Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1085
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: 1639209
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.20
Warning! 665865 characters in sequence are not A, C, G, or T
File 4 of 7
Found at i:725596 original size:49 final size:52
Alignment explanation
Indices: 725488--725603 Score: 150
Period size: 49 Copynumber: 2.3 Consensus size: 52
725478 CTACCAAGGA
* *
725488 AATGTATCGATACATTATTCAATGTATCGATACATTGTATTGATACATTATTC
1 AATGTATCGATACA-TATTCAATGTATCGATACATTGTATCGATACATGATTC
725541 AATGTATCGATACA-A-T-AATGTATCGATACATTGTATCGATACATCGA-TC
1 AATGTATCGATACATATTCAATGTATCGATACATTGTATCGATACAT-GATTC
**
725590 TTTGTATCGATACA
1 AATGTATCGATACA
725604 CTAGGAAGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
49 41 0.71
50 2 0.03
51 1 0.02
53 14 0.24
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (52 bp):
AATGTATCGATACATATTCAATGTATCGATACATTGTATCGATACATGATTC
Found at i:725647 original size:20 final size:20
Alignment explanation
Indices: 725622--725676 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
725612 TTTACCCAGA
*
725622 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
725642 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
*
725662 TGTTTCGATACATTG
1 TGTATCGATACATTG
725677 TATCGATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:725706 original size:33 final size:33
Alignment explanation
Indices: 725639--725708 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
725629 ATACATTTTG
* * * *
725639 CATTGTATCGATACATTGCTCATTGTTTCGATA
1 CATTGTATCGATACATGGCTCATTATATCAATA
725672 CATTGTATCGATACATGGCTCATTATATCAATA
1 CATTGTATCGATACATGGCTCATTATATCAATA
725705 CATT
1 CATT
725709 TTACAATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (33 bp):
CATTGTATCGATACATGGCTCATTATATCAATA
Found at i:728096 original size:28 final size:28
Alignment explanation
Indices: 728063--728136 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
728053 TTTCACAATT
**
728063 GGGGATACTCCAACCCCGTTATTTCATC
1 GGGGATACTCCAACCCCGTTATTTCAGA
* *
728091 GGGGATACTCCAACCCCATTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCAGA
*
728119 GGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
728137 GCTTTATATC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCAGA
Found at i:728258 original size:79 final size:79
Alignment explanation
Indices: 728088--728301 Score: 232
Period size: 79 Copynumber: 2.7 Consensus size: 79
728078 CCGTTATTTC
* * * * * *
728088 ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCTAACCCCGGCTTTATATCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATATCCAAAAC
** * *
728153 ATTGATTTTTCATA
66 ATAAATTTCTCACA
* * * * * *
728167 ATTGGGGGTACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACTCCGATTTTATTTCCAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATATCCAAAAC
728232 ATAAATTTCTCACA
66 ATAAATTTCTCACA
* * * *
728246 ATCGAGGATACTCTAACCCCGTTA-TTTCTGAAGGGATACTCCAACCCCAACTTTAT
1 ATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGACTTTAT
728302 TACCAATTTT
Statistics
Matches: 109, Mismatches: 25, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
78 4 0.04
79 105 0.96
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATATCCAAAAC
ATAAATTTCTCACA
Found at i:728458 original size:79 final size:79
Alignment explanation
Indices: 728320--728484 Score: 303
Period size: 79 Copynumber: 2.1 Consensus size: 79
728310 TTTCACATTC
728320 GGGGATACTCCAACTCTGATTTCATTTTCAAAATACCGATTTTCTATAATCAGGCATACTCCAAC
1 GGGGATACTCCAACTCTGATTTCATTTTCAAAATACCGATTTTCTATAATCAGGCATACTCCAAC
728385 CCTATTATTTTCGA
66 CCTATTATTTTCGA
* *
728399 GGGGATACTCCAACTCTGATTTCATTTTCAAAATACCGATTTTCTATAATTAGGGATACTCCAAC
1 GGGGATACTCCAACTCTGATTTCATTTTCAAAATACCGATTTTCTATAATCAGGCATACTCCAAC
*
728464 CCTGTTATTTTCGA
66 CCTATTATTTTCGA
728478 GGGGATA
1 GGGGATA
728485 TTTCAACCCC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 83 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (79 bp):
GGGGATACTCCAACTCTGATTTCATTTTCAAAATACCGATTTTCTATAATCAGGCATACTCCAAC
CCTATTATTTTCGA
Found at i:728527 original size:79 final size:79
Alignment explanation
Indices: 728320--728538 Score: 271
Period size: 79 Copynumber: 2.8 Consensus size: 79
728310 TTTCACATTC
* * * *
728320 GGGGATACTCCAACTCTGATTTCATTTTCAAAATACCGATTTTCTATAATCAGGCATACTCCAAC
1 GGGGATACTCCAACCCCGATTTCATTTTCAAAACACCGATTTTCTATAATCAGGGATACTCCAAC
728385 CCTATTATTTTCGA
66 CCTATTATTTTCGA
* * * *
728399 GGGGATACTCCAACTCTGATTTCATTTTCAAAATACCGATTTTCTATAATTAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTCATTTTCAAAACACCGATTTTCTATAATCAGGGATACTCCAAC
*
728464 CCTGTTATTTTCGA
66 CCTATTATTTTCGA
* * * * * *
728478 GGGGATATTTCAACCCCGATTT-TTATTTCTAGAACACCGA-TTTCCATAATCGGGGATACTC
1 GGGGATACTCCAACCCCGATTTCAT-TTTC-AAAACACCGATTTTCTATAATCAGGGATACTC
728539 TAGCCTCGGT
Statistics
Matches: 125, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
78 1 0.01
79 116 0.93
80 8 0.06
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTCATTTTCAAAACACCGATTTTCTATAATCAGGGATACTCCAAC
CCTATTATTTTCGA
Found at i:730563 original size:21 final size:21
Alignment explanation
Indices: 730530--730570 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
730520 CTAAGTAAAA
730530 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
730551 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
730571 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:730635 original size:20 final size:19
Alignment explanation
Indices: 730610--730680 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
730600 ACCCTGAAAA
730610 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
730630 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
730649 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
730670 GTATCGATACA
1 GTATCGATACA
730681 GGTCATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:730776 original size:10 final size:10
Alignment explanation
Indices: 730757--730787 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
730747 AATCTCATTT
730757 TCACTGTTCA
1 TCACTGTTCA
*
730767 TCACTATTCA
1 TCACTGTTCA
730777 TCACTGTTCA
1 TCACTGTTCA
730787 T
1 T
730788 ATATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:730830 original size:23 final size:22
Alignment explanation
Indices: 730766--730844 Score: 56
Period size: 23 Copynumber: 3.5 Consensus size: 22
730756 TTCACTGTTC
*
730766 ATCACTATTCATCACTGTTCATAT
1 ATCACTATTCA-CACT-TTCACAT
**
730790 ATCGA-TA--CATCACTTTCATGT
1 ATC-ACTATTCA-CACTTTCACAT
*
730811 ATCACTGTTCACACTGTTCACAT
1 ATCACTATTCACACT-TTCACAT
730834 ATCACTATTCA
1 ATCACTATTCA
730845 TGTAAAATCA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
20 1 0.02
21 10 0.22
22 11 0.24
23 17 0.38
24 5 0.11
25 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (22 bp):
ATCACTATTCACACTTTCACAT
Found at i:730909 original size:13 final size:13
Alignment explanation
Indices: 730891--730916 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
730881 ACATATTTGT
730891 GTGTATCGATACA
1 GTGTATCGATACA
730904 GTGTATCGATACA
1 GTGTATCGATACA
730917 TCATAAATAG
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:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:731458 original size:34 final size:35
Alignment explanation
Indices: 731395--731461 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
731385 CTAAGTGATT
731395 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
731431 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
731462 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:734580 original size:13 final size:13
Alignment explanation
Indices: 734562--734586 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
734552 TTTTCCAGAT
734562 TGTATCGATACAA
1 TGTATCGATACAA
734575 TGTATCGATACA
1 TGTATCGATACA
734587 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:736323 original size:20 final size:19
Alignment explanation
Indices: 736298--736368 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
736288 ACCCTGAAAA
736298 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
736318 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
736337 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
736358 GTATCGATACA
1 GTATCGATACA
736369 GGTCATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:736464 original size:10 final size:10
Alignment explanation
Indices: 736445--736475 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
736435 AATCTCATTT
736445 TCACTGTTCA
1 TCACTGTTCA
*
736455 TCACTATTCA
1 TCACTGTTCA
736465 TCACTGTTCA
1 TCACTGTTCA
736475 T
1 T
736476 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:736597 original size:13 final size:13
Alignment explanation
Indices: 736579--736604 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
736569 ACATATTTGT
736579 GTGTATCGATACA
1 GTGTATCGATACA
736592 GTGTATCGATACA
1 GTGTATCGATACA
736605 TCATAAATAG
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:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:737146 original size:34 final size:35
Alignment explanation
Indices: 737083--737149 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
737073 CTAAGTGATT
737083 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
737119 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
737150 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:739883 original size:33 final size:32
Alignment explanation
Indices: 739837--739901 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
739827 ACATATCCAG
*
739837 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
*
739870 ATGTATCGGTACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
