i:107291255 original size:31 final size:34
Alignment explanation
Indices: 107291187--107291259 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
107291177 GGGTGATATG
* *
107291187 TTAAGTTAGTGGGTTGGGTTGGTTGTGTTGGGTTTA
1 TTAAGTTAGTGAGTTGGGTTGGTTGTGTT--GATTA
*
107291223 TTAAGTTAGTGAGTTGGGTTGGTT-TGTATTATTA
1 TTAAGTTAGTGAGTTGGGTTGGTTGTGT-TGATTA
107291257 TTA
1 TTA
107291260 TTATTTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 6 0.18
35 3 0.09
36 24 0.73
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.49
Consensus pattern (34 bp):
TTAAGTTAGTGAGTTGGGTTGGTTGTGTTGATTA
Found at i:107291997 original size:18 final size:17
Alignment explanation
Indices: 107291975--107292020 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
107291965 AAAATTTCAG
107291975 GTTTCAAAAATTTTCGT
1 GTTTCAAAAATTTTCGT
107291992 GCTTTC-AAAATTTTCGT
1 G-TTTCAAAAATTTTCGT
*
107292009 GTTTTAAAAATT
1 GTTTCAAAAATT
107292021 CTCATTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 3 0.12
17 19 0.73
18 4 0.15
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (17 bp):
GTTTCAAAAATTTTCGT
Found at i:107292518 original size:33 final size:33
Alignment explanation
Indices: 107292476--107292550 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
107292466 TAATATGTTA
*
107292476 ATAATAATAATGATAATATGAATAATGGTCAAT
1 ATAATAATAATGATAATATGAATAATGGTAAAT
107292509 ATAATAATAATGATAATATGAATAATGGTAAAT
1 ATAATAATAATGATAATATGAATAATGGTAAAT
107292542 ATAATAATA
1 ATAATAATA
107292551 TTAAATAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.55, C:0.01, G:0.11, T:0.33
Consensus pattern (33 bp):
ATAATAATAATGATAATATGAATAATGGTAAAT
Found at i:107292550 original size:3 final size:3
Alignment explanation
Indices: 107292414--107292526 Score: 63
Period size: 3 Copynumber: 37.0 Consensus size: 3
107292404 AATATTATAT
* * *
107292414 ATA ATA ATA CTA GA-A ATA ATA ATA ACTA GTA ATA ATA ATA CATTA AAA
1 ATA ATA ATA ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA -A-TA ATA
* * * * *
107292462 ATA ATA AT- ATG TTA ATA ATA ATA ATG ATA AT- ATGA ATA ATG GTCA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT-A
*
107292507 AT- ATA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
107292527 TGAATAATGG
Statistics
Matches: 83, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
2 7 0.08
3 67 0.81
4 7 0.08
5 2 0.02
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:107292555 original size:15 final size:15
Alignment explanation
Indices: 107292403--107292557 Score: 66
Period size: 15 Copynumber: 9.8 Consensus size: 15
107292393 AAACATACAC
*
107292403 TAATATTATATATAA
1 TAATATTAAATATAA
*
107292418 TAATACTAGAA-ATAA
1 TAATATTA-AATATAA
*
107292433 TAATAACTAGTAATAATAA
1 TAAT-ATTA--AAT-ATAA
* *
107292452 T-ACATTAAAAATAA
1 TAATATTAAATATAA
*
107292466 TAATATGTTAATAATAA
1 TAATAT-TAAAT-ATAA
107292483 TAATGA-T-AATATGAA
1 TAAT-ATTAAATAT-AA
** *
107292498 TAATGGTCAATATAA
1 TAATATTAAATATAA
*
107292513 TAATAATGATAATATGAA
1 TAAT-ATTA-AATAT-AA
**
107292531 TAATGGTAAATATAA
1 TAATATTAAATATAA
107292546 TAATATTAAATA
1 TAATATTAAATA
107292558 ATATTAAAAA
Statistics
Matches: 106, Mismatches: 19, Indels: 30
0.68 0.12 0.19
Matches are distributed among these distances:
14 7 0.07
15 48 0.45
16 19 0.18
17 19 0.18
18 8 0.08
19 5 0.05
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (15 bp):
TAATATTAAATATAA
Found at i:107295918 original size:15 final size:16
Alignment explanation
Indices: 107295882--107295921 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
107295872 TTTAATTTTT
*
107295882 ATAAATAAAGTTAAATA
1 ATAAA-AAAGTGAAATA
107295899 ATAAAAAAGTGAAA-A
1 ATAAAAAAGTGAAATA
107295914 ATAAAAAA
1 ATAAAAAA
107295922 AATAAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 8 0.36
17 5 0.23
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (16 bp):
ATAAAAAAGTGAAATA
Found at i:107295920 original size:16 final size:17
Alignment explanation
Indices: 107295882--107295922 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
107295872 TTTAATTTTT
* *
107295882 ATAAATAAAGTTAAATA
1 ATAAAAAAAGTGAAATA
107295899 AT-AAAAAAGTGAAA-A
1 ATAAAAAAAGTGAAATA
107295914 ATAAAAAAA
1 ATAAAAAAA
107295923 ATAAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 16 0.76
17 2 0.10
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (17 bp):
ATAAAAAAAGTGAAATA
Found at i:107296369 original size:20 final size:19
Alignment explanation
Indices: 107296344--107296417 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 19
107296334 ATATTCCTTA
107296344 AAAATATTTTTAACTTTTTT
1 AAAATATTTTTAA-TTTTTT
*
107296364 AAAATATAAATTTTGGATTTTTT
1 AAAATAT---TTTT-AATTTTTT
107296387 ATAAATATTTTTAATTTTTT
1 A-AAATATTTTTAATTTTTT
107296407 AAAATTATTTT
1 AAAA-TATTTT
107296418 GATTTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
19 3 0.07
20 21 0.46
21 4 0.09
23 11 0.24
24 7 0.15
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (19 bp):
AAAATATTTTTAATTTTTT
Found at i:107296394 original size:44 final size:39
Alignment explanation
Indices: 107296345--107296425 Score: 117
Period size: 44 Copynumber: 1.9 Consensus size: 39
107296335 TATTCCTTAA
107296345 AAATATTTTTAACTTTTTTAAAATATAAATTTTGGATTTTTTAT
1 AAATATTTTTAA-TTTTTTAAAAT-T--ATTTT-GATTTTTTAT
107296389 AAATATTTTTAATTTTTTAAAATTATTTTGATTTTTT
1 AAATATTTTTAATTTTTTAAAATTATTTTGATTTTTT
107296426 TTGTAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
39 8 0.22
40 5 0.14
42 1 0.03
43 11 0.30
44 12 0.32
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (39 bp):
AAATATTTTTAATTTTTTAAAATTATTTTGATTTTTTAT
Found at i:107296426 original size:20 final size:19
Alignment explanation
Indices: 107296358--107296425 Score: 66
Period size: 19 Copynumber: 3.3 Consensus size: 19
107296348 TATTTTTAAC
107296358 TTTTTTAAAATATAAATTTTGGA
1 TTTTTTAAAAT-T--ATTTT-GA
*
107296381 TTTTTTATAAA-TATTTTTAA
1 TTTTTTA-AAATTA-TTTTGA
107296401 TTTTTTAAAATTATTTTGA
1 TTTTTTAAAATTATTTTGA
107296420 TTTTTT
1 TTTTTT
107296426 TTGTAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 14 0.35
20 11 0.28
21 4 0.10
22 1 0.03
23 7 0.17
24 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTTTAAAATTATTTTGA
Found at i:107296853 original size:28 final size:28
Alignment explanation
Indices: 107296822--107296881 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
107296812 CATATTAATG
107296822 GGGTATAGGAAAAGTCTCATAACTTATA
1 GGGTATAGGAAAAGTCTCATAACTTATA
* * * *
107296850 GGGTATAGGAAGAGTTTTATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATA
107296878 GGGT
1 GGGT
107296882 CGATAATGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (28 bp):
GGGTATAGGAAAAGTCTCATAACTTATA
Found at i:107298420 original size:27 final size:27
Alignment explanation
Indices: 107298383--107298438 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
107298373 GCCCATTTGG
*
107298383 CCCCTAGCCCAAAACCCATTTTCTAAC
1 CCCCTAGCCCAAAACCCATCTTCTAAC
*
107298410 CCCCTAGCCCAAAACCTATCTTCTAAC
1 CCCCTAGCCCAAAACCCATCTTCTAAC
107298437 CC
1 CC
107298439 ACAAAGCCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.46, G:0.04, T:0.21
Consensus pattern (27 bp):
CCCCTAGCCCAAAACCCATCTTCTAAC
Found at i:107298451 original size:27 final size:27
Alignment explanation
Indices: 107298388--107298454 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
107298378 TTTGGCCCCT
* * **
107298388 AGCCCAAAACCCATTTTCTAACCCCCT
1 AGCCCAAAACCTATCTTCTAACCCCAA
107298415 AGCCCAAAACCTATCTTCTAACCCACAA
1 AGCCCAAAACCTATCTTCTAACCC-CAA
107298443 AGCCC-AAACCTA
1 AGCCCAAAACCTA
107298455 AAAAAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 29 0.83
28 6 0.17
ACGTcount: A:0.36, C:0.42, G:0.04, T:0.18
