Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 84 of 91
Found at i:31950267 original size:89 final size:89
Alignment explanation
Indices: 31950116--31950378 Score: 393
Period size: 89 Copynumber: 3.0 Consensus size: 89
31950106 TAGGGAGAGG
* *
31950116 AAGCATTGCAAACAAGTAAAAGGATGCGCCGAAGG-TGACGGAGAGGAAGATTGGAGCAGTTCCT
1 AAGCATTGCAAACAAGTAAAAGGATGTGCCGAAGGCAG-CGGAGAGGAAGATTGGAGCAGTTCCT
31950180 GAAGTACTGAGTGTAGTGGCAAGTA
65 GAAGTACTGAGTGTAGTGGCAAGTA
* *
31950205 AAGCATTGCAAACAAGTAAAAAGATGTGCCGGAGGCAGCGGAGAGGAAGATTGGAGCAGTTCCTG
1 AAGCATTGCAAACAAGTAAAAGGATGTGCCGAAGGCAGCGGAGAGGAAGATTGGAGCAGTTCCTG
* * * * *
31950270 AACTACTAAATGTAGTAGCAGGTA
66 AAGTACTGAGTGTAGTGGCAAGTA
* * *
31950294 GAGCGTTGCAAACAAGTAAAAGGATGTGCCGAAGACAGCGGAGAGGAAGATTGGAGCAGTTCCTG
1 AAGCATTGCAAACAAGTAAAAGGATGTGCCGAAGGCAGCGGAGAGGAAGATTGGAGCAGTTCCTG
*
31950359 GAGTACTGAGTGTAGTGGCA
66 AAGTACTGAGTGTAGTGGCA
31950379 GGTAGAATAA
Statistics
Matches: 154, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
89 153 0.99
90 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.33, T:0.18
Consensus pattern (89 bp):
AAGCATTGCAAACAAGTAAAAGGATGTGCCGAAGGCAGCGGAGAGGAAGATTGGAGCAGTTCCTG
AAGTACTGAGTGTAGTGGCAAGTA
Found at i:31950978 original size:35 final size:35
Alignment explanation
Indices: 31950939--31951059 Score: 136
Period size: 35 Copynumber: 3.5 Consensus size: 35
31950929 GTAATGTTTT
*
31950939 ACTTATTCTAATTATTCTGCTTTAAGTAGTACTTC
1 ACTTATTCTAATTATTCTGCTTGAAGTAGTACTTC
* * *
31950974 ACTTATTTTAATTGTTCTG-TGTGAAGTAGTGCTTC
1 ACTTATTCTAATTATTCTGCT-TGAAGTAGTACTTC
* * * * *
31951009 ACTTGTTCTAGTTATTCTGCGTGAAGTAGCATTTC
1 ACTTATTCTAATTATTCTGCTTGAAGTAGTACTTC
*
31951044 ACTTGTTCTAATTATT
1 ACTTATTCTAATTATT
31951060 TTCTGTACAA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
34 1 0.01
35 70 0.99
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (35 bp):
ACTTATTCTAATTATTCTGCTTGAAGTAGTACTTC
Found at i:31951536 original size:20 final size:20
Alignment explanation
Indices: 31951499--31951538 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31951489 CATTAACAAA
* *
31951499 AAATATTATATTATTTTAAT
1 AAATATTATATCAATTTAAT
31951519 AAATATTATATCAATTTAAT
1 AAATATTATATCAATTTAAT
31951539 TAAAATGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATATTATATCAATTTAAT
Found at i:31951927 original size:2 final size:2
Alignment explanation
Indices: 31951920--31951951 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31951910 TTTATTGTAC
31951920 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31951952 TAATTCATAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31952077 original size:27 final size:26
Alignment explanation
Indices: 31952046--31952101 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
31952036 TATAGTTGGC
*
31952046 AAAGCAGC-TAACTAATTATAGATAAAA
1 AAAGCAGCATAA-TAATTA-AGACAAAA
*
31952073 AAAGCAGCATAATGATTAAGACAAAA
1 AAAGCAGCATAATAATTAAGACAAAA
31952099 AAA
1 AAA
31952102 TCCAATATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 10 0.38
27 13 0.50
28 3 0.12
ACGTcount: A:0.59, C:0.11, G:0.12, T:0.18
Consensus pattern (26 bp):
AAAGCAGCATAATAATTAAGACAAAA
Found at i:31955566 original size:29 final size:28
Alignment explanation
Indices: 31955491--31955577 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 28
31955481 TGTCTTTGTA
* *
31955491 TTAAGATT-TTTTAATTTAATTTTTATAT
1 TTAAAATTATTTTAATTTATTTTTTA-AT
*** *
31955519 TTAAAATTATAACATTTTATTTTTTAAT
1 TTAAAATTATTTTAATTTATTTTTTAAT
31955547 TTAAAAATTATTTTAATTTAGTTTGTTTAAT
1 TT-AAAATTATTTTAATTTA-TTT-TTTAAT
31955578 ATTTTTATCT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
28 11 0.24
29 25 0.56
30 3 0.07
31 6 0.13
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (28 bp):
TTAAAATTATTTTAATTTATTTTTTAAT
Found at i:31956426 original size:22 final size:22
Alignment explanation
Indices: 31956384--31956426 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
31956374 CTAATTTTGT
* * *
31956384 ATTGTAATGTGATTTTTTATTG
1 ATTGTAATGTAATATTATATTG
31956406 ATTGTAATGTAATATTATATT
1 ATTGTAATGTAATATTATATT
31956427 ATATTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (22 bp):
ATTGTAATGTAATATTATATTG
Found at i:31964142 original size:39 final size:39
Alignment explanation
Indices: 31964088--31964171 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
31964078 GAAAATTACG
*
31964088 TTACTCTCTCGTAAGTATGATTTGGAGGTTAACCTTTGA
1 TTACTCTCTCGTAAGTATGATTTGGAGCTTAACCTTTGA
* * *
31964127 TTACTCTTTTGTAAGTATGATTTGGAGCTTAACCTTTGG
1 TTACTCTCTCGTAAGTATGATTTGGAGCTTAACCTTTGA
31964166 TTACTC
1 TTACTC
31964172 CTACTGAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.44
Consensus pattern (39 bp):
TTACTCTCTCGTAAGTATGATTTGGAGCTTAACCTTTGA
Found at i:31968019 original size:9 final size:9
Alignment explanation
Indices: 31968002--31968092 Score: 55
Period size: 9 Copynumber: 10.3 Consensus size: 9
31967992 ACATTTTTTC
*
31968002 ATTTGATTA
1 ATTTAATTA
31968011 ATTTAATT-
1 ATTTAATTA
* *
31968019 ATTTATTTT
1 ATTTAATTA
*
31968028 ATTTAATAAA
1 ATTTAAT-TA
*
31968038 ACATTAATTA
1 A-TTTAATTA
*
31968048 ATTTAAATA
1 ATTTAATTA
*
31968057 TTTTAA--A
1 ATTTAATTA
* *
31968064 ATTTACTAA
1 ATTTAATTA
31968073 ATTTAA-TA
1 ATTTAATTA
31968081 ATTTAATTA
1 ATTTAATTA
31968090 ATT
1 ATT
31968093 GATTAATTAG
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
7 5 0.08
8 14 0.23
9 35 0.56
10 3 0.05
11 5 0.08
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (9 bp):
ATTTAATTA
Found at i:31968820 original size:24 final size:24
Alignment explanation
Indices: 31968774--31968820 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
31968764 AAGGTTTTTT
* * *
31968774 CTAATTTTCTTAATTGCTTAATTA
1 CTAATATTCTTAATTACTAAATTA
*
31968798 CTAATATTCTTTATTACTAAATT
1 CTAATATTCTTAATTACTAAATT
31968821 TATATTTAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.32, C:0.13, G:0.02, T:0.53
Consensus pattern (24 bp):
CTAATATTCTTAATTACTAAATTA
Found at i:31975436 original size:22 final size:22
Alignment explanation
Indices: 31975378--31975457 Score: 99
Period size: 22 Copynumber: 3.7 Consensus size: 22
31975368 TTAATCACTG
31975378 CGTGACTGATTTTTAGGCATTA
1 CGTGACTGATTTTTAGGCATTA
* * * * *
31975400 CGTAATTG-GTTTTAGGTATTG
1 CGTGACTGATTTTTAGGCATTA
31975421 CGTGACTGATTTTTAGGCATTA
1 CGTGACTGATTTTTAGGCATTA
*
31975443 CGTGATTGATTTTTA
1 CGTGACTGATTTTTA
31975458 AGCAATGCCT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
21 16 0.35
22 30 0.65
ACGTcount: A:0.21, C:0.10, G:0.24, T:0.45
Consensus pattern (22 bp):
CGTGACTGATTTTTAGGCATTA
Found at i:31975495 original size:23 final size:23
Alignment explanation
Indices: 31975469--31975512 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
31975459 GCAATGCCTA
31975469 AGTTACCCAATGCCTTACTAACT
1 AGTTACCCAATGCCTTACTAACT
** *
31975492 AGTTACGTAATGTCTTACTAA
1 AGTTACCCAATGCCTTACTAA
31975513 TAAGTCACGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (23 bp):
AGTTACCCAATGCCTTACTAACT
Found at i:31975621 original size:43 final size:44
Alignment explanation
Indices: 31975560--31975712 Score: 152
Period size: 43 Copynumber: 3.5 Consensus size: 44
31975550 CGTATGAACC
* * * **
31975560 AGTCACGCAATGCTTAAAAACTAATCATGTAATGTTCAAAGTC-
1 AGTCACGCAATACCTAAAAACTAATCACGTAATGTTCAAAAACT
** * *
31975603 AGTCACGCAATACCTAAAATTTAATCGCGTAATGTTTAAAAACT
1 AGTCACGCAATACCTAAAAACTAATCACGTAATGTTCAAAAACT
** * *
31975647 AGTCACGCAATGTC-AAAATC-AATCACGTAATG-CCTAAAAACT
1 AGTCACGCAATACCTAAAAACTAATCACGTAATGTTC-AAAAACT
31975689 AGTCACGCAATACCTAAAAACTAA
1 AGTCACGCAATACCTAAAAACTAA
31975713 CAAAACTACT
Statistics
Matches: 88, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 30 0.34
43 44 0.50
44 14 0.16
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (44 bp):
AGTCACGCAATACCTAAAAACTAATCACGTAATGTTCAAAAACT
Found at i:31975658 original size:22 final size:22
Alignment explanation
Indices: 31975560--31975711 Score: 87
Period size: 22 Copynumber: 7.0 Consensus size: 22
31975550 CGTATGAACC
31975560 AGTCACGCAATGCTTAAAAACT
1 AGTCACGCAATGCTTAAAAACT
* * * * *
31975582 AATCATGTAATG-TT-CAAAGT
1 AGTCACGCAATGCTTAAAAACT
* * **
31975602 CAGTCACGCAATACCTAAAATTT
1 -AGTCACGCAATGCTTAAAAACT
* * * *
31975625 AATCGCGTAATGTTTAAAAACT
1 AGTCACGCAATGCTTAAAAACT
* *
31975647 AGTCACGCAATG-TCAAAATC-
1 AGTCACGCAATGCTTAAAAACT
* * *
31975667 AATCACGTAATGCCTAAAAACT
1 AGTCACGCAATGCTTAAAAACT
* *
31975689 AGTCACGCAATACCTAAAAACT
1 AGTCACGCAATGCTTAAAAACT
31975711 A
1 A
31975712 ACAAAACTAC
Statistics
Matches: 91, Mismatches: 34, Indels: 10
0.67 0.25 0.07
Matches are distributed among these distances:
20 14 0.15
21 21 0.23
22 53 0.58
23 3 0.03
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (22 bp):
AGTCACGCAATGCTTAAAAACT
Found at i:31995502 original size:20 final size:20
Alignment explanation
Indices: 31995479--31995517 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
31995469 TATTCAAATT
31995479 TTTAT-ATTTCTTTTAAAAAA
1 TTTATAATTT-TTTTAAAAAA
31995499 TTTATGAATTTTTTTAAAA
1 TTTAT-AATTTTTTTAAAA
31995518 TTTTATGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTATAATTTTTTTAAAAAA
Found at i:32002802 original size:32 final size:32
Alignment explanation
Indices: 32002756--32002821 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
32002746 TAAAAAGACT
*
32002756 AGCTGTAGAGAATGAAATTCAACAATTACAAA
