Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 128 of 259
Found at i:41368303 original size:20 final size:21
Alignment explanation
Indices: 41368258--41368304 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
41368248 TAATTTTATA
*
41368258 TTTTTACGACTTTTTATAAAT
1 TTTTTACAACTTTTTATAAAT
41368279 TTTTTACAAC-TTTTAT-AAT
1 TTTTTACAACTTTTTATAAAT
41368298 TCTTTTA
1 T-TTTTA
41368305 TGATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 11 0.46
21 9 0.38
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTTACAACTTTTTATAAAT
Found at i:41368342 original size:23 final size:24
Alignment explanation
Indices: 41368289--41368344 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
41368279 TTTTTACAAC
*
41368289 TTTTATAATTCTTTTATGATTTTT
1 TTTTATAATTCTTCTATGATTTTT
* *
41368313 TTCTATAGTT-TTCTAT-ATTTTT
1 TTTTATAATTCTTCTATGATTTTT
41368335 ATTTTATAAT
1 -TTTTATAAT
41368345 GATTTTATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 6 0.23
23 12 0.46
24 8 0.31
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.68
Consensus pattern (24 bp):
TTTTATAATTCTTCTATGATTTTT
Found at i:41368352 original size:16 final size:17
Alignment explanation
Indices: 41368327--41368366 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
41368317 ATAGTTTTCT
41368327 ATATTTT-TATTTTATA
1 ATATTTTATATTTTATA
41368343 ATGATTTTATATTTTATA
1 AT-ATTTTATATTTTATA
41368361 ATATTT
1 ATATTT
41368367 ATACATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 9 0.41
18 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
ATATTTTATATTTTATA
Found at i:41368425 original size:11 final size:11
Alignment explanation
Indices: 41368406--41368436 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
41368396 ATTTTTCTCT
*
41368406 ATTTTAAATAA
1 ATTTAAAATAA
41368417 ATTTAAAATAA
1 ATTTAAAATAA
41368428 ATTTAAAAT
1 ATTTAAAAT
41368437 TTTTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATTTAAAATAA
Found at i:41368969 original size:16 final size:16
Alignment explanation
Indices: 41368950--41369021 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 16
41368940 ATTATTTAAT
41368950 ATTTTTATACGTTTCA
1 ATTTTTATACGTTTCA
*
41368966 ATTTTTATTATGCATTT-A
1 ATTTTTA-TA--CGTTTCA
* *
41368984 ATTTAT-TA--TTTAA
1 ATTTTTATACGTTTCA
41368997 TATTTTTATACGTTTCA
1 -ATTTTTATACGTTTCA
41369014 ATTTTTAT
1 ATTTTTAT
41369022 TATTCATACT
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
12 3 0.07
13 1 0.02
14 5 0.11
15 2 0.05
16 17 0.39
17 6 0.14
18 6 0.14
19 4 0.09
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (16 bp):
ATTTTTATACGTTTCA
Found at i:41368984 original size:48 final size:48
Alignment explanation
Indices: 41368931--41369024 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
41368921 TTAATAAAAT
41368931 ATTTAATTTATTATTTAATATTTTTATACGTTTCAATTTTTATTATGC
1 ATTTAATTTATTATTTAATATTTTTATACGTTTCAATTTTTATTATGC
41368979 ATTTAATTTATTATTTAATATTTTTATACGTTTCAATTTTTATTAT
1 ATTTAATTTATTATTTAATATTTTTATACGTTTCAATTTTTATTAT
41369025 TCATACTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (48 bp):
ATTTAATTTATTATTTAATATTTTTATACGTTTCAATTTTTATTATGC
Found at i:41369446 original size:3 final size:3
Alignment explanation
Indices: 41369438--41369483 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
41369428 ATGCCCCATC
41369438 TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
41369484 TCTGTAACTA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:41373612 original size:46 final size:44
Alignment explanation
Indices: 41373544--41373662 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 44
41373534 AATGTGTGCT
* **
41373544 AGTGTAAGACATGTCTGAGACATGCATCGGCCACATT-TTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCAT---CCACATTGACGAGAGCC
* *
41373590 AGTGTAAGACATGTCTGGGACATGCATCCGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCCACATT--GACGAGAGCC
41373636 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
41373663 TAGCCTCGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
43 6 0.09
46 59 0.91
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCCACATTGACGAGAGCC
Found at i:41373796 original size:49 final size:49
Alignment explanation
Indices: 41373582--41373850 Score: 175
Period size: 49 Copynumber: 5.7 Consensus size: 49
41373572 GGCCACATTT
* * **
41373582 TGAGAGCCAGTGTAAGACATGTCTGGGACAT-GCATCCGCATTG--AGA
1 TGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAGCACCGATAGA
* * * * * *
41373628 CGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATTAGC-CTCGAGATA
1 TGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAGCAC-CGATAGA
* * * * *
41373676 T-ACAAGCTAGTGTAAGACCTGTCTGGGACATGGCGTCAG---C--TTGT
1 TGA-GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAGCACCGATAGA
* * * * * * *
41373720 TGTGTGTCAATGTAAGACCTATTTGGGACATGGCATCAACACCGATAGA
1 TGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAGCACCGATAGA
*** *
41373769 TGAGAGCCAGTGTAAGACCTGTCTGGGACACATCATCAGC-CTCGATATA
1 TGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAGCAC-CGATAGA
* *
41373818 TGAAAGTCAGTGTAAGACCTGTCTGGGACATGG
1 TGAGAGCCAGTGTAAGACCTGTCTGGGACATGG
41373851 AACCGACTTT
Statistics
Matches: 167, Mismatches: 44, Indels: 21
0.72 0.19 0.09
Matches are distributed among these distances:
44 28 0.17
46 37 0.22
47 2 0.01
48 29 0.17
49 71 0.43
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
TGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAGCACCGATAGA
Found at i:41375843 original size:21 final size:21
Alignment explanation
Indices: 41375817--41375856 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
41375807 CTAGCCACAT
41375817 GCCCGTGTGCCATGGCCGTAC
1 GCCCGTGTGCCATGGCCGTAC
*
41375838 GCCCGTGTGTCATGGCCGT
1 GCCCGTGTGCCATGGCCGT
41375857 GTTGACATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.35, G:0.35, T:0.23
Consensus pattern (21 bp):
GCCCGTGTGCCATGGCCGTAC
Found at i:41377033 original size:15 final size:14
Alignment explanation
Indices: 41377006--41377037 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
41376996 GTTTTTAGCT
41377006 TAATTTTTCTTTTC
1 TAATTTTTCTTTTC
41377020 TAATTTTTCTTTT-
1 TAATTTTTCTTTTC
41377033 TAATT
1 TAATT
41377038 GCTTCTAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (14 bp):
TAATTTTTCTTTTC
Found at i:41382991 original size:27 final size:26
Alignment explanation
Indices: 41382960--41383021 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
41382950 AATTACTAGA
* * *
41382960 ATACCCTTAAGTAGGAAAATTATCGTT
1 ATACCCCTAAGT-GCAAAATGATCGTT
* *
41382987 TTACCCCTAGGTGCAAAATGATCGTT
1 ATACCCCTAAGTGCAAAATGATCGTT
41383013 ATACCCCTA
1 ATACCCCTA
41383022 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 20 0.69
27 9 0.31
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (26 bp):
ATACCCCTAAGTGCAAAATGATCGTT
Found at i:41383354 original size:20 final size:20
Alignment explanation
Indices: 41383324--41383368 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
41383314 CTGTTTTATT
41383324 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
41383343 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
41383363 ATGGGC
1 ATGGGC
41383369 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:41383510 original size:27 final size:28
Alignment explanation
Indices: 41383458--41383510 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
41383448 TATTGTAATA
* * *
41383458 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
41383486 GGGCTAAGGCCCA-ATTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
41383511 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:41383524 original size:62 final size:61
Alignment explanation
Indices: 41383389--41383533 Score: 161
Period size: 61 Copynumber: 2.4 Consensus size: 61
41383379 ATATCTCGAC
* * * *
41383389 TTGTAATAGGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTCTGATA
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
* * *
41383450 TTGTAATAGGGCTATGGCCCAGATTAATATTGATATGGGCTAAGGCCCAAT-TAACACTGAT-
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACACTGATA
*
41383511 TTCTGAATAGGGCT-TAGGCCCAG
1 TTGT-AATAGGGCTAT-GGCCCAG
41383534 TAAGGCTTGA
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
61 42 0.58
62 30 0.42
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (61 bp):
TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
Found at i:41392164 original size:28 final size:29
Alignment explanation
Indices: 41392128--41392184 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
41392118 TATGATTGGA
*
41392128 ATATCTG-AAACTAATTTAGGTAGTGTACC
1 ATATCTGAAAAC-AATCTAGGTAGTGTACC
*
41392157 ATAT-TGAAAACACTCTAGGTAGTGTACC
1 ATATCTGAAAACAATCTAGGTAGTGTACC
41392185 GCTTGCAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (29 bp):
ATATCTGAAAACAATCTAGGTAGTGTACC
Found at i:41397156 original size:3 final size:3
Alignment explanation
Indices: 41397150--41397187 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
41397140 AACATTTATT
41397150 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
41397188 TATTATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:41400747 original size:40 final size:40
Alignment explanation
Indices: 41400692--41400962 Score: 411
Period size: 40 Copynumber: 6.8 Consensus size: 40
41400682 GGATATAGCT
* * *
41400692 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
41400732 ACTCGTACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
41400772 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
41400812 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
41400852 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
41400892 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
41400931 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
41400963 TTATCATCCA
Statistics
Matches: 214, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 33 0.15
40 179 0.84
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:41413676 original size:26 final size:26
Alignment explanation
Indices: 41413633--41413708 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
41413623 TCTCATCCTT
* * *
41413633 ATTTTACCCTTAGCAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGACG
41413659 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
41413685 ATTTTTCCCCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
41413709 GAAAATATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:41416819 original size:48 final size:46
Alignment explanation
Indices: 41416758--41416866 Score: 182
Period size: 48 Copynumber: 2.3 Consensus size: 46
41416748 GATGTTTCAT
41416758 TGGGTAATACAAAAGATGTGAAATATAGAATTGATGAGTTACGAAA
1 TGGGTAATACAAAAGATGTGAAATATAGAATTGATGAGTTACGAAA
* *
41416804 TGAGCTTAATACAAAAGATGTGAAATATAGAATTGATGAGTTACGAAT
1 TG-G-GTAATACAAAAGATGTGAAATATAGAATTGATGAGTTACGAAA
41416852 TGGGTAATACAAAAG
1 TGGGTAATACAAAAG
41416867 GTGGAATGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
46 13 0.22
47 2 0.03
48 43 0.74
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.27
Consensus pattern (46 bp):
TGGGTAATACAAAAGATGTGAAATATAGAATTGATGAGTTACGAAA
Found at i:41418680 original size:19 final size:19
Alignment explanation
Indices: 41418653--41418691 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
41418643 TGTTTAGAAG
41418653 CTTAATTCTTCAAGCAATT
1 CTTAATTCTTCAAGCAATT
*
41418672 CTTAGTTCTTCAAGCAATT
1 CTTAATTCTTCAAGCAATT
41418691 C
1 C
41418692 GCTAAAGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (19 bp):
CTTAATTCTTCAAGCAATT
Found at i:41420530 original size:39 final size:39
Alignment explanation
Indices: 41420476--41420599 Score: 185
Period size: 39 Copynumber: 3.2 Consensus size: 39
41420466 ATTTGATGTG
* *
41420476 TATCCGGACTTAGGGTCCGTAGGCTATATGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
41420515 TATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * *
41420554 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
41420593 TGTCCGG
1 TATCCGG
41420600 GCTAAAGTCC
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:41420613 original size:39 final size:39
Alignment explanation
Indices: 41420476--41420626 Score: 142
Period size: 39 Copynumber: 3.9 Consensus size: 39
41420466 ATTTGATGTG
** * ** *
41420476 TATCCGGACTTAGGGTCCGTAGGCTATATGCTGGAATTA
1 TATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATA
* ** * *
41420515 TATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATA
*
41420554 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATA
* * * *
41420593 TGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGG
1 TATCCGGACTTAAAGT-CCGCAGGCTACGTGCTGG
41420627 TATTATACCG
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
38 5 0.05
39 94 0.95
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.26
Consensus pattern (39 bp):
TATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATA
Found at i:41420626 original size:78 final size:78
Alignment explanation
Indices: 41420476--41420637 Score: 177
Period size: 78 Copynumber: 2.1 Consensus size: 78
41420466 ATTTGATGTG
* * * * **
41420476 TATCCGGACTTAGGGTCCGTAGGCTATATGCTGGAATTATATCCAGACTTAGGGTCCGCAGGCTA
1 TATCCGGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCAGACTTAAAGTCCGCAGGCTA
*
41420541 TGTGCTGGAATTA
66 TGAGCTGGAATTA
* * * *
41420554 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATCCGGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCAGACTTAAAGT-CCGCAGGCT
*
41420618 -TCGAGCTGGTATTA
65 AT-GAGCTGGAATTA
41420632 TA-CCGG
1 TATCCGG
41420638 GTTTAAATTC
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
77 9 0.13
78 61 0.87
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (78 bp):
TATCCGGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCAGACTTAAAGTCCGCAGGCTA
TGAGCTGGAATTA
Found at i:41421797 original size:24 final size:24
Alignment explanation
Indices: 41421741--41421811 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
41421731 GGACTCACTC
*
41421741 AGCTCGTATGAGCTTACTGATATATT
1 AGCTCGTAAGAGCTTACTG-T-TATT
* *
41421767 AGTTCGTAAGAGCTTACTGTTCTT
1 AGCTCGTAAGAGCTTACTGTTATT
* *
41421791 AGCTCGTCAGAGCTTAATGTT
1 AGCTCGTAAGAGCTTACTGTT
41421812 TCAGCTCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 21 0.54
25 1 0.03
26 17 0.44
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACTGTTATT
Found at i:41425719 original size:15 final size:15
Alignment explanation
Indices: 41425698--41425740 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
41425688 GCTTGAACTT
*
41425698 ACCTTTTCGTCGATA
1 ACCTTTTCATCGATA
* *
41425713 GCCTTTTCATTGATA
1 ACCTTTTCATCGATA
41425728 ACCTTTTCATCGA
1 ACCTTTTCATCGA
41425741 AAATGTAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.42
Consensus pattern (15 bp):
ACCTTTTCATCGATA
Found at i:41430356 original size:31 final size:32
Alignment explanation
Indices: 41430313--41430379 Score: 118
Period size: 31 Copynumber: 2.1 Consensus size: 32
41430303 CAAACTTACA
*
41430313 TGAGAAAAGAAAACCATCATATAATTTGAGCT
1 TGAGAAAAGAAAACCATCATACAATTTGAGCT
41430345 TGAG-AAAGAAAACCATCATACAATTTGAGCT
1 TGAGAAAAGAAAACCATCATACAATTTGAGCT
41430376 TGAG
1 TGAG
41430380 CTTCCACTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (32 bp):
TGAGAAAAGAAAACCATCATACAATTTGAGCT
Found at i:41435709 original size:15 final size:15
Alignment explanation
Indices: 41435686--41435719 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
41435676 CACACAGTAC
*
41435686 TCATCGATAACCTTT
1 TCATAGATAACCTTT
41435701 TCATAGATAACCTTT
1 TCATAGATAACCTTT
41435716 TCAT
1 TCAT
41435720 CCTTTCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (15 bp):
TCATAGATAACCTTT
Found at i:41439049 original size:25 final size:25
Alignment explanation
Indices: 41438982--41439078 Score: 95
Period size: 25 Copynumber: 3.8 Consensus size: 25
41438972 CATTCTGACC
** *
41438982 TATAGCTCGTGTGAGCAGGCCCATTT
1 TATAGCTCGTGTGAGCA-TACCAATT
*
41439008 TCATAGCTCATGTGAGCATACCAATT
1 T-ATAGCTCGTGTGAGCATACCAATT
* *
41439034 TATAGCTCGTGAGAGCATACCGATT
1 TATAGCTCGTGTGAGCATACCAATT
* * *
41439059 TACAACTTGTGTGAGCATAC
1 TATAGCTCGTGTGAGCATAC
41439079 ATGTACAGGA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
25 37 0.63
26 7 0.12
27 15 0.25
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (25 bp):
TATAGCTCGTGTGAGCATACCAATT
Found at i:41443895 original size:27 final size:27
Alignment explanation
Indices: 41443864--41444041 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41443854 TAAATTGTAC
41443864 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
41443891 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
41443917 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
41443945 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
41443973 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
41444000 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
41444027 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
41444042 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:41443978 original size:82 final size:81
Alignment explanation
Indices: 41443865--41444020 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41443855 AAATTGTACA
* *
41443865 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
41443929 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
41443946 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
41444011 TGCGAGTTGA
65 TGCGAATTGA
41444021 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:41444032 original size:82 final size:81
Alignment explanation
Indices: 41443861--41444041 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
41443851 GATTAAATTG
* *
41443861 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
41443926 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
41443942 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
41444006 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
41444024 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
41444042 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:41455264 original size:34 final size:33
Alignment explanation
Indices: 41455211--41455275 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
41455201 ATGCATTTCT
*
41455211 GATACTATACTGAAATGGGCTAAGGCCCACACC
1 GATACTATACTGAAATGGGCTAAAGCCCACACC
* *
41455244 GATACTATTACTGTATTGGGCTAAAGCCCACA
1 GATACTA-TACTGAAATGGGCTAAAGCCCACA
41455276 TTGATATTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (33 bp):
GATACTATACTGAAATGGGCTAAAGCCCACACC
Found at i:41471348 original size:40 final size:40
Alignment explanation
Indices: 41471249--41471479 Score: 277
Period size: 40 Copynumber: 5.8 Consensus size: 40
41471239 TGGATGAAAA
* ** * *
41471249 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * * *
41471288 CCAGGCTAAGTCCCGGAGGCATCTGTGCGAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
41471328 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
41471368 CCGGGCTAAGTCCCGAAGGAATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
41471408 CCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
41471448 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
41471480 AGTTATATCC
Statistics
Matches: 164, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 30 0.18
40 132 0.80
41 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:41471464 original size:120 final size:119
Alignment explanation
Indices: 41471249--41471477 Score: 311
Period size: 120 Copynumber: 1.9 Consensus size: 119
41471239 TGGATGAAAA
* *
41471249 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACTAATCCAGGCTAAGTCCCGGAGGCATCTGT
1 CCGGGCTAAGTCCCGAAGGAATCTGCACTAGTGACTAATCCAGGCTAAGTCCCGAAGGCATCTGT
* *
41471314 GCGAGTTACTAAACCCGGGCTAAGTTCCGAAGGCATTTGTGCGAATTACTAAAT
66 GCGAGTTACTAAACCCGGGCTAAGTCCCGAAGGCATTTGAGCGAATTACTAAAT
* ** *
41471368 CCGGGCTAAGTCCCGAAGGAATTTG-TGTGAGTTACTAAATCCAGGCTAAGTCCCGAAGGCAAT-
1 CCGGGCTAAGTCCCGAAGGAATCTGCACT-AGTGACT-AATCCAGGCTAAGTCCCGAAGGC-ATC
* *
41471431 TGTGCGAGTTACTCTAA-CCGGGCTATGTCCCGAAGGCATTTGAGCGA
63 TGTGCGAGTTACT-AAACCCGGGCTAAGTCCCGAAGGCATTTGAGCGA
41471478 GTAGTTATAT
Statistics
Matches: 96, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
118 1 0.01
119 29 0.30
120 62 0.65
121 4 0.04
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGAATCTGCACTAGTGACTAATCCAGGCTAAGTCCCGAAGGCATCTGT
GCGAGTTACTAAACCCGGGCTAAGTCCCGAAGGCATTTGAGCGAATTACTAAAT
