Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 183 of 343
Found at i:60924824 original size:98 final size:98
Alignment explanation
Indices: 60924699--60924920 Score: 435
Period size: 98 Copynumber: 2.3 Consensus size: 98
60924689 TTCGATCACG
*
60924699 TGTGTAGTACTAAGTGCAGGCTACTAGTGTATTAGATGGCCAGGTCACGTGTGTAGTACTAAGTG
1 TGTGTAGTTCTAAGTGCAGGCTACTAGTGTATTAGATGGCCAGGTCACGTGTGTAGTACTAAGTG
60924764 CAAGCTACTACGTGTATCGGATAATTGGTCGCA
66 CAAGCTACTACGTGTATCGGATAATTGGTCGCA
60924797 TGTGTAGTTCTAAGTGCAGGCTACTAGTGTATTAGATGGCCAGGTCACGTGTGTAGTACTAAGTG
1 TGTGTAGTTCTAAGTGCAGGCTACTAGTGTATTAGATGGCCAGGTCACGTGTGTAGTACTAAGTG
60924862 CAAGCTACTACGTGTATCGGATAATTGGTCGCA
66 CAAGCTACTACGTGTATCGGATAATTGGTCGCA
60924895 TGTGTAGTTCTAAGTGCAGGCTACTA
1 TGTGTAGTTCTAAGTGCAGGCTACTA
60924921 TGCGTACCAG
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 123 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (98 bp):
TGTGTAGTTCTAAGTGCAGGCTACTAGTGTATTAGATGGCCAGGTCACGTGTGTAGTACTAAGTG
CAAGCTACTACGTGTATCGGATAATTGGTCGCA
Found at i:60924977 original size:98 final size:97
Alignment explanation
Indices: 60924699--60924977 Score: 267
Period size: 98 Copynumber: 2.8 Consensus size: 97
60924689 TTCGATCACG
* * ** * * * * *
60924699 TGTGTAGTACTAAGTGCAGGCTACTAGTGTATTAGATGGCCAGGTCACGTGTGTAGTACTAAGTG
1 TGTGTAGTTCTAAGTGCAGGCTACTAGCGTACCAGATAGCCAGCTCAAGTGTGTAGAAATAAGTG
* *
60924764 CAAGCTACTACGTGTATCGGATAATTGGTCGCA
66 CAAGCAACTA-GAGTATCGGATAATTGGTCGCA
* ** * * * * *
60924797 TGTGTAGTTCTAAGTGCAGGCTACTAGTGTATTAGATGGCCAGGTCACGTGTGTAGTACTAAGTG
1 TGTGTAGTTCTAAGTGCAGGCTACTAGCGTACCAGATAGCCAGCTCAAGTGTGTAGAAATAAGTG
* *
60924862 CAAGCTACTACGTGTATCGGATAATTGGTCGCA
66 CAAGCAACTA-GAGTATCGGATAATTGGTCGCA
*
60924895 TGTGTAGTTCTAAGTGCAGGCTACTATGCGTACCAGATAGCTTTAGCTACAAGTGTG-A-AAATA
1 TGTGTAGTTCTAAGTGCAGGCTACTA-GCGTACCAGATAGC--CAGCT-CAAGTGTGTAGAAATA
* *
60924958 TGTGCAGGCAACT-GAGTATC
62 AGTGCAAGCAACTAGAGTATC
60924978 AATTATTATT
Statistics
Matches: 163, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
98 129 0.79
99 10 0.06
100 13 0.08
101 4 0.02
102 7 0.04
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (97 bp):
TGTGTAGTTCTAAGTGCAGGCTACTAGCGTACCAGATAGCCAGCTCAAGTGTGTAGAAATAAGTG
CAAGCAACTAGAGTATCGGATAATTGGTCGCA
Found at i:60929380 original size:57 final size:57
Alignment explanation
Indices: 60929310--60929419 Score: 211
Period size: 57 Copynumber: 1.9 Consensus size: 57
60929300 TTGATATTTA
*
60929310 AATGTCATGTGATGACTTTATTTGTATATGGCCTACTAAGCTTTTAAAGCTTAGTTT
1 AATGTCATCTGATGACTTTATTTGTATATGGCCTACTAAGCTTTTAAAGCTTAGTTT
60929367 AATGTCATCTGATGACTTTATTTGTATATGGCCTACTAAGCTTTTAAAGCTTA
1 AATGTCATCTGATGACTTTATTTGTATATGGCCTACTAAGCTTTTAAAGCTTA
60929420 CTTTGTGTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (57 bp):
AATGTCATCTGATGACTTTATTTGTATATGGCCTACTAAGCTTTTAAAGCTTAGTTT
Found at i:60930437 original size:42 final size:42
Alignment explanation
Indices: 60930371--60930464 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
60930361 GCCCTATTTT
*
60930371 CACACGGCCTATGACACAGACATGTCTGGTGACCGTATGAGG
1 CACACGGCCTATGACACAGACATGTCTGGTGACCGTATGAAG
** * *
60930413 CACACGGCCTATGACATGGGCATGTCTGGTGACCGTGTGAAG
1 CACACGGCCTATGACACAGACATGTCTGGTGACCGTATGAAG
60930455 CACACGGCCT
1 CACACGGCCT
60930465 TTTTACATTG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.19
Consensus pattern (42 bp):
CACACGGCCTATGACACAGACATGTCTGGTGACCGTATGAAG
Found at i:60933542 original size:25 final size:25
Alignment explanation
Indices: 60933514--60933573 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
60933504 TAGCTCAAGA
*
60933514 GAGCTTACTGATATTCAGCTCGCAT
1 GAGCTTACCGATATTCAGCTCGCAT
* *
60933539 GAGCTTACCGATATTTAGCTCGTAT
1 GAGCTTACCGATATTCAGCTCGCAT
60933564 GAGCTTACCG
1 GAGCTTACCG
60933574 TTTACAGCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (25 bp):
GAGCTTACCGATATTCAGCTCGCAT
Found at i:60936494 original size:28 final size:28
Alignment explanation
Indices: 60936457--60936563 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
60936447 GCAATCAAAT
*
60936457 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
60936485 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
60936513 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
60936541 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
60936564 CGAATGATTA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:60942526 original size:79 final size:81
Alignment explanation
Indices: 60942391--60942574 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
60942381 TGAATGATGT
*
60942391 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
60942455 GTGCGACATACTA-ATT
66 GTGCGACATACTATA-A
* * * * **
60942471 CTGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
**
60942533 TGTGCGAGTTACTATAA
65 TGTGCGACATACTATAA
*
60942550 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
60942575 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 31 0.35
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGACATACTATAA
Found at i:60942581 original size:40 final size:40
Alignment explanation
Indices: 60942390--60942574 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
60942380 TTGAATGATG
* * * *
60942390 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* ** *
60942430 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGACATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60942470 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60942509 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60942550 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60942575 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60942596 original size:79 final size:79
Alignment explanation
Indices: 60942443--60942607 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
60942433 GGACTAAGAT
* * **
60942443 CCGAAGGCATTTGTGCGACATACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGACATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
60942508 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
** *
60942522 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGACATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
60942585 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
60942601 CCGAAGG
1 CCGAAGG
60942608 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGACATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:60942631 original size:17 final size:17
Alignment explanation
Indices: 60942609--60942643 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
60942599 TTCCGAAGGT
60942609 ACGTGATTTGGGAATGA
1 ACGTGATTTGGGAATGA
60942626 ACGTGATTTGGGAATGA
1 ACGTGATTTGGGAATGA
60942643 A
1 A
60942644 TGATCTTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (17 bp):
ACGTGATTTGGGAATGA
Found at i:60950425 original size:40 final size:39
Alignment explanation
Indices: 60950335--60950519 Score: 214
Period size: 40 Copynumber: 4.7 Consensus size: 39
60950325 TTGAATGATG
* * *
60950335 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
60950375 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
60950414 TGCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
60950454 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
60950494 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60950520 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 83 0.66
41 8 0.06
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:60950471 original size:79 final size:81
Alignment explanation
Indices: 60950336--60950519 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
60950326 TGAATGATGT
*
60950336 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* *
60950400 GTGCGAGATACTA-ATG
66 GTGCAAGATACTATA-A
* * * **
60950416 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
60950478 TGTGCAAGTTACTATAA
65 TGTGCAAGATACTATAA
*
60950495 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
60950520 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCAAGATACTATAA
Found at i:60950541 original size:79 final size:79
Alignment explanation
Indices: 60950388--60950552 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
60950378 GGACTAAGAT
* * **
60950388 CCGAAGGCATTTGTGCGAGATACTAATGCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
60950453 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
60950467 CCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
60950530 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
60950546 CCGAAGG
1 CCGAAGG
60950553 TACGTGACTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:60951317 original size:63 final size:63
Alignment explanation
Indices: 60951222--60951344 Score: 187
Period size: 63 Copynumber: 2.0 Consensus size: 63
60951212 AAAGGCAGAT
* *
60951222 GTTGACAGCAGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAAG-GGAATTAAATA
1 GTTGACAGCAGCAGTGACGTAGATTTGAAAAATCACTAAAAATAGTAGG-AGCGGAATTAAATA
*
60951285 GTTGGCAGCAGCAGTGACGTGAGA-TTGAAAAATCACTAAAAATAGTAGGAGCGGAATTAA
1 GTTGACAGCAGCAGTGACGT-AGATTTGAAAAATCACTAAAAATAGTAGGAGCGGAATTAA
60951345 TTAATGAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
62 2 0.04
63 50 0.91
64 3 0.05
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.22
Consensus pattern (63 bp):
GTTGACAGCAGCAGTGACGTAGATTTGAAAAATCACTAAAAATAGTAGGAGCGGAATTAAATA
Found at i:60952269 original size:1 final size:1
Alignment explanation
Indices: 60952263--60952454 Score: 60
Period size: 1 Copynumber: 192.0 Consensus size: 1
60952253 AGTTGTTTGA
* * * * * * ** *
60952263 TTTTTTTGTTCTTTTTTTGTTTGTATTTGTTTTTTTTTTTTTTTTTAGTTTTTTATTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
**** * ** * * * * * * ** ***
60952328 AAAGTGTTTTTAGTTTTATTTTTTTTTTTATATTTATTTTATTTTTTGTTTTTTAGTTTTAAGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * ** *
60952393 TTTTTTTATTTGTTTTTTCTTTATTTTGTTTTTTTTTTTTTTTATTTAGTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
60952455 CTTCTTTTGT
Statistics
