Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 106 of 250
Found at i:34123100 original size:54 final size:54
Alignment explanation
Indices: 34123040--34123243 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
34123030 AAATTGTACA
* * *
34123040 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
34123094 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
34123148 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
34123203 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
34123244 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:34124759 original size:29 final size:29
Alignment explanation
Indices: 34124691--34124815 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
34124681 AAGTCTACAA
* *
34124691 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** *
34124719 TTATTCATATGGTCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
34124748 ACTTTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
34124777 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
34124806 ACATTCATAT
1 ACATTCATAT
34124816 ACATGCTTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 19 0.23
29 65 0.77
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:34131786 original size:43 final size:43
Alignment explanation
Indices: 34131673--34131839 Score: 110
Period size: 43 Copynumber: 3.9 Consensus size: 43
34131663 ACATAAGCTC
* * * *
34131673 ATACAATGCC-ATATCCCAAATATGGTCTTACATGT--TATCA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATATCA
* * * * * *
34131713 CATATCGATGCCACTGTCCTAAAAAGGGTCTTACACG-AA-ATCA
1 -ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATATCA
* * *
34131756 ATTAACAATTCCAATGTCCCAGACATGGTCTTACATGTAATCTCA
1 A-T-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATATCA
* * * *
34131801 ATACAATGGCAATGTCCTAGACATAGTCTTACATGTAAT
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAAT
34131840 CACATTTCGA
Statistics
Matches: 98, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
41 3 0.03
42 7 0.07
43 80 0.82
44 4 0.04
45 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATATCA
Found at i:34135444 original size:27 final size:28
Alignment explanation
Indices: 34135414--34135527 Score: 148
Period size: 27 Copynumber: 4.2 Consensus size: 28
34135404 ATGACGGAGT
34135414 CACCAGATACAGATAT-TGTGGCATAGC
1 CACCAGATACAGATATATGTGGCATAGC
* *
34135441 CACCAGA-ATAGATATATGTGGCAGAGC
1 CACCAGATACAGATATATGTGGCATAGC
*
34135468 CACCAGAT-CAGATA-ATTGTGGTATAGC
1 CACCAGATACAGATATA-TGTGGCATAGC
*
34135495 CACCAG-GACAGATATATGTGGCATAGC
1 CACCAGATACAGATATATGTGGCATAGC
34135522 CACCAG
1 CACCAG
34135528 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
26 8 0.11
27 66 0.88
28 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (28 bp):
CACCAGATACAGATATATGTGGCATAGC
Found at i:34135486 original size:54 final size:54
Alignment explanation
Indices: 34135414--34135527 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 54
34135404 ATGACGGAGT
*
34135414 CACCAGATACAGATATTGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
34135468 CACCAGAT-CAGATAATTGTGGTATAGCCACCAGGACAGATATATGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
34135522 CACCAG
1 CACCAG
34135528 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 5 0.09
54 50 0.91
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (54 bp):
CACCAGATACAGATATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:34137169 original size:26 final size:26
Alignment explanation
Indices: 34137113--34137193 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
34137103 TGAAATGCCC
34137113 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
34137138 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
34137164 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34137190 ATCA
1 ATCA
34137194 ATTTTATCAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 20 0.37
26 34 0.63
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34142297 original size:15 final size:16
Alignment explanation
Indices: 34142279--34142308 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34142269 AGTTTTTCGC
34142279 AAAATTTTT-TTTTTG
1 AAAATTTTTGTTTTTG
34142294 AAAATTTTTGTTTTT
1 AAAATTTTTGTTTTT
34142309 TGTAAACCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (16 bp):
AAAATTTTTGTTTTTG
Found at i:34143328 original size:27 final size:27
Alignment explanation
Indices: 34143280--34143438 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
34143270 GCGAGGCTGC
* *
34143280 CAGATATTGTGAC-GTAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
34143307 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
34143333 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
34143360 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
34143387 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
34143414 TAGATATTTGTGGCATAGCCACCAG
1 CAGATA-TTGTGGCAGAGCCACCAG
34143439 GATGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.88
28 4 0.04
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:34143384 original size:81 final size:80
Alignment explanation
Indices: 34143280--34143438 Score: 212
Period size: 81 Copynumber: 2.0 Consensus size: 80
34143270 GCGAGGCTGC
* * *
34143280 CAGATATTGTGACGTAGTCACCAGATACAGATAT-TGTGGCAGAGCCACCAGAACAGATATATGT
1 CAGATATTGTGACATAGCCACCAG-GACAGATATATGTGGCAGAGCCACCAGAACAGATATATGT
*
34143344 GGTAGAGCCACCAGAT
65 GGCAGAGCCACCAGAT
* ** *
34143360 CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATTAGATATTTGT
1 CAGAT-ATTGTGACATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGAACAGATATATGT
*
34143425 GGCATAGCCACCAG
65 GGCAGAGCCACCAG
34143439 GATGCTTCCT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
80 13 0.19
81 55 0.81
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (80 bp):
CAGATATTGTGACATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGAACAGATATATGTG
GCAGAGCCACCAGAT
Found at i:34143439 original size:54 final size:53
Alignment explanation
Indices: 34143298--34143440 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 53
34143288 GTGACGTAGT
* * *
34143298 CACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
34143352 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGAT-ATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
34143406 CACCAGATTAGATATTTGTGGCATAGCCACCAGGA
1 CACCAGATCAGATA-TTGTGGCATAGCCACCAGGA
34143441 TGCTTCCTCC
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
53 6 0.07
54 77 0.93
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (53 bp):
CACCAGATCAGATATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:34145065 original size:26 final size:26
Alignment explanation
Indices: 34145035--34145116 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
34145025 TGAAATGCCC
34145035 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34145061 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
34145087 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34145113 ATCA
1 ATCA
34145117 ATTTTTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34145527 original size:48 final size:48
Alignment explanation
Indices: 34145389--34145541 Score: 157
Period size: 48 Copynumber: 3.2 Consensus size: 48
34145379 GGGCATTACA
* * * * * *
34145389 TCTGGGACATGTATCGGCCTCGAGATATTTAAGCCAGCGTAAGAAATG
1 TCTGGGACATGAATCGGCCTTGAGATATATAAGCTAGTGTAAGACATG
* * ** * *
34145437 TCTGGGACATGCATCAGTATTGAGACA-A-GAGCTAGTGTAAGACATG
1 TCTGGGACATGAATCGGCCTTGAGATATATAAGCTAGTGTAAGACATG
* *
34145483 TCTGGGACATGAATCGGCCTTGCGATATATAAGCTAGTGTAAGACCTG
1 TCTGGGACATGAATCGGCCTTGAGATATATAAGCTAGTGTAAGACATG
*
34145531 TCTAGGACATG
1 TCTGGGACATG
34145542 GCATTAGCTT
Statistics
Matches: 83, Mismatches: 20, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
46 35 0.42
47 1 0.01
48 47 0.57
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (48 bp):
TCTGGGACATGAATCGGCCTTGAGATATATAAGCTAGTGTAAGACATG
Found at i:34147734 original size:46 final size:46
Alignment explanation
Indices: 34147664--34147927 Score: 218
Period size: 46 Copynumber: 5.7 Consensus size: 46
34147654 TGATATGTGT
* *
34147664 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA-CAGCATGAGA
1 GCTAGTGTAAGACATGTCTTGGACATGCATCAGCCATGAG-ATGAGA
* * *
34147710 GCCAGTGTAAGACATGTCTTGGACATGCATCGGCC-TCGAGAT-ATTTAA
1 GCTAGTGTAAGACATGTCTTGGACATGCATCAGCCAT-GAGATGA---GA
* * * * * * *
34147758 GCCAGTGTAAGACATGTCTAGAACATGAAT-TGGCATTGAGTTGAGA
1 GCTAGTGTAAGACATGTCTTGGACATGCATCAGCCA-TGAGATGAGA
* *
34147804 GCTAGTGTAAGACATGT-TTGGGACATGCATCA-ACATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTT-GGACATGCATCAGCCA-TGAGATGAGA
* * *
34147850 GCTAGTGTAAGACATGTCATGGACATGCAT-TGGCATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTTGGACATGCATCAGCCA-TGAGATGAGA
* *
34147896 GCTAGTGTAAGACCTGTCTGGGACATGGCATC
1 GCTAGTGTAAGACATGTCTTGGACAT-GCATC
34147928 GATATCTTAA
Statistics
Matches: 177, Mismatches: 27, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.01
46 132 0.75
47 9 0.05
48 32 0.18
49 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTTGGACATGCATCAGCCATGAGATGAGA
Found at i:34153489 original size:47 final size:47
Alignment explanation
Indices: 34153420--34153686 Score: 471
Period size: 47 Copynumber: 5.7 Consensus size: 47
34153410 TTTTAGGTGT
*
34153420 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
