Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 66 of 190
Found at i:19196237 original size:61 final size:61
Alignment explanation
Indices: 19196167--19196288 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
19196157 AATCAATTAA
19196167 TTGTTACAACAACTCTAGCATATTTAGTATAAACTCTCTCATCCAATCAACATTTTCAACT
1 TTGTTACAACAACTCTAGCATATTTAGTATAAACTCTCTCATCCAATCAACATTTTCAACT
*
19196228 TTGTTACAACAACTCTAGCATATTTAGTATGAACTCTCTCATCCAATCAACATTTTCAACT
1 TTGTTACAACAACTCTAGCATATTTAGTATAAACTCTCTCATCCAATCAACATTTTCAACT
19196289 GAAGATTGTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.36
Consensus pattern (61 bp):
TTGTTACAACAACTCTAGCATATTTAGTATAAACTCTCTCATCCAATCAACATTTTCAACT
Found at i:19196956 original size:17 final size:17
Alignment explanation
Indices: 19196905--19196956 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
19196895 ATGGAAACAT
* * *
19196905 AATCTTCGAGGATATAC
1 AATCTTAGAAGATATGC
*
19196922 AATCGTAGATATGATATGC
1 AATCTTAGA-A-GATATGC
19196941 AATCTTAGAAGATATG
1 AATCTTAGAAGATATG
19196957 ATTTTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (17 bp):
AATCTTAGAAGATATGC
Found at i:19196956 original size:22 final size:23
Alignment explanation
Indices: 19196928--19196972 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19196918 ATACAATCGT
19196928 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
19196950 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
19196973 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:19201969 original size:22 final size:23
Alignment explanation
Indices: 19201941--19201985 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19201931 ATACAATCGT
*
19201941 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATATAATCTTAGA
*
19201963 AGATATGATTTTATAATCTTAGA
1 AGATATGATTATATAATCTTAGA
19201986 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (23 bp):
AGATATGATTATATAATCTTAGA
Found at i:19201995 original size:22 final size:23
Alignment explanation
Indices: 19201953--19201995 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
19201943 ATATGATATG
*
19201953 TAATCTTAGAAGATATGATTTTA
1 TAATCTTAGAAGATATAATTTTA
*
19201976 TAATCTTAG-AGATTTAATTT
1 TAATCTTAGAAGATATAATTT
19201996 GTAGATACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTA
Found at i:19204392 original size:2 final size:2
Alignment explanation
Indices: 19204385--19204444 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
19204375 AATATAAAAT
19204385 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19204427 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
19204445 CGTAAGGGTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19208749 original size:56 final size:56
Alignment explanation
Indices: 19208641--19208798 Score: 217
Period size: 56 Copynumber: 2.8 Consensus size: 56
19208631 GTGGGGGTGT
* * * *
19208641 TAGGATATTATTATGGGATTTTATCTTTTTAGCAATTTAATTCCTAATGAGATGTTA
1 TAGGATATTATTATGGGATATTATC-TTTTAGCAATTTGATTCCTAACGAGATATTA
* * *
19208698 TAGGATGTTATTATGAGATATTATCTCTTAGCAATTTGATTCCTAACGAGATATTA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAACGAGATATTA
* * *
19208754 TAAGATATTATTATGGGGTATTATCTTTTAACAATTTGATTCCTA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
19208799 CACAACTATT
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
56 66 0.75
57 22 0.25
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (56 bp):
TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAACGAGATATTA
Found at i:19210326 original size:9 final size:9
Alignment explanation
Indices: 19210312--19210388 Score: 63
Period size: 9 Copynumber: 8.7 Consensus size: 9
19210302 GTCAGCCTAA
19210312 TAAAAATTT
1 TAAAAATTT
19210321 TAAAAATTT
1 TAAAAATTT
*
19210330 T-AAAATAT
1 TAAAAATTT
*
19210338 TCAAAA--T
1 TAAAAATTT
19210345 TAAAAATTT
1 TAAAAATTT
19210354 TAAAAATATAT
1 TAAAAAT-T-T
* *
19210365 AAAAAATTCA
1 TAAAAATT-T
19210375 TAAAAA-TT
1 TAAAAATTT
19210383 TAAAAA
1 TAAAAA
19210389 GAGAGCATGA
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
7 6 0.11
8 13 0.23
9 23 0.41
10 7 0.12
11 7 0.12
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAAATTT
Found at i:19214990 original size:44 final size:44
Alignment explanation
Indices: 19214806--19215053 Score: 200
Period size: 44 Copynumber: 5.6 Consensus size: 44
19214796 TTAATCCAAC
* * *
19214806 CCACTGCAACTTCA--GAGGTATAGAATTTGTCGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATA-AG-ATTTGTTGTTTCAATCTGCT
* * * * *
19214850 CCA-TCGTAACTTTAGGAAGATAAGATTTGTAGCTTCAATCTGCT
1 CCACT-GCAACTTCAGGGAGATAAGATTTGTTGTTTCAATCTGCT
* * * * **
19214894 CCACTACAACTTCAGGGAGACAAGA-TTGTGGCTTTCAGTCTATT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTG-TTTCAATCTGCT
* * *
19214938 CTATTGCAACTTTAGGGAGATAAGATTTGTTGTTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTGTTTCAATCTGCT
* ** * *
19214982 CCACTGCAACTTCAGGGATATTGGATTTATATATTT-AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGT-TGTTTCAATCTGCT
*
19215026 CCACTTGCAACTTCAGAGAGATAAGATT
1 CCAC-TGCAACTTCAGGGAGATAAGATT
19215054 CGCTATGGTA
Statistics
Matches: 160, Mismatches: 36, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
43 6 0.04
44 119 0.74
45 31 0.19
46 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTTGTTTCAATCTGCT
Found at i:19218655 original size:26 final size:26
Alignment explanation
Indices: 19218602--19218662 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
19218592 ACCACTAATA
* *
19218602 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCATATAATCG
*
19218628 GGAAGCTCACGAAGAGACATATAA-CG
1 GGAAGCTCACAAAGAG-CATATAATCG
*
19218654 GGACGCTCA
1 GGAAGCTCA
19218663 TAAGAGTTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCATATAATCG
Found at i:19224316 original size:19 final size:20
Alignment explanation
Indices: 19224280--19224317 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19224270 ATTAGAACAA
19224280 CTTTACTAGAAAATAAATAT
1 CTTTACTAGAAAATAAATAT
19224300 CTTTACATA-AAAA-AAATA
1 CTTTAC-TAGAAAATAAATA
19224318 GATTTTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 10 0.59
21 2 0.12
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (20 bp):
CTTTACTAGAAAATAAATAT
Found at i:19228382 original size:5 final size:5
Alignment explanation
Indices: 19228372--19228396 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19228362 GACTAAATTG
19228372 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
19228397 GGTGCAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:19230041 original size:41 final size:41
Alignment explanation
Indices: 19229995--19230140 Score: 238
Period size: 41 Copynumber: 3.6 Consensus size: 41
19229985 ACCGACATAA
* *
19229995 AGCCTGCTAGACACAAAGCCCGATACATTTCACCGGCACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
* *
19230036 AGCCTGCTAGGGATAAAGCCTGATACATTTCACCGGCACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
* *
19230077 AGCATGCTAGGCATAAAGCCCAATACATTTCACCGGCACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
19230118 AGCCTGCTAGGCATAAAGCCCGA
1 AGCCTGCTAGGCATAAAGCCCGA
19230141 ACTTACAAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (41 bp):
AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
Found at i:19230344 original size:18 final size:18
Alignment explanation
Indices: 19230321--19230358 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
19230311 TAACAATTAC
19230321 ATATACATTCAGATGTAG
1 ATATACATTCAGATGTAG
*
19230339 ATATACATTCAGCTGTAG
1 ATATACATTCAGATGTAG
19230357 AT
1 AT
19230359 TAATTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (18 bp):
ATATACATTCAGATGTAG
Found at i:19230379 original size:65 final size:67
Alignment explanation
Indices: 19230274--19230397 Score: 162
Period size: 65 Copynumber: 1.9 Consensus size: 67
19230264 ACAAATATAT
* * **
19230274 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAAC-AAT-TACATATACATTCAGATGT
1 ATATACATTCAGCCATAGATTAATTCATTTCAATGCATAACAAATATACATATACATTCAGATGT
19230337 AG
66 AG
** * *
19230339 ATATACATTCAGCTGTAGATTAATTCATTTCAATGTATAACAAATATATATATACATTC
1 ATATACATTCAGCCATAGATTAATTCATTTCAATGCATAACAAATATACATATACATTC
19230398 GGCCATAGTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 34 0.69
66 3 0.06
67 12 0.24
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (67 bp):
ATATACATTCAGCCATAGATTAATTCATTTCAATGCATAACAAATATACATATACATTCAGATGT
AG
Found at i:19230389 original size:114 final size:106
Alignment explanation
Indices: 19230245--19230564 Score: 420
Period size: 114 Copynumber: 3.0 Consensus size: 106
19230235 TAACTTCAAA
* *
19230245 TAATTTATTTCAATGCATAACAAATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTGC
1 TAATTCATTTCAATGCATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
*
19230310 ATAACAATTACATATACATTCAGATGTAGATATACATTCAGCTGTAGAT
66 ATAACAATTACATATACATTCAGATATAGAT-TA-ATTCA--T-T---T
*
19230359 TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
1 TAATTCATTTCAATGCATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
*
19230424 ATAACAATTACATATACATTCAGCTATAGATTAATTCATTT
66 ATAACAATTACATATACATTCAGATATAGATTAATTCATTT
* * * * *
19230465 CAA--CGTAT-AA--CA-AATATATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
1 TAATTCATTTCAATGCATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
19230524 ATAACAATTACATATACATTCA-ACTATAGATTAATTCATTT
66 ATAACAATTACATATACATTCAGA-TATAGATTAATTCATTT
19230565 CAATGTATAA
Statistics
Matches: 193, Mismatches: 12, Indels: 16
0.87 0.05 0.07
Matches are distributed among these distances:
100 84 0.44
101 1 0.01
103 2 0.01
104 3 0.02
106 3 0.02
109 1 0.01
110 1 0.01
112 5 0.03
113 2 0.01
114 91 0.47
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (106 bp):
TAATTCATTTCAATGCATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
ATAACAATTACATATACATTCAGATATAGATTAATTCATTT
Found at i:19230390 original size:47 final size:47
Alignment explanation
Indices: 19230339--19230586 Score: 235
Period size: 47 Copynumber: 5.1 Consensus size: 47
19230329 TCAGATGTAG
*
19230339 ATATACATTCAGCTGTAGATTAATTCATTTCAATGTATAACAAATATAT
1 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAAC-AA-ATAT
* * * * ** * * *
19230388 ATATACATTCGGCCATAGTTTAATTTATTTCTCTGCATAACAATTAC
1 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATAT
*
19230435 ATATACATTCAGCTATAGATTAATTCATTTCAACGTATAACAAATATATATAT
1 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAAC----A-A-ATAT
* * * * ** * * *
19230488 ATATACATTCGGCCATAGTTTAATTTATTTCTCTGCATAACAATTAC
1 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATAT
*
19230535 ATATACATTCAACTATAGATTAATTCATTTCAATGTATAACAAATAT
1 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATAT
19230582 ATATA
1 ATATA
19230587 TATATATATA
Statistics
Matches: 153, Mismatches: 40, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
47 79 0.52
48 3 0.02
49 34 0.22
51 1 0.01
52 1 0.01
53 35 0.23
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (47 bp):
ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATAT
Found at i:19230533 original size:100 final size:100
Alignment explanation
Indices: 19230339--19230779 Score: 472
Period size: 100 Copynumber: 4.6 Consensus size: 100
19230329 TCAGATGTAG
*
19230339 ATATACATTCAGCTGTAGATTAATTCATTTCAATGTATAAC--A-A-ATATATATATACATTCGG
1 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATATATATACATTCGG
19230400 CCATAGTTTAATTTATTTCTCTGCATAACAATTAC
66 CCATAGTTTAATTTATTTCTCTGCATAACAATTAC
*
19230435 ATATACATTCAGCTATAGATTAATTCATTTCAACGTATAACAAATATATATATATATACATTCGG
1 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATATATATACATTCGG
19230500 CCATAGTTTAATTTATTTCTCTGCATAACAATTAC
66 CCATAGTTTAATTTATTTCTCTGCATAACAATTAC
* *
19230535 ATATACATTCAACTATAGATTAATTCATTTCAATGTATAACAAATATATATATATATATATAT--
1 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATATATATACAT-TCG
* * * * *
19230598 ---ATA-TATATATATATAT-TCGGCCATAAC--CT--
65 GCCATAGTTTA-ATTTATTTCTCTG-CATAACAATTAC
* * * *
19230627 ATGTA-ATT--TC-A-A-A-TAATTTATTTCAATGCATAAC----A-A-ATATATATACATTCGG
1 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATATATATACATTCGG
* * *
19230679 CCATTGTTTAATTCATTTCTCTACATAACAATTAC
66 CCATAGTTTAATTTATTTCTCTGCATAACAATTAC
*
19230714 ATATACATTCAGCTATAGATTAATTCATTCTC-ATGCATAACAAATATATTTATATATATACATT
1 ATATACATTCAGCTATAGATTAATTCATT-TCAATGTATAACAAATATA--TATATATATACATT
19230778 CG
63 CG
19230780 TAGTTAATTA
Statistics