Consensus pattern (27 bp):
AGCCCAAAACCTATCTTCTAACCCCAA
Found at i:107299838 original size:25 final size:25
Alignment explanation
Indices: 107299771--107299850 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 25
107299761 CATATTATGC
* * *
107299771 ATATACATATTAACATTATACTATAT
1 ATATATATTTTAATATTATA-TATAT
*
107299797 ATATATTTTTATAAATATTATATATAT
1 ATATATATTT-T-AATATTATATATAT
*
107299824 ATGTATATTTTAATA-TAT-TATAT
1 ATATATATTTTAATATTATATATAT
107299847 ATAT
1 ATAT
107299851 TGTGTACATA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
23 8 0.18
24 3 0.07
25 4 0.09
26 8 0.18
27 14 0.31
28 8 0.18
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (25 bp):
ATATATATTTTAATATTATATATAT
Found at i:107299841 original size:27 final size:27
Alignment explanation
Indices: 107299785--107299850 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
107299775 ACATATTAAC
107299785 ATTATACTATATATATATTTTTATAAAT
1 ATTATA-TATATATATATTTTTATAAAT
* *
107299813 ATTATATATATATGTATATTTTA-ATAT
1 ATTATATATATATATAT-TTTTATAAAT
107299840 ATTATATATAT
1 ATTATATATAT
107299851 TGTGTACATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 24 0.69
28 11 0.31
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
ATTATATATATATATATTTTTATAAAT
Found at i:107312252 original size:44 final size:43
Alignment explanation
Indices: 107312187--107312345 Score: 164
Period size: 44 Copynumber: 3.7 Consensus size: 43
107312177 AAGATTTACA
*
107312187 GATCTT-AACCCTTTAAGCAGTAGGGAAACAGATCAAAAGCGAAG
1 GATCTTAAACCC-CTAAGCAGTAGGGAAACAGATCAAAAGC-AAG
* * *
107312231 GGTCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAATGC-A-
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAGATC-AAAAGCAAG
* ** *
107312273 GATCTT-ACCCCCTAAGCAGTAGGGAAAGGGATCAAAGGCAACG
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAAGCAA-G
* *
107312316 GACCTTAAACCCTTAAGCAGTAGGGAAACA
1 GATCTTAAACCCCTAAGCAGTAGGGAAACA
107312346 TATCGAAGGT
Statistics
Matches: 94, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
40 5 0.05
41 24 0.26
42 5 0.05
43 6 0.06
44 44 0.47
45 10 0.11
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (43 bp):
GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAAGCAAG
Found at i:107312306 original size:85 final size:86
Alignment explanation
Indices: 107312185--107312568 Score: 265
Period size: 87 Copynumber: 4.4 Consensus size: 86
107312175 TGAAGATTTA
** **
107312185 CAGATCTTAACCCTTTAAGCAGTAGGGAAACAGATCAAAAGCGAA-GGGTCTTAAACCCCTAAGC
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAAGC-AACGGACCTTAAACCCCTAAGC
*
107312249 AGTAGGGTAACAGATCGAAATG
65 AGTAGGGAAACAGATCGAAATG
** * *
107312271 CAGATCTT-ACCCCCTAAGCAGTAGGGAAAGGGATCAAAGGCAACGGACCTTAAACCCTTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAAGCAACGGACCTTAAACCCCTAAGCA
* *
107312335 GTAGGGAAACATATCGAAGGTG
66 GTAGGGAAACAGATCGAA-ATG
* * * * ** * ** *** *
107312357 -ATAGGCTTTAACCCCCTAAGTAGTAGGGTAGTA-AGCTGAATTTACAGACCTTAAACCCCTAAG
1 CAGA-TC-TTAACCCCCTAAGCAGTAGGGAAACAGATCAAAAGCAACGGACCTTAAACCCCTAAG
* * * * *
107312420 CAGTAGGGTAACAGGTTGAATCTA
64 CAGTAGGGAAACAGATCGAA-ATG
* ** * *
107312444 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAATGTGAC-AAGCCTTAACCCCCTAAGC
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAAGCAACGGA-CCTTAAACCCCTAAGC
* * * * *
107312508 AGTAAGGTAATAGGTTGAAGATTTG
65 AGTAGGGAAACAGATCGAA-A--TG
* * * *
107312533 CAGATCTCATCACCCTAAGTAGTAGGGAAACAGATC
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC
107312569 GAAGCTATGA
Statistics
Matches: 231, Mismatches: 57, Indels: 17
0.76 0.19 0.06
Matches are distributed among these distances:
84 2 0.01
85 63 0.27
86 34 0.15
87 79 0.34
88 20 0.09
89 33 0.14
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (86 bp):
CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAAGCAACGGACCTTAAACCCCTAAGCA
GTAGGGAAACAGATCGAAATG
Found at i:107312425 original size:43 final size:43
Alignment explanation
Indices: 107312364--107312517 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 43
107312354 GTGATAGGCT
* ** *
107312364 TTAACCCCCTAAGTAGTAGGGTAGTAAGCTGAATTTACAGACC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATCTACAGACC
* * * *
107312407 TTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATCTACAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATCTACAGACC
* * * *
107312450 TTAACCCCCTAAGCAGTAGGGAAAC-AGATCAAATGTGACA-AGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCT-GAATCT-ACAGA-CC
*
107312494 TTAACCCCCTAAGCAGTAAGGTAA
1 TTAACCCCCTAAGCAGTAGGGTAA
107312518 TAGGTTGAAG
Statistics
Matches: 91, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.02
43 63 0.69
44 26 0.29
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (43 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATCTACAGACC
Found at i:107312723 original size:45 final size:45
Alignment explanation
Indices: 107312666--107312837 Score: 263
Period size: 45 Copynumber: 3.8 Consensus size: 45
107312656 AAGTCACATG
* * *
107312666 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAAA
1 TCTTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAA
* *
107312711 TCTTATTTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAAA
1 TCTTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAA
107312756 TCTTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAA
1 TCTTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAA
* * * *
107312801 CCTTATTCCCCTGAAGTTGCAGTAGAACAGATTGAAG
1 TCTTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAG
107312838 CTATAAATAA
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 118 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (45 bp):
TCTTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAA
Found at i:107313128 original size:27 final size:27
Alignment explanation
Indices: 107313090--107313142 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
107313080 CAACTGTACA
*
107313090 TATTTTCTCATTACTTAGTTATTTACT
1 TATTTCCTCATTACTTAGTTATTTACT
107313117 TATTTCCTCATTACTTAGTTATTTAC
1 TATTTCCTCATTACTTAGTTATTTAC
107313143 GTTTCTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.04, T:0.57
Consensus pattern (27 bp):
TATTTCCTCATTACTTAGTTATTTACT
Found at i:107318019 original size:28 final size:28
Alignment explanation
Indices: 107317988--107318050 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
107317978 TCCCATATTA
107317988 ATGGGGTACAGGAAAAGTCTCATAACTT
1 ATGGGGTACAGGAAAAGTCTCATAACTT
* * *
107318016 ATGGGGTATAGGAAAAGTTTTATAACTT
1 ATGGGGTACAGGAAAAGTCTCATAACTT
107318044 ATGGGGT
1 ATGGGGT
107318051 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (28 bp):
ATGGGGTACAGGAAAAGTCTCATAACTT
Found at i:107318744 original size:7 final size:7
Alignment explanation
Indices: 107318732--107318757 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
107318722 TAATCCATTC
107318732 ATAAATA
1 ATAAATA
107318739 ATAAATA
1 ATAAATA
107318746 ATAAATA
1 ATAAATA
107318753 ATAAA
1 ATAAA
107318758 ATTGTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAAATA
Found at i:107321309 original size:16 final size:15
Alignment explanation
Indices: 107321290--107321333 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
107321280 TTTAACTTTT
107321290 ATAAAAAAGTTAAATA
1 ATAAAAAAGTTAAA-A
* *
107321306 ATAAAAAAGTGAAAG
1 ATAAAAAAGTTAAAA
*
107321321 ATAAAAAAATTAA
1 ATAAAAAAGTTAA
107321334 GAAAAATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (15 bp):
ATAAAAAAGTTAAAA
Found at i:107321324 original size:15 final size:16
Alignment explanation
Indices: 107321290--107321328 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
