Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 38 of 141
Found at i:11408917 original size:19 final size:21
Alignment explanation
Indices: 11408840--11408919 Score: 114
Period size: 21 Copynumber: 4.0 Consensus size: 21
11408830 TTCGAAGATA
11408840 TACAATCTTAGATATGATATG
1 TACAATCTTAGATATGATATG
*
11408861 --CAATCTTAGATATGATATA
1 TACAATCTTAGATATGATATG
*
11408880 TGCAATCTTAGATATGATATG
1 TACAATCTTAGATATGATATG
11408901 TACAATCTTAGA-A-GATATG
1 TACAATCTTAGATATGATATG
11408920 ATTTTGTAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
19 24 0.44
20 1 0.02
21 29 0.54
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (21 bp):
TACAATCTTAGATATGATATG
Found at i:11408918 original size:40 final size:36
Alignment explanation
Indices: 11408833--11408918 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 36
11408823 CATAATTTTC
11408833 GAAGATATACAATCTTAGATATGATATGCAATCTTA
1 GAAGATATACAATCTTAGATATGATATGCAATCTTA
11408869 GATATGATATATGCAATCTTAGATATGATATGTACAATCTTA
1 GA-A-GATATA--CAATCTTAGATATGATATG--CAATCTTA
11408911 GAAGATAT
1 GAAGATAT
11408919 GATTTTGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
36 2 0.05
37 1 0.02
38 6 0.14
40 24 0.55
41 1 0.02
42 10 0.23
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (36 bp):
GAAGATATACAATCTTAGATATGATATGCAATCTTA
Found at i:11409931 original size:23 final size:23
Alignment explanation
Indices: 11409905--11409992 Score: 79
Period size: 23 Copynumber: 3.6 Consensus size: 23
11409895 TAGAGTAATC
* *
11409905 ATTATTTTTTATGTATATATGTA
1 ATTATTTTATATATATATATGTA
11409928 ATTATTTTATATATATATATGTACA
1 ATTATTTTATATATATATATGT--A
* *
11409953 GATTTATTATATATATGTATATGTAA
1 -A-TTATTTTATATATATATATGT-A
11409979 ATATATTTT-TATAT
1 AT-TATTTTATATAT
11409993 TTTTTAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
23 20 0.37
24 6 0.11
25 7 0.13
26 2 0.04
27 19 0.35
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (23 bp):
ATTATTTTATATATATATATGTA
Found at i:11409960 original size:27 final size:25
Alignment explanation
Indices: 11409906--11409992 Score: 90
Period size: 27 Copynumber: 3.5 Consensus size: 25
11409896 AGAGTAATCA
* *
11409906 TTATTTTTTATGTATATATGT-AA-
1 TTATTTTATATATATATATGTAAAT
11409929 TTATTTTATATATATATATGTACAGAT
1 TTATTTTATATATATATATGTA-A-AT
* *
11409956 TTATTATATATATGTATATGTAAAT
1 TTATTTTATATATATATATGTAAAT
*
11409981 ATATTTT-TATAT
1 TTATTTTATATAT
11409993 TTTTTAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
23 19 0.35
24 5 0.09
25 8 0.15
26 2 0.04
27 20 0.37
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (25 bp):
TTATTTTATATATATATATGTAAAT
Found at i:11416340 original size:51 final size:51
Alignment explanation
Indices: 11416259--11416532 Score: 388
Period size: 51 Copynumber: 5.4 Consensus size: 51
11416249 ATTAGTGACA
* * * * *
11416259 AGTGGCAAGTGGCAAATGATAAGTGATAGCTTCAACTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATC
*
11416310 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATC
* * *
11416361 AGTGACAAGTGGCAAGTGATAAGTGATAGCTTCTGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATC
* * * *
11416412 AGTGACAAGTAACAAGTGATAAGTGGTAGCTTTAGCTACAGTTATTTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATC
* *
11416463 AGTGACAAGTGGCAAGTGATAAGTGGTAGCTT-AGCTACATTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATC
* *
11416513 AGGGACAAGTGATAAGTGAT
1 AGTGACAAGTGACAAGTGAT
11416533 CATACGTAAG
Statistics
Matches: 199, Mismatches: 24, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
50 33 0.17
51 166 0.83
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATC
Found at i:11416387 original size:102 final size:102
Alignment explanation
Indices: 11416208--11416532 Score: 472
Period size: 102 Copynumber: 3.1 Consensus size: 102
11416198 ACTTCTGATC
* * *
11416208 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATTAGTGACAAGTGGCAAGTGGCA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAA---G--
*
11416273 AATGATAAGTGATAGCTTCAACTACACTTATCTGATCAGTGACA
61 --TGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
11416317 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
*
11416382 AGTGATAGCTTCTGCTACACTTATCTGATCAGTGACA
66 AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* * *
11416419 AGTAACAAGTGATAAGTGGTAGCTTTAGCTACAGTTATTTGATCAGTGACAAGTGGCAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
* * *
11416484 AGTGGTAGCTT-AGCTACATTTATCTGATCAGGGACA
66 AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
*
11416520 AGTGATAAGTGAT
1 AGTGACAAGTGAT
11416533 CATACGTAAG
Statistics
Matches: 202, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
101 33 0.16
102 112 0.55
106 1 0.00
109 56 0.28
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (102 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
Found at i:11420490 original size:115 final size:115
Alignment explanation
Indices: 11420359--11420567 Score: 418
Period size: 115 Copynumber: 1.8 Consensus size: 115
11420349 GTTATTCAAA
11420359 ATGTTGATGTCAAACTTTTTTAAGAACATTATTTTAACAAAAAATTATTTTATTATTACGAGTTT
1 ATGTTGATGTCAAACTTTTTTAAGAACATTATTTTAACAAAAAATTATTTTATTATTACGAGTTT
11420424 AAATGTGTGGTTTTAAAAAAAATTCATATTATTTTAACAAAAAATTATTT
66 AAATGTGTGGTTTTAAAAAAAATTCATATTATTTTAACAAAAAATTATTT
11420474 ATGTTGATGTCAAACTTTTTTAAGAACATTATTTTAACAAAAAATTATTTTATTATTACGAGTTT
1 ATGTTGATGTCAAACTTTTTTAAGAACATTATTTTAACAAAAAATTATTTTATTATTACGAGTTT
11420539 AAATGTGTGGTTTTAAAAAAAATTCATAT
66 AAATGTGTGGTTTTAAAAAAAATTCATAT
11420568 CGACATTATT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 94 1.00
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (115 bp):
ATGTTGATGTCAAACTTTTTTAAGAACATTATTTTAACAAAAAATTATTTTATTATTACGAGTTT
AAATGTGTGGTTTTAAAAAAAATTCATATTATTTTAACAAAAAATTATTT
Found at i:11424648 original size:42 final size:45
Alignment explanation
Indices: 11424597--11424684 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 45
11424587 AGATGACTAT
**
11424597 ATATAAAATTTTA-ATAA-ATAAAAATATATATTAAA-TTATTAA
1 ATATAAAATTAAACATAATATAAAAATATATATTAAAGTTATTAA
* * *
11424639 ATATTAAATTAAACATAATATAAAAATATATTTTAAAGTTTTTAA
1 ATATAAAATTAAACATAATATAAAAATATATATTAAAGTTATTAA
11424684 A
1 A
11424685 AAATAATGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
42 10 0.26
43 4 0.11
44 17 0.45
45 7 0.18
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (45 bp):
ATATAAAATTAAACATAATATAAAAATATATATTAAAGTTATTAA
Found at i:11426559 original size:4 final size:4
Alignment explanation
Indices: 11426550--11426575 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11426540 AAATAGGGCT
11426550 TTCA TTCA TTCA TTCA TTCA TTCA TT
1 TTCA TTCA TTCA TTCA TTCA TTCA TT
11426576 TAGGGGAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (4 bp):
TTCA
Found at i:11432281 original size:112 final size:114
Alignment explanation
Indices: 11432159--11432397 Score: 322
Period size: 113 Copynumber: 2.1 Consensus size: 114
11432149 TAAATTTTTT
* * * * * *
11432159 TAATCATTATTTATTTGTTTAAGGTTTTAGT-TTACTTATTA-GTGTTTTATTTTGAGGTTTTGG
1 TAATTATTATTTACTTGTTTAAGGTTTT-GTGCTACTTATTATGTGTTTGATTTAGAGATTTTGG
*
11432222 GAGGAGAGGAGGCAACAAAAAATTTTATTTTAAAGGTAAGTTTTT-TTTG
65 AAGGAGAGGAGGCAACAAAAAATTTTATTTTAAAGGTAAGTTTTTATTTG
* * * *
11432271 TAATTGTTATTTACTTGTTTAGGGTTTTGTGCTACTTATTATTTGTTTGATTTAGTGATTTTGGA
1 TAATTATTATTTACTTGTTTAAGGTTTTGTGCTACTTATTATGTGTTTGATTTAGAGATTTTGGA
* * *
11432336 AGGAGAGGAGGCAACAACAAATTTTGTTTTAAAGGTAATTTTTTATTTG
66 AGGAGAGGAGGCAACAAAAAATTTTATTTTAAAGGTAAGTTTTTATTTG
11432385 TAATTATTATTTA
1 TAATTATTATTTA
11432398 AGGTTAGGGT
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
111 2 0.02
112 33 0.30
113 58 0.53
114 16 0.15
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (114 bp):
TAATTATTATTTACTTGTTTAAGGTTTTGTGCTACTTATTATGTGTTTGATTTAGAGATTTTGGA
AGGAGAGGAGGCAACAAAAAATTTTATTTTAAAGGTAAGTTTTTATTTG
Found at i:11432754 original size:32 final size:32
Alignment explanation
Indices: 11432718--11432779 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
11432708 CACATACAAG
11432718 TTAATTACCGAAATGAGTTGTTTGCTACAATA
1 TTAATTACCGAAATGAGTTGTTTGCTACAATA
*
11432750 TTAATTACCGAAATGGGTTGTTTGCTACAA
1 TTAATTACCGAAATGAGTTGTTTGCTACAA
11432780 ATTTGTAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TTAATTACCGAAATGAGTTGTTTGCTACAATA
Found at i:11455453 original size:21 final size:20
Alignment explanation
Indices: 11455422--11455470 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
11455412 CAAACTTTTA
11455422 TTTTAATTTTTAATTAATAT
1 TTTTAATTTTTAATTAATAT
* *
11455442 TTTTATATTTTTAATTCATCT
1 TTTTA-ATTTTTAATTAATAT
11455463 TTTTAATT
1 TTTTAATT
11455471 AATAAATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTAATTTTTAATTAATAT
Found at i:11455703 original size:18 final size:17
Alignment explanation
Indices: 11455666--11455725 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
11455656 ACAATGTAGA
*
11455666 TGAAATACAATGAA-ATT
1 TGAAATATAAT-AATATT
**
11455683 TGAAATATTTTACATATT
1 TGAAATATAATA-ATATT
11455701 TGAAATAATAATAATATT
1 TGAAAT-ATAATAATATT
11455719 TGAAATA
1 TGAAATA
11455726 ATTATTTGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 1 0.03
17 10 0.29
18 20 0.57
19 4 0.11
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.38
Consensus pattern (17 bp):
TGAAATATAATAATATT
Found at i:11456712 original size:43 final size:45
Alignment explanation
Indices: 11456626--11456712 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 45
11456616 TGGTTCGCTG
11456626 TAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATA
1 TAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATA
* * *
11456671 TAATGGAATAGA-GTGTAATAG-TATTC-TTGTGTTTGGTTGAAT
1 TAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
11456713 GGAATGGAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 17 0.45
44 8 0.21
45 12 0.32
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (45 bp):
TAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATA
Found at i:11456969 original size:61 final size:61
Alignment explanation
Indices: 11456904--11457091 Score: 169
Period size: 61 Copynumber: 3.1 Consensus size: 61
11456894 ATATAATTCA
11456904 ATAAAATTCTTAATAATCAA-TATTATTATATGAATTTACTAAAATCATAATATATGATACT
1 ATAAAATTCTTAATAAT-AAGTATTATTATATGAATTTACTAAAATCATAATATATGATACT
* * * * * * *
11456965 ATAAAATATAATTTGA-AATAATTATTATTAAATAT-ATTTTAATTAAAA-CGT-ATA-AT-TTA
1 ATAAAAT-T--CTTAATAATAAGTATTATT--ATATGAATTT-ACTAAAATCATAATATATGATA
11457024 --
60 CT
* *
11457024 ATAAAATTCTTAATAATAAGTATTCTTTTATGAATTTACTAAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATAAGTATTATTATATGAATTTACTAAAATCATAATATATGATACT
11457085 ATAAAAT
1 ATAAAAT
11457092 ATAATTTGAA
Statistics
Matches: 97, Mismatches: 15, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
55 9 0.09
56 9 0.09
57 14 0.14
58 3 0.03
59 9 0.09
61 16 0.16
62 5 0.05
63 13 0.13
64 9 0.09
65 10 0.10
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATAAGTATTATTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:11457160 original size:120 final size:120
Alignment explanation
Indices: 11456865--11457151 Score: 495
Period size: 120 Copynumber: 2.4 Consensus size: 120
11456855 TTTTAACATG
*
11456865 ATTATTATTAAATATATTTTAATTAAAATATATAATTCAATAAAATTCTTAATAATCAATATTAT
1 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTAT
11456930 TATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAAATA
66 TATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAAATA
** *
11456985 ATTATTATTAAATATATTTTAATTAAAACGTATAATTTAATAAAATTCTTAATAAT-AAGTATTC
1 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA-TATTA
*
11457049 TTTTATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAAATA
65 TTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAAATA
* *
11457105 ATTATTATTAAATATATTTTAATTAAAATAAATGATTTAATAAAATT
1 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
11457152 TAAAATAATT
Statistics
Matches: 157, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
119 2 0.01
120 155 0.99
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (120 bp):
ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTAT
TATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAAATA
Found at i:11457850 original size:21 final size:20
Alignment explanation
Indices: 11457826--11457893 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
11457816 AACAACGTTA
11457826 AATGTCCAATTAAGCAACACT
1 AATGTCCAATTAAGC-ACACT
* * *
11457847 AATG-CTAATCATAACCACGCT
1 AATGTCCAAT--TAAGCACACT
11457868 AAATGTCCAATTAAGGCACACT
1 -AATGTCCAATTAA-GCACACT
11457890 AATG
1 AATG
11457894 GTAGTTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
20 4 0.11
21 15 0.42
22 13 0.36
23 4 0.11
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.24
Consensus pattern (20 bp):
AATGTCCAATTAAGCACACT
Found at i:11457891 original size:22 final size:21
Alignment explanation
Indices: 11457824--11457891 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 21
11457814 ATAACAACGT
11457824 TAAATGTCCAATTAAGCAACAC
1 TAAATGTCCAATTAAGC-ACAC
* * *
11457846 T-AATG-CTAATCATAACCACGC
1 TAAATGTCCAAT--TAAGCACAC
11457867 TAAATGTCCAATTAAGGCACAC
1 TAAATGTCCAATTAA-GCACAC
11457889 TAA
1 TAA
11457892 TGGTAGTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
20 4 0.11
21 11 0.31
22 16 0.46
23 4 0.11
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.24
Consensus pattern (21 bp):
TAAATGTCCAATTAAGCACAC
Found at i:11458645 original size:17 final size:17
Alignment explanation
Indices: 11458623--11458655 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11458613 CCCAAATTGA
11458623 GAACTAAAGATAAACCG
1 GAACTAAAGATAAACCG
11458640 GAACTAAAGATAAACC
1 GAACTAAAGATAAACC
11458656 ATGATCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.18, G:0.15, T:0.12
Consensus pattern (17 bp):
GAACTAAAGATAAACCG
Found at i:11461469 original size:7 final size:7
Alignment explanation
Indices: 11461457--11461488 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
11461447 AAATCCCATC
11461457 CACTTTT
1 CACTTTT
11461464 CACTTTT
1 CACTTTT
11461471 CACTTTT
1 CACTTTT
11461478 CACTTTT
1 CACTTTT
11461485 -ACTT
1 CACTT
11461489 CAACAAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (7 bp):
CACTTTT
Found at i:11462631 original size:41 final size:41
Alignment explanation
Indices: 11462586--11462717 Score: 144
Period size: 41 Copynumber: 3.2 Consensus size: 41
11462576 CTTTAAAATG
*
11462586 CCAACATGGCAAAGGGAA-GATCAATTCAGAACTCTACAACA
1 CCAACATGGC-AAGGGAAGGATCAATTCAGAACTCTGCAACA
* * * * *
11462627 CCAACATGACAAGGGAAGGACCAATTCTGAACTCTGTAATA
1 CCAACATGGCAAGGGAAGGATCAATTCAGAACTCTGCAACA
*
11462668 CCAACATGGCGAA-GGAAGGATCAACTTTA-AACTCTGCAACA
1 CCAACATGGC-AAGGGAAGGATCAA-TTCAGAACTCTGCAACA
*
11462709 CCACCATGG
1 CCAACATGG
11462718 AGAAAGATAG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
40 7 0.09
41 64 0.85
42 4 0.05
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (41 bp):
CCAACATGGCAAGGGAAGGATCAATTCAGAACTCTGCAACA
Found at i:11463952 original size:11 final size:11
Alignment explanation
Indices: 11463938--11464006 Score: 61
Period size: 11 Copynumber: 6.3 Consensus size: 11
11463928 AGATAAATAT
11463938 TATTTTATTAA
1 TATTTTATTAA
*
11463949 TATTTTACTAA
1 TATTTTATTAA
* *
11463960 TATTTAATGAGA
1 TATTTTATTA-A
*
11463972 TATTTTATTAT
1 TATTTTATTAA
*
11463983 TATTTT-TTAT
1 TATTTTATTAA
11463993 TA-TTTATTTAA
1 TATTTTA-TTAA
11464004 TAT
1 TAT
11464007 ATAAGGAAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
9 3 0.07
10 6 0.13
11 28 0.61
12 9 0.20
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:11467486 original size:45 final size:45
Alignment explanation
Indices: 11467434--11467529 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
11467424 TCTTTCAACT
* * * *
11467434 ATGGTCTTCGTCTTGTTTACCATGATGCCATAACGTCTTTTAGTC
1 ATGGTCTTAGTCTTGTTTACCATGATACCATAACATCTTTCAGTC
*
11467479 ATGGTCTTAGTCTTGTTTACCATGATACCATAGCATCTTTCAGTC
1 ATGGTCTTAGTCTTGTTTACCATGATACCATAACATCTTTCAGTC
11467524 ATGGTC
1 ATGGTC
11467530 GTACTCATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.41
Consensus pattern (45 bp):
ATGGTCTTAGTCTTGTTTACCATGATACCATAACATCTTTCAGTC
Found at i:11467548 original size:45 final size:44
Alignment explanation
Indices: 11467449--11467610 Score: 164
Period size: 45 Copynumber: 3.6 Consensus size: 44
11467439 CTTCGTCTTG
* * * * * *
11467449 TTTACCATGATGCCATAACGTCTTTTAGTCATGGTCTTAGTCTT
1 TTTATCATGATGCCATAGCATCTTTCAGTCATGGTCTTACTCAT
* * *
11467493 GTTTACCATGATACCATAGCATCTTTCAGTCATGGTCGTACTCAT
1 -TTTATCATGATGCCATAGCATCTTTCAGTCATGGTCTTACTCAT
* * *
11467538 TTATATCATGATGTCATAGCATCTTTTAG-CTATGGTCTTACTCAAA
1 TT-TATCATGATGCCATAGCATCTTTCAGTC-ATGGTCTTACTC-AT
*
11467584 TTTATCATGATGGCATAGCATCTTTCA
1 TTTATCATGATGCCATAGCATCTTTCA
11467611 ACTATAGTCT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
44 3 0.03
45 93 0.94
46 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (44 bp):
TTTATCATGATGCCATAGCATCTTTCAGTCATGGTCTTACTCAT
Found at i:11467621 original size:45 final size:45
Alignment explanation
Indices: 11467507--11467625 Score: 143
Period size: 45 Copynumber: 2.6 Consensus size: 45
11467497 ACCATGATAC
* * * *
11467507 CATAGCATCTTTC-AGTCATGGTCGTACTCATTTATATCATGATGT
1 CATAGCATCTTTCAACT-ATGGTCTTACTCAATTATATCATGATGG
* *
11467552 CATAGCATCTTTTAGCTATGGTCTTACTCAAATT-TATCATGATGG
1 CATAGCATCTTTCAACTATGGTCTTACTC-AATTATATCATGATGG
*
11467597 CATAGCATCTTTCAACTATAGTCTTACTC
1 CATAGCATCTTTCAACTATGGTCTTACTC
11467626 TTTTTTTAAG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 59 0.94
46 4 0.06
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (45 bp):
CATAGCATCTTTCAACTATGGTCTTACTCAATTATATCATGATGG
Found at i:11467625 original size:90 final size:90
Alignment explanation
Indices: 11467412--11467627 Score: 215
Period size: 90 Copynumber: 2.4 Consensus size: 90
11467402 AAACTATTAG
* * * *
11467412 GATGTCATAGCGTCTTTCAACTATGGTCTT-CGTCTTGTTTACCATGATGCCATAACGTCTTTTA
1 GATGCCATAGCATCTTTCAACTATGGTCTTAC-TCTTGTATACCATGATGCCATAACATCTTTTA
* ***
11467476 GTCATGGTCTTAGTCTTGTTTACCAT
65 GTCATGGTCTTACTCAAATTTACCAT
* * * * * *
11467502 GATACCATAGCATCTTTC-AGTCATGGTCGTACTCATT-TATATCATGATGTCATAGCATCTTTT
1 GATGCCATAGCATCTTTCAACT-ATGGTCTTACTC-TTGTATACCATGATGCCATAACATCTTTT
*
11467565 AG-CTATGGTCTTACTCAAATTTATCAT
64 AGTC-ATGGTCTTACTCAAATTTACCAT
* *
11467592 GATGGCATAGCATCTTTCAACTATAGTCTTACTCTT
1 GATGCCATAGCATCTTTCAACTATGGTCTTACTCTT
11467628 TTTTTAAGCG
Statistics
Matches: 101, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
89 5 0.05
90 91 0.90
91 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (90 bp):
GATGCCATAGCATCTTTCAACTATGGTCTTACTCTTGTATACCATGATGCCATAACATCTTTTAG
TCATGGTCTTACTCAAATTTACCAT
Found at i:11470404 original size:6 final size:6
Alignment explanation
Indices: 11470395--11470443 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
11470385 ATTCTCTTTC
*
11470395 CTTTTT C-TTTT C-TTTT C-TTTT CTTTTCTT ATTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT
11470442 CT
1 CT
11470444 AGGCCTGCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 15 0.39
6 16 0.42
7 5 0.13
8 2 0.05
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:11470405 original size:5 final size:5
Alignment explanation
Indices: 11470397--11470440 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
11470387 TCTCTTTCCT
*
11470397 TTTTC TTTTC TTTTC TTTTC TTTTC TTAT- TTTTC TTTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTT
11470441 TCTAGGCCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 3 0.09
5 27 0.77
6 5 0.14
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:11473973 original size:21 final size:21
Alignment explanation
Indices: 11473929--11473975 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
11473919 ATTTAACCTA
* *
11473929 AGGGATTAAGGATATCCTGCG
1 AGGGTTTAAGGATATCCTACG
* *
11473950 AGGGTTTAAGGATATCTTATG
1 AGGGTTTAAGGATATCCTACG
11473971 AGGGT
1 AGGGT
11473976 AATACACATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.30
Consensus pattern (21 bp):
AGGGTTTAAGGATATCCTACG
Found at i:11480533 original size:20 final size:22
Alignment explanation
Indices: 11480505--11480544 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11480495 TTTATTTCAA
11480505 TAATGTT-AAATTTATTTTTTT
1 TAATGTTAAAATTTATTTTTTT
*
11480526 TAAT-TTAAAATTTCTTTTT
1 TAATGTTAAAATTTATTTTT
11480545 ATTGTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (22 bp):
TAATGTTAAAATTTATTTTTTT
Found at i:11482658 original size:24 final size:24
Alignment explanation
Indices: 11482612--11482658 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
11482602 CTCTAGATAC
**
11482612 ACCTCTGAATGCACCTCTGGTTGA
1 ACCTCTGAATGCACCTCCAGTTGA
**
11482636 ACCTCTGGTTGCACCTCCAGTTG
1 ACCTCTGAATGCACCTCCAGTTG
11482659 TACGACCAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.32, G:0.21, T:0.30
Consensus pattern (24 bp):
ACCTCTGAATGCACCTCCAGTTGA
Found at i:11495581 original size:20 final size:20
Alignment explanation
Indices: 11495553--11495592 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11495543 AACCCTAAAT
* *
11495553 CCCTGACTCTTAACCCCTAA
1 CCCTAACTCCTAACCCCTAA
11495573 CCCTAACTCCTAACCCCTAA
1 CCCTAACTCCTAACCCCTAA
11495593 ACCTTAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.47, G:0.03, T:0.23
Consensus pattern (20 bp):
CCCTAACTCCTAACCCCTAA
Found at i:11495608 original size:21 final size:21
Alignment explanation
Indices: 11495564--11495616 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
11495554 CCTGACTCTT
* *
11495564 AACCCCT-AACCCTAACTCCT
1 AACCCCTAAACCCTAAATCCC
*
11495584 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCCTAAATCCC
*
11495605 AACCCTTAAACC
1 AACCCCTAAACC
11495617 ATAATGCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCCTAAACCCTAAATCCC
Found at i:11495646 original size:15 final size:15
Alignment explanation
