Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 292 of 320
Found at i:93417920 original size:781 final size:780
Alignment explanation
Indices: 93416419--93417983 Score: 3121
Period size: 781 Copynumber: 2.0 Consensus size: 780
93416409 AGATATAATG
93416419 TAACACCCCCTACCCGTATCCATTGCCGGAATAGGGTTTGAGGCATTACCGAAGTTTACTGAACA
1 TAACACCCCCTACCCGTATCCATTGCCGGAATAGGGTTTGAGGCATTACCGAAGTTTACTGAACA
93416484 TTTTCAGATAATTCTGAGTCATTTATTATTCAGATTTTGAAAATAATCATAACGTCTCTCTATTG
66 TTTTCAGATAATTCTGAGTCATTTATTATTCAGATTTTGAAAATAATCATAACGTCTCTCTATTG
93416549 GGCCCTCGAAGCCCCAAACATACACTAGAAACCAACTGGAATTAAATCGGGATTATAAAAAAAAA
131 GGCCCTCGAAGCCCCAAACATACACTAGAAACCAACTGGAATTAAATCGGGATTATAAAAAAAAA
93416614 TTCGCAAAATCTTAAATTTTATTTTCATCTAAGTACTTACCATTTCAATTCTCCTTATAATTAAA
196 TTCGCAAAATCTTAAATTTTATTTTCATCTAAGTACTTACCATTTCAATTCTCCTTATAATTAAA
93416679 CATGTTACCATTCAATCAATAGCTTGGTACTTGTCTAAGCGTCAAACAACATCATTGTTAGTATA
261 CATGTTACCATTCAATCAATAGCTTGGTACTTGTCTAAGCGTCAAACAACATCATTGTTAGTATA
93416744 CTTGCACATATTTCATATAAATTCAACATTGATATACTTATTTTCTCGACATGTCACACTTGAGT
326 CTTGCACATATTTCATATAAATTCAACATTGATATACTTATTTTCTCGACATGTCACACTTGAGT
93416809 TTAATAATTGTCTTTACTTACATAATTTCCTTGTATCAACATATTAAAGACAATCATATATGTAC
391 TTAATAATTGTCTTTACTTACATAATTTCCTTGTATCAACATATTAAAGACAATCATATATGTAC
93416874 ATGTCATGAAACATATCATTCTCTTACCATTTTTTTTCATAAGTATATATATCAATCATTTCATT
456 ATGTCATGAAACATATCATTCTCTTACCATTTTTTTTCATAAGTATATATATCAATCATTTCATT
93416939 ATATCAATATTTCATACTCCATCATTTCCATATATTTTATGTATATTTATTCCGGTGAAGTTTAT
521 ATATCAATATTTCATACTCCATCATTTCCATATATTTTATGTATATTTATTCCGGTGAAGTTTAT
93417004 ATCAAACTTAACATAAATTATATTCCATGTACTTATTCTTATTTCGTTTATCTATCTTCATAATT
586 ATCAAACTTAACATAAATTATATTCCATGTACTTATTCTTATTTCGTTTATCTATCTTCATAATT
93417069 ATTTCATACAACTATTTTGCACATATATTTCCATATGACCAGTTCTTGTAAGCACTTCACACAAC
651 ATTTCATACAACTATTTTGCACATATATTTCCATATGACCAGTTCTTGTAAGCACTTCACACAAC
93417134 CATTTCATATAACCATTCGTCATCCGGTACATATTACCTGAATATCAATTGTTCAATAGATGTCA
716 CATTTCATATAACCATTCGTCATCCGGTACATATTACCTGAATATCAATTGTTCAATAGATGTCA
93417199 TAACACCCCCTACCCGTATCCATTGCCGGAATAGGGTTTGAGGCATTACCGAAGTTTACTGAACA
1 TAACACCCCCTACCCGTATCCATTGCCGGAATAGGGTTTGAGGCATTACCGAAGTTTACTGAACA
93417264 TTTTCAGATAATTCTGAGTCATTTATTATTCAGATTTTGAAAATAATCATAACGTCTCTCTATTG
66 TTTTCAGATAATTCTGAGTCATTTATTATTCAGATTTTGAAAATAATCATAACGTCTCTCTATTG
93417329 GGCCCTCGAAGCCCCAAACATACACTAGAAACCAACTGGAATTAAATCGGGATTATAAAAAAAAA
131 GGCCCTCGAAGCCCCAAACATACACTAGAAACCAACTGGAATTAAATCGGGATTAT-AAAAAAAA
93417394 ATTCGCAAAATCTTAAATTTTATTTTCATCTAAGTACTTACCATTTCAATTCTCCTTATAATTAA
195 ATTCGCAAAATCTTAAATTTTATTTTCATCTAAGTACTTACCATTTCAATTCTCCTTATAATTAA
93417459 ACATGTTACCATTCAATCAATAGCTTGGTACTTGTCTAAGCGTCAAACAACATCATTGTTAGTAT
260 ACATGTTACCATTCAATCAATAGCTTGGTACTTGTCTAAGCGTCAAACAACATCATTGTTAGTAT
93417524 ACTTGCACATATTTCATATAAATTCAACATTGATATACTTATTTTCTCGACATGTCACACTTGAG
325 ACTTGCACATATTTCATATAAATTCAACATTGATATACTTATTTTCTCGACATGTCACACTTGAG
93417589 TTTAATAATTGTCTTTACTTACATAATTTCCTTGTATCAACATATTAAAGACAATCATATATGTA
390 TTTAATAATTGTCTTTACTTACATAATTTCCTTGTATCAACATATTAAAGACAATCATATATGTA
93417654 CATGTCATGAAACATATCATTCTCTTACCATTTTTTTTCATAAGTATATATATCAATCATTTCAT
455 CATGTCATGAAACATATCATTCTCTTACCATTTTTTTTCATAAGTATATATATCAATCATTTCAT
93417719 TATATCAATATTTCATACTCCATCATTTCCATATATTTTATGTATATTTATTCCGGTGAAGTTTA
520 TATATCAATATTTCATACTCCATCATTTCCATATATTTTATGTATATTTATTCCGGTGAAGTTTA
93417784 TATCAAACTTAACATAAATTATATTCCATGTACTTATTCTTATTTCGTTTATCTATCTTCATAAT
585 TATCAAACTTAACATAAATTATATTCCATGTACTTATTCTTATTTCGTTTATCTATCTTCATAAT
93417849 TATTTCATACAACTATTTTGCACATATATTTCCATATGACCAGTTCTTGTAAGCACTTCACACAA
650 TATTTCATACAACTATTTTGCACATATATTTCCATATGACCAGTTCTTGTAAGCACTTCACACAA
93417914 CCATTTCATATAACCATTCGTCATCCGGTACATATTACCTGAATATCAATTGTTCAATAGATGTC
715 CCATTTCATATAACCATTCGTCATCCGGTACATATTACCTGAATATCAATTGTTCAATAGATGTC
93417979 A
780 A
93417980 TAAC
1 TAAC
93417984 GTCTCCCATC
Statistics
Matches: 784, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
780 186 0.24
781 598 0.76
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.38
Consensus pattern (780 bp):
TAACACCCCCTACCCGTATCCATTGCCGGAATAGGGTTTGAGGCATTACCGAAGTTTACTGAACA
TTTTCAGATAATTCTGAGTCATTTATTATTCAGATTTTGAAAATAATCATAACGTCTCTCTATTG
GGCCCTCGAAGCCCCAAACATACACTAGAAACCAACTGGAATTAAATCGGGATTATAAAAAAAAA
TTCGCAAAATCTTAAATTTTATTTTCATCTAAGTACTTACCATTTCAATTCTCCTTATAATTAAA
CATGTTACCATTCAATCAATAGCTTGGTACTTGTCTAAGCGTCAAACAACATCATTGTTAGTATA
CTTGCACATATTTCATATAAATTCAACATTGATATACTTATTTTCTCGACATGTCACACTTGAGT
TTAATAATTGTCTTTACTTACATAATTTCCTTGTATCAACATATTAAAGACAATCATATATGTAC
ATGTCATGAAACATATCATTCTCTTACCATTTTTTTTCATAAGTATATATATCAATCATTTCATT
ATATCAATATTTCATACTCCATCATTTCCATATATTTTATGTATATTTATTCCGGTGAAGTTTAT
ATCAAACTTAACATAAATTATATTCCATGTACTTATTCTTATTTCGTTTATCTATCTTCATAATT
ATTTCATACAACTATTTTGCACATATATTTCCATATGACCAGTTCTTGTAAGCACTTCACACAAC
CATTTCATATAACCATTCGTCATCCGGTACATATTACCTGAATATCAATTGTTCAATAGATGTCA
Found at i:93418386 original size:46 final size:46
Alignment explanation
Indices: 93418015--93418385 Score: 424
Period size: 46 Copynumber: 8.0 Consensus size: 46
93418005 TTATTTTTGA
* * * * *
93418015 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACT-CATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TACA-TTTCATAT
* * * ***
93418061 CATGTTGCCATGGTATCTTTCAACCATGTTTTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACA-TTTCATAT
* *
93418108 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATAT
*** *
93418154 CACACTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACA-TTTCATAT
** * *
93418200 CATGTTGCCATGGTATAATTCAACCATGGTCCTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATAT
*
93418246 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATAT
* * * * *
93418292 TAGGTTGCCATGGTATCTTCCAACCGTGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATAT
* *
93418338 CAGGTTGCCATGATATCTTTCAACCATGGTCTTATACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATAT
93418384 CA
1 CA
93418386 GAGAGCACAC
Statistics
Matches: 286, Mismatches: 35, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
45 5 0.02
46 239 0.84
47 42 0.15
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATAT
Found at i:93420602 original size:21 final size:20
Alignment explanation
Indices: 93420563--93420612 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
93420553 ATAATATAAT
93420563 TATTTAAT-TAATAAATATC
1 TATTTAATATAATAAATATC
*
93420582 TTTTATAATATAATAAATATC
1 TATT-TAATATAATAAATATC
93420603 TATTTAATAT
1 TATTTAATAT
93420613 CTAATACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 10 0.37
21 14 0.52
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTAATATAATAAATATC
Found at i:93422485 original size:3 final size:3
Alignment explanation
Indices: 93422472--93422622 Score: 90
Period size: 3 Copynumber: 49.3 Consensus size: 3
93422462 AGATAACAAA
* * * **
93422472 AAT AGT AAT AAT AAT AAT AAT AAT AAC AGT AAT AAT AAT AGC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** * *
93422520 AAT ATT AA- AATT AATT ACT AAT AAT AAT AGG GAT AAT AAT AAA AGAT
1 AAT AAT AAT AA-T AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
** ** * *
93422567 AAT AGC AAT AAT AAT AGC AAT AAT AAT ATT AA- AATT AATT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT
93422613 AAT AAT AAT A
1 AAT AAT AAT A
93422623 TTAAAATTAA
Statistics
Matches: 109, Mismatches: 34, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
2 4 0.04
3 93 0.85
4 12 0.11
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:93422487 original size:12 final size:12
Alignment explanation
Indices: 93422472--93422619 Score: 117
Period size: 12 Copynumber: 12.3 Consensus size: 12
93422462 AGATAACAAA
93422472 AATAGTAATAAT
1 AATAGTAATAAT
*
93422484 AATAATAATAAT
1 AATAGTAATAAT
*
93422496 AACAGTAATAAT
1 AATAGTAATAAT
*
93422508 AATAGCAATAAT
1 AATAGTAATAAT
*
93422520 AATATTAA-AATT
1 AATAGTAATAA-T
*
93422532 AATTACTAATAAT
1 AA-TAGTAATAAT
**
93422545 AATAGGGATAAT
1 AATAGTAATAAT
93422557 AATA--AA-AGAT
1 AATAGTAATA-AT
*
93422567 AATAGCAATAAT
1 AATAGTAATAAT
*
93422579 AATAGCAATAAT
1 AATAGTAATAAT
*
93422591 AATATTAA-AATT
1 AATAGTAATAA-T
*
93422603 AATTACTAATAAT
1 AA-TAGTAATAAT
93422616 AATA
1 AATA
93422620 ATATTAAAAT
Statistics
Matches: 111, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
9 1 0.01
10 7 0.06
11 4 0.04
12 78 0.70
13 17 0.15
14 4 0.04
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:93422548 original size:37 final size:37
Alignment explanation
Indices: 93422501--93422619 Score: 167
Period size: 37 Copynumber: 3.3 Consensus size: 37
93422491 ATAATAACAG
93422501 TAATAATAATAGCAATAATAATATTAAAATTAATTAC
1 TAATAATAATAGCAATAATAATATTAAAATTAATTAC
**
93422538 TAATAATAATAGGGATAATAATA--AAAGA-TAA-TAGC
1 TAATAATAATAGCAATAATAATATTAAA-ATTAATTA-C
93422573 -AATAATAATAGCAATAATAATATTAAAATTAATTAC
1 TAATAATAATAGCAATAATAATATTAAAATTAATTAC
93422609 TAATAATAATA
1 TAATAATAATA
93422620 ATATTAAAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
34 22 0.31
35 8 0.11
36 8 0.11
37 33 0.46
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (37 bp):
TAATAATAATAGCAATAATAATATTAAAATTAATTAC
Found at i:93422587 original size:71 final size:70
Alignment explanation
Indices: 93422482--93422619 Score: 240
Period size: 71 Copynumber: 2.0 Consensus size: 70
93422472 AATAGTAATA
* *
93422482 ATAATAATAATAATAACAGTAATAATAATAGCAATAATAATATTAAAATTAATTACTAATAATAA
1 ATAATAATAAAAATAACAGCAATAATAATAGCAATAATAATATTAAAATTAATTACTAATAATAA
93422547 TAGGG
66 TAGGG
*
93422552 ATAATAATAAAAGATAATAGCAATAATAATAGCAATAATAATATTAAAATTAATTACTAATAATA
1 ATAATAATAAAA-ATAACAGCAATAATAATAGCAATAATAATATTAAAATTAATTACTAATAATA
93422617 ATA
65 ATA
93422620 ATATTAAAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
70 11 0.17
71 53 0.83
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (70 bp):
ATAATAATAAAAATAACAGCAATAATAATAGCAATAATAATATTAAAATTAATTACTAATAATAA
TAGGG
Found at i:93422632 original size:34 final size:34
Alignment explanation
Indices: 93422504--93422632 Score: 102
Period size: 34 Copynumber: 3.7 Consensus size: 34
93422494 ATAACAGTAA
** *
93422504 TAATAATAGCAATAATAATATTAAAATTAATTAC
1 TAATAATAATAATAATAAAATTAAAATTAATTAC
*** *
93422538 TAATAATAATAGGGATAATAA-TAAAAGATAA-TAGC
1 TAATAATAATAATAATAA-AATTAAAA-TTAATTA-C
*
93422573 -AATAATAATAGCAATAATAATATTAAAATTAATTAC
1 TAATAATAAT---AATAATAAAATTAAAATTAATTAC
*
93422609 TAATAATAATAATATTAAAATTAA
1 TAATAATAATAATAATAAAATTAA
93422633 TTAATTTAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 18
0.69 0.13 0.17
Matches are distributed among these distances:
34 41 0.57
35 5 0.07
36 5 0.07
37 21 0.29
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (34 bp):
TAATAATAATAATAATAAAATTAAAATTAATTAC
Found at i:93423430 original size:18 final size:19
Alignment explanation
Indices: 93423383--93423447 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
93423373 TTGTTTTTAA
* * *
93423383 AAAATAATAATAATAACAA
1 AAAATAATAAAAATGACAC
*
93423402 AAATATAAATATAAATG-CAC
1 AAA-AT-AATAAAAATGACAC
*
93423422 AAAATAATAAAAATGATAC
1 AAAATAATAAAAATGACAC
93423441 AAAATAA
1 AAAATAA
93423448 AATAGACCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 9 0.24