Found at i:41473014 original size:30 final size:29
Alignment explanation
Indices: 41472980--41473037 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
41472970 CTTTTGAAAA
* *
41472980 TATTTACAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGA-GCAACTAAATTTTAT
*
41473010 TATTTACGAAAAGAGCAACTAAATTTTA
1 TATTTACAAAAAGAGCAACTAAATTTTA
41473038 AAAATAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (29 bp):
TATTTACAAAAAGAGCAACTAAATTTTAT
Found at i:41481948 original size:16 final size:16
Alignment explanation
Indices: 41481927--41481959 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
41481917 ATAAAGTTTA
41481927 TTTTCATTTTCATTTT
1 TTTTCATTTTCATTTT
*
41481943 TTTTCATTTTCCTTTT
1 TTTTCATTTTCATTTT
41481959 T
1 T
41481960 AATTGGTTAC
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:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTCATTTTCATTTT
Found at i:41483731 original size:22 final size:22
Alignment explanation
Indices: 41483704--41483799 Score: 120
Period size: 22 Copynumber: 4.4 Consensus size: 22
41483694 CACTAAGTTA
41483704 ACAGGACGGCTCAACGCCGTAG
1 ACAGGACGGCTCAACGCCGTAG
* * *
41483726 ATAGGACTGCTCAACGCCATAG
1 ACAGGACGGCTCAACGCCGTAG
* *
41483748 ACAGGACGACTCAACGCAGTAG
1 ACAGGACGGCTCAACGCCGTAG
* * *
41483770 ACAGAATGGCTCAACACCGTAG
1 ACAGGACGGCTCAACGCCGTAG
41483792 ACAGGACG
1 ACAGGACG
41483800 ACTGAAGGTC
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 59 1.00
ACGTcount: A:0.33, C:0.28, G:0.27, T:0.11
Consensus pattern (22 bp):
ACAGGACGGCTCAACGCCGTAG
Found at i:41494472 original size:43 final size:43
Alignment explanation
Indices: 41494411--41494512 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
41494401 AATTCCAACG
* *
41494411 TCCCAGAC-GTGGTCTTACATGTAA-TTCAGTATCGAAGCCTCTA
1 TCCCAGACAG-GGTCTTACATGAAATTTCA-AATCGAAGCCTCTA
* * *
41494454 TCCCAGACAGGGTCTTACATGAAATTTCAAATCGAGGCCTGTG
1 TCCCAGACAGGGTCTTACATGAAATTTCAAATCGAAGCCTCTA
*
41494497 TCCCAGACACGGTCTT
1 TCCCAGACAGGGTCTT
41494513 GCACAATATC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
43 46 0.90
44 5 0.10
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACATGAAATTTCAAATCGAAGCCTCTA
Found at i:41504036 original size:13 final size:13
Alignment explanation
Indices: 41504018--41504042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41504008 CCAAGTACAC
41504018 GCCCATGTCCCTG
1 GCCCATGTCCCTG
41504031 GCCCATGTCCCT
1 GCCCATGTCCCT
41504043 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:0.08, C:0.48, G:0.20, T:0.24
Consensus pattern (13 bp):
GCCCATGTCCCTG
Found at i:41506751 original size:15 final size:15
Alignment explanation
Indices: 41506697--41506772 Score: 73
Period size: 15 Copynumber: 5.0 Consensus size: 15
41506687 ATATTATTTG
41506697 AATAACCTTTTCAATC
1 AATAACCTTTTC-ATC
* * *
41506713 GATAATCTTCTT-TTC
1 AATAACCTT-TTCATC
*
41506728 AACAACCTTTTCATC
1 AATAACCTTTTCATC
* *
41506743 GATAACCTTTTCATA
1 AATAACCTTTTCATC
41506758 AATAACCTTTTCATC
1 AATAACCTTTTCATC
41506773 CTTTTCATTG
Statistics
Matches: 46, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
14 2 0.04
15 35 0.76
16 7 0.15
17 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.41
Consensus pattern (15 bp):
AATAACCTTTTCATC
Found at i:41506765 original size:30 final size:30
Alignment explanation
Indices: 41506697--41506772 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
41506687 ATATTATTTG
* * *
41506697 AATAACCTTTTCAATCGATAATCTTCTTTTC
1 AATAACCTTTTC-ATCGATAACCTTCTTATA
*
41506728 AACAACCTTTTCATCGATAACCTT-TTCATA
1 AATAACCTTTTCATCGATAACCTTCTT-ATA
41506758 AATAACCTTTTCATC
1 AATAACCTTTTCATC
41506773 CTTTTCATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.05
30 26 0.67
31 11 0.28
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AATAACCTTTTCATCGATAACCTTCTTATA
Found at i:41521061 original size:47 final size:47
Alignment explanation
Indices: 41520955--41521157 Score: 286
Period size: 47 Copynumber: 4.3 Consensus size: 47
41520945 TGCACACTTT
* * * *
41520955 TCACAATTGGTCATTCGACCTTATCACATAT--TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTTCACAT-TCA
** **
41521001 TCACATTAACCATTCGGCCTTATCACATATATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
41521048 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
*
41521095 TCACATTGGCCATTCAGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
41521142 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
41521158 ATCTTAAGCT
Statistics
Matches: 142, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
45 22 0.15
46 5 0.04
47 115 0.81
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
Found at i:41521119 original size:22 final size:22
Alignment explanation
Indices: 41521047--41521122 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
41521037 TTTCACATTC
*
41521047 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCAGCCTT
* *
41521069 ATCACATAT-ACACACTTTCA-CATT
1 ATCACAT-TGGC-CA--TTCAGCCTT
41521093 CATCACATTGGCCATTCAGCCTT
1 -ATCACATTGGCCATTCAGCCTT
41521116 ATCACAT
1 ATCACAT
41521123 ATACACACTT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 19 0.45
23 6 0.14
24 6 0.14
25 11 0.26
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:41521144 original size:25 final size:25
Alignment explanation
Indices: 41521069--41521147 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
41521059 ATTCGGCCTT
41521069 ATCACATATACACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
* *
41521094 ATCACAT-TGGC-CA--TTCAGCCTT-
1 ATCACATAT-ACACACTTTCA-CATTC
41521116 ATCACATATACACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
41521141 ATCACAT
1 ATCACAT
41521148 TGGCCATTCG
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
22 12 0.28
23 6 0.14
24 6 0.14
25 19 0.44
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.32
Consensus pattern (25 bp):
ATCACATATACACACTTTCACATTC
Found at i:41536833 original size:95 final size:95
Alignment explanation
Indices: 41536670--41536989 Score: 408
Period size: 95 Copynumber: 3.4 Consensus size: 95
41536660 TTTATCTATT
* * * * * ** *
41536670 ATGAACAACTTTATTTGAGTTAGTTGATTTAATATCGCTACTCCAAACGGCTCACTAATTTAAGA
1 ATGAACAATTTTATTTAAGTTAGCTGATTTAATATCACTGCTCCAAACGGCTCGTTGATTTAAGA
* *
41536735 TTGCAACCTAAGTTCATTTGATTTAATATC
66 TTGCAACCTAAGTTCATTCGATTTAACATC
* * *
41536765 ATGAACAATTTTATCTAAGTTAGCTGATTTAATATTACTGCTCCAAATGGCTCGTTGATTTAAGA
1 ATGAACAATTTTATTTAAGTTAGCTGATTTAATATCACTGCTCCAAACGGCTCGTTGATTTAAGA
** * *
41536830 TTGCAATTTGAGTTTATTCGATTTAACATC
66 TTGCAACCTAAGTTCATTCGATTTAACATC
* * * *
41536860 ATAAACAATTTTATTTGAGTTAGCTGATTTAATATCA-TAGCTCCAAACAGCTCGTTGATTTAAT
1 ATGAACAATTTTATTTAAGTTAGCTGATTTAATATCACT-GCTCCAAACGGCTCGTTGATTTAAG
* *
41536924 ATTGTAGCCTAAGTTCATTCGATTTAACATC
65 ATTGCAACCTAAGTTCATTCGATTTAACATC
*
41536955 ATGAACAATTTTATTTAAGTTAGGTGATTTAATAT
1 ATGAACAATTTTATTTAAGTTAGCTGATTTAATAT
41536990 TGATGATTTA
Statistics
Matches: 191, Mismatches: 33, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
94 1 0.01
95 190 0.99
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (95 bp):
ATGAACAATTTTATTTAAGTTAGCTGATTTAATATCACTGCTCCAAACGGCTCGTTGATTTAAGA
TTGCAACCTAAGTTCATTCGATTTAACATC
Found at i:41537112 original size:173 final size:173
Alignment explanation
Indices: 41536845--41537164 Score: 464
Period size: 173 Copynumber: 1.8 Consensus size: 173
41536835 ATTTGAGTTT
* *
41536845 ATTCGATTTAACATCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCATAGCTCCAAACAG
1 ATTCAATTTAACACCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCATAGCTCCAAACAG
* * * * * *
41536910 CTCGTTGATTTAATATTGTAGCCTAAGTTCATTCGATTTAACATCATGAACAATTTTAT-TTAAG
66 CTCGCTAATTTAAGATCGCAGCCTAAGTTCATTCAATTTAACATCATGAACAATTTTATCTT-AG
***
41536974 TTAGGTGATTTAATATTGATGATTTAAGATCATAGCTTAAATTC
130 TTAGCCAATTTAATATTGATGATTTAAGATCATAGCTTAAATTC
*
41537018 ATTCAATTTAACACCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCACT-GCTCCAAATA
1 ATTCAATTTAACACCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCA-TAGCTCCAAACA
* * * *
41537082 GCTTGCTAATTTAAGATCGCAGCTTAAGTTCATTCAATTTAACATCATTAATAATTTTATCTTAG
65 GCTCGCTAATTTAAGATCGCAGCCTAAGTTCATTCAATTTAACATCATGAACAATTTTATCTTAG
41537147 TTAGCCAATTTAATATTG
130 TTAGCCAATTTAATATTG
41537165 TTGCTCTAAA
Statistics
Matches: 129, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
173 126 0.98
174 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.40
Consensus pattern (173 bp):
ATTCAATTTAACACCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCATAGCTCCAAACAG
CTCGCTAATTTAAGATCGCAGCCTAAGTTCATTCAATTTAACATCATGAACAATTTTATCTTAGT
TAGCCAATTTAATATTGATGATTTAAGATCATAGCTTAAATTC
Found at i:41537216 original size:268 final size:268
Alignment explanation
Indices: 41536768--41537253 Score: 650
Period size: 268 Copynumber: 1.8 Consensus size: 268
41536758 TAATATCATG
* * * * *
41536768 AACAATTTTATCTAAGTTAGCTGATTTAATATTACTGCTCCAAATGGCTCGTTGATTTAAGATTG
1 AACAATTTTATCTAAGTTAGCTGATTTAATATCACTGCTCCAAATAGCTCGCTAATTTAAGATCG
* * * * **
41536833 CAATTTGAGTTTATTCGATTTAACATCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCAT
66 CAACTTAAGTTCATTCAATTTAACATCATAAACAATTTTATTTGAGTTAGCCAATTTAATATCAT
* ** * * * * * *
41536898 AGCTCCAAACAGCTCGTTGATTTAATATTGTAGCCTAAGTTCATTCGATTTAACATCATGAACAA
131 AGCTCCAAACAACTCACTAATTTAATATCGCAACCTAAGTACAATCGATTTAACATCATGAACAA
*
41536963 TTTTATTTAAGTTAGGTGATTTAATATTGATGATTTAAGATCATAGCTTAAATTCATTCAATTTA
196 TTTTATTTAAGTTAGCTGATTTAATATTGATGATTTAAGATCATAGCTTAAATTCATTCAATTTA
41537028 ACACCATA
261 ACACCATA
* * *
41537036 AACAATTTTATTTGAGTTAGCTGATTTAATATCACTGCTCCAAATAGCTTGCTAATTTAAGATCG
1 AACAATTTTATCTAAGTTAGCTGATTTAATATCACTGCTCCAAATAGCTCGCTAATTTAAGATCG
* * * **
41537101 CAGCTTAAGTTCATTCAATTTAACATCATTAATAATTTTATCTT-AGTTAGCCAATTTAATATTG
66 CAACTTAAGTTCATTCAATTTAACATCATAAACAATTTTAT-TTGAGTTAGCCAATTTAATATCA
* * * *
41537165 TTGCTCTAAACAACTTACTAATTTAATATCGCAATCTAAGTACAATCGATTTAACATCATGAACA
130 TAGCTCCAAACAACTCACTAATTTAATATCGCAACCTAAGTACAATCGATTTAACATCATGAACA
*
41537230 ATTTTATTTGAGTTAGCTGATTTA
195 ATTTTATTTAAGTTAGCTGATTTA
41537254 CTATCAGTAC
Statistics
Matches: 183, Mismatches: 34, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