1 AGCTGTAGAGAATGAAAGTCAACAATTACAAA
* *
32002788 AGCTTTAGAGAATGATAGTCAACAATTACAAA
1 AGCTGTAGAGAATGAAAGTCAACAATTACAAA
32002820 AG
1 AG
32002822 TTGTCCACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.23
Consensus pattern (32 bp):
AGCTGTAGAGAATGAAAGTCAACAATTACAAA
Found at i:32012556 original size:7 final size:7
Alignment explanation
Indices: 32012544--32012569 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32012534 AGTGATAAGC
32012544 GCCAAGT
1 GCCAAGT
32012551 GCCAAGT
1 GCCAAGT
32012558 GCCAAGT
1 GCCAAGT
32012565 GCCAA
1 GCCAA
32012570 ATTAGCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.12
Consensus pattern (7 bp):
GCCAAGT
Found at i:32012907 original size:16 final size:17
Alignment explanation
Indices: 32012875--32012909 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32012865 TCCTCCACTC
*
32012875 CCCTCAATTCTCCTCCT
1 CCCTCAAATCTCCTCCT
32012892 CCCTCAAATC-CCTCCT
1 CCCTCAAATCTCCTCCT
32012908 CC
1 CC
32012910 TTTCCCTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.14, C:0.57, G:0.00, T:0.29
Consensus pattern (17 bp):
CCCTCAAATCTCCTCCT
Found at i:32014686 original size:9 final size:9
Alignment explanation
Indices: 32014672--32014701 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
32014662 ATCTCACAAG
32014672 AAAAAACCT
1 AAAAAACCT
32014681 AAAAAACCT
1 AAAAAACCT
*
32014690 AAAACACCT
1 AAAAAACCT
32014699 AAA
1 AAA
32014702 GGTTATGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.67, C:0.23, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAACCT
Found at i:32018645 original size:29 final size:29
Alignment explanation
Indices: 32018597--32018662 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
32018587 AATCAATAAT
* *
32018597 ATATTTTTAAAAATATTATA-TATAAATTA
1 ATATTATTAAAAATATTATAGT-TAAACTA
32018626 ATATTATTAATAAATA-TATAGTTAAACTA
1 ATATTATTAA-AAATATTATAGTTAAACTA
*
32018655 AAATTATT
1 ATATTATT
32018663 TAAGCTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 26 0.81
30 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
ATATTATTAAAAATATTATAGTTAAACTA
Found at i:32043417 original size:72 final size:72
Alignment explanation
Indices: 32043301--32043517 Score: 418
Period size: 72 Copynumber: 3.0 Consensus size: 72
32043291 TTTAACTAAT
*
32043301 TCAACAAACAT-GGGGCTAAATCTTCCTATGTTTTCTTCTTGCATGTGTCCTTTCCATGGACACC
1 TCAACAACCATGGGGGCTAAATCTTCCTATGTTTTCTTCTTGCATGTGTCCTTTCCATGGACACC
32043365 ACTAAAA
66 ACTAAAA
32043372 TCAACAACCATGGGGGCTAAATCTTCCTATGTTTTCTTCTTGCATGTGTCCTTTCCATGGACACC
1 TCAACAACCATGGGGGCTAAATCTTCCTATGTTTTCTTCTTGCATGTGTCCTTTCCATGGACACC
32043437 ACTAAAA
66 ACTAAAA
32043444 TCAACAACCATGGGGGCTAAATCTTCCTATGTTTTCTTCTTGCATGTGTCCTTTCCATGGACACC
1 TCAACAACCATGGGGGCTAAATCTTCCTATGTTTTCTTCTTGCATGTGTCCTTTCCATGGACACC
32043509 ACTAAAA
66 ACTAAAA
32043516 TC
1 TC
32043518 GAATATTTCT
Statistics
Matches: 144, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
71 10 0.07
72 134 0.93
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (72 bp):
TCAACAACCATGGGGGCTAAATCTTCCTATGTTTTCTTCTTGCATGTGTCCTTTCCATGGACACC
ACTAAAA
Found at i:32044697 original size:12 final size:12
Alignment explanation
Indices: 32044682--32044707 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32044672 ATTTTTAAGA
32044682 ATAATTTTATCT
1 ATAATTTTATCT
32044694 ATAATTTTATCT
1 ATAATTTTATCT
32044706 AT
1 AT
32044708 TTTTAACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
ATAATTTTATCT
Found at i:32045207 original size:26 final size:25
Alignment explanation
Indices: 32045173--32045430 Score: 168
Period size: 26 Copynumber: 10.5 Consensus size: 25
32045163 TGACTTTGGA
* *
32045173 CATTACGTGACTGATTTTTGATAAGA
1 CATTGCGTGACT-ATTTTTGATAAGG
32045199 CATTGCGTGACTAGTTTCTT-ATAAGG
1 CATTGCGTGACTA-TTT-TTGATAAGG
*
32045225 CATTGCGTGACTGA-CTTTG----GG
1 CATTGCGTGACT-ATTTTTGATAAGG
* * *
32045246 CATTGCGTAACTAGTTTTTTATAAGA
1 CATTGCGTGACTA-TTTTTGATAAGG
*
32045272 CATTGCGTGACTAGTTTCTGATAAGG
1 CATTGCGTGACTA-TTTTTGATAAGG
* **
32045298 TATTGCGTGACTAACTTTG---A-G
1 CATTGCGTGACTATTTTTGATAAGG
*
32045319 CATTGCGTG-CTTAATTTTTTATAAGG
1 CATTGCGTGAC-T-ATTTTTGATAAGG
*
32045345 TATTGCGTGACTAGTTTTTGATAAGG
1 CATTGCGTGACTA-TTTTTGATAAGG
* *
32045371 CATTGCGTAACT-TGTTTCTGATAAAG
1 CATTGCGTGACTAT-TTT-TGATAAGG
* *
32045397 CATTGCATGACTA--GTTGAT-AGG
1 CATTGCGTGACTATTTTTGATAAGG
32045419 CATTGCGTGACT
1 CATTGCGTGACT
32045431 TAGGCATTGC
Statistics
Matches: 182, Mismatches: 29, Indels: 46
0.71 0.11 0.18
Matches are distributed among these distances:
20 2 0.01
21 23 0.13
22 21 0.12
23 4 0.02
24 4 0.02
25 10 0.05
26 114 0.63
27 4 0.02
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (25 bp):
CATTGCGTGACTATTTTTGATAAGG
Found at i:32045240 original size:73 final size:71
Alignment explanation
Indices: 32045136--32045378 Score: 289
Period size: 73 Copynumber: 3.4 Consensus size: 71
32045126 TGAGAATTAT
* * *
32045136 GTGACTAG-TTTT-TAA-GCATTGCGTAACTGACTTTGGACATTACGTGACTGATTTTTGATAAG
1 GTGACTAGTTTTTATAAGGCATTGCGTGACTGACTTTGGACATTGCGTGACT-ATTTTTTATAAG
32045198 ACATTGC
65 ACATTGC
* *
32045205 GTGACTAGTTTCTTATAAGGCATTGCGTGACTGACTTTGGGCATTGCGTAACTAGTTTTTTATAA
1 GTGACTAGTTT-TTATAAGGCATTGCGTGACTGACTTTGGACATTGCGTGACTA-TTTTTTATAA
32045270 GACATTGC
64 GACATTGC
* * *
32045278 GTGACTAGTTTCTGATAAGGTATTGCGTGACTAACTTT-GAGCATTGCGTG-CTTAATTTTTTAT
1 GTGACTAGTTT-TTATAAGGCATTGCGTGACTGACTTTGGA-CATTGCGTGAC-T-ATTTTTTAT
**
32045341 AAGGTATTGC
62 AAGACATTGC
32045351 GTGACTAGTTTTTGATAAGGCATTGCGT
1 GTGACTAGTTTTT-ATAAGGCATTGCGT
32045379 AACTTGTTTC
Statistics
Matches: 151, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
69 8 0.05
70 2 0.01
71 2 0.01
72 7 0.05
73 131 0.87
74 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (71 bp):
GTGACTAGTTTTTATAAGGCATTGCGTGACTGACTTTGGACATTGCGTGACTATTTTTTATAAGA
CATTGC
Found at i:32045492 original size:21 final size:22
Alignment explanation
Indices: 32045464--32045521 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
32045454 ATGCAATGTA
*
32045464 TAAAAACTAGTCACATAATGCC
1 TAAAAACTAGTCACATAATGAC
* * *
32045486 T-AAAACTAATTACATAATTAC
1 TAAAAACTAGTCACATAATGAC
32045507 TAAAAACTAGTCACA
1 TAAAAACTAGTCACA
32045522 CAGTGGATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.26
Consensus pattern (22 bp):
TAAAAACTAGTCACATAATGAC
Found at i:32054859 original size:33 final size:32
Alignment explanation
Indices: 32054817--32054888 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
32054807 ACGTTTGGGT
*
32054817 AAATATTTTTTAAAAGATGATCCAAATAATAAA
1 AAATATTTTTCAAAA-ATGATCCAAATAATAAA
* * * *
32054850 AAATATTTTTCAAAATTTATTCAAATAATATA
1 AAATATTTTTCAAAAATGATCCAAATAATAAA
32054882 AAATATT
1 AAATATT
32054889 AAATTTTCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (32 bp):
AAATATTTTTCAAAAATGATCCAAATAATAAA
Found at i:32059526 original size:44 final size:44
Alignment explanation
Indices: 32059477--32059560 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
32059467 TTTTTTTTTT
32059477 GTTTGTAGGTT-TGGTCACTTGAATGGCATGTCTATTACTCTGTG
1 GTTTGTA-GTTATGGTCACTTGAATGGCATGTCTATTACTCTGTG
32059521 GTTTGTAGTTATGGTCACTTGAATGGCATGTCTATTACTC
1 GTTTGTAGTTATGGTCACTTGAATGGCATGTCTATTACTC
32059561 AGTTGTTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
43 3 0.08
44 36 0.92
ACGTcount: A:0.18, C:0.14, G:0.25, T:0.43
Consensus pattern (44 bp):
GTTTGTAGTTATGGTCACTTGAATGGCATGTCTATTACTCTGTG
Found at i:32065429 original size:28 final size:28
Alignment explanation
Indices: 32065392--32065448 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
32065382 TTTTCCCTTT
32065392 TAATTTTTCCTTAAACATAAAAAAGTAA
1 TAATTTTTCCTTAAACATAAAAAAGTAA
32065420 TAATTTTTCCTTAAACATAAAAAAGTAA
1 TAATTTTTCCTTAAACATAAAAAAGTAA
32065448 T
1 T
32065449 TGCATGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.37
Consensus pattern (28 bp):
TAATTTTTCCTTAAACATAAAAAAGTAA
Found at i:32077147 original size:20 final size:20
Alignment explanation
Indices: 32077122--32077168 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
32077112 TGTGGTTGGG
*
32077122 TTGCATTGCATGAAAGTAGT
1 TTGCATCGCATGAAAGTAGT
32077142 TTGCATCGCATGAAAGTAGT
1 TTGCATCGCATGAAAGTAGT
32077162 TTGCATC
1 TTGCATC
32077169 TCTTCAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (20 bp):
TTGCATCGCATGAAAGTAGT
Found at i:32097367 original size:39 final size:41
Alignment explanation
Indices: 32097315--32097393 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 41
32097305 GTATATGTAT
*
32097315 ACGTTTAATAAACGTGT-AA-CACGACACGACATGATTAAC
1 ACGTTTAATAAACGTGTCAAGCACGACACGACACGATTAAC
* *
32097354 ACGTTTATTAAACGTGTCAATGTACGACACGACACGATTA
1 ACGTTTAATAAACGTGTCAA-GCACGACACGACACGATTA
32097394 CTAATACGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 16 0.47
40 2 0.06
42 16 0.47
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.25
Consensus pattern (41 bp):
ACGTTTAATAAACGTGTCAAGCACGACACGACACGATTAAC
Found at i:32097499 original size:15 final size:15
Alignment explanation
Indices: 32097481--32097543 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
32097471 ATCTATAATT
*
32097481 ATAAAACTAATTATA
1 ATAAAACTAAATATA
*
32097496 ATAAAAC-AAAAATA
1 ATAAAACTAAATATA
32097510 ATAATAACATCAAATATA
1 ATAA-AAC-T-AAATATA
* *
32097528 ATAAAATTTAATATA
1 ATAAAACTAAATATA
32097543 A
1 A
32097544 ATAACATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
14 9 0.23