107321280 TTTAACTTTT
*
107321290 ATAAAAAAGTTAAATA
1 ATAAAAAAGTGAAATA
*
107321306 ATAAAAAAGTGAAA-G
1 ATAAAAAAGTGAAATA
107321321 ATAAAAAA
1 ATAAAAAA
107321329 ATTAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (16 bp):
ATAAAAAAGTGAAATA
Found at i:107322236 original size:19 final size:19
Alignment explanation
Indices: 107322196--107322247 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
107322186 AGAATATTAC
*
107322196 AAAATTATTTAAAAAATTA
1 AAAATTATTTAAAAAATCA
**
107322215 AAAATTATTTAAATTATCA
1 AAAATTATTTAAAAAATCA
* *
107322234 AAAAATATATAAAA
1 AAAATTATTTAAAA
107322248 CTATTTTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTATTTAAAAAATCA
Found at i:107325319 original size:15 final size:16
Alignment explanation
Indices: 107325294--107325323 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
107325284 AAATAGGGAG
107325294 AAAACAACAAAAAAAT
1 AAAACAACAAAAAAAT
107325310 AAAA-AACAAAAAAA
1 AAAACAACAAAAAAA
107325324 AGAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAACAACAAAAAAAT
Found at i:107328623 original size:21 final size:20
Alignment explanation
Indices: 107328582--107328629 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
107328572 TCAAATATAT
* *
107328582 TTAAAAACATAAAAACAAATA
1 TTAAAAAAATAAAAA-TAATA
107328603 TTAAAACAAATAAAAATAATA
1 TTAAAA-AAATAAAAATAATA
*
107328624 CTAAAA
1 TTAAAA
107328630 TAATTCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAAAAATAAAAATAATA
Found at i:107342751 original size:16 final size:16
Alignment explanation
Indices: 107342730--107342765 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
107342720 AATCCCTAAC
* *
107342730 AATCTTCAAGTCCCTA
1 AATCTTCAAATACCTA
107342746 AATCTTCAAATACCTA
1 AATCTTCAAATACCTA
107342762 AATC
1 AATC
107342766 GATAGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:107342827 original size:32 final size:32
Alignment explanation
Indices: 107342787--107342860 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
107342777 GAAATCTTCT
* *
107342787 TGAAATCCCTAAAATTTTTACGAATCAAATCG
1 TGAAATCCCTAAAACTATTACGAATCAAATCG
* *
107342819 TTG-AATCCCTAAAACTATTAGGAATGAAATCG
1 -TGAAATCCCTAAAACTATTACGAATCAAATCG
107342851 TGAAATCCCT
1 TGAAATCCCT
107342861 TAGAACCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 2 0.06
32 32 0.89
33 2 0.06
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (32 bp):
TGAAATCCCTAAAACTATTACGAATCAAATCG
Found at i:107343852 original size:22 final size:22
Alignment explanation
Indices: 107343822--107343866 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
107343812 AAATTTGATC
*
107343822 ATTTGGATAAATGTACTTTACA
1 ATTTCGATAAATGTACTTTACA
*
107343844 ATTTCGATAAATGTTCTTTACA
1 ATTTCGATAAATGTACTTTACA
107343866 A
1 A
107343867 AAGCATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (22 bp):
ATTTCGATAAATGTACTTTACA
Found at i:107346721 original size:51 final size:51
Alignment explanation
Indices: 107346642--107346795 Score: 209
Period size: 51 Copynumber: 3.0 Consensus size: 51
107346632 TATGTGTAGC
* * *
107346642 AGCAACATTATCTAGTCCATCTGATGTTGCAAAGTCACCAGCATATTTATT
1 AGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTTATT
* * * * *
107346693 AGTAACATTATCCACTCTATCTGATGTTGCAAAATCACCAACATATTCATC
1 AGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTTATT
* **
107346744 AGCAACATTATCCACTCCATCTGATGTTGTAAAATCATTAGCATATTTATT
1 AGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTTATT
107346795 A
1 A
107346796 CCAGCAACTT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 87 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (51 bp):
AGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTTATT
Found at i:107348054 original size:16 final size:16
Alignment explanation
Indices: 107348033--107348066 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
107348023 GAATGCTATC
* *
107348033 GATTTAGGTATTTGAA
1 GATTTAGGGACTTGAA
107348049 GATTTAGGGACTTGAA
1 GATTTAGGGACTTGAA
107348065 GA
1 GA
107348067 CTGTTAGTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.35
Consensus pattern (16 bp):
GATTTAGGGACTTGAA
Found at i:107354087 original size:18 final size:18
Alignment explanation
Indices: 107354066--107354131 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
107354056 TATAATATTT
107354066 TATTATGTTATTTTCATA
1 TATTATGTTATTTTCATA
* * *
107354084 TATTTTTTTAAATTTATAATA
1 TATTATGTT--ATTT-TCATA
107354105 TTTTATTATGTTATTTTCATA
1 ---TATTATGTTATTTTCATA
107354126 TATTAT
1 TATTAT
107354132 ATAATTTAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
18 13 0.36
20 4 0.11
21 8 0.22
22 4 0.11
24 7 0.19
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TATTATGTTATTTTCATA
Found at i:107354101 original size:42 final size:42
Alignment explanation
Indices: 107354046--107354129 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
107354036 GTCTGATTTA
107354046 TTTTTAAATTTATAATATTTTATTATGTTATTTTCATATATT
1 TTTTTAAATTTATAATATTTTATTATGTTATTTTCATATATT
107354088 TTTTTAAATTTATAATATTTTATTATGTTATTTTCATATATT
1 TTTTTAAATTTATAATATTTTATTATGTTATTTTCATATATT
107354130 ATATAATTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (42 bp):
TTTTTAAATTTATAATATTTTATTATGTTATTTTCATATATT
Found at i:107355097 original size:36 final size:36
Alignment explanation
Indices: 107355057--107355125 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
107355047 GTTTAGTTCA
* *
107355057 ACATGTTTAAGTTGTTTTTTAAATATATATTTACTT
1 ACATGTTTAAGTTGTTTTTTAAAAAAATATTTACTT
107355093 ACATGTTTAAGTTGTTTTTTAAAAAAATATTTA
1 ACATGTTTAAGTTGTTTTTTAAAAAAATATTTA
107355126 TATATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (36 bp):
ACATGTTTAAGTTGTTTTTTAAAAAAATATTTACTT
Found at i:107355870 original size:29 final size:31
Alignment explanation
Indices: 107355818--107355882 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
107355808 TATAGTTTAT
*
107355818 ATTTTTATAATTTTTAAAGAATTAAATTA-A
1 ATTTTTATAATTTTTAAAGAATTAAAGTATA
** *
107355848 ATTTTTATAA-TTTTAGGGGATTAAAGTATA
1 ATTTTTATAATTTTTAAAGAATTAAAGTATA
107355878 ATTTT
1 ATTTT
107355883 AATTTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (31 bp):
ATTTTTATAATTTTTAAAGAATTAAAGTATA
Found at i:107355883 original size:29 final size:30
Alignment explanation
Indices: 107355815--107355883 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
107355805 TTTTATAGTT
* *
107355815 TATATTTTTATAATTTTTAAAGAATTAAAT
1 TATAATTTTATAATTTTTAAAGAATTAAAG
** *
107355845 TA-AATTTTTATAA-TTTTAGGGGATTAAAG
1 TATAA-TTTTATAATTTTTAAAGAATTAAAG
107355874 TATAATTTTA
1 TATAATTTTA
107355884 ATTTTATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.51
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAAGAATTAAAG
Found at i:107358050 original size:119 final size:119
Alignment explanation
Indices: 107357834--107358051 Score: 285
Period size: 119 Copynumber: 1.8 Consensus size: 119
107357824 CATTGATAGC
* * * *
107357834 AGTGGTTAATTTTCTAACCGTGGATACTTACCAAAAAGTTAAATGAGTGACAATAAAATGTGTTC
1 AGTGATTAATCTTCTAACCGTGGATACTTACCAAAAAGATAAATGAGTGACAATAAAATGTATTC
** *
107357899 CATTTTTGTGAGCGGGATTAAAAATTATTTTTTTCGGTATCCATCATCAGTAAT
66 CATTTCCGCGAGCGGGATTAAAAATTATTTTTTTCGGTATCCATCATCAGTAAT
* * * ** *
107357953 AGTGATTAATCTTCTAACTGTGGATGCTTTCTGAAAAGATAAATGATTGACAATAAAATGTATTC
1 AGTGATTAATCTTCTAACCGTGGATACTTACCAAAAAGATAAATGAGTGACAATAAAATGTATTC
*
107358018 TATTTCCGCGAG-GGGAGGTTAAAAATTATTTTTT
66 CATTTCCGCGAGCGGGA--TTAAAAATTATTTTTT
107358052 AATTATTTGA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
118 4 0.05
119 63 0.76
120 16 0.19
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.37
Consensus pattern (119 bp):
AGTGATTAATCTTCTAACCGTGGATACTTACCAAAAAGATAAATGAGTGACAATAAAATGTATTC