268 181 0.99
269 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (268 bp):
AACAATTTTATCTAAGTTAGCTGATTTAATATCACTGCTCCAAATAGCTCGCTAATTTAAGATCG
CAACTTAAGTTCATTCAATTTAACATCATAAACAATTTTATTTGAGTTAGCCAATTTAATATCAT
AGCTCCAAACAACTCACTAATTTAATATCGCAACCTAAGTACAATCGATTTAACATCATGAACAA
TTTTATTTAAGTTAGCTGATTTAATATTGATGATTTAAGATCATAGCTTAAATTCATTCAATTTA
ACACCATA
Found at i:41537267 original size:95 final size:95
Alignment explanation
Indices: 41537020--41537289 Score: 303
Period size: 95 Copynumber: 2.8 Consensus size: 95
41537010 TTAAATTCAT
* * * *
41537020 TCAATTTAACACCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCACTGCTCCAAATAGCT
1 TCAATTTAACATCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCAGTGCTCTAAACAGCT
* * *
41537085 TGCTAATTTAAGATCGCAGCTTAAGTTCAT
66 TGCTAATTTAATATCGCAGCTTAAGTACAA
* * ** * *
41537115 TCAATTTAACATCATTAATAATTTTATCTT-AGTTAGCCAATTTAATAT-TGTTGCTCTAAACAA
1 TCAATTTAACATCATAAACAATTTTAT-TTGAGTTAGCTGATTTAATATCAG-TGCTCTAAACAG
* *
41537178 CTTACTAATTTAATATCGCA-ATCTAAGTACAA
64 CTTGCTAATTTAATATCGCAGCT-TAAGTACAA
* * * *
41537210 TCGATTTAACATCATGAACAATTTTATTTGAGTTAGCTGATTTACTATCAGTACTCTAAACAGCT
1 TCAATTTAACATCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCAGTGCTCTAAACAGCT
* *
41537275 CGTTAATTTAATATC
66 TGCTAATTTAATATC
41537290 ATAACTAATA
Statistics
Matches: 143, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
94 3 0.02
95 137 0.96
96 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (95 bp):
TCAATTTAACATCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCAGTGCTCTAAACAGCT
TGCTAATTTAATATCGCAGCTTAAGTACAA
Found at i:41537433 original size:132 final size:131
Alignment explanation
Indices: 41537181--41537495 Score: 351
Period size: 132 Copynumber: 2.4 Consensus size: 131
41537171 TAAACAACTT
* * * * *
41537181 ACTAATTTAATATCGCAATCTAAGTACAATCGATTTAACATCATGAACAATTTTATTTGAGTTAG
1 ACTAATTTAAGATCGCAACCTAAGTTCATTCGA-TTAATATCATGAACAATTTTATTTGAGTTAG
** * * * * * *
41537246 CTGATTTACTATCAGTACTCTAAACAGCTCGTTAATTTAATATCATAACTAATATCATTAACGGC
65 CCAATTTACTATCACTAATCTAAACAGCTCATTAATTTAAGATCACAACTAATATCATTAACGAC
41537311 TC
130 TC
** *
41537313 ACTAATTTAAGATCGCGGCCTAAGTTCATTCGATTCAATATCATGAATAATTTTATTTGAGTTAG
1 ACTAATTTAAGATCGCAACCTAAGTTCATTCGATT-AATATCATGAACAATTTTATTTGAGTTAG
* ** * * * * *
41537378 CCAATTTACTGTCACTAATCTAAATTGCTCATTGATTTAAGATCGCAGCTGATATCATTAATGAC
65 CCAATTTACTATCACTAATCTAAACAGCTCATTAATTTAAGATCACAACTAATATCATTAACGAC
41537443 TC
130 TC
* * * *
41537445 ACTAATATAAGATTGCAACCTAAGTTCATTTGAATTAATTTCATGAACAAT
1 ACTAATTTAAGATCGCAACCTAAGTTCATTCG-ATTAATATCATGAACAAT
41537496 CTCATCTGTG
Statistics
Matches: 150, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
131 2 0.01
132 145 0.97
133 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (131 bp):
ACTAATTTAAGATCGCAACCTAAGTTCATTCGATTAATATCATGAACAATTTTATTTGAGTTAGC
CAATTTACTATCACTAATCTAAACAGCTCATTAATTTAAGATCACAACTAATATCATTAACGACT
C
Found at i:41538790 original size:46 final size:46
Alignment explanation
Indices: 41538740--41538915 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
41538730 TGGTTGAGCA
*
41538740 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
41538786 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
41538833 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
41538879 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41538916 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 64 0.60
47 28 0.26
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:41538889 original size:93 final size:93
Alignment explanation
Indices: 41538737--41538907 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
41538727 GGATGGTTGA
* *
41538737 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
41538802 TGAGTCCAAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* *
41538830 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
41538895 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
41538908 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:41541875 original size:15 final size:15
Alignment explanation
Indices: 41541836--41541915 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
41541826 GTATCTTGGG
*
41541836 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
41541851 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
41541866 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
41541881 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
41541896 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
41541910 TTTCTT
1 TTTCTT
41541916 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:41541905 original size:30 final size:30
Alignment explanation
Indices: 41541827--41541914 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
41541817 CATAGTATCG
* * *
41541827 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
41541857 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
41541887 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
41541915 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:41544081 original size:46 final size:46
Alignment explanation
Indices: 41544031--41544206 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
41544021 TGGTTGAGCA
*
41544031 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
41544077 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
*
41544124 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
41544170 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41544207 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 4 0.04
43 5 0.05
45 2 0.02
46 62 0.57
47 26 0.24
48 2 0.02
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:41544187 original size:93 final size:93
Alignment explanation
Indices: 41544028--41544197 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
41544018 GGATGGTTGA
* *
41544028 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
41544093 TGAGTCCGAGTTTGTGAAATGTAACTAG
66 TGAGTCCGAGTTTGTGAAATGTAACTAG
* *
41544121 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
41544186 TGAGTCCGAGTT
66 TGAGTCCGAGTT
41544198 CACTTATGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAAATGTAACTAG
Found at i:41547697 original size:6 final size:6
Alignment explanation
Indices: 41547686--41547718 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
41547676 GGATTGCAAG
*
41547686 TTTCCA TTTCCA TTTCCA TTTTCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
41547719 TTGGAAACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (6 bp):
TTTCCA
Found at i:41558178 original size:15 final size:16
Alignment explanation
Indices: 41558158--41558195 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
41558148 AATTGGAAAG
*
41558158 ATGAAAAGTT-ATTAA
1 ATGAAAACTTAATTAA
41558173 ATGAAAACTTAATTAA
1 ATGAAAACTTAATTAA
41558189 ATGAAAA
1 ATGAAAA
41558196 AGAAAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (16 bp):
ATGAAAACTTAATTAA
Found at i:41559924 original size:53 final size:52
Alignment explanation
Indices: 41559839--41560045 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 52
41559829 TTTCTTTTTA
* *
41559839 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTTACCA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * *
41559892 AACTCACCATCGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAT-GCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
** * * * * * * *
41559946 TAGTTTATCAATGCCATGTCTAGACATGGCCTTACATGATTTCCTTGCCTTGCA-A
1 -AACTTA-CCATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTT--ATG
* *
41560001 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACC-ATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
41560046 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 29, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
52 1 0.01
53 45 0.38
54 34 0.29
55 34 0.29
56 3 0.03
57 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (52 bp):
AACTTACCATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:41562714 original size:40 final size:40
Alignment explanation
Indices: 41562685--41562907 Score: 319
Period size: 40 Copynumber: 5.6 Consensus size: 40
41562675 GCTACTCGCT
* *
41562685 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGT-AGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCA-CTAGCA
* *
41562725 CAAATGCCTTCAGGACTTAGCCCGG-ATATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACT-AGCA
*
41562765 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
* *
41562805 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTCATTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
41562845 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
41562885 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
41562908 CGTTATCATC
Statistics
Matches: 170, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 166 0.98
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
Found at i:41562806 original size:80 final size:78
Alignment explanation
Indices: 41562652--41562907 Score: 313
Period size: 80 Copynumber: 3.2 Consensus size: 78
41562642 AAACCAAGTA
* * * * *
41562652 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCACACAAATGCCTTCGGGACTTAGCCCGAAT-TAG
* *
41562716 T-AGTTCGCACAAATG
64 TCA-CTAGCACAAATG
*
41562731 CCTTCAGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCAGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCACACAAATGCCTTCGGGACTTAGCCC-GAATTAG
41562796 TCACTAGCACAAATG
64 TCACTAGCACAAATG
* *
41562811 CCTTCGGGACTTAGCCCAGA-ATTAGT-CATTAGCACAAATGCCTTCGGGACTTAGCCCGGAATT
1 CCTTCGGGACTTAGCCCGGATA-TAGTAC-TCA-CACAAATGCCTTCGGGACTTAGCCC-GAATT
41562874 AGTCACTAGCACAAATG
62 AGTCACTAGCACAAATG
41562891 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
41562908 CGTTATCATC
Statistics
Matches: 158, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 15 0.09
80 138 0.87
81 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCACACAAATGCCTTCGGGACTTAGCCCGAATTAGTC
ACTAGCACAAATG
Found at i:41569521 original size:32 final size:32
Alignment explanation
Indices: 41569484--41569549 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
41569474 TCTTAGAACT
