Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 108 of 352
Found at i:34445519 original size:22 final size:23
Alignment explanation
Indices: 34445484--34445532 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
34445474 TGTGTACTTG
*
34445484 ATATGTCACATTAA-ACA-ATTGT
1 ATATGTAACATTAACACATATT-T
*
34445506 ATATGTAACTTTAACACATATTT
1 ATATGTAACATTAACACATATTT
34445529 ATAT
1 ATAT
34445533 TCGAATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (23 bp):
ATATGTAACATTAACACATATTT
Found at i:34446996 original size:13 final size:13
Alignment explanation
Indices: 34446978--34447005 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34446968 TAAATCTACG
34446978 AAATAATAATAAT
1 AAATAATAATAAT
34446991 AAATAATAATAAT
1 AAATAATAATAAT
34447004 AA
1 AA
34447006 CATCCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:34449068 original size:28 final size:28
Alignment explanation
Indices: 34449009--34449092 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
34448999 AGGCTGTCAG
* * *
34449009 AACAGAT-ATTGTGACAGAGTCACTAGA
1 AACAGATAATTGTGGCAGAGCCACCAGA
* *
34449036 TACAGATAATTGTGGCAGGGCCACCAGA
1 AACAGATAATTGTGGCAGAGCCACCAGA
* *
34449064 AACAGATATTTGTGGCAGAACCACCAGA
1 AACAGATAATTGTGGCAGAGCCACCAGA
34449092 A
1 A
34449093 CGCTTCCTCC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 6 0.13
28 41 0.87
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (28 bp):
AACAGATAATTGTGGCAGAGCCACCAGA
Found at i:34451291 original size:16 final size:16
Alignment explanation
Indices: 34451270--34451303 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34451260 TAAACCTACG
*
34451270 AAATAATAATAATAAT
1 AAATAATAATAACAAT
34451286 AAATAATAATAACAAT
1 AAATAATAATAACAAT
34451302 AA
1 AA
34451304 CATCCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAATAATAACAAT
Found at i:34454467 original size:13 final size:13
Alignment explanation
Indices: 34454449--34454473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34454439 GTTTAATCAA
34454449 TTAATTAGTTTAG
1 TTAATTAGTTTAG
34454462 TTAATTAGTTTA
1 TTAATTAGTTTA
34454474 ATAAACAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTAATTAGTTTAG
Found at i:34459429 original size:43 final size:42
Alignment explanation
Indices: 34459336--34459502 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 42
34459326 GATTTTCGAG
* *
34459336 ATGTGATTACATGTAAGACCATGTCTGGGACACTAGCAT--TGT
1 ATGTGATTACATGTAAGACCATATCTGGGACA-TGGCATCAT-T
*
34459378 ATTGTGATTACGTGTAAGACCATATCTGGGACATTGGCATCATT
1 A-TGTGATTACATGTAAGACCATATCTGGGACA-TGGCATCATT
* * * * * *
34459422 ATATGATTTCGTGTAAGTCCTTTTCTGGGACAGTGGCATCGA-T
1 ATGTGATTACATGTAAGACCATATCTGGGACA-TGGCATC-ATT
* * *
34459465 ACGTGATAACATGTAAGACCATATCTGGGATATGGCAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATGGCAT
34459503 TGTATAAGCT
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 7 0.07
43 91 0.89
44 3 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATGGCATCATT
Found at i:34468609 original size:29 final size:26
Alignment explanation
Indices: 34468577--34468647 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 26
34468567 GTGATATACA
* *
34468577 AAATGATTATGTGCTAAATGTGTAAAATG
1 AAATGATTATATG--AAATG-GTAAAACG
*
34468606 AAATGGTTATATGAAATGGTAAAACG
1 AAATGATTATATGAAATGGTAAAACG
* *
34468632 AAATGGTTTTATGAAA
1 AAATGATTATATGAAA
34468648 ATAGATGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 22 0.58
27 5 0.13
29 11 0.29
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (26 bp):
AAATGATTATATGAAATGGTAAAACG
Found at i:34468621 original size:13 final size:13
Alignment explanation
Indices: 34468603--34468647 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
34468593 AATGTGTAAA
34468603 ATGAAATGGTTAT
1 ATGAAATGGTTAT
* *
34468616 ATGAAATGGTAAA
1 ATGAAATGGTTAT
* *
34468629 ACGAAATGGTTTT
1 ATGAAATGGTTAT
34468642 ATGAAA
1 ATGAAA
34468648 ATAGATGTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.22, T:0.31
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:34468649 original size:27 final size:27
Alignment explanation
Indices: 34468592--34468647 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
34468582 ATTATGTGCT
*
34468592 AAATGTGTAAAATGAAATGGTTATATG
1 AAATGTGTAAAACGAAATGGTTATATG
*
34468619 AAATG-GTAAAACGAAATGGTTTTATG
1 AAATGTGTAAAACGAAATGGTTATATG
34468645 AAA
1 AAA
34468648 ATAGATGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.21, T:0.30
Consensus pattern (27 bp):
AAATGTGTAAAACGAAATGGTTATATG
Found at i:34484160 original size:33 final size:35
Alignment explanation
Indices: 34484108--34484174 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 35
34484098 ATGAAAATGC
34484108 TAAAGAAAATAAAAATGAAAA-AAAAAGAGGAAAAA
1 TAAAGAAAATAAAAATGAAAAGAAAAAGA-GAAAAA
* *
34484143 TAAA-AAAAT-AAAGTGAAAAGAAAACGAGAAAA
1 TAAAGAAAATAAAAATGAAAAGAAAAAGAGAAAA
34484175 CAAAAAGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 14 0.48
34 11 0.38
35 4 0.14
ACGTcount: A:0.75, C:0.01, G:0.15, T:0.09
Consensus pattern (35 bp):
TAAAGAAAATAAAAATGAAAAGAAAAAGAGAAAAA
Found at i:34484173 original size:13 final size:14
Alignment explanation
Indices: 34484152--34484197 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
34484142 ATAAAAAAAT
34484152 AAAG-TGAAAAGAA
1 AAAGATGAAAAGAA
* *
34484165 AACGA-GAAAACAA
1 AAAGATGAAAAGAA
34484178 AAAGATGAAAAAGAA
1 AAAGATG-AAAAGAA
34484193 AAAGA
1 AAAGA
34484198 ATGTGAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 14 0.54
14 1 0.04
15 11 0.42
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (14 bp):
AAAGATGAAAAGAA
Found at i:34490507 original size:39 final size:39
Alignment explanation
Indices: 34490453--34490678 Score: 353
Period size: 39 Copynumber: 5.8 Consensus size: 39
34490443 AAGACACTGA
* *
34490453 AAATGTATCCAGGCTAAAGTCCCGCAGGCTTCATGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
34490492 AAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
34490531 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
34490570 AAATGTATCCAGACTAAAGTCCCGCAGGCTTCGTGCTAG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
34490609 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
34490648 AAATGTATCCGGGTTAAAGTCCAGCAGGCTT
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTT
34490679 TGAGCTGATA
Statistics
Matches: 169, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 169 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:34496320 original size:39 final size:39
Alignment explanation
Indices: 34496266--34496537 Score: 463
Period size: 39 Copynumber: 7.0 Consensus size: 39
34496256 AAGACACTGA
34496266 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
34496305 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
34496344 AAATATATCCGGGCCAAAGTCCCACAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
34496383 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
34496422 AAATGTATCCGGGCCAAAGTCCCACAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
34496461 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
34496500 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
34496538 ATAATATAAT
Statistics
Matches: 219, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 219 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:34504467 original size:16 final size:16
Alignment explanation
Indices: 34504443--34504474 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34504433 GCAAATCTTG
*
34504443 AAATGCCAAAAAGCCA
1 AAATCCCAAAAAGCCA
34504459 AAATCCCAAAAAGCCA
1 AAATCCCAAAAAGCCA
34504475 GAAGTTTGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.28, G:0.09, T:0.06
Consensus pattern (16 bp):
AAATCCCAAAAAGCCA
Found at i:34504714 original size:28 final size:28
Alignment explanation
Indices: 34504670--34504790 Score: 134
Period size: 28 Copynumber: 4.3 Consensus size: 28
34504660 GATTGCATGA
*
34504670 ATATGAATGTGATTGGGCTTGACGGGCC
1 ATATGAATGTGATTGGGCCTGACGGGCC
* * *
34504698 ATATGAAAGTGACTGGGCCTGATGGGCC
1 ATATGAATGTGATTGGGCCTGACGGGCC
* **
34504726 ATATGAATGTGATTGGGCCCGATAGGCC
1 ATATGAATGTGATTGGGCCTGACGGGCC
* * *
34504754 ATATGAATGAGATTCGGCCTGAAGGGGCC
1 ATATGAATGTGATTGGGCCTG-ACGGGCC
*
34504783 AAATGAAT
1 ATATGAAT
34504791 AAGTATGGAT
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 66 0.85
29 12 0.15
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTGACGGGCC
Found at i:34509360 original size:28 final size:28
Alignment explanation
Indices: 34509327--34509431 Score: 147
Period size: 28 Copynumber: 3.8 Consensus size: 28
34509317 ATTGCATGAC
34509327 TATGAATGTGATTGGGCCTAATAGGCCA
1 TATGAATGTGATTGGGCCTAATAGGCCA
* * *
34509355 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTAATAGGCCA
**
34509383 TATGAATGTGATTGGGCCCGATAGGCCA
1 TATGAATGTGATTGGGCCTAATAGGCCA
**
34509411 TATGAATCAGATTGGGCCTAA
1 TATGAATGTGATTGGGCCTAA
34509432 AGGGGCCAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATAGGCCA
Found at i:34537833 original size:13 final size:13
Alignment explanation
Indices: 34537815--34537839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34537805 CCAAACACAC
34537815 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
34537828 GCCCGTGTCCCT
1 GCCCGTGTCCCT
34537840 CACACGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:34539498 original size:44 final size:44
Alignment explanation
Indices: 34539449--34539534 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
34539439 TTACACTAGC
*
34539449 ACATTTCATTGATTATCATGCAATGAATATCTAAAGTTTCATGA
1 ACATTTCATGGATTATCATGCAATGAATATCTAAAGTTTCATGA
34539493 ACATTTCATGGATTATCATGCAATGAATATCTAAAGTTTCAT
1 ACATTTCATGGATTATCATGCAATGAATATCTAAAGTTTCAT
34539535 ACATTCAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (44 bp):
ACATTTCATGGATTATCATGCAATGAATATCTAAAGTTTCATGA
Found at i:34542979 original size:29 final size:29
Alignment explanation
Indices: 34542960--34543025 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
34542950 TAAAGGCGAT
* * * *
34542960 TTGGGCCTAATGGGTCATATGAATATGAA
