Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 114 of 207
Found at i:34239034 original size:21 final size:20
Alignment explanation
Indices: 34238996--34239056 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
34238986 TCTTATTTCA
* **
34238996 AATAGTAATATTTTAATAAT
1 AATATTAATATTAAAATAAT
34239016 AATATTTAATATTAAAAT-AT
1 AATA-TTAATATTAAAATAAT
*
34239036 TATATTAATACTTAAAATAAT
1 AATATTAATA-TTAAAATAAT
34239057 TGTCTTTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 6 0.18
20 16 0.47
21 12 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AATATTAATATTAAAATAAT
Found at i:34239050 original size:20 final size:18
Alignment explanation
Indices: 34239008--34239056 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
34238998 TAGTAATATT
34239008 TTAATAATAATATTTAATA
1 TTAA-AATAATATTTAATA
*
34239027 TTAAAATATTATATTAATA
1 TTAAAATAATAT-TTAATA
34239046 CTTAAAATAAT
1 -TTAAAATAAT
34239057 TGTCTTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 7 0.27
19 10 0.38
20 9 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAAAATAATATTTAATA
Found at i:34239227 original size:29 final size:29
Alignment explanation
Indices: 34239194--34239255 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
34239184 TAAACACCAT
*
34239194 AGGTTACGAAAACATAAATAAGAGAATTA
1 AGGTTACAAAAACATAAATAAGAGAATTA
34239223 AGGTTACAAAAACATAAATAAGAGAATTA
1 AGGTTACAAAAACATAAATAAGAGAATTA
34239252 AGGT
1 AGGT
34239256 ATCTTATAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.55, C:0.06, G:0.18, T:0.21
Consensus pattern (29 bp):
AGGTTACAAAAACATAAATAAGAGAATTA
Found at i:34240156 original size:17 final size:18
Alignment explanation
Indices: 34240136--34240176 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
34240126 TTGAGCGAGC
34240136 CCTATATTA-TATGCAAG
1 CCTATATTAGTATGCAAG
*
34240153 CCTAT-TTAGTGTGCAAG
1 CCTATATTAGTATGCAAG
34240170 CCTATAT
1 CCTATAT
34240177 GTATGCGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 17 0.81
18 1 0.05
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (18 bp):
CCTATATTAGTATGCAAG
Found at i:34245225 original size:27 final size:27
Alignment explanation
Indices: 34245155--34245213 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
34245145 TCTCTTGTGC
* * *
34245155 GAACCCCTATCGC-GAACTGCCTTTGT
1 GAACTCCTATCGCTGAACTACCTATGT
34245181 GAACTCCTATCGCTGAACTACCTATGT
1 GAACTCCTATCGCTGAACTACCTATGT
34245208 GAACTC
1 GAACTC
34245214 TCCTATGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (27 bp):
GAACTCCTATCGCTGAACTACCTATGT
Found at i:34246746 original size:30 final size:30
Alignment explanation
Indices: 34246694--34246751 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34246684 TCTGAGCTTT
34246694 GGGGAAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGAAAAAGTGTAAATATGCAAAAGTTTA
* * * *
34246724 GGGGCAAAATTGTAATTTTGCAAAAGTT
1 GGGGAAAAAGTGTAAATATGCAAAAGTT
34246752 CGAGTCAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.26, T:0.28
Consensus pattern (30 bp):
GGGGAAAAAGTGTAAATATGCAAAAGTTTA
Found at i:34247236 original size:50 final size:50
Alignment explanation
Indices: 34247141--34247264 Score: 133
Period size: 50 Copynumber: 2.5 Consensus size: 50
34247131 TATTGAGGTT
*** *
34247141 ATGAGAGGTCCCACGTAAGACCATGTCCTGGACATGGTGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCCTGGACATGACATGGGCACCGAG
* * *
34247191 ATGAGATGTCCCCCGTAAGACCATGT-CTGGGACATGACATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCCT-GGACATGACATGGGCACCGAG
** * *
34247241 ATGAGAACTCTCACATAAGACCAT
1 ATGAGAGGTCCCACGTAAGACCAT
34247265 ATCTGGGATA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 2 0.03
50 59 0.97
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCCTGGACATGACATGGGCACCGAG
Found at i:34248449 original size:27 final size:26
Alignment explanation
Indices: 34248417--34248482 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
34248407 TACGACATTA
*
34248417 CGATCATTTTACCTTATAGGGGTAGCT
1 CGATCATTTTACCTT-CAGGGGTAGCT
*
34248444 CGATCATTTTACCCTTCAGGGGTATCT
1 CGATCATTTTA-CCTTCAGGGGTAGCT
34248471 C-AGTCATTTTAC
1 CGA-TCATTTTAC
34248483 ACGGACACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 2 0.06
27 29 0.83
28 4 0.11
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (26 bp):
CGATCATTTTACCTTCAGGGGTAGCT
Found at i:34251359 original size:25 final size:26
Alignment explanation
Indices: 34251303--34251359 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
34251293 GGTTACCAAT
* *
34251303 TTCAGCTTGTATGAGTTTACTGATAC
1 TTCAGCTTGCATGAGCTTACTGATAC
*
34251329 TT-AGCTTGCATGAGCTTACTGTTA-
1 TTCAGCTTGCATGAGCTTACTGATAC
34251353 TTCAGCT
1 TTCAGCT
34251360 CGGAGGAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.07
25 23 0.85
26 2 0.07
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (26 bp):
TTCAGCTTGCATGAGCTTACTGATAC
Found at i:34252256 original size:34 final size:35
Alignment explanation
Indices: 34252218--34252285 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 35
34252208 AATGAGGTTA
34252218 GTTTTTGAATGGTTTGTGTTGG-TTTTTTTAGTGC
1 GTTTTTGAATGGTTTGTGTTGGTTTTTTTTAGTGC
34252252 GTTTTTGAATGGTTTGTGTTGGTTTTTTTTAGTG
1 GTTTTTGAATGGTTTGTGTTGGTTTTTTTTAGTG
34252286 AACAAATTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 22 0.67
35 11 0.33
ACGTcount: A:0.09, C:0.01, G:0.29, T:0.60
Consensus pattern (35 bp):
GTTTTTGAATGGTTTGTGTTGGTTTTTTTTAGTGC
Found at i:34253467 original size:137 final size:138
Alignment explanation
Indices: 34253241--34253576 Score: 496
Period size: 137 Copynumber: 2.4 Consensus size: 138
34253231 TAGAAAAATG
* * *
34253241 AATTATATTCTTTCCAAAAGAATATTAATTTCTC-TGTCTTTTACATTTTGACCTAAGTTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTC-CATGTCTTTTATATTTTGACCGAAATTAATTA
* * * * *
34253305 ATATAACTGTTTATAGTAAGAAATTCTGTAAAATATATACAATTAATATTTTTTATGAAT-CAAT
65 ATATAACTATTTATAGTAAGAAATTCGGTAAAATATATACAATTAATATTGTGTATGAATAAAAT
34253369 TCATATATT
130 TCATATATT
* *
34253378 AATTATATTCTTTCAAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACGGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
34253443 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTGTGTATGAATAAAATT
66 TATAACTATTTATAGTAAGAAATTCGGTAAAATATATACAATTAATATTGTGTATGAATAAAATT
*
34253508 GATATATT
131 CATATATT
* * * *
34253516 AATTATATTATTTCCAAAAGAATATTATTTTCCATGCCTTTTATATTTTGACCGAATTTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAA
34253577 AATCACAAAA
Statistics
Matches: 178, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
136 1 0.01
137 111 0.62
138 66 0.37
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTATTTATAGTAAGAAATTCGGTAAAATATATACAATTAATATTGTGTATGAATAAAATT
CATATATT
Found at i:34256695 original size:8 final size:8
Alignment explanation
Indices: 34256674--34256702 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
34256664 CACTTTTTTA
34256674 ATCATCCC
1 ATCATCCC
34256682 -TCATCCC
1 ATCATCCC
34256689 ATCATCCC
1 ATCATCCC
34256697 ATCATC
1 ATCATC
34256703 TGTCACTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.28
Consensus pattern (8 bp):
ATCATCCC
Found at i:34262722 original size:22 final size:23
Alignment explanation
Indices: 34262654--34262727 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 23
34262644 CATAGAATTT
*
34262654 CAAAGAAAA-GAATTGAAGTCGA
1 CAAAGAAAAGGAATTGAAGTTGA
* *
34262676 CAAA-ACAAAGGCATAT-AA-TT-T
1 CAAAGA-AAAGGAAT-TGAAGTTGA
34262697 CAAA-AAAAGGAATTGAAGTTGA
1 CAAAGAAAAGGAATTGAAGTTGA
34262719 CAAAGAAAA
1 CAAAGAAAA
34262728 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
19 1 0.03
20 9 0.22
21 8 0.20
22 12 0.30
23 9 0.22
24 1 0.03
ACGTcount: A:0.57, C:0.09, G:0.18, T:0.16
Consensus pattern (23 bp):
CAAAGAAAAGGAATTGAAGTTGA
Found at i:34266722 original size:23 final size:25
Alignment explanation
Indices: 34266666--34266722 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
34266656 CTTGTTATTT
**
34266666 ATTTAATTTTCTTTAGGTCTTTAGGA
1 ATTTAA-TTTCTTTAGGTAATTAGGA
34266692 ATTT-ATTTCTTTA-GTAATTAGG-
1 ATTTAATTTCTTTAGGTAATTAGGA
34266714 ATTTAATTT
1 ATTTAATTT
34266723 TTGTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 4 0.14
23 11 0.39
24 8 0.29
25 1 0.04
26 4 0.14
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.56
Consensus pattern (25 bp):
ATTTAATTTCTTTAGGTAATTAGGA
Found at i:34268882 original size:19 final size:19
Alignment explanation
Indices: 34268860--34268897 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
34268850 TCAATCATCC
34268860 CTCATCCCATCATT-TCTCA
1 CTCAT-CCATCATTCTCTCA
*
34268879 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
34268898 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:34270391 original size:64 final size:65
Alignment explanation
Indices: 34270252--34270398 Score: 172
Period size: 64 Copynumber: 2.3 Consensus size: 65
34270242 TTATGGAGGT
** ***
34270252 GTGGATGAGAATGGGGTTTTAGTATTGAATATTGTTAAGTAAATCATGGCTTTGCGAAGGTTCAA
1 GTGGATGAGAATGGGGTTTTAGTATCAAATACCATTAAGTAAATCATGGCTTTGCGAAGGTTCAA
* * ** * **
34270317 G-GGATAAGAATGGGGTTTTAGTATCAAATACCATTAAGTAAATTATTTCTTTGCGATGGTT-TG
1 GTGGATGAGAATGGGGTTTTAGTATCAAATACCATTAAGTAAATCATGGCTTTGCGAAGGTTCAA
34270380 GTGGATGAGAATGGGGTTT
1 GTGGATGAGAATGGGGTTT
34270399 CAATATAGAA
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
63 1 0.01
64 66 0.97
65 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.36
Consensus pattern (65 bp):
GTGGATGAGAATGGGGTTTTAGTATCAAATACCATTAAGTAAATCATGGCTTTGCGAAGGTTCAA
Found at i:34272493 original size:23 final size:23
Alignment explanation
Indices: 34272461--34272538 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 23
34272451 AATTGTTTCC
*
34272461 ACATCACGACGAGGACCACTATG
1 ACATCGCGACGAGGACCACTATG
** *
34272484 ACATCGCGACGACTA-GAC-ATG
1 ACATCGCGACGAGGACCACTATG
* ** *
34272505 A-TTCTTGATGAGGACCACTATG
1 ACATCGCGACGAGGACCACTATG
34272527 ACATCGCGACGA
1 ACATCGCGACGA
34272539 CTAGATATGA
Statistics
Matches: 37, Mismatches: 15, Indels: 6
0.64 0.26 0.10
Matches are distributed among these distances:
20 7 0.19
21 6 0.16
22 6 0.16
23 18 0.49
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.18
Consensus pattern (23 bp):
ACATCGCGACGAGGACCACTATG
Found at i:34272532 original size:43 final size:43
Alignment explanation
Indices: 34272471--34272553 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
34272461 ACATCACGAC
34272471 GAGGACCACTATGACATCGCGACGACTAGACATGATTCTTGAT
1 GAGGACCACTATGACATCGCGACGACTAGACATGATTCTTGAT
*
34272514 GAGGACCACTATGACATCGCGACGACTAGATATGATTCTT
1 GAGGACCACTATGACATCGCGACGACTAGACATGATTCTT
34272554 TCTCCATAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (43 bp):
GAGGACCACTATGACATCGCGACGACTAGACATGATTCTTGAT
Found at i:34285527 original size:25 final size:25
Alignment explanation
Indices: 34285499--34285577 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
34285489 CTAATGGCCG
34285499 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
34285524 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
34285546 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
34285571 ATGTGAT
1 ATGTGAT
34285578 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:34285549 original size:47 final size:47
Alignment explanation
Indices: 34285483--34285909 Score: 719
Period size: 47 Copynumber: 9.1 Consensus size: 47
34285473 GAAATGATAG
34285483 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34285530 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
34285577 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAAGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
34285624 TAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
34285671 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
34285718 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
34285765 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34285812 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
34285859 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34285906 TAAG
1 TAAG
34285910 TCCCGAAGGG
Statistics
Matches: 358, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 358 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:34286084 original size:37 final size:37
Alignment explanation
Indices: 34286028--34286106 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
34286018 CCGAGCTCTA
* *
34286028 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
34286065 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
34286102 AAGAC
1 AAGAC
34286107 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:34288026 original size:43 final size:43
Alignment explanation
Indices: 34287978--34288080 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
34287968 TTGGTTTTCA
34287978 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
34288021 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
34288064 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
34288081 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:34288542 original size:40 final size:40
Alignment explanation
Indices: 34288498--34288614 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 40
34288488 GAGTTACTAA
*
34288498 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
34288538 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * *
34288578 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
34288615 CGTGTATTCG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:34288557 original size:80 final size:80
Alignment explanation
Indices: 34288465--34288614 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
34288455 CATATCTGGA
* * * *
34288465 CTAAGATCCGAAG-GCATTGGTG-TGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATG
1 CTAAGATCCGAAGAGCATTCGTGCT-AGTGA-TAAATCCGGGCTAAATCCCGAAGAGCAATCATG
34288528 CTAGTGATGTATCCGGG
64 CTAGTGATGTATCCGGG
* * *
34288545 CTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCAATCATGCT
1 CTAAGATCCGAAGAGCATTCGTGCTAGTGATAAATCCGGGCTAAATCCCGAAGAGCAATCATGCT
*
34288610 GGTGA
66 AGTGA
34288615 CGTGTATTCG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 47 0.78
81 12 0.20
82 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
CTAAGATCCGAAGAGCATTCGTGCTAGTGATAAATCCGGGCTAAATCCCGAAGAGCAATCATGCT
AGTGATGTATCCGGG
Found at i:34292075 original size:47 final size:47
Alignment explanation
Indices: 34292009--34292387 Score: 643
Period size: 47 Copynumber: 8.1 Consensus size: 47
34291999 GAAATGATAG
34292009 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34292056 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34292103 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
34292150 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
34292197 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34292244 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34292290 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
34292337 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34292384 TAAG
1 TAAG
34292388 TCCCGAAGGG
Statistics
Matches: 314, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 45 0.14
47 269 0.86
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:34292562 original size:37 final size:37
Alignment explanation
Indices: 34292506--34292584 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
34292496 CCGAGCTCTA
* *
34292506 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
34292543 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
34292580 AAGAC
1 AAGAC
34292585 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:34302975 original size:27 final size:27
Alignment explanation
Indices: 34302850--34303006 Score: 192
Period size: 27 Copynumber: 5.8 Consensus size: 27
34302840 TACCCTCGAT
**
34302850 GGGTAAAATGACCGA-AATA-CCCTCAA
1 GGGTAAAATGACC-ATAATACCCCTGTA
*
34302876 TGGGTAAAATGACCATAATACCCCTCTA
1 -GGGTAAAATGACCATAATACCCCTGTA
* *
34302904 GGGTAAAATGATCGTAATACCCCTGTA
1 GGGTAAAATGACCATAATACCCCTGTA
* *
34302931 GGGTAAAATGACCGTAATGCCCCTGTA
1 GGGTAAAATGACCATAATACCCCTGTA
* *
34302958 GGGTAAAATGACCCTAATGCCCCTGTA
1 GGGTAAAATGACCATAATACCCCTGTA
*
34302985 GGGTAAAATAACCATAATACCC
1 GGGTAAAATGACCATAATACCC
34303007 TCGAGGCCAA
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 111 0.94
28 6 0.05
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (27 bp):
GGGTAAAATGACCATAATACCCCTGTA
Found at i:34303074 original size:24 final size:23
Alignment explanation
Indices: 34303016--34303097 Score: 110
Period size: 24 Copynumber: 3.5 Consensus size: 23
34303006 CTCGAGGCCA
* * *
34303016 AATGATTGATTTGTCTGTGGTTA
1 AATGACTGATTTGTCTGTGTTTG
*
34303039 AATGACTAATTTGTCTGTGTTTG
1 AATGACTGATTTGTCTGTGTTTG
34303062 ATATGACTGATTTGTCTGTGATTTG
1 A-ATGACTGATTTGTCTGTG-TTTG
34303087 AATGACTGATT
1 AATGACTGATT
34303098 CTGAGCATGG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
23 20 0.38
24 27 0.52
25 5 0.10
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.46
Consensus pattern (23 bp):
AATGACTGATTTGTCTGTGTTTG
Found at i:34303243 original size:26 final size:26
Alignment explanation
Indices: 34303213--34303272 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
34303203 TTAGCCACAT
*
34303213 ATACTATTACTGACAGCTTTGTTGGG
1 ATACTACTACTGACAGCTTTGTTGGG
* * *
34303239 ATACTACTGCTGGCAGCTTTGTTGCG
1 ATACTACTACTGACAGCTTTGTTGGG
*
34303265 ATGCTACT
1 ATACTACT
34303273 GATGGCTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (26 bp):
ATACTACTACTGACAGCTTTGTTGGG
Found at i:34303273 original size:26 final size:26
Alignment explanation
Indices: 34303226--34303278 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
34303216 CTATTACTGA
* *
34303226 CAGCTTTGTTGGGATACTACTGCTGG
1 CAGCTTTGTTGCGATACTACTGATGG
*
34303252 CAGCTTTGTTGCGATGCTACTGATGG
1 CAGCTTTGTTGCGATACTACTGATGG
34303278 C
1 C
34303279 TTTGTCCCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.34
Consensus pattern (26 bp):
CAGCTTTGTTGCGATACTACTGATGG
Found at i:34303324 original size:32 final size:32
Alignment explanation
Indices: 34303267--34303439 Score: 170
Period size: 32 Copynumber: 5.4 Consensus size: 32
34303257 TTGTTGCGAT
* *
34303267 GCTACTGATGGCTTTGTCCCCATCATATTACC
1 GCTACTGATGGCTTTGTGCCAATCATATTACC
* * * *
34303299 GTTATTGATGG-TTGTGTGCCAATCATATCACT
1 GCTACTGATGGCTT-TGTGCCAATCATATTACC
* *