15 17 0.44
16 1 0.03
17 2 0.05
18 10 0.26
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAAAACTAAATATA
Found at i:32101371 original size:16 final size:17
Alignment explanation
Indices: 32101340--32101385 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
32101330 TTTATATAAA
*
32101340 TATAAATATTTTAAAAG
1 TATAAATATATTAAAAG
*
32101357 TATAAATA-ATTAAAAA
1 TATAAATATATTAAAAG
*
32101373 TTTAAA-ATATTAA
1 TATAAATATATTAA
32101386 TCTATAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 1 0.04
16 16 0.64
17 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
TATAAATATATTAAAAG
Found at i:32113211 original size:42 final size:42
Alignment explanation
Indices: 32113152--32113232 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
32113142 CACGTGGCTT
* *
32113152 CTAGTGTTTTATTTATGTTACCAAGCAATGTACCGTGATTTA
1 CTAGTGTTTTATATATGTTACCAAGCAATGTACCATGATTTA
* *
32113194 CTAGTGTTTTATATATGTTATCAAGCAGTGTACCATGAT
1 CTAGTGTTTTATATATGTTACCAAGCAATGTACCATGAT
32113233 GTAGCTGGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (42 bp):
CTAGTGTTTTATATATGTTACCAAGCAATGTACCATGATTTA
Found at i:32117901 original size:31 final size:33
Alignment explanation
Indices: 32117863--32117926 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
32117853 TTCATTCTAT
32117863 TAAATTTTTA--TATATTTAT-TTTTAAATCAAA
1 TAAATTTTTACTTAT-TTTATATTTTAAATCAAA
*
32117894 TAAATTTTTACTTATTTTTTATTTTAAATCAAA
1 TAAATTTTTACTTATTTTATATTTTAAATCAAA
32117927 CAAAATTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 10 0.34
32 4 0.14
33 15 0.52
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (33 bp):
TAAATTTTTACTTATTTTATATTTTAAATCAAA
Found at i:32120841 original size:25 final size:22
Alignment explanation
Indices: 32120810--32120854 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 22
32120800 ATATTTTTTA
32120810 TTTTAATTAAAATATTATAAAATAT
1 TTTTAA-TAAAATA--ATAAAATAT
32120835 TTTTAATAAAATAATAAAAT
1 TTTTAATAAAATAATAAAAT
32120855 TAAAGAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
24 7 0.35
25 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTTAATAAAATAATAAAATAT
Found at i:32135044 original size:20 final size:21
Alignment explanation
Indices: 32134999--32135045 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
32134989 AGATGTCTAA
*
32134999 AATAATTATTTGAAATGAAAT
1 AATAATTATTTGAAATAAAAT
*
32135020 TATAATTATTTG-AATAAAAT
1 AATAATTATTTGAAATAAAAT
32135040 AATAAT
1 AATAAT
32135046 ATTCAATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (21 bp):
AATAATTATTTGAAATAAAAT
Found at i:32136007 original size:13 final size:13
Alignment explanation
Indices: 32135989--32136013 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32135979 TTTCAGAAAA
32135989 TTTATAAAATCAT
1 TTTATAAAATCAT
32136002 TTTATAAAATCA
1 TTTATAAAATCA
32136014 CAATTTTTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:32136775 original size:20 final size:20
Alignment explanation
Indices: 32136746--32136785 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
32136736 TTTGACCAGC
*
32136746 CATGAATTT-ATCATGAAAA
1 CATGAATTTAAGCATGAAAA
32136765 CATGTAATTTAAGCATGAAAA
1 CATG-AATTTAAGCATGAAAA
32136786 ATAAGGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (20 bp):
CATGAATTTAAGCATGAAAA
Found at i:32141951 original size:30 final size:30
Alignment explanation
Indices: 32141917--32141979 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
32141907 AGGCTGATAC
*
32141917 GGATTCGGAGACACTGAGTGAGGATGTTGA
1 GGATTCAGAGACACTGAGTGAGGATGTTGA
*** *
32141947 GGATTCAGAGAGTTTGAGTGAGGATTTTGA
1 GGATTCAGAGACACTGAGTGAGGATGTTGA
32141977 GGA
1 GGA
32141980 AATGACGCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.06, G:0.40, T:0.27
Consensus pattern (30 bp):
GGATTCAGAGACACTGAGTGAGGATGTTGA
Found at i:32149580 original size:15 final size:15
Alignment explanation
Indices: 32149560--32149588 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32149550 GTGAAATGGG
32149560 AAGAAAGAGAAAGAA
1 AAGAAAGAGAAAGAA
32149575 AAGAAAGAGAAAGA
1 AAGAAAGAGAAAGA
32149589 GAGAGAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (15 bp):
AAGAAAGAGAAAGAA
Found at i:32154733 original size:18 final size:19
Alignment explanation
Indices: 32154710--32154748 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
32154700 AATATAACTT
* *
32154710 AAAATATTAAACA-AAATA
1 AAAATAATAAAAATAAATA
32154728 AAAATAATAAAAATAAATA
1 AAAATAATAAAAATAAATA
32154747 AA
1 AA
32154749 TAATTGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAATAATAAAAATAAATA
Found at i:32162444 original size:30 final size:31
Alignment explanation
Indices: 32162410--32162470 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
32162400 TTAAAATTTT
*
32162410 ATATTTTTATTTTGAA-TCAAATAAA-TCTTA
1 ATATTTTTATTTTAAACT-AAATAAACTCTTA
32162440 ATATTTTTATTTTAAACTAAATAAACTCTTA
1 ATATTTTTATTTTAAACTAAATAAACTCTTA
32162471 TAACTAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (31 bp):
ATATTTTTATTTTAAACTAAATAAACTCTTA
Found at i:32163203 original size:51 final size:51
Alignment explanation
Indices: 32163122--32163231 Score: 202
Period size: 51 Copynumber: 2.2 Consensus size: 51
32163112 TTTGTGTCTG
* *
32163122 GTTGATGCGTGTTTGCTATTTTCTCAGCTTCAGCTTTCTCAAGCAAGGCCT
1 GTTGTTGCGTATTTGCTATTTTCTCAGCTTCAGCTTTCTCAAGCAAGGCCT
32163173 GTTGTTGCGTATTTGCTATTTTCTCAGCTTCAGCTTTCTCAAGCAAGGCCT
1 GTTGTTGCGTATTTGCTATTTTCTCAGCTTCAGCTTTCTCAAGCAAGGCCT
32163224 GTTGTTGC
1 GTTGTTGC
32163232 ATTGCTGCCA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.41
Consensus pattern (51 bp):
GTTGTTGCGTATTTGCTATTTTCTCAGCTTCAGCTTTCTCAAGCAAGGCCT
Found at i:32182041 original size:24 final size:24
Alignment explanation
Indices: 32182014--32182062 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
32182004 CTAAATTTTG
*
32182014 AAAAA-TAAATATTTTTAAAATATA
1 AAAAAGTAAA-ATTTTAAAAATATA
32182038 AAAAAGTAAAATTTTAAAAATATA
1 AAAAAGTAAAATTTTAAAAATATA
32182062 A
1 A
32182063 TGTTTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAAAGTAAAATTTTAAAAATATA
Found at i:32194329 original size:42 final size:42
Alignment explanation
Indices: 32194282--32194372 Score: 173
Period size: 42 Copynumber: 2.2 Consensus size: 42
32194272 ACTGGTGGTA
*
32194282 CTCCCCCTACAGCATCCACCCCACCACCCACCTCCATGACAC
1 CTCCCCCTACAGCATCCACCCCACCACCCACCTCCACGACAC
32194324 CTCCCCCTACAGCATCCACCCCACCACCCACCTCCACGACAC
1 CTCCCCCTACAGCATCCACCCCACCACCCACCTCCACGACAC
32194366 CTCCCCC
1 CTCCCCC
32194373 AGCTATGACT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.22, C:0.63, G:0.04, T:0.11
Consensus pattern (42 bp):
CTCCCCCTACAGCATCCACCCCACCACCCACCTCCACGACAC
Found at i:32194471 original size:27 final size:27
Alignment explanation
Indices: 32194439--32194514 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
32194429 CTCCAACAAG
* *
32194439 CCCAATGGCTCCTAGCCCATCATCAAC
1 CCCAATGGCACCAAGCCCATCATCAAC
* * * *
32194466 TCCAATGGCCCCGAGCCCATCATCTAC
1 CCCAATGGCACCAAGCCCATCATCAAC
*
32194493 CCCTATGGCACCAAGCCCATCA
1 CCCAATGGCACCAAGCCCATCA
32194515 ATAAGCTCGC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.25, C:0.45, G:0.13, T:0.17
Consensus pattern (27 bp):
CCCAATGGCACCAAGCCCATCATCAAC
Found at i:32206386 original size:208 final size:210
Alignment explanation
Indices: 32206021--32206659 Score: 856
Period size: 222 Copynumber: 3.0 Consensus size: 210
32206011 CATCCATAAT
* * *
32206021 TTTA-TATATATATGAAATTAATGATATAACTTATATGTTATAATGTTTTATATCAAAGTTTATA
1 TTTATTATATATAT--AATTAATGATACAAATTATATGTTATAATGTTTTATATCAAAGTTTGTA
* * * **
32206085 TAAATAGTAATTAATTATAAATAATATGTTATAAAATCTAAGGTGATAGTTAATAAACTTATTAA
64 TAAATAATAATTAATTATAAACAATATATTATAAAATCTAAGGTGATAACTAATAAACTTATTAA
* * *
32206150 GTGTAATAATATAAATAACGTTTATTATAAGTTATAGTAATGCTTATGTATAAATTAAATACATA
129 GTGTAATAATATAAATAAAGTTTATTATAAGTTATAGTAATGCTTATGTATAAATTAAATATATG
32206215 TATAT-TAATATATTAC
194 TATATATAATATATTAC
32206231 TTTATTATATATATAATTAATGATACAAATTATATGTTGA-AATG-TTTATATCAAAGTTTGTAT
1 TTTATTATATATATAATTAATGATACAAATTATATGTT-ATAATGTTTTATATCAAAGTTTGTAT
* * * *
32206294 AAATAATAACTAACTATAAACAATATTTTATAAAATCTAAGGAGATAACTAATACAA-TTATTAA
65 AAATAATAATTAATTATAAACAATATATTATAAAATCTAAGGTGATAACTAATA-AACTTATTAA
* * * *
32206358 GTGTAATCATATAAATAAAATCTATTATAAGTTATAGTAATGCTTATGTATAAATTAATTATATG
129 GTGTAATAATATAAATAAAGTTTATTATAAGTTATAGTAATGCTTATGTATAAATTAAATATATG
**
32206423 TATATATAATATATGATTT
194 TATATATAATATAT--TAC
*
32206442 TATTATATATATATATATATTTGAAATTAATGACATAACTTATATGTTATAATGTTTTATATCAA
1 T-TTAT-TATATATATA-A-TT--AA-TGAT-ACA-AA-TTATATGTTATAATGTTTTATATCAA
*
32206507 AATTTGTATAAATAATAATTAATTATAAACAATATATTATAAAATCTAAGGTGATAACTAATAAA
56 AGTTTGTATAAATAATAATTAATTATAAACAATATATTATAAAATCTAAGGTGATAACTAATAAA
* * * *
32206572 GTTATTAAATGTAATAATATAAATAAAGTTTATTATAAATTATAGTAATGTTTATGTATAAATTA
121 CTTATTAAGTGTAATAATATAAATAAAGTTTATTATAAGTTATAGTAATGCTTATGTATAAATTA
32206637 AATATATGTATATATAATATATT
186 AATATATGTATATATAATATATT
32206660 TATACAATTA
Statistics
Matches: 377, Mismatches: 33, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
208 134 0.36
209 36 0.10
210 5 0.01
211 11 0.03
212 4 0.01
213 10 0.03
214 1 0.00
215 2 0.01
217 2 0.01
218 3 0.01
219 3 0.01
220 4 0.01
221 15 0.04
222 147 0.39
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (210 bp):
TTTATTATATATATAATTAATGATACAAATTATATGTTATAATGTTTTATATCAAAGTTTGTATA