739902 TACTCAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:739895 original size:19 final size:20
Alignment explanation
Indices: 739871--739923 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
739861 ATCGATACAA
* *
739871 TGTATCGGTACATGTTC-AT
1 TGTATCGATACATGCTCAAT
*
739890 TGTATCGATACATACTCAAT
1 TGTATCGATACATGCTCAAT
739910 TGTATCGATACATG
1 TGTATCGATACATG
739924 AAACTGGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:739988 original size:13 final size:13
Alignment explanation
Indices: 739970--739997 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
739960 TACATGGGGT
739970 ATTGTATCGATAC
1 ATTGTATCGATAC
739983 ATTGTATCGATAC
1 ATTGTATCGATAC
739996 AT
1 AT
739998 GGTAAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:741587 original size:32 final size:32
Alignment explanation
Indices: 741537--741632 Score: 117
Period size: 36 Copynumber: 2.9 Consensus size: 32
741527 CCTTACAATA
741537 CTATC-TTTCAAGGCTAAGATAGAAACCTC-C-
1 CTATCTTTTCAAGGCTAAGATAG-AACCTCTCT
741567 CTATCTTTTCACAGGCTAAGATAGAACCTTTCTCT
1 CTATCTTTTCA-AGGCTAAGATAGAACC--TCTCT
741602 CTATCTTTTACAAAGGCTAAGATAGAACCTC
1 CTATCTTTT-C-AAGGCTAAGATAGAACCTC
741633 ACAATCACTT
Statistics
Matches: 58, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
30 5 0.09
31 9 0.16
32 12 0.21
33 2 0.03
34 3 0.05
35 9 0.16
36 17 0.29
37 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (32 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTCTCT
Found at i:742170 original size:13 final size:13
Alignment explanation
Indices: 742152--742176 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
742142 CTGCCAGTTT
742152 ATGTATCGATACA
1 ATGTATCGATACA
742165 ATGTATCGATAC
1 ATGTATCGATAC
742177 TATGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:743430 original size:31 final size:33
Alignment explanation
Indices: 743354--743481 Score: 134
Period size: 35 Copynumber: 3.8 Consensus size: 33
743344 AGTGATTGAG
* * * *
743354 AGGTTCTATTTTAGTCTTTGAAATAGATAGAGAAA
1 AGGTTCTATCTTAGCCTGTGAAA-AGATAG-GGAA
*
743389 AGGTTCTATCTTAGCCTGTGAAAATATA-GG-A
1 AGGTTCTATCTTAGCCTGTGAAAAGATAGGGAA
* *
743420 AGGTTTTATCTTAGCCTTTGAAAAAGATAGGGAA
1 AGGTTCTATCTTAGCCTGTG-AAAAGATAGGGAA
*
743454 TATGTTCTATCTTAGCCTGTGAAAAGAT
1 -AGGTTCTATCTTAGCCTGTGAAAAGAT
743482 TAGGTTGTAA
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
31 19 0.24
32 8 0.10
33 2 0.03
34 12 0.15
35 37 0.47
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (33 bp):
AGGTTCTATCTTAGCCTGTGAAAAGATAGGGAA
Found at i:743461 original size:66 final size:66
Alignment explanation
Indices: 743354--743478 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 66
743344 AGTGATTGAG
* * *
743354 AGGTTCTATTTTAGTCTTTGAAATAGATAGAGAAAAGGTTCTATCTTAGCCTGTGAAAATATAGG
1 AGGTTCTATCTTAGCCTTTGAAAAAGATAGAGAAAAGGTTCTATCTTAGCCTGTGAAAATATAGG
743419 A
66 A
* * * *
743420 AGGTTTTATCTTAGCCTTTGAAAAAGATAGGGAATATGTTCTATCTTAGCCTGTGAAAA
1 AGGTTCTATCTTAGCCTTTGAAAAAGATAGAGAAAAGGTTCTATCTTAGCCTGTGAAAA
743479 GATTAGGTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (66 bp):
AGGTTCTATCTTAGCCTTTGAAAAAGATAGAGAAAAGGTTCTATCTTAGCCTGTGAAAATATAGG
A
Found at i:750238 original size:19 final size:19
Alignment explanation
Indices: 750202--750240 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
750192 TTTGACCCAT
*
750202 TACTTGAGTCTAGATATGC
1 TACTTGAGTCAAGATATGC
750221 TACTTGAGTCCAAG-TATGC
1 TACTTGAGT-CAAGATATGC
750240 T
1 T
750241 TTGGCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (19 bp):
TACTTGAGTCAAGATATGC
Found at i:750936 original size:2 final size:2
Alignment explanation
Indices: 750931--750959 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
750921 AAGAAAAATT
750931 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
750960 AAAGGAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:751059 original size:12 final size:11
Alignment explanation
Indices: 751046--751102 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 11
751036 GGAAGGGAAG
751046 AAAAGAAAGAA
1 AAAAGAAAGAA
*
751057 GAAAGGAAAGAA
1 -AAAAGAAAGAA
*
751069 AAAAAAAATGGGAA
1 AAAAGAAA---GAA
751083 AAAAGAAAGAA
1 AAAAGAAAGAA
751094 AGAAAGAAA
1 A-AAAGAAA
751103 CTACTTGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 10 0.27
12 17 0.46
14 10 0.27
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:754873 original size:64 final size:64
Alignment explanation
Indices: 754804--754924 Score: 224
Period size: 64 Copynumber: 1.9 Consensus size: 64
754794 TTTATATTTG
*
754804 TAATAGAGTTTTATAGTTATTTAAAACTCAATTTTAATTCATTCATAATTGAAAATAATTGTTA
1 TAATAGAGTTTTATAGTTATTTAAAACTCAATTTTAATTAATTCATAATTGAAAATAATTGTTA
*
754868 TAATAGAGTTTTATAGTTATTTAAAACTCAATTTTAATTAATTCATAATTGGAAATA
1 TAATAGAGTTTTATAGTTATTTAAAACTCAATTTTAATTAATTCATAATTGAAAATA
754925 GTTGATTTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (64 bp):
TAATAGAGTTTTATAGTTATTTAAAACTCAATTTTAATTAATTCATAATTGAAAATAATTGTTA
Found at i:755346 original size:22 final size:22
Alignment explanation
Indices: 755319--755391 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
755309 TTTGAATAAG
755319 ATAATATATACATTTAGTAAAA
1 ATAATATATACATTTAGTAAAA
*
755341 ATAATATATATATTTAGTAAAA
1 ATAATATATACATTTAGTAAAA
* *
755363 ATAATATGTACATATAGTAAAA
1 ATAATATATACATTTAGTAAAA
*
755385 ATGATAT
1 ATAATAT
755392 TTTTGACCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (22 bp):
ATAATATATACATTTAGTAAAA
Found at i:755488 original size:22 final size:22
Alignment explanation
Indices: 755443--755488 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
755433 TTTTTCGAAT
* *
755443 AAAATAATATATATATGTAATA
1 AAAATAATATATACATATAATA
* *
755465 AAAATAATATGTACATATAGTA
1 AAAATAATATATACATATAATA
755487 AA
1 AA
755489 TATAGTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (22 bp):
AAAATAATATATACATATAATA
Found at i:755701 original size:22 final size:22
Alignment explanation
Indices: 755631--755713 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
755621 AAAATATATA
755631 TATATATGATTTTAATTGAATG
1 TATATATGATTTTAATTGAATG
* * * *
755653 TACATATAATTAT-ATTAATATG
1 TATATATGATTTTAATTGA-ATG
* *
755675 CATATATGACTTTAATTGAATG
1 TATATATGATTTTAATTGAATG
*
755697 TATATATAATTTTAATT
1 TATATATGATTTTAATT
755714 AAACCAATCT
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
21 4 0.09
22 38 0.83
23 4 0.09
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (22 bp):
TATATATGATTTTAATTGAATG
Found at i:755961 original size:46 final size:44
Alignment explanation
Indices: 755906--756026 Score: 136
Period size: 45 Copynumber: 2.6 Consensus size: 44
755896 AAAATATGTT
*
755906 TATTTTTTATTATTTTTAA-ATAGTAATTAGAAATTTGATATAAAA
1 TATTTTTTATT-TTTTTAACATAGTAATTAGAAA-TTAATATAAAA
* * * *
755951 TATATTTTTATTTTTTAAATATAGTAATTTGAGATTAATATAAAA
1 TAT-TTTTTATTTTTTTAACATAGTAATTAGAAATTAATATAAAA
755996 TATTTTTTAAAATTTTTTTAACATAGTAATT
1 TATTTTTT---ATTTTTTTAACATAGTAATT
756027 TAAGGATTCC
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
44 5 0.08
45 22 0.34
46 20 0.31
47 18 0.28
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (44 bp):
TATTTTTTATTTTTTTAACATAGTAATTAGAAATTAATATAAAA
Found at i:755999 original size:43 final size:46
Alignment explanation
Indices: 755909--756004 Score: 126
Period size: 46 Copynumber: 2.1 Consensus size: 46
755899 ATATGTTTAT
* *
755909 TTTTTATTATTTTTAAATAGTAATTAGAAATTTGATATAAAATATA
1 TTTTTATTATTTTAAAATAGTAATTAGAAATTTAATATAAAATATA
* *
755955 TTTTTATT-TTTTAAATATAGTAATTTGAGA-TTAATATAAAATAT-
1 TTTTTATTATTTTAAA-ATAGTAATTAGAAATTTAATATAAAATATA
755999 TTTTTA
1 TTTTTA
756005 AAATTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
44 6 0.13
45 19 0.42
46 20 0.44
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (46 bp):
TTTTTATTATTTTAAAATAGTAATTAGAAATTTAATATAAAATATA
Found at i:756024 original size:47 final size:45
Alignment explanation
Indices: 755906--756061 Score: 131
Period size: 45 Copynumber: 3.4 Consensus size: 45
755896 AAAATATGTT
* * *
755906 TATTTTTT--ATTATTTTTAAATAGTAATTAGAAATTTGATATAAAA
1 TATTTTTTAAATT-TTTTTAAATAGTAATTTGAGA-TTAATATAAAA
*
755951 TATATTTTT--ATTTTTTAAATATAGTAATTTGAGATTAATATAAAA
1 TAT-TTTTTAAATTTTTTTAA-ATAGTAATTTGAGATTAATATAAAA
* ** *
755996 TATTTTTTAAAATTTTTTTAACATAGTAATTTAAGGATTCCTATAAAC
1 TATTTTTT-AAATTTTTTTAA-ATAGTAATTTGA-GATTAATATAAAA
756044 TATTTTTTTATAATTTTT
1 TA-TTTTTTA-AATTTTT
756062 ATTATTTGTA
Statistics
Matches: 93, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
44 5 0.05
45 22 0.24
46 20 0.22
47 20 0.22
48 13 0.14
49 13 0.14
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (45 bp):
TATTTTTTAAATTTTTTTAAATAGTAATTTGAGATTAATATAAAA
Found at i:756062 original size:47 final size:46
Alignment explanation
Indices: 755908--756062 Score: 131
Period size: 47 Copynumber: 3.3 Consensus size: 46
755898 AATATGTTTA
* * *
755908 TTTTTTATTATTTTTAA-ATAGTAA-TTAGAAATTTGATATAAAATAT
1 TTTTTTATAATTTTTAACATAGTAATTTA-AGA-TTAATATAAAATAT
* * *
755954 ATTTTTAT--TTTTTAAATATAGTAATTTGAGATTAATATAAAATA-
1 TTTTTTATAATTTTT-AACATAGTAATTTAAGATTAATATAAAATAT
* ** *
755998 TTTTTTAAAATTTTTTTAACATAGTAATTTAAGGATTCCTATAAACTAT
1 TTTTTTATAA--TTTTTAACATAGTAATTTAA-GATTAATATAAAATAT
756047 TTTTTTATAATTTTTA
1 TTTTTTATAATTTTTA
756063 TTATTTGTAA
Statistics
Matches: 88, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
44 11 0.12
45 14 0.16
46 16 0.18
47 21 0.24
48 17 0.19
49 9 0.10
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (46 bp):
TTTTTTATAATTTTTAACATAGTAATTTAAGATTAATATAAAATAT
Found at i:756141 original size:54 final size:51
Alignment explanation
Indices: 756048--756177 Score: 147
Period size: 54 Copynumber: 2.5 Consensus size: 51
756038 ATAAACTATT
* * *
756048 TTTTTATAA-TTTTTATTATTTGTAAATAGCCATTCGAGATTTAGTATAAAATA
1 TTTTTAAAATTTTTTATTATTT-TTAATAGCAATTCGAGATTTA-TAT-AAATA