34153467 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
34153514 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
34153561 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
34153608 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
34153655 ATATGTGTGATAAGGCCGAATGGCTAATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
34153687 AATATGTATG
Statistics
Matches: 211, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 211 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:34153546 original size:22 final size:22
Alignment explanation
Indices: 34153519--34153593 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
34153509 CATGCATATG
34153519 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
34153541 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
34153564 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
34153588 TGTGAT
1 TGTGAT
34153594 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:34153725 original size:48 final size:47
Alignment explanation
Indices: 34153421--34153742 Score: 215
Period size: 47 Copynumber: 6.8 Consensus size: 47
34153411 TTTAGGTGTA
* * * *
34153421 TATATGAGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGAACATG
1 TATATGTGGTAAGGCCGAATGGCTAATGTGA-AATATGTATGAACATG
* * *
34153466 CATATATGTGTTAAGGCCGAATGGCCAATGTGATGA-ATG--TGAACATG
1 --TATATGTGGTAAGGCCGAATGGCTAATGTGA-AATATGTATGAACATG
* * *
34153513 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGAACATG
1 TATATGTG-G-TAAGGCCGAATGGCTAATGTGA-AATATGTATGAACATG
* * *
34153560 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGAACATG
1 TATATGTG-G-TAAGGCCGAATGGCTAATGTGA-AATATGTATGAACATG
* * *
34153607 CATATATGTGTTAAGGCCGAATGGCCAATGTGATGA-ATG--TGAACATG
1 --TATATGTGGTAAGGCCGAATGGCTAATGTGA-AATATGTATGAACATG
* *
34153654 CATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTG-G-TAAGGCCGAATGGCTAATGTGAAATATGTATGA-ACATG
* *
34153704 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAGGCCGAATGGCTAATGTGAAATATGTA
34153743 GGCGATGTTC
Statistics
Matches: 251, Mismatches: 14, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
45 14 0.06
46 1 0.00
47 186 0.74
48 28 0.11
49 11 0.04
50 11 0.04
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
TATATGTGGTAAGGCCGAATGGCTAATGTGAAATATGTATGAACATG
Found at i:34153997 original size:37 final size:37
Alignment explanation
Indices: 34153889--34153997 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
34153879 GGAAATATAT
* *
34153889 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTAGG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTGG
*
34153926 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTGG
* *
34153963 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
34153998 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTGG
Found at i:34155589 original size:40 final size:40
Alignment explanation
Indices: 34155266--34155577 Score: 480
Period size: 40 Copynumber: 7.8 Consensus size: 40
34155256 AAGAATTGAG
*
34155266 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATCCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
34155306 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
34155346 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
34155386 AGCGATATATCCAGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
34155426 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
34155466 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
34155506 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
34155546 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
34155578 ATCATGCTGG
Statistics
Matches: 246, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 246 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:34159661 original size:47 final size:47
Alignment explanation
Indices: 34159600--34159905 Score: 567
Period size: 47 Copynumber: 6.5 Consensus size: 47
34159590 GTATATAGGA
*
34159600 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
*
34159647 GTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
34159694 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
34159741 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
*
34159788 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
*
34159835 GTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
*
34159882 GATAAGGCCGAATGGCTAATGTGA
1 GATAAGGCCGAATGGCCAATGTGA
34159906 AATATGTATG
Statistics
Matches: 251, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 251 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
Found at i:34159718 original size:22 final size:22
Alignment explanation
Indices: 34159691--34159812 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
34159681 CATGCATATG
34159691 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
34159713 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
34159736 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
* *
34159760 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
34159783 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
34159807 TGTGAT
1 TGTGAT
34159813 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 24 0.32
23 16 0.22
24 16 0.22
25 18 0.24
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:34159944 original size:48 final size:47
Alignment explanation
Indices: 34159602--34159961 Score: 234
Period size: 47 Copynumber: 7.6 Consensus size: 47
34159592 ATATAGGAGA
* * *
34159602 TAAGGCCGAATGGCCAATGTGATGA-ATG--TGAACATGCATATATGTGT
1 TAAGGCCGAATGGCTAATGTGA-AATATGTATGAACATG--TATATGTGG
* * *
34159649 TAAGGCCGAATGGCCAATGTGATGA-ATG--TGAACATGCATATGTGTG
1 TAAGGCCGAATGGCTAATGTGA-AATATGTATGAACATGTATATGTG-G
* * *
34159695 ATAAGGCCGAATGGCCAATGTGATGA-ATG--TGAACATGCATATGTGTG
1 -TAAGGCCGAATGGCTAATGTGA-AATATGTATGAACATGTATATGTG-G
* * *
34159742 ATAAGGCCGAATGGCCAATGTGATGA-ATG--TGAACATGCATATGTGTG
1 -TAAGGCCGAATGGCTAATGTGA-AATATGTATGAACATGTATATGTG-G
* * *
34159789 ATAAGGCCGAATGGCCAATGTGATGA-ATG--TGAACATGCATATATGTGT
1 -TAAGGCCGAATGGCTAATGTGA-AATATGTATGAACATG--TATATGTGG
* * *
34159837 TAAGGCCGAATGGCCAATGTGATGA-ATG--TGAACATGCATATGTGTG
1 TAAGGCCGAATGGCTAATGTGA-AATATGTATGAACATGTATATGTG-G
*
34159883 ATAAGGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
1 -TAAGGCCGAATGGCTAATGTGAAATATGTATGA-ACATGTATATGTGG
* *
34159932 TAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TAAGGCCGAATGGCTAATGTGAAATATGTA
34159962 GGCGATGTGC
Statistics
Matches: 291, Mismatches: 12, Indels: 19
0.90 0.04 0.06
Matches are distributed among these distances:
45 14 0.05
46 1 0.00
47 226 0.78
48 28 0.10
49 11 0.04
50 11 0.04
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
TAAGGCCGAATGGCTAATGTGAAATATGTATGAACATGTATATGTGG
Found at i:34160216 original size:37 final size:37
Alignment explanation
Indices: 34160108--34160216 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
34160098 GGAAATATAT
*
34160108 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
34160145 TCCAGGTAAGACCCGATGACTACGTATGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
34160182 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
34160217 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:34162608 original size:40 final size:41
Alignment explanation
Indices: 34162563--34162670 Score: 114
Period size: 46 Copynumber: 2.5 Consensus size: 41
34162553 AAATTCAGTT
*
34162563 ATATATATGGCACTTAGTGTGTGATTC-AAGAAAG-ATTCGGC
1 ATATATATGGCACTTAGTGTGCGATTCGAA-AAAGCA-TCGGC
*
34162604 TATATATATGTATGGCACTTAGTGTGCGATTCGAAATAGCATCGGC
1 ---ATATA--TATGGCACTTAGTGTGCGATTCGAAAAAGCATCGGC
34162650 -TATATATGGCACTTAGTGTGC
1 ATATATATGGCACTTAGTGTGC
34162671 AAGACCGGGA
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
40 17 0.29
42 4 0.07
44 5 0.09
46 29 0.50
47 3 0.05
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (41 bp):
ATATATATGGCACTTAGTGTGCGATTCGAAAAAGCATCGGC
Found at i:34162625 original size:46 final size:46
Alignment explanation
Indices: 34162562--34162656 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
34162552 AAAATTCAGT
*
34162562 TATATATATGGCACTTAGTGTGTGATTC-AAGAAAG-ATTCGGCTATA
1 TATATATATGGCACTTAGTGTGCGATTCGAA-AAAGCA-TCGGCTATA
* *
34162608 TATATGTATGGCACTTAGTGTGCGATTCGAAATAGCATCGGCTATA
1 TATATATATGGCACTTAGTGTGCGATTCGAAAAAGCATCGGCTATA
34162654 TAT
1 TAT
34162657 GGCACTTAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
46 41 0.93
47 3 0.07
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.35
Consensus pattern (46 bp):
TATATATATGGCACTTAGTGTGCGATTCGAAAAAGCATCGGCTATA
Found at i:34176565 original size:40 final size:41
Alignment explanation
Indices: 34176520--34176622 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 41
34176510 CAATTCAGAT
*
34176520 ATATATATGGCACTTAGT-ATGCGATTCAAGAA-AGCTTCGGC
1 ATATATATGGCACTTAGTGA-GCGATTC-AGAATAGCATCGGC
34176561 TATATATATATGGCACTTAGTGAGCGATTCAGAATAGCATCGGC
1 ---ATATATATGGCACTTAGTGAGCGATTCAGAATAGCATCGGC
*
34176605 -TATATATGGCGCTTAGTG
1 ATATATATGGCACTTAGTG
34176623 TGCAAGACTG
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
40 17 0.31
43 4 0.07
44 33 0.60
45 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (41 bp):
ATATATATGGCACTTAGTGAGCGATTCAGAATAGCATCGGC
Found at i:34176575 original size:44 final size:44
Alignment explanation
Indices: 34176518--34176611 Score: 147
Period size: 44 Copynumber: 2.1 Consensus size: 44
34176508 GACAATTCAG
*
34176518 ATATATATATGGCACTTAGT-ATGCGATTCAAGAA-AGCTTCGGCT
1 ATATATATATGGCACTTAGTGA-GCGATTC-AGAATAGCATCGGCT
34176562 ATATATATATGGCACTTAGTGAGCGATTCAGAATAGCATCGGCT
1 ATATATATATGGCACTTAGTGAGCGATTCAGAATAGCATCGGCT
34176606 ATATAT
1 ATATAT
34176612 GGCGCTTAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 4 0.09
44 42 0.89
45 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (44 bp):
ATATATATATGGCACTTAGTGAGCGATTCAGAATAGCATCGGCT
Found at i:34180824 original size:14 final size:14
Alignment explanation
Indices: 34180807--34180833 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34180797 ATGTATGATA
34180807 ATTTTAGTATAGTC
1 ATTTTAGTATAGTC
34180821 ATTTTAGTATAGT
1 ATTTTAGTATAGT
34180834 TAAATCTATT
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:0.30, C:0.04, G:0.15, T:0.52
Consensus pattern (14 bp):
ATTTTAGTATAGTC
Found at i:34184921 original size:17 final size:18
Alignment explanation
Indices: 34184872--34184924 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
34184862 GGCCCCACGT
34184872 GCCCGTGTGGGCCCACAC
1 GCCCGTGTGGGCCCACAC
*
34184890 GCCCGTATGGGCCCACAC
1 GCCCGTGTGGGCCCACAC
*
34184908 GCCTGTGT-GGCCCACAC
1 GCCCGTGTGGGCCCACAC
34184925 ACCCAGATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 9 0.28
18 23 0.72
ACGTcount: A:0.13, C:0.43, G:0.30, T:0.13
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:34188826 original size:34 final size:33
Alignment explanation
Indices: 34188747--34188841 Score: 104
Period size: 34 Copynumber: 2.9 Consensus size: 33
34188737 GCCTATGGGC
* * *
34188747 CATACTGTTATCTAAAAAGGGGCTAAGGCCCAGT
1 CATACTGTTTTCTGAAAA-GGGCTTAGGCCCAGT
* *
34188781 --TACTGTATTCTGAAAAGGGCTTTGGCCCAGT
1 CATACTGTTTTCTGAAAAGGGCTTAGGCCCAGT
*
34188812 ACATACTGTTTTCTGAATAGGGCTTAGGCC
1 -CATACTGTTTTCTGAAAAGGGCTTAGGCC
34188842 TAATGGGCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
31 13 0.26
32 13 0.26
34 24 0.48
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (33 bp):
CATACTGTTTTCTGAAAAGGGCTTAGGCCCAGT
Found at i:34195081 original size:17 final size:18
Alignment explanation
Indices: 34195039--34195081 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
34195029 TTCAGTATAA
*
34195039 TGGGCCCATATGCTCGCG
1 TGGGCCCATACGCTCGCG
34195057 TGGGCCCATACG-TC-CG
1 TGGGCCCATACGCTCGCG
34195073 TGTGGCCCA
1 TG-GGCCCA
34195082 CACACCCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 8 0.35
18 11 0.48
ACGTcount: A:0.12, C:0.35, G:0.33, T:0.21
Consensus pattern (18 bp):
TGGGCCCATACGCTCGCG
Found at i:34195852 original size:46 final size:46
Alignment explanation
Indices: 34195785--34195876 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
34195775 GTTAGTTTTT
34195785 TTCTCATGAAGAGGGAGAGAAAATTTTTCAAAAAGAGAAGATAGCA
1 TTCTCATGAAGAGGGAGAGAAAATTTTTCAAAAAGAGAAGATAGCA
*
34195831 TTCTCATGAAGAGGGAGAGAAATTTTTTCAAAAAGAGAAGATAGCA
1 TTCTCATGAAGAGGGAGAGAAAATTTTTCAAAAAGAGAAGATAGCA
34195877 ATTTTTGATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (46 bp):
TTCTCATGAAGAGGGAGAGAAAATTTTTCAAAAAGAGAAGATAGCA
Found at i:34196160 original size:29 final size:29
Alignment explanation
Indices: 34196118--34196177 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
34196108 TTGCTAAAGG
34196118 TAGAGCTTGAACTTCAGACCTCACACACA
1 TAGAGCTTGAACTTCAGACCTCACACACA
** *
34196147 TAGAGCTTGAACTTGGGAGCTCACACACA
1 TAGAGCTTGAACTTCAGACCTCACACACA
34196176 TA
1 TA
34196178 CGCAGAGCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (29 bp):
TAGAGCTTGAACTTCAGACCTCACACACA
Found at i:34200588 original size:16 final size:16
Alignment explanation
Indices: 34200564--34200600 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
34200554 TTTAAAAAGG
*
34200564 AAAACAAATGAATCTT
1 AAAAAAAATGAATCTT
*
34200580 AAAAAAAATGAGTCTT
1 AAAAAAAATGAATCTT
34200596 AAAAA
1 AAAAA
34200601 CTTAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAAAAATGAATCTT
Found at i:34204736 original size:8 final size:8
Alignment explanation
Indices: 34204723--34204752 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
34204713 CAAAATACCG
34204723 GCTTTTCA
1 GCTTTTCA
*
34204731 GCTTTTCG
1 GCTTTTCA
34204739 GCTTTTCA
1 GCTTTTCA
34204747 GCTTTT
1 GCTTTT
34204753 GCCAATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.07, C:0.23, G:0.17, T:0.53
Consensus pattern (8 bp):
GCTTTTCA
Found at i:34204742 original size:16 final size:16
Alignment explanation
Indices: 34204721--34204752 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34204711 CTCAAAATAC
34204721 CGGCTTTTCAGCTTTT
1 CGGCTTTTCAGCTTTT
34204737 CGGCTTTTCAGCTTTT
1 CGGCTTTTCAGCTTTT
34204753 GCCAATCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.19, T:0.50
Consensus pattern (16 bp):
CGGCTTTTCAGCTTTT
Found at i:34208371 original size:20 final size:20
Alignment explanation
Indices: 34208346--34208385 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34208336 ATTGGGCCTT
34208346 GCCCATATT-AACACAATTGG
1 GCCCAT-TTCAACACAATTGG
*
34208366 GCCCATTTCAATACAATTGG
1 GCCCATTTCAACACAATTGG
34208386 CCTATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (20 bp):
GCCCATTTCAACACAATTGG
Found at i:34219074 original size:15 final size:16
Alignment explanation
Indices: 34219054--34219089 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
34219044 ATAGATACGA
34219054 TATTTATTTTT-TGTT
1 TATTTATTTTTATGTT
*
34219069 TATTTATTTTTATTTT
1 TATTTATTTTTATGTT
34219085 TATTT
1 TATTT
34219090 TCTTTTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TATTTATTTTTATGTT
Found at i:34223156 original size:28 final size:28
Alignment explanation
Indices: 34223123--34223177 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
34223113 AATACAGTCC
* *
34223123 GGGCCTTAGCCCTATACAGTAACAGTAT
1 GGGCCTAAGCCCAATACAGTAACAGTAT
*
34223151 GGGCCTAAGCCCAATACAGTATCAGTA
1 GGGCCTAAGCCCAATACAGTAACAGTA
34223178 CAGTGTAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (28 bp):
GGGCCTAAGCCCAATACAGTAACAGTAT
Found at i:34223545 original size:27 final size:27
Alignment explanation
Indices: 34223527--34223843 Score: 226
Period size: 27 Copynumber: 11.4 Consensus size: 27
34223517 GGGCATAATC
* *
34223527 ATCATTTTACCATACAAGGGTATTACG
1 ATCATTTTACCCTACAAGGGCATTACG
* * *
34223554 GTCATTTTACCCTATAAGGGCATTACA
1 ATCATTTTACCCTACAAGGGCATTACG
34223581 ATCATTTTACCCTACAAGGGCATTACG
1 ATCATTTTACCCTACAAGGGCATTACG
* *
34223608 GTCATTTTACCCTACAGGGGCATTATGGTCATTATG
1 ATCATTTTACCCTACAAGGGCATTA----C-----G
* * * * * *
34223644 GTCATTTTGCCCTATAGGGGTATTATG
1 ATCATTTTACCCTACAAGGGCATTACG
* * * *
34223671 GTCATTTTACCCTACAGGGGTATTATG
1 ATCATTTTACCCTACAAGGGCATTACG
* * *
34223698 GTCATTTTACCCTAC-AGTGGTATTATG
1 ATCATTTTACCCTACAAG-GGCATTACG
* *
34223725 GTCATGTTACCCTACAAGGGCATTACTG
1 ATCATTTTACCCTACAAGGGCATTAC-G
* *
34223753 -TCATTTTACCCTACAAGGGTATTATG
1 ATCATTTTACCCTACAAGGGCATTACG
* * *
34223779 GTTATTTTACCCTACAGGGGCATTACG
1 ATCATTTTACCCTACAAGGGCATTACG
* *
34223806 GTCATTTTACCCTACACA-GGCATGACG
1 ATCATTTTACCCTACA-AGGGCATTACG
* *
34223833 GTTATTTTACC
1 ATCATTTTACC
34223844 TATTTTGGGG
Statistics
Matches: 245, Mismatches: 31, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.01
27 216 0.88
28 3 0.01
31 1 0.00
36 23 0.09
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
ATCATTTTACCCTACAAGGGCATTACG
Found at i:34223571 original size:54 final size:54
Alignment explanation
Indices: 34223515--34223821 Score: 298
Period size: 54 Copynumber: 5.5 Consensus size: 54
34223505 TACGAAACAT
* * * *
34223515 AAGGGCATAATCATCATTTTACCATACAAGGGTATTACGGTCATTTTACCCTAT
1 AAGGGCATTATCATCATTTTACCCTACAAGGGTATTATGGTCATTTTACCCTAC
* *
34223569 AAGGGCATTA-CAATCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTAC
1 AAGGGCATTATC-ATCATTTTACCCTACAAGGGTATTATGGTCATTTTACCCTAC
* * * *
34223623 AGGGGCATTATGGTCATTATGGTCATTTTGCCCTATAGGGGTATTATGGTCATTTTACCCTAC
1 AAGGGCATTA---TC---A---TCATTTTACCCTACAAGGGTATTATGGTCATTTTACCCTAC
* * ** *
34223686 AGGGGTATTATGGTCATTTTACCCTAC-AGTGGTATTATGGTCATGTTACCCTAC
1 AAGGGCATTATCATCATTTTACCCTACAAG-GGTATTATGGTCATTTTACCCTAC
* *
34223740 AAGGGCATTA-CTGTCATTTTACCCTACAAGGGTATTATGGTTATTTTACCCTAC
1 AAGGGCATTATC-ATCATTTTACCCTACAAGGGTATTATGGTCATTTTACCCTAC
* *
34223794 AGGGGCATTA-CGGTCATTTTACCCTACA
1 AAGGGCATTATC-ATCATTTTACCCTACA
34223822 CAGGCATGAC
Statistics
Matches: 215, Mismatches: 25, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
53 2 0.01
54 163 0.76
55 2 0.01
58 1 0.00
60 2 0.01
63 45 0.21
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
AAGGGCATTATCATCATTTTACCCTACAAGGGTATTATGGTCATTTTACCCTAC
Found at i:34223614 original size:81 final size:81
Alignment explanation
Indices: 34223528--34223819 Score: 298
Period size: 81 Copynumber: 3.5 Consensus size: 81
34223518 GGCATAATCA
*
34223528 TCATTTTACCATACAAGGGTATTACGGTCATTTTACCCTATAAGGGCATTACAATCATTTTACCC
1 TCATTTTACCATACAAGGGTATTACGGTCATTTTACCCTATAAGGGCATTACAGTCATTTTACCC
* *
34223593 TACAAGGGCATTACGG
66 TACAAGGGTATTATGG
* * * * * * **
34223609 TCATTTTACCCTACAGGGGCATTATGGTCATTATGGTCATTTTGCCCTATAGGGGTATTATGGTC
1 TCATTTTA-CC-ATA----CA--AGGGT-ATTACGGTCATTTTACCCTATAAGGGCATTACAGTC
*
34223674 ATTTTACCCTACAGGGGTATTATGG
57 ATTTTACCCTACAAGGGTATTATGG
* * * * *
34223699 TCATTTTACCCTAC-AGTGGTATTATGGTCATGTTACCCTACAAGGGCATTACTGTCATTTTACC
1 TCATTTTACCATACAAG-GGTATTACGGTCATTTTACCCTATAAGGGCATTACAGTCATTTTACC
34223763 CTACAAGGGTATTATGG
65 CTACAAGGGTATTATGG
* * * *
34223780 TTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTA
1 TCATTTTACCATACAAGGGTATTACGGTCATTTTACCCTA
34223820 CACAGGCATG
Statistics
Matches: 172, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
81 95 0.55
82 6 0.03
83 2 0.01
84 1 0.01
87 2 0.01
88 1 0.01
89 6 0.03
90 59 0.34
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
TCATTTTACCATACAAGGGTATTACGGTCATTTTACCCTATAAGGGCATTACAGTCATTTTACCC
TACAAGGGTATTATGG
Found at i:34223648 original size:36 final size:36
Alignment explanation
Indices: 34223601--34223676 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
34223591 CCTACAAGGG
34223601 CATTACGGTCATTTTACCCTACAGGGGCATTATGGT
1 CATTACGGTCATTTTACCCTACAGGGGCATTATGGT
* * * *
34223637 CATTATGGTCATTTTGCCCTATAGGGGTATTATGGT
1 CATTACGGTCATTTTACCCTACAGGGGCATTATGGT
34223673 CATT
1 CATT
34223677 TTACCCTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (36 bp):
CATTACGGTCATTTTACCCTACAGGGGCATTATGGT
Found at i:34223820 original size:81 final size:81
Alignment explanation
Indices: 34223637--34223843 Score: 265
Period size: 81 Copynumber: 2.6 Consensus size: 81
34223627 GCATTATGGT
* * * * *
34223637 CATTATGGTCATTTTGCCCTATAGGGGTATTA-TGGTCATTTTACCCTACAGGGGTATTATGGTC
1 CATTATGGTCATTTTACCCTACAAGGGCATTACT-GTCATTTTACCCTACAAGGGTATTATGGTC
*
34223701 ATTTTACCCTACAGTGG
65 ATTTTACCCTACAGGGG
* * *
34223718 TATTATGGTCATGTTACCCTACAAGGGCATTACTGTCATTTTACCCTACAAGGGTATTATGGTTA
1 CATTATGGTCATTTTACCCTACAAGGGCATTACTGTCATTTTACCCTACAAGGGTATTATGGTCA
34223783 TTTTACCCTACAGGGG
66 TTTTACCCTACAGGGG
* * * *
34223799 CATTACGGTCATTTTACCCTACACA-GGCATGACGGTTATTTTACC
1 CATTATGGTCATTTTACCCTACA-AGGGCATTACTGTCATTTTACC
34223844 TATTTTGGGG
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
81 107 0.98
82 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (81 bp):
CATTATGGTCATTTTACCCTACAAGGGCATTACTGTCATTTTACCCTACAAGGGTATTATGGTCA
TTTTACCCTACAGGGG
Found at i:34227117 original size:11 final size:11
Alignment explanation
Indices: 34227103--34227128 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34227093 CCAATTTTCT
34227103 TTAATAATTCC
1 TTAATAATTCC
34227114 TTAATAATTCC
1 TTAATAATTCC
34227125 TTAA
1 TTAA
34227129 ATGAACCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (11 bp):
TTAATAATTCC
Found at i:34231177 original size:17 final size:17
Alignment explanation
Indices: 34231157--34231203 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
34231147 GGTTTATCGC
*
34231157 TTTTAGTTGTTTGTTTA
1 TTTTAGTTGTTTATTTA
**
34231174 TTTTTCTTGTTTATTTA
1 TTTTAGTTGTTTATTTA
*
34231191 TTTTAGTTATTTA
1 TTTTAGTTGTTTA
34231204 ATTTCTCTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.15, C:0.02, G:0.11, T:0.72
Consensus pattern (17 bp):
TTTTAGTTGTTTATTTA
Found at i:34233879 original size:43 final size:43
Alignment explanation
Indices: 34233801--34233965 Score: 135
Period size: 43 Copynumber: 3.9 Consensus size: 43
34233791 AGCTCGTATA
* * ***
34233801 ATGCCAAC-GTCCCAGACATGGTCATACATGTAATCAAATAGCG
1 ATGCCAACTGTCCCAGACAGGGTCTTACACAAAATCAAATA-CG
34233844 ATGCC-ACTGTCCCAGACAGGGTCTTACACAAAATCAAATACG
1 ATGCCAACTGTCCCAGACAGGGTCTTACACAAAATCAAATACG
* * ** *
34233886 ATGCCGA-TGTCCTAGACATCGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAACTGTCCCAGACAGGGTCTTACAC--AAA-ATCAAATACG
* *
34233930 ATGCCAACT-TCCCAAAC-GTGGTCTTACACGAAATCA
1 ATGCCAACTGTCCCAGACAG-GGTCTTACACAAAATCA
34233966 CATATTGGAA
Statistics
Matches: 99, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
41 3 0.03
42 30 0.30
43 33 0.33
44 26 0.26
45 7 0.07
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.22
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACACAAAATCAAATACG
Found at i:34233903 original size:42 final size:43
Alignment explanation
Indices: 34233832--34233914 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
34233822 TCATACATGT
*
34233832 AATCAAATAGCGATGCCACTGTCCCAGACAGGGTCTTACACAA
1 AATCAAATAGCGATGCCACTGTCCCAGACAGCGTCTTACACAA
* *
34233875 AATCAAATA-CGATGCCGA-TGTCCTAGACATCGTCTTACAC
1 AATCAAATAGCGATGCC-ACTGTCCCAGACAGCGTCTTACAC
34233915 GTAAATCTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 26 0.72
43 10 0.28
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
AATCAAATAGCGATGCCACTGTCCCAGACAGCGTCTTACACAA
Found at i:34234474 original size:30 final size:28
Alignment explanation
Indices: 34234459--34234513 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
34234449 ATTTCATTTA
*
34234459 TTTCACAATTTAGCCCCTCAATTTCTCAT
1 TTTCACAATTTAG-CCCACAATTTCTCAT
*
34234488 TTTCACAATTTAGCCCA-AATTACTCA
1 TTTCACAATTTAGCCCACAATTTCTCA
34234514 AATTCATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.33
28 3 0.12
29 13 0.54
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.38
Consensus pattern (28 bp):
TTTCACAATTTAGCCCACAATTTCTCAT
Found at i:34234519 original size:27 final size:29
Alignment explanation
Indices: 34234460--34234519 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
34234450 TTTCATTTAT
* * **
34234460 TTCACAATTTAGCCCCTCAATTTCTCATT
1 TTCACAATTTAGCCCCTAAATTACTCAAA
34234489 TTCACAATTTAG-CCC-AAATTACTCAAA
1 TTCACAATTTAGCCCCTAAATTACTCAAA
34234516 TTCA
1 TTCA
34234520 TCAAAAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 12 0.44
28 3 0.11
29 12 0.44
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (29 bp):
TTCACAATTTAGCCCCTAAATTACTCAAA
Found at i:34238843 original size:40 final size:40
Alignment explanation
Indices: 34238759--34238942 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
34238749 TTGAATGCTG
* * * *
34238759 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
34238798 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
34238839 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
34238879 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
34238919 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34238943 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:34238896 original size:80 final size:81
Alignment explanation
Indices: 34238759--34238939 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
34238749 TTGAATGCTG
* * *
34238759 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
34238823 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
34238839 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
34238900 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
34238919 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
34238940 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:34238963 original size:39 final size:39
Alignment explanation
Indices: 34238827--34238989 Score: 141
Period size: 40 Copynumber: 4.1 Consensus size: 39
34238817 GGTATTTGTG
* * * **
34238827 CGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTG
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGG-CATTGAA
* * **
34238867 CGAGATACT-AATTCCGGGTTAAGTCCCGAAGGCATTCGTG
1 CGAGTTA-TAAAATCCGGGTTAAGTCCCGAAGGCATT-GAA
*
34238907 CGAGTTTTAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
* * * *
34238946 TGAGTTAATATAA-CCGGGCTATGTCCCGAAGGCACTTGAA
1 CGAGTT-ATAAAATCCGGGTTAAGTCCCGAAGGCA-TTGAA
34238986 CGAG
1 CGAG
34238990 GAGCTAAATC
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
39 29 0.28
40 75 0.71
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
Found at i:34246691 original size:40 final size:40
Alignment explanation
Indices: 34246607--34246790 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
34246597 TTGAATGCTG
* * * *
34246607 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
34246646 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
34246687 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
34246727 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
34246767 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34246791 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:34246744 original size:80 final size:81
Alignment explanation
Indices: 34246607--34246787 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
34246597 TTGAATGCTG
* * *
34246607 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
34246671 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
34246687 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
34246748 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
34246767 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
34246788 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:34246811 original size:39 final size:38
Alignment explanation
Indices: 34246688--34246837 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
34246678 GTTATTAATT
* ** * *
34246688 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
34246728 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
34246767 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
34246807 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
34246838 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:34252153 original size:42 final size:41
Alignment explanation
Indices: 34252096--34252204 Score: 119
Period size: 44 Copynumber: 2.6 Consensus size: 41
34252086 CCACTATCCT
* * * *
34252096 AAACAGGGTCTTACACGAAATCAAATAAGATGTCGATGTCCC
1 AAACATGGTCTTACACGAAATCAAAT-AGATGCCAACGTCCC
* *
34252138 AGACATGGTCTTACACGTAAATAGCAAATCGATGCCAACGTCCC
1 AAACATGGTCTTACACG-AAAT--CAAATAGATGCCAACGTCCC
*
34252182 AAACGTGGTCTTACACGAAATCA