Matches: 285, Mismatches: 26, Indels: 62
0.76 0.07 0.17
Matches are distributed among these distances:
78 1 0.00
79 11 0.04
80 1 0.00
81 1 0.00
83 13 0.05
84 5 0.02
85 20 0.07
86 1 0.00
87 5 0.02
88 4 0.01
89 1 0.00
90 1 0.00
91 4 0.01
92 5 0.02
93 1 0.00
94 18 0.06
95 8 0.03
96 54 0.19
98 2 0.01
99 2 0.01
100 111 0.39
101 1 0.00
102 15 0.05
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (100 bp):
ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATATATATACATTCGG
CCATAGTTTAATTTATTTCTCTGCATAACAATTAC
Found at i:19230585 original size:2 final size:2
Alignment explanation
Indices: 19230578--19230613 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19230568 TGTATAACAA
19230578 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19230614 TCGGCCATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19230709 original size:47 final size:47
Alignment explanation
Indices: 19230655--19230762 Score: 137
Period size: 47 Copynumber: 2.3 Consensus size: 47
19230645 TATTTCAATG
* * *
19230655 CATAACAAATATATATACATTCGGCCATTGTTTAATTCATTTCTC-TA
1 CATAACAAATATATATACATTCAGCCATAGATTAATTCA-TTCTCATA
* * * *
19230702 CATAACAATTACATATACATTCAGCTATAGATTAATTCATTCTCATG
1 CATAACAAATATATATACATTCAGCCATAGATTAATTCATTCTCATA
19230749 CATAACAAATATAT
1 CATAACAAATATAT
19230763 TTATATATAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 5 0.10
47 46 0.90
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.37
Consensus pattern (47 bp):
CATAACAAATATATATACATTCAGCCATAGATTAATTCATTCTCATA
Found at i:19236454 original size:18 final size:17
Alignment explanation
Indices: 19236431--19236484 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
19236421 TGGTTATAGT
19236431 TTTTAAAACCATTAAAAA
1 TTTTAAAA-CATTAAAAA
19236449 TTTTAAATA-ATTTAAAAA
1 TTTTAAA-ACA-TTAAAAA
*
19236467 TTATAAAACA-TAAAAA
1 TTTTAAAACATTAAAAA
19236483 TT
1 TT
19236485 ATATAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 8 0.25
17 2 0.06
18 21 0.66
19 1 0.03
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
TTTTAAAACATTAAAAA
Found at i:19236482 original size:17 final size:17
Alignment explanation
Indices: 19236461--19236499 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
19236451 TTAAATAATT
*
19236461 TAAAAATTATA-AAACA
1 TAAAAATTATATAAAAA
19236477 TAAAAATTATATAAAAA
1 TAAAAATTATATAAAAA
19236494 TAAAAA
1 TAAAAA
19236500 CAATTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAATTATATAAAAA
Found at i:19236814 original size:17 final size:19
Alignment explanation
Indices: 19236794--19236834 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
19236784 TTTTAATAGT
19236794 TTTTAATAATT-TTTAT-A
1 TTTTAATAATTATTTATAA
19236811 TTTT-A-AATTATTTATAA
1 TTTTAATAATTATTTATAA
19236828 TTTTAAT
1 TTTTAAT
19236835 GTTTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 9 0.45
18 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAATAATTATTTATAA
Found at i:19240179 original size:173 final size:173
Alignment explanation
Indices: 19239942--19240265 Score: 395
Period size: 173 Copynumber: 1.9 Consensus size: 173
19239932 TACTCCTCTG
* *
19239942 CAACTTCAGAGAGATAAGATCTATCATTTCGATCTGCTCTACTGCAACTTCAAGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATCATTTCAATCAGCTCTACTGCAACTTCAAGGAGATAGGATT
* * * ** ***
19240007 -TGGGGTTCTAATCCACTCTACTGCAACTTCAGGGAGATAGGATTAGT-TTCTTGTGTCTGCTCC
66 ATCGGCTTC-AATCCACTCCACTGCAACTTCAGGGAGATAGGATTA-TCGGCTTCAATCTGCTCC
*
19240070 ATTGCAACCTCAGGGAGACAAGACGGGTTGCAATCTGCTCTACTA
129 ACTGCAACCTCAGGGAGACAAGACGGGTTGCAATCTGCTCTACTA
* * * * * * *
19240115 CAACTTCAGAGAGATAAGATCTGT-AGTTTTAATCAGCTCCT-TTGTAATTTCAGGGAGTTAGGA
1 CAACTTCAGAGAGATAAGATCTATCA-TTTCAATCAGCT-CTACTGCAACTTCAAGGAGATAGGA
**
19240178 TTATCGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCC
64 TTATCGGCTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCC
*
19240243 ACTGCAACCTCAGGGAGATAAGA
129 ACTGCAACCTCAGGGAGACAAGA
19240266 TTTGCCATCT
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
172 2 0.02
173 116 0.92
174 8 0.06
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (173 bp):
CAACTTCAGAGAGATAAGATCTATCATTTCAATCAGCTCTACTGCAACTTCAAGGAGATAGGATT
ATCGGCTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCAC
TGCAACCTCAGGGAGACAAGACGGGTTGCAATCTGCTCTACTA
Found at i:19240294 original size:45 final size:44
Alignment explanation
Indices: 19239929--19240458 Score: 253
Period size: 44 Copynumber: 12.2 Consensus size: 44
19239919 GTCTTATGTG
* * * * *
19239929 ATCTACTCCTCTGCAACTTCAGAGAGATAAGATCTATCA-TTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCA
* * * ** *
19239973 ATCTGCTCTACTGCAACTTCAAGGAGATAGGATT-TGGGGTTCTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTC-A
** * * ** **
19240017 ATCCACTCTACTGCAACTTCAGGGAGATAGGATTAGT-TTCTTGT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-TCAGCTTCA
* * * * * *
19240061 GTCTGCTCCATTGCAACCTCAGGGAGACAAG---A-CGGGTTGCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTT-CA
* * * * * *
19240102 ATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGT-AGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCA
* ** * * * * *
19240146 ATCAGCTCCTTTGTAATTTCAGGGAGTTAGGATTATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
* *
19240190 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
* * *
19240234 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATT-TGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT--CAGCTTCA
* * * ** *
19240279 ATCTGCCCCGCTGCAACTTCAGGGGGATAAGACCTCCTTA-C-TCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TTATCAGCTTCA
* * * * * * *
19240323 ATCTACTCCGCTGCAACTTCAGTGAGATAAGACT-T--GATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
* * * * * *
19240364 ATCTACTCTACTGCAACTTTAGAGAGATAAGATCTATTA-CTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCA
* * * * *
19240408 ATCCGCTCCTCTGCAACTTTAGGAAGATAGGATTATCAGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
19240452 ATCTGCT
1 ATCTGCT
19240459 TCCTTACTCT
Statistics
Matches: 360, Mismatches: 102, Indels: 48
0.71 0.20 0.09
Matches are distributed among these distances:
40 2 0.01
41 55 0.15
42 2 0.01
43 12 0.03
44 246 0.68
45 39 0.11
46 2 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
Found at i:19240681 original size:129 final size:129
Alignment explanation
Indices: 19240446--19241472 Score: 1664
Period size: 129 Copynumber: 8.0 Consensus size: 129
19240436 AGGATTATCA
* * * * * * * *
19240446 GCTTCAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTCCTT-AATTTGTTCTGCTACTGC
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGT-CTTCGATCTGCTCCGCTATTGC
*
19240510 TTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATACGACTTGTG
65 TTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* * *
19240575 GCTTAAATCTGCATCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATATGCTCCGTTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
**
19240640 TAGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
*
19240704 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
*
19240769 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATGTAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
19240833 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
19240898 TAGGGAGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
** * * *
19240961 GCTTAAATCTGCTTCCAGACACTTGAAGATAAGATTTGCCATCCTCGATCTGCTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
** *
19241026 TAGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGAGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* * *
19241090 GTTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
* *
19241155 TAGGCAGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTAACCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* * *
19241218 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCTGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
* *
19241283 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACTAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* *
19241347 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTGGATCTGCTCCACTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
* * * *
19241412 TAGGGAGACAAGATCTGTACTTTCCCAATCTATTCCACTACTGACTAGGGATATAGGACTT
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTT
19241473 ACAATCTTCA
Statistics
Matches: 835, Mismatches: 60, Indels: 6
0.93 0.07 0.01
Matches are distributed among these distances:
128 242 0.29
129 593 0.71
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (129 bp):
GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
Found at i:19240986 original size:386 final size:386
Alignment explanation
Indices: 19240446--19241472 Score: 1698
Period size: 386 Copynumber: 2.7 Consensus size: 386
19240436 AGGATTATCA
* * * * * *
19240446 GCTTCAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTCCTT-AATTTGTTCTGCTACTGC
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGT-CTTCGATCTGCTCTGCTATTGC
*
19240510 TTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATACGACTTGTG
65 TTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* * *
19240575 GCTTAAATCTGCATCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATATGCTCCGTTATTGCT
130 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
19240640 TAGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
195 TAGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
* *
19240705 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTATTGCTT
260 CTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTATTGCTT
* * *
19240770 AGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATGTAGGACTTGTG
325 AGGCAGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTAACCAGGGATATAGGACTTGTG
* *
19240833 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCTGCTATTGCT
19240898 TAGGGAGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
** * * *
19240962 CTTAAATCTGCTTCCAGACACTTGAAGATAAGATTTGCCATCCTCGATCTGCTCCGCTATTGCTT
131 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
* *
19241027 AGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGAGATATAGGACTTGTGGT
196 AGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
*
19241092 TTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTA
261 TTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTATTGCTTA
19241157 GGCAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTAACCAGGGATATAGGACTTGTG
326 GGCAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTAACCAGGGATATAGGACTTGTG
*
19241218 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCTGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCTGCTATTGCT
* *
19241283 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACTAGGGATATAGGACTTGTGG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
* *
19241348 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTGGATCTGCTCCACTATTGCTT
131 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
** * * * *
19241413 AGGGAGACAAGATCTGTACTTTCCCAATCTATTCCACTACTGACTAGGGATATAGGACTT
196 AGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTT
19241473 ACAATCTTCA
Statistics
Matches: 594, Mismatches: 44, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
385 123 0.21
386 400 0.67
387 71 0.12
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (386 bp):
GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCTGCTATTGCT
TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
AGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
TTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTATTGCTTA
GGCAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTAACCAGGGATATAGGACTTGTG
Found at i:19241067 original size:257 final size:257
Alignment explanation
Indices: 19240446--19241472 Score: 1667
Period size: 257 Copynumber: 4.0 Consensus size: 257
19240436 AGGATTATCA
* * * ** * * * *
19240446 GCTTCAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTCCTTAATTTGTTCTGCTACTGCT
1 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCACCGTCCTCGATCTGCTCCGCTATTGCT
*
19240511 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATACGACTTGTGG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
* * **
19240576 CTTAAATCTGCATCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATATGCTCCGTTATTGCTT
131 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTT
**
19240641 AGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
196 AGGGAGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* * * *
19240704 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCACCGTCCTCGATCTGCTCCGCTATTGCT
*
19240769 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATGTAGGACTTGTGG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
*
19240834 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
131 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTT
19240899 AGGGAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
196 AGGGAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* ** *
19240961 GCTTAAATCTGCTTCCAGACACTTGAAGATAAGATTTGCCATCCTCGATCTGCTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCACCGTCCTCGATCTGCTCCGCTATTGCT
** *
19241026 TAGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGAGATATAGGACTTGTGG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
* *
19241091 TTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTT
131 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTT
* *
19241156 AGGCAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTAACCAGGGATATAGGACTTGTG
196 AGGGAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* *
19241218 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCTGCTATTGCT
1 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCACCGTCCTCGATCTGCTCCGCTATTGCT
* *
19241283 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACTAGGGATATAGGACTTGTGG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
*
19241348 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTGGATCTGCTCCACTATTGCTT
131 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTT
* * *
19241413 AGGGAGACAAGATCTGTACTTTCCCAATCTATTCCACTACTGACTAGGGATATAGGACTT
196 AGGGAGACAAGATCTGTA-TTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTT
19241473 ACAATCTTCA
Statistics
Matches: 716, Mismatches: 52, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
257 485 0.68
258 231 0.32
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (257 bp):
GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCACCGTCCTCGATCTGCTCCGCTATTGCT
TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTT
AGGGAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
Found at i:19243701 original size:6 final size:6
Alignment explanation
Indices: 19243687--19243720 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
19243677 CTTCTCTCTT
* *
19243687 TTTTCA TTTTGA TTTTGA CTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
19243721 TCTTTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:19248298 original size:49 final size:47
Alignment explanation
Indices: 19248242--19248359 Score: 128
Period size: 49 Copynumber: 2.4 Consensus size: 47
19248232 TCTTTAAGTA
19248242 ATAATACATAATAATTTTGAAATAATAACATATGATAACTTTAAAAAT
1 ATAATACATAATAA-TTTGAAATAATAACATATGATAACTTTAAAAAT
* * * * * *
19248290 ATGAATACATAATGCATCTAAAATAATAATATATGATAAGTTTAAAATT
1 AT-AATACATAAT-AATTTGAAATAATAACATATGATAACTTTAAAAAT
* *
19248339 ATAGTATATAATAAATTTGAA
1 ATAATACATAAT-AATTTGAA
19248360 GCTATAATGT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
48 15 0.27
49 40 0.71
50 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (47 bp):
ATAATACATAATAATTTGAAATAATAACATATGATAACTTTAAAAAT
Found at i:19248335 original size:24 final size:23
Alignment explanation
Indices: 19248240--19248404 Score: 77
Period size: 24 Copynumber: 7.0 Consensus size: 23
19248230 TATCTTTAAG
* * *
19248240 TAATAATACATAATAATTTTGAAA
1 TAATAATATATGATAA-TTTAAAA
*
19248264 TAATAACATATGATAACTTTAAAA
1 TAATAATATATGATAA-TTTAAAA
* * * *
19248288 -ATATGAATACATAATGCATCTAAAA
1 TA-AT-AATATATGAT-AATTTAAAA
19248313 TAATAATATATGATAAGTTTAAAA
1 TAATAATATATGATAA-TTTAAAA
* * * **
19248337 TTATAGTATATAATAAATTTGAAGC
1 TAATAATATATGAT-AATTT-AAAA
*
19248362 T-ATAATGTATGATAAATTT-AAA
1 TAATAATATATGAT-AATTTAAAA
* *
19248384 TAATACTA-ATGATGATTTAAA
1 TAATAATATATGATAATTTAAA
19248405 GTAACAGTAT
Statistics
Matches: 105, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
21 4 0.04
22 9 0.09
23 6 0.06
24 64 0.61
25 20 0.19
26 2 0.02
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (23 bp):
TAATAATATATGATAATTTAAAA
Found at i:19250004 original size:16 final size:16
Alignment explanation
Indices: 19249983--19250019 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
19249973 TTGGTTCGCT
*
19249983 GTAATGGAATAGAGGC
1 GTAATGAAATAGAGGC
19249999 GTAATGAAATAGAGGC
1 GTAATGAAATAGAGGC
19250015 GTAAT
1 GTAAT
19250020 AGTAATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.22
Consensus pattern (16 bp):
GTAATGAAATAGAGGC
Found at i:19252877 original size:10 final size:10
Alignment explanation
Indices: 19252815--19252887 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
19252805 AATACTATAA
19252815 AATATAATTT
1 AATATAATTT
*
19252825 AAAATAA-TT
1 AATATAATTT
*
19252834 -AT-T-ATTA
1 AATATAATTT
19252841 AATATAATTT
1 AATATAATTT
**
19252851 AATA-AAAAT
1 AATATAATTT
19252860 -ATATAATTT
1 AATATAATTT
* *
19252869 AATAAAATTC
1 AATATAATTT
19252879 AATATAATT
1 AATATAATT
19252888 ATTCTTATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
6 1 0.02
7 2 0.04
8 6 0.13
9 9 0.20
10 28 0.61
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATAATTT
Found at i:19253123 original size:9 final size:9
Alignment explanation
Indices: 19253109--19253136 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
19253099 CAAAAGGTTA
19253109 CATGAAATT
1 CATGAAATT
19253118 CATGAAATT
1 CATGAAATT
19253127 CATGAAATT
1 CATGAAATT
19253136 C
1 C
19253137 TATGTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
CATGAAATT
Found at i:19254411 original size:49 final size:49
Alignment explanation
Indices: 19254339--19254442 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
19254329 AGAAAAAAAC
* * *
19254339 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
19254388 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
19254437 AAATTA
1 AAATTA
19254443 TAACACATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:19256811 original size:16 final size:16
Alignment explanation
Indices: 19256792--19256822 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19256782 TAAATTGGAA
19256792 TATTAAAAATAAAAAT
1 TATTAAAAATAAAAAT
19256808 TATTAAAAATAAAAA
1 TATTAAAAATAAAAA
19256823 AAATATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TATTAAAAATAAAAAT
Found at i:19258502 original size:78 final size:78
Alignment explanation
Indices: 19258349--19258503 Score: 193
Period size: 78 Copynumber: 2.0 Consensus size: 78
19258339 ATCAGCCAAG
* * * *
19258349 GGGTTAACAAGGAGTGAATTTGCAATTATGATTCTAACTTAATTGGGTTAGCTTCCATTGATAAG
1 GGGTTAACAAGGACTGAATTCGCAATGATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
* **
19258414 GCAATGACACTCA
66 ACAACAACACTCA
** * * * *
19258427 GGGTTAATGAGGACTGAATTCGCAATGATGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAAG
1 GGGTTAACAAGGACTGAATTCGCAATGATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
19258492 ACAACAACACTC
66 ACAACAACACTC
19258504 GAAACTTGCA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (78 bp):
GGGTTAACAAGGACTGAATTCGCAATGATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
ACAACAACACTCA
Found at i:19270262 original size:132 final size:132
Alignment explanation
Indices: 19270171--19271195 Score: 1397
Period size: 132 Copynumber: 7.8 Consensus size: 132
19270161 GGGGAGATAA
* * * * *
19270171 AATTACAGGCTTCAATGTACTCTACTGTAATCACAGGGAGGTAAAATCCACCATCTTGGATATGC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTAC
* * * ** *
19270236 TCCACTACTACTTAGGGAGATGAGATCTGAAATATTCAACCTATTCTGCTGCTGCCCAGGG-AGA
66 TCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAG-
19270300 TAG
130 TAG
*
19270303 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCGCCATCTTCGATCTAC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTAC
* *
19270368 TCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTG-TCAACCAGGG-AG
66 TCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCT-ACCCAGGGAAG
19270431 ATAG
130 -TAG
* *
19270435 AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTAC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTAC
* * * *
19270500 TCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTCAGAGAAGT
66 TCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGT
19270565 AG
131 AG
* *
19270567 AATTACTGGCTTCAATGTATTCCACTGTAATCACAGGGAGGTAAAA-CCTGCCATCTTCGATCTA
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCC-ACCATCTTCGATCTA
* * *
19270631 CTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGTTCCCCAGGGAAG
65 CTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAG
19270696 TAG
130 TAG
* * * *
19270699 AATGATTGGCTTTAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTAC
** * * *
19270764 TCCACTACCGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGT
66 TCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGT
19270829 AG
131 AG
*
19270831 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTC---CTGC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTAC
* * ** * * * *
19270893 TCCACT-GTAACTGAGGGAGGCAAGGTCTGTAATCTTCAATCTATTCCACTGCTGCTCAGGGAAG
66 TCCACTACT-ACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAG
19270957 TAG
130 TAG
*
19270960 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTT---TCTGC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTAC
* * ** * ** * * * *
19271022 TCCACTGCAACCGACGGAGGCAAGGTCTGTAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGT
66 TCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGT
19271087 AG
131 AG
*
19271089 AATTACTAGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTAC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTAC
* * *
19271154 TCCACTACTGCCTAGGGAGATAAGATCTGAAATATTCAATCT
66 TCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCT
19271196 GCTTCGCTGT
Statistics
Matches: 814, Mismatches: 68, Indels: 22
0.90 0.08 0.02
Matches are distributed among these distances:
129 236 0.29
131 3 0.00
132 570 0.70
133 5 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (132 bp):
AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTAC
TCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGT
AG
Found at i:19270340 original size:44 final size:44
Alignment explanation
Indices: 19270292--19270474 Score: 103
Period size: 44 Copynumber: 4.2 Consensus size: 44
19270282 TGCTGCTGCC
*
19270292 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCA
1 CAGGGAGATAGAATTACTGGCTTCAATCTACTCCACTGTAATCA
* * ** *** * *
19270336 CAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCAC--TACT-A
1 CAGGGAGATAGAAT-TACTGGCTTCAATCTACTCCACTGTAATCA
* * *
19270378 CTTAGGGAGGTA-AGA-T-CTGAAATCTTCAATCTATTCCACTGTCAA-C-
1 C--AGGGAGATAGA-ATTACTG---GCTTCAATCTACTCCACTGT-AATCA
* *
19270424 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCA
1 CAGGGAGATAGAATTACTGGCTTCAATCTACTCCACTGTAATCA
19270468 CAGGGAG
1 CAGGGAG
19270475 GTAAAATCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 32
0.66 0.13 0.21
Matches are distributed among these distances:
41 1 0.01
42 4 0.04
43 22 0.21
44 53 0.51
45 17 0.17
46 5 0.05
47 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (44 bp):
CAGGGAGATAGAATTACTGGCTTCAATCTACTCCACTGTAATCA
Found at i:19270517 original size:44 final size:44
Alignment explanation
Indices: 19270337--19270681 Score: 200
Period size: 44 Copynumber: 7.8 Consensus size: 44
19270327 CTGTAATCAC
* * *
19270337 AGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTACTT
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACTACTACTT
* * * * * *
19270381 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGTCAAC-C
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACT-ACTACTT
* * * *** * *
19270425 AGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTAACCAC--
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCAC--T-ACTACTT
* * *
19270469 AGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTACTT
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACTACTACTT
* * * * * *
19270513 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTC
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACTACTACTT
* * * * *** * * *
19270557 AGAGAAGTAGAAT-TACTGGCTTCAATGTATTCCACTGTAATCAC--
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCAC--TACT-ACTT
* * *