* *
756101 TTTCTTAAAATTTTTTATTATTTTTAATAGTAATTTGAGATTTATATAAATA
1 TTT-TTAAAATTTTTTATTATTTTTAATAGCAATTCGAGATTTATATAAATA
* *
756153 TTTTTATAATTTTTT-CTATTTTTAA
1 TTTTTAAAATTTTTTATTATTTTTAA
756178 ACAAATACCT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
50 9 0.13
51 11 0.16
52 8 0.12
53 6 0.09
54 22 0.32
55 12 0.18
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (51 bp):
TTTTTAAAATTTTTTATTATTTTTAATAGCAATTCGAGATTTATATAAATA
Found at i:756191 original size:52 final size:52
Alignment explanation
Indices: 756083--756183 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 52
756073 ATAGCCATTC
* **
756083 GAGATTTAGTATAAAATATTTCTTAAAATTTTTTATTATTTTTAATAGTAATTT
1 GAGATTTAGTAT-AAATATTT-TTAAAATTTTTTACTATTTTTAATACAAATTT
*
756137 GAGATTTA-TATAAATATTTTTATAATTTTTT-CTATTTTTAA-ACAAAT
1 GAGATTTAGTATAAATATTTTTAAAATTTTTTACTATTTTTAATACAAAT
756184 ACCTTGAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
49 4 0.09
50 9 0.21
51 11 0.26
52 8 0.19
53 3 0.07
54 8 0.19
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (52 bp):
GAGATTTAGTATAAATATTTTTAAAATTTTTTACTATTTTTAATACAAATTT
Found at i:757952 original size:13 final size:13
Alignment explanation
Indices: 757934--757960 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
757924 AGCCGTTATC
757934 ATGTATCGATACA
1 ATGTATCGATACA
757947 ATGTATCGATACA
1 ATGTATCGATACA
757960 A
1 A
757961 ACAGTGGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:762071 original size:20 final size:20
Alignment explanation
Indices: 762046--762102 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
762036 TACTGCCAGT
762046 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACATTTG
* *
762066 TTCATGTATTGATACA-ATG
1 TTCATGTATCGATACATTTG
**
762085 AACATGTATCGATACATT
1 TTCATGTATCGATACATT
762103 GTATCGATAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (20 bp):
TTCATGTATCGATACATTTG
Found at i:762107 original size:13 final size:13
Alignment explanation
Indices: 762089--762113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
762079 ACAATGAACA
762089 TGTATCGATACAT
1 TGTATCGATACAT
762102 TGTATCGATACA
1 TGTATCGATACA
762114 AAGCATAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:764140 original size:20 final size:20
Alignment explanation
Indices: 764115--764156 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
764105 TGGAACCTAC
* *
764115 CCAGTTGCGACCTGGGTGTG
1 CCAGTTGCAACATGGGTGTG
764135 CCAGTTGCAACATGGGTGTG
1 CCAGTTGCAACATGGGTGTG
764155 CC
1 CC
764157 GGTCGTGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.26, G:0.36, T:0.24
Consensus pattern (20 bp):
CCAGTTGCAACATGGGTGTG
Found at i:764625 original size:13 final size:13
Alignment explanation
Indices: 764607--764633 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
764597 TAGTAACCCA
764607 TGTATCGATACAT
1 TGTATCGATACAT
764620 TGTATCGATACAT
1 TGTATCGATACAT
764633 T
1 T
764634 TGGGTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:777328 original size:33 final size:33
Alignment explanation
Indices: 777285--777347 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
777275 TATACCTAGA
777285 TGTATCGATACAAATTG-TTAAGTATCGATACAT
1 TGTATCGATACAAATTGCTT-AGTATCGATACAT
* * *
777318 TGTATTGATACAAGTTGCTTTGTATCGATA
1 TGTATCGATACAAATTGCTTAGTATCGATA
777348 TATTATGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (33 bp):
TGTATCGATACAAATTGCTTAGTATCGATACAT
Found at i:777462 original size:20 final size:20
Alignment explanation
Indices: 777417--777473 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
777407 CAACCTTGTG
* *
777417 ATTGTATTGATACATGTTTAA
1 ATTGTATCGATACAT-TATAA
*
777438 ATTGTATCGATACATTATGA
1 ATTGTATCGATACATTATAA
777458 ATTGTATCGATACATT
1 ATTGTATCGATACATT
777474 TGGCCTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (20 bp):
ATTGTATCGATACATTATAA
Found at i:778360 original size:29 final size:30
Alignment explanation
Indices: 778275--778360 Score: 74
Period size: 29 Copynumber: 2.9 Consensus size: 30
778265 GCATAGAAGT
* *
778275 CCCTAAAACATGGCAAATAACTTAAAATGAG
1 CCCTAAAACATGTCAAATTAC-TAAAATGAG
*
778306 -CCT-AAA-ATGCTTGAAATTAC-ATAAATG-G
1 CCCTAAAACATG--TCAAATTACTA-AAATGAG
778334 CCCTAAAACATGTCAAATTACTAAAAT
1 CCCTAAAACATGTCAAATTACTAAAAT
778361 AACATTCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
28 5 0.11
29 23 0.52
30 13 0.30
31 3 0.07
ACGTcount: A:0.47, C:0.19, G:0.10, T:0.24
Consensus pattern (30 bp):
CCCTAAAACATGTCAAATTACTAAAATGAG
Found at i:778380 original size:29 final size:28
Alignment explanation
Indices: 778348--778439 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 28
778338 AAAACATGTC
*
778348 AAATTACTAAAATAACATTCAAATGCATG
1 AAATTACTAAAATAAC-TTCAAATACATG
* *
778377 AAATTA-TATAAGTAACCTCAAA-ACATG
1 AAATTACTA-AAATAACTTCAAATACATG
* *
778404 ACAAATTACTAAAATGACCTTAAAATACATG
1 --AAATTACTAAAAT-AACTTCAAATACATG
778435 AAATT
1 AAATT
778440 GCATAAATGG
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
27 4 0.08
28 7 0.14
29 26 0.52
30 8 0.16
31 5 0.10
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.27
Consensus pattern (28 bp):
AAATTACTAAAATAACTTCAAATACATG
Found at i:778380 original size:58 final size:58
Alignment explanation
Indices: 778249--778611 Score: 265
Period size: 58 Copynumber: 6.3 Consensus size: 58
778239 AAAATAGTTT
* * * * *
778249 TAAAATGCATGAAACTGCATAGAA-GTCCCTAAAACATGGCAAATAACTTAAAATGAGCC
1 TAAAATGCATGAAATTGCATA-AATGGCCCTAAAACATGTCAAATTAC-TAAAATGAACC
* * *
778308 TAAAATGCTTGAAATTACATAAATGGCCCTAAAACATGTCAAATTACTAAAAT-AACAT
1 TAAAATGCATGAAATTGCATAAATGGCCCTAAAACATGTCAAATTACTAAAATGAAC-C
* ** * ** *
778366 TCAAATGCATGAAATTATATAAGT-AACCTCAAAACATGACAAATTACTAAAATG-ACC
1 TAAAATGCATGAAATTGCATAAATGGCCCT-AAAACATGTCAAATTACTAAAATGAACC
* * * * * * *
778423 TTAAAATACATGAAATTGCATAAATGGTCTTAAACCATGGT-AAAATGCTAAAATGATCC
1 -TAAAATGCATGAAATTGCATAAATGGCCCTAAAACAT-GTCAAATTACTAAAATGAACC
* * * **
778482 TAAAATGCATGAAATTGCATAAATGGTCCTAAAACATGTCAAATGAGTAAAATG-ATG
1 TAAAATGCATGAAATTGCATAAATGGCCCTAAAACATGTCAAATTACTAAAATGAACC
* * * ** * ***
778539 AAAAATGCATGAAATTACATTATAAT--CCCTAAATCATGGAAAATGACTAAAATGGTGC
1 TAAAATGCATGAAATTGCA-TA-AATGGCCCTAAAACATGTCAAATTACTAAAATGAACC
*
778597 TAAAATGTATGAAAT
1 TAAAATGCATGAAAT
778612 GAAAAAAAAA
Statistics
Matches: 241, Mismatches: 51, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
57 47 0.20
58 148 0.61
59 46 0.19
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (58 bp):
TAAAATGCATGAAATTGCATAAATGGCCCTAAAACATGTCAAATTACTAAAATGAACC
Found at i:778511 original size:29 final size:29
Alignment explanation
Indices: 778424--778515 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
778414 AAAATGACCT
778424 TAAAATACATGAAATTGCATAAATGGT-C
1 TAAAATACATGAAATTGCATAAATGGTCC
* * * *
778452 TTAAA-CCATGGTAAAATGC-TAAAATGATCC
1 TAAAATACAT-G-AAATTGCAT-AAATGGTCC
*
778482 TAAAATGCATGAAATTGCATAAATGGTCC
1 TAAAATACATGAAATTGCATAAATGGTCC
778511 TAAAA
1 TAAAA
778516 CATGTCAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
27 3 0.06
28 6 0.12
29 31 0.62
30 7 0.14
31 3 0.06
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (29 bp):
TAAAATACATGAAATTGCATAAATGGTCC
Found at i:778525 original size:29 final size:28
Alignment explanation
Indices: 778430--778525 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 28
778420 ACCTTAAAAT
*
778430 ACATG-AAATTGCATAAATGGTCTTAAA
1 ACATGTAAATTGCATAAATGGTCCTAAA
* * *
778457 CCATGGTAAAATGC-TAAAATGATCCTAAA
1 ACAT-GTAAATTGCAT-AAATGGTCCTAAA
778486 ATGCATG-AAATTGCATAAATGGTCCTAAA
1 A--CATGTAAATTGCATAAATGGTCCTAAA
778515 ACATGTCAAAT
1 ACATGT-AAAT
778526 GAGTAAAATG
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
27 7 0.13
28 2 0.04
29 40 0.74
30 2 0.04
31 3 0.06
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (28 bp):
ACATGTAAATTGCATAAATGGTCCTAAA
Found at i:778674 original size:15 final size:15
Alignment explanation
Indices: 778654--778683 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
778644 TTAAACTTCT
778654 AAATGCATGAAATGA
1 AAATGCATGAAATGA
778669 AAATGCATGAAATGA
1 AAATGCATGAAATGA
778684 CATAATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (15 bp):
AAATGCATGAAATGA
Found at i:779220 original size:20 final size:20
Alignment explanation
Indices: 779195--779248 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
779185 CTACCACTGT
*
779195 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
779215 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
779235 TTGTATCGATACAT
1 TTGTATCGATACAT
779249 TGCTTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:786977 original size:25 final size:26
Alignment explanation
Indices: 786943--786997 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
786933 TGATGGATTG
786943 ACTCGATGGATGCTCGACTCTCCCA-
1 ACTCGATGGATGCTCGACTCTCCCAT
786968 ACTCGATGGATGCTCGACTCTCCCAT
1 ACTCGATGGATGCTCGACTCTCCCAT
786994 ACTC
1 ACTC
786998 CGACTAACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.20, C:0.36, G:0.18, T:0.25
Consensus pattern (26 bp):
ACTCGATGGATGCTCGACTCTCCCAT
Found at i:787897 original size:13 final size:13
Alignment explanation
Indices: 787879--787905 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
787869 ACATTATGCT
787879 TTGTATCGATACA
1 TTGTATCGATACA
787892 TTGTATCGATACA
1 TTGTATCGATACA
787905 T
1 T
787906 GGACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:787980 original size:20 final size:20
Alignment explanation
Indices: 787955--788028 Score: 123
Period size: 20 Copynumber: 3.7 Consensus size: 20
787945 CTACCACTGT
787955 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGGTACA
787975 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGGTACA
*
787995 TTGTATCGATACATGATGA-A
1 TTGTATCGATACATGGT-ACA