Matches: 131, Mismatches: 60, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 131 1.00
ACGTcount: A:0.10, C:0.02, G:0.07, T:0.81
Consensus pattern (1 bp):
T
Found at i:60952282 original size:24 final size:22
Alignment explanation
Indices: 60952255--60952327 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 22
60952245 TGTTTAAAAG
60952255 TTGTTTGATTTTTTTGTTCTTTTT
1 TTGTTTGATTTTTTT-TT-TTTTT
60952279 TTGTTTGTATTTGTTTTTTTTTTT
1 TTGTTTG-ATTT-TTTTTTTTTTT
*
60952303 TT-TTTTAGTTTTTTATTTTTTTT
1 TTGTTTGA-TTTTTT-TTTTTTTT
60952326 TT
1 TT
60952328 AAAGTGTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
22 4 0.09
23 16 0.36
24 14 0.32
25 6 0.14
26 4 0.09
ACGTcount: A:0.05, C:0.01, G:0.10, T:0.84
Consensus pattern (22 bp):
TTGTTTGATTTTTTTTTTTTTT
Found at i:60952395 original size:72 final size:69
Alignment explanation
Indices: 60952274--60952439 Score: 178
Period size: 72 Copynumber: 2.3 Consensus size: 69
60952264 TTTTTTGTTC
* * * *
60952274 TTTTTTTGTTTGTATTTGTTTT-TTTTTTTTTTTTTAGTTTTTTATTTTTTTTTTAAAGTGTTTT
1 TTTTTTT-TTTTTATTT-TTTTATTTTTTGTTTTTTAGTTTTTAAGTTTTTTTTT-AAGTGTTTT
60952338 TAGT-TTTA
63 T--TCTTTA
**
60952346 TTTTTTTTTTTATATTTATTTTATTTTTTGTTTTTTAG-TTTTAAGTTTTTTTTTATTTGTTTTT
1 TTTTTTTTTTT-TATTT-TTTTATTTTTTGTTTTTTAGTTTTTAAGTTTTTTTTTAAGTGTTTTT
60952410 TCTTTA
64 TCTTTA
60952416 TTTTGTTTTTTTT-TTTTTTTATTT
1 TTTT-TTTTTTTTATTTTTTTATTT
60952440 AGTTTTTTTC
Statistics
Matches: 83, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
68 8 0.10
69 4 0.05
70 9 0.11
71 18 0.22
72 30 0.36
73 14 0.17
ACGTcount: A:0.11, C:0.01, G:0.07, T:0.81
Consensus pattern (69 bp):
TTTTTTTTTTTTATTTTTTTATTTTTTGTTTTTTAGTTTTTAAGTTTTTTTTTAAGTGTTTTTTC
TTTA
Found at i:60952448 original size:15 final size:14
Alignment explanation
Indices: 60952258--60952429 Score: 88
Period size: 14 Copynumber: 11.9 Consensus size: 14
60952248 TTAAAAGTTG
*
60952258 TTTGATTTTTTTGTTC
1 TTTG-TTTTTTT-TTA
*
60952274 TTT-TTTTGTTTGTA
1 TTTGTTTT-TTTTTA
*
60952288 TTTGTTTTTTTTTT
1 TTTGTTTTTTTTTA
*
60952302 TTTTTTTAGTTTTTTA
1 TTTGTTT--TTTTTTA
*
60952318 -TT-TTTTTTTTAA
1 TTTGTTTTTTTTTA
**
60952330 AGTGTTTTTAGTTTTA
1 TTTGTTTTT--TTTTA
60952346 TTT-TTTTTTTTATA
1 TTTGTTTTTTTT-TA
* *
60952360 TTT-ATTTTATTT-
1 TTTGTTTTTTTTTA
60952372 TTTGTTTTTTAGTTT-
1 TTTGTTTTTT--TTTA
**
60952387 TAAGTTTTTTTTTA
1 TTTGTTTTTTTTTA
60952401 TTTGTTTTTTCTTTA
1 TTTGTTTTTT-TTTA
60952416 TTTTGTTTTTTTTT
1 -TTTGTTTTTTTTT
60952430 TTTTTTATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 31
0.71 0.11 0.18
Matches are distributed among these distances:
12 9 0.07
13 12 0.10
14 45 0.37
15 32 0.26
16 24 0.20
ACGTcount: A:0.10, C:0.01, G:0.08, T:0.80
Consensus pattern (14 bp):
TTTGTTTTTTTTTA
Found at i:60952448 original size:29 final size:28
Alignment explanation
Indices: 60952258--60952454 Score: 103
Period size: 29 Copynumber: 6.6 Consensus size: 28
60952248 TTAAAAGTTG
* *
60952258 TTTGATTTTTTTGTTCTTTTTTTGTTTGTA
1 TTTG-TTTTTTTGTT-TTTTTTTTTTTTTA
*
60952288 TTTGTTTTTTTTTTTTTTTTTAGTTTTTTA
1 TTTGTTTTTTTGTTTTTTTTT--TTTTTTA
*** * **
60952318 TTT-TTTTTTTAAAGTGTTTTTAGTTTTA
1 TTTGTTTTTTT-GTTTTTTTTTTTTTTTA
* * * *
60952346 TTTTTTTTTTTATATTTATTTTATTTTTTG
1 TTTGTTTTTTTGT-TTT-TTTTTTTTTTTA
60952376 TTT-TTTAGTTTTAAGTTTTTTTTTATTTGTTT-
1 TTTGTTT--TTTT--GTTTTTTTTT-TTT-TTTA
*
60952408 TTTCTTTATTTTGTTTTTTTTTTTTTTTA
1 TTTGTTT-TTTTGTTTTTTTTTTTTTTTA
*
60952437 TTTAGTTTTTTTCTTTTT
1 TTT-GTTTTTTTGTTTTT
60952455 CTTCTTTTGT
Statistics
Matches: 131, Mismatches: 21, Indels: 31
0.72 0.11 0.17
Matches are distributed among these distances:
28 19 0.15
29 42 0.32
30 42 0.32
31 8 0.06
32 13 0.10
33 7 0.05
ACGTcount: A:0.10, C:0.02, G:0.08, T:0.81
Consensus pattern (28 bp):
TTTGTTTTTTTGTTTTTTTTTTTTTTTA
Found at i:60952570 original size:15 final size:15
Alignment explanation
Indices: 60952552--60952583 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
60952542 ATTTATGAAG
60952552 TTTTT-ATTTTTTTT
1 TTTTTGATTTTTTTT
60952566 TTTTTGATTTTTTTT
1 TTTTTGATTTTTTTT
60952581 TTT
1 TTT
60952584 ATTTTACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.91
Consensus pattern (15 bp):
TTTTTGATTTTTTTT
Found at i:60952674 original size:11 final size:9
Alignment explanation
Indices: 60952633--60952962 Score: 128
Period size: 8 Copynumber: 34.9 Consensus size: 9
60952623 TTATATTCTA
*
60952633 TTTTTTTCTC
1 TTTTTTT-TG
60952643 TTTTTTTTG
1 TTTTTTTTG
60952652 TTTTTTTT-
1 TTTTTTTTG
60952660 TTTTTTTTAG
1 TTTTTTTT-G
60952670 CTTTTTTTT-
1 -TTTTTTTTG
***
60952679 TTTATTAAAAG
1 TTT-TT-TTTG
* *
60952690 TTTAGTTATG
1 TTT-TTTTTG
*
60952700 TTAGTTTTT-
1 TT-TTTTTTG
60952709 TTTTTTTTG
1 TTTTTTTTG
60952718 TTTTGATTTTTAG
1 -TTT--TTTTT-G
60952731 TTTTCTTTTAGG
1 TTTT-TTTT--G
*
60952743 TTTTTTTAG
1 TTTTTTTTG
*
60952752 ATTTTTTT-
1 TTTTTTTTG
60952760 TTTTTTTT-
1 TTTTTTTTG
60952768 TTTTTTTT-
1 TTTTTTTTG
*
60952776 TTTTTTTAG
1 TTTTTTTTG
*
60952785 TTTTTTTTATT
1 -TTTTTTT-TG
60952796 TTTTTTTTG
1 TTTTTTTTG
*
60952805 TCTTATTTTG
1 T-TTTTTTTG
60952815 ATTTTTTTTTAAG
1 --TTTTTTTT--G
60952828 TTTTGTTTT-
1 TTTT-TTTTG
60952837 TTTTTTTT-
1 TTTTTTTTG
60952845 TTTTTTTTAG
1 TTTTTTTT-G
*
60952855 TTTTTTTTT
1 TTTTTTTTG
60952864 TTATTTTTTG
1 TT-TTTTTTG
60952874 TTTTTTTT-
1 TTTTTTTTG
* *
60952882 TGCTTTTTAG
1 T-TTTTTTTG
*
60952892 TTTTTTTAG
1 TTTTTTTTG
* *
60952901 TTGTTTAT-
1 TTTTTTTTG
60952909 TTTTTTTT-
1 TTTTTTTTG
* *
60952917 TTTTTTGTC
1 TTTTTTTTG
60952926 TTTTTTCATT-
1 TTTTTT--TTG
60952936 TTTTTTTT-
1 TTTTTTTTG
60952944 TTTGTTTTTAG
1 TTT-TTTTT-G
60952955 TTTTTTTT
1 TTTTTTTT
60952963 TAGTTCTTAT
Statistics
Matches: 252, Mismatches: 34, Indels: 68
0.71 0.10 0.19
Matches are distributed among these distances:
8 69 0.27
9 62 0.25
10 67 0.27
11 34 0.13
12 18 0.07
13 2 0.01
ACGTcount: A:0.08, C:0.02, G:0.08, T:0.82
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:60952749 original size:41 final size:38
Alignment explanation
Indices: 60952700--60952963 Score: 186
Period size: 44 Copynumber: 6.6 Consensus size: 38
60952690 TTTAGTTATG
* *
60952700 TTAG-TTTTTTTTTTTTTGTTTTGATTTTTAGTTTTCTT
1 TTAGTTTTTTTTTTTTTTTTTTTGCTTTTTAGTTTT-TT
** **
60952738 TTAGGTTTTTTTAGATTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTA-G-TTTTTT---TTTTTTTTTTTTTGCTTTTTAGTTTTTT
* *
60952781 TTAGTTTTTTTTATTTTTTTTTTGTCTTATTTTGATTTTTTT
1 TTAGTTTTTTTTTTTTTTTTTTTG-C-T-TTTT-AGTTTTTT
60952823 TTAAGTTTTGTTTTTTTTTTTTTTT--TTTTTAGTTTTTT
1 TT-AGTTTT-TTTTTTTTTTTTTTTGCTTTTTAGTTTTTT
*
60952861 TT--TTTATTTTTTGTTTTTTTTTGCTTTTTAG-TTTTT
1 TTAGTTT-TTTTTTTTTTTTTTTTGCTTTTTAGTTTTTT
60952897 TTAGTTGTTTATTTTTTTTTTTTTTTGTCTTTTTTCA-TTTTTT
1 TTAG-T-TTT-TTTTTTTTTTTTTTTG-C-TTTTT-AGTTTTTT
60952940 TT--TTTTTGTTTTTAGTTTTTTTTT
1 TTAGTTTTT-TTTTT--TTTTTTTTT
60952964 AGTTCTTATA
Statistics
Matches: 186, Mismatches: 13, Indels: 51
0.74 0.05 0.20
Matches are distributed among these distances:
35 17 0.09
36 8 0.04
37 7 0.04
38 25 0.13
39 15 0.08
40 20 0.11
41 25 0.13
42 15 0.08
43 19 0.10
44 35 0.19
ACGTcount: A:0.07, C:0.02, G:0.08, T:0.83
Consensus pattern (38 bp):
TTAGTTTTTTTTTTTTTTTTTTTGCTTTTTAGTTTTTT
Found at i:60952757 original size:1 final size:1
Alignment explanation
Indices: 60952753--60952963 Score: 143
Period size: 1 Copynumber: 211.0 Consensus size: 1
60952743 TTTTTTTAGA
** * * * * **
60952753 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTAGTTTTTTTTATTTTTTTTTTGTCTTATTTTGATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*** * ** * *
60952818 TTTTTTTAAGTTTTGTTTTTTTTTTTTTTTTTTTTAGTTTTTTTTTTTATTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** ** * * * * ** *
60952883 GCTTTTTAGTTTTTTTAGTTGTTTATTTTTTTTTTTTTTTGTCTTTTTTCATTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
**
60952948 TTTTTAGTTTTTTTTT
1 TTTTTTTTTTTTTTTT
60952964 AGTTCTTATA
Statistics
Matches: 159, Mismatches: 51, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 159 1.00
ACGTcount: A:0.06, C:0.02, G:0.07, T:0.85
Consensus pattern (1 bp):
T
Found at i:60952771 original size:43 final size:42
Alignment explanation
Indices: 60952707--60952943 Score: 169
Period size: 39 Copynumber: 5.7 Consensus size: 42
60952697 ATGTTAGTTT
*
60952707 TTTTTTTTTTGTTTTGATTTTTAGTTTTCTTTTAGGTTTTTTTAGA
1 TTTTTTTTTTGTTTT--TTTTTAGTTTTTTTTTA-GTTTTTTT-GA
** *
60952753 TTTTTTTTTT-TTTTTTTTTTTTTTTTTTTTAGTTTTTTTTA
1 TTTTTTTTTTGTTTTTTTTTAGTTTTTTTTTAGTTTTTTTGA
* *
60952794 TTTTTTTTTTGTCTTATTTT-GATTTTTTTTTAAG---TTTTG-
1 TTTTTTTTTTGTTTTTTTTTAG-TTTTTTTTT-AGTTTTTTTGA
* *
60952833 TTTTTTTTTTTTTTTTTTTTAGTTTTTTTTT-TTATTTTTTG-
1 TTTTTTTTTTGTTTTTTTTTAGTTTTTTTTTAGT-TTTTTTGA
* *
60952874 -TTTTTTTTTG---CTTTTTAGTTTTTTTAGTT-GTTTATTTT-T
1 TTTTTTTTTTGTTTTTTTTTAGTTTTTTT--TTAGTTT-TTTTGA
* * *
60952913 TTTTTTTTTTGTCTTTTTTCATTTTTTTTTT
1 TTTTTTTTTTGTTTTTTTTTAGTTTTTTTTT
60952944 TTTGTTTTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 37
0.74 0.08 0.17
Matches are distributed among these distances:
37 14 0.09
38 2 0.01
39 33 0.21
40 24 0.15
41 18 0.11
42 24 0.15
43 28 0.18
45 4 0.03
46 10 0.06
ACGTcount: A:0.07, C:0.02, G:0.08, T:0.83
Consensus pattern (42 bp):
TTTTTTTTTTGTTTTTTTTTAGTTTTTTTTTAGTTTTTTTGA
Found at i:60952785 original size:81 final size:76
Alignment explanation
Indices: 60952704--60952967 Score: 247
Period size: 83 Copynumber: 3.4 Consensus size: 76
60952694 GTTATGTTAG
*
60952704 TTTTTTTTTTTTTGTTTTGATTTTTAGTTTTCTTTTAGGTTTTTTTAGATTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTGTTTTGCTTTTTAGTTTT-TTTTA-GTTTTTTT--ATTTTTTTTTTTTTTTT
60952769 TTTTTTTTTTTTTTA
62 TTTTTTTTTTTTTTA
* *
60952784 GTTTTTTTTATTTTTTTTTTGTCTTATTTTGATTTTTTTTTAAGTTTTGTTT-TTTTTTTTTTTT
1 -TTTTTTTT-TTTTTGTTTTG-C-T-TTTT-AGTTTTTTTT-AGTTTT-TTTATTTTTTTTTTTT
**
60952848 TTTTTAGTTTTTTTTTTTA
58 TTTTTTTTTTTTTTTTTTA
* *
60952867 -TTTTTTGTTTTT-TTTTGCTTTTTAG-TTTTTTTAG-TTGTTTATTTTTTTTTTTTTTTGTCTT
1 TTTTTTTTTTTTTGTTTTGCTTTTTAGTTTTTTTTAGTTTTTTTATTTTTTTTTTTTTTT-T-TT
*
60952928 TTTTCATTTTTTT-
64 TTTT-TTTTTTTTA
* *
60952941 TTTTTTGTTTTTAGTTTT--TTTTTAGTT