19 14 0.38
20 7 0.19
21 7 0.19
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAATAATAAAAATGACAC
Found at i:93425058 original size:19 final size:19
Alignment explanation
Indices: 93425017--93425059 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
93425007 AAAATGGCCT
* *
93425017 ATTAACATTTGATTTATGA
1 ATTAACATTTCATTGATGA
93425036 ATTAACATTTCACTTGATG-
1 ATTAACATTTCA-TTGATGA
93425055 ATTAA
1 ATTAA
93425060 TAAGACATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (19 bp):
ATTAACATTTCATTGATGA
Found at i:93426113 original size:31 final size:31
Alignment explanation
Indices: 93426039--93426113 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
93426029 ATATATACAC
* * *
93426039 TTATATTATAA-CTATTTATTTACTTAAAAT
1 TTATATTATAAGATATTTATTTAATTAAAAA
*
93426069 TTA-AGTTAAAAGATATTTA-TTAATTAAATAA
1 TTATA-TTATAAGATATTTATTTAATTAAA-AA
93426100 TTATATTATAAGAT
1 TTATATTATAAGAT
93426114 TTTTGTATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
29 1 0.03
30 16 0.44
31 18 0.50
32 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (31 bp):
TTATATTATAAGATATTTATTTAATTAAAAA
Found at i:93427398 original size:44 final size:44
Alignment explanation
Indices: 93427315--93427406 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
93427305 TGTTCAGGGA
* * *
93427315 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTTTCGTACTGT
1 TACTTCGACCTTGAGTCGATAAGGCACTATAAGTGTCGTACTGC
**
93427359 TACTTCGA-CTTCGAGTCGATAAGGCACCT-TGTGTGTCGTACTGC
1 TACTTCGACCTT-GAGTCGATAAGGCA-CTATAAGTGTCGTACTGC
93427403 TACT
1 TACT
93427407 GTTTACTTCG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 3 0.07
44 36 0.88
45 2 0.05
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATAAGGCACTATAAGTGTCGTACTGC
Found at i:93428120 original size:29 final size:29
Alignment explanation
Indices: 93428087--93428147 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
93428077 GGTGAAATAA
93428087 GTAAATTTTAGATTTGGTAATGGTATATG
1 GTAAATTTTAGATTTGGTAATGGTATATG
*
93428116 GTAAATTTTATATTTGGTAATGGTATATG
1 GTAAATTTTAGATTTGGTAATGGTATATG
93428145 GTA
1 GTA
93428148 GGAATTGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (29 bp):
GTAAATTTTAGATTTGGTAATGGTATATG
Found at i:93428135 original size:16 final size:16
Alignment explanation
Indices: 93428087--93428135 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
93428077 GGTGAAATAA
*
93428087 GTAAATTTTAGATTTG
1 GTAAATTTTATATTTG
**
93428103 GT-AATGGTATA--TG
1 GTAAATTTTATATTTG
93428116 GTAAATTTTATATTTG
1 GTAAATTTTATATTTG
93428132 GTAA
1 GTAA
93428136 TGGTATATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 6
0.69 0.14 0.17
Matches are distributed among these distances:
13 4 0.16
14 7 0.28
15 6 0.24
16 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (16 bp):
GTAAATTTTATATTTG
Found at i:93428475 original size:21 final size:21
Alignment explanation
Indices: 93428449--93428503 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
93428439 GGGCTCTCAT
93428449 CATGACCGTGTGACCTAGCGA
1 CATGACCGTGTGACCTAGCGA
* *
93428470 CATGACCGTGTGATCTAGTGA
1 CATGACCGTGTGACCTAGCGA
* *
93428491 CACGATCGTGTGA
1 CATGACCGTGTGA
93428504 GTCATATGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (21 bp):
CATGACCGTGTGACCTAGCGA
Found at i:93431476 original size:52 final size:52
Alignment explanation
Indices: 93431401--93431600 Score: 195
Period size: 52 Copynumber: 3.9 Consensus size: 52
93431391 GATAGAAAAT
*
93431401 ATGTGATATATGATTCCGTATAAGACCATAGAC-GGGCTATGGCATCGGTAAA
1 ATGTGATATGTGATTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAAA
* ***
93431453 ATGTGAT-TCGTG-TTCCCGTATAAGACCATAGCTCGGCTATGGCATCGGTGTG
1 ATGTGATAT-GTGATT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAAA
* *
93431505 ATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGT---
1 ATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAAA
* * *
93431555 A--TGATATGTGA-TCCGTGTAAGACCAT-GGTAGGGCTATGGCTTCGGT
1 ATGTGATATGTGATTCCGTATAAGACCATAGCT-GGGCTATGGCATCGGT
93431601 GTGTGATATG
Statistics
Matches: 128, Mismatches: 13, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
45 1 0.01
46 28 0.22
47 6 0.05
48 4 0.03
50 1 0.01
51 4 0.03
52 47 0.37
53 34 0.27
54 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAAA
Found at i:93431600 original size:46 final size:48
Alignment explanation
Indices: 93431411--93431580 Score: 116
Period size: 53 Copynumber: 3.4 Consensus size: 48
93431401 ATGTGATATA
* * *
93431411 TGATTCCGTATAAGACCATA-GACGGGCTATGGCATCGGTAAAATG-TGATTCG
1 TGATTCCGTATAAGACCATATCA-GGGATATGGCATCGGT---ATGAT-AAT-G
* ** *
93431463 TG-TTCCCGTATAAGACCATAGCTCGGCTATGGCATCGGTGTGATGTGATAATG
1 TGATT-CCGTATAAGACCATATCAGGGATATGGCATC-G-GT-A--TGATAATG
*
93431516 TGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGAT-ATG
1 TGATTCCGTATAAGACCATATCAGGGATATGGCATCGGTATGATAATG
*
93431563 TGA-TCCGTGTAAGACCAT
1 TGATTCCGTATAAGACCAT
93431581 GGTAGGGCTA
Statistics
Matches: 101, Mismatches: 9, Indels: 22
0.77 0.07 0.17
Matches are distributed among these distances:
46 14 0.14
47 6 0.06
48 4 0.04
50 1 0.01
51 4 0.04
52 31 0.31
53 32 0.32
54 8 0.08
55 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (48 bp):
TGATTCCGTATAAGACCATATCAGGGATATGGCATCGGTATGATAATG
Found at i:93432377 original size:20 final size:20
Alignment explanation
Indices: 93432352--93432406 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
93432342 CCCATGGGTA
93432352 GCCACACGGGCATGTTCCAG
1 GCCACACGGGCATGTTCCAG
*
93432372 GCCACACGGGCGTGTTCCAG
1 GCCACACGGGCATGTTCCAG
93432392 GCCACACGGGCATGT
1 GCCACACGGGCATGT
93432407 GCCCCTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.18, C:0.35, G:0.33, T:0.15
Consensus pattern (20 bp):
GCCACACGGGCATGTTCCAG
Found at i:93432771 original size:3 final size:3
Alignment explanation
Indices: 93432758--93432805 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
93432748 ACTTTAACAG
* *
93432758 AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AGCA AG- ATA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA
93432803 AGA
1 AGA
93432806 GACTATAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 35 0.90
4 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.29, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:93436631 original size:48 final size:48
Alignment explanation
Indices: 93436571--93437049 Score: 796
Period size: 48 Copynumber: 10.0 Consensus size: 48
93436561 TATATATGTA
*
93436571 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
*
93436619 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
93436667 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
** *
93436715 TGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
* ** *
93436763 TGGTAAAGCTGAATGGCTAACATGAAATATGTATGAGATATATATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
* *
93436811 TGGTAAATCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
93436859 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
** *
93436907 TGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
* *
93436955 TCGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
* *
93437003 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGATATGTGTATAT
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
93437050 ATTGTGGCCG
Statistics
Matches: 406, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 406 1.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (48 bp):
TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
Found at i:93437233 original size:37 final size:37
Alignment explanation
Indices: 93437183--93437292 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
93437173 GGAAATATAT
*
93437183 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
93437220 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
93437257 TCCGAGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
93437293 TCGAGCTAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:93438746 original size:3 final size:3
Alignment explanation
Indices: 93438738--93438832 Score: 172
Period size: 3 Copynumber: 31.3 Consensus size: 3
93438728 ATTTACAGTC
*
93438738 TCT TCT TCT TCT TCT CCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
93438786 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT CTCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT
93438832 T
1 T
93438833 ATGGGGTTTT
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
3 86 0.97
4 3 0.03
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:93441427 original size:16 final size:16
Alignment explanation
Indices: 93441406--93441437 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93441396 TTTTACTGAA
93441406 GAGCAATGACTAATAT
1 GAGCAATGACTAATAT
93441422 GAGCAATGACTAATAT
1 GAGCAATGACTAATAT
93441438 AATTAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (16 bp):
GAGCAATGACTAATAT
Found at i:93444225 original size:18 final size:17
Alignment explanation
Indices: 93444201--93444245 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
93444191 ATAAATATTT
93444201 AAAAAATAAAAAATTCA
1 AAAAAATAAAAAATTCA
93444218 AAATAAAT-AAAAATTCA
1 AAA-AAATAAAAAATTCA
93444235 AAAAAA-AAAAA
1 AAAAAATAAAAA
93444246 GCTTAGCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.27
17 15 0.58
18 4 0.15
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAAATAAAAAATTCA
Found at i:93455632 original size:17 final size:17
Alignment explanation
Indices: 93455610--93455643 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
93455600 ATCCACTAAT
*
93455610 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
93455627 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
93455644 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:93460271 original size:17 final size:17
Alignment explanation
Indices: 93460249--93460282 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
93460239 ATCCACTAAT
*
93460249 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
93460266 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
93460283 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:93471590 original size:44 final size:44
Alignment explanation
Indices: 93471537--93471623 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
93471527 TTTAAAATAA
* * * * *
93471537 AATAAAAGTTATTATAATTATATATTTAAAAATATTTATAATTC
1 AATAAAAGTTATGATAATTACACATTTAAAAATAATTAGAATTC
* * *
93471581 AATAGAAGTTGTGATAATTACCCATTTAAAAATAATTAGAATT
1 AATAAAAGTTATGATAATTACACATTTAAAAATAATTAGAATT
93471624 TAAATTATAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (44 bp):
AATAAAAGTTATGATAATTACACATTTAAAAATAATTAGAATTC
Found at i:93472423 original size:13 final size:13
Alignment explanation
Indices: 93472405--93472433 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
93472395 GTTTATGCGC
93472405 ATGATTTCTTTAA
1 ATGATTTCTTTAA
93472418 ATGATTTCTTTAA
1 ATGATTTCTTTAA
93472431 ATG
1 ATG
93472434 GCTAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (13 bp):
ATGATTTCTTTAA
Found at i:93487322 original size:31 final size:32
Alignment explanation
Indices: 93487277--93487370 Score: 95
Period size: 31 Copynumber: 3.0 Consensus size: 32
93487267 TTCATAAAGT