19270601 AGGGAGGTAAAACCTGCCATCTTCGATCTACTCCACTACTACTT
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACTACTACTT
* * *
19270645 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACT
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACT
19270682 GTTCCCCAGG
Statistics
Matches: 217, Mismatches: 72, Indels: 24
0.69 0.23 0.08
Matches are distributed among these distances:
42 6 0.03
43 35 0.16
44 136 0.63
45 39 0.18
46 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACTACTACTT
Found at i:19270693 original size:44 final size:44
Alignment explanation
Indices: 19270312--19270825 Score: 146
Period size: 44 Copynumber: 11.7 Consensus size: 44
19270302 GAATTACTGG
* * * * **
19270312 CTTCAATGTACTCCACTGTAAT-CACAGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCACTGT--TCCCCAGGGAGGTAAGATCTGAAAT
* ** * **
19270357 CTTCGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAAT
1 CTTCAATCTACTCCACTGTTCCCCAGGGAGGTAAGATCTGAAAT
* * * *
19270401 CTTCAATCTATTCCACTG-TCAACCAGGGAGAT-AGAATTACTG---G
1 CTTCAATCTACTCCACTGTTC-CCCAGGGAGGTAAG-A-T-CTGAAAT
* * * * * **
19270444 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCACTGT-TCCCCAGGGAGGTAAGATCTGAAAT
* ** * **
19270489 CTTCGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAAT
1 CTTCAATCTACTCCACTGTTCCCCAGGGAGGTAAGATCTGAAAT
* * * * * * *
19270533 CTTCAATCTATTCCACTGCTGCTCAGAGAAGT-AGAATTACTG---G
1 CTTCAATCTACTCCACTGTTCCCCAGGGAGGTAAG-A-T-CTGAAAT
* * * * * **
19270576 CTTCAATGTATTCCACTGTAAT-CACAGGGAGGTAAAACCTGCCAT
1 CTTCAATCTACTCCACTGT--TCCCCAGGGAGGTAAGATCTGAAAT
* ** * **
19270621 CTTCGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAAT
1 CTTCAATCTACTCCACTGTTCCCCAGGGAGGTAAGATCTGAAAT
* * * *
19270665 CTTCAATCTATTCCACTGTTCCCCAGGGAAGT-AGA-ATG-ATT
1 CTTCAATCTACTCCACTGTTCCCCAGGGAGGTAAGATCTGAAAT
* * * * * *
19270706 GGCTTTAATGTACTCCACTGTAAT-CACAGGGAGGTAAAATC-CACCAT
1 --CTTCAATCTACTCCACTGT--TCCCCAGGGAGGTAAGATCTGA-AAT
* * * *
19270753 CTTCGATCTGCTCCAC--TACCGCCTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTGTTCC-CC-AGGGAGGTAAGATCTGAAAT
* *
19270797 CTTCAATCTATTCCACTGTTGCCCAGGGA
1 CTTCAATCTACTCCACTGTTCCCCAGGGA
19270826 AGTAGAATTA
Statistics
Matches: 332, Mismatches: 102, Indels: 71
0.66 0.20 0.14
Matches are distributed among these distances:
41 2 0.01
42 8 0.02
43 62 0.19
44 183 0.55
45 68 0.20
46 8 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGTTCCCCAGGGAGGTAAGATCTGAAAT
Found at i:19273414 original size:17 final size:17
Alignment explanation
Indices: 19273369--19273421 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
19273359 TTCATTTTAA
*
19273369 TTTTGAGTTTTTTTCTT
1 TTTTGTGTTTTTTTCTT
19273386 TTTCT-T-TCTTTTTTCTT
1 TTT-TGTGT-TTTTTTCTT
*
19273403 TTTTGTGTTTTTTTGTT
1 TTTTGTGTTTTTTTCTT
19273420 TT
1 TT
19273422 ATATTTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
16 2 0.07
17 26 0.87
18 2 0.07
ACGTcount: A:0.02, C:0.08, G:0.09, T:0.81
Consensus pattern (17 bp):
TTTTGTGTTTTTTTCTT
Found at i:19273421 original size:24 final size:24
Alignment explanation
Indices: 19273377--19273436 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
19273367 AATTTTGAGT
* * *
19273377 TTTTTTCTTTTTCTTTCTTTTTTC
1 TTTTTTGTTTTTCTTTCTTTTATA
*
19273401 TTTTTTGTGTTTT-TTTGTTTTATA
1 TTTTTTGT-TTTTCTTTCTTTTATA
*
19273425 TTTTTTGATTTT
1 TTTTTTGTTTTT
19273437 GTTTTTGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 4 0.13
24 22 0.73
25 4 0.13
ACGTcount: A:0.05, C:0.07, G:0.07, T:0.82
Consensus pattern (24 bp):
TTTTTTGTTTTTCTTTCTTTTATA
Found at i:19273441 original size:26 final size:27
Alignment explanation
Indices: 19273412--19273494 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 27
19273402 TTTTTGTGTT
19273412 TTTTTGTTTTATATTTTTTGATTTTG-
1 TTTTTGTTTTATATTTTTTGATTTTGA
* ** *
19273438 TTTTTGATTGCTATTTTTTTATTTTGA
1 TTTTTGTTTTATATTTTTTGATTTTGA
* * *
19273465 TTTTT-CTTT-TCTTTTTTGATTGTGA
1 TTTTTGTTTTATATTTTTTGATTTTGA
19273490 TTTTT
1 TTTTT
19273495 TTGATTGAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
25 18 0.38
26 24 0.51
27 5 0.11
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.75
Consensus pattern (27 bp):
TTTTTGTTTTATATTTTTTGATTTTGA
Found at i:19281845 original size:12 final size:12
Alignment explanation
Indices: 19281830--19281860 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
19281820 CACAGGTGAG
*
19281830 GACACGGGCTGA
1 GACACGGCCTGA
19281842 GACACGGCCTGA
1 GACACGGCCTGA
19281854 GACACGG
1 GACACGG
19281861 ACGTGTGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.39, T:0.06
Consensus pattern (12 bp):
GACACGGCCTGA
Found at i:19296738 original size:25 final size:25
Alignment explanation
Indices: 19296644--19296738 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
19296634 GGTTTCGACC
* * *
19296644 CACAGCTCATGTGAGCATATCGATT
1 CACAGCTCGTATGAGCATACCGATT
* * * *
19296669 TATAGCTCGTGA-GAGCATATC-AAT
1 CACAGCTCGT-ATGAGCATACCGATT
*
19296693 CTACAGCTTG-AGTGAGCATACCGATT
1 C-ACAGCTCGTA-TGAGCATACCGATT
19296719 CACAGCTCGTATGAGCATAC
1 CACAGCTCGTATGAGCATAC
19296739 ATGTACATGA
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 46 0.87
26 4 0.08
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
CACAGCTCGTATGAGCATACCGATT
Found at i:19301160 original size:48 final size:48
Alignment explanation
Indices: 19301081--19301172 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
19301071 TTTAACTGCA
* * * *
19301081 ATTATGTGGCCGTTCTCAACAATTATGTGGTGGTTTTTCCACAATGTG
1 ATTATGTGGCCGTTATCAACAACTATGTGGTGGCTTGTCCACAATGTG
** *
19301129 ATTATGTGGCCGTTATCGGCAACTATTTGGTGGCTTGTCCACAA
1 ATTATGTGGCCGTTATCAACAACTATGTGGTGGCTTGTCCACAA
19301173 ACAGTGTGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (48 bp):
ATTATGTGGCCGTTATCAACAACTATGTGGTGGCTTGTCCACAATGTG
Found at i:19328473 original size:30 final size:30
Alignment explanation
Indices: 19328438--19328654 Score: 140
Period size: 30 Copynumber: 7.2 Consensus size: 30
19328428 AAGGCGTTAC
*
19328438 AGGGATAGCTTCGACTATCGACAAATGAAA
1 AGGGATAGCTTCGACTATCGAAAAATGAAA
* * * *
19328468 GGGGATAACTTCGGCTAT-TAAATAATGAAA
1 AGGGATAGCTTCGACTATCGAAA-AATGAAA
* *
19328498 AGGGATACCTTCGGCTATC-AAAATATGAAA
1 AGGGATAGCTTCGACTATCGAAAA-ATGAAA
* * ** * *
19328528 AGGGATAGTTTCAACTATCGAATTACGGAA
1 AGGGATAGCTTCGACTATCGAAAAATGAAA
* *
19328558 AGGGATAGCTTCGGCTATC-AAATTATGAAA
1 AGGGATAGCTTCGACTATCGAAA-AATGAAA
* * * *
19328588 AGGGAT-GGTGACGACCATC-AAAATATTAAA
1 AGGGATAGCT-TCGACTATCGAAAA-ATGAAA
**
19328618 AGGGATAGCTTC-AGCTATCGAATTATGGAAA
1 AGGGATAGCTTCGA-CTATCGAAAAAT-GAAA
19328649 AGGGAT
1 AGGGAT
19328655 TGTGACGACC
Statistics
Matches: 143, Mismatches: 33, Indels: 21
0.73 0.17 0.11
Matches are distributed among these distances:
29 8 0.06
30 120 0.84
31 15 0.10
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (30 bp):
AGGGATAGCTTCGACTATCGAAAAATGAAA
Found at i:19328533 original size:60 final size:60
Alignment explanation
Indices: 19328438--19328593 Score: 170
Period size: 60 Copynumber: 2.6 Consensus size: 60
19328428 AAGGCGTTAC
* * * ** * *
19328438 AGGGATAGCTTCGACTATCGACAA-ATGAAAGGGGATAACTTCGGCTATTAAATAATGAAA
1 AGGGATAGCTTCGGCTATC-AAAATATGAAAAGGGATAACTTCAACTATCAAATAACGAAA
* ** * * *
19328498 AGGGATACCTTCGGCTATCAAAATATGAAAAGGGATAGTTTCAACTATCGAATTACGGAA
1 AGGGATAGCTTCGGCTATCAAAATATGAAAAGGGATAACTTCAACTATCAAATAACGAAA
*
19328558 AGGGATAGCTTCGGCTATCAAATTATGAAAAGGGAT
1 AGGGATAGCTTCGGCTATCAAAATATGAAAAGGGAT
19328594 GGTGACGACC
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
59 3 0.04
60 77 0.96
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (60 bp):
AGGGATAGCTTCGGCTATCAAAATATGAAAAGGGATAACTTCAACTATCAAATAACGAAA
Found at i:19328591 original size:90 final size:90
Alignment explanation
Indices: 19328438--19328740 Score: 339
Period size: 90 Copynumber: 3.4 Consensus size: 90
19328428 AAGGCGTTAC
* * * *
19328438 AGGGATAGCTTC-GACTATCGACA-AAT-GAAAGGGGATAACTTCGGCTATTAAATAATGAAAAG
1 AGGGATAGCTTCAG-CTATCGA-ATTATGGAAA-GGGATAGCTTCGGCTATCAAATTATGAAAAG
** * * *
19328500 GGATACCT-TCGGCTATCAAAATATGAAA
63 GGAT-GGTGACGACCATCAAAATATGAAA
* * *
19328528 AGGGATAGTTTCAACTATCGAATTACGGAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGA
1 AGGGATAGCTTCAGCTATCGAATTATGGAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGA
*
19328593 TGGTGACGACCATCAAAATATTAAA
66 TGGTGACGACCATCAAAATATGAAA
* * * * *
19328618 AGGGATAGCTTCAGCTATCGAATTATGGAAAAGGGATTG-TGACGACCATC-AACTATGAAAAGG
1 AGGGATAGCTTCAGCTATCGAATTATGG-AAAGGGATAGCT-TCGGCTATCAAATTATGAAAAGG
19328681 GATGGTGACGACCATCAAAATATGAAA
64 GATGGTGACGACCATCAAAATATGAAA
*
19328708 ACGGATAGCTTCAGCTATCGAATTATGGAAAGG
1 AGGGATAGCTTCAGCTATCGAATTATGGAAAGG
19328741 ATGGTGACAA
Statistics
Matches: 184, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
89 7 0.04
90 158 0.86
91 19 0.10
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (90 bp):
AGGGATAGCTTCAGCTATCGAATTATGGAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGA
TGGTGACGACCATCAAAATATGAAA
Found at i:19328620 original size:60 final size:59
Alignment explanation
Indices: 19328487--19328683 Score: 223
Period size: 60 Copynumber: 3.3 Consensus size: 59
19328477 TTCGGCTATT
* * ** * *
19328487 AAATAATGAAAAGGGATACCTTCGGCTATCAAAATATGAAAAGGGATAGTTTCAACTATC
1 AAAT-ATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGTGACGACCATC
* * * *
19328547 GAATTACGGAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATC
1 -AAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGTGACGACCATC
* * * *
19328607 AAAATATTAAAAGGGATAGCTTCAGCTATCGAATTATGGAAAAGGGATTGTGACGACCATC
1 -AAATATGAAAAGGGATAGCTTCGGCTATCAAATTAT-GAAAAGGGATAGTGACGACCATC
*
19328668 AACTATGAAAAGGGAT
1 AAATATGAAAAGGGAT
19328684 GGTGACGACC
Statistics
Matches: 115, Mismatches: 20, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
60 90 0.78
61 25 0.22
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (59 bp):
AAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGTGACGACCATC
Found at i:19328707 original size:30 final size:30
Alignment explanation
Indices: 19328574--19328713 Score: 142
Period size: 30 Copynumber: 4.7 Consensus size: 30
19328564 AGCTTCGGCT
*
19328574 ATCAAATTATGAAAAGGGATGGTGACGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
* * * *
19328604 ATCAAAATATTAAAAGGGATAGCT-TC-AGCT
1 ATCAAAATATGAAAAGGGAT-GGTGACGA-CC
* * *
19328634 ATCGAATTATGGAAAAGGGATTGTGACGACC
1 ATCAAAATAT-GAAAAGGGATGGTGACGACC
*
19328665 ATC-AACTATGAAAAGGGATGGTGACGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
*
19328694 ATCAAAATATGAAAACGGAT
1 ATCAAAATATGAAAAGGGAT
19328714 AGCTTCAGCT
Statistics
Matches: 88, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
29 23 0.26
30 48 0.55
31 16 0.18
32 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (30 bp):
ATCAAAATATGAAAAGGGATGGTGACGACC
Found at i:19328755 original size:29 final size:30
Alignment explanation
Indices: 19328512--19328756 Score: 122
Period size: 30 Copynumber: 8.2 Consensus size: 30
19328502 ATACCTTCGG
* * * **
19328512 CTATCAAAATATGAAAAGGGATAGTTTCAA
1 CTATCGAATTATGAAAAGGGATGGTGACAA
* * * * **
19328542 CTATCGAATTACGGAAAGGGATAGCT-TCGG
1 CTATCGAATTATGAAAAGGGAT-GGTGACAA
* *
19328572 CTATCAAATTATGAAAAGGGATGGTGACGA
1 CTATCGAATTATGAAAAGGGATGGTGACAA
* * * * * * *
19328602 CCATCAAAATATTAAAAGGGATAGCT-TCAG
1 CTATCGAATTATGAAAAGGGAT-GGTGACAA
* *
19328632 CTATCGAATTATGGAAAAGGGATTGTGACGA
1 CTATCGAATTAT-GAAAAGGGATGGTGACAA
* * *
19328663 CCATC-AACTATGAAAAGGGATGGTGACGA
1 CTATCGAATTATGAAAAGGGATGGTGACAA
* * * * * * *
19328692 CCATCAAAATATGAAAACGGATAGCT-TCAG
1 CTATCGAATTATGAAAAGGGAT-GGTGACAA
*
19328722 CTATCGAATTATGGAAA-GGATGGTGACAA
1 CTATCGAATTATGAAAAGGGATGGTGACAA
19328751 CTATCG
1 CTATCG
19328757 TGATTTTACT
Statistics
Matches: 161, Mismatches: 46, Indels: 17
0.72 0.21 0.08
Matches are distributed among these distances:
28 2 0.01
29 36 0.22
30 104 0.65
31 19 0.12
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (30 bp):
CTATCGAATTATGAAAAGGGATGGTGACAA
Found at i:19338654 original size:18 final size:17
Alignment explanation
Indices: 19338631--19338664 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19338621 TTTTAGCACT
19338631 TGTTTTTAATAATTTTTA
1 TGTTTTTAAT-ATTTTTA
*
19338649 TGTTTTTGATATTTTT
1 TGTTTTTAATATTTTT
19338665 GTAGCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TGTTTTTAATATTTTTA
Found at i:19344464 original size:50 final size:51
Alignment explanation
Indices: 19344357--19344604 Score: 286