* *
41569484 ATGTAATATCTTCTATATTTCTTAATGAATCA
1 ATGTAATATATTCCATATTTCTTAATGAATCA
41569516 ATGTAATATATTCCATATTTCTTAATGAATCA
1 ATGTAATATATTCCATATTTCTTAATGAATCA
41569548 AT
1 AT
41569550 CCTTTATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (32 bp):
ATGTAATATATTCCATATTTCTTAATGAATCA
Found at i:41570576 original size:13 final size:13
Alignment explanation
Indices: 41570558--41570621 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
41570548 AGTTTAACAT
*
41570558 TGCTTTTGAAAAC
1 TGCTTTTGAAAAG
*
41570571 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
41570584 TG-TTGTGAAAAAG
1 TGCTTTTG-AAAAG
*
41570597 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
*
41570610 TACTTTTGAAAA
1 TGCTTTTGAAAA
41570622 ATTTTGTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 3 0.07
13 35 0.83
14 4 0.10
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:41571511 original size:27 final size:27
Alignment explanation
Indices: 41571481--41571533 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
41571471 ATCAGGGTAT
41571481 GCCACAAAAG-TAGTTCTTTTAGAGTTC
1 GCCACAAAAGCTA-TTCTTTTAGAGTTC
*
41571508 GCCACAAAGGCTATTCTTTTAGAGTT
1 GCCACAAAAGCTATTCTTTTAGAGTT
41571534 TGCCTTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (27 bp):
GCCACAAAAGCTATTCTTTTAGAGTTC
Found at i:41571543 original size:27 final size:27
Alignment explanation
Indices: 41571494--41571573 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
41571484 ACAAAAGTAG
* *
41571494 TTCTTTTAGAGTTCGCCACAAAGGCTA
1 TTCTTTTAGAGTTTGCCATAAAGGCTA
* *
41571521 TTCTTTTAGAGTTTGCCTTAAAGGCTT
1 TTCTTTTAGAGTTTGCCATAAAGGCTA
* * *
41571548 TTCTTTCAGATTTTTCCATAAAGGCT
1 TTCTTTTAGAGTTTGCCATAAAGGCT
41571574 CACAAAATGC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (27 bp):
TTCTTTTAGAGTTTGCCATAAAGGCTA
Found at i:41578275 original size:42 final size:42
Alignment explanation
Indices: 41578209--41578296 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
41578199 GGCTATTACA
* *
41578209 ACACTGCCTAAGACACGAGCGTGTCTCTTGGTCATGTGAGTC
1 ACACAGCCTAAGACACGAGCGTGTCTCTTGGCCATGTGAGTC
*
41578251 ACACAGCCTAAGACACGAGTGTGTCTCTTGGCCATGTGAGTC
1 ACACAGCCTAAGACACGAGCGTGTCTCTTGGCCATGTGAGTC
41578293 ACAC
1 ACAC
41578297 GGCTTGTCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (42 bp):
ACACAGCCTAAGACACGAGCGTGTCTCTTGGCCATGTGAGTC
Found at i:41581696 original size:27 final size:28
Alignment explanation
Indices: 41581644--41581701 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
41581634 CATCACATAG
41581644 GGGCAAAACAATCATCTTACCATATA-A
1 GGGCAAAACAATCATCTTACCATATATA
* * * *
41581671 GGGCAAAATAATCATTTTATCTTATATA
1 GGGCAAAACAATCATCTTACCATATATA
41581699 GGG
1 GGG
41581702 GGTCTAGGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (28 bp):
GGGCAAAACAATCATCTTACCATATATA
Found at i:41585165 original size:46 final size:46
Alignment explanation
Indices: 41585113--41585427 Score: 378
Period size: 46 Copynumber: 7.0 Consensus size: 46
41585103 GAGTGTGCTC
*
41585113 CCTGATA-GAAAATGTGTAAGAGCATGGTTGAAAGATACCATGGCAA
1 CCTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
41585159 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
41585205 CCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
41585251 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * *
41585297 CATGACATGATATGTGT---A--A--GTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* *** ** *
41585336 CGTGACCGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAA
1 CCTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * * * * *
41585383 CATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CCTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
41585428 TCATGTTGAA
Statistics
Matches: 239, Mismatches: 20, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
39 24 0.10
40 7 0.03
41 1 0.00
43 2 0.01
45 2 0.01
46 179 0.75
47 24 0.10
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:41585389 original size:86 final size:85
Alignment explanation
Indices: 41585231--41585389 Score: 246
Period size: 86 Copynumber: 1.9 Consensus size: 85
41585221 TAAGACCATG
* * **
41585231 GTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
1 GTTGAAAGATACCATGGCAACCTGACAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
41585296 ACATGACATGATATGTGTAA
66 ACATGACATGATATGTGTAA
* * *
41585316 GTTGAAAGATACCATGGCAACGTGACCGGGAAATGAATAAGACCATGGTTGAATGATACCATGGC
1 GTTGAAAGATACCATGGCAACCTGA-CAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGC
41585381 AACATGACA
65 AACATGACA
41585390 GAAAATGAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
85 24 0.36
86 42 0.64
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (85 bp):
GTTGAAAGATACCATGGCAACCTGACAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
ACATGACATGATATGTGTAA
Found at i:41595457 original size:16 final size:15
Alignment explanation
Indices: 41595430--41595463 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
41595420 ATAACTAGTA
*
41595430 TATAATTATATTTAT
1 TATAATTATATTAAT
41595445 TATAATATATATTAAT
1 TATAAT-TATATTAAT
41595461 TAT
1 TAT
41595464 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:41596100 original size:23 final size:23
Alignment explanation
Indices: 41596049--41596109 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
41596039 GGTGGTAAGA
41596049 CAAATT-TTT-ATT-TTTAATTT
1 CAAATTATTTAATTATTTAATTT
* *
41596069 CAATTTTATTTAATTATTTATTTT
1 CAA-ATTATTTAATTATTTAATTT
*
41596093 CAAATTATTGAATTATT
1 CAAATTATTTAATTATT
41596110 AATATTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 2 0.06
22 3 0.09
23 15 0.45
24 10 0.30
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (23 bp):
CAAATTATTTAATTATTTAATTT
Found at i:41602605 original size:31 final size:31
Alignment explanation
Indices: 41602521--41602605 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
41602511 TTAATCTCAA
*
41602521 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
* *
41602551 AATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
41602582 CATATCACTGGGCCGAAGCCTTTT
1 CATATCACTGGGCCGAAGCCTTTT
41602606 ACTGTAAACG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 3 0.06
31 46 0.94
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:41602840 original size:25 final size:25
Alignment explanation
Indices: 41602812--41602871 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
41602802 CTGGAGGCCT
*
41602812 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTAGGGCAAA
* *
41602837 AGCCCTTTTTGATAAATTAGGGCAAA
1 AGCCC-TTTTAATAAACTAGGGCAAA
41602863 AGCCCTTTT
1 AGCCCTTTT
41602872 CGGTAAACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 14 0.47
26 15 0.50
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTAGGGCAAA
Found at i:41602885 original size:26 final size:25
Alignment explanation
Indices: 41602825--41602920 Score: 95
Period size: 26 Copynumber: 3.8 Consensus size: 25
41602815 CTCTTTTAAT
* *
41602825 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGC-AAAGCCCTTTTCGGTA
* *
41602851 AATTAGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGGTA
* * *
41602877 AACTGGGGCGAAGTCTTTTTCGGT-
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
41602901 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
41602921 GCACTTCCTC
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 16 0.28
25 12 0.21
26 29 0.51
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:41603081 original size:25 final size:25
Alignment explanation
Indices: 41603053--41603100 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
41603043 AATTAAACCT
* *
41603053 TAGGGGTAAAATGGTCATTTTTACC
1 TAGGGGCAAAATAGTCATTTTTACC
41603078 TAGGGGCAAAATAGTCATTTTTA
1 TAGGGGCAAAATAGTCATTTTTA
41603101 TATTTAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.35
Consensus pattern (25 bp):
TAGGGGCAAAATAGTCATTTTTACC
Found at i:41618109 original size:31 final size:31
Alignment explanation
Indices: 41618063--41618144 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 31
41618053 TCAATCTCAA
*
41618063 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTAGGCCGAAGCCTTTGCATTATT
* *
41618093 CATGTCACTAGGCCGAAGCCTTTTCATTATT
1 CATATCACTAGGCCGAAGCCTTTGCATTATT
*
41618124 CATATCACTGGGCCGAAGCCT
1 CATATCACTAGGCCGAAGCCT
41618145 CTTACTGTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 4 0.09
31 42 0.91
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTGCATTATT
Found at i:41618382 original size:25 final size:25
Alignment explanation
Indices: 41618354--41618438 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
41618344 CTGGAGGCCT
41618354 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
41618379 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
** *
41618405 AGCCCTTTTCGGTAAACTGGGAC-AA
1 AGCCCTTTT-AATAAACTGGGGCAAA
41618430 AGCCCTTTT
1 AGCCCTTTT
41618439 CGGTAACTGG
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.46
26 28 0.52
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:41618439 original size:25 final size:26
Alignment explanation
Indices: 41618367--41618462 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
41618357 CTCTTTTAAT
* *
41618367 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
41618393 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
41618419 AACTGGGAC-AAAGCCCTTTTCGGT-
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
41618443 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
41618463 GTACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.28
25 15 0.23
26 32 0.49
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:41620833 original size:12 final size:12
Alignment explanation
Indices: 41620818--41620842 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41620808 ACAGAAAATA
41620818 ATAAAAATTTTC
1 ATAAAAATTTTC
41620830 ATAAAAATTTTC
1 ATAAAAATTTTC
41620842 A
1 A
41620843 AACATACATA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:41626391 original size:56 final size:56
Alignment explanation
Indices: 41626305--41626709 Score: 539
Period size: 56 Copynumber: 7.3 Consensus size: 56
41626295 CACATATCAA
* *