Indices: 11495611--11495648 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
11495601 TCCCAACCCT
*
11495611 TAAA-CCATAATGCC
1 TAAATCCATAATCCC
11495625 T-AATCCATAATCCC
1 TAAATCCATAATCCC
11495639 TAAATCCATA
1 TAAATCCATA
11495649 TATAATTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:11495840 original size:25 final size:25
Alignment explanation
Indices: 11495804--11495851 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
11495794 TATATGAAAT
* *
11495804 TATTTAATATATAACTTAAAAAACA
1 TATTTAAAATATAAATTAAAAAACA
11495829 TATTTAAAATATAAATTAAAAAA
1 TATTTAAAATATAAATTAAAAAA
11495852 TAATTAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TATTTAAAATATAAATTAAAAAACA
Found at i:11495924 original size:14 final size:14
Alignment explanation
Indices: 11495892--11495948 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
11495882 ACCTGTGAAT
*
11495892 CCCTAAACCCTTAAT
1 CCCT-AACCCTTAAC
*
11495907 CCCTAACTCTTAAC
1 CCCTAACCCTTAAC
11495921 CCCTAACCCTTAATC
1 CCCTAACCCTTAA-C
* *
11495936 CCATAACCTTTAA
1 CCCTAACCCTTAA
11495949 ACCTTAAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
14 20 0.56
15 16 0.44
ACGTcount: A:0.32, C:0.40, G:0.00, T:0.28
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:11495937 original size:43 final size:43
Alignment explanation
Indices: 11495889--11495999 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 43
11495879 CTGACCTGTG
* ** *
11495889 AATCCCTAAACCCTTAATCCCTAACTCTTAACCCCTAACCCTT
1 AATCCCTAAACCCTTAATCCCTAAATCCCAACCCCTAACCCAT
* * * *
11495932 AATCCC-ATAACCTTTAAACCTTAAATCCCAACCCCTAATCCAT
1 AATCCCTA-AACCCTTAATCCCTAAATCCCAACCCCTAACCCAT
* * *
11495975 AATCCCTAAATCCATACTCCCTAAA
1 AATCCCTAAACCCTTAATCCCTAAA
11496000 CCTTAAAATA
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
42 1 0.02
43 50 0.96
44 1 0.02
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.26
Consensus pattern (43 bp):
AATCCCTAAACCCTTAATCCCTAAATCCCAACCCCTAACCCAT
Found at i:11495983 original size:14 final size:14
Alignment explanation
Indices: 11495964--11495998 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
11495954 AAATCCCAAC
11495964 CCCTAATCCATAAT
1 CCCTAATCCATAAT
*
11495978 CCCTAAATCCATACT
1 CCCT-AATCCATAAT
11495993 CCCTAA
1 CCCTAA
11495999 ACCTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.34, C:0.40, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTAATCCATAAT
Found at i:11497866 original size:40 final size:40
Alignment explanation
Indices: 11497811--11497951 Score: 219
Period size: 40 Copynumber: 3.5 Consensus size: 40
11497801 AGGCTTGTGC
**
11497811 CTAGCAGGCTTAATGCCAATGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
11497851 CTAGCAGGCTTAATGCCGGTGAAATATTCAGATTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
11497891 CTAGCAGACTTAATGCCGGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
11497931 CTAGCAGGCTTCATGCTGGTG
1 CTAGCAGGCTTAATGCCGGTG
11497952 TACGGAATTA
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:11498233 original size:2 final size:2
Alignment explanation
Indices: 11498226--11498256 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11498216 AACGAAGGCT
*
11498226 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11498257 GGATGAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:11499417 original size:41 final size:41
Alignment explanation
Indices: 11499363--11499512 Score: 165
Period size: 41 Copynumber: 3.7 Consensus size: 41
11499353 GTTTTTAGCT
* * **
11499363 CTTTTCCAAAAACGCTGCTAAAGCCCCCTGCATTAGCGGCG
1 CTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCG
* * * * ** * *
11499404 CTTTTTCAGAAACGTCGTTAAAACCCTGAGCATTATCGACG
1 CTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCG
* *
11499445 CTTTTTCAGAAACGCCGCTAAAGCCCCAAGCATTAGCGGTG
1 CTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCG
*
11499486 CTTTTTCAAAAACGCCGCTAAATCCCC
1 CTTTTTCAAAAACGCCGCTAAAGCCCC
11499513 GAAAGGTAAG
Statistics
Matches: 88, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (41 bp):
CTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCG
Found at i:11504321 original size:16 final size:17
Alignment explanation
Indices: 11504300--11504333 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11504290 CTAACGGTAG
11504300 ATAAAAAAT-ATTTTCA
1 ATAAAAAATCATTTTCA
*
11504316 ATAAAATATCATTTTCA
1 ATAAAAAATCATTTTCA
11504333 A
1 A
11504334 ATAAGTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAAAAATCATTTTCA
Found at i:11509276 original size:25 final size:25
Alignment explanation
Indices: 11509235--11509339 Score: 117
Period size: 24 Copynumber: 4.3 Consensus size: 25
11509225 CTCTCTCTCT
* * *
11509235 CGAGCCATGTAACGGGAAGCTCATT
1 CGAGCCATATAATGGGAAGCTCATG
*
11509260 CGAGCTATATAATGGGAAGCTCATG
1 CGAGCCATATAATGGGAAGCTCATG
*
11509285 AGAGCC--ATAATCGGGAAGCTCATG
1 CGAGCCATATAAT-GGGAAGCTCATG
* *
11509309 CGAGCCATA-ATTGGGAAGCTCGTG
1 CGAGCCATATAATGGGAAGCTCATG
11509333 CGAGCCA
1 CGAGCCA
11509340 ATAGCGAGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
23 5 0.07
24 35 0.51
25 27 0.40
26 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.19
Consensus pattern (25 bp):
CGAGCCATATAATGGGAAGCTCATG
Found at i:11509313 original size:49 final size:48
Alignment explanation
Indices: 11509247--11509339 Score: 132
Period size: 49 Copynumber: 1.9 Consensus size: 48
11509237 AGCCATGTAA
* *
11509247 CGGGAAGCTCATTCGAGCTATATAATGGGAAGCTCATGAGAGCCATAAT
1 CGGGAAGCTCATGCGAGCCATA-AATGGGAAGCTCATGAGAGCCATAAT
* * *
11509296 CGGGAAGCTCATGCGAGCCATAATTGGGAAGCTCGTGCGAGCCA
1 CGGGAAGCTCATGCGAGCCATAAATGGGAAGCTCATGAGAGCCA
11509340 ATAGCGAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 19 0.49
49 20 0.51
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (48 bp):
CGGGAAGCTCATGCGAGCCATAAATGGGAAGCTCATGAGAGCCATAAT
Found at i:11509351 original size:48 final size:49
Alignment explanation
Indices: 11509250--11509353 Score: 122
Period size: 48 Copynumber: 2.1 Consensus size: 49
11509240 CATGTAACGG
* * * *
11509250 GAAGCTCATTCGAGCTATATAATGGGAAGCTCATGAGAGCCATAATCGG
1 GAAGCTCATGCGAGCCATATAATGGGAAGCTCATGAGAGCCATAAGCGA
* * *
11509299 GAAGCTCATGCGAGCCATA-ATTGGGAAGCTCGTGCGAGCCA-ATAGCGA
1 GAAGCTCATGCGAGCCATATAATGGGAAGCTCATGAGAGCCATA-AGCGA
11509347 GAAGCTC
1 GAAGCTC
11509354 CAGAGGGTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
47 1 0.02
48 29 0.62
49 17 0.36
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (49 bp):
GAAGCTCATGCGAGCCATATAATGGGAAGCTCATGAGAGCCATAAGCGA
Found at i:11514663 original size:24 final size:21
Alignment explanation
Indices: 11514628--11514681 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
11514618 GAGCATAAAG
11514628 AAACAAACAAGATCATAAAACAAA
1 AAACAAACAAGA-CA-AAAA-AAA
11514652 AAACATAA-AAGACAAAAAAAA
1 AAACA-AACAAGACAAAAAAAA
*
11514673 AAACCAACA
1 AAACAAACA
11514682 GAAGAAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 2 0.07
21 8 0.30
22 4 0.15
23 2 0.07
24 9 0.33
25 2 0.07
ACGTcount: A:0.74, C:0.17, G:0.04, T:0.06
Consensus pattern (21 bp):
AAACAAACAAGACAAAAAAAA
Found at i:11515911 original size:18 final size:20
Alignment explanation
Indices: 11515888--11515931 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
11515878 CTAAAACTTT
11515888 ATTTTAATATTT-TTA-T-AC
1 ATTTTAAT-TTTATTATTCAC
11515906 ATTTTAATTTTATTATTCAC
1 ATTTTAATTTTATTATTCAC
11515926 ATTTTA
1 ATTTTA
11515932 TTACTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 11 0.48
19 1 0.04
20 8 0.35
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTAATTTTATTATTCAC
Found at i:11516287 original size:300 final size:300
Alignment explanation
Indices: 11515888--11516537 Score: 814
Period size: 300 Copynumber: 2.2 Consensus size: 300
11515878 CTAAAACTTT
* * **
11515888 ATTTTAATAT-TTTTATACATTTTAATTTTATTATTCACATTTTATTA-CTTACATCAATTGTAT
1 ATTTTAATATATTTTATACATTTT-ATTTTAATATGCACAAGTTATTATCTTACATCAATTGTAT
11515951 ATCAATACTTACTATTTATTAAGTGTTTTATTGAGTTGGTGGC-TCCCTCAACCAAGTCACCAAC
65 ATCAATACTTACTATTTATTAAGTGTTTTATTGAGTTGGTGGCAT-CCTCAACCAAGTCACCAAC
* * * ** **
11516015 TCGGCTAGG-AAATTACGAAAATGTCATTCCATAATTAAAATAAGTTATATTATTTGAGGGTAGT
129 TCAG-TAGGAAAATTACGAAAATATCATTCCATAATTAAAA-AAGCTATACCATTCAAGGGTAGT
* * *
11516079 TTAATCTTTTCATTTTAAGAAAAAC-AATTAAAATATGCATATGGTAGGATTT-AAACACGTGCC
192 TTAATCTTTTCATTTTAACAAAAACTAATTAAAATATGCATATGGTAGGATTTGAAAC-CGCGCA
* *
11516142 AATTAGATTA-AAAAATCCTTAAATTTACCACTCAACCAAAGCTTC
256 AATTAGATTAGAAAAAT-ATTAAATTTACCACTAAACCAAAGCTTC
* *
11516187 ATTTTAATATATTTTAGACATCTTTATTTTAATATGCACAAGTTAATATCTT-CATCAATTGTAT
1 ATTTTAATATATTTTATACAT-TTTATTTTAATATGCACAAGTTATTATCTTACATCAATTGTAT
* * * *
11516251 ATCAATACTTACTATTTATTAAGTGTTTTATTGAGTTGGTGTCATCCTCAATCGAGTGACCAACT
65 ATCAATACTTACTATTTATTAAGTGTTTTATTGAGTTGGTGGCATCCTCAACCAAGTCACCAACT
* * * * * *
11516316 CAGTTGGAAAATTATGGAAATATCCTTCCCTAATTAAAAAAGCTATACCATTCAAGGGTATTTTA
130 CAGTAGGAAAATTACGAAAATATCATTCCATAATTAAAAAAGCTATACCATTCAAGGGTAGTTTA
* * * * *
11516381 GTCTTTTTATTTTAACAAAAACTAATTAAAATTTGCATATGGTGGGATTTGAATCCGCGCAAATT
195 ATCTTTTCATTTTAACAAAAACTAATTAAAATATGCATATGGTAGGATTTGAAACCGCGCAAATT
* * * *
11516446 AGATTAGTAAAATATTAAATTTATCACTAAACCAAAGTTTT
260 AGATTAGAAAAATATTAAATTTACCACTAAACCAAAGCTTC
*
11516487 ATTTTTGATATATTTTATA-ATTTTTATTTTAATATGCACAAGTTATTATCT
1 A-TTTTAATATATTTTATACA-TTTTATTTTAATATGCACAAGTTATTATCT
11516538 CTATTAGTTG
Statistics
Matches: 301, Mismatches: 40, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
299 52 0.17
300 218 0.72
301 31 0.10
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (300 bp):
ATTTTAATATATTTTATACATTTTATTTTAATATGCACAAGTTATTATCTTACATCAATTGTATA
TCAATACTTACTATTTATTAAGTGTTTTATTGAGTTGGTGGCATCCTCAACCAAGTCACCAACTC
AGTAGGAAAATTACGAAAATATCATTCCATAATTAAAAAAGCTATACCATTCAAGGGTAGTTTAA
TCTTTTCATTTTAACAAAAACTAATTAAAATATGCATATGGTAGGATTTGAAACCGCGCAAATTA
GATTAGAAAAATATTAAATTTACCACTAAACCAAAGCTTC
Found at i:11520043 original size:36 final size:36
Alignment explanation
Indices: 11520002--11520402 Score: 343
Period size: 36 Copynumber: 10.0 Consensus size: 36
11519992 GGTAGCTTTA
11520002 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
11520038 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
11520083 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
11520120 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
11520165 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
11520202 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
11520247 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
11520284 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
11520329 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
11520366 GATATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
11520402 G
1 G
11520403 GTAGCTTAGC
Statistics
Matches: 306, Mismatches: 19, Indels: 80
0.76 0.05 0.20
Matches are distributed among these distances:
36 154 0.50
37 8 0.03
40 8 0.03
42 8 0.03
45 8 0.03
46 120 0.39
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:11520103 original size:82 final size:82