Period size: 50 Copynumber: 4.8 Consensus size: 51
19344347 ATTTGGGTAA
* * * *
19344357 AGAGATCCCATGTAAGGCCATGTCTGGGACATGACATTGGCATCATTAAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CT--GA-TATG
*
19344413 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGATATG
* *
19344463 AGAGGTCCCATGTAAGACCATGCCTGGGACATGGCATTGGCACCT-AGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGATATG
** *
19344513 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACC-GATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGATATG
** * * * *
19344563 AGAACTCCCATGTAATACCATATTTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19344605 GAACAAAAAA
Statistics
Matches: 168, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
50 125 0.74
51 4 0.02
53 1 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGATATG
Found at i:19346813 original size:23 final size:23
Alignment explanation
Indices: 19346787--19346922 Score: 123
Period size: 23 Copynumber: 6.0 Consensus size: 23
19346777 CATATTTTGC
**
19346787 AATGCCTTTTTTACGTATTCTGT
1 AATGCCTTTTTGGCGTATTCTGT
* *
19346810 AATGTCTTTTTGGCATATTCTGT
1 AATGCCTTTTTGGCGTATTCTGT
* *
19346833 AATGCCTTTCTGGCGTATTTTGT
1 AATGCCTTTTTGGCGTATTCTGT
* * *
19346856 AATGCC-TTAT-GCAGTATTTTGC
1 AATGCCTTTTTGGC-GTATTCTGT
* * *
19346878 AATGCCTTTATGGCATATTCTAT
1 AATGCCTTTTTGGCGTATTCTGT
* *
19346901 AATGCCTTTCTGGCGAATTCTG
1 AATGCCTTTTTGGCGTATTCTG
19346923 CAATATTTTT
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
21 2 0.02
22 17 0.18
23 71 0.77
24 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.46
Consensus pattern (23 bp):
AATGCCTTTTTGGCGTATTCTGT
Found at i:19346892 original size:68 final size:69
Alignment explanation
Indices: 19346737--19346926 Score: 197
Period size: 68 Copynumber: 2.8 Consensus size: 69
19346727 TGTGGCATAC
* * * * * * * * **
19346737 TTTT-CAATGCCTTTGTGGCATATTTTGTAGT-ACGTTGTGGCATATTTTGCAATGCCTTTTTTA
1 TTTTGCAATGCCTTTATGGCATATTCTGTAATGCCTTTCTGGCGTATTTTGCAATGCCTTATGCA
19346800 CGTA
66 CGTA
* * * * *
19346804 TTCTGTAATGTCTTTTTGGCATATTCTGTAATGCCTTTCTGGCGTATTTTGTAATGCCTTATGCA
1 TTTTGCAATGCCTTTATGGCATATTCTGTAATGCCTTTCTGGCGTATTTTGCAATGCCTTATGCA
19346869 -GTA
66 CGTA
* * *
19346872 TTTTGCAATGCCTTTATGGCATATTCTATAATGCCTTTCTGGCGAATTCTGCAAT
1 TTTTGCAATGCCTTTATGGCATATTCTGTAATGCCTTTCTGGCGTATTTTGCAAT
19346927 ATTTTTGTTG
Statistics
Matches: 99, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
67 3 0.03
68 72 0.73
69 24 0.24
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.46
Consensus pattern (69 bp):
TTTTGCAATGCCTTTATGGCATATTCTGTAATGCCTTTCTGGCGTATTTTGCAATGCCTTATGCA
CGTA
Found at i:19346897 original size:91 final size:91
Alignment explanation
Indices: 19346742--19346922 Score: 213
Period size: 91 Copynumber: 2.0 Consensus size: 91
19346732 CATACTTTTC
* * * * * * *
19346742 AATGCCTTTGTGGCATATTTTGTAGTACGTTGTGGCATATTTTGCAATGCCTTTTTTACGTATTC
1 AATGCCTTTCTGGCATATTTTGTAATACCTTATGGCATATTTTGCAATGCCTTTATGACATATTC
* * *
19346807 TGTAATGTCTTTTTGGC-ATATTCTGT
66 TATAATGCCTTTCTGGCGA-ATTCTGT
* * *
19346833 AATGCCTTTCTGGCGTATTTTGTAATGCCTTAT-GCAGTATTTTGCAATGCCTTTATGGCATATT
1 AATGCCTTTCTGGCATATTTTGTAATACCTTATGGCA-TATTTTGCAATGCCTTTATGACATATT
19346897 CTATAATGCCTTTCTGGCGAATTCTG
65 CTATAATGCCTTTCTGGCGAATTCTG
19346923 CAATATTTTT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
90 3 0.04
91 71 0.95
92 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (91 bp):
AATGCCTTTCTGGCATATTTTGTAATACCTTATGGCATATTTTGCAATGCCTTTATGACATATTC
TATAATGCCTTTCTGGCGAATTCTGT
Found at i:19354976 original size:35 final size:35
Alignment explanation
Indices: 19354935--19355031 Score: 167
Period size: 35 Copynumber: 2.8 Consensus size: 35
19354925 ACACTCTGTT
*
19354935 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAC
1 TGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCAC
*
19354970 TGGCGTGTTTCAGTCGGATTAGCTCTTATGAGCAC
1 TGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCAC
*
19355005 TGGCGTGTTTCTGTTGGATTAGCTCTT
1 TGGCGTGTTTCAGTTGGATTAGCTCTT
19355032 GTAAGCATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.13, C:0.18, G:0.30, T:0.39
Consensus pattern (35 bp):
TGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCAC
Found at i:19359964 original size:14 final size:13
Alignment explanation
Indices: 19359947--19359980 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
19359937 TATTAATTTT
19359947 TATTTTTATTTGAA
1 TATTTTTATTT-AA
19359961 TATTTTTATTTAA
1 TATTTTTATTTAA
19359974 -ATTTTTA
1 TATTTTTA
19359981 CATTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 2 0.10
14 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TATTTTTATTTAA
Found at i:19362601 original size:10 final size:10
Alignment explanation
Indices: 19362586--19362642 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
19362576 GAAAATTTTG
*
19362586 AATTTTAATT
1 AATTTTGATT
19362596 AATTTT-ATAT
1 AATTTTGAT-T
19362606 CAAATTTTGATT
1 --AATTTTGATT
19362618 AATTTTGATT
1 AATTTTGATT
*
19362628 ATTTTTGATT
1 AATTTTGATT
19362638 -ATTTT
1 AATTTT
19362643 CAACAGATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
9 6 0.15
10 26 0.63
12 7 0.17
13 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (10 bp):
AATTTTGATT
Found at i:19368017 original size:22 final size:22
Alignment explanation
Indices: 19367989--19368111 Score: 174
Period size: 22 Copynumber: 5.6 Consensus size: 22
19367979 CAACCATAAT
19367989 AGCTCTCATGTTTAACGTACTA
1 AGCTCTCATGTTTAACGTACTA
*
19368011 AGCTCTCATGTTTAACGAACTA
1 AGCTCTCATGTTTAACGTACTA
* * **
19368033 AACCCTCATGGCTAACGTACTA
1 AGCTCTCATGTTTAACGTACTA
**
19368055 AGCTCTCATGGCTAACGTACTA
1 AGCTCTCATGTTTAACGTACTA
*
19368077 AGCTCTCATGTTTCACGTACTA
1 AGCTCTCATGTTTAACGTACTA
19368099 AGCTCTCATGTTT
1 AGCTCTCATGTTT
19368112 GAACAATAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 90 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (22 bp):
AGCTCTCATGTTTAACGTACTA
Found at i:19370131 original size:26 final size:26
Alignment explanation
Indices: 19370102--19370169 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 26
19370092 ATCTAGAATA
19370102 AATATTTTTAATTTAATTTAATAAAT
1 AATATTTTTAATTTAATTTAATAAAT
* *
19370128 AATATTTGATCATATTTTATTTAATAAAT
1 AATATTT--TTA-ATTTAATTTAATAAAT
*
19370157 ATTTATTTTTAAT
1 A-ATATTTTTAAT
19370170 AAATTAATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
26 7 0.21
27 2 0.06
28 4 0.12
29 16 0.47
30 5 0.15
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (26 bp):
AATATTTTTAATTTAATTTAATAAAT
Found at i:19370160 original size:16 final size:17
Alignment explanation
Indices: 19370112--19370173 Score: 55
Period size: 17 Copynumber: 4.0 Consensus size: 17
19370102 AATATTTTTA
19370112 ATTTA-ATTTAATAAAT
1 ATTTATATTTAATAAAT
* *
19370128 A---ATATTTGAT-CAT
1 ATTTATATTTAATAAAT
19370141 ATTT-TATTTAATAAAT
1 ATTTATATTTAATAAAT
*
19370157 ATTTATTTTTAATAAAT
1 ATTTATATTTAATAAAT
19370174 TAATAGCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 11
0.69 0.10 0.22
Matches are distributed among these distances:
13 4 0.11
14 6 0.17
15 7 0.20
16 7 0.20
17 11 0.31
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTATATTTAATAAAT
Found at i:19370889 original size:25 final size:24
Alignment explanation
Indices: 19370860--19370915 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
19370850 TTTCTCCTAA
*
19370860 ATTTTAATTTTATTTAATTATTTAAT
1 ATTTTAA-TTTATTGAATTA-TTAAT
19370886 -TTTTCAATTTATTGAATTATTAAT
1 ATTTT-AATTTATTGAATTATTAAT
19370910 ATTTTA
1 ATTTTA
19370916 TATTAAGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.22
25 19 0.70
26 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTAATTTATTGAATTATTAAT
Found at i:19374158 original size:107 final size:107
Alignment explanation
Indices: 19373972--19374179 Score: 398
Period size: 107 Copynumber: 1.9 Consensus size: 107
19373962 CATGAAAGAA
*
19373972 AATTTAAAGGACAAAGCTTTAATTTGTTAAATAAAACTTAAATAAAAATAAAATAACAAAGTTAT
1 AATTTAAAGGACAAAGCTTTAATTTGTTAAATAAAACTTAAATAAAAATAAAATAACAAAATTAT
19374037 CATCTTCCTAAAAGGGAACCACCAAAAATTAGGGTGCACGAT
66 CATCTTCCTAAAAGGGAACCACCAAAAATTAGGGTGCACGAT
*
19374079 AATTTAAAGGACAAAGTTTTAATTTGTTAAATAAAACTTAAATAAAAATAAAATAACAAAATTAT
1 AATTTAAAGGACAAAGCTTTAATTTGTTAAATAAAACTTAAATAAAAATAAAATAACAAAATTAT
19374144 CATCTTCCTAAAAGGGAACCACCAAAAATTAGGGTG
66 CATCTTCCTAAAAGGGAACCACCAAAAATTAGGGTG
19374180 TTAAAACACC
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 99 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (107 bp):
AATTTAAAGGACAAAGCTTTAATTTGTTAAATAAAACTTAAATAAAAATAAAATAACAAAATTAT
CATCTTCCTAAAAGGGAACCACCAAAAATTAGGGTGCACGAT
Found at i:19374940 original size:40 final size:40
Alignment explanation
Indices: 19374891--19375124 Score: 200
Period size: 40 Copynumber: 5.8 Consensus size: 40
19374881 TTATTGAATG
*
19374891 AATGAACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
** ** * * *
19374931 AATGCACATATATGCCCCTGAATATACTTCGATACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * * *
19374971 AATGCACATACATGGCCCTTTTTGCACTTCGGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * ** * * *
19375011 AATACACAT-CTGTTCCCCTAATTGTACCTCGATACCCTTA
1 AATGCACATAC-GTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
19375051 AATACACATACGTGCCCCTGTTTGTACTTTGGTTCCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * * *
19375091 CATGCACTTACGTGCCCCTATTTATACTCCGGTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTA
19375125 ACTCTGAATC
Statistics
Matches: 149, Mismatches: 43, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
39 1 0.01
40 147 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:19375029 original size:80 final size:80
Alignment explanation
Indices: 19374889--19375117 Score: 235
Period size: 80 Copynumber: 2.9 Consensus size: 80
19374879 AATTATTGAA
* *
19374889 TGAATGAACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATATATGCCCCTGAA-
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATACACATATATGCCCCT-AAT
*
19374953 TATACTTCGATACCCC
65 TATACCTCGATACCCC
* * * * * * * *
19374969 TGAATGCACATACATGGCCCTTTTTGCACTTCGGTACCCCTGAATACACATCTGTTCCCCTAATT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATACACATATATGCCCCTAATT
* *
19375034 GTACCTCGATACCCT
66 ATACCTCGATACCCC
* * * * * * * ** *
19375049 TAAATACACATACGTGCCCCTGTTTGTACTTTGGTTCCCCTACATGCACTTACGTGCCCCTATTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATACACATATATGCCCCTAATT
19375114 ATAC
66 ATAC
19375118 TCCGGTAACT
Statistics
Matches: 118, Mismatches: 30, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
79 2 0.02
80 116 0.98
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (80 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATACACATATATGCCCCTAATT
ATACCTCGATACCCC
Found at i:19377813 original size:23 final size:22
Alignment explanation
Indices: 19377783--19377829 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
19377773 AATATATTAA
19377783 AAGCAAAT-TCGAAAATAATATT
1 AAGCAAATAT-GAAAATAATATT
*
19377805 AAGCTAAATATTAAAATAATATT
1 AAGC-AAATATGAAAATAATATT
19377828 AA
1 AA
19377830 AAACAATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 17 0.77
24 1 0.05
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (22 bp):
AAGCAAATATGAAAATAATATT
Found at i:19379729 original size:44 final size:42
Alignment explanation
Indices: 19379623--19379993 Score: 250
Period size: 44 Copynumber: 8.7 Consensus size: 42
19379613 TTTGGTCTAT
** * * * *
19379623 TCCACTGTAATCTCAGGGAGATAAGA-CATGATGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTTTTATTCAATCTGC
* * *
19379664 TCTACTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTAATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGAT-TTTTA-TTCAATCTGC
* ** * *
19379708 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATATGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTTTA--TTCAATCTGC
* * * *
19379752 TCCATTGTAATCTCAGGGAGATAAGA-TTTGATACGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTTTATTCAATCTGC
* * * * * *
19379793 TCTACTGTAA-CTTTAGAGAGATAAGATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGAT-TTTTA-TTCAATCTGC
* **
19379837 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTTTA--TTCAATCTGC
** * * *
19379881 TCCACTGTAATCTCAGGGAGATAAGA-CCTGATACGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTTTATTCAATCTGC
* * * *
