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 200 of 343
Found at i:66237558 original size:22 final size:22
Alignment explanation
Indices: 66237528--66237587 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
66237518 TCTCCGATTA
66237528 TTAGTACATTAGTGCTCTCCGT
1 TTAGTACATTAGTGCTCTCCGT
* * *
66237550 TTAGCACATTCGTGCTCTCTGT
1 TTAGTACATTAGTGCTCTCCGT
*
66237572 TTAGTACTTTAGTGCT
1 TTAGTACATTAGTGCT
66237588 ATCTATTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (22 bp):
TTAGTACATTAGTGCTCTCCGT
Found at i:66238963 original size:75 final size:74
Alignment explanation
Indices: 66238822--66239551 Score: 490
Period size: 75 Copynumber: 9.7 Consensus size: 74
66238812 TACAATCCAC
* ** * * * * * *
66238822 TGATTTAAGATCACGACTATCGATTTTTCTAGCAGCTCGCTGACCTACATTCGCAACTGATATTT
1 TGATTTAAGATCGCGACCCTCG-GTTTTCTAACAGCTCGCTGACCTACGTTCACAGCTGATTTTT
66238887 TTGCGGCTCAT
65 TTGCGGCTC-T
* * * * * **
66238898 TGATTTAAGATCGCGACCATCGGCTTTCTAATAGCTTGATGACCTACGTTCGTAGCTGATTTTTT
1 TGATTTAAGATCGCGACCCTCGGTTTTCTAACAGCTCGCTGACCTACGTTCACAGCTGATTTTTT
* *
66238963 TACGGTCTCC
66 TGCGG-CTCT
* * * * * ** *
66238973 TAATTTAAGATTGCGACCATCGGTTTTTTAACAGCTCGCTGACCTACGTTCCCAATTGATATTTT
1 TGATTTAAGATCGCGACCCTCGGTTTTCTAACAGCTCGCTGACCTACGTTCACAGCTGATTTTTT
* *
66239038 TACGG-TCCGC
66 TGCGGCT-C-T
* *
66239048 TGATTTAAGATCGCGACCCTCGGTTTTCTAATAGCTCGCTAACCTACGTTCACAGCTGATATTTT
1 TGATTTAAGATCGCGACCCTCGGTTTTCTAACAGCTCGCTGACCTACGTTCACAGCTGAT-TTTT
*
66239113 TAG-GG-TCT
65 TTGCGGCTCT
* * ** * *
66239121 GCTGATTTAAGATCGCGACCCTCGATTTTCTAACAACTTTCTAACCTACGTTCACAGTTGATACT
1 --TGATTTAAGATCGCGACCCTCGGTTTTCTAACAGCTCGCTGACCTACGTTCACAGCTGAT--T
* *
66239186 TTTATG-GTC-CAT
62 TTTTTGCGGCTC-T
* * * * *
66239198 TGATTTAAGATCACGACCCTTGGTTTTCTAACAGCTCGTTGACCTACGTTCACAACTGATATTTT
1 TGATTTAAGATCGCGACCCTCGGTTTTCTAACAGCTCGCTGACCTACGTTCACAGCTGATTTTTT
** * *
66239263 TATGGTTCGC
66 TGCGGCTC-T
* *** * *
66239273 TGATTTAAGATCGTGA-CCTATTTTTCTCTAATAGCTCGCTGACCTATGTTCACAGCTGATATTT
1 TGATTTAAGATCGCGACCCTCGGTTT-TCTAACAGCTCGCTGACCTACGTTCACAGCTGAT-TTT
** *
66239337 TTATG-ATCTGT
64 TT-TGCGGCTCT
* * * * * * *
66239348 TGATTTAAGATCACGACCCTCGATTTTCTAACAGCTCGTTGACTTACATTCACAGTTGATATTTT
1 TGATTTAAGATCGCGACCCTCGGTTTTCTAACAGCTCGCTGACCTACGTTCACAGCTGATTTTTT
* *
66239413 TACGG-TCCGC
66 TGCGGCT-C-T
* ** * * * * *
66239423 TGATTTAAGATCACGACCCTCAATTTTCTAATAGCTC-CATGACCTACATTTACGGCTGATATTT
1 TGATTTAAGATCGCGACCCTCGGTTTTCTAACAGCTCGC-TGACCTACGTTCACAGCTGATTTTT
**
66239487 TTATGG-TCAT
65 TTGCGGCTC-T
* * * * *
66239497 TGATTTAATATCACGACCTTTGGTTTTCTAACAGCTCGTTGACCTACGTTCACAG
1 TGATTTAAGATCGCGACCCTCGGTTTTCTAACAGCTCGCTGACCTACGTTCACAG
66239552 GTGAGATTTT
Statistics
Matches: 515, Mismatches: 119, Indels: 42
0.76 0.18 0.06
Matches are distributed among these distances:
73 7 0.01
74 58 0.11
75 403 0.78
76 45 0.09
77 2 0.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (74 bp):
TGATTTAAGATCGCGACCCTCGGTTTTCTAACAGCTCGCTGACCTACGTTCACAGCTGATTTTTT
TGCGGCTCT
Found at i:66239052 original size:150 final size:152
Alignment explanation
Indices: 66238773--66239598 Score: 809
Period size: 150 Copynumber: 5.5 Consensus size: 152
66238763 GTTACAGTTA
* * * * * ** * *
66238773 TCTAATAGCTCGCTGACATAAGTTCACAGTTGATATTTTTACAATC-CACTGATTTAAGATCACG
1 TCTAACAGCTCGTTGACCTACGTTCACAGCTGATATTTTTACGGTCTCGCTGATTTAAGATCGCG
* * * * *
66238837 ACTATCGATTTTTCTAGCAGCTCGCTGACCTACATTCGCAACTGATATTTTTGCGG-CTCATTGA
66 ACCATCGATTTTTCTAACAGCTCGCTGACCTACGTTCACAACTGATATTTTTACGGTC-CATTGA
* * *
66238901 TTTAAGATCGCGACCATCGGCTT
130 TTTAAGATCACGACCCTCGGTTT
* * * ** * * *
66238924 TCTAATAGCTTGATGACCTACGTTCGTAGCTGATTTTTTTACGGTCTC-CTAATTTAAGATTGCG
1 TCTAACAGCTCGTTGACCTACGTTCACAGCTGATATTTTTACGGTCTCGCTGATTTAAGATCGCG
* * * **
66238988 ACCATCGGTTTTT-TAACAGCTCGCTGACCTACGTTCCCAATTGATATTTTTACGGTCCGCTGAT
66 ACCATCGATTTTTCTAACAGCTCGCTGACCTACGTTCACAACTGATATTTTTACGGTCCATTGAT
*
66239052 TTAAGATCGCGACCCTCGGTTT
131 TTAAGATCACGACCCTCGGTTT
* * * *
66239074 TCTAATAGCTCGCTAACCTACGTTCACAGCTGATATTTTTAGGGTCT-GCTGATTTAAGATCGCG
1 TCTAACAGCTCGTTGACCTACGTTCACAGCTGATATTTTTACGGTCTCGCTGATTTAAGATCGCG
* * ** * ** * *
66239138 ACCCTCGA-TTTTCTAACAACTTTCTAACCTACGTTCACAGTTGATACTTTTATGGTCCATTGAT
66 ACCATCGATTTTTCTAACAGCTCGCTGACCTACGTTCACAACTGATATTTTTACGGTCCATTGAT
*
66239202 TTAAGATCACGACCCTTGGTTT
131 TTAAGATCACGACCCTCGGTTT
* * *
66239224 TCTAACAGCTCGTTGACCTACGTTCACAACTGATATTTTTATGGT-TCGCTGATTTAAGATCGTG
1 TCTAACAGCTCGTTGACCTACGTTCACAGCTGATATTTTTACGGTCTCGCTGATTTAAGATCGCG
* * * * * **
66239288 ACC-T--ATTTTTCTCTAATAGCTCGCTGACCTATGTTCACAGCTGATATTTTTATGATCTGTTG
66 ACCATCGA-TTTT-TCTAACAGCTCGCTGACCTACGTTCACAACTGATATTTTTACGGTCCATTG
*
66239350 ATTTAAGATCACGACCCTCGATTT
129 ATTTAAGATCACGACCCTCGGTTT
* * * *
66239374 TCTAACAGCTCGTTGACTTACATTCACAGTTGATATTTTTACGGTC-CGCTGATTTAAGATCACG
1 TCTAACAGCTCGTTGACCTACGTTCACAGCTGATATTTTTACGGTCTCGCTGATTTAAGATCGCG
* * * * * ** *
66239438 ACCCTC-AATTTTCTAATAGCTC-CATGACCTACATTTACGGCTGATATTTTTATGGT-CATTGA
66 ACCATCGATTTTTCTAACAGCTCGC-TGACCTACGTTCACAACTGATATTTTTACGGTCCATTGA
* * *
66239500 TTTAATATCACGACCTTTGGTTT
130 TTTAAGATCACGACCCTCGGTTT
* * * * *
66239523 TCTAACAGCTCGTTGACCTACGTTCACAGGTGAGATTTTTATGGTC-CGCTTATTTAATATCGCG
1 TCTAACAGCTCGTTGACCTACGTTCACAGCTGATATTTTTACGGTCTCGCTGATTTAAGATCGCG
* *
66239587 ACCCTTGATTTT
66 ACCATCGATTTT
66239599 CTAGCAATTT
Statistics
Matches: 567, Mismatches: 95, Indels: 27
0.82 0.14 0.04
Matches are distributed among these distances:
147 1 0.00
149 94 0.17
150 405 0.71
151 65 0.11
152 2 0.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (152 bp):
TCTAACAGCTCGTTGACCTACGTTCACAGCTGATATTTTTACGGTCTCGCTGATTTAAGATCGCG
ACCATCGATTTTTCTAACAGCTCGCTGACCTACGTTCACAACTGATATTTTTACGGTCCATTGAT
TTAAGATCACGACCCTCGGTTT
Found at i:66239171 original size:225 final size:224
Alignment explanation
Indices: 66239164--66239601 Score: 441
Period size: 225 Copynumber: 2.0 Consensus size: 224
66239154 CAACTTTCTA
* * * *
66239164 ACCTACGTTCACAGTTGATACTTTTATGGTCCATTGATTTAAGATCACGACCCTTGGTTTTCTAA
1 ACCTACGTTCACAGTTGATATTTTTACGGTCCACTGATTTAAGATCACGACCCTCGGTTTTCTAA
* * * * ** *
66239229 CAGCTCGTTGACCTACGTTCACAACTGATATTTTTATGGTTCGCTGATTTAAGATCGTGA-CCTA
66 CAGCTCGCTGACCTACGTTCACAACTGATATTTTTACGGTCCACTGATTTAAGATCACGACCCTC
** * * * * *
66239293 TTTTTCTCTAATAGCTCGCTGACCTATGTTCACAGCTGATATTTTTATGATCTGTTGATTTAAGA
131 GGTTT-TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTAGGGTCTGCTGATTTAAGA
* *
66239358 TCACGACCCTCGATTTTCTAACAGCTCGTTG
195 TCGCGACCCTCGATTTTCTAACAGCT-TTTG
* * * **
66239389 ACTTACATTCACAGTTGATATTTTTACGGTCCGCTGATTTAAGATCACGACCCTCAATTTTCTAA
1 ACCTACGTTCACAGTTGATATTTTTACGGTCCACTGATTTAAGATCACGACCCTCGGTTTTCTAA
* * * ** * * * *
66239454 TAGCTC-CATGACCTACATTTACGGCTGATATTTTTATGGT-CATTGATTTAATATCACGACCTT
66 CAGCTCGC-TGACCTACGTTCACAACTGATATTTTTACGGTCCACTGATTTAAGATCACGACCCT
* * * * * * * *
66239517 TGGTTTTCTAACAGCTCGTTGACCTACGTTCACAGGTGAGATTTTTATGGTCCGCTTATTTAATA
130 CGGTTTTCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTAGGGTCTGCTGATTTAAGA
*
66239582 TCGCGACCCTTGATTTTCTA
195 TCGCGACCCTCGATTTTCTA
66239602 GCAATTTGCT
Statistics
Matches: 175, Mismatches: 36, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
224 81 0.46
225 94 0.54
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (224 bp):
ACCTACGTTCACAGTTGATATTTTTACGGTCCACTGATTTAAGATCACGACCCTCGGTTTTCTAA
CAGCTCGCTGACCTACGTTCACAACTGATATTTTTACGGTCCACTGATTTAAGATCACGACCCTC
GGTTTTCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTAGGGTCTGCTGATTTAAGAT
CGCGACCCTCGATTTTCTAACAGCTTTTG
Found at i:66240594 original size:15 final size:15
Alignment explanation
Indices: 66240571--66240605 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
66240561 TAACTTATCC
*
66240571 TTTTGAAAAAAAT-A
1 TTTTTAAAAAAATAA
66240585 TTTTTAAAAAAATAA
1 TTTTTAAAAAAATAA
66240600 TTTTTA
1 TTTTTA
66240606 TAAATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
TTTTTAAAAAAATAA
Found at i:66240609 original size:17 final size:17
Alignment explanation
Indices: 66240576--66240638 Score: 51
Period size: 18 Copynumber: 3.8 Consensus size: 17
66240566 TATCCTTTTG
66240576 AAAAAAAT-A-TTTT-T
1 AAAAAAATAATTTTTAT
66240590 AAAAAAATAATTTTTAT
1 AAAAAAATAATTTTTAT
** *
66240607 AAATAATTTTATTTTTAT
1 AAA-AAAATAATTTTTAT
*
66240625 ATAAAAATTAATTT
1 A-AAAAAATAATTT
66240639 CAACCAACCA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 8 0.21
15 1 0.03
16 4 0.10
17 4 0.10
18 20 0.51
19 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAAAAAATAATTTTTAT
Found at i:66240638 original size:18 final size:17
Alignment explanation
Indices: 66240584--66240638 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
66240574 TGAAAAAAAT
66240584 ATTTTTA-AAAAAA-TA
1 ATTTTTATAAAAAATTA
* *
66240599 ATTTTTATAAATAATTTT
1 ATTTTTATAAA-AAATTA
66240617 ATTTTTATATAAAAATTA
1 ATTTTTATA-AAAAATTA
66240635 ATTT
1 ATTT
66240639 CAACCAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 7 0.22
16 3 0.09
17 2 0.06
18 18 0.56
19 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTTATAAAAAATTA
Found at i:66240832 original size:12 final size:11
Alignment explanation
Indices: 66240799--66240873 Score: 73
Period size: 12 Copynumber: 6.4 Consensus size: 11
66240789 ATTTAATAAA
66240799 TTTAAATAATAT
1 TTTAAA-AATAT
66240811 TCTT-AAAATAT
1 T-TTAAAAATAT
66240822 TATTAAAAATAT
1 T-TTAAAAATAT
66240834 TTATAAAAATA-
1 TT-TAAAAATAT
66240845 TTTATAAAATAT
1 TTTA-AAAATAT
66240857 TTAATAAAAATAT
1 TT--TAAAAATAT
66240870 TTTA
1 TTTA
66240874 CAATTTATAA
Statistics
Matches: 55, Mismatches: 1, Indels: 15
0.77 0.01 0.21
Matches are distributed among these distances:
10 2 0.04
11 19 0.35
12 21 0.38
13 11 0.20
14 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:66240868 original size:13 final size:12
Alignment explanation
Indices: 66240815--66240871 Score: 82
Period size: 12 Copynumber: 4.8 Consensus size: 12
66240805 TAATATTCTT
66240815 AAAATA-TTATTA
1 AAAATATTTA-TA
66240827 AAAATATTTATA
1 AAAATATTTATA
66240839 AAAATATTTAT-
1 AAAATATTTATA
66240850 AAAATATTTAATA
1 AAAATATTT-ATA
66240863 AAAATATTT
1 AAAATATTT
66240872 TACAATTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
11 9 0.21
12 21 0.50
13 12 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AAAATATTTATA
Found at i:66240889 original size:31 final size:32
Alignment explanation
Indices: 66240844--66240904 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 32
66240834 TTATAAAAAT