1 TTTTTTTTTTTTTGTTTTGCTTTTTAGTT
60952968 CTTATATTTG
Statistics
Matches: 155, Mismatches: 14, Indels: 34
0.76 0.07 0.17
Matches are distributed among these distances:
71 3 0.02
72 17 0.11
73 3 0.02
74 18 0.12
75 18 0.12
76 8 0.05
77 1 0.01
78 1 0.01
79 5 0.03
80 5 0.03
81 14 0.09
82 10 0.06
83 29 0.19
84 1 0.01
85 13 0.08
86 9 0.06
ACGTcount: A:0.07, C:0.02, G:0.08, T:0.83
Consensus pattern (76 bp):
TTTTTTTTTTTTTGTTTTGCTTTTTAGTTTTTTTTAGTTTTTTTATTTTTTTTTTTTTTTTTTTT
TTTTTTTTTTA
Found at i:60952821 original size:74 final size:75
Alignment explanation
Indices: 60952742--60952952 Score: 227
Period size: 75 Copynumber: 2.8 Consensus size: 75
60952732 TTTCTTTTAG
60952742 GTTTTTTTAGATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTAGTTTTTTTTATTTTTTTTTTGTC
1 GTTTTTTTAGATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTA-TTTTTTTTATTTTTTTTTTGTC
60952807 TT-ATTTTGAT
65 TTGATTTTGAT
* * ** *
60952817 TTTTTTTTA-AGTTTTGTTTTTTTTTTTTTTTTTTTTAGTTT-TTTTTTTTATTTTTTGTTTTTT
1 GTTTTTTTAGA-TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTATTTTTTTTATTTTTT-TTTTGT
* * *
60952880 TTTGCTTTTTA-
64 CTTGATTTTGAT
* * *
60952891 GTTTTTTTAG-TTGTTTATTTTTTTTTTTTTTTGTCTTTTTTCATTTTTTTT-TTTTTGTTTTT
1 GTTTTTTTAGATT-TTT-TTTTTTTTTTTTTTTTTTTTTTTTTATTTTTTTTATTTTT-TTTTT
60952953 AGTTTTTTTT
Statistics
Matches: 113, Mismatches: 15, Indels: 16
0.78 0.10 0.11
Matches are distributed among these distances:
73 17 0.15
74 18 0.16
75 69 0.61
76 9 0.08
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.84
Consensus pattern (75 bp):
GTTTTTTTAGATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTATTTTTTTTATTTTTTTTTTGTCT
TGATTTTGAT
Found at i:60952823 original size:115 final size:114
Alignment explanation
Indices: 60952643--60952967 Score: 291
Period size: 115 Copynumber: 2.8 Consensus size: 114
60952633 TTTTTTTCTC
* * **** * *
60952643 TTTTTTTTGTTTTTTTTTTTTTTTTAGCTTTTTTTTTTTATTAAAAGT-TTAGTTATG-TTAGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTAGCTTTTTTTTTTTTTTTTTTGTCTTA-TTTTGATT-TTT
60952706 TTTTTTTTTTTGTTTTGATTTTTAGTTTTCTTTTAG-GTTTTTTTAGATTTTT
64 TTTTTTTTTTTGTTTT--TTTTTAGTTTTCTTTTAGTGTTTTTTTAGATTTTT
60952758 TTTTTTTTTTTTTTTTTTTTTTTTTAG-TTTTTTTTATTTTTTTTTTGTCTTATTTTGATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTAGCTTTTTTTT-TTTTTTTTTTGTCTTATTTTGATTTTTT
*** ** * * **
60952822 TTTAAGTTTTGTTTTTTTTTTTTTTTTTTTTAGTTTTTTTTTTTATTTTT
65 TTTTTTTTTTGTTTTTTTTTAGTTTTCTTTTAGTGTTTTTTTAGATTTTT
* ** * *
60952872 TGTTTTTTTTTGCTTTTTAGTTTTTTTAGTTGTTTATTTTTTTTTTTTTTTGTCTT-TTTTCATT
1 T-TTTTTTTTT-TTTTTTTTTTTTTTTAG--CTTT-TTTTTTTTTTTTTTTGTCTTATTTTGA--
60952936 TTTTTTTTTTTGTTTTTAGTTTTTTTTTAGTT
59 TTTTTTTTTTT-TTTTT-GTTTTTTTTTAGTT
60952968 CTTATATTTG
Statistics
Matches: 170, Mismatches: 26, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
113 15 0.09
114 22 0.13
115 61 0.36
116 19 0.11
118 5 0.03
119 18 0.11
120 14 0.08
121 4 0.02
122 12 0.07
ACGTcount: A:0.09, C:0.02, G:0.08, T:0.81
Consensus pattern (114 bp):
TTTTTTTTTTTTTTTTTTTTTTTTTAGCTTTTTTTTTTTTTTTTTTGTCTTATTTTGATTTTTTT
TTTTTTTTTGTTTTTTTTTAGTTTTCTTTTAGTGTTTTTTTAGATTTTT
Found at i:60952878 original size:100 final size:99
Alignment explanation
Indices: 60952755--60952963 Score: 257
Period size: 100 Copynumber: 2.1 Consensus size: 99
60952745 TTTTTAGATT
* * * *
60952755 TTTTTTTTTTTTTTTTTTTTTTTTTTTTAGTTTTTTTTA-TTTTTTT-TTTGTCTTATTTTGATT
1 TTTTTTTTTTTATTTTTTGTTTTTTTTT-G--CTTTTTAGTTTTTTTAGTTGT-TTATTTT--TT
60952818 TTTTTTTAAGT-TTTGTT-TTTTTTTTTTTTT-TTTTTAG
60 TTTTTTTAAGTCTTTGTTATTTTTTTTTTTTTGTTTTTAG
60952855 TTTTTTTTTTTATTTTTTGTTTTTTTTTGCTTTTTAGTTTTTTTAGTTGTTTATTTTTTTTTTTT
1 TTTTTTTTTTTATTTTTTGTTTTTTTTTGCTTTTTAGTTTTTTTAGTTGTTTATTTTTTTTTTTT
** *
60952920 TTTGTCTTTTTTCATTTTTTTTTTTTTGTTTTTAG
66 TAAGTCTTTGTT-ATTTTTTTTTTTTTGTTTTTAG
60952955 TTTTTTTTT
1 TTTTTTTTT
60952964 AGTTCTTATA
Statistics
Matches: 96, Mismatches: 7, Indels: 12
0.83 0.06 0.10
Matches are distributed among these distances:
96 11 0.11
97 11 0.11
98 14 0.15
99 18 0.19
100 42 0.44
ACGTcount: A:0.06, C:0.02, G:0.07, T:0.85
Consensus pattern (99 bp):
TTTTTTTTTTTATTTTTTGTTTTTTTTTGCTTTTTAGTTTTTTTAGTTGTTTATTTTTTTTTTTT
TAAGTCTTTGTTATTTTTTTTTTTTTGTTTTTAG
Found at i:60952967 original size:74 final size:73
Alignment explanation
Indices: 60952704--60952965 Score: 259
Period size: 74 Copynumber: 3.5 Consensus size: 73
60952694 GTTATGTTAG
* *
60952704 TTTTT-TTTTTTTTGTTTTGATTTTTAGTTTTCTTTTAGGTTTTTTTAGATTT-TTTTTTTTTTT
1 TTTTTATTTTTTTTTTTTTG-TTTTT-GTTTTTTTTTAGGTTTTTTTAG-TTTGTTTTTTTTTTT
*
60952767 TTTTTTTTTTT
63 TTTTTTTTTAT
* * **
60952778 TTTTTAGTTTTTTTTATTTTT-TTTTTGTCTTATTTTGATTTTTTTTTAAGTTTTGTTTTTTTTT
1 TTTTTA-TTTTTTTT-TTTTTGTTTTTGT-TTTTTTTTAGGTTTTTTT-AG-TTTGTTTTTTTTT
*
60952842 TTTTTTTTTTTAG
61 TTTTTTTTTTTAT
*
60952855 TTTTT-TTTTTTATTTTTTGTTTTT-TTTTGCTTTTTA-GTTTTTTTAG-TTGTTTATTTTTTTT
1 TTTTTATTTTTTTTTTTTTGTTTTTGTTTT--TTTTTAGGTTTTTTTAGTTTGTTT-TTTTTTTT
* *
60952916 TTTTTTTGTCT
63 TTTTTTTTTAT
60952927 TTTTTCATTTTTTTTTTTTTGTTTTTAGTTTTTTTTTAG
1 TTTTT-ATTTTTTTTTTTTTGTTTTT-GTTTTTTTTTAG
60952966 TTCTTATATT
Statistics
Matches: 156, Mismatches: 17, Indels: 29
0.77 0.08 0.14
Matches are distributed among these distances:
71 6 0.04
72 21 0.13
73 4 0.03
74 44 0.28
75 35 0.22
76 17 0.11
77 29 0.19
ACGTcount: A:0.07, C:0.02, G:0.08, T:0.83
Consensus pattern (73 bp):
TTTTTATTTTTTTTTTTTTGTTTTTGTTTTTTTTTAGGTTTTTTTAGTTTGTTTTTTTTTTTTTT
TTTTTTAT
Found at i:60953002 original size:74 final size:74
Alignment explanation
Indices: 60952859--60953005 Score: 165
Period size: 74 Copynumber: 2.0 Consensus size: 74
60952849 TTTTAGTTTT
* * * * * * *
60952859 TTTTTTTATTTTTTGTTTTTTTTTGCTTTTTAGTTTTTTTAGTTGTTTATTTTTTTTTTTTTTTG
1 TTTTTTTATTTTTTGTTTTTTTTT-CTTTTTAGTTCTTATAGTTGCTTATTATTTTTATATTATG
60952924 TCTTTTTTCA
65 TCTTTTTTCA
*
60952934 TTTTTTT-TTTTTTGTTTTTAGTTTT-TTTTTAGTTCTTATATTTGCTTAGTTATTTTTATATTA
1 TTTTTTTATTTTTTGTTTTT--TTTTCTTTTTAGTTCTTATAGTTGCTTA-TTATTTTTATATTA
60952997 T-TCTTTTTT
63 TGTCTTTTTT
60953006 TTTTGTTTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
74 39 0.64
75 18 0.30
76 4 0.07
ACGTcount: A:0.10, C:0.04, G:0.07, T:0.79
Consensus pattern (74 bp):
TTTTTTTATTTTTTGTTTTTTTTTCTTTTTAGTTCTTATAGTTGCTTATTATTTTTATATTATGT
CTTTTTTCA
Found at i:60953009 original size:149 final size:143
Alignment explanation
Indices: 60952704--60952972 Score: 320
Period size: 140 Copynumber: 1.9 Consensus size: 143
60952694 GTTATGTTAG
* * * * * *
60952704 TTTTTTTTTTTTTGTTTTGATTTTTAGTTTTCTTTTAGGTTTTTTTAGATTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTATTTTTAGTTTTCTTTTAGGTCTTTTTAGATTTTTTTGTTGTTTAT
* *
60952769 TTTTTTTTTTTTTTAGTTTTTTTTATTTTTTTTTTGTCTTATTTTGATTTTTTTTTAAGTTTTGT
66 TTTTTTTTTTTTTTAGTTTTTTTCATTTTTTTTTTGTCTTATTTTGATTTTTTTTTAAGTTTTAT
60952834 TTTTTTTTTTTTT
131 TTTTTTTTTTTTT
** * *
60952847 TTTTTTAGTTTTTTTTTTTATTTTTTGTTTT-TTTT-TG-CTTTTTAG-TTTTTTTAGTTGTTTA
1 TTTTTTTTTTTTTTTTTTTATTTTTAGTTTTCTTTTAGGTCTTTTTAGATTTTTTT-GTTGTTTA
* *
60952908 TTTTTTTTTTTTTTT-GTCTTTTTTCATTTTTTTTTT-T-TTGTTTTTAGTTTTTTTTT-AGTTC
65 TTTTTTTTTTTTTTTAGT-TTTTTTCATTTTTTTTTTGTCTTATTTTGA-TTTTTTTTTAAGTT-
60952969 TTAT
127 TTAT
60952973 ATTTGCTTAG
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
138 11 0.10
139 22 0.20
140 44 0.41
141 1 0.01
142 4 0.04
143 26 0.24
ACGTcount: A:0.07, C:0.02, G:0.08, T:0.83
Consensus pattern (143 bp):
TTTTTTTTTTTTTTTTTTTATTTTTAGTTTTCTTTTAGGTCTTTTTAGATTTTTTTGTTGTTTAT
TTTTTTTTTTTTTTAGTTTTTTTCATTTTTTTTTTGTCTTATTTTGATTTTTTTTTAAGTTTTAT
TTTTTTTTTTTTT
Found at i:60953065 original size:17 final size:14
Alignment explanation
Indices: 60953042--60953108 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 14
60953032 GATTAGGTAG
**
60953042 TTTTTTTTTTAAAT
1 TTTTTTTTTTTTAT
*
60953056 TTTTTGTTTTGTTATT
1 TTTTT-TTTTTTTA-T
*
60953072 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTAT
60953086 TCTTTCGTTTTTTTTAT
1 T-TTT--TTTTTTTTAT
60953103 TTTTTT
1 TTTTTT
60953109 AGTTCGTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
14 9 0.21
15 14 0.33
16 9 0.21
17 10 0.24
ACGTcount: A:0.07, C:0.03, G:0.04, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTTTTAT
Found at i:60953114 original size:22 final size:22
Alignment explanation
Indices: 60953071--60953116 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
60953061 GTTTTGTTAT
* **
60953071 TTTTTTTTTTTTTTTTCTTTCG
1 TTTTTTTTATTTTTTTAGTTCG
60953093 TTTTTTTTATTTTTTTAGTTCG
1 TTTTTTTTATTTTTTTAGTTCG
60953115 TT
1 TT
60953117 ATTTAGTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.04, C:0.07, G:0.07, T:0.83
Consensus pattern (22 bp):
TTTTTTTTATTTTTTTAGTTCG
Found at i:60953136 original size:39 final size:37
Alignment explanation
Indices: 60953093--60953185 Score: 107
Period size: 39 Copynumber: 2.5 Consensus size: 37
60953083 TTTTCTTTCG
* *
60953093 TTTTTTTTATTTTTTTAGTTCGTTATTTAGTTTCAGTTT
1 TTTTTTTTATTTTTTTAGTTAGTTATTTA-TCT-AGTTT
* * *
60953132 TTTTTTTTATTTATTTAAGTTATTTTTTTATCTAGTTT
1 TTTTTTTTATTT-TTTTAGTTAGTTATTTATCTAGTTT
60953170 TTTTTTTT-TTTTTTTA
1 TTTTTTTTATTTTTTTA
60953186 TTTATTCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
36 4 0.09
37 3 0.06
38 13 0.28
39 14 0.30
40 13 0.28
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.76
Consensus pattern (37 bp):
TTTTTTTTATTTTTTTAGTTAGTTATTTATCTAGTTT
Found at i:60953154 original size:36 final size:35
Alignment explanation
Indices: 60953094--60953185 Score: 96
Period size: 35 Copynumber: 2.5 Consensus size: 35
60953084 TTTCTTTCGT
* *
60953094 TTTTTTTATTTTTTTAGTT-CGTTATTTAGTTTCAG
1 TTTTTTT-TTTTTTTATTTAAGTTATTTAGTTTCAG
**
60953129 TTTTTTTTTTTATTTATTTAAGTTATTTTTTTATCTAG
1 TTTTTTTTTTT-TTTATTTAAGTTATTTAGTT-TC-AG
*
60953167 TTTTTTTTTTTTTTTTTTA
1 TTTTTTTTTTTTTTATTTA
60953186 TTTATTCATT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
34 4 0.08
35 13 0.27
36 9 0.19
37 9 0.19
38 13 0.27
ACGTcount: A:0.14, C:0.03, G:0.07, T:0.76
Consensus pattern (35 bp):
TTTTTTTTTTTTTTATTTAAGTTATTTAGTTTCAG