788015 TTGTATCGATACAT
1 TTGTATCGATACAT
788029 TGCTTGTAAC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
20 51 0.98
21 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (20 bp):
TTGTATCGATACATGGTACA
Found at i:789359 original size:17 final size:19
Alignment explanation
Indices: 789337--789378 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
789327 AACATTCTCC
789337 TTTTTTATTTATTTT-T-G
1 TTTTTTATTTATTTTCTAG
* *
789354 TTTTTTTTTTCTTTTCTAG
1 TTTTTTATTTATTTTCTAG
789373 TTTTTT
1 TTTTTT
789379 CTATTGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 13 0.62
18 1 0.05
19 7 0.33
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.83
Consensus pattern (19 bp):
TTTTTTATTTATTTTCTAG
Found at i:791613 original size:19 final size:17
Alignment explanation
Indices: 791587--791632 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
791577 TTTATTTATT
791587 AATTATTAATAATAATATA
1 AATTATTAATAA-AAT-TA
*
791606 ATTTATTAATAAAATTA
1 AATTATTAATAAAATTA
791623 AATTATTAAT
1 AATTATTAAT
791633 TTTAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.44
18 3 0.12
19 11 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTATTAATAAAATTA
Found at i:792224 original size:15 final size:15
Alignment explanation
Indices: 792190--792223 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
792180 TAATATTCTA
*
792190 TTTTTGTTTTCAATT
1 TTTTTCTTTTCAATT
792205 TTTTTCTTTT-AATT
1 TTTTTCTTTTCAATT
792219 TTTTT
1 TTTTT
792224 TTAGAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTTCTTTTCAATT
Found at i:795389 original size:2 final size:2
Alignment explanation
Indices: 795384--795415 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
795374 ATCTGATCAA
795384 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
795416 AGAGAGAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:795420 original size:2 final size:2
Alignment explanation
Indices: 795415--795442 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
795405 GTGTGTGTGT
795415 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
795443 CCTTTGTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:796885 original size:20 final size:20
Alignment explanation
Indices: 796860--796899 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
796850 ATAATAAAAA
796860 AAATAAAAGACACTTACCTT
1 AAATAAAAGACACTTACCTT
796880 AAATAAAAGACACTTACCTT
1 AAATAAAAGACACTTACCTT
796900 TTAAGGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (20 bp):
AAATAAAAGACACTTACCTT
Found at i:804462 original size:34 final size:34
Alignment explanation
Indices: 804424--804488 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
804414 AAAAATCATT
*
804424 AAATGTCCTAAAAAAAAGCTTTTAAAATCTTAAA
1 AAATGTCCTAAAAAAAAGCTTTGAAAATCTTAAA
* * * *
804458 AAATGTTCTCAAAAGAGGCTTTGAAAATCTT
1 AAATGTCCTAAAAAAAAGCTTTGAAAATCTT
804489 TGATGAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (34 bp):
AAATGTCCTAAAAAAAAGCTTTGAAAATCTTAAA
Found at i:804594 original size:103 final size:102
Alignment explanation
Indices: 804443--804726 Score: 285
Period size: 103 Copynumber: 2.7 Consensus size: 102
804433 AAAAAAAAGC
* * *
804443 TTTTAAAATCT-TAAAAAATGTTC-TCAAAAGAGGCTTTGAAAATCTTTGATGAAATATCCTCAA
1 TTTTAAAATTTCTAAAAAATG-TCATCAAGAGAGGCTTTAAAAATCTTTGA--AAATATCCTCAA
**
804506 GAAAGACTTTTGAAAAC-TGTT-AAATGTTTTTAAGAGAGGT
63 GAAAGA-TTTT-AAAACTTGTTAAAATGTTTGCAAGAGAGGT
* * *
804546 TTTTGAAAA-TTCTAAAAAATGTCATCAAGAGAGGCTTT-AAAATCTTTGAAAATTTTCTTTAAG
1 TTTT-AAAATTTCTAAAAAATGTCATCAAGAGAGGCTTTAAAAATCTTTGAAAA-TATCCTCAAG
* * *
804609 AAA-ATCTTAAAACTTTTTGAAAAATGTTTGCAATAGAGGT
64 AAAGATTTTAAAACTTGTT--AAAATGTTTGCAAGAGAGGT
* * * *
804649 TTTTAAAATTTTTGAAAAATGTCATCAAGAGAGGCTTTAAAAATTTTTGAAAAATACCCTCAAGA
1 TTTTAAAATTTCTAAAAAATGTCATCAAGAGAGGCTTTAAAAATCTTTG-AAAATATCCTCAAGA
804714 AAGATTTTTAAAA
65 AAGA-TTTTAAAA
804727 TCTCTAAAAA
Statistics
Matches: 150, Mismatches: 18, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
99 5 0.03
100 6 0.04
101 4 0.03
102 14 0.09
103 65 0.43
104 44 0.29
105 5 0.03
106 7 0.05
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.36
Consensus pattern (102 bp):
TTTTAAAATTTCTAAAAAATGTCATCAAGAGAGGCTTTAAAAATCTTTGAAAATATCCTCAAGAA
AGATTTTAAAACTTGTTAAAATGTTTGCAAGAGAGGT
Found at i:804661 original size:35 final size:35
Alignment explanation
Indices: 804615--804703 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
804605 TAAGAAAATC
* * *
804615 TTAAAACTTTTTGAAAAATGT-TTGCAATAGAGGTTT
1 TTAAAA-TTTTTGAAAAATGTCAT-CAAGAGAGGCTT
804651 TTAAAATTTTTGAAAAATGTCATCAAGAGAGGCTT
1 TTAAAATTTTTGAAAAATGTCATCAAGAGAGGCTT
*
804686 TAAAAATTTTTGAAAAAT
1 TTAAAATTTTTGAAAAAT
804704 ACCCTCAAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
35 41 0.85
36 7 0.15
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (35 bp):
TTAAAATTTTTGAAAAATGTCATCAAGAGAGGCTT
Found at i:804727 original size:35 final size:35
Alignment explanation
Indices: 804648--804727 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
804638 GCAATAGAGG
** * *
804648 TTTTTAAAATTTTTGAAAAATGTCATCAAGAGAGG
1 TTTTTAAAATTTTTGAAAAATACCATCAAGAAAGA
* * *
804683 CTTTAAAAATTTTTGAAAAATACCCTCAAGAAAGA
1 TTTTTAAAATTTTTGAAAAATACCATCAAGAAAGA
804718 TTTTTAAAAT
1 TTTTTAAAAT
804728 CTCTAAAAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (35 bp):
TTTTTAAAATTTTTGAAAAATACCATCAAGAAAGA
Found at i:804737 original size:35 final size:34
Alignment explanation
Indices: 804684--804774 Score: 83
Period size: 35 Copynumber: 2.6 Consensus size: 34
804674 CAAGAGAGGC
* * *
804684 TTTAAAAATTTTTGAAAAATACCCTCAAGAAAGAT
1 TTTAAAAATCTCTAAAAAATACCCTCAA-AAAGAT
* **** *
804719 TTTTAAAATCTCTAAAAAATGTTTTTCAAAAAGGT
1 TTTAAAAATCTCTAAAAAAT-ACCCTCAAAAAGAT
804754 TTTAAAAATCTCTAAAAAATA
1 TTTAAAAATCTCTAAAAAATA
804775 TCCTGAGTAG
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
35 40 0.91
36 4 0.09
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (34 bp):
TTTAAAAATCTCTAAAAAATACCCTCAAAAAGAT
Found at i:805354 original size:20 final size:20
Alignment explanation
Indices: 805331--805403 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
805321 ACAATTCAAA
805331 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*****
805351 GTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCA-AT
805372 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
805392 GTATCGATACAT
1 GTATCGATACAT
805404 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:805375 original size:21 final size:21
Alignment explanation
Indices: 805349--805424 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
805339 ACATGTTGCA
805349 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
*****
805370 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATAAAAAAG
805390 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
805411 ATGTATCGATACAT
1 ATGTATCGATACAT
805425 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATAAAAAAG
Found at i:805382 original size:41 final size:41
Alignment explanation
Indices: 805331--805424 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
805321 ACAATTCAAA
805331 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
805372 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
805413 GTATCGATACAT
1 GTATCGATACAT
805425 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:805481 original size:13 final size:13
Alignment explanation
Indices: 805463--805488 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
805453 TACAGCAAGT
805463 ATGTATCGATACA
1 ATGTATCGATACA
805476 ATGTATCGATACA
1 ATGTATCGATACA
805489 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:809571 original size:15 final size:15
Alignment explanation
Indices: 809551--809589 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
809541 TAAAGATGTC
*
809551 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
809566 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
809581 CCAAATGAA
1 CAAAATGAA
809590 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:811674 original size:20 final size:21
Alignment explanation
Indices: 811596--811673 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
811586 ATGTCCAAAA
*
811596 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
811616 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
811640 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
811661 TGTATCGATACAT
1 TGTATCGATACAT
811674 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:811678 original size:13 final size:13
Alignment explanation
Indices: 811660--811698 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
811650 ACATTTTTTG
811660 TTGTATCGATACA
1 TTGTATCGATACA
811673 TTGTATCGATACA
1 TTGTATCGATACA
*
811686 CTGTATCGATACA
1 TTGTATCGATACA
811699 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:814159 original size:20 final size:20
Alignment explanation
Indices: 814136--814208 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
814126 ACAATTCAAA
814136 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*****
814156 GTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCA-AT
814177 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
814197 GTATCGATACAT
1 GTATCGATACAT
814209 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:814180 original size:21 final size:21
Alignment explanation
Indices: 814154--814229 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
814144 ACATGTTGCA
814154 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
*****
814175 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATAAAAAAG
814195 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
814216 ATGTATCGATACAT
1 ATGTATCGATACAT
814230 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATAAAAAAG
Found at i:814187 original size:41 final size:41
Alignment explanation
Indices: 814136--814229 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
814126 ACAATTCAAA
814136 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
814177 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
814218 GTATCGATACAT
1 GTATCGATACAT
814230 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:814286 original size:13 final size:13
Alignment explanation
Indices: 814268--814293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
814258 TACAGCAAGT
814268 ATGTATCGATACA
1 ATGTATCGATACA
814281 ATGTATCGATACA
1 ATGTATCGATACA
814294 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:818958 original size:13 final size:13
Alignment explanation
Indices: 818940--818965 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
818930 GCATGTATCG
818940 ATGTATCGATACA
1 ATGTATCGATACA
818953 ATGTATCGATACA
1 ATGTATCGATACA
818966 TTTGAGTAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:819043 original size:33 final size:33
Alignment explanation
Indices: 819006--819072 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
818996 AGTAGCTTAA
819006 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
819039 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
819072 A
1 A
819073 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:819046 original size:13 final size:13
Alignment explanation
Indices: 819028--819052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
819018 CAAAAAAATA
819028 TGTATCGATACAT
1 TGTATCGATACAT
819041 TGTATCGATACA
1 TGTATCGATACA
819053 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:820124 original size:43 final size:43
Alignment explanation
Indices: 820066--820365 Score: 330
Period size: 43 Copynumber: 6.6 Consensus size: 43
820056 AGATGGAAAG
*
820066 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 GGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* *
820109 GGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAA
1 GGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-----A-AA
*
820158 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 GGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* * *
820201 GGTGCCAATGTGCTGATTCGAGGCCAGCTACATTGGGCTTAAAGA
1 GGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A
* *
820246 TGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 -G--G-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* * *
820293 GGTGCCAATGTGCGGATTTAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT----A--AA
820342 GGTGCCAATATGCTGATTCAAGGC
1 GGTGCCAATATGCTGATTCAAGGC
820366 TAGCGATATT
Statistics
Matches: 216, Mismatches: 23, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
43 108 0.50
44 4 0.02
45 1 0.00
46 2 0.01
47 2 0.01
48 4 0.02
49 95 0.44
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
GGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
Found at i:820199 original size:92 final size:92
Alignment explanation
Indices: 820010--820387 Score: 594
Period size: 92 Copynumber: 4.1 Consensus size: 92
820000 GAGATGAGAA
* *
820010 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AA-GGTGCCAAT
*
820075 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
820106 AAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
820171 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
820198 AAAGGTGCCAATGTGCTGATTCGAGGCCAGCTACATTGGGCTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
820263 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
820290 AAAGGTGCCAATGTGCGGATTTAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
820355 TGATTCAAGGCTAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
820382 AGAAGG
1 A-AAGG
820388 GTTGCCACCG
Statistics
Matches: 266, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
92 212 0.80
93 6 0.02
94 1 0.00
95 42 0.16
96 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:820491 original size:33 final size:33
Alignment explanation
Indices: 820382--820543 Score: 278
Period size: 33 Copynumber: 5.0 Consensus size: 33
820372 TATTGGGCTT
*
820382 AGAAGGGTTGCCACCGACTTGTGCGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
820415 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT--
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
820445 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
820477 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
820510 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
820543 A
1 A
820544 AGGGTGAAAG
Statistics
Matches: 122, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
30 28 0.23
31 1 0.01
32 31 0.25
33 62 0.51
ACGTcount: A:0.19, C:0.19, G:0.35, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:820497 original size:63 final size:63
Alignment explanation
Indices: 820375--820548 Score: 282
Period size: 62 Copynumber: 2.8 Consensus size: 63
820365 CTAGCGATAT
* *
820375 TGGGC-TTAGAAGGGTTGCCACCGACTTGTGCGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCAACTTGTG
820437 TGGGCTTTAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG-AGGGTTGCCACCAACTTGTG
820500 TGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA-AGGGT
1 TGGGCTTT--AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGT
820549 GAAAGATGCC
Statistics
Matches: 105, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
62 34 0.32
63 33 0.31
64 5 0.05
65 4 0.04
66 29 0.28
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (63 bp):
TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCAACTTGTG
Found at i:820634 original size:36 final size:35
Alignment explanation
Indices: 820550--821070 Score: 505
Period size: 36 Copynumber: 15.6 Consensus size: 35
820540 TAGAAGGGTG
* *
820550 AAAGA-TGCCATGAAGTTGTGGAC-TTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
* *
820583 CAAG-GTGCCACAGAGTTGTGGACTTTAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAA-GGAA
* *
820618 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAA-GGAA
*
820654 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGACTTT-AAAAGGAA
*
820687 -AAG-GTGCCACGGAGTCGTGGAC-TTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
* * *
820719 CAAG-GTGCCACGGGGTTGTGGACTTTAAAAGGGGA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAA-GGAA
*
820754 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
* *
820786 ---G-GTGCCACAGAGTTGTGGAC-TTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
820816 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAA-GGAA
*
820852 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGACTTT-AAAAGGAA
* *
820885 -AAG-GTGCCACGGAGTCGTGGAC-TTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
*
820917 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGACTTT-AAAAGGAA
* *
820950 -AAG-GTGCCACGGAGTCGTGGAC-TTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
* * * *
820982 AAAGAGTGCCACGGAGTTATGGGC-CTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
* *
821016 AAAG-GTGCCATGGAGTTGTGGAC-TTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
*
821049 AAAGAGTGCCCCGGAGTTGTGG
1 AAAGAGTGCCACGGAGTTGTGG
821071 GCTTAATCGG
Statistics
Matches: 409, Mismatches: 44, Indels: 69
0.78 0.08 0.13
Matches are distributed among these distances:
27 5 0.01
28 18 0.04
29 11 0.03
30 9 0.02
31 51 0.12
32 9 0.02
33 72 0.18
34 90 0.22
35 23 0.06
36 113 0.28
37 8 0.02
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.19
Consensus pattern (35 bp):
AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
Found at i:820833 original size:62 final size:64
Alignment explanation
Indices: 820722--820849 Score: 197
Period size: 62 Copynumber: 2.0 Consensus size: 64
820712 AAAGGAACAA
* * * *
820722 GGTGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
*
820786 GGTGCCACAGAGTTGTGGAC-TTAGAA-GGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
820848 GG
1 GG
820850 AAAAAGAGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 36 0.61
63 5 0.08
64 18 0.31
ACGTcount: A:0.29, C:0.12, G:0.38, T:0.21
Consensus pattern (64 bp):
GGTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
Found at i:820845 original size:198 final size:195
Alignment explanation
Indices: 820586--821074 Score: 648
Period size: 198 Copynumber: 2.5 Consensus size: 195
820576 AAAGGAACAA
* *
820586 GGTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGG
1 GGTGCCACAGAGTTGTGGAC-TTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGG
820651 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
64 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
* * * *
820716 GAACAAG-GTGCCACGGGGTTGTGGACTTT-AAAAGGGGAAAAGAGTGCCACGGAGTTGTGGGCT
129 GAAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAA---G--AAG-GTGCCACGGAGTCGTGGACT
*
820779 T-TAAAAG
188 TAAAAAAG
*
820786 GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGGA
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGGA
*
820851 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAGAAGGA
66 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGA
*
820916 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAGAAGGA
131 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTT---A--A
820981 AAAAG
191 AAAAG
* * * * * * * *
820986 AGTGCCACGGAGTTATGGGCCTAAAAAGAAAAAG-GTGCCATGGAGTTGTGGAC-TTAGAA-GGA
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGGA
*
821048 AAAAGAGTGCCCCGGAGTTGTGGGCTT
66 AAAAGAGTGCCACGGAGTTGTGGGCTT
821075 AATCGGGTGC
Statistics
Matches: 261, Mismatches: 20, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
194 19 0.07
195 3 0.01
197 30 0.11
198 110 0.42
199 43 0.16
200 56 0.21
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.19