66240844 ATTTATAAAATATTTAATAA-AAATATTTTACA
1 ATTTATAAAATATTTAATAATAAAT-TTTTACA
66240876 ATTTAT-AAATATTTAATAATAAATTTTTA
1 ATTTATAAAATATTTAATAATAAATTTTTA
66240905 TAGTATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (32 bp):
ATTTATAAAATATTTAATAATAAATTTTTACA
Found at i:66247483 original size:129 final size:130
Alignment explanation
Indices: 66247247--66247497 Score: 387
Period size: 129 Copynumber: 1.9 Consensus size: 130
66247237 CTTTCGTTAG
* * *
66247247 TTGATTCAATGTTGCATGTATATATAGTTGTACATATTTGTAAGAAATACATACATTGAGAGAAT
1 TTGATTCAATGCTACATGTATATATAGTTGTACATATTTATAAGAAATACATACATTGAGAG-AT
*
66247312 TTTTTCCTCAATACATTAGAGTATTCATCTCTAATTTCATCATGTTATCAGATTTTTTATCCTTA
65 TTTTTCCTCAATACATTAGAGTATTCATCTCTAATTTCATCATGGTATCAGATTTTTTATCCTTA
66247377 A
130 A
* * * * *
66247378 TTGATTCGATGCTACATGTATATATAGTTGTATATATTTATTAGAAATATATACTTTGAGAG-TT
1 TTGATTCAATGCTACATGTATATATAGTTGTACATATTTATAAGAAATACATACATTGAGAGATT
* *
66247442 TTTTCTTCAATACATTAGAGTATTCATCTCTAATTTTATCATGGTATCAGATTTTT
66 TTTTCCTCAATACATTAGAGTATTCATCTCTAATTTCATCATGGTATCAGATTTTT
66247498 ATCTAATTTT
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
129 55 0.50
131 54 0.50
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (130 bp):
TTGATTCAATGCTACATGTATATATAGTTGTACATATTTATAAGAAATACATACATTGAGAGATT
TTTTCCTCAATACATTAGAGTATTCATCTCTAATTTCATCATGGTATCAGATTTTTTATCCTTAA
Found at i:66247527 original size:13 final size:13
Alignment explanation
Indices: 66247511--66247535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66247501 TAATTTTTGA
66247511 GATTTTTTTTTCT
1 GATTTTTTTTTCT
66247524 GATTTTTTTTTC
1 GATTTTTTTTTC
66247536 CGAAAACCCT
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:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (13 bp):
GATTTTTTTTTCT
Found at i:66252146 original size:27 final size:27
Alignment explanation
Indices: 66252111--66252164 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
66252101 CTACAACGGT
66252111 TATTGTATTCTTGTGGGAGGAAACTTA
1 TATTGTATTCTTGTGGGAGGAAACTTA
66252138 TATTGTATTCTTGTGGGAGGAAACTTA
1 TATTGTATTCTTGTGGGAGGAAACTTA
66252165 GTCATTTGGA
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:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (27 bp):
TATTGTATTCTTGTGGGAGGAAACTTA
Found at i:66253308 original size:101 final size:101
Alignment explanation
Indices: 66253127--66253312 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 101
66253117 TTTTATGAAG
** * *
66253127 CCCTAAAACTTGAGATAAGTGGGATTTAGATGCTCATTTAATTTGATACCGATAATTCTTTCAGT
1 CCCTAAAACTTGAGATAAGTGGGAACTAGATGCTCATTTAATCTGATACCGATAATTCTTTCAAT
* * *
66253192 TCTCTGATGCGATATATTCAGCCAAGGCTTCAGACA
66 GCTCTAATGCCATATATTCAGCCAAGGCTTCAGACA
* *
66253228 CCCTAAAACTTGAGATAAGTGGGAACTAGGTGCTCATTTAATCTGATA-TGCATAATTCTTTCAA
1 CCCTAAAACTTGAGATAAGTGGGAACTAGATGCTCATTTAATCTGATACCG-ATAATTCTTTCAA
*
66253292 TGGTCTAATGCCATATATTCA
65 TGCTCTAATGCCATATATTCA
66253313 AGTAAGACCA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
100 1 0.01
101 73 0.99
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (101 bp):
CCCTAAAACTTGAGATAAGTGGGAACTAGATGCTCATTTAATCTGATACCGATAATTCTTTCAAT
GCTCTAATGCCATATATTCAGCCAAGGCTTCAGACA
Found at i:66258340 original size:20 final size:20
Alignment explanation
Indices: 66258315--66258352 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
66258305 TAATAAATTA
66258315 ATTGTCATCCTATAATTAGT
1 ATTGTCATCCTATAATTAGT
*
66258335 ATTGTCATCTTATAATTA
1 ATTGTCATCCTATAATTA
66258353 TTAAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (20 bp):
ATTGTCATCCTATAATTAGT
Found at i:66261457 original size:40 final size:40
Alignment explanation
Indices: 66261402--66261480 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
66261392 CCTCTGATAC
*
66261402 CAATTACAGACTATTTAAAGTGCGGAAGATCTATTTTTTT
1 CAATTACAGACTATTTAAAGTACGGAAGATCTATTTTTTT
*
66261442 CAATTATAGACTATTTAAAGTACGGAAGATCTATTTTTT
1 CAATTACAGACTATTTAAAGTACGGAAGATCTATTTTTT
66261481 ATTAAAGGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (40 bp):
CAATTACAGACTATTTAAAGTACGGAAGATCTATTTTTTT
Found at i:66261506 original size:16 final size:17
Alignment explanation
Indices: 66261485--66261518 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
66261475 TTTTTTATTA
66261485 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
66261501 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
66261518 A
1 A
66261519 GAGAGGATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:66263090 original size:18 final size:18
Alignment explanation
Indices: 66263067--66263101 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
66263057 TGTTAATATA
66263067 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCCTGATTG
*
66263085 GGAGTAAATCCTTGATT
1 GGAGTAAATCCCTGATT
66263102 AGGACATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGAGTAAATCCCTGATTG
Found at i:66269024 original size:6 final size:6
Alignment explanation
Indices: 66269013--66269044 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
66269003 TATATTGAAT
66269013 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT
66269045 TATAAACTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:66270230 original size:21 final size:23
Alignment explanation
Indices: 66270192--66270243 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
66270182 CTTAGGTTGA
*
66270192 TGTTCTTTTGGAAAAACT-GATT
1 TGTTGTTTTGGAAAAACTCGATT
66270214 TGTTGTTTTGG-AAAACTCGATT
1 TGTTGTTTTGGAAAAACTCGATT
66270236 TGTTGTTT
1 TGTTGTTT
66270244 CCAAAATCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (23 bp):
TGTTGTTTTGGAAAAACTCGATT
Found at i:66270255 original size:20 final size:22
Alignment explanation
Indices: 66270204--66270255 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
66270194 TTCTTTTGGA
**
66270204 AAAACT-GATTTGTTGTTTTGG
1 AAAACTCGATTTGTTGTTTTCC
66270225 AAAACTCGATTTGTTG-TTTCC
1 AAAACTCGATTTGTTGTTTTCC
66270246 AAAA-TCGATT
1 AAAACTCGATT
66270256 GATTTATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 13 0.46
22 9 0.32
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (22 bp):
AAAACTCGATTTGTTGTTTTCC
Found at i:66271853 original size:11 final size:11
Alignment explanation
Indices: 66271821--66271847 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
66271811 GTTTAGGAAA
66271821 AAAATAAAATT
1 AAAATAAAATT
66271832 AAAATAAAATT
1 AAAATAAAATT
66271843 AAAAT
1 AAAAT
66271848 CCAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATAAAATT
Found at i:66276269 original size:75 final size:73
Alignment explanation
Indices: 66276113--66276374 Score: 229
Period size: 76 Copynumber: 3.5 Consensus size: 73
66276103 CAAGGTTTTG
* * * * * * *
66276113 CGCCCAGCCCTAGTTAGATAAACCGACGGTATCAAATGTGTGCCCAACACTAGTCAGATAAAGCA
1 CGCCCAGCGCTAG-TCGATAAACCAACGATATCAAATGTGTG-CCAGCACTAGTCGGATAAACCA
*
66276178 ACAAT-GTGTT
64 ACAATCAT-TT
* * * **
66276188 GGGCCCAGCGCTAGTCGGTAAACCAACGATATTAAATGTGTGCTCAGCACTAGTCGGATAAATAA
1 -CGCCCAGCGCTAGTCGATAAACCAACGATATCAAATGTGTGC-CAGCACTAGTCGGATAAACCA
66276253 ACAATCATTT
64 ACAATCATTT
* ** * * * *
66276263 CTGCCCAGCACTAGTCAGATAAACTGATGATATCAGATGTGTGCCTAGCACTAGTTGGATATACC
1 C-GCCCAGCGCTAGTC-GATAAACCAACGATATCAAATGTGTGCC-AGCACTAGTCGGATAAACC
*
66276328 AACAAACATTT
63 AACAATCATTT
*
66276339 ACGTCCAGCGCTAGTCGAATAAACCAACGATATCAA
1 -CGCCCAGCGCTAGTCG-ATAAACCAACGATATCAA
66276375 GCATCATTTG
Statistics
Matches: 148, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
74 1 0.01
75 62 0.42
76 84 0.57
77 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (73 bp):
CGCCCAGCGCTAGTCGATAAACCAACGATATCAAATGTGTGCCAGCACTAGTCGGATAAACCAAC
AATCATTT
Found at i:66276317 original size:76 final size:76
Alignment explanation
Indices: 66276114--66276323 Score: 210
Period size: 75 Copynumber: 2.8 Consensus size: 76
66276104 AAGGTTTTGC
* * * * * * *
66276114 GCCCAGCCCTAGTTAGATAAACCGACGGTATCAAATGTGTGCCCAACACTAGTCAGATAAAGCAA
1 GCCCAGCACTAGTCAGATAAACCGACGATATCAAATGTGTGCCTAGCACTAGTCGGATAAAGAAA
* *
66276179 CAATGTGTTGG
66 CAATATGTTCG
* * * * *
66276190 GCCCAGCGCTAGTC-GGTAAACCAACGATATTAAATGTGTG-CTCAGCACTAGTCGGATAAATAA
1 GCCCAGCACTAGTCAGATAAACCGACGATATCAAATGTGTGCCT-AGCACTAGTCGGATAAAGAA
*
66276253 ACAATCAT-TTCT
65 ACAAT-ATGTTCG
* * * *
66276265 GCCCAGCACTAGTCAGATAAACTGATGATATCAGATGTGTGCCTAGCACTAGTTGGATA
1 GCCCAGCACTAGTCAGATAAACCGACGATATCAAATGTGTGCCTAGCACTAGTCGGATA
66276324 TACCAACAAA
Statistics
Matches: 108, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
74 1 0.01
75 58 0.54
76 47 0.44
77 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (76 bp):
GCCCAGCACTAGTCAGATAAACCGACGATATCAAATGTGTGCCTAGCACTAGTCGGATAAAGAAA
CAATATGTTCG
Found at i:66278503 original size:27 final size:27
Alignment explanation
Indices: 66278472--66278532 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
66278462 GTGCACCTAG
* *
66278472 ACCCCTAATTAGTAAAATGACTGAAAT
1 ACCCCTAACTAGTAAAATAACTGAAAT
* * *
66278499 ACCCCTACCTGGTAAAATAACTGATAT
1 ACCCCTAACTAGTAAAATAACTGAAAT
*
66278526 GCCCCTA
1 ACCCCTA
66278533 TGATATGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.25
Consensus pattern (27 bp):
ACCCCTAACTAGTAAAATAACTGAAAT
Found at i:66283542 original size:38 final size:39
Alignment explanation
Indices: 66283481--66283578 Score: 126
Period size: 38 Copynumber: 2.5 Consensus size: 39
66283471 ATCGTGATCT
* * * * *
66283481 GAAGCCCGAAGTCTAGCTAAAGCACATAAGTGC-AAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTCCTAAACG
66283519 GAAGCCCGAAGGCTAACTGAAGCACACAAGTCCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTCCTAAACG
* *
66283558 AAAGCCAGAAGGCTAACTGAA
1 GAAGCCCGAAGGCTAACTGAA
66283579 TCTCATCAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
38 28 0.54
39 24 0.46
ACGTcount: A:0.41, C:0.24, G:0.23, T:0.11
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTCCTAAACG
Found at i:66286873 original size:49 final size:49
Alignment explanation
Indices: 66286788--66287551 Score: 1256
Period size: 49 Copynumber: 15.9 Consensus size: 49
66286778 TAGTATGGCG
66286788 TAAT-GCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
66286834 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
66286883 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66286932 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
66286981 TAATGGCCGATGTGATGAATTTGAAAGTG--TATATATGTGATACGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
66287028 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