CATTTCCGCGAGCGGGATTAAAAATTATTTTTTTCGGTATCCATCATCAGTAAT
Found at i:107359141 original size:19 final size:20
Alignment explanation
Indices: 107359095--107359174 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
107359085 TTTTTTTTAA
* * *
107359095 ATTTTTTCCTTTTTCCTTTT
1 ATTTTTTTCTTCTTCTTTTT
**
107359115 ATAATTTTC-TCTCTCTTTTT
1 ATTTTTTTCTTCT-TCTTTTT
*
107359135 ATTTTTTTTTGTCATTCTTTTT
1 ATTTTTTTCT-TC-TTCTTTTT
107359157 A-TTTTTTCTTCTTCTTTT
1 ATTTTTTTCTTCTTCTTTT
107359175 ATAATATATG
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
19 9 0.19
20 20 0.43
21 7 0.15
22 10 0.21
23 1 0.02
ACGTcount: A:0.09, C:0.16, G:0.01, T:0.74
Consensus pattern (20 bp):
ATTTTTTTCTTCTTCTTTTT
Found at i:107361388 original size:78 final size:78
Alignment explanation
Indices: 107361256--107361407 Score: 250
Period size: 78 Copynumber: 1.9 Consensus size: 78
107361246 GAGTCACATC
* * * *
107361256 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCCT
1 TCATGTAACTGTAGCGAATCAGAATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
107361321 AATGAATCATATA
66 AATGAATCATATA
*
107361334 TCATGTAACTGTAGCGAATCAGAATTACCTTTTCAGGTCAAATCCTATCTACCTTAAGTTACCAT
1 TCATGTAACTGTAGCGAATCAGAATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
*
107361399 AGTGAATCA
66 AATGAATCA
107361408 GGAATAAATC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.33
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGAATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATATA
Found at i:107361420 original size:40 final size:40
Alignment explanation
Indices: 107361372--107361460 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
107361362 CTTTTCAGGT
107361372 CAAATCCTA-TCTAC-CTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATTC-ACTCTTAA-TTACCATAGTGAATCAGGAA
* * * *
107361412 TAAATCCTATTCACTTTTTATTACCATTGTGAATCAGGAA
1 CAAATCCTATTCACTCTTAATTACCATAGTGAATCAGGAA
*
107361452 CAAAACCTA
1 CAAATCCTA
107361461 ACCACTTTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 36 0.88
41 5 0.12
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (40 bp):
CAAATCCTATTCACTCTTAATTACCATAGTGAATCAGGAA
Found at i:107361467 original size:40 final size:40
Alignment explanation
Indices: 107361392--107361468 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
107361382 CTACCTTAAG
* * **
107361392 TTACCATAGTGAATCAGGAATAAATCCTATTCACTTTTTA
1 TTACCATAGTGAATCAGGAACAAAACCTAACCACTTTTTA
*
107361432 TTACCATTGTGAATCAGGAACAAAACCTAACCACTTT
1 TTACCATAGTGAATCAGGAACAAAACCTAACCACTTT
107361469 GAGGTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.32
Consensus pattern (40 bp):
TTACCATAGTGAATCAGGAACAAAACCTAACCACTTTTTA
Found at i:107363181 original size:10 final size:10
Alignment explanation
Indices: 107363166--107363192 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
107363156 TATATACTAG
107363166 ATAAATAATA
1 ATAAATAATA
107363176 ATAAATAATA
1 ATAAATAATA
107363186 ATAAATA
1 ATAAATA
107363193 TCTCATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAAATAATA
Found at i:107366035 original size:72 final size:71
Alignment explanation
Indices: 107365918--107366162 Score: 355
Period size: 72 Copynumber: 3.4 Consensus size: 71
107365908 GAGGAAAAGT
*
107365918 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCTTATAGACAACG
1 ACCATTTAATTGATTTTCTGAAACATAAAACAACTTCAAAGATGATAACTCCC-TATAGACAACG
107365983 GAATTTG
65 GAATTTG
* * *
107365990 ACCATTTAATTGATTTTCTGAAACATAAAAAAACTCCAAAGATGATAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATAAAACAACTTCAAAGATGATAACT-CCCTATAGACAACG
107366055 GAATTTG
65 GAATTTG
* * * * * * *
107366062 GCCGTTTAACTGATTTTTTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATAAAACAACTTCAAAGATGATAACT-CCCTATAGACAACG
107366127 GAATTTG
65 GAATTTG
*
107366134 ACCATTTAATTGATTTTCTGAAAGATAAA
1 ACCATTTAATTGATTTTCTGAAACATAAA
107366163 GGTGAGTAAC
Statistics
Matches: 152, Mismatches: 20, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
72 149 0.98
73 3 0.02
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.31
Consensus pattern (71 bp):
ACCATTTAATTGATTTTCTGAAACATAAAACAACTTCAAAGATGATAACTCCCTATAGACAACGG
AATTTG
Found at i:107368344 original size:8 final size:8
Alignment explanation
Indices: 107368331--107368356 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
107368321 ATTGCCAAAC
107368331 TTATTACT
1 TTATTACT
107368339 TTATTACT
1 TTATTACT
107368347 TTATTACT
1 TTATTACT
107368355 TT
1 TT
107368357 TCACAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTACT
Found at i:107368466 original size:21 final size:22
Alignment explanation
Indices: 107368426--107368467 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
107368416 TTTTTCCCCC
*
107368426 TATATTAGTACCTAAATTTTCT
1 TATATTAGTACATAAATTTTCT
* *
107368448 TATATTGGTACATAATTTTT
1 TATATTAGTACATAAATTTT
107368468 TTTTGTTATA
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:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (22 bp):
TATATTAGTACATAAATTTTCT
Found at i:107369113 original size:16 final size:16
Alignment explanation
Indices: 107369092--107369125 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
107369082 TAGTTTTCTC
107369092 TATTTTTA-AAATATTT
1 TATTTTTATAAA-ATTT
107369108 TATTTTTATAAAATTT
1 TATTTTTATAAAATTT
107369124 TA
1 TA
107369126 ATATCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTTTATAAAATTT
Found at i:107370947 original size:12 final size:12
Alignment explanation
Indices: 107370932--107370965 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
107370922 ATTATAAAAC
107370932 AAAAAATAAGTA
1 AAAAAATAAGTA
*
107370944 AAAAAACAAGTA
1 AAAAAATAAGTA
107370956 AAAATAATAA
1 AAAA-AATAA
107370966 AAAGTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (12 bp):
AAAAAATAAGTA
Found at i:107371034 original size:23 final size:22
Alignment explanation
Indices: 107370995--107371038 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
107370985 GAAAGTAAGC
*
107370995 AAATAAATAAAAGAAAAAAATT
1 AAATAAACAAAAGAAAAAAATT
*
107371017 AAATAAAACAAAATAAAAAAAT
1 AAAT-AAACAAAAGAAAAAAAT
107371039 GGTAGTAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (22 bp):
AAATAAACAAAAGAAAAAAATT
Found at i:107371163 original size:3 final size:3
Alignment explanation
Indices: 107371157--107371198 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
107371147 TGATAAACAT
107371157 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
107371199 TAAGTATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:107376686 original size:72 final size:72
Alignment explanation
Indices: 107376560--107376766 Score: 247
Period size: 72 Copynumber: 2.9 Consensus size: 72
107376550 AAACCCAGAT
* * * ** * *
107376560 ACTCCAAAGATGATAACTCCCCTATAGACAATGGAA-AAGTACCATGTAATTGATTTTCTGAAAC
1 ACTCCAAAGATGATAACTCTCCAATAGACAAGGGAATTTG-ACCATTTAACTGATTTTCTGAAAC
107376624 ATCAAACA
65 ATCAAACA
* * * *
107376632 ACTCCAAAGATGATAACTGC-CGAATAGACAAGGGAATTTGGCCGTTTAACTGATTTTTTGAAAC
1 ACTCCAAAGATGATAACT-CTCCAATAGACAAGGGAATTTGACCATTTAACTGATTTTCTGAAAC
107376696 ATCAAACA
65 ATCAAACA
* * * *
107376704 ACTTCAAAGATGATAACTCTCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAA
1 ACTCCAAAGATGATAACTCTCCAATAGACAAGGGAATTTGACCATTTAACTGATTTTCTGAAA
107376767 GATAGAGGTG
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
71 1 0.01
72 111 0.97
73 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (72 bp):
ACTCCAAAGATGATAACTCTCCAATAGACAAGGGAATTTGACCATTTAACTGATTTTCTGAAACA
TCAAACA
Found at i:107380508 original size:28 final size:30
Alignment explanation
Indices: 107380441--107380508 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 30