Consensus pattern (195 bp):
GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGGA
AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGA
AAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAAAG
Found at i:821126 original size:30 final size:29
Alignment explanation
Indices: 821092--821163 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
821082 TGCCACGGAG
821092 TTGTGGGCTTTGGA-AAGAGATGCCACTAAA
1 TTGTGGGCTTTGGACAA-A-ATGCCACTAAA
* *
821122 TTGTGGACTTTAGGACAAAATGCCACTGAA
1 TTGTGGGCTTT-GGACAAAATGCCACTAAA
*
821152 TCGTGGGCTTTG
1 TTGTGGGCTTTG
821164 AGAAGAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 1 0.03
30 29 0.81
31 4 0.11
32 2 0.06
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (29 bp):
TTGTGGGCTTTGGACAAAATGCCACTAAA
Found at i:821178 original size:94 final size:95
Alignment explanation
Indices: 821080--821263 Score: 223
Period size: 94 Copynumber: 1.9 Consensus size: 95
821070 GGCTTAATCG
* * *
821080 GGTGCCACGGAGTTGTGGGCTTT-GGA-AAGAGATGCCACTAAATT-GTGGACTTT-AGGACAAA
1 GGTGCCACGGAGTCGTGGACTTTAGGACAA-A-ATGCCACT-AATTCGTGGACTTTGAGAACAAA
* *
821141 ATGCCACTGAATCGTGGGCTTTGAGAAGAAAAA
63 ATGCCACTGAATCGTGGACTTTAAGAAGAAAAA
* * * *
821174 GGTGCCACGGAGTCGTGGACTTTAGGACAAAATGCCACTGATTCGTGGGCTTTGAGAAGAAATTG
1 GGTGCCACGGAGTCGTGGACTTTAGGACAAAATGCCACTAATTCGTGGACTTTGAGAACAAAATG
*
821239 CCACTGAGTCGTGGACTTTAAGAAG
66 CCACTGAATCGTGGACTTTAAGAAG
821264 GTATTTGAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
93 3 0.04
94 37 0.49
95 34 0.45
96 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (95 bp):
GGTGCCACGGAGTCGTGGACTTTAGGACAAAATGCCACTAATTCGTGGACTTTGAGAACAAAATG
CCACTGAATCGTGGACTTTAAGAAGAAAAA
Found at i:821197 original size:64 final size:61
Alignment explanation
Indices: 821124--821258 Score: 216
Period size: 64 Copynumber: 2.2 Consensus size: 61
821114 CCACTAAATT
821124 GTGGACTTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTC
1 GTGGACTTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAG--AAA-GTGCCACGGAGTC
* * *
821188 GTGGACTTTAGGACAAAATGCCACTGATTCGTGGGCTTTGAGAAGAAATTGCCACTGAGTC
1 GTGGACTTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAAAGTGCCACGGAGTC
821249 GTGGACTTTA
1 GTGGACTTTA
821259 AGAAGGTATT
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
61 21 0.31
62 3 0.04
64 44 0.65
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (61 bp):
GTGGACTTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAAAGTGCCACGGAGTC
Found at i:821242 original size:31 final size:31
Alignment explanation
Indices: 821124--821263 Score: 140
Period size: 31 Copynumber: 4.5 Consensus size: 31
821114 CCACTAAATT
* * *
821124 GTGGACTTT-AGGACAAAATGCCACTGAATC
1 GTGGACTTTGAGAAGAAAATGCCACTGAGTC
* *
821154 GTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTC
1 GTGGACTTTGAGAAG-AAAA--TGCCACTGAGTC
* * *
821188 GTGGACTTT-AGGACAAAATGCCACTGATTC
1 GTGGACTTTGAGAAGAAAATGCCACTGAGTC
* *
821218 GTGGGCTTTGAGAAGAAATTGCCACTGAGTC
1 GTGGACTTTGAGAAGAAAATGCCACTGAGTC
*
821249 GTGGACTTTAAGAAG
1 GTGGACTTTGAGAAG
821264 GTATTTGAAG
Statistics
Matches: 88, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
30 26 0.30
31 33 0.38
32 8 0.09
33 3 0.03
34 18 0.20
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (31 bp):
GTGGACTTTGAGAAGAAAATGCCACTGAGTC
Found at i:822260 original size:28 final size:26
Alignment explanation
Indices: 822202--822267 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 26
822192 TTTTCCTTTC
822202 TCTTTTTTTTTGTTTGTTTGTTTCTT
1 TCTTTTTTTTTGTTTGTTTGTTTCTT
* *
822228 CCTTTTTTTTTGCCTTT-TTTGTTTTGTT
1 TCTTTTTTTTTG--TTTGTTTG-TTTCTT
822256 TCTTTTTTTTTG
1 TCTTTTTTTTTG
822268 GAAAAGAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.32
27 4 0.12
28 19 0.56
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.79
Consensus pattern (26 bp):
TCTTTTTTTTTGTTTGTTTGTTTCTT
Found at i:822533 original size:16 final size:15
Alignment explanation
Indices: 822514--822562 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
822504 ATTTTTTCTG
822514 TGTGTGTGTTTTTTTT
1 TGTGTGT-TTTTTTTT
822530 TGTGT-TTCTTTTTTT
1 TGTGTGTT-TTTTTTT
822545 T-TG-GTTTTTTTTT
1 TGTGTGTTTTTTTTT
822558 TGTGT
1 TGTGT
822563 TTACTTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 8 0.28
14 7 0.24
15 9 0.31
16 5 0.17
ACGTcount: A:0.00, C:0.02, G:0.20, T:0.78
Consensus pattern (15 bp):
TGTGTGTTTTTTTTT
Found at i:822535 original size:12 final size:13
Alignment explanation
Indices: 822516--822564 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 13
822506 TTTTTCTGTG
822516 TGTGTGTTTTTTTT
1 TGTGT-TTTTTTTT
822530 TGTGTTTCTTTTTT
1 TGTGTTT-TTTTTT
*
822544 TTTGGTTTTTTTTT
1 TGT-GTTTTTTTTT
822558 TGTGTTT
1 TGTGTTT
822565 ACTTTTGACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 6 0.19
14 21 0.68
15 4 0.13
ACGTcount: A:0.00, C:0.02, G:0.18, T:0.80
Consensus pattern (13 bp):
TGTGTTTTTTTTT
Found at i:822541 original size:14 final size:14
Alignment explanation
Indices: 822524--822570 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
822514 TGTGTGTGTT
822524 TTTTTTTGTGTTTC
1 TTTTTTTGTGTTTC
*
822538 TTTTTTTTTGGTTT-
1 TTTTTTTGT-GTTTC
822552 TTTTTTTGTGTTTAC
1 TTTTTTTGTGTTT-C
822567 TTTT
1 TTTT
822571 GACTTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 4 0.14
14 16 0.57
15 8 0.29
ACGTcount: A:0.02, C:0.04, G:0.13, T:0.81
Consensus pattern (14 bp):
TTTTTTTGTGTTTC
Found at i:863217 original size:20 final size:21
Alignment explanation
Indices: 863192--863245 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
863182 TTGAAAAAAT
*
863192 TGTATCGATATATGCATG-AA
1 TGTATCGATACATGCATGCAA
*
863212 TGTATCGATACATGCTTGCAA
1 TGTATCGATACATGCATGCAA
*
863233 TGTATTGATACAT
1 TGTATCGATACAT
863246 TTTTTAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (21 bp):
TGTATCGATACATGCATGCAA
Found at i:864171 original size:20 final size:21
Alignment explanation
Indices: 864146--864184 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
864136 TCTTAATAGC
864146 CCATGTAC-ATGCATTTTATG
1 CCATGTACTATGCATTTTATG
*
864166 CCATGTTCTATGCATTTTA
1 CCATGTACTATGCATTTTA
864185 ACATGTCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (21 bp):
CCATGTACTATGCATTTTATG
Found at i:873761 original size:26 final size:24
Alignment explanation
Indices: 873710--873756 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
873700 TTGCACAACA
873710 CATTTTTTAGATCCTATATGGGAT
1 CATTTTTTAGATCCTATATGGGAT
873734 CATTTTTTAGA-CCTTATATGGGA
1 CATTTTTTAGATCC-TATATGGGA
873757 CATCAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (24 bp):
CATTTTTTAGATCCTATATGGGAT
Found at i:879671 original size:33 final size:33
Alignment explanation
Indices: 879634--879725 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 33
879624 TGTTAAGTAC
* *
879634 GCTTATTTATTATGGATATGTTTTTGTGGATAT
1 GCTTATTTATTATGGATATGTTATTCTGGATAT
**
879667 GCTTATTTATTATATATATGTTATTCTGGATAT
1 GCTTATTTATTATGGATATGTTATTCTGGATAT
879700 G-TGTATTTATTATGGATATGCTTATT
1 GCT-TATTTATTATGGATATG-TTATT
879726 TATATATTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
32 1 0.02
33 45 0.88
34 5 0.10
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.54
Consensus pattern (33 bp):
GCTTATTTATTATGGATATGTTATTCTGGATAT
Found at i:879715 original size:19 final size:19
Alignment explanation
Indices: 879687--879728 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
879677 TATATATATG
*
879687 TTATTCTGGATATG-TGTAT
1 TTATTATGGATATGCT-TAT
879706 TTATTATGGATATGCTTAT
1 TTATTATGGATATGCTTAT
879725 TTAT
1 TTAT
879729 ATATTTGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.55
Consensus pattern (19 bp):
TTATTATGGATATGCTTAT
Found at i:889853 original size:36 final size:36
Alignment explanation
Indices: 889779--889986 Score: 152
Period size: 36 Copynumber: 6.0 Consensus size: 36
889769 CACACAAACT
889779 AAATCATTTTTAAAGTCCACACAAGTCGGTGGCAACC
1 AAATCA-TTTTAAAGTCCACACAAGTCGGTGGCAACC
** **
889816 AAATCATTTTAAAGTCTGCACAAGTCGGTGGGGACC
1 AAATCATTTTAAAGTCCACACAAGTCGGTGGCAACC
* * *
889852 AAACCTTTTTCAAAGTCCACA-AGAGTTGGTGGC-A-C
1 AAATCATTTT-AAAGTCCACACA-AGTCGGTGGCAACC
* * * *
889887 -TAT-A-GTTAAAGTCCACACGAGTTGGTGGC-ACC
1 AAATCATTTTAAAGTCCACACAAGTCGGTGGCAACC
* *
889919 --CT-A-TTCAAAGTCCACACAAGTCGGTGGCAACC
1 AAATCATTTTAAAGTCCACACAAGTCGGTGGCAACC
* * *
889951 AAA-CCTTTTCAAAGTCCACACAAATTGGTGGCAACC
1 AAATCATTTT-AAAGTCCACACAAGTCGGTGGCAACC
889987 TAGTCAAAGT
Statistics
Matches: 136, Mismatches: 25, Indels: 21
0.75 0.14 0.12
Matches are distributed among these distances:
31 44 0.32
32 6 0.04
34 1 0.01
35 3 0.02
36 60 0.44
37 22 0.16
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (36 bp):
AAATCATTTTAAAGTCCACACAAGTCGGTGGCAACC
Found at i:889899 original size:31 final size:31
Alignment explanation
Indices: 889860--890158 Score: 163
Period size: 31 Copynumber: 9.5 Consensus size: 31
889850 CCAAACCTTT
*
889860 TTCAAAGTCCACAAGAGTTGGTGGCACTATA
1 TTCAAAGTCCACAAGAGTTGGTGGCACCATA
* *
889891 GTT-AAAGTCCACACGAGTTGGTGGCACCCTA
1 -TTCAAAGTCCACAAGAGTTGGTGGCACCATA
* *
889922 TTCAAAGTCCACACA-AGTCGGTGGCAACCAAACCTT
1 TTCAAAGTCCACA-AGAGTTGGTGGC-ACC--A--TA
*
889958 TTCAAAGTCCACACA-AATTGGTGGCAACC-TA
1 TTCAAAGTCCACA-AGAGTTGGTGGC-ACCATA
* * * * *
889989 GTCAAAGTCCACACGAGTTGTTGACAACC-TT
1 TTCAAAGTCCACAAGAGTTGGTGGC-ACCATA
* *
890020 TTCAAAGTCCACACA-AGTTGGTGGAAGCC-TT
1 TTCAAAGTCCACA-AGAGTTGGTGGCA-CCATA
*
890051 TTCAAAGTCCACACA-AATTGGTGGCAACC-TA
1 TTCAAAGTCCACA-AGAGTTGGTGGC-ACCATA
* * * * *
890082 GTCAAAGTCCACACGAGTTGTTGACAACC-TT
1 TTCAAAGTCCACAAGAGTTGGTGGC-ACCATA
* *
890113 TTCAAAGTCCACACA-AGTTGGTGGAAACC-TT
1 TTCAAAGTCCACA-AGAGTTGGTGG-CACCATA
*
890144 TTCAAAGCCCACAAG
1 TTCAAAGTCCACAAG
890159 TCTGTGGCAC
Statistics