Found at i:60953157 original size:22 final size:23
Alignment explanation
Indices: 60953115--60953169 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
60953105 TTTTAGTTCG
* *
60953115 TTATTTAGTTTCAGTTTTTTTTT
1 TTATTTAGTTTAAGTTATTTTTT
60953138 TTATTTA-TTTAAGTTA-TTTTT
1 TTATTTAGTTTAAGTTATTTTTT
*
60953159 TTATCTAGTTT
1 TTATTTAGTTT
60953170 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.39
22 10 0.36
23 7 0.25
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.71
Consensus pattern (23 bp):
TTATTTAGTTTAAGTTATTTTTT
Found at i:60953174 original size:17 final size:18
Alignment explanation
Indices: 60953132--60953177 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
60953122 GTTTCAGTTT
*
60953132 TTTTTTTTATTTATTTAAG
1 TTTTTTTT-TTTATCTAAG
*
60953151 -TTATTTTTTTATCT-AG
1 TTTTTTTTTTTATCTAAG
60953167 TTTTTTTTTTT
1 TTTTTTTTTTT
60953178 TTTTTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.09
17 15 0.65
18 6 0.26
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTTTTTTTTATCTAAG
Found at i:60953385 original size:13 final size:13
Alignment explanation
Indices: 60953369--60953393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60953359 TTTTGATTAA
60953369 GTTTTTTTTTTTC
1 GTTTTTTTTTTTC
60953382 GTTTTTTTTTTT
1 GTTTTTTTTTTT
60953394 TTATATTGTT
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:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (13 bp):
GTTTTTTTTTTTC
Found at i:60953425 original size:1 final size:1
Alignment explanation
Indices: 60953419--60953574 Score: 60
Period size: 1 Copynumber: 156.0 Consensus size: 1
60953409 TTTATAATGG
* * * * ** * * * * **
60953419 TTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTATGTTTATAATTCTTTTATTTTTATATAATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** *** *** * * * * *
60953484 TTTTTTTTAGTTTTTTTTAAGTTTTGAGTTTTTATTTTTTTTTTTTATATTATTTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
60953549 TATTTATTTGTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
60953575 AAGGTGTTCA
Statistics
Matches: 109, Mismatches: 46, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 109 1.00
ACGTcount: A:0.12, C:0.01, G:0.05, T:0.82
Consensus pattern (1 bp):
T
Found at i:60953475 original size:41 final size:39
Alignment explanation
Indices: 60953430--60953575 Score: 109
Period size: 41 Copynumber: 3.6 Consensus size: 39
60953420 TTTTTTTTTT
* *
60953430 TTTTTGTTTTTTTTTTTTTTTTTATGTTTATAATTCTTTTA-
1 TTTTTATTTTTTTTTTTTATTTTAT-TTT-TAATT-TTTTAG
* * *
60953471 TTTTTATATAATTTTTTTTTTAGTTT-TTTTTAAGTTTTGAG
1 TTTTTAT-T--TTTTTTTTTTATTTTATTTTTAATTTTTTAG
* ** *
60953512 TTTTTATTTTTTTTTTTTATATTATTTTTTTTTGTTTTAT
1 TTTTTATTTTTTTTTTTTATTTTATTTTTAATT-TTTTAG
*
60953552 TTATTTGTTTTTTTTTTTT-TTTTA
1 TT-TTTATTTTTTTTTTTTATTTTA
60953576 AGGTGTTCAT
Statistics
Matches: 84, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
38 13 0.15
39 6 0.07
40 15 0.18
41 32 0.38
42 4 0.05
43 1 0.01
44 13 0.15
ACGTcount: A:0.14, C:0.01, G:0.05, T:0.80
Consensus pattern (39 bp):
TTTTTATTTTTTTTTTTTATTTTATTTTTAATTTTTTAG
Found at i:60953486 original size:56 final size:53
Alignment explanation
Indices: 60953426--60953565 Score: 138
Period size: 54 Copynumber: 2.5 Consensus size: 53
60953416 TGGTTTTTTT
60953426 TTTTTTTTTGTTTTTTTTTTTTTTTTTATGTTTATAATTCTTTTATTTTTATATAA
1 TTTTTTTTTGTTTTTTTTTTTTTTTTTA-GTTT-TAATT-TTTTATTTTTATATAA
*** * * * *
60953482 TTTTTTTTT-TAGTTTTTTTTAAGTTTTGAGTTTTTATTTTTTTTTTTTATATTA
1 TTTTTTTTTGT--TTTTTTTTTTTTTTTTAGTTTTAATTTTTTATTTTTATATAA
60953536 TTTTTTTTTGTTTTATTTATTTGTTTTTTT
1 TTTTTTTTTGTTTT-TTT-TTT-TTTTTTT
60953566 TTTTTTTTTA
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
53 3 0.04
54 26 0.39
55 8 0.12
56 17 0.25
57 13 0.19
ACGTcount: A:0.14, C:0.01, G:0.06, T:0.80
Consensus pattern (53 bp):
TTTTTTTTTGTTTTTTTTTTTTTTTTTAGTTTTAATTTTTTATTTTTATATAA
Found at i:60953562 original size:54 final size:56
Alignment explanation
Indices: 60953425--60953562 Score: 149
Period size: 57 Copynumber: 2.5 Consensus size: 56
60953415 ATGGTTTTTT
* *
60953425 TTTTTTTTTTGTTTTTTTTTTTTTTTTTATGTTTATAATTCTTTTATTTTTATATAA
1 TTTTTTTTTTG-TTTTTTTTTTGTTTTGATGTTTATAATTCTTTTATTTTTATATAA
** * * *
60953482 TTTTTTTTTTAGTTTTTTTTAAGTTTTGA-GTTT-TTATT-TTTTTTTTTTATATTA
1 TTTTTTTTTT-GTTTTTTTTTTGTTTTGATGTTTATAATTCTTTTATTTTTATATAA
60953536 -TTTTTTTTTGTTTTATTTATTTGTTTT
1 TTTTTTTTTTGTTTT-TTT-TTTGTTTT
60953563 TTTTTTTTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
52 5 0.07
53 12 0.17
54 20 0.29
55 4 0.06
56 4 0.06
57 23 0.33
58 1 0.01
ACGTcount: A:0.14, C:0.01, G:0.06, T:0.80
Consensus pattern (56 bp):
TTTTTTTTTTGTTTTTTTTTTGTTTTGATGTTTATAATTCTTTTATTTTTATATAA
Found at i:60953628 original size:13 final size:13
Alignment explanation
Indices: 60953606--60953649 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
60953596 GGTTTTACTG
*
60953606 TTTTTATTTTTTA
1 TTTTTTTTTTTTA
60953619 TTTTTTTTTTTTA
1 TTTTTTTTTTTTA
60953632 TTTTGTCTTTTTTT-
1 TTTT-T-TTTTTTTA
60953646 TTTT
1 TTTT
60953650 GGTATCTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 16 0.57
14 5 0.18
15 7 0.25
ACGTcount: A:0.07, C:0.02, G:0.02, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTTTA
Found at i:60953631 original size:20 final size:20
Alignment explanation
Indices: 60953606--60953649 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
60953596 GGTTTTACTG
*
60953606 TTTTTATTTTTTATTTTTTT
1 TTTTTATTTTGTATTTTTTT
*
60953626 TTTTTATTTTGTCTTTTTTT
1 TTTTTATTTTGTATTTTTTT
60953646 TTTT
1 TTTT
60953650 GGTATCTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.07, C:0.02, G:0.02, T:0.89
Consensus pattern (20 bp):
TTTTTATTTTGTATTTTTTT
Found at i:60956990 original size:40 final size:40
Alignment explanation
Indices: 60956884--60957100 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
60956874 GCTCCTCGTT
*
60956884 CAAATGCCTTCGGGA-ATAGCCCGG-TTATAGTAACTCG-A
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
60956922 CAAATG-CTTC-GGACTTA--CCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
60956957 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
60956997 CAAATGCCTTCGGG--TTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
60957035 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
60957076 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60957101 CATCATTCAA
Statistics
Matches: 154, Mismatches: 12, Indels: 24
0.81 0.06 0.13
Matches are distributed among these distances:
34 10 0.06
35 12 0.08
36 7 0.05
37 15 0.10
38 38 0.25
39 5 0.03
40 56 0.36
41 11 0.07
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:60957036 original size:78 final size:78
Alignment explanation
Indices: 60956884--60957100 Score: 236
Period size: 78 Copynumber: 2.8 Consensus size: 78
60956874 GCTCCTCGTT
* *
60956884 CAAATGCCTTCGGGA-ATAGCCCGG-TTATAGTAACTCG-ACAAATG-CTTCGGACTTA--CCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGG-GTTAGCCCGG
60956943 -ATTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
60956957 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGTTAGCCCGGAA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGTTAGCCCGGAA
*
60957022 TTAGTATCTCGCA
66 TTAGTAACTCGCA
* * * * *
60957035 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG--TTAGCCC
60957098 GGA
62 GGA
60957101 CATCATTCAA
Statistics
Matches: 123, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
73 15 0.12
74 17 0.14
75 12 0.10
76 6 0.05
77 7 0.06
78 48 0.39
79 8 0.07
80 10 0.08
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:60964657 original size:38 final size:39
Alignment explanation
Indices: 60964611--60964778 Score: 227
Period size: 38 Copynumber: 4.3 Consensus size: 39
60964601 GCTACTCGTT
* *
60964611 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAA-TCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
*
60964650 C-AATGCCTTCGGGACTTAACCC-GATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
60964687 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
* * *
60964727 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
60964766 CAAATGCCTTCGG
1 CAAATGCCTTCGG
60964779 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
36 6 0.05
37 8 0.07
38 40 0.34
39 37 0.31
40 27 0.23
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:60964764 original size:39 final size:39
Alignment explanation
Indices: 60964611--60964830 Score: 238
Period size: 39 Copynumber: 5.7 Consensus size: 39
60964601 GCTACTCGTT
* * *
60964611 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAA-TCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAT-TAGTAACTCGCA
60964650 C-AATGCCTTCGGGACTTAACCC-GATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
60964687 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGA-TTAGTAACTCGCA
* *
60964727 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTAGTAACTCGCA
** * * *
60964766 CAAATGCCTTC-GGATCTTAGTCC-GATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TAGTAAC-TCGCA
*
60964806 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
60964831 CATCATTCAA
Statistics
Matches: 159, Mismatches: 11, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
36 6 0.04
37 8 0.05
38 44 0.28
39 53 0.33
40 48 0.30
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
Found at i:60964778 original size:79 final size:80
Alignment explanation
Indices: 60964611--60964830 Score: 269
Period size: 79 Copynumber: 2.8 Consensus size: 80
60964601 GCTACTCGTT
* *
60964611 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAA-TCGCAC-AATGCCTTCGGGACTTAACCC-
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
60964672 G-ATTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
60964687 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
60964751 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * * * *
60964766 CAAATGCCTTC-GGATCTTAGTCC-GATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
60964828 GGA
64 GGA