34303331 GCTACTAATGGCTTTGTGCCGATCATATTACC
1 GCTACTGATGGCTTTGTGCCAATCATATTACC
* * * ** * *
34303363 GTTACAGATGGCTGTGTGCCGGTCATATCACT
1 GCTACTGATGGCTTTGTGCCAATCATATTACC
*
34303395 GCTACTGATGGCTTTGTGCCAATCATATTACT
1 GCTACTGATGGCTTTGTGCCAATCATATTACC
*
34303427 G-TACTTATGGCTT
1 GCTACTGATGGCTT
34303440 GTAGCCATTC
Statistics
Matches: 113, Mismatches: 26, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
31 13 0.12
32 98 0.87
33 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (32 bp):
GCTACTGATGGCTTTGTGCCAATCATATTACC
Found at i:34303373 original size:64 final size:64
Alignment explanation
Indices: 34303266--34303425 Score: 239
Period size: 64 Copynumber: 2.5 Consensus size: 64
34303256 TTTGTTGCGA
* * ** *
34303266 TGCTACTGATGGCTTTGTCCCCATCATATTACCGTTATTGATGGTTGTGTGCCAATCATATCAC
1 TGCTACTGATGGCTTTGTGCCAATCATATTACCGTTACAGATGGCTGTGTGCCAATCATATCAC
* * **
34303330 TGCTACTAATGGCTTTGTGCCGATCATATTACCGTTACAGATGGCTGTGTGCCGGTCATATCAC
1 TGCTACTGATGGCTTTGTGCCAATCATATTACCGTTACAGATGGCTGTGTGCCAATCATATCAC
34303394 TGCTACTGATGGCTTTGTGCCAATCATATTAC
1 TGCTACTGATGGCTTTGTGCCAATCATATTAC
34303426 TGTACTTATG
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 86 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCAATCATATTACCGTTACAGATGGCTGTGTGCCAATCATATCAC
Found at i:34303456 original size:22 final size:22
Alignment explanation
Indices: 34303431--34303477 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
34303421 ATTACTGTAC
* * *
34303431 TTATGGCTTGTAGCCATTCTGT
1 TTATAGCTTATAGCCATCCTGT
*
34303453 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTTATAGCCATCCTGT
34303475 TTA
1 TTA
34303478 CGACTCAGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTGT
Found at i:34305558 original size:3 final size:3
Alignment explanation
Indices: 34305550--34305584 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
34305540 AGTTTTGCAT
*
34305550 TTG TTG TTG TTG TTT TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
34305585 TCTATCGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (3 bp):
TTG
Found at i:34311557 original size:28 final size:28
Alignment explanation
Indices: 34311525--34311624 Score: 128
Period size: 28 Copynumber: 3.6 Consensus size: 28
34311515 AGTGTGGGCT
34311525 TTAGCCCAATACAGTAACAATGTGAGCC
1 TTAGCCCAATACAGTAACAATGTGAGCC
* * * *
34311553 TTAGCCCAATACATTAATAACGTGGGCC
1 TTAGCCCAATACAGTAACAATGTGAGCC
* * *
34311581 TTAGCCCAATATAGTAACAATGTAAGCG
1 TTAGCCCAATACAGTAACAATGTGAGCC
*
34311609 TTAGCCCGATACAGTA
1 TTAGCCCAATACAGTA
34311625 TCGGTACAGT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (28 bp):
TTAGCCCAATACAGTAACAATGTGAGCC
Found at i:34312008 original size:27 final size:27
Alignment explanation
Indices: 34311956--34312037 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
34311946 ACATAAGTTC
*
34311956 ATAACAGTCATTTCATCTCCTA--GGGGT
1 ATAACAGTCATTTTA-C-CCTATGGGGGT
34311983 ATAACAGTCATTTTACCCTATGGGGGT
1 ATAACAGTCATTTTACCCTATGGGGGT
**** *
34312010 ATTTTGGTAATTTTACCCTATGGGGGT
1 ATAACAGTCATTTTACCCTATGGGGGT
34312037 A
1 A
34312038 ATTCAGTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.09
26 1 0.02
27 42 0.89
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (27 bp):
ATAACAGTCATTTTACCCTATGGGGGT
Found at i:34312051 original size:27 final size:28
Alignment explanation
Indices: 34311992--34312072 Score: 103
Period size: 27 Copynumber: 2.9 Consensus size: 28
34311982 TATAACAGTC
** *
34311992 ATTTTACCCTATGGGGGT-ATTTTGGTA
1 ATTTTACCCTATGGGGGTAATTCAGTTA
34312019 ATTTTACCCTATGGGGGTAATTCAGTTA
1 ATTTTACCCTATGGGGGTAATTCAGTTA
*
34312047 A-TTTACCCTGTAGGGGGTAATTCAGT
1 ATTTTACCCTAT-GGGGGTAATTCAGT
34312073 CATTTATTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
27 27 0.56
28 21 0.44
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.40
Consensus pattern (28 bp):
ATTTTACCCTATGGGGGTAATTCAGTTA
Found at i:34320888 original size:23 final size:23
Alignment explanation
Indices: 34320862--34320983 Score: 156
Period size: 23 Copynumber: 5.3 Consensus size: 23
34320852 ATAAGTGCCA
34320862 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
34320885 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * * *
34320908 CACTGAAAAGTAGGCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
34320931 CACTGATATGTAGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
* *
34320954 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34320977 CACTGAT
1 CACTGAT
34320984 CAATAACACT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
22 1 0.01
23 82 0.98
24 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:34320932 original size:46 final size:46
Alignment explanation
Indices: 34320862--34320983 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
34320852 ATAAGTGCCA
* *
34320862 CACTGATATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
* * * *
34320908 CACTGAAAAGTAGGCGAAGTTACCACTGATATGTAGCCATAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
*
34320954 CACTGAAATGTAGCCAAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
34320984 CAATAACACT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
Found at i:34321097 original size:21 final size:23
Alignment explanation
Indices: 34321070--34321116 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
34321060 AAAAAAATCC
34321070 AAAAAAATTCAA-AT-TTCGAGTT
1 AAAAAAA-TCAAGATATTCGAGTT
*
34321092 AAAAAAATCAAGTTATTCGAGTT
1 AAAAAAATCAAGATATTCGAGTT
34321115 AA
1 AA
34321117 TCGAGTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 8 0.36
23 10 0.45
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.30
Consensus pattern (23 bp):
AAAAAAATCAAGATATTCGAGTT
Found at i:34321210 original size:9 final size:9
Alignment explanation
Indices: 34321183--34321219 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
34321173 TGAGTTTTCG
34321183 AATTCGAAT
1 AATTCGAAT
* *
34321192 AACTCAAAT
1 AATTCGAAT
34321201 AATTCGAAT
1 AATTCGAAT
34321210 AATTCGAAT
1 AATTCGAAT
34321219 A
1 A
34321220 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:34326603 original size:10 final size:10
Alignment explanation
Indices: 34326588--34326612 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34326578 GCATCTTGAA
34326588 CAACTTCATC
1 CAACTTCATC
34326598 CAACTTCATC
1 CAACTTCATC
34326608 CAACT
1 CAACT
34326613 GAGTCCCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.40, G:0.00, T:0.28
Consensus pattern (10 bp):
CAACTTCATC
Found at i:34329684 original size:9 final size:9
Alignment explanation
Indices: 34329670--34329694 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34329660 CTTATATACA
34329670 AATATACGC
1 AATATACGC
34329679 AATATACGC
1 AATATACGC
34329688 AATATAC
1 AATATAC
34329695 AAATAATCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (9 bp):
AATATACGC
Found at i:34330198 original size:39 final size:39
Alignment explanation
Indices: 34330060--34330200 Score: 228
Period size: 39 Copynumber: 3.6 Consensus size: 39
34330050 CATATTCACC
* * *
34330060 TTTAAGCGTATATCACATTACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
34330099 TTTAAGCATATATCACAATACGCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
34330138 TTTGAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
34330177 TTTAAGTATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
34330201 AAAACATGTT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:34336962 original size:51 final size:50
Alignment explanation
Indices: 34336770--34337215 Score: 407
Period size: 51 Copynumber: 8.8 Consensus size: 50
34336760 ACTTTTATCA
* * *
34336770 TTCGATACACGTAGTAGCCTTCAGATAGTACTACACACGTGATCAAG-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGATT
* * * * * *
34336819 TTACGGTTCACGTACTAGCCTTCAGATTGTACTACACATGTGATCAAG-TT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGATT
* * * *
34336869 TTACGGTTCATGTAGTAGCCATCACATA-TACCACACACGTGACCAAAGATT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGATT
* * * **
34336920 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGATT
* * * *
34336970 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGATT
* * * * **
34337022 CTT-GGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTATT
1 -TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGATT
* * * *
34337072 TATCGATTCA-GATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGGTACACG-TAGTAGCCTTCACATAGTACTACACACGTGACC-AAGATT
* * * * * **
34337124 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACAAGTGACCATTATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGATT
*
34337174 TATCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
34337216 TTCATCGATA
Statistics
Matches: 316, Mismatches: 68, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
49 16 0.05
50 100 0.32
51 192 0.61
52 7 0.02
53 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGATT
Found at i:34337032 original size:102 final size:102
Alignment explanation
Indices: 34336771--34337215 Score: 591
Period size: 102 Copynumber: 4.4 Consensus size: 102
34336761 CTTTTATCAT
* * * * * *
34336771 TCGATACACGTAGTAGCCTTCAGATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACGTAC
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * *
34336834 TAGCCTTCAGATT-GTACTACACATGTGATCAAGT-TTTA
65 TAGCCTTCA-CTTAGTACTACACATGTGA-CCATTATTTA
* * * * *
34336872 -CGGTTCATGTAGTAGCCATCACATA-TACCACACACGTGACCAAAGATTTTCGGTACACATAGT
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
*
34336935 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
* *
34336972 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTT-GGTACACATTG
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT-TTCGGTACACATAG
34337036 TAGCCTTCACTTAGTACTACACATGTGACCATTATTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATTATTTA
* * *
34337074 TCGATTCA-GATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTG
1 TCGATTCACG-TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAG
*
34337138 TAGCCTTCACTTAGTACTACACAAGTGACCATTATTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATTATTTA
*
34337176 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTG
34337216 TTCATCGATA
Statistics
Matches: 308, Mismatches: 26, Indels: 19
0.87 0.07 0.05
Matches are distributed among these distances:
99 18 0.06
100 60 0.19
101 27 0.09
102 200 0.65
103 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
Found at i:34339724 original size:50 final size:51
Alignment explanation
Indices: 34339651--34339759 Score: 177
Period size: 50 Copynumber: 2.2 Consensus size: 51
34339641 CATTTCAATT
* *
34339651 CTTTTCATGATTTCATAACATAGTTCATTTGAATACATACCATTCCTTTCC
1 CTTTTCATAATTTCATAACATAGTTCATTTGAACACATACCATTCCTTTCC
34339702 CTTTTC-TAATTTCATGAA-ATAGTTCATTTGAACACATACCATTCCTTTCC
1 CTTTTCATAATTTCAT-AACATAGTTCATTTGAACACATACCATTCCTTTCC
34339752 CTTTTCAT
1 CTTTTCAT
34339760 GCCTGTTGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
50 45 0.83
51 9 0.17
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.44
Consensus pattern (51 bp):
CTTTTCATAATTTCATAACATAGTTCATTTGAACACATACCATTCCTTTCC
Found at i:34350368 original size:7 final size:7
Alignment explanation
Indices: 34350356--34350386 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
34350346 TACCAAAAGC
34350356 AACATTT
1 AACATTT
34350363 AACATTT
1 AACATTT
34350370 AACATTT
1 AACATTT
34350377 AACATTT
1 AACATTT
34350384 AAC
1 AAC
34350387 TCAAACTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (7 bp):
AACATTT
Found at i:34351476 original size:275 final size:275
Alignment explanation
Indices: 34350969--34351514 Score: 950
Period size: 275 Copynumber: 2.0 Consensus size: 275
34350959 TAGATAGCTT
*
34350969 CTCACTCGAGCCATAAAATGGGTCTACTCACACAAGCTGACGGTCAGAATGTAAGCTACACGATG
1 CTCACTCGAGCCATAAAATGGGTCTACTCACACAAGCTGACGGTCAGAATGTAAGCTACACAATG
* *
34351034 TCGCTCACACAAGCTGACAAGCTTCCGCAACAAATGCAGGACCTCAACCATCAGTAGGACATTCA
66 TCACTCACACAAGCTGACAAGCTTCCGCAACAAATGCAGGACCTCAAACATCAGTAGGACATTCA
*
34351099 AGACCAGCACTCGAAACATGGTAACCCTAGTGACATGTCAGTTGTATCCTATATATTCCTAAGGT
131 AGACCAGCACCCGAAACATGGTAACCCTAGTGACATGTCAGTTGTATCCTATATATTCCTAAGGT
* * * *
34351164 TCACATGGGGTTTAATATTCATCATAACGTTGTTGGATTTCCAACAATCGTTTACATGATAAGTA
196 TCACACGGGGTTCAATATTCATCATAACGTCGTTGGATTTCCAACAATCGTTTACATGATAAATA
34351229 ACACAATAATAGTTG
261 ACACAATAATAGTTG
*
34351244 CTCACTCGAGCCATAAAATGGGTCTACTCACACAAGCTGACGGTCGGAATGTAAGCTACACAATG
1 CTCACTCGAGCCATAAAATGGGTCTACTCACACAAGCTGACGGTCAGAATGTAAGCTACACAATG
34351309 TCACTCACACAAGCTGACAAG-TATCCGCAACAAATGCAGGACCTCAAACATCAGTAGGACATTC
66 TCACTCACACAAGCTGACAAGCT-TCCGCAACAAATGCAGGACCTCAAACATCAGTAGGACATTC
*
34351373 AAGACCAGCACCCGAAACATGGTAACCCTAGTGACATGTCATTTGTATCCTATATATTCCTAAGG
130 AAGACCAGCACCCGAAACATGGTAACCCTAGTGACATGTCAGTTGTATCCTATATATTCCTAAGG
* * * *
34351438 TTCATACGGGGTTCAATATTCGTCGTAACGTCGTTGGATTTCCAACAATCGTTTCCATGATAAAT
195 TTCACACGGGGTTCAATATTCATCATAACGTCGTTGGATTTCCAACAATCGTTTACATGATAAAT
34351503 AACACAATAATA
260 AACACAATAATA
34351515 TATATATCAA
Statistics
Matches: 256, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
274 1 0.00
275 255 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (275 bp):
CTCACTCGAGCCATAAAATGGGTCTACTCACACAAGCTGACGGTCAGAATGTAAGCTACACAATG
TCACTCACACAAGCTGACAAGCTTCCGCAACAAATGCAGGACCTCAAACATCAGTAGGACATTCA
AGACCAGCACCCGAAACATGGTAACCCTAGTGACATGTCAGTTGTATCCTATATATTCCTAAGGT
TCACACGGGGTTCAATATTCATCATAACGTCGTTGGATTTCCAACAATCGTTTACATGATAAATA
ACACAATAATAGTTG
Found at i:34360017 original size:25 final size:25
Alignment explanation
Indices: 34359989--34360045 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
34359979 GACGAAGCGG
34359989 AGGGAGCCTACACTGCTGCCCTCAA
1 AGGGAGCCTACACTGCTGCCCTCAA
34360014 AGGGAGCCTACACTGCTGCCCTCAA
1 AGGGAGCCTACACTGCTGCCCTCAA
34360039 AGGGAGC
1 AGGGAGC
34360046 AAAAGCCGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.25, C:0.33, G:0.28, T:0.14
Consensus pattern (25 bp):
AGGGAGCCTACACTGCTGCCCTCAA
Found at i:34366897 original size:65 final size:66
Alignment explanation
Indices: 34366787--34367063 Score: 331
Period size: 68 Copynumber: 4.1 Consensus size: 66
34366777 ACACCTCAAT
* * * * *
34366787 AGGGTTATAAGGTGTAAAACAATAGCTCGACTATGACAACTAATAGAGTCCTCTAGGACATTAAA
1 AGGGTTATAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTAAA
34366852 C
66 C
34366853 A-GGTTATAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTAAA
1 AGGGTTATAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTAAA
*
34366917 G
66 C
* * * *
34366918 ATGGGGTTATAAGGTGAAAGATCATACCTCGAATATGACAACCAATAGAGTCCACCAGGACATTA
1 A--GGGTTATAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTA
34366983 AAC
64 AAC
* * * * * ** *
34366986 ATGGATTTATAAGGTGTAAGACCATAACTCAACTATGCCAACTAATAGAGTCTTCCAAGACATTA
1 A-GG-GTTATAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTA
34367051 AAC
64 AAC
34367054 ATGGGGTTAT
1 A--GGGTTAT
34367064 TAATTTGTCA
Statistics
Matches: 181, Mismatches: 25, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
65 59 0.33
66 1 0.01
67 2 0.01
68 117 0.65
69 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (66 bp):
AGGGTTATAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTAAA
C
Found at i:34367059 original size:136 final size:133
Alignment explanation
Indices: 34366788--34367063 Score: 376
Period size: 136 Copynumber: 2.1 Consensus size: 133
34366778 CACCTCAATA
* * * * *
34366788 GGGTTATAAGGTGTAAAACAATAGCTCGACTATGACAACTAATAGAGTCCTCTAGGACATTAAAC
1 GGGTTATAAGGTGTAAAACAATACCTCGAATATGACAACCAATAGAGTCCACCAGGACATTAAAC
* * * *
34366853 AGGTTATAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTAAAG
66 AGGTTATAAGGTGTAAGACCATAACTCAACTATGACAACCAATAGAGTCCACCAAGACATTAAAC
34366918 ATG
131 ATG
34366921 GGGTTATAAGGTG-AAAGATC-ATACCTCGAATATGACAACCAATAGAGTCCACCAGGACATTAA
1 GGGTTATAAGGTGTAAA-A-CAATACCTCGAATATGACAACCAATAGAGTCCACCAGGACATTAA
* * **
34366984 ACATGGATTTATAAGGTGTAAGACCATAACTCAACTATGCCAACTAATAGAGTCTTCCAAGACAT
64 ACA-GG--TTATAAGGTGTAAGACCATAACTCAACTATGACAACCAATAGAGTCCACCAAGACAT
34367049 TAAACATG
126 TAAACATG
34367057 GGGTTAT
1 GGGTTAT
34367064 TAATTTGTCA
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
132 3 0.02
133 55 0.44
134 3 0.02
136 64 0.51
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (133 bp):
GGGTTATAAGGTGTAAAACAATACCTCGAATATGACAACCAATAGAGTCCACCAGGACATTAAAC
AGGTTATAAGGTGTAAGACCATAACTCAACTATGACAACCAATAGAGTCCACCAAGACATTAAAC
ATG
Found at i:34367153 original size:11 final size:11
Alignment explanation
Indices: 34367129--34367161 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
34367119 TATTTTCTAG
*
34367129 TGTTTTTA-TA
1 TGTTTTTATTT
34367139 TGTTTTTATTT
1 TGTTTTTATTT
34367150 TGTTTTTATTT
1 TGTTTTTATTT
34367161 T
1 T
34367162 TTTAGTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (11 bp):
TGTTTTTATTT
Found at i:34367171 original size:21 final size:21
Alignment explanation
Indices: 34367129--34367170 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
34367119 TATTTTCTAG
34367129 TGTTTTTATATGTTTTTATTT
1 TGTTTTTATATGTTTTTATTT
34367150 TGTTTTTAT-T-TTTTTAGTTT
1 TGTTTTTATATGTTTTTA-TTT
34367170 T
1 T
34367171 TATTTACTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 5 0.25
21 9 0.45
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.79
Consensus pattern (21 bp):
TGTTTTTATATGTTTTTATTT
Found at i:34372798 original size:28 final size:27
Alignment explanation
Indices: 34372750--34372831 Score: 64
Period size: 25 Copynumber: 3.1 Consensus size: 27
34372740 CAAAATAATT
*
34372750 TTCAAAATTTTGAAAATAATTTTTAAAA
1 TTCAAAATTTTGAAAATAA-TTATAAAA
34372778 TTCAAAATATTT-ATAAA-AATTATAAAA
1 TTCAAAAT-TTTGA-AAATAATTATAAAA
*** *
34372805 TT-TTTATTTTTAAAA-AATTATAAAA
1 TTCAAAATTTTGAAAATAATTATAAAA
34372830 TT
1 TT
34372832 TTTTAAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
25 18 0.38
26 3 0.06
27 9 0.19
28 11 0.23
29 6 0.13
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (27 bp):
TTCAAAATTTTGAAAATAATTATAAAA
Found at i:34372810 original size:20 final size:20
Alignment explanation
Indices: 34372781--34372848 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 20
34372771 TTTAAAATTC
*
34372781 AAAATATTTATAAAAATTAT
1 AAAATTTTTATAAAAATTAT
34372801 AAAATTTTTATTTTTAAAAAATTAT
1 AAAATTTTTA----T-AAAAATTAT
*
34372826 AAAATTTTT-TAAAAAATAT
1 AAAATTTTTATAAAAATTAT