Matches: 216, Mismatches: 36, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
30 4 0.02
31 178 0.82
32 6 0.03
36 28 0.13
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (31 bp):
TTCAAAGTCCACAAGAGTTGGTGGCACCATA
Found at i:890041 original size:62 final size:62
Alignment explanation
Indices: 889894--890225 Score: 308
Period size: 62 Copynumber: 5.4 Consensus size: 62
889884 CACTATAGTT
* * *
889894 AAAGTCCACACGAGTTGGTGGCACCCTATTCAAAGTCCACACAAGTCGGTGGCAACCAAACCTTT
1 AAAGTCCACACAAGTTGGTGGCAACCTATTCAAAGTCCACACAAGT-TGTGG--A-C-AACCTTT
889959 TC
61 TC
* * * *
889961 AAAGTCCACACAAATTGGTGGCAACCTAGTCAAAGTCCACACGAGTTGTTGACAACCTTTTC
1 AAAGTCCACACAAGTTGGTGGCAACCTATTCAAAGTCCACACAAGTTGTGGACAACCTTTTC
* * **
890023 AAAGTCCACACAAGTTGGTGG-AAGCCTTTTCAAAGTCCACACAAATTGGTGG-CAACCTAGTC
1 AAAGTCCACACAAGTTGGTGGCAA-CCTATTCAAAGTCCACACAAGTT-GTGGACAACCTTTTC
* * * *
890085 AAAGTCCACACGAGTTGTTGACAACCTTTTCAAAGTCCACACAAGTTGGTGGA-AACCTTTTC
1 AAAGTCCACACAAGTTGGTGGCAACCTATTCAAAGTCCACACAAGTT-GTGGACAACCTTTTC
* * * *
890147 AAAG-CC-CACAAGTCT-GTGGCACCCTTTTCAAAG-CC-GACAAGTTTGTGG-CACCCTTTTC
1 AAAGTCCACACAAGT-TGGTGGCAACCTATTCAAAGTCCACACAAG-TTGTGGACAACCTTTTC
* *
890205 AAAG-CC-CATAAGTTAGTGGCA
1 AAAGTCCACACAAGTTGGTGGCA
890226 TCTTTTTAAA
Statistics
Matches: 229, Mismatches: 28, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
57 1 0.00
58 35 0.15
59 4 0.02
60 21 0.09
61 5 0.02
62 112 0.49
63 6 0.03
64 1 0.00
66 3 0.01
67 41 0.18
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (62 bp):
AAAGTCCACACAAGTTGGTGGCAACCTATTCAAAGTCCACACAAGTTGTGGACAACCTTTTC
Found at i:890086 original size:93 final size:93
Alignment explanation
Indices: 889852--890156 Score: 434
Period size: 93 Copynumber: 3.2 Consensus size: 93
889842 GGTGGGGACC
* * * * *
889852 AAACCTTTTTCAAAGTCCACA-AGAGTTGGTGGC-ACTATAGTTAAAGTCCACACGAGTTGGTGG
1 AAACC-TTTTCAAAGTCCACACA-AATTGGTGGCAAC-CTAGTCAAAGTCCACACGAGTTGTTGA
* * *
889915 CACCCTATTCAAAGTCCACACAAGTCGGTGG
63 CAACCTTTTCAAAGTCCACACAAGTTGGTGG
889946 CAACCAAACCTTTTCAAAGTCCACACAAATTGGTGGCAACCTAGTCAAAGTCCACACGAGTTGTT
1 -----AAACCTTTTCAAAGTCCACACAAATTGGTGGCAACCTAGTCAAAGTCCACACGAGTTGTT
890011 GACAACCTTTTCAAAGTCCACACAAGTTGGTGG
61 GACAACCTTTTCAAAGTCCACACAAGTTGGTGG
*
890044 AAGCCTTTTCAAAGTCCACACAAATTGGTGGCAACCTAGTCAAAGTCCACACGAGTTGTTGACAA
1 AAACCTTTTCAAAGTCCACACAAATTGGTGGCAACCTAGTCAAAGTCCACACGAGTTGTTGACAA
890109 CCTTTTCAAAGTCCACACAAGTTGGTGG
66 CCTTTTCAAAGTCCACACAAGTTGGTGG
*
890137 AAACCTTTTCAAAGCCCACA
1 AAACCTTTTCAAAGTCCACA
890157 AGTCTGTGGC
Statistics
Matches: 193, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
93 110 0.57
98 75 0.39
99 8 0.04
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.24
Consensus pattern (93 bp):
AAACCTTTTCAAAGTCCACACAAATTGGTGGCAACCTAGTCAAAGTCCACACGAGTTGTTGACAA
CCTTTTCAAAGTCCACACAAGTTGGTGG
Found at i:890172 original size:29 final size:29
Alignment explanation
Indices: 889906--890270 Score: 254
Period size: 31 Copynumber: 12.0 Consensus size: 29
889896 AGTCCACACG
* *
889906 AGTTGGTGGCACCCTATTCAAAGTCCACACA
1 AGTTGGTGGCAACCTTTTCAAAG-CC-CACA
*
889937 AGTCGGTGGCAACCAAACCTTTTCAAAGTCCACACA
1 AGTTGGTGG----C-AACCTTTTCAAAG-CC-CACA
* ** *
889973 AATTGGTGGCAACCTAGTCAAAGTCCACACG
1 AGTTGGTGGCAACCTTTTCAAAG-CC-CACA
* *
890004 AGTTGTTGACAACCTTTTCAAAGTCCACACA
1 AGTTGGTGGCAACCTTTTCAAAG-CC-CACA
890035 AGTTGGTGG-AAGCCTTTTCAAAGTCCACACA
1 AGTTGGTGGCAA-CCTTTTCAAAG-CC-CACA
* ** *
890066 AATTGGTGGCAACCTAGTCAAAGTCCACACG
1 AGTTGGTGGCAACCTTTTCAAAG-CC-CACA
* *
890097 AGTTGTTGACAACCTTTTCAAAGTCCACACA
1 AGTTGGTGGCAACCTTTTCAAAG-CC-CACA
*
890128 AGTTGGTGGAAACCTTTTCAAAGCCCACA
1 AGTTGGTGGCAACCTTTTCAAAGCCCACA
* *
890157 AGTCT-GTGGCACCCTTTTCAAAGCCGACA
1 AGT-TGGTGGCAACCTTTTCAAAGCCCACA
* * *
890186 AGTTTGTGGCACCCTTTTCAAAGCCCATA
1 AGTTGGTGGCAACCTTTTCAAAGCCCACA
* * * * *
890215 AGTTAGTGGC-ATCTTTTTAAAACCCACG
1 AGTTGGTGGCAACCTTTTCAAAGCCCACA
*
890243 AGTTAGTGGC-ACCTCTTT-AAAGCCCACA
1 AGTTGGTGGCAACCT-TTTCAAAGCCCACA
890271 CTAGCTGGTG
Statistics
Matches: 280, Mismatches: 44, Indels: 23
0.81 0.13 0.07
Matches are distributed among these distances:
28 34 0.12
29 65 0.23
30 5 0.02
31 146 0.52
32 3 0.01
35 1 0.00
36 26 0.09
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (29 bp):
AGTTGGTGGCAACCTTTTCAAAGCCCACA
Found at i:890240 original size:28 final size:28
Alignment explanation
Indices: 890108--890270 Score: 148
Period size: 29 Copynumber: 5.6 Consensus size: 28
890098 GTTGTTGACA
* * *
890108 ACCTTTTCAAAGTCCACACAAGTTGGTGGAA
1 ACCTTTTTAAAG-CC-CACAAGTTAGTGG-C
*
890139 ACCTTTTCAAAGCCCACAAGTCT-GTGGC
1 ACCTTTTTAAAGCCCACAAGT-TAGTGGC
* * *
890167 ACCCTTTTCAAAGCCGACAAGTTTGTGGC
1 A-CCTTTTTAAAGCCCACAAGTTAGTGGC
* *
890196 ACCCTTTTCAAAGCCCATAAGTTAGTGGC
1 A-CCTTTTTAAAGCCCACAAGTTAGTGGC
* * *
890225 ATCTTTTTAAAACCCACGAGTTAGTGGC
1 ACCTTTTTAAAGCCCACAAGTTAGTGGC
*
890253 ACCTCTTTAAAGCCCACA
1 ACCTTTTTAAAGCCCACA
890271 CTAGCTGGTG
Statistics
Matches: 115, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
28 38 0.33
29 62 0.54
30 3 0.03
31 12 0.10
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (28 bp):
ACCTTTTTAAAGCCCACAAGTTAGTGGC
Found at i:890398 original size:29 final size:29
Alignment explanation
Indices: 890345--890424 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
890335 AAGGAGTTGA
* * * *
890345 ATCCTTTC-AAAGCCCACAAGCTAGTGTC
1 ATCCTTTCAAAAGTCCATAAGTTAGTGGC
890373 A-CTCTTTCAAAAGTCCATAAGTTAGTGGC
1 ATC-CTTTCAAAAGTCCATAAGTTAGTGGC
890402 ATCCTTTCAAAAGTCCATAAGTT
1 ATCCTTTCAAAAGTCCATAAGTT
890425 TTCAAAAGTC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
27 1 0.02
28 6 0.13
29 37 0.82
30 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (29 bp):
ATCCTTTCAAAAGTCCATAAGTTAGTGGC
Found at i:890429 original size:18 final size:18
Alignment explanation
Indices: 890406--890442 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
890396 AGTGGCATCC
*
890406 TTTCAAAAGTCCATAAGT
1 TTTCAAAAGTCCACAAGT
890424 TTTCAAAAGTCCACAAGT
1 TTTCAAAAGTCCACAAGT
890442 T
1 T
890443 AGTGGCATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (18 bp):
TTTCAAAAGTCCACAAGT
Found at i:890463 original size:29 final size:29
Alignment explanation
Indices: 890430--890556 Score: 150
Period size: 29 Copynumber: 4.4 Consensus size: 29
890420 AAGTTTTCAA
*
890430 AAGTCCACAAGTTAGTGGCATCTTCTAGT
1 AAGTCCACAAGTTAGTGGCATCTTCTACT
* *
890459 AAGTCCATAAGTTAGTGGCATCTT-TCCT
1 AAGTCCACAAGTTAGTGGCATCTTCTACT
* *
890487 AAGACCACAAGTCAGTGGCATCTTCTACT
1 AAGTCCACAAGTTAGTGGCATCTTCTACT
* * *
890516 ATGTCCATAAGTTAGTGGCATCCTT-TCCT
1 AAGTCCACAAGTTAGTGGCAT-CTTCTACT
*
890545 AAGACCACAAGT
1 AAGTCCACAAGT
890557 CAATGGCACC
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 23 0.28
29 55 0.68
30 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (29 bp):
AAGTCCACAAGTTAGTGGCATCTTCTACT
Found at i:890522 original size:57 final size:58
Alignment explanation
Indices: 890434--890564 Score: 219
Period size: 57 Copynumber: 2.3 Consensus size: 58
890424 TTTCAAAAGT
* *
890434 CCACAAGTTAGTGGCATCTTCTAGTAAGTCCATAAGTTAGTGGCAT-CTTTCCTAAGA
1 CCACAAGTCAGTGGCATCTTCTACTAAGTCCATAAGTTAGTGGCATCCTTTCCTAAGA
*
890491 CCACAAGTCAGTGGCATCTTCTACTATGTCCATAAGTTAGTGGCATCCTTTCCTAAGA
1 CCACAAGTCAGTGGCATCTTCTACTAAGTCCATAAGTTAGTGGCATCCTTTCCTAAGA
*
890549 CCACAAGTCAATGGCA
1 CCACAAGTCAGTGGCA
890565 CCTTTTTTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
57 43 0.62
58 26 0.38
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (58 bp):
CCACAAGTCAGTGGCATCTTCTACTAAGTCCATAAGTTAGTGGCATCCTTTCCTAAGA
Found at i:890563 original size:29 final size:28
Alignment explanation
Indices: 890434--890626 Score: 131
Period size: 29 Copynumber: 6.8 Consensus size: 28
890424 TTTCAAAAGT
* ** *
890434 CCACAAGTTAGTGGCATCTTCTAGTAAGT
1 CCACAAGTCAGTGGCATCTT-TCCTAAGA
* *
890463 CCATAAGTTAGTGGCATCTTTCCTAAGA
1 CCACAAGTCAGTGGCATCTTTCCTAAGA
* * *
890491 CCACAAGTCAGTGGCATCTTCTACTATGT
1 CCACAAGTCAGTGGCATCTT-TCCTAAGA
* *
890520 CCATAAGTTAGTGGCATCCTTTCCTAAGA
1 CCACAAGTCAGTGGCAT-CTTTCCTAAGA
* * **
890549 CCACAAGTCAATGGCACCTTTTTTAAGA
1 CCACAAGTCAGTGGCATCTTTCCTAAGA
* * * * * *
890577 CCATAAATCTGTGGCACCTACTT-CAAAGT
1 CCACAAGTCAGTGGCATCT--TTCCTAAGA
890606 CCACAA-TCAGTGGCA-CTTTCC
1 CCACAAGTCAGTGGCATCTTTCC
890627 ATATTTAATG
Statistics
Matches: 130, Mismatches: 29, Indels: 13
0.76 0.17 0.08
Matches are distributed among these distances:
25 2 0.02
26 1 0.01
27 2 0.02
28 55 0.42
29 65 0.50
30 5 0.04
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CCACAAGTCAGTGGCATCTTTCCTAAGA
Found at i:890608 original size:86 final size:86
Alignment explanation
Indices: 890429--890620 Score: 190
Period size: 86 Copynumber: 2.2 Consensus size: 86
890419 TAAGTTTTCA
* * * * * *
890429 AAAGTCCACAAGTTAGTGGCATCTTCTAGTAAGTCCATAAGTTAGTGGCATCTTTCCTAAGACCA
1 AAAGTCCACAAGTTAGTGGCATCTTCTACTAAGACCACAAGTCAATGGCACCTTTCCTAAGACCA
* * *
890494 CAAGTCAGTGGCATCTTCTAC
66 CAAATCAGTGGCACCTACTAC
* * * * **
890515 TATGTCCATAAGTTAGTGGCATCCTT-TCCTAAGACCACAAGTCAATGGCACCTTTTTTAAGACC
1 AAAGTCCACAAGTTAGTGGCAT-CTTCTACTAAGACCACAAGTCAATGGCACCTTTCCTAAGACC
* * *
890579 ATAAATCTGTGGCACCTACTTC
65 ACAAATCAGTGGCACCTACTAC
*
890601 AAAGTCCACAA-TCAGTGGCA
1 AAAGTCCACAAGTTAGTGGCA
890621 CTTTCCATAT
Statistics
Matches: 83, Mismatches: 22, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
85 8 0.10
86 72 0.87
87 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (86 bp):
AAAGTCCACAAGTTAGTGGCATCTTCTACTAAGACCACAAGTCAATGGCACCTTTCCTAAGACCA
CAAATCAGTGGCACCTACTAC
Found at i:892953 original size:95 final size:95
Alignment explanation
Indices: 892821--893004 Score: 264
Period size: 95 Copynumber: 1.9 Consensus size: 95
892811 GAAAACCTTG
** * *
892821 ATGTTAGGATCTTGGTTTTAATATAACAAAGTATGAATAAAACTGAAAAATACTTTGAAAAATCG