AATAATAATTAATTATAAACAATATATTATAAAATCTAAGGTGATAACTAATAAACTTATTAAGT
GTAATAATATAAATAAAGTTTATTATAAGTTATAGTAATGCTTATGTATAAATTAAATATATGTA
TATATAATATATTAC
Found at i:32206615 original size:23 final size:23
Alignment explanation
Indices: 32206593--32206640 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
32206583 TAATAATATA
32206593 AATAAAGTTTAT-TATAAATTAT
1 AATAAAGTTTATGTATAAATTAT
* *
32206615 AGTAATGTTTATGTATAAATTA-
1 AATAAAGTTTATGTATAAATTAT
32206637 AATA
1 AATA
32206641 TATGTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (23 bp):
AATAAAGTTTATGTATAAATTAT
Found at i:32206645 original size:23 final size:21
Alignment explanation
Indices: 32206591--32206653 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 21
32206581 TGTAATAATA
*
32206591 TAAATAAAGTTTATTATAAAT
1 TAAATAATGTTTATTATAAAT
*
32206612 TATAGTAATGTTTATGTATAAAT
1 TA-AATAATGTTTAT-TATAAAT
*
32206635 TAAATATATGTATA-TATAA
1 TAAATA-ATGTTTATTATAA
32206654 TATATTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 7 0.20
22 13 0.37
23 15 0.43
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (21 bp):
TAAATAATGTTTATTATAAAT
Found at i:32206646 original size:17 final size:17
Alignment explanation
Indices: 32206624--32206669 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
32206614 TAGTAATGTT
32206624 TATGTATAAATTAAATA
1 TATGTATAAATTAAATA
*
32206641 TATGTATATA-T-AATA
1 TATGTATAAATTAAATA
*
32206656 TATTTATACAATTA
1 TATGTATA-AATTA
32206670 TATNNNNNNN
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
15 11 0.48
16 2 0.09
17 10 0.43
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (17 bp):
TATGTATAAATTAAATA
Found at i:32207993 original size:15 final size:16
Alignment explanation
Indices: 32207962--32207995 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
32207952 TTTATTTTCA
32207962 TTAAAATTTTAAAAAT
1 TTAAAATTTTAAAAAT
*
32207978 TTAAAA-TTTAATAAT
1 TTAAAATTTTAAAAAT
32207993 TTA
1 TTA
32207996 TTATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATTTTAAAAAT
Found at i:32208150 original size:14 final size:14
Alignment explanation
Indices: 32208107--32208157 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
32208097 CATTAAAATT
32208107 TTTAAATATTA-ATA
1 TTTAAATATTATA-A
* *
32208121 TTT-TAT-TTATAT
1 TTTAAATATTATAA
32208133 TTTAAATATTATAA
1 TTTAAATATTATAA
32208147 TTTAAATATTA
1 TTTAAATATTA
32208158 AAAAATTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 6 0.20
13 5 0.17
14 19 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAAATATTATAA
Found at i:32222316 original size:13 final size:12
Alignment explanation
Indices: 32222296--32222330 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
32222286 CTAACTTAAA
32222296 AAAAAAAAGGGC
1 AAAAAAAAGGGC
*
32222308 AAAACAAAAGGTC
1 AAAA-AAAAGGGC
32222321 AAAAAAAAGG
1 AAAAAAAAGG
32222331 TATGCATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.69, C:0.09, G:0.20, T:0.03
Consensus pattern (12 bp):
AAAAAAAAGGGC
Found at i:32222328 original size:12 final size:12
Alignment explanation
Indices: 32222296--32222331 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
32222286 CTAACTTAAA
*
32222296 AAAAAAAAGGGC
1 AAAAAAAAGGTC
32222308 AAAACAAAAGGTC
1 AAAA-AAAAGGTC
32222321 AAAAAAAAGGT
1 AAAAAAAAGGT
32222332 ATGCATGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.67, C:0.08, G:0.19, T:0.06
Consensus pattern (12 bp):
AAAAAAAAGGTC
Found at i:32224917 original size:142 final size:142
Alignment explanation
Indices: 32224736--32225018 Score: 485
Period size: 142 Copynumber: 2.0 Consensus size: 142
32224726 CATATCATCC
32224736 ATAAGAATTATATTAAGTGAAGTTCAAAATAAAGTTTAAAATTCACATAGATAAATAGATGGAAT
1 ATAAGAATTATATTAAGTGAAGTTCAAAATAAAGTTTAAAATTCACATAGATAAATAGATGGAAT
* * *
32224801 TGATAAACAGTTTTATAGCAAGACAAATAGAATCAATAAAGTTCAAAAATTTCTCATGTTCTACC
66 TGACAAACAGTTTCATAGCAAGACAAATAGAATCAATAAAGTTAAAAAATTTCTCATGTTCTACC
32224866 TCATTTTCAATT
131 TCATTTTCAATT
* * * *
32224878 ATAAGAATTATATTAAGTGAAGTTCAAAATAGAGTTTAAACTTTACATAGATGAATAGATGGAAT
1 ATAAGAATTATATTAAGTGAAGTTCAAAATAAAGTTTAAAATTCACATAGATAAATAGATGGAAT
* *
32224943 TGACAAACAGTTTCATATCAAGACAAATAGAATCAATAAAGTTAAAAAATTTCTCATGTTTTACC
66 TGACAAACAGTTTCATAGCAAGACAAATAGAATCAATAAAGTTAAAAAATTTCTCATGTTCTACC
32225008 TCATTTTCAAT
131 TCATTTTCAAT
32225019 GATACCACGA
Statistics
Matches: 132, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 132 1.00
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (142 bp):
ATAAGAATTATATTAAGTGAAGTTCAAAATAAAGTTTAAAATTCACATAGATAAATAGATGGAAT
TGACAAACAGTTTCATAGCAAGACAAATAGAATCAATAAAGTTAAAAAATTTCTCATGTTCTACC
TCATTTTCAATT
Found at i:32232363 original size:11 final size:11
Alignment explanation
Indices: 32232334--32232383 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
32232324 ATAAAAGATC
32232334 AAATATTTATTT
1 AAATATTT-TTT
32232346 AAA-ATTTTTT
1 AAATATTTTTT
*
32232356 AAATA-TTTTA
1 AAATATTTTTT
**
32232366 AAAGCTTTTTT
1 AAATATTTTTT
32232377 AAATATT
1 AAATATT
32232384 ATACCTTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
10 13 0.43
11 14 0.47
12 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (11 bp):
AAATATTTTTT
Found at i:32232376 original size:21 final size:19
Alignment explanation
Indices: 32232343--32232383 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 19
32232333 CAAATATTTA
32232343 TTTAAAATTTTTTAAATAT
1 TTTAAAATTTTTTAAATAT
32232362 TTTAAAAGCTTTTTTAAATAT
1 TTTAAAA--TTTTTTAAATAT
32232383 T
1 T
32232384 ATACCTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.35
21 13 0.65
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTAAAATTTTTTAAATAT
Found at i:32233430 original size:2 final size:2
Alignment explanation
Indices: 32233423--32233466 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
32233413 TGATATAGAA
*
32233423 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32233465 AT
1 AT
32233467 GAATACACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32242018 original size:27 final size:27
Alignment explanation
Indices: 32241988--32242352 Score: 121
Period size: 27 Copynumber: 13.4 Consensus size: 27
32241978 CAGTATAACG
*
32241988 TGTAACAATTCAATTTTCAACATGACA
1 TGTAACAATTAAATTTTCAACATGACA
* * * **
32242015 TGTAGCAGTAAAATCATC-A-ATG-CTA
1 TGTAACAATTAAATTTTCAACATGAC-A
** * *
32242040 TGTATGAATTACATTTTTCAACATGACG
1 TGTAACAATTA-AATTTTCAACATGACA
* *
32242068 TGTAATAATTAAATTTTCAACATGATA
1 TGTAACAATTAAATTTTCAACATGACA
* * * * * *
32242095 TATAATAACTAAATCTTCAATATGACT
1 TGTAACAATTAAATTTTCAACATGACA
* **
32242122 TGTAACAGTTATATATTTT-AACATGATG
1 TGTAACAATTA-A-ATTTTCAACATGACA
* * *
32242150 TGTAATAATTAAATATTT-AATATGACT
1 TGTAACAATTAAAT-TTTCAACATGACA
* * * * *
32242177 TGTAATAACTATATTTTTCATCATGAAA
1 TGTAACAATTA-AATTTTCAACATGACA
* * * *
32242205 TGTAATAACTAAATTTTCAATATGACT
1 TGTAACAATTAAATTTTCAACATGACA
* * ** * * * **
32242232 TATAATAATTACTTTTTTTAATATAATG
1 TGTAACAATTA-AATTTTCAACATGACA
* * * **
32242260 TGTAATAACTAAATCTTCAACATGATT
1 TGTAACAATTAAATTTTCAACATGACA
** * *
32242287 TGTAATTATTATATTTTTCAGCATGACA
1 TGTAACAATTA-AATTTTCAACATGACA
* *
32242315 TGTAATAATTAAATTTTCAATATGA-A
1 TGTAACAATTAAATTTTCAACATGACA
*
32242341 GTATAACAATTA
1 -TGTAACAATTA
32242353 CTTTTTTTAA
Statistics
Matches: 246, Mismatches: 79, Indels: 26
0.70 0.23 0.07
Matches are distributed among these distances:
24 1 0.00
25 11 0.04
26 8 0.03
27 135 0.55
28 86 0.35
29 5 0.02
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (27 bp):
TGTAACAATTAAATTTTCAACATGACA
Found at i:32242109 original size:80 final size:82
Alignment explanation
Indices: 32241985--32242163 Score: 179
Period size: 80 Copynumber: 2.2 Consensus size: 82
32241975 TTTCAGTATA
* * * * * **
32241985 ACGTGTAACAATTCAATTTTCAACATGACATGTAGCAGTAAAATCATC-A-ATG-CTATGTATGA
1 ACGTGTAATAATTAAATTTTCAACATGACATATAGAACTAAAATCATCAATATGACT-TGTAACA
32242047 ATTACAT-TTTTCAACATG
65 ATTACATATTTT-AACATG
* * *
32242065 ACGTGTAATAATTAAATTTTCAACATGATATATAATAACT-AAATCTTCAATATGACTTGTAACA
1 ACGTGTAATAATTAAATTTTCAACATGACATAT-AGAACTAAAATCATCAATATGACTTGTAACA
* *
32242129 GTTATATATTTTAACATG
65 ATTACATATTTTAACATG
*
32242147 ATGTGTAATAATTAAAT
1 ACGTGTAATAATTAAAT
32242164 ATTTAATATG
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
80 36 0.44
81 4 0.05
82 35 0.43
83 6 0.07
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (82 bp):
ACGTGTAATAATTAAATTTTCAACATGACATATAGAACTAAAATCATCAATATGACTTGTAACAA
TTACATATTTTAACATG
Found at i:32242163 original size:55 final size:55
Alignment explanation
Indices: 32242056--32242339 Score: 295
Period size: 55 Copynumber: 5.2 Consensus size: 55
32242046 AATTACATTT
* * * *
32242056 TTCAACATGACGTGTAATAATTA-AATTTTCAACATGATATATAATAACTAAATC
1 TTCAATATGACTTGTAATAATTATATTTTTCAACATGATATGTAATAACTAAATC
* * * * *
32242110 TTCAATATGACTTGTAACAGTTATATATTTT-AACATGATGTGTAATAATTAAATA
1 TTCAATATGACTTGTAATAATTATAT-TTTTCAACATGATATGTAATAACTAAATC
* * * * *
32242165 TTTAATATGACTTGTAATAACTATATTTTTCATCATGAAATGTAATAACTAAATT
1 TTCAATATGACTTGTAATAATTATATTTTTCAACATGATATGTAATAACTAAATC
* * * * *
32242220 TTCAATATGACTTATAATAATTACT-TTTTTTAATATAATGTGTAATAACTAAATC
1 TTCAATATGACTTGTAATAATTA-TATTTTTCAACATGATATGTAATAACTAAATC
* * * * * * *
32242275 TTCAACATGATTTGTAATTATTATATTTTTCAGCATGACATGTAATAATTAAATT
1 TTCAATATGACTTGTAATAATTATATTTTTCAACATGATATGTAATAACTAAATC
32242330 TTCAATATGA
1 TTCAATATGA
32242340 AGTATAACAA
Statistics