Alignment explanation
Indices: 11519966--11520445 Score: 885
Period size: 82 Copynumber: 5.9 Consensus size: 82
11519956 TTTGAGTCCT
*
11519966 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
11520031 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
11520048 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
11520113 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
11520130 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
11520195 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
11520212 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
11520277 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
11520294 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
11520359 GATAAGTGATATACTTA
66 GATAAGTGCTACACTTA
* * *
11520376 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC-AGGGACAAA-T
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
11520438 GATAAGTG
66 GATAAGTG
11520446 ATCATACGTA
Statistics
Matches: 392, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
79 9 0.02
80 7 0.02
81 20 0.05
82 356 0.91
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:11525760 original size:51 final size:51
Alignment explanation
Indices: 11525684--11525788 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
11525674 CTATGTGCCG
* * *
11525684 CAGCAACATTATCTAGTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
1 CAGCAACATTATCCACTCCACCTGATGTTGCAAAATCACCAGCATATTCAT
11525735 CAGCAACATTATCCACTCCACCTGATGTTGCAAAATCACCAGCATATTCAT
1 CAGCAACATTATCCACTCCACCTGATGTTGCAAAATCACCAGCATATTCAT
11525786 CAG
1 CAG
11525789 TAGCAACTTC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCACCTGATGTTGCAAAATCACCAGCATATTCAT
Found at i:11526811 original size:117 final size:117
Alignment explanation
Indices: 11526648--11527076 Score: 824
Period size: 117 Copynumber: 3.7 Consensus size: 117
11526638 AATCAACATC
* *
11526648 ATCGGGACCACTGTCGCA-TCACAAATCGACAAAACAAACCCTACATTGTGGCACTGAAATTGCA
1 ATCGGGACCACTATCGTATTCA-AAATCGACAAAACAAACCCTACATTGTGGCACTGAAATTGCA
11526712 ATAATAAATCACAATTATCCATCTACAATTTTGACAACAGTTTTATCAATGAT
65 ATAATAAATCACAATTATCCATCTACAATTTTGACAACAGTTTTATCAATGAT
11526765 ATCGGGACCACTATCGTATTCAAAATCGACAAAACAAACCCTACATTGTGGCACTGAAATTGCAA
1 ATCGGGACCACTATCGTATTCAAAATCGACAAAACAAACCCTACATTGTGGCACTGAAATTGCAA
11526830 TAATAAATCACAATTATCCATCTACAATTTTGACAACAGTTTTATCAATGAT
66 TAATAAATCACAATTATCCATCTACAATTTTGACAACAGTTTTATCAATGAT
11526882 ATCGGGACCACTATCGTATTCAAAATCGACAAAACAAACCCTACATTGTGGCACTGAAATTGCAA
1 ATCGGGACCACTATCGTATTCAAAATCGACAAAACAAACCCTACATTGTGGCACTGAAATTGCAA
11526947 TAATAAATCACAATTATCCATCTACAATTTTGACAACAGTTTTATCAATGAT
66 TAATAAATCACAATTATCCATCTACAATTTTGACAACAGTTTTATCAATGAT
11526999 ATCGGGACCACTATCGTATTCAAAATCGACAAAACAAACCCTACATTGTGGCACTGAAATTGCAA
1 ATCGGGACCACTATCGTATTCAAAATCGACAAAACAAACCCTACATTGTGGCACTGAAATTGCAA
11527064 TAATAAATCACAA
66 TAATAAATCACAA
11527077 ATAACCAACA
Statistics
Matches: 309, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
117 306 0.99
118 3 0.01
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.27
Consensus pattern (117 bp):
ATCGGGACCACTATCGTATTCAAAATCGACAAAACAAACCCTACATTGTGGCACTGAAATTGCAA
TAATAAATCACAATTATCCATCTACAATTTTGACAACAGTTTTATCAATGAT
Found at i:11527313 original size:17 final size:16
Alignment explanation
Indices: 11527270--11527317 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
11527260 GAATGCTAAT
*
11527270 GATTTAGGGATTTCAA
1 GATTTAGGGATTTAAA
*
11527286 GATTTAAGGATTTAAA
1 GATTTAGGGATTTAAA
11527302 GATTTTAGGGATTTAA
1 GA-TTTAGGGATTTAA
11527318 TGAAGATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (16 bp):
GATTTAGGGATTTAAA
Found at i:11529461 original size:14 final size:15
Alignment explanation
Indices: 11529435--11529464 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11529425 TTTCTCTGCG
11529435 TTTTCTTTACTATTT
1 TTTTCTTTACTATTT
11529450 TTTTCTTT-CTATTT
1 TTTTCTTTACTATTT
11529464 T
1 T
11529465 ATATATGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCTTTACTATTT
Found at i:11529864 original size:28 final size:27
Alignment explanation
Indices: 11529800--11529864 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
11529790 ACGAATTATT
* *
11529800 TTTTATATAATATATTTTTAATAACTC
1 TTTTATATAATATACTTTTAATAACAC
*
11529827 TTATTTTATAATATACTTTTAA-AAGCCAC
1 TT-TTATATAATATACTTTTAATAA--CAC
11529856 TTTTATATA
1 TTTTATATA
11529865 TTTCATCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
27 4 0.13
28 23 0.74
29 4 0.13
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (27 bp):
TTTTATATAATATACTTTTAATAACAC
Found at i:11542609 original size:129 final size:130
Alignment explanation
Indices: 11542459--11542740 Score: 397
Period size: 129 Copynumber: 2.2 Consensus size: 130
11542449 TCGCATCAGG
*
11542459 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAAAGATT-CAAATCTTATCTCCCTGAGATT
1 TCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAAA-ATTACAAATCTTATCTCCCTGAGATT
* * *
11542523 ACAGCGAAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAACGGATTAAAA-G
65 ACAGCGAAGCAGATTAAAGCCAATAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAAGG
11542587 A
130 A
* * *
11542588 TCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAGAATTACAGATCTTATCTTCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAAAATTACAAATCTTATCTCCCTGAGATTA
* * * ** *
11542653 CAGCGGAGTAGATTAAAGTCAATAATCCTATCTCCCTGAGATTACAGTGGAGTGTATTAAAAGGA
66 CAGCGAAGCAGATTAAAGCCAATAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAAGGA
* * *
11542718 TCTTATCTCTCTAAGGTTACAGT
1 TCTTATCTCCCTGAGATTACAGT
11542741 AGAGTAGATC
Statistics
Matches: 135, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
128 3 0.02
129 110 0.81
130 22 0.16
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (130 bp):
TCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAAAATTACAAATCTTATCTCCCTGAGATTA
CAGCGAAGCAGATTAAAGCCAATAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAAGGA
Found at i:11542694 original size:44 final size:42
Alignment explanation
Indices: 11542375--11542837 Score: 164
Period size: 46 Copynumber: 10.9 Consensus size: 42
11542365 TTGAAGTCGG
* *
11542375 TAATCCTATCTCCCTGAGATTACAGTGGAG-CGAATT-AA-AA
1 TAATCTTATCTCCCTGAGATTACAGTGGAGTAG-ATTAAAGAA
** * * * * * *
11542415 GGATCTTTTCTCTCTGAAATTACAGTAGAGTAGA-T--CGCA
1 TAATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAGAA
* * ** *
11542454 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAAAGAT
1 T-A-ATCTTATCTCCCTGAGATTACAGTGGAGTAGA--TTAAAGAA
* * * * *
11542500 TCAAATCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCCAG
1 T--AATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAG--AA
* * ***
11542546 TAATCCTATTTCCCTGAGATTACAGTGGAACGGATT-AA-AA
1 TAATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAGAA
* * * ***
11542586 -GATCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAGAA
1 TAATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAGAA
* *
11542627 TTACAGATCTTATCTTCCTGAGATTACAGCGGAGTAGATTAAAGTCAA
1 -T--A-ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAG--AA
*
11542675 TAATCCTATCTCCCTGAGATTACAGTGGAGT-GTATT-AA-AA
1 TAATCTTATCTCCCTGAGATTACAGTGGAGTAG-ATTAAAGAA
** * * * * * *
11542715 GGATCTTATCTCTCTAAGGTTACAGTAGAGTAGA-T--CGCA
1 TAATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAGAA
* * * * ***
11542754 TCAGGTCTTATCTCGCTTAGATTACAGTGGAATAGACCGAAGAA
1 T-A-ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAGAA
* *
11542798 TTACAGATCTTATCTCCCTGAGATTACAGCGAAGTAGATT
1 -T--A-ATCTTATCTCCCTGAGATTACAGTGGAGTAGATT
11542838 GAAGTTAATA
Statistics
Matches: 306, Mismatches: 86, Indels: 56
0.68 0.19 0.12
Matches are distributed among these distances:
39 31 0.10
40 54 0.18
41 56 0.18
43 5 0.02
44 63 0.21
45 2 0.01
46 91 0.30
47 2 0.01
48 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (42 bp):
TAATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAGAA
Found at i:11544658 original size:28 final size:27
Alignment explanation
Indices: 11544594--11544658 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
11544584 ACGAATTATT
* *
11544594 TTTTATATAATATATTTTTAATAACTC
1 TTTTATATAATATACTTTTAATAACAC
*
11544621 TTATTTTATAATATACTTTTAA-AAGCCAC
1 TT-TTATATAATATACTTTTAATAA--CAC
11544650 TTTTATATA
1 TTTTATATA
11544659 TTTCATCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
27 4 0.13
28 23 0.74
29 4 0.13
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (27 bp):
TTTTATATAATATACTTTTAATAACAC
Found at i:11549191 original size:25 final size:25
Alignment explanation
Indices: 11549158--11549207 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11549148 AGTGATTTCA
*
11549158 TTTAGTTTTATATTTTAGTTATTTT
1 TTTAGTTTTATATTTTAGTAATTTT
* * *
11549183 TTTATTTTTATTTTTTTGTAATTTT
1 TTTAGTTTTATATTTTAGTAATTTT
11549208 GTTTTTGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (25 bp):
TTTAGTTTTATATTTTAGTAATTTT
Found at i:11550215 original size:16 final size:16
Alignment explanation
Indices: 11550186--11550248 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
11550176 TTGTTCTAAA
**
11550186 AAAAGAATAAAAAATCG
1 AAAAGAA-AAAAAAAAG
11550203 AAAAGAAAAAAAAAAG
1 AAAAGAAAAAAAAAAG
* *
11550219 AAAAGAAAAACATAA-
1 AAAAGAAAAAAAAAAG
11550234 AAAAGAGAAAAAAAA
1 AAAAGA-AAAAAAAA
11550249 TTTATTGAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
15 6 0.15
16 26 0.67
17 7 0.18
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.05
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAG
Found at i:11550217 original size:11 final size:11
Alignment explanation
Indices: 11550203--11550248 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
11550193 TAAAAAATCG
11550203 AAAAGAAAAAA
1 AAAAGAAAAAA
*
11550214 AAAAGAAAAGA
1 AAAAGAAAAAA
* *
11550225 AAAACATAAAA
1 AAAAGAAAAAA
*
11550236 AAGAGAAAAAA
1 AAAAGAAAAAA
11550247 AA
1 AA
11550249 TTTATTGAGC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:11550290 original size:44 final size:43
Alignment explanation
Indices: 11550242--11550333 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
11550232 AAAAAAGAGA
11550242 AAAAAAATTTATTGAGCTTGAATAATTAGTTTCATATTCTATT
1 AAAAAAATTTATTGAGCTTGAATAATTAGTTTCATATTCTATT
*
11550285 AAAAAAATTTATTGAGCTTGAATAATTAGTTTCATATTTTATT
1 AAAAAAATTTATTGAGCTTGAATAATTAGTTTCATATTCTATT
*
11550328 GAAAAA
1 AAAAAA
11550334 CTCATTTCTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (43 bp):
AAAAAAATTTATTGAGCTTGAATAATTAGTTTCATATTCTATT
Found at i:11560665 original size:20 final size:20
Alignment explanation
Indices: 11560640--11560678 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
11560630 TATTCCCTCA
11560640 GCAGTTGTAATAGGTATTTC
1 GCAGTTGTAATAGGTATTTC
11560660 GCAGTTGTAATAGGTATTT
1 GCAGTTGTAATAGGTATTT
11560679 TGGGGTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (20 bp):
GCAGTTGTAATAGGTATTTC
Found at i:11564258 original size:21 final size:21