66287077 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
66287126 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66287175 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66287224 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66287271 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66287318 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66287365 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
66287414 TAATGGCTGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
66287461 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * * *
66287508 GAGTGGCCAACGTGATGGATGTGAAACTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
66287552 TCCCGAAGGG
Statistics
Matches: 686, Mismatches: 23, Indels: 17
0.94 0.03 0.02
Matches are distributed among these distances:
46 4 0.01
47 302 0.44
48 1 0.00
49 379 0.55
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:66286966 original size:96 final size:95
Alignment explanation
Indices: 66286788--66287551 Score: 1223
Period size: 96 Copynumber: 8.0 Consensus size: 95
66286778 TAGTATGGCG
*
66286788 TAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
66286852 ATGTGAAAGTGTATATATATGTGATAGGGCC
66 ATGTGAAAGTG-ATATATATGTGATAAGGCC
*
66286883 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
66286948 GAATGTGAAAGTGTATATATATGTGATAAGGCC
64 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
* *
66286981 TAATGGCCGATGTGATGAATTTGAAAGTGTATATATGTGATACGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
66287046 ATGTGAAAGTGTATATATATGTGATAGGGCC
66 ATGTGAAAGTG-ATATATATGTGATAAGGCC
*
66287077 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
66287142 GAATGTGAAAGTGTATATATATGTGGTAAGGCC
64 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
66287175 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
66287240 GAATGTGAAAGTG-TATATATGTGATAAGGCC
64 GAATGTGAAAGTGATATATATGTGATAAGGCC
66287271 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66287336 ATGTGAAAGTG-TATATATGTGATAAGGCC
66 ATGTGAAAGTGATATATATGTGATAAGGCC
*
66287365 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
66287430 GAATGTGAAAGTG-TATATATGTGATAAGGCC
64 GAATGTGAAAGTGATATATATGTGATAAGGCC
* * * * * * *
66287461 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
66287526 ATGTGAAACTG-TATAAATGTGATAAG
66 ATGTGAAAGTGATATATATGTGATAAG
66287552 TCCCGAAGGG
Statistics
Matches: 639, Mismatches: 23, Indels: 15
0.94 0.03 0.02
Matches are distributed among these distances:
94 146 0.23
95 4 0.01
96 256 0.40
98 233 0.36
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (95 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGATATATATGTGATAAGGCC
Found at i:66287742 original size:35 final size:36
Alignment explanation
Indices: 66287670--66287746 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 36
66287660 CCGAGCTCTA
* * *
66287670 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACG-GTGGAGATTATGTCCGGGT
*
66287707 AAGACCCGATAACTTC-GTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGGTGGAGATTATGTCCGGGT
66287742 AAGAC
1 AAGAC
66287747 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 22 0.61
37 14 0.39
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (36 bp):
AAGACCCGATAACTACGGTGGAGATTATGTCCGGGT
Found at i:66289701 original size:39 final size:40
Alignment explanation
Indices: 66289600--66289743 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 40
66289590 TTGAATGATG
* *
66289600 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
66289639 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
66289680 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
66289719 TCCGGGTTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
66289744 CATGCTAGTG
Statistics
Matches: 90, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
39 35 0.39
40 37 0.41
41 17 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:66289762 original size:40 final size:40
Alignment explanation
Indices: 66289718--66290074 Score: 507
Period size: 40 Copynumber: 8.9 Consensus size: 40
66289708 GAGTTACTAA
*
66289718 ATCCGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
66289758 ATCCGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
66289798 ATCCGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
66289838 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
66289878 ATCTGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
66289918 ATCTGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
66289958 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* ** * * * *
66289998 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
66290038 ATCCGGGCTAGGTCTCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
66290075 CGTGTATTCG
Statistics
Matches: 295, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 295 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:66293554 original size:49 final size:49
Alignment explanation
Indices: 66293493--66294256 Score: 1292
Period size: 49 Copynumber: 15.9 Consensus size: 49
66293483 TAGTATGGCG
*
66293493 TAAT-GCCGATGTGATGAATGTGAAAGTGTATATATATTTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
66293541 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
66293590 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATACGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
66293639 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
66293688 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
66293737 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66293786 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66293835 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66293882 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66293929 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66293978 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66294025 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66294072 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66294119 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
66294166 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
66294213 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
66294257 TCCCGAAGGG
Statistics
Matches: 695, Mismatches: 16, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
47 330 0.47
48 5 0.01
49 360 0.52
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:66294433 original size:37 final size:37
Alignment explanation
Indices: 66294377--66294449 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
66294367 GAGCTCTAAA
* * *
66294377 GACCCGATGACTACATGTGGGGATTTTGTCCGGGTAG
1 GACCCGATAACTACATGTGGAGATTATGTCCGGGTAG
* *
66294414 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTA
1 GACCCGATAACTACATGTGGAGATTATGTCCGGGTA
66294450 AGACTTCGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (37 bp):
GACCCGATAACTACATGTGGAGATTATGTCCGGGTAG
Found at i:66307786 original size:47 final size:45
Alignment explanation
Indices: 66307718--66307866 Score: 120
Period size: 46 Copynumber: 3.2 Consensus size: 45
66307708 CCTAGACACA
* * * *
66307718 GTCTTACACTAGCTCATATCTC-AAGTCAATGCCATGTTCCAGGCAT
1 GTCTTACACT-GATCATATCTCGAAGCCAATG-CATGTCCCAGACAT
* * *
66307764 GGTCTTACACTGATTATCATCTCGTAGCCGATGCATGTCCCAGACAT
1 -GTCTTACACTGATCAT-ATCTCGAAGCCAATGCATGTCCCAGACAT
* * * * ***
66307811 GTCTTACACTGGCTTACATCTCGAGGTTGATGCATGTCCCAGACAT
1 GTCTTACACT-GATCATATCTCGAAGCCAATGCATGTCCCAGACAT
66307857 GTCTTACACT
1 GTCTTACACT
66307867 AGCCCTCGTC
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
46 49 0.57
47 31 0.36
48 6 0.07
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (45 bp):
GTCTTACACTGATCATATCTCGAAGCCAATGCATGTCCCAGACAT
Found at i:66307821 original size:46 final size:46
Alignment explanation
Indices: 66307750--66307866 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 46
66307740 AAGTCAATGC
* *
66307750 CATGTTCCAGGCATGGTCTTACACT-GATTATCATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGATTA-CATCTCG-AGGCCGATG
* **
66307797 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGTTGATG
1 CATGTCCCAGACATGTCTTACACTGGATTACATCTCGAGGCCGATG
66307843 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
66307867 AGCCCTCGTC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
45 1 0.02
46 46 0.73
47 16 0.25
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGATTACATCTCGAGGCCGATG
Found at i:66307889 original size:46 final size:44
Alignment explanation
Indices: 66307790--66307960 Score: 130
Period size: 46 Copynumber: 3.7 Consensus size: 44
66307780 TCATCTCGTA
* * * *
66307790 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGCCCT-C-TCTCAAT
**
66307836 GTTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GCCCTC-TCTCAAT
* * * *
66307882 GCCGATGCCATGTGCTAAACATGGTCTTACACTG-GCTCTCAT-AATGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGCCCTCTC-TCAA--T
* *
66307929 GGCTGATGCATGTCCCAGATATGTCTTACACT
1 -GCCGATGCATGTCCCAGACATGTCTTACACT
66307961 AGCTCACACA
Statistics
Matches: 100, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
45 4 0.04
46 54 0.54
47 26 0.26
48 16 0.16
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGCCCTCTCTCAAT
Found at i:66310695 original size:31 final size:32
Alignment explanation
Indices: 66310638--66310699 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
66310628 ACGAAGTCAC
* *
66310638 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCAAAGCCACCAGAA
*
66310670 CAGATATATATA-TGTGGCAAAGCCACCAGA
1 CAGATATAGATATTGTGGCAAAGCCACCAGA
66310700 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCAAAGCCACCAGAA
Found at i:66311354 original size:26 final size:26
Alignment explanation
Indices: 66311325--66311388 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
66311315 TCACACAAGT
*
66311325 TAGTCATTTACGCACGAGGGGCAAAA
1 TAGTCATTTACACACGAGGGGCAAAA
* *
66311351 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTT-ACACACGAGGGGCAAAA
* *
66311378 TGGTAATTTAC
1 TAGTCATTTAC
66311389 CCCACAAGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 11 0.34
27 21 0.66
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (26 bp):
TAGTCATTTACACACGAGGGGCAAAA
Found at i:66311416 original size:27 final size:26
Alignment explanation
Indices: 66311380--66311496 Score: 128
Period size: 27 Copynumber: 4.4 Consensus size: 26
66311370 GGGCAAAATG
* * *
66311380 GTAATT-TACCCCACAAGGGTATCTC
1 GTAATTCTACCCTATAAGGGTATTTC
*