19379922 TCTACTGTAA-CTTTAGAGAGATAAGATTCTTTAATTTAATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGATT-TTT-ATTCAATCTGC
*
19379966 TCCACTGTAATCTCAGGGAGATAGGATT
1 TCCACTGTAATCTCAGGGAGATAAGATT
19379994 ACTTGCTTCA
Statistics
Matches: 248, Mismatches: 65, Indels: 31
0.72 0.19 0.09
Matches are distributed among these distances:
40 3 0.01
41 79 0.32
43 14 0.06
44 149 0.60
45 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (42 bp):
TCCACTGTAATCTCAGGGAGATAAGATTTTTATTCAATCTGC
Found at i:19379791 original size:85 final size:85
Alignment explanation
Indices: 19379623--19380002 Score: 260
Period size: 85 Copynumber: 4.4 Consensus size: 85
19379613 TTTGGTCTAT
* * * * * *
19379623 TCCACTGTAATCTCAGGGAGATAAGA-CA-T-GATGCGATCTACTCTACTGTAA-CTTCAGAGAG
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCTGCTCCACTGTAATC-TCAGGGAG
* *
19379684 ATAAGATCTTTTATTTTAATCTGC
65 ATAAGA--TTTGA-TTCAATCTGC
* * *
19379708 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATATGCTCCATTGTAATCTCAGGGAGA
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGA
* *
19379773 TAAGATTTGATACGATCTGC
66 TAAGATTTGATTCAATCTGC
* * * * * ** *
19379793 TCTACTGTAA-CTTTAGAGAGATAAGATCCT-TTA-TTTTAATCCGCTCCACTGTAATCTCAGGG
1 TCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTCGATCTGCTCCACTGTAATCTCAGGG
* *
19379855 AGATAGGATTACTAGCTTCAATCTGC
63 AGATAAGATT--T-GATTCAATCTGC
* * * * * *
19379881 TCCACTGTAATCTCAGGGAGATAAGA--CCT-GATACGATCTGCTCTACTGTAA-CTTTAGAGAG
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCTGCTCCACTGTAATC-TCAGGGAG
* *
19379942 ATAAGATTCTTTAATTTAATCTGC
65 ATAAGA---TTTGATTCAATCTGC
* *
19379966 TCCACTGTAATCTCAGGGAGATAGGATTACTTGCTTC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
19380003 AGTCTTTTCT
Statistics
Matches: 227, Mismatches: 48, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
84 2 0.01
85 146 0.64
86 8 0.04
87 5 0.02
88 64 0.28
89 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (85 bp):
TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGA
TAAGATTTGATTCAATCTGC
Found at i:19379814 original size:129 final size:129
Alignment explanation
Indices: 19379623--19380003 Score: 629
Period size: 129 Copynumber: 3.0 Consensus size: 129
19379613 TTTGGTCTAT
* * *
19379623 TCCACTGTAATCTCAGGGAGATAAGACATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACATGATACGATCTGCTCTACTGTAACTTTAGAGAGATAA
*
19379688 GATCTTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATATGC
66 GATCTTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATATGC
* **
19379752 TCCATTGTAATCTCAGGGAGATAAGATTTGATACGATCTGCTCTACTGTAACTTTAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACATGATACGATCTGCTCTACTGTAACTTTAGAGAGATAA
* * *
19379817 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
66 GATCTTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATATGC
*
19379881 TCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTTAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACATGATACGATCTGCTCTACTGTAACTTTAGAGAGATAA
* *
19379946 GAT-TCTTTAATTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTTGCTTCA
66 GATCT-TTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCA
19380004 GTCTTTTCTA
Statistics
Matches: 234, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
129 234 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (129 bp):
TCCACTGTAATCTCAGGGAGATAAGACATGATACGATCTGCTCTACTGTAACTTTAGAGAGATAA
GATCTTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATATGC
Found at i:19382052 original size:14 final size:14
Alignment explanation
Indices: 19382033--19382062 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19382023 TTCCTATTGG
19382033 CCGCCTCCACTGCA
1 CCGCCTCCACTGCA
19382047 CCGCCTCCACTGCA
1 CCGCCTCCACTGCA
19382061 CC
1 CC
19382063 ATTCATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.60, G:0.13, T:0.13
Consensus pattern (14 bp):
CCGCCTCCACTGCA
Found at i:19392312 original size:13 final size:13
Alignment explanation
Indices: 19392296--19392321 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19392286 TATAATAAAA
19392296 TAAAATAATATTT
1 TAAAATAATATTT
19392309 TAAAATAATATTT
1 TAAAATAATATTT
19392322 AATGAATTTA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAAATAATATTT
Found at i:19392421 original size:23 final size:22
Alignment explanation
Indices: 19392391--19392437 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
19392381 AATATATTAA
19392391 AAGCAAAT-TCGAAAATAATATT
1 AAGCAAATAT-GAAAATAATATT
*
19392413 AAGCTAAATATTAAAATAATATT
1 AAGC-AAATATGAAAATAATATT
19392436 AA
1 AA
19392438 AAATAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 17 0.77
24 1 0.05
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (22 bp):
AAGCAAATATGAAAATAATATT
Found at i:19399045 original size:40 final size:40
Alignment explanation
Indices: 19398978--19399075 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 40
19398968 AATTATTGAA
* ** * *
19398978 TGAATGCACATATGTGCCCCTATTTGTACTTCGGTACTCC
1 TGAATGCACATACGTGCCAATAATTGTACTTCGGTACCCC
*
19399018 TGCATGCACATACGTGCCAATAATTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCAATAATTGTACTTCGGTACCCC
* *
19399058 TGAATGCACTTACATGCC
1 TGAATGCACATACGTGCC
19399076 TTTGCATATA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (40 bp):
TGAATGCACATACGTGCCAATAATTGTACTTCGGTACCCC
Found at i:19411209 original size:23 final size:25
Alignment explanation
Indices: 19411164--19411213 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
19411154 TGCATGAATA
*
19411164 ATAATAATAATAATGCAAGTAACAAT
1 ATAATAATAACAAT-CAAGTAACAAT
19411190 ATAATAATAACAAT-AA-TAACAAT
1 ATAATAATAACAATCAAGTAACAAT
19411213 A
1 A
19411214 ACGATAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 2 0.09
26 13 0.57
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.26
Consensus pattern (25 bp):
ATAATAATAACAATCAAGTAACAAT
Found at i:19413217 original size:44 final size:44
Alignment explanation
Indices: 19413123--19413406 Score: 171
Period size: 44 Copynumber: 6.3 Consensus size: 44
19413113 TTTTAATCCA
* * * * * * ** *
19413123 CTCCACTGCAACTTTAGGGAGATAGGATTAGTAACTTTAGTCTT
1 CTCCACTGCAACTTCAAGGAGATAAGATTTGTATCTTCAACCTG
*
19413167 CTCCACTGCAACTTCAAGGAGATAAGACTTGTATCTTCAACCTG
1 CTCCACTGCAACTTCAAGGAGATAAGATTTGTATCTTCAACCTG
* * * * *
19413211 CCCCACTACAACTTC-AGGGGTACAAGGTTTGT-TACTTCAACCTG
1 CTCCACTGCAACTTCAAGGAG-ATAAGATTTGTAT-CTTCAACCTG
* * * * ** * *
19413255 CTCTACTGTAAC-TCTAGAGAGATAAGGTTTGTGGCTTTAATCTG
1 CTCCACTGCAACTTCAAG-GAGATAAGATTTGTATCTTCAACCTG
* *
19413299 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCCTGTCTTCAATCTG
1 CTCCACTGCAACTTCAAGGAGATAAGATTTGTA-----TCTTCAACCTG
* * * *
19413348 CTCCACTGCAAATTC-AGAGAGATAAGATTGGTTTATTTTTAACCTG
1 CTCCACTGCAACTTCAAG-GAGATAAGATT--TGTATCTTCAACCTG
*
19413394 CTCCACTACAACT
1 CTCCACTGCAACT
19413407 ACTCCACTAC
Statistics
Matches: 185, Mismatches: 41, Indels: 26
0.73 0.16 0.10
Matches are distributed among these distances:
43 7 0.04
44 116 0.63
45 5 0.03
46 19 0.10
48 1 0.01
49 34 0.18
51 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAAGGAGATAAGATTTGTATCTTCAACCTG
Found at i:19413413 original size:14 final size:14
Alignment explanation
Indices: 19413394--19413420 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19413384 TTTTAACCTG
19413394 CTCCACTACAACTA
1 CTCCACTACAACTA
19413408 CTCCACTACAACT
1 CTCCACTACAACT
19413421 TCAGGGAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.22
Consensus pattern (14 bp):
CTCCACTACAACTA
Found at i:19420652 original size:30 final size:31
Alignment explanation
Indices: 19420597--19420664 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
19420587 ACCCTTAAAA
* ** **
19420597 TATTTACACTATTGATCTTTCAAATTTTTCG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
19420628 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
19420658 TATTTAC
1 TATTTAC
19420665 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:19422476 original size:6 final size:6
Alignment explanation
Indices: 19422465--19422496 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
19422455 AATAAATATA
19422465 TATTTT TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TATTTT TA
19422497 AAATAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:19425507 original size:14 final size:14
Alignment explanation
Indices: 19425488--19425520 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19425478 CTGGCCCACC
19425488 TATATTAATT-TTTT
1 TATATT-ATTATTTT
19425502 TATATTATTATTTT
1 TATATTATTATTTT
19425516 TATAT
1 TATAT
19425521 AAAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATATTATTATTTT
Found at i:19428480 original size:17 final size:17
Alignment explanation
Indices: 19428458--19428495 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
19428448 GAAACCCTAG
19428458 CTTTTTCTACTTTCTTT
1 CTTTTTCTACTTTCTTT
* *
19428475 CTTTTTTTATTTTCTTT
1 CTTTTTCTACTTTCTTT
19428492 CTTT
1 CTTT
19428496 CCTTCTCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTTTTCTACTTTCTTT
Found at i:19437918 original size:36 final size:36
Alignment explanation
Indices: 19437872--19437946 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
19437862 ATGTTCATGA
* *
19437872 TTTACGAACTTACTAAGCATTATATGCTTATGTTGT
1 TTTACAAACTTACTAAGCATTATATGCTTACGTTGT
19437908 TTTACAAACTTACTAAGCATTATATGCTTACGTTGT
1 TTTACAAACTTACTAAGCATTATATGCTTACGTTGT
19437944 TTT
1 TTT
19437947 CTTTCCTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (36 bp):
TTTACAAACTTACTAAGCATTATATGCTTACGTTGT
Found at i:19440796 original size:27 final size:27
Alignment explanation
Indices: 19440739--19440916 Score: 97
Period size: 27 Copynumber: 6.4 Consensus size: 27
19440729 TTAGGTTGCA
* * * *
19440739 CCACGAAGGTGTTCCTTTTCAGATATAG
1 CCACGAAGG-CTTCCTTTACAGAGATTG
*
19440767 CCACGAAGGCTTCCTTTACAAAGATTG
1 CCACGAAGGCTTCCTTTACAGAGATTG
* * *
19440794 CCACAAAGACTTTCCTTTCCAGAG-TTG
1 CCACGAAGGC-TTCCTTTACAGAGATTG
* * * * * ** *
19440821 ACACCAAGGCATCCTCTCCTTAGGTTGCG
1 CCACGAAGGCTTCCTTTACAGAGATT--G
* * * *
19440850 CCACGAAGGCATTCCTTTTCAAATATAG
1 CCACGAAGGC-TTCCTTTACAGAGATTG
* *
19440878 CCACGAAGGCTTCATTTACGGAGATTG
1 CCACGAAGGCTTCCTTTACAGAGATTG
*
19440905 CCACAAAGGCTT
1 CCACGAAGGCTT
19440917 TCCTGTCTAG
Statistics
Matches: 112, Mismatches: 33, Indels: 11
0.72 0.21 0.07
Matches are distributed among these distances:
26 9 0.08
27 55 0.49
28 31 0.28
29 9 0.08
30 8 0.07
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (27 bp):
CCACGAAGGCTTCCTTTACAGAGATTG
Found at i:19440876 original size:111 final size:111
Alignment explanation
Indices: 19440680--19440930 Score: 385
Period size: 111 Copynumber: 2.3 Consensus size: 111
19440670 TCGTTTGTAT
* *
19440680 TTGCCACAAGGGCTTTCCTTTACAGAGTTGACACCAAGGCATCCTATCCTTAGGTTGCACCACGA
1 TTGCCACAAAGGCTTTCCTTTCCAGAGTTGACACCAAGGCATCCTATCCTTAGGTTGCACCACGA
** * *
19440745 AGGTGTTCCTTTTCAGATATAGCCACGAAGGCTTCCTTTACAAAGA
66 AGGCATTCCTTTTCAAATATAGCCACGAAGGCTTCATTTACAAAGA
* * *
19440791 TTGCCACAAAGACTTTCCTTTCCAGAGTTGACACCAAGGCATCCTCTCCTTAGGTTGCGCCACGA
1 TTGCCACAAAGGCTTTCCTTTCCAGAGTTGACACCAAGGCATCCTATCCTTAGGTTGCACCACGA
**
19440856 AGGCATTCCTTTTCAAATATAGCCACGAAGGCTTCATTTACGGAGA
66 AGGCATTCCTTTTCAAATATAGCCACGAAGGCTTCATTTACAAAGA
* *
19440902 TTGCCACAAAGGCTTTCCTGTCTAGAGTT
1 TTGCCACAAAGGCTTTCCTTTCCAGAGTT
19440931 TGCTACAAAG
Statistics
Matches: 126, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
111 126 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (111 bp):
TTGCCACAAAGGCTTTCCTTTCCAGAGTTGACACCAAGGCATCCTATCCTTAGGTTGCACCACGA
AGGCATTCCTTTTCAAATATAGCCACGAAGGCTTCATTTACAAAGA
Found at i:19440942 original size:28 final size:28
Alignment explanation
Indices: 19440902--19440976 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
19440892 TTTACGGAGA
*
19440902 TTGCCACAAAGGCTTTCCTGTCTAGAGT
1 TTGCTACAAAGGCTTTCCTGTCTAGAGT
*
19440930 TTGCTACAAAGGCTTTCTTGTCTAGAGT
1 TTGCTACAAAGGCTTTCCTGTCTAGAGT
*
19440958 TTACTACAAAGGCTTTCCT
1 TTGCTACAAAGGCTTTCCT
19440977 TTGACAGAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (28 bp):
TTGCTACAAAGGCTTTCCTGTCTAGAGT
Found at i:19440996 original size:29 final size:29
Alignment explanation
Indices: 19440963--19441119 Score: 94
Period size: 29 Copynumber: 5.6 Consensus size: 29
19440953 AGAGTTTACT
* * *
19440963 ACAAAGGCTTTCCTTTGACAGAGATCGCC
1 ACAAAGGCTTACCTTTAACAGAGTTCGCC
* * * * *
19440992 ACAAAGTCTGACCTTTCACAGA-TTTGGC
1 ACAAAGGCTTACCTTTAACAGAGTTCGCC