Matches: 184, Mismatches: 41, Indels: 9
0.79 0.18 0.04
Matches are distributed among these distances:
54 24 0.13
55 155 0.84
56 5 0.03
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (55 bp):
TTCAATATGACTTGTAATAATTATATTTTTCAACATGATATGTAATAACTAAATC
Found at i:32242211 original size:110 final size:110
Alignment explanation
Indices: 32242056--32242380 Score: 411
Period size: 110 Copynumber: 3.0 Consensus size: 110
32242046 AATTACATTT
* * * * *
32242056 TTCAACATGACGTGTAATAATTA-AATTTTCAACATGATATATAATAACTAAATCTTCAATATGA
1 TTCAACATGACTTGTAATAATTATATTTTTCAACATGAAATGTAATAACTAAATTTTCAATATGA
* * * *
32242120 CTTGTAACAGTTA-TATATTTTAACATGATGTGTAATAATTAAATA
66 CTTATAACAATTACT-TTTTTTAATATGATGTGTAATAATTAAATA
* * * *
32242165 TTTAATATGACTTGTAATAACTATATTTTTCATCATGAAATGTAATAACTAAATTTTCAATATGA
1 TTCAACATGACTTGTAATAATTATATTTTTCAACATGAAATGTAATAACTAAATTTTCAATATGA
* * * *
32242230 CTTATAATAATTACTTTTTTTAATATAATGTGTAATAACTAAATC
66 CTTATAACAATTACTTTTTTTAATATGATGTGTAATAATTAAATA
* * * * *
32242275 TTCAACATGATTTGTAATTATTATATTTTTCAGCATGACATGTAATAATTAAATTTTCAATATGA
1 TTCAACATGACTTGTAATAATTATATTTTTCAACATGAAATGTAATAACTAAATTTTCAATATGA
**
32242340 AGTATAACAATTACTTTTTTTAATATGATGTGTAATAATTA
66 CTTATAACAATTACTTTTTTTAATATGATGTGTAATAATTA
32242381 TTTTTTAAAA
Statistics
Matches: 184, Mismatches: 30, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
109 19 0.10
110 164 0.89
111 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (110 bp):
TTCAACATGACTTGTAATAATTATATTTTTCAACATGAAATGTAATAACTAAATTTTCAATATGA
CTTATAACAATTACTTTTTTTAATATGATGTGTAATAATTAAATA
Found at i:32242380 original size:55 final size:54
Alignment explanation
Indices: 32242054--32242377 Score: 272
Period size: 55 Copynumber: 5.9 Consensus size: 54
32242044 TGAATTACAT
* * ** * * * *
32242054 TTTTCAACATGACGTGTAATAATTAAATTTTCAACATGATATATAATAACTAAA
1 TTTTCAATATGACTTGTAATAATTATTTTTTTAATATGATGTGTAATAACTAAA
* * * * * *
32242108 TCTTCAATATGACTTGTAACAGTTATATATTTTAACATGATGTGTAATAATTAAA
1 TTTTCAATATGACTTGTAATAATTAT-TTTTTTAATATGATGTGTAATAACTAAA
* * * **
32242163 TATTT-AATATGACTTGTAATAACTATATTTTTCATCATGAAATGTAATAACTAAA
1 T-TTTCAATATGACTTGTAATAATTATTTTTTTAAT-ATGATGTGTAATAACTAAA
* *
32242218 TTTTCAATATGACTTATAATAATTACTTTTTTTAATATAATGTGTAATAACTAAA
1 TTTTCAATATGACTTGTAATAATTA-TTTTTTTAATATGATGTGTAATAACTAAA
* * * * * ** ** *
32242273 TCTTCAACATGATTTGTAATTATTATATTTTTCAGCATGACATGTAATAATTAAA
1 TTTTCAATATGACTTGTAATAATTAT-TTTTTTAATATGATGTGTAATAACTAAA
** * *
32242328 TTTTCAATATGAAGTATAACAATTACTTTTTTTAATATGATGTGTAATAA
1 TTTTCAATATGACTTGTAATAATTA-TTTTTTTAATATGATGTGTAATAA
32242378 TTATTTTTTA
Statistics
Matches: 209, Mismatches: 54, Indels: 13
0.76 0.20 0.05
Matches are distributed among these distances:
54 29 0.14
55 169 0.81
56 11 0.05
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (54 bp):
TTTTCAATATGACTTGTAATAATTATTTTTTTAATATGATGTGTAATAACTAAA
Found at i:32242385 original size:28 final size:27
Alignment explanation
Indices: 32242046--32242388 Score: 181
Period size: 27 Copynumber: 12.5 Consensus size: 27
32242036 GCTATGTATG
* * *
32242046 AATTACATTTTTCAACATGACGTGTAAT
1 AATTAAATTTTT-AATATGATGTGTAAT
* * * *
32242074 AATTAAATTTTCAACATGATATATAAT
1 AATTAAATTTTTAATATGATGTGTAAT
* * * *
32242101 AACTAAATCTTCAATATGACT-TGTAAC
1 AATTAAATTTTTAATATGA-TGTGTAAT
* * *
32242128 AGTTATATATTTTAACATGATGTGTAAT
1 AATTAAAT-TTTTAATATGATGTGTAAT
*
32242156 AATTAAATATTTAATATGACT-TGTAAT
1 AATTAAATTTTTAATATGA-TGTGTAAT
* * * **
32242183 AACTATATTTTTCATCATGAAATGTAAT
1 AATTAAATTTTTAAT-ATGATGTGTAAT
* * *
32242211 AACTAAATTTTCAATATGACT-TATAAT
1 AATTAAATTTTTAATATGA-TGTGTAAT
** *
32242238 AATTACTTTTTTTAATATAATGTGTAAT
1 AATTA-AATTTTTAATATGATGTGTAAT
* * * * *
32242266 AACTAAATCTTCAACATGATTTGTAAT
1 AATTAAATTTTTAATATGATGTGTAAT
* * ** **
32242293 TATTATATTTTTCAGCATGACATGTAAT
1 AATTAAATTTTT-AATATGATGTGTAAT
* * * *
32242321 AATTAAATTTTCAATATGAAGTATAAC
1 AATTAAATTTTTAATATGATGTGTAAT
**
32242348 AATTACTTTTTTTAATATGATGTGTAAT
1 AATTA-AATTTTTAATATGATGTGTAAT
*
32242376 AATT-ATTTTTTAA
1 AATTAAATTTTTAA
32242389 AAAATTTTTA
Statistics
Matches: 235, Mismatches: 69, Indels: 24
0.72 0.21 0.07
Matches are distributed among these distances:
26 8 0.03
27 114 0.49
28 113 0.48
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.44
Consensus pattern (27 bp):
AATTAAATTTTTAATATGATGTGTAAT
Found at i:32242892 original size:20 final size:20
Alignment explanation
Indices: 32242864--32242914 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
32242854 TAATTATAAA
* *
32242864 AAATAAAAAAATATTTAT-TT
1 AAATTAAAAAAT-TTGATCTT
*
32242884 AAATTAAAACATTTGATCTT
1 AAATTAAAAAATTTGATCTT
*
32242904 TAATTAAAAAA
1 AAATTAAAAAA
32242915 AAAACCTAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (20 bp):
AAATTAAAAAATTTGATCTT
Found at i:32243251 original size:18 final size:17
Alignment explanation
Indices: 32243225--32243260 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
32243215 GTAACCTAAC
32243225 ATTTCCTTTTTTTATTTT
1 ATTTCCTTTTTTT-TTTT
*
32243243 ATTTTCTTTTTTTTTTT
1 ATTTCCTTTTTTTTTTT
32243260 A
1 A
32243261 CCTCTTCGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (17 bp):
ATTTCCTTTTTTTTTTT
Found at i:32257744 original size:16 final size:16
Alignment explanation
Indices: 32257720--32257756 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
32257710 AACAAATTAT
*
32257720 TAATTTATCGATTAAA
1 TAATATATCGATTAAA
*
32257736 TAATATATCGATTAAT
1 TAATATATCGATTAAA
32257752 TAATA
1 TAATA
32257757 AATTCTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (16 bp):
TAATATATCGATTAAA
Found at i:32258135 original size:33 final size:33
Alignment explanation
Indices: 32258060--32258136 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
32258050 ATGATTTTAA
* * *
32258060 AATTTAATTTATTTTTATGAACTAATTATAATT
1 AATTTAATTAATTTTTATGAACTAATAAAAATT
* * *
32258093 TATTAAATTAATTTTTATTAA-TAATAAAAATT
1 AATTTAATTAATTTTTATGAACTAATAAAAATT
32258125 AATTTTAATTAA
1 AA-TTTAATTAA
32258137 ATATTTAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
32 10 0.29
33 25 0.71
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (33 bp):
AATTTAATTAATTTTTATGAACTAATAAAAATT
Found at i:32269704 original size:28 final size:29
Alignment explanation
Indices: 32269672--32269735 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
32269662 CAGATCTGCA
*
32269672 CAATATGGCGTATCAAG-GTTTTTTGGGG
1 CAATATGGCATATCAAGTGTTTTTTGGGG
* * *
32269700 CAATATGTCATATCAAGTTTTTTTTTGGG
1 CAATATGGCATATCAAGTGTTTTTTGGGG
32269729 CAATATG
1 CAATATG
32269736 TATTATAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.41
Consensus pattern (29 bp):
CAATATGGCATATCAAGTGTTTTTTGGGG
Found at i:32269732 original size:29 final size:29
Alignment explanation
Indices: 32269672--32269754 Score: 91
Period size: 28 Copynumber: 2.9 Consensus size: 29
32269662 CAGATCTGCA
* * * *
32269672 CAATATGGCGTATCAAG-GTTTTTTGGGG
1 CAATATGTCATATCAAGTTTTTTTTTGGG
32269700 CAATATGTCATATCAAGTTTTTTTTTGGG
1 CAATATGTCATATCAAGTTTTTTTTTGGG
*
32269729 CAATATGT-ATTAT-AATTTTTTTTTTG
1 CAATATGTCA-TATCAAGTTTTTTTTTG
32269755 TCTAATCCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 28 0.58
29 20 0.42
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.48
Consensus pattern (29 bp):
CAATATGTCATATCAAGTTTTTTTTTGGG
Found at i:32273563 original size:30 final size:31
Alignment explanation
Indices: 32273528--32273601 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 31
32273518 AATAATTAAT
32273528 TATAAAGACTTATTTGATT-TA-AAATAAAAA
1 TATAAAGA-TTATTTGATTGTAGAAATAAAAA
*
32273558 TATAAA-A--ATTTGATTGTATGTAATAAAAA
1 TATAAAGATTATTTGATTGTA-GAAATAAAAA
32273587 TATAAAGATTTATTT
1 TATAAAGA-TTATTT
32273602 AAAATTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
26 8 0.22
27 2 0.06
29 15 0.42
30 7 0.19
33 4 0.11
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.41
Consensus pattern (31 bp):
TATAAAGATTATTTGATTGTAGAAATAAAAA
Found at i:32275185 original size:6 final size:6
Alignment explanation
Indices: 32275174--32275222 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
32275164 AAGTCATATG
* *
32275174 TTTTAT TTTTATT TTTTAT TATAAT TTTATAT ATTTTAT TTTTAT TTTT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTT-TAT -TTTTAT TTTTAT TTTT
32275223 CAATATAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 22 0.61
7 11 0.31
8 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:32275192 original size:13 final size:13
Alignment explanation
Indices: 32275174--32275222 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
32275164 AAGTCATATG
32275174 TTTTATTTTTATT
1 TTTTATTTTTATT
* *
32275187 TTTTATTATAATT
1 TTTTATTTTTATT
*
32275200 TTATATATTTTA-T
1 TTTTAT-TTTTATT
32275213 TTTTATTTTT
1 TTTTATTTTT
32275223 CAATATAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 4 0.14
13 22 0.76
14 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:32275211 original size:33 final size:33
Alignment explanation
Indices: 32275169--32275255 Score: 129
Period size: 33 Copynumber: 2.6 Consensus size: 33
32275159 TTTTAAAGTC
* * *
32275169 ATATGTTTTATTTTTATTTTTTATTATAATTTT
1 ATATATTTTATTTTTATTTTTCAATATAATTTT
32275202 ATATATTTTATTTTTATTTTTCAATATAATTTT
1 ATATATTTTATTTTTATTTTTCAATATAATTTT
*
32275235 ATATATTATATTTTTTATTTT
1 ATATATTTTA-TTTTTATTTT
32275256 AATTTCTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 39 0.80
