Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 117 of 444
Found at i:29923212 original size:15 final size:15
Alignment explanation
Indices: 29923192--29923222 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
29923182 AAGAAGATAT
29923192 GTGAGTCTAGTTTCA
1 GTGAGTCTAGTTTCA
29923207 GTGAGTCTAGTTTCA
1 GTGAGTCTAGTTTCA
29923222 G
1 G
29923223 CCAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.29, T:0.39
Consensus pattern (15 bp):
GTGAGTCTAGTTTCA
Found at i:29923639 original size:21 final size:21
Alignment explanation
Indices: 29923613--29923668 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
29923603 AACAGCGGTG
* *
29923613 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTATA
*
29923634 GCGGTGAGATTGGATACTATA
1 GCGGTGAGATTAGATACTATA
29923655 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
29923669 AACAATGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTATA
Found at i:29939761 original size:43 final size:42
Alignment explanation
Indices: 29939713--29939819 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
29939703 GCATCCATTG
* * *
29939713 TGAACTCGAACCACTCAACGAGCTCAGATGCTCACATTTATAA
1 TGAACTCGGACCACTCAACGAGATCAGATGC-CACATATATAA
* *
29939756 TGAACTCGGACCACTCAACGAGATCGGATGCCACATATATCA
1 TGAACTCGGACCACTCAACGAGATCAGATGCCACATATATAA
* * *
29939798 TAAACCCGGACCATTCAACGAG
1 TGAACTCGGACCACTCAACGAG
29939820 TTTGGACTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.20
Consensus pattern (42 bp):
TGAACTCGGACCACTCAACGAGATCAGATGCCACATATATAA
Found at i:29943558 original size:6 final size:7
Alignment explanation
Indices: 29943540--29943564 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29943530 TAGTACTTCC
29943540 CTTTTTT
1 CTTTTTT
29943547 CTTTTTT
1 CTTTTTT
29943554 CTTTTTT
1 CTTTTTT
29943561 CTTT
1 CTTT
29943565 CCTTTATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
CTTTTTT
Found at i:29943862 original size:214 final size:218
Alignment explanation
Indices: 29943468--29943904 Score: 731
Period size: 214 Copynumber: 2.0 Consensus size: 218
29943458 ACTATTTTGC
*
29943468 CCTTGACTTTCTCTACAATGTCATTTTTGATTCATGACATTTTCTTGGTATAATTACACTCCTAG
1 CCTTGACTTTCTCTACAATGTCATTCTTGATTCATGACATTTTCTTGGTATAATTACACTCCTAG
*
29943533 TACTTCCCTTTTTTCTTTTTTCTTTTTTCTTTCCTTTATTTCCCTTTTATTTTTGTTGCCCAAAG
66 TACTTCAC-----TCTTTTTTCTTTTTTCTTTCCTTTATTTCCCTTTTATTTTTGTTGCCCAAAG
* *
29943598 CTGATGCCTTCAACCTTCCAATTATTTAGAAAATTCTACACTTTTCCTTTTTTTTTTTCATTTTA
126 CTGATGCCTTCAACCTTCCAATTATTTAGAAAAATCTACACTTTTCCTTTTTCTTTTTCATTTTA
29943663 GTCCATTTATTCCATCATCCAATCAAAT
191 GTCCATTTATTCCATCATCCAATCAAAT
*
29943691 CCTTGACTTTCTTTAC-ATGTCATTCTTGATTCATGACATTTTCTTGGTATAATTACACTCCTAG
1 CCTTGACTTTCTCTACAATGTCATTCTTGATTCATGACATTTTCTTGGTATAATTACACTCCTAG
*
29943755 T-CATT-AC-C-TTTTTCTTTTTTCTTTCCTTTATTTCCCTTTTATTTTTGTTGCCCCAAGCTGA
66 TAC-TTCACTCTTTTTTCTTTTTTCTTTCCTTTATTTCCCTTTTATTTTTGTTGCCCAAAGCTGA
29943816 TGCCTTCAACCTTCCAATTATTTAGAAAAATCTACACTTTTCCTTTTTCTTTTTCATTTTAGTCC
130 TGCCTTCAACCTTCCAATTATTTAGAAAAATCTACACTTTTCCTTTTTCTTTTTCATTTTAGTCC
29943881 ATTTATTCCATCATCCAATCAAAT
195 ATTTATTCCATCATCCAATCAAAT
29943905 TTCAACACTT
Statistics
Matches: 207, Mismatches: 6, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
214 139 0.67
215 1 0.00
221 2 0.01
222 50 0.24
223 15 0.07
ACGTcount: A:0.21, C:0.23, G:0.06, T:0.50
Consensus pattern (218 bp):
CCTTGACTTTCTCTACAATGTCATTCTTGATTCATGACATTTTCTTGGTATAATTACACTCCTAG
TACTTCACTCTTTTTTCTTTTTTCTTTCCTTTATTTCCCTTTTATTTTTGTTGCCCAAAGCTGAT
GCCTTCAACCTTCCAATTATTTAGAAAAATCTACACTTTTCCTTTTTCTTTTTCATTTTAGTCCA
TTTATTCCATCATCCAATCAAAT
Found at i:29948145 original size:43 final size:43
Alignment explanation
Indices: 29948098--29948192 Score: 181
Period size: 43 Copynumber: 2.2 Consensus size: 43
29948088 TCCCAGATAT
29948098 GGTCTTACATATTATCACATATCAATGCCACTGTCCCAAACAG
1 GGTCTTACATATTATCACATATCAATGCCACTGTCCCAAACAG
*
29948141 GGTCTTACATATTATCACATATCGATGCCACTGTCCCAAACAG
1 GGTCTTACATATTATCACATATCAATGCCACTGTCCCAAACAG
29948184 GGTCTTACA
1 GGTCTTACA
29948193 CGAAATCGAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (43 bp):
GGTCTTACATATTATCACATATCAATGCCACTGTCCCAAACAG
Found at i:29948287 original size:43 final size:42
Alignment explanation
Indices: 29948076--29948291 Score: 129
Period size: 43 Copynumber: 5.0 Consensus size: 42
29948066 CATAAGCTCG
* * * *
29948076 TACAATGCC-ATATCCCAGATATGGTCTTACAT-ATTATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATCAATCTCA-A
* * * * *
29948117 TATCAATGCCACTGTCCCAAACAGGGTCTTACAT-ATTATCACA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATCAATCTCA-A
* * * * * *
29948160 TATCGATGCCACTGTCCCAAACAGGGTCTTACA-CGAAATC-GAT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATC--AATCTCAA
* * * *
29948203 TAACGATGCCAGTGTCTCGGACATGGTCTTACA-CGTAATCTCAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACATC--AATCTCAA
29948247 TACAATGCCAATGTCCCAGACATGGTCTTACATCACATCTCAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATCA-ATCTCAA
29948290 TA
1 TA
29948292 ACCTAATGTC
Statistics
Matches: 144, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.01
42 8 0.06
43 127 0.88
44 5 0.03
45 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATCAATCTCAA
Found at i:29955535 original size:27 final size:25
Alignment explanation
Indices: 29955496--29955594 Score: 83
Period size: 27 Copynumber: 3.8 Consensus size: 25
29955486 TAAGACCCCA
*
29955496 GTTTGTCAAATTACCAAAATACTCCT
1 GTTTGTAAAATTACCAAAATAC-CCT
**
29955522 GATTTGTAAAATTACTGAAA-ACCCT
1 G-TTTGTAAAATTACCAAAATACCCT
* * *
29955547 GGTTTGTAAAATTATCGAATTACCCTT
1 -GTTTGTAAAATTACCAAAATACCC-T
*
29955574 GTAGTGTAAAATTACCAAAAT
1 GT-TTGTAAAATTACCAAAAT
29955595 GCACCTGTAG
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
25 18 0.31
26 10 0.17
27 30 0.52
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (25 bp):
GTTTGTAAAATTACCAAAATACCCT
Found at i:29959179 original size:26 final size:27
Alignment explanation
Indices: 29959103--29959179 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
29959093 TTAAGACCTC
*
29959103 AGTTTGTAAAATTACCGAAATACCCTT
1 AGTTTGTAAAATTACTGAAATACCCTT
* *
29959130 AATTTGTAAAATTACTAAAATACCC-T
1 AGTTTGTAAAATTACTGAAATACCCTT
* * *
29959156 GGTTTGTAAAATTATTGAATTACC
1 AGTTTGTAAAATTACTGAAATACC
29959180 ATTGTAGCGT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.36
Consensus pattern (27 bp):
AGTTTGTAAAATTACTGAAATACCCTT
Found at i:29960258 original size:40 final size:41
Alignment explanation
Indices: 29960197--29960373 Score: 175
Period size: 40 Copynumber: 4.4 Consensus size: 41
29960187 AGCCTACGGA
* * * *
29960197 TCTTT-AATCCGGATTCCATTCCAGTACGA-AACCTGCGGG
1 TCTTTAAACCCGGATACAATTCCAGCACGATAACCTGCGGG
* * *
29960236 TCTTTAAACCCGGATACAATTCCATCA-TATAGCCTGCGGG
1 TCTTTAAACCCGGATACAATTCCAGCACGATAACCTGCGGG
* * * *
29960276 TCTTTAAACTCGGATACAACTCCAGCA-TATAGCCTGCGGG
1 TCTTTAAACCCGGATACAATTCCAGCACGATAACCTGCGGG
* * *
29960316 TCTTTAAATCCGGATACTATTCCAGCACGA-AGCCTGCGGG
1 TCTTTAAACCCGGATACAATTCCAGCACGATAACCTGCGGG
* *
29960356 TCTTTAAGCCTGGATACA
1 TCTTTAAACCCGGATACA
29960374 CACATCAAAT
Statistics
Matches: 116, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
39 6 0.05
40 109 0.94
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (41 bp):
TCTTTAAACCCGGATACAATTCCAGCACGATAACCTGCGGG
Found at i:29963555 original size:17 final size:18
Alignment explanation
Indices: 29963533--29963573 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
29963523 TTTTACTCAA
* *
29963533 GTTTTCAAATAAGA-AGG
1 GTTTTCAAAGAAAACAGG
29963550 GTTTTCAAAGAAAACAGG
1 GTTTTCAAAGAAAACAGG
29963568 GTTTTC
1 GTTTTC
29963574 GAAAAACACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (18 bp):
GTTTTCAAAGAAAACAGG
Found at i:29968281 original size:40 final size:40
Alignment explanation
Indices: 29968206--29968322 Score: 146
Period size: 40 Copynumber: 2.9 Consensus size: 40
29968196 ATGAAGCTTA
* * * * *
29968206 TAATTTTAGTTTAATAATTGAGTTGTTGGATTTTATTAAAC
1 TAATCTTAG-TTAATTATTGATTTGCTGGACTTTATTAAAC
*
29968247 TAATCTTAGTTAATTCTTGATTTGCTGGACTTTATTAAAC
1 TAATCTTAGTTAATTATTGATTTGCTGGACTTTATTAAAC
*
29968287 TCATCTTAGTTAATTATTGATTTGCAT-GACTTTATT
1 TAATCTTAGTTAATTATTGATTTGC-TGGACTTTATT
29968323 TTTATTATAT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 58 0.87
41 9 0.13
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (40 bp):
TAATCTTAGTTAATTATTGATTTGCTGGACTTTATTAAAC
Found at i:29970498 original size:17 final size:17
Alignment explanation
Indices: 29970476--29970521 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
29970466 AAATTGAAAG
29970476 AAGAAAAAGAGATATGA
1 AAGAAAAAGAGATATGA
*
29970493 AAGAAAAAGA-AAATGA
1 AAGAAAAAGAGATATGA
* *
29970509 AAAAAAAAAAGAT
1 AAGAAAAAGAGAT
29970522 TGTGAGAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (17 bp):
AAGAAAAAGAGATATGA
Found at i:29970508 original size:16 final size:17
Alignment explanation
Indices: 29970476--29970515 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
29970466 AAATTGAAAG
*
29970476 AAGAAAAAGAGATATGA
1 AAGAAAAAGAGAAATGA
29970493 AAGAAAAAGA-AAATGA
1 AAGAAAAAGAGAAATGA
29970509 AA-AAAAA
1 AAGAAAAA
29970516 AAAGATTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.23
16 7 0.32
17 10 0.45
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.07
Consensus pattern (17 bp):
AAGAAAAAGAGAAATGA
Found at i:29970535 original size:18 final size:18
Alignment explanation
Indices: 29970491--29970550 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
29970481 AAAGAGATAT
29970491 GAAAGAAAAAGAAAATGA
1 GAAAGAAAAAGAAAATGA