60964831 CATCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
76 29 0.23
77 15 0.12
78 33 0.26
79 49 0.39
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:60966013 original size:56 final size:57
Alignment explanation
Indices: 60965946--60966066 Score: 226
Period size: 56 Copynumber: 2.1 Consensus size: 57
60965936 TATTAGTTTA
60965946 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTC-ATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCAATGACATGTT
*
60966002 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCAATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCAATGACATGTT
60966059 TTGCCCAT
1 TTGCCCAT
60966067 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 45 0.71
57 18 0.29
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (57 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCAATGACATGTT
Found at i:60968704 original size:40 final size:39
Alignment explanation
Indices: 60968621--60968804 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 39
60968611 TTGAATGATG
* * * *
60968621 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
60968660 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
60968700 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
60968739 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
60968780 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
60968805 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 45 0.36
40 72 0.57
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60968756 original size:79 final size:80
Alignment explanation
Indices: 60968621--60968804 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 80
60968611 TTGAATGATG
* *
60968621 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
60968685 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * **
60968699 TTCCGGGCTAAGCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
60968762 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
60968779 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
60968805 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 68 0.75
80 22 0.24
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATA
Found at i:60968826 original size:79 final size:79
Alignment explanation
Indices: 60968673--60968837 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
60968663 GGACTAAGAT
* **
60968673 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
60968738 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
60968752 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
60968815 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
60968831 CCGAAGG
1 CCGAAGG
60968838 TACGAGGTAT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:60976791 original size:40 final size:39
Alignment explanation
Indices: 60976601--60976784 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
60976591 TGAATGATGT
* * * *
60976601 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
60976641 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
60976681 CCGGGCTAAG-CCCGAAGGCATTTTTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
60976719 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60976760 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
60976785 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60976807 original size:79 final size:79
Alignment explanation
Indices: 60976653--60976817 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
60976643 GGACTAAGAT
* ***
60976653 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTTTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
60976718 ATCCGAGTTAAGTC
66 ATCCGAGTTAAATC
* *
60976732 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
60976795 TATATCCG-GTTAAATT
63 TAAATCCGAGTTAAATC
60976811 CCGAAGG
1 CCGAAGG
60976818 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:60980533 original size:15 final size:16
Alignment explanation
Indices: 60980515--60980544 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60980505 AACTGTTTTA
60980515 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
60980530 TTACATAATTTCACT
1 TTACATAATTTCACT
60980545 TACTCCATTC
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:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:60980874 original size:50 final size:50
Alignment explanation
Indices: 60980756--60981037 Score: 246
Period size: 50 Copynumber: 5.6 Consensus size: 50
60980746 CTGGCACGCA
* * * * *
60980756 TAGTATCCTGCACTTAGTACTACACATGTGACC-AACAATCCGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
* *
60980805 TAGTAGTCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
* * *** * * *
60980855 TAGTAGCCTGCACTTAGTACTACACACGTGATC-AAAGTTGTCAAGTAC-GG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCT-GA-TACACG
* * * * *
60980905 ATAGTAGTCTGAACTTAGTACTACACATGCGACCTAACTATCTGGTACACG
1 -TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
* * * * * * *
60980956 TAGTAGCCTACACTTAGTACTACATATGTGACCTAAAACCATTTTAAATACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGATACACG
*
60981008 TAGTAGCCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
60981038 TTCTCACAAC
Statistics
Matches: 183, Mismatches: 42, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
49 34 0.19
50 77 0.42
51 32 0.17
52 40 0.22
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
Found at i:60981702 original size:16 final size:16
Alignment explanation
Indices: 60981681--60981720 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
60981671 TTTTTGCCCC
60981681 TAAACTTTGTCAAAAA
1 TAAACTTTGTCAAAAA
60981697 TAAACTTTGTCAAAAA
1 TAAACTTTGTCAAAAA
*
60981713 TACACTTT
1 TAAACTTT
60981721 TTCCCCTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (16 bp):
TAAACTTTGTCAAAAA
Found at i:60998894 original size:42 final size:41
Alignment explanation
Indices: 60998822--60998981 Score: 126
Period size: 42 Copynumber: 3.8 Consensus size: 41
60998812 TCATACGAGT
* * *
60998822 TTTAACCCTT-CTGGGCTTCATTTCAGCTCTTTTGAGCTTCAG
1 TTTAACCCTTAC-GGGTTTCGTTT-AGCTCTTATGAGCTTCAG
* * * * * *
60998864 TTTAACCCTAACGGGTTTCAGTTTATCTCTTCTAAGTTTTAG
1 TTTAACCCTTACGGGTTTC-GTTTAGCTCTTATGAGCTTCAG
* * *
60998906 TTCAACCCTTATGGGTTTTCGTTCAGCTCTTATGAGCTTTCA-
1 TTTAACCCTTACGGG-TTTCGTTTAGCTCTTATGAGC-TTCAG
* *
60998948 TTTAACCCTTACGAGTTTCCGTTTAGCACTTATG
1 TTTAACCCTTACGGGTTT-CGTTTAGCTCTTATG
60998982 TGTTTCAATT
Statistics
Matches: 91, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
41 3 0.03
42 77 0.85
43 11 0.12
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (41 bp):
TTTAACCCTTACGGGTTTCGTTTAGCTCTTATGAGCTTCAG
Found at i:60998923 original size:21 final size:21
Alignment explanation
Indices: 60998899--60998939 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
60998889 TCTCTTCTAA
60998899 GTTTTAGTTCAACCCTTATGG
1 GTTTTAGTTCAACCCTTATGG
* * *
60998920 GTTTTCGTTCAGCTCTTATG
1 GTTTTAGTTCAACCCTTATG
60998940 AGCTTTCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (21 bp):
GTTTTAGTTCAACCCTTATGG
Found at i:61001404 original size:24 final size:24
Alignment explanation
Indices: 61001376--61001421 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
61001366 ATTCATGCCA
*
61001376 CAAAATATACCAGTTCATCATCAT
1 CAAAATATACCAATTCATCATCAT
*
61001400 CAAAATGTACCAATTCATCATC
1 CAAAATATACCAATTCATCATC
61001422 CCTATACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.28
Consensus pattern (24 bp):
CAAAATATACCAATTCATCATCAT
Found at i:61003012 original size:18 final size:19
Alignment explanation
Indices: 61002979--61003014 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
61002969 TTCATATTTC
61002979 ACAATTTAATCCAAAATTA
1 ACAATTTAATCCAAAATTA
*
61002998 ACAATTTTA-CCAAAATT
1 ACAATTTAATCCAAAATT
61003015 CACTTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (19 bp):
ACAATTTAATCCAAAATTA
Found at i:61004175 original size:21 final size:20
Alignment explanation
Indices: 61004141--61004179 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
61004131 AAACTTGTAT
61004141 ATCTATCAACAAACATTCATA
1 ATCTATCAACAAAC-TTCATA
* *
61004162 ATCTATTAAGAAACTTCA
1 ATCTATCAACAAACTTCA
61004180 AATTACATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (20 bp):
ATCTATCAACAAACTTCATA
Found at i:61006165 original size:21 final size:21
Alignment explanation
Indices: 61006141--61006180 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
61006131 TTCTCTTTTG
*
61006141 AAGATAGA-AAACATACAACAA
1 AAGAAAGAGAAACA-ACAACAA
61006162 AAGAAAGAGAAACAACAAC
1 AAGAAAGAGAAACAACAAC
61006181 TTTAGGAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.68, C:0.15, G:0.12, T:0.05
Consensus pattern (21 bp):
AAGAAAGAGAAACAACAACAA
Found at i:61008142 original size:39 final size:39
Alignment explanation
Indices: 61008099--61008175 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
61008089 TAATTCATCG
*
61008099 TTTCAGCGAACGAAGTAAGTTCGTATGCTAATAGACGTC
1 TTTCAGCGAACGAAGCAAGTTCGTATGCTAATAGACGTC
*
61008138 TTTCAGCGAATGAAGCAAGTTCGTATGCTAATAGACGT
1 TTTCAGCGAACGAAGCAAGTTCGTATGCTAATAGACGT
61008176 ACTTACATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (39 bp):
TTTCAGCGAACGAAGCAAGTTCGTATGCTAATAGACGTC
Found at i:61008385 original size:43 final size:42
Alignment explanation
Indices: 61008337--61008507 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 42
61008327 GTTACTAAGA
*
61008337 TGTGATTACATGTAAGACCATGTCTGGGACACTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACA-TGGCATTGTAT
* * * *
61008380 TGTGATTACGTGTAAAACTATGTCTAGGACATTGGCATTGTTAA
1 TGTGATTACATGTAAGACCATGTCTAGGACA-TGGCATTG-TAT
* * * *
61008424 T-CGATTTCGTGTAAGACTC-TGTCTAGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGAC-CATGTCTAGGACA-TGGCATTGTAT
* * * * *
61008465 ATATGATAACATGTAAGACCATATCTGGGATATGGCATTGTAT
1 -TGTGATTACATGTAAGACCATGTCTAGGACATGGCATTGTAT
61008508 GAGCTTTATG
Statistics
Matches: 101, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 9 0.09
43 88 0.87
44 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTGATTACATGTAAGACCATGTCTAGGACATGGCATTGTAT