*
93487277 CTAT-AAAA-TTTTTGAAAGTTTTAATTAGAC
1 CTATCAAAATTTTTTGAAAATTTTAATTAGAC
* * * * *
93487307 CTATC-AATTTTTTTGAAAATTCTCATTAAAA
1 CTATCAAAATTTTTTGAAAATTTTAATTAGAC
* *
93487338 CTCTCAAAATTTTTTAAAAATTTTAATTAGAC
1 CTATCAAAATTTTTTGAAAATTTTAATTAGAC
93487370 C
1 C
93487371 CCTCAAAACT
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 6 0.12
31 21 0.44
32 21 0.44
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (32 bp):
CTATCAAAATTTTTTGAAAATTTTAATTAGAC
Found at i:93490408 original size:28 final size:28
Alignment explanation
Indices: 93490377--93490435 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
93490367 TAGAGTCCCG
*
93490377 AACCCAAAACCCAAAACCTA-GAACCCCA
1 AACCC-AAACCCAAAACCCATGAACCCCA
* * *
93490405 AACCCCAACCTATAACCCATGAACCCCA
1 AACCCAAACCCAAAACCCATGAACCCCA
93490433 AAC
1 AAC
93490436 TCATAACATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.46, C:0.44, G:0.03, T:0.07
Consensus pattern (28 bp):
AACCCAAACCCAAAACCCATGAACCCCA
Found at i:93490416 original size:20 final size:21
Alignment explanation
Indices: 93490376--93490423 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
93490366 ATAGAGTCCC
93490376 GAACCCAAAACCCAAAACCTA
1 GAACCCAAAACCCAAAACCTA
* *
93490397 GAACCCCAAACCC-CAACCTA
1 GAACCCAAAACCCAAAACCTA
*
93490417 TAACCCA
1 GAACCCA
93490424 TGAACCCCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.46, C:0.44, G:0.04, T:0.06
Consensus pattern (21 bp):
GAACCCAAAACCCAAAACCTA
Found at i:93499214 original size:14 final size:14
Alignment explanation
Indices: 93499197--93499231 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
93499187 AAAATACTAT
93499197 TATATAAATACACA
1 TATATAAATACACA
* *
93499211 TATATATATACATA
1 TATATAAATACACA
93499225 TATATAA
1 TATATAA
93499232 CAAAATATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (14 bp):
TATATAAATACACA
Found at i:93499239 original size:20 final size:20
Alignment explanation
Indices: 93499216--93499254 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
93499206 ACACATATAT
93499216 ATATACA-TATATATAACAAA
1 ATATACACTATAT-TAACAAA
*
93499236 ATATTCACTATATTAACAA
1 ATATACACTATATTAACAA
93499255 TGATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATACACTATATTAACAAA
Found at i:93499265 original size:3 final size:3
Alignment explanation
Indices: 93499257--93499324 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
93499247 ATTAACAATG
* * * * *
93499257 ATA ATA ATA ATA ATA GTA ATA ATA TTA A-A ATA CAAA AAA AGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
*
93499302 ATA A-A AT- ATA ATA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
93499325 AGTAATTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
2 6 0.12
3 44 0.85
4 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:93499301 original size:21 final size:22
Alignment explanation
Indices: 93499277--93499324 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
93499267 TAATAGTAAT
*
93499277 AATATTAAAATACAA-AAAAAG
1 AATAATAAAATACAATAAAAAG
* *
93499298 AATAATAAAATATAATAAAAAT
1 AATAATAAAATACAATAAAAAG
93499320 AATAA
1 AATAA
93499325 AGTAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AATAATAAAATACAATAAAAAG
Found at i:93499376 original size:23 final size:25
Alignment explanation
Indices: 93499340--93499404 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 25
93499330 TTAAAAATCA
*
93499340 TACTATATATATAAATATATATACAC
1 TACTAGATA-ATAAATATATATACAC
*
93499366 -A-TAGGTAATAAA-A-ATATACAC
1 TACTAGATAATAAATATATATACAC
*
93499387 TACTATATAATAAATATA
1 TACTAGATAATAAATATA
93499405 ATAATAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
21 8 0.26
22 2 0.06
23 14 0.45
24 5 0.16
25 2 0.06
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (25 bp):
TACTAGATAATAAATATATATACAC
Found at i:93499574 original size:13 final size:13
Alignment explanation
Indices: 93499545--93499583 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
93499535 ATAGTAACAA
*
93499545 AAAATATGTATAAT
1 AAAATAT-TAAAAT
93499559 AAAATATTAAAAT
1 AAAATATTAAAAT
*
93499572 AAAATAATAAAA
1 AAAATATTAAAA
93499584 ATAAGGCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (13 bp):
AAAATATTAAAAT
Found at i:93499754 original size:20 final size:21
Alignment explanation
Indices: 93499721--93499785 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
93499711 TACTGTATAT
93499721 ATATATAC-ACATATAATAA-A
1 ATATATACTA-ATATAATAATA
93499741 ATATATACTAATATTAATAATA
1 ATATATACTAATA-TAATAATA
* * *
93499763 A-ATATAATAGTATAATACTA
1 ATATATACTAATATAATAATA
93499783 ATA
1 ATA
93499786 ATAACAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 19 0.50
21 17 0.45
22 2 0.05
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (21 bp):
ATATATACTAATATAATAATA
Found at i:93499785 original size:26 final size:24
Alignment explanation
Indices: 93499733--93499795 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 24
93499723 ATATACACAT
*
93499733 ATAATAAAATATATACTAATATTA
1 ATAATAAAATATATACTAATACTA
93499757 ATAATAAATATAATAGTA-TAATACTA
1 ATAATAAA-AT-ATA-TACTAATACTA
93499783 ATAATAACAATAT
1 ATAATAA-AATAT
93499796 GAAATTAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 8 0.24
25 4 0.12
26 19 0.56
27 3 0.09
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (24 bp):
ATAATAAAATATATACTAATACTA
Found at i:93499887 original size:3 final size:3
Alignment explanation
Indices: 93499868--93499924 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
93499858 AAACATACAC
* * * *
93499868 TAA TATA TAA AAA TAA TAA TAA TAT TGA TAA TAA TAT TAGA -AA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
93499914 TAA TAA TAA TA
1 TAA TAA TAA TA
93499925 TTTAATAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
2 1 0.02
3 39 0.91
4 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:93502826 original size:52 final size:53
Alignment explanation
Indices: 93502770--93502922 Score: 231
Period size: 52 Copynumber: 2.9 Consensus size: 53
93502760 ATCACATCAT
* * *
93502770 ACCGACGCCAAAGCCCAGCTATGGTCTTATACTGGAA-CACGTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACTGGAAGCACATATCACATTGC
*
93502822 ACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAAGCACATATCACATTGT
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACTGGAAGCACATATCACATTGC
* *
93502874 ACTGATGCCATTGCCCAGCTATGGTCTTATACT-GAAGCACATATCACAT
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACTGGAAGCACATATCACAT
93502923 CTTTTCCGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 4 0.04
52 89 0.96
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACTGGAAGCACATATCACATTGC
Found at i:93507976 original size:16 final size:16
Alignment explanation
Indices: 93507955--93507986 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93507945 TAATGTGTTT
93507955 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
93507971 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
93507987 ATGCAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:93508168 original size:45 final size:45
Alignment explanation
Indices: 93508100--93508318 Score: 339
Period size: 45 Copynumber: 4.9 Consensus size: 45
93508090 AAGAGGTGGA
** * * *
93508100 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
93508145 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
93508190 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
93508235 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
93508280 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
93508319 CAATGGCCGA
Statistics
Matches: 164, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 164 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:93511768 original size:16 final size:16
Alignment explanation
Indices: 93511744--93511775 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93511734 TAATGTGTTT
93511744 TGCTACTGTTGTTTAA
1 TGCTACTGTTGTTTAA
*
93511760 TGCTGCTGTTGTTTAA
1 TGCTACTGTTGTTTAA
93511776 ATGCAGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.22, T:0.50
Consensus pattern (16 bp):
TGCTACTGTTGTTTAA
Found at i:93511957 original size:45 final size:45
Alignment explanation
Indices: 93511889--93512151 Score: 402
Period size: 45 Copynumber: 5.9 Consensus size: 45
93511879 AAGAGGTGGA
** * *
93511889 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCATTTGAC
93511934 CAACATCATGCATAATTCATGGAAG-AATTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCATTTGAC
* *
93511978 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCATTTGAC
*
93512023 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCATTTGAC
* * *
93512068 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCATTTGAC
* * *
93512113 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCA
93512152 CCATGGCCGA
Statistics
Matches: 203, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
44 43 0.21
45 160 0.79
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCATTTGAC
Found at i:93513021 original size:45 final size:45
Alignment explanation
Indices: 93512971--93513189 Score: 330
Period size: 45 Copynumber: 4.9 Consensus size: 45
93512961 TCGGCCATGG
* * * *
93512971 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* *
93513016 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
93513061 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
93513106 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* * * **
93513151 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
93513190 TCCACCTCTT
Statistics
Matches: 160, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 160 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
Found at i:93513124 original size:90 final size:90
Alignment explanation
Indices: 93512971--93513189 Score: 375
Period size: 90 Copynumber: 2.4 Consensus size: 90
93512961 TCGGCCATGG
* *
93512971 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCA
1 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
93513036 TGAATTATGCATGATGTTGGTCAAA
66 TGAATTATGCATGATGTTGGTCAAA
* * *
93513061 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
1 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
93513126 TGAATTATGCATGATGTTGGTCAAA
66 TGAATTATGCATGATGTTGGTCAAA
* *
93513151 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTG
93513190 TCCACCTCTT
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 119 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (90 bp):
TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
TGAATTATGCATGATGTTGGTCAAA
Found at i:93513324 original size:16 final size:16
Alignment explanation
Indices: 93513303--93513334 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93513293 CATTCTGCAT
93513303 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
93513319 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
93513335 AAATACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (16 bp):
TTAAACAACAGCAGCA
Found at i:93525431 original size:26 final size:24
Alignment explanation
Indices: 93525362--93525431 Score: 61
Period size: 26 Copynumber: 2.7 Consensus size: 24
93525352 TCTAAAATTT
93525362 TAAGTAAAATTATAGTTATTTTATA
1 TAAGTAAAATTATA-TTATTTTATA
* *