1 ATGTTAGGATCTTGGTTTTAATATAACAAAGTATGAATAAAACCAAAAAATA-TTTGAAAAACCA
*
892886 T-AACAAGTTTTATTCACTTAAAAATACTCT
65 TAAACAAGTTTTATTCACTCAAAAATACTCT
* *
892916 ATGTTAGGATCTTGGTTTTGATATAACAAAG-ATTGAATAAAACCAAAAAATATTTGCAAAACCA
1 ATGTTAGGATCTTGGTTTTAATATAACAAAGTA-TGAATAAAACCAAAAAATATTTGAAAAACCA
*
892980 TAAACAAGTTTTATTCGCTCAAAAA
65 TAAACAAGTTTTATTCACTCAAAAA
893005 CCTCTAAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
94 11 0.14
95 68 0.86
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (95 bp):
ATGTTAGGATCTTGGTTTTAATATAACAAAGTATGAATAAAACCAAAAAATATTTGAAAAACCAT
AAACAAGTTTTATTCACTCAAAAATACTCT
Found at i:893238 original size:19 final size:19
Alignment explanation
Indices: 893213--893269 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
893203 ATGTATCGAT
* *
893213 ACATTGTATTGATACATGT
1 ACATTGTATCGATACATGG
* *
893232 TCATTGTATCGATAGATGG
1 ACATTGTATCGATACATGG
893251 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
893270 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:893323 original size:20 final size:20
Alignment explanation
Indices: 893298--893351 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
893288 CTACTACTGT
*
893298 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
*
893318 TTGTATCGATATATGATGAA
1 TTGTATCGATACATGATGAA
893338 TTGTATCGATACAT
1 TTGTATCGATACAT
893352 TGCTTCTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:905267 original size:28 final size:28
Alignment explanation
Indices: 905232--905307 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
905222 TAGAGATAAA
* * *
905232 AACAGGGTTAGAGTATCCCTTCGAAAAT
1 AACAGGGTTGGAGTATCCCCTCAAAAAT
*
905260 AATAGGGTTGGAGTATCCCCTCAAAAAT
1 AACAGGGTTGGAGTATCCCCTCAAAAAT
*
905288 AACAAGGTTGGAGTATCCCC
1 AACAGGGTTGGAGTATCCCC
905308 GATGATGGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (28 bp):
AACAGGGTTGGAGTATCCCCTCAAAAAT
Found at i:905358 original size:79 final size:79
Alignment explanation
Indices: 905265--905971 Score: 706
Period size: 79 Copynumber: 8.9 Consensus size: 79
905255 AAAATAATAG
* ** * * * *
905265 GGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATGATGGAAAATCAATATTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT
*
905330 AGAAATAAAACTGG
66 AGAAATAAAACTGA
* * * ** * * *
905344 GGTTGGAGTATCCCCTTGGAAATAATGGGGTTTAAGTATCCCTGATAGTGGAAAAATCAATGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGT-GAAAAATCGATGTTT
* **
905409 TAGGAATAAAACCAA
65 TAGAAATAAAACTGA
** * * * *
905424 GGTTAAAGTATCCCCTGGGAAATAATGGGGCTGGAGTATCCCCGATGGTGAAAAATCTG-TGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATC-GATGTTT
*
905488 TAGAAATAAAA-TCGG
65 TAGAAATAAAACT-GA
* * * * *
905503 GGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAATTGGTGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT
905568 AGAAATAAAACTGA
66 AGAAATAAAACTGA
** * * * * *
905582 GGTTAAAGTATCCCTTCGGAAATAACGAGGTTGGAGTATCCCTGATGGTGAAAAATCGGTGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT
905647 AGAAATAAAACT-A
66 AGAAATAAAACTGA
* * * * * *
905660 GGTTGGAGTATCCCCTTGAAAATAATGGGGTTGAAGTATCCCAGATAGTGGAAAAATCTATGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGT-GAAAAATCGATGTTT
*
905725 TAGGAATAAAA-TCGA
65 TAGAAATAAAACT-GA
* * * * * * *
905740 GGTTAGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCTGATGGTGGAAAATTGGTGCTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT
* * *
905805 GGAAATAAAAATCGG
66 AGAAATAAAACT-GA
* * * ** *
905820 GGTTGGAGTTTTCCCTC-AGAAATAA-GGAGGTTGGAGTATCCTCGATGGTGAAAAATTAATATT
1 GGTTGGAGTATCCCCTCGA-AAATAACGG-GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTT
* *
905883 TTAGAAATAAAGCCGA
64 TTAGAAATAAAACTGA
* * *
905899 GGTTGGAGTATCCCCTCGAAAATAATGGGGGTGGAGTATCCCCGATGGTGAAAAATCGATATTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT
905964 AGAAATAA
66 AGAAATAA
905972 TAACATGAAT
Statistics
Matches: 516, Mismatches: 99, Indels: 26
0.80 0.15 0.04
Matches are distributed among these distances:
78 42 0.08
79 302 0.59
80 172 0.33
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (79 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT
AGAAATAAAACTGA
Found at i:905891 original size:317 final size:317
Alignment explanation
Indices: 905271--905971 Score: 987
Period size: 317 Copynumber: 2.2 Consensus size: 317
905261 ATAGGGTTGG
* * * * *
905271 AGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATGATGGAAAATCAATATTTTAGAAAT
1 AGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAAT
* * * *
905336 AAAACTGGGGTTGGAGTATCCCCTTGGAAATAATGGGGTTTAAGTATCCCTGATAGTGGAAAAAT
66 AAAACTGAGGTTGGAGTATCCCCTTGAAAATAATGGGGTTGAAGTATCCCAGATAGTGGAAAAAT
* * * *
905401 CAATGTTTTAGGAATAAAACCAAGGTTAAAGTATCCCCTGGGAAATAATGGGGCTGGAGTATCCC
131 CAATGTTTTAGGAATAAAACCAAGGTTAAAGTATCCCCTCGAAAATAACGGGGCTAGAGTATCCC
*
905466 CGATGGTGAAAAATCTGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGG
196 CGATGGTGAAAAATCTGTGCTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGG
** * *
905531 GGTTGGAGTATCCTCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACTGAGGTTAA
261 GGTTGGAGTATCCTCGATGGTGAAAAATTAATATTTTAGAAATAAAACCGAGGTTAA
* * * * *
905588 AGTATCCCTTCGGAAATAACGAGGTTGGAGTATCCCTGATGGTGAAAAATCGGTGTTTTAGAAAT
1 AGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAAT
905653 AAAACT-AGGTTGGAGTATCCCCTTGAAAATAATGGGGTTGAAGTATCCCAGATAGTGGAAAAAT
66 AAAACTGAGGTTGGAGTATCCCCTTGAAAATAATGGGGTTGAAGTATCCCAGATAGTGGAAAAAT
* * * * *
905717 CTATGTTTTAGGAATAAAATCGAGGTTAGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCC
131 CAATGTTTTAGGAATAAAACCAAGGTTAAAGTATCCCCTCGAAAATAACGGGGCTAGAGTATCCC
* * * * *
905782 TGATGGTGGAAAAT-TGGTGCTTTGGAAATAAAAATCGGGGTTGGAGTTTTCCC-TCAGAAATAA
196 CGATGGTGAAAAATCT-GTGCTTTAGAAAT-AAAATCGGGGTTGGAG-TATCCCTTCAAAAATAA
* **
905845 -GGAGGTTGGAGTATCCTCGATGGTGAAAAATTAATATTTTAGAAATAAAGCCGAGGTTGG
258 CGG-GGTTGGAGTATCCTCGATGGTGAAAAATTAATATTTTAGAAATAAAACCGAGGTTAA
* * *
905905 AGTATCCCCTCGAAAATAATGGGGGTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAAT
1 AGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAAT
905970 AA
66 AA
905972 TAACATGAAT
Statistics
Matches: 336, Mismatches: 44, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
315 1 0.00
316 135 0.40
317 195 0.58
318 5 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (317 bp):
AGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAAT
AAAACTGAGGTTGGAGTATCCCCTTGAAAATAATGGGGTTGAAGTATCCCAGATAGTGGAAAAAT
CAATGTTTTAGGAATAAAACCAAGGTTAAAGTATCCCCTCGAAAATAACGGGGCTAGAGTATCCC
CGATGGTGAAAAATCTGTGCTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGG
GGTTGGAGTATCCTCGATGGTGAAAAATTAATATTTTAGAAATAAAACCGAGGTTAA
Found at i:905911 original size:159 final size:159
Alignment explanation
Indices: 905265--905971 Score: 775
Period size: 159 Copynumber: 4.5 Consensus size: 159
905255 AAAATAATAG
* * ** * * ** *
905265 GGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATGATGGAAAATCAATATTTT
1 GGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTT
** * *
905330 AGAAATAAAA-CTGGGGTTGGAGTATCCCCTTGGAAATAATGGGGTTTAAGTATCCCTGATAGTG
66 AGAAATAAAATC-GGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGAAGTATCCCAGATAGTG
* * *
905394 GAAAAATCAATGTTTTAGGAATAAAACCAA
130 GAAAAATTAATGTTTTAGAAATAAAACCGA
* * * * * *
905424 GGTTAAAGTATCCCCTGGGAAATAATGGGGCTGGAGTATCCCCGATGGTGAAAAATCTGTGTTTT
1 GGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTT
* * * * *
905489 AGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCTC-GATGGT-
66 AGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGAAGTATCC-CAGATAGTG
** *
905552 GAAAAATTGGTGTTTTAGAAATAAAACTGA
130 GAAAAATTAATGTTTTAGAAATAAAACCGA
* * * * *
905582 GGTTAAAGTATCCCTTCGGAAATAACGAGGTTGGAGTATCCCTGATGGTGAAAAATCGGTGTTTT
1 GGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTT
** *
905647 AGAAATAAAA-CTAGGTTGGAGTATCCCCT-TGAAAATAATGGGGTTGAAGTATCCCAGATAGTG
66 AGAAATAAAATCGGGGTTGGAGTATCCCCTCAG-AAATAATGGGGTTGAAGTATCCCAGATAGTG
* *
905710 GAAAAATCT-ATGTTTTAGGAATAAAATCGA
130 GAAAAAT-TAATGTTTTAGAAATAAAACCGA
* * * * *
905740 GGTTAGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCTGATGGTGGAAAATTGGTGCTTT
1 GGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTT
* * * * *
905805 GGAAATAAAAATCGGGGTTGGAGTTTTCCCTCAGAAATAA-GGAGGTTGGAGTATCCTC-GATGG
66 AGAAAT-AAAATCGGGGTTGGAGTATCCCCTCAGAAATAATGG-GGTTGAAGTATCC-CAGATAG
* *
905868 T-GAAAAATTAATATTTTAGAAATAAAGCCGA
128 TGGAAAAATTAATGTTTTAGAAATAAAACCGA
* * * * *
905899 GGTTGGAGTATCCCCTCGAAAATAATGGGGGTGGAGTATCCCCGATGGTGAAAAATCGATATTTT
1 GGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTT
905964 AGAAATAA
66 AGAAATAA
905972 TAACATGAAT
Statistics
Matches: 458, Mismatches: 78, Indels: 25
0.82 0.14 0.04
Matches are distributed among these distances:
156 1 0.00
157 41 0.09
158 181 0.40
159 193 0.42
160 40 0.09
161 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (159 bp):
GGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTT
AGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGAAGTATCCCAGATAGTGG
AAAAATTAATGTTTTAGAAATAAAACCGA
Found at i:908396 original size:49 final size:51
Alignment explanation
Indices: 908314--908419 Score: 164
Period size: 49 Copynumber: 2.1 Consensus size: 51
908304 CCTGAATGCA
*
908314 TCGATACATTTGGGTAAAACCCAAAATGTATCGATACAATGAACAATGT-T
1 TCGATACATCTGGGTAAAACCCAAAATGTATCGATACAATGAACAATGTAT
* *
908364 TCGATACATCTGGGT-AAACCCAGAATGTATCGATATAATGAACAATGTAT
1 TCGATACATCTGGGTAAAACCCAAAATGTATCGATACAATGAACAATGTAT
908414 T-GATAC
1 TCGATAC
908420 GAATTGTGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
49 36 0.69
50 16 0.31
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (51 bp):
TCGATACATCTGGGTAAAACCCAAAATGTATCGATACAATGAACAATGTAT
Done.