41626305 AATCACATATCG-TG-CAACGTATTAAATGTGGTCTTAGTCGCATACATATTTCGG
1 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCGG
*
41626359 ATTCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCGG
1 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCGG
* * * *
41626415 AATCACATATCGATGCCAACATATTAAACGTGGTCTTAATCGCACACATATTTCGA
1 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCGG
* * * *
41626471 AATTACTTATTGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAG
1 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCGG
* *
41626527 AATCACATATCGATGCCAATGTATTAAAAT-TGGTCTTACTCGCACACATATTTCAG
1 AATCACATATCGATGCCAACGTATT-AAATGTGGTCTTACTCGCACACATATTTCGG
* * ** * * *
41626583 AATCACATATTGATGCCAACATATTAAACATAGTCTTACTCACACACATATTTTGG
1 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCGG
* * ** * *
41626639 AAT-ACATATTGATGCCAATGTATTAAACATGGTCTTACTCGTACACATATTTCAG
1 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCGG
41626694 AATCACATATCGATGC
1 AATCACATATCGATGC
41626710 GAACTAAAAA
Statistics
Matches: 310, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
54 11 0.04
55 53 0.17
56 242 0.78
57 4 0.01
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCGG
Found at i:41626535 original size:168 final size:167
Alignment explanation
Indices: 41626319--41626709 Score: 595
Period size: 168 Copynumber: 2.3 Consensus size: 167
41626309 ACATATCGTG
* * * *
41626319 CAACGTATTAAATGTGGTCTTAGTCGCATACATATTTCGGATTCACATATCGATGCCAACGTATT
1 CAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAGAATCACATATCGATGCCAACGTATT
* * *
41626384 -AAATGTGGTCTTACTCGCACACATATTTCGGAATCACATATCGATGCCAACATATTAAACGTGG
66 AAAAT-TGGTCTTACTCGCACACATATTTCAGAATCACATATCGATGCCAACATATTAAACATAG
* *
41626448 TCTTAATCGCACACATATTTCGAAATTACTTATTGATGC
130 TCTTAATCACACACATATTTCGAAA-TACATATTGATGC
*
41626487 CAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAGAATCACATATCGATGCCAATGTATT
1 CAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAGAATCACATATCGATGCCAACGTATT
*
41626552 AAAATTGGTCTTACTCGCACACATATTTCAGAATCACATATTGATGCCAACATATTAAACATAGT
66 AAAATTGGTCTTACTCGCACACATATTTCAGAATCACATATCGATGCCAACATATTAAACATAGT
* * *
41626617 CTTACTCACACACATATTTTGGAATACATATTGATGC
131 CTTAATCACACACATATTTCGAAATACATATTGATGC
* ** *
41626654 CAATGTATTAAACATGGTCTTACTCGTACACATATTTCAGAATCACATATCGATGC
1 CAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAGAATCACATATCGATGC
41626710 GAACTAAAAA
Statistics
Matches: 204, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
167 64 0.31
168 136 0.67
169 4 0.02
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (167 bp):
CAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAGAATCACATATCGATGCCAACGTATT
AAAATTGGTCTTACTCGCACACATATTTCAGAATCACATATCGATGCCAACATATTAAACATAGT
CTTAATCACACACATATTTCGAAATACATATTGATGC
Found at i:41631988 original size:37 final size:37
Alignment explanation
Indices: 41631879--41632027 Score: 140
Period size: 38 Copynumber: 3.9 Consensus size: 37
41631869 AATGATGTCT
* * * * *
41631879 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCC
1 GGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTA-ATTC
* *
41631919 GGACTAAGATCCGAAGGCATTGTGCGAGTTACTAATTC
1 GGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTAATTC
41631957 GGGCTAAG-CCGAAGGCATTGGTGCGAGTTACTAATTC
1 GGGCTAAGCCCGAAGGCATT-GTGCGAGTTACTAATTC
* *
41631994 GGGTTAAGTCCCGAA-GCATTTGTGTGAGTTACTA
1 GGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA
41632028 TAAGCCGGAC
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
36 11 0.12
37 24 0.26
38 25 0.27
39 13 0.14
40 21 0.22
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
GGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAATTC
Found at i:41632023 original size:38 final size:37
Alignment explanation
Indices: 41631929--41632027 Score: 139
Period size: 37 Copynumber: 2.7 Consensus size: 37
41631919 GGACTAAGAT
41631929 CCGAAGGCA-TTGTGCGAGTTACTAATTCGGGCTAAG
1 CCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAG
* *
41631965 CCGAAGGCATTGGTGCGAGTTACTAATTCGGGTTAAG
1 CCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAG
*
41632002 TCCCGAA-GCATTTGTGTGAGTTACTA
1 --CCGAAGGCATTTGTGCGAGTTACTA
41632028 TAAGCCGGAC
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
36 9 0.16
37 25 0.45
38 17 0.30
39 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (37 bp):
CCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAG
Found at i:41643397 original size:39 final size:39
Alignment explanation
Indices: 41643268--41643399 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 39
41643258 GCTACTCGTT
* *
41643268 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCA
*
41643308 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
* * *
41643348 CCAATACCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-ATTTAGTAACTCGCA
41643387 CAAATGCCTTCGG
1 CAAATGCCTTCGG
41643400 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.40
40 45 0.56
41 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
Found at i:41651330 original size:39 final size:40
Alignment explanation
Indices: 41651218--41651397 Score: 197
Period size: 40 Copynumber: 4.5 Consensus size: 40
41651208 TACTCGTTCC
* * *
41651218 AATGCCTTCGGGACATAGCCCG-GTTATAGTAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGAATT-TAGTAACTCGCACA
* *
41651258 AATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCACA
*
41651298 AATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCACA
* * * * * *
41651337 AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGAATTTAGTAAC-TCGCACA
41651378 AA-GCCTTCGGGACTTAGCCC
1 AATGCCTTCGGGACTTAGCCC
41651398 AGACATCATT
Statistics
Matches: 119, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.28
40 71 0.60
41 13 0.11
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCACA
Found at i:41651384 original size:79 final size:80
Alignment explanation
Indices: 41651216--41651397 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 80
41651206 GCTACTCGTT
* * **
41651216 CCAATGCCTTCGGGACATAGCCCG-GTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
1 CCAAAGCCTTCGGGACTTAGCCCGAAAT-TAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
* *
41651280 AATTTAGTAACTCGCA
65 AATATAGTAACTAGCA
* * **
41651296 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CCAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCG
* * *
41651359 GATATGGTCACTTAGCA
65 AATATAGTAAC-TAGCA
41651376 -CAAAGCCTTCGGGACTTAGCCC
1 CCAAAGCCTTCGGGACTTAGCCC
41651398 AGACATCATT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.65
80 27 0.31
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
CCAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCACACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTAGCA
Found at i:41656703 original size:56 final size:56
Alignment explanation
Indices: 41656612--41657019 Score: 566
Period size: 56 Copynumber: 7.3 Consensus size: 56
41656602 TTTTTAGTTC
* * ** *
41656612 GCATCGATATGTGATTCTGAAATATGTGTACGAGTAAGACCATGTTTAATACATTG
1 GCATCGATATGTGATTCCGAAATATGTGTGCGAGTAAGACCACATTTAATACGTTG
* * * * ** *
41656668 GCATCAATATGTGATTCCAAAATATGTGTGTGAGTAAGACTATGTTTAATATGTTG
1 GCATCGATATGTGATTCCGAAATATGTGTGCGAGTAAGACCACATTTAATACGTTG
* * *
41656724 GCATCAATATGTGATTCTGAAATATGTGTGCGAGTAAGACCA-ATTTTAATACATTG
1 GCATCGATATGTGATTCCGAAATATGTGTGCGAGTAAGACCACA-TTTAATACGTTG
*
41656780 GCATCGATATGTGATTCTGAAATATGTGTGCGAGTAAGACCACATTTAATACGTTG
1 GCATCGATATGTGATTCCGAAATATGTGTGCGAGTAAGACCACATTTAATACGTTG
* * * * * * *
41656836 GCATCAATAAGTAATTTCGAAATATGTGTGCGATTAAGACCACGTTTAATATGTTG
1 GCATCGATATGTGATTCCGAAATATGTGTGCGAGTAAGACCACATTTAATACGTTG
41656892 GCATCGATATGTGATTCCGAAATATGTGTGCGAGTAAGACCACATTTAATACGTTG
1 GCATCGATATGTGATTCCGAAATATGTGTGCGAGTAAGACCACATTTAATACGTTG
* * *
41656948 GCATCGATATGTGAATCCGAAATATGTATGCGACTAAGACCACATTTAATACGTTG
1 GCATCGATATGTGATTCCGAAATATGTGTGCGAGTAAGACCACATTTAATACGTTG
41657004 GCATCGATATGTGATT
1 GCATCGATATGTGATT
41657020 TTGATATGTG
Statistics
Matches: 314, Mismatches: 36, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
56 313 1.00
57 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.33
Consensus pattern (56 bp):
GCATCGATATGTGATTCCGAAATATGTGTGCGAGTAAGACCACATTTAATACGTTG
Found at i:41662514 original size:12 final size:12
Alignment explanation
Indices: 41662497--41662521 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41662487 TATGTATGTT
41662497 TGAAAATTTTTA
1 TGAAAATTTTTA
41662509 TGAAAATTTTTA
1 TGAAAATTTTTA
41662521 T
1 T
41662522 TATTTTCTGT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:41664919 original size:25 final size:26
Alignment explanation
Indices: 41664867--41664962 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
41664857 GAGGAAGTAC
*
41664867 AAAAGGGC-TATGCCCCAG-TTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
*
41664891 AAAAGGGC-TTTGTCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
* *
41664916 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTACCG
41664942 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
41664963 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 16 0.25
25 14 0.22
26 35 0.54
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:41664975 original size:25 final size:26
Alignment explanation
Indices: 41664877--41664975 Score: 93
Period size: 25 Copynumber: 3.9 Consensus size: 26
41664867 AAAAGGGCTA
*
41664877 TGCCCCAG-TTACCGAAAAG-GGC-TT
1 TGCCCCAGTTTATC-AAAAGAGGCTTT
* *
41664901 TGTCCCAGTTTACCGAAAAG-GGCTTT
1 TGCCCCAGTTTATC-AAAAGAGGCTTT
41664927 TGCCCCAGTTTATCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTTT
*
41664953 TGCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGAGGCT
41664976 AGGCCTCCAG
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
24 7 0.11
25 30 0.45
26 29 0.44
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCTTT
Found at i:41665220 original size:31 final size:31
Alignment explanation
Indices: 41665185--41665265 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 31
41665175 TTACAGTAAG
41665185 AGGCTTCGGCCCAGTGATATGAATAATGAAA
1 AGGCTTCGGCCCAGTGATATGAATAATGAAA
* * *