107380431 CATTTGTAAC
*
107380441 AATTAATTAATTTTTAAAATTTATAAAATTCT
1 AATT-ATT-ATTTTTAAAATTTATAAAATTCA
** *
107380473 AACAATTATTTTTAAAA-TTA-AAAATTGA
1 AATTATTATTTTTAAAATTTATAAAATTCA
107380501 AATTATTA
1 AATTATTA
107380509 AAAAAATATG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
28 12 0.40
29 3 0.10
30 10 0.33
31 3 0.10
32 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (30 bp):
AATTATTATTTTTAAAATTTATAAAATTCA
Found at i:107381554 original size:9 final size:9
Alignment explanation
Indices: 107381528--107381564 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
107381518 TGAGTTTTCG
107381528 AATTCGAAT
1 AATTCGAAT
* *
107381537 AACTAGAAT
1 AATTCGAAT
107381546 AATTCGAAT
1 AATTCGAAT
107381555 AATTCGAAT
1 AATTCGAAT
107381564 A
1 A
107381565 TCAAACTATA
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:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:107384112 original size:16 final size:16
Alignment explanation
Indices: 107384091--107384122 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
107384081 AGAGAAAAAC
*
107384091 CAAAAATAAAAATAAA
1 CAAAAACAAAAATAAA
107384107 CAAAAACAAAAATAAA
1 CAAAAACAAAAATAAA
107384123 TTAAGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (16 bp):
CAAAAACAAAAATAAA
Found at i:107387077 original size:26 final size:26
Alignment explanation
Indices: 107387046--107387154 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
107387036 TGAAATGCCC
*
107387046 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
107387072 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
107387098 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
107387124 ATCATGGAACATTTACCTAACCCATTT
1 ATCATGGAACATTTACCTAACCCA-TT
107387151 ATCA
1 ATCA
107387155 ATTTGTACTT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
26 71 0.92
27 6 0.08
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:107394212 original size:26 final size:26
Alignment explanation
Indices: 107394182--107394289 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
107394172 TGAAGTTCCC
107394182 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
107394208 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
107394234 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
107394260 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
107394286 ATCA
1 ATCA
107394290 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:107395786 original size:43 final size:43
Alignment explanation
Indices: 107395731--107395853 Score: 104
Period size: 43 Copynumber: 2.8 Consensus size: 43
107395721 AGTTCTTATA
* * **
107395731 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTGC
1 TTATATATTTCAAATTATTATATATTATTTATTTTGAAATCAC
** * * *** *
107395774 TTATATATTTCAAGCTGTTATATTTTATTTCCCTTGAAATCAT
1 TTATATATTTCAAATTATTATATATTATTTATTTTGAAATCAC
*
107395817 TTATATACTTT-AAATTTTATATATATTATTTATTTTG
1 TTATATA-TTTCAAATTAT-TATATATTATTTATTTTG
107395854 GATTATTTAT
Statistics
Matches: 60, Mismatches: 18, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
43 43 0.72
44 17 0.28
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (43 bp):
TTATATATTTCAAATTATTATATATTATTTATTTTGAAATCAC
Found at i:107395849 original size:4 final size:4
Alignment explanation
Indices: 107395832--107395918 Score: 54
Period size: 4 Copynumber: 21.8 Consensus size: 4
107395822 TACTTTAAAT
* ** * * *
107395832 TTTA TATA TATTA TTTA TTT- TGGA TT-A TTTA TATA CTTA TTTA TATA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
107395879 TATT- TTTA TTTA TATA TATTA TTTA TTTA CTTA TTTA TTT
1 T-TTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTT
107395919 TATACATATA
Statistics
Matches: 62, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
3 6 0.10
4 49 0.79
5 7 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:107395873 original size:12 final size:11
Alignment explanation
Indices: 107395836--107395916 Score: 62
Period size: 12 Copynumber: 7.3 Consensus size: 11
107395826 TTAAATTTTA
107395836 TATATATTATT
1 TATATATTATT
*
107395847 TATTTTGGATTATT
1 TA-TAT--ATTATT
107395861 TATATACTTATT
1 TATATA-TTATT
107395873 TATATA-TATT
1 TATATATTATT
*
107395883 T-T-TATT-TA
1 TATATATTATT
107395891 TATATATTATT
1 TATATATTATT
*
107395902 TATTTACTTATT
1 TATATA-TTATT
107395914 TAT
1 TAT
107395917 TTTATACATA
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 9 0.16
11 9 0.16
12 21 0.38
13 2 0.04
14 8 0.14
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (11 bp):
TATATATTATT
Found at i:107395880 original size:16 final size:16
Alignment explanation
Indices: 107395856--107395907 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
107395846 TTATTTTGGA
* *
107395856 TTATTTATATACTTAT
1 TTATATATATATTTAT
*
107395872 TTATATATATTTTTAT
1 TTATATATATATTTAT
107395888 TTATATATATTATTTAT
1 TTATATATA-TATTTAT
107395905 TTA
1 TTA
107395908 CTTATTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 22 0.71
17 9 0.29
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATATATATTTAT
Found at i:107395916 original size:16 final size:15
Alignment explanation
Indices: 107395856--107395922 Score: 65
Period size: 13 Copynumber: 4.7 Consensus size: 15
107395846 TTATTTTGGA
107395856 TTATTTATATACTTAT
1 TTATTTATATA-TTAT
107395872 TTA--TATATATT-T
1 TTATTTATATATTAT
107395884 TTATTTATATA-TA-
1 TTATTTATATATTAT
*
107395897 TTATTTATTTACTTAT
1 TTATTTATATA-TTAT
107395913 TTATTT-TATA
1 TTATTTATATA
107395923 CATATATACA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
12 4 0.09
13 13 0.30
14 12 0.28
15 5 0.12
16 9 0.21
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTATATATTAT
Found at i:107395920 original size:17 final size:18
Alignment explanation
Indices: 107395868--107395921 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
107395858 ATTTATATAC
107395868 TTATTTATATATA-T-TT
1 TTATTTATATATATTATT
107395884 TTATTTATATATATTA-T
1 TTATTTATATATATTATT
107395901 TTATTTACT-TAT-TTATT
1 TTATTTA-TATATATTATT
107395918 TTAT
1 TTAT
107395922 ACATATATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 16 0.47
17 17 0.50
18 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTATATATATTATT
Found at i:107396182 original size:29 final size:31
Alignment explanation
Indices: 107396150--107396211 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
107396140 ATTATATTTC
* *
107396150 CATTTACTA-TACTTCTATTTTT-ATTTATA
1 CATTTAATATTACTTCTATTTTTCATATATA
*
107396179 CA-TTAATATTACTTTTATTTTTCATATATA
1 CATTTAATATTACTTCTATTTTTCATATATA
107396209 CAT
1 CAT
107396212 ATTTTATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
28 5 0.19
29 14 0.52
30 8 0.30
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (31 bp):
CATTTAATATTACTTCTATTTTTCATATATA
Found at i:107398113 original size:14 final size:14
Alignment explanation
Indices: 107398094--107398144 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
107398084 TGTAGGTTTG
*
107398094 AATTTTAGTTTCAT
1 AATTTTAATTTCAT
*
107398108 AATTTTAATTTCAA
1 AATTTTAATTTCAT
* *
107398122 AAATATAATTTC-T
1 AATTTTAATTTCAT
107398135 ATATTTTAAT
1 A-ATTTTAAT
107398145 AGTATGATAC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
13 1 0.03
14 28 0.97
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (14 bp):
AATTTTAATTTCAT
Found at i:107402050 original size:32 final size:32
Alignment explanation
Indices: 107402014--107402078 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
107402004 TGTATGCATT
107402014 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
107402046 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
107402078 T
1 T
