Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 97 of 185
Found at i:30845045 original size:19 final size:19
Alignment explanation
Indices: 30845017--30845055 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
30845007 ATTTAAACTT
30845017 TCATTCCATTTCATAATCA
1 TCATTCCATTTCATAATCA
* *
30845036 TCATTTCATTTCATATTCA
1 TCATTCCATTTCATAATCA
30845055 T
1 T
30845056 TTAACATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.49
Consensus pattern (19 bp):
TCATTCCATTTCATAATCA
Found at i:30845171 original size:11 final size:11
Alignment explanation
Indices: 30845156--30845189 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
30845146 TTTCAATTTA
30845156 ATTTTTTTCA-
1 ATTTTTTTCAT
30845166 ATTTTTTTCAT
1 ATTTTTTTCAT
30845177 A-TTTTTTCAT
1 ATTTTTTTCAT
30845187 ATT
1 ATT
30845190 AATTAGAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 20 0.91
11 2 0.09
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTTTTTCAT
Found at i:30845260 original size:21 final size:21
Alignment explanation
Indices: 30845218--30845260 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
30845208 TATTAAGGTC
*
30845218 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
*
30845239 ATTTAAATTTTTTC-TCAATTT
1 ATTTAAAATTTTTCAT-AATTT
30845260 A
1 A
30845261 AATATCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:30845348 original size:11 final size:11
Alignment explanation
Indices: 30845316--30845348 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
30845306 AAATTTCTCA
30845316 TTTA-ATTTTT
1 TTTAGATTTTT
*
30845326 ATTAGATTTTT
1 TTTAGATTTTT
30845337 TTTAGATTTTT
1 TTTAGATTