Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 119 of 208
Found at i:39059550 original size:22 final size:21
Alignment explanation
Indices: 39059524--39059570 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
39059514 CACATAGCAC
*
39059524 ATTGTGGGTAAACCACCACATA
1 ATTGTGGAT-AACCACCACATA
* *
39059546 ATTGTTGATAACGACCACATA
1 ATTGTGGATAACCACCACATA
39059567 ATTG
1 ATTG
39059571 CTAGTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (21 bp):
ATTGTGGATAACCACCACATA
Found at i:39064029 original size:8 final size:8
Alignment explanation
Indices: 39064016--39064050 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
39064006 AATGCCGAAG
39064016 TTTCGGCT
1 TTTCGGCT
39064024 TTTCGGCT
1 TTTCGGCT
*
39064032 TTTCGACT
1 TTTCGGCT
*
39064040 TCTCGGCT
1 TTTCGGCT
39064048 TTT
1 TTT
39064051 GCCGATTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.03, C:0.26, G:0.20, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:39079471 original size:18 final size:18
Alignment explanation
Indices: 39079450--39079485 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39079440 TTGCACCTGT
39079450 AGAAGAAGAAGTTGTTGC
1 AGAAGAAGAAGTTGTTGC
* *
39079468 AGAAGAGGAGGTTGTTGC
1 AGAAGAAGAAGTTGTTGC
39079486 TAAAAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.39, T:0.22
Consensus pattern (18 bp):
AGAAGAAGAAGTTGTTGC
Found at i:39089295 original size:43 final size:42
Alignment explanation
Indices: 39089247--39089372 Score: 112
Period size: 42 Copynumber: 2.9 Consensus size: 42
39089237 TCCCCGACGT
* * * * * *
39089247 GGTCTTATATGTAATCAAATATCGATGTCACTGTCCTAGATAG
1 GGTCTTACATGAAATCAAATA-CGATGCCAATGTCCCAGACAG
* *
39089290 GGTCTTACATGAAATCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAGACAG
*
39089332 GGTCTTACACAT-AAATCTCAAAT-CGATGCCAACGTCCCAGA
1 GGTCTT--ACATGAAA--TCAAATACGATGCCAATGTCCCAGA
39089373 TGTGGTCTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
42 22 0.32
43 21 0.30
44 21 0.30
45 5 0.07
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAGACAG
Found at i:39089336 original size:42 final size:43
Alignment explanation
Indices: 39089236--39089384 Score: 124
Period size: 43 Copynumber: 3.5 Consensus size: 43
39089226 ATTCGAAATC
* * * * * * *
39089236 GTCCCCGACGTGGTCTTATATGTAATCAAATATCGATGTCACT
1 GTCCCAGACATGGTCTTACATGAAATCATATATCGATGCCAAT
* * *
39089279 GTCCTAGATAGGGTCTTACATGAAATCATATA-CGATGCCAAT
1 GTCCCAGACATGGTCTTACATGAAATCATATATCGATGCCAAT
* *
39089321 GTCCCAGACATGGTCTTACACAT-AAATC-TCAAATCGATGCCAAC
1 GTCCCAGACATGGTCTT--ACATGAAATCAT-ATATCGATGCCAAT
**
39089365 GTCCCAGATGTGGTCTTACA
1 GTCCCAGACATGGTCTTACA
39089385 CGTAATTACA
Statistics
Matches: 85, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.31
43 31 0.36
44 28 0.33
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGAAATCATATATCGATGCCAAT
Found at i:39094978 original size:28 final size:30
Alignment explanation
Indices: 39094942--39094998 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
39094932 AAGGACTAAA
*
39094942 ATCTTAAAA-TTGAA-AGTAGAGAGATTTC
1 ATCTCAAAAGTTGAAGAGTAGAGAGATTTC
*
39094970 ATCTCAAAATGTTGAAGAGTAGAGGGATT
1 ATCTCAAAA-GTTGAAGAGTAGAGAGATT
39094999 GGAGAAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
30 5 0.21
31 11 0.46
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
ATCTCAAAAGTTGAAGAGTAGAGAGATTTC
Found at i:39098594 original size:4 final size:4
Alignment explanation
Indices: 39098585--39098613 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
39098575 ATGGTATATA
39098585 TTAT TTAT TTAT TTAT TTAT TTA- TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
39098614 TTTGTGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:39114423 original size:25 final size:25
Alignment explanation
Indices: 39114362--39114450 Score: 88
Period size: 25 Copynumber: 3.6 Consensus size: 25
39114352 ACATGTATGA
* * *
39114362 TCATACGAGCTATGAATCGGTATGC
1 TCATACGAGCTGTGAATCGATAAGC
** *
39114387 TCCCACAAGCTGTGAATCGATAAGC
1 TCATACGAGCTGTGAATCGATAAGC
* *
39114412 TCATACGAGCTGAGAATCAATAAGC
1 TCATACGAGCTGTGAATCGATAAGC
* *
39114437 TCATAAGAGTTGTG
1 TCATACGAGCTGTG
39114451 GTGTGTCCGC
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (25 bp):
TCATACGAGCTGTGAATCGATAAGC
Found at i:39116530 original size:25 final size:25
Alignment explanation
Indices: 39116475--39116581 Score: 124
Period size: 25 Copynumber: 4.3 Consensus size: 25
39116465 ACTAGCTCAT
* * *
39116475 ACGAGTTGTGAATCGGTATGCTCAC
1 ACGAGTTATAAATCGGTATGCTCTC
** *
39116500 TGGAGTTATAGATCGGTATGCTCTC
1 ACGAGTTATAAATCGGTATGCTCTC
* * *
39116525 ACGAGTTACAAATTGGTATGCTCTT
1 ACGAGTTATAAATCGGTATGCTCTC
*
39116550 ACGAGCTATAAATCGGTATGCTCTC
1 ACGAGTTATAAATCGGTATGCTCTC
39116575 ACGAGTT
1 ACGAGTT
39116582 GTTGAGTTTC
Statistics
Matches: 65, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (25 bp):
ACGAGTTATAAATCGGTATGCTCTC
Found at i:39124961 original size:30 final size:30
Alignment explanation
Indices: 39124922--39124983 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
39124912 TACATGAAAT
39124922 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
39124953 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
39124982 AC
1 AC
39124984 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:39133226 original size:853 final size:853
Alignment explanation
Indices: 39131041--39133520 Score: 4822
Period size: 853 Copynumber: 2.9 Consensus size: 853
39131031 CTACCAATAC
39131041 AACATTTATTTTTTTATTTTTTTATTTTCCTTTGGAATAAGGGATATCATTGCATTATTGTACCC
1 AACATTTATTTTTTTATTTTTTTATTTTCCTTTGGAATAAGGGATATCATTGCATTATTGTACCC
39131106 TTGTTCTTGAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATAGA
66 TTGTTCTTGAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATAGA
39131171 CACTCATACAACGATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCTTC
131 CACTCATACAACGATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCTTC
39131236 ATTAACATTCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAATT
196 ATTAACATTCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAATT
*
39131301 GTAAAAGCATATTCATTCAAGATTTAAGGAATAATAGTAGTCATCCATTACTAATGCAACCTAAT
261 GTAAAAGCATATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCATTACTAATGCAACCTAAT
*
39131366 CTATTCATCAAATAATTGAAGCAACAACCTTCTGTCAAATTTATCCAACTCATTCATTGATAATT
326 CTATTCATCAAAGAATTGAAGCAACAACCTTCTGTCAAATTTATCCAACTCATTCATTGATAATT
39131431 CACATGATTCAAGAATTAAGCATCAAATGTAACAAAAATTTTTGAACAATTTTAATTTACTACAA
391 CACATGATTCAAGAATTAAGCATCAAATGTAACAAAAATTTTTGAACAATTTTAATTTACTACAA
39131496 TTAAACCTTGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATGTG
456 TTAAACCTTGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATGTG
39131561 CATTCCCCCAAAGTTAAACTTTGCATTATCCCCAATGCACTAACATGAAATTGTAATGACAGTAA
521 CATTCCCCCAAAGTTAAACTTTGCATTATCCCCAATGCACTAACATGAAATTGTAATGACAGTAA
39131626 AAATGCAATGACAATGTGTACTTATCGAAATAAAACTTGCAACTACATGCAATGCATGAATACTA
586 AAATGCAATGACAATGTGTACTTATCGAAATAAAACTTGCAACTACATGCAATGCATGAATACTA
39131691 TACCTAAAGCTTAAAATAAACTAACTTAGTTATCCTCAGCCATCGATGTGGCTGCACGATGTTTC
651 TACCTAAAGCTTAAAATAAACTAACTTAGTTATCCTCAGCCATCGATGTGGCTGCACGATGTTTC
*
39131756 TTTCTCCTCATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAACGCTTTCTCTTCATCAA
716 TTTCTCCTCATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAGCGCTTTCTCTTCATCAA
39131821 TGCAAGCATTATGCTTCAAACCTTAAGTTCTATCTACCAATACAACATTTATTGTACAATACTAA
781 TGCAAGCATTATGCTTCAAACCTTAAGTTCTATCTACCAATACAACATTTATTGTACAATACTAA
39131886 GTATATAT
846 GTATATAT
* * *
39131894 AACATTTATTTTTTTTATTTTTTTATTTTGCTTTGGAATAAGGGAGATCGTTGCATTATTGTACC
1 AACATTTA-TTTTTTTATTTTTTTATTTTCCTTTGGAATAAGGGATATCATTGCATTATTGTACC
39131959 CTTGTTCTTGAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATAG
65 CTTGTTCTTGAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATAG
*
39132024 ACACTCATACAACAATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCTT
130 ACACTCATACAACGATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCTT
39132089 CATTAACATTCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAAT
195 CATTAACATTCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAAT
39132154 TGTAAAAGCATATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCATTACTAATGCAACCTAA
260 TGTAAAAGCATATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCATTACTAATGCAACCTAA
*
39132219 TCTATTCATCAAAGAATTGAAGCAACAACCTTCTATCAAATTTATCCAACTCATTCATTGATAAT
325 TCTATTCATCAAAGAATTGAAGCAACAACCTTCTGTCAAATTTATCCAACTCATTCATTGATAAT
39132284 TCACATGATTCAAGAATTAAGCATCAAATGTAACAAAAA-TTTTGAACAATTTTAATTTACTACA
390 TCACATGATTCAAGAATTAAGCATCAAATGTAACAAAAATTTTTGAACAATTTTAATTTACTACA
39132348 ATTAAACCTTGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATGT
455 ATTAAACCTTGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATGT
39132413 GCATTCCCCCAAAGTTAAACTTTGCATTATCCCCAATGCACTAACATGAAATTGTAATGACAGTA
520 GCATTCCCCCAAAGTTAAACTTTGCATTATCCCCAATGCACTAACATGAAATTGTAATGACAGTA
39132478 AAAATGCAATGACAATGTGTACTTATCGAAATAAAACTTGCAACTACATGCAATGCATGAATACT
585 AAAATGCAATGACAATGTGTACTTATCGAAATAAAACTTGCAACTACATGCAATGCATGAATACT
39132543 ATACCTAAAGCTTAAAATAAACTAACTTAGTTATCCTCAGCCATC-ATGTGGCTGCACGATGTTT
650 ATACCTAAAGCTTAAAATAAACTAACTTAGTTATCCTCAGCCATCGATGTGGCTGCACGATGTTT
39132607 CTTTCTCCTCATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAGCGCTTTCTCTTCATCA
715 CTTTCTCCTCATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAGCGCTTTCTCTTCATCA
*
39132672 ATGCAAGCATTATGCTTCAAACCTTAAGTTCTATCTATCAATACAACATTTATTGTACAATACTA
780 ATGCAAGCATTATGCTTCAAACCTTAAGTTCTATCTACCAATACAACATTTATTGTACAATACTA
39132737 AGTATATAT
845 AGTATATAT
39132746 AACATTTATTTTTTTATTTTTTTATTTTCCTTTGGAATAAGGGATATCATTGCATTATTGTACCC
1 AACATTTATTTTTTTATTTTTTTATTTTCCTTTGGAATAAGGGATATCATTGCATTATTGTACCC
39132811 TTGTTCTTGAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATAGA
66 TTGTTCTTGAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATAGA
39132876 CACTCATACAACGATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCTTC
131 CACTCATACAACGATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCTTC
39132941 ATTAACATTCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAATT
196 ATTAACATTCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAATT
39133006 GTAAAAAGCATATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCATTACTAATGCAACCTAA
261 GT-AAAAGCATATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCATTACTAATGCAACCTAA
*
39133071 TCTATTCATCAAAGAATTGAAGCAACAACCTTTTGTCAAATTTATCCAACTCATTCATTGATAAT
325 TCTATTCATCAAAGAATTGAAGCAACAACCTTCTGTCAAATTTATCCAACTCATTCATTGATAAT
39133136 TCACATGATTCAAGAATTAAGCATCAAATGTAACAAAAATTTTTGAACAATTTTAATTTACTACA
390 TCACATGATTCAAGAATTAAGCATCAAATGTAACAAAAATTTTTGAACAATTTTAATTTACTACA
39133201 ATTAAACCTTGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATGT
455 ATTAAACCTTGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATGT
39133266 GCATTCCCCCAAAGTTAAACTTTGCATTAT-CCCAATGCACTAACATGAAATTGTAATGACAGTA
520 GCATTCCCCCAAAGTTAAACTTTGCATTATCCCCAATGCACTAACATGAAATTGTAATGACAGTA
*
39133330 AAAATGCAATGACAATGTGTACTTATCGAAATAAAACTTGCAACTACATTCAATGCATGAATACT
585 AAAATGCAATGACAATGTGTACTTATCGAAATAAAACTTGCAACTACATGCAATGCATGAATACT
39133395 ATACCTAAAGCTTAAAATAAACTAACTTAGTTATCCTCAGCCATCGATGTGGCTGCACGATGTTT
650 ATACCTAAAGCTTAAAATAAACTAACTTAGTTATCCTCAGCCATCGATGTGGCTGCACGATGTTT
39133460 CTTTCTCCTCATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAGCGCTTTCTCTTC
715 CTTTCTCCTCATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAGCGCTTTCTCTTC
39133521 TTTTCTTTGG
Statistics
Matches: 1607, Mismatches: 16, Indels: 8
0.99 0.01 0.00
Matches are distributed among these distances:
851 250 0.16
852 471 0.29
853 473 0.29
854 413 0.26
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (853 bp):
AACATTTATTTTTTTATTTTTTTATTTTCCTTTGGAATAAGGGATATCATTGCATTATTGTACCC
TTGTTCTTGAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATAGA
CACTCATACAACGATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCTTC
ATTAACATTCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAATT
GTAAAAGCATATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCATTACTAATGCAACCTAAT
CTATTCATCAAAGAATTGAAGCAACAACCTTCTGTCAAATTTATCCAACTCATTCATTGATAATT
CACATGATTCAAGAATTAAGCATCAAATGTAACAAAAATTTTTGAACAATTTTAATTTACTACAA
TTAAACCTTGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATGTG
CATTCCCCCAAAGTTAAACTTTGCATTATCCCCAATGCACTAACATGAAATTGTAATGACAGTAA
AAATGCAATGACAATGTGTACTTATCGAAATAAAACTTGCAACTACATGCAATGCATGAATACTA