66311405 AGTAATTCTACCCTATAGGGGTATTTC
1 -GTAATTCTACCCTATAAGGGTATTTC
*
66311432 GATATTTCTACCCTATAAGGGTATTTC
1 G-TAATTCTACCCTATAAGGGTATTTC
* *
66311459 GGTAATTCTACCTTATAGGGGTATTTC
1 -GTAATTCTACCCTATAAGGGTATTTC
66311486 GGTAATTCTAC
1 -GTAATTCTAC
66311497 AACTTATCCA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 7 0.09
27 71 0.90
28 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (26 bp):
GTAATTCTACCCTATAAGGGTATTTC
Found at i:66311452 original size:54 final size:54
Alignment explanation
Indices: 66311381--66311496 Score: 162
Period size: 54 Copynumber: 2.2 Consensus size: 54
66311371 GGCAAAATGG
* *
66311381 TAATT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCGA
1 TAATTCTACCCTATAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCGA
* * * * *
66311434 TATTTCTACCCTATAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCGG
1 TAATTCTACCCTATAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCGA
66311488 TAATTCTAC
1 TAATTCTAC
66311497 AACTTATCCA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
53 4 0.07
54 50 0.93
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (54 bp):
TAATTCTACCCTATAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCGA
Found at i:66316177 original size:22 final size:22
Alignment explanation
Indices: 66316136--66316177 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
66316126 GCTAAGATCC
*
66316136 ATTGAATTGTAAAATGTAAATT
1 ATTGAACTGTAAAATGTAAATT
66316158 ATTGAACTG-AAAATGCTAAA
1 ATTGAACTGTAAAATG-TAAA
66316178 ATATGTGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (22 bp):
ATTGAACTGTAAAATGTAAATT
Found at i:66324642 original size:28 final size:27
Alignment explanation
Indices: 66324592--66324699 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
66324582 GGCTGCTAGA
* *
66324592 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
66324619 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
* * *
66324646 ACAGATATATGTGGTAGAACCAACAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
* *
66324674 -CAGATAATTTGTGGCATAGCTACCAG
1 ACAGATAA--TGTGGCAGAGCCACCAG
66324700 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
26 1 0.02
27 36 0.55
28 29 0.44
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:66325137 original size:8 final size:8
Alignment explanation
Indices: 66325120--66325164 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
66325110 AAAATACCGA
*
66325120 CTTTTTGG
1 CTTTTCGG
66325128 CTTTTCGG
1 CTTTTCGG
*
66325136 CTTTTCGA
1 CTTTTCGG
*
66325144 CTTTTCGA
1 CTTTTCGG
66325152 CTTTTCGG
1 CTTTTCGG
66325160 CTTTT
1 CTTTT
66325165 ACCGATCTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.04, C:0.22, G:0.18, T:0.56
Consensus pattern (8 bp):
CTTTTCGG
Found at i:66325155 original size:24 final size:24
Alignment explanation
Indices: 66325117--66325164 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
66325107 ACCAAAATAC
* *
66325117 CGACTTTTTGGCTTTTCGGCTTTT
1 CGACTTTTCGACTTTTCGGCTTTT
66325141 CGACTTTTCGACTTTTCGGCTTTT
1 CGACTTTTCGACTTTTCGGCTTTT
66325165 ACCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.06, C:0.23, G:0.19, T:0.52
Consensus pattern (24 bp):
CGACTTTTCGACTTTTCGGCTTTT
Found at i:66327738 original size:40 final size:40
Alignment explanation
Indices: 66327679--66327860 Score: 310
Period size: 40 Copynumber: 4.5 Consensus size: 40
66327669 CACAAATTCT
66327679 TTCGGGACTTAACCCGGTTATAATAACCCACACGAATGCC
1 TTCGGGACTTAACCCGGTTATAATAACCCACACGAATGCC
*
66327719 TTCGGGACTTAACCTGGTTATAATAACCCACACGAATGCC
1 TTCGGGACTTAACCCGGTTATAATAACCCACACGAATGCC
*
66327759 TTCGGGACTTAACCCGGTTATAATAACCCACATGAATGCC
1 TTCGGGACTTAACCCGGTTATAATAACCCACACGAATGCC
* * *
66327799 TTTGGGACTTAACCCGGTTATAGTAACCCGCACGAATGCC
1 TTCGGGACTTAACCCGGTTATAATAACCCACACGAATGCC
*
66327839 TTCGGGACTTAACCCGGCTATA
1 TTCGGGACTTAACCCGGTTATA
66327861 TTTTTTTCCA
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 133 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
TTCGGGACTTAACCCGGTTATAATAACCCACACGAATGCC
Found at i:66335666 original size:28 final size:26
Alignment explanation
Indices: 66335611--66335723 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
66335601 AGCATGGCTG
* *
66335611 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
66335637 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
66335665 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
66335692 CCAGATCAGATAATTTGTAGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
66335720 CCAG
1 CCAG
66335724 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
26 6 0.08
27 39 0.51
28 32 0.42
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:66335694 original size:55 final size:54
Alignment explanation
Indices: 66335611--66335723 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
66335601 AGCATGGCTG
* *
66335611 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTAGCAGAGCCA
* * *
66335665 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTAGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTAGCAGAGCCA
66335720 CCAG
1 CCAG
66335724 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 19 0.37
55 33 0.63
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTAGCAGAGCCA
Found at i:66336173 original size:16 final size:16
Alignment explanation
Indices: 66336154--66336188 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
66336144 CGTTTTGGCA
*
66336154 TTTCAGCTTTTCGACT
1 TTTCAGCTCTTCGACT
*
66336170 TTTCGGCTCTTCGACT
1 TTTCAGCTCTTCGACT
66336186 TTT
1 TTT
66336189 ACCGATCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.26, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTCAGCTCTTCGACT
Found at i:66338298 original size:52 final size:52
Alignment explanation
Indices: 66338241--66338344 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
66338231 ATGGAATTAG
*
66338241 CCTAGAAGGAAAGATATAAAATCCAGAGAGGGAACCCTAAAGAGAGGGAGGA
1 CCTAGAAGGAAAGATATAAAATCCAAAGAGGGAACCCTAAAGAGAGGGAGGA
66338293 CCTAGAAGGAAAGATATAAAATCCAAAGAGGGAACCCTAAAGAGAGGGAGGA
1 CCTAGAAGGAAAGATATAAAATCCAAAGAGGGAACCCTAAAGAGAGGGAGGA
66338345 TCCTTAGGCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.47, C:0.13, G:0.30, T:0.10
Consensus pattern (52 bp):
CCTAGAAGGAAAGATATAAAATCCAAAGAGGGAACCCTAAAGAGAGGGAGGA
Found at i:66340154 original size:28 final size:29
Alignment explanation
Indices: 66340121--66340175 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
66340111 ATCCGAAATA
66340121 CTGATA-TCATGGCCCAAAGCCAAATCAG
1 CTGATATTCATGGCCCAAAGCCAAATCAG
**
66340149 CTGATATTCATGGCCTGAAGCCAAATC
1 CTGATATTCATGGCCCAAAGCCAAATC
66340176 GGTATAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (29 bp):
CTGATATTCATGGCCCAAAGCCAAATCAG
Found at i:66343983 original size:3 final size:3
Alignment explanation
Indices: 66343962--66344002 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
66343952 AATAGAATTG
*
66343962 TAA TAA AAA TAGA -AA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
66344003 AAGGACTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 29 0.88
4 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:66345742 original size:17 final size:17
Alignment explanation
Indices: 66345720--66345763 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
66345710 AAAAATGGCA
* *
66345720 AAGAAAGATGAGAGAAG
1 AAGAAAGAGGAAAGAAG
66345737 AAGAAAG-GGAAAGAAG
1 AAGAAAGAGGAAAGAAG
66345753 AAGGAAAGAGG
1 AA-GAAAGAGG
66345764 GAGGGAAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 9 0.39
17 12 0.52
18 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (17 bp):
AAGAAAGAGGAAAGAAG
Found at i:66352630 original size:30 final size:30
Alignment explanation
Indices: 66352595--66352652 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
66352585 CACGACCATG
* *
66352595 ACACACGGGCGTGTGG-TCTACCCGTGTGTC
1 ACACACGGACATGTGGATC-ACCCGTGTGTC
66352625 ACACACGGACATGTGGATCACCCGTGTG
1 ACACACGGACATGTGGATCACCCGTGTG
66352653 GAAGTGCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.29, G:0.31, T:0.21
Consensus pattern (30 bp):
ACACACGGACATGTGGATCACCCGTGTGTC
Found at i:66355888 original size:53 final size:54
Alignment explanation
Indices: 66355706--66355912 Score: 236
Period size: 53 Copynumber: 3.8 Consensus size: 54
66355696 ATTAAGGTTT
* * * *
66355706 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * ** * * * *
66355760 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * *
66355815 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* *
66355868 AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
66355913 TAGAAAGGAA
Statistics
Matches: 124, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 46 0.37
54 36 0.29
55 42 0.34
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:66360597 original size:94 final size:93
Alignment explanation
Indices: 66360414--66360675 Score: 296
Period size: 94 Copynumber: 2.8 Consensus size: 93
66360404 TTTGTGCGCC
* * *
66360414 AGTGTAAGACATGTCTGGGACATGCATCGGGCACATTATGATAGCCAGTGTAAGACCTTGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
** *
66360479 GACATGGCATCGGGGTTGAGACGAGGGAT
66 GACAT-GCATCGACGTTGAGACGAGAGAT
* *
66360508 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGT-GCTAGTGTAAGA-CATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-TAGCCAGTGTAAGACCATGTCTG
* *
66360571 GGACATGCATCAGCACGTAT-ATACGAGAGCT
65 GGACATGCATC-G-ACGT-TGAGACGAGAGAT
* * * **
66360602 AATGTAAGACCATGTCTGGGGCATGGCATCGGCCTCGAAGATGATAGCCAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATGATAGCCAGTGTAAGACCATGTC
66360667 TGGGACATG
63 TGGGACATG
66360676 GCGTCGGCAA
Statistics
Matches: 142, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
92 5 0.04
93 13 0.09
94 68 0.48
95 15 0.11
96 10 0.07
97 16 0.11
98 15 0.11
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGCATCGACGTTGAGACGAGAGAT
Found at i:66360683 original size:49 final size:47
Alignment explanation
Indices: 66360411--66360675 Score: 198
Period size: 46 Copynumber: 5.6 Consensus size: 47
66360401 CGATTTGTGC
* *
66360411 GCCAGTGTAAGACATGTCTGGGACATGCATCGGGCAC-ATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAATATGATA
* * **** * * **
66360457 GCCAGTGTAAGACCTTGTTTGGGACATGGCATCGGGGTTG-AGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAATATGATA
** * *
66360505 GATAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAATATGA-TA
* * * *
66360551 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGTATATACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACG-A-ATATGATA
* * * * *
66360599 GCTAATGTAAGACCATGTCTGGGGCATGGCATCGGCCTCGAAGATGATA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAATATGATA
66360648 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
66360676 GCGTCGGCAA
Statistics
Matches: 170, Mismatches: 37, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
45 3 0.02
46 53 0.31
47 25 0.15
48 37 0.22
49 42 0.25
50 7 0.04
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAATATGATA
Found at i:66366781 original size:55 final size:53
Alignment explanation
Indices: 66366663--66366795 Score: 160
Period size: 55 Copynumber: 2.5 Consensus size: 53
66366653 AGGATACCAA
* * *
66366663 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAA-GAAATCAT
* * * *
66366717 GTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGTAA-AAATCCCAT
1 GTAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGCAAGAAAT--CAT
66366772 GTAAGACCATGCCAAGGCATGGCA
1 GTAAGACCATGCCAAGGCATGGCA
66366796 ATGGTGAGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
53 4 0.06
54 26 0.39
55 37 0.55
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (53 bp):
GTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAGAAATCAT
Found at i:66366834 original size:53 final size:54
Alignment explanation
Indices: 66366652--66366858 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
66366642 ATTAGGGTTT
* * * *
66366652 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * * * * * *
66366706 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
** * * *
66366761 AAAAATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * *
66366814 AAGGATACCACGTAAGACCATGACAAGACCTGACAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
66366859 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 42 0.35
54 37 0.31
55 41 0.34
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:66378703 original size:43 final size:43
Alignment explanation
Indices: 66378645--66378838 Score: 185
Period size: 43 Copynumber: 4.5 Consensus size: 43
66378635 AAAAACGCTG
* * *
66378645 CTATAGAACAAGACCTTTAGCGGTGCTTTTCCCAAAAATGCCA
1 CTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATGCCA
* * * * ** *
66378688 CTATAGAATATGACCTTTAACGACACTTTTTTCACAAATGTCA
1 CTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATGCCA
* * *
66378731 CTATAGAACATGACCTTTAACGGCGCCTTTT-TCACAAATGCCG
1 CTATAGAACATGACCTTTAGCGGCG-CTTTTCCCACAAATGCCA
* * *
66378774 CTAAAGAACATGACCTTTAGTGGCG-TTTTCCCCACAAACGCCA
1 CTATAGAACATGACCTTTAGCGGCGCTTTT-CCCACAAATGCCA
* * *
66378817 CTAAAGAACAAGACTTTTAGCG
1 CTATAGAACATGACCTTTAGCG
66378839 ATGCTTTTAC
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
41 4 0.03
43 115 0.93
44 5 0.04
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
CTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATGCCA
Found at i:66384790 original size:64 final size:64
Alignment explanation
Indices: 66384621--66384790 Score: 159
Period size: 64 Copynumber: 2.7 Consensus size: 64
66384611 TCGGCTCTAC
* * * * * *
66384621 ACATGGTG-A-ACACAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGTAGCTCTATTGTCT
1 ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACA-TATATCCCATAGCTCTATTGTCT
* * * * * * *
66384682 ACATGGTGTCCTTCACCTGGAATCACGCATGCAACCTAGCTACATATATCCCATAGCTCTCTTGT
1 ACATGGTG---TACACATAGTATCACCCATGCGACCTAGCTACATATATCCCATAGCTCTATTGT
66384747 CT
63 CT
66384749 ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
66384791 CATAATGTCT
Statistics
Matches: 83, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
61 8 0.10
64 28 0.34
66 18 0.22
67 27 0.33
68 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (64 bp):
ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCCCATAGCTCTATTGTCT
Found at i:66385559 original size:30 final size:30
Alignment explanation
Indices: 66385525--66385586 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
66385515 TCCTTAACTC
66385525 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
66385555 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
66385585 AA
1 AA
66385587 GCTCGAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:66388103 original size:36 final size:34
Alignment explanation
Indices: 66388049--66388131 Score: 121
Period size: 36 Copynumber: 2.4 Consensus size: 34
66388039 TAAATTATAG
* *
66388049 TTATGTAAGTTATGATATGATATATATTTATGTTAA
1 TTATGTAAGTTATAATATGACATATATTTATG-T-A
*
66388085 TTATGTAAATTATAATATGACATATATTTATGTA
1 TTATGTAAGTTATAATATGACATATATTTATGTA
66388119 TTATGTAAGTTAT
1 TTATGTAAGTTAT
66388132 GATCCAAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 13 0.30
35 1 0.02
36 29 0.67
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.49
Consensus pattern (34 bp):
TTATGTAAGTTATAATATGACATATATTTATGTA
Found at i:66388207 original size:35 final size:35
Alignment explanation
Indices: 66388153--66388230 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
66388143 TTTTTTTATT
*
66388153 CTTTAAATGCTTATATAAATTATGATAATCATAAA
1 CTTTAAATGCTTATATAAATTATCATAATCATAAA
* *
66388188 CTTTAAATGTTTATTTAAATTATCATAATCATAAA
1 CTTTAAATGCTTATATAAATTATCATAATCATAAA
66388223 CTTTAAAT
1 CTTTAAAT
66388231 ATTATTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (35 bp):
CTTTAAATGCTTATATAAATTATCATAATCATAAA
Found at i:66389076 original size:2 final size:2
Alignment explanation
Indices: 66389069--66389095 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
66389059 AAGCATAAGA
66389069 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
66389096 ACACCGTCCA
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:66389234 original size:19 final size:19
Alignment explanation
Indices: 66389212--66389249 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
66389202 GATAAACAGT
66389212 ATTTTATAATATA-ATATTA
1 ATTTTA-AATATATATATTA
*
66389231 ATTTTAGATATATATATTA
1 ATTTTAAATATATATATTA
66389250 TATAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTTTAAATATATATATTA
Found at i:66389699 original size:40 final size:40
Alignment explanation
Indices: 66389650--66389813 Score: 165
Period size: 40 Copynumber: 4.1 Consensus size: 40
66389640 GTATGCTAAC
* *
66389650 GCCGTTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAAC
1 GCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAAT
* * *
66389690 GCCGCTATAGATCAAGTATTAGTGGCGC-TTTTAAAAAAT
1 GCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAAT
** * * *
66389729 GCTAC-ATAGATCGAGTATTAGCTGCGCTTTTCAAAAAAAT
1 GCCGCTATAGATCGAGCATTAGCGGCGCTTTT-TAAAAAAT
* *
66389769 GCCGCTATAGATCGA-CTAATTAG-AGCGCTTTTTGAAAAAT
1 GCCGCTATAGATCGAGC--ATTAGCGGCGCTTTTTAAAAAAT
66389809 GCCGC
1 GCCGC
66389814 AAAAAAATTA
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
38 19 0.19
39 16 0.16
40 45 0.44
41 17 0.17
42 5 0.05
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (40 bp):
GCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAAT
Found at i:66390063 original size:146 final size:146
Alignment explanation
Indices: 66389795--66390063 Score: 328
Period size: 146 Copynumber: 1.8 Consensus size: 146
66389785 TAATTAGAGC
* * * * * *
66389795 GCTTTTTGAAAAATGCCGCAAAAAAATTAAGCACAACACTGTCGTTTTATGTTGTGCTTTAGCGG
1 GCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACACCGCCATTTTATGTTGTGCATTAGCAG
* ** ** * * * *
66389860 CGCTTTCTGAAAAATGCTGCTATAGATCGAGCATTAGAGGCGTTTTTTGAAAGACGCCATTATAG
66 CACTTTCTGAAAAACACCACTATAGATCGAGCATTAGAGGCGCTTTGTCAAAAACGCCATTATAG
66389925 GTAGACTATTAGCGGT
131 GTAGACTATTAGCGGT
66389941 GCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACACCGCCATAACTTTA-G-TG-GCATTAG
1 GCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACACCGCCAT---TTTATGTTGTGCATTAG
* * *
66390003 CAGCACTTTTTGAAAAACACCACTATAGATCGAGCTTTAGTGGCGCTTTGTCAAAAACGCC
63 CAGCACTTTCTGAAAAACACCACTATAGATCGAGCATTAGAGGCGCTTTGTCAAAAACGCC
66390064 GCAAAAAAAT
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
146 95 0.93
147 2 0.02
148 1 0.01
149 4 0.04
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (146 bp):
GCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACACCGCCATTTTATGTTGTGCATTAGCAG
CACTTTCTGAAAAACACCACTATAGATCGAGCATTAGAGGCGCTTTGTCAAAAACGCCATTATAG
GTAGACTATTAGCGGT
Found at i:66390337 original size:7 final size:7
Alignment explanation
Indices: 66390314--66390473 Score: 162
Period size: 7 Copynumber: 22.7 Consensus size: 7
66390304 TATGGATTAT
66390314 GGGTTTA
1 GGGTTTA
* *
66390321 GAGATTA
1 GGGTTTA
*
66390328 TGGTTTA
1 GGGTTTA
*
66390335 TGGTTTAA
1 GGGTTT-A
*
66390343 GGG-TTG
1 GGGTTTA
66390349 GGGTTTA
1 GGGTTTA
*
66390356 AGGTTTA
1 GGGTTTA
66390363 GAGG-TTA
1 G-GGTTTA
66390370 GGGTTTA
1 GGGTTTA
*
66390377 TGGTTTA
1 GGGTTTA
66390384 GGGTTTA
1 GGGTTTA
66390391 GGGTTTA
1 GGGTTTA
66390398 GGGTTTA
1 GGGTTTA
66390405 GGGTTTA
1 GGGTTTA
66390412 GGGTTTA
1 GGGTTTA
66390419 GGGTTTA
1 GGGTTTA
66390426 GGGTTTA
1 GGGTTTA
* *
66390433 TGATTTA
1 GGGTTTA
*
66390440 GGATTTA
1 GGGTTTA
*
66390447 GGGGTTA
1 GGGTTTA
*
66390454 GAGGTTAA
1 G-GGTTTA
*
66390462 GGGTTTT
1 GGGTTTA
66390469 GGGTT
1 GGGTT
66390474 CAAATTAATA
Statistics
Matches: 127, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
6 5 0.04
7 112 0.88
8 10 0.08
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:66391329 original size:84 final size:84
Alignment explanation
Indices: 66391240--66391419 Score: 216
Period size: 84 Copynumber: 2.1 Consensus size: 84
66391230 ACTATTTCAT
* ** * *
66391240 AAACGCCACTAAAAATTTAATTCCCTATAGTGAAACGTCGACGTTTAAGACAAATGGGTATTGCA
1 AAACGCCACTAAAAATTTAATGCCCTATAAAGAAACGACGACATTTAAGACAAATGGGTATTGCA
*
66391305 ATTTTACGGCGTTTATGAA
66 ATTTTACGGCGTTAATGAA
* * * * * *
66391324 AAACGCCACTAAAAATTTAATGCTCTGTAAAGAAACGACGCCATTTAAGTCAAATTGGTATTGTA
1 AAACGCCACTAAAAATTTAATGCCCTATAAAGAAACGACGACATTTAAGACAAATGGGTATTGCA
**
66391389 ATTTTGTGGCGTTAATGAA
66 ATTTTACGGCGTTAATGAA
**
66391408 AAATACCACTAA
1 AAACGCCACTAA
66391420 CGAAACACCT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (84 bp):
AAACGCCACTAAAAATTTAATGCCCTATAAAGAAACGACGACATTTAAGACAAATGGGTATTGCA
ATTTTACGGCGTTAATGAA
Found at i:66394649 original size:28 final size:29
Alignment explanation
Indices: 66394617--66394715 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
66394607 ATAATAAGCC
*
66394617 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
66394645 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
66394673 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