107402079 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:107405357 original size:39 final size:39
Alignment explanation
Indices: 107405307--107405446 Score: 228
Period size: 39 Copynumber: 3.6 Consensus size: 39
107405297 GCTCTGGTGA
107405307 GCTTCAGTTAGCTTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCTTTCGGGCTTCCGTTTAGCACTTATGT
* *
107405346 GCTCCAATTAGCTTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCTTTCGGGCTTCCGTTTAGCACTTATGT
* *
107405385 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCTTTCGGGCTTCCGTTTAGCACTTATGT
107405424 GCTTCAGTTAGAC-TTCGGGCTTC
1 GCTTCAGTTAG-CTTTCGGGCTTC
107405447 AGATCATAAT
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 93 0.99
40 1 0.01
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCTTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:107405447 original size:18 final size:18
Alignment explanation
Indices: 107405385--107405448 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
107405375 GCACTTATGT
*
107405385 GCTTCAGTTAGCCTTCGG
1 GCTTCAGTTAGACTTCGG
* * *
107405403 GCTTCTGTTTAGCACTTATGT
1 GCTTCAG-TTAG-ACTT-CGG
107405424 GCTTCAGTTAGACTTCGG
1 GCTTCAGTTAGACTTCGG
107405442 GCTTCAG
1 GCTTCAG
107405449 ATCATAATGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 14 0.39
19 8 0.22
20 7 0.19
21 7 0.19
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.38
Consensus pattern (18 bp):
GCTTCAGTTAGACTTCGG
Found at i:107409263 original size:17 final size:17
Alignment explanation
Indices: 107409241--107409279 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
107409231 TATATATATA
*
107409241 TATATTTCAAATTATTT
1 TATATTTCAAATTATTG
* *
107409258 TATATTTTAAGTTATTG
1 TATATTTCAAATTATTG
107409275 TATAT
1 TATAT
107409280 GATATATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (17 bp):
TATATTTCAAATTATTG
Found at i:107409410 original size:27 final size:28
Alignment explanation
Indices: 107409380--107409436 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
107409370 ATCATATATT
* *
107409380 TTAAACTTCT-TATTAATTATTTTTAAA
1 TTAAACTTATATATTAATTATTTTAAAA
* *
107409407 TT-AATTTATATATTATTTATTTTAAAA
1 TTAAACTTATATATTAATTATTTTAAAA
107409434 TTA
1 TTA
107409437 TTCATATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (28 bp):
TTAAACTTATATATTAATTATTTTAAAA
Found at i:107409443 original size:26 final size:27
Alignment explanation
Indices: 107409390--107409445 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
107409380 TTAAACTTCT
* *
107409390 TATTAATTATTTTTAAATTAATTTATA
1 TATTAATTATTTTAAAATTAATTCATA
*
107409417 TATTATTTATTTTAAAATT-ATTCATA
1 TATTAATTATTTTAAAATTAATTCATA
107409443 TAT
1 TAT
107409446 GTCATTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TATTAATTATTTTAAAATTAATTCATA
Found at i:107409526 original size:27 final size:26
Alignment explanation
Indices: 107409453--107409546 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
107409443 TATGTCATTC
* * * **
107409453 TTTAATTTGCTTTGTGTATTATAAAT
1 TTTAAATTGTTTTATGTATTATTCAT
* * ** *
107409479 TTTAAAATGCTTTATACATTATTTAT
1 TTTAAATTGTTTTATGTATTATTCAT
107409505 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTATGTATTATTCAT
107409532 TTTAAATTGTTTTAT
1 TTTAAATTGTTTTAT
107409547 TGTTTACTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 34 0.62
27 21 0.38
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (26 bp):
TTTAAATTGTTTTATGTATTATTCAT
Found at i:107411370 original size:122 final size:123
Alignment explanation
Indices: 107411164--107411401 Score: 343
Period size: 122 Copynumber: 1.9 Consensus size: 123
107411154 GATAATCAGG
* * * *
107411164 GTATTCATCATTGATAGCAGTGATTAATTTTCTAACCGTGGATACTTTCTGAAAAGTTAAATGAA
1 GTATCCATCATCGATAGCAGTGATTAATCTTCTAACCGTGGATACTTTCTGAAAAGATAAATGAA
* * *
107411229 TGACAATAACATGTGTTCCATTTTCGTGAGCAG-GATTAAAAATTATTTTTCTTGTCA
66 TGACAATAAAATGTATTCCATTTTCATGAGCAGAGATTAAAAATTATTTTTCTTGTCA
* ** * **
107411286 GTATCCATCATCGGTAGCAGTGATTAATCTTCTAATTGTGGATGCTTTCTGAAAAGATAAATGGT
1 GTATCCATCATCGATAGCAGTGATTAATCTTCTAACCGTGGATACTTTCTGAAAAGATAAATGAA
*
107411351 TGACAATAAAATGTATTCCATTTTCATGAGCGGAGATTAAAAATTATTTTT
66 TGACAATAAAATGTATTCCATTTTCATGAGCAGAGATTAAAAATTATTTTT
107411402 AAATTATTCG
Statistics
Matches: 101, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
122 84 0.83
123 17 0.17
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (123 bp):
GTATCCATCATCGATAGCAGTGATTAATCTTCTAACCGTGGATACTTTCTGAAAAGATAAATGAA
TGACAATAAAATGTATTCCATTTTCATGAGCAGAGATTAAAAATTATTTTTCTTGTCA
Found at i:107415244 original size:35 final size:35
Alignment explanation
Indices: 107415205--107415276 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
107415195 AGTGGTTCTC
107415205 TGATTTAGTAGAACTAAATGGAGGAGTTATTTATA
1 TGATTTAGTAGAACTAAATGGAGGAGTTATTTATA
*
107415240 TGATTTAGTAGAACTAAATGGAGGAGTTGTTTATA
1 TGATTTAGTAGAACTAAATGGAGGAGTTATTTATA
107415275 TG
1 TG
107415277 GGCAATGACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (35 bp):
TGATTTAGTAGAACTAAATGGAGGAGTTATTTATA
Found at i:107422484 original size:14 final size:15
Alignment explanation
Indices: 107422465--107422493 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
107422455 ATAAAGCCAA
107422465 TTCACT-TTACTTCC
1 TTCACTATTACTTCC
107422479 TTCACTATTACTTCC
1 TTCACTATTACTTCC
107422494 ATTATTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.48
Consensus pattern (15 bp):
TTCACTATTACTTCC
Found at i:107431920 original size:72 final size:72
Alignment explanation
Indices: 107431803--107432011 Score: 321
Period size: 72 Copynumber: 2.9 Consensus size: 72
107431793 CCAGATACTT
**
107431803 CAAAGATGATAACTCCCCTATAGACAATGGAA-AAGTACCATTTAATTGATTTTCTGAAACATCA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTG-ACCATTTAATTGATTTTCTGAAACATCA
*
107431867 AATAACTC
65 AACAACTC
*
107431875 CAAAGATGATAACTCCCCTATCGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
107431940 ACAACTC
66 ACAACTC
* * * * *
107431947 CAAAGATGATAACTGCCCTATAGACAAGGGAATTTGGCCATTTAGTTGATTTTCTGAAAGATCAA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
107432012 GGTAAGTAAC
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
72 125 0.99
73 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (72 bp):
CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
ACAACTC
Found at i:107436686 original size:273 final size:273
Alignment explanation
Indices: 107436199--107436745 Score: 1094
Period size: 273 Copynumber: 2.0 Consensus size: 273
107436189 CATCAAGGGT
107436199 AAAGTCAGAATTTTTTTGGGAGCCAGAATTAAGTTGTATATTTTTACGATAGTAAAAACGTAATT
1 AAAGTCAGAATTTTTTTGGGAGCCAGAATTAAGTTGTATATTTTTACGATAGTAAAAACGTAATT
107436264 TCACAATTTTAATAGCCTATATCTTTATAATTTTTAAAAAAGTAAATCAATTTTTTATCATTTTA
66 TCACAATTTTAATAGCCTATATCTTTATAATTTTTAAAAAAGTAAATCAATTTTTTATCATTTTA
107436329 GAGGGACCAAAGTATAATTTTACCATTACTAGTTTAAAATTTTATAAATTATAAAAGAGTCTAAA
131 GAGGGACCAAAGTATAATTTTACCATTACTAGTTTAAAATTTTATAAATTATAAAAGAGTCTAAA
107436394 TGAAAAAAAATTTAATTGTAGGGGGTGGGCCCATGCCAGCCCCTTAGCTACGCCCATGTATGGCA
196 TGAAAAAAAATTTAATTGTAGGGGGTGGGCCCATGCCAGCCCCTTAGCTACGCCCATGTATGGCA
107436459 TAATGTCAACTTA
261 TAATGTCAACTTA
107436472 AAAGTCAGAATTTTTTTGGGAGCCAGAATTAAGTTGTATATTTTTACGATAGTAAAAACGTAATT
1 AAAGTCAGAATTTTTTTGGGAGCCAGAATTAAGTTGTATATTTTTACGATAGTAAAAACGTAATT
107436537 TCACAATTTTAATAGCCTATATCTTTATAATTTTTAAAAAAGTAAATCAATTTTTTATCATTTTA
66 TCACAATTTTAATAGCCTATATCTTTATAATTTTTAAAAAAGTAAATCAATTTTTTATCATTTTA
107436602 GAGGGACCAAAGTATAATTTTACCATTACTAGTTTAAAATTTTATAAATTATAAAAGAGTCTAAA
131 GAGGGACCAAAGTATAATTTTACCATTACTAGTTTAAAATTTTATAAATTATAAAAGAGTCTAAA
107436667 TGAAAAAAAATTTAATTGTAGGGGGTGGGCCCATGCCAGCCCCTTAGCTACGCCCATGTATGGCA
196 TGAAAAAAAATTTAATTGTAGGGGGTGGGCCCATGCCAGCCCCTTAGCTACGCCCATGTATGGCA