1 TTGGGCCTAAGGGGCCATATAAATGTGAA
34542989 TTGGGCCTAAGGGGCCATATAAATGTGAA
1 TTGGGCCTAAGGGGCCATATAAATGTGAA
34543018 TTGGGCCT
1 TTGGGCCT
34543026 GATAGGCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (29 bp):
TTGGGCCTAAGGGGCCATATAAATGTGAA
Found at i:34543037 original size:29 final size:29
Alignment explanation
Indices: 34542960--34543050 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 29
34542950 TAAAGGCGAT
* *
34542960 TTGGGCCTAATG-GGTCATATGAATATGAA
1 TTGGGCCTAA-GAGGCCATATGAATGTGAA
* *
34542989 TTGGGCCTAAGGGGCCATATAAATGTGAA
1 TTGGGCCTAAGAGGCCATATGAATGTGAA
* * * *
34543018 TTGGGCCTGATAGGCTATATGAATGAG-A
1 TTGGGCCTAAGAGGCCATATGAATGTGAA
34543046 TTGGG
1 TTGGG
34543051 TCAAGTGGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 7 0.13
29 45 0.87
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (29 bp):
TTGGGCCTAAGAGGCCATATGAATGTGAA
Found at i:34549486 original size:40 final size:40
Alignment explanation
Indices: 34549431--34549566 Score: 186
Period size: 40 Copynumber: 3.4 Consensus size: 40
34549421 GATGATAACT
34549431 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
34549471 GGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * * *
34549511 GGGCTATGTCCCGAAGGCATTCGAGTGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
34549551 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
34549567 TACTTGGCTT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 15 0.17
40 71 0.83
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:34557509 original size:40 final size:40
Alignment explanation
Indices: 34557454--34557631 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
34557444 TGGATGATAA
34557454 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
34557494 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
34557534 CCAGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
34557574 CCGGGCTATGTCCCGAAGGCATTCGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
34557614 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34557632 TACTTGGCTT
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 15 0.12
40 113 0.88
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:34565656 original size:27 final size:27
Alignment explanation
Indices: 34565592--34565644 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
34565582 GACCCTGATT
*
34565592 TGTAAAATGACTGAAATACCCTTGTAC
1 TGTAAAATGACTGAAATACCCCTGTAC
*
34565619 TGTAAAATGACTGTAATACCCCTGTA
1 TGTAAAATGACTGAAATACCCCTGTA
34565645 TGGTAGAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (27 bp):
TGTAAAATGACTGAAATACCCCTGTAC
Found at i:34565914 original size:22 final size:22
Alignment explanation
Indices: 34565904--34565981 Score: 138
Period size: 22 Copynumber: 3.5 Consensus size: 22
34565894 CCTTTAGCTG
*
34565904 TCCTGTCTACGGTGTTGAGTCT
1 TCCTGTCTACGGTGTTGAGCCT
34565926 TCCTGTCTACGGTGTTGAGCCT
1 TCCTGTCTACGGTGTTGAGCCT
*
34565948 TCCTGTCTACGGTGTTGAGCCA
1 TCCTGTCTACGGTGTTGAGCCT
34565970 TCCTGTCTACGG
1 TCCTGTCTACGG
34565982 CGTTAACCCG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.10, C:0.27, G:0.27, T:0.36
Consensus pattern (22 bp):
TCCTGTCTACGGTGTTGAGCCT
Found at i:34565995 original size:22 final size:22
Alignment explanation
Indices: 34565903--34565995 Score: 123
Period size: 22 Copynumber: 4.2 Consensus size: 22
34565893 GCCTTTAGCT
*
34565903 GTCCTGTCTACGGTGTTGAGTC
1 GTCCTGTCTACGGTGTTGAGCC
*
34565925 TTCCTGTCTACGGTGTTGAGCC
1 GTCCTGTCTACGGTGTTGAGCC
*
34565947 TTCCTGTCTACGGTGTTGAGCC
1 GTCCTGTCTACGGTGTTGAGCC
* * * *
34565969 ATCCTGTCTACGGCGTTAACCC
1 GTCCTGTCTACGGTGTTGAGCC
34565991 GTCCT
1 GTCCT
34565996 ATTGACTTAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.11, C:0.29, G:0.26, T:0.34
Consensus pattern (22 bp):
GTCCTGTCTACGGTGTTGAGCC
Found at i:34583568 original size:23 final size:23
Alignment explanation
Indices: 34583537--34583596 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
34583527 TGCTCCCAAG
*
34583537 CACACGGGCATGTGCAATGCCTC
1 CACATGGGCATGTGCAATGCCTC
34583560 CACATGGGCATGTGCAATGCCTC
1 CACATGGGCATGTGCAATGCCTC
34583583 CACATGGGCATGTG
1 CACATGGGCATGTG
34583597 AGGCTTAACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.22, C:0.30, G:0.28, T:0.20
Consensus pattern (23 bp):
CACATGGGCATGTGCAATGCCTC
Found at i:34594539 original size:48 final size:48
Alignment explanation
Indices: 34594417--34594589 Score: 168
Period size: 48 Copynumber: 3.6 Consensus size: 48
34594407 ATGTGATCCT
* ** * * *
34594417 GTGTAAGACCATGTCTGGGACATGGCATCAACATTCGAGATGAGAGCCA
1 GTGTAAGACCATATCTGGGACATGGCATCGGCATT-GATATGTGTGCCA
* * *
34594466 GTGTAAAACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
1 GTGTAAGACCATATCTGGGACATGGCATCGGCATTGATATGTGTGCCA
* * * * * **
34594514 GTGTAAGACCATATCTAGGATATGGCATTGGCATCGGTATGTGATTTCA
1 GTGTAAGACCATATCTGGGACATGGCATCGGCATTGATATGTG-TGCCA
*
34594563 -TGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGACATGGCAT
34594590 TGATATGAGA
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
48 71 0.68
49 34 0.32
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATATCTGGGACATGGCATCGGCATTGATATGTGTGCCA
Found at i:34594602 original size:42 final size:42
Alignment explanation
Indices: 34594514--34594674 Score: 151
Period size: 42 Copynumber: 3.7 Consensus size: 42
34594504 ATGTGTGCCA
* * *
34594514 GTGTAAGACCATATCTAGGATATGGCATTGGCATCGGTATGTGATTTC
1 GTGTAAGACCATATCTGGGACATGGCATT-G-A----TATGAGATTTC
* * *
34594562 ATGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTT
1 GTGTAAGACCATATCTGGGACATGGCATTGATATGAGATTTC
* * * * **
34594604 GTGTAAGACCATGTCTGGGACAGGGCATTGATGTGAGGTCCC
1 GTGTAAGACCATATCTGGGACATGGCATTGATATGAGATTTC
*
34594646 GTGTAAGACCATGTCTGGGACATGGCATT
1 GTGTAAGACCATATCTGGGACATGGCATT
34594675 TGTACTAACA
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 70 0.71
46 1 0.01
47 1 0.01
48 27 0.27
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGACATGGCATTGATATGAGATTTC
Found at i:34594702 original size:90 final size:90
Alignment explanation
Indices: 34594607--34594855 Score: 324
Period size: 90 Copynumber: 2.8 Consensus size: 90
34594597 AGATTTTGTG
* * *
34594607 TAAGACCATGTCTGGGACAGGGCATTGATGTGAGGTCCCGTGTAAGACCATGTCTGGGACATGGC
1 TAAGACCATGTCTAGGACATGGCATCGATGTGAGGTCCCGTGTAAGACCATGTCTGGGACATGGC
* *
34594672 ATTTGTACTAACATAAGATTTCAAA
66 ATTTGCACCAACATAAGATTTCAAA
* *
34594697 TAAGACCATGTCTAGGACATGGCATCGATGTGAGGTCCCGTGTAAGACCATGTCTAGGACATGAC
1 TAAGACCATGTCTAGGACATGGCATCGATGTGAGGTCCCGTGTAAGACCATGTCTGGGACATGGC
* *
34594762 ATCTGCACCGACATAAGATTTCAAA
66 ATTTGCACCAACATAAGATTTCAAA
* * * * * *
34594787 TAAGACCATATCTAGGATATGGCATCGGTATGT-A-GACTCATGTAAGACCATGTCGGGGACATG
1 TAAGACCATGTCTAGGACATGGCATC-G-ATGTGAGGTCCCGTGTAAGACCATGTCTGGGACATG
34594850 G-ATTTG
64 GCATTTG
34594856 GCATTTTATG
Statistics
Matches: 139, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
89 4 0.03
90 129 0.93
91 2 0.01
92 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (90 bp):
TAAGACCATGTCTAGGACATGGCATCGATGTGAGGTCCCGTGTAAGACCATGTCTGGGACATGGC
ATTTGCACCAACATAAGATTTCAAA
Found at i:34594756 original size:42 final size:42
Alignment explanation
Indices: 34594563--34594759 Score: 169
Period size: 42 Copynumber: 4.5 Consensus size: 42
34594553 TGTGATTTCA
* * ***
34594563 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTTG
1 TGTAAGACCATGTCTGGGACATGGCATTGATATGAGATCCCG
* * *
34594605 TGTAAGACCATGTCTGGGACAGGGCATTGATGTGAGGTCCCG
1 TGTAAGACCATGTCTGGGACATGGCATTGATATGAGATCCCG
* ** *
34594647 TGTAAGACCATGTCTGGGACATGGCATTTGTACTAACATAAGATTTCA
1 TGTAAGACCATGTCTGGGACATGGCA-TTG-A-T---ATGAGATCCCG
** * * * *
34594695 AATAAGACCATGTCTAGGACATGGCATCGATGTGAGGTCCCG
1 TGTAAGACCATGTCTGGGACATGGCATTGATATGAGATCCCG
*
34594737 TGTAAGACCATGTCTAGGACATG
1 TGTAAGACCATGTCTGGGACATG
34594760 ACATCTGCAC
Statistics
Matches: 122, Mismatches: 27, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
42 85 0.70
43 3 0.02
44 1 0.01
45 2 0.02
46 1 0.01
47 2 0.02
48 28 0.23
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATTGATATGAGATCCCG
Found at i:34594795 original size:48 final size:47
Alignment explanation
Indices: 34594649--34594812 Score: 149
Period size: 48 Copynumber: 3.6 Consensus size: 47
34594639 AGGTCCCGTG
* * *
34594649 TAAGACCATGTCTGGGACATGGCATTTGTACTAACATAAGATTTCAAA
1 TAAGACCATGTCTAGGACATGGCATCTG-ACTGACATAAGATTTCAAA
* * ** ***
34594697 TAAGACCATGTCTAGGACATGGCATC-GA-TG---TGAGGTCCCGTG
1 TAAGACCATGTCTAGGACATGGCATCTGACTGACATAAGATTTCAAA
* *
34594739 TAAGACCATGTCTAGGACATGACATCTGCACCGACATAAGATTTCAAA
1 TAAGACCATGTCTAGGACATGGCATCTG-ACTGACATAAGATTTCAAA
* *
34594787 TAAGACCATATCTAGGATATGGCATC
1 TAAGACCATGTCTAGGACATGGCATC
34594813 GGTATGTAGA
Statistics
Matches: 88, Mismatches: 22, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
42 30 0.34
43 1 0.01
44 1 0.01
45 2 0.02
46 1 0.01
47 1 0.01
48 52 0.59
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (47 bp):
TAAGACCATGTCTAGGACATGGCATCTGACTGACATAAGATTTCAAA
Found at i:34600882 original size:16 final size:16
Alignment explanation
Indices: 34600861--34600920 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
34600851 GACGTCATTA
34600861 GATTAAATTAATTAAT
1 GATTAAATTAATTAAT
34600877 GATTAAAGTTTAATTAAT
1 GATTAAA--TTAATTAAT
* * *
34600895 CA-TAATTTAGTTAAAT
1 GATTAAATTAATT-AAT
34600911 GATT-AATTAA
1 GATTAAATTAA
34600921 GCTTAATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
15 5 0.15
16 15 0.44
17 4 0.12
18 10 0.29
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (16 bp):
GATTAAATTAATTAAT
Found at i:34601822 original size:17 final size:18
Alignment explanation
Indices: 34601797--34601831 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34601787 AATGATTTGA
*
34601797 ATTGTAATAT-GTATATG
1 ATTGAAATATGGTATATG
34601814 ATTGAAATATGGTATATG
1 ATTGAAATATGGTATATG
34601832 TACTGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (18 bp):
ATTGAAATATGGTATATG
Found at i:34601982 original size:19 final size:19
Alignment explanation
Indices: 34601937--34601982 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