TACCTAAAGCTTAAAATAAACTAACTTAGTTATCCTCAGCCATCGATGTGGCTGCACGATGTTTC
TTTCTCCTCATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAGCGCTTTCTCTTCATCAA
TGCAAGCATTATGCTTCAAACCTTAAGTTCTATCTACCAATACAACATTTATTGTACAATACTAA
GTATATAT
Found at i:39143339 original size:52 final size:52
Alignment explanation
Indices: 39143269--39143391 Score: 164
Period size: 52 Copynumber: 2.4 Consensus size: 52
39143259 TGAATTAAAA
* *
39143269 AAAACTCTTTTAAATAATAAT--TTAAATTCT-ATTTAATTATCT-TTTATTT
1 AAAACTCTTTTAAATAATAATAATTAAATTATGATTTAATTAT-TATTTATCT
* * *
39143318 AAAATTGTTTTAAATAATAATAATTAAATTATGTTTTAATTATTATTTATCT
1 AAAACTCTTTTAAATAATAATAATTAAATTATGATTTAATTATTATTTATCT
39143370 AAAACTCTTTTAAATAATAATA
1 AAAACTCTTTTAAATAATAATA
39143392 TAATTACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
49 19 0.30
51 9 0.14
52 35 0.56
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.50
Consensus pattern (52 bp):
AAAACTCTTTTAAATAATAATAATTAAATTATGATTTAATTATTATTTATCT
Found at i:39143396 original size:38 final size:38
Alignment explanation
Indices: 39143354--39143428 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
39143344 AATTATGTTT
*
39143354 TAATTATTATTTATCTAAAACTCTTTTAAATAATAATA
1 TAATTACTATTTATCTAAAACTCTTTTAAATAATAATA
*
39143392 TAATTACTATTTATCTAAATCTCTTTTAAATAATAAT
1 TAATTACTATTTATCTAAAACTCTTTTAAATAATAAT
39143429 TAAAATCTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (38 bp):
TAATTACTATTTATCTAAAACTCTTTTAAATAATAATA
Found at i:39148266 original size:3 final size:3
Alignment explanation
Indices: 39148258--39148296 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
39148248 CTCTGTAGGA
39148258 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
39148297 GGGTCCTCGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:39155935 original size:242 final size:242
Alignment explanation
Indices: 39155510--39155988 Score: 958
Period size: 242 Copynumber: 2.0 Consensus size: 242
39155500 AAGACCCTAA
39155510 TATGTTATAAATGTAATGTATTCGGGATGTTAATGAATCTATTCATTTGTGAGTTGATAGTTATG
1 TATGTTATAAATGTAATGTATTCGGGATGTTAATGAATCTATTCATTTGTGAGTTGATAGTTATG
39155575 TAATTTGATAAATCTTGAGACATTGGTATAGGTTTATTTATGACTTATAAAGTTCATATTTGAAA
66 TAATTTGATAAATCTTGAGACATTGGTATAGGTTTATTTATGACTTATAAAGTTCATATTTGAAA
39155640 TGGAATATTATGTTTAAATTTTATACGAGCTTACTAGGCATTCATTGCTTATATGGTTATCTTTC
131 TGGAATATTATGTTTAAATTTTATACGAGCTTACTAGGCATTCATTGCTTATATGGTTATCTTTC
39155705 TCTTACTTTACAGATTATTAAAAGCTCGATTGCTTTGGAAGCCCCTG
196 TCTTACTTTACAGATTATTAAAAGCTCGATTGCTTTGGAAGCCCCTG
39155752 TATGTTATAAATGTAATGTATTCGGGATGTTAATGAATCTATTCATTTGTGAGTTGATAGTTATG
1 TATGTTATAAATGTAATGTATTCGGGATGTTAATGAATCTATTCATTTGTGAGTTGATAGTTATG
39155817 TAATTTGATAAATCTTGAGACATTGGTATAGGTTTATTTATGACTTATAAAGTTCATATTTGAAA
66 TAATTTGATAAATCTTGAGACATTGGTATAGGTTTATTTATGACTTATAAAGTTCATATTTGAAA
39155882 TGGAATATTATGTTTAAATTTTATACGAGCTTACTAGGCATTCATTGCTTATATGGTTATCTTTC
131 TGGAATATTATGTTTAAATTTTATACGAGCTTACTAGGCATTCATTGCTTATATGGTTATCTTTC
39155947 TCTTACTTTACAGATTATTAAAAGCTCGATTGCTTTGGAAGC
196 TCTTACTTTACAGATTATTAAAAGCTCGATTGCTTTGGAAGC
39155989 TAGTTGGAGA
Statistics
Matches: 237, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
242 237 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (242 bp):
TATGTTATAAATGTAATGTATTCGGGATGTTAATGAATCTATTCATTTGTGAGTTGATAGTTATG
TAATTTGATAAATCTTGAGACATTGGTATAGGTTTATTTATGACTTATAAAGTTCATATTTGAAA
TGGAATATTATGTTTAAATTTTATACGAGCTTACTAGGCATTCATTGCTTATATGGTTATCTTTC
TCTTACTTTACAGATTATTAAAAGCTCGATTGCTTTGGAAGCCCCTG
Found at i:39157647 original size:49 final size:50
Alignment explanation
Indices: 39157513--39157648 Score: 159
Period size: 49 Copynumber: 2.8 Consensus size: 50
39157503 AGGGAATGAG
* * * *
39157513 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTATATGAGAAC
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACTACATGAAAAC
* * * *
39157563 -TCCCATGTAAGACCATATCAAGGATATGGCATTGGCAGTACA-GAAAAC
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACTACATGAAAAC
* * *
39157611 ATCCCATGTAAGACTATGTCTAGGACATAGCTTTGGCA
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
39157649 TTTACTATCA
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
48 5 0.07
49 66 0.93
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACTACATGAAAAC
Found at i:39170076 original size:40 final size:40
Alignment explanation
Indices: 39169812--39170062 Score: 412
Period size: 40 Copynumber: 6.3 Consensus size: 40
39169802 TCCTCGTTCA
* * * **
39169812 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
39169852 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
39169892 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
39169932 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
39169972 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
39170012 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
39170052 AAGGCCTTCGG
1 AATGCCTTCGG
39170063 ATCTTAGTCC
Statistics
Matches: 201, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 201 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:39170099 original size:120 final size:120
Alignment explanation
Indices: 39169810--39170108 Score: 370
Period size: 120 Copynumber: 2.5 Consensus size: 120
39169800 GCTCCTCGTT
* * * * * ** * *
39169810 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATATAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGG
39169875 ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
66 ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * *
39169930 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATATAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGG
** *
39169995 ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
66 ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
** *
39170050 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTA
1 CAAAGGCCTTCGGGA-CTTAACCCGGATATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTA
39170109 GCCCAGACAG
Statistics
Matches: 159, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
119 3 0.02
120 150 0.94
121 6 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
CAAAGGCCTTCGGGACTTAACCCGGATATAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGG
ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:39187226 original size:43 final size:43
Alignment explanation
Indices: 39187155--39187294 Score: 151
Period size: 42 Copynumber: 3.3 Consensus size: 43
39187145 GATGTGATAT
* * * *
39187155 CGTGTAAGACCACGT-TTGGACATTGGCATCGATCTGA-GGTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATAT-ATGATTA
*
39187197 CGTGTAAGACCATGTCTGGGACATTGGCATC-ATATATGATTT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
* * * * *
39187239 CGTGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGATAA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
*
39187282 CATGTAAGACCAT
1 CGTGTAAGACCAT
39187295 ATCTAGGATA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 48 0.59
43 33 0.40
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
Found at i:39199052 original size:47 final size:47
Alignment explanation
Indices: 39198998--39199282 Score: 403
Period size: 47 Copynumber: 6.1 Consensus size: 47
39198988 TTAGGATTTT
** * *
39198998 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39199045 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
39199092 ATGTGATGAATGTGAACATGCACATGTGT-ATTAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGA-TAAGGCCGAATGGCCA
*
39199139 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
39199186 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
39199233 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
39199280 ATG
1 ATG
39199283 CGAAGTGTGT
Statistics
Matches: 215, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
46 1 0.00
47 210 0.98
48 4 0.02
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:39199312 original size:46 final size:46
Alignment explanation
Indices: 39199256--39199438 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
39199246 GGAAGTGTAT
* ***
39199256 ATATGTGGTAAAGCCGAATGGCTAATGCGAAGTGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATGG
* *
39199302 ATATGAGGTAAAGTCGAATGGCTAATACGAAACATGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATGG
*
39199348 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATGG
* * * * *
39199394 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATG
39199439 TGTAAATATA
Statistics
Matches: 122, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 122 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:39201243 original size:47 final size:44
Alignment explanation
Indices: 39201182--39201348 Score: 174
Period size: 47 Copynumber: 3.6 Consensus size: 44
39201172 GTGTCGAAGC
39201182 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCT-ATATCTCAAGTCGATG
* * * *
39201228 CCATGTCCCAGACATGGTCTTACATTAACTATCATCTCGTAGTCAATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTAT-ATCTC-AAGTCGATG
* * * *
39201276 TATGTCCCAGACATGCCTTTCACTGGCT-TACGTCTCAAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATA--TCTCAA-GTCGATG
39201322 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
39201349 CAACAATAAC
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 44 0.44
47 45 0.45
48 7 0.07
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAGCTATATCTCAAGTCGATG
Found at i:39203523 original size:44 final size:44
Alignment explanation
Indices: 39203460--39203618 Score: 159
Period size: 43 Copynumber: 3.7 Consensus size: 44
39203450 TATGTGTTAT
*
39203460 CGTGTAAGACCACATCTGGGACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACATCTGGGACGTTGGCATCGA-TATTTGATTTA
* **
39203504 CGTGTAAGACCACGTCTGGGACGTTAACATC-ATATTTGATTT-
1 CGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTTA
* * *
39203546 TGTGTAAGACC-CTGTCTGGGATAGTT-GCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-ATCTGGGA-CGTTGGCATCGATATTTGATTTA
** *
39203589 AATGTAAGACCACATCTGGGATGTTGGCAT
1 CGTGTAAGACCACATCTGGGACGTTGGCAT
39203619 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 39 0.40
44 29 0.30
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
CGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTTA
Found at i:39204375 original size:10 final size:10
Alignment explanation
Indices: 39204335--39204377 Score: 59
Period size: 11 Copynumber: 4.1 Consensus size: 10
39204325 TATTGAAACA
*
39204335 TATGCTTTGG
1 TATGATTTGG
39204345 TATGATTTTGG
1 TATGA-TTTGG
39204356 TATAGATTTGG
1 TAT-GATTTGG
39204367 TATGATTTGG
1 TATGATTTGG
39204377 T
1 T
39204378 TGGTGAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 12 0.40
11 16 0.53
12 2 0.07
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (10 bp):
TATGATTTGG
Found at i:39207195 original size:196 final size:196
Alignment explanation
Indices: 39206835--39207229 Score: 612
Period size: 196 Copynumber: 2.0 Consensus size: 196
39206825 TTGAAACCTT
*
39206835 TTGCAACTAACCTTGCTTTGTAAGTACGCACTTTACCATTCATGTCAGTTTCCTTCTTGAAAACA
1 TTGCAACTAACCTTGCTTTGTAAGTACGCACTTTACCATCCATGTCAGTTTCCTTCTTGAAAACA
* * * * *
39206900 CATTTGCACCTAATGGTGTTTGTATCTTTAGGTGGATCAATCAAGGTCCATACTTGATTATCATA
66 CATTTGCACCTAATGGTCTTTGTACCTTTAGGTGGATCAACCAAGGTCCATACCTAATTATCATA
* *
39206965 CATGGATTGCTTTCCAGGCTTCATGGCCTCCAACCATTTCTTAAAGTCCAGATCTGACATAGCCT
131 CATGGATTACTTTCCAGACTTCATGGCCTCCAACCATTTCTTAAAGTCCAGATCTGACATAGCCT
39207030 C
196 C
* * * * * *
39207031 TTGCAACTAACGTTGCTTTGTAAGTATGCACTTTGCCATCCATGTTAGTTTTCTTCTTGAAAACC
1 TTGCAACTAACCTTGCTTTGTAAGTACGCACTTTACCATCCATGTCAGTTTCCTTCTTGAAAACA
*
39207096 CATTTGCACCTAATGGTCTTTGTACCTTTAGGTGGATTAACCAAGGTCCATACCTAATTATCATA
66 CATTTGCACCTAATGGTCTTTGTACCTTTAGGTGGATCAACCAAGGTCCATACCTAATTATCATA
* * *
39207161 CATGGATTACATTT-CAGACTTGATGGCTTCCAACCATTTCTTAAAGTCTAGATCTGACATAGCC
131 CATGGATTAC-TTTCCAGACTTCATGGCCTCCAACCATTTCTTAAAGTCCAGATCTGACATAGCC
39207225 TC
195 TC
39207227 TTG
1 TTG
39207230 ATAGGTACTA
Statistics
Matches: 180, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
196 177 0.98
197 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (196 bp):
TTGCAACTAACCTTGCTTTGTAAGTACGCACTTTACCATCCATGTCAGTTTCCTTCTTGAAAACA
CATTTGCACCTAATGGTCTTTGTACCTTTAGGTGGATCAACCAAGGTCCATACCTAATTATCATA
CATGGATTACTTTCCAGACTTCATGGCCTCCAACCATTTCTTAAAGTCCAGATCTGACATAGCCT
C
Found at i:39211231 original size:35 final size:35
Alignment explanation
Indices: 39211185--39211253 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
39211175 ATTATGTTTC
39211185 AATTATTATTTATC-AAAACATATTTTAAATAATAT