34 10 0.20
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTTTCAATATAATTTT
Found at i:32275305 original size:5 final size:5
Alignment explanation
Indices: 32275281--32275360 Score: 60
Period size: 5 Copynumber: 16.2 Consensus size: 5
32275271 TATTATATAA
* * * * *
32275281 ATTTT AATTT CTTAT ATTTT ATTTT ATTTT A-ATT -TTTT ATTCTT ATATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT-TT ATTTT
32275330 A-TTT ATTTT ATTTT AATATTT -TTTT ATTTT A
1 ATTTT ATTTT ATTTT -AT-TTT ATTTT ATTTT A
32275361 ATTATAACAT
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
4 10 0.17
5 39 0.67
6 6 0.10
7 3 0.05
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:32275313 original size:55 final size:49
Alignment explanation
Indices: 32275228--32275363 Score: 134
Period size: 55 Copynumber: 2.7 Consensus size: 49
32275218 TTTTTCAATA
32275228 TAATTTTATATATT-ATA-TTTTTTATTTTAATTTCTTT-TACCTATATTAT
1 TAATTTTAT-T-TTAATATTTTTTTATTTTAATTT-TTTATACCTATATTAT
* * *
32275277 ATAAATTTTAATTTCTTATATTTTATTTTATTTTAATTTTTTATTCTTATATTAT
1 -T-AATTTT-ATTT-TAATA-TTT-TTTTATTTTAATTTTTTATACCTATATTAT
*
32275332 TTATTTTATTTTAATATTTTTTTATTTTAATT
1 TAATTTTATTTTAATATTTTTTTATTTTAATT
32275364 ATAACATTAC
Statistics
Matches: 74, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
49 13 0.18
50 5 0.07
51 12 0.16
52 9 0.12
53 5 0.07
54 6 0.08
55 24 0.32
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (49 bp):
TAATTTTATTTTAATATTTTTTTATTTTAATTTTTTATACCTATATTAT
Found at i:32275335 original size:33 final size:32
Alignment explanation
Indices: 32275289--32275352 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
32275279 AAATTTTAAT
32275289 TTCTTATATTTTATTTTATTTTAAT-TTTTTA
1 TTCTTATATTTTATTTTATTTTAATATTTTTA
32275320 TTCTTATATTATTTATTTTATTTTAATATTTTT
1 TTCTTATA-T-TTTATTTTATTTTAATATTTTT
32275353 TTATTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 8 0.27
32 1 0.03
33 16 0.53
34 5 0.17
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (32 bp):
TTCTTATATTTTATTTTATTTTAATATTTTTA
Found at i:32275357 original size:28 final size:28
Alignment explanation
Indices: 32275228--32275349 Score: 73
Period size: 28 Copynumber: 4.4 Consensus size: 28
32275218 TTTTTCAATA
* *
32275228 TAATTTTATA-TATTATATTTTTTATTT
1 TAATTTTATATTCTTATATTATTTATTT
*
32275255 TAATTTCT-T-TTACCTATATTA--TA--T
1 TAATTT-TATATT-CTTATATTATTTATTT
*
32275279 AAATTTTA-ATTTCTTATATTTTATTTTATTT
1 TAATTTTATA-TTCTTATA--TTA-TTTATTT
*
32275310 TAATTTTTTATTCTTATATTATTTATTT
1 TAATTTTATATTCTTATATTATTTATTT
32275338 T-ATTTTAATATT
1 TAATTTT-ATATT
32275350 TTTTTATTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 29
0.66 0.07 0.27
Matches are distributed among these distances:
23 1 0.01
24 11 0.15
25 2 0.03
26 5 0.07
27 13 0.18
28 19 0.26
29 5 0.07
31 15 0.21
32 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (28 bp):
TAATTTTATATTCTTATATTATTTATTT
Found at i:32276130 original size:12 final size:12
Alignment explanation
Indices: 32276115--32276153 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
32276105 TCAACCCTCA
32276115 TTTTCCTTTTTT
1 TTTTCCTTTTTT
*
32276127 TTTT-CTTTGTT
1 TTTTCCTTTTTT
32276138 TTTTCCTTTTTCT
1 TTTTCCTTTTT-T
32276151 TTT
1 TTT
32276154 GGGGGAGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 10 0.43
12 9 0.39
13 4 0.17
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTCCTTTTTT
Found at i:32276134 original size:11 final size:11
Alignment explanation
Indices: 32276115--32276153 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
32276105 TCAACCCTCA
32276115 TTTTCCTTTTT
1 TTTTCCTTTTT
*
32276126 TTTTTCTTTGTT
1 TTTTCCTTT-TT
32276138 TTTTCCTTTTT
1 TTTTCCTTTTT
32276149 CTTTT
1 -TTTT
32276154 GGGGGAGGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTCCTTTTT
Found at i:32279662 original size:30 final size:30
Alignment explanation
Indices: 32279626--32279686 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
32279616 GACTCTTCTT
32279626 ATGCGGCCAAAGACAAAAATTGTTACTAGG
1 ATGCGGCCAAAGACAAAAATTGTTACTAGG
32279656 ATGCGGCCAAAGACAAAAATTGTTACTAGG
1 ATGCGGCCAAAGACAAAAATTGTTACTAGG
32279686 A
1 A
32279687 CGGATCAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (30 bp):
ATGCGGCCAAAGACAAAAATTGTTACTAGG
Found at i:32280322 original size:29 final size:29
Alignment explanation
Indices: 32280263--32280322 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
32280253 GTATTCAATC
* *
32280263 ATCAAGTTGCAAATTCTTTGTGTTTTTTA
1 ATCAAGTTGCAAATTCTTTGTGTTATATA
32280292 ATCAAGTTGCATATATTCTTT-T-TTATATA
1 ATCAAGTTGCA-A-ATTCTTTGTGTTATATA
32280321 AT
1 AT
32280323 ATTATGGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 18 0.67
30 2 0.07
31 7 0.26
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (29 bp):
ATCAAGTTGCAAATTCTTTGTGTTATATA
Found at i:32283723 original size:30 final size:30
Alignment explanation
Indices: 32283669--32283756 Score: 149
Period size: 30 Copynumber: 2.9 Consensus size: 30
32283659 TTAATCGGAA
32283669 GCTCTCTGCTTATAGTCTTTTTTCCAAGGCT
1 GCTCTCTGCTTATAGTC-TTTTTCCAAGGCT
32283700 GCTCTCTGCTTATAGTCTTTTTCCAAGGCT
1 GCTCTCTGCTTATAGTCTTTTTCCAAGGCT
* *
32283730 GCTCTCTGCTTGTTGTCTTTTTCCAAG
1 GCTCTCTGCTTATAGTCTTTTTCCAAG
32283757 ACTGTTGTAG
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 38 0.69
31 17 0.31
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.45
Consensus pattern (30 bp):
GCTCTCTGCTTATAGTCTTTTTCCAAGGCT
Found at i:32285095 original size:24 final size:22
Alignment explanation
Indices: 32285051--32285107 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
32285041 ACCCATGGTC
* *
32285051 AAACAGCTCAAAATATTCACAATAA
1 AAACAGC-C-AAATATGCAC-ACAA
32285076 AAACAGCCAAATATGGCACACAA
1 AAACAGCCAAATAT-GCACACAA
32285099 AAACAGCCA
1 AAACAGCCA
32285108 CATCATGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 18 0.62
24 4 0.14
25 7 0.24
ACGTcount: A:0.54, C:0.25, G:0.09, T:0.12
Consensus pattern (22 bp):
AAACAGCCAAATATGCACACAA
Found at i:32291330 original size:17 final size:16
Alignment explanation
Indices: 32291310--32291354 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
32291300 AAAAATATTT
*
32291310 TTTTAATAAAAAAATAA
1 TTTTAA-AAAAAAAAAA
32291327 TTTTAAAAAAAAAAAAA
1 TTTT-AAAAAAAAAAAA
*
32291344 ATTTAAAAAAA
1 TTTTAAAAAAA
32291355 CTTNAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 16 0.64
18 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TTTTAAAAAAAAAAAA
Found at i:32291352 original size:18 final size:18
Alignment explanation
Indices: 32291317--32291354 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32291307 TTTTTTTAAT
* *
32291317 AAAAAAATAATTTTAAAA
1 AAAAAAAAAATTTAAAAA
32291335 AAAAAAAAAATTTAAAAA
1 AAAAAAAAAATTTAAAAA
32291353 AA
1 AA
32291355 CTTNAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAAAAAAATTTAAAAA
Found at i:32291575 original size:5 final size:6
Alignment explanation
Indices: 32291560--32291618 Score: 50
Period size: 6 Copynumber: 9.5 Consensus size: 6
32291550 TAGATATTAT
* *
32291560 TTTTTC TTTTTC TTTTTC -TTTTG TTTTTC ATTTTAT- TTTTCATC TTTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTT-TC TTTT--TC TTTTTC
32291610 TTTTTC TTT
1 TTTTTC TTT
32291619 GAAAACTTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 4 0.09
6 29 0.66
7 6 0.14
8 5 0.11
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:32291577 original size:12 final size:11
Alignment explanation
Indices: 32291559--32291618 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 11
32291549 TTAGATATTA
32291559 TTTTTTCTTTT
1 TTTTTTCTTTT
32291570 TCTTTTTCTTTT
1 T-TTTTTCTTTT
*
32291582 GTTTTTCATTTT
1 TTTTTTC-TTTT
32291594 ATTTTTCATCTTTTT
1 -TTTTT--TC-TTTT
32291609 TTTTTTCTTT
1 TTTTTTCTTT
32291619 GAAAACTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
11 10 0.24
12 16 0.39
13 4 0.10
14 5 0.12
15 6 0.15
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.82
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:32291609 original size:23 final size:22
Alignment explanation
Indices: 32291559--32291610 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
32291549 TTAGATATTA
* * *
32291559 TTTTTTCTTTTTCTTTTTCTTT
1 TTTTTTCATTTTATTTTTCTCT
32291581 TGTTTTTCATTTTATTTTTCATCT
1 T-TTTTTCATTTTATTTTTC-TCT
32291605 TTTTTT
1 TTTTTT
32291611 TTTTCTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 21 0.84
24 3 0.12
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTTCATTTTATTTTTCTCT
Found at i:32304532 original size:5 final size:5
Alignment explanation
Indices: 32304517--32304577 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
32304507 TTAACTGAAT
* * * *
32304517 AAATAA AAATA AAATA AAATA ATTATT ATATAA AAATA AAATA AAGTAA
1 AAAT-A AAATA AAATA AAATA A-AATA AAAT-A AAATA AAATA AAAT-A
32304566 AAATA AAATA AA
1 AAATA AAATA AA
32304578 TAGTTATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
5 32 0.70
6 14 0.30
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (5 bp):
AAATA
Found at i:32304538 original size:16 final size:16
Alignment explanation
Indices: 32304517--32304577 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
32304507 TTAACTGAAT
32304517 AAATAAAAATAAAAT-A
1 AAAT-AAAATAAAATAA
* * *
32304533 AAATAATTATTATATAA
1 AAATAA-AATAAAATAA
*
32304550 AAATAAAATAAAGTAA
1 AAATAAAATAAAATAA
32304566 AAATAAAATAAA
1 AAATAAAATAAA