107436732 TAATGTCAACTTA
261 TAATGTCAACTTA
107436745 A
1 A
107436746 GCCCTTAACA
Statistics
Matches: 274, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
273 274 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (273 bp):
AAAGTCAGAATTTTTTTGGGAGCCAGAATTAAGTTGTATATTTTTACGATAGTAAAAACGTAATT
TCACAATTTTAATAGCCTATATCTTTATAATTTTTAAAAAAGTAAATCAATTTTTTATCATTTTA
GAGGGACCAAAGTATAATTTTACCATTACTAGTTTAAAATTTTATAAATTATAAAAGAGTCTAAA
TGAAAAAAAATTTAATTGTAGGGGGTGGGCCCATGCCAGCCCCTTAGCTACGCCCATGTATGGCA
TAATGTCAACTTA
Found at i:107436815 original size:25 final size:25
Alignment explanation
Indices: 107436769--107436816 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
107436759 ACATCTGTTG
* * *
107436769 TAAATTTGACCCTTATTTTTTTAGC
1 TAAATTTGACCATTAATCTTTTAGC
*
107436794 TAAATTTGGCCATTAATCTTTTA
1 TAAATTTGACCATTAATCTTTTA
107436817 ATTAATATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (25 bp):
TAAATTTGACCATTAATCTTTTAGC
Found at i:107447058 original size:24 final size:24
Alignment explanation
Indices: 107447026--107447072 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
107447016 GCATGGAGTC
107447026 CTTCCCCATATAAATACCCTAGGG
1 CTTCCCCATATAAATACCCTAGGG
107447050 CTTCCCCATATAAATACCCTAGG
1 CTTCCCCATATAAATACCCTAGG
107447073 CCACGATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.34, G:0.11, T:0.26
Consensus pattern (24 bp):
CTTCCCCATATAAATACCCTAGGG
Found at i:107447163 original size:16 final size:16
Alignment explanation
Indices: 107447138--107447168 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
107447128 AACAATCTAC
*
107447138 CTCTTCTCTCCTTAAT
1 CTCTTATCTCCTTAAT
107447154 CTCTTATCTCCTTAA
1 CTCTTATCTCCTTAA
107447169 CTCCTTTACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.48
Consensus pattern (16 bp):
CTCTTATCTCCTTAAT
Found at i:107447710 original size:6 final size:6
Alignment explanation
Indices: 107447699--107447735 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
107447689 ATTTTATCTT
107447699 TCTATA TCTATA TCTATA TCTATA TCTATA TCTATA T
1 TCTATA TCTATA TCTATA TCTATA TCTATA TCTATA T
107447736 ATAATTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.51
Consensus pattern (6 bp):
TCTATA
Found at i:107448603 original size:20 final size:20
Alignment explanation
Indices: 107448578--107448619 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
107448568 ATAAAACCGT
107448578 GTTGTCAGAGTTAAGGACAC
1 GTTGTCAGAGTTAAGGACAC
107448598 GTTGTCAGAGTTAAGGACAC
1 GTTGTCAGAGTTAAGGACAC
107448618 GT
1 GT
107448620 GATTAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (20 bp):
GTTGTCAGAGTTAAGGACAC
Found at i:107449778 original size:34 final size:34
Alignment explanation
Indices: 107449737--107449826 Score: 162
Period size: 34 Copynumber: 2.6 Consensus size: 34
107449727 TTACTTTTAA
107449737 AAAATCAAATTAAAGTCAAGGTCAACACATTATT
1 AAAATCAAATTAAAGTCAAGGTCAACACATTATT
*
107449771 AAAATCAAATTAAAGTCAAGGACAACACATTATT
1 AAAATCAAATTAAAGTCAAGGTCAACACATTATT
*
107449805 AAAATCAAACTAAAGTCAAGGT
1 AAAATCAAATTAAAGTCAAGGT
107449827 GTGTGGCAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 53 1.00
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.23
Consensus pattern (34 bp):
AAAATCAAATTAAAGTCAAGGTCAACACATTATT
Found at i:107452152 original size:20 final size:21
Alignment explanation
Indices: 107452087--107452152 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 21
107452077 ATAAACATAA
107452087 AAAATTAAAAATATAATAATATT
1 AAAATTAAAAATATAAT-A-ATT
*
107452110 AACAACTTAAAAATGATATTAATT
1 AA-AA-TTAAAAAT-ATAATAATT
107452134 AAAA-TAAAAATATAATAAT
1 AAAATTAAAAATATAATAAT
107452153 ATTCTCTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 7 0.18
21 7 0.18
23 4 0.11
24 7 0.18
25 9 0.24
26 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAATTAAAAATATAATAATT
Found at i:107454056 original size:131 final size:131
Alignment explanation
Indices: 107453809--107454059 Score: 285
Period size: 131 Copynumber: 1.9 Consensus size: 131
107453799 GTAATATTTC
* *
107453809 GTGTTTGGTAATTCGAGAATCATGCCCTATTGTATTGGATTGTGATTTCTCGTTTATTCAAAACA
1 GTGTTTGATAATTCGAGAATCATGCCCTAATGTATTGGATTGTGATTTCTCGTTTATTCAAAACA
* * * * * *
107453874 ACCGAATATTCCTTTAGGTTTTCACTTGTGTTTATTAAAAATCTTCCAAAACGAAGACAATACTC
66 ACCGAAGATTCCTTGAAGTTTTCACTTGCGTTTATTAAAAACCTTCAAAAACGAAGACAATACTC
107453939 G
131 G
* * * * * **
107453940 GTGTTTGATAATTTGGGAATCGTGCCCTAATGTGTTGGGTTGTGATTTCTCGTTT-TTTTAAACA
1 GTGTTTGATAATTCGAGAATCATGCCCTAATGTATTGGATTGTGATTTCTCGTTTATTCAAAACA
* *
107454004 ATCGAAGATTCCTTCGAAG-TTTCAC-TGACGTTT-TCTAAAAACCCTTTAAAAACGAA
66 ACCGAAGATTCCTT-GAAGTTTTCACTTG-CGTTTAT-TAAAAA-CCTTCAAAAACGAA
107454060 TGCTATATTC
Statistics
Matches: 99, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
129 3 0.03
130 35 0.35
131 61 0.62
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (131 bp):
GTGTTTGATAATTCGAGAATCATGCCCTAATGTATTGGATTGTGATTTCTCGTTTATTCAAAACA
ACCGAAGATTCCTTGAAGTTTTCACTTGCGTTTATTAAAAACCTTCAAAAACGAAGACAATACTC
G
Found at i:107457307 original size:3 final size:3
Alignment explanation
Indices: 107457288--107457434 Score: 66
Period size: 3 Copynumber: 49.0 Consensus size: 3
107457278 AAATTGATAG
* * * ** * * *
107457288 TAA TAG TAA TGA TAA TAA TAA TAG TGG TAG TAA AAA TAA TAA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * * *
107457336 TGG TAA TAA TAA -AA GTAA TAA TAA GAA TTAA TAT TAG TAT TAA CAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
* * * * *
107457382 TAA TGA TAA TAG TAA TAGA AAA TAA TAA -AA -AA TGA TAA TAG TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
107457426 TAA TAA TAA
1 TAA TAA TAA
107457435 AAGTGAAGAT
Statistics
Matches: 105, Mismatches: 34, Indels: 10
0.70 0.23 0.07
Matches are distributed among these distances:
2 6 0.06
3 93 0.89
4 6 0.06
ACGTcount: A:0.57, C:0.01, G:0.11, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:107457571 original size:3 final size:3
Alignment explanation
Indices: 107457565--107457669 Score: 52
Period size: 3 Copynumber: 34.3 Consensus size: 3
107457555 GTGGAAAACG
* * * * * *
107457565 ATA ATA ATA ATA CATTA ATA AGA AGA AAA ACA AT- ATA TTT ATA ATA
1 ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * * *
107457611 ACG ATA AATA ATA ATA ATA ATA ATG ATA ATA ATG ATA A-A TATG GTA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
107457657 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
107457670 ATATAAAAAA
Statistics
Matches: 76, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
2 3 0.04
3 66 0.87
4 5 0.07
5 2 0.03
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:107457757 original size:16 final size:16
Alignment explanation
Indices: 107457736--107457775 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
107457726 AACATGTTAA
*
107457736 TAATAAATTAATGAAT
1 TAATAAATGAATGAAT
*
107457752 TAATAAAAGAATGAAT
1 TAATAAATGAATGAAT
*
107457768 AAATAAAT
1 TAATAAAT
107457776 ACACAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (16 bp):
TAATAAATGAATGAAT
Found at i:107460500 original size:3 final size:3
Alignment explanation
Indices: 107460475--107460568 Score: 52
Period size: 3 Copynumber: 32.7 Consensus size: 3
107460465 TAGGTAAAGG
* * *
107460475 TAA TAA -AA TAA T-A TAA TAG TAA TAA TAA CAA T-A TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * *
107460520 TCA TAA T-A CAA TAG TAA TAG TAA TTA CAA AAA TAA TGA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
107460567 TA
1 TA
107460569 TCAAAGTAAA
Statistics
Matches: 66, Mismatches: 21, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
2 7 0.11
3 59 0.89