Found at i:61016647 original size:19 final size:20
Alignment explanation
Indices: 61016623--61016661 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
61016613 GATAGAAAAG
61016623 TTGAGAAATT-TGAGGCTAT
1 TTGAGAAATTATGAGGCTAT
61016642 TTGAGAAATTGATGAGGCTA
1 TTGAGAAATT-ATGAGGCTA
61016662 GTGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (20 bp):
TTGAGAAATTATGAGGCTAT
Found at i:61023335 original size:15 final size:15
Alignment explanation
Indices: 61023315--61023344 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
61023305 CTTTTTCGGC
61023315 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
61023330 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
61023345 TTTACCCTCC
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:0.07, C:0.27, G:0.20, T:0.47
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:61026228 original size:59 final size:57
Alignment explanation
Indices: 61026162--61026350 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
61026152 ATTTTATTAA
61026162 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
61026221 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
61026282 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
61026341 ATCATATATT
1 ATCATATATT
61026351 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:61026259 original size:66 final size:64
Alignment explanation
Indices: 61026189--61026387 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
61026179 AAATATATTT
*
61026189 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
61026254 G
64 G
* * * * **
61026255 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
61026309 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
61026374 G
64 G
*
61026375 AATATTGATTATT
1 AATATTAATTATT
61026388 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:61026281 original size:120 final size:120
Alignment explanation
Indices: 61026151--61026448 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
61026141 AATTATTTTA
* * *
61026151 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
61026215 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
61026271 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
61026336 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
61026391 AATTTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTATGTTTAAAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
61026449 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
120 157 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:61026291 original size:61 final size:61
Alignment explanation
Indices: 61026224--61026411 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
61026214 TTATAGTATC
*
61026224 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
61026285 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
61026343 C
61 T
*
61026344 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
61026405 CTATATT
1 ATATATT
61026412 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:61026311 original size:15 final size:15
Alignment explanation
Indices: 61026276--61026327 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
61026266 TTAAGAATTT
*
61026276 TATTAAATTAT-ATA
1 TATTTAATTATAATA
61026290 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
61026304 TATTTAATAATAAT-
1 TATTTAATTATAATA
61026318 TATGTTAATT
1 TAT-TTAATT
61026328 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:61026683 original size:16 final size:16
Alignment explanation
Indices: 61026662--61026729 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
61026652 GATTTGCTAT
61026662 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
61026678 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
61026694 TACAACTCTAATCCAA
1 TACACCTCTAATCCAA
61026710 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
61026726 TACA
1 TACA
61026730 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:61027183 original size:6 final size:6
Alignment explanation
Indices: 61027172--61027197 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
61027162 AATTGCTTAA
61027172 ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT AT
61027198 TCAATGGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:61032785 original size:18 final size:18
Alignment explanation
Indices: 61032761--61032801 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
61032751 TATCTCATGT
*
61032761 ATCATATTATCCATGTAA
1 ATCATATAATCCATGTAA
* *
61032779 TTCATATAATTCATGTAA
1 ATCATATAATCCATGTAA
61032797 ATCAT
1 ATCAT
61032802 GTAACTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (18 bp):
ATCATATAATCCATGTAA
Found at i:61033055 original size:23 final size:23
Alignment explanation
Indices: 61033002--61033082 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
61032992 CTGAGCTAAT
* *
61033002 AAACGGTAAACTCCGAAGAGCTG
1 AAACGGTAAGCTCCGAAGAGTTG
* *
61033025 -AACGGTAAGCTCCGTATAGTTG
1 AAACGGTAAGCTCCGAAGAGTTG
*
61033047 AAACGGTAAGCCCCGAAGAGTTG
1 AAACGGTAAGCTCCGAAGAGTTG
61033070 AAACGGTAAGCTC
1 AAACGGTAAGCTC
61033083 ATATGAACTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
22 18 0.37
23 31 0.63
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (23 bp):
AAACGGTAAGCTCCGAAGAGTTG
Found at i:61035893 original size:29 final size:29
Alignment explanation
Indices: 61035851--61035910 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
61035841 ACATGGCCGT
61035851 GTGTCCCTTGGTGTTTAATTAGAAACTAA
1 GTGTCCCTTGGTGTTTAATTAGAAACTAA
61035880 GTGTCCCTTGGTGTTTAATTAGAAACTAA
1 GTGTCCCTTGGTGTTTAATTAGAAACTAA
61035909 GT
1 GT
61035911 CATTATGCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (29 bp):
GTGTCCCTTGGTGTTTAATTAGAAACTAA
Found at i:61039808 original size:18 final size:17
Alignment explanation
Indices: 61039780--61039814 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
61039770 GTATATTATA
61039780 TATTTATAATTAATAAT
1 TATTTATAATTAATAAT
61039797 TATTTGATAATTAATAAT
1 TATTT-ATAATTAATAAT
61039815 AAATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TATTTATAATTAATAAT
Found at i:61042427 original size:42 final size:43
Alignment explanation
Indices: 61042305--61042503 Score: 215
Period size: 43 Copynumber: 4.7 Consensus size: 43
61042295 AAAATGTCGT
* * *
61042305 TAAAGACCATGAACTTTAGTGGAGCTTTTTTCGCAAACGCCAC
1 TAAAGACCATGACCTTTAGCGGCGCTTTTTTCGCAAACGCCAC
* *
61042348 TAAAGACCATGACCTTTAGCGGCGC-TTTTCCTGCAAACGCCTC
1 TAAAGACCATGACCTTTAGCGGCGCTTTTTTC-GCAAACGCCAC
* * *
61042391 TAAAGACCATGACC-TTAGCGTCGCTTTTTTCACAAACGCCGC
1 TAAAGACCATGACCTTTAGCGGCGCTTTTTTCGCAAACGCCAC
* ** **
61042433 TAAAGACCATGACCTTTAGCGGCACTTTTCCCGCAAACGCTGC
1 TAAAGACCATGACCTTTAGCGGCGCTTTTTTCGCAAACGCCAC
* * * *
61042476 TATATAACAT-ACCTTTAGCTGCGCTTTT
1 TAAAGACCATGACCTTTAGCGGCGCTTTT
61042504 CCCACAAATG
Statistics
Matches: 133, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
42 53 0.40
43 80 0.60
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (43 bp):
TAAAGACCATGACCTTTAGCGGCGCTTTTTTCGCAAACGCCAC
Found at i:61042449 original size:85 final size:85
Alignment explanation
Indices: 61042305--61042523 Score: 255
Period size: 85 Copynumber: 2.6 Consensus size: 85
61042295 AAAATGTCGT
* * ** * *
61042305 TAAAGACCATGAACTTTAGTGGAGCTTTTTTCGCAAACGCCACTAAAGACCATGACCTTTAGCGG
1 TAAAGACCATG-ACCTTAGCGTCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGG
* *
61042370 CGCTTTTCCTGCAAACGCCT-C
65 CACTTTTCCCGCAAACG-CTGC
61042391 TAAAGACCATGACCTTAGCGTCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGC
1 TAAAGACCATGACCTTAGCGTCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGC
61042456 ACTTTTCCCGCAAACGCTGC
66 ACTTTTCCCGCAAACGCTGC
* * * ** *
61042476 TATATAACAT-ACCTTTAGC-TGCGCTTTTCCCACAAATGCCGCTAAAGA
1 TAAAGACCATGACC-TTAGCGT-CGCTTTTTTCACAAACGCCGCTAAAGA
61042524 ATATAACCTT
Statistics
Matches: 116, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
84 6 0.05
85 99 0.85
86 11 0.09
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (85 bp):
TAAAGACCATGACCTTAGCGTCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGC
ACTTTTCCCGCAAACGCTGC
Found at i:61047601 original size:22 final size:22
Alignment explanation
Indices: 61047571--61047624 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
61047561 CTTAAACCTC
61047571 AACTCTTAAAACAATAACTCATA
1 AACT-TTAAAACAATAACTCATA
*
61047594 AACTTTAAAACAGTAACTCATA
1 AACTTTAAAACAATAACTCATA
*
61047616 AACCTTAAA
1 AACTTTAAA
61047625 CCCTTAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.26
Consensus pattern (22 bp):
AACTTTAAAACAATAACTCATA
Found at i:61047632 original size:22 final size:22
Alignment explanation
Indices: 61047575--61047645 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
61047565 AACCTCAACT
**
61047575 CTTAAAACAATAACTCATAAAC
1 CTTAAAACCTTAACTCATAAAC
* **
61047597 TTTAAAACAGTAACTCATAAAC
1 CTTAAAACCTTAACTCATAAAC
* *
61047619 CTTAAACCCTTAAC-CATATAC
1 CTTAAAACCTTAACTCATAAAC
*
61047640 CCTAAA
1 CTTAAA
61047646 TCGTAAACCC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 11 0.27
22 30 0.73
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.25
Consensus pattern (22 bp):
CTTAAAACCTTAACTCATAAAC
Found at i:61047881 original size:14 final size:15
Alignment explanation
Indices: 61047854--61047891 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
61047844 TTAGACCCCT
* *
61047854 AACCCCTAACCCTTA
1 AACCCATAATCCTTA
61047869 AA-CCATAATCCTTA
1 AACCCATAATCCTTA
61047883 AACCCATAA
1 AACCCATAA
61047892 CCCCTAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCATAATCCTTA
Found at i:61047882 original size:36 final size:36
Alignment explanation
Indices: 61047842--61047942 Score: 130
Period size: 36 Copynumber: 2.8 Consensus size: 36
61047832 AAATCATTGA
* * *
61047842 CCTTAGACCCCTAACCCCTAACCCTTAAACCATAAT
1 CCTTAAACCCATAACCCCTAAACCTTAAACCATAAT
*
61047878 CCTTAAACCCATAACCCCTAAACTTTAAACCATAAT
1 CCTTAAACCCATAACCCCTAAACCTTAAACCATAAT
* * * *