66394702 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66394716 CAATCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 35 0.57
29 17 0.28
30 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:66399413 original size:22 final size:22
Alignment explanation
Indices: 66399352--66399416 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
66399342 ACGCCCATGT
*
66399352 AGAGGAGGCACAT-GCC-TATA
1 AGAGGAGGCACATAGCCGTGTA
* * *
66399372 AGAGGAAGCACACA-CGCGTGTG
1 AGAGGAGGCACATAGC-CGTGTA
66399394 AGAGGAGGCACATAGCCGTGTA
1 AGAGGAGGCACATAGCCGTGTA
66399416 A
1 A
66399417 CTCTCTGTCC
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 12 0.35
21 1 0.03
22 20 0.59
23 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.34, T:0.12
Consensus pattern (22 bp):
AGAGGAGGCACATAGCCGTGTA
Found at i:66402625 original size:26 final size:26
Alignment explanation
Indices: 66402568--66402617 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
66402558 ACATATTTTC
*
66402568 TCAAAATTTTACCAAGGGCAAAATCG
1 TCAAAATTTTACCAAGAGCAAAATCG
*
66402594 TCAAAATTTTACCAAGAGTAAAAT
1 TCAAAATTTTACCAAGAGCAAAAT
66402618 TGTTAAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (26 bp):
TCAAAATTTTACCAAGAGCAAAATCG
Found at i:66425571 original size:28 final size:28
Alignment explanation
Indices: 66425531--66425589 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
66425521 ATATTAATAA
66425531 CATCGAAACACGTTAGCATCTTTGTTTT
1 CATCGAAACACGTTAGCATCTTTGTTTT
66425559 CATCGAAACACGTTAGCATCTTTGTTTT
1 CATCGAAACACGTTAGCATCTTTGTTTT
66425587 CAT
1 CAT
66425590 ACATGATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (28 bp):
CATCGAAACACGTTAGCATCTTTGTTTT
Found at i:66427293 original size:31 final size:30
Alignment explanation
Indices: 66427248--66427311 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
66427238 ATATAAAAAC
*
66427248 TTTAAATGTTTAATTA-AATTTTTCAAAATT
1 TTTAAAGGTTTAATTATAATTTTT-AAAATT
*
66427278 TTTAAAGGATTTAATTATAATTTTTTAAATT
1 TTTAAAGG-TTTAATTATAATTTTTAAAATT
66427309 TTT
1 TTT
66427312 GGAGGGCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 16 0.53
32 7 0.23
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (30 bp):
TTTAAAGGTTTAATTATAATTTTTAAAATT
Found at i:66429628 original size:33 final size:30
Alignment explanation
Indices: 66429590--66429665 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 30
66429580 CAAAATTCGA
*
66429590 ATTTAATTTTTAATTTA-GTTTATTTTCCAATTT
1 ATTTAATTTTTAATTTATG-TT-GTTT-CAA-TT
66429623 ATTTAATTATTT-ATTTATGTTGTTTCAATT
1 ATTTAATT-TTTAATTTATGTTGTTTCAATT
66429653 ATTTAATTTTTAA
1 ATTTAATTTTTAA
66429666 ACATTTCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
29 3 0.08
30 11 0.28
31 3 0.08
32 3 0.08
33 15 0.38
34 4 0.10
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (30 bp):
ATTTAATTTTTAATTTATGTTGTTTCAATT
Found at i:66433073 original size:4 final size:4
Alignment explanation
Indices: 66433064--66433109 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
66433054 TTGCTCGTAC
* *
66433064 ATAA ATAA ATAA ATAA ATAA CATGA A-AA ATAA ATAA ATGA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA ATAA ATAA AT
66433110 CCTTAAGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 2 0.06
4 31 0.86
5 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:66433093 original size:16 final size:16
Alignment explanation
Indices: 66433064--66433109 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
66433054 TTGCTCGTAC
*
66433064 ATAAATAAATAAATAA
1 ATAAATGAATAAATAA
66433080 ATAACATGAA-AAATAA
1 ATAA-ATGAATAAATAA
66433096 ATAAATGAATAAAT
1 ATAAATGAATAAAT
66433110 CCTTAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 5 0.19
16 18 0.67
17 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (16 bp):
ATAAATGAATAAATAA
Found at i:66434745 original size:17 final size:17
Alignment explanation
Indices: 66434718--66434760 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
66434708 AAAAAGAATA
66434718 AAAAGAAATAAACAAAAG
1 AAAA-AAATAAACAAAAG
*
66434736 AAAAAAAT-AAGAAAAG
1 AAAAAAATAAACAAAAG
66434752 AAAAAAATA
1 AAAAAAATA
66434761 GAGATAGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 15 0.65
17 4 0.17
18 4 0.17
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.07
Consensus pattern (17 bp):
AAAAAAATAAACAAAAG
Found at i:66435850 original size:124 final size:125
Alignment explanation
Indices: 66435560--66435865 Score: 458
Period size: 124 Copynumber: 2.5 Consensus size: 125
66435550 ATTAACTATT
* ** *
66435560 AATTATGGAAAAAAGCTCCCATGTGGATACTCTTTTGCTAC-GTAGTATTTGAAAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTATCTG-AAAAATAATTTT
66435624 GAGAAGATGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGCTAGCAA
65 GAGAAGATGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGCTAGCAA
* *
66435685 AATTACGGAAAAAAGCTCACATGTGGACGCTCTTTTACTACAGTAGTATCTGAAAAATAATTTTG
1 AATTACGGAAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAATAATTTTG
* *
66435750 AGAAGATGTTTCT-AAACAAATAGTGTC-AAAACGCTTCAAGCAGGATGCACTG-TCAGTAA
66 AGAAGATGTTTCTGAAA-AAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGCT-AGCAA
* * *
66435809 AATTACGGAAAAAAGCTCCCACGTGGACGTTATTTTGCTACAGTAGTATCTGAAAAA
1 AATTACGGAAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAA
66435866 GCCTTAGGCT
Statistics
Matches: 165, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
123 1 0.01
124 83 0.50
125 72 0.44
126 9 0.05
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (125 bp):
AATTACGGAAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAATAATTTTG
AGAAGATGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGCTAGCAA
Found at i:66437401 original size:34 final size:34
Alignment explanation
Indices: 66437363--66437431 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
66437353 GCAAGGTTTG
66437363 GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
1 GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
66437397 GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
1 GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
66437431 G
1 G
66437432 GTATATGGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.03, G:0.30, T:0.26
Consensus pattern (34 bp):
GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
Found at i:66439138 original size:129 final size:130
Alignment explanation
Indices: 66438988--66439364 Score: 625
Period size: 128 Copynumber: 2.9 Consensus size: 130
66438978 ACATTTATTT
* * * *
66438988 TAATAAAAATTATTGGTTAATTTAAAAGTACATTTATTGTATTAAAATTAAAAAAAGTAAAGTAC
1 TAATAAAAA-TATTGGATAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
* *
66439053 AATTAAAATATTAAAAATAACTTTTATTTTATTAATTAAAACTATATAAAAAA-TAAATATAAAA
65 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAA
66439117 A
130 A
*
66439118 TAATAAAAATATTGGATAATTTAAAAGAATATTTATTTTAATAAAATT-AAAAAAGTAAAGTACA
1 TAATAAAAATATTGGATAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
66439182 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAAA
66 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAAA
* *
66439247 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAATGTAC
1 TAAT-AAAAATATTGGATAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
66439312 AATTAAAATATTAAAAACAACTTTTATTTTATT-ATATGAAACTATATAAAAAA
65 AATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TGAAACTATATAAAAAA
66439365 AGTTTCTACA
Statistics
Matches: 233, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
128 66 0.28
129 50 0.21
130 53 0.23
131 64 0.27
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (130 bp):
TAATAAAAATATTGGATAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAAA
Found at i:66439378 original size:130 final size:129
Alignment explanation
Indices: 66438988--66439388 Score: 576
Period size: 131 Copynumber: 3.1 Consensus size: 129
66438978 ACATTTATTT
* * * * *
66438988 TAATAAAAATTATTGGTTAATTTAAAAGTACATTTATTGTATTAAAATTAAAAAAAGTAAAGTAC
1 TAATAAAAAATATTGGATAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
* * **
66439053 AATTAAAATATTAAAAATAACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAA-ATTTATAAAAA
*
66439118 TAAT-AAAAATATTGGATAATTTAAAAGAATATTTATTTTAATAAAATT-AAAAAAGTAAAGTAC
1 TAATAAAAAATATTGGATAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
66439181 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATAT-AAAAAATTAAATATAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAAATT---TATAAA
66439245 AA
128 AA
* *
66439247 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAATGTAC
1 TAATAAAAAATATTGGATAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
*
66439312 AATTAAAATATTAAAAACAACTTTTATTTTATT-ATATGAAACTATATAAAAAAAGTTTCTACAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TGAAACTATATAAAAAAA-TTTATA-AA
66439376 ATA
128 A-A
*
66439379 TATTAAAAAA
1 TAATAAAAAA
66439389 ATCAATGTTG
Statistics
Matches: 246, Mismatches: 15, Indels: 18
0.88 0.05 0.06
Matches are distributed among these distances:
126 1 0.00
127 5 0.02
128 60 0.24
129 50 0.20
130 51 0.21
131 61 0.25
132 16 0.07
133 2 0.01
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (129 bp):
TAATAAAAAATATTGGATAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAAATTTATAAAAA
Found at i:66439797 original size:18 final size:18
Alignment explanation
Indices: 66439771--66439813 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
66439761 GACTGGGAAA
* *
66439771 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
66439789 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
66439807 AGGATAC
1 AGGATAC
66439814 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:66440443 original size:7 final size:7
Alignment explanation
Indices: 66440431--66440463 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
66440421 TTATATATGT
66440431 AATACTA
1 AATACTA
66440438 AATACTA
1 AATACTA
66440445 AATACTA
1 AATACTA
66440452 AATACTA
1 AATACTA
66440459 AATAC
1 AATAC
66440464 GAAACGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:66441688 original size:14 final size:11
Alignment explanation
Indices: 66441629--66441678 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
66441619 TGAAAAAAGT
66441629 TGAGAGAAATT-
1 TGAGAG-AATTG
66441640 TGAGAGAATT-
1 TGAGAGAATTG
66441650 TGGAGAGAATTG
1 T-GAGAGAATTG
66441662 TGAGAGAATTG
1 TGAGAGAATTG
66441673 TGAGAG
1 TGAGAG
66441679 GACTATTGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
10 5 0.14
11 31 0.84