93525387 TAAGGAAACATAATAATTATAATTTAT-
1 TAAGTAAA-ATTAT-ATTAT--TTTATA
93525414 TAAAGTAAAATTATATTA
1 T-AAGTAAAATTATATTA
93525432 ATTAAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
25 7 0.19
26 12 0.33
27 6 0.17
28 11 0.31
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (24 bp):
TAAGTAAAATTATATTATTTTATA
Found at i:93537588 original size:43 final size:43
Alignment explanation
Indices: 93537527--93537613 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
93537517 ACTAAAACAT
93537527 AAATTAACTAATAATTTAATAATATTAGGTATTGCTTAACTTA
1 AAATTAACTAATAATTTAATAATATTAGGTATTGCTTAACTTA
93537570 AAATTAACTAATAATTTAATAATATTAGGTATTGCTTAACTTA
1 AAATTAACTAATAATTTAATAATATTAGGTATTGCTTAACTTA
93537613 A
1 A
93537614 CTATTAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (43 bp):
AAATTAACTAATAATTTAATAATATTAGGTATTGCTTAACTTA
Found at i:93539336 original size:19 final size:19
Alignment explanation
Indices: 93539312--93539351 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
93539302 TTATTAAATT
*
93539312 TTTTTATATTTTTTAT-TAA
1 TTTTTA-ATTATTTATATAA
93539331 TTTTTAATTATTTATATAA
1 TTTTTAATTATTTATATAA
93539350 TT
1 TT
93539352 ATAATTGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTAATTATTTATATAA
Found at i:93543404 original size:17 final size:16
Alignment explanation
Indices: 93543382--93543416 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
93543372 CCGGGGCCGT
93543382 ATGAAAATAAAAACAAA
1 ATGAAAATAAAAA-AAA
*
93543399 ATGAAAATACAAAAAA
1 ATGAAAATAAAAAAAA
93543415 AT
1 AT
93543417 AAGCCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.14
Consensus pattern (16 bp):
ATGAAAATAAAAAAAA
Found at i:93545187 original size:131 final size:130
Alignment explanation
Indices: 93544964--93545598 Score: 647
Period size: 131 Copynumber: 4.8 Consensus size: 130
93544954 AAAATCCCTT
* * * * **
93544964 AAACGAAGGCAATA-TGCGATATTTGGTAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAACGAAGGCAATACT-CGGTGTTTGATAATTCG-GGAATCGTGCCCTATCGTGTTGGGTTGTGA
* * * *
93545028 TTTCCCGTTTGCTT-AAAATAATCAAATATCCCTTCAAGATTTCACTCATGTCTT-CTAAAAATC
64 TTTCTCGTTTG-TTCAAAACAATCGAATATTCCTTCAAGATTTCACTCATGT-TTACTAAAAA-C
93545091 CTTTA
126 CTTTA
* * * *
93545096 AAACGAAGGCAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTATCGTGCTGGGCTGTGATT
1 AAACGAAGGCAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCTATCGTGTTGGGTTGTGATT
* * * * * * *
93545161 TCTCGTTTGTTCAAAACAATTGAATATTCCTTTAGGTTTTCACTCGTGTTTATTAAAAACCTTCC
66 TCTCGTTTGTTCAAAACAATCGAATATTCCTTCAAGATTTCACTCATGTTTACTAAAAACCTT-T
93545226 A
130 A
*
93545227 AAACGAAGACAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCTAAT-GTGTTGGGTTGTGAT
1 AAACGAAGGCAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCT-ATCGTGTTGGGTTGTGAT
* * * *
93545291 TTCTCGTTTGTTCAAAACAATCGAATATTCCTT-TAGTTTTCACTCGTGTTTATTAAAAACCTTC
65 TTCTCGTTTGTTCAAAACAATCGAATATTCCTTCAAGATTTCACTCATGTTTACTAAAAACCTT-
*
93545355 CA
129 TA
* ** *
93545357 AAACAAAAACAATACTCGGTGTTTGATAATTTGGGAATCGTGCCCTAAT-GTGTTGGGTTGTGAT
1 AAACGAAGGCAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCT-ATCGTGTTGGGTTGTGAT
* * * * *
93545421 TTCTTGTTTTTTCAAAACAATCGAAGATTCCTTCGAA-ATTTCACTCAAGTTTTCTAAAAACCCT
65 TTCTCGTTTGTTCAAAACAATCGAATATTCCTTC-AAGATTTCACTCATGTTTACTAAAAA-CCT
93545485 TTA
128 TTA
* * ** * ** * * *
93545488 AAACGAAAGAAATGTTCGATGTTTGGCAATTCGGTGAATAGTGCCCTATCGTGCTGGGTTGTAAT
1 AAACGAAGGCAATACTCGGTGTTTGATAATTCGG-GAATCGTGCCCTATCGTGTTGGGTTGTGAT
* * **
93545553 TTCCCGTTTGTTCAAAATAATCGAATATAACTTC-AGAATTTCACTC
65 TTCTCGTTTGTTCAAAACAATCGAATATTCCTTCAAG-ATTTCACTC
93545599 GCATTTTCTA
Statistics
Matches: 430, Mismatches: 61, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
130 131 0.30
131 203 0.47
132 95 0.22
133 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (130 bp):
AAACGAAGGCAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCTATCGTGTTGGGTTGTGATT
TCTCGTTTGTTCAAAACAATCGAATATTCCTTCAAGATTTCACTCATGTTTACTAAAAACCTTTA
Found at i:93545421 original size:261 final size:262
Alignment explanation
Indices: 93544980--93545598 Score: 693
Period size: 261 Copynumber: 2.4 Consensus size: 262
93544970 AGGCAATATG
* * *
93544980 CGATATTTGGTAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTT-AA
1 CGATGTTTGGTAATTCG-GGAATCGTGCCCTAATGTGTTGGGTTGTAATTTCCCGTTTG-TTCAA
* * * **
93545044 AATAATCAAATATCCCTTCAAGATTTCACTCATGTCTTCTAAAAATCCTTTAAAACGAAGGCAAT
64 AATAATCGAATATCCCTTCAAGATTTCACTCATGTCTTCTAAAAATCCTTCAAAACAAAAACAAT
93545109 ACTCGGTGTTTGATAATTCGAGAATCATGCCCTATCGTGCTGGGCTGTGATTTCTCGTTTGTTCA
129 ACTCGGTGTTTGATAATTCGAGAATCATGCCCTATCGTGCTGGGCTGTGATTTCTCGTTTGTTCA
* * ** **
93545174 AAACAATTGAATATTCCTTTAG-GTTTTCACTCGTGTTTAT-TAAAAA-CCTTCCAAAACG-AAG
194 AAACAATCGAAGATTCC-TTAGAAATTTCACTCAAGTTT-TCTAAAAACCCTT-CAAAACGAAAG
93545235 ACAATACT
256 A-AATACT
* * * *
93545243 CGGTGTTTGATAATTCGGGAATCGTGCCCTAATGTGTTGGGTTGTGATTTCTCGTTTGTTCAAAA
1 CGATGTTTGGTAATTCGGGAATCGTGCCCTAATGTGTTGGGTTGTAATTTCCCGTTTGTTCAAAA
* * * * * *
93545308 CAATCGAATATTCCTT-TAGTTTTCACTCGTGT-TTATTAAAAA-CCTTCCAAAACAAAAACAAT
66 TAATCGAATATCCCTTCAAGATTTCACTCATGTCTT-CTAAAAATCCTT-CAAAACAAAAACAAT
* * * * * * *
93545370 ACTCGGTGTTTGATAATTTGGGAATCGTGCCCTAAT-GTGTTGGGTTGTGATTTCTTGTTTTTTC
129 ACTCGGTGTTTGATAATTCGAGAATCATGCCCT-ATCGTGCTGGGCTGTGATTTCTCGTTTGTTC
* *
93545434 AAAACAATCGAAGATTCCTTCGAAATTTCACTCAAGTTTTCTAAAAACCCTTTAAAACGAAAGAA
193 AAAACAATCGAAGATTCCTTAGAAATTTCACTCAAGTTTTCTAAAAACCCTTCAAAACGAAAGAA
**
93545499 ATGTT
258 ATACT
* * *
93545504 CGATGTTTGGCAATTCGGTGAATAGTGCCCT-ATCGTGCTGGGTTGTAATTTCCCGTTTGTTCAA
1 CGATGTTTGGTAATTCGG-GAATCGTGCCCTAAT-GTGTTGGGTTGTAATTTCCCGTTTGTTCAA
**
93545568 AATAATCGAATATAACTTC-AGAATTTCACTC
64 AATAATCGAATATCCCTTCAAG-ATTTCACTC
93545599 GCATTTTCTA
Statistics
Matches: 298, Mismatches: 46, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
260 10 0.03
261 147 0.49
262 119 0.40
263 22 0.07
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (262 bp):
CGATGTTTGGTAATTCGGGAATCGTGCCCTAATGTGTTGGGTTGTAATTTCCCGTTTGTTCAAAA
TAATCGAATATCCCTTCAAGATTTCACTCATGTCTTCTAAAAATCCTTCAAAACAAAAACAATAC
TCGGTGTTTGATAATTCGAGAATCATGCCCTATCGTGCTGGGCTGTGATTTCTCGTTTGTTCAAA
ACAATCGAAGATTCCTTAGAAATTTCACTCAAGTTTTCTAAAAACCCTTCAAAACGAAAGAAATA
CT
Found at i:93549861 original size:9 final size:9
Alignment explanation
Indices: 93549849--93549905 Score: 69
Period size: 9 Copynumber: 6.2 Consensus size: 9
93549839 TCAAAAAAAC
*
93549849 AAAAAGAAAA
1 AAAAAG-AAG
93549859 AAAAAGAAG
1 AAAAAGAAG
*
93549868 AAGAAGAAG
1 AAAAAGAAG
93549877 AAAAAGAAG
1 AAAAAGAAG
*
93549886 AAGAAGAAG
1 AAAAAGAAG
*
93549895 AAGAAGAAG
1 AAAAAGAAG
93549904 AA
1 AA
93549906 GAAGGAGATC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
9 37 0.86
10 6 0.14
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:93549868 original size:3 final size:3
Alignment explanation
Indices: 93549862--93549909 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
93549852 AAGAAAAAAA
*
93549862 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
93549910 GAGATCGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:93551339 original size:44 final size:44
Alignment explanation
Indices: 93551320--93551784 Score: 680
Period size: 44 Copynumber: 10.6 Consensus size: 44
93551310 TTGTTAGAGG
**
93551320 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGA
* **
93551364 GCAGATCGAAGATAACAGATTTGGAGTCTCTGTAGCGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGA
** *
93551408 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAAA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGA
* * **
93551452 GCAGATCGAAGATAATAGATTTGGCGTTTCTGTAGCGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGA
* * **
93551496 GCAGATCGAATATAACAGATTTGACGTCTCTGTAGCGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGA
*** *
93551540 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTTAGAGG
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGA
*
93551584 GCAGATCGAAGATAACAGATTTGGCGTCTTTGTATTGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGA
*
93551628 GCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGA
*
93551672 GCAGATTGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGA
* ** *
93551716 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTTGAAG-
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGA
93551759 GCAGATCGAAGATAACAGATTTGGCG
1 GCAGATCGAAGATAACAGATTTGGCG
93551785 AAGAGCAGAT
Statistics
Matches: 388, Mismatches: 33, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
43 25 0.06
44 363 0.94
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (44 bp):
GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGA
Found at i:93551526 original size:132 final size:132
Alignment explanation
Indices: 93551320--93552115 Score: 908
Period size: 132 Copynumber: 6.2 Consensus size: 132
93551310 TTGTTAGAGG
**
93551320 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAACAGATT
* * **
93551385 TGGAGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGA
66 TGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGA
*
93551450 AA
131 GA
* * ** *
93551452 GCAGATCGAAGATAATAGATTTGGCGTTTCTGTAGCGGCGGAGAGCAGATCGAATATAACAGATT
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAACAGATT
* * ***
93551517 TGACGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTTAGA
66 TGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGA
*
93551582 GG
131 GA
*
93551584 GCAGATCGAAGATAACAGATTTGGCGTCTTTGTATTGGCGGAGAGCAGATCGAAGATAACAGATT
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAACAGATT
* * *
93551649 TGGCGTCTCTATATTGGCGGAGAGCAGATTGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGA
66 TGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGA
93551714 GA
131 GA
* ** *
93551716 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTTGAAG-GCAGATCGAAGATAACAGATT
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAACAGATT
* * *
93551780 T-G-G---C-G-A-------AGAGCAGATCGAAGATAATAGATTTGGCGTCTATGTATTGGTGGA
66 TGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGA
*
93551831 GG
131 GA
* * * * *
93551833 GCAGATCGAAGATAGCAGATTTGGTGTCTCTATATTGGCGGAGAGTAGATCGAAGATAGCAGATT
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAACAGATT
* * * * * *
93551898 TGGCATCTCTGTATTGTCAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGCGGA
66 TGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGA
*
93551963 GG
131 GA
* * * * * * *
93551965 GCAAATCGAAGATAGCAGATTT-G-GTCTCTGTATTGTCGGAGGGCAGATCAAAGATAGCAGGTT
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAACAGATT
* *** * * * * **
93552028 TGGCATCTCTGT-GTTGATAGAGAGTAGATCGAAGATGACAGATTTGGCATCTCTGTAGTGGCAA
66 TGGCGTCTCTGTAG-TGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGG
*
93552092 ATA
130 AGA
*
93552095 GCAGATCGAAAATAACAGATT
1 GCAGATCGAAGATAACAGATT
93552116 GGTGTTCCCG
Statistics
Matches: 574, Mismatches: 74, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
117 80 0.14
118 20 0.03
119 1 0.00
123 1 0.00
124 2 0.00
125 1 0.00
126 1 0.00
129 1 0.00
130 106 0.18
131 23 0.04
132 338 0.59
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.26
Consensus pattern (132 bp):
GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAACAGATT
TGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGA
GA
Found at i:93551784 original size:73 final size:74
Alignment explanation
Indices: 93551706--93551856 Score: 232
Period size: 73 Copynumber: 2.1 Consensus size: 74
93551696 CGTCTCTGTA
* * * *
93551706 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATT-GTTGAAGGCAGATCGAAG
1 TTGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTATGTATTGGTGGAAGGCAGATCGAAG
93551770 ATAACAGAT
66 ATAACAGAT
* *
93551779 TTGGCGAAGAGCAGATCGAAGATAATAGATTTGGCGTCTATGTATTGGTGGAGGGCAGATCGAAG
1 TTGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTATGTATTGGTGGAAGGCAGATCGAAG
*
93551844 ATAGCAGAT
66 ATAACAGAT
93551853 TTGG
1 TTGG
93551857 TGTCTCTATA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 42 0.60
74 28 0.40
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (74 bp):
TTGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTATGTATTGGTGGAAGGCAGATCGAAG
ATAACAGAT
Found at i:93551793 original size:30 final size:29
Alignment explanation
Indices: 93551755--93551814 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
93551745 CTGTATTGTT
93551755 GAAGGCAGATCGAAGATAACAGATTTGGC
1 GAAGGCAGATCGAAGATAACAGATTTGGC
*
93551784 GAAGAGCAGATCGAAGATAATAGATTTGGC
1 GAAG-GCAGATCGAAGATAACAGATTTGGC
93551814 G
1 G
93551815 TCTATGTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.38, C:0.12, G:0.32, T:0.18
Consensus pattern (29 bp):
GAAGGCAGATCGAAGATAACAGATTTGGC
Found at i:93551849 original size:117 final size:116
Alignment explanation
Indices: 93551662--93552031 Score: 418
Period size: 117 Copynumber: 3.0 Consensus size: 116
93551652 CGTCTCTATA
* * *
93551662 TTGGCGGAGAGCAGATTGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAG
1 TTGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGGGCAGATCGAAG
* *
93551727 ATAGCAGATTTGGCGTCTCTGTATTGTTGAAGGCAGATCGAAGATAACAGAT
66 ATAGCAGATTTGG-GTCTCTGTATTGTCGAAGGCAGATCGAAGATAGCAGAT
* * *
93551779 TTGGCGAAGAGCAGATCGAAGATAATAGATTTGGCGTCTATGTATTGGTGGAGGGCAGATCGAAG
1 TTGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGGGCAGATCGAAG
* * * *
93551844 ATAGCAGATTTGGTGTCTCTATATTGGCGGAGAGTAGATCGAAGATAGCAGAT
66 ATAGCAGATTTGG-GTCTCTGTATTGTCGAAG-GCAGATCGAAGATAGCAGAT
*
93551897 TTGGCATCTCTGTATTGTCAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGCGG
1 TTGG-----C-G-A-----AGA--GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGG
* * * *
93551962 AGGGCAAATCGAAGATAGCAGATTT-GGTCTCTGTATTGTCGGAGGGCAGATCAAAGATAGCAGG
52 AGGGCAGATCGAAGATAGCAGATTTGGGTCTCTGTATTGTC-GAAGGCAGATCGAAGATAGCAGA
93552026 T
116 T
93552027 TTGGC
1 TTGGC
93552032 ATCTCTGTGT
Statistics
Matches: 212, Mismatches: 25, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
117 86 0.41
118 22 0.10
123 1 0.00
124 1 0.00
125 2 0.01
130 36 0.17
131 3 0.01
132 61 0.29
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (116 bp):
TTGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGAGGGCAGATCGAAG
ATAGCAGATTTGGGTCTCTGTATTGTCGAAGGCAGATCGAAGATAGCAGAT
Found at i:93551890 original size:161 final size:162
Alignment explanation
Indices: 93551618--93551946 Score: 525
Period size: 161 Copynumber: 2.0 Consensus size: 162
93551608 CGTCTTTGTA
* * *
93551618 TTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCGGAGAGCAGATTGAAG
1 TTGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTATATATTGGCGGAGAGCAGATCGAAG
* *
93551683 ATAACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTG
66 ATAACAGATTTGGCGTCTCTATATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTG
*
93551748 TATTGT-TGAAGGCAGATCGAAGATAACAGAT
131 TATTGTCAGAAGGCAGATCGAAGATAACAGAT
* * * *
93551779 TTGGCGAAGAGCAGATCGAAGATAATAGATTTGGCGTCTATGTATTGGTGGAGGGCAGATCGAAG
1 TTGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTATATATTGGCGGAGAGCAGATCGAAG
* * *
93551844 ATAGCAGATTTGGTGTCTCTATATTGGCGGAGAGTAGATCGAAGATAGCAGATTTGGCATCTCTG
66 ATAACAGATTTGGCGTCTCTATATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTG
*
93551909 TATTGTCAGAGGGCAGATCGAAGATAACAGAT
131 TATTGTCAGAAGGCAGATCGAAGATAACAGAT
93551941 TTGGCG
1 TTGGCG
93551947 TCTCTGTATT
Statistics
Matches: 153, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
161 124 0.81
162 29 0.19
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (162 bp):
TTGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTATATATTGGCGGAGAGCAGATCGAAG
ATAACAGATTTGGCGTCTCTATATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTG
TATTGTCAGAAGGCAGATCGAAGATAACAGAT
Found at i:93551911 original size:88 final size:88
Alignment explanation
Indices: 93551779--93552084 Score: 377
Period size: 88 Copynumber: 3.5 Consensus size: 88
93551769 GATAACAGAT
* ** * *
93551779 TTGGCGAAGAGCAGATCGAAGATAATAGATTTGGCGTCTATGTATTGGT-GGAGGGCAGATCGAA
1 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATT-GTCGGAGGGCAGATCGAA
* *
93551843 GATAGCAGATTTGGTGTCTCTATA
65 GATAGCAGATTTGGCGTCTCTGTA
* *
93551867 TTGGCGGAGAGTAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGGGCAGATCGAAG
1 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCGGAGGGCAGATCGAAG
*
93551932 ATAACAGATTTGGCGTCTCTGTA
66 ATAGCAGATTTGGCGTCTCTGTA
* * * *
93551955 TTAGCGGAGGGCAAATCGAAGATAGCAGATTTGG--TCTCTGTATTGTCGGAGGGCAGATCAAAG
1 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCGGAGGGCAGATCGAAG
* * *
93552018 ATAGCAGGTTTGGCATCTCTGTG
66 ATAGCAGATTTGGCGTCTCTGTA
*** *
93552041 TTGATAGAGAGTAGATCGAAGAT-GACAGATTTGGCATCTCTGTA
1 TTGGCGGAGAGCAGATCGAAGATAG-CAGATTTGGCATCTCTGTA
93552085 GTGGCAAATA
Statistics
Matches: 187, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.01
86 71 0.38
87 2 0.01
88 113 0.60
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (88 bp):
TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCGGAGGGCAGATCGAAG
ATAGCAGATTTGGCGTCTCTGTA
Found at i:93551942 original size:205 final size:206
Alignment explanation
Indices: 93551584--93551988 Score: 632
Period size: 205 Copynumber: 2.0 Consensus size: 206
93551574 TTGTTAGAGG
*
93551584 GCAGATCGAAGATAACAGATTTGGCGTCTTTGTATTGGCGGAGAGCAGATCGAAGATAACAGATT
1 GCAGATCGAAGATAACAGATTTGGCGTCTATGTATTGGCGGAGAGCAGATCGAAGATAACAGATT
* * *
93551649 TGGCGTCTCTATATTGGCGGAGAGCAGATTGAAGATAACAGATTTGGCGTCTCTGTATTGGCGGA
66 TGGCGTCTCTATATTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
* ** *
93551714 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATT-GTTGAAGGCAGATCGAAGATAACAGA
131 GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGCGGAAGGCAAATCGAAGATAACAGA
93551778 TTTGGCGAAGA
196 TTTGGCGAAGA
* * * *
93551789 GCAGATCGAAGATAATAGATTTGGCGTCTATGTATTGGTGGAGGGCAGATCGAAGATAGCAGATT
1 GCAGATCGAAGATAACAGATTTGGCGTCTATGTATTGGCGGAGAGCAGATCGAAGATAACAGATT
* * * *
93551854 TGGTGTCTCTATATTGGCGGAGAGTAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
66 TGGCGTCTCTATATTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
* * *
93551919 GGGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGCGGAGGGCAAATCGAAGATAGCAGA
131 GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGCGGAAGGCAAATCGAAGATAACAGA
93551984 TTTGG
196 TTTGG
93551989 TCTCTGTATT
Statistics
Matches: 180, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
205 154 0.86
206 26 0.14
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (206 bp):
GCAGATCGAAGATAACAGATTTGGCGTCTATGTATTGGCGGAGAGCAGATCGAAGATAACAGATT
TGGCGTCTCTATATTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGCGGAAGGCAAATCGAAGATAACAGA
TTTGGCGAAGA
Found at i:93551975 original size:249 final size:248
Alignment explanation
Indices: 93551289--93552031 Score: 853
Period size: 249 Copynumber: 2.9 Consensus size: 248
93551279 AGCAGATCCA
* * * * *
93551289 AACAGATTTGACGTTTTTGTATTGTTAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
1 AACAGATTTGGCGTCTATGTATTGGTAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCTATA
** * ** *
93551354 GCGGCGGAGAGCAGATCGAAGATAACAGATTTGG-AGTCTCTGTAGCGGCGGAGAGCAGATCGAA
66 TTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCA-TCTCTATATTGGCAGAGAGCAGATCGAA
*** * * ** *
93551418 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAAAGCAGATCGAAGATAATAGATTTGGCGTTTCT
130 GATAACAGATTTGGCGTCTCTGTATTAGCGGAGAGCAAATCGAAGATAGCAGATTT-G-GTCTCT
** * * *
93551483 GTAGCGGCGG-AGAGCAGATCGAATATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGCAGATC
193 GTATTGTCGGAAG-GCAGATCAAAGATAACAGATTTG--G---C-G-A-------AGAGCAGATC
93551547 GAAGAT
243 GAAGAT
* * * *
93551553 AACAGATTTGGCGTCTCTGTATTGTTAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTTTGTA
1 AACAGATTTGGCGTCTATGTATTGGTAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCTATA
* * *
93551618 TTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCGGAGAGCAGATTGAAG
66 TTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAG
* *
93551683 ATAACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTG
131 ATAACAGATTTGGCGTCTCTGTATTAGCGGAGAGCAAATCGAAGATAGCAGATTT-G-GTCTCTG
* *
93551748 TATTGT-TGAAGGCAGATCGAAGATAACAGATTTGGCGAAGAGCAGATCGAAGAT
194 TATTGTCGGAAGGCAGATCAAAGATAACAGATTTGGCGAAGAGCAGATCGAAGAT
* * * *
93551802 AATAGATTTGGCGTCTATGTATTGGTGGAGGGCAGATCGAAGATAGCAGATTTGGTGTCTCTATA
1 AACAGATTTGGCGTCTATGTATTGGTAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCTATA
* * * * *
93551867 TTGGCGGAGAGTAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGGGCAGATCGAAG
66 TTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAG
*
93551932 ATAACAGATTTGGCGTCTCTGTATTAGCGGAGGGCAAATCGAAGATAGCAGATTTGGTCTCTGTA
131 ATAACAGATTTGGCGTCTCTGTATTAGCGGAGAGCAAATCGAAGATAGCAGATTTGGTCTCTGTA
* * *
93551997 TTGTCGGAGGGCAGATCAAAGATAGCAGGTTTGGC
196 TTGTCGGAAGGCAGATCAAAGATAACAGATTTGGC
93552032 ATCTCTGTGT
Statistics
Matches: 430, Mismatches: 46, Indels: 22
0.86 0.09 0.04
Matches are distributed among these distances:
247 13 0.03
248 26 0.06
249 182 0.42
256 1 0.00
257 1 0.00
258 1 0.00
261 1 0.00
263 23 0.05
264 182 0.42
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.26
Consensus pattern (248 bp):
AACAGATTTGGCGTCTATGTATTGGTAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCTATA
TTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAG
ATAACAGATTTGGCGTCTCTGTATTAGCGGAGAGCAAATCGAAGATAGCAGATTTGGTCTCTGTA
TTGTCGGAAGGCAGATCAAAGATAACAGATTTGGCGAAGAGCAGATCGAAGAT
Found at i:93552012 original size:174 final size:176
Alignment explanation
Indices: 93551793--93552115 Score: 438
Period size: 174 Copynumber: 1.8 Consensus size: 176
93551783 CGAAGAGCAG
* * *
93551793 ATCGAAGATAATAGATTTGGCGTCTATGTATTGGTGGAGGGCAGATCGAAGATAGCAGATTTGGT
1 ATCGAAGATAACAGATTTGGCGTCTATGTATTGGTGGAGGGCAGATCAAAGATAGCAGATTTGGC
* * * * * * *
93551858 GTCTCTATATTGGCGGAGAGTAGATCGAAGAT-AGCAGATTTGGCATCTCTGTATTGTCAGAGGG
66 ATCTCTATATTGACAGAGAGTAGATCGAAGATGA-CAGATTTGGCATCTCTGTAGTGGCAAAGAG
*
93551922 CAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGCGGAGGGCAA
130 CAGATCGAAAATAACAGATTTGGCGTCTCTGTATTAGCGGAGGGCAA
* * *
93551969 ATCGAAGATAGCAGATTT-G-GTCTCTGTATT-GTCGGAGGGCAGATCAAAGATAGCAGGTTTGG
1 ATCGAAGATAACAGATTTGGCGTCTATGTATTGGT-GGAGGGCAGATCAAAGATAGCAGATTTGG
* * * *
93552031 CATCTCTGTGTTGATAGAGAGTAGATCGAAGATGACAGATTTGGCATCTCTGTAGTGGCAAATAG