* * ***
29970509 AAAAAAAAAAGATTGTGA
1 GAAAGAAAAAGAAAATGA
29970527 GAAAG-AAAAGAAAATTGA
1 GAAAGAAAAAGAAAA-TGA
29970545 -AAAGAA
1 GAAAGAA
29970551 GAGTGAGTTG
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
17 10 0.33
18 20 0.67
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (18 bp):
GAAAGAAAAAGAAAATGA
Found at i:29972982 original size:46 final size:46
Alignment explanation
Indices: 29972915--29973086 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
29972905 AACCCACCCC
*
29972915 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
29972961 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
29973009 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
29973054 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
29973087 ATGCTCAAAC
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 59 0.56
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:29973027 original size:93 final size:93
Alignment explanation
Indices: 29972920--29973090 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
29972910 ACCCCTAAGT
* *
29972920 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29972985 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
29973013 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29973078 CGAGTTCGGATGC
66 CGAGTTCGGATGC
29973091 TCAAACTATC
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:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:29974672 original size:39 final size:39
Alignment explanation
Indices: 29974549--29974700 Score: 227
Period size: 39 Copynumber: 3.9 Consensus size: 39
29974539 TATGGTAACC
* *
29974549 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
29974589 CGCACAATTGCCTTCGGGCTTA-CCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
29974627 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
29974666 AC-CACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 -CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
29974701 TCGAACATTC
Statistics
Matches: 104, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
38 36 0.35
39 50 0.48
40 18 0.17
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:29974675 original size:77 final size:79
Alignment explanation
Indices: 29974549--29974699 Score: 245
Period size: 77 Copynumber: 1.9 Consensus size: 79
29974539 TATGGTAACC
29974549 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTA-CC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
29974613 CGGATATCATAGCT
66 CGGATATCATAGCT
* * *
29974627 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTAC-CACAATTGCCTTCGGGCTTAGC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT-CGCACAATTGCCTTCGGGCTTAGC
29974690 CCGGATATCA
65 CCGGATATCA
29974700 CTCGAACATT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
77 39 0.57
78 29 0.43
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:29975946 original size:30 final size:30
Alignment explanation
Indices: 29975912--29975971 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
29975902 ATTTAATACG
29975912 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
29975942 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
29975972 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:29983015 original size:93 final size:93
Alignment explanation
Indices: 29982908--29983078 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
29982898 GCCCCTAAGT
* *
29982908 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29982973 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
29983001 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29983066 CGAGTTCGGATGC
66 CGAGTTCGGATGC
29983079 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:29983075 original size:46 final size:46
Alignment explanation
Indices: 29982903--29983075 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
29982893 AACCCGCCCC
* * *
29982903 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
29982949 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
29982997 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29983042 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29983076 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:29983532 original size:30 final size:30
Alignment explanation
Indices: 29983498--29983557 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
29983488 ATTTAATACG
29983498 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
29983528 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
29983558 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:29991036 original size:30 final size:30
Alignment explanation
Indices: 29991002--29991061 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
29990992 ATTTAATACG
29991002 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
29991032 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
29991062 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:29992583 original size:40 final size:40
Alignment explanation
Indices: 29992539--29992633 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
29992529 AATAATTGAG
*
29992539 TTGCTGGACTTTATTAAACTCATCTTAGTTAATTCTTAAT
1 TTGCTAGACTTTATTAAACTCATCTTAGTTAATTCTTAAT
* * *
29992579 TTGCTAGATTTTATTAAACTCATCTTAGTTAATTTTTTAT
1 TTGCTAGACTTTATTAAACTCATCTTAGTTAATTCTTAAT
*
29992619 CTGCTAGACTTTATT
1 TTGCTAGACTTTATT
29992634 TTTATTACAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.51
Consensus pattern (40 bp):
TTGCTAGACTTTATTAAACTCATCTTAGTTAATTCTTAAT
Found at i:29995363 original size:56 final size:56
Alignment explanation
Indices: 29994935--29995354 Score: 576
Period size: 56 Copynumber: 7.5 Consensus size: 56
29994925 ATTCGATTTT
* ** * *
29994935 TTGGCACCGATATGTGATTTTG--ATGTGTGTGCGAGTAAGACCACATTTAATAAG
1 TTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACG
* * * *
29994989 TTGGCATTGATATGTGATACAGATATGTGTGTGCGAGTAAGGCCACGTTTAATACG
1 TTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACG
* ** *
29995045 TTGGCATCAATATGTGATTCTAATATGTGTGTGCGAGTAAGACCACGTTTCATACG
1 TTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACG
* * *
29995101 TTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACATTTAATAAG
1 TTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACG
** *
29995157 TTGGCATCGATATGTGATTTTGATATGTGTGTACGAGTAAGACCACGTTTAATACG
1 TTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACG
* *
29995213 TTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACATTTAATAAG
1 TTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACG
** *
29995269 TTGGCATCGA-ACTGTGATTTTGATATGTGTGTACGAGTAAGACCACGTTTAATACG
1 TTGGCATCGATA-TGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACG
* *
29995325 TTGGCATCGATATGTAATTCCGTTATGTGT
1 TTGGCATCGATATGTGATTCCGATATGTGT
29995355 TTATGAGTAG
Statistics
Matches: 320, Mismatches: 42, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
54 17 0.05
55 1 0.00
56 301 0.94
57 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (56 bp):
TTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACG
Found at i:29995390 original size:112 final size:112
Alignment explanation
Indices: 29994935--29995354 Score: 648
Period size: 112 Copynumber: 3.8 Consensus size: 112
29994925 ATTCGATTTT
* * * * *
29994935 TTGGCACCGATATGTGATTTTG--ATGTGTGTGCGAGTAAGACCACATTTAATAAGTTGGCATTG
1 TTGGCATCGATATGTGATTTTGATATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCG
* * * * *
29994998 ATATGTGATACAGATATGTGTGTGCGAGTAAGGCCACGTTTAATACG
66 ATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACATTTAATAAG
* * * * *
29995045 TTGGCATCAATATGTGATTCTAATATGTGTGTGCGAGTAAGACCACGTTTCATACGTTGGCATCG
1 TTGGCATCGATATGTGATTTTGATATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCG
*
29995110 ATATGTGATTCCGATATATGTGTGCGAGTAAGACCACATTTAATAAG
66 ATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACATTTAATAAG
29995157 TTGGCATCGATATGTGATTTTGATATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCG
1 TTGGCATCGATATGTGATTTTGATATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCG
29995222 ATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACATTTAATAAG
66 ATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACATTTAATAAG
29995269 TTGGCATCGA-ACTGTGATTTTGATATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATC
1 TTGGCATCGATA-TGTGATTTTGATATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATC
* *
29995333 GATATGTAATTCCGTTATGTGT
65 GATATGTGATTCCGATATGTGT
29995355 TTATGAGTAG
Statistics
Matches: 285, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
110 18 0.06
111 1 0.00
112 266 0.93
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (112 bp):
TTGGCATCGATATGTGATTTTGATATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCG
ATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACATTTAATAAG
Found at i:29995956 original size:29 final size:29
Alignment explanation
Indices: 29995914--29995973 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
29995904 CTTTTATTTG
*
29995914 CTTATGACTTACTAAGTTGTGATAGCTTA
1 CTTATGACTTACTAAGCTGTGATAGCTTA
29995943 CTTATGACTTACTAAGCTGTGATAGCTTA
1 CTTATGACTTACTAAGCTGTGATAGCTTA
29995972 CT
1 CT
29995974 GTGTCTGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (29 bp):
CTTATGACTTACTAAGCTGTGATAGCTTA
Found at i:29998287 original size:32 final size:34
Alignment explanation
Indices: 29998251--29998315 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
29998241 TAACAGTGGT
*
29998251 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
29998283 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