12 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (11 bp):
TGAGAGAATTG
Found at i:66444263 original size:17 final size:17
Alignment explanation
Indices: 66444221--66444272 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
66444211 TAATATTAAG
66444221 TTAAATTT-TTA-G-AT
1 TTAAATTTATTATGTAT
*
66444235 TTAATTTTTATTATGTAT
1 TTAA-ATTTATTATGTAT
*
66444253 TTAAATTTATTATTTAT
1 TTAAATTTATTATGTAT
66444270 TTA
1 TTA
66444273 TTCAACAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 4 0.13
15 3 0.10
16 3 0.10
17 15 0.48
18 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (17 bp):
TTAAATTTATTATGTAT
Found at i:66458797 original size:20 final size:20
Alignment explanation
Indices: 66458776--66458813 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
66458766 ATTTATTTCT
66458776 TTTATGTT-TTATTATATGC
1 TTTATGTTATTATTATATGC
*
66458795 TTTATTTTATTATTATATG
1 TTTATGTTATTATTATATG
66458814 ATATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.66
Consensus pattern (20 bp):
TTTATGTTATTATTATATGC
Found at i:66474801 original size:29 final size:27
Alignment explanation
Indices: 66474783--66474852 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
66474773 ATATTAAGTC
66474783 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
66474810 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
66474838 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
66474853 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:66474846 original size:28 final size:28
Alignment explanation
Indices: 66474783--66474880 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
66474773 ATATTAAGTC
*
66474783 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
66474810 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66474838 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
66474867 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66474881 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66478395 original size:17 final size:18
Alignment explanation
Indices: 66478344--66478395 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
66478334 ATTAAAAAAA
66478344 TAATTAAATAATAAATAAG
1 TAATTAAA-AATAAATAAG
* *
66478363 TAATTTTAATACTAAATAAG
1 TAA--TTAAAAATAAATAAG
66478383 T-ATTAAAAATAAA
1 TAATTAAAAATAAA
66478396 AAAATATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 9 0.33
19 4 0.15
20 10 0.37
21 4 0.15
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
TAATTAAAAATAAATAAG
Found at i:66481404 original size:17 final size:16
Alignment explanation
Indices: 66481382--66481413 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
66481372 TTGATTAAAT
66481382 TATTAAAATATTATATA
1 TATTAAAATA-TATATA
66481399 TATTAAAATATATAT
1 TATTAAAATATATAT
66481414 TAAACGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTAAAATATATATA
Found at i:66482286 original size:16 final size:16
Alignment explanation
Indices: 66482250--66482285 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
66482240 ATCTCATATC
*
66482250 TAAAACTTTGATATTA
1 TAAAACTTTGATAATA
66482266 TAAAAC-TTGATAATA
1 TAAAACTTTGATAATA
66482281 TAAAA
1 TAAAA
66482286 AAAAATGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (16 bp):
TAAAACTTTGATAATA
Found at i:66493086 original size:6 final size:6
Alignment explanation
Indices: 66493075--66493136 Score: 106
Period size: 6 Copynumber: 10.3 Consensus size: 6
66493065 TACGTTTGAA
66493075 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
* *
66493123 ATATAT AGATGT AT
1 ATATGT ATATGT AT
66493137 GTTTGTGACT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (6 bp):
ATATGT
Found at i:66493729 original size:87 final size:89
Alignment explanation
Indices: 66493627--66493883 Score: 321
Period size: 87 Copynumber: 2.9 Consensus size: 89
66493617 CAATTATTCA
*
66493627 AAATATCAAAATGGTAATTAAACAAATTGTCCCATTTAGATTAAATTATAATTAAAATAAGTTTA
1 AAATATCAAAATGGTAATTAAACCAATTGTCCCA-TTAGATTAAATTATAATTAAAATAAGTTTA
*
66493692 A-ATATGTCTTAATTAACTAA-AA-T
65 ATA-ATGCCTTAATTAACTAACAACT
* *
66493715 -AATATCAAAATGGTAATTCAACCAATTGTCCCACTTAAATTAAATTATAATTAAAATAAGTTTA
1 AAATATCAAAATGGTAATTAAACCAATTGTCCCA-TTAGATTAAATTATAATTAAAATAAGTTTA
66493779 ATAATGCCTTAATTAACTAACTAACT
65 ATAATGCCTTAATTAACTAAC-AACT
*
66493805 AAGCCAATATCAAAATGGTAATTAAACCAATTGT--C-TTAGATTAATTTATAATTAAAATAAGT
1 -A---AATATCAAAATGGTAATTAAACCAATTGTCCCATTAGATTAAATTATAATTAAAATAAGT
* * *
66493867 ATACTTATGCCTTAATT
62 TTAATAATGCCTTAATT
66493884 TTTTAACTAA
Statistics
Matches: 149, Mismatches: 11, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
87 77 0.52
88 1 0.01
89 2 0.01
90 1 0.01
91 39 0.26
93 1 0.01
95 28 0.19
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (89 bp):
AAATATCAAAATGGTAATTAAACCAATTGTCCCATTAGATTAAATTATAATTAAAATAAGTTTAA
TAATGCCTTAATTAACTAACAACT
Found at i:66493805 original size:95 final size:91
Alignment explanation
Indices: 66493705--66493897 Score: 242
Period size: 91 Copynumber: 2.1 Consensus size: 91
66493695 ATGTCTTAAT
* *
66493705 TAACTAAAATAATATCAAAATGGTAATTCAACCAATTGTCCCACTTAAATTAAATTATAATTAAA
1 TAACTAAAACAATATCAAAATGGTAATTAAACCAATTGT----CTTAAATTAAATTATAATTAAA
*
66493770 ATAAGTTTAATAATGCCTTAATTAACTAAC
62 ATAAGTATAATAATGCCTTAATTAACTAAC
** * *
66493800 TAACTAAGCCAATATCAAAATGGTAATTAAACCAATTGTCTTAGATTAATTTATAATTAAAATAA
1 TAACTAAAACAATATCAAAATGGTAATTAAACCAATTGTCTTAAATTAAATTATAATTAAAATAA
* * ***
66493865 GTATACTTATGCCTTAATTTTTTAAC
66 GTATAATAATGCCTTAATTAACTAAC
66493891 TAACTAA
1 TAACTAA
66493898 CTAAGATTAT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
91 51 0.59
95 35 0.41
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (91 bp):
TAACTAAAACAATATCAAAATGGTAATTAAACCAATTGTCTTAAATTAAATTATAATTAAAATAA
GTATAATAATGCCTTAATTAACTAAC
Found at i:66493877 original size:91 final size:93
Alignment explanation
Indices: 66493715--66493902 Score: 254
Period size: 95 Copynumber: 2.0 Consensus size: 93
66493705 TAACTAAAAT
* *
66493715 AATATCAAAATGGTAATTCAACCAATTGTCCCACTTAAATTAAATTATAATTAAAATAAGTTTAA
1 AATATCAAAATGGTAATTAAACCAATTGT--C-CTTAAATTAAATTATAATTAAAATAAGTATAA
66493780 TAATGCCTTAA-TTAACTAACTAACTAAGCC
63 TAATGCCTTAATTTAACTAACTAACTAAGCC
* * * *
66493810 AATATCAAAATGGTAATTAAACCAATTGT-CTTAGATTAATTTATAATTAAAATAAGTATACTTA
1 AATATCAAAATGGTAATTAAACCAATTGTCCTTAAATTAAATTATAATTAAAATAAGTATAATAA
66493874 TGCCTTAATTTTTTAACTAACTAACTAAG
66 TGCCTTAA---TTTAACTAACTAACTAAG
66493903 ATTATTTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
91 38 0.46
95 45 0.54
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (93 bp):
AATATCAAAATGGTAATTAAACCAATTGTCCTTAAATTAAATTATAATTAAAATAAGTATAATAA
TGCCTTAATTTAACTAACTAACTAAGCC
Found at i:66495806 original size:20 final size:20
Alignment explanation
Indices: 66495783--66495831 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
66495773 GAACCACTCA
*
66495783 ATTTACTTTCTTACCATTCC
1 ATTTACTTACTTACCATTCC
* *
66495803 ATTTACTTACTTTCCATTTC
1 ATTTACTTACTTACCATTCC
66495823 ATTTACTTA
1 ATTTACTTA
66495832 GCATAAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:66499007 original size:39 final size:40
Alignment explanation
Indices: 66498899--66499008 Score: 161
Period size: 40 Copynumber: 2.8 Consensus size: 40
66498889 TTTGATGTGA
66498899 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGG
1 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGG
*
66498939 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGG
1 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGG
* * *
66498979 AA-TGCTATCTGGG-TTAAAAACCTGCAGGCT
1 AATTG-TATCCGGGCTTAAAGACCCGCAGGCT
66499009 GTGCTAGATA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
39 17 0.26
40 48 0.74
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGG
Found at i:66502506 original size:21 final size:21
Alignment explanation
Indices: 66502480--66502521 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
66502470 AATTATTTTT
* *
66502480 ATATATTTTATTACGATATTA
1 ATATATGTTATTAAGATATTA
66502501 ATATATGTTATTAAGATATTA
1 ATATATGTTATTAAGATATTA
66502522 GTTATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (21 bp):
ATATATGTTATTAAGATATTA
Found at i:66505016 original size:40 final size:40
Alignment explanation
Indices: 66504968--66505191 Score: 220
Period size: 40 Copynumber: 5.6 Consensus size: 40
66504958 TCCTCGTTCA
* * * * *
66504968 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66505008 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
66505048 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
66505088 AAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
66505128 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
66505168 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
66505192 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 4 0.03
40 141 0.90
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:66505200 original size:41 final size:41
Alignment explanation
Indices: 66505123--66505200 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
66505113 CTTGTATCTC
* * *
66505123 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
66505164 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
66505201 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:66512614 original size:39 final size:40
Alignment explanation
Indices: 66512569--66512793 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
66512559 GCTCCTCGTT
* * * * *
66512569 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
66512609 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
66512648 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * * *
66512688 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCA
** * * * *
66512728 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
66512769 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
66512794 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:66512802 original size:41 final size:41
Alignment explanation
Indices: 66512725--66512802 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
66512715 CTTGTATCTC
* * *
66512725 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
66512766 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
66512803 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:66525777 original size:22 final size:23
Alignment explanation
Indices: 66525732--66525780 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
66525722 AACTTTAAAA
66525732 AAAACTATGTTAAATATATTTTTG
1 AAAACTATGTTAAATATA-TTTTG
*