1 AAACATGGTCTTACACGAAATCA
34252205 CACATCGGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.04
42 15 0.27
43 8 0.14
44 26 0.46
45 5 0.09
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (41 bp):
AAACATGGTCTTACACGAAATCAAATAGATGCCAACGTCCC
Found at i:34255098 original size:43 final size:42
Alignment explanation
Indices: 34255045--34255141 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 42
34255035 GTATTTGTAG
*
34255045 TAAGTGTGCGATACAATTATAGCCTCGTA-TAATTAATTGGCAC
1 TAAGTGTGCGATACAATTATAG--TCGTACTAATTAATCGGCAC
**
34255088 TAAGTGTGCGATACAATTATAGTTTTAGCTAATTAATCGGCAC
1 TAAGTGTGCGATACAATTATAGTCGTA-CTAATTAATCGGCAC
34255131 TAAGTGTGCGA
1 TAAGTGTGCGA
34255142 GTTCATTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
41 3 0.06
43 46 0.94
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (42 bp):
TAAGTGTGCGATACAATTATAGTCGTACTAATTAATCGGCAC
Found at i:34261298 original size:43 final size:44
Alignment explanation
Indices: 34261229--34261330 Score: 143
Period size: 43 Copynumber: 2.3 Consensus size: 44
34261219 TTGAATTTGA
* * *
34261229 GGCACTGAGTGTGCCTGATACAATTATAGCCTCGGCTAATTAATT
1 GGCACTAAGTGTG-CTGATACAATTATAGCCTCAGCTAATTAATC
**
34261274 GGCACTAAGTGTG-TGATACAATTATAGTTTCAGCTAATTAATC
1 GGCACTAAGTGTGCTGATACAATTATAGCCTCAGCTAATTAATC
34261317 GGCACTAAGTGTGC
1 GGCACTAAGTGTGC
34261331 GAGTTTGTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
43 39 0.76
45 12 0.24
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (44 bp):
GGCACTAAGTGTGCTGATACAATTATAGCCTCAGCTAATTAATC
Found at i:34268940 original size:31 final size:31
Alignment explanation
Indices: 34268874--34268951 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
34268864 TCAATCTTTA
*
34268874 AATTATGTCTTGCATTATATGTCTGCAAATTT
1 AATTATGTCATGCATTATATGTCT-CAAATTT
* * *
34268906 AATTATGTCGTGCATTATGTGT-TCTATATTT
1 AATTATGTCATGCATTATATGTCTC-AAATTT
*
34268937 AATTAAGTCATGCAT
1 AATTATGTCATGCAT
34268952 AAAAACATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
30 1 0.03
31 19 0.47
32 20 0.50
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (31 bp):
AATTATGTCATGCATTATATGTCTCAAATTT
Found at i:34268998 original size:50 final size:50
Alignment explanation
Indices: 34268934--34269077 Score: 159
Period size: 49 Copynumber: 2.9 Consensus size: 50
34268924 GTGTTCTATA
34268934 TTTAATTAAGTCATGCATAAAAACATCTTATATGTTAATTAAGTTTGTAT
1 TTTAATTAAGTCATGCATAAAAACATCTTATATGTTAATTAAGTTTGTAT
** * *
34268984 TTTAATTATTTCATGCATTATGAAAC-TC--ATATGTTAAATAAGTTTGTAT
1 TTTAATTAAGTCATGCA-TA-AAAACATCTTATATGTTAATTAAGTTTGTAT
* ** ** *
34269033 TTTAATTAAGCCATGCATTTATGCATCTTATTTGTTAATTAAGTT
1 TTTAATTAAGTCATGCATAAAAACATCTTATATGTTAATTAAGTT
34269078 CAAGCATGAG
Statistics
Matches: 76, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
47 2 0.03
48 3 0.04
49 34 0.45
50 29 0.38
51 4 0.05
52 4 0.05
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (50 bp):
TTTAATTAAGTCATGCATAAAAACATCTTATATGTTAATTAAGTTTGTAT
Found at i:34269436 original size:37 final size:37
Alignment explanation
Indices: 34269386--34269487 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 37
34269376 TTAAGCCTCC
* *
34269386 ATCAAGTATAGAGACATGACTATTCAAAAACACATAG
1 ATCAAGTAAAGAGACATGACTTTTCAAAAACACATAG
* ** * *
34269423 ATCAAGTAAAGAGACATGGCTTTTCAACTAGACATGG
1 ATCAAGTAAAGAGACATGACTTTTCAAAAACACATAG
* * *
34269460 AACAAGTGAAGAAACATGACTTTTCAAA
1 ATCAAGTAAAGAGACATGACTTTTCAAA
34269488 TATTATCTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.23
Consensus pattern (37 bp):
ATCAAGTAAAGAGACATGACTTTTCAAAAACACATAG
Found at i:34275124 original size:26 final size:26
Alignment explanation
Indices: 34275076--34275143 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
34275066 ATCCCGAATA
34275076 AGCTTCCTGA-T-A-GGCTCTTTGTG
1 AGCTTCCTGATTAATGGCTCTTTGTG
34275099 AGCTTCCTGATTAATGGCTCTTTGTG
1 AGCTTCCTGATTAATGGCTCTTTGTG
34275125 AGCTTCCTG-TTATATGGCT
1 AGCTTCCTGATTA-ATGGCT
34275144 TGAGAGAGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
23 10 0.24
24 1 0.02
25 4 0.10
26 26 0.63
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.41
Consensus pattern (26 bp):
AGCTTCCTGATTAATGGCTCTTTGTG
Found at i:34290262 original size:30 final size:29
Alignment explanation
Indices: 34290219--34290282 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
34290209 CAAGGAGCCG
*
34290219 AAGCTAGTTAAATCGTACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
34290248 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
34290278 AAGCT
1 AAGCT
34290283 TCCGATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:34291509 original size:21 final size:21
Alignment explanation
Indices: 34291483--34291533 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
34291473 CTGTTTCAGA
34291483 GCATCTTCAGGCTCCCACGTT
1 GCATCTTCAGGCTCCCACGTT
34291504 GCATCTTCAGGCTCCCACGTT
1 GCATCTTCAGGCTCCCACGTT
*
34291525 GCTTCTTCA
1 GCATCTTCA
34291534 ATACTGTGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.14, C:0.37, G:0.18, T:0.31
Consensus pattern (21 bp):
GCATCTTCAGGCTCCCACGTT
Found at i:34293649 original size:79 final size:81
Alignment explanation
Indices: 34293513--34293695 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
34293503 TCGAATGATG
* *
34293513 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
34293577 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
34293592 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
34293654 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
34293672 ACCGGGCTATGTCCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34293696 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 29 0.33
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:34293704 original size:40 final size:39
Alignment explanation
Indices: 34293514--34293697 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
34293504 CGAATGATGT
* * * *
34293514 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
34293554 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
34293594 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34293632 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
34293673 CCGGGCTATGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34293698 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34293728 original size:79 final size:79
Alignment explanation
Indices: 34293565--34293730 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
34293555 CGGACTAAGA
* * **
34293565 TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTA
1 TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTA
** *
34293630 AATCCGGGTTAAGT
66 AATCCGAATTAAAT
* * *
34293644 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-
*
34293707 CTATATCC-AATTAAAT
63 CTAAATCCGAATTAAAT
34293723 TCCGAAGG
1 TCCGAAGG
34293731 TATGTGATTC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTA
AATCCGAATTAAAT
Found at i:34301680 original size:40 final size:39
Alignment explanation
Indices: 34301596--34301780 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
34301586 TCGAATGATG
* * * *
34301596 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
34301636 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
34301676 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
34301715 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
34301756 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCC-GAAGGCATTTG
34301781 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 37 0.30
40 78 0.62
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34301732 original size:79 final size:81
Alignment explanation
Indices: 34301596--34301778 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
34301586 TCGAATGATG
* *
34301596 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
34301660 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
34301675 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
34301737 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
34301755 ACCGGGCTATGTCCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34301779 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 29 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:34301802 original size:79 final size:79
Alignment explanation
Indices: 34301649--34301803 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
34301639 GGACTAAGAT
* **
34301649 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
34301714 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
34301728 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
34301791 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
34301804 ATTTCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.62
80 23 0.35
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:34308878 original size:29 final size:30
Alignment explanation
Indices: 34308797--34308878 Score: 157
Period size: 30 Copynumber: 2.8 Consensus size: 30
34308787 CTAAGTCAGT
34308797 ATCGCACACTTAGTGCCAAAGCTAGTTTAA
1 ATCGCACACTTAGTGCCAAAGCTAGTTTAA
34308827 ATCGCACACTTAGTGCCAAAGCTAGTTTAA
1 ATCGCACACTTAGTGCCAAAGCTAGTTTAA
34308857 ATCGCACA-TTAGTGCCAAAGCT
1 ATCGCACACTTAGTGCCAAAGCT
34308879 TTCGATTCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 14 0.27
30 38 0.73
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (30 bp):
ATCGCACACTTAGTGCCAAAGCTAGTTTAA