*
19441020 ACAAAGGCGTT--CTTTAATAG-GTTCGCC
1 ACAAAGGC-TTACCTTTAACAGAGTTCGCC
* **
19441047 ACAAAGGCTTACCTTT-TCAGAGTTTTTCC
1 ACAAAGGCTTACCTTTAACAGAG-TTCGCC
* * * *
19441076 A-TAAGGGTTGTCCTTTAACAG-GTTTGCC
1 ACAAAGGCTT-ACCTTTAACAGAGTTCGCC
19441104 ACAAAGGCTTACCTTT
1 ACAAAGGCTTACCTTT
19441120 CTAGATTTTT
Statistics
Matches: 94, Mismatches: 25, Indels: 19
0.68 0.18 0.14
Matches are distributed among these distances:
26 2 0.02
27 21 0.22
28 32 0.34
29 36 0.38
30 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (29 bp):
ACAAAGGCTTACCTTTAACAGAGTTCGCC
Found at i:19441160 original size:57 final size:57
Alignment explanation
Indices: 19441044--19441171 Score: 152
Period size: 57 Copynumber: 2.2 Consensus size: 57
19441034 TAATAGGTTC
* * * * **
19441044 GCCACAAAGGCTTACCTTTTCAGAGTTTTTCCATAAGGGTTGTCCTTTAACAGGTTT
1 GCCACAAAGGCTTACCTTTTCAGAGTTTTTCCACAAAGGTCGTCCTTAAACAGAATT
*
19441101 GCCACAAAGGCTTACC-TTTCTAGATTTTTTCCACAAAGG-CGTCCTTAAACAGAAATT
1 GCCACAAAGGCTTACCTTTTC-AGAGTTTTTCCACAAAGGTCGTCCTTAAACAG-AATT
19441158 GCCACAAAAGGCTT
1 GCCAC-AAAGGCTT
19441172 TTCTTTTCCT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
56 15 0.25
57 38 0.62
58 8 0.13
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (57 bp):
GCCACAAAGGCTTACCTTTTCAGAGTTTTTCCACAAAGGTCGTCCTTAAACAGAATT
Found at i:19441446 original size:53 final size:53
Alignment explanation
Indices: 19441291--19441447 Score: 180
Period size: 53 Copynumber: 3.1 Consensus size: 53
19441281 ATTTAATTTG
*
19441291 TTTCCATATGATGCAATAACCCACCAGTTACGGTCTTACACGATATGGTCTTC
1 TTTCCATATGATGTAATAACCCACCAGTTACGGTCTTACACGATATGGTCTTC
** * * * *
19441344 TTTTAATATGATGTCAT-A-CTA--A-TTACGGTCTTATATGATATGGTCTTC
1 TTTCCATATGATGTAATAACCCACCAGTTACGGTCTTACACGATATGGTCTTC
* * * *
19441392 TTTCCTTATGATGTTATAACCCACCAGTTATGGTCTTACACGATATGGTTTTC
1 TTTCCATATGATGTAATAACCCACCAGTTACGGTCTTACACGATATGGTCTTC
19441445 TTT
1 TTT
19441448 AGTGCCATGG
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
48 37 0.45
49 2 0.02
50 2 0.02
51 2 0.02
52 2 0.02
53 38 0.46
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.41
Consensus pattern (53 bp):
TTTCCATATGATGTAATAACCCACCAGTTACGGTCTTACACGATATGGTCTTC
Found at i:19443189 original size:3 final size:3
Alignment explanation
Indices: 19443181--19443209 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19443171 TACTTTATTG
19443181 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
19443210 TCCATCCCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:19444201 original size:51 final size:50
Alignment explanation
Indices: 19444146--19444330 Score: 212
Period size: 51 Copynumber: 3.7 Consensus size: 50
19444136 CCGATTTACA
* * *
19444146 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGGTACACG
** * ** *
19444197 TAGTAGCCTGCACATAGTACTACACACGTGATTGA-AGCTATCCGGTATGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGGTACACG
* * *
19444248 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTCCACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGGTACACG
19444298 TAGTAGCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
19444331 TAGCAATTTC
Statistics
Matches: 110, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
49 1 0.01
50 41 0.37
51 67 0.61
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGGTACACG
Found at i:19444323 original size:101 final size:101
Alignment explanation
Indices: 19444144--19444328 Score: 309
Period size: 101 Copynumber: 1.8 Consensus size: 101
19444134 ACCCGATTTA
* *
19444144 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TATCATCCGATACACGTAGTAGCCTGCA
19444209 CATAGTACTACACACGTGATTGAAGCTATCCGGTATG
65 CATAGTACTACACACGTGATTGAAGCTATCCGGTATG
* *
19444246 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTCCACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATATCA-TCCGATACACGTAGTAGCCTGCA
19444310 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
19444329 CCTAGCAATT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.51
102 34 0.44
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATATCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATTGAAGCTATCCGGTATG
Found at i:19452709 original size:59 final size:59
Alignment explanation
Indices: 19452641--19452831 Score: 215
Period size: 59 Copynumber: 3.2 Consensus size: 59
19452631 TTTAGATTAA
19452641 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
* * ** * * * * * *
19452700 ATTATATATTATGATTTTAGTAAATTCATATAAGAA-TATATTTAATATTAAGAATTTTATTA-A
1 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTAT-TTTAA-ATT-A-TATTTTA-TAGT
*
19452763 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
19452822 ATTATATATT
1 ATTATATATT
19452832 ATGATTTTAG
Statistics
Matches: 103, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
58 2 0.02
59 40 0.39
60 12 0.12
61 6 0.06
62 11 0.11
63 30 0.29
64 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (59 bp):
ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
Found at i:19452762 original size:18 final size:18
Alignment explanation
Indices: 19452741--19452786 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
19452731 AAGAATATAT
19452741 TTAATATTA-AGAATTTTA
1 TTAA-ATTATAGAATTTTA
* *
19452759 TTAAATTATATATTTTTA
1 TTAAATTATAGAATTTTA
19452777 TTAAATTATA
1 TTAAATTATA
19452787 TTTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TTAAATTATAGAATTTTA
Found at i:19452762 original size:122 final size:121
Alignment explanation
Indices: 19452636--19452890 Score: 440
Period size: 122 Copynumber: 2.1 Consensus size: 121
19452626 CAAACTTTAG
*
19452636 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
* *
19452701 TTATATATTATGATTTTAGTAAATTCATA-TAAGAATATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTAATATTAAG-A-ATATCTAATATTAAGAATTTT
19452758 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
* *
19452823 TTATATATTATGATTTTAGTAATTTAATATTAAGAATATCTAATATTACGAATTTT
66 TTATATATTATGATTTTAGTAAATTAATATTAAGAATATCTAATATTAAGAATTTT
19452879 ATTAAATTATAT
1 ATTAAATTATAT
19452891 TTAATAATAA
Statistics
Matches: 127, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
121 31 0.24
122 92 0.72
123 4 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (121 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
TTATATATTATGATTTTAGTAAATTAATATTAAGAATATCTAATATTAAGAATTTT
Found at i:19452852 original size:22 final size:21
Alignment explanation
Indices: 19452803--19452854 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
19452793 AATAATTATG
*
19452803 TTAA-ATTATATTTTATAGTA
1 TTAATATTATATTTTATAATA
19452823 TTATATATTATGATTTTAGTAAT-
1 TTA-ATATTAT-ATTTTA-TAATA
19452846 TTAATATTA
1 TTAATATTA
19452855 AGAATATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TTAATATTATATTTTATAATA
Found at i:19453144 original size:16 final size:16
Alignment explanation
Indices: 19453123--19453155 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19453113 TTGATTTGTT
*
19453123 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
19453139 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
19453155 A
1 A
19453156 ATACAGCGAA
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:0.21, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:19464552 original size:26 final size:26
Alignment explanation
Indices: 19464523--19464574 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
19464513 TATAACTTTT
19464523 TTTATTTACCAAAATATATAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAA
19464549 TTTATTTACCAAAATATATAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAA
19464575 CAAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (26 bp):
TTTATTTACCAAAATATATAAAAAAA
Found at i:19464652 original size:27 final size:27
Alignment explanation
Indices: 19464622--19464715 Score: 136
Period size: 27 Copynumber: 3.5 Consensus size: 27
19464612 CGCCAATGGT
* *
19464622 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
19464649 ATTGGCGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
19464676 ATTGGCGGCACCAATGGTGCC-ATACTA
1 ATTGGCGGCACCAATGGTGCCAATAC-C
19464703 ATTGGCGGCACCA
1 ATTGGCGGCACCA
19464716 CTCGTATTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 3 0.05
27 58 0.95
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.17
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATACC
Found at i:19464963 original size:3 final size:3
Alignment explanation
Indices: 19464957--19464991 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
19464947 ATTATTATTA
19464957 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
19464992 ATTAGTATNN
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:19465197 original size:12 final size:12
Alignment explanation
Indices: 19465180--19465216 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
19465170 NNAATTTTAG
19465180 TGTGTATTATTT
1 TGTGTATTATTT
19465192 TGTGTATTATTT
1 TGTGTATTATTT
* *
19465204 TGAGTATAATTT
1 TGTGTATTATTT
19465216 T
1 T
19465217 TTTTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:19467188 original size:159 final size:161
Alignment explanation
Indices: 19466761--19467193 Score: 374
Period size: 159 Copynumber: 2.7 Consensus size: 161
19466751 AAGTTGAAAA
* * *
19466761 AAAAGTTAGTAAATAAATCTTACTTCGGCCATTTATTCGTA-TTTTTTCTTCGCATTTTATTACT
1 AAAAGTTAGT-AATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTC-TCGCATTTTATTACT
** * *
19466825 TTAAAAAATATCAT-AATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAAT
64 TTAAAAAATATCATAAATTAGT-ATTTTATAATTTTACATTATTTCAGTACATAATCTTTGAAA-
* * *
19466889 TTATTACTCTAGTGTGTTATTTAAATTAATTTGGTGT
127 TTATTACTCTAGTGTATTATTT-AATGAATTT-GTAT
** * * *
19466926 AAAA---A--AATAACTCTTACCCCTGCCCTTTGCTCGTATTATTTTCTCG-ATTTTTATTACTT
1 AAAAGTTAGTAATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCGCA-TTTTATTACTT
* * * ** * **
19466985 TAAATAAAATTAT-ATTATTCTCGTATTTTATTGTTTTATATTATTTCAGTACATTTTCTTTGAA
65 T-AA-AAAA-TATCATAAAT-TAGTATTTTATAATTTTACATTATTTCAGTACATAATCTTTGAA
* * *
19467049 A-TATT-TTGTA-T-TAATTATTT-CTGAATTT-TAT
126 ATTATTACTCTAGTGT-ATTATTTAATGAATTTGTAT
*
19467080 AAAAGTTAGTAATACACTCTTACTTCTACCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
1 AAAAGTTAGTAATA-ACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCT-CGCATTTTATTACT
*
19467145 TTAAAAAATATCATAAACTTAGTCTTTTATAATTTTACATTATTTCAGT
64 TTAAAAAATATCATAAA-TTAGTATTTTATAATTTTACATTATTTCAGT
19467194 GCATCGTGTT
Statistics
Matches: 213, Mismatches: 37, Indels: 42
0.73 0.13 0.14
Matches are distributed among these distances:
154 6 0.03
156 6 0.03
157 2 0.01
158 11 0.05
159 77 0.36
160 44 0.21
161 20 0.09
162 41 0.19
163 2 0.01
165 4 0.02
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (161 bp):
AAAAGTTAGTAATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCGCATTTTATTACTTT
AAAAAATATCATAAATTAGTATTTTATAATTTTACATTATTTCAGTACATAATCTTTGAAATTAT
TACTCTAGTGTATTATTTAATGAATTTGTAT
Found at i:19468065 original size:33 final size:35
Alignment explanation
Indices: 19468025--19468216 Score: 128
Period size: 35 Copynumber: 5.3 Consensus size: 35
19468015 TTACCTTTTT
19468025 TTTCTTT-TTTTTCCTTCCTTCCCTCTTCTTCTTC
1 TTTCTTTCTTTTTCCTTCCTTCCCTCTTCTTCTTC
* *
19468059 -TTCTTTTTTTTTCTCTTCTCCTTTCCT-TTCTTTCCTTC
1 TTTCTTTCTTTTTC-C-T-TCCTTCCCTCTTC-TT-CTTC
*
19468097 TTTCTTTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTC
1 TTTCTTTCTTTTTCCTTC-C--TTCC--CTCTTCTTCTTC
* *
19468137 TTTCTTTCTTTTT-TTTCTCTTCTCCT-TTC-CCTTTC
1 TTTCTTTCTTTTTCCTTC-CTTC-CCTCTTCTTC-TTC
* * *
19468172 TTTCCTTCTTTTT-CTTTCTTCCCTCTCCTTTCTTCC
1 TTTCTTTCTTTTTCCTTCCTTCCCTCTTC-TTCTT-C
19468208 TTTCTTTCT
1 TTTCTTTCT
19468217 CTCTTTCTTT
Statistics
Matches: 127, Mismatches: 12, Indels: 36
0.73 0.07 0.21
Matches are distributed among these distances:
33 9 0.07
34 13 0.10
35 23 0.18
36 18 0.14
37 15 0.12
38 6 0.05
39 19 0.15
40 17 0.13
41 4 0.03
42 3 0.02
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (35 bp):
TTTCTTTCTTTTTCCTTCCTTCCCTCTTCTTCTTC
Found at i:19468097 original size:44 final size:43
Alignment explanation
Indices: 19468048--19468187 Score: 159
Period size: 38 Copynumber: 3.3 Consensus size: 43
19468038 CTTCCTTCCC
19468048 TCTTCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTCTT
1 TCTTCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTCTT
* *
19468091 TC--CTTC-T-TTCTTTCTTTTT-TCTTCTCTTTTCC-TTCTCT
1 TCTTCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTCT-T