61047914 CCCTAAACCAATAATCCATAAACCTTAAA
1 CCTTAAACCCATAACCCCTAAACCTTAAA
61047943 ATGGTAACTA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.41, C:0.36, G:0.01, T:0.23
Consensus pattern (36 bp):
CCTTAAACCCATAACCCCTAAACCTTAAACCATAAT
Found at i:61047889 original size:15 final size:15
Alignment explanation
Indices: 61047854--61047900 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
61047844 TTAGACCCCT
*
61047854 AACCCCTAACCCTTA
1 AACCCATAACCCTTA
*
61047869 AA-CCATAATCCTTA
1 AACCCATAACCCTTA
*
61047883 AACCCATAACCCCTA
1 AACCCATAACCCTTA
61047898 AAC
1 AAC
61047901 TTTAAACCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAACCCTTA
Found at i:61047910 original size:21 final size:22
Alignment explanation
Indices: 61047880--61047921 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
61047870 ACCATAATCC
61047880 TTAAACCCATAACCCCTAAACT
1 TTAAACCCATAACCCCTAAACT
*
61047902 TTAAA-CCATAATCCCTAAAC
1 TTAAACCCATAACCCCTAAAC
61047922 CAATAATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (22 bp):
TTAAACCCATAACCCCTAAACT
Found at i:61047927 original size:15 final size:14
Alignment explanation
Indices: 61047903--61047937 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
61047893 CCCTAAACTT
*
61047903 TAAACCATAATCCC
1 TAAACCATAATCCA
61047917 TAAACCAATAATCCA
1 TAAACC-ATAATCCA
61047932 TAAACC
1 TAAACC
61047938 TTAAAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:61047996 original size:14 final size:14
Alignment explanation
Indices: 61047954--61048000 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
61047944 TGGTAACTAA
*
61047954 TAAACCTTAAACCC
1 TAAACCATAAACCC
* **
61047968 TTAACCATATGCCC
1 TAAACCATAAACCC
61047982 TAAACCATAAACCC
1 TAAACCATAAACCC
61047996 TAAAC
1 TAAAC
61048001 TATATGATAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.43, C:0.34, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:61049411 original size:41 final size:41
Alignment explanation
Indices: 61049303--61049411 Score: 128
Period size: 41 Copynumber: 2.7 Consensus size: 41
61049293 TCATAAACGT
* * * ***
61049303 CGCTATTGCTTTACCTTTTGTGGCGTTTATGGGAAAAAGGT
1 CGCTATTGCTTTACCTTTTGCGGTGTTTATGAGAAAAACAC
* * *
61049344 CACTACTGCTTTACCTTTAGCGGTGTTTATGAGAAAAACAC
1 CGCTATTGCTTTACCTTTTGCGGTGTTTATGAGAAAAACAC
*
61049385 CGCTATTGCTTTACCTTTTGCAGTGTT
1 CGCTATTGCTTTACCTTTTGCGGTGTT
61049412 CTCAATCCAA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (41 bp):
CGCTATTGCTTTACCTTTTGCGGTGTTTATGAGAAAAACAC
Found at i:61049457 original size:11 final size:12
Alignment explanation
Indices: 61049420--61049459 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
61049410 TTCTCAATCC
*
61049420 AAACGCCACTAA
1 AAACGCCGCTAA
*
61049432 AAATGCCGCTAA
1 AAACGCCGCTAA
61049444 AAACGCCGCTAA
1 AAACGCCGCTAA
61049456 AAAC
1 AAAC
61049460 CTATTTTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.47, C:0.30, G:0.12, T:0.10
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:61050919 original size:22 final size:21
Alignment explanation
Indices: 61050865--61050925 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 21
61050855 GGGCAAAGCA
*
61050865 GCAGAGGGCTGCCGAGGAGAT
1 GCAGAGGGCTGCCGAAGAGAT
*
61050886 GCAGTAGAGGGCTGCCGACAGCGAT
1 GC---AGAGGGCTGCCGA-AGAGAT
*
61050911 GCAGAGGGCTACCGA
1 GCAGAGGGCTGCCGA
61050926 TTTGGGGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.06
22 12 0.36
24 13 0.39
25 6 0.18
ACGTcount: A:0.25, C:0.23, G:0.43, T:0.10
Consensus pattern (21 bp):
GCAGAGGGCTGCCGAAGAGAT
Found at i:61053300 original size:50 final size:46
Alignment explanation
Indices: 61053225--61053348 Score: 128
Period size: 50 Copynumber: 2.6 Consensus size: 46
61053215 TCCATCAAGT
* * *
61053225 CGATGCCATGTCCCAAACATGGTCTTACACCAGTTCTCACATATCCGT-GC
1 CGATGCCATGCCCCAGACAT-GTCTTACACC---TCACACATAT-CGTAGC
* *
61053275 CGATGCCATGCCCCAGACATAGTCTTACA-CTGACACATCTCGTAGC
1 CGATGCCATGCCCCAGACAT-GTCTTACACCTCACACATATCGTAGC
61053321 CGATG-CATGCCCCAGACATGTCTTACAC
1 CGATGCCATGCCCCAGACATGTCTTACAC
61053349 TGGCACACAA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
44 8 0.12
45 17 0.26
46 14 0.21
49 1 0.02
50 26 0.39
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (46 bp):
CGATGCCATGCCCCAGACATGTCTTACACCTCACACATATCGTAGC
Found at i:61055021 original size:40 final size:40
Alignment explanation
Indices: 61054946--61055021 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 40
61054936 TATCCGTAGC
* *
61054946 GTTTGACCAAAAACGCTACTATTGCTCAACTTTTTGTGGT
1 GTTTGACCAAAAACGCCACTATTGCTCAACCTTTTGTGGT
* *
61054986 GTTTGGACCAAAAAGGCCACTATTGCT-TACCTTTTG
1 GTTT-GACCAAAAACGCCACTATTGCTCAACCTTTTG
61055022 CGGCATTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 11 0.35
41 20 0.65
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (40 bp):
GTTTGACCAAAAACGCCACTATTGCTCAACCTTTTGTGGT
Found at i:61055948 original size:7 final size:7
Alignment explanation
Indices: 61055936--61055961 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61055926 ACTATAGACT
61055936 CTAAACC
1 CTAAACC
61055943 CTAAACC
1 CTAAACC
61055950 CTAAACC
1 CTAAACC
61055957 CTAAA
1 CTAAA
61055962 ATAAAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:61056089 original size:21 final size:22
Alignment explanation
Indices: 61056048--61056089 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
61056038 TTGACTTTTT
*
61056048 TTATAATTTTTATATTGAATTA
1 TTATAATTTTTATATTCAATTA
61056070 TTAT-ATTTTTCATA-TCAATT
1 TTATAATTTTT-ATATTCAATT
61056090 TAAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATAATTTTTATATTCAATTA
Found at i:61056866 original size:42 final size:40
Alignment explanation
Indices: 61056813--61056942 Score: 125
Period size: 32 Copynumber: 3.4 Consensus size: 40
61056803 ATGCTTGACT
*
61056813 TTTTGCAGCGTTTTTGCTCATAAGTGCCGCTACAGCTAGACC
1 TTTTGCGGCGTTTTT-CTCATAA-TGCCGCTACAGCTAGACC
61056855 TTTTGCGGCG----T-T--T-ATGCCGCTACAGCTAGACC
1 TTTTGCGGCGTTTTTCTCATAATGCCGCTACAGCTAGACC
* *
61056887 TTTTGCGGCGTTTTTCTCATAAACGCCGCTATAGCTCTA-ACC
1 TTTTGCGGCGTTTTTCTCAT-AATGCCGCTACAG--CTAGACC
61056929 TTTTGCGGCGTTTT
1 TTTTGCGGCGTTTT
61056943 CCGATTAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 22
0.75 0.03 0.22
Matches are distributed among these distances:
32 28 0.38
33 1 0.01
34 1 0.01
36 2 0.03
37 1 0.01
38 1 0.01
39 1 0.01
41 10 0.14
42 26 0.35
43 3 0.04
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTCTCATAATGCCGCTACAGCTAGACC
Found at i:61056874 original size:32 final size:32
Alignment explanation
Indices: 61056837--61056899 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
61056827 TGCTCATAAG
61056837 TGCCGCTACAGCTAGACCTTTTGCGGCGTTTA
1 TGCCGCTACAGCTAGACCTTTTGCGGCGTTTA
61056869 TGCCGCTACAGCTAGACCTTTTGCGGCGTTT
1 TGCCGCTACAGCTAGACCTTTTGCGGCGTTT
61056900 TTCTCATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.14, C:0.29, G:0.25, T:0.32
Consensus pattern (32 bp):
TGCCGCTACAGCTAGACCTTTTGCGGCGTTTA
Found at i:61057389 original size:22 final size:23
Alignment explanation
Indices: 61057342--61057391 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
61057332 AACATAATCA
*
61057342 AAGTGCCAAAATAAATTGCACCG
1 AAGTGCCAAAATAAATCGCACCG
* *
61057365 AAGTGCCATAAT-AATCGCACTG
1 AAGTGCCAAAATAAATCGCACCG
61057387 AAGTG
1 AAGTG
61057392 TGAGTATGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (23 bp):
AAGTGCCAAAATAAATCGCACCG
Found at i:61058391 original size:137 final size:137
Alignment explanation
Indices: 61058145--61058417 Score: 492
Period size: 137 Copynumber: 2.0 Consensus size: 137
61058135 TGATTGTGTC
*
61058145 GTTAGCTATGTATGGTAATCCATTTAAAAAATAGTATTAGTCTACATTCAACAAAGGTATAACCA
1 GTTAGCTATGTATGATAATCCATTTAAAAAATAGTATTAGTCTACATTCAACAAAGGTATAACCA
*
61058210 ATAACCAAGTAAAATTGCATTCTTTACAACTAAGTCTCTTTTTAGCCATAATATCTAAAATGCTT
66 ACAACCAAGTAAAATTGCATTCTTTACAACTAAGTCTCTTTTTAGCCATAATATCTAAAATGCTT
61058275 GTATCTA
131 GTATCTA
*
61058282 GTTAGCTATGTATGATAATCCATTTAAAAAATAGTATTAGTCTACATTCAATAAAGGTATAACCA
1 GTTAGCTATGTATGATAATCCATTTAAAAAATAGTATTAGTCTACATTCAACAAAGGTATAACCA
* *
61058347 ACAACCAAGTAAAATTGCATTCTTTACAACTAAGTCTCTTTTTAGCCTTAGTATCTAAAATGCTT
66 ACAACCAAGTAAAATTGCATTCTTTACAACTAAGTCTCTTTTTAGCCATAATATCTAAAATGCTT
*
61058412 TTATCT
131 GTATCT
61058418 CATTATTTAG
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 130 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (137 bp):
GTTAGCTATGTATGATAATCCATTTAAAAAATAGTATTAGTCTACATTCAACAAAGGTATAACCA
ACAACCAAGTAAAATTGCATTCTTTACAACTAAGTCTCTTTTTAGCCATAATATCTAAAATGCTT
GTATCTA
Found at i:61059873 original size:46 final size:46
Alignment explanation
Indices: 61059823--61059995 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
61059813 TGGTTGAGCA
*
61059823 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * ** *
61059869 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTTACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C-AAACG
* *
61059916 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
61059962 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
61059996 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 62 0.59
47 31 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:61059979 original size:93 final size:93
Alignment explanation
Indices: 61059820--61059990 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
61059810 GGATGGTTGA
* *
61059820 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
61059885 TGAGTCCGAGTTCGTGAGATGTTACTAG
66 TGAGTCCGAGTTCGTGAGATGTTACTAG
* * *
61059913 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
61059978 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
61059991 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTTACTAG
Found at i:61060251 original size:19 final size:20
Alignment explanation
Indices: 61060214--61060251 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
61060204 ATAAGGTGGT
61060214 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
61060234 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