Found at i:34311326 original size:53 final size:53
Alignment explanation
Indices: 34311147--34311351 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 53
34311137 TAGGGTTTAT
* * * * *
34311147 GGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAA
1 GGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAA
* * * * * * * * *
34311201 GGAAATCATGTAAGACAATGTCAAGACATGGCATTGATAAACTACGATAATGCAA
1 GGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAA
* * * *
34311256 AGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAA
1 GGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAA
* *
34311309 GGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
34311352 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 45 0.38
54 35 0.30
55 38 0.32
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
GGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAA
Found at i:34321874 original size:53 final size:55
Alignment explanation
Indices: 34321723--34321876 Score: 150
Period size: 53 Copynumber: 2.8 Consensus size: 55
34321713 TAAGTTTTAC
* * * *
34321723 AAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACAAT
1 AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAACTACAAT
* * * * * * * * * *
34321778 AAGGCAAAGATCCCATGTGAGACCATGCCAGGGCATCGCAATGGT-GAGTTC-AT
1 AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAACTACAAT
* *
34321831 AAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTA
1 AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTA
34321877 TGTTTGAAAA
Statistics
Matches: 75, Mismatches: 23, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
53 38 0.51
54 3 0.04
55 34 0.45
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (55 bp):
AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAACTACAAT
Found at i:34322810 original size:11 final size:11
Alignment explanation
Indices: 34322794--34322818 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34322784 TGGAAAAACC
34322794 AAAAATTCTGG
1 AAAAATTCTGG
34322805 AAAAATTCTGG
1 AAAAATTCTGG
34322816 AAA
1 AAA
34322819 GAAGATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (11 bp):
AAAAATTCTGG
Found at i:34325926 original size:79 final size:81
Alignment explanation
Indices: 34325784--34325966 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
34325774 TACTCGTTCA
* * * *
34325784 AATGCCTTCGGGACATATCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
* *
34325848 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
34325864 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* *
34325926 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
34325943 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
34325967 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.66
80 28 0.32
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:34325966 original size:40 final size:40
Alignment explanation
Indices: 34325763--34325966 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
34325753 CGCAATTTAA
** * *
34325763 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATATC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34325803 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34325843 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34325882 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34325922 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34325962 CCGGA
1 CCGGA
34325967 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 94 0.68
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34333469 original size:19 final size:19
Alignment explanation
Indices: 34333445--34333486 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
34333435 TATGTGTTAT
*
34333445 CATAAATTCATAGGCATAA
1 CATAAATTCATAGACATAA
**
34333464 CATAAATTTGTAGACATAA
1 CATAAATTCATAGACATAA
34333483 CATA
1 CATA
34333487 CACATTTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (19 bp):
CATAAATTCATAGACATAA
Found at i:34342146 original size:12 final size:12
Alignment explanation
Indices: 34342129--34342156 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34342119 ACATGTTTGT
34342129 CACGACCTAGCA
1 CACGACCTAGCA
34342141 CACGACCTAGCA
1 CACGACCTAGCA
34342153 CACG
1 CACG
34342157 GGCATGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.43, G:0.18, T:0.07
Consensus pattern (12 bp):
CACGACCTAGCA
Found at i:34345472 original size:38 final size:38
Alignment explanation
Indices: 34345408--34345487 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
34345398 GATGTGTATT
* * * *
34345408 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGCCCTAGTGCTGGTATTATATC
*
34345446 CGGGATAAATCCCGCAGCCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGCCCTAGTGCTGGTATTATATC
34345484 CGGG
1 CGGG
34345488 CCTTTGTGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGCCCTAGTGCTGGTATTATATC
Found at i:34345541 original size:43 final size:43
Alignment explanation
Indices: 34345480--34345561 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
34345470 GCTGGTATTA
*
34345480 TATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
34345523 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGA
34345562 ATTGATATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.10, C:0.26, G:0.34, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:34350615 original size:28 final size:29
Alignment explanation
Indices: 34350567--34350633 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
34350557 AAGTCTACAT
*
34350567 ACATGCATATGGCCCAGTAGGCCC-AATC
1 ACATTCATATGGCCCAGTAGGCCCAAATC
* *
34350595 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCAGTAGGCCCAAATC
34350624 ACATTCATAT
1 ACATTCATAT
34350634 ACATACTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 21 0.62
29 13 0.38
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCAGTAGGCCCAAATC
Found at i:34350865 original size:16 final size:16
Alignment explanation
Indices: 34350844--34350878 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
34350834 GTAGCCACAC
34350844 TTTTGGCTTTTTAGCA
1 TTTTGGCTTTTTAGCA
*
34350860 TTTTGGCTTTTTGGCA
1 TTTTGGCTTTTTAGCA
34350876 TTT
1 TTT
34350879 CAACTTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.11, G:0.20, T:0.60
Consensus pattern (16 bp):
TTTTGGCTTTTTAGCA
Found at i:34354200 original size:13 final size:13
Alignment explanation
Indices: 34354182--34354206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34354172 TTAATCGCAC
34354182 ATCACATATCGAA
1 ATCACATATCGAA
34354195 ATCACATATCGA
1 ATCACATATCGA
34354207 TGCCAACGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (13 bp):
ATCACATATCGAA
Found at i:34354203 original size:101 final size:101
Alignment explanation
Indices: 34354093--34354291 Score: 283
Period size: 101 Copynumber: 2.0 Consensus size: 101
34354083 CATATATCAG
* * *
34354093 AATCACATATCGATGCCAACGTATAAAACGTGGACTTACTCGTACACATATAT-TGAAGTCACAT
1 AATCACATATCGATGCCAACGTATAAAACGTGGACTTACTCGCACACATATATAAGAA-TCACAC
*
34354157 ATCGATGCCATGGTCTTAATCGCACATCACATATCGA
65 ATCAATGCCATGGTCTTAATCGCACATCACATATCGA
* * * * *
34354194 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCGCACATATATAAGAATCGCACA
1 AATCACATATCGATGCCAACGTATAAAACGTGGACTTACTCGCACACATATATAAGAATCACACA
* *
34354259 TCAATGCTATGGTCTTACTCGCACATCACATAT
66 TCAATGCCATGGTCTTAATCGCACATCACATAT
34354292 TGTAATTCAC
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 83 0.97
102 3 0.03
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (101 bp):
AATCACATATCGATGCCAACGTATAAAACGTGGACTTACTCGCACACATATATAAGAATCACACA
TCAATGCCATGGTCTTAATCGCACATCACATATCGA
Found at i:34362211 original size:9 final size:9
Alignment explanation
Indices: 34362199--34362255 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
34362189 TTTGATAAAC
34362199 ATGATATGT
1 ATGATATGT
*
34362208 ATGATATGCAC
1 ATGATATG--T
34362219 ATGATATGT
1 ATGATATGT
*
34362228 ATGATATGCAC
1 ATGATATG--T
34362239 ATGATATGT
1 ATGATATGT
34362248 ATGATATG
1 ATGATATG
34362256 CACACGAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Found at i:34362224 original size:11 final size:11
Alignment explanation
Indices: 34362208--34362259 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 11
34362198 CATGATATGT
34362208 ATGATATGCAC
1 ATGATATGCAC
*
34362219 ATGATATG--T
1 ATGATATGCAC
34362228 ATGATATGCAC
1 ATGATATGCAC
*
34362239 ATGATATG--T
1 ATGATATGCAC
34362248 ATGATATGCAC
1 ATGATATGCAC
34362259 A
1 A
34362260 CGAGATGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
9 16 0.48
11 17 0.52
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34362267 original size:20 final size:20
Alignment explanation
Indices: 34362197--34362259 Score: 126
Period size: 20 Copynumber: 3.1 Consensus size: 20
34362187 ATTTTGATAA
34362197 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34362217 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34362237 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34362257 ACA
1 ACA
34362260 CGAGATGTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34362388 original size:23 final size:24
Alignment explanation
Indices: 34362313--34362442 Score: 192
Period size: 24 Copynumber: 5.4 Consensus size: 24
34362303 GAGGAAGTGC
34362313 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
34362337 AAAAAGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