Alignment explanation
Indices: 11564216--11564259 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11564206 TAATAAAATA
* *
11564216 TATTTTATATTATTTTTATAG
1 TATTATATATTATATTTATAG
11564237 TATTATATATTATGATTT-TAG
1 TATTATATATTAT-ATTTATAG
11564258 TA
1 TA
11564260 AATTCATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (21 bp):
TATTATATATTATATTTATAG
Found at i:11564315 original size:18 final size:17
Alignment explanation
Indices: 11564289--11564323 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11564279 AATATTAAGA
*
11564289 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11564306 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11564324 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11572421 original size:16 final size:16
Alignment explanation
Indices: 11572400--11572467 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
11572390 TTTGGTTCGC
11572400 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
11572416 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
11572432 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11572448 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11572464 TGTA
1 TGTA
11572468 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11572724 original size:18 final size:17
Alignment explanation
Indices: 11572703--11572737 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11572693 TTATTATTAA
*
11572703 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11572721 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11572738 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11572844 original size:18 final size:17
Alignment explanation
Indices: 11572823--11572857 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11572813 TTATTATTAA
*
11572823 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11572841 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11572858 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11572899 original size:120 final size:120
Alignment explanation
Indices: 11572686--11572982 Score: 594
Period size: 120 Copynumber: 2.5 Consensus size: 120
11572676 ATCATATTTA
11572686 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
11572751 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
11572806 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
11572871 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
11572926 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
11572983 GACAACTGCC
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 177 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:11572964 original size:18 final size:17
Alignment explanation
Indices: 11572943--11572977 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11572933 TTATTATTAA
*
11572943 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11572961 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11572978 TCTTAGACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11576833 original size:21 final size:21
Alignment explanation
Indices: 11576807--11576864 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 21
11576797 ACTTAAATCC
*
11576807 TTTCTCTCAAATTCTCTCGTA
1 TTTCTCTCAAATTCTCTCATA
*
11576828 TTTCTCTCCAGTATTCTCTCATA
1 TTTCTCT-CA-AATTCTCTCATA
*
11576851 TTCCTCTCAAATTC
1 TTTCTCTCAAATTC
11576865 CTCTTAAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 11 0.35
22 4 0.13
23 16 0.52
ACGTcount: A:0.19, C:0.31, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTCTCTCAAATTCTCTCATA
Found at i:11576859 original size:11 final size:10
Alignment explanation
Indices: 11576808--11576864 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
11576798 CTTAAATCCT
*
11576808 TTCTCTCAAA
1 TTCTCTCATA
*
11576818 TTCTCTCGTA
1 TTCTCTCATA
11576828 TTTCTCTCCAGTA
1 -TTCTCT-CA-TA
11576841 TTCTCTCATA
1 TTCTCTCATA
*
11576851 TTCCTCTCAAA
1 TT-CTCTCATA
11576862 TTC
1 TTC
11576865 CTCTTAAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 13 0.33
11 17 0.44
12 7 0.18
13 2 0.05
ACGTcount: A:0.19, C:0.32, G:0.04, T:0.46
Consensus pattern (10 bp):
TTCTCTCATA
Found at i:11578694 original size:18 final size:18
Alignment explanation
Indices: 11578671--11578713 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11578661 TGCCAGGTGC
* *
11578671 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
11578689 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
11578707 GTTTCCT
1 GTATCCT
11578714 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:11582386 original size:126 final size:126
Alignment explanation
Indices: 11582158--11582444 Score: 389
Period size: 126 Copynumber: 2.3 Consensus size: 126
11582148 AGCCAAATAT
*
11582158 GAACTACTGTAGCAAAGGAACGCCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAACTACTGTAGCAAAAGAACGCCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * * *
11582223 CTACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTCTTTCAG
66 CTACTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTTCTCAAAATCATTCTTTAAG
* ** * * *
11582284 GAACTACTGTAGCAAAAGAGCGGTCACGTGGGAGCTTCTTTTAGTACTTTTGTTGACAATGCATC
1 GAACTACTGTAGCAAAAGAACGCCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * * * *
11582349 CTGCTTAAAGTGTTTTTGCCATTATTTGCTCAAAAACGTCTTCTCAAAATCATTTTTTAAG
66 CTACTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTTCTCAAAATCATTCTTTAAG
* * *
11582410 TAACTACTGTAGCAAAA-AA-GTCCACGTGAGAGCTT
1 GAACTACTGTAGCAAAAGAACGCCCACGTGGGAGCTT
11582445 TTTTATATTA
Statistics
Matches: 140, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
124 13 0.09
125 1 0.01
126 126 0.90
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (126 bp):
GAACTACTGTAGCAAAAGAACGCCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
CTACTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTTCTCAAAATCATTCTTTAAG
Found at i:11582627 original size:96 final size:96
Alignment explanation
Indices: 11582460--11582776 Score: 467
Period size: 96 Copynumber: 3.3 Consensus size: 96
11582450 TATTAACAAA
* *
11582460 TAATTTAATTAAGTAACCCTAAACCCTAATTTATTTTAGTTTTTCCTTAAAAACCCTAAACACTA
1 TAATTTAATTAAGTAACCCTAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCATAAACACTA
*
11582525 AACCCTAATCTAATTTTTTTAAAATTTATAAT
65 AACCCTAATCTAATTTTTTAAAAATTTATAAT
* ** * *
11582557 TAATTTACTTAAGTAACTTTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCTTTAACACTAA
1 TAATTTAATTAAGTAACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCATAAACACTAA
*
11582622 ACCCTAATCTGATTTTTTAAAAATTTATAAT
66 ACCCTAATCTAATTTTTTAAAAATTTATAAT
* * * * *
11582653 TAAATTACTCAAGTAACCCTAAACCCTAATTTAATTGATTTTTCCTT-AAAACCATAAACACAAA
1 TAATTTAATTAAGTAACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCATAAACACTAA
*
11582717 ACCCTAATCTAA-TTTTGAAAAATTTATAAT
66 ACCCTAATCTAATTTTTTAAAAATTTATAAT
*
11582747 TAATTTAATTAAGAAACCCTAAACCCTAAT
1 TAATTTAATTAAGTAACCCTAAACCCTAAT
11582777 CTCTTATTTA
Statistics
Matches: 198, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
94 43 0.22
95 25 0.13
96 96 0.48
97 34 0.17
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.39
Consensus pattern (96 bp):
TAATTTAATTAAGTAACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCATAAACACTAA
ACCCTAATCTAATTTTTTAAAAATTTATAAT
Found at i:11583011 original size:40 final size:39
Alignment explanation
Indices: 11582933--11583012 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 39
11582923 ACGGGGAAAA
*
11582933 TGCTTCCTCAAGGAAGCGCTTTGTCCACGTGGACACAAAG
1 TGCTCCCTCAAGGAAGCGCTTTGTCCACGTGGA-ACAAAG
* *
11582973 TGCTCCCTCAAGGACGCGTTTTCTGTCCACGTGG-ACAAAG
1 TGCTCCCTCAAGGAAGCG-CTT-TGTCCACGTGGAACAAAG
11583013 CGCTTCCTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 22 0.63
41 2 0.06
42 11 0.31
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (39 bp):
TGCTCCCTCAAGGAAGCGCTTTGTCCACGTGGAACAAAG
Found at i:11583567 original size:20 final size:20
Alignment explanation
Indices: 11583544--11583639 Score: 81
Period size: 20 Copynumber: 4.7 Consensus size: 20
11583534 AAAAATTACA
*
11583544 AAAAAATT-AAAATAATTTT
1 AAAAAATTCAAAATATTTTT
* * *
11583563 CAAAAATTCACAATATTTAT
1 AAAAAATTCAAAATATTTTT
11583583 AAAAAATTCAAAATTTATATTTTT
1 AAAAAATTC-AAA---ATATTTTT
11583607 AAAAAATT-ACAAAT-TTTTT
1 AAAAAATTCA-AAATATTTTT
11583626 AAAAAATTCTAAAA
1 AAAAAATTC-AAAA
11583640 ATATATAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
19 20 0.32
20 21 0.34
21 3 0.05
22 1 0.02
23 2 0.03
24 15 0.24
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTTT
Found at i:11583580 original size:19 final size:21
Alignment explanation
Indices: 11583544--11583682 Score: 75
Period size: 19 Copynumber: 6.8 Consensus size: 21
11583534 AAAAATTACA
11583544 AAAAAATT-AAAATAATTT-T
1 AAAAAATTCAAAATAATTTAT
* *
11583563 CAAAAATTCACAAT-ATTTAT
1 AAAAAATTCAAAATAATTTAT
*
11583583 AAAAAATTCAAAATTTATATTTTT
1 AAAAAATTCAAAA--TA-ATTTAT
*
11583607 AAAAAATT-ACAAAT--TTTTT
1 AAAAAATTCA-AAATAATTTAT
* *
11583626 AAAAAATTCTAAA-AATATAT
1 AAAAAATTCAAAATAATTTAT
11583646 AAATAAAGTT-AAAAT--TTTA-
1 AAA-AAA-TTCAAAATAATTTAT
*
11583665 AAAAATTTCTAAAATAAT
1 AAAAAATTC-AAAATAAT
11583683 AATTTTGGAC
Statistics
Matches: 92, Mismatches: 11, Indels: 32
0.68 0.08 0.24
Matches are distributed among these distances:
17 2 0.02
18 2 0.02
19 35 0.38
20 25 0.27
21 7 0.08
22 4 0.04
23 1 0.01
24 16 0.17
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (21 bp):
AAAAAATTCAAAATAATTTAT
Found at i:11583645 original size:43 final size:43
Alignment explanation
Indices: 11583544--11583645 Score: 108
Period size: 43 Copynumber: 2.4 Consensus size: 43
11583534 AAAAATTACA
*
11583544 AAAAAATT--AAAATA-A-TTTTCAAAAATTCACAATATTTAT
1 AAAAAATTCAAAAATATATTTTTAAAAAATTCACAATATTTAT
* *
11583583 AAAAAATTCAAAATTTATATTTTTAAAAAATT-ACAA-ATTTTTT
1 AAAAAATTCAAAA-ATATATTTTTAAAAAATTCACAATA-TTTAT
11583626 AAAAAATTCTAAAAATATAT
1 AAAAAATTC-AAAAATATAT
11583646 AAATAAAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
39 8 0.15
41 3 0.06
42 3 0.06
43 23 0.44
44 15 0.29
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (43 bp):
AAAAAATTCAAAAATATATTTTTAAAAAATTCACAATATTTAT
Found at i:11584626 original size:33 final size:33
Alignment explanation
Indices: 11584589--11584658 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
11584579 ACTATATTGA
* * *
11584589 CACCTTTCTTATGAGCCTTGCAGGTTATATCTC
1 CACCTCTCTTATGAGCCTTGCAAGTCATATCTC
*
11584622 CACCTCTCTTGTGAGCCTTGCAAGTCATATCTC
1 CACCTCTCTTATGAGCCTTGCAAGTCATATCTC
11584655 CACC
1 CACC
11584659 AACCGAGACG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.34
Consensus pattern (33 bp):
CACCTCTCTTATGAGCCTTGCAAGTCATATCTC
Found at i:11585579 original size:26 final size:26
Alignment explanation
Indices: 11585550--11585646 Score: 79
Period size: 26 Copynumber: 3.5 Consensus size: 26
11585540 TAAAAAAAAA
*
11585550 TTTTGAGCCCTTAAAAATTAAAATTG
1 TTTTGAGCCCTTAAAAATTAAAATTC
*
11585576 TTTTTAGACTCCTTAAAAATTGATAAATTTC