29998316 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:30000172 original size:26 final size:26
Alignment explanation
Indices: 30000142--30000197 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
30000132 TGAAATTCCC
30000142 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30000168 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30000194 ATCA
1 ATCA
30000198 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30005245 original size:32 final size:33
Alignment explanation
Indices: 30005209--30005272 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
30005199 TAACAGTGGT
*
30005209 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGG-CCAGAGCCCCTTATTCAGATAACAATAA
**
30005241 ACTGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGCCAGAGCCCCTTATTCAGATAACAATA
30005273 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 4 0.15
32 10 0.37
33 13 0.48
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (33 bp):
ACTGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:30007136 original size:26 final size:26
Alignment explanation
Indices: 30007106--30007213 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
30007096 TAAAATTCCC
30007106 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30007132 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
30007158 ATCATGAAACATTTGCCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30007184 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30007210 ATCA
1 ATCA
30007214 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30011256 original size:33 final size:33
Alignment explanation
Indices: 30011218--30011284 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
30011208 TGTGTGAGTA
*
30011218 AGACCACGTTTAATAAATTGGCGTCGATATGTG
1 AGACCACGTTTAATAAATTGGCATCGATATGTG
**
30011251 AGACCACGTTTAATACGTTGGCATCGATATGTG
1 AGACCACGTTTAATAAATTGGCATCGATATGTG
30011284 A
1 A
30011285 TTTCGATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (33 bp):
AGACCACGTTTAATAAATTGGCATCGATATGTG
Found at i:30013693 original size:43 final size:43
Alignment explanation
Indices: 30013631--30013755 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
30013621 GTACAATGCG
* *
30013631 ATGTCCCAGATATGGTCTTACATGTTATCACATATCGATGCCA
1 ATGTCCCAGACATGGTCTTACATGTAATCACATATCGATGCCA
* * *** * *
30013674 CTGTCCCAGACAGGGTCTTACACAAAATCA-ATTAACAATGCCA
1 ATGTCCCAGACATGGTCTTACATGTAATCACA-TATCGATGCCA
* *
30013717 ATGTCTCAGACATGGTCTTACATGTAATCACATCTCGAT
1 ATGTCCCAGACATGGTCTTACATGTAATCACATATCGAT
30013756 AACCTAATGT
Statistics
Matches: 62, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
42 1 0.02
43 60 0.97
44 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGTCCCAGACATGGTCTTACATGTAATCACATATCGATGCCA
Found at i:30026152 original size:27 final size:27
Alignment explanation
Indices: 30026121--30026182 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
30026111 TTTTACTAAA
*
30026121 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATGACCATT
* *
30026148 TTACCCCT-AGGTGCAAAATGACCATT
1 ATACCCCTAAGATGCAAAATGACCATT
30026174 ATACCCCTA
1 ATACCCCTA
30026183 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATGACCATT
Found at i:30028529 original size:13 final size:14
Alignment explanation
Indices: 30028513--30028548 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
30028503 CAATCTCATA
30028513 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
30028526 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
30028539 TCTC-ATTTCA
1 TCTCAATTTCA
30028549 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:30028538 original size:18 final size:19
Alignment explanation
Indices: 30028500--30028540 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
30028490 TGGTTCATGT
30028500 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
30028519 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
30028537 TTTC
1 TTTC
30028541 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:30030393 original size:14 final size:15
Alignment explanation
Indices: 30030379--30030425 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
30030369 ACTTATTTAT
30030379 ATAATATAATATATA
1 ATAATATAATATATA
*
30030394 ATATACATAATATAATA
1 ATA-ATATAATAT-ATA
*
30030411 ATAATTTAATATATA
1 ATAATATAATATATA
30030426 TTTTAACACA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 6 0.22
16 15 0.56
17 6 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAATATAATATATA
Found at i:30031345 original size:42 final size:42
Alignment explanation
Indices: 30031280--30031374 Score: 172
Period size: 42 Copynumber: 2.3 Consensus size: 42
30031270 ACAAGAGTTT
*
30031280 TCACACGGCCATACGCACCCCCGTGTCAATGGCCCGTGTCCC
1 TCACACGGCCATACACACCCCCGTGTCAATGGCCCGTGTCCC
*
30031322 TCACACGGCCATACACACGCCCGTGTCAATGGCCCGTGTCCC
1 TCACACGGCCATACACACCCCCGTGTCAATGGCCCGTGTCCC
30031364 TCACACGGCCA
1 TCACACGGCCA
30031375 CGACATGCCC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.19, C:0.44, G:0.21, T:0.16
Consensus pattern (42 bp):
TCACACGGCCATACACACCCCCGTGTCAATGGCCCGTGTCCC
Found at i:30032550 original size:46 final size:47
Alignment explanation
Indices: 30032316--30032677 Score: 216
Period size: 46 Copynumber: 7.7 Consensus size: 47
30032306 AGGGTATAAT
* *
30032316 GCCGATGCCATGTCCCAGACATAGTCTTACACTGGC-T-CATTCATC-AA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACA-TC-TCGAG
* * * * * *
30032363 GTCGATGCCAAGTCCCAAACAT-GTTTTACACTGACTATCGAAAT-T-GAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-T--ACATCTCGAG
* * * * * *
30032411 GCCAACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATGTCCAT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCTCGAG
* *
30032461 GCTGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCG-AG
*
30032507 GCCGATGCATGTCCCAAACAT-GTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
* * * *
30032553 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGAAC-T-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGGTCTTACACT-G-GCTTACATCTCGAG
* * * *
30032599 GCCGATGCCATGTCCCAGATATGGTCATACACTGGCTCT-CATAATC-TG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAG
**
30032647 GCCGATGCATGTCTTAGACAT-GTCTTACACT
1 GCCGATGCATGTCCCAGACATGGTCTTACACT
30032678 AGCTCACACA
Statistics
Matches: 249, Mismatches: 46, Indels: 41
0.74 0.14 0.12
Matches are distributed among these distances:
44 12 0.05
45 14 0.06
46 84 0.34
47 47 0.19
48 43 0.17
49 15 0.06
50 33 0.13
51 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
Found at i:30032596 original size:145 final size:140
Alignment explanation
Indices: 30032318--30032632 Score: 326
Period size: 145 Copynumber: 2.2 Consensus size: 140
30032308 GGTATAATGC
* * * *
30032318 CGATGCCATGTCCCAGACATAGTCTTACACTGGCTCATTCATCAAGTCGATGCCAAGTCCCAAAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATTCATCAAGCCGATGCCAAGTCCCAAAC
*
30032383 ATGTTTTACACTGACTATCGAAATTGAGGCCAACGCCATGTCCCAGACATGGTCTTACACTAGCT
66 ATGTCTTACACTGACTATC-AAATTGAGGCCAACGCCATGTCCCAGACATGGTCTTACACTAGCT
30032448 CTCACATGTCCATG
130 CTCA-ATG--CATG
* *
30032462 CTGATGCCATGTCCCAGACATGGTCTTACACTGACACA-TC-TCGTAGCCGATG-CATGTCCCAA
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGACACATTCATC-AAGCCGATGCCAAGTCCCAA
* * * *
30032524 ACATGTCTTACACTGGCT-T-ACATCTCGAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTA
64 ACATGTCTTACACTGACTATCAAAT-T-GAGGCCAACGCCATGTCCCAGACATGGTCTTACACTA
30032585 GAACTCGTC--T-CAATG
127 G--CTC-TCAATGC-ATG
* *
30032600 CCGATGCCATGTCCCAGATATGGTCATACACTG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTG
30032633 GCTCTCATAA
Statistics
Matches: 149, Mismatches: 13, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
137 1 0.01
138 32 0.21
139 1 0.01
140 16 0.11
141 15 0.10
142 12 0.08
143 29 0.19
144 10 0.07
145 33 0.22
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (140 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACATTCATCAAGCCGATGCCAAGTCCCAAAC
ATGTCTTACACTGACTATCAAATTGAGGCCAACGCCATGTCCCAGACATGGTCTTACACTAGCTC
TCAATGCATG
Found at i:30032630 original size:94 final size:93
Alignment explanation
Indices: 30032316--30032679 Score: 298
Period size: 94 Copynumber: 3.9 Consensus size: 93
30032306 AGGGTATAAT
* * * * *
30032316 GCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTC-A-TTCATCAAGTCGATGCCAAGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCAGGCCGATG-CATGTCCC
* * * **
30032379 AAACATGTTTTACACT-GAC-TATCGAAATTGA
64 AGACATGTCTTACACTAGACACATC-TCA-T-A
* * * * * *
30032410 GGCCAACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATGTCCATGCTGATGCCATGTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATAT-CAGGCCGATG-CATGTC
*
30032475 CCAGACATGGTCTTACACT-GACACATCTCGTA
62 CCAGACAT-GTCTTACACTAGACACATCTCATA
* *
30032507 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACATCTCGAGGCCGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATC-AGGCCGATGCATGTCCCA
* *
30032569 GACATGTCTTACACTAGAACTCGTCTCA-A
65 GACATGTCTTACACTAG-ACACATCTCATA
* * * **
30032598 TGCCGATGCCATGTCCCAGATATGGTCATACACTGGCTCT-CATAATCTGGCCGATGCATGTCTT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCAGGCCGATGCATGTCCC
30032662 AGACATGTCTTACACTAG
64 AGACATGTCTTACACTAG
30032680 CTCACACAAG
Statistics
Matches: 222, Mismatches: 33, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
90 10 0.05
91 17 0.08
92 26 0.12
93 13 0.06
94 61 0.27
95 50 0.23
96 5 0.02
97 3 0.01
98 22 0.10
99 12 0.05
100 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCAGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGACACATCTCATA
Found at i:30032668 original size:140 final size:140
Alignment explanation
Indices: 30032313--30032677 Score: 346
Period size: 140 Copynumber: 2.6 Consensus size: 140
30032303 CATAGGGTAT
* * * * * * *
30032313 AATGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCATTCATC-AAGTCGATGCCAAGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCATACACTGACACA-T-ATCGTAGCCGATG-CATGTC
* * * * *
30032377 CCAAACATGTTTTACACTGACTATCGAAAT-T-GAGGCCAACGCCATGTCCCAGACATGGTCTTA
63 CCAAACATGTCTTACACTGGCT-T--ACATCTCGAGGCCGATG-CATGTCCCAGACATGGTCTTA
** *
30032440 CACTAGCTCTCACATGTC
124 CACTAGAACT-ACATCTC
* * * *
30032458 CATGCTGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCA
1 AATGCCGATGCCATGTCCCAGACATGGTCATACACTGACACATATCGTAGCCGATGCATGTCCCA
30032523 AACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACAT-GTCTTACACTAGA
66 AACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGGTCTTACACTAGA
*
30032587 ACT-CGTCTC
131 ACTACATCTC
* * * *
30032596 AATGCCGATGCCATGTCCCAGATATGGTCATACACTGGCTCTCATAATC-TGGCCGATGCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCATACACT-G-ACACAT-ATCGTAGCCGATGCATGTC
** *
30032660 TTAGACATGTCTTACACT
63 CCAAACATGTCTTACACT
30032678 AGCTCACACA
Statistics
Matches: 185, Mismatches: 29, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
138 36 0.19
139 1 0.01
140 50 0.27
141 17 0.09
142 9 0.05
143 27 0.15
144 8 0.04
145 37 0.20
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (140 bp):
AATGCCGATGCCATGTCCCAGACATGGTCATACACTGACACATATCGTAGCCGATGCATGTCCCA
AACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGGTCTTACACTAGA
ACTACATCTC
Found at i:30035683 original size:27 final size:27
Alignment explanation
Indices: 30035653--30035706 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30035643 ACGATGTGAA
30035653 TGGGACGTTGCGACGTCATGATGTGTT
1 TGGGACGTTGCGACGTCATGATGTGTT
30035680 TGGGACGTTGCGACGTCATGATGTGTT
1 TGGGACGTTGCGACGTCATGATGTGTT
30035707 CTTTTATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.37, T:0.33
Consensus pattern (27 bp):
TGGGACGTTGCGACGTCATGATGTGTT
Found at i:30036492 original size:7 final size:8
Alignment explanation
Indices: 30036472--30036496 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
30036462 ATGGTTAATA
30036472 TAAAAATT
1 TAAAAATT
30036480 TAAAAATT
1 TAAAAATT
30036488 TAAAAATT
1 TAAAAATT
30036496 T
1 T
30036497 GTTTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAAAATT
Found at i:30038120 original size:35 final size:35
Alignment explanation
Indices: 30038069--30038289 Score: 230
Period size: 35 Copynumber: 6.2 Consensus size: 35
30038059 TTTAAACTCA
* * *
30038069 TCTAAGGCAACCTTAAAAAGGTTGGGAAAGACCCG
1 TCTAAGGCAACTTTAAAAAAGTTGGGATAGACCCG
* * *
30038104 TCTAAGACAACTTTAAAAAGGTTGGGATAGACCATG
1 TCTAAGGCAACTTTAAAAAAGTTGGGATAGACC-CG
* *
30038140 TCTAAGGCAACCTTTAAAAAAAGTTGAGATAGACTCG
1 TCTAAGGCAA-CTTT-AAAAAAGTTGGGATAGACCCG
* **
30038177 --TAAGGCAACATTAAAAAAGTTGGGATAGACCTTA
1 TCTAAGGCAACTTTAAAAAAGTTGGGATAGACC-CG
*
30038211 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCCT
1 TCTAAGGCAA-CTTTAAAAAA-GTTGGGATAGACCCG
* * * *
30038248 TCTAAGACAACCTTAAAAAAGTTGGAATAGACACG
1 TCTAAGGCAACTTTAAAAAAGTTGGGATAGACCCG
30038283 TCTAAGG
1 TCTAAGG
30038290 TAATTTTTTT
Statistics
Matches: 155, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
33 17 0.11
34 3 0.02
35 56 0.36
36 27 0.17
37 23 0.15
38 29 0.19
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (35 bp):
TCTAAGGCAACTTTAAAAAAGTTGGGATAGACCCG
Found at i:30038191 original size:71 final size:71
Alignment explanation
Indices: 30038069--30038289 Score: 261
Period size: 71 Copynumber: 3.1 Consensus size: 71
30038059 TTTAAACTCA
* * * *
30038069 TCTAAGGCAACC-TT-AAAAAGGTTGGGAAAGACCCGTCTAAGACAACTTTAAAAAGGTTGGGAT
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACTCG--TAAGACAACATTAAAAAAGTTGGGAT
30038132 AGACCATG
64 AGACCATG
* * *
30038140 TCTAAGGCAACCTTTAAAAAAAGTTGAGATAGACTCGTAAGGCAACATTAAAAAAGTTGGGATAG
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACTCGTAAGACAACATTAAAAAAGTTGGGATAG
* *
30038205 ACCTTA
66 ACCATG
* *
30038211 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCCTTC-TAAGACAACCTTAAAAAAGTTGGAA
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA--C-TCGTAAGACAACATTAAAAAAGTTGGGA
*
30038275 TAGA-CACG
63 TAGACCATG
30038283 TCTAAGG
1 TCTAAGG
30038290 TAATTTTTTT
Statistics
Matches: 128, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
71 72 0.56
72 10 0.08
73 44 0.34
74 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (71 bp):
TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACTCGTAAGACAACATTAAAAAAGTTGGGATAG
ACCATG
Found at i:30038557 original size:53 final size:54
Alignment explanation
Indices: 30038477--30038578 Score: 188
Period size: 53 Copynumber: 1.9 Consensus size: 54
30038467 CTTAGCTAAA
*
30038477 AAAGCCACAGACATTGTAAAAAGAATTTAC-AAAAAAAAAATAAAATAATTGTT
1 AAAGCCACAGACATTGTAAAAAGAATTTACGAAAAAAAAAAGAAAATAATTGTT
30038530 AAAGCCACAGACATTGTAAAAAGAATTTACGAAAAAAAAAAGAAAATAA
1 AAAGCCACAGACATTGTAAAAAGAATTTACGAAAAAAAAAAGAAAATAA
30038579 AATAATTGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 30 0.64
54 17 0.36
ACGTcount: A:0.61, C:0.10, G:0.11, T:0.19
Consensus pattern (54 bp):
AAAGCCACAGACATTGTAAAAAGAATTTACGAAAAAAAAAAGAAAATAATTGTT
Found at i:30043974 original size:20 final size:20
Alignment explanation
Indices: 30043932--30043974 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
30043922 CATGGATGTA
*
30043932 TATGCTAGAAATTAGAAATT
1 TATGCTAGAAAATAGAAATT
*
30043952 TATGGTAGAAAAT-GAAATAT
1 TATGCTAGAAAATAGAAAT-T
30043972 TAT
1 TAT
30043975 TGATAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (20 bp):
TATGCTAGAAAATAGAAATT
Found at i:30044078 original size:20 final size:20
Alignment explanation
Indices: 30044033--30044070 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30044023 TAGGGACTAA
* *
30044033 AATGAAAAGTTGTAAAATTT
1 AATGAAAAATTCTAAAATTT
30044053 AATGAAAAATTCTAAAAT
1 AATGAAAAATTCTAAAAT
30044071 GTTATGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.32
Consensus pattern (20 bp):
AATGAAAAATTCTAAAATTT
Found at i:30045932 original size:21 final size:22
Alignment explanation
Indices: 30045906--30045959 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
30045896 CGACCTCTAG
**
30045906 CACGGGCATGTCCC-AGGGTCA
1 CACGGGCATGTCCCTAGGACCA
* *
30045927 CACGGGCGTGTCCCTTGGACCA
1 CACGGGCATGTCCCTAGGACCA
30045949 CACGGGCATGT
1 CACGGGCATGT
30045960 GAGCCCTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (22 bp):
CACGGGCATGTCCCTAGGACCA
Found at i:30049300 original size:5 final size:5
Alignment explanation
Indices: 30049267--30049299 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
30049257 TCCTTCCTTT
*
30049267 CTGTC CTGTC CTGTC CTGTC CTGTC CTGCC CTG
1 CTGTC CTGTC CTGTC CTGTC CTGTC CTGTC CTG
30049300 CTCTGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.42, G:0.21, T:0.36
Consensus pattern (5 bp):
CTGTC
Found at i:30052718 original size:2 final size:2
Alignment explanation
Indices: 30052711--30052737 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30052701 AACAAGCTGA
30052711 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
30052738 AAAGCAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30057440 original size:50 final size:50
Alignment explanation
Indices: 30057339--30057440 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 50
30057329 AAGACCTTTC
* * * * * **
30057339 TTTTATTAAAAATTAGAAAAAAATCTATAAAATCTATAAATTTTATTAAA
1 TTTTATTAAAAATTAGAAAAAAATATAAAAAATCAAAAAATATTAAAAAA
30057389 TTTTATTAAAAATTAGAAAAAAATATAAAAAAGT-AAAAAATATTAAAAAA
1 TTTTATTAAAAATTAGAAAAAAATATAAAAAA-TCAAAAAATATTAAAAAA
30057439 TT
1 TT
30057441 GTAAATTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 43 0.98
51 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (50 bp):
TTTTATTAAAAATTAGAAAAAAATATAAAAAATCAAAAAATATTAAAAAA
Found at i:30057456 original size:28 final size:28
Alignment explanation
Indices: 30057405--30057495 Score: 80
Period size: 28 Copynumber: 3.3 Consensus size: 28
30057395 TAAAAATTAG
* *
30057405 AAAAAAATATAAAAAAGTAA-AAAATATT
1 AAAAAATTATAAAATA-TAATAAAATATT
* * * *
30057433 AAAAAATTGTAAATTTTTATAAAAT-TGT
1 AAAAAATTATAAAATATAATAAAATAT-T
30057461 AAAAAATTATAAAATATAATAAAA-ATT
1 AAAAAATTATAAAATATAATAAAATATT
*
30057488 ATAAAATT
1 AAAAAATT
30057496 TTATAAAGTC
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
27 11 0.22
28 38 0.78
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAAAATTATAAAATATAATAAAATATT
Found at i:30057470 original size:18 final size:18
Alignment explanation
Indices: 30057393--30057495 Score: 68
Period size: 18 Copynumber: 5.6 Consensus size: 18
30057383 ATTAAATTTT
30057393 ATTA-AAAATTAG-AAAAA
1 ATTATAAAATT-GTAAAAA
* **
30057410 AATATAAAAAAGTAAAAAA
1 ATTATAAAATTGT-AAAAA
* **
30057429 TATTAAAAAATTGTAAATT
1 -ATTATAAAATTGTAAAAA
*
30057448 TTTATAAAATTGTAAAAA
1 ATTATAAAATTGTAAAAA
*
30057466 ATTATAAAATAT-AATAAAA
1 ATTATAAAAT-TGTA-AAAA
30057485 ATTATAAAATT
1 ATTATAAAATT
30057496 TTATAAAGTC
Statistics
Matches: 65, Mismatches: 15, Indels: 11
0.71 0.16 0.12
Matches are distributed among these distances:
17 4 0.06
18 29 0.45
19 23 0.35
20 9 0.14
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (18 bp):
ATTATAAAATTGTAAAAA
Found at i:30057499 original size:10 final size:10
Alignment explanation
Indices: 30057364--30057502 Score: 62
Period size: 10 Copynumber: 14.6 Consensus size: 10
30057354 GAAAAAAATC
*
30057364 TATAAAAT-C
1 TATAAAATAT
*
30057373 TAT-AAATTT
1 TATAAAATAT
* *