41665216 AGGCTTCGGCCTAGTGACATGAATAATGCAA
1 AGGCTTCGGCCCAGTGATATGAATAATGAAA
41665247 AGGCTTCGG-CCAGT-ATATG
1 AGGCTTCGGCCCAGTGATATG
41665266 TTGAGATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
29 4 0.09
30 4 0.09
31 37 0.82
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (31 bp):
AGGCTTCGGCCCAGTGATATGAATAATGAAA
Found at i:41680090 original size:27 final size:26
Alignment explanation
Indices: 41680060--41680158 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 26
41680050 GGTGGCTATA
*
41680060 CCACAATTATCTGATCT-AGTGGTTCTG
1 CCAC-ATTATCTGATCTGA-TGGCTCTG
*
41680087 CCACATATATCTGCTCTGATGGCTCTG
1 CCACAT-TATCTGATCTGATGGCTCTG
* * *
41680114 CCACGATTATCTGTATCTGGTGACTCGG
1 CCAC-ATTATCTG-ATCTGATGGCTCTG
* *
41680142 TCACATTATCTGTTCTG
1 CCACATTATCTGATCTG
41680159 GCAGCCATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
26 6 0.10
27 38 0.63
28 16 0.27
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (26 bp):
CCACATTATCTGATCTGATGGCTCTG
Found at i:41687941 original size:27 final size:26
Alignment explanation
Indices: 41687901--41688006 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 26
41687891 AGGAAGCGTC
*
41687901 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
41687928 TTGGTGGCTCTGCCACATATATCTGCT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
41687955 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
41687983 CTGGTGACTCTGTCATATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
41688007 TCCTGGCAGC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.03
27 50 0.74
28 16 0.24
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:41690752 original size:58 final size:57
Alignment explanation
Indices: 41690645--41690753 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 57
41690635 TCCTGTTTCC
* * *
41690645 AACATATGCTCATAAGAGCTTAATTAGGATTACCCGTCTGGGCTAAATCCTATCTAT
1 AACATATGCTCATAAGAGCTTAATCAGGATTACCAGTCTAGGCTAAATCCTATCTAT
* * *
41690702 AACATATGCTCA-AGAGGGTTTAAATCAGGATTACTAGTCTAGGCTAAATCCT
1 AACATATGCTCATA-AGAGCTT-AATCAGGATTACCAGTCTAGGCTAAATCCT
41690754 TTCTGTAATG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 1 0.02
57 17 0.39
58 26 0.59
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (57 bp):
AACATATGCTCATAAGAGCTTAATCAGGATTACCAGTCTAGGCTAAATCCTATCTAT
Found at i:41693810 original size:15 final size:16
Alignment explanation
Indices: 41693786--41693829 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
41693776 CAAACCTATC
41693786 TGTG-AACCCTT-GCA
1 TGTGAAACCCTTAGCA
*
41693800 TGTGAAACCCTTTAGTA
1 TGTGAAACCC-TTAGCA
41693817 TGTGAAACCCTTA
1 TGTGAAACCCTTA
41693830 CATTCGAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 4 0.15
15 5 0.19
16 5 0.19
17 12 0.46
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (16 bp):
TGTGAAACCCTTAGCA
Found at i:41695912 original size:21 final size:19
Alignment explanation
Indices: 41695887--41695927 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
41695877 CTATTCCTTC
*
41695887 ATCACCAACAAGTCTATTATA
1 ATCACCAA-AAGT-TATCATA
41695908 ATCACCAAAAGTTATCATA
1 ATCACCAAAAGTTATCATA
41695927 A
1 A
41695928 GTGGGTTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (19 bp):
ATCACCAAAAGTTATCATA
Found at i:41698969 original size:14 final size:15
Alignment explanation
Indices: 41698952--41698985 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
41698942 ATTAAAAACT
41698952 ATAAAACAAAAT-AA
1 ATAAAACAAAATAAA
*
41698966 ATAAAATAAAATAAA
1 ATAAAACAAAATAAA
41698981 ATAAA
1 ATAAA
41698986 GTTCTAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (15 bp):
ATAAAACAAAATAAA
Found at i:41698972 original size:5 final size:5
Alignment explanation
Indices: 41698952--41698985 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
41698942 ATTAAAAACT
*
41698952 ATAAA ACAAA AT-AA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
41698986 GTTCTAATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:41701808 original size:48 final size:48
Alignment explanation
Indices: 41701750--41701977 Score: 225
Period size: 48 Copynumber: 4.9 Consensus size: 48
41701740 CACATGGTAG
* * * *
41701750 GATGCCAATGCCATATCCCGGATATGGTCTTACATGGGACCAAATATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATATA
* ** * *
41701798 GATGCAAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATATA
* *
41701846 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATATA
* * ** * * *
41701894 GATGCTAAT---A-G-CCCAG-CTATGGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCAAATATA
* *
41701937 GATGCCAAAGCCATGTCCCAGACATGGTTTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
41701978 GTACATAACC
Statistics
Matches: 146, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 32 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 108 0.74
49 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATATA
Found at i:41703477 original size:22 final size:22
Alignment explanation
Indices: 41703451--41703494 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
41703441 GAAAATGATC
*
41703451 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
* *
41703473 AAAATTATTTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
41703495 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:41703955 original size:33 final size:33
Alignment explanation
Indices: 41703908--41703975 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
41703898 ACCATTAAGT
41703908 TTAACTTATGCCTTCATATGTTGAATATAGCAA
1 TTAACTTATGCCTTCATATGTTGAATATAGCAA
* *
41703941 TTAACTTATTCCTTCATATGTTGAATATAGTAA
1 TTAACTTATGCCTTCATATGTTGAATATAGCAA
41703974 TT
1 TT
41703976 TCTCTCCACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.44
Consensus pattern (33 bp):
TTAACTTATGCCTTCATATGTTGAATATAGCAA
Found at i:41704219 original size:5 final size:5
Alignment explanation
Indices: 41704195--41704233 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
41704185 GTATATATGC
*
41704195 TCTTT TTTTGT TCTTTT TCTTT TCTTT TCTTT TCTTT TC
1 TCTTT TCTT-T TC-TTT TCTTT TCTTT TCTTT TCTTT TC
41704234 ATGAGCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 23 0.77
6 5 0.17
7 2 0.07
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:41712580 original size:22 final size:22
Alignment explanation
Indices: 41712555--41712598 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
41712545 GTAAATGATC
*
41712555 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTAATTAT
* *
41712577 AAAATTATTTAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
41712599 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:41714677 original size:25 final size:25
Alignment explanation
Indices: 41714604--41714679 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
41714594 TTTTTAATCC
* *
41714604 CAATTTTACACCAACAAAATTTTGA
1 CAATTTTACCCCAATAAAATTTTGA
***
41714629 CAATTTTATCCTTGATAAAATTTTGA
1 CAATTTTA-CCCCAATAAAATTTTGA
**
41714655 TGATTTTACCCCAATAAAATTTTGA
1 CAATTTTACCCCAATAAAATTTTGA
41714680 GAAAACTCAT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
25 22 0.55
26 18 0.45
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (25 bp):
CAATTTTACCCCAATAAAATTTTGA
Found at i:41720289 original size:147 final size:147
Alignment explanation
Indices: 41720022--41720305 Score: 480
Period size: 147 Copynumber: 1.9 Consensus size: 147
41720012 AATTGATGGA
*
41720022 ATATGTATGTATGTGTGCTTATGTTAATAAATAAGACCGATAAGTTTATTTTCCATTATACGAAC
1 ATATGTATGTATCTGTGCTTATGTTAATAAATAAGACCGATAAGTTTATTTTCCATTATACGAAC
*
41720087 TTACTAAGCATAAAATGCTTACTCCATTTATTTTTCCCTGTTTTATAATGCTCAAAGCTCACGAA
66 TTACTAAGCATAAAATGCTTACTCCATTTATTTTTCCCTGTTTTATAATGCTCAAAGCTCACAAA
41720152 GGTTGGATGTCAGTCGG
131 GGTTGGATGTCAGTCGG
* * * *
41720169 ATATGTATGTATCTGTGCTTGTGTTAATAAATAAGGCC-AGTAAGTTTATTTTCCGTTATATGAA
1 ATATGTATGTATCTGTGCTTATGTTAATAAATAAGACCGA-TAAGTTTATTTTCCATTATACGAA
* *
41720233 CTTACTAAGCATAAAATGCTTACTCCATTTATTTTTCCCTGTTTTATAGTGCTCAAAGCTCGCAA
65 CTTACTAAGCATAAAATGCTTACTCCATTTATTTTTCCCTGTTTTATAATGCTCAAAGCTCACAA
41720298 AGGTTGGA
130 AGGTTGGA
41720306 AGTTGGTCGG
Statistics
Matches: 128, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
146 1 0.01
147 127 0.99
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (147 bp):
ATATGTATGTATCTGTGCTTATGTTAATAAATAAGACCGATAAGTTTATTTTCCATTATACGAAC
TTACTAAGCATAAAATGCTTACTCCATTTATTTTTCCCTGTTTTATAATGCTCAAAGCTCACAAA
GGTTGGATGTCAGTCGG
Found at i:41727293 original size:6 final size:6
Alignment explanation
Indices: 41727284--41727332 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
41727274 AATCAGGTGA
* *
41727284 CAGAAT CAGAAT CAGAAT CAGTAT CAGGTAA- CAGAAT CAAAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
41727333 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 2 0.06
6 30 0.83
7 3 0.08
8 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
CAGAAT
Found at i:41727499 original size:27 final size:26
Alignment explanation
Indices: 41727451--41727510 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
41727441 GCAACTCTGC
*
41727451 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
41727478 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
41727504 CAGATAT
1 CAGATAT
41727511 GTATACATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:41727813 original size:27 final size:27
Alignment explanation
Indices: 41727783--41728002 Score: 314
Period size: 27 Copynumber: 8.1 Consensus size: 27
41727773 GGGGTAAAAT
* * * *
41727783 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
41727810 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
41727837 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
41727864 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
41727891 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
41727918 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
41727945 GGTAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
41727972 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
41727999 GGTA
1 GGTA
41728003 TTTTCACAAA
Statistics
Matches: 171, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 171 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:41727869 original size:81 final size:80