34372845 AAAA
1 AAAA
34372849 ATATATAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
19 12 0.29
20 10 0.24
24 1 0.02
25 18 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATTTTTATAAAAATTAT
Found at i:34372818 original size:24 final size:25
Alignment explanation
Indices: 34372785--34372834 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
34372775 AAATTCAAAA
34372785 TATTTAT-AAAAATTATAAAATTTT
1 TATTTATAAAAAATTATAAAATTTT
*
34372809 TATTTTTAAAAAATTATAAAATTTT
1 TATTTATAAAAAATTATAAAATTTT
34372834 T
1 T
34372835 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTTATAAAAAATTATAAAATTTT
Found at i:34372834 original size:19 final size:19
Alignment explanation
Indices: 34372810--34372886 Score: 63
Period size: 19 Copynumber: 4.1 Consensus size: 19
34372800 TAAAATTTTT
34372810 ATTTTTAAAAAATTATAAA
1 ATTTTTAAAAAATTATAAA
34372829 ATTTTTTAAAAAA-TATAAAA
1 A-TTTTTAAAAAATTAT-AAA
* * *
34372849 ATATATAAAAAAGTT-GAAA
1 ATTTTTAAAAAA-TTATAAA
*
34372868 A--TTTAAAAAATTTTAAA
1 ATTTTTAAAAAATTATAAA
34372885 AT
1 AT
34372887 AATAATTTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
16 2 0.04
17 12 0.26
19 17 0.36
20 15 0.32
21 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
ATTTTTAAAAAATTATAAA
Found at i:34372850 original size:20 final size:20
Alignment explanation
Indices: 34372811--34372848 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34372801 AAAATTTTTA
34372811 TTTTTAAAAAATTATAAAAT
1 TTTTTAAAAAATTATAAAAT
34372831 TTTTTAAAAAA-TATAAAA
1 TTTTTAAAAAATTATAAAA
34372849 ATATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTTTAAAAAATTATAAAAT
Found at i:34373200 original size:21 final size:21
Alignment explanation
Indices: 34373174--34373213 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
34373164 TTGACTTCTA
34373174 AAGTTAAAA-GTCAAAACTATC
1 AAGTTAAAATG-CAAAACTATC
34373195 AAGTTAAAATGCAAAACTA
1 AAGTTAAAATGCAAAACTA
34373214 CGTCGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.23
Consensus pattern (21 bp):
AAGTTAAAATGCAAAACTATC
Found at i:34373399 original size:26 final size:26
Alignment explanation
Indices: 34373369--34373420 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
34373359 GAAATATTAA
34373369 GATTCGTTAATTCGACTTGAAATTTT
1 GATTCGTTAATTCGACTTGAAATTTT
34373395 GATTCGTTAATTCGACTTGAAATTTT
1 GATTCGTTAATTCGACTTGAAATTTT
34373421 TTTACTCAAA
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:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (26 bp):
GATTCGTTAATTCGACTTGAAATTTT
Found at i:34375837 original size:28 final size:28
Alignment explanation
Indices: 34375797--34375856 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
34375787 TGGAAATTCC
*
34375797 ATTAAGTTATTTTA-GACTAATTCATTTA
1 ATTAAGTTATTTTAGGA-TAATTAATTTA
34375825 ATTAAGTTATTTTAGGATAATTAATTTA
1 ATTAAGTTATTTTAGGATAATTAATTTA
34375853 ATTA
1 ATTA
34375857 GTTTAATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.50
Consensus pattern (28 bp):
ATTAAGTTATTTTAGGATAATTAATTTA
Found at i:34376112 original size:24 final size:27
Alignment explanation
Indices: 34376074--34376128 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 27
34376064 AATTTTTGCG
34376074 TTTAATATGATAGATAGGATTT-T-TT
1 TTTAATATGATAGATAGGATTTGTATT
* *
34376099 TTTAA-ATTATAGATATGATTTGTATT
1 TTTAATATGATAGATAGGATTTGTATT
34376125 TTTA
1 TTTA
34376129 CTTTTATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 14 0.54
25 6 0.23
26 6 0.23
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.55
Consensus pattern (27 bp):
TTTAATATGATAGATAGGATTTGTATT
Found at i:34405854 original size:28 final size:28
Alignment explanation
Indices: 34405801--34405854 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
34405791 ATATAGTTTT
* *
34405801 TATATTATTTATAAAGGTTATAATAATA
1 TATAGTATTTATAAAGCTTATAATAATA
*
34405829 TATAGTATATTATAAA-CTTATTATAA
1 TATAGTAT-TTATAAAGCTTATAATAA
34405855 AAAAAGACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 15 0.68
29 7 0.32
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (28 bp):
TATAGTATTTATAAAGCTTATAATAATA
Found at i:34406795 original size:41 final size:43
Alignment explanation
Indices: 34406744--34406860 Score: 139
Period size: 41 Copynumber: 2.8 Consensus size: 43
34406734 CGATTTGTGT
* *
34406744 TTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATTTAA
1 TTACAGGTAAGACCATGTCTGGGACATTGGCATCGATATGTAA
* * * *
34406786 TT-CAGGTAAGACCCTGTCTGGGACAGTGGCAACGATATGTGA
1 TTACAGGTAAGACCATGTCTGGGACATTGGCATCGATATGTAA
* * *
34406828 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTACAGGTAAGACCATGTCTGGGACATTGGCAT
34406861 TGTACGAGCC
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 28 0.46
42 9 0.15
43 24 0.39
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TTACAGGTAAGACCATGTCTGGGACATTGGCATCGATATGTAA
Found at i:34407133 original size:43 final size:42
Alignment explanation
Indices: 34407081--34407304 Score: 297
Period size: 43 Copynumber: 5.2 Consensus size: 42
34407071 TTATTTCTAT
* * *
34407081 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTTATCCAC
1 AAACGCCGCTAAAGGTAATGTTCTTTAGCGGCGCTTT-TTCAC
* *
34407124 AAACGCCGCTAAAGGTAATGTTCTTTAGCGGTGCTTTATTCAT
1 AAACGCCGCTAAAGGTAATGTTCTTTAGCGGCGCTTT-TTCAC
*
34407167 AAACGCCG-TAAAAGGTAATGTTCTTTAGCGGCGTTTTTTTCAC
1 AAACGCCGCT-AAAGGTAATGTTCTTTAGCGGCG-CTTTTTCAC
* *
34407210 AAACGCCGCTTAAGGTAATGTTCTTTAGCAGCGCATTTTTCAC
1 AAACGCCGCTAAAGGTAATGTTCTTTAGCGGCGC-TTTTTCAC
* *
34407253 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCCCTTTTCTCAC
1 AAACGCCGCTAAAGGTAATGTTCTTTAGCGGCGCTTTT-TCAC
34407296 AAACGCCGC
1 AAACGCCGC
34407305 AATTGTTTTG
Statistics
Matches: 163, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
42 5 0.03
43 154 0.94
44 4 0.02
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (42 bp):
AAACGCCGCTAAAGGTAATGTTCTTTAGCGGCGCTTTTTCAC
Found at i:34407685 original size:21 final size:21
Alignment explanation
Indices: 34407647--34407716 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
34407637 TTTTGCTCTG
*
34407647 CTCTGCTT-CCTCGCTGCAAC
1 CTCTGCTTCCCTCGCTGCAGC
*
34407667 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
34407688 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
34407709 CTCTGCTT
1 CTCTGCTT
34407717 TAAGTTGTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 8 0.18
21 37 0.82
ACGTcount: A:0.04, C:0.46, G:0.17, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:34409505 original size:25 final size:26
Alignment explanation
Indices: 34409454--34409515 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
34409444 TTTTACAATG
* *
34409454 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
34409480 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
34409505 ATTAAGTTATG
1 ATTAAGTTATG
34409516 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:34409519 original size:17 final size:17
Alignment explanation
Indices: 34409454--34409525 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
34409444 TTTTACAATG
* *
34409454 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
34409471 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
34409488 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
34409505 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
34409522 ATTA
1 ATTA
34409526 TGTGAGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.70
18 8 0.19
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:34409718 original size:9 final size:9
Alignment explanation
Indices: 34409621--34409720 Score: 66
Period size: 9 Copynumber: 11.4 Consensus size: 9
34409611 TATTTTAAAA
34409621 TTAT-TAAG
1 TTATGTAAG
*
34409629 TTATGTAAA
1 TTATGTAAG
*
34409638 TTATGTGAG
1 TTATGTAAG
*
34409647 TTGT-TAAG
1 TTATGTAAG
*
34409655 TTAT-TATG
1 TTATGTAAG
*
34409663 TATTATGTAAA
1 --TTATGTAAG
*
34409674 TTATGTAAA
1 TTATGTAAG
*
34409683 TTATGTGAG
1 TTATGTAAG
*
34409692 TTGT-TAAG
1 TTATGTAAG
*
34409700 TTGT-TAAG
1 TTATGTAAG
34409708 TTATGTAAG
1 TTATGTAAG
34409717 TTAT
1 TTAT
34409721 TATGTGAATT
Statistics
Matches: 73, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
8 27 0.37
9 40 0.55
10 4 0.05
11 2 0.03
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:34413323 original size:21 final size:20
Alignment explanation
Indices: 34413299--34413346 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
34413289 TAACCATTGA
* *
34413299 AACCCTAAACCCTAAATCCTT
1 AACCCTAAACCAT-AATCCAT
*
34413320 AACCCCTAAAGCATAATCCAT
1 AA-CCCTAAACCATAATCCAT
34413341 AACCCT
1 AACCCT
34413347 TAAATCCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 10 0.43
22 9 0.39
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.21
Consensus pattern (20 bp):
AACCCTAAACCATAATCCAT
Found at i:34413350 original size:21 final size:21
Alignment explanation
Indices: 34413319--34413426 Score: 72
Period size: 21 Copynumber: 5.5 Consensus size: 21
34413309 CCTAAATCCT
*
34413319 TAACCCCTAAAGCATAATCCA
1 TAACCCCTAAAGCATAACCCA
* * *
34413340 TAA-CCCTTAA--AT-CCCCT
1 TAACCCCTAAAGCATAACCCA
34413357 TAACCCCTAAAGCATAACCCA
1 TAACCCCTAAAGCATAACCCA
* * *
34413378 TAA-CCCTTAA--AT-CCCCT
1 TAACCCCTAAAGCATAACCCA
*
34413395 TAACCCATAAAGCATAACACC-
1 TAACCCCTAAAGCATAAC-CCA
34413416 TAACCCCTAAA
1 TAACCCCTAAA
34413427 CCTTAAATCC
Statistics
Matches: 64, Mismatches: 14, Indels: 18
0.67 0.15 0.19
Matches are distributed among these distances:
17 11 0.17
18 15 0.23
20 16 0.25
21 20 0.31
22 2 0.03
ACGTcount: A:0.40, C:0.37, G:0.03, T:0.20
Consensus pattern (21 bp):
TAACCCCTAAAGCATAACCCA
Found at i:34413362 original size:17 final size:17
Alignment explanation
Indices: 34413340--34413405 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
34413330 GCATAATCCA
34413340 TAACCCTTAAATCCCCT
1 TAACCCTTAAATCCCCT
* * *
34413357 TAACCCCTAAAGCATAACCCA
1 TAA-CCCTTAA--AT-CCCCT
34413378 TAACCCTTAAATCCCCT
1 TAACCCTTAAATCCCCT
*
34413395 TAACCCATAAA
1 TAACCCTTAAA
34413406 GCATAACACC
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
17 16 0.42
18 8 0.21
20 8 0.21
21 6 0.16
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.23
Consensus pattern (17 bp):
TAACCCTTAAATCCCCT
Found at i:34413363 original size:38 final size:38
Alignment explanation
Indices: 34413316--34413426 Score: 179
Period size: 38 Copynumber: 2.9 Consensus size: 38
34413306 AACCCTAAAT
*
34413316 CCTTAACCCCTAAAGCATAATCCATAACCCTTAAATCC
1 CCTTAACCCCTAAAGCATAACCCATAACCCTTAAATCC
34413354 CCTTAACCCCTAAAGCATAACCCATAACCCTTAAATCC
1 CCTTAACCCCTAAAGCATAACCCATAACCCTTAAATCC
* *
34413392 CCTTAACCCATAAAGCATAACACC-TAACCCCTAAA
1 CCTTAACCCCTAAAGCATAAC-CCATAACCCTTAAA
34413427 CCTTAAATCC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 67 0.97
39 2 0.03
ACGTcount: A:0.39, C:0.38, G:0.03, T:0.21
Consensus pattern (38 bp):
CCTTAACCCCTAAAGCATAACCCATAACCCTTAAATCC
Found at i:34414176 original size:114 final size:114
Alignment explanation
Indices: 34413662--34414336 Score: 818
Period size: 115 Copynumber: 5.9 Consensus size: 114
34413652 TAAATTATTT
* * * * *
34413662 TAAATCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCACAGTAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGTAAAC
** * * * *
34413727 GGCACCGTTGAGCTTA-GTTTTTCTTCCGGGGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTTTTT-TTGCGGCGCTTTCTCAAAAACGCCGC
* * *
34413776 TAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAATAG-CGCTAAATCCCCGAAAACTCAGGAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAT-GCCGCTAAATCCCCGAAAGCTCAGTAAA
* * * * *
34413840 CGGCATTGTTGGGCTTAGGTTTTTTTTGTGGCGCTTTATCAAAAACACCGC
65 CGGCGTCGTTGGGCTTAGG-TTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
* * * *
34413891 TAAAGCCATGAGCATTAGCGGTGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAAGCTCAGAAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCG-AAAGCTCAGTAAA
* **
34413956 TGGCGTCGTTGGGCTTAGGTTTTTTTATGGCGCTTTCTCAAAAACGCCGC
65 CGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
* * * * * *
34414006 TAAAAGCCCTGAGCATTAGCTGCGCTTTATTAAAAAAGTCACTAAATCCCGGAAAGCTCAG-AAA
1 T-AAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGTAAA
*
34414070 TCGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTTTCAAAAACGCCGC
65 -CGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
** * * * ** *
34414121 TTTATCCCTGAGCATTAGCGGCGCTTTATTAAAAATGCCGCTAAATCCCAGAAAGCTCAAAAAAT
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGTAAAC
* * * *
34414186 GGCGTCGTTGGGCTTCGGTTTTTTTTGTGGCTCTTTCTCAAAAACGTCGC
66 GGCGTCGTTGGGCTTAGG-TTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
* * *
34414236 TAAAGCCCTGAGCATTAGCGACGCTTTCTTGAAAATGCCGCTAAATCCCCGAAAGCTCGGTAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGTAAAC
*
34414301 GACGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCT
66 GGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCT
34414337 GGAAATCACC
Statistics
Matches: 481, Mismatches: 71, Indels: 19
0.84 0.12 0.03
Matches are distributed among these distances:
113 16 0.03
114 139 0.29
115 252 0.52
116 74 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (114 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGTAAAC
GGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
Found at i:34431057 original size:22 final size:23
Alignment explanation
Indices: 34431032--34431091 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
34431022 TGGACTGAAT
34431032 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
34431054 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
34431076 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
34431092 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:34431059 original size:4 final size:4
Alignment explanation
Indices: 34431041--34431074 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
34431031 TATAAAAATT
34431041 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
34431075 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:34436471 original size:16 final size:16
Alignment explanation
Indices: 34436450--34436490 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
34436440 CTAAAAGATT
34436450 GTTAAAACTACTTCTA
1 GTTAAAACTACTTCTA
34436466 GTTAAAACTACTTCTA
1 GTTAAAACTACTTCTA
*
34436482 ATTAAAACT
1 GTTAAAACT
34436491 CAAGAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (16 bp):
GTTAAAACTACTTCTA
Found at i:34437607 original size:14 final size:14
Alignment explanation
Indices: 34437590--34437620 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
34437580 TTCTTGTCAT
34437590 TCTTTTTATTTTGC
1 TCTTTTTATTTTGC
*
34437604 TCTTTTTATTTTTC
1 TCTTTTTATTTTGC
34437618 TCT
1 TCT
34437621 CTCAATGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.16, G:0.03, T:0.74
Consensus pattern (14 bp):
TCTTTTTATTTTGC
Found at i:34443753 original size:24 final size:22
Alignment explanation
Indices: 34443725--34443813 Score: 78
Period size: 24 Copynumber: 4.0 Consensus size: 22
34443715 AAAGTTGAGA
34443725 GAAAATGAATAAGAGAAAAATAAT
1 GAAAATGAA-AAGAGAAAAA-AAT
*
34443749 GAAAATGAATAAGA-AAAGGAAATT
1 GAAAATGAA-AAGAGAAA--AAAAT
*
34443773 GAAAATGAAAA-TGAAAAAAAT
1 GAAAATGAAAAGAGAAAAAAAT
34443794 G-AAA-GAAAAGAGAAAGAAAA
1 GAAAATGAAAAGAGAAA-AAAA
34443814 AGAGTGCGAG
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
19 5 0.09
20 7 0.12
21 9 0.16
23 8 0.14
24 25 0.45
25 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (22 bp):
GAAAATGAAAAGAGAAAAAAAT
Found at i:34443790 original size:7 final size:6
Alignment explanation
Indices: 34443746--34443789 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
34443736 AGAGAAAAAT
* *
34443746 AATGAA AATGAA TAA-GAA AAGGAA ATTGAA AATGAA AATGAA AA
1 AATGAA AATGAA -AATGAA AATGAA AATGAA AATGAA AATGAA AA
34443790 AAATGAAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 2 0.06
6 29 0.88
7 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (6 bp):
AATGAA
Found at i:34443960 original size:18 final size:19
Alignment explanation
Indices: 34443926--34443965 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
34443916 TTCAAAAACA
34443926 AAAGAGAGTGTGAAAAAAG
1 AAAGAGAGTGTGAAAAAAG
34443945 AAAGAGAGCT-TG-AAAAAG
1 AAAGAGAG-TGTGAAAAAAG
34443963 AAA
1 AAA
34443966 CGAGTGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 10 0.50
20 1 0.05
ACGTcount: A:0.60, C:0.03, G:0.28, T:0.10
Consensus pattern (19 bp):
AAAGAGAGTGTGAAAAAAG
Found at i:34446872 original size:22 final size:21
Alignment explanation
Indices: 34446833--34446875 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
34446823 GCTGCTTAAA
* *
34446833 TAAATTTTAGTTAGTTTAGTT
1 TAAATTTTAATTAATTTAGTT
34446854 TAAATATTTAATTAATTTAGTT
1 TAAAT-TTTAATTAATTTAGTT
34446876 AAGTGTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TAAATTTTAATTAATTTAGTT
Found at i:34448197 original size:11 final size:11
Alignment explanation
Indices: 34448176--34448209 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
34448166 GTATTACGAG
34448176 ATTGTAAAAAAA
1 ATTG-AAAAAAA
34448188 ATTGAAAAAAA
1 ATTGAAAAAAA
*
34448199 ATCGAAAAAAA
1 ATTGAAAAAAA
34448210 GAAATTCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.18
Consensus pattern (11 bp):
ATTGAAAAAAA
Found at i:34448227 original size:16 final size:14
Alignment explanation
Indices: 34448192--34448224 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
34448182 AAAAAAATTG
34448192 AAAAA-AAATCGAA
1 AAAAAGAAATCGAA
34448205 AAAAAGAAATTCGAA
1 AAAAAGAAA-TCGAA
34448220 AAAAA
1 AAAAA
34448225 AGAGTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 3 0.17
15 10 0.56
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (14 bp):
AAAAAGAAATCGAA
Found at i:34449294 original size:12 final size:12
Alignment explanation
Indices: 34449271--34449343 Score: 50
Period size: 12 Copynumber: 6.5 Consensus size: 12
34449261 TGTGAGCGAG
34449271 AAAAGAACATTGA
1 AAAAGAA-ATTGA
34449284 AAAAGAAATTG-
1 AAAAGAAATTGA
*
34449295 -AAAGAAA-TGG
1 AAAAGAAATTGA
34449305 AAAAGAAA---A
1 AAAAGAAATTGA
* **
34449314 AGAAGAAAAAGA
1 AAAAGAAATTGA
*
34449326 GAAAGAAATTGA
1 AAAAGAAATTGA
34449338 AAAAGA
1 AAAAGA
34449344 GAGTGAGACT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
9 9 0.19
10 7 0.15
11 7 0.15
12 18 0.38
13 7 0.15
ACGTcount: A:0.68, C:0.01, G:0.21, T:0.10
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:34449310 original size:21 final size:21
Alignment explanation
Indices: 34449284--34449339 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
34449274 AGAACATTGA
**
34449284 AAAAGAAATTGAAAGAAATGG
1 AAAAGAAATTGAAAGAAAAAG
**
34449305 AAAAGAAAAAG-AAGAAAAAG
1 AAAAGAAATTGAAAGAAAAAG
34449325 AGAAAGAAATTGAAA
1 A-AAAGAAATTGAAA
34449340 AAGAGAGTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 8 0.30
21 17 0.63
22 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (21 bp):
AAAAGAAATTGAAAGAAAAAG
Found at i:34455409 original size:13 final size:13
Alignment explanation
Indices: 34455365--34455408 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
34455355 ATATTAGCTG
* *
34455365 AAAAAAACTTCAT
1 AAAAAAATTTCGT
34455378 -AAAAAATTTCGT
1 AAAAAAATTTCGT
34455390 AAAAAAATTT-GT
1 AAAAAAATTTCGT
34455402 AAAAAAA
1 AAAAAAA
34455409 AAGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (13 bp):
AAAAAAATTTCGT
Found at i:34457087 original size:30 final size:29
Alignment explanation
Indices: 34457031--34457087 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
34457021 TTGAACGTTG
**
34457031 AATTAGCTCGATTCCAGCTCGTTGAGCTA
1 AATTAGCTCGATTCCAGCTCAATGAGCTA
* *
34457060 AATTCAGCTCGTTTCCAGCTTAATGAGC
1 AATT-AGCTCGATTCCAGCTCAATGAGC
34457088 CCACTTGCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 4 0.17
30 19 0.83
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (29 bp):
AATTAGCTCGATTCCAGCTCAATGAGCTA
Found at i:34463869 original size:12 final size:12
Alignment explanation
Indices: 34463855--34463937 Score: 55
Period size: 12 Copynumber: 6.9 Consensus size: 12
34463845 TACAATGTCT
34463855 TTTTCTTTTTC-
1 TTTTCTTTTTCA
34463866 TTTTC--TTTCA
1 TTTTCTTTTTCA
* *
34463876 ATTTATTTTTCA
1 TTTTCTTTTTCA
* * *
34463888 ATCTCTTTTTCT
1 TTTTCTTTTTCA
34463900 TTTTCTTTTAATTCA
1 TTTTC-TTT--TTCA
*
34463915 ATTTCTTTTTCA
1 TTTTCTTTTTCA
*
34463927 TTTTCATTTTC
1 TTTTCTTTTTC
34463938 TCGCTCGCAC
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
9 4 0.07
10 3 0.05
11 5 0.09
12 30 0.55
13 3 0.05
14 3 0.05
15 7 0.13
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:34463914 original size:27 final size:28
Alignment explanation
Indices: 34463884--34463936 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
34463874 CAATTTATTT
*
34463884 TTCAATCTCTTTTTCTTTTTC-TTTTAA
1 TTCAATCTCTTTTTCATTTTCATTTTAA
*
34463911 TTCAATTTCTTTTTCATTTTCATTTT
1 TTCAATCTCTTTTTCATTTTCATTTT
34463937 CTCGCTCGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (28 bp):
TTCAATCTCTTTTTCATTTTCATTTTAA
Found at i:34463924 original size:39 final size:39
Alignment explanation
Indices: 34463819--34463926 Score: 137
Period size: 39 Copynumber: 2.8 Consensus size: 39
34463809 ATGTTCAAGC
* * * *
34463819 TCTTTTTCCTTTTCACTCATTTTC-TTTACAATGTCTTTT
1 TCTTTTT-CTTTTCATTCAATTTCTTTTTCAATCTCTTTT
* *
34463858 TCTTTTTCTTTTCTTTCAATTTATTTTTCAATCTCTTTT
1 TCTTTTTCTTTTCATTCAATTTCTTTTTCAATCTCTTTT
*
34463897 TCTTTTTCTTTTAATTCAATTTCTTTTTCA
1 TCTTTTTCTTTTCATTCAATTTCTTTTTCA
34463927 TTTTCATTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 12 0.20
39 47 0.80
ACGTcount: A:0.14, C:0.19, G:0.01, T:0.66
Consensus pattern (39 bp):
TCTTTTTCTTTTCATTCAATTTCTTTTTCAATCTCTTTT
Found at i:34463937 original size:39 final size:39
Alignment explanation
Indices: 34463855--34463938 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 39
34463845 TACAATGTCT
** *
34463855 TTTTCTTTTTCTTTTCTTTCAATTTATTTTTCAATCTCT
1 TTTTCTTTTTCTTTTAATTCAATTTATTTTTCAATCTCA
* * *
34463894 TTTTCTTTTTCTTTTAATTCAATTTCTTTTTCATTTTCA
1 TTTTCTTTTTCTTTTAATTCAATTTATTTTTCAATCTCA
34463933 TTTTCT
1 TTTTCT
34463939 CGCTCGCACT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (39 bp):
TTTTCTTTTTCTTTTAATTCAATTTATTTTTCAATCTCA
Found at i:34471869 original size:13 final size:12
Alignment explanation
Indices: 34471838--34471866 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34471828 TTTTTTTAGA
34471838 TTTGAA-TTTTT
1 TTTGAACTTTTT
34471849 TTTGAACTTTTT
1 TTTGAACTTTTT
34471861 TTTGAA
1 TTTGAA
34471867 ACTACGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.66
Consensus pattern (12 bp):
TTTGAACTTTTT
Found at i:34473149 original size:24 final size:25
Alignment explanation
Indices: 34473115--34473189 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 25
34473105 TAAATCAGGA
34473115 CATATTTAATTCAGCAAAGACAAAG
1 CATATTTAATTCAGCAAAGACAAAG
** **
34473140 CATA-TTAATT----AAATCCGGA-
1 CATATTTAATTCAGCAAAGACAAAG
34473159 CATATTTAATTCAGCAAAGACAAAG
1 CATATTTAATTCAGCAAAGACAAAG
34473184 CATATT
1 CATATT
34473190 AAAGATTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
19 4 0.11
20 11 0.31
24 11 0.31
25 10 0.28
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (25 bp):
CATATTTAATTCAGCAAAGACAAAG
Found at i:34473160 original size:44 final size:44
Alignment explanation
Indices: 34473100--34473191 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
34473090 TAAGACAAAC
34473100 TTAATTAAATCAGGACATATTTAATTCAGCAAAGACAAAGCATA
1 TTAATTAAATCAGGACATATTTAATTCAGCAAAGACAAAGCATA
*
34473144 TTAATTAAATCCGGACATATTTAATTCAGCAAAGACAAAGCATA
1 TTAATTAAATCAGGACATATTTAATTCAGCAAAGACAAAGCATA
34473188 TTAA
1 TTAA
34473192 AGATTTATAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (44 bp):
TTAATTAAATCAGGACATATTTAATTCAGCAAAGACAAAGCATA
Found at i:34474762 original size:16 final size:16
Alignment explanation
Indices: 34474723--34474764 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
34474713 GTATGGGAGC
*
34474723 ATACATGAATGGCTGG
1 ATACATGGATGGCTGG
34474739 ATACATGGATGGCTGG
1 ATACATGGATGGCTGG
*
34474755 ATTCATGGAT
1 ATACATGGAT
34474765 ATGGCTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (16 bp):
ATACATGGATGGCTGG
Found at i:34476396 original size:92 final size:92
Alignment explanation
Indices: 34476250--34476453 Score: 259
Period size: 92 Copynumber: 2.2 Consensus size: 92
34476240 TTTCAAAATA
* * * *
34476250 CATGCACAATCGGGTGCATGTTCTTCTTTAAAGTAGCTTCGTTGAATCTAGAAGATACATGTATA
1 CATGCACAATCAGGTGCATGTTCTTCATTAAAGTAGCTTCATTGAATCTAGAAGATACATGAATA
*
34476315 TTCAGCTAAAAAATAGCTTCGAACTTT
66 TCCAGCTAAAAAATAGCTTCGAACTTT
* * * *
34476342 CATGCACAATCAGGTGCTTGTTCTTCATTAAAGTAGCTTCATTGAATTTGGAAGATACATGAATG
1 CATGCACAATCAGGTGCATGTTCTTCATTAAAGTAGCTTCATTGAATCTAGAAGATACATGAATA
* * *
34476407 TCCAGCTAAAAAACAACTCCCG-A-TATT
66 TCCAGCTAAAAAATAGCT-TCGAACT-TT
*
34476434 CATGCATAATCAGGTGCATG
1 CATGCACAATCAGGTGCATG
34476454 CTCCATATTA
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
91 1 0.01
92 93 0.97
93 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (92 bp):
CATGCACAATCAGGTGCATGTTCTTCATTAAAGTAGCTTCATTGAATCTAGAAGATACATGAATA
TCCAGCTAAAAAATAGCTTCGAACTTT
Found at i:34476464 original size:92 final size:91
Alignment explanation
Indices: 34476250--34476480 Score: 234
Period size: 92 Copynumber: 2.5 Consensus size: 91
34476240 TTTCAAAATA
* * * * * *
34476250 CATGCACAATCGGGTGCATGTTCTTCTTTAAAGTAGCTTCGTTGAATCTAGAAGATACATGTATA
1 CATGCACAATCAGGTGCATGTCCATCATTAAAGTAGCTTCATTGAATCTAGAAGATACATGAATA
* * * *
34476315 TTCAGCTAAAAAATAGCTTCGAACTTT
66 TCCAGCTAAAAAACAACTCCGAAC-TT
* * * * * *
34476342 CATGCACAATCAGGTGCTTGTTCTTCATTAAAGTAGCTTCATTGAATTTGGAAGATACATGAATG
1 CATGCACAATCAGGTGCATGTCCATCATTAAAGTAGCTTCATTGAATCTAGAAGATACATGAATA
34476407 TCCAGCTAAAAAACAACTCCCGATA-TT
66 TCCAGCTAAAAAACAACT-CCGA-ACTT
* * *
34476434 CATGCATAATCAGGTGCATGCTCCAT-ATTAATG-AGCTTCAATGAATC
1 CATGCACAATCAGGTGCATG-TCCATCATTAAAGTAGCTTCATTGAATC
34476481 AGTATGGAGT
Statistics
Matches: 117, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
91 12 0.10
92 98 0.84
93 6 0.05
94 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (91 bp):
CATGCACAATCAGGTGCATGTCCATCATTAAAGTAGCTTCATTGAATCTAGAAGATACATGAATA
TCCAGCTAAAAAACAACTCCGAACTT
Found at i:34477719 original size:15 final size:15
Alignment explanation
Indices: 34477701--34477730 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34477691 TCTAAAAAAC
34477701 TTGTGAAAAAAAGAA
1 TTGTGAAAAAAAGAA
34477716 TTGTGAAAAAAAGAA
1 TTGTGAAAAAAAGAA
34477731 ATCAGCATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TTGTGAAAAAAAGAA
Found at i:34480622 original size:39 final size:39
Alignment explanation
Indices: 34480567--34480670 Score: 120
Period size: 39 Copynumber: 2.7 Consensus size: 39
34480557 TTTAGTTAAT
* * *
34480567 TTAGTTTGAGTCTTTAATTATGTCATAATTCGAACATCA
1 TTAGTATGAGTTTTTAATTATGTCATAATTCGAACAGCA
* * *
34480606 TTAGTATGAGTTTTTAATTGTGTCATAATTTGAATAGCA
1 TTAGTATGAGTTTTTAATTATGTCATAATTCGAACAGCA
* * *
34480645 TTAATAAG-GGTTTTAATTATGTCATA
1 TTAGTATGAGTTTTTAATTATGTCATA
34480671 GTTTAGGACA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
38 16 0.29
39 39 0.71
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (39 bp):
TTAGTATGAGTTTTTAATTATGTCATAATTCGAACAGCA
Found at i:34480688 original size:39 final size:38
Alignment explanation
Indices: 34480645--34480726 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 38
34480635 TTGAATAGCA
*
34480645 TTAATA-AGGGTTTTAATTATGTCATAGT-TTAGGACATCT
1 TTAATACA-GGTTTTAAGTATGT-ATA-TATTAGGACATCT
* *
34480684 TTAATACATGTTTTAAGTATGTTTATATTAGGACATCT