34601927 GGGTTATGTG
*
34601937 CTTATGTGCTAGGATGCGC
1 CTTATGTGCTAGGATGCAC
*
34601956 CTTGTGTGCTAGGATGCAC
1 CTTATGTGCTAGGATGCAC
*
34601975 TTTATGTG
1 CTTATGTG
34601983 TTGGTATGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.30, T:0.37
Consensus pattern (19 bp):
CTTATGTGCTAGGATGCAC
Found at i:34611242 original size:26 final size:26
Alignment explanation
Indices: 34611213--34611320 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
34611203 TGGTACAAAT
*
34611213 TGATAATGGGTTAGCTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
34611239 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34611265 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
34611291 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34611317 TGAT
1 TGAT
34611321 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:34612982 original size:27 final size:27
Alignment explanation
Indices: 34612944--34613082 Score: 158
Period size: 27 Copynumber: 5.1 Consensus size: 27
34612934 GAAGCGTCCA
34612944 GGTGGCTATGCCACAATTATCTGATCT
1 GGTGGCTATGCCACAATTATCTGATCT
* *
34612971 GGTGGCTTTGCCAC-ATATATCTGTTCT
1 GGTGGCTATGCCACAAT-TATCTGATCT
* *
34612998 GGTGGCTATGCCACGATTATATGATCT
1 GGTGGCTATGCCACAATTATCTGATCT
* * *
34613025 GGTGGCTCTGCCAC-ATATATCTGTTTT
1 GGTGGCTATGCCACAAT-TATCTGATCT
*
34613052 GGTGGCTCTGCCACAA-TATCTGTATCT
1 GGTGGCTATGCCACAATTATCTG-ATCT
34613079 GGTG
1 GGTG
34613083 ACTTGGTCAC
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
26 10 0.10
27 83 0.86
28 3 0.03
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (27 bp):
GGTGGCTATGCCACAATTATCTGATCT
Found at i:34613026 original size:54 final size:53
Alignment explanation
Indices: 34612944--34613100 Score: 208
Period size: 54 Copynumber: 2.9 Consensus size: 53
34612934 GAAGCGTCCA
34612944 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCT
1 GGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCT
* * *
34612998 GGTGGCTATGCCACGATTATATGATCTGGTGGCTCTGCCACATATATCTGTTTT
1 GGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCT
* * * * *
34613052 GGTGGCTCTGCCACAATATCTGTATCTGGTGACTTGGTCACA-ATATCTG
1 GGTGGCTATGCCACATTATCTG-ATCTGGTGGCTTTGCCACATATATCTG
34613101 GCAACCTCGC
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 13 0.14
54 78 0.86
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.36
Consensus pattern (53 bp):
GGTGGCTATGCCACATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCT
Found at i:34618038 original size:5 final size:5
Alignment explanation
Indices: 34618028--34618074 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
34618018 AATAATAATA
*
34618028 ATTAT ATTAT ATTAT ATTAAT ATTAT TTTAT ATTA- ATTA- ATTA- ATTA
1 ATTAT ATTAT ATTAT ATT-AT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
34618075 AATAAAAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
4 12 0.31
5 22 0.56
6 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:34618052 original size:16 final size:16
Alignment explanation
Indices: 34618031--34618064 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34618021 AATAATAATT
34618031 ATATTATATTATATTA
1 ATATTATATTATATTA
*
34618047 ATATTATTTTATATTA
1 ATATTATATTATATTA
34618063 AT
1 AT
34618065 TAATTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTATATTATATTA
Found at i:34618207 original size:14 final size:14
Alignment explanation
Indices: 34618169--34618211 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
34618159 ATAGTTTAAT
34618169 AATAAAATAAA-GA
1 AATAAAATAAATGA
*
34618182 AATGAAATAAATGA
1 AATAAAATAAATGA
*
34618196 AATAAAAGAAATGA
1 AATAAAATAAATGA
34618210 AA
1 AA
34618212 AAGAAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (14 bp):
AATAAAATAAATGA
Found at i:34619965 original size:45 final size:45
Alignment explanation
Indices: 34619901--34620133 Score: 358
Period size: 45 Copynumber: 5.2 Consensus size: 45
34619891 CTGTTACCGC
* *
34619901 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
34619946 TACTGCTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
34619991 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
34620036 TACTATTACCGTTACCGATTCGGCACTTTATGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * *
34620081 TACTGTTACCATTACCGATTCCGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
34620126 TACTGTTA
1 TACTGTTA
34620134 TTGTTACTAT
Statistics
Matches: 174, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 174 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:34620361 original size:36 final size:36
Alignment explanation
Indices: 34620308--34620590 Score: 182
Period size: 36 Copynumber: 7.6 Consensus size: 36
34620298 AAAGGTATAA
* * *
34620308 AATAACTGATTATTACTGAATAATTGACTGTTATTG
1 AATAACTGATTGTTACTGAATAATTGACTATTACTG
* * * *
34620344 GATAATTGATTGTTACTGGAT-ATTAGACTATTATTG
1 AATAACTGATTGTTACTGAATAATT-GACTATTACTG
* * *
34620380 AATAACTGAATATTACTGAATAATTGATTATTACTG
1 AATAACTGATTGTTACTGAATAATTGACTATTACTG
* **
34620416 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTG
1 AATAACTGATTGTTACTGAAT-AATTGACTATTACTG
* * *
34620452 AATAACTTAATAGTTACTGAAT-ATCTGA-TTTTACTG
1 AATAAC-TGATTGTTACTGAATAAT-TGACTATTACTG
* * *
34620488 AATAATTGACTGTTACTGGATAACCGATCAATTGATCGA-TACTG
1 AATAACTGATTGTTACT-G---A---AT-AATTGA-CTATTACTG
* * * *
34620532 AATAACTGGTTATTATTGAATAATTG-CTTGTTACTG
1 AATAACTGATTGTTACTGAATAATTGAC-TATTACTG
*
34620568 AATAACTGACTGTTACTGAATAA
1 AATAACTGATTGTTACTGAATAA
34620591 ATAATTATTC
Statistics
Matches: 188, Mismatches: 40, Indels: 38
0.71 0.15 0.14
Matches are distributed among these distances:
34 1 0.01
35 12 0.06
36 126 0.67
37 22 0.12
39 1 0.01
40 1 0.01
42 2 0.01
43 4 0.02
44 19 0.10
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (36 bp):
AATAACTGATTGTTACTGAATAATTGACTATTACTG
Found at i:34620399 original size:18 final size:18
Alignment explanation
Indices: 34620308--34620590 Score: 133
Period size: 18 Copynumber: 15.3 Consensus size: 18
34620298 AAAGGTATAA
*
34620308 AATAACTGATTATTACTG
1 AATAACTGACTATTACTG
* * *
34620326 AATAATTGACTGTTATTG
1 AATAACTGACTATTACTG
* * * *
34620344 GATAATTGATTGTTACTG
1 AATAACTGACTATTACTG
* * *
34620362 GAT-ATTAGACTATTATTG
1 AATAACT-GACTATTACTG
*
34620380 AATAACTGAATATTACTG
1 AATAACTGACTATTACTG
* *
34620398 AATAATTGATTATTACTG
1 AATAACTGACTATTACTG
* * *
34620416 AATAACTGATTGTCACTG
1 AATAACTGACTATTACTG
**
34620434 AATGAA-TGACTGCTACTG
1 AAT-AACTGACTATTACTG
* *
34620452 AATAACTTAATAGTTACTG
1 AATAACTGACTA-TTACTG
* *
34620471 AATATCTGA-TTTTACTG
1 AATAACTGACTATTACTG
* *
34620488 AATAATTGACTGTTACTG
1 AATAACTGACTATTACTG
* *
34620506 GATAACCGATCAATTGATCGATACTG
1 AATAACTGA-C---T-AT---TACTG
** *
34620532 AATAACTGGTTATTATTG
1 AATAACTGACTATTACTG
* *
34620550 AATAATTG-CTTGTTACTG
1 AATAACTGAC-TATTACTG
*
34620568 AATAACTGACTGTTACTG
1 AATAACTGACTATTACTG
34620586 AATAA
1 AATAA
34620591 ATAATTATTC
Statistics
Matches: 203, Mismatches: 46, Indels: 32
0.72 0.16 0.11
Matches are distributed among these distances:
17 18 0.09
18 151 0.74
19 18 0.09
21 2 0.01
22 2 0.01
23 1 0.00
26 11 0.05
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
AATAACTGACTATTACTG
Found at i:34620426 original size:72 final size:70
Alignment explanation
Indices: 34620308--34620510 Score: 228
Period size: 72 Copynumber: 2.8 Consensus size: 70
34620298 AAAGGTATAA
* * * * *
34620308 AATAACTGATTATTACTGAATAATTGACTGTTATTGGATAATTGATTGTTACTGGATATTAGACT
1 AATAACTGAATATTACTGAATAATTGA-TTTTACTGAATAATTGATTGTTACTGGATAAT-GACT
* *
34620373 ATTATTG
64 ACTACTG
* * *
34620380 AATAACTGAATATTACTGAATAATTGATTATTACTGAATAACTGATTGTCACTGAATGAATGACT
1 AATAACTGAATATTACTGAATAATTGATT-TTACTGAATAATTGATTGTTACTGGAT-AATGACT
*
34620445 GCTACTG
64 ACTACTG
* *
34620452 AATAACTTAATAGTTACTGAAT-ATCTGATTTTACTGAATAATTGACTGTTACTGGATAA
1 AATAACTGAATA-TTACTGAATAAT-TGATTTTACTGAATAATTGATTGTTACTGGATAA
34620511 CCGATCAATT
Statistics
Matches: 111, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
71 3 0.03
72 92 0.83
73 16 0.14
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (70 bp):
AATAACTGAATATTACTGAATAATTGATTTTACTGAATAATTGATTGTTACTGGATAATGACTAC
TACTG
Found at i:34620436 original size:54 final size:53
Alignment explanation
Indices: 34620308--34620511 Score: 150
Period size: 54 Copynumber: 3.8 Consensus size: 53
34620298 AAAGGTATAA
* * * * *
34620308 AATAACTGATTATTACTGAATAATTGACTGTTATTGGATAA-TTGATTGTTACTGG
1 AATAACTGATT-TCACTGAATAA-TGACTGTTACTGAATAACTTAATAGTTACT-G
* * * *
34620363 ATATTAGACT-A-TT-ATTGAATAACTGAATATTACTGAATAA-TTGATTA-TTACTG
1 A-A-TA-ACTGATTTCACTGAATAA-TGACTGTTACTGAATAACTT-AATAGTTACTG
*
34620416 AATAACTGATTGTCACTGAATGAATGACTGCTACTGAATAACTTAATAGTTACTG
1 AATAACTGATT-TCACTGAAT-AATGACTGTTACTGAATAACTTAATAGTTACTG
* * *
34620471 AATATCTGATTTTACTGAATAATTGACTGTTACTGGATAAC
1 AATAACTGATTTCACTGAATAA-TGACTGTTACTGAATAAC
34620512 CGATCAATTG
Statistics
Matches: 119, Mismatches: 18, Indels: 25
0.73 0.11 0.15
Matches are distributed among these distances:
50 3 0.03
51 3 0.03
52 2 0.02
53 5 0.04
54 75 0.63
55 23 0.19
56 2 0.02
57 3 0.03
58 3 0.03
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (53 bp):
AATAACTGATTTCACTGAATAATGACTGTTACTGAATAACTTAATAGTTACTG
Found at i:34621498 original size:23 final size:24
Alignment explanation
Indices: 34621448--34621500 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
34621438 CTTGTAACGA
* *
34621448 GAAGCTCATATAAAGCCATTTTGG
1 GAAGCTCATAAAAAGCCATATTGG
34621472 GAAGCTCATAAAAAGCC-TATTGG
1 GAAGCTCATAAAAAGCCATATTGG
34621495 GAAGCT
1 GAAGCT
34621501 TATCTGGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (24 bp):
GAAGCTCATAAAAAGCCATATTGG
Found at i:34621632 original size:48 final size:50
Alignment explanation
Indices: 34621513--34621634 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 50
34621503 TCTGGTCTAT
*
34621513 ATAACGGGAAGCTCAT-AAGAGCC-ATAATCGGTAAGTTCACAAAGAACC
1 ATAACGGGAAGCTCATAAAGAGCCAATAATCGGGAAGTTCACAAAGAACC
* * ** *
34621561 ATAACGGGAAGCTC-TAGATAGCCAAT-ATCGGGAAGTTCA-AGCG-AGC