1 AATTATTATTTATCTAAAAC-TATTTTAAATAATAT
*
39211220 AATTATTATTTATCTAAAACTCTTTTAAATAATA
1 AATTATTATTTATCTAAAACTATTTTAAATAATA
39211254 ACTATATTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 27 0.84
36 5 0.16
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (35 bp):
AATTATTATTTATCTAAAACTATTTTAAATAATAT
Found at i:39211319 original size:94 final size:94
Alignment explanation
Indices: 39211219--39211390 Score: 317
Period size: 94 Copynumber: 1.8 Consensus size: 94
39211209 TTAAATAATA
* *
39211219 TAATTATTATTTATCTAAAACTCTTTTAAATAATAACTATATTCTATTTCCTTATTTGATAAGGA
1 TAATTATTATTTATCTAAAACTCTTTTAAATAATAACTAAATTCTATTTCCTTATCTGATAAGGA
39211284 ATATATCAAATCCTTTTGCTTTTGAATTT
66 ATATATCAAATCCTTTTGCTTTTGAATTT
*
39211313 TAATTATTATTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATTTCCTTATCTGATAAGGA
1 TAATTATTATTTATCTAAAACTCTTTTAAATAATAACTAAATTCTATTTCCTTATCTGATAAGGA
39211378 ATATATCAAATCC
66 ATATATCAAATCC
39211391 CCTTTTTATC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.47
Consensus pattern (94 bp):
TAATTATTATTTATCTAAAACTCTTTTAAATAATAACTAAATTCTATTTCCTTATCTGATAAGGA
ATATATCAAATCCTTTTGCTTTTGAATTT
Found at i:39228203 original size:25 final size:25
Alignment explanation
Indices: 39228169--39228218 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
39228159 TAGCCTCATT
39228169 GTGTGATCTAGAAAATAATTTTAAA
1 GTGTGATCTAGAAAATAATTTTAAA
39228194 GTGTGATCTAGAAAATAATTTTAAA
1 GTGTGATCTAGAAAATAATTTTAAA
39228219 ACTTGTGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (25 bp):
GTGTGATCTAGAAAATAATTTTAAA
Found at i:39228277 original size:17 final size:17
Alignment explanation
Indices: 39228240--39228279 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
39228230 TATCAAAAGT
* * *
39228240 ATTTACTTTAAAATGTT
1 ATTTATTTTAAAATATC
39228257 ATTTATTTTAAAATATC
1 ATTTATTTTAAAATATC
39228274 ATTTAT
1 ATTTAT
39228280 CACAGAAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTATTTTAAAATATC
Found at i:39229213 original size:27 final size:27
Alignment explanation
Indices: 39229135--39229233 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 27
39229125 TTATGTTATA
* * *
39229135 GGGGTATTACAGTCATTTTACCCTATA
1 GGGGTATTTCGGTCATTTTACCCTATG
* * * * *
39229162 GGGGTATTTTGATAATTCTATCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
39229189 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
39229216 AGGGTATTTCGGTCATTT
1 GGGGTATTTCGGTCATTT
39229234 GATCACATAA
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTATG
Found at i:39229246 original size:27 final size:27
Alignment explanation
Indices: 39229190--39229246 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
39229180 TATCCTATGG
* * *
39229190 GGGTATTTCGGTCATTTTACCCTATGA
1 GGGTATTTCGGTCATTTGACACTATAA
39229217 GGGTATTTCGGTCATTTGATCAC-ATAA
1 GGGTATTTCGGTCATTTGA-CACTATAA
39229244 GGG
1 GGG
39229247 CAAAATCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTGACACTATAA
Found at i:39229258 original size:27 final size:27
Alignment explanation
Indices: 39229227--39229466 Score: 365
Period size: 27 Copynumber: 8.9 Consensus size: 27
39229217 GGGTATTTCG
* *
39229227 GTCATTTGATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATT
* *
39229254 ATCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATT
*
39229281 GTTATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATT
39229308 GTCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATT
* * *
39229335 TTCATTTTATCACATAAGGGTAAATTT
1 GTCATTTTATCACATAAGGGCAAAATT
*
39229362 GTCATTTTATCACATAAGGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATT
* *
39229389 GTCATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATT
39229416 GTCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATT
*
39229443 GTCATTTTATCAGA-AAGGGCAAAA
1 GTCATTTTATCACATAAGGGCAAAA
39229467 GCATTATTTT
Statistics
Matches: 196, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
26 10 0.05
27 186 0.95
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATT
Found at i:39231938 original size:30 final size:30
Alignment explanation
Indices: 39231903--39231959 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
39231893 TTTTTGAGCA
* *
39231903 TAGGGGTAAAATGGTCATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
*
39231933 TAGGGGCAAAATGGTTATTTTACCAAA
1 TAGGGGCAAAATGGTCATTTTACCAAA
39231960 TATGGGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:39232406 original size:47 final size:47
Alignment explanation
Indices: 39232299--39232553 Score: 138
Period size: 47 Copynumber: 5.7 Consensus size: 47
39232289 ATTGTGGGCT
* *
39232299 AGTGTAAGACATGTCTGGGACA-CGCATTGGCCACATT---ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG---CATTGAGATGAGAGCC
* * * *
39232345 AATGCAAGTCCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCT
1 AGTGTAAG-ACATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCC
* * * *
39232393 AGTGTAAGACATGTCTAGGACAT-ACATCGACCTTGAGACCT-A-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGA--TGAGAGCC
* *
39232439 AGTGTAAAACATGTCTGGGACAT-GCAT---C---GA-CT---A--C
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCC
* * * *
39232473 GGTGTAAGACCATATCTGGGACATGGCATCGAC-TTGAGATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCC
*
39232520 AGTGTAAGACCATGTCTGAGACATGGCATCGGCA
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
39232554 CCTTACCTAC
Statistics
Matches: 162, Mismatches: 26, Indels: 40
0.71 0.11 0.18
Matches are distributed among these distances:
34 8 0.05
35 13 0.08
36 5 0.03
37 1 0.01
39 1 0.01
40 2 0.01
41 2 0.01
42 1 0.01
43 1 0.01
45 5 0.03
46 45 0.28
47 57 0.35
48 21 0.13
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCC
Found at i:39232510 original size:81 final size:82
Alignment explanation
Indices: 39232394--39232550 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 82
39232384 ATGAGAGCTA
* *
39232394 GTGTAAGACATGTCTAGGACATACATCGACCTTGAGACCTAAGCCAGTGTAA-AACATGTCTGGG
1 GTGTAAGACATATCTAGGACATACATCGACCTTGAGACCTAAGCCAGTGTAAGAACATGTCTGAG
39232458 ACAT-GCATCGACTACG
66 ACATGGCATCGACTACG
* * ** * *
39232474 GTGTAAGACCATATCTGGGACATGGCATCGA-CTTGAGATGTGAGCCAGTGTAAGACCATGTCTG
1 GTGTAAGA-CATATCTAGGACAT-ACATCGACCTTGAGACCTAAGCCAGTGTAAGAACATGTCTG
39232538 AGACATGGCATCG
64 AGACATGGCATCG
39232551 GCACCTTACC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
80 8 0.12
81 31 0.48
82 20 0.31
83 6 0.09
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (82 bp):
GTGTAAGACATATCTAGGACATACATCGACCTTGAGACCTAAGCCAGTGTAAGAACATGTCTGAG
ACATGGCATCGACTACG
Found at i:39234411 original size:63 final size:63
Alignment explanation
Indices: 39234293--39234516 Score: 245
Period size: 63 Copynumber: 3.6 Consensus size: 63
39234283 AACATCCTGA
* * * * * * *
39234293 TACACGGCCTGGGCACACGCCCATATGCCTTGGCCGTGTGGTTTTTA-ACCACAAACAGTGAGT
1 TACACGGCCTGGGCACATGCTCGTGT-CCCTAGCCGTGTGGTTTTTATACCTCAAACAGTGAGT
* * * *
39234356 TACACAGCCTGGGCACACGCTTGTGTCCCTGGCCGTGTGGTTTTTATACCTCAAACAGTGAGT
1 TACACGGCCTGGGCACATGCTCGTGTCCCTAGCCGTGTGGTTTTTATACCTCAAACAGTGAGT
* * * * * *
39234419 TGCATGGCCTGGGCACATGCCCGTGTCCCTAGCCATGTGGTTTTTGTA-CTACAAAAAGTGAGT
1 TACACGGCCTGGGCACATGCTCGTGTCCCTAGCCGTGTGGTTTTTATACCT-CAAACAGTGAGT
* *
39234482 TATACGGCCTGGGCAAATGCTCGTGTCCCTAGCCG
1 TACACGGCCTGGGCACATGCTCGTGTCCCTAGCCG
39234517 AATGAACCAT
Statistics
Matches: 136, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
62 21 0.15
63 115 0.85
ACGTcount: A:0.20, C:0.27, G:0.26, T:0.26
Consensus pattern (63 bp):
TACACGGCCTGGGCACATGCTCGTGTCCCTAGCCGTGTGGTTTTTATACCTCAAACAGTGAGT
Found at i:39235204 original size:23 final size:22
Alignment explanation
Indices: 39235178--39235229 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
39235168 AAAGGATAGA
*
39235178 AAAAGAATAAAAAAAATAAAGAG
1 AAAAGAAGAAAAAAAATAAAG-G
* * *
39235201 AAAAGAAGGAAAAATATAGAGG
1 AAAAGAAGAAAAAAAATAAAGG
39235223 AAAAGAA
1 AAAAGAA
39235230 ATATGGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (22 bp):
AAAAGAAGAAAAAAAATAAAGG
Found at i:39235215 original size:21 final size:22
Alignment explanation
Indices: 39235189--39235229 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
39235179 AAAGAATAAA
39235189 AAAAATAAAGA-GAAAAGAAGG
1 AAAAATAAAGAGGAAAAGAAGG
*
39235210 AAAAATATAGAGGAAAAGAA
1 AAAAATAAAGAGGAAAAGAA
39235230 ATATGGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.07
Consensus pattern (22 bp):
AAAAATAAAGAGGAAAAGAAGG
Found at i:39235266 original size:40 final size:40
Alignment explanation
Indices: 39235222--39235301 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
39235212 AAATATAGAG
*
39235222 GAAAAGAAATATGGAAAAATAACTAACGTTAATTATTAAT
1 GAAAAGAAATATGGAAAAAGAACTAACGTTAATTATTAAT
*
39235262 GAAAAGAAATATGGAAAAAGAACTAAGGTTAATTATTAAT
1 GAAAAGAAATATGGAAAAAGAACTAACGTTAATTATTAAT
39235302 TAACTTCCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.55, C:0.04, G:0.15, T:0.26
Consensus pattern (40 bp):
GAAAAGAAATATGGAAAAAGAACTAACGTTAATTATTAAT
Found at i:39238609 original size:27 final size:27
Alignment explanation
Indices: 39238544--39238641 Score: 115
Period size: 27 Copynumber: 3.5 Consensus size: 27
39238534 CATGAGATTG
* * *
39238544 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTAT-TA
*
39238573 GCACTAAGTGTGCGAGTTTGATTATTA
1 GCACTAAGTGTGCGAGTTAGATTATTA
* *
39238600 GCACTAAGTGTGCGAGTTCGACTATTAA
1 GCACTAAGTGTGCGAGTTAGATTATT-A
39238628 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39238642 GGCTTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
27 26 0.42
28 19 0.31
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTAGATTATTA
Found at i:39244995 original size:20 final size:20
Alignment explanation
Indices: 39244964--39245042 Score: 77
Period size: 20 Copynumber: 4.0 Consensus size: 20
39244954 ATTGCTGTGA
*
39244964 TACTTATGGCTTTGTGCCAC
1 TACTGATGGCTTTGTGCCAC
* * *
39244984 TATTGGTGGCTTTGTGCCGC
1 TACTGATGGCTTTGTGCCAC
* * *
39245004 TACTGATGGCTTCGAGCCGC
1 TACTGATGGCTTTGTGCCAC
* *
39245024 TACTCATGGATTTGTGCCA
1 TACTGATGGCTTTGTGCCA
39245043 TATACTAATA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.14, C:0.24, G:0.27, T:0.35
Consensus pattern (20 bp):
TACTGATGGCTTTGTGCCAC
Found at i:39245099 original size:26 final size:25
Alignment explanation
Indices: 39245051--39245099 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
39245041 CATATACTAA
* *
39245051 TACTGGCAGCTTGCTGTGTTATTGT
1 TACTGGCAGCTTGCTGCGATATTGT
39245076 TACTGGCAGCTTTGCTGCGATATT
1 TACTGGCAGC-TTGCTGCGATATT
39245100 TTTGTGTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.14, C:0.18, G:0.27, T:0.41
Consensus pattern (25 bp):
TACTGGCAGCTTGCTGCGATATTGT
Found at i:39248115 original size:39 final size:41
Alignment explanation
Indices: 39248021--39248204 Score: 215
Period size: 40 Copynumber: 4.6 Consensus size: 41
39248011 TTGAATGATG
*
39248021 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
* *
39248060 TCCGGACTAAGACCCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
39248100 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
39248139 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
39248179 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39248205 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 15
0.84 0.07 0.10
Matches are distributed among these distances:
39 56 0.44
40 60 0.47
41 11 0.09
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:39248155 original size:79 final size:81
Alignment explanation
Indices: 39248021--39248204 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
39248011 TTGAATGATG
39248021 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGACCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGACCCGAAGGCATT
39248084 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * ** *
39248099 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAGTCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGACCCGAAGGCA
39248161 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
39248179 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39248205 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
78 10 0.11
79 59 0.64
80 23 0.25
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGACCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:39248226 original size:79 final size:78
Alignment explanation
Indices: 39248050--39248237 Score: 202
Period size: 79 Copynumber: 2.4 Consensus size: 78
39248040 GCTTGTGCTA
* * * *
39248050 AGTGACAATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCG
1 AGTGACTATATCCGG-TTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCG
**
39248115 AAGGCATTTGTGCG
65 AAGGCATTTGAACG
* * *
39248129 AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 AGTGACTATATCC-GGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-C
39248192 CCGAAGGCATTTGAACG
62 CCGAAGGCATTTGAACG
* *
39248209 AG-GAGCTATATCCGGTTAAATTCCGAAGG
1 AGTGA-CTATATCCGGTTAAGTCCCGAAGG
39248238 TACGTGATTT
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.03
79 61 0.67
80 27 0.30
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (78 bp):
AGTGACTATATCCGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGA
AGGCATTTGAACG
Found at i:39256011 original size:39 final size:40
Alignment explanation
Indices: 39255916--39256138 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
39255906 TTGAATGATG
*
39255916 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
39255954 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
39255995 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
39256034 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
39256073 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
39256112 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
39256139 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:39256102 original size:79 final size:81
Alignment explanation
Indices: 39255916--39256138 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
39255906 TTGAATGATG
* * *
39255916 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
39255978 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
39255995 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
39256056 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
39256073 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
39256137 TG
66 TG
39256139 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:39256160 original size:79 final size:79
Alignment explanation
Indices: 39255916--39256171 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
39255906 TTGAATGATG
* * * *
39255916 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
39255977 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
39255995 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
39256059 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
39256073 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
39256136 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
39256153 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
39256172 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:39263094 original size:50 final size:51
Alignment explanation
Indices: 39263031--39263162 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
39263021 GAGGTCCTAT
* ** *
39263031 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGA-GGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGACCATCCCAC
* * *
39263081 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGACCATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGACCATCCCAC
*
39263132 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
39263163 TGTTATTATC
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 39 0.54
51 33 0.46
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.20
Consensus pattern (51 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGACCATCCCAC
Found at i:39263376 original size:36 final size:36
Alignment explanation
Indices: 39263329--39263401 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
39263319 TCAATGTTTC
*
39263329 AGCAAGAGAAGAATAAGTTACGATCGTGAGTTAACT
1 AGCAAGAGAAGAATAAGTTACGATCATGAGTTAACT
39263365 AGCAAGAGAAGAATAAGTTACGATCATGAGTTAACT
1 AGCAAGAGAAGAATAAGTTACGATCATGAGTTAACT
39263401 A
1 A
39263402 AGTAAACCAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (36 bp):
AGCAAGAGAAGAATAAGTTACGATCATGAGTTAACT
Found at i:39266315 original size:710 final size:710
Alignment explanation
Indices: 39264418--39267963 Score: 6774
Period size: 710 Copynumber: 5.0 Consensus size: 710
39264408 TTAATTTCAA
*
39264418 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATACCTCGAGCTCGACTCCGGCA
1 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
*
39264483 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCCCGGACTATCCGTAA-TTTTTTTATATTCGCCTAC
66 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
*
39264547 AAGTTACCAATCTGGTAGCGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
131 AAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
39264612 TACCTTCTTAA-TTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
196 TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
* *
39264676 TTGCTTCTTCATTTTTTGCCCAGCAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTA
261 TTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
*
39264741 TCTCTTGGCCTTCTCCATTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
326 TCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
*
39264806 CACATTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
391 CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
* * *
39264871 TTTCTTTAAACATCCTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTATCTTC
456 TTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
* *
39264936 AACTCCACCATTGAGAGCTCATCGACGATTTCACAGAAATCTTCCATAAGGGCATTTGGTTTTCT
521 AACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
*
39265001 CCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTCCGAGGCTC
586 CCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCTC
39265066 CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
651 CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
* *
39265126 AAGTAAAATTTTATACCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTTCGGCA
1 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
*
39265191 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCCCGGACTATCCGTAA-TTTTTTTATATTCGCCTAC
66 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
*
39265255 AAGTTACCAATCTGGTAGCGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
131 AAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
*
39265320 TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATTTTTT
196 TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
* *
39265385 TTGCTTCTTCATTTTTTGCCCAGCAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTA
261 TTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
*
39265450 TCTGTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
326 TCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
39265515 CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
391 CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
39265580 TTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
456 TTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
39265645 AACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
521 AACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
39265710 CCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCTC
586 CCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCTC
39265775 CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
651 CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
39265835 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
1 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
39265900 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
66 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
*
39265965 AAGTTACCAATCTGGTAGTGTATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
131 AAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
*
39266030 TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTTTCTGCCAAGCTTCATTTATGATCTTTT
196 TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
*
39266095 TTGCTTCTTCATTTTTTGCCCAGTAGACTTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
261 TTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
39266160 TCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
326 TCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
39266225 CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
391 CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
*
39266290 TTTCTTTAACCATCGTTGGACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
456 TTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
39266355 AACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
521 AACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
*
39266420 CCTACCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCTC
586 CCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCTC
39266485 CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
651 CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
39266545 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
1 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
39266610 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
66 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
39266675 AAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
131 AAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
39266740 TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
196 TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
39266805 TTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
261 TTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
39266870 TCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
326 TCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
39266935 CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
391 CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
39267000 TTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
456 TTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
*
39267065 AACTCCACCATCGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
521 AACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
* *
39267130 CCTGCCACCTTATTCGAGGCTCCCGTACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCTC
586 CCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCTC
39267195 CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
651 CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
39267255 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
1 AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
39267320 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
66 ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
39267385 AAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
131 AAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
39267450 TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
196 TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
39267515 TTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
261 TTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
39267580 TCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
326 TCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
*
39267645 CACCTTGGTTTTCAGAAAGGGGAAGTTTTTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
391 CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
39267710 TTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
456 TTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
* *
39267775 AACTCCACCATCGAGAGCTCATCGATGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
521 AACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
*
39267840 CCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTCCGAGGCTC
586 CCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCTC
39267905 CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGT
651 CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGT
39267964 GCCGATGGTG
Statistics
Matches: 2797, Mismatches: 39, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
708 202 0.07
709 600 0.21
710 1995 0.71
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (710 bp):
AAGTAAAATTTTATGCCCCGAATTTTTAAGTTAAGTAAAGTAATGCCTCGAGCTCGACTCCGGCA
ATGGTCTCGGGTAAGGGGTGTTACAGCTCCTCGGACTATCCGTAATTTTTTTTATATTCGCCTAC
AAGTTACCAATCTGGTAGTGCATTTGTTTTAACTTCTTATATTGCCACCCTCCAAGCTCTTTACC
TACCTTCTTAATTTTTTCCAAAGTGTCCTAAGTACCTCTCTGCCAAGCTTCATTTATGATCTTTT
TTGCTTCTTCATTTTTTGCCCAGTAGACCTCATATTTAAAACAAAGTCTAGGATCCCTAAGGTTG
TCTCTTGGCCTTCTCCCTTGAGTATCTAAAATGATCGCATCATGATCAGAGCTAGATTGACGGAG
CACCTTGGTTTTCAGAAAGGGGAAGTTATTCACATCATTAGTGGAAATAAAGAAGCGGTCGAGTC
TTTCTTTAACCATCGTTGTACCCTCATTGTTATTCACCCAGGTAAACCACTCATTGTCTGTCTTC
AACTCCACCATTGAGAGCTCATCGACGATCTCACAGAAATCCTCCATAAGGGCATTTGGTTTTCT