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:107460500 original size:14 final size:14
Alignment explanation
Indices: 107460481--107460538 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
107460471 AAGGTAATAA
*
107460481 AATAATATAATAGT
1 AATAATACAATAGT
107460495 AATAATAACAATA-T
1 AATAAT-ACAATAGT
107460509 AATAAT--AATAGT
1 AATAATACAATAGT
*
107460521 CATAATACAATAGT
1 AATAATACAATAGT
107460535 AATA
1 AATA
107460539 GTAATTACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 4 0.11
12 6 0.16
14 22 0.59
15 5 0.14
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (14 bp):
AATAATACAATAGT
Found at i:107460509 original size:20 final size:20
Alignment explanation
Indices: 107460474--107460543 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
107460464 ATAGGTAAAG
107460474 GTAATAA-AATAATATAATA
1 GTAATAATAATAATATAATA
*
107460493 GTAATAATAACAATATAATA
1 GTAATAATAATAATATAATA
* * * *
107460513 ATAATAGTCATAATACAATA
1 GTAATAATAATAATATAATA
*
107460533 GTAATAGTAAT
1 GTAATAATAAT
107460544 TACAAAAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 7 0.17
20 35 0.83
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (20 bp):
GTAATAATAATAATATAATA
Found at i:107460862 original size:12 final size:12
Alignment explanation
Indices: 107460822--107460863 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
107460812 AATATTAGTA
107460822 AATAGTAAAGTAAT
1 AATAGT-AA-TAAT
*
107460836 AACAGTAATAAT
1 AATAGTAATAAT
107460848 AATAGTAATAAT
1 AATAGTAATAAT
107460860 AATA
1 AATA
107460864 ATTAATAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 19 0.73
13 2 0.08
14 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:107460865 original size:21 final size:21
Alignment explanation
Indices: 107460774--107460871 Score: 67
Period size: 21 Copynumber: 4.6 Consensus size: 21
107460764 CTAATATATG
* * *
107460774 ATAATAATAGTAATAGCAAAA
1 ATAATAATAATAATAGTAATA
107460795 ATAATGAA-AAT-ATGAGTAATA
1 ATAAT-AATAATAAT-AGTAATA
* * *
107460816 TTAGTAAATAGTAA-AGTAATA
1 ATAAT-AATAATAATAGTAATA
* *
107460837 ACAGTAATAATAATAGTAATA
1 ATAATAATAATAATAGTAATA
107460858 ATAATAATTAATAA
1 ATAATAA-TAATAA
107460872 GTTAAGTAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
20 9 0.15
21 39 0.66
22 10 0.17
23 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.30
Consensus pattern (21 bp):
ATAATAATAATAATAGTAATA
Found at i:107460895 original size:15 final size:15
Alignment explanation
Indices: 107460839--107460896 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
107460829 AAGTAATAAC
107460839 AGTAAT-AA-TAA-T
1 AGTAATAAAGTAATT
*
107460851 AGTAATAATAATAATT
1 AGTAATAA-AGTAATT
* *
107460867 AATAAGTTAAGTAATT
1 AGTAA-TAAAGTAATT
107460883 AGTAATAAAGTAAT
1 AGTAATAAAGTAAT
107460897 AAGCGAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
12 6 0.17
13 1 0.03
14 1 0.03
15 11 0.31
16 15 0.42
17 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (15 bp):
AGTAATAAAGTAATT
Found at i:107460964 original size:3 final size:3
Alignment explanation
Indices: 107460956--107461163 Score: 63
Period size: 3 Copynumber: 68.0 Consensus size: 3
107460946 TTAATTAGTT
* * *
107460956 TAA TAA TAA TAG TAA TAA TAG TAA TAA TAA TAA TAA -ATA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
* * * * * *
107461001 TGA TAA TAG CAA TAA AAA GTAGA GCAA CAAA TAA TAA TACA TTAA TAA
1 TAA TAA TAA TAA TAA TAA -TA-A -TAA -TAA TAA TAA TA-A -TAA TAA
* * * * *
107461049 AAA TAA TAA GAA T-A TAT TAG TAA TAA TAA T-A TAA TGGAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T--AA TAA TAA
* * * * *
107461094 TGA -AA TGAA TAAA TAGA TAA -AA T-A TAG T-G TAA TTA TAA TAA TAT
1 TAA TAA T-AA T-AA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
107461138 TAT TAA CAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
107461164 CCAAAGCAAT
Statistics
Matches: 151, Mismatches: 37, Indels: 34
0.68 0.17 0.15
Matches are distributed among these distances:
2 14 0.09
3 114 0.75
4 16 0.11
5 7 0.05
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:107460997 original size:21 final size:21
Alignment explanation
Indices: 107460956--107461008 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
107460946 TTAATTAGTT
*
107460956 TAATAATAATAGTAATAATAG
1 TAATAATAATAATAATAATAG
107460977 TAATAATAATAATAA-ATATAG
1 TAATAATAATAATAATA-ATAG
*
107460998 TAATGATAATA
1 TAATAATAATA
107461009 GCAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (21 bp):
TAATAATAATAATAATAATAG
Found at i:107461062 original size:23 final size:23
Alignment explanation
Indices: 107461030--107461079 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
107461020 TAGAGCAACA
*
107461030 AATAATAATACATTAATAAAAAT
1 AATAAGAATACATTAATAAAAAT
* * *
107461053 AATAAGAATATATTAGTAATAAT
1 AATAAGAATACATTAATAAAAAT
107461076 AATA
1 AATA
107461080 TAATGGATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (23 bp):
AATAAGAATACATTAATAAAAAT
Found at i:107465192 original size:3 final size:3
Alignment explanation
Indices: 107465173--107465710 Score: 106
Period size: 3 Copynumber: 182.3 Consensus size: 3
107465163 TTAGTTAATT
* * * * * *
107465173 TTA TTA TTT TTA CTA TTA TTG TTA TTA TAA ATA -TA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
107465220 TTG TTA TTA TTA TTTA CATG TTT TTA TTTC TTT TTC TT- TTA TTA TGGTA
1 TTA TTA TTA TTA -TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA T--TA
* ** * * * *
107465269 TTA TTA TTA TTG CCA TCA TTA CTA TTT TTA TT- TT- TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
107465315 TTA TCA -TC TTA TT- TTA TTG TCA TT- TT- TGTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * * *
107465357 TT- TTT TTA TT- TTT TTA TT- TTT TTA CTA CTA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * **
107465402 TTG TTA TCTA TTA TCA ATA TAA TTA TTA CTA TTA TT- TT- TTA CAA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
107465446 TTA TTA TT- TCA CATA CTA TTA TTA CTA TTT TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
107465491 TT- TT- TTA CCA -TA TTA TTA TT- TCCTA TT- TT- TTA TATG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA T-TA TTA TTA
* ** *
107465533 TTG TTA TTA ACA TATA TTA TTA TTA TTA CTGTA CTA TTA TT- TCCTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA -T-TA TTA TTA TTA T--TA
* * * * **
107465579 TTA TTA TTA TTA TTA TTA CTA ATA TCA CTA TTA CCA TT- TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * **
107465625 CTG TTA TTT TTT TTA CTA TCTA AGA -TA TTA TTA -TA CCTT- TT- TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA --TTA TTA TTA
* * *
107465669 TTA TTA CTA TT- GTA TTA TTA CTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
107465711 ATTTTCTTTT
Statistics
Matches: 380, Mismatches: 116, Indels: 78
0.66 0.20 0.14
Matches are distributed among these distances:
2 47 0.12
3 306 0.81
4 19 0.05
5 8 0.02
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:107465370 original size:7 final size:8
Alignment explanation
Indices: 107465354--107465380 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
107465344 ACTATTATTA
107465354 TTATTTTT
1 TTATTTTT
107465362 TTATTTTT
1 TTATTTTT
107465370 TTATTTTT
1 TTATTTTT
107465378 TTA
1 TTA
107465381 CTACTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TTATTTTT
Found at i:107465918 original size:14 final size:15
Alignment explanation
Indices: 107465888--107465920 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
107465878 TTATTATTTG
107465888 TATTATTGTTGTTAC
1 TATTATTGTTGTTAC
*
107465903 TATTATT-TTTTTAC
1 TATTATTGTTGTTAC
107465917 TATT
1 TATT
107465921 TGACATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (15 bp):
TATTATTGTTGTTAC
Done.