34362361 AAAAGGTCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34362385 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34362408 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
34362433 AAAAGAGGCT
1 AAAAG-GGCT
34362443 AGGCCTCCAA
Statistics
Matches: 96, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
23 27 0.28
24 47 0.49
25 13 0.14
26 9 0.09
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:34366254 original size:28 final size:28
Alignment explanation
Indices: 34366156--34366267 Score: 77
Period size: 28 Copynumber: 4.0 Consensus size: 28
34366146 ACATACCTAT
* * *
34366156 ATATGGGCCACTAGGCCCAATCTCTTTC
1 ATATCGGCCACTAGGCCCAATCACATTC
* *
34366184 ATAT-GGTCCA-TCAGGCCCATTCACATTT
1 ATATCGG-CCACT-AGGCCCAATCACATTC
* ** *
34366212 ATGTCACCCATTAGGCCCAAATCACATTC
1 ATATCGGCCACTAGGCCC-AATCACATTC
*
34366241 ATAT-GGCCACTAGGCCAAAATCACATT
1 ATATCGGCCACTAGGCC-CAATCACATT
34366268 TACAGTCATG
Statistics
Matches: 64, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
27 3 0.05
28 49 0.77
29 12 0.19
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (28 bp):
ATATCGGCCACTAGGCCCAATCACATTC
Found at i:34366363 original size:18 final size:19
Alignment explanation
Indices: 34366340--34366376 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34366330 TGGGCCCAAC
*
34366340 AGCCCA-TCGGGCCCATTT
1 AGCCCACTCCGGCCCATTT
34366358 AGCCCACTCCGGCCCATTT
1 AGCCCACTCCGGCCCATTT
34366377 GGCCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.43, G:0.19, T:0.22
Consensus pattern (19 bp):
AGCCCACTCCGGCCCATTT
Found at i:34366524 original size:16 final size:16
Alignment explanation
Indices: 34366483--34366525 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
34366473 GTAGCCAAAC
34366483 TTTCAGCTTTTTGACA
1 TTTCAGCTTTTTGACA
* *
34366499 TTTCAACTTTTTGGCA
1 TTTCAGCTTTTTGACA
*
34366515 TTTCGGCTTTT
1 TTTCAGCTTTT
34366526 CGGGATATGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTCAGCTTTTTGACA
Found at i:34373934 original size:173 final size:172
Alignment explanation
Indices: 34373638--34373985 Score: 615
Period size: 173 Copynumber: 2.0 Consensus size: 172
34373628 TACCATTTCA
*
34373638 ATATATTTCATTATGATTAAGCATTATATAATCCAAACATAAGTTTGGCACAAGCATAAGCATCA
1 ATATATTTCAATATGATTAAGCATTATATAATCCAAACATAAGTTTGGCACAAGCATAAGCATCA
* * * *
34373703 TCCACGAGACATGTTAGAGCATCAACTCATAAATCACTTAAAATAACATAAGATAAGTCATATAC
66 TCCACAACACATGTTAGAACATCAACTCATAAATCACTTAAAATAACATAAAATAAGTCATATAC
*
34373768 ATGAACAACATCAGTTGAAATCATCAATTTCATGAACATAAAC
131 ATAAACAA-ATCAGTTGAAATCATCAATTTCATGAACATAAAC
34373811 ATATATTTCAATATGATTAAGCATTATATAATCCAAACATAAGTTTGGCACAAGCATAAGCATCA
1 ATATATTTCAATATGATTAAGCATTATATAATCCAAACATAAGTTTGGCACAAGCATAAGCATCA
* *
34373876 TCCACAACACATGTTAGAACATCAACTCATAAGTCACTTGAAATAACATAAAATAAGTCATATAC
66 TCCACAACACATGTTAGAACATCAACTCATAAATCACTTAAAATAACATAAAATAAGTCATATAC
34373941 ATAAACAAATCAGTTGAAATCATCAATTTCATGAACATAAAC
131 ATAAACAAATCAGTTGAAATCATCAATTTCATGAACATAAAC
34373983 ATA
1 ATA
34373986 CTTTCATTAA
Statistics
Matches: 167, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
172 37 0.22
173 130 0.78
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (172 bp):
ATATATTTCAATATGATTAAGCATTATATAATCCAAACATAAGTTTGGCACAAGCATAAGCATCA
TCCACAACACATGTTAGAACATCAACTCATAAATCACTTAAAATAACATAAAATAAGTCATATAC
ATAAACAAATCAGTTGAAATCATCAATTTCATGAACATAAAC
Found at i:34379885 original size:26 final size:26
Alignment explanation
Indices: 34379816--34379886 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
34379806 CGTTCCAACC
*
34379816 CACAGCTAGTGTGAGCAGACCCATTT
1 CACAGCTAGTGTGAGCATACCCATTT
* **
34379842 CACAGCTCGTGTGAGCATAGTCATTT
1 CACAGCTAGTGTGAGCATACCCATTT
* *
34379868 CATAGCTTGTGTGAGCATA
1 CACAGCTAGTGTGAGCATA
34379887 ACTATACAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
CACAGCTAGTGTGAGCATACCCATTT
Found at i:34386813 original size:25 final size:25
Alignment explanation
Indices: 34386785--34386881 Score: 115
Period size: 26 Copynumber: 3.8 Consensus size: 25
34386775 CCTCTTTAAT
*
34386785 AACTGGGGAAAAGCCCTTTTTGGTA
1 AACTGGGGAAAAGCCCTTTTCGGTA
* **
34386810 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGAAAAGCCCTTTTCGGTA
34386835 AACT-GGGATATAAGCCCTTTTCGGTA
1 AACTGGGGA-A-AAGCCCTTTTCGGTA
*
34386861 AACTGGGGCATAAGCCCTTTT
1 AACTGGGG-AAAAGCCCTTTT
34386882 GCGCTTCCTC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
24 3 0.05
25 26 0.43
26 27 0.45
27 3 0.05
28 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (25 bp):
AACTGGGGAAAAGCCCTTTTCGGTA
Found at i:34386956 original size:20 final size:20
Alignment explanation
Indices: 34386931--34386987 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
34386921 TTATGAATTC
*
34386931 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
34386950 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
34386971 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
34386988 CCACGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:34389949 original size:46 final size:46
Alignment explanation
Indices: 34389882--34390048 Score: 200
Period size: 46 Copynumber: 3.6 Consensus size: 46
34389872 TGTAACCCGC
34389882 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
34389928 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCACAT
* * * *
34389978 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
*
34390021 CCATAAGTGAACTCAGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
34390049 AATTTCGGAT
Statistics
Matches: 104, Mismatches: 6, Indels: 22
0.79 0.05 0.17
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 55 0.53
47 27 0.26
48 1 0.01
49 1 0.01
50 7 0.07
51 3 0.03
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
Found at i:34390057 original size:93 final size:93
Alignment explanation
Indices: 34389890--34390061 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
34389880 GCCCATAAGT
* *
34389890 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
*
34389955 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* *
34389983 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
**
34390048 CAATTTCGGATGCC
66 CAAGCTCGGATGCC
34390062 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:34397660 original size:26 final size:26
Alignment explanation
Indices: 34397589--34397711 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
34397579 CCTCTTTAAT
* **
34397589 AACTCGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
34397614 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
34397639 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
34397665 AACTAGGGCATAAGCCCTCTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
34397691 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
34397712 GCACTTCCTC
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 32 0.37
26 54 0.63
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:34397700 original size:52 final size:51
Alignment explanation
Indices: 34397579--34397711 Score: 207
Period size: 52 Copynumber: 2.6 Consensus size: 51
34397569 GGAGGCCTAG
* * *
34397579 CCTCTTTAAT-AACTCGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGC
1 CCTCTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCAAAGC
*
34397628 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGC
1 CCTCTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCA-AAGC
34397680 CCTCTTCAATAAACTGGGGCATAAGCCCTTTT
1 CCTCTTCAATAAACTGGGGCATAAGCCCTTTT
34397712 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 8 0.11
50 9 0.12
51 24 0.32
52 35 0.46
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (51 bp):
CCTCTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCAAAGC
Found at i:34397797 original size:20 final size:20
Alignment explanation
Indices: 34397761--34397807 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
34397751 TTATGAATTC
**
34397761 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATACCATATCA
34397780 TATCATGTGCATACCATATCA
1 -ATCATGTGCATACCATATCA
34397801 ATCATGT
1 ATCATGT
34397808 ATATCATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATACCATATCA
Found at i:34402951 original size:19 final size:19
Alignment explanation
Indices: 34402927--34402965 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
34402917 TAGGGACCTT
34402927 ACGACCTCACCCCCTTACC
1 ACGACCTCACCCCCTTACC
34402946 ACGACCTCACCCCCTTACC
1 ACGACCTCACCCCCTTACC
34402965 A
1 A
34402966 AAGTGGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.56, G:0.05, T:0.15
Consensus pattern (19 bp):
ACGACCTCACCCCCTTACC
Found at i:34409476 original size:24 final size:24
Alignment explanation
Indices: 34409449--34409540 Score: 123
Period size: 24 Copynumber: 3.8 Consensus size: 24
34409439 GTTAGGAGAA
34409449 GATTTAGGAGCTGATAAGGGAAAG
1 GATTTAGGAGCTGATAAGGGAAAG
* *
34409473 GATTTAGGAGCTAATAAGGGAGAG
1 GATTTAGGAGCTGATAAGGGAAAG
* *
34409497 GCTTTAGGAGCTGATAAAGGAGAA-
1 GATTTAGGAGCTGATAAGGGA-AAG
34409521 GATTTAGGAGCTGATCAAGG
1 GATTTAGGAGCTGAT-AAGG
34409541 AGCAGGATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
24 54 0.93
25 4 0.07
ACGTcount: A:0.36, C:0.07, G:0.36, T:0.22
Consensus pattern (24 bp):
GATTTAGGAGCTGATAAGGGAAAG
Found at i:34417419 original size:24 final size:24
Alignment explanation
Indices: 34417392--34417479 Score: 131
Period size: 24 Copynumber: 3.7 Consensus size: 24