61060252 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:61067453 original size:46 final size:46
Alignment explanation
Indices: 61067403--61067575 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
61067393 TGGTTGAGCA
*
61067403 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
61067449 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
61067496 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
61067542 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
61067576 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:61067559 original size:93 final size:93
Alignment explanation
Indices: 61067400--61067570 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
61067390 GGATGGTTGA
* *
61067400 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
61067465 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
61067493 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
61067558 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
61067571 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61067837 original size:19 final size:20
Alignment explanation
Indices: 61067800--61067837 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
61067790 ATAAGGTGGT
61067800 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
61067820 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
61067838 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:61071206 original size:12 final size:11
Alignment explanation
Indices: 61071185--61071231 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
61071175 AAAAGTTTTT
61071185 AATT-AAAATA
1 AATTAAAAATA
61071195 ATATTAAAAATA
1 A-ATTAAAAATA
*
61071207 AATTAAACATAA
1 AATTAAAAAT-A
*
61071219 AATAAAAAATA
1 AATTAAAAATA
61071230 AA
1 AA
61071232 AAAAACCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 1 0.03
11 14 0.45
12 16 0.52
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (11 bp):
AATTAAAAATA
Found at i:61071514 original size:44 final size:44
Alignment explanation
Indices: 61071465--61071553 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
61071455 GTTCAGAAAG
61071465 AAAAAATTATTTTAATATTATTTTATAATCTATAGTATGATAAT
1 AAAAAATTATTTTAATATTATTTTATAATCTATAGTATGATAAT
61071509 AAAAAATTATTTTAATATTATTTTATAATCTATAGTATGATAAT
1 AAAAAATTATTTTAATATTATTTTATAATCTATAGTATGATAAT
61071553 A
1 A
61071554 GTATTGTGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (44 bp):
AAAAAATTATTTTAATATTATTTTATAATCTATAGTATGATAAT
Found at i:61072964 original size:57 final size:57
Alignment explanation
Indices: 61072886--61073007 Score: 138
Period size: 57 Copynumber: 2.1 Consensus size: 57
61072876 AATCTCTCTC
* * * * * * * * *
61072886 GAGCAAATGTTACAATTAGGATTTATCCTGTACTAGTAATCCTAATTGAGCTCTTTT
1 GAGCATATGTTACAATAAGGATTCAACCTGGACAAGTAATCCTAATTAAGCTCATGT
*
61072943 GAGCATATGTTACAGA-AAGGATTCAACCTGGACAAGTAATCCTAATTAAGTTCATGT
1 GAGCATATGTTACA-ATAAGGATTCAACCTGGACAAGTAATCCTAATTAAGCTCATGT
61073000 GAGCATAT
1 GAGCATAT
61073008 ATTGGAGACA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 53 0.98
58 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (57 bp):
GAGCATATGTTACAATAAGGATTCAACCTGGACAAGTAATCCTAATTAAGCTCATGT
Found at i:61073030 original size:57 final size:57
Alignment explanation
Indices: 61072903--61073032 Score: 143
Period size: 57 Copynumber: 2.3 Consensus size: 57
61072893 TGTTACAATT
* * * * * * *
61072903 AGGATTTATCCTGTACTAGTAATCCTAATTGAGCTCTTTTGAGCATATGTTACAGAA
1 AGGATTTAACCTGGACAAGTAATCCTAATTAAGCTCATGTGAGCATATATTACAGAA
* * ** *
61072960 AGGATTCAACCTGGACAAGTAATCCTAATTAAGTTCATGTGAGCATATATTGGAGAC
1 AGGATTTAACCTGGACAAGTAATCCTAATTAAGCTCATGTGAGCATATATTACAGAA
*
61073017 AGGATTTAGCCTGGAC
1 AGGATTTAACCTGGAC
61073033 TGATAACCCT
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (57 bp):
AGGATTTAACCTGGACAAGTAATCCTAATTAAGCTCATGTGAGCATATATTACAGAA
Found at i:61074564 original size:22 final size:22
Alignment explanation
Indices: 61074514--61074564 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
61074504 TGCAACACGC
*
61074514 GCGTGTCCCTTGAACCACACAG
1 GCGTGTGCCTTGAACCACACAG
*
61074536 GCGTGTGCCTTGGACCACACAG
1 GCGTGTGCCTTGAACCACACAG
61074558 GCGTGTG
1 GCGTGTG
61074565 AGCCCTGCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.20
Consensus pattern (22 bp):
GCGTGTGCCTTGAACCACACAG
Found at i:61075772 original size:52 final size:52
Alignment explanation
Indices: 61075714--61075817 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
61075704 ATTCATATGA
* *
61075714 TACTATTTTCTACTTCTACTGATTGAAGCCCTGAATTGCGAATATGCAAATT
1 TACTATTTTCTACTTCTACTAATTGAAGCCCTGAATTGCGAATATACAAATT
61075766 TACTATTTTCTACTTCTACTAATTGAAGCCCTGAATTGCGAATATACAAATT
1 TACTATTTTCTACTTCTACTAATTGAAGCCCTGAATTGCGAATATACAAATT
61075818 AAATTGTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (52 bp):
TACTATTTTCTACTTCTACTAATTGAAGCCCTGAATTGCGAATATACAAATT
Found at i:61082644 original size:27 final size:27
Alignment explanation
Indices: 61082614--61082791 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61082604 ATATTGAGTC
* * * *
61082614 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61082641 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61082668 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61082696 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61082723 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61082750 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61082777 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61082792 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61082753 original size:82 final size:81
Alignment explanation
Indices: 61082635--61082790 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61082625 TGCTATATAA
* *
61082635 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61082700 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61082717 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61082781 CACTTAGTGC
65 CACTTAGTGC
61082791 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61089146 original size:40 final size:40
Alignment explanation
Indices: 61089075--61089298 Score: 335
Period size: 40 Copynumber: 5.6 Consensus size: 40
61089065 TATCTAGCAC
* * * *
61089075 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCATGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
61089114 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
* *
61089154 AGCCTACAGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
* * *
61089194 AGCCTGCGGGTCTTTAGGCTCGGATACAATTCCAGCACAA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
*
61089234 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
61089274 AGCCTGCGGGTCTTTAAGCCCGGAT
1 AGCCTGCGGGTCTTTAAGCCCGGAT
61089299 TGTTTTTATC
Statistics
Matches: 168, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.10
40 152 0.90
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:61094760 original size:57 final size:57
Alignment explanation
Indices: 61094577--61094774 Score: 181
Period size: 57 Copynumber: 3.5 Consensus size: 57
61094567 CATTATAGAT
* * ** * * *
61094577 AGGATTTAGCCCGGACAGGTAATCCTGATATAATCTC-TCTCGAGCATATGTTACA-ATT
1 AGGATTCAGCCTGGACTTGTAATCCTAAT-TAAGCTCTTCT-GAGCATATGTTACAGA-A
*
61094635 AGGATTTA-CCTTGGAC-TGATAATCCTAATTAAGCTCTTCTGAGCATATGTTACAGAA
1 AGGATTCAGCC-TGGACTTG-TAATCCTAATTAAGCTCTTCTGAGCATATGTTACAGAA
* ** *
61094692 AGGATTCAGCCTGGACTTGTAATCCTAATTAAGCTCTTTTGAGCATATGTTGGAGAC
1 AGGATTCAGCCTGGACTTGTAATCCTAATTAAGCTCTTCTGAGCATATGTTACAGAA
* *
61094749 AGGAATT-AGCCTGAACTGGTAATCCT
1 AGG-ATTCAGCCTGGACTTGTAATCCT
61094775 GTTATATTAT
Statistics
Matches: 121, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
57 89 0.74
58 32 0.26
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (57 bp):
AGGATTCAGCCTGGACTTGTAATCCTAATTAAGCTCTTCTGAGCATATGTTACAGAA
Found at i:61097751 original size:26 final size:26
Alignment explanation
Indices: 61097722--61097802 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
61097712 ATTTACACGA
61097722 AATGGTTATATAAAGTATATATATGG
1 AATGGTTATATAAAGTATATATATGG
* * **
61097748 AATGATTATATGAA-TCAGGTATATGG
1 AATGGTTATATAAAGT-ATATATATGG
* * *
61097774 AAAATAGTTATATAAAGTGTTTATATGG
1 --AATGGTTATATAAAGTATATATATGG
61097802 A
1 A
61097803 GTGTTGATAT
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
25 1 0.02
26 21 0.51
28 18 0.44
29 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.20, T:0.37
Consensus pattern (26 bp):
AATGGTTATATAAAGTATATATATGG
Found at i:61099575 original size:26 final size:26
Alignment explanation
Indices: 61099546--61099600 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
61099536 GGATACCTGG
*
61099546 GTAATTACTCCTCATCATGGAGCATT
1 GTAATTACTCCTCACCATGGAGCATT
61099572 GTAATTACTCCTCACCATGGAGCATT
1 GTAATTACTCCTCACCATGGAGCATT
61099598 GTA
1 GTA
61099601 GTGTTGAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (26 bp):
GTAATTACTCCTCACCATGGAGCATT
Found at i:61099651 original size:16 final size:16
Alignment explanation
Indices: 61099630--61099665 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
61099620 AAAATGCAAA
61099630 CAAAGGCAT-CGAAATG
1 CAAAGG-ATCCGAAATG
61099646 CAAAGGATCCGAAATG
1 CAAAGGATCCGAAATG
61099662 CAAA
1 CAAA
61099666 TAGTGGCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.11
Consensus pattern (16 bp):
CAAAGGATCCGAAATG
Found at i:61099693 original size:20 final size:20
Alignment explanation
Indices: 61099670--61099753 Score: 98
Period size: 20 Copynumber: 4.2 Consensus size: 20
61099660 TGCAAATAGT
* *
61099670 GGCAAGAAAGTGCAATCAGA
1 GGCATGAAAGTGCAATCAGG
* *
61099690 GGCACCG-AAGTGCAATAAGG
1 GGCA-TGAAAGTGCAATCAGG
*
61099710 GGCATGAAAGTGCAATTAGG
1 GGCATGAAAGTGCAATCAGG
*
61099730 GGCATGAAAGTGCAATCAAG
1 GGCATGAAAGTGCAATCAGG
61099750 GGCA
1 GGCA
61099754 CCATAGTGCA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.02
20 53 0.96
21 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.33, T:0.13
Consensus pattern (20 bp):
GGCATGAAAGTGCAATCAGG
Done.