66525756 AAAATTATGTTAAATATA-TTTG
1 AAAACTATGTTAAATATATTTTG
66525778 AAA
1 AAA
66525781 TTCAAATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 7 0.29
24 17 0.71
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (23 bp):
AAAACTATGTTAAATATATTTTG
Found at i:66527538 original size:46 final size:46
Alignment explanation
Indices: 66527429--66527737 Score: 208
Period size: 46 Copynumber: 6.5 Consensus size: 46
66527419 TATGGGAGCC
* * *
66527429 AGTGTAAGATCATGTCTGGGACATGGCATCGGTA-TTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATC-G-ACTCGAGATGTA-AGCT
* *
66527477 AGTGTAAG-GCATGTCTGGGACATGCAACGACCTCGAGATGTAAGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGA-CTCGAGATGTAAGCT
* *
66527523 AGTGTAAGA-CGTGTCTGGGACATGCATCGACTACGAGATGT--GTT
1 AGTGTAAGACCATGTCTGGGACATGCATCGACT-CGAGATGTAAGCT
* *
66527567 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATC-G-ACTCGAGATGT-A-AGCT
** * **
66527617 AGTGTAAGACCATGTCTGGGACATGGTGTCGGCCTCGACTTAG-ATAG-T
1 AGTGTAAGACCATGTCTGGGACAT-GCATC-GACTCGAGAT-GTA-AGCT
* * *
66527665 CAATGTAAGACCATGTCTAGGACATGACATCGACT--TGATGGATAAGCT
1 -AGTGTAAGACCATGTCTGGGACATG-CATCGACTCGAGAT-G-TAAGCT
*
66527713 AGGGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
66527738 GCATTAGCAT
Statistics
Matches: 210, Mismatches: 31, Indels: 41
0.74 0.11 0.15
Matches are distributed among these distances:
44 12 0.06
45 16 0.08
46 62 0.30
47 40 0.19
48 17 0.08
49 28 0.13
50 34 0.16
51 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGATGTAAGCT
Found at i:66533815 original size:49 final size:49
Alignment explanation
Indices: 66533755--66533889 Score: 157
Period size: 49 Copynumber: 2.7 Consensus size: 49
66533745 TAGGTAAAGT
* * *
66533755 GCCGATACCATGTCCCAGACATGGTCTTACACTGGCTATCATC-T-TCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCA-CATACCG-G
* * * *
66533804 GCCGATGCCATGTACCAGACATGGTCTTACACTAACTCTCACATAACCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAT-ACCGG
*
66533854 GCCGATGCCATGTCCCAGATATGGTCTTACACTGAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC
66533890 ACATCTCGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 1 0.01
49 37 0.51
50 33 0.45
51 2 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCACATACCGG
Found at i:66533917 original size:22 final size:22
Alignment explanation
Indices: 66533889--66533932 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
66533879 CTTACACTGA
66533889 CACATCTCGTAGCTGATGCATG
1 CACATCTCGTAGCTGATGCATG
66533911 CACATCTCGTAGCTGATGCATG
1 CACATCTCGTAGCTGATGCATG
66533933 TCCCAGACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (22 bp):
CACATCTCGTAGCTGATGCATG
Found at i:66534027 original size:47 final size:46
Alignment explanation
Indices: 66533925--66534049 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 46
66533915 TCTCGTAGCT
*
66533925 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTAAATGCC
*
66533971 GATGCCATGTCCCAGACATGGTCTTACACT-G-GCTC-TCATAATATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTC-TAA-AT-GCC
*
66534019 GATGCATGTCCCAGACATGTCTTACTCTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
66534050 TCACACAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
45 2 0.03
46 18 0.26
47 32 0.46
48 17 0.25
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTAAATGCC
Found at i:66534855 original size:123 final size:123
Alignment explanation
Indices: 66534636--66534884 Score: 444
Period size: 123 Copynumber: 2.0 Consensus size: 123
66534626 GATAACCAAG
* *
66534636 ATTGTAACATCCCGATTTTAGGCTTAGTCAGATTAGTGGTTTTGGGACCACAAATTAGATGAGAA
1 ATTGTAACATCCCAATTTTAGGCTTAGTCAGAATAGTGGTTTTGGGACCACAAATTAGATGAGAA
* * *
66534701 AAATTTTATTTTTATTATATTTTTATGGTCTACGATTTCACGTAATGATTTTGTGAAA
66 AAATTTTATTTTTATTATATTTTTATGGTCTACGATTTCACGAAATAATTTCGTGAAA
*
66534759 ATTGTAACATCCCAATTTTAGGCTTAGTCGGAATAGTGGTTTTGGGACCACAAATTAGATGAGAA
1 ATTGTAACATCCCAATTTTAGGCTTAGTCAGAATAGTGGTTTTGGGACCACAAATTAGATGAGAA
66534824 AAATTTTATTTTTATTATATTTTTATGGTCTACGATTTCACGAAATAATTTCGTGAAA
66 AAATTTTATTTTTATTATATTTTTATGGTCTACGATTTCACGAAATAATTTCGTGAAA
66534882 ATT
1 ATT
66534885 TCGTTCGAAA
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 120 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (123 bp):
ATTGTAACATCCCAATTTTAGGCTTAGTCAGAATAGTGGTTTTGGGACCACAAATTAGATGAGAA
AAATTTTATTTTTATTATATTTTTATGGTCTACGATTTCACGAAATAATTTCGTGAAA
Found at i:66544861 original size:19 final size:19
Alignment explanation
Indices: 66544824--66544862 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
66544814 GGAGAATTTT
*
66544824 TGTTTTTTAATATTATATA
1 TGTTTTTTAAAATTATATA
66544843 TGTTATTTTAAAATT-TATA
1 TGTT-TTTTAAAATTATATA
66544862 T
1 T
66544863 TCAAGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TGTTTTTTAAAATTATATA
Found at i:66548608 original size:28 final size:29
Alignment explanation
Indices: 66548551--66548611 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 29
66548541 TATGCATGAC
66548551 TATAAATGTGAATTGGGCCTGATGGACCA
1 TATAAATGTGAATTGGGCCTGATGGACCA
*
66548580 TATAAATGTG-ATTGGGCCT-AGTGGGCCA
1 TATAAATGTGAATTGGGCCTGA-TGGACCA
66548608 TATA
1 TATA
66548612 CAAGTATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 1 0.03
28 19 0.63
29 10 0.33
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTGATGGACCA
Found at i:66550717 original size:18 final size:18
Alignment explanation
Indices: 66550694--66550729 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
66550684 TCCGTAAATA
66550694 TTATTAATTAATATTTAC
1 TTATTAATTAATATTTAC
*
66550712 TTATTAATTAATGTTTAC
1 TTATTAATTAATATTTAC
66550730 GAGTTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (18 bp):
TTATTAATTAATATTTAC
Found at i:66550736 original size:18 final size:18
Alignment explanation
Indices: 66550696--66550753 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
66550686 CGTAAATATT
*
66550696 ATTAATTAATATTTACTT
1 ATTAATTAATATTTACTG
*
66550714 ATTAATTAATGTTTAC-G
1 ATTAATTAATATTTACTG
66550731 AGTTAATTATGATATTATACTG
1 A-TTAATTA--ATATT-TACTG
66550753 A
1 A
66550754 ATTTTGGTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.03
18 22 0.69
20 4 0.12
21 3 0.09
22 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (18 bp):
ATTAATTAATATTTACTG
Found at i:66551142 original size:8 final size:8
Alignment explanation
Indices: 66551129--66551157 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
66551119 TGATTAAAAT
66551129 TAAAATTA
1 TAAAATTA
66551137 TAAAATTA
1 TAAAATTA
66551145 TAAAATTA
1 TAAAATTA
66551153 TAAAA
1 TAAAA
66551158 AGATATTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
TAAAATTA
Found at i:66555381 original size:37 final size:36
Alignment explanation
Indices: 66555328--66555422 Score: 129
Period size: 37 Copynumber: 2.6 Consensus size: 36
66555318 ACATATGCCG
* *
66555328 TGGCGTGTTACTGGTTGGATTAGCTCTT-TGGAGTATT
1 TGGCGTGTTAC-GGTTGGATTAGCCCTTAT-GAGCATT
66555365 TGGCGTGTTAACGGTTGGATTAGCCCTTATGAGCATT
1 TGGCGTGTT-ACGGTTGGATTAGCCCTTATGAGCATT
*
66555402 TGGCGTGTTTCGGTTGGATTA
1 TGGCGTGTTACGGTTGGATTA
66555423 CTTGTGTACT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
36 11 0.21
37 39 0.74
38 3 0.06
ACGTcount: A:0.15, C:0.13, G:0.33, T:0.40
Consensus pattern (36 bp):
TGGCGTGTTACGGTTGGATTAGCCCTTATGAGCATT
Found at i:66559006 original size:47 final size:47
Alignment explanation
Indices: 66558908--66559035 Score: 130
Period size: 47 Copynumber: 2.7 Consensus size: 47
66558898 AATCGATAAG
* *
66558908 TACCTATACCATGGCCCATAGCCAAAGCAAGGTAACTTATCCCAGAG
1 TACCTATACCATGGCCCATAGCCAAAGCAAGGTAACTCATCCCAGAA
* * * * ****
66558955 TACCTATACCATGGGCCGTAGCCAAATCAAGGTAACTCCTTTTTGAA
1 TACCTATACCATGGCCCATAGCCAAAGCAAGGTAACTCATCCCAGAA
* * * *
66559002 TACCTATACCATAGCCCATATCTAAATCAAGGTA
1 TACCTATACCATGGCCCATAGCCAAAGCAAGGTA
66559036 TTATTCGCAC
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (47 bp):
TACCTATACCATGGCCCATAGCCAAAGCAAGGTAACTCATCCCAGAA
Found at i:66559664 original size:29 final size:29
Alignment explanation
Indices: 66559600--66559665 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
66559590 ATTTTATTTA
* *
66559600 TTTCACAATTTAACCCCTTAATTTACACT
1 TTTCTCAATTTAACCCCTTAATATACACT
* * *
66559629 TTTCTCAATTTAA-TCCTTAATATGCATT
1 TTTCTCAATTTAACCCCTTAATATACACT
66559657 TTTACTCAA
1 TTT-CTCAA
66559666 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTTAATATACACT
Found at i:66560674 original size:21 final size:21
Alignment explanation
Indices: 66560650--66560692 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
66560640 ACAAAAATAA
*
66560650 TATATAGT-AGAGTCAACTAAT
1 TATATAGTCAGAGT-AACGAAT
*
66560671 TATATTGTCAGAGTAACGAAT
1 TATATAGTCAGAGTAACGAAT
66560692 T
1 T
66560693 CGTTGGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (21 bp):
TATATAGTCAGAGTAACGAAT
Found at i:66581773 original size:43 final size:43
Alignment explanation
Indices: 66581664--66581809 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 43
66581654 CGCCAACGTC
* * *
66581664 CCAGACGTGGCCTTACATGT-AATCAAATATCGATGCCACTGT
1 CCAGACATGGTCTTACATGTAAATCAAATATCAATGCCACTGT
* *
66581706 CCTAGACAGGGTCTTACACG-AAATCAAATA-CAATGCCGA-TGT
1 CC-AGACATGGTCTTACATGTAAATCAAATATCAATGCC-ACTGT
* * * * *
66581748 CTCAGACATGGTCTTACATGTAAATCATATGTCGATTCCAATGT
1 C-CAGACATGGTCTTACATGTAAATCAAATATCAATGCCACTGT
*
66581792 CCCAGACGTGGTCTTACA
1 -CCAGACATGGTCTTACA
66581810 CGAAAACACA
Statistics
Matches: 84, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
42 27 0.32
43 33 0.39
44 23 0.27
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
CCAGACATGGTCTTACATGTAAATCAAATATCAATGCCACTGT
Found at i:66588894 original size:46 final size:45
Alignment explanation
Indices: 66588838--66589004 Score: 149
Period size: 46 Copynumber: 3.6 Consensus size: 45
66588828 CTCTTAGCCG
66588838 ATGCATGTCCTAGACATGTCTTACACTGGCTTACGTTACGAGGCCA
1 ATGCATGTCCTAGACATGTCTTACACTGGCTT-CGTTACGAGGCCA
* * * * * *
66588884 ATGCATGTCCTAGGCATGTCTTGCACTAGCACTCGTCT-CAATGCCA
1 ATGCATGTCCTAGACATGTCTTACACTGGC-TTCGT-TACGAGGCCA
* * * * *
66588930 ATGCCATGT-CTGAGACATGGTCTTACACTGGCTCTCATAATGTGGCCG
1 ATG-CATGTCCT-AGACAT-GTCTTACACTGGCT-TCGTTACGAGGCCA
*
66588978 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATGTCCTAGACATGTCTTACACT
66589005 AGCTCACATA
Statistics
Matches: 95, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
46 51 0.54
47 23 0.24
48 21 0.22
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCTAGACATGTCTTACACTGGCTTCGTTACGAGGCCA
Done.