30057382 TATTAAATTT
1 TATAAAATAT
30057392 TATTAAAA-AT
1 TA-TAAAATAT
* * *
30057402 TAGAAAAAAA
1 TATAAAATAT
* *
30057412 TATAAAAAAG
1 TATAAAATAT
*
30057422 TAAAAAATAT
1 TATAAAATAT
30057432 TA-AAAA-AT
1 TATAAAATAT
* * *
30057440 TGTAAATTTT
1 TATAAAATAT
30057450 TATAAAAT-T
1 TATAAAATAT
30057459 GTA-AAAA-AT
1 -TATAAAATAT
30057468 TATAAAATAT
1 TATAAAATAT
*
30057478 AATAAAA-AT
1 TATAAAATAT
*
30057487 TATAAAATTT
1 TATAAAATAT
30057497 TATAAA
1 TATAAA
30057503 GTCAAAAGAA
Statistics
Matches: 101, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
8 9 0.09
9 35 0.35
10 53 0.52
11 4 0.04
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.37
Consensus pattern (10 bp):
TATAAAATAT
Found at i:30057501 original size:19 final size:19
Alignment explanation
Indices: 30057449--30057502 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
30057439 TTGTAAATTT
*
30057449 TTATAAAATTGTA-AAAAA
1 TTATAAAATTTTATAAAAA
* *
30057467 TTATAAAATATAATAAAAA
1 TTATAAAATTTTATAAAAA
30057486 TTATAAAATTTTATAAA
1 TTATAAAATTTTATAAA
30057503 GTCAAAAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TTATAAAATTTTATAAAAA
Found at i:30057721 original size:19 final size:19
Alignment explanation
Indices: 30057697--30057752 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
30057687 GAGGTCATTC
30057697 ATTTTTTATGATTTTTATA
1 ATTTTTTATGATTTTTATA
*
30057716 ATTTTTT-TCATTTTT-T-
1 ATTTTTTATGATTTTTATA
*
30057732 ATTTTTTAATGATATTTATA
1 ATTTTTT-ATGATTTTTATA
30057752 A
1 A
30057753 AAAAATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
16 7 0.23
17 1 0.03
18 13 0.43
19 8 0.27
20 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.68
Consensus pattern (19 bp):
ATTTTTTATGATTTTTATA
Found at i:30057804 original size:18 final size:18
Alignment explanation
Indices: 30057783--30057840 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
30057773 ATTTTAAAGT
30057783 TTTATATTTTTAT-TAAAA
1 TTTA-ATTTTTATCTAAAA
*
30057801 TTTAATTTTTTTTCTAAAA
1 TTTAA-TTTTTATCTAAAA
* *
30057820 TTTAATTTTTTTCTAATA
1 TTTAATTTTTATCTAAAA
30057838 TTT
1 TTT
30057841 TTCCTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 25 0.69
19 10 0.28
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTAATTTTTATCTAAAA
Found at i:30057811 original size:19 final size:19
Alignment explanation
Indices: 30057796--30057840 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
30057786 ATATTTTTAT
30057796 TAAAATTTAATTTTTTTTC
1 TAAAATTTAATTTTTTTTC
30057815 TAAAATTTAA-TTTTTTTC
1 TAAAATTTAATTTTTTTTC
*
30057833 TAATATTT
1 TAAAATTT
30057841 TTCCTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TAAAATTTAATTTTTTTTC
Found at i:30058029 original size:88 final size:87
Alignment explanation
Indices: 30057862--30058031 Score: 189
Period size: 88 Copynumber: 1.9 Consensus size: 87
30057852 TAATAAGAGT
* * * **
30057862 AGGGGCTTAATTGCTTTTTTGAAAATTTTTGAGGGTCTTTTTTATACATTTTGAAAGTTCAAGTA
1 AGGGGATTAATTGCTTTTTTGAAAATGTTTGAGGGCCTTTTGAATACATTTTGAAAGTTCAAGTA
* * *
30057927 CCCAATTGAGTGAAAAAAAAGC
66 CCCAAGTAAATGAAAAAAAAGC
** * *
30057949 AGGGGATTAATTGCTTTTTTTGAAGAA-GTTTGAGGGCCTTTTGAATGTATTTTGAACGTTTAAG
1 AGGGGATTAATTGC-TTTTTTGAA-AATGTTTGAGGGCCTTTTGAATACATTTTGAAAGTTCAAG
* *
30058013 TGCTCAAGTAAATGAAAAA
64 TACCCAAGTAAATGAAAAA
30058032 GAAAAAAGAA
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
87 13 0.19
88 52 0.78
89 2 0.03
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (87 bp):
AGGGGATTAATTGCTTTTTTGAAAATGTTTGAGGGCCTTTTGAATACATTTTGAAAGTTCAAGTA
CCCAAGTAAATGAAAAAAAAGC
Found at i:30060785 original size:26 final size:26
Alignment explanation
Indices: 30060753--30060807 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
30060743 ATGCACTGTT
30060753 ATGAGACTAACTTGATGAATGAGTGC
1 ATGAGACTAACTTGATGAATGAGTGC
30060779 ATGAGACTAACTTGATGAATGAGTGC
1 ATGAGACTAACTTGATGAATGAGTGC
30060805 ATG
1 ATG
30060808 TGATAGGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (26 bp):
ATGAGACTAACTTGATGAATGAGTGC
Found at i:30062191 original size:41 final size:41
Alignment explanation
Indices: 30062146--30062263 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
30062136 TGAAAGATAA
30062146 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
30062187 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30062217 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30062258 ATGTAG
1 ATGTAG
30062264 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:30062202 original size:71 final size:71
Alignment explanation
Indices: 30062114--30062277 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30062104 GAGATGTATC
30062114 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30062179 AGGACA
66 AGGACA
30062185 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30062250 AGGACA
66 AGGACA
30062256 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
30062278 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:30069767 original size:41 final size:41
Alignment explanation
Indices: 30069722--30069839 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
30069712 TGAAAGATAA
30069722 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
30069763 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30069793 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30069834 ATGTAG
1 ATGTAG
30069840 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:30069778 original size:71 final size:71
Alignment explanation
Indices: 30069690--30069853 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30069680 GAGATGTATC
30069690 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30069755 AGGACA
66 AGGACA
30069761 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30069826 AGGACA
66 AGGACA
30069832 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
30069854 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:30073412 original size:24 final size:22
Alignment explanation
Indices: 30073380--30073438 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
30073370 TGATTCATTC
30073380 CAGTGAGATTAAAAATTGTAAT
1 CAGTGAGATTAAAAATTGTAAT
***
30073402 GACAGTGAGATTAGTTATTGTAAT
1 --CAGTGAGATTAAAAATTGTAAT
30073426 -AGTGAGATTAAAA
1 CAGTGAGATTAAAA
30073439 TCAAAGGTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.32
Consensus pattern (22 bp):
CAGTGAGATTAAAAATTGTAAT
Found at i:30075143 original size:20 final size:20
Alignment explanation
Indices: 30075115--30075154 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30075105 TTCTAACATC
* *
30075115 CTTAGAAATATTAGTAAATT
1 CTTAAAAATATTAATAAATT
30075135 CTTAAAAATATTAATAAATT
1 CTTAAAAATATTAATAAATT
30075155 GTTAGATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (20 bp):
CTTAAAAATATTAATAAATT
Found at i:30075690 original size:2 final size:2
Alignment explanation
Indices: 30075683--30075711 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30075673 TTCAGTCAAA
30075683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30075712 AATTTACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30076342 original size:20 final size:19
Alignment explanation
Indices: 30076294--30076344 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
30076284 TGTTTTTTGT
*
30076294 TTAA-AATTTTTTATTGTA
1 TTAATAATTTTTTATTATA
*
30076312 TTGATAATTTTTTATTATAA
1 TTAATAATTTTTTATTAT-A
30076332 TTAAT-ATTTTTTA
1 TTAATAATTTTTTA
30076345 AAATATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 3 0.11
19 20 0.71
20 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (19 bp):
TTAATAATTTTTTATTATA
Found at i:30096651 original size:101 final size:99
Alignment explanation
Indices: 30096440--30096884 Score: 476
Period size: 101 Copynumber: 4.4 Consensus size: 99
30096430 ATTGTGAGAA
* * ** * * *
30096440 CACATGTGTAGTACTATGTGCAGGCTACTATGTATTTAAGACGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCA--TACCA-GATGTTAGGTCACATGTGTAGTA
* * *
30096505 CTAAATGCAGGCTACTACGTGTACCAGATTGTTTGGT
63 CTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* * * * * * *
30096542 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGATAGCTTCGATCACGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGAT-G-TTAGGTCACATGTGTAGTAC
* * *
30096607 TAAGTGCAAGCTACTACGTGTATCAAATGGTTAGGT
64 TAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* *
30096643 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTATACCAGATTGTTAGGTCACATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA-TGTTAGGTCACATGTGTAGTACT
* * * * * *
30096708 AAGTGCAGGCTACTATGCGTACCCGATAGCTTCGAT
65 AAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGT
* * * ** *
30096744 CACGTGTGTAGTACTAAGTGCAGGCTAATACGTGTATCAGATGGTTAGGTCACATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGAT-GTTAGGTCACATGTGTAGTACT
*
30096809 AAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
65 AAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* **
30096844 CGCATGTGTAGGGCTAAGTGCAGGCTACTATGCATACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA
30096885 GATCTTCGGT
Statistics
Matches: 282, Mismatches: 56, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
99 2 0.01
100 78 0.28
101 172 0.61
102 30 0.11
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATGTTAGGTCACATGTGTAGTACTA
AGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
Found at i:30096884 original size:50 final size:50
Alignment explanation
Indices: 30096440--30096873 Score: 474
Period size: 50 Copynumber: 8.6 Consensus size: 50
30096430 ATTGTGAGAA
* * * ** *
30096440 CACATGTGTAGTACTATGTGCAGGCTACTATGTATTTAAGACGGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACG--TGTACCA-GATTGTTAGGT