CCTGCCACCTTCTTCGAGGCTCCCGCACATCCAAGCACCAAGGTTTCTGATGGTGTTCGAGGCTC
CTGCAAATATGAGCTATAAAGGTACCGATGTTGCTCGAGGCTATCTGAGCCACCAAGGTT
Found at i:39268104 original size:43 final size:42
Alignment explanation
Indices: 39267955--39268288 Score: 262
Period size: 43 Copynumber: 7.9 Consensus size: 42
39267945 CTATCTGAGC
39267955 CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
1 CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
* * * * * * *
39267997 CGCCAAGGCTGCTGATGGT-ATCTAAAGCTCCCGCACATCAAAG
1 CACCAAGG-TGCCGATGGTGCTC-GAGGCTCCAGCACATCCAAG
* * * * * *
39268040 CACCAAGGTCCCTATGCTGCTCGAGACTCCAGCACATTCGAG
1 CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
* * *
39268082 CCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCAAATCCAAG
1 -CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
* * *
39268125 CACCAAAGTTGCCAATGGTG-TCTAAGGCT-CACGCACATCCAAG
1 CACC-AAGGTGCCGATGGTGCTC-GAGGCTCCA-GCACATCCAAG
* * * **
39268168 CACCAAGGTGCCGGTGCTGCTCGAGGCTCC-TCACATCTGAG
1 CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
* * * * ** *
39268209 CTACCAAGGTGTCGATGCTGCTTGAAGAACCCGCACATCCAAG
1 C-ACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
* ** *
39268252 CACCAAGGTGCTGATTTTGCTCGAGGCTCCCGCACAT
1 CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACAT
39268289 TCGAGCCATC
Statistics
Matches: 221, Mismatches: 60, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
41 9 0.04
42 102 0.46
43 110 0.50
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.19
Consensus pattern (42 bp):
CACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAG
Found at i:39268110 original size:128 final size:126
Alignment explanation
Indices: 39267947--39268266 Score: 399
Period size: 128 Copynumber: 2.5 Consensus size: 126
39267937 GCTCGAGGCT
* * *
39267947 ATCTGAGCCACCAAGGTGCCGATGGTGCTCGAGGCTCCAGCACATCCAAGCGCCAAGGCTGCTGA
1 ATCTGAGCCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCTGA
* *
39268012 TGGTATCTAAAGCTCCCGCACATCAAAGCACCAAGGTCCCTATGCTGCTCGAGACTCCAGCAC
65 TGGTATCTAAAGCTCACGCACATCAAAGCACCAAGGTCCCGATGCTGCTCGAGACTCC-GCAC
* * **
39268075 AT-TCGAGCCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCAAATCCAAGCACCAAAGTTGCCA
1 ATCT-GAGCCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACATCCAAGCACC-AAGGTGCTG
* * * * * * *
39268139 ATGGTGTCTAAGGCTCACGCACATCCAAGCACCAAGGTGCCGGTGCTGCTCGAGGCTCCTCAC
64 ATGGTATCTAAAGCTCACGCACATCAAAGCACCAAGGTCCCGATGCTGCTCGAGACTCCGCAC
* * * * **
39268202 ATCTGAGCTACCAAGGTGTCGATGCTGCTTGAAGAACCCGCACATCCAAGCACCAAGGTGCTGAT
1 ATCTGAGCCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCTGAT
39268267 TTTGCTCGAG
Statistics
Matches: 163, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
126 8 0.05
127 49 0.30
128 103 0.63
129 3 0.02
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.18
Consensus pattern (126 bp):
ATCTGAGCCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCTGAT
GGTATCTAAAGCTCACGCACATCAAAGCACCAAGGTCCCGATGCTGCTCGAGACTCCGCAC
Found at i:39269157 original size:50 final size:54
Alignment explanation
Indices: 39269046--39269185 Score: 166
Period size: 56 Copynumber: 2.6 Consensus size: 54
39269036 ATTTAGGTAA
* * *
39269046 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAAACTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CG-AACGATG
*
39269102 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CG-A-GATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAACGATG
*
39269152 AGAGGTCCTC-CGTAAGACCATGTCT-GGACATGGC
1 AGAGGTCC-CATGTAAGACCATGTCTGGGACATGGC
39269186 CCATGTAAGA
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
49 9 0.12
50 25 0.32
51 2 0.03
53 1 0.01
55 1 0.01
56 40 0.51
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (54 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAACGATG
Found at i:39269245 original size:49 final size:49
Alignment explanation
Indices: 39269188--39269352 Score: 165
Period size: 49 Copynumber: 3.3 Consensus size: 49
39269178 GACATGGCCC
* *
39269188 ATGTAAGACCATATTTGAGATATGACATTGGTAGTACAAAAAACATCCT
1 ATGTAAGACCATATCTGAGATATGACATTGGAAGTACAAAAAACATCCT
* * * * * * * *
39269237 ATGTAAGACCATGTCT-AGGACATGGCATGGGCACCG-ACATGAGAAC-TCCC
1 ATGTAAGACCATATCTGA-GATATGACATTGG-A-AGTACA-AAAAACATCCT
*
39269287 ATGTGAGACCATATCTGAGATATGACATTGGAAGTACAAAAAACATCCT
1 ATGTAAGACCATATCTGAGATATGACATTGGAAGTACAAAAAACATCCT
*
39269336 ATGTAAGACCATGTCTG
1 ATGTAAGACCATATCTG
39269353 GGACATGGCT
Statistics
Matches: 88, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
48 6 0.07
49 46 0.52
50 30 0.34
51 6 0.07
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (49 bp):
ATGTAAGACCATATCTGAGATATGACATTGGAAGTACAAAAAACATCCT
Found at i:39276370 original size:49 final size:50
Alignment explanation
Indices: 39276251--39276436 Score: 194
Period size: 49 Copynumber: 3.6 Consensus size: 50
39276241 GAGATCTCAT
* * *
39276251 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATGGGAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCCAA
* * *
39276307 GTAAGACAATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCC-C
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCAA
* * * **
39276356 GTAAGACCATGTCTGGGACATAGCATGGGCACCGATATGAGAACTCCCAA
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCAA
* *
39276406 GTAAGACCATATCTGGGATATGGCATTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
39276437 GTACAAGAAA
Statistics
Matches: 112, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
49 41 0.37
50 38 0.34
53 3 0.03
55 1 0.01
56 29 0.26
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCAA
Found at i:39281219 original size:27 final size:27
Alignment explanation
Indices: 39281189--39281325 Score: 92
Period size: 27 Copynumber: 5.2 Consensus size: 27
39281179 TCAAAGACTA
39281189 CCTTTAGAATATTTAACCTCACAGCTG
1 CCTTTAGAATATTTAACCTCACAGCTG
* * * *
39281216 CCTTT---ATACTCTGA-CTCAAAGACTA
1 CCTTTAGAATA-TTTAACCTCACAG-CTG
*
39281241 CCTTTAGAATATTTAACCTCCCAGCTG
1 CCTTTAGAATATTTAACCTCACAGCTG
* * * *
39281268 CCTTT---ATACTCTGA-CTCAAAGACTA
1 CCTTTAGAATA-TTTAACCTCACAG-CTG
*
39281293 CCTTTAGAATATTTAACCTCCCAGCTG
1 CCTTTAGAATATTTAACCTCACAGCTG
39281320 CCTTTA
1 CCTTTA
39281326 TACTCTCTTT
Statistics
Matches: 79, Mismatches: 19, Indels: 24
0.65 0.16 0.20
Matches are distributed among these distances:
24 17 0.22
25 20 0.25
27 26 0.33
28 16 0.20
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (27 bp):
CCTTTAGAATATTTAACCTCACAGCTG
Found at i:39281229 original size:52 final size:52
Alignment explanation
Indices: 39281173--39281331 Score: 309
Period size: 52 Copynumber: 3.1 Consensus size: 52
39281163 GATAGCGCAG
*
39281173 TCTGACTCAAAGACTACCTTTAGAATATTTAACCTCACAGCTGCCTTTATAC
1 TCTGACTCAAAGACTACCTTTAGAATATTTAACCTCCCAGCTGCCTTTATAC
39281225 TCTGACTCAAAGACTACCTTTAGAATATTTAACCTCCCAGCTGCCTTTATAC
1 TCTGACTCAAAGACTACCTTTAGAATATTTAACCTCCCAGCTGCCTTTATAC
39281277 TCTGACTCAAAGACTACCTTTAGAATATTTAACCTCCCAGCTGCCTTTATAC
1 TCTGACTCAAAGACTACCTTTAGAATATTTAACCTCCCAGCTGCCTTTATAC
39281329 TCT
1 TCT
39281332 CTTTGTAACA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 106 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (52 bp):
TCTGACTCAAAGACTACCTTTAGAATATTTAACCTCCCAGCTGCCTTTATAC
Found at i:39282709 original size:50 final size:50
Alignment explanation
Indices: 39282537--39282734 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 50
39282527 ATTTGGGTAA
* * *
39282537 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGATATTATA
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA-C--CG--A-TATG
* * *
39282593 AGAGGTCTCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGATATG
** *
39282643 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGATATG
** * * * *
39282693 AGAATTCCCATATAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA
39282735 GTACAGAAAA
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 79 0.65
51 1 0.01
53 1 0.01
55 1 0.01
56 39 0.32
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGATATG
Found at i:39282999 original size:12 final size:12
Alignment explanation
Indices: 39282982--39283020 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
39282972 ATGAATTATT
39282982 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
39282994 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
39283006 TAAGTGAGTAAG
1 TAAGTAAGCAAG
39283018 TAA
1 TAA
39283021 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:39285587 original size:10 final size:9
Alignment explanation
Indices: 39285572--39285718 Score: 52
Period size: 10 Copynumber: 15.3 Consensus size: 9
39285562 GAAGAAGAGG
39285572 GAAAGAAGAA
1 GAAAGAA-AA
39285582 GAAAGAAAA
1 GAAAGAAAA
*
39285591 GGAAAAAAAAA
1 -G-AAAGAAAA
* *
39285602 GGAAAGGAGAG
1 -GAAA-GAAAA
39285613 GAAAG-AAA
1 GAAAGAAAA
39285621 GAAA-AAGAA
1 GAAAGAA-AA
39285630 GGAAAGAAAA
1 -GAAAGAAAA
*
39285640 GGAAAGGAGAA
1 -GAAA-GAAAA
*
39285651 GAAGGAAAA
1 GAAAGAAAA
*
39285660 AAAAGAAAA
1 GAAAGAAAA
*
39285669 -ATAAGGAAA
1 GA-AAGAAAA
*
39285678 TAAGAGAAAA
1 GAA-AGAAAA
*
39285688 GGAGAAGAGAA
1 -GA-AAGAAAA
39285699 -AAA-AAAA
1 GAAAGAAAA
39285706 GAAAGAAGAA
1 GAAAGAA-AA
39285716 GAA
1 GAA
39285719 GAGGGAATGA
Statistics
Matches: 105, Mismatches: 16, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
7 3 0.03
8 12 0.11
9 26 0.25
10 40 0.38
11 23 0.22
12 1 0.01
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (9 bp):
GAAAGAAAA
Found at i:39285640 original size:38 final size:35
Alignment explanation
Indices: 39285575--39285718 Score: 122
Period size: 38 Copynumber: 4.2 Consensus size: 35
39285565 GAAGAGGGAA
*
39285575 AGAAG-AAGAAAGAAAAGGAAAAAAAAAGGAAAGG
1 AGAAGAAAGAAAGAAAAAGAAAAAAAAAGGAAAGG
*
39285609 AGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
1 AGAAGAAAGAAAGAAAAAGAA--AAA-AAAAGGAAAGG
* * **
39285647 AGAAGAAGGAAA-AAAAAG-AAAAATAAGGAAATA
1 AGAAGAAAGAAAGAAAAAGAAAAAAAAAGGAAAGG
* * *
39285680 AG-AG-AA-AAGGAGAAGAGAAAAAAAAA-GAAAGA
1 AGAAGAAAGAAAGA-AAAAGAAAAAAAAAGGAAAGG
39285712 AGAAGAA
1 AGAAGAA
39285719 GAGGGAATGA
Statistics
Matches: 89, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
30 2 0.02
31 2 0.02
32 13 0.15
33 19 0.21
34 8 0.09
35 14 0.16
36 1 0.01
37 9 0.10
38 21 0.24
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.01
Consensus pattern (35 bp):
AGAAGAAAGAAAGAAAAAGAAAAAAAAAGGAAAGG
Found at i:39285644 original size:24 final size:24
Alignment explanation
Indices: 39285572--39285664 Score: 91
Period size: 24 Copynumber: 3.8 Consensus size: 24
39285562 GAAGAAGAGG
39285572 GAAAGAAGAA-GAAAGAAAAGGAAA
1 GAAA-AAGAAGGAAAGAAAAGGAAA
* * *
39285596 AAAAAAGGAAAGGAGAGGAAA-GAAA
1 GAAAAA-G-AAGGAAAGAAAAGGAAA
39285621 GAAAAAGAAGGAAAGAAAAGGAAA
1 GAAAAAGAAGGAAAGAAAAGGAAA
* * *
39285645 GGAGAAGAAGGAAAAAAAAG
1 GAAAAAGAAGGAAAGAAAAG
39285665 AAAAATAAGG
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
23 12 0.21
24 26 0.46
25 11 0.20
26 7 0.12
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (24 bp):
GAAAAAGAAGGAAAGAAAAGGAAA
Found at i:39285665 original size:43 final size:43
Alignment explanation
Indices: 39285564--39285716 Score: 149
Period size: 43 Copynumber: 3.6 Consensus size: 43
39285554 GGGGGAGTGA
*
39285564 AGAAGAGGGAAAGAAGAAGAAAGAA-AAGGAAAAAAAAAGGAAA-G
1 AGAAGA-GGAAA-AAAAAGAAAGAAGAAGG-AAAAAAAAGGAAAGG
* *
39285608 -G-AGAGG-AAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGG
1 AGAAGAGGAAAAAAAAGAAAGAAGAAGGAAAAAAAAGGAAAGG
* * * *
39285647 AGAAGAAGGAAAAAAAAGAAA-AATAAGGAAATAAGAGAAAAGG
1 AGAAG-AGGAAAAAAAAGAAAGAAGAAGGAAAAAAAAGGAAAGG
*
39285690 AGAAGAGAAAAAAAAAGAAAGAAGAAG
1 AGAAGAGGAAAAAAAAGAAAGAAGAAG
39285717 AAGAGGGAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 15
0.79 0.09 0.13
Matches are distributed among these distances:
38 14 0.15
39 12 0.13
40 3 0.03
41 4 0.04
42 20 0.22
43 39 0.42
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (43 bp):
AGAAGAGGAAAAAAAAGAAAGAAGAAGGAAAAAAAAGGAAAGG
Found at i:39286588 original size:157 final size:158
Alignment explanation
Indices: 39286081--39286632 Score: 506
Period size: 157 Copynumber: 3.5 Consensus size: 158
39286071 TATTTAATAA
* ** * **
39286081 ATTTCAAACATAATGCACTGAAAT-ATGCAAAATTATAAAATTAAAAATTACGATA-TTTT-TT-
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAAAAA-TAATATATTTTTATTG
* * * *
39286142 AAAATTATAAAATGCAGATAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAACTTT
65 AAAATAATAAAATGCGGAAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTACTAACTTT
* *
39286207 CTTAAAAATTCAGAAACAATTAATACAAAT