32304578 TAGTTATTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
15 2 0.06
16 27 0.75
17 7 0.19
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (16 bp):
AAATAAAATAAAATAA
Found at i:32304576 original size:27 final size:27
Alignment explanation
Indices: 32304517--32304577 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
32304507 TTAACTGAAT
** *
32304517 AAATAAAAATAAAATAAAATAATTATT
1 AAATAAAAATAAAATAAAATAAAAATA
* *
32304544 ATATAAAAATAAAATAAAGTAAAAATA
1 AAATAAAAATAAAATAAAATAAAAATA
32304571 AAATAAA
1 AAATAAA
32304578 TAGTTATTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (27 bp):
AAATAAAAATAAAATAAAATAAAAATA
Found at i:32304637 original size:42 final size:39
Alignment explanation
Indices: 32304517--32304637 Score: 93
Period size: 42 Copynumber: 2.9 Consensus size: 39
32304507 TTAACTGAAT
*
32304517 AAATAAAAATAAAAT-AAAATAATTATTATA-TAAAAATA
1 AAAT-AAAATAAAATAAAAATAATTATTATATTTAAAATA
* * *
32304555 AAATAAAGTAAAAATAAAATAAATAGTTATTAAGTAATTTAATATA
1 AAATAAAAT-AAAAT--AA-AAATAATTATT-A-T-ATTTAAAATA
32304601 ACGAATAAAATAAAATAAAAATAATTATTATGATTTA
1 A--AATAAAATAAAATAAAAATAATTATTAT-ATTTA
32304638 TTACAGTATT
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
37 4 0.06
38 9 0.14
41 1 0.02
42 16 0.25
43 2 0.03
44 11 0.17
45 3 0.05
46 7 0.11
47 5 0.08
48 7 0.11
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (39 bp):
AAATAAAATAAAATAAAAATAATTATTATATTTAAAATA
Found at i:32304748 original size:26 final size:25
Alignment explanation
Indices: 32304708--32304761 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
32304698 TAAAAATACT
*
32304708 TTTTATTGTATATA-TAATTATTTTTA
1 TTTTATTGTAAATATTAA-TA-TTTTA
*
32304734 TTTTATTTTAAATATTAATATTTTA
1 TTTTATTGTAAATATTAATATTTTA
32304759 TTT
1 TTT
32304762 ATAATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.32
26 14 0.56
27 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTATTGTAAATATTAATATTTTA
Found at i:32304749 original size:20 final size:20
Alignment explanation
Indices: 32304701--32304761 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
32304691 AGAAAAGTAA
* *
32304701 AAATACTTTTTATTGTATATAT
1 AAATA-TTTTTATTTTAT-TTT
*
32304723 AATTATTTTTATTTTATTTT
1 AAATATTTTTATTTTATTTT
**
32304743 AAATATTAATATTTTATTT
1 AAATATTTTTATTTTATTT
32304762 ATAATATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 18 0.55
21 11 0.33
22 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
AAATATTTTTATTTTATTTT
Found at i:32304767 original size:20 final size:19
Alignment explanation
Indices: 32304732--32304777 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
32304722 TAATTATTTT
32304732 TATTTTATTTTAAATATTAA
1 TATTTTATTTTAAATA-TAA
32304752 TATTTTA-TTTATAATATAA
1 TATTTTATTTTA-AATATAA
32304771 -ATTTTAT
1 TATTTTAT
32304778 CATGATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.25
19 7 0.29
20 11 0.46
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTTTATTTTAAATATAA
Found at i:32305419 original size:10 final size:11
Alignment explanation
Indices: 32305389--32305426 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
32305379 GACACCCTAA
*
32305389 ACCATCCCCTC
1 ACCATCCCTTC
32305400 ACCATCCCTTC
1 ACCATCCCTTC
*
32305411 ACCATCCTTTC
1 ACCATCCCTTC
32305422 -CCATC
1 ACCATC
32305427 AAGTCCCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.18, C:0.55, G:0.00, T:0.26
Consensus pattern (11 bp):
ACCATCCCTTC
Found at i:32312877 original size:12 final size:12
Alignment explanation
Indices: 32312860--32312897 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
32312850 TAAAGTATAT
32312860 ATATAATAAAAA
1 ATATAATAAAAA
*
32312872 ATATAATAAAAT
1 ATATAATAAAAA
*
32312884 A-ATAATAACAA
1 ATATAATAAAAA
32312895 ATA
1 ATA
32312898 ATCAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (12 bp):
ATATAATAAAAA
Found at i:32317766 original size:14 final size:13
Alignment explanation
Indices: 32317737--32317770 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
32317727 CTCTAAAAGC
*
32317737 AATAATAATAATA
1 AATAATAATAACA
32317750 AATAATCAATAACA
1 AATAAT-AATAACA
32317764 AATAATA
1 AATAATA
32317771 TTAAGTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (13 bp):
AATAATAATAACA
Found at i:32319780 original size:23 final size:25
Alignment explanation
Indices: 32319754--32319799 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
32319744 TATAAATATT
*
32319754 TAAATGATAATAT-TA-AATAAAAA
1 TAAATAATAATATATATAATAAAAA
32319777 TAAATAATAATATATATAATAAA
1 TAAATAATAATATATATAATAAA
32319800 TAGTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 2 0.10
25 6 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
TAAATAATAATATATATAATAAAAA
Found at i:32324257 original size:33 final size:33
Alignment explanation
Indices: 32324210--32324289 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
32324200 TAAAATTTAG
* *
32324210 AATATAAAAAATTATATTAAAAAATAAAAATAA
1 AATATATAAAATTATAATAAAAAATAAAAATAA
* * *
32324243 AATATATAAGATTATAATAAGAAATGAAAATAA
1 AATATATAAAATTATAATAAAAAATAAAAATAA
*
32324276 AATATATAACATTA
1 AATATATAAAATTA
32324290 AAAATATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (33 bp):
AATATATAAAATTATAATAAAAAATAAAAATAA
Found at i:32330396 original size:22 final size:22
Alignment explanation
Indices: 32330368--32330410 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
32330358 GTTACGTGTT
32330368 ACGCAGATCTATTCCACATGGG
1 ACGCAGATCTATTCCACATGGG
32330390 ACGCAGATCTATTCCACATGG
1 ACGCAGATCTATTCCACATGG
32330411 TTGCTGCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (22 bp):
ACGCAGATCTATTCCACATGGG
Found at i:32332872 original size:36 final size:36
Alignment explanation
Indices: 32332825--32332960 Score: 191
Period size: 36 Copynumber: 4.0 Consensus size: 36
32332815 CTTAGGCCTT
*
32332825 CTAAAATGATTGGCTTCACCTGCAAGGAGATAAGGA
1 CTAAAATGATTGGCTTCAACTGCAAGGAGATAAGGA
32332861 CTAAAATGATTGGCTTCAACTGCAAGGAGATAA-G-
1 CTAAAATGATTGGCTTCAACTGCAAGGAGATAAGGA
*
32332895 -------GATTGGCTTCAACTGCAAGGAGTTAAGGA
1 CTAAAATGATTGGCTTCAACTGCAAGGAGATAAGGA
32332924 CTAAAATGATTGGCTTCAACTGCAAGGAGATAAGGA
1 CTAAAATGATTGGCTTCAACTGCAAGGAGATAAGGA
32332960 C
1 C
32332961 CGATCCCCAA
Statistics
Matches: 88, Mismatches: 3, Indels: 18
0.81 0.03 0.17
Matches are distributed among these distances:
27 25 0.28
28 1 0.01
35 1 0.01
36 61 0.69
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (36 bp):
CTAAAATGATTGGCTTCAACTGCAAGGAGATAAGGA
Found at i:32332899 original size:27 final size:27
Alignment explanation
Indices: 32332868--32332923 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
32332858 GGACTAAAAT
32332868 GATTGGCTTCAACTGCAAGGAGATAAG
1 GATTGGCTTCAACTGCAAGGAGATAAG
*
32332895 GATTGGCTTCAACTGCAAGGAGTTAAG
1 GATTGGCTTCAACTGCAAGGAGATAAG
32332922 GA
1 GA
32332924 CTAAAATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.23
Consensus pattern (27 bp):
GATTGGCTTCAACTGCAAGGAGATAAG
Found at i:32332905 original size:63 final size:63
Alignment explanation
Indices: 32332832--32332959 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
32332822 CTTCTAAAAT
*
32332832 GATTGGCTTCACCTGCAAGGAGATAAGGACTAAAATGATTGGCTTCAACTGCAAGGAGATAAG
1 GATTGGCTTCAACTGCAAGGAGATAAGGACTAAAATGATTGGCTTCAACTGCAAGGAGATAAG
*
32332895 GATTGGCTTCAACTGCAAGGAGTTAAGGACTAAAATGATTGGCTTCAACTGCAAGGAGATAAG
1 GATTGGCTTCAACTGCAAGGAGATAAGGACTAAAATGATTGGCTTCAACTGCAAGGAGATAAG
32332958 GA
1 GA
32332960 CCGATCCCCA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (63 bp):
GATTGGCTTCAACTGCAAGGAGATAAGGACTAAAATGATTGGCTTCAACTGCAAGGAGATAAG
Found at i:32334306 original size:85 final size:86
Alignment explanation
Indices: 32334151--32334321 Score: 274
Period size: 85 Copynumber: 2.0 Consensus size: 86
32334141 CCAAAAAGAC
* * * *
32334151 TTTTGTGTGTTATCTTTTATGCCTAAAATTGAAATCCTCTTTAGTCTCAAGTACAGGGAAGGAAT
1 TTTTATGTGTTATCTTTTATGCCTAAAATAGAAATCCCCTTTAGTCTCAAGTACAGAGAAGGAAT
32334216 AAACTGTTTAACAGGACAAAA
66 AAACTGTTTAACAGGACAAAA
*
32334237 TTTTATGTGTTATTTTTTATGCCT-AAATAGAAAATCCCCTTT-GTCTCAAGTACAGAGAAGGAA
1 TTTTATGTGTTATCTTTTATGCCTAAAATAG-AAATCCCCTTTAGTCTCAAGTACAGAGAAGGAA
32334300 TAAACTGTTTAACAGGACAAAA
65 TAAACTGTTTAACAGGACAAAA
32334322 GGGGTGAACT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
85 47 0.59
86 32 0.41
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (86 bp):
TTTTATGTGTTATCTTTTATGCCTAAAATAGAAATCCCCTTTAGTCTCAAGTACAGAGAAGGAAT
AAACTGTTTAACAGGACAAAA
Found at i:32334829 original size:22 final size:22
Alignment explanation
Indices: 32334801--32334845 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
32334791 ATTACAAAGA
32334801 AATAT-AAT-TATTATACATTTTT
1 AATATAAATGTATT-TAC-TTTTT
32334823 AATATAAATGTATTTACTTTTT
1 AATATAAATGTATTTACTTTTT
32334845 A
1 A
32334846 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.52
23 6 0.29
24 4 0.19
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
AATATAAATGTATTTACTTTTT
Found at i:32354270 original size:190 final size:190
Alignment explanation
Indices: 32353910--32354271 Score: 498
Period size: 190 Copynumber: 1.9 Consensus size: 190
32353900 ATTATACAAA
*
32353910 TTATATGTTAAAATATTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATATGTTA
1 TTATATGTTAAAATATTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATATATTA
** * * * * **
32353975 TAAAATCTAAGGTGATAACTAATAAAGTTATTAAGTGTAATCATATAACTAAAGTCTATTATGTA