65 CATCTCTATATTGACAGAGAGTAGATCGAAGATGACAGATTTGGCATCTCTGTAGTGGCAAAGAG
93552096 CAGATCGAAAATAACAGATT
130 CAGATCGAAAATAACAGATT
93552116 GGTGTTCCCG
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
173 2 0.02
174 107 0.84
175 2 0.02
176 16 0.13
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (176 bp):
ATCGAAGATAACAGATTTGGCGTCTATGTATTGGTGGAGGGCAGATCAAAGATAGCAGATTTGGC
ATCTCTATATTGACAGAGAGTAGATCGAAGATGACAGATTTGGCATCTCTGTAGTGGCAAAGAGC
AGATCGAAAATAACAGATTTGGCGTCTCTGTATTAGCGGAGGGCAA
Found at i:93552101 original size:44 final size:44
Alignment explanation
Indices: 93551779--93552115 Score: 338
Period size: 44 Copynumber: 7.7 Consensus size: 44
93551769 GATAACAGAT
* ** * *
93551779 TTGGCGAAGAGCAGATCGAAGATAATAGATTTGGCGTCTATGTA
1 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTA
* * ** *
93551823 TTGGTGGAGGGCAGATCGAAGATAGCAGATTTGGTGTCTCTATA
1 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTA
*
93551867 TTGGCGGAGAGTAGATCGAAGATAGCAGATTTGGCATCTCTGTA
1 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTA
* * * * *
93551911 TTGTCAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
1 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTA
* * *
93551955 TTAGCGGAGGGCAAATCGAAGATAGCAGATTTGG--TCTCTGTA
1 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTA
* * * * *
93551997 TTGTCGGAGGGCAGATCAAAGATAGCAGGTTTGGCATCTCTGTG
1 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTA
*** *
93552041 TTGATAGAGAGTAGATCGAAGAT-GACAGATTTGGCATCTCTGTA
1 TTGGCGGAGAGCAGATCGAAGATAG-CAGATTTGGCATCTCTGTA
* ** * * *
93552085 GTGGCAAATAGCAGATCGAAAATAACAGATT
1 TTGGCGGAGAGCAGATCGAAGATAGCAGATT
93552116 GGTGTTCCCG
Statistics
Matches: 242, Mismatches: 47, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
42 37 0.15
43 1 0.00
44 204 0.84
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.27
Consensus pattern (44 bp):
TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTA
Found at i:93552103 original size:130 final size:132
Alignment explanation
Indices: 93551786--93552120 Score: 372
Period size: 130 Copynumber: 2.6 Consensus size: 132
93551776 GATTTGGCGA
* * * * * *** *
93551786 AGAGCAGATCGAAGATAATAGATTTGGCGTCTATGTATTGGTGGAGGGCAGATCGAAGATAGCAG
1 AGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGTAGCAAAGAGCAGATCGAAGATAGCAG
* *
93551851 ATTTGGTGTCTCTATATTGGCGGAGAGTAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTC
66 ATTTGGTGTCTCTATATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTC
93551916 AG
131 AG
* * * ** * *
93551918 AGGGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGCGGAGGGCAAATCGAAGATAGCAG
1 AGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGTAGCAAAGAGCAGATCGAAGATAGCAG
* * * * *
93551983 ATTT-G-GTCTCTGTATTGTCGGAGGGCAGATCAAAGATAGCAGGTTTGGCATCTCTGTGTTGAT
66 ATTTGGTGTCTCTATATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTG-T
93552046 -AG
130 CAG
* * * * * *
93552048 AGAGTAGATCGAAGATGACAGATTTGGCATCTCTGTAGTGGCAAATAGCAGATCGAAAATAACAG
1 AGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGTAGCAAAGAGCAGATCGAAGATAGCAG
93552113 A-TTGGTGT
66 ATTTGGTGT
93552121 TCCCGAGTTT
Statistics
Matches: 174, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
129 2 0.01
130 105 0.60
131 4 0.02
132 63 0.36
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.27
Consensus pattern (132 bp):
AGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGTAGCAAAGAGCAGATCGAAGATAGCAG
ATTTGGTGTCTCTATATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTC
AG
Found at i:93552349 original size:17 final size:16
Alignment explanation
Indices: 93552327--93552361 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
93552317 CCGGGCCCGT
93552327 ATGAAAATAAAAATAAA
1 ATGAAAATAAAAA-AAA
*
93552344 ATGAAAATACAAAAAA
1 ATGAAAATAAAAAAAA
93552360 AT
1 AT
93552362 AAGCCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (16 bp):
ATGAAAATAAAAAAAA
Found at i:93553942 original size:7 final size:7
Alignment explanation
Indices: 93553930--93553965 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
93553920 TAAATCAAGG
93553930 TTTGTAA
1 TTTGTAA
93553937 TTTGTAA
1 TTTGTAA
93553944 TTTGTAA
1 TTTGTAA
93553951 TTTGTAA
1 TTTGTAA
93553958 TTTGTAA
1 TTTGTAA
93553965 T
1 T
93553966 ATTTGTTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (7 bp):
TTTGTAA
Found at i:93555459 original size:132 final size:130
Alignment explanation
Indices: 93554976--93555475 Score: 485
Period size: 131 Copynumber: 3.8 Consensus size: 130
93554966 AGGCGATATG
* * * * *
93554976 CGATATTTGGTAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTT-AA
1 CGATGTTTGATAATTCG-GGAATAGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTG-TTCAA
* * * *
93555040 AATAATCAAATATCCCTTCA-AGATTTCACTCA-TTTCTTCTAAAAATCCTTTAAAACGAAAGCA
64 AATAATCGAATATTCCTTCAGA-ATTTCACTCACGTT-TTCTAAAAA-CCTTTAAAACGAAAGAA
93555103 ATACT
126 ATACT
* * ** *
93555108 CGGTGTTTGATAATTCGAGAATCA-TGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAA
1 CGATGTTTGATAATTCGGGAAT-AGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAA
* ** ** *
93555172 ATAATCGAATATTCCTTTAGGTTTTCACTCGTGTTTAT-TAAAAACCTTCCAAAACG-AAGACAA
65 ATAATCGAATATTCCTTCAGAATTTCACTCACGTTT-TCTAAAAACCTT-TAAAACGAAAGA-AA
93555235 TACT
127 TACT
* * * ** * *
93555239 CGGTGTTTGATAATTCGGGAATAGTGCCCTAAT-GTGTTAGGTTGTGATTTCTCGTTTTTTCAAA
1 CGATGTTTGATAATTCGGGAATAGTGCCCT-ATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAA
* * *
93555303 ACAATCGAAGATTCCTT-TGAAATTTCACTCACGTTTTCTAAAAACCCTTTAAAACGAAAGAAAT
65 ATAATCGAATATTCCTTCAG-AATTTCACTCACGTTTTCTAAAAA-CCTTTAAAACGAAAGAAAT
**
93555367 GTT
128 ACT
**
93555370 CGATGTTTGGCAATTCGGTGAATAGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAA
1 CGATGTTTGATAATTCGG-GAATAGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAA
** * *
93555435 ATAATCGAATATAACTTCAGAATTTCACTCGCATTTTCTAA
65 ATAATCGAATATTCCTTCAGAATTTCACTCACGTTTTCTAA
93555476 GGCAAGGCAA
Statistics
Matches: 303, Mismatches: 49, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
130 12 0.04
131 194 0.64
132 96 0.32
133 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (130 bp):
CGATGTTTGATAATTCGGGAATAGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAA
TAATCGAATATTCCTTCAGAATTTCACTCACGTTTTCTAAAAACCTTTAAAACGAAAGAAATACT
Found at i:93561290 original size:35 final size:35
Alignment explanation
Indices: 93561238--93561367 Score: 129
Period size: 35 Copynumber: 3.7 Consensus size: 35
93561228 TCCATGGCAA
* * *
93561238 AGTT-TGAAACCTAAGGTATGGTATTAACCATACTG
1 AGTTGTGAAACGT-AGGTATGATATTATCCATACTG
*
93561273 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
1 AGTTGTGAAACGTAGGTATGATATTATCCATACTG
** * * *
93561308 AGTTAAGAAACGTAAGTATGACATT-TCCTATACCG
1 AGTTGTGAAACGTAGGTATGATATTATCC-ATACTG
* *
93561343 AGCTGTGAAATGTAGGTATGATATT
1 AGTTGTGAAACGTAGGTATGATATT
93561368 TCAATGAGGA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
34 3 0.04
35 69 0.87
36 7 0.09
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGATATTATCCATACTG
Found at i:93564764 original size:14 final size:14
Alignment explanation
Indices: 93564745--93564771 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93564735 GCTTAATTGG
93564745 AATAGTGGTTTCGA
1 AATAGTGGTTTCGA
93564759 AATAGTGGTTTCG
1 AATAGTGGTTTCG
93564772 TGACCATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.07, G:0.30, T:0.37
Consensus pattern (14 bp):
AATAGTGGTTTCGA
Found at i:93565711 original size:93 final size:93
Alignment explanation
Indices: 93565552--93565722 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
93565542 GGATGGTTGA
* * *
93565552 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
93565617 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
93565645 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
93565710 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
93565723 ACTTAGGGGC
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:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:93565725 original size:46 final size:46
Alignment explanation
Indices: 93565556--93565727 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
93565546 GGTTGAGCAT
* * *
93565556 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
93565602 CTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
93565647 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
93565695 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
93565728 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 59 0.56
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:93566636 original size:20 final size:20
Alignment explanation
Indices: 93566594--93566636 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
93566584 CTGTTCTGAA
* *
93566594 TTTAAAAAATCATAATAAAT
1 TTTAAAAAATAATAAGAAAT
* *
93566614 TTTAAAAAATAATTAGAAGT
1 TTTAAAAAATAATAAGAAAT
93566634 TTT
1 TTT
93566637 TATTTATATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (20 bp):
TTTAAAAAATAATAAGAAAT
Found at i:93569695 original size:35 final size:36
Alignment explanation
Indices: 93569651--93569778 Score: 127
Period size: 35 Copynumber: 3.6 Consensus size: 36
93569641 TCCTCATTGA
* *
93569651 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
** * * **
93569686 AATGTCATACTTATGTTTCTTAACTCAGTAT-GGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
*
93569721 AATACCATACCTACGTTTCACAACTCAGTAT-GGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
* *
93569756 AATACTATACCTTACATTTCACA
1 AATACCATACC-TACGTTTCACA
93569779 CTTTGCCATG
Statistics
Matches: 74, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
34 3 0.04
35 61 0.82
36 10 0.14
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.34
Consensus pattern (36 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGGAT
Found at i:93572024 original size:16 final size:17
Alignment explanation
Indices: 93571992--93572028 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
93571982 TCATTTAGAT
*
93571992 AATTTTAAAATTTATAA
1 AATTTTAAAATTAATAA
93572009 AATTTT-AAATTAATAA
1 AATTTTAAAATTAATAA
93572025 AATT
1 AATT
93572029 AAAATTACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTTAAAATTAATAA
Found at i:93572035 original size:15 final size:16
Alignment explanation
Indices: 93571995--93572035 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
93571985 TTTAGATAAT
*
93571995 TTTAAAATTTATAAAA
1 TTTAAAATTAATAAAA
*
93572011 TTTTAAATTAATAAAA
1 TTTAAAATTAATAAAA
93572027 -TTAAAATTA
1 TTTAAAATTA
93572036 CACTTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTAAAATTAATAAAA
Found at i:93572104 original size:17 final size:17
Alignment explanation
Indices: 93572074--93572107 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
93572064 TTTAATCATT
93572074 TAAAAATTATAAAAATA
1 TAAAAATTATAAAAATA
93572091 TAAACAATTA-AAAAATA
1 TAAA-AATTATAAAAATA
93572108 ATTTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAATTATAAAAATA
Found at i:93574469 original size:21 final size:21
Alignment explanation
Indices: 93574404--93574469 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
93574394 GAAAATTTTT
* * *
93574404 AAATTTTTA-ACTTTCTTTAT