* * *
30096492 CACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTGTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * * *
30096542 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* * * * *
30096593 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAAATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * *
30096643 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTATACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * *
30096693 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* * * *
30096744 CACGTGTGTAGTACTAAGTGCAGGCTAATACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
30096794 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* **
30096844 CGCATGTGTAGGGCTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
30096874 TGCATACCAG
Statistics
Matches: 321, Mismatches: 58, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
49 3 0.01
50 209 0.65
51 81 0.25
52 28 0.09
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:30096892 original size:151 final size:151
Alignment explanation
Indices: 30096444--30096881 Score: 687
Period size: 151 Copynumber: 2.9 Consensus size: 151
30096434 TGAGAACACA
* * * * * *
30096444 TGTGTAGTACTATGTGCAGGCTACTATGTATTTAAGACGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTACTAA
* * *
30096509 ATGCAGGCTACTACGTGTACCAGATTGTTTGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATG
64 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
30096574 CGTACCCGATAGCTTCGATCACG
129 CGTACCCGATAGCTTCGATCACG
* *
30096597 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * *
30096662 GCAGGCTACTATGTATACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCG
66 GCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
30096727 TACCCGATAGCTTCGATCACG
131 TACCCGATAGCTTCGATCACG
* *
30096748 TGTGTAGTACTAAGTGCAGGCTAATACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
** *
30096813 GCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGGGCTAAGTGCAGGCTACTATGCA
66 GCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
30096878 TACC
131 TACC
30096882 AGAGATCTTC
Statistics
Matches: 261, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
151 229 0.88
153 32 0.12
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
TACCCGATAGCTTCGATCACG
Found at i:30098267 original size:30 final size:30
Alignment explanation
Indices: 30098233--30098297 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
30098223 AAATTGTAAT
30098233 AATGTTAAACTAAATATCGAATTGGTGTAG
1 AATGTTAAACTAAATATCGAATTGGTGTAG
* *
30098263 AATGTTAAACTGAATATGGAATTGGTGTAG
1 AATGTTAAACTAAATATCGAATTGGTGTAG
30098293 AATGT
1 AATGT
30098298 CTTAGTCGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (30 bp):
AATGTTAAACTAAATATCGAATTGGTGTAG
Found at i:30098437 original size:25 final size:25
Alignment explanation
Indices: 30098404--30098451 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
30098394 AATGGACATG
30098404 AAGATAATTATGGTATAAAAGTATA
1 AAGATAATTATGGTATAAAAGTATA
30098429 AAGATAATTATGGTATAAAAGTA
1 AAGATAATTATGGTATAAAAGTA
30098452 CAAGTGGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (25 bp):
AAGATAATTATGGTATAAAAGTATA
Found at i:30103073 original size:21 final size:21
Alignment explanation
Indices: 30103049--30103117 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
30103039 CAAGAGATAC
30103049 AATTATCATTCATCACTCAAT
1 AATTATCATTCATCACTCAAT
** * * *
30103070 AATTATTTTTCAACAAT-ATT
1 AATTATCATTCATCACTCAAT
*
30103090 CAATTATCATTCTTCACTCAAT
1 -AATTATCATTCATCACTCAAT
30103112 AATTAT
1 AATTAT
30103118 TTTCAACAAT
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTATCATTCATCACTCAAT
Found at i:30103095 original size:42 final size:41
Alignment explanation
Indices: 30103048--30103128 Score: 144
Period size: 42 Copynumber: 2.0 Consensus size: 41
30103038 CCAAGAGATA
30103048 CAATTATCATTCATCACTCAATAATTATTTTTCAACAATATT
1 CAATTATCATTCATCACTCAATAATTA-TTTTCAACAATATT
*
30103090 CAATTATCATTCTTCACTCAATAATTATTTTCAACAATA
1 CAATTATCATTCATCACTCAATAATTATTTTCAACAATA
30103129 AAAAAAAAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 12 0.32
42 26 0.68
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (41 bp):
CAATTATCATTCATCACTCAATAATTATTTTCAACAATATT
Found at i:30109488 original size:21 final size:21
Alignment explanation
Indices: 30109459--30109502 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
30109449 TCGAAAAATC
30109459 AAATAATAT-TATTTCTTATAA
1 AAATAATATATATTT-TTATAA
*
30109480 AAATGATATCATATTTTTATAA
1 AAATAATAT-ATATTTTTATAA
30109502 A
1 A
30109503 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 7 0.35
23 5 0.25
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (21 bp):
AAATAATATATATTTTTATAA
Found at i:30112317 original size:39 final size:39
Alignment explanation
Indices: 30112263--30112416 Score: 166
Period size: 39 Copynumber: 3.9 Consensus size: 39
30112253 CAATACATCA
* *
30112263 GCACACAGCCTGCTAGGCACAAAGCCCGAATAATCACTG
1 GCACACAACCTGCTAGGCACATAGCCCGAATAATCACTG
* * * * *
30112302 GCACATAATCTGCTAGACACATTGCCCGAATAATCAGTG
1 GCACACAACCTGCTAGGCACATAGCCCGAATAATCACTG
*
30112341 GCACACAGCCTGCTAGGCACATAGCCCGAATAATCACCT-
1 GCACACAACCTGCTAGGCACATAGCCCGAATAATCA-CTG
* * * ** *
30112380 GCACAGAGCCTGCTAAGCATGTAGCTCGAATAATCAC
1 GCACACAACCTGCTAGGCACATAGCCCGAATAATCAC
30112417 CGTATTTCTA
Statistics
Matches: 96, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
38 1 0.01
39 94 0.98
40 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (39 bp):
GCACACAACCTGCTAGGCACATAGCCCGAATAATCACTG
Found at i:30114308 original size:17 final size:16
Alignment explanation
Indices: 30114288--30114331 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
30114278 TAAAGTCAAT
30114288 CATTAAAAATTCATAAA
1 CATTAAAAATT-ATAAA
30114305 CATTTAAAAATTATAAA
1 CA-TTAAAAATTATAAA
30114322 -ATTATAAAAT
1 CATTA-AAAAT
30114332 CTAGTTCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.12
16 6 0.24
17 7 0.28
18 9 0.36
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (16 bp):
CATTAAAAATTATAAA
Found at i:30114313 original size:18 final size:16
Alignment explanation
Indices: 30114290--30114330 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
30114280 AAGTCAATCA
30114290 TTAAAAATTCATAAACAT
1 TTAAAAATT-ATAAA-AT
30114308 TTAAAAATTATAAAAT
1 TTAAAAATTATAAAAT
30114324 TATAAAA
1 T-TAAAA
30114331 TCTAGTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
18 9 0.41
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAAAATTATAAAAT
Found at i:30115944 original size:3 final size:3
Alignment explanation
Indices: 30115938--30115965 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30115928 ACAGCCGCCG
30115938 CCA CCA CCA CCA CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA C
30115966 ATCCTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:30125209 original size:3 final size:3
Alignment explanation
Indices: 30125201--30125238 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
30125191 ATCCTACCTA
*
30125201 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
30125239 AACTTAAGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:30126018 original size:13 final size:13
Alignment explanation
Indices: 30126000--30126027 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30125990 GATGACATAA
30126000 CAAATCAAGATTC
1 CAAATCAAGATTC
30126013 CAAATCAAGATTC
1 CAAATCAAGATTC
30126026 CA
1 CA
30126028 GTGGAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CAAATCAAGATTC
Found at i:30126365 original size:20 final size:21
Alignment explanation
Indices: 30126332--30126370 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
30126322 TAATTAAAAT
*
30126332 TAATTTTTAGTTATGTTTAAA
1 TAATTTTTAGTTATATTTAAA
*
30126353 TAATTTTT-TTTATATTTA
1 TAATTTTTAGTTATATTTA
30126371 TTTATATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
TAATTTTTAGTTATATTTAAA
Found at i:30127473 original size:22 final size:23
Alignment explanation
Indices: 30127443--30127485 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
30127433 TTAAAGTATA
* *
30127443 ATAACTAGATTTCAAATTTAAAT
1 ATAACTAGAATTAAAATTTAAAT
30127466 ATAA-TAGAATTAAAATTTAA
1 ATAACTAGAATTAAAATTTAA
30127486 CTAATTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (23 bp):
ATAACTAGAATTAAAATTTAAAT
Found at i:30128453 original size:20 final size:21
Alignment explanation
Indices: 30128417--30128456 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
30128407 TTACTGTTAT
30128417 CAAATAATTTTACTAATATAC
1 CAAATAATTTTACTAATATAC
30128438 CAAA-AATTTATA-TAATATA
1 CAAATAATTT-TACTAATATA
30128457 AATTTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
CAAATAATTTTACTAATATAC
Found at i:30129682 original size:25 final size:25
Alignment explanation
Indices: 30129653--30129706 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
30129643 TTTAAAGTTT
30129653 TTTTTATAATATTT-TTGTGGGATCAA
1 TTTTTA-AA-ATTTGTTGTGGGATCAA
*
30129679 TTTTTAAAATTTGTTGTGGGGTCAA
1 TTTTTAAAATTTGTTGTGGGATCAA
30129704 TTT
1 TTT
30129707 ACTAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 4 0.15
25 16 0.62
26 6 0.23
ACGTcount: A:0.24, C:0.04, G:0.19, T:0.54
Consensus pattern (25 bp):
TTTTTAAAATTTGTTGTGGGATCAA
Found at i:30130650 original size:20 final size:20
Alignment explanation
Indices: 30130613--30130650 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30130603 TGATGGGGAC
*
30130613 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGATGGATT
30130633 CAAGAA-ATCAAAGATGGA
1 CAAGAATATC-AAGATGGA