1 ATAACGGGAAGCTCATAAAGAGCCAATAATCGGGAAGTTCACAAAGAACC
*
34621607 ACTATCGGGAAGCTCATAAAGAGCCAAT
1 A-TAACGGGAAGCTCATAAAGAGCCAAT
34621635 TTAACAGGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
46 3 0.05
47 15 0.25
48 41 0.67
49 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (50 bp):
ATAACGGGAAGCTCATAAAGAGCCAATAATCGGGAAGTTCACAAAGAACC
Found at i:34623804 original size:47 final size:47
Alignment explanation
Indices: 34623735--34623835 Score: 157
Period size: 47 Copynumber: 2.1 Consensus size: 47
34623725 TTCGGAGAAA
* * *
34623735 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 TGTGATATGTGCTACCATATAAGACCATATCCGGGATATGGCATCAG
* *
34623782 TGTGATATGTGCTACTATATAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTACCATATAAGACCATATCCGGGATATGGCATCAG
34623829 TGTGATA
1 TGTGATA
34623836 CGTGATCCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (47 bp):
TGTGATATGTGCTACCATATAAGACCATATCCGGGATATGGCATCAG
Found at i:34626112 original size:22 final size:22
Alignment explanation
Indices: 34626087--34626133 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
34626077 TTGTATAAGT
*
34626087 TTATTGTTCAGCTCAATAGAGC
1 TTATTGTTCAACTCAATAGAGC
34626109 TTATTGTTCAACTCAATAGAGC
1 TTATTGTTCAACTCAATAGAGC
34626131 TTA
1 TTA
34626134 CCATTTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (22 bp):
TTATTGTTCAACTCAATAGAGC
Found at i:34626152 original size:24 final size:24
Alignment explanation
Indices: 34626089--34626158 Score: 83
Period size: 22 Copynumber: 3.0 Consensus size: 24
34626079 GTATAAGTTT
34626089 ATTGTTCAGCTCAATAGAGCTT--
1 ATTGTTCAGCTCAATAGAGCTTAC
*
34626111 ATTGTTCAACTCAATAGAGCTTACC
1 ATTGTTCAGCTCAATAGAGCTTA-C
* *
34626136 ATT-TTTAGCTCAATAGAGATTAC
1 ATTGTTCAGCTCAATAGAGCTTAC
34626159 TGTCCATCAG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 21 0.51
23 1 0.02
24 16 0.39
25 3 0.07
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (24 bp):
ATTGTTCAGCTCAATAGAGCTTAC
Found at i:34633556 original size:30 final size:30
Alignment explanation
Indices: 34633520--34633581 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
34633510 TTTCCTAAAG
34633520 TTCTTTAATGTTTTAAAGTACTCTTCCAAT
1 TTCTTTAATGTTTTAAAGTACTCTTCCAAT
* *
34633550 TTCTTTAATGTTTTCAAGTATTCTTCCAAT
1 TTCTTTAATGTTTTAAAGTACTCTTCCAAT
34633580 TT
1 TT
34633582 GTAAGTGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.16, G:0.06, T:0.53
Consensus pattern (30 bp):
TTCTTTAATGTTTTAAAGTACTCTTCCAAT
Found at i:34639643 original size:18 final size:18
Alignment explanation
Indices: 34639622--34639658 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
34639612 TTAAAATTTT
34639622 ATTTTAATGTTT-TTATAC
1 ATTTTAAT-TTTATTATAC
34639640 ATTTTAATTTTATTATAC
1 ATTTTAATTTTATTATAC
34639658 A
1 A
34639659 CACTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTTTAATTTTATTATAC
Found at i:34640368 original size:22 final size:22
Alignment explanation
Indices: 34640333--34640375 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
34640323 TCTCTCACAT
*
34640333 TCTCAAATCTCTCTTAAATTTC
1 TCTCAAATCCCTCTTAAATTTC
*
34640355 TCTCAAGTCCCTCTTAAATTT
1 TCTCAAATCCCTCTTAAATTT
34640376 TCACTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (22 bp):
TCTCAAATCCCTCTTAAATTTC
Found at i:34641591 original size:54 final size:53
Alignment explanation
Indices: 34641433--34641591 Score: 149
Period size: 54 Copynumber: 2.9 Consensus size: 53
34641423 CGTGTAATAT
* ** * * *
34641433 AAGGTCACACAAATGTGTGGCCAGATCATGTAACTCACTGTGACCATGTAGCTC
1 AAGGTCACAC-AATGTGTCGCCAGGCCATGTAACTCTCTGTGCCCATGTGGCTC
* * *** *
34641487 -AGAGTCACACAAGTGTGTCACCAGGCCATGTAACTCTTTGTGCTTGTGTGGTTC
1 AAG-GTCACACAA-TGTGTCGCCAGGCCATGTAACTCTCTGTGCCCATGTGGCTC
* *
34641541 AAGGTCACACAATCATGTCGCCAGGCCATGTAACTCTCTGCGCCCATGTGG
1 AAGGTCACACAAT-GTGTCGCCAGGCCATGTAACTCTCTGTGCCCATGTGG
34641592 ACCAACCTGC
Statistics
Matches: 82, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
53 5 0.06
54 75 0.91
55 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (53 bp):
AAGGTCACACAATGTGTCGCCAGGCCATGTAACTCTCTGTGCCCATGTGGCTC
Found at i:34651535 original size:12 final size:14
Alignment explanation
Indices: 34651518--34651549 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34651508 TTGAGAACAC
34651518 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
34651530 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
34651544 ATGTGT
1 ATGTGT
34651550 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:34651633 original size:50 final size:50
Alignment explanation
Indices: 34651515--34651909 Score: 332
Period size: 50 Copynumber: 7.8 Consensus size: 50
34651505 ACATTGAGAA
* * * * *** *
34651515 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAG--TTAGGT
* * * *
34651567 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAGTTAGGT
** * * * * * * *
34651617 TGCATGTGTAGTACTAAGTG-TAGACTACTATGCATACCCGACAACTTTGAT
1 CACATGTGTAGTACTAAGTGCAAG-CTACTATGCGTACCAGA-TAGTTAGGT
* * * *
34651668 CACGTGTGTAGTACTAAGTGTAAGCTACTATGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAGTTAGGT
* * * *
34651718 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCA-ATAGCTTCA-AT
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGCGTA-CCAGATAG-TT-AGGT
* * * *
34651769 CACGTGTGTAGTACTAAGTGCATGCTACT-T-CATGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGC--GTACCAGATAGTTAGGT
* ** *
34651819 CACATGTGTAGTACTAAGTGCATGCTACTAAACGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAGTTAGGT
*
34651869 CACATGTGTAGTACTAAGTGCATGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGA
34651910 GAGCTTTGGT
Statistics
Matches: 276, Mismatches: 55, Indels: 26
0.77 0.15 0.07
Matches are distributed among these distances:
49 4 0.01
50 160 0.58
51 73 0.26
52 39 0.14
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAGTTAGGT
Found at i:34651686 original size:51 final size:50
Alignment explanation
Indices: 34651621--34651788 Score: 162
Period size: 51 Copynumber: 3.3 Consensus size: 50
34651611 TTAGGTTGCA
*
34651621 TGTGTAGTACTAAGTGTAGACTACTATGCATACCCGACAACTTTGATCACG
1 TGTGTAGTACTAAGTGTAGACTACTATGCATACCCGA-AACTTAGATCACG
** * *** * * *
34651672 TGTGTAGTACTAAGTGTA-AGCTACTATGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGTAGA-CTACTATGCATACCCGAAACTTAGATCACG
* *
34651722 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCC-AATAGCTTCA-ATCACG
1 TGTGTAGTACTAAGTGTAGACTACTATGCATACCCGAA-A-CTT-AGATCACG
34651773 TGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTG
34651789 CATGCTACTT
Statistics
Matches: 91, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
49 1 0.01
50 36 0.40
51 53 0.58
52 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGTAGACTACTATGCATACCCGAAACTTAGATCACG
Found at i:34651695 original size:101 final size:101
Alignment explanation
Indices: 34651566--34651848 Score: 381
Period size: 101 Copynumber: 2.8 Consensus size: 101
34651556 TGGTTTTAGG
*
34651566 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAGTTAGGTTGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAGTTAGGTCGCATGTGTAGTAC
* * **
34651631 TAAGTGTAGACTACTATGCATACCCGACAACTTTGA
66 TAAGTGCAGACTACTATGCATACCCAACAACTTCAA
* * * *
34651667 TCACGTGTGTAGTACTAAGTGTAAGCTACTATGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAGTTAGGTCGCATGTGTAGTAC
* * *
34651732 TAAGTGCAGGCTACTATGCATACCCAATAGCTTCAA
66 TAAGTGCAGACTACTATGCATACCCAACAACTTCAA
* * * * *
34651768 TCACGTGTGTAGTACTAAGTGCATGCTACTTCATGTA-TCAGATGGTTAGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACT-AGATAGTTAGGTCGCATGTGTAGTA
34651832 CTAAGTGCATG-CTACTA
65 CTAAGTGCA-GACTACTA
34651849 AACGTACCAG
Statistics
Matches: 160, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
101 159 0.99
102 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAGTTAGGTCGCATGTGTAGTAC
TAAGTGCAGACTACTATGCATACCCAACAACTTCAA
Found at i:34657704 original size:22 final size:21
Alignment explanation
Indices: 34657674--34657716 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
34657664 CATTTAAACA
34657674 TTCTGTTTCTTTCATTCTCTTTT
1 TTCTGTTTCTTT-ATT-TCTTTT
34657697 TTCT-TTTCTTTATTTCTTTT
1 TTCTGTTTCTTTATTTCTTTT
34657717 GTTTCATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 3 0.15
22 7 0.35
23 4 0.20
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (21 bp):
TTCTGTTTCTTTATTTCTTTT
Found at i:34657981 original size:138 final size:135
Alignment explanation
Indices: 34657737--34657986 Score: 299
Period size: 137 Copynumber: 1.8 Consensus size: 135
34657727 CTTTTATGTT
* * * *
34657737 TTAATTATATTATAACATAATATTATTCTTAAATAATAAGTAAGTATACATGTATATTACAAATG
1 TTAATTATATTATAAAATAATAATATTCTCAAATAATAAGTAAATATACATG-ATATTACAAATG
* *
34657802 TATATATATCATTGGTACACATATAAATTATTATTACCACACACTTGTCTTTATTTAATTATTTT
65 TATATAAATCATTAGTACACATATAAATTATTATTACCACACACTTGTCTTTATTTAATTATTTT
34657867 CTTTAA
130 CTTTAA
34657873 TTAATTA-ATTATAAAATAATAATATTTACTCAAATAATAAGTAAATACATACATG-TATTACAA
1 TTAATTATATTATAAAATAATAATA-TT-CTCAAATAATAAGTAAAT--ATACATGATATTACAA
* * * ** * *
34657936 ATGTATGTAAAAT-ATTTATTACACATGTATTTTATTTTTATCACACACTTG
62 ATGTATAT-AAATCA-TTAGTACACATATAAATTATTATTACCACACACTTG
34657987 GCACTCCTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
135 15 0.16
136 9 0.09
137 32 0.34
138 32 0.34
139 7 0.07
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (135 bp):
TTAATTATATTATAAAATAATAATATTCTCAAATAATAAGTAAATATACATGATATTACAAATGT
ATATAAATCATTAGTACACATATAAATTATTATTACCACACACTTGTCTTTATTTAATTATTTTC
TTTAA
Found at i:34659298 original size:22 final size:23
Alignment explanation
Indices: 34659244--34659346 Score: 93
Period size: 23 Copynumber: 4.5 Consensus size: 23
34659234 TAAGCTGATG
*
34659244 AACAGGAAGCTATATTGAGCTGA
1 AACAGTAAGCTATATTGAGCTGA
34659267 AACAGTAAGCTATATTGAGCTG-
1 AACAGTAAGCTATATTGAGCTGA
** *
34659289 ATTAGTAAGCTCAT-TCGAGCTGA
1 AACAGTAAGCT-ATATTGAGCTGA
** ** *
34659312 AATGGTAAGCTCCATTGAGTTGAA
1 AACAGTAAGCTATATTGAGCTG-A
34659336 AACAGTAAGCT
1 AACAGTAAGCT
34659347 CTTTCAAGTT
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