1 AAATTTTTAGAATTTTTTTAA
* **
93574424 ATATTTTTAGAATTTTTTTTG
1 AAATTTTTAGAATTTTTTTAA
93574445 AAATTTTTAGAATTTTTTTAA
1 AAATTTTTAGAATTTTTTTAA
93574466 AAAT
1 AAAT
93574470 ATAAATTTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 8 0.22
21 29 0.78
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (21 bp):
AAATTTTTAGAATTTTTTTAA
Found at i:93574484 original size:26 final size:25
Alignment explanation
Indices: 93574445--93574495 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
93574435 ATTTTTTTTG
*
93574445 AAATTTTTAGAATTTTTTTAAAAATAT
1 AAATTTTGAGAA--TTTTTAAAAATAT
93574472 AAATTTTGA-AATTTTTAAAAATAT
1 AAATTTTGAGAATTTTTAAAAATAT
93574496 TTTGGATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 13 0.57
26 2 0.09
27 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
AAATTTTGAGAATTTTTAAAAATAT
Found at i:93580344 original size:22 final size:24
Alignment explanation
Indices: 93580309--93580354 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
93580299 CTGAATTATT
93580309 ATTTAACAATG-AAAATATTATTAA
1 ATTTAACAATGAAAAATA-TATTAA
93580333 ATTTAA-AA-GAAAAATATATTAA
1 ATTTAACAATGAAAAATATATTAA
93580355 TATTAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.33
23 8 0.38
24 6 0.29
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (24 bp):
ATTTAACAATGAAAAATATATTAA
Found at i:93585943 original size:29 final size:29
Alignment explanation
Indices: 93585901--93585958 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
93585891 CCTTCCACAG
93585901 AAAAGGAGAAGGAAGAGATGCAGAAAATT
1 AAAAGGAGAAGGAAGAGATGCAGAAAATT
93585930 AAAAGGAGAAGGAAGAGATGCAGAAAATT
1 AAAAGGAGAAGGAAGAGATGCAGAAAATT
93585959 CCTTACTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.03, G:0.31, T:0.10
Consensus pattern (29 bp):
AAAAGGAGAAGGAAGAGATGCAGAAAATT
Found at i:93589359 original size:17 final size:17
Alignment explanation
Indices: 93589339--93589378 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
93589329 TATGTGTTAT
*
93589339 AAATTACATAATATATA
1 AAATTACATAATATAAA
*
93589356 AAATGACATAATATAAA
1 AAATTACATAATATAAA
93589373 AAATTA
1 AAATTA
93589379 TAAAAATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (17 bp):
AAATTACATAATATAAA
Found at i:93592357 original size:30 final size:30
Alignment explanation
Indices: 93592325--93592380 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
93592315 ATATTACATA
*
93592325 AAAATAAAA-GATATAAGTATGTATATCGT
1 AAAATAAAACAATATAAGTATGTATATCGT
*
93592354 AAAATAAAACAATGTAAGTATGTATAT
1 AAAATAAAACAATATAAGTATGTATAT
93592381 ATATATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (30 bp):
AAAATAAAACAATATAAGTATGTATATCGT
Found at i:93592539 original size:18 final size:18
Alignment explanation
Indices: 93592512--93592565 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
93592502 TATAAAAAAT
*
93592512 ATATAGATATATAATAAG
1 ATATAAATATATAATAAG
93592530 ATATAAATATATAATAAG
1 ATATAAATATATAATAAG
*
93592548 ATATAAAGATATATATAA
1 ATATAAATATATA-ATAA
93592566 ATAGTTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
18 29 0.88
19 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (18 bp):
ATATAAATATATAATAAG
Found at i:93594249 original size:44 final size:44
Alignment explanation
Indices: 93594201--93594377 Score: 141
Period size: 44 Copynumber: 4.1 Consensus size: 44
93594191 GTTTCTTTTG
*
93594201 TCTGCTCTACTGTAACCTT-AGGGAGATAAGATCTATGGCTTCAA
1 TCTGCTCCACTGTAA-CTTCAGGGAGATAAGATCTATGGCTTCAA
* * * *
93594245 TCTGCTCCACTGTAACCTCAAGGAGATAAGACCTGAT-G---CGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT-ATGGCTTCAA
* * * * ** *
93594286 TCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATGGCTTCAA
** * *
93594330 TCCACTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGCTTCAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAT-GGCTTCAA
93594374 TCTG
1 TCTG
93594378 ATGTGATCTA
Statistics
Matches: 100, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
40 1 0.01
41 30 0.30
43 4 0.04
44 63 0.63
45 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATGGCTTCAA
Found at i:93594572 original size:44 final size:44
Alignment explanation
Indices: 93594519--93594617 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 44
93594509 TTTTAATCCG
*
93594519 CTCCACTGTAA-CTTCAGAGAGATAGGAT-TACTAGCTTCAATCTA
1 CTCCACTGTAATC-TCAGAGAGATAAGATCT-CTAGCTTCAATCTA
* * * * *
93594563 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATATG
1 CTCCACTGTAATCTCAGAGAGATAAGATCTCTAGCTTCAATCTA
*
93594607 TTCCACTGTAA
1 CTCCACTGTAA
93594618 CCGAGAGAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
44 43 0.96
45 2 0.04
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGAGAGATAAGATCTCTAGCTTCAATCTA
Found at i:93594698 original size:45 final size:45
Alignment explanation
Indices: 93594649--93594958 Score: 162
Period size: 44 Copynumber: 7.1 Consensus size: 45
93594639 TCTTCGATCT
* *
93594649 GCTTCGCTGTCAAGGCAAGAAGGCAAGATCTGTTATCTTCAACCA
1 GCTTCGCTGTCAAGGCGAGAAGGCAAGATCTGTTGTCTTCAACCA
* * * * * * *
93594694 GCTTCACT-ACAA-CCGAGAGAGGCAAGGTTTG-TGTCTTCAATCT
1 GCTTCGCTGTCAAGGCGAGA-AGGCAAGATCTGTTGTCTTCAACCA
* *
93594737 GCTTCGCTGTCAATGG-GGGAAGGCAAGATCTTTTGTCTTCAACCA
1 GCTTCGCTGTCAA-GGCGAGAAGGCAAGATCTGTTGTCTTCAACCA
** * * * * * *
93594782 GC-TC-CATCACAACG-GAGAGAGGCAAG--GT-TTGTTTTCGATCT
1 GCTTCGC-TGTCAAGGCGAGA-AGGCAAGATCTGTTGTCTTCAACCA
* ** * *
93594823 GCTTCGCTATCAATACAAGAAGGCAAGATCTTTTGTCTTCAACCA
1 GCTTCGCTGTCAAGGCGAGAAGGCAAGATCTGTTGTCTTCAACCA
* ** * ** *
93594868 GC-TC-C-ATCACAACCGAGAGAGGCAAGGTCTG-TGTCTTTGACCT
1 GCTTCGCTGTCA-AGGCGAGA-AGGCAAGATCTGTTGTCTTCAACCA
* * *
93594911 GCTTCGCTGTCAATGCGGGAAGGCAAGATCTTTTGTCTTCAACCA
1 GCTTCGCTGTCAAGGCGAGAAGGCAAGATCTGTTGTCTTCAACCA
93594956 GCT
1 GCT
93594959 CCATCACTAC
Statistics
Matches: 192, Mismatches: 54, Indels: 38
0.68 0.19 0.13
Matches are distributed among these distances:
41 11 0.06
42 18 0.09
43 46 0.24
44 63 0.33
45 51 0.27
46 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (45 bp):
GCTTCGCTGTCAAGGCGAGAAGGCAAGATCTGTTGTCTTCAACCA
Found at i:93594844 original size:174 final size:173
Alignment explanation
Indices: 93594616--93595123 Score: 673
Period size: 174 Copynumber: 2.9 Consensus size: 173
93594606 GTTCCACTGT
* *
93594616 AACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAAGAAGGCAAGATCTG
1 AACCGAGAGAGGCAAGGTTTGT-T-TTCGATCTGCTTCGCTGTCAACGCAAGAAGGCAAGATCTA
* *
93594681 TTATCTTCAACCAGCTTCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTG
64 TT-TCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTG
*
93594746 TCAATGGGGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
128 TCAATGCGGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
* * ** *
93594792 AACGGAGAGAGGCAAGGTTTGTTTTCGATCTGCTTCGCTATCAATACAAGAAGGCAAGATCTTTT
1 AACCGAGAGAGGCAAGGTTTGTTTTCGATCTGCTTCGCTGTCAACGCAAGAAGGCAAGATCTATT
* * *
93594857 GTCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTCTGTGTCTTTGACCTGCTTCGCTGT
66 -TCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGT
93594921 CAATGCGGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
129 CAATGCGGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
* * * * *
93594966 TACCGAGAGAGGCAAGGTTTGTTTTCGATCTGCTTTGCTGTTAACGCAGGAAGGCAAGATCTACT
1 AACCGAGAGAGGCAAGGTTTGTTTTCGATCTGCTTCGCTGTCAACGCAAGAAGGCAAGATCTATT
* * * * *
93595031 TCTTTAACTAGCTCCACTGCAATCGATG-GATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGT
66 TCTTCAACCAGCTCCACTACAACCGA-GAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGT
* * * **
93595093 TAACGCAGGAAGGCAAGATCTGCTGTCTTCA
129 CAATGCGGGAAGGCAAGATCTTTTGTCTTCA
93595124 CTGATCTGTT
Statistics
Matches: 293, Mismatches: 35, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
172 42 0.14
173 30 0.10
174 199 0.68
175 1 0.00
176 21 0.07
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (173 bp):
AACCGAGAGAGGCAAGGTTTGTTTTCGATCTGCTTCGCTGTCAACGCAAGAAGGCAAGATCTATT
TCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
ATGCGGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
Found at i:93594855 original size:86 final size:87
Alignment explanation
Indices: 93594616--93595123 Score: 625
Period size: 88 Copynumber: 5.8 Consensus size: 87
93594606 GTTCCACTGT
* * *
93594616 AACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAAGAAGGCAAGATCTG
1 AACCGAGAGAGGCAAGGTTTGTGT-TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTT
* *
93594681 TTATCTTCAACCAGCTTCA-CTAC
65 TTGTCTTCAACCAGCTCCATC-AC
* **
93594704 AACCGAGAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGGGGGAAGGCAAGATCTT
1 AACCGAGAGAGGCAAGGTTTGTGT-TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTT
93594769 TTGTCTTCAACCAGCTCCATCAC
65 TTGTCTTCAACCAGCTCCATCAC
* * * *
93594792 AACGGAGAGAGGCAAGGTTTGT-TTTCGATCTGCTTCGCTATCAATACAAGAAGGCAAGATCTTT
1 AACCGAGAGAGGCAAGGTTTGTGTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
93594856 TGTCTTCAACCAGCTCCATCAC
66 TGTCTTCAACCAGCTCCATCAC
* * * *
93594878 AACCGAGAGAGGCAAGGTCTGTGTCTTTGACCTGCTTCGCTGTCAATGCGGGAAGGCAAGATCTT
1 AACCGAGAGAGGCAAGGTTTGTGT-TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTT
93594943 TTGTCTTCAACCAGCTCCATCAC
65 TTGTCTTCAACCAGCTCCATCAC
* * * * **
93594966 TACCGAGAGAGGCAAGGTTTGT-TTTCGATCTGCTTTGCTGTTAACGCAGGAAGGCAAGATCTAC
1 AACCGAGAGAGGCAAGGTTTGTGTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
* * *
93595030 T-TCTTTAACTAGCTCCA-CTGC
66 TGTCTTCAACCAGCTCCATC-AC
* * * *
93595051 AATCGATG-GATGCAAGGCTTTGT-TTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCT
1 AACCGA-GAGAGGCAAGG-TTTGTGTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
**
93595114 GCTGTCTTCA
64 TTTGTCTTCA
93595124 CTGATCTGTT
Statistics
Matches: 371, Mismatches: 42, Indels: 15
0.87 0.10 0.04
Matches are distributed among these distances:
84 1 0.00
85 27 0.07
86 158 0.43
87 8 0.02
88 176 0.47
89 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (87 bp):
AACCGAGAGAGGCAAGGTTTGTGTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
TGTCTTCAACCAGCTCCATCAC
Found at i:93596188 original size:21 final size:21
Alignment explanation
Indices: 93596162--93596208 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
93596152 GGTATGGCAG
93596162 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** * *
93596183 GATCACTTCATGCTCCATTCT
1 GATCACCACATGCCCCAATCT
93596204 GATCA
1 GATCA
93596209 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:93599874 original size:19 final size:20
Alignment explanation
Indices: 93599845--93599893 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
93599835 CACTTCGTGA
* *
93599845 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
93599864 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
93599884 AAATG-AATGC
1 AAATGTAATGC
93599894 CTAAAGAGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:93601850 original size:30 final size:30
Alignment explanation
Indices: 93601818--93601873 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
93601808 ATATTACATA
*
93601818 AAAATAAAA-GATATAAGTATGTATATCGT
1 AAAATAAAACAATATAAGTATGTATATCGT
*
93601847 AAAATAAAACAATGTAAGTATGTATAT
1 AAAATAAAACAATATAAGTATGTATAT