130 TTTAAAAATTCAGATA-AATTAATACAAAT
* *
39286237 ATTTCAAAGAAAATGCACTGAAATACTATAAAATAATAAAATATAAAAATAATATATTTTTATTG
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAAT-TAAAAATAATATATTTTTATTG
* * ** * * * * * *
39286302 AAAGTAATAAAAATTG-GG-AAAATAATACGAGTAAAGGGCAG-GGATAAGGGTTTTTTTCTTAC
65 AAAATAAT-AAAA-TGCGGAAAAAAAATACGAACAAATGGCAGAAG-TAAGAGTGTATTAC-TA-
* * *
39286364 ACCAAATTAATTTAAAAA-ACACACTAAATTAAT---AA-
125 A-C---TT-TTTTAAAAATTCAGA-TAAATTAATACAAAT
** * * *
39286399 ATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATA-ATATTTT-TT-
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAAAAATAATATAT-TTTTATTG
* *
39286461 AAAATAATAAAATGCGGAAAAAAAATACGAACAAATAGCTGAAGTAAGAGTGTATTACTAACTTT
65 AAAATAATAAAATGCGGAAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTACTAACTTT
*
39286526 TTTAAAAATTTAGATATAATTAATACAAAT
130 TTTAAAAATTCAGATA-AATTAATACAAAT
*
39286556 ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAA-TACGAAAATAATATATTTTTATT
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTA--AAAATAATATATTTTTATT
39286620 GAAAATAATAAAA
64 GAAAATAATAAAA
39286633 ATCGAGAAAA
Statistics
Matches: 309, Mismatches: 56, Indels: 58
0.73 0.13 0.14
Matches are distributed among these distances:
152 10 0.03
153 11 0.04
156 27 0.09
157 57 0.18
158 30 0.10
159 41 0.13
160 50 0.16
161 21 0.07
162 39 0.13
163 3 0.01
166 12 0.04
167 8 0.03
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.31
Consensus pattern (158 bp):
ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAAAAATAATATATTTTTATTGA
AAATAATAAAATGCGGAAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTACTAACTTTT
TTAAAAATTCAGATAAATTAATACAAAT
Found at i:39286740 original size:160 final size:157
Alignment explanation
Indices: 39286249--39286757 Score: 513
Period size: 160 Copynumber: 3.2 Consensus size: 157
39286239 TTCAAAGAAA
* *
39286249 ATGCACTGAAATACTATAAAATAATAAAATATAAAAATAATATATTTTTATTGAAAGTAATAAAA
1 ATGCACTGAAATAATATAAAATAAT-AAA-ATAAAAATAATATATTTTTATTGAAAATAATAAAA
* * *
39286314 ATTGGGAAAATAATACGAGTAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAA
64 A-TCGGAAAATAATACGAGCAAAGGGTAGGGATAAGGG-TTTTTT-TTACACCAAATTAATTTAA
39286379 AAAACACACTAAATTAATAAATTTCAAACATT
126 AAAACACACTAAATTAATAAATTTCAAACATT
* * *
39286411 ATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATA-ATATTTT-TT-AAAATAAT-AAA
1 ATGCACTGAAATAATATAAAATAATAAAA-TAAAAATAATATAT-TTTTATTGAAAATAATAAAA
* * * * * * * * *
39286472 ATGCGGAAAAAAAATACGAACAAA---TAGCTGAAGTAAGAG--TGTATT--ACTAACTT-TTTT
64 AT-CGG-AAAATAATACGAGCAAAGGGTAG--GGA-TAAGGGTTTTTTTTACACCAAATTAATTT
** * **
39286529 AAAAATTTAGA-TATAATTAATACAAATATTTCAAACAAA
124 AAAAA-ACACACTA-AATTAAT---AA-ATTTCAAACATT
*
39286568 ATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAATAATAAAA
1 ATGCACTGAAATAATATAAAATAATAAAATA--AAAATAATATATTTTTATTGAAAATAATAAAA
39286633 ATCGAGAAAATAATACGAGCAAAGGGTAGGGATAAGGGTTTTTTTTACACCAAATTAATTTAAAA
64 ATCG-GAAAATAATACGAGCAAAGGGTAGGGATAAGGGTTTTTTTTACACCAAATTAATTTAAAA
39286698 AACACACTAAATTAATAAATTTCAAACATT
128 AACACACTAAATTAATAAATTTCAAACATT
* *
39286728 ATGCACTGAAATAATGTAAAATTATAAAAT
1 ATGCACTGAAATAATATAAAATAATAAAAT
39286758 TAGAAATTAA
Statistics
Matches: 275, Mismatches: 43, Indels: 60
0.73 0.11 0.16
Matches are distributed among these distances:
152 10 0.04
153 15 0.05
155 2 0.01
156 8 0.03
157 37 0.13
158 20 0.07
159 30 0.11
160 72 0.26
161 27 0.10
162 26 0.09
163 3 0.01
164 15 0.05
165 10 0.04
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (157 bp):
ATGCACTGAAATAATATAAAATAATAAAATAAAAATAATATATTTTTATTGAAAATAATAAAAAT
CGGAAAATAATACGAGCAAAGGGTAGGGATAAGGGTTTTTTTTACACCAAATTAATTTAAAAAAC
ACACTAAATTAATAAATTTCAAACATT
Found at i:39286802 original size:319 final size:319
Alignment explanation
Indices: 39286074--39286846 Score: 1193
Period size: 319 Copynumber: 2.4 Consensus size: 319
39286064 AATTGTATAT
* * *
39286074 TTAATAAATTTCAAACATAATGCACTGAAAT-ATGCAAAATTATAAAATTAAAAATTACGATATT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTAAGATATT
* *
39286138 TTTTAAAATTATAAAATGC-AGATAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
66 TTTTAAAATAATAAAATGCGAGAAAAAAAATACGAACAAAT-GCCGAAGTAAGAGTGTATTACTA
* * *
39286202 ACTTTCTTAAAAATTCAGAAACAATTAATACAAATATTTCAAAGAAAATGCACTGAAATACTATA
130 ACTTTTTTAAAAATTCAGAAACAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
* * * *
39286267 AAATAATAAAATATAAAAATAATATATTTTTATTGAAAGTAATAAAAATTGGGAAAATAATACGA
195 AAATAATAAAATACAAAAATAATATATTTTTATTGAAAATAATAAAAATCGAGAAAATAATACGA
*
39286332 GTAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
260 GCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
39286392 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATA-ATAT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTA-AGATAT
*
39286456 TTTTTAAAATAATAAAATGCG-GAAAAAAAATACGAACAAATAGCTGAAGTAAGAGTGTATTACT
65 TTTTTAAAATAATAAAATGCGAGAAAAAAAATACGAACAAAT-GCCGAAGTAAGAGTGTATTACT
* * * *
39286520 AACTTTTTTAAAAATTTAGATATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATAT
129 AACTTTTTTAAAAATTCAGAAACAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATAT
*
39286585 AAAATAATAAAATACGAAAATAATATATTTTTATTGAAAATAATAAAAATCGAGAAAATAATACG
194 AAAATAATAAAATACAAAAATAATATATTTTTATTGAAAATAATAAAAATCGAGAAAATAATACG
*
39286650 AGCAAAGGGTAGGGATAAGGG-TTTTTT-TTACACCAAATTAATTTAAAAAACACACTAAA
259 AGCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
* *
39286709 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTAAGATACT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTAAGATATT
* * * * *
39286774 TTTTAAAGTAATTAAATGCG-GAGAAAAAAATACGAAGAAATGACCGAGGTAACAGTGT-TTGAC
66 TTTTAAAATAATAAAATGCGAGA-AAAAAAATACGAACAAATG-CCGAAGTAAGAGTGTATT-AC
39286837 TAACTTTTTT
128 TAACTTTTTT
39286847 TTCAACATGC
Statistics
Matches: 419, Mismatches: 29, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
316 1 0.00
317 116 0.28
318 77 0.18
319 225 0.54
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.31
Consensus pattern (319 bp):
TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTAAGATATT
TTTTAAAATAATAAAATGCGAGAAAAAAAATACGAACAAATGCCGAAGTAAGAGTGTATTACTAA
CTTTTTTAAAAATTCAGAAACAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATAA
AATAATAAAATACAAAAATAATATATTTTTATTGAAAATAATAAAAATCGAGAAAATAATACGAG
CAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
Found at i:39288977 original size:11 final size:11
Alignment explanation
Indices: 39288961--39288987 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
39288951 TTTATAACAT
39288961 AATTTGGATAC
1 AATTTGGATAC
39288972 AATTTGGATAC
1 AATTTGGATAC
39288983 AATTT
1 AATTT
39288988 AAACATAAGC
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:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:39291281 original size:18 final size:18
Alignment explanation
Indices: 39291241--39291281 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
39291231 CAATGATCGG
* *
39291241 CACCACCTTCTTTTTCGC
1 CACCACCTTCTTCTTCAC
*
39291259 TACCACCTTCTTCTTCAC
1 CACCACCTTCTTCTTCAC
39291277 CACCA
1 CACCA
39291282 ACCATATCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.46, G:0.02, T:0.34
Consensus pattern (18 bp):
CACCACCTTCTTCTTCAC
Found at i:39292393 original size:27 final size:27
Alignment explanation
Indices: 39292353--39292417 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
39292343 CTTTTTTTTC
*
39292353 TGCCGCCAACCAG-TATGGCACCATCGA
1 TGCCGCCAATCAGTTA-GGCACCATCGA
* * *
39292380 TGCCGCCAATCAGTTAGGCACCTTTGG
1 TGCCGCCAATCAGTTAGGCACCATCGA
39292407 TGCCGCCAATC
1 TGCCGCCAATC
39292418 TAAAACCCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.22, C:0.35, G:0.23, T:0.20
Consensus pattern (27 bp):
TGCCGCCAATCAGTTAGGCACCATCGA
Found at i:39293868 original size:20 final size:20
Alignment explanation
Indices: 39293843--39293887 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
39293833 AATGTGTCTT
39293843 GTCTTAA-TCGAATTAATTGG
1 GTCTTAACT-GAATTAATTGG
* *
39293863 GTCTTAACTTAATTAATTGT
1 GTCTTAACTGAATTAATTGG
39293883 GTCTT
1 GTCTT
39293888 GTTCTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.47
Consensus pattern (20 bp):
GTCTTAACTGAATTAATTGG
Found at i:39299119 original size:27 final size:26
Alignment explanation
Indices: 39299089--39299214 Score: 135
Period size: 27 Copynumber: 4.7 Consensus size: 26
39299079 AAATTGTACA
39299089 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
39299116 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
39299143 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
* *
39299170 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
39299198 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
39299215 TGATTGTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 59 0.70
28 23 0.27
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:39299153 original size:54 final size:54
Alignment explanation
Indices: 39299088--39299214 Score: 152
Period size: 54 Copynumber: 2.3 Consensus size: 54
39299078 TAAATTGTAC
* **
39299088 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAAT-GAA-TATG-
1 AGCACTAAGTGTGCGATT-GACCATGCGGCACTAAGTGTGCG-AATCGAACTATGT
* *
39299141 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
39299197 AGCACTAAGTGTGCGATT
1 AGCACTAAGTGTGCGATT
39299215 TGATTGTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
53 3 0.05
54 39 0.61
55 21 0.33
56 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
Found at i:39315277 original size:26 final size:28
Alignment explanation
Indices: 39315244--39315302 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
39315234 GGACTTATCT
39315244 TTTA-TTCTTGCTG-TTCAATTT-TTTC
1 TTTATTTCTTGCTGTTTCAATTTATTTC
**
39315269 TTTATTTCTTGCTGTTTCGTTTTATTTC
1 TTTATTTCTTGCTGTTTCAATTTATTTC
39315297 TTTATT
1 TTTATT
39315303 CCTACTTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 4 0.14
26 9 0.31
27 6 0.21
28 10 0.34
ACGTcount: A:0.10, C:0.14, G:0.08, T:0.68
Consensus pattern (28 bp):
TTTATTTCTTGCTGTTTCAATTTATTTC
Found at i:39324132 original size:23 final size:22
Alignment explanation
Indices: 39324080--39324132 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
39324070 TCCACGTATT
*
39324080 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
39324102 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
39324125 TTTCTTTT
1 TTTCTTTT
39324133 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:39331723 original size:29 final size:29
Alignment explanation
Indices: 39331690--39331753 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
39331680 TAATAATTAG
*
39331690 ATATGTCCTAA-TTAGTTTAAGTGTTTTAA
1 ATATGTCCTAATTTA-TTCAAGTGTTTTAA
39331719 ATATGTCCTAATTTATTCAAGTGTTTTAA
1 ATATGTCCTAATTTATTCAAGTGTTTTAA
39331748 ATATGT
1 ATATGT
39331754 AACACCCCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 30 0.91
30 3 0.09
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.48
Consensus pattern (29 bp):
ATATGTCCTAATTTATTCAAGTGTTTTAA
Found at i:39333223 original size:39 final size:39
Alignment explanation
Indices: 39333106--39333367 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
39333096 GCTCCTCGTT
* * *
39333106 CAAATGCCTCCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
39333146 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
39333186 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
39333225 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
39333264 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
39333303 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
39333344 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
39333368 CATCATTCAA
Statistics
Matches: 203, Mismatches: 12, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 60 0.30
41 11 0.05
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:39340594 original size:81 final size:81
Alignment explanation
Indices: 39340459--39340620 Score: 306
Period size: 81 Copynumber: 2.0 Consensus size: 81
39340449 TTTAGTTCAG
39340459 CCGAATATACATTTGCACTTAATTTAGTTCATGTTTTTTTCTTGTAGGATGGCTGAATGCATAAA
1 CCGAATATACATTTGCACTTAATTTAGTTCATGTTTTTTTCTTGTAGGATGGCTGAATGCATAAA
39340524 GGGCTGAATACATGAA
66 GGGCTGAATACATGAA
* *
39340540 CCGAATATACATTTGCACTTAATTTAGTTCATTTTTTTTTCTTGTAGGATGGCTGAATGCATGAA
1 CCGAATATACATTTGCACTTAATTTAGTTCATGTTTTTTTCTTGTAGGATGGCTGAATGCATAAA
39340605 GGGCTGAATACATGAA
66 GGGCTGAATACATGAA
39340621 TGGTTGGATA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (81 bp):