34417382 AAGGCTGTCA
34417392 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
34417416 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * * *
34417440 GGGGAGGCTTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
34417464 GGAGAAGATTTAGGAG
1 GGAGAAGATTTAGGAG
34417480 TTGACCAAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.34, C:0.05, G:0.41, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:34420690 original size:48 final size:48
Alignment explanation
Indices: 34420619--34420748 Score: 181
Period size: 48 Copynumber: 2.7 Consensus size: 48
34420609 CATTACGGAA
* * *
34420619 TACATTGATTTGGCTTCGGGCCATGATATCGGCACTTTAG-GTGCAAGT
1 TACATTGATTTGGCTTCAGGCCATGATATCGGCAC-TTAGAATGCAAGC
* *
34420667 TACATTGATTTGGCTTCAGGCCATGATATCGGCACTTCGAATGCGAGC
1 TACATTGATTTGGCTTCAGGCCATGATATCGGCACTTAGAATGCAAGC
* *
34420715 TACATTGATTTGGCTTTAGGCCATGATATTGGCA
1 TACATTGATTTGGCTTCAGGCCATGATATCGGCA
34420749 ATTGGGGTGT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
47 3 0.04
48 71 0.96
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (48 bp):
TACATTGATTTGGCTTCAGGCCATGATATCGGCACTTAGAATGCAAGC
Found at i:34427930 original size:24 final size:24
Alignment explanation
Indices: 34427903--34427992 Score: 83
Period size: 24 Copynumber: 3.7 Consensus size: 24
34427893 GCCGCGTTTC
34427903 CTCGCACACATAGTGCTATATAAT
1 CTCGCACACATAGTGCTATATAAT
* * *
34427927 CTCGCACACATAGTGCCATGTAGTT
1 CTCGCACACATAGTGCTATATA-AT
* * ** *
34427952 TTTGCACACATAGTG-TCGCATAAC
1 CTCGCACACATAGTGCT-ATATAAT
34427976 CTCGCACACATAGTGCT
1 CTCGCACACATAGTGCT
34427993 GAAATTTCTT
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
24 33 0.66
25 17 0.34
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (24 bp):
CTCGCACACATAGTGCTATATAAT
Found at i:34447576 original size:22 final size:22
Alignment explanation
Indices: 34447542--34447584 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
34447532 TGCTGCGATA
34447542 TCTACAGCATTGAGCCGTCCTG
1 TCTACAGCATTGAGCCGTCCTG
* *
34447564 TCTACGGCGTTGAGCCGTCCT
1 TCTACAGCATTGAGCCGTCCT
34447585 ACTGACTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.33, G:0.26, T:0.28
Consensus pattern (22 bp):
TCTACAGCATTGAGCCGTCCTG
Found at i:34451029 original size:22 final size:22
Alignment explanation
Indices: 34451004--34451048 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
34450994 TGCTGAGATA
*
34451004 TCTACAGCATTGAGCTGTCCTG
1 TCTACAGCATTGAGCCGTCCTG
* *
34451026 TCTACGGCGTTGAGCCGTCCTG
1 TCTACAGCATTGAGCCGTCCTG
34451048 T
1 T
34451049 TTACTTAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.13, C:0.29, G:0.27, T:0.31
Consensus pattern (22 bp):
TCTACAGCATTGAGCCGTCCTG
Found at i:34454476 original size:22 final size:22
Alignment explanation
Indices: 34454448--34454492 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
34454438 TGTTGTGATA
34454448 TCTACGGCATTGAGCTGTCCTG
1 TCTACGGCATTGAGCTGTCCTG
*
34454470 TCTACGGCGTTGAGCTGTCCTG
1 TCTACGGCATTGAGCTGTCCTG
34454492 T
1 T
34454493 TGACTTAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.27, G:0.29, T:0.33
Consensus pattern (22 bp):
TCTACGGCATTGAGCTGTCCTG
Found at i:34456075 original size:46 final size:46
Alignment explanation
Indices: 34456008--34456182 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
34455998 TGTAACCCGC
*
34456008 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
* *
34456054 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * * *
34456104 -C-TCA-CGAACTCGGTCTCAACTCAACGAGTTAGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
* * *
34456147 CCATAAGTGAACTCGGACTCAAATCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
34456183 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 24 0.23
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:34456090 original size:20 final size:20
Alignment explanation
Indices: 34456019--34456090 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 20
34456009 CATAAGCGAA
34456019 CTCGGACTCAACTCAATGAG
1 CTCGGACTCAACTCAATGAG
* *
34456039 CTCGGGCGTTC-ACATCCATAAGTGAA
1 CTCGGAC--TCAAC-T-C--AA-TGAG
34456065 CTCGGACTCAACTCAATGAG
1 CTCGGACTCAACTCAATGAG
34456085 CTCGGA
1 CTCGGA
34456091 TGCCTAGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
20 15 0.38
21 4 0.10
22 3 0.08
23 2 0.05
24 3 0.08
25 4 0.10
26 9 0.22
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (20 bp):
CTCGGACTCAACTCAATGAG
Found at i:34456125 original size:93 final size:93
Alignment explanation
Indices: 34456015--34456187 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
34456005 CGCCCATAAG
* * * *
34456015 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTAGGACGTTCACATCCATAAGTGAACTCGGACTCAAATCA
*
34456080 ATGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
34456108 CGAACTCGGTCTCAACTCAACGAGTTAGGACGTTCGCATCCATAAGTGAACTCGGACTCAAATCA
1 CGAACTCGGACTCAACTCAACGAGCTAGGACGTTCACATCCATAAGTGAACTCGGACTCAAATCA
*
34456173 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
34456188 CAAATATCTT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTAGGACGTTCACATCCATAAGTGAACTCGGACTCAAATCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:34464915 original size:18 final size:17
Alignment explanation
Indices: 34464873--34464926 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 17
34464863 GTGAACCAGA
*
34464873 AAAAGAAATTGAAAAAG
1 AAAAGAGATTGAAAAAG
34464890 AGAAAGAGATTGAAGAAAG
1 A-AAAGAGATTGAA-AAAG
34464909 AAAAGAGAGTGTGAAAAA
1 AAAAGAGA-T-TGAAAAA
34464927 AACGAGTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 1 0.03
18 18 0.56
19 9 0.28
20 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.11
Consensus pattern (17 bp):
AAAAGAGATTGAAAAAG
Found at i:34466653 original size:52 final size:51
Alignment explanation
Indices: 34466556--34466653 Score: 144
Period size: 52 Copynumber: 1.9 Consensus size: 51
34466546 TTTAGTTACT
* * *
34466556 TTAGTTAAAGTTTGCATCATAAATTATGACATGCATTATGTAACTCCCATG
1 TTAGTTAAAGTTTGCATCATAAATTAAGACATGCAATAAGTAACTCCCATG
34466607 TTAGTTAAAGTTTGCATCATTAAATTAAGTA-ATGCAATAAGTAACTC
1 TTAGTTAAAGTTTGCATCA-TAAATTAAG-ACATGCAATAAGTAACTC
34466654 ATTTGTTCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 19 0.45
52 22 0.52
53 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (51 bp):
TTAGTTAAAGTTTGCATCATAAATTAAGACATGCAATAAGTAACTCCCATG
Found at i:34468784 original size:13 final size:15
Alignment explanation
Indices: 34468760--34468791 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
34468750 TATCTTATTT
34468760 TATTACTAATTAA-A
1 TATTACTAATTAACA
34468774 TATTA-TAATTAACA
1 TATTACTAATTAACA
34468788 TATT
1 TATT
34468792 TCCACTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTACTAATTAACA
Found at i:34471791 original size:8 final size:8
Alignment explanation
Indices: 34471778--34471805 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
34471768 TACATTTCTA
34471778 TTTTTTAT
1 TTTTTTAT
34471786 TTTTTTAT
1 TTTTTTAT
34471794 TTTTTTAT
1 TTTTTTAT
34471802 TTTT
1 TTTT
34471806 CTAGTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:34471813 original size:16 final size:15
Alignment explanation
Indices: 34471772--34471817 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
34471762 CTATTTTACA
34471772 TTTCTATTTTTTATT
1 TTTCTATTTTTTATT
*
34471787 TTTTTATTTTTTTATT
1 TTTCTA-TTTTTTATT
*
34471803 TTTCTAGTTTTTATT
1 TTTCTATTTTTTATT
34471818 GTACTTGCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTCTATTTTTTATT
Found at i:34474727 original size:21 final size:24
Alignment explanation
Indices: 34474687--34474729 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
34474677 ATACGTTAAA
34474687 TAAAAAATACTTTGATCATTTTTT
1 TAAAAAATACTTTGATCATTTTTT
34474711 TAAAAAA-A-TTT-ATCATTTT
1 TAAAAAATACTTTGATCATTTT
34474730 ATACTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 1 0.05
24 7 0.37
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (24 bp):
TAAAAAATACTTTGATCATTTTTT
Found at i:34478434 original size:16 final size:16
Alignment explanation
Indices: 34478413--34478448 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
34478403 TGATTCACTA
34478413 TAATTGAATAAAACTG
1 TAATTGAATAAAACTG
*
34478429 TAATTGAATAGAACTG
1 TAATTGAATAAAACTG
34478445 TAAT
1 TAAT
34478449 AAAATAGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (16 bp):
TAATTGAATAAAACTG
Found at i:34478535 original size:44 final size:46
Alignment explanation
Indices: 34478450--34478540 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 46
34478440 AACTGTAATA
*
34478450 AAATAGAGTTGTAATCAGTAATTCAACTGTTTAGTTGAATGGAATG
1 AAATAGAGCTGTAATCAGTAATTCAACTGTTTAGTTGAATGGAATG
*** * *
34478496 AAATAGAGCTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGGTATG
1 AAATAGAGCTGTAATCAGTAATTCAACTGTTTAGTTGAATGGAATG
34478540 A
1 A
34478541 TGTTGTAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 22 0.56
45 3 0.08
46 14 0.36
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (46 bp):
AAATAGAGCTGTAATCAGTAATTCAACTGTTTAGTTGAATGGAATG
Found at i:34478731 original size:17 final size:17
Alignment explanation
Indices: 34478709--34478741 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34478699 AATTATTATT
*
34478709 AAATATAATTTAATAAA
1 AAATATAAATTAATAAA
34478726 AAATATAAATTAATAA
1 AAATATAAATTAATAA
34478742 CATTCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATAAATTAATAAA
Done.