1 TTAATACAGGTTTTAAGTATGTATATATTAGGACATCT
34480722 TTAAT
1 TTAAT
34480727 GTTTGTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
37 1 0.03
38 18 0.47
39 18 0.47
40 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (38 bp):
TTAATACAGGTTTTAAGTATGTATATATTAGGACATCT
Found at i:34489787 original size:10 final size:10
Alignment explanation
Indices: 34489772--34489800 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
34489762 TAAGTGTTTA
34489772 AAAAAAATTC
1 AAAAAAATTC
34489782 AAAAAAATTC
1 AAAAAAATTC
34489792 AAAAAAATT
1 AAAAAAATT
34489801 GCATCATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:34490882 original size:6 final size:6
Alignment explanation
Indices: 34490871--34490930 Score: 81
Period size: 6 Copynumber: 10.5 Consensus size: 6
34490861 GTGCGAGCGA
* *
34490871 GAAAAT GAAAAT GAAAAA GAAATT G-AAA- GAAAAT -AAAAT GAAAAT
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
34490916 GAAAAT GAAAAT GAA
1 GAAAAT GAAAAT GAA
34490931 GGAGAGTTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
4 1 0.02
5 10 0.21
6 36 0.77
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (6 bp):
GAAAAT
Found at i:34490987 original size:33 final size:34
Alignment explanation
Indices: 34490933--34490996 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
34490923 AAAATGAAGG
*
34490933 AGAGTTTGAAAAGAAATCGAGTG-AGAAAGAGAA
1 AGAGTCTGAAAAGAAATCGAGTGAAGAAAGAGAA
34490966 AGAGTCTGCAAAAGAAA-CGAGTGAAGAAAGA
1 AGAGTCTG-AAAAGAAATCGAGTGAAGAAAGA
34490997 AATCAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.52, C:0.06, G:0.30, T:0.12
Consensus pattern (34 bp):
AGAGTCTGAAAAGAAATCGAGTGAAGAAAGAGAA
Found at i:34497815 original size:30 final size:31
Alignment explanation
Indices: 34497757--34497816 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
34497747 ATCAATAATG
*
34497757 CAAGACATTAATTAAAGATGCATTTAATAAA
1 CAAGACATTAATTAAAGATGCATATAATAAA
34497788 CAAGACA-TAATTAAAGACT-CATATAATAA
1 CAAGACATTAATTAAAGA-TGCATATAATAA
34497817 TAACTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (31 bp):
CAAGACATTAATTAAAGATGCATATAATAAA
Found at i:34502632 original size:16 final size:15
Alignment explanation
Indices: 34502606--34502635 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34502596 TTTTTTCGTG
34502606 AAATTATTTATTTCC
1 AAATTATTTATTTCC
34502621 AAATTGATTTATTTC
1 AAATT-ATTTATTTC
34502636 TAACATTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.53
Consensus pattern (15 bp):
AAATTATTTATTTCC
Found at i:34503688 original size:11 final size:11
Alignment explanation
Indices: 34503672--34503703 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
34503662 ACTTACAATC
34503672 AAACACATTAA
1 AAACACATTAA
34503683 AAACACATT--
1 AAACACATTAA
34503692 AAACACATTAA
1 AAACACATTAA
34503703 A
1 A
34503704 CACATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.47
11 10 0.53
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (11 bp):
AAACACATTAA
Found at i:34503697 original size:9 final size:9
Alignment explanation
Indices: 34503672--34503716 Score: 63
Period size: 9 Copynumber: 4.7 Consensus size: 9
34503662 ACTTACAATC
34503672 AAACACATT
1 AAACACATT
34503681 AAAAACACATT
1 --AAACACATT
34503692 AAACACATT
1 AAACACATT
34503701 AAACACATTT
1 AAACACA-TT
34503711 AAACAC
1 AAACAC
34503717 TTATTAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
9 16 0.48
10 8 0.24
11 9 0.27
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.20
Consensus pattern (9 bp):
AAACACATT
Found at i:34503697 original size:20 final size:19
Alignment explanation
Indices: 34503672--34503716 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
34503662 ACTTACAATC
34503672 AAACACATTAAAAACACA-TT
1 AAACACATT--AAACACATTT
34503692 AAACACATTAAACACATTT
1 AAACACATTAAACACATTT
34503711 AAACAC
1 AAACAC
34503717 TTATTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.29
19 8 0.33
20 9 0.38
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.20
Consensus pattern (19 bp):
AAACACATTAAACACATTT
Found at i:34503851 original size:39 final size:40
Alignment explanation
Indices: 34503799--34503883 Score: 136
Period size: 39 Copynumber: 2.1 Consensus size: 40
34503789 TTTTAATAAA
* *
34503799 AATAAAGTTCAACAACTCAATTATTAACTAAGATG-ATTT
1 AATAAAGTCCAACAACTCAATTATTAAATAAGATGAATTT
*
34503838 AATAAGGTCCAACAACTCAATTATTAAATAAGATGAATTT
1 AATAAAGTCCAACAACTCAATTATTAAATAAGATGAATTT
34503878 AATAAA
1 AATAAA
34503884 ATTAAAGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 32 0.78
40 9 0.22
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (40 bp):
AATAAAGTCCAACAACTCAATTATTAAATAAGATGAATTT
Found at i:34506260 original size:17 final size:17
Alignment explanation
Indices: 34506223--34506264 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
34506213 CTCACTCTCA
34506223 TTTTCTTTTTCGATTTCT
1 TTTTCTTTTTC-ATTTCT
34506241 TTTTCTTTTTC-TTTCAT
1 TTTTCTTTTTCATTTC-T
34506258 TTTTCTT
1 TTTTCTT
34506265 CTCTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.17
17 8 0.35
18 11 0.48
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTTCATTTCT
Found at i:34507973 original size:11 final size:11
Alignment explanation
Indices: 34507957--34507989 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
34507947 ATCTATAATC
34507957 AAACACATTTA
1 AAACACATTTA
34507968 AAACACA-TT-
1 AAACACATTTA
34507977 AAACACATTTA
1 AAACACATTTA
34507988 AA
1 AA
34507990 CACTTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.35
10 4 0.20
11 9 0.45
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (11 bp):
AAACACATTTA
Found at i:34507988 original size:10 final size:10
Alignment explanation
Indices: 34507957--34507992 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
34507947 ATCTATAATC
34507957 AAACACATTT
1 AAACACATTT
34507967 AAAACACA-TT
1 -AAACACATTT
34507977 AAACACATTT
1 AAACACATTT
34507987 AAACAC
1 AAACAC
34507993 TTATTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 7 0.29
10 10 0.42
11 7 0.29
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (10 bp):
AAACACATTT
Found at i:34508132 original size:40 final size:40
Alignment explanation
Indices: 34508082--34508160 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
34508072 GAAAATAGAA
34508082 TCCAACAACTCAATTATTAACTAAGATGAGTTTAATAAAG
1 TCCAACAACTCAATTATTAACTAAGATGAGTTTAATAAAG
*
34508122 TCCAGCAACTCAATTATTAACTAAGATGAGTTTAATAAA
1 TCCAACAACTCAATTATTAACTAAGATGAGTTTAATAAA
34508161 ATTAAAGTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.30
Consensus pattern (40 bp):
TCCAACAACTCAATTATTAACTAAGATGAGTTTAATAAAG
Found at i:34508197 original size:70 final size:70
Alignment explanation
Indices: 34508114--34508254 Score: 237
Period size: 70 Copynumber: 2.0 Consensus size: 70
34508104 AAGATGAGTT
* * *
34508114 TAATAAAGTCCAGCAACTCAATTATTAACTAAGATGAGTTTAATAAAATTAAAGTTCAGCTTGCA
1 TAATAAAGTCCAGCAACTCAATCATTAACTAAGATGAGTTTAATAAAATTAAAGTTAAACTTGCA
34508179 AAAGA
66 AAAGA
* *
34508184 TAATAAAGTCCAGCAACTCAATCATTAACTATGATGAGTTTAATCAAATTAAAGTTAAACTTGCA
1 TAATAAAGTCCAGCAACTCAATCATTAACTAAGATGAGTTTAATAAAATTAAAGTTAAACTTGCA
34508249 AAAGA
66 AAAGA
34508254 T
1 T
34508255 TGCAAATGAC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (70 bp):
TAATAAAGTCCAGCAACTCAATCATTAACTAAGATGAGTTTAATAAAATTAAAGTTAAACTTGCA
AAAGA
Found at i:34522681 original size:22 final size:21
Alignment explanation
Indices: 34522644--34522685 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
34522634 GCTATCAAAG
34522644 CTTTCACACTTGTTGGACCATC
1 CTTTCACACTTGTTGG-CCATC
* *
34522666 CTTTCACATTTTTTGGCCAT
1 CTTTCACACTTGTTGGCCAT
34522686 TTGGTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.17, C:0.29, G:0.12, T:0.43
Consensus pattern (21 bp):
CTTTCACACTTGTTGGCCATC
Found at i:34530793 original size:20 final size:20
Alignment explanation
Indices: 34530768--34530810 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
34530758 AAAAGAAAAG
34530768 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
34530788 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
34530808 AAA
1 AAA
34530811 ACAAGAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:34543421 original size:20 final size:20
Alignment explanation
Indices: 34543375--34543413 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34543365 AGTATGCTTA
34543375 ATTGAGCTCAAATGAGCTGG
1 ATTGAGCTCAAATGAGCTGG
** *
34543395 AAAGAGCTCAAGTGAGCTG
1 ATTGAGCTCAAATGAGCTG
34543414 ATTTGAGCAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (20 bp):
ATTGAGCTCAAATGAGCTGG
Found at i:34543450 original size:30 final size:30
Alignment explanation
Indices: 34543378--34543451 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
34543368 ATGCTTAATT
* * * *
34543378 GAGCTCAAATGAGCTGGAAAGAGCTCAAGT
1 GAGCTGAATTGAGCAGGAAAGAGCTCAAGG
* *
34543408 GAGCTGATTTGAGCAGGAAAGAGCT-GAGG
1 GAGCTGAATTGAGCAGGAAAGAGCTCAAGG
34543437 GAGCTGGAATTGAGC
1 GAGCT-GAATTGAGC
34543452 TAAAATCAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 7 0.19
30 29 0.81
ACGTcount: A:0.32, C:0.14, G:0.36, T:0.18
Consensus pattern (30 bp):
GAGCTGAATTGAGCAGGAAAGAGCTCAAGG
Done.