30130651 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGATGGATT
Found at i:30132598 original size:46 final size:46
Alignment explanation
Indices: 30132546--30132727 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
30132536 AGTGTGCTCT
* *
30132546 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
30132592 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
30132638 GTGATATGAAATGAACAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
30132684 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
30132728 TCATGTCAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 120 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:30134930 original size:2 final size:2
Alignment explanation
Indices: 30134923--30134959 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
30134913 TGATTGAGGT
30134923 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30134960 GTAGCTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30136005 original size:19 final size:19
Alignment explanation
Indices: 30135960--30136020 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
30135950 ATCTAATTAC
30135960 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
30135981 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
30136000 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
30136019 AA
1 AA
30136021 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:30136272 original size:13 final size:13
Alignment explanation
Indices: 30136248--30136309 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
30136238 ACACTTAAAT
*
30136248 TTTTCCAAAGCAC
1 TTTTCAAAAGCAC
* *
30136261 TTCTCAAAAGCAT
1 TTTTCAAAAGCAC
*
30136274 TTTTCCACAA-CAC
1 TTTT-CAAAAGCAC
30136287 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
30136300 TTTTTAAAAG
1 TTTTCAAAAG
30136310 TAATGAAGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 4 0.10
13 31 0.79
14 4 0.10
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:30136279 original size:26 final size:26
Alignment explanation
Indices: 30136246--30136304 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 26
30136236 AAACACTTAA
30136246 ATTTTTCCA-AAGCACTTCTCAAAAGC
1 ATTTTTCCACAA-CACTTCTCAAAAGC
*
30136272 ATTTTTCCACAACACTTTTCAAAAGC
1 ATTTTTCCACAACACTTCTCAAAAGC
30136298 ACTTTTT
1 A-TTTTT
30136305 AAAAGTAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.37
Consensus pattern (26 bp):
ATTTTTCCACAACACTTCTCAAAAGC
Found at i:30140002 original size:11 final size:11
Alignment explanation
Indices: 30139969--30140004 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
30139959 CGGTTTAGAG
30139969 TTTTTAAGGTT
1 TTTTTAAGGTT
30139980 TTGTTTAAGGTT
1 TT-TTTAAGGTT
*
30139992 TTTTTACGGTT
1 TTTTTAAGGTT
30140003 TT
1 TT
30140005 AATTTTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.14, C:0.03, G:0.19, T:0.64
Consensus pattern (11 bp):
TTTTTAAGGTT
Found at i:30140052 original size:21 final size:22
Alignment explanation
Indices: 30140015--30140060 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
30140005 AATTTTTAAC
30140015 TTTTTATATATTCTTTAGGATTT
1 TTTTTATATATTCTTTA-GATTT
*
30140038 TTTTTATA-ATT-TTTATATTT
1 TTTTTATATATTCTTTAGATTT
30140058 TTT
1 TTT
30140061 AAAAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 4 0.18
22 3 0.14
23 8 0.36
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTTATATATTCTTTAGATTT
Found at i:30140125 original size:20 final size:18
Alignment explanation
Indices: 30140071--30140128 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
30140061 AAAAATATAA
30140071 ATTTTGAAATTTTATAAA-T
1 ATTTTGAAA-TTTA-AAATT
30140090 ATTTTGAAATTTAAAATT
1 ATTTTGAAATTTAAAATT
30140108 ATTTTGAAAATATTAAAATT
1 ATTTTG-AAAT-TTAAAATT
30140128 A
1 A
30140129 CCTGTGTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.08
18 11 0.31
19 13 0.36
20 9 0.25
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (18 bp):
ATTTTGAAATTTAAAATT
Found at i:30141878 original size:27 final size:27
Alignment explanation
Indices: 30141845--30142292 Score: 542
Period size: 27 Copynumber: 16.6 Consensus size: 27
30141835 AAAGTACTCC
30141845 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
30141872 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
30141899 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** **
30141926 C-AGTTTACAGAATTATTGTTTTACTTT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
30141953 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30141980 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
30142007 CGATTTGTAAAATTACCGTTTTACCGT
1 CGATTTACAGAATTACCGTTTTACCCT
30142034 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
30142061 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
30142088 CGATTTATAGAATTATCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
30142115 CAATTTATATAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
30142142 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30142169 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30142196 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
30142223 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * **
30142250 TGATTTATAAAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30142277 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
30142293 TAAAATACCC
Statistics
Matches: 367, Mismatches: 48, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.01
27 361 0.98
28 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:30143553 original size:25 final size:25
Alignment explanation
Indices: 30143524--30143571 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30143514 TTATAATATG
* * *
30143524 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
30143549 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
30143572 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:30143622 original size:9 final size:9
Alignment explanation
Indices: 30143610--30143685 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
30143600 TTTGATAAAC
30143610 ATGATATGT
1 ATGATATGT
*
30143619 ATGATATGCAC
1 ATGATATG--T
30143630 ATGATATGT
1 ATGATATGT
*
30143639 ATGATATGCAC
1 ATGATATG--T
30143650 ATGA-ATGT
1 ATGATATGT
*
30143658 ATGATATGCAC
1 ATGATATG--T
30143669 ATGATATGT
1 ATGATATGT
30143678 ATGATATG
1 ATGATATG
30143686 CACACGAGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
8 4 0.07
9 27 0.50
10 3 0.06
11 20 0.37
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:30143635 original size:11 final size:11
Alignment explanation
Indices: 30143619--30143689 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
30143609 CATGATATGT
30143619 ATGATATGCAC
1 ATGATATGCAC
*
30143630 ATGATATG--T
1 ATGATATGCAC
30143639 ATGATATGCAC
1 ATGATATGCAC
*
30143650 ATGA-ATG--T
1 ATGATATGCAC
30143658 ATGATATGCAC
1 ATGATATGCAC
*
30143669 ATGATATG--T
1 ATGATATGCAC
30143678 ATGATATGCAC
1 ATGATATGCAC
30143689 A
1 A
30143690 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
8 4 0.09
9 19 0.40
10 3 0.06
11 21 0.45
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:30143658 original size:39 final size:40
Alignment explanation
Indices: 30143608--30143689 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 40
30143598 ATTTTGATAA
30143608 ACATGATATGTATGATATGCACATGATATGTATGATATGC
1 ACATGATATGTATGATATGCACATGATATGTATGATATGC
30143648 ACATGA-ATGTATGATATGCACATGATATGTATGATATGC
1 ACATGATATGTATGATATGCACATGATATGTATGATATGC
30143687 ACA
1 ACA
30143690 CGAGATGTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 36 0.86
40 6 0.14
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGATATGTATGATATGC
Found at i:30143697 original size:20 final size:20
Alignment explanation
Indices: 30143608--30143689 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
30143598 ATTTTGATAA
30143608 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30143628 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30143648 ACATGA-ATGTATGATATGC
1 ACATGATATGTATGATATGC
30143667 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30143687 ACA
1 ACA
30143690 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
19 19 0.31
20 42 0.69
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30143786 original size:23 final size:23
Alignment explanation
Indices: 30143744--30143884 Score: 212
Period size: 23 Copynumber: 6.1 Consensus size: 23
30143734 AGGAAGTGAA
30143744 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
30143766 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
30143790 AAAGGGCTTATGCCCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATT
* *
30143813 AAAAGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
30143836 AAAGGGCTTATGCCCCAGTTATA
1 AAAGGGCTTATGCCCCAGTTATT
*
30143859 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
30143882 AAA
1 AAA
30143885 AGAGGCTAGG
Statistics
Matches: 107, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
22 12 0.11
23 73 0.68
24 22 0.21
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:30143840 original size:46 final size:45
Alignment explanation
Indices: 30143744--30143906 Score: 204
Period size: 46 Copynumber: 3.5 Consensus size: 45
30143734 AGGAAGTGAA
* *
30143744 AAAGGGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTA-TAAAAGGCTTATGCCCCAGTTAT-T
*
30143790 AAAGGGCTTATGCCCCAGTTATCAAAAGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGCTTATGCCCCAGTTATT
*
30143836 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAA-GGCTTATGCCCCAGTTATT
*
30143882 AAAAGAGGC-TAGGCCTCCAGTTATA
1 -AAAG-GGCTTATGCC-CCAGTTATA
30143907 TGATAAAGCA
Statistics