19468129 TCTTCTTCTTTCTT-TCTTTTTTTTCTCTTCTCCTTTCCCTTTCTT
1 TCTTCTTC-TTCTTCT-TTTTTTTTCTCTTCTCCTTT-CCTTTCTT
*
19468174 TCCTTCTTTTTCTT
1 T-CTTCTTCTTCTT
19468188 TCTTCCCTCT
Statistics
Matches: 81, Mismatches: 5, Indels: 20
0.76 0.05 0.19
Matches are distributed among these distances:
37 4 0.05
38 15 0.19
39 11 0.14
40 5 0.06
41 4 0.05
42 2 0.02
43 11 0.14
44 10 0.12
45 9 0.11
46 10 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (43 bp):
TCTTCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTCTT
Found at i:19468101 original size:4 final size:4
Alignment explanation
Indices: 19468059--19468235 Score: 104
Period size: 4 Copynumber: 43.8 Consensus size: 4
19468049 CTTCTTCTTC
* *
19468059 TTCT TT-T TT-T TTCT CTTC- TCCT TTCCT TTCT TTCC TTCT TTCT TTCT
1 TTCT TTCT TTCT TTCT -TTCT TTCT TT-CT TTCT TTCT TTCT TTCT TTCT
*
19468106 TT-T TTCT TCTCTT TTCC TTCT CTTC- TTC- TTCT TTCT TTCT TT-T TT-T
1 TTCT TTCT T-TC-T TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT TTCT
* * *
19468152 TCTCT TCTCCT TTCCCT TTCT TTCC TTC- TT-T TTCT TTCT TCCCT CTCCT
1 T-TCT T-T-CT TT--CT TTCT TTCT TTCT TTCT TTCT TTCT T-TCT -TTCT
* *
19468201 TTCT TCCT TTCT TTCT CTCT TTCT TTCT TTCT TTC
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
19468236 CCTCTCCTTC
Statistics
Matches: 143, Mismatches: 13, Indels: 34
0.75 0.07 0.18
Matches are distributed among these distances:
3 26 0.18
4 82 0.57
5 24 0.17
6 11 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
TTCT
Found at i:19468173 original size:75 final size:73
Alignment explanation
Indices: 19468047--19468246 Score: 182
Period size: 74 Copynumber: 2.7 Consensus size: 73
19468037 CCTTCCTTCC
* *
19468047 CTCTTCTTCTTC-TTCTTTTTTTTTCTCTTCTCCTTTCCTTTCTTTCCTTCTTTCTTTCTTTTTT
1 CTCTTCTTCTTCTTTCTTTCTTTTTCTCTTCTCCTTTCCTTTC--TCCTTCTTTCCTTC-TTTTT
*
19468111 CTTCTCTTTTCCTT
63 CTT-TC--TTCCCT
19468125 CTCTTCTTCTTCTTTCTTTCTTTTT-T-TTCT-CTTCTCCTTTC-CCTTTCTTTCCTTCTTTTTC
1 CTCTTCTTCTTCTTTCTTTCTTTTTCTCTTCTCCTT-TCCTTTCTCC-TTCTTTCCTTCTTTTTC
19468186 TTTCTTCCCT
64 TTTCTTCCCT
* * *
19468196 CTCCT-TTCTTCCTTTCTTTCTCTCTTTCT-TTCTTTCTTTCC-CTCTCCTTCT
1 CTCTTCTTCTT-CTTTCTTTCT-T-TTTCTCTTC-TCCTTTCCTTTCTCCTTCT
19468247 GCCCCCCACC
Statistics
Matches: 107, Mismatches: 5, Indels: 24
0.79 0.04 0.18
Matches are distributed among these distances:
70 5 0.05
71 19 0.18
72 1 0.01
73 5 0.05
74 20 0.19
75 16 0.15
76 6 0.06
77 11 0.10
78 13 0.12
79 11 0.10
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (73 bp):
CTCTTCTTCTTCTTTCTTTCTTTTTCTCTTCTCCTTTCCTTTCTCCTTCTTTCCTTCTTTTTCTT
TCTTCCCT
Found at i:19468175 original size:83 final size:79
Alignment explanation
Indices: 19468018--19468230 Score: 253
Period size: 82 Copynumber: 2.7 Consensus size: 79
19468008 AATAAAATTA
*
19468018 CCTT-TTTTTTCTTTTTT-TTC-C-TTCCTTCCCTCTTCTTC-TTC-TTCTTTTTTTTTCTCTTC
1 CCTTCTTTTTTCTTTTTTCTTCTCTTTCCTTCCTTCTTCTTCTTTCTTTC-TTTTTTTTCTCTTC
19468077 TCCTTTCCTTTCTTT
65 TCCTTTCCTTTCTTT
19468092 CCTTCTTTCTTTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTTTTTCTCT
1 CCTTCTTT-TTTCTTTTTTCTTCTC-TTTCCTTC-CTTCTTCTTCTTTCTTTCTTTTTTTTCTCT
19468157 TCTCCTTTCCCTTTCTTT
63 TCTCCTTT-CCTTTCTTT
* *
19468175 CCTTC-TTTTTCTTTCTTCCCTCTCCTTT-CTTCCTTTCTTTCTCTCTTTCTTTCTTT
1 CCTTCTTTTTTCTTT-TTTCTTCT-CTTTCCTTCC-TTC-TTCT-TCTTTCTTTCTTT
19468231 CTTTCCCTCT
Statistics
Matches: 121, Mismatches: 3, Indels: 21
0.83 0.02 0.14
Matches are distributed among these distances:
74 4 0.03
75 3 0.02
76 10 0.08
77 3 0.02
78 1 0.01
80 8 0.07
81 23 0.19
82 38 0.31
83 31 0.26
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (79 bp):
CCTTCTTTTTTCTTTTTTCTTCTCTTTCCTTCCTTCTTCTTCTTTCTTTCTTTTTTTTCTCTTCT
CCTTTCCTTTCTTT
Found at i:19468246 original size:115 final size:116
Alignment explanation
Indices: 19468025--19468246 Score: 280
Period size: 115 Copynumber: 1.9 Consensus size: 116
19468015 TTACCTTTTT
* * *
19468025 TTTCTTTTTTTTCCTTCCTTCCCTCTTCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTCT
1 TTTCTTTTTTTTCCTTCCTTCCCTCTTCTTCTCCTTCTTTTTTCTTCTCTTCTCCTCTCCTTTCT
* *
19468090 TTCCTTCTTTCTTTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTC
66 TTCCTTCTTTCTCTCTTTTTTCTTCTCTTTCCCTTCTCTTCTTCTTCTTTC
19468141 TTTCTTTTTTTTCTCTTCTCCTTTCCCT-TTCTT-TCCTTC-TTTTTCTT-TCTTC-CCTCTCCT
1 TTTCTTTTTTTTC-C-T-TCC-TTCCCTCTTCTTCTCCTTCTTTTTTCTTCTCTTCTCCTCTCCT
19468201 TTC-TTCCTTTCTTTCTCTCTTTCTTTCTT-TCTTTCCC-TCTCCTTCT
62 TTCTTTCC-TTCTTTCTCTCTTT-TTTCTTCTCTTTCCCTTCT-CTTCT
19468247 GCCCCCCACC
Statistics
Matches: 94, Mismatches: 5, Indels: 15
0.82 0.04 0.13
Matches are distributed among these distances:
114 7 0.07
115 35 0.37
116 24 0.26
117 8 0.09
118 6 0.06
119 8 0.09
120 6 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (116 bp):
TTTCTTTTTTTTCCTTCCTTCCCTCTTCTTCTCCTTCTTTTTTCTTCTCTTCTCCTCTCCTTTCT
TTCCTTCTTTCTCTCTTTTTTCTTCTCTTTCCCTTCTCTTCTTCTTCTTTC
Found at i:19468446 original size:27 final size:26
Alignment explanation
Indices: 19468386--19468456 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
19468376 TTTGGTTTTT
19468386 TTATATATTTTGGTAAATAAAAAAAA
1 TTATATATTTTGGTAAATAAAAAAAA
*
19468412 TTATATATTTTGGTAAATAAAAAAAG
1 TTATATATTTTGGTAAATAAAAAAAA
19468438 TTATAATATTTTGGTAAAT
1 TTAT-ATATTTTGGTAAAT
19468457 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
26 29 0.67
27 14 0.33
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (26 bp):
TTATATATTTTGGTAAATAAAAAAAA
Found at i:19468649 original size:3 final size:3
Alignment explanation
Indices: 19468641--19468692 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
19468631 CTATTAATGT
19468641 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19468689 TAA T
1 TAA T
19468693 TTATATATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:19469177 original size:22 final size:21
Alignment explanation
Indices: 19469147--19469204 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
19469137 GAATGGTATC
*
19469147 TACAAATCAAATCTCTAATAT
1 TACAAATCAAATCTCTAAGAT
*
19469168 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCAAATC-TCTAAGAT
*
19469191 TACATATCAAATCT
1 TACAAATCAAATCT
19469205 ACGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (21 bp):
TACAAATCAAATCTCTAAGAT
Found at i:19474321 original size:22 final size:22
Alignment explanation
Indices: 19474291--19474346 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
19474281 GAATGGTATC
19474291 TACAAATCAAATC-TCTAAGAT
1 TACAAATCAAATCTTCTAAGAT
*
19474312 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCAAATCTTCTAAGAT
*
19474335 TACATATCAAAT
1 TACAAATCAAAT
19474347 ATACGATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 16 0.53
23 11 0.37
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATCTTCTAAGAT
Found at i:19482404 original size:20 final size:19
Alignment explanation
Indices: 19482360--19482411 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
19482350 AATATATGTT
19482360 TATTT-AATATATTATAAA
1 TATTTAAATATATTATAAA
* *
19482378 T-TATAAATATATTTTAAA
1 TATTTAAATATATTATAAA
*
19482396 TAATTTAAAAATATTA
1 T-ATTTAAATATATTA
19482412 AATTAAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 2 0.08
18 14 0.54
20 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTTAAATATATTATAAA
Found at i:19484740 original size:91 final size:91
Alignment explanation
Indices: 19484593--19484800 Score: 310
Period size: 91 Copynumber: 2.3 Consensus size: 91
19484583 TTGATTTTAG
* *
19484593 TAAATTCATATAAGAACATTTTATTATTAAGAAATTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAAATTTATGAAATTATATATCATTATTAAATTAT
* * *
19484658 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* *
19484685 TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAATTATATA-CTATTATTAAATTAT
1 TAAATTCATATAAGAAAATTTATTATCAAGAAATTTATGAAATTATATATC-ATTATTAAATTAT
19484749 ATGTAATAATAATTATTTTAAATTATA
65 ATGTAATAATAATTATTTTAAATTATA
* *
19484776 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
19484801 GTTATAATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
90 1 0.01
91 89 0.84
92 16 0.15
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAAATTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:19484767 original size:47 final size:45
Alignment explanation
Indices: 19484627--19484768 Score: 114
Period size: 47 Copynumber: 3.1 Consensus size: 45
19484617 TATTAAGAAA
*
19484627 TTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTA-
1 TTTATGAAATTATATAT-ATTATTAAATTATA-TTAATAATAATTAT
* * * * * *
19484673 TTT-T-AAATTGTATAAATTCATATAAGA--AAATTTATTATCAATAAT
1 TTTATGAAATTATATATATT-AT-TAA-ATTATATTAATAAT-AATTAT
19484718 TTTATGAAATTATATACTATTATTAAATTATATGTAATAATAATTAT
1 TTTATGAAATTATATA-TATTATTAAATTATAT-TAATAATAATTAT
19484765 TTTA
1 TTTA
19484769 AATTATACAA
Statistics
Matches: 72, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
43 8 0.11
44 17 0.24
45 8 0.11
46 8 0.11
47 23 0.32
48 8 0.11
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (45 bp):
TTTATGAAATTATATATATTATTAAATTATATTAATAATAATTAT
Found at i:19484892 original size:59 final size:58
Alignment explanation
Indices: 19484827--19485135 Score: 170
Period size: 59 Copynumber: 5.2 Consensus size: 58
19484817 ATTTTATTAA
*
19484827 ATCATATATTTTAAATAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAAGTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGT
* * ** *
19484886 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TT-AA-GA-ATTTTATTA-
1 ATC--ATA-TAT--TTTAAGTAAAAT-ATAT-TTAATATTAATTATTTAAATTATATTTTA-TAG
*
19484946 A
58 T
* * * * *
19484947 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAAGTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGT
* * ** *
19485006 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TT-AA-GA-ATTTTATTA-
1 ATC--ATA-TAT--TTTAAGTAAAAT-ATAT-TTAATATTAATTATTTAAATTATATTTTA-TAG
*
19485066 A
58 T
* * * * *
19485067 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAAGTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGT
19485126 ATCATATATT
1 ATCATATATT
19485136 ATGATTTGAG
Statistics
Matches: 181, Mismatches: 41, Indels: 56
0.65 0.15 0.20
Matches are distributed among these distances:
54 20 0.11
55 8 0.04
56 20 0.11
57 2 0.01
58 12 0.07
59 32 0.18
61 22 0.12
62 12 0.07
63 3 0.02
64 19 0.10
65 10 0.06
66 21 0.12
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (58 bp):
ATCATATATTTTAAGTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGT
Found at i:19484940 original size:120 final size:120
Alignment explanation
Indices: 19484816--19485228 Score: 731
Period size: 120 Copynumber: 3.4 Consensus size: 120
19484806 AATTATTTTA
* * * *
19484816 AATTTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAAATATAATATATTTAATAATAATTATGTT-AATTTATATTT
19484880 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
19484936 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAAATATAATATATTTAATAATAATTATGTTAATTTATATTTT
19485001 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
19485056 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAAATATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
19485121 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
19485176 AATTTTATTAAATTATATA-TTTAAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAAA-TATAATATATTTAATAATAATTATGTT
19485229 TAAATATGAT
Statistics
Matches: 284, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
119 5 0.02
120 277 0.98
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAAATATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:19484976 original size:15 final size:15
Alignment explanation
Indices: 19484941--19484992 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
19484931 TTAAGAATTT
*
19484941 TATTAAATTAT-ATA
1 TATTTAATTATAATA
19484955 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
19484969 TATTTAATAATAAT-
1 TATTTAATTATAATA
19484983 TATGTTAATT
1 TAT-TTAATT
19484993 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:19485096 original size:15 final size:15
Alignment explanation
Indices: 19485061--19485112 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
19485051 TTAAGAATTT
*
19485061 TATTAAATTAT-ATA
1 TATTTAATTATAATA
19485075 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
19485089 TATTTAATAATAAT-
1 TATTTAATTATAATA
19485103 TATGTTAATT
1 TAT-TTAATT
19485113 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Done.