1 TTTTGAG-C-CCTTAAAAATT-A-AAA-TTC
* * *
11585607 TTTTTA-CCCTTTAAAAGTTCAAATTC
1 TTTTGAGCCC-TTAAAAATTAAAATTC
*
11585633 TTTTGACCCCTTAA
1 TTTTGAGCCCTTAA
11585647 CAACTGAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
26 18 0.31
27 7 0.12
28 13 0.22
29 10 0.17
30 3 0.05
31 8 0.14
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.43
Consensus pattern (26 bp):
TTTTGAGCCCTTAAAAATTAAAATTC
Found at i:11586590 original size:66 final size:66
Alignment explanation
Indices: 11586484--11586614 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
11586474 CCAGACGGGA
11586484 AAATGGAGGGAGAACAAGGGGTTTCCTTGAGAGTTTCTGGTGATAAAGCAGCTTTCTATAATTGC
1 AAATGGAGGGAGAACAAGGGGTTTCCTTGAGAGTTTCTGGTGATAAAGCAGCTTTCTATAATTGC
11586549 G
66 G
*
11586550 AAATGGAGGGAGCACAAGGGGTTTCCTTGAGAGTTTCTGGTGATAAAGCAGCTTTCTATAATTGC
1 AAATGGAGGGAGAACAAGGGGTTTCCTTGAGAGTTTCTGGTGATAAAGCAGCTTTCTATAATTGC
11586615 AAGATCATTG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (66 bp):
AAATGGAGGGAGAACAAGGGGTTTCCTTGAGAGTTTCTGGTGATAAAGCAGCTTTCTATAATTGC
G
Found at i:11588537 original size:23 final size:22
Alignment explanation
Indices: 11588481--11588549 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 22
11588471 ATATTCTAAT
11588481 TAAATTTTATAAATAATT--AATA
1 TAAATTTTA-AAAT-ATTAAAATA
*
11588503 TTAATTGCTTAAAATATTTAAAATA
1 TAAATT--TTAAAATA-TTAAAATA
11588528 TAAATTTT-AAATATTAAAATA
1 TAAATTTTAAAATATTAAAATA
11588549 T
1 T
11588550 TAACAATAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
21 9 0.22
22 11 0.28
23 8 0.20
24 3 0.08
25 9 0.22
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (22 bp):
TAAATTTTAAAATATTAAAATA
Found at i:11592074 original size:43 final size:43
Alignment explanation
Indices: 11592026--11592210 Score: 210
Period size: 43 Copynumber: 4.3 Consensus size: 43
11592016 TTCTAGAAAT
* *
11592026 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAC
* * * *
11592069 AAACGCCACTAAAGACCACGACCTTTAGCGACGCTTTTGTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAC
* *
11592112 AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACGC-TTTTCTCAC
* * * * * * * *
11592156 AAACACCACTATAGAACA-AACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAC
11592198 AAACGCCGCTAAA
1 AAACGCCGCTAAA
11592211 AACATATCAT
Statistics
Matches: 117, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
42 15 0.13
43 81 0.69
44 21 0.18
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAC
Found at i:11592127 original size:86 final size:86
Alignment explanation
Indices: 11592026--11592190 Score: 242
Period size: 86 Copynumber: 1.9 Consensus size: 86
11592016 TTCTAGAAAT
* * * * * *
11592026 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCCCACAAACGCCACTAAAGACCACGA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTTACCACAAACACCACTAAAGAACA-AA
11592090 CCTTTAGCGACGCTTTTGTCGC
65 CCTTTAGCGACGCTTTTGTCGC
* *
11592112 AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTTATCACAAACACCACTATAGAACAAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTTACCACAAACACCACTAAAGAACAAAC
11592177 CTTTAGCGACGCTT
66 CTTTAGCGACGCTT
11592191 CTCGCAAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
86 48 0.69
87 22 0.31
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.22
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTTACCACAAACACCACTAAAGAACAAAC
CTTTAGCGACGCTTTTGTCGC
Found at i:11592202 original size:86 final size:85
Alignment explanation
Indices: 11592026--11592210 Score: 239
Period size: 86 Copynumber: 2.2 Consensus size: 85
11592016 TTCTAGAAAT
* * * * * *
11592026 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCACGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTACCACAAACACCACTAAAGAACACAAC
*
11592091 CTTTAGCGACGCTTTTGTCGC
66 CTTTAGCGACGC-TTTCTCGC
* *
11592112 AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTTATCACAAACACCACTATAGAACA-AA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACAC-TTTTACCACAAACACCACTAAAGAACACAA
11592176 CCTTTAGCGACGC-TTCTCGC
65 CCTTTAGCGACGCTTTCTCGC
11592196 AAAAACGCCGCTAAA
1 --AAACGCCGCTAAA
11592211 AACATATCAT
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
84 6 0.07
86 59 0.68
87 22 0.25
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (85 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTACCACAAACACCACTAAAGAACACAAC
CTTTAGCGACGCTTTCTCGC
Found at i:11595984 original size:23 final size:24
Alignment explanation
Indices: 11595957--11596002 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
11595947 AGTTAAGTAA
11595957 TTTTATAAAAT-ATTTTTATTATT
1 TTTTATAAAATAATTTTTATTATT
*
11595980 TTTTATAAATTGAATTTTTATTA
1 TTTTATAAAAT-AATTTTTATTA
11596003 AAAAAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
25 10 0.50
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTTATAAAATAATTTTTATTATT
Found at i:11596425 original size:7 final size:7
Alignment explanation
Indices: 11596413--11596529 Score: 66
Period size: 7 Copynumber: 16.7 Consensus size: 7
11596403 ACTAATTAAT
11596413 CTAAACC
1 CTAAACC
11596420 CTAAACC
1 CTAAACC
11596427 CT-AACC
1 CTAAACC
11596433 C--AACC
1 CTAAACC
11596438 CTTAAATCC
1 C-TAAA-CC
*
11596447 CTAAATC
1 CTAAACC
11596454 CTAAACCC
1 CTAAA-CC
*
11596462 CTAAATC
1 CTAAACC
11596469 CT-AACC
1 CTAAACC
11596475 CTTAAACC
1 C-TAAACC
*
11596483 TTAAATCC
1 CTAAA-CC
11596491 C--AACC
1 CTAAACC
11596496 CTTAAACC
1 C-TAAACC
* *
11596504 ATAATCC
1 CTAAACC
*
11596511 CTAATCC
1 CTAAACC
* *
11596518 ATAATCC
1 CTAAACC
11596525 CTAAA
1 CTAAA
11596530 TCCATATATA
Statistics
Matches: 87, Mismatches: 12, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
5 8 0.09
6 11 0.13
7 43 0.49
8 22 0.25
9 3 0.03
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:11596463 original size:15 final size:15
Alignment explanation
Indices: 11596440--11596472 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11596430 ACCCAACCCT
*
11596440 TAAATCCCTAAATCC
1 TAAACCCCTAAATCC
11596455 TAAACCCCTAAATCC
1 TAAACCCCTAAATCC
11596470 TAA
1 TAA
11596473 CCCTTAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACCCCTAAATCC
Found at i:11596489 original size:21 final size:20
Alignment explanation
Indices: 11596413--11596532 Score: 84
Period size: 21 Copynumber: 5.8 Consensus size: 20
11596403 ACTAATTAAT
*
11596413 CTAAACCCTAAACCCTAACC
1 CTAAACCCTAAATCCTAACC
*
11596433 C--AACCCTTAAATCCCTAAATC
1 CTAAACCC-TAAAT-CCT-AACC
11596454 CTAAACCCCTAAATCCTAACC
1 CTAAA-CCCTAAATCCTAACC
* *
11596475 CTTAAACCTTAAATCCCAACC
1 C-TAAACCCTAAATCCTAACC
*
11596496 CTTAAACCAT-AATCCCTAATCC
1 C-TAAACCCTAAAT-CCTAA-CC
* *
11596518 ATAATCCCTAAATCC
1 CTAAACCCTAAATCC
11596533 ATATATAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 19
0.73 0.09 0.17
Matches are distributed among these distances:
18 5 0.06
19 4 0.05
20 7 0.09
21 42 0.52
22 12 0.15
23 7 0.09
24 3 0.04
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (20 bp):
CTAAACCCTAAATCCTAACC
Found at i:11596531 original size:15 final size:15
Alignment explanation
Indices: 11596498--11596535 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
11596488 TCCCAACCCT
11596498 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
11596512 T-AATCCATAATCCC
1 TAAATCCATAATCCC
11596526 TAAATCCATA
1 TAAATCCATA
11596536 TATAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:11596794 original size:7 final size:7
Alignment explanation
Indices: 11596783--11596936 Score: 116
Period size: 7 Copynumber: 21.7 Consensus size: 7
11596773 CTAGTTAATC
*
11596783 TAAACCC
1 TAAACCA
11596790 TAAACCA
1 TAAACCA
*
11596797 TAAACCC
1 TAAACCA
*
11596804 TTAACACA
1 TAAAC-CA
*
11596812 T-AACCTC
1 TAAACC-A
*
11596819 TAAACCT
1 TAAACCA
11596826 TAAACC-
1 TAAACCA
* *
11596832 TCAACCTT
1 TAAACC-A
11596840 TAAACCA
1 TAAACCA
11596847 TAAACCA
1 TAAACCA
11596854 TAAACCA
1 TAAACCA
11596861 TAAACCA
1 TAAACCA
* *
11596868 TAACCCC
1 TAAACCA
11596875 TAAACTCA
1 TAAAC-CA
*
11596883 TAATCCA
1 TAAACCA
11596890 TAAACCA
1 TAAACCA
11596897 TAAACTC-
1 TAAAC-CA
11596904 TAAACCA
1 TAAACCA
* *
11596911 TATACCT
1 TAAACCA
11596918 TAAACCA
1 TAAACCA
* *
11596925 AAAACCC
1 TAAACCA
11596932 TAAAC
1 TAAAC
11596937 TATAGTGATA
Statistics
Matches: 117, Mismatches: 22, Indels: 16
0.75 0.14 0.10
Matches are distributed among these distances:
6 7 0.06
7 93 0.79
8 17 0.15
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:11596802 original size:14 final size:14
Alignment explanation
Indices: 11596783--11596936 Score: 141
Period size: 14 Copynumber: 10.9 Consensus size: 14
11596773 CTAGTTAATC
11596783 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
11596797 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
11596812 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* *
11596826 TAAA-CCTCAACCTT
1 TAAACCCTAAACC-A
*
11596840 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
11596854 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
11596868 TAACCCCTAAACTCA
1 TAAACCCTAAAC-CA
* *
11596883 TAATCCATAAACCA
1 TAAACCCTAAACCA
*
11596897 TAAACTCTAAACCA
1 TAAACCCTAAACCA
* *
11596911 TATACCTTAAACCA
1 TAAACCCTAAACCA
*
11596925 AAAACCCTAAAC
1 TAAACCCTAAAC
11596937 TATAGTGATA
Statistics
Matches: 114, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
13 6 0.05
14 80 0.70
15 28 0.25
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:11597368 original size:41 final size:41
Alignment explanation
Indices: 11597111--11597372 Score: 248
Period size: 41 Copynumber: 6.4 Consensus size: 41
11597101 TAAATTATTT
* *
11597111 TAAATCCCTGAGCATTAGCGGCGCTTTT-TAGAAAACGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTTTCCA-AAAACGCCGC
* * *
11597152 TAAAA--ATAGAGCATTCA-CGGCG-TTTTATCAAAAACGCTGC
1 TAAAACCCT-GAGCATT-AGCGGCGCTTTT-CCAAAAACGCCGC
* * *
11597192 TAAAAGCCCTAAGAATTAGCGACGC-TTTCCTAAAAACGCCGC
1 TAAAA-CCCTGAGCATTAGCGGCGCTTTTCC-AAAAACGCCGC
* * * * *
11597234 TAAAGCCCTAAGAATTAGCGGCACTTTCCCAAAAACGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGC
* * * * * *
11597275 TAAAGCCTTGAGCATTAGCAGCGCTTTCCCAAAAACGTCGT
1 TAAAACCCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGC
*
11597316 TAAAACTCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGC
11597357 TAAAACCCTGAGCATT
1 TAAAACCCTGAGCATT
11597373 TAAAGCAGCT
Statistics
Matches: 181, Mismatches: 29, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
39 5 0.03
40 26 0.14
41 119 0.66
42 30 0.17
43 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (41 bp):
TAAAACCCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGC
Found at i:11597546 original size:40 final size:40
Alignment explanation
Indices: 11597470--11597585 Score: 164
Period size: 40 Copynumber: 2.9 Consensus size: 40
11597460 GGCGCTTTCG
* * *
11597470 AGAAACGCCGCTAATGCTTG-TTTTTAGCGGCGTTTTCCA
1 AGAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTCCA
* *
11597509 TA-AAGCGCCGCTAATACTCGATCTTTAGCGGCATTTTCCA
1 -AGAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTCCA
11597549 AGAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTT
1 AGAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTT
11597586 TTATCCAAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
39 16 0.24
40 51 0.76
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (40 bp):
AGAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTCCA
Found at i:11626299 original size:43 final size:41
Alignment explanation
Indices: 11626240--11626395 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 41
11626230 ATGTATTTTC
11626240 GTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGTGTATAT
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTGTG-ATAT
* * *
11626283 GTGTAAGACCATGTCTGGGACATTGGCATCGTATT-TGATTT
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTGTGATAT
* * *
11626324 GTGTAAGACC-CTGTCTAGGATAG-TGGCATCGATATGTGATTAC
1 GTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGAT-TGTGA-TAT
*
11626367 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
11626396 TGTACGAGCC
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
40 2 0.02
41 29 0.31
42 6 0.06
43 55 0.59
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (41 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATTGTGATAT
Found at i:11634595 original size:16 final size:16
Alignment explanation
Indices: 11634571--11634603 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11634561 CTTTTGTGGT
11634571 ATGGGTTTAGGGAAAG
1 ATGGGTTTAGGGAAAG
*
11634587 ATGGTTTTAGGGAAAG
1 ATGGGTTTAGGGAAAG
11634603 A
1 A
11634604 GGCTTAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.39, T:0.27
Consensus pattern (16 bp):
ATGGGTTTAGGGAAAG
Found at i:11635894 original size:18 final size:18
Alignment explanation
Indices: 11635867--11635950 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
11635857 CACTCACATC
11635867 CTATTCTCTCAAATCTTT
1 CTATTCTCTCAAATCTTT
*
11635885 CTATTTTCTCAAATCTTT
1 CTATTCTCTCAAATCTTT
* *
11635903 CTATTCTCTCAACTCTCT
1 CTATTCTCTCAAATCTTT
**
11635921 AAATTCTCTC-AAT-TTT
1 CTATTCTCTCAAATCTTT
11635937 CTAAATTCTCTCAA
1 CT--ATTCTCTCAA
11635951 TTTTCTCAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
16 2 0.04
17 2 0.04
18 48 0.91
19 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.00, T:0.48
Consensus pattern (18 bp):
CTATTCTCTCAAATCTTT
Found at i:11635928 original size:9 final size:9
Alignment explanation
Indices: 11635869--11635959 Score: 74
Period size: 9 Copynumber: 10.1 Consensus size: 9
11635859 CTCACATCCT
11635869 ATTCTCTCA
1 ATTCTCTCA
* * *
11635878 AATCTTTCT
1 ATTCTCTCA
*
11635887 ATTTTCTCA
1 ATTCTCTCA
* * *
11635896 AATCTTTCT
1 ATTCTCTCA
11635905 ATTCTCTCA
1 ATTCTCTCA
* *
11635914 ACTCTCTAA
1 ATTCTCTCA
11635923 ATTCTCTCA
1 ATTCTCTCA
* *
11635932 ATTTTCTAA
1 ATTCTCTCA
11635941 ATTCTCTCA
1 ATTCTCTCA
*
11635950 ATTTTCTCA
1 ATTCTCTCA
11635959 A
1 A
11635960 GCTCTTGTTC
Statistics
Matches: 59, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.25, C:0.26, G:0.00, T:0.48
Consensus pattern (9 bp):
ATTCTCTCA
Found at i:11635951 original size:18 final size:18
Alignment explanation
Indices: 11635905--11635956 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
11635895 AAATCTTTCT
* *
11635905 ATTCTCTCAACTCTCTAA
1 ATTCTCTCAATTTTCTAA
11635923 ATTCTCTCAATTTTCTAA
1 ATTCTCTCAATTTTCTAA
11635941 ATTCTCTCAATTTTCT
1 ATTCTCTCAATTTTCT
11635957 CAAGCTCTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.25, C:0.27, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTCTCTCAATTTTCTAA
Found at i:11641381 original size:44 final size:43
Alignment explanation
Indices: 11641282--11641382 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 43
11641272 AACCCCGTTT
* * *
11641282 ACAAATTAAAATCGGCCTTTTATAGCCGAGATATACAAAAATTT
1 ACAAA-TAAAATCGGCCATTTATAGCCGAGATATACAAAAAATG
11641326 ACAAATTAAAATCGGCCATTTATAGCCGAGATATACCCAAAAAAATG
1 ACAAA-TAAAATCGGCCATTTATAGCCGAGATATA--C-AAAAAATG
11641373 A-AAA-AAAATC
1 ACAAATAAAATC
11641383 TATCTATCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
44 40 0.78
46 4 0.08
47 7 0.14
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.24
Consensus pattern (43 bp):
ACAAATAAAATCGGCCATTTATAGCCGAGATATACAAAAAATG
Found at i:11642186 original size:100 final size:100
Alignment explanation
Indices: 11642082--11642542 Score: 509
Period size: 100 Copynumber: 4.6 Consensus size: 100
11642072 ACCGTCATGA
* * * * * *
11642082 CTTCAATCTATTCCGCTACACCGCCAGAGAGGTAAGATCCGTCGTTGTGGCTTTAATCTTTTAAA
1 CTTCAATCTGTTCCACTGCACTGCCAGAGAAGTAAGATCCGTCGTTGTGGCTTCAATCTTTTAAA
* * * * * *
11642147 TCGTAATGTCGAGAAAACT-AGATCCGCCGTCGTAG
66 TTGCAATGTCGGGGAAA-TAAGATCCGCCATCGTGG
* * * *
11642182 CTTCAATCTGTTCCTCTGCACCGTCAGAG-AGATAAGATCTGTCGTTGTGGCTTCAATCTTTTAA
1 CTTCAATCTGTTCCACTGCACTGCCAGAGAAG-TAAGATCCGTCGTTGTGGCTTCAATCTTTTAA
* * *
11642246 ATTGCAATGTTGGGGAAATAAGA-CTCGCCGTTGTGG
65 ATTGCAATGTCGGGGAAATAAGATC-CGCCATCGTGG
* * * * *
11642282 CTTCAATCTGTTCCGCTGCACTGCCAGGGAAGTAAGATCCG-CTGTTATGGCTTCAATTTTTTTA
1 CTTCAATCTGTTCCACTGCACTGCCAGAGAAGTAAGATCCGTC-GTTGTGGCTTCAATCTTTTAA
* *
11642346 ATTGCAATGCCGGGGAAATTAGATCCGCCATCGTGG
65 ATTGCAATGTCGGGGAAATAAGATCCGCCATCGTGG
* * * * * *
11642382 CTTCAATCTTTTCTACTGCACTGCCAGGGAAGTAAGATTCGTCGCTGTGGCTTCAATCTTTTCAA
1 CTTCAATCTGTTCCACTGCACTGCCAGAGAAGTAAGATCCGTCGTTGTGGCTTCAATCTTTTAAA
* * *
11642447 TTACAATGTCGGGGAAATCAGATCCGCCATCATGG
66 TTGCAATGTCGGGGAAATAAGATCCGCCATCGTGG
* * *
11642482 CTTCAATCTTTTCCACTGCACTGCCAG-GAAGTAAGATCCGCCGCTGTGGCTTCAATCTTTT
1 CTTCAATCTGTTCCACTGCACTGCCAGAGAAGTAAGATCCGTCGTTGTGGCTTCAATCTTTT
11642543 CCACTGTAAT
Statistics
Matches: 312, Mismatches: 42, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
99 36 0.12
100 272 0.87
101 4 0.01
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (100 bp):
CTTCAATCTGTTCCACTGCACTGCCAGAGAAGTAAGATCCGTCGTTGTGGCTTCAATCTTTTAAA
TTGCAATGTCGGGGAAATAAGATCCGCCATCGTGG
Found at i:11642267 original size:50 final size:50
Alignment explanation
Indices: 11642114--11642543 Score: 292
Period size: 50 Copynumber: 8.6 Consensus size: 50
11642104 GCCAGAGAGG
* * * * * * * *
11642114 TAAGATCCGTCGTTGTGGCTTTAATCTTTTAAATCGTAATGTCGAGAAAA
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGCCGGGGAAA
* * * * ** * * * *
11642164 CT-AGATCCGCCGTCGTAGCTTCAATCTGTTC-CTCTGCACCGTCAGAGAGA
1 -TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAAT-TGCAATGCCGGGGAAA
* * * **
11642214 TAAGATCTGTCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAA
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGCCGGGGAAA
* *** * * *
11642264 TAAGA-CTCGCCGTTGTGGCTTCAATCTGTTCCGCTGCACTGCCAGGGAAG
1 TAAGATC-CGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGCCGGGGAAA
* * * *
11642314 TAAGATCCGCTGTTATGGCTTCAATTTTTTTAATTGCAATGCCGGGGAAA
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGCCGGGGAAA
* * * * * * * *
11642364 TTAGATCCGCCATCGTGGCTTCAATCTTTTCTACTGCACTGCCAGGGAAG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGCCGGGGAAA
* * * * *
11642414 TAAGATTCGTCGCTGTGGCTTCAATCTTTTCAATTACAATGTCGGGGAAA
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGCCGGGGAAA
* * ** * * * * *
11642464 TCAGATCCGCCATCATGGCTTCAATCTTTTCCACTGCACTGCC-AGGAAG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGCCGGGGAAA
*
11642513 TAAGATCCGCCGCTGTGGCTTCAATCTTTTC
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTC
11642544 CACTGTAATA
Statistics
Matches: 278, Mismatches: 96, Indels: 12
0.72 0.25 0.03
Matches are distributed among these distances:
49 33 0.12
50 242 0.87
51 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (50 bp):
TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGCCGGGGAAA
Found at i:11642857 original size:88 final size:88
Alignment explanation
Indices: 11642741--11642962 Score: 356
Period size: 88 Copynumber: 2.5 Consensus size: 88
11642731 AAGAATGATG
* * * *
11642741 TCTTCGATCTACTTCACTGCCAGTACAGGAAGGCAAGATCTG-TCATTTTTGACCTACTCCACTG
1 TCTTCGATCTACTTCTCTGTCAGTACAGGAAGGCAAGATCTGCT-ATTTTTAACCTACTCCACTA
*
11642805 CTGCCTAGGGAGACAAGGCTGGTA
65 CTGCCCAGGGAGACAAGGCTGGTA
*
11642829 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTAC
1 TCTTCGATCTACTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTAC
11642894 TGCCCAGGGAGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
* *
11642917 TTTTCGATCTACTTCTCTATCAGTACAGGAAGGCAAGATCTGCTAT
1 TCTTCGATCTACTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTAT
11642963 CTTCAGTCTG
Statistics
Matches: 124, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
88 123 0.99
89 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTACTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTAC
TGCCCAGGGAGACAAGGCTGGTA
Found at i:11644252 original size:15 final size:15
Alignment explanation
Indices: 11644232--11644286 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
11644222 CCTTAGCCTC
11644232 TCCATTTTTACTTTT
1 TCCATTTTTACTTTT
11644247 TCCATTTTT-CATTTT
1 TCCATTTTTAC-TTTT
* *
11644262 TCTATTTTTATTTTT
1 TCCATTTTTACTTTT
11644277 TCACATTTTT
1 TC-CATTTTT
11644287 TTTGCAACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 1 0.03
15 27 0.79
16 6 0.18
ACGTcount: A:0.15, C:0.16, G:0.00, T:0.69
Consensus pattern (15 bp):
TCCATTTTTACTTTT
Found at i:11651223 original size:14 final size:15
Alignment explanation
Indices: 11651194--11651226 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
11651184 ATTCCAATCG
11651194 AAAACCTTAAAAACCT
1 AAAACCTT-AAAACCT
11651210 AAAACCTT-AAACCT
1 AAAACCTTAAAACCT
11651224 AAA
1 AAA
11651227 GATATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAACCTTAAAACCT
Found at i:11658413 original size:11 final size:11
Alignment explanation
Indices: 11658397--11658422 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11658387 ATTTTTTTAA
11658397 TTTTAAAATAC
1 TTTTAAAATAC
11658408 TTTTAAAATAC
1 TTTTAAAATAC
11658419 TTTT
1 TTTT
11658423 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:11658464 original size:30 final size:30
Alignment explanation
Indices: 11658430--11658519 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
11658420 TTTTTTAAAA
*
11658430 TTTTTTAATTTTATTATATTTTTAAAATAT
1 TTTTTTAATTTTTTTATATTTTTAAAATAT
* *
11658460 TTTTTTAATTTTTTTTTAATTTT-AAATAT
1 TTTTTTAATTTTTTTATATTTTTAAAATAT
*
11658489 TTTTAAAATAATTTTTTTA-ATTTTTAAAATA
1 TTTT---TTAATTTTTTTATATTTTTAAAATA
11658520 AATTTTTGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
29 10 0.20
30 20 0.40
31 5 0.10
32 15 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTTTAATTTTTTTATATTTTTAAAATAT
Found at i:11658510 original size:41 final size:41
Alignment explanation
Indices: 11658388--11658513 Score: 175
Period size: 41 Copynumber: 3.1 Consensus size: 41
11658378 AATATTTTTA
* * *
11658388 TTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAA-A
1 TTTTTTTAATTTT-AAATATTTTTAAAATAATTTTTTTAATT
* *
11658429 ATTTTTTAATTTTATTATATTTTTAAAAT-ATTTTTTTAATT
1 TTTTTTTAATTTTA-AATATTTTTAAAATAATTTTTTTAATT