CCGAATATACATTTGCACTTAATTTAGTTCATGTTTTTTTCTTGTAGGATGGCTGAATGCATAAA
GGGCTGAATACATGAA
Found at i:39340611 original size:16 final size:16
Alignment explanation
Indices: 39340590--39340620 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39340580 CTTGTAGGAT
*
39340590 GGCTGAATGCATGAAG
1 GGCTGAATACATGAAG
39340606 GGCTGAATACATGAA
1 GGCTGAATACATGAA
39340621 TGGTTGGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.19
Consensus pattern (16 bp):
GGCTGAATACATGAAG
Found at i:39341900 original size:11 final size:11
Alignment explanation
Indices: 39341884--39341926 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
39341874 AGGAAATTTG
*
39341884 AAAAAAAAATC
1 AAAAAAAATTC
39341895 AAAAAAAATTC
1 AAAAAAAATTC
39341906 AAAAAAAATTC
1 AAAAAAAATTC
39341917 AAAAAAAATT
1 AAAAAAAATT
39341927 GAAGTATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:39342931 original size:24 final size:21
Alignment explanation
Indices: 39342880--39342933 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
39342870 GAGAGACGAA
* *
39342880 AAAAAGAAATGAAAGAAAAGG
1 AAAAAGAAATCAAAAAAAAGG
*
39342901 AACAAGAAATCAAAAAAGTAAGAG
1 AAAAAGAAATCAAAAAA--AAG-G
39342925 AAAAAGAAA
1 AAAAAGAAA
39342934 ATGAAGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 14 0.54
23 3 0.12
24 9 0.35
ACGTcount: A:0.72, C:0.04, G:0.19, T:0.06
Consensus pattern (21 bp):
AAAAAGAAATCAAAAAAAAGG
Found at i:39343032 original size:21 final size:23
Alignment explanation
Indices: 39342986--39343034 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
39342976 AGTGCAAGCG
*
39342986 AGAAAGAGAATTGAAAGAAAAGA
1 AGAAAGAGAATTGAAAGAAAAAA
39343009 AGAAA-AG-ATTGAAA-AAGAAAA
1 AGAAAGAGAATTGAAAGAA-AAAA
39343030 AGAAA
1 AGAAA
39343035 TCCAAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.08
21 15 0.62
22 2 0.08
23 5 0.21
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.08
Consensus pattern (23 bp):
AGAAAGAGAATTGAAAGAAAAAA
Found at i:39347780 original size:111 final size:112
Alignment explanation
Indices: 39347658--39347888 Score: 430
Period size: 112 Copynumber: 2.1 Consensus size: 112
39347648 CTAATTAGAA
39347658 AACTTAAAAAATTTAAACTTAATT-AAAAAAACAAAGGAAAATTCGGCCATGCATCTTATTGGGC
1 AACTTAAAAAATTTAAACTTAATTAAAAAAAACAAAGGAAAATTCGGCCATGCATCTTATTGGGC
*
39347722 TGTTTTGGGTCGAATTTA-ACATGTGATATTCCTAAAACTTAAAAATT
66 TGTTTTGGGCCGAA-TTACACATGTGATATTCCTAAAACTTAAAAATT
39347769 AACTTAAAAAATTTAAACTTAATTAAAAAAAACAAAGGAAAATTCGGCCATGCATCTTATTGGGC
1 AACTTAAAAAATTTAAACTTAATTAAAAAAAACAAAGGAAAATTCGGCCATGCATCTTATTGGGC
39347834 TGTTTTGGGCCGAATTACACATGTGATATTCCTAAAACTTAAAAATT
66 TGTTTTGGGCCGAATTACACATGTGATATTCCTAAAACTTAAAAATT
39347881 AACTTAAA
1 AACTTAAA
39347889 CAACTAAAAT
Statistics
Matches: 117, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
111 27 0.23
112 90 0.77
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (112 bp):
AACTTAAAAAATTTAAACTTAATTAAAAAAAACAAAGGAAAATTCGGCCATGCATCTTATTGGGC
TGTTTTGGGCCGAATTACACATGTGATATTCCTAAAACTTAAAAATT
Found at i:39353111 original size:9 final size:9
Alignment explanation
Indices: 39353097--39353131 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
39353087 AGAAGTGAGC
39353097 AAAAAAAGA
1 AAAAAAAGA
*
39353106 AAAAAAAGT
1 AAAAAAAGA
39353115 AAAAAAAGA
1 AAAAAAAGA
39353124 ACAAAAAA
1 A-AAAAAA
39353132 AAGTGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:39353140 original size:22 final size:20
Alignment explanation
Indices: 39353074--39353140 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 20
39353064 ATCTAAATTC
*
39353074 AAAAAAAAAAAAAAGAAGTG
1 AAAAAAAAAAAAAAAAAGTG
*
39353094 AGCAAAAAAAGAAAAAAAAGT-
1 A--AAAAAAAAAAAAAAAAGTG
39353115 AAAAAAAGAACAAAAAAAAGTG
1 AAAAAAA-AA-AAAAAAAAGTG
39353137 AAAA
1 AAAA
39353141 GTCTTGTGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 11 0.28
22 20 0.51
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAAAGTG
Found at i:39364001 original size:6 final size:6
Alignment explanation
Indices: 39363990--39364015 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
39363980 ATAAATAAAT
39363990 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
39364016 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:39365796 original size:9 final size:9
Alignment explanation
Indices: 39365778--39365812 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
39365768 ATTCCCGCAA
39365778 AAAAATAGTC
1 AAAAA-AGTC
39365788 AAAAAAGTC
1 AAAAAAGTC
*
39365797 AAAAAAATC
1 AAAAAAGTC
39365806 AAAAAAG
1 AAAAAAG
39365813 ACGAAATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.11
Consensus pattern (9 bp):
AAAAAAGTC
Found at i:39373798 original size:9 final size:9
Alignment explanation
Indices: 39373784--39373817 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
39373774 AAAAACATCC
39373784 GTCAAAAAA
1 GTCAAAAAA
39373793 GTCAAAAAA
1 GTCAAAAAA
*
39373802 ATCAAAAAA
1 GTCAAAAAA
*
39373811 GACAAAA
1 GTCAAAA
39373818 TTCAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.71, C:0.12, G:0.09, T:0.09
Consensus pattern (9 bp):
GTCAAAAAA
Found at i:39382706 original size:40 final size:40
Alignment explanation
Indices: 39382661--39383205 Score: 912
Period size: 40 Copynumber: 13.6 Consensus size: 40
39382651 CAAGTTCAAT
* * * * *
39382661 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39382701 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
39382741 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
39382781 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
39382821 TGCCTTCGGGTCTTATCCCGGATATATCAATCCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
39382861 TGCCTTCGGGTCTTATCCCGGATATATCAATCCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
39382901 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39382941 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39382981 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39383021 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
39383061 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
39383101 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
39383141 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
**
39383181 TGCCTTCGGGTCTTAATCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
39383206 CATTCAAATG
Statistics
Matches: 480, Mismatches: 23, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 477 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:39386312 original size:10 final size:11
Alignment explanation
Indices: 39386294--39386327 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
39386284 AATGGAAACT
*
39386294 AATTTTTTTTG
1 AATTTTTTTCG
39386305 AATTTTTTTCG
1 AATTTTTTTCG
*
39386316 AGTTTTTTTCG
1 AATTTTTTTCG
39386327 A
1 A
39386328 GAAACTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.65
Consensus pattern (11 bp):
AATTTTTTTCG
Found at i:39401863 original size:19 final size:19
Alignment explanation
Indices: 39401836--39401874 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
39401826 TGATTTAAGT
39401836 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
* *
39401855 AACTTAATTAACTACGATG
1 AACTAAATTAACTAAGATG
39401874 A
1 A
39401875 GTAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:39401901 original size:35 final size:35
Alignment explanation
Indices: 39401855--39401928 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
39401845 AACTAAGATG
*
39401855 AACTTAATTAACTACGATGAGTAATTTATTCAAGC
1 AACTTAATTAACTAAGATGAGTAATTTATTCAAGC
*
39401890 AACTTAATTAACTAAGATGAGTAATTTATTCCAGC
1 AACTTAATTAACTAAGATGAGTAATTTATTCAAGC
39401925 AACT
1 AACT
39401929 AAATACTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (35 bp):
AACTTAATTAACTAAGATGAGTAATTTATTCAAGC
Found at i:39401983 original size:21 final size:21
Alignment explanation
Indices: 39401959--39402021 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 21
39401949 TAAAAACGGG
39401959 TTGAAGTTAAGCTAAATGAGC
1 TTGAAGTTAAGCTAAATGAGC
* * *
39401980 TTGAGGTTAA-CTAGACGAGC
1 TTGAAGTTAAGCTAAATGAGC
39402000 TTGAAG--AAGCTAGAATTGAGC
1 TTGAAGTTAAGCTA-AA-TGAGC
39402021 T
1 T
39402022 CACTGAGCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 14 0.42
21 14 0.42
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (21 bp):
TTGAAGTTAAGCTAAATGAGC
Found at i:39402426 original size:25 final size:24
Alignment explanation
Indices: 39402398--39402460 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
39402388 GTTATATGGT
* *
39402398 TCTTGCGAGCTTCCTAATAATTGGC
1 TCTT-CGAGCTTCCCAATAACTGGC
*
39402423 TCTTCGGAGCTTCCCGATAACTGGC
1 TCTTC-GAGCTTCCCAATAACTGGC
*
39402448 TCTTATGAGCTTC
1 TCTT-CGAGCTTC
39402461 TTGATCAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (24 bp):
TCTTCGAGCTTCCCAATAACTGGC
Found at i:39405811 original size:37 final size:37
Alignment explanation
Indices: 39405767--39406001 Score: 175
Period size: 37 Copynumber: 6.3 Consensus size: 37
39405757 TATACATTTC
* * *
39405767 GTATAATCAGTAGATATCGCTCGTTTAAGCCCATTCA
1 GTATAATCAGTAGATATCGCTCTTTTGAGCACATTCA
* * * *
39405804 ATATAATCAGTGGATATCGCTCTTTTGAGAAACTTTCA
1 GTATAATCAGTAGATATCGCTCTTTTGAG-CACATTCA
* *** * *
39405842 GTATAATCAGTAGACATTTATCTTTTGAGCACGTTTA
1 GTATAATCAGTAGATATCGCTCTTTTGAGCACATTCA
* * ** * *
39405879 GTATATTTAGTAGATATTTCTCATTTGAGCCCATTCA
1 GTATAATCAGTAGATATCGCTCTTTTGAGCACATTCA
* * * *
39405916 GTATAATCA-TGGATATCACTCGTTTGAGCATCTTTCA
1 GTATAATCAGTAGATATCGCTCTTTTGAGCA-CATTCA
* * * * * *
39405953 ATATAATCAGTAGACATTGCTCTTTTAAGCACGTTTA
1 GTATAATCAGTAGATATCGCTCTTTTGAGCACATTCA
*
39405990 GTATATTCAGTA
1 GTATAATCAGTA
39406002 TTCGATTTTT
Statistics
Matches: 152, Mismatches: 43, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
36 16 0.11
37 93 0.61
38 43 0.28
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (37 bp):
GTATAATCAGTAGATATCGCTCTTTTGAGCACATTCA
Found at i:39405965 original size:111 final size:112
Alignment explanation
Indices: 39405767--39406001 Score: 328
Period size: 111 Copynumber: 2.1 Consensus size: 112
39405757 TATACATTTC
* * * *
39405767 GTATAATCAGTAGATATCGCTCGTTTAAGCCCATTCAATATAATCAGTGGATATCGCTCTTTTGA
1 GTATATTCAGTAGATATCGCTCATTTAAGCCCATTCAATATAATCAGTGGATATCACTCGTTTGA
* * *
39405832 GAAACTTTCAGTATAATCAGTAGACATTTATCTTTTGAGCACGTTTA
66 GAAACTTTCAATATAATCAGTAGACATTGATCTTTTAAGCACGTTTA
* ** * *
39405879 GTATATTTAGTAGATATTTCTCATTTGAGCCCATTCAGTATAATCA-TGGATATCACTCGTTTGA
1 GTATATTCAGTAGATATCGCTCATTTAAGCCCATTCAATATAATCAGTGGATATCACTCGTTTGA
* * *
39405943 GCATCTTTCAATATAATCAGTAGACATTGCTCTTTTAAGCACGTTTA
66 GAAACTTTCAATATAATCAGTAGACATTGATCTTTTAAGCACGTTTA
39405990 GTATATTCAGTA
1 GTATATTCAGTA
39406002 TTCGATTTTT
Statistics
Matches: 107, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
111 68 0.64
112 39 0.36
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (112 bp):
GTATATTCAGTAGATATCGCTCATTTAAGCCCATTCAATATAATCAGTGGATATCACTCGTTTGA
GAAACTTTCAATATAATCAGTAGACATTGATCTTTTAAGCACGTTTA
Found at i:39408450 original size:26 final size:26
Alignment explanation
Indices: 39408396--39408452 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
39408386 TATTTTCTTG
** *
39408396 AAATTTTACCAAGGGCAAAATGGTTA
1 AAATTTTACCAAGGGCAAAATCATCA
*
39408422 AAATTTTACCAAGGGTAAAATCATCA
1 AAATTTTACCAAGGGCAAAATCATCA
39408448 AAATT
1 AAATT
39408453 CTGTTAGGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (26 bp):
AAATTTTACCAAGGGCAAAATCATCA
Found at i:39415553 original size:42 final size:42
Alignment explanation
Indices: 39415501--39415583 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
39415491 ATTTGCAATG
* * *
39415501 TTATGCATTAATTTTAATTTGGCCTATTTGTATATATCAAAA
1 TTATACATTAACTTTAATTTGGCCTATTTATATATATCAAAA
***
39415543 TTATACATTAACTTTAATTTGTTTTATTTATATATATCAAA
1 TTATACATTAACTTTAATTTGGCCTATTTATATATATCAAA
39415584 CTTTAATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (42 bp):
TTATACATTAACTTTAATTTGGCCTATTTATATATATCAAAA
Found at i:39418360 original size:19 final size:18
Alignment explanation
Indices: 39418336--39418381 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
39418326 ATAACTTTTG
39418336 ATTTTTGATTCAAGTTAAT
1 ATTTTTGATTCAA-TTAAT
*
39418355 ATTTTT--TTCAATTGAT
1 ATTTTTGATTCAATTAAT
*
39418371 ATTATTGATTC
1 ATTTTTGATTC
39418382 TTGCAAGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 9 0.39
17 5 0.22
18 3 0.13
19 6 0.26
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (18 bp):
ATTTTTGATTCAATTAAT
Found at i:39420158 original size:30 final size:30
Alignment explanation
Indices: 39420124--39420199 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