22 16 0.25
23 38 0.59
24 10 0.16
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (23 bp):
AACAGTAAGCTATATTGAGCTGA
Found at i:34677898 original size:17 final size:16
Alignment explanation
Indices: 34677866--34677898 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34677856 TTGGCCCAAG
34677866 TACTAATCAGTTTTTT
1 TACTAATCAGTTTTTT
*
34677882 TACTAATTAGTTTTTT
1 TACTAATCAGTTTTTT
34677898 T
1 T
34677899 CTTGAGACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (16 bp):
TACTAATCAGTTTTTT
Found at i:34682059 original size:34 final size:33
Alignment explanation
Indices: 34682007--34682102 Score: 115
Period size: 34 Copynumber: 2.8 Consensus size: 33
34681997 TGCATCTCTA
34682007 ATACTGTACTGAATTGGGCTAAGGCCCACACTG
1 ATACTGTACTGAATTGGGCTAAGGCCCACACTG
34682040 ATACTGTTACTGTAA-TGGGCTAAGGCCCACACTG
1 ATACTG-TACTG-AATTGGGCTAAGGCCCACACTG
* * *
34682074 ATATTGCCACT-AATATGGGCTTAGGCCCA
1 ATACTG-TACTGAAT-TGGGCTAAGGCCCA
34682103 GACTATTTTG
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
32 2 0.04
33 6 0.11
34 45 0.82
35 2 0.04
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (33 bp):
ATACTGTACTGAATTGGGCTAAGGCCCACACTG
Found at i:34688070 original size:8 final size:8
Alignment explanation
Indices: 34688057--34688089 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
34688047 GTTGGGGAGA
34688057 GGTGTAGT
1 GGTGTAGT
34688065 GGTGTAGT
1 GGTGTAGT
*
34688073 GGTGTAGA
1 GGTGTAGT
34688081 GGTGTAGT
1 GGTGTAGT
34688089 G
1 G
34688090 ATAAGGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.33
Consensus pattern (8 bp):
GGTGTAGT
Found at i:34689006 original size:34 final size:34
Alignment explanation
Indices: 34688966--34689052 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 34
34688956 TGTATTGAAT
* **
34688966 TGGGCTAAGGCCCATACTGATACTGTTACT-ATAA
1 TGGGCTAAGGCCCACACTGATACTGCCACTGAT-A
*
34689000 TGGGCTAAGGCCCACACTGATATTGCCACTGATA
1 TGGGCTAAGGCCCACACTGATACTGCCACTGATA
*
34689034 TGGGCTTAGGCCCACACTG
1 TGGGCTAAGGCCCACACTG
34689053 TTTTGCGCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 45 0.96
35 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATACTGCCACTGATA
Found at i:34693361 original size:40 final size:39
Alignment explanation
Indices: 34693270--34693532 Score: 287
Period size: 40 Copynumber: 6.6 Consensus size: 39
34693260 TCCTCGTTCA
* * * * *
34693270 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
34693309 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
34693348 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
34693388 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * *
34693428 AAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCAC
** * * * *
34693468 AAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
34693509 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34693533 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 22, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
39 38 0.19
40 147 0.75
41 11 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:34700223 original size:40 final size:39
Alignment explanation
Indices: 34700132--34700394 Score: 287
Period size: 40 Copynumber: 6.6 Consensus size: 39
34700122 TCCTCGTTCA
* * * * *
34700132 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
34700171 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
34700210 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
34700250 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * *
34700290 AAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCAC
** * * * *
34700330 AAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
34700371 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34700395 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 22, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
39 38 0.19
40 147 0.75
41 11 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:34704700 original size:6 final size:6
Alignment explanation
Indices: 34704670--34704756 Score: 70
Period size: 6 Copynumber: 14.3 Consensus size: 6
34704660 AAGAAACATT
* * *
34704670 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATTAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
34704718 ATCAAA ATCAAA ATTAG- GTGACAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA AT
34704757 GTGTATGCAA
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
5 2 0.03
6 58 0.91
7 3 0.05
8 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:34705060 original size:25 final size:25
Alignment explanation
Indices: 34705023--34705091 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
34705013 CTCTTTTAAT
* *
34705023 AACT-GGGCGAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
34705047 AACTGGGGCAAAGCTCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
34705072 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
34705092 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 4 0.10
25 35 0.90
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:34705066 original size:24 final size:24
Alignment explanation
Indices: 34705010--34705091 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
34705000 CTGGAGGCTT
* *
34705010 AGCCTCTTTTAAT-AACT-GGGCGA
1 AGCC-CTTTTGATAAACTGGGGCAA
34705033 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
* *
34705058 AGCTCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
34705083 AGCCCTTTT
1 AGCCCTTTT
34705092 AGCACTTCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
22 1 0.02
23 10 0.20
24 8 0.16
25 31 0.62
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:34705171 original size:11 final size:11
Alignment explanation
Indices: 34705123--34705187 Score: 53
Period size: 11 Copynumber: 6.1 Consensus size: 11
34705113 ACCCAACCCA
*
34705123 TGCATATAATG
1 TGCATATCATG
* *
34705134 AGTATATCATG
1 TGCATATCATG
*
34705145 TGCATCTCAT-
1 TGCATATCATG
**
34705155 AACATATCATG
1 TGCATATCATG
*
34705166 TGCATATCACG
1 TGCATATCATG
34705177 T-CATATCATG
1 TGCATATCATG
34705187 T
1 T
34705188 ATATCAAAAT
Statistics
Matches: 40, Mismatches: 13, Indels: 3
0.71 0.23 0.05
Matches are distributed among these distances:
10 16 0.40
11 24 0.60
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (11 bp):
TGCATATCATG
Found at i:34705181 original size:21 final size:21
Alignment explanation
Indices: 34705137--34705187 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
34705127 TATAATGAGT
* *
34705137 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCACAAC
**
34705158 ATATCATGTGCATATCACGTC
1 ATATCATGTGCATATCACAAC
34705179 ATATCATGT
1 ATATCATGT
34705188 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (21 bp):
ATATCATGTGCATATCACAAC
Found at i:34705495 original size:27 final size:27
Alignment explanation
Indices: 34705465--34705714 Score: 333
Period size: 27 Copynumber: 9.3 Consensus size: 27
34705455 GGGGCAAAAT
* * *
34705465 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34705492 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34705519 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34705546 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
34705573 GGTAATTCTACCCTAC-AGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
34705600 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
34705627 AGTTATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34705654 AGTAATTCTACCCTAC-AGGGCTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
34705681 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
34705708 GGTAATT
1 GGTAATT
34705715 TTACAAACCA
Statistics
Matches: 197, Mismatches: 22, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
26 6 0.03
27 183 0.93
28 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:34705601 original size:81 final size:81
Alignment explanation
Indices: 34705466--34705706 Score: 374
Period size: 81 Copynumber: 3.0 Consensus size: 81
34705456 GGGCAAAATG
* * * * * * *
34705466 GTAATTTTACCCCACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGATATTTCGGTAATTCTACC
*
34705531 CTATAAGGGTATTTCA
66 CTACAAGGGTATTTCA
34705547 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGATATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGATATTTCGGTAATTCTACC
34705612 CTACAAGGGTATTTCA
66 CTACAAGGGTATTTCA
* * * *
34705628 GTTATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGGGCTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGATATTTCGGTAATTCTACC
34705693 CTACAAGGGTATTT
66 CTACAAGGGTATTT
34705707 TGGTAATTTT
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
81 148 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGATATTTCGGTAATTCTACC
CTACAAGGGTATTTCA
Found at i:34705726 original size:27 final size:27
Alignment explanation
Indices: 34705696--34705776 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
34705686 TTCTACCCTA
34705696 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
34705723 CAAGGGTACTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** *
34705750 CAAGGGTATTTCAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
34705777 TAAAGTATTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:34705741 original size:81 final size:80
Alignment explanation
Indices: 34705494--34705741 Score: 318
Period size: 81 Copynumber: 3.1 Consensus size: 80
34705484 GGTATCTCGG
* * * * *
34705494 TAATTTTACCCTACAGGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGATATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCA
*
34705559 TACAGGGGTATTTCGG
66 TACAGGGGTATTT-GA
* *
34705575 TAATTCTACCCTACAGGGATATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTTATTCTACCT
1 TAATTCTACCCTACAGGGATATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCA
*
34705640 TACAGGGGTATTTCA
66 TACAGGGGTATTTGA
* ** *
34705655 GTAATTCTACCCTACAGGGCTATTTCGGTAATTCTACCCTACAAGGGTATTTTGGTAATTTTA-C
1 -TAATTCTACCCTACAGGGATATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
* *
34705719 AAACCAAGGGTACTTTGA
65 ATA-CAGGGGTA-TTTGA
34705737 TAATT
1 TAATT
34705742 TTACAAACCA
Statistics
Matches: 147, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
80 2 0.01
81 141 0.96
82 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (80 bp):
TAATTCTACCCTACAGGGATATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCA
TACAGGGGTATTTGA
Found at i:34709119 original size:46 final size:46
Alignment explanation
Indices: 34709052--34709144 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
34709042 CTCATTTCCA
34709052 TGTTGAATTAATATTGAACATTTAAATTATCATAATTATACTTACT
1 TGTTGAATTAATATTGAACATTTAAATTATCATAATTATACTTACT
34709098 TGTTGAATTAATATTGAACATTTAAATTATCATAATTATACTTACT
1 TGTTGAATTAATATTGAACATTTAAATTATCATAATTATACTTACT
34709144 T
1 T
34709145 TCAACACCTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (46 bp):
TGTTGAATTAATATTGAACATTTAAATTATCATAATTATACTTACT
Found at i:34711433 original size:25 final size:25
Alignment explanation
Indices: 34711405--34711460 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
34711395 ATATTTTAAA
34711405 ACAAATGCACTCAAACATACATTCC
1 ACAAATGCACTCAAACATACATTCC
34711430 ACAAATGCACTCAAACATACATTCC
1 ACAAATGCACTCAAACATACATTCC
34711455 ACAAAT
1 ACAAAT
34711461 TTGAGTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.46, C:0.30, G:0.04, T:0.20
Consensus pattern (25 bp):
ACAAATGCACTCAAACATACATTCC
Found at i:34718285 original size:40 final size:40
Alignment explanation
Indices: 34718241--34718401 Score: 207
Period size: 40 Copynumber: 4.0 Consensus size: 40
34718231 GATTTAGCCA
*
34718241 GATATAACAACTCGCACAAATGCCTTCGGGTCTTTGCCCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
*
34718281 GATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
* * * *
34718321 GATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCG
1 GATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
* ** * *
34718361 GATATAGCAACTCGCATGAATGCCTTCGGATCTTAGTCCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
34718401 G
1 G
34718402 TTATCATCCG
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 103 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:34720358 original size:26 final size:26
Alignment explanation
Indices: 34720329--34720380 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
34720319 ATATAATTTC
34720329 CAAATCATGTATC-TATATATCATGTA
1 CAAATCAT-TATCATATATATCATGTA
* *
34720355 CAAATCATTTTCATATATCTCATGTA
1 CAAATCATTATCATATATATCATGTA
34720381 AATACCTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (26 bp):
CAAATCATTATCATATATATCATGTA
Found at i:34720594 original size:25 final size:25
Alignment explanation
Indices: 34720538--34720608 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 25
34720528 ACGAGCTGTA
* ** *
34720538 AATGGTAAGCTCCTCCGAGCTAAAT
1 AATGGTAAGCTCATAAGAGCTAAAC
* * *
34720563 AACGGTAAGCTCATATGAGCTAAGC
1 AATGGTAAGCTCATAAGAGCTAAAC
* *
34720588 AATGGTAGGCTTATAAGAGCT
1 AATGGTAAGCTCATAAGAGCT
34720609 GAAATCGATA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (25 bp):
AATGGTAAGCTCATAAGAGCTAAAC
Found at i:34729217 original size:50 final size:48
Alignment explanation
Indices: 34729142--34729313 Score: 162
Period size: 50 Copynumber: 3.6 Consensus size: 48
34729132 TGCAAGTGAG
*
34729142 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTAGCATATCTGCACC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACTA-CATATCTG-ACC
* * *
34729192 GATGCCATGTCCCAGACATGGTCTTACACT-G-AC-ACATGTC-GTAGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACTACATATCTG-A-CC
* * *
34729238 GATG-CATGTCCCAAACAT-GTCTTACACTAACACT-CGTTTCAATG-CC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACTACATATC--TGACC
*
34729284 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAAACATGGTCTTACACT
34729314 GGCTCTCATA
Statistics
Matches: 102, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
44 10 0.10
45 15 0.15
46 21 0.21
47 14 0.14
48 11 0.11
49 2 0.02
50 29 0.28
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCACTACATATCTGACC
Found at i:34734567 original size:40 final size:40
Alignment explanation
Indices: 34734510--34734766 Score: 297
Period size: 40 Copynumber: 6.5 Consensus size: 40
34734500 ACCCAAGTAT
34734510 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * * *
34734549 CCTCGGGTCTTACCCCGGATATAGCAACTCGCAAAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
34734589 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * * *
34734629 CTTCGGGACATATCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
34734669 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAGTGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * *
34734709 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
34734749 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
34734767 TTATCATCCG
Statistics
Matches: 180, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 11 0.06
40 166 0.92
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:34734646 original size:80 final size:80
Alignment explanation
Indices: 34734510--34734766 Score: 376
Period size: 80 Copynumber: 3.2 Consensus size: 80
34734500 ACCCAAGTAT
* * * * *
34734510 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCCTCGGGTCTTACCCCGGATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATACCCCGGATATA
*
34734572 GCAACTCGCAAAAATGC
64 GCAACTCGCACAAATGC
*
34734589 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATATCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATACCCCGGATATAGC
34734654 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* *
34734669 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAGTGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATACCCCGGATATAGC
34734734 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* *
34734749 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
34734767 TTATCATCCG
Statistics
Matches: 164, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.07
80 151 0.92
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATACCCCGGATATAGC
AACTCGCACAAATGC
Found at i:34743075 original size:40 final size:40
Alignment explanation
Indices: 34743007--34743263 Score: 315
Period size: 40 Copynumber: 6.5 Consensus size: 40
34742997 ACCCAAGTAT
*
34743007 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
34743046 CCTCGGGTCTTAGCCCGAATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
34743086 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
34743126 CTTCAGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
34743166 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
34743206 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
34743246 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
34743264 TTATCATCCG
Statistics
Matches: 183, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.08
40 164 0.90
41 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:34743140 original size:80 final size:80
Alignment explanation
Indices: 34743007--34743263 Score: 394
Period size: 80 Copynumber: 3.2 Consensus size: 80
34742997 ACCCAAGTAT
* * * * * *
34743007 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCCTCGGGTCTTAGCCCGAATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
34743069 GCAACTCGCACAAATGC
64 GCAACTCGCACAAATGC
*
34743086 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCAGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
34743151 AACTCGCACAAATGC
66 AACTCGCACAAATGC
34743166 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
34743231 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* *
34743246 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
34743264 TTATCATCCG
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.07
80 152 0.92
81 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:34747443 original size:20 final size:21
Alignment explanation
Indices: 34747418--34747456 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34747408 GCTTTGGAGT
*
34747418 AGGGC-ACATGCCCGTGTAGA
1 AGGGCAACACGCCCGTGTAGA
34747438 AGGGCAACACGCCCGTGTA
1 AGGGCAACACGCCCGTGTA
34747457 ACCATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTAGA
Found at i:34748652 original size:46 final size:46
Alignment explanation
Indices: 34748602--34748783 Score: 149
Period size: 46 Copynumber: 3.9 Consensus size: 46
34748592 CACAGACACA
34748602 TCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATG
1 TCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATG
* * * *
34748648 TCTCG-AGGCTGATGCATGTCCCAGACATGTCTTACATTAACACT-TG
1 TCTCGTA-GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TTATG
* * * *
34748694 TCTCAATA-CCGATGCCATGTCCTAGACATAGTCTTACACTGGCTCTCA-A
1 TCTC-GTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-T-ATG
** * * *
34748743 AAT-GTGGCTGATGCATGTCCTAGACATGTCTTACACTAGCT
1 TCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
34748784 CACGCAAGTG
Statistics
Matches: 108, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
45 1 0.01
46 60 0.56
47 29 0.27
48 17 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (46 bp):
TCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATG
Found at i:34756920 original size:40 final size:40
Alignment explanation
Indices: 34756865--34757082 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
34756855 CGGATGATAA
* *
34756865 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
34756905 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34756945 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** *
34756985 ATGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34757025 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
34757065 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34757083 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 17 0.10
40 144 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:34764951 original size:40 final size:40
Alignment explanation
Indices: 34764896--34765070 Score: 257
Period size: 40 Copynumber: 4.4 Consensus size: 40
34764886 ATGATAACCA
* *
34764896 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
*
34764936 GGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
34764976 GGCTAAGTCCCGTAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
34765016 GGCTAAGTCTCGAAGGCATTTGAGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
34765055 GGCTAAGTCCCGAAGG
1 GGCTAAGTCCCGAAGG
34765071 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
39 17 0.14
40 106 0.85
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:34767834 original size:41 final size:41
Alignment explanation
Indices: 34767777--34767861 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
34767767 CGTCGTTGGA
*
34767777 ATAGGACTACAAGGCATTACCGATCAATTACATTATCCAAC
1 ATAGGACTACAAGGCATTACCGATCAATTACATTATACAAC
34767818 ATAGGACTACAAGGCATTACCGATCAATTACATTATACAAC
1 ATAGGACTACAAGGCATTACCGATCAATTACATTATACAAC
34767859 ATA
1 ATA
34767862 CATTTATCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (41 bp):
ATAGGACTACAAGGCATTACCGATCAATTACATTATACAAC
Found at i:34768386 original size:23 final size:23
Alignment explanation
Indices: 34768358--34768407 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
34768348 TTCATCTTCA
34768358 ACCATTT-CACTACTCAAATCAAT
1 ACCATTTGCAC-ACTCAAATCAAT
* *
34768381 ACCATTTGCACATTCAAATCCAT
1 ACCATTTGCACACTCAAATCAAT
34768404 ACCA
1 ACCA
34768408 ACTAGCATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.38, C:0.32, G:0.02, T:0.28
Consensus pattern (23 bp):
ACCATTTGCACACTCAAATCAAT
Found at i:34769629 original size:43 final size:43
Alignment explanation
Indices: 34769526--34769632 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 43
34769516 TATCCTGGAT
* * * * * *
34769526 ATGGTCTTACATGTTATTACATATCGATGCCACTATCCCAGAC
1 ATGGTCTTACATGTAATCACAAATCAATGCCAATATCCCAAAC
* ** *
34769569 ATGTTCTTACACATAATCA-AAATGCAATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATCACAAAT-CAATGCCAATATCCCAAAC
34769612 ATGGTCTTACATGTAATCACA
1 ATGGTCTTACATGTAATCACA
34769633 TCTTGGTAAT
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
42 3 0.06
43 45 0.92
44 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACAAATCAATGCCAATATCCCAAAC
Found at i:34771417 original size:67 final size:67
Alignment explanation
Indices: 34771337--34771473 Score: 256
Period size: 67 Copynumber: 2.0 Consensus size: 67
34771327 GCATAAATCC
34771337 ATAATATCAATGTCATCAAGTATCAAGGACTTATTCCAAATCATGTCATTTTCATAATATTCACC
1 ATAATATCAATGTCATCAAGTATCAAGGACTTATTCCAAATCATGTCATTTTCATAATATTCACC
34771402 AA
66 AA
* *
34771404 ATAATCTCAATGTCATCAAGTATCAAGGACTTATTCTAAATCATGTCATTTTCATAATATTCACC
1 ATAATATCAATGTCATCAAGTATCAAGGACTTATTCCAAATCATGTCATTTTCATAATATTCACC
34771469 AA
66 AA
34771471 ATA
1 ATA
34771474 CTATATACAT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (67 bp):
ATAATATCAATGTCATCAAGTATCAAGGACTTATTCCAAATCATGTCATTTTCATAATATTCACC
AA
Found at i:34776183 original size:40 final size:40
Alignment explanation
Indices: 34776128--34776314 Score: 304
Period size: 40 Copynumber: 4.7 Consensus size: 40
34776118 ATTTGAATGA
34776128 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
34776168 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
*
34776208 TATCCAGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
* * * *
34776248 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTT
*
34776288 TATCCGGGCTAAGACCCGAAGGCATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTT
34776315 GTGCGAGTTG
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 137 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
Found at i:34776315 original size:40 final size:40
Alignment explanation
Indices: 34776127--34776378 Score: 303
Period size: 40 Copynumber: 6.3 Consensus size: 40
34776117 CATTTGAATG
*
34776127 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* *
34776167 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* * *
34776207 TTATCCAGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* * *
34776247 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATT
* * *
34776287 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATT
* * * * * *
34776327 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
34776367 ATATCC-GGCTAA
1 ATATCCGGGCTAA
34776379 ATTCCGAAGA
Statistics
Matches: 194, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 7 0.04
40 184 0.95
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
Found at i:34786657 original size:201 final size:201
Alignment explanation
Indices: 34786308--34786675 Score: 610
Period size: 201 Copynumber: 1.8 Consensus size: 201
34786298 AAAACAGAAT
* * *
34786308 AATGTGTTTGGGCCAATGCCCAGTACAATTTCACTTGGGTCTCAGCCCTCATCAGAATCAATCAG
1 AATGTGTTTGGGCCAAAGCCCAGTACAATTTCACTTGGGTATCAGCCCTCATCAAAATCAATCAG
34786373 GCCTAGCCCATTCTCAAAATCGGTAACAGTTGGGCCTAGTCCATTAACAGAATCAGGTAGGCCTA
66 GCCTAGCCCATTCTCAAAATCGGTAACAGTTGGGCCTAGTCCATTAACAGAATCAGGTAGGCCTA
* * *
34786438 AGCCCAGTACAGAATCAGTATCAGATGTAGATATGCAGACAGATAGCTGGAGCCCATTACAATAA
131 AGCCCAATACAAAATCAGTATCAGATGCAGATATGCAGACAGATAGCTGGAGCCCATTACAATAA
34786503 CAAAAC
196 CAAAAC
* * **
34786509 AATGTGTTTGGGGCAAAGCCCAGTACAATTTCATTTGGGTATCAGCCCTCATCAAAATCAATTGG
1 AATGTGTTTGGGCCAAAGCCCAGTACAATTTCACTTGGGTATCAGCCCTCATCAAAATCAATCAG
* * * *
34786574 GCCTAGGCCATTCTCTAAATCGGTAACAGTTGGTCCTAGTCCATTAACAGAATCAGGTGGGCCTA
66 GCCTAGCCCATTCTCAAAATCGGTAACAGTTGGGCCTAGTCCATTAACAGAATCAGGTAGGCCTA
34786639 AGCCCAATACAAAATCAGTATCAGATGCAGATATGCA
131 AGCCCAATACAAAATCAGTATCAGATGCAGATATGCA
34786676 AACAAATAAC
Statistics
Matches: 153, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
201 153 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (201 bp):
AATGTGTTTGGGCCAAAGCCCAGTACAATTTCACTTGGGTATCAGCCCTCATCAAAATCAATCAG
GCCTAGCCCATTCTCAAAATCGGTAACAGTTGGGCCTAGTCCATTAACAGAATCAGGTAGGCCTA
AGCCCAATACAAAATCAGTATCAGATGCAGATATGCAGACAGATAGCTGGAGCCCATTACAATAA
CAAAAC
Found at i:34786713 original size:21 final size:22
Alignment explanation
Indices: 34786684--34786730 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
34786674 CAAACAAATA
34786684 ACCAGCCCAGT-CCAACCAACAC
1 ACCAGCCCA-TACCAACCAACAC
*
34786706 ACCA-CCCATACCAACCAACAT
1 ACCAGCCCATACCAACCAACAC
34786727 ACCA
1 ACCA
34786731 TGTAGGGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 18 0.78
22 4 0.17
ACGTcount: A:0.40, C:0.49, G:0.04, T:0.06
Consensus pattern (22 bp):
ACCAGCCCATACCAACCAACAC
Found at i:34790214 original size:22 final size:23
Alignment explanation
Indices: 34790162--34790217 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 23
34790152 CCCCATTAAT
34790162 AGAATCAGGTGGGCCTAAGCCTAGTAC
1 AGAATCAGGTGGGCCTAAGCC----AC
34790189 AGAATCAGGTGGGCCTAAGCC-C
1 AGAATCAGGTGGGCCTAAGCCAC
34790211 AGAATCA
1 AGAATCA
34790218 AATGTAGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.28
27 21 0.72
ACGTcount: A:0.32, C:0.23, G:0.29, T:0.16
Consensus pattern (23 bp):
AGAATCAGGTGGGCCTAAGCCAC
Found at i:34790664 original size:27 final size:26
Alignment explanation
Indices: 34790634--34790689 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
34790624 ACCATACAGA
34790634 GGTATTACAGTCATTTTACACAACAAG
1 GGTATTACAGTCATTTTACA-AACAAG
* * *
34790661 GGTATTTCAGTGATTTTACAAACCAG
1 GGTATTACAGTCATTTTACAAACAAG
34790687 GGT
1 GGT
34790690 CTTAACGACC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (26 bp):
GGTATTACAGTCATTTTACAAACAAG
Found at i:34793373 original size:25 final size:25
Alignment explanation
Indices: 34793308--34793373 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 25
34793298 ATGCTCATAT
* * * *
34793308 GAGCTGTA-AACGGTAAGCTCTTCT
1 GAGCTGAATAACGGTAAACTCCTCC
**
34793332 GAGCTGAATAATAGTAAACTCCTCC
1 GAGCTGAATAACGGTAAACTCCTCC
*
34793357 GAGTTGAATAACGGTAA
1 GAGCTGAATAACGGTAA
34793374 GCTTATACGA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (25 bp):
GAGCTGAATAACGGTAAACTCCTCC
Found at i:34795258 original size:12 final size:12
Alignment explanation
Indices: 34795241--34795265 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34795231 TTTAAGCTAC
34795241 CAGCATTCTTCT
1 CAGCATTCTTCT
34795253 CAGCATTCTTCT
1 CAGCATTCTTCT
34795265 C
1 C
34795266 TGCACACCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (12 bp):
CAGCATTCTTCT
Found at i:34819491 original size:18 final size:18
Alignment explanation
Indices: 34819465--34819515 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
34819455 CTCAGCCCAT
34819465 TGCAGTAACAGTAAATAA
1 TGCAGTAACAGTAAATAA
* * *
34819483 TGCAATAACAGTAATTAG
1 TGCAGTAACAGTAAATAA
34819501 TGCAGTAACAGTAAA
1 TGCAGTAACAGTAAA
34819516 CAGTATGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (18 bp):
TGCAGTAACAGTAAATAA
Found at i:34819912 original size:27 final size:27
Alignment explanation
Indices: 34819845--34820009 Score: 199
Period size: 27 Copynumber: 6.1 Consensus size: 27
34819835 ATTTCAACCA
* * *
34819845 TTTACCACATAAGGGCAAAACAGTCA-
1 TTTACCTCAAAAGGGCAAAACAATCAT
* * *
34819871 TTTCCCTCAAAAGGGCGAAACACA-CGT
1 TTTACCTCAAAAGGGCAAAACA-ATCAT
* * *
34819898 TTTACCTCAAAAGGGAAAAACAGTTAT
1 TTTACCTCAAAAGGGCAAAACAATCAT
34819925 TTTACCTCAAAAGGGCAAAACAATCAT
1 TTTACCTCAAAAGGGCAAAACAATCAT
* * *
34819952 TTTATCTCAAAAGGGGAAAATAATCAT
1 TTTACCTCAAAAGGGCAAAACAATCAT
34819979 TTTACCTCAAAAGGGCAAAACAATCAT
1 TTTACCTCAAAAGGGCAAAACAATCAT
34820006 TTTA
1 TTTA
34820010 TCAATTTGGG
Statistics
Matches: 115, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
26 19 0.17
27 96 0.83
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (27 bp):
TTTACCTCAAAAGGGCAAAACAATCAT
Found at i:34822449 original size:48 final size:48
Alignment explanation
Indices: 34822248--34822469 Score: 170
Period size: 48 Copynumber: 4.7 Consensus size: 48
34822238 GATATCTAAT
* * * *
34822248 CCCATGTAAGATCATGTCTGAGACATGGCATTGGCATCGTTATGTGAT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGAC
* * ***
34822296 CCCATATAAGACCATGTCTGGGACATGGTATTGGCATCGATATAAAAAC
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAT-GTGAC
** * * * *
34822345 ATCGTGCAAGACCAT-TGCTGGG-CTAT--CA---GCTTCGATATGTGTGAT
1 CCCATGTAAGACCATGT-CTGGGAC-ATGGCATTGGCATCGATA--TGTGAC
*
34822390 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGGC
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGAC
* * * *
34822438 CCCATATAAGACCATATCTGAGATATGGCATT
1 CCCATGTAAGACCATGTCTGGGACATGGCATT
34822470 TCTACCCTAC
Statistics
Matches: 131, Mismatches: 31, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
44 8 0.06
45 19 0.15
46 3 0.02
47 3 0.02
48 72 0.55
49 18 0.14
50 8 0.06
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (48 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGAC
Found at i:34823678 original size:31 final size:31
Alignment explanation
Indices: 34823640--34823709 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
34823630 AAGCCACAGT
*
34823640 GGCGTGTGTGACCACACGACCTACCCACGTG
1 GGCGTGTGTGACCACACGACCTACCCACGCG
34823671 GGCGTGTGTGACCACACGACCTACCCACGCG
1 GGCGTGTGTGACCACACGACCTACCCACGCG
34823702 GGCGTGTG
1 GGCGTGTG
34823710 ACTCTCTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (31 bp):
GGCGTGTGTGACCACACGACCTACCCACGCG
Found at i:34829869 original size:48 final size:48
Alignment explanation
Indices: 34829796--34829920 Score: 128
Period size: 48 Copynumber: 2.6 Consensus size: 48
34829786 GGGATAACGA
* * * *
34829796 GATCCCCTATAAGACCATATCTGGGATATGGCATCGTCATCGA-TATAT
1 GATCCCATATAAGACCATATCTGGGACATGACATCGGCATC-ATTATAT
* * * * *
34829844 GATCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATTATGT
1 GATCCCATATAAGACCATATCTGGGACATGACATCGGCATCATTATAT
*
34829892 GATCCCATATAAGACTATGA-CTGGGACAT
1 GATCCCATATAAGACCAT-ATCTGGGACAT
34829921 TGCATTGGCA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
47 1 0.02
48 61 0.98
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (48 bp):
GATCCCATATAAGACCATATCTGGGACATGACATCGGCATCATTATAT
Found at i:34831739 original size:30 final size:29
Alignment explanation
Indices: 34831702--34831772 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
34831692 GGCTATTGAT
*
34831702 TATGAAAAGGGATGGTGACGACAATCGAA
1 TATGAAAAGGGATAGTGACGACAATCGAA
** * *
34831731 TAATGAAAAGGGATAGTTTCGGCCATCGAA
1 T-ATGAAAAGGGATAGTGACGACAATCGAA
34831761 TATGAAAAGGGA
1 TATGAAAAGGGA
34831773 CATTATGATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 12 0.33
30 24 0.67
ACGTcount: A:0.41, C:0.10, G:0.30, T:0.20
Consensus pattern (29 bp):
TATGAAAAGGGATAGTGACGACAATCGAA
Found at i:34833362 original size:25 final size:25
Alignment explanation
Indices: 34833334--34833412 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
34833324 TATTTTGTTA
*
34833334 TGGTATGAATCTAAATTGTTAAGGT
1 TGGTATGAATCTAAATTGGTAAGGT
** * ** *
34833359 TGGTATGTGTCAAAAGCGGT-ATGT
1 TGGTATGAATCTAAATTGGTAAGGT
34833383 T--TATGAATCTAAATTGGTAAGGT
1 TGGTATGAATCTAAATTGGTAAGGT
34833406 TGGTATG
1 TGGTATG
34833413 TGTCAAAAGC
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
22 12 0.32
23 4 0.11
24 4 0.11
25 18 0.47
ACGTcount: A:0.29, C:0.05, G:0.28, T:0.38
Consensus pattern (25 bp):
TGGTATGAATCTAAATTGGTAAGGT
Found at i:34833406 original size:47 final size:47
Alignment explanation
Indices: 34833337--34833431 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
34833327 TTTGTTATGG
*
34833337 TATGAATCTAAATTGTTAAGGTTGGTATGTGTCAAAAGCGGTATGTT
1 TATGAATCTAAATTGGTAAGGTTGGTATGTGTCAAAAGCGGTATGTT
34833384 TATGAATCTAAATTGGTAAGGTTGGTATGTGTCAAAAGCGGTATGTT
1 TATGAATCTAAATTGGTAAGGTTGGTATGTGTCAAAAGCGGTATGTT
34833431 T
1 T
34833432 TGGTATGGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.38
Consensus pattern (47 bp):
TATGAATCTAAATTGGTAAGGTTGGTATGTGTCAAAAGCGGTATGTT
Found at i:34833426 original size:25 final size:25
Alignment explanation
Indices: 34833353--34833426 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 25
34833343 TCTAAATTGT
34833353 TAAGGTTGGTATGTGTCAAAAGCGG
1 TAAGGTTGGTATGTGTCAAAAGCGG
* ** * **
34833378 T-ATGTT--TATGAATCTAAATTGG
1 TAAGGTTGGTATGTGTCAAAAGCGG
34833400 TAAGGTTGGTATGTGTCAAAAGCGG
1 TAAGGTTGGTATGTGTCAAAAGCGG
34833425 TA
1 TA
34833427 TGTTTTGGTA
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
22 12 0.35
23 4 0.12
24 4 0.12
25 14 0.41
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.34
Consensus pattern (25 bp):
TAAGGTTGGTATGTGTCAAAAGCGG
Found at i:34857633 original size:29 final size:27
Alignment explanation
Indices: 34857615--34857684 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
34857605 ATATTAAGTC
34857615 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
34857642 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
34857670 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
34857685 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:34857678 original size:28 final size:28
Alignment explanation
Indices: 34857615--34857712 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
34857605 ATATTAAGTC
*
34857615 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
34857642 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34857670 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
34857699 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34857713 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34863525 original size:13 final size:14
Alignment explanation
Indices: 34863504--34863536 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34863494 TTTCTTAATG
34863504 AAATATATTAAA-AT
1 AAAT-TATTAAATAT
34863518 AAATTATTAAATAT
1 AAATTATTAAATAT
34863532 AAATT
1 AAATT
34863537 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:34867238 original size:58 final size:56
Alignment explanation
Indices: 34867176--34867289 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
34867166 AACAACAAAT
* * **
34867176 GCATCCTTTTAACAGAGATAGCCATAAAGGCGTCCTTTTAACAGTGATAGCCATAAAG
1 GCATCCTTTTAACAAAGATA-CCAAAAAGGCGTCC-TTTAACAAAGATAGCCATAAAG
*
34867234 GCATCCTTTTAACAAAGATACCAAAAAGGCGTCCTTTAACAAAGATCGCCATAAAG
1 GCATCCTTTTAACAAAGATACCAAAAAGGCGTCCTTTAACAAAGATAGCCATAAAG
34867290 AATTCCCTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 19 0.37
57 13 0.25
58 19 0.37
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.24
Consensus pattern (56 bp):
GCATCCTTTTAACAAAGATACCAAAAAGGCGTCCTTTAACAAAGATAGCCATAAAG
Found at i:34867301 original size:56 final size:58
Alignment explanation
Indices: 34867178--34867302 Score: 148
Period size: 56 Copynumber: 2.2 Consensus size: 58
34867168 CAACAAATGC
* * * ** *
34867178 ATCCTTTTAACAGAGATAGCCATAAAGGCGTCCTTTTAACAGTGATAGCCATAAAGGC
1 ATCCCTTTAACAAAGATAGCCAAAAAGGCGTCCTTTTAACAAAGATAGCCATAAAGGA
* *
34867236 ATCCTTTTAACAAAGATA-CCAAAAAGGCGTCC-TTTAACAAAGATCGCCATAAA-GA
1 ATCCCTTTAACAAAGATAGCCAAAAAGGCGTCCTTTTAACAAAGATAGCCATAAAGGA
34867291 ATTCCCTTTAAC
1 A-TCCCTTTAAC
34867303 GGAGATCGCC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
55 2 0.03
56 27 0.46
57 13 0.22
58 17 0.29
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (58 bp):
ATCCCTTTAACAAAGATAGCCAAAAAGGCGTCCTTTTAACAAAGATAGCCATAAAGGA
Found at i:34867368 original size:58 final size:56
Alignment explanation
Indices: 34867295--34867432 Score: 143
Period size: 57 Copynumber: 2.4 Consensus size: 56
34867285 TAAAGAATTC
* ** *
34867295 CCTTTAACGGAGATCGCCACAAAGACTTCTTTTGAATGGAGATCA-CCACAAAAACTT
1 CCTTTAACAGAGATCGCCACAAAGAC-TCCCTTGAATAGAGAT-AGCCACAAAAACTT
* * * * **
34867352 CATTTTAACAGAGATCGCCGCAAAGGCTCCCTTGAATAGAGATAGCTACAAAGGCTT
1 C-CTTTAACAGAGATCGCCACAAAGACTCCCTTGAATAGAGATAGCCACAAAAACTT
*
34867409 CCTTTAACAGAGATAGCCACAAAG
1 CCTTTAACAGAGATCGCCACAAAG
34867433 GCTCACTTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
56 21 0.32
57 24 0.36
58 21 0.32
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (56 bp):
CCTTTAACAGAGATCGCCACAAAGACTCCCTTGAATAGAGATAGCCACAAAAACTT
Found at i:34867441 original size:28 final size:28
Alignment explanation
Indices: 34867139--34867435 Score: 188
Period size: 29 Copynumber: 10.4 Consensus size: 28
34867129 AATAGAGTTT
*
34867139 GCCAC-AAGGCTTTCATTTAACTA-AGATA
1 GCCACAAAGGC-TTCCTTTAAC-AGAGATA
* * * *
34867167 ACAACAAATGCATCCTTTTAACAGAGATA
1 GCCACAAAGGCTTCC-TTTAACAGAGATA
* * *
34867196 GCCATAAAGGCGTCCTTTTAACAGTGATA
1 GCCACAAAGGCTTCC-TTTAACAGAGATA
* * *
34867225 GCCATAAAGGCATCCTTTTAACAAAGATA
1 GCCACAAAGGCTTCC-TTTAACAGAGATA
* * * *
34867254 -CCAAAAAGGCGTCCTTTAACAAAGATC
1 GCCACAAAGGCTTCCTTTAACAGAGATA
* ** * *
34867281 GCCATAAAGAATTCCCTTTAACGGAGATC
1 GCCACAAAGGCTT-CCTTTAACAGAGATA
* * **
34867310 GCCACAAAGACTTCTTTTGAATGGAGATCA
1 GCCACAAAGGCTTCCTTT-AACAGAGAT-A
** * *
34867340 -CCACAAAAACTTCATTTTAACAGAGATC
1 GCCACAAAGGCTTC-CTTTAACAGAGATA
* * * *
34867368 GCCGCAAAGGCTCCCTTGAATAGAGATA
1 GCCACAAAGGCTTCCTTTAACAGAGATA
*
34867396 GCTACAAAGGCTTCCTTTAACAGAGATA
1 GCCACAAAGGCTTCCTTTAACAGAGATA
34867424 GCCACAAAGGCT
1 GCCACAAAGGCT
34867436 CACTTTTATG
Statistics
Matches: 214, Mismatches: 46, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
27 12 0.06
28 74 0.35
29 124 0.58
30 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (28 bp):
GCCACAAAGGCTTCCTTTAACAGAGATA
Found at i:34867459 original size:56 final size:56
Alignment explanation
Indices: 34867355--34867462 Score: 135
Period size: 56 Copynumber: 1.9 Consensus size: 56
34867345 AAAACTTCAT
* * * * *
34867355 TTTAACAGAGATCGCCGCAAAGGCTCCCTTGAATAGAGATAGCTACAAAGGCTTCC
1 TTTAACAGAGATAGCCACAAAGGCTCACTTGAATAGAAATAGCAACAAAGGCTTCC
** * *
34867411 TTTAACAGAGATAGCCACAAAGGCTCACTTTTATGGAAATGGCAACAAAGGC
1 TTTAACAGAGATAGCCACAAAGGCTCACTTGAATAGAAATAGCAACAAAGGC
34867463 ACTTCTTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 43 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (56 bp):
TTTAACAGAGATAGCCACAAAGGCTCACTTGAATAGAAATAGCAACAAAGGCTTCC
Found at i:34873439 original size:20 final size:20
Alignment explanation
Indices: 34873414--34873454 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
34873404 ATTTTGGTTC
34873414 AAAAATTAAAAAATTGATTA
1 AAAAATTAAAAAATTGATTA
*
34873434 AAAAATTAAAAAATTGGTTA
1 AAAAATTAAAAAATTGATTA
34873454 A
1 A
34873455 TGAGGTGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAAATTAAAAAATTGATTA
Done.