93601874 ATATATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (30 bp):
AAAATAAAACAATATAAGTATGTATATCGT
Found at i:93602032 original size:18 final size:18
Alignment explanation
Indices: 93602005--93602058 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
93601995 TATAAAAAAT
*
93602005 ATATAGATATATAATAAG
1 ATATAAATATATAATAAG
93602023 ATATAAATATATAATAAG
1 ATATAAATATATAATAAG
*
93602041 ATATAAAGATATATATAA
1 ATATAAATATATA-ATAA
93602059 ATAGTTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
18 29 0.88
19 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (18 bp):
ATATAAATATATAATAAG
Found at i:93610245 original size:33 final size:33
Alignment explanation
Indices: 93610179--93610301 Score: 135
Period size: 33 Copynumber: 3.8 Consensus size: 33
93610169 TACTTAAATG
*
93610179 GTAC-ACTTGAAAAGGTTATGTACA-TTTGTGT
1 GTACAACTTGAAAAGGATATGTACACTTTGTGT
* *
93610210 GTACAATTTGAAAAGGCTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGATATGTACACTTTGTGT
* * ** *
93610243 GTACAACTTGCAAAGAATACATACACTTTGAGT
1 GTACAACTTGAAAAGGATATGTACACTTTGTGT
*
93610276 GTACCACTTGAAAAGGGA-ATGTACAC
1 GTACAACTTGAAAA-GGATATGTACAC
93610302 CTCGAGTGTA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
31 4 0.05
32 18 0.24
33 51 0.68
34 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (33 bp):
GTACAACTTGAAAAGGATATGTACACTTTGTGT
Found at i:93611923 original size:9 final size:9
Alignment explanation
Indices: 93611911--93611943 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
93611901 GAATTATTCG
93611911 AATCGAGTT
1 AATCGAGTT
*
93611920 AATCGAATT
1 AATCGAGTT
93611929 AATCGAGTT
1 AATCGAGTT
93611938 AATCGA
1 AATCGA
93611944 ATCAACTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:93611934 original size:18 final size:18
Alignment explanation
Indices: 93611911--93611945 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
93611901 GAATTATTCG
93611911 AATCGAGTTAATCGAATT
1 AATCGAGTTAATCGAATT
93611929 AATCGAGTTAATCGAAT
1 AATCGAGTTAATCGAAT
93611946 CAACTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
AATCGAGTTAATCGAATT
Found at i:93612317 original size:12 final size:12
Alignment explanation
Indices: 93612300--93612332 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
93612290 TATTTTTTAG
93612300 TTATTTACTCAC
1 TTATTTACTCAC
*
93612312 TTATTTATTCAC
1 TTATTTACTCAC
93612324 TTATTTACT
1 TTATTTACT
93612333 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:93612671 original size:22 final size:24
Alignment explanation
Indices: 93612629--93612676 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
93612619 CCTTTCAAAA
*
93612629 AAATAATTAAAATTATATTTATATT
1 AAATAATTAAAA-TATATTTAAATT
93612654 AAATAA-TAAAA-ATATTTAAATT
1 AAATAATTAAAATATATTTAAATT
93612676 A
1 A
93612677 TTTTATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
24 5 0.23
25 6 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATAATTAAAATATATTTAAATT
Found at i:93612687 original size:32 final size:34
Alignment explanation
Indices: 93612627--93612694 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 34
93612617 TTCCTTTCAA
93612627 AAAAATAATTAAAATTATATTTATATTAAATAAT
1 AAAAATAATTAAAATTATATTTATATTAAATAAT
*
93612661 AAAAAT-ATTTAAATTAT-TTTATATTAAATAAT
1 AAAAATAATTAAAATTATATTTATATTAAATAAT
93612693 AA
1 AA
93612695 TTTAAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 17 0.52
33 10 0.30
34 6 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (34 bp):
AAAAATAATTAAAATTATATTTATATTAAATAAT
Found at i:93612770 original size:16 final size:17
Alignment explanation
Indices: 93612751--93612785 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
93612741 ATAATAAAAA
*
93612751 ATTTAA-TATTTAATTT
1 ATTTAATTATTAAATTT
93612767 ATTTAATTATTAAATTT
1 ATTTAATTATTAAATTT
93612784 AT
1 AT
93612786 ATTTATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTAATTATTAAATTT
Found at i:93612773 original size:28 final size:28
Alignment explanation
Indices: 93612737--93612790 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
93612727 TCATTAAAAA
93612737 TTATATAA-TAAAAAATTTAATATTTAAT
1 TTATATAATTAAAAAATTT-ATATTTAAT
* **
93612765 TTATTTAATTATTAAATTTATATTTA
1 TTATATAATTAAAAAATTTATATTTA
93612791 TATCATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 14 0.64
29 8 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTATATAATTAAAAAATTTATATTTAAT
Found at i:93615833 original size:35 final size:35
Alignment explanation
Indices: 93615794--93615862 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
93615784 ACTTGCCTCT
93615794 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
*
93615829 TCCCACTCTCCCATGTTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
93615863 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:93616552 original size:3 final size:3
Alignment explanation
Indices: 93616522--93616580 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
93616512 AATATCCTTG
* * *
93616522 TTA TTT TTA -TA TTA TTA ATA TTA ATA TTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
*
93616567 TTA TTG TTA TTA TT
1 TTA TTA TTA TTA TT
93616581 GTACATTAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:93616687 original size:3 final size:3
Alignment explanation
Indices: 93616679--93616727 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
93616669 TGTGTTTCAA
93616679 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
93616727 T
1 T
93616728 TTTAATGTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:93616945 original size:22 final size:23
Alignment explanation
Indices: 93616917--93616971 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
93616907 AATTTTTTTA
93616917 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
93616939 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
93616963 -TA-ATATTAT
1 ATATATATTAT
93616972 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:93619515 original size:14 final size:14
Alignment explanation
Indices: 93619496--93619525 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93619486 CCAACTATTT
*
93619496 TTCTTTTTCTTTCA
1 TTCTTTTTCTTGCA
93619510 TTCTTTTTCTTGCA
1 TTCTTTTTCTTGCA
93619524 TT
1 TT
93619526 TACAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.20, G:0.03, T:0.70
Consensus pattern (14 bp):
TTCTTTTTCTTGCA
Found at i:93621905 original size:3 final size:3
Alignment explanation
Indices: 93621897--93621940 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
93621887 CCATCCTTTT
93621897 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
93621941 AAAATCCCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:93623936 original size:14 final size:14
Alignment explanation
Indices: 93623907--93623936 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93623897 TTTATTTATG
*
93623907 TTTTTAAATTTTAT
1 TTTTTAAATTTAAT
93623921 TTTTTAAATTTAAT
1 TTTTTAAATTTAAT
93623935 TT
1 TT
93623937 AATTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTAAATTTAAT
Found at i:93625337 original size:81 final size:77
Alignment explanation
Indices: 93625227--93625379 Score: 243
Period size: 81 Copynumber: 1.9 Consensus size: 77
93625217 ATTATTTTGT
*
93625227 TAAATTTAGGTTCATTATATCATTTCTTAGTTAAATTGCTACCAAGTGAATTTTTTTTTATTTCA
1 TAAATTTAGGTTCATTACATCATTTCTTAGTTAAATTGCTACCAAGTGAA-TTTTTTTTATTTCA
93625292 AAATGTCAAATCA
65 AAATGTCAAATCA
* *
93625305 TAAATTTAGGTTCATTACAACATCATTTCTTAGTTATATTGCTACCGAGTGAATTTTTTTTATTT
1 TAAATTTAGGTTCATT---ACATCATTTCTTAGTTAAATTGCTACCAAGTGAATTTTTTTTATTT
93625370 CAAAATGTCA
63 CAAAATGTCA
93625380 TACCAACCAA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 16 0.23
80 22 0.32
81 31 0.45
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (77 bp):
TAAATTTAGGTTCATTACATCATTTCTTAGTTAAATTGCTACCAAGTGAATTTTTTTTATTTCAA
AATGTCAAATCA
Found at i:93633988 original size:13 final size:13
Alignment explanation
Indices: 93633970--93633995 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93633960 TGTGAAAAAT
93633970 AAAATAAAATAAA
1 AAAATAAAATAAA
93633983 AAAATAAAATAAA
1 AAAATAAAATAAA
93633996 GAACACACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:93634217 original size:5 final size:5
Alignment explanation
Indices: 93634207--93634231 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
93634197 AACCTTATTC
93634207 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
93634232 GAAGTCTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:93640454 original size:17 final size:17
Alignment explanation
Indices: 93640432--93640478 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
93640422 TAATTTATGT
93640432 TAATTTATAAATTTTT-A
1 TAATTT-TAAATTTTTAA
*
93640449 TAATTTTAATTTTTTAA
1 TAATTTTAAATTTTTAA
93640466 TAAATTTTAAATT
1 T-AATTTTAAATT
93640479 ATTTTTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 8 0.31
17 8 0.31
18 10 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATTTTAAATTTTTAA
Found at i:93643525 original size:3 final size:3
Alignment explanation
Indices: 93643517--93643613 Score: 85
Period size: 3 Copynumber: 32.7 Consensus size: 3
93643507 TTTAGCTACT
* * *
93643517 TTA TTA TTA -AA TTA GTTA TTT TTA TTA TTA TT- TTC TT- TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
93643560 TTA TT- TATA TTCA TTA TTA TTA TTA TTA CTA TTA TTT TTA TTA TCA
1 TTA TTA T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
93643606 TTA TTA TT
1 TTA TTA TT
93643614 TTTAAATCAT
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
2 6 0.08
3 64 0.83
4 7 0.09
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:93643932 original size:5 final size:5
Alignment explanation
Indices: 93643917--93643947 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
93643907 TTATTTACCT
93643917 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
93643948 GTTTATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:93643940 original size:15 final size:14
Alignment explanation
Indices: 93643917--93643957 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 14
93643907 TTATTTACCT
93643917 TTTTATTTATTTTA
1 TTTTATTTATTTTA
93643931 TTTTATTTTATTTTA
1 TTTTA-TTTATTTTA
93643946 TTGTTTATTTAT
1 -T-TTTATTTAT
93643958 ACCCTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.21
15 9 0.38
16 6 0.25
17 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:93644003 original size:3 final size:3
Alignment explanation
Indices: 93643997--93644040 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
93643987 TATTTTGTTG
* * * *
93643997 TTA TTA TTA TTA ATA TTA CTA TCA TTA TTA TTA ATA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
93644041 TTTAAACCCC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:93645628 original size:23 final size:22
Alignment explanation
Indices: 93645578--93645633 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
93645568 AACCAATCCA
*
93645578 ATTCAACATATTTTCAAGATAG
1 ATTCATCATATTTTCAAGATAG
93645600 ATTCATGCATATTTAT-AAGATAG
1 ATTCAT-CATATTT-TCAAGATAG
93645623 CA-TCATCATAT
1 -ATTCATCATAT
93645634 ACCAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 10 0.33
23 18 0.60
24 2 0.07
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (22 bp):
ATTCATCATATTTTCAAGATAG
Done.