39420114 GTTATTTCTG
*
39420124 GTGGTGGTGGTGGTGAAAGTTTTTCTCCTA
1 GTGGTGGCGGTGGTGAAAGTTTTTCTCCTA
* * *
39420154 GTGGTGGCGGTGGTGAATGTTTTTCTTCTT
1 GTGGTGGCGGTGGTGAAAGTTTTTCTCCTA
*
39420184 GTGGTGGCGATGGTGA
1 GTGGTGGCGGTGGTGA
39420200 CGTTTTAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.11, C:0.09, G:0.41, T:0.39
Consensus pattern (30 bp):
GTGGTGGCGGTGGTGAAAGTTTTTCTCCTA
Found at i:39430436 original size:33 final size:33
Alignment explanation
Indices: 39430388--39430463 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
39430378 CTGATACTGA
* *
39430388 GCATGACATCTTGCATTCACA-TATGTTACTATG
1 GCATGTCATCCTGCATTCA-AGTATGTTACTATG
39430421 GCATGTCATCCTGCATTCAAGTATGTTACTATG
1 GCATGTCATCCTGCATTCAAGTATGTTACTATG
39430454 GCATGTCATC
1 GCATGTCATC
39430464 TTGTATGGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
32 1 0.03
33 39 0.98
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (33 bp):
GCATGTCATCCTGCATTCAAGTATGTTACTATG
Found at i:39431923 original size:14 final size:14
Alignment explanation
Indices: 39431906--39431949 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
39431896 ATATTGTAAC
39431906 GGTCAGATTCCAAT
1 GGTCAGATTCCAAT
* **
39431920 GGTCATATTGTAAT
1 GGTCAGATTCCAAT
*
39431934 GGTTAGATTCCAAT
1 GGTCAGATTCCAAT
39431948 GG
1 GG
39431950 CCATATTGTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (14 bp):
GGTCAGATTCCAAT
Found at i:39431967 original size:28 final size:28
Alignment explanation
Indices: 39431894--39431989 Score: 113
Period size: 28 Copynumber: 3.5 Consensus size: 28
39431884 CATTCAACGA
*
39431894 CCATATTGTAACGGTCAGATTCCAATGG
1 CCATATTGTAACGGTTAGATTCCAATGG
* *
39431922 TCATATTGTAATGGTTAGATTCCAATGG
1 CCATATTGTAACGGTTAGATTCCAATGG
** * **
39431950 CCATATTGTAACAATTAGATACCAA-CA
1 CCATATTGTAACGGTTAGATTCCAATGG
39431977 CCATATTGTAACG
1 CCATATTGTAACG
39431990 ATCAAATTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 12 0.21
28 45 0.79
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (28 bp):
CCATATTGTAACGGTTAGATTCCAATGG
Found at i:39436939 original size:27 final size:27
Alignment explanation
Indices: 39436909--39437086 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39436899 ATATTGAGTC
* * * *
39436909 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
39436936 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39436963 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
39436991 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
39437018 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
39437045 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39437072 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39437087 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:39437048 original size:82 final size:81
Alignment explanation
Indices: 39436930--39437085 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39436920 TGCTATATAA
* *
39436930 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
39436995 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39437012 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
39437076 CACTTAGTGC
65 CACTTAGTGC
39437086 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39444081 original size:27 final size:27
Alignment explanation
Indices: 39444051--39444228 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39444041 ATATTGAGTC
* * * *
39444051 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
39444078 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39444105 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
39444133 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
39444160 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
39444187 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39444214 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39444229 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:39444190 original size:82 final size:81
Alignment explanation
Indices: 39444072--39444227 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39444062 TGCTATATAA
* *
39444072 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
39444137 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39444154 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
39444218 CACTTAGTGC
65 CACTTAGTGC
39444228 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39450322 original size:17 final size:18
Alignment explanation
Indices: 39450290--39450323 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39450280 AGAAAAGAAA
39450290 ATTGAAAAAGAAATTGAG
1 ATTGAAAAAGAAATTGAG
*
39450308 ATTGAGAAA-AAATTGA
1 ATTGAAAAAGAAATTGA
39450324 AAAAGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.24
Consensus pattern (18 bp):
ATTGAAAAAGAAATTGAG
Found at i:39450341 original size:29 final size:30
Alignment explanation
Indices: 39450287--39450350 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
39450277 TGAAGAAAAG
**
39450287 AAAATTGAAAAAGAAATTGAGATTG-AGAA
1 AAAATTGAAAAAGAAAAAGAGATTGAAGAA
39450316 AAAATTGAAAAAGAAAAAGATG-TTGAAGAA
1 AAAATTGAAAAAGAAAAAGA-GATTGAAGAA
*
39450346 GAAAT
1 AAAAT
39450351 GAGAGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.61, C:0.00, G:0.20, T:0.19
Consensus pattern (30 bp):
AAAATTGAAAAAGAAAAAGAGATTGAAGAA
Found at i:39456854 original size:15 final size:16
Alignment explanation
Indices: 39456829--39456859 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
39456819 CTTTCGGGTC
39456829 ATTACAATTTATTTAA
1 ATTACAATTTATTTAA
39456845 ATTA-AATTTATTTAA
1 ATTACAATTTATTTAA
39456860 TAATCCACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTACAATTTATTTAA
Found at i:39462476 original size:39 final size:40
Alignment explanation
Indices: 39462381--39462641 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
39462371 TTGAATGATG
*
39462381 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
39462419 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
39462460 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
39462499 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTGAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
39462538 TCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
39462576 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
39462615 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
39462642 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 13, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
38 34 0.17
39 95 0.48
40 58 0.29
41 11 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:39480709 original size:3 final size:3
Alignment explanation
Indices: 39480680--39480731 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
39480670 AAATAGATAT
* * * *
39480680 TTA TTG TTA TAA TTA TTAA TTA CTA TTA TTT TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
39480725 TTA TTA T
1 TTA TTA T
39480732 ATTTATGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:39480723 original size:17 final size:17
Alignment explanation
Indices: 39480691--39480734 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
39480681 TATTGTTATA
39480691 ATTATTA-ATTACTATT
1 ATTATTATATTACTATT
* *
39480707 ATTTTTATATTATTATT
1 ATTATTATATTACTATT
39480724 ATTATTATATT
1 ATTATTATATT
39480735 TATGGAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTATTATATTACTATT
Found at i:39485580 original size:50 final size:50
Alignment explanation
Indices: 39485475--39485716 Score: 337
Period size: 50 Copynumber: 4.8 Consensus size: 50
39485465 ATTTGGGTAA
* *
39485475 AGAGATCCCATGTAAGACCATGTCTGGGACAT-ACGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
39485524 AGAGGTCCCATGTAAGACCATGTCTGGGGA-ATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCT-GGGACATGGCGTTGGCACCGAGATG
* *
39485574 AGAGGTCCTATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
39485624 AGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * *
39485674 AGAACATCCCATGTAAGACCATGTCTCGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
39485717 TGTTATGATC
Statistics
Matches: 173, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
49 31 0.18
50 108 0.62
51 33 0.19
52 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:39515918 original size:39 final size:40
Alignment explanation
Indices: 39515818--39516002 Score: 186
Period size: 40 Copynumber: 4.7 Consensus size: 40
39515808 TTGAATGATG
*
39515818 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
39515857 ATCCGGACCAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
39515898 TCCGGGCTAAG-GCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
39515937 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
39515976 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
39516003 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
39 36 0.29
40 73 0.59
41 13 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:39516024 original size:79 final size:79
Alignment explanation
Indices: 39515871--39516035 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
39515861 GGACCAAGAT
* * ** *
39515871 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGGCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
39515936 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
39515950 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
39516012 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
39516029 CCGAAGG
1 CCGAAGG
39516036 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.63
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:39548078 original size:25 final size:25
Alignment explanation
Indices: 39548050--39548152 Score: 113
Period size: 25 Copynumber: 4.1 Consensus size: 25
39548040 CTCATGTAAA
* * *
39548050 CATACCGATTTATAGCTC-ATGAGAG
1 CATACCGATCTACAGCTCGA-GTGAG
*
39548075 CATACTGATCTACAGCTCGAGTGAG
1 CATACCGATCTACAGCTCGAGTGAG
*
39548100 CATATCGATCTACAGCTCGAGTGAG
1 CATACCGATCTACAGCTCGAGTGAG
39548125 CATACCGAT-TCACAGCTCGTA-TGAG
1 CATACCGATCT-ACAGCTCG-AGTGAG
39548150 CAT
1 CAT
39548153 CCATGTACAT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.01
25 65 0.96
26 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (25 bp):
CATACCGATCTACAGCTCGAGTGAG
Found at i:39549801 original size:16 final size:16
Alignment explanation
Indices: 39549759--39549801 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
39549749 ACTCGGATCT
* *
39549759 TTACTTTCTTCTTTAC
1 TTACTTACTTGTTTAC
*
39549775 TTACTCACTTGTTTAC
1 TTACTTACTTGTTTAC
*
39549791 TTACTTGCTTG
1 TTACTTACTTG
39549802 CTTAAATAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.07, T:0.56
Consensus pattern (16 bp):
TTACTTACTTGTTTAC
Found at i:39550136 original size:50 final size:50
Alignment explanation
Indices: 39550058--39550250 Score: 201
Period size: 50 Copynumber: 3.7 Consensus size: 50
39550048 TTTCCTGTAC
* * * *
39550058 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* * *
39550108 TGCCCATGCCATGTCCCAGACATAGTCTTACGA-GGGACCTT-TCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGA-CTTCTCATATCGG
* * *
39550158 TGCCAATGCCATGTCCTAGACATGGTCATACATGGGACCTCTCATAATCTCAGTG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC-G-G
*
39550213 ATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
39550251 TCTCTTTACC
Statistics
Matches: 117, Mismatches: 16, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
49 3 0.03
50 73 0.62
51 3 0.03
53 2 0.02
54 1 0.01
55 1 0.01
56 34 0.29
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:39550175 original size:100 final size:105
Alignment explanation
Indices: 39550058--39550244 Score: 258
Period size: 100 Copynumber: 1.8 Consensus size: 105
39550048 TTTCCTGTAC
* * ** *
39550058 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATTTCTCAT-A-TC-G-G-TGCCCATGCC
1 TGCCAATGCCATATCCTAGACATGGTCATACATGGGACCTCTCATAACTCAGTGATGCCAATGCC
39550118 ATGTCCCAGACATAGTCTTACGAGGGACCTTTCATCTCGG
66 ATGTCCCAGACATAGTCTTACGAGGGACCTTTCATCTCGG
*
39550158 TGCCAATGCCATGTCCTAGACATGGTCATACATGGGACCTCTCATAATCTCAGTGATGCCAATGC
1 TGCCAATGCCATATCCTAGACATGGTCATACATGGGACCTCTCATAA-CTCAGTGATGCCAATGC
* *
39550223 CATGTCCCAGGCATGGTCTTAC
65 CATGTCCCAGACATAGTCTTAC
39550245 ATGGGATCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 40 0.55
101 1 0.01
103 2 0.03
104 1 0.01
105 1 0.01
106 28 0.38
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (105 bp):
TGCCAATGCCATATCCTAGACATGGTCATACATGGGACCTCTCATAACTCAGTGATGCCAATGCC
ATGTCCCAGACATAGTCTTACGAGGGACCTTTCATCTCGG
Done.