66 TAAAATCTAAGGCAATAACTAATAAAGTTATTAAATATAATCATATAAATAAAATCTATTATAAA
* * *
32354040 TATATAATATATGACTTTATTATATATATATATATATATATATGAAATTAATGACATAAT
131 TATATAATATATGACTATATAATATAAATATATATATATATATGAAATTAATGACATAAT
* * *
32354100 TTATATGTTATAATATTTTATATTAAAGTTTGTATAAATAATAACTAATTATAAATAATATATTA
1 TTATATGTTAAAATATTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATATATTA
* *
32354165 TAAAATCTAATGCAATAACTAATAAAGTTATTAAATATAATCATATAAATAAAATTTATTATAAA
66 TAAAATCTAAGGCAATAACTAATAAAGTTATTAAATATAATCATATAAATAAAATCTATTATAAA
*
32354230 TTATAGTAATATTTATG-C-ATA-AAT-TAAATATATGTATATATA
131 -TATA-TAATA--TATGACTATATAATATAAATATATATATATATA
32354272 ATATATTTAT
Statistics
Matches: 150, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
190 132 0.88
191 6 0.04
192 7 0.05
193 1 0.01
194 4 0.03
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (190 bp):
TTATATGTTAAAATATTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATATATTA
TAAAATCTAAGGCAATAACTAATAAAGTTATTAAATATAATCATATAAATAAAATCTATTATAAA
TATATAATATATGACTATATAATATAAATATATATATATATATGAAATTAATGACATAAT
Found at i:32362114 original size:25 final size:26
Alignment explanation
Indices: 32362085--32362134 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
32362075 TCCAACTTTT
32362085 AATAAAATATTAATA-TTAAATTATA
1 AATAAAATATTAATATTTAAATTATA
32362110 AATAAAATATTAATATTTAAATTAT
1 AATAAAATATTAATATTTAAATTAT
32362135 CAATTATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AATAAAATATTAATATTTAAATTATA
Found at i:32362145 original size:22 final size:22
Alignment explanation
Indices: 32362086--32362174 Score: 81
Period size: 22 Copynumber: 3.9 Consensus size: 22
32362076 CCAACTTTTA
*
32362086 ATAAAATATTAATA-TTAAATT
1 ATAAATTATTAATATTTAAATT
32362107 ATAAATAAAATATTAATATTTAAATT
1 ATAAAT----TATTAATATTTAAATT
* **
32362133 ATCAATTATTAATAAATAAATT
1 ATAAATTATTAATATTTAAATT
**
32362155 ATAAATTATTCCTATTTAAA
1 ATAAATTATTAATATTTAAA
32362175 AAAAACAAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
21 5 0.09
22 29 0.54
25 8 0.15
26 12 0.22
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAAATTATTAATATTTAAATT
Found at i:32366835 original size:21 final size:21
Alignment explanation
Indices: 32366809--32366856 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
32366799 CTTTCATTGT
* *
32366809 TTTGAACTTTCATATAAATTC
1 TTTGAACTTTCACACAAATTC
32366830 TTTGAACTTTCACACAAATTC
1 TTTGAACTTTCACACAAATTC
32366851 TTTGAA
1 TTTGAA
32366857 GGAGGATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (21 bp):
TTTGAACTTTCACACAAATTC
Found at i:32379853 original size:21 final size:21
Alignment explanation
Indices: 32379829--32379868 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32379819 TTTTGATGGA
* *
32379829 AGAACGTGGGCCTTTAAAAGT
1 AGAAAGTGAGCCTTTAAAAGT
*
32379850 AGAAATTGAGCCTTTAAAA
1 AGAAAGTGAGCCTTTAAAA
32379869 CTAAAACTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (21 bp):
AGAAAGTGAGCCTTTAAAAGT
Found at i:32399523 original size:2 final size:2
Alignment explanation
Indices: 32399511--32399543 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
32399501 TCCTTTGTCT
*
32399511 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
32399544 TCTTCTTCNT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:32399603 original size:2 final size:2
Alignment explanation
Indices: 32399591--32399623 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
32399581 TCCTTTGTCT
*
32399591 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
32399624 TTTACTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:32399606 original size:80 final size:79
Alignment explanation
Indices: 32399473--32399624 Score: 295
Period size: 80 Copynumber: 1.9 Consensus size: 79
32399463 TCATGGCTTT
32399473 TGCTCCCCAAAATAATACCTAACTCTGCTCCTTTGTCTTCTCCCTCTCTCTCTCTCTCTCTCTCT
1 TGCTCCCCAAAATAATACCTAACTCTGCTCCTTTGTCTTCTCCCTCTCTCTCTCTCTCTCTCTCT
32399538 CTCTCTTCTTCTTC
66 CTCTCTTCTTCTTC
32399552 NTGCTCCCCAAAATAATACCTAACTCTGCTCCTTTGTCTTCTCCCTCTCTCTCTCTCTCTCTCTC
1 -TGCTCCCCAAAATAATACCTAACTCTGCTCCTTTGTCTTCTCCCTCTCTCTCTCTCTCTCTCTC
32399617 TCTCTCTT
65 TCTCTCTT
32399625 TTACTTTTCA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.12, C:0.41, G:0.04, T:0.42
Consensus pattern (79 bp):
TGCTCCCCAAAATAATACCTAACTCTGCTCCTTTGTCTTCTCCCTCTCTCTCTCTCTCTCTCTCT
CTCTCTTCTTCTTC
Found at i:32408370 original size:2 final size:2
Alignment explanation
Indices: 32408363--32408405 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
32408353 GTTTTGAAAG
*
32408363 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32408405 A
1 A
32408406 ATAAAGCAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:32426131 original size:26 final size:26
Alignment explanation
Indices: 32426095--32426144 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
32426085 TTACAAATGT
* *
32426095 AAAATTTATAATATTTTATTTCATTC
1 AAAATTAATAATATTTTATCTCATTC
32426121 AAAATTAATAATATTTTATCTCAT
1 AAAATTAATAATATTTTATCTCAT
32426145 CTGTTGTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (26 bp):
AAAATTAATAATATTTTATCTCATTC
Found at i:32429820 original size:202 final size:202
Alignment explanation
Indices: 32429474--32429844 Score: 661
Period size: 202 Copynumber: 1.8 Consensus size: 202
32429464 TATTCTAACA
32429474 TGAATGCTCAAGCGTTGACATAAGCTGTACCTGTACTGACAAGATGTGAATATAGCATACCTTTG
1 TGAATGCTCAAGCGTTGACATAAGCTGTACCTGTACTGACAAGATGTGAATATAGCATACCTTTG
* * *
32429539 TTACTGTATAGTGGATTTTACTGTTGCTGGTTAAATCTCAAACTAATTGGTATCATGTTTTATGT
66 TTACTATATAGTGGATTTTACTGTTGCTGGTTAAATCTCAAACTAAATGGTATCATGTTTTATCT
* *
32429604 TTGACCACTAATTTTGTCCATAGTAGGTTCTTTTGTTTTCACCCAGAATAAATGGTCATTTCTTT
131 TTGACCACTAATTTTGTCCACAGTAGCTTCTTTTGTTTTCACCCAGAATAAATGGTCATTTCTTT
32429669 TTTAATG
196 TTTAATG
* *
32429676 TGAATGCTCAAGCTTTGACATAAGCTGTACCTGTACTGAGAAGATGTGAATATAGCATACCTTTG
1 TGAATGCTCAAGCGTTGACATAAGCTGTACCTGTACTGACAAGATGTGAATATAGCATACCTTTG
**
32429741 TTACTATATAGTGGATTTTACTGTTGCTGGTTAAATCTCAAACTAAATGGTATTTTGTTTTATCT
66 TTACTATATAGTGGATTTTACTGTTGCTGGTTAAATCTCAAACTAAATGGTATCATGTTTTATCT
32429806 TTGACCACTAATTTTGTCCACAGTAGCTTCTTTTGTTTT
131 TTGACCACTAATTTTGTCCACAGTAGCTTCTTTTGTTTT
32429845 AATTGTGAAT
Statistics
Matches: 160, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
202 160 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (202 bp):
TGAATGCTCAAGCGTTGACATAAGCTGTACCTGTACTGACAAGATGTGAATATAGCATACCTTTG
TTACTATATAGTGGATTTTACTGTTGCTGGTTAAATCTCAAACTAAATGGTATCATGTTTTATCT
TTGACCACTAATTTTGTCCACAGTAGCTTCTTTTGTTTTCACCCAGAATAAATGGTCATTTCTTT
TTTAATG
Found at i:32442174 original size:344 final size:340
Alignment explanation
Indices: 32441534--32442191 Score: 801
Period size: 344 Copynumber: 1.9 Consensus size: 340
32441524 CATATAGCTT
32441534 TTTGACATTCCGATTGTACATTAAGATACAATGGTGTCAATCGAGAATTCCTTTTGCTTTATTGT
1 TTTGACATTCCGATTGTACATTAAGATACAATGGTGTCAATCGAGAATTCCTTTTGCTTTATTGT
* * * * *
32441599 CATGATGGTTTTGGTTGGTTAAGCTTAACGTGAGAACTACTTTGTGGTGTTTGGAGAAATAAAGA
66 CATGACGGATTTGGTTGGTTAAGCTTAACGTGAAAACCACATTGTGGTGTTTGGAGAAATAAAGA
** * *
32441664 ATTTGTAAGTTGTGGGCATATGTGACATTCTTATACATTAAGGTATAATGGTACCAATATGTTAA
131 AACTATAAGTTGTGGGCATATGTGACATTCTTATACATTAAGGTATAATGGTACCAATATGTAAA
* * * *** **
32441729 TCTAACATCTTAGTTTGTGATGCATTCCCATTTTACCATCAAAGTTGTAATGGTGCATTTTTTAT
196 TCTAACATCTTAGTATGTGATGCATTCCCATTTTACCATCAAAGTTG-AATAGTACAAAATAGAT
*
32441794 ATTTAAAATATTTAACATGACATTCCTATTGTGCAATAAAGGCACAATGATGCTTTTGTGAACAT
260 ATTTAAAATATTTAACATGACATTCCTATTGTGCAAT-AAGACACAATGATGCTTTTGTGAACAT
32441859 ATAGCTTGATGTGTTAA
324 ATAGCTTGATGTGTTAA
* * *
32441876 TTTGACATTCCGATTGTACATTAAGGA-ACAATGGTGTCAATTGGGAATTCATTGTTTG-TTTAT
1 TTTGACATTCCGATTGTACATTAA-GATACAATGGTGTCAATCGAGAATTC-CT-TTTGCTTTAT
* *
32441939 TGTCATGACGGATTTGGTTGGTT-AGTTTAA-GATGAAAACCACATTGTTGTGTTTGGAGAAATA
63 TGTCATGACGGATTTGGTTGGTTAAGCTTAACG-TGAAAACCACATTGTGGTGTTTGGAGAAATA
* * * * *
32442002 TATAAACTATAAAG-TGTGGGCAT-TGTGACATTCTTATTATACATTAAGGTATAGTGGTGCTAA
127 AAGAAACTAT-AAGTTGTGGGCATATGTGACATTC---TTATACATTAAGGTATAATGGTACCAA
* * * * *
32442065 TATGTAAATTTAATATCTTGGTATGTGATGCATTCCTATTTTACTATCAAATGTATG-ATAGTAC
188 TATGTAAATCTAACATCTTAGTATGTGATGCATTCCCATTTTACCATCAAA-GT-TGAATAGTAC
* * * * *
32442129 AAAATAGATATTTAATATATTT-TCTATGGCATTCTTATTGTGCAATAAGACACAATGGTGCTT
251 AAAATAGATATTTAAAATATTTAAC-ATGACATTCCTATTGTGCAATAAGACACAATGATGCTT
32442192 ATTGCACAAT
Statistics
Matches: 267, Mismatches: 38, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
341 11 0.04
342 92 0.34
343 48 0.18
344 112 0.42
345 2 0.01
346 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.39
Consensus pattern (340 bp):
TTTGACATTCCGATTGTACATTAAGATACAATGGTGTCAATCGAGAATTCCTTTTGCTTTATTGT
CATGACGGATTTGGTTGGTTAAGCTTAACGTGAAAACCACATTGTGGTGTTTGGAGAAATAAAGA
AACTATAAGTTGTGGGCATATGTGACATTCTTATACATTAAGGTATAATGGTACCAATATGTAAA
TCTAACATCTTAGTATGTGATGCATTCCCATTTTACCATCAAAGTTGAATAGTACAAAATAGATA
TTTAAAATATTTAACATGACATTCCTATTGTGCAATAAGACACAATGATGCTTTTGTGAACATAT
AGCTTGATGTGTTAA
Found at i:32448278 original size:11 final size:11
Alignment explanation
Indices: 32448262--32448292 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
32448252 CATGCATTCA
32448262 TTTAAATATTG
1 TTTAAATATTG
32448273 TTTAAATATTG
1 TTTAAATATTG
32448284 TTTAAATAT
1 TTTAAATAT
32448293 GATTGCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
TTTAAATATTG
Done.