11658470 TTTTTTTAATTTTAAATATTTTTAAAATAATTTTTTTAATT
1 TTTTTTTAATTTTAAATATTTTTAAAATAATTTTTTTAATT
11658511 TTT
1 TTT
11658514 AAAATAAATT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
40 23 0.31
41 52 0.69
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (41 bp):
TTTTTTTAATTTTAAATATTTTTAAAATAATTTTTTTAATT
Found at i:11658520 original size:21 final size:22
Alignment explanation
Indices: 11658435--11658526 Score: 86
Period size: 21 Copynumber: 4.4 Consensus size: 22
11658425 TAAAATTTTT
*
11658435 TAATTTTATTATATTTTTAAAA
1 TAATTTTTTTATATTTTTAAAA
***
11658457 T-ATTTTTTTA-ATTTTT-TTT
1 TAATTTTTTTATATTTTTAAAA
**
11658476 TAA-TTTTAAATATTTTTAAAA
1 TAATTTTTTTATATTTTTAAAA
11658497 TAATTTTTTTA-ATTTTTAAAA
1 TAATTTTTTTATATTTTTAAAA
*
11658518 TAAATTTTT
1 TAATTTTTT
11658527 GGTATTTATT
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
19 6 0.11
20 13 0.24
21 29 0.54
22 6 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TAATTTTTTTATATTTTTAAAA
Found at i:11658533 original size:22 final size:20
Alignment explanation
Indices: 11658486--11658533 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
11658476 TAATTTTAAA
*
11658486 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTG
11658506 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
11658529 TATTT
1 TATTT
11658534 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 11 0.46
23 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:11663177 original size:2 final size:2
Alignment explanation
Indices: 11663172--11663198 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11663162 AAAATAAAAA
11663172 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
11663199 AAAAATCAAA
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:11675532 original size:294 final size:294
Alignment explanation
Indices: 11675128--11676281 Score: 1993
Period size: 294 Copynumber: 4.0 Consensus size: 294
11675118 CAAATGTTGG
** * ** * * *
11675128 ATCTCGGTAACATTTGTAACCAATCTTGTAAAAGCAC-GCAAAAAACCCTATTGGCATGACAATT
1 ATCTCGGTAACATTTGTAACCAATCCCGTAAAAGCCCTAAAAAAAACCCTCTTGGCATGCCAATC
* * *
11675192 GTA-TCATAACATTTACTAAGTTCACATAGGCATCTATTACACATATAAATTGTCACTTTTCAAT
66 GTATTC-TAACCTTTACTAAGTTCACATGGGCATCTATTACACATATAAATCGTCACTTTTCAAT
*
11675256 TTAGTCCAATTCTCACCTTTTTGTACCAATTCACAACCAATTCAATTTACAATCAACCACATATA
130 TTAGTCTAATTCTCACCTTTTTGTACCAATTCACAACCAATTCAATTTACAATCAACCACATATA
11675321 TAATTCAATTACATACAATTTAAGTTATAAATATCATATGCACTTACTTGGAAAAAACAACAAAC
195 TAATTCAATTACATACAATTTAAGTTATAAATATCATATGCACTTACTTGGAAAAAACAACAAAC
11675386 AATTTGAATCTTCAAGAACTATTTGACAATGCTAA
260 AATTTGAATCTTCAAGAACTATTTGACAATGCTAA
11675421 ATCTCGGTAACATTTGTAACCAATCCCGTAAAAGCCCTAAAAAAAACCCTCTTGGCATGCCAATC
1 ATCTCGGTAACATTTGTAACCAATCCCGTAAAAGCCCTAAAAAAAACCCTCTTGGCATGCCAATC
11675486 GTATTCTAACCTTTACTAAGTTCACATGGGCATCTATTACACATATAAATCGTCACTTTTCAATT
66 GTATTCTAACCTTTACTAAGTTCACATGGGCATCTATTACACATATAAATCGTCACTTTTCAATT
11675551 TAGTCTAATTCTCACCTTTTTGTACCAATTCACAACCAATTCAATTTACAATCAACCACATATAT
131 TAGTCTAATTCTCACCTTTTTGTACCAATTCACAACCAATTCAATTTACAATCAACCACATATAT
11675616 AATTCAATTACATACAATTTAAGTTATAAATATCATATGCACTTACTTGGAAAAAACAACAAACA
196 AATTCAATTACATACAATTTAAGTTATAAATATCATATGCACTTACTTGGAAAAAACAACAAACA
11675681 ATTTGAATCTTCAAGAACTATTTGACAATGCTAA
261 ATTTGAATCTTCAAGAACTATTTGACAATGCTAA
11675715 ATCTCGGTAACATTTGTAACCAATCCCGTAAAAGCCCTAAAAAAAACCCTCTTGGCATGCCAATC
1 ATCTCGGTAACATTTGTAACCAATCCCGTAAAAGCCCTAAAAAAAACCCTCTTGGCATGCCAATC
11675780 GTATTCTAACCTTTACTAAGTTCACATGGGCATCTATTACACATATAAATCGTCACTTTTCAATT
66 GTATTCTAACCTTTACTAAGTTCACATGGGCATCTATTACACATATAAATCGTCACTTTTCAATT
11675845 TAGTCTAATTCTCACCTTTTTGTACCAATTCACAACCAATTCAATTTACAATCAACCACATATAT
131 TAGTCTAATTCTCACCTTTTTGTACCAATTCACAACCAATTCAATTTACAATCAACCACATATAT
11675910 AATTCAATTACATACAATTTAAGTTATAAATATCATATGCACTTACTTGGAAAAAACAACAAACA
196 AATTCAATTACATACAATTTAAGTTATAAATATCATATGCACTTACTTGGAAAAAACAACAAACA
11675975 ATTTGAATCTTCAAGAACTATTTGACAATGCTAA
261 ATTTGAATCTTCAAGAACTATTTGACAATGCTAA
11676009 ATCTCGGTAACATTTGTAACCAATCCCGTAAAAGCCCTAAAAAAAACCCTCTTGGCATGCCAATC
1 ATCTCGGTAACATTTGTAACCAATCCCGTAAAAGCCCTAAAAAAAACCCTCTTGGCATGCCAATC
11676074 GTATTCTAACCTTTACTAAGTTCACATGGGCATCTATTACACATATAAATCGTCACTTTTCAATT
66 GTATTCTAACCTTTACTAAGTTCACATGGGCATCTATTACACATATAAATCGTCACTTTTCAATT
* * * *
11676139 TAGTCTAATTCTCACCTTTTTG-------T----ACCAATTCAATTTATAATAAACTATATATAT
131 TAGTCTAATTCTCACCTTTTTGTACCAATTCACAACCAATTCAATTTACAATCAACCACATATAT
*
11676193 AATTCAATTACATAAAATTTAAGTTATAAATATCATATG-A---ACTTGG-AAAAACAACAAACA
196 AATTCAATTACATACAATTTAAGTTATAAATATCATATGCACTTACTTGGAAAAAACAACAAACA
* * *
11676253 AGTGGAATCTTCAAGGACTATTTGACAAT
261 ATTTGAATCTTCAAGAACTATTTGACAAT
11676282 TTTGGTTTTT
Statistics
Matches: 839, Mismatches: 20, Indels: 19
0.96 0.02 0.02
Matches are distributed among these distances:
278 40 0.05
279 6 0.01
282 1 0.00
283 65 0.08
287 1 0.00
293 34 0.04
294 690 0.82
295 2 0.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (294 bp):
ATCTCGGTAACATTTGTAACCAATCCCGTAAAAGCCCTAAAAAAAACCCTCTTGGCATGCCAATC
GTATTCTAACCTTTACTAAGTTCACATGGGCATCTATTACACATATAAATCGTCACTTTTCAATT
TAGTCTAATTCTCACCTTTTTGTACCAATTCACAACCAATTCAATTTACAATCAACCACATATAT
AATTCAATTACATACAATTTAAGTTATAAATATCATATGCACTTACTTGGAAAAAACAACAAACA
ATTTGAATCTTCAAGAACTATTTGACAATGCTAA
Found at i:11681671 original size:13 final size:13
Alignment explanation
Indices: 11681653--11681678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11681643 CTCAAGGGTC
11681653 GTCATTTTTATTT
1 GTCATTTTTATTT
11681666 GTCATTTTTATTT
1 GTCATTTTTATTT
11681679 ATGTTGCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
GTCATTTTTATTT
Found at i:11704575 original size:294 final size:277
Alignment explanation
Indices: 11704171--11704736 Score: 783
Period size: 294 Copynumber: 2.0 Consensus size: 277
11704161 CAAATGTTGG
** ** *
11704171 ATCTCGGTAACATTTGTAACCAATCTTGTAAAAGCACGCAAAAAACCCTATTGGCATGACAATTG
1 ATCTCGGTAACATTTGTAACCAATCCCGTAAAAGCACAAAAAAAACCCTATTGGCATGACAATCG
*
11704236 TATCATAACATTTACTAAGTTCACATAGGCATCTATTACACATATAAATTGTCACTTTTCAATTT
66 TATCATAACATTTACTAAGTTCACATAGGCATCTATTACACATATAAATCGTCACTTTTCAATTT
*
11704301 AGTCCAATTCTCACCTTTTTGTACCAATTCACAACCAATTCAATTTACAATCAACCACATATATA
131 AGTCCAATTCTCACCTTTTTG-------T----ACCAATTCAATTTACAATAAACCACATATATA
*
11704366 ATTCAATTACATACAATTTAAGTTATAAATATCATATGCACTTACTTGGAAAAAACAACAAACAA
185 ATTCAATTACATAAAATTTAAGTTATAAATATCATATG-A---ACTTGG-AAAAACAACAAACAA
* *
11704431 TTTGAATCTTCAAGAACTATTTGACAATGCTAA
245 GTGGAATCTTCAAGAACTATTTGACAATGCTAA
* * *
11704464 ATCTCGGTAACATTTGTAACCAATCCCGTAAAAGCCCTAAAAAAAACCCTCTTGGCATGCCAATC
1 ATCTCGGTAACATTTGTAACCAATCCCGTAAAAGCAC-AAAAAAAACCCTATTGGCATGACAATC
* *
11704529 GTATTC-TAACCTTTACTAAGTTCACATGGGCATCTATTACACATATAAATCGTCACTTTTCAAT
65 GTA-TCATAACATTTACTAAGTTCACATAGGCATCTATTACACATATAAATCGTCACTTTTCAAT
* * * *
11704593 TTAGTCTAATTCTCACCTTTTTGTACCAATTCAATTTATAATAAACTATATATATAATTCAATTA
129 TTAGTCCAATTCTCACCTTTTTGTACCAATTCAATTTACAATAAACCACATATATAATTCAATTA
11704658 CATAAAATTTAAGTTATAAATATCATATGAACTTGGAAAAACAACAAACAAGTGGAATCTTCAAG
194 CATAAAATTTAAGTTATAAATATCATATGAACTTGGAAAAACAACAAACAAGTGGAATCTTCAAG
*
11704723 GACTATTTGACAAT
259 AACTATTTGACAAT
11704737 TTTGGTTTTT
Statistics
Matches: 251, Mismatches: 20, Indels: 19
0.87 0.07 0.07
Matches are distributed among these distances:
278 40 0.16
279 6 0.02
282 1 0.00
283 65 0.26
287 1 0.00
293 34 0.14
294 102 0.41
295 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (277 bp):
ATCTCGGTAACATTTGTAACCAATCCCGTAAAAGCACAAAAAAAACCCTATTGGCATGACAATCG
TATCATAACATTTACTAAGTTCACATAGGCATCTATTACACATATAAATCGTCACTTTTCAATTT
AGTCCAATTCTCACCTTTTTGTACCAATTCAATTTACAATAAACCACATATATAATTCAATTACA
TAAAATTTAAGTTATAAATATCATATGAACTTGGAAAAACAACAAACAAGTGGAATCTTCAAGAA
CTATTTGACAATGCTAA
Found at i:11710126 original size:13 final size:13
Alignment explanation
Indices: 11710108--11710133 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11710098 CTCAAGGGTC
11710108 GTCATTTTTATTT
1 GTCATTTTTATTT
11710121 GTCATTTTTATTT
1 GTCATTTTTATTT
11710134 ATGTTGCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
GTCATTTTTATTT
Found at i:11737561 original size:12 final size:13
Alignment explanation
Indices: 11737524--11737562 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
11737514 CCTGGGGCCC
*
11737524 AAACCAAATACTA
1 AAACCAAATATTA
11737537 AAA-CAAATATTA
1 AAACCAAATATTA
11737549 AAACCAAAT-TTA
1 AAACCAAATATTA
11737561 AA
1 AA
11737563 TAGTCTACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (13 bp):
AAACCAAATATTA
Found at i:11747583 original size:143 final size:143
Alignment explanation
Indices: 11747325--11747584 Score: 396
Period size: 143 Copynumber: 1.8 Consensus size: 143
11747315 ATCCTATCTC
** *
11747325 CCTGAAGTTACAGTAGAGCAGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAG
1 CCTGAAGTTACAGTAGAGCAGATTAAAGCCACAAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAG
* * *
11747390 ACTGAAGACAGCGAATCTTATTTCCCCGGTGTTGCAGTTGAACAGATTAAAGCTATAAATTATGT
66 ACTGAAGACAGCGAATCTTATTTCCCCGGCGTCGCAGTGGAACAGATTAAAGCTATAAATTATGT
11747455 CGGATCTTGCCTT
131 CGGATCTTGCCTT
* * * *
11747468 CCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGCCTTATCTTCCTAAAGTTGCAGCGGAGCAG
1 CCTGAAGTTACAGTAGAGCAGATTAAAGCCACAAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAG
* *
11747533 ACTGAAGACAGC-AGATCTTATTTCCCTGGCGTCGTAGTGGAACAGATTAAAG
66 ACTGAAGACAGCGA-ATCTTATTTCCCCGGCGTCGCAGTGGAACAGATTAAAG
11747585 ATACAAATCA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
142 1 0.01
143 103 0.99
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (143 bp):
CCTGAAGTTACAGTAGAGCAGATTAAAGCCACAAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAG
ACTGAAGACAGCGAATCTTATTTCCCCGGCGTCGCAGTGGAACAGATTAAAGCTATAAATTATGT
CGGATCTTGCCTT
Found at i:11747730 original size:44 final size:45
Alignment explanation
Indices: 11747646--11747750 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 45
11747636 CAAATCTTAG
**
11747646 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACCAATCCTAT-
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAAACACCAATCCTATA
* **
11747690 CTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACAATGAATCCTATA
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAC-ACCAATCCTATA
*
11747735 C-CTCTGAAGTTGCAGT
1 CTCCCTGAAGTTGCAGT
11747751 AGGTTAGATC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 3 0.06
44 49 0.92
45 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (45 bp):
CTCCCTGAAGTTGCAGTGGAGCAGATTGAAAACACCAATCCTATA
Found at i:11748504 original size:17 final size:17
Alignment explanation
Indices: 11748478--11748511 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11748468 TTTGAAATCT
*
11748478 GATTTTTTTTTCTTTTC
1 GATTTCTTTTTCTTTTC
*
11748495 GATTTCTTTTTTTTTTC
1 GATTTCTTTTTCTTTTC
11748512 TTTTTGTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (17 bp):
GATTTCTTTTTCTTTTC
Done.