Matches: 105, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
45 4 0.04
46 52 0.50
47 37 0.35
48 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (45 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGCTTATGCCCCAGTTATT
Found at i:30143856 original size:70 final size:68
Alignment explanation
Indices: 30143743--30143886 Score: 234
Period size: 70 Copynumber: 2.1 Consensus size: 68
30143733 GAGGAAGTGA
*
30143743 AAAAGGGCTTATGCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAA-GGCTTACGCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAG
30143808 TTATC
64 TTATC
*
30143813 AAAAGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTTTGCCCCAGT
1 AAAAGGCTTACG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGT
*
30143878 TATT
65 TATC
30143882 AAAAG
1 AAAAG
30143887 AGGCTAGGCC
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
69 34 0.49
70 36 0.51
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (68 bp):
AAAAGGCTTACGCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTT
ATC
Found at i:30144132 original size:31 final size:31
Alignment explanation
Indices: 30144097--30144160 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
30144087 CGTTTACAGT
*
30144097 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
30144128 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
30144159 AA
1 AA
30144161 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:30147041 original size:27 final size:27
Alignment explanation
Indices: 30147008--30147454 Score: 542
Period size: 27 Copynumber: 16.6 Consensus size: 27
30146998 AAAGTACTCC
30147008 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
30147035 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
30147062 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
30147089 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
30147116 TGATTTACAGAGTTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30147143 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
30147170 CGATTTGTAAAATTATCGTTTTACCGT
1 CGATTTACAGAATTACCGTTTTACCCT
30147197 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
30147224 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
30147251 CGATTTATAGAATTATCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
30147277 CAATTTATATAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
30147304 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30147331 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30147358 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
30147385 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
30147412 TGATTTATAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30147439 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
30147455 TAAAATACCC
Statistics
Matches: 366, Mismatches: 47, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
26 26 0.07
27 337 0.92
28 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:30148722 original size:25 final size:25
Alignment explanation
Indices: 30148693--30148740 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30148683 TTATAATATG
* * *
30148693 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
30148718 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
30148741 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:30148791 original size:9 final size:9
Alignment explanation
Indices: 30148779--30148855 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
30148769 TTTGATAAAC
30148779 ATGATATGT
1 ATGATATGT
*
30148788 ATGATATGCAC
1 ATGATATG--T
30148799 ATGATATGT
1 ATGATATGT
*
30148808 ATGATATGCAC
1 ATGATATG--T
*
30148819 ATGAAATGT
1 ATGATATGT
*
30148828 ATGATATGCAC
1 ATGATATG--T
30148839 ATGATATGT
1 ATGATATGT
30148848 ATGATATG
1 ATGATATG
30148856 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:30148804 original size:11 final size:11
Alignment explanation
Indices: 30148788--30148859 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
30148778 CATGATATGT
30148788 ATGATATGCAC
1 ATGATATGCAC
*
30148799 ATGATATG--T
1 ATGATATGCAC
30148808 ATGATATGCAC
1 ATGATATGCAC
* *
30148819 ATGAAATG--T
1 ATGATATGCAC
30148828 ATGATATGCAC
1 ATGATATGCAC
*
30148839 ATGATATG--T
1 ATGATATGCAC
30148848 ATGATATGCAC
1 ATGATATGCAC
30148859 A
1 A
30148860 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:30148867 original size:20 final size:20
Alignment explanation
Indices: 30148777--30148859 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
30148767 ATTTTGATAA
30148777 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30148797 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30148817 ACATGAAATGTATGATATGC
1 ACATGATATGTATGATATGC
30148837 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30148857 ACA
1 ACA
30148860 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30149014 original size:47 final size:46
Alignment explanation
Indices: 30148915--30149080 Score: 226
Period size: 47 Copynumber: 3.5 Consensus size: 46
30148905 AGGAAGTGAA
* *
30148915 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
*
30148961 ATAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATT
1 A-AAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
*
30149009 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
*
30149056 AAAAGAGGC-TAGGCCTCCAGTTATA
1 -AAAG-GGCTTATGCC-CCAGTTATA
30149081 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
46 1 0.01
47 64 0.59
48 32 0.30
49 11 0.10
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:30149030 original size:71 final size:71
Alignment explanation
Indices: 30148914--30149079 Score: 253
Period size: 71 Copynumber: 2.3 Consensus size: 71
30148904 GAGGAAGTGA
* * *
30148914 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCATAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
30148979 GTTATC
66 GTTATC
*
30148985 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
30149050 GTTATT
66 GTTATC
*
30149056 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
30149080 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 76 0.87
72 11 0.13
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:30149059 original size:24 final size:24
Alignment explanation
Indices: 30148914--30149079 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
30148904 GAGGAAGTGA
30148914 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
30148938 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
* *
30148961 ATAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
30148985 AAAAGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
30149009 -AAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
*
30149032 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
30149056 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
30149080 ATGATAAAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
23 43 0.34
24 73 0.57
25 11 0.09
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:30149308 original size:31 final size:31
Alignment explanation
Indices: 30149273--30149336 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
30149263 CGTTTACAGT
*
30149273 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
30149304 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
30149335 AA
1 AA
30149337 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:30153741 original size:11 final size:11
Alignment explanation
Indices: 30153726--30153785 Score: 84
Period size: 11 Copynumber: 5.5 Consensus size: 11
30153716 GAGTGAACTA
30153726 AGAGAATTGAG
1 AGAGAATTGAG
* *
30153737 TGAGAATTAAG
1 AGAGAATTGAG
30153748 AGAGAATTGAG
1 AGAGAATTGAG
*
30153759 AGAGAGTTGAG
1 AGAGAATTGAG
*
30153770 AGTGAATTGAG
1 AGAGAATTGAG
30153781 AGAGA
1 AGAGA
30153786 GGGAAATTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 41 1.00
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (11 bp):
AGAGAATTGAG
Found at i:30153771 original size:164 final size:164
Alignment explanation
Indices: 30153452--30153760 Score: 503
Period size: 164 Copynumber: 1.9 Consensus size: 164
30153442 CCATATAAAC
**
30153452 GAATAAGAGAATTTTCCATTAAGAATTTCAATAAATACGAATAAAAATTGTAATACAAAATTAAT
1 GAATAAGAGAATTTTCCATTAAGAATTTCAATAAATACGAATAAAAATCATAATACAAAATTAAT
** * *
30153517 TAAAAAAAACTTAAAACAATTTTAATAAAAAATGTGAGTGAATTGAGAGAATTAAGTGAGAATTA
66 TAAAAAAAACTTAAAACAATTTTAATAAAAAATAAGAGTGAACTAAGAGAATTAAGTGAGAATTA
30153582 AGAGAAAATTGAGAGTAAATTGAGAGAGAGAAGT
131 AGAGAAAATTGAGAGTAAATTGAGAGAGAGAAGT
*
30153616 GAATAAGAGAATTTTCCATTAAGAATTTCAATAAATATGAATAAAAATCATAATACAAAATTAAT
1 GAATAAGAGAATTTTCCATTAAGAATTTCAATAAATACGAATAAAAATCATAATACAAAATTAAT
* * *
30153681 TAAAAAAACCTTAAGAA-ATTTTTAATAAAAAATAAGAGTGAACTAAGAGAATTGAGTGAGAATT
66 TAAAAAAAACTTAA-AACAATTTTAATAAAAAATAAGAGTGAACTAAGAGAATTAAGTGAGAATT
*
30153745 AAGAGAGAATTGAGAG
130 AAGAGAAAATTGAGAG
30153761 AGAGTTGAGA
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
164 131 0.98
165 2 0.02
ACGTcount: A:0.53, C:0.05, G:0.16, T:0.27
Consensus pattern (164 bp):
GAATAAGAGAATTTTCCATTAAGAATTTCAATAAATACGAATAAAAATCATAATACAAAATTAAT
TAAAAAAAACTTAAAACAATTTTAATAAAAAATAAGAGTGAACTAAGAGAATTAAGTGAGAATTA
AGAGAAAATTGAGAGTAAATTGAGAGAGAGAAGT
Found at i:30154139 original size:16 final size:17
Alignment explanation
Indices: 30154118--30154152 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30154108 AGTATTGAAT
*
30154118 TATT-AATAATTTAATA
1 TATTAAATAATTAAATA
30154134 TATTAAATAATTAAATA
1 TATTAAATAATTAAATA
30154151 TA
1 TA
30154153 AATATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTAAATAATTAAATA
Done.