Alignment explanation
Indices: 41727783--41728058 Score: 315
Period size: 81 Copynumber: 3.4 Consensus size: 80
41727773 GGGGTAAAAT
* * * *
41727783 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTTAC
41727848 CCTACAGGGGTATTTC
65 CCTACAGGGGTATTTC
* * *
41727864 GGTAATTCTACCTTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTT-TAC
*
41727929 CCTACAAGGGTATTTC
65 CCTACAGGGGTATTTC
* * *
41727945 GGTAATTCTACCCTAC-AGAGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTGGTATTTT-C
1 GGTAATTCTACCCTACAAG-GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTTAC
** *
41728008 ACAAACTAGTGGTATTTC
65 -CCTAC-AGGGGTATTTC
* ** * *
41728026 GGTAATTTTA-CAAACTAGGGTATTTTGGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATT
41728059 TTACAAACTA
Statistics
Matches: 167, Mismatches: 23, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 25 0.15
81 141 0.84
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (80 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTTACC
CTACAGGGGTATTTC
Found at i:41728022 original size:54 final size:54
Alignment explanation
Indices: 41727787--41728032 Score: 268
Period size: 54 Copynumber: 4.6 Consensus size: 54
41727777 TAAAATGGTA
* * * * *
41727787 ATTTT-ACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTTCACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT
*
41727840 AATTTT-ACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCGGT
1 -ATTTTCACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT
* * * *
41727894 A-ATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTTC-ACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT
* * * *
41727948 A-ATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTGGT
1 ATTTTC-ACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT
** *
41728002 ATTTTCA-CAAACTAGTGGTATTTCGGTAATT
1 ATTTTCACCCTAC-AGGGGTATTTCGGTAATT
41728033 TTACAAACTA
Statistics
Matches: 166, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
52 2 0.01
53 4 0.02
54 157 0.95
55 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (54 bp):
ATTTTCACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT
Found at i:41728096 original size:27 final size:26
Alignment explanation
Indices: 41727990--41728086 Score: 151
Period size: 27 Copynumber: 3.7 Consensus size: 26
41727980 TACCCTATAG
41727990 GGGTATTTTGGT-ATTTTCACAAACTA
1 GGGTATTTTGGTAATTTT-ACAAACTA
*
41728016 GTGGTATTTCGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAAACTA
41728043 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACT-A
41728070 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
41728087 GGTAAACTAA
Statistics
Matches: 66, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
26 24 0.36
27 37 0.56
28 5 0.08
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:41728102 original size:53 final size:53
Alignment explanation
Indices: 41727992--41728102 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 53
41727982 CCCTATAGGG
* **
41727992 GTATTTTGGTATTTTCACAAACTAGTGGTATTTCGGTAATTTTACAAACTAGG
1 GTATTTTGGTATTTTCACAAACTAGTGGTATTTCGGTAATTTGACAAACTAAA
* **
41728045 GTATTTTGGTAATTTT-ACAAACTAAG-GGTATTTTGGTAATTTGGTAAACTAAA
1 GTATTTTGGT-ATTTTCACAAACT-AGTGGTATTTCGGTAATTTGACAAACTAAA
41728098 GTATT
1 GTATT
41728103 CTAAACAGGG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 43 0.86
54 7 0.14
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (53 bp):
GTATTTTGGTATTTTCACAAACTAGTGGTATTTCGGTAATTTGACAAACTAAA
Found at i:41730055 original size:49 final size:49
Alignment explanation
Indices: 41729991--41730222 Score: 239
Period size: 49 Copynumber: 4.7 Consensus size: 49
41729981 CTGGTACGCA
* * *
41729991 TAGTAGCCTACACTTAGAACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* ** ** * *
41730040 TAGTAGCCTGCACTTAGTACCACACACATGACCTAACAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * *
41730090 TAGTAGCCTGCACTTAGAACTACATATGTGATCCAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
** * **
41730141 TAGTAGAGTGCAATTAGTACTACACATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* *
41730190 TAGTAGCCTGTACTTAGTACTACAAATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
41730223 TCACAATAGA
Statistics
Matches: 142, Mismatches: 38, Indels: 6
0.76 0.20 0.03
Matches are distributed among these distances:
49 64 0.45
50 44 0.31
51 34 0.24
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:41730498 original size:27 final size:27
Alignment explanation
Indices: 41730468--41730520 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
41730458 CATACAACCT
* *
41730468 ATGTAATAGTAATTTAACATTCAATTC
1 ATGTAACAATAATTTAACATTCAATTC
**
41730495 ATGTAACAATAATTTGCCATTCAATT
1 ATGTAACAATAATTTAACATTCAATT
41730521 TCACATGACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (27 bp):
ATGTAACAATAATTTAACATTCAATTC
Found at i:41735319 original size:49 final size:50
Alignment explanation
Indices: 41735012--41735374 Score: 172
Period size: 46 Copynumber: 7.7 Consensus size: 50
41735002 ATTTGTGCAC
* * *
41735012 CAGTGTAAGA-CATTTCTGGGACAT-GCATCGGC-CAC-AT-TATGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATATGTGAGAGT
* ** ** * *
41735058 CAGTGTAAGACCATGTTTGCTACATGGCATCGGCATTGAGA--CGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGAGAGT
* * ** * *
41735105 CTAGTGCAAGA-CATGTCTAGGACAT-GCATTAGC-CTCGAGATGT-A-AGC
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATATGTGAGAGT
* * *
41735152 CAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCTA-CAAGATGT----GT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACCGATATGTGAGAGT
*
41735196 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGAGAGT
* ** * *
41735245 CTAGTGTAAGATCATGTCTCAGACATGGCGTCGGC-CTCGAT-T-TCGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATATGT-GAGAGT
* * * *
41735295 CAGTGTAAGACCATGTTTGGGACATGACATC-G-A-C-TTGATG-GATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT-ATGTGA-GAGT
*
41735342 CAGTGTAAGACCATGTCTGAGACATGGCATCGG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG
41735375 TATTATACCC
Statistics
Matches: 241, Mismatches: 47, Indels: 56
0.70 0.14 0.16
Matches are distributed among these distances:
44 11 0.05
45 15 0.06
46 71 0.29
47 54 0.22
48 24 0.10
49 32 0.13
50 34 0.14
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGAGAGT
Found at i:41749790 original size:9 final size:9
Alignment explanation
Indices: 41749776--41749800 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
41749766 CCAAGTTTTG
41749776 CAATTTATT
1 CAATTTATT
41749785 CAATTTATT
1 CAATTTATT
41749794 CAATTTA
1 CAATTTA
41749801 GTCCCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (9 bp):
CAATTTATT
Found at i:41752772 original size:56 final size:56
Alignment explanation
Indices: 41752705--41752859 Score: 247
Period size: 56 Copynumber: 2.8 Consensus size: 56
41752695 AGTAAGACCA
* *
41752705 TGGCATCGATATGTGACTCCAATATATGTGTGCGAGTAAGACCAGGTTTTATATGT
1 TGGCATCGATATGTGACTCCGATATATGTGTGTGAGTAAGACCAGGTTTTATATGT
* * * *
41752761 TGGCATTGATATGTGACTCCGATATATGTGTGTGAGTAAGACCATGTTTTCTATTT
1 TGGCATCGATATGTGACTCCGATATATGTGTGTGAGTAAGACCAGGTTTTATATGT
*
41752817 TGGCATCGATATGTGACTCTGATATATGTGTGTGAGTAAGACC
1 TGGCATCGATATGTGACTCCGATATATGTGTGTGAGTAAGACC
41752860 CTATCTGGGA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 91 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCCGATATATGTGTGTGAGTAAGACCAGGTTTTATATGT
Found at i:41752877 original size:56 final size:56
Alignment explanation
Indices: 41752705--41752888 Score: 174
Period size: 56 Copynumber: 3.3 Consensus size: 56
41752695 AGTAAGACCA
* * ** ** *
41752705 TGGCATCGATATGTGACTCCAATATATGTGTGCGAGTAAGACCAGGT-T-TTATATG
1 TGGCATCGATATGTGACTCCGATATATGTGTGTGAGTAAGACCATATCTGCGACA-G
* * * * * ***
41752760 TTGGCATTGATATGTGACTCCGATATATGTGTGTGAGTAAGACCATGTTTTCTATTT
1 -TGGCATCGATATGTGACTCCGATATATGTGTGTGAGTAAGACCATATCTGCGACAG
* * *
41752817 TGGCATCGATATGTGACTCTGATATATGTGTGTGAGTAAGACCCTATCTGGGACAG
1 TGGCATCGATATGTGACTCCGATATATGTGTGTGAGTAAGACCATATCTGCGACAG
41752873 TGGCATCGATATGTGA
1 TGGCATCGATATGTGA
41752889 TTACATGTAA
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
56 104 0.96
57 1 0.01
58 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCCGATATATGTGTGTGAGTAAGACCATATCTGCGACAG
Found at i:41753387 original size:13 final size:13
Alignment explanation
Indices: 41753369--41753396 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
41753359 TTTGAAATGT
41753369 TGGATTTTGGTTA
1 TGGATTTTGGTTA
41753382 TGGATTTTGGTTA
1 TGGATTTTGGTTA
41753395 TG
1 TG
41753397 TATAATCTAA
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:0.14, C:0.00, G:0.32, T:0.54
Consensus pattern (13 bp):
TGGATTTTGGTTA
Found at i:41755598 original size:48 final size:48
Alignment explanation
Indices: 41755545--41755919 Score: 229
Period size: 46 Copynumber: 7.9 Consensus size: 48
41755535 GCCACATTAT
41755545 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
* * * * *
41755593 GAGAGCTAGTATAAGA-CATGTCTAGGACAT-GCATCGGCCTTGAGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
* * *
41755639 GTA-AGCCAGTGTAAGA-CATGTTTGGGATAT-GCATCGGC-TACGAGAC
1 G-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGAC
* * * * *
41755685 --GTGTCAGTGTAAGACCATGTCTGGGAGATGACATCGGCATAT-ATA-
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGAC
* * * * * * *
41755730 GAGGTGCCAGTGTAAGACCATGTCTAGGACATGCCATTGGCA-CGAATATGT
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-AGA--C
* * ** * * * * **
41755781 GACAGCTAGTGTAAGACCATGTCTCAGACATGGCGTTGGCCTCGATTTC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GAC
* * * *
41755830 AATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATG--
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GAC
* * *
41755876 GATGAGCCAGTGTAACACCATATCTGGGACATGGCATCGACATT
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
41755920 ATACCCTATG
Statistics
Matches: 258, Mismatches: 51, Indels: 36
0.75 0.15 0.10
Matches are distributed among these distances:
44 11 0.04
45 13 0.05
46 59 0.23
47 50 0.19
48 57 0.22
49 31 0.12
50 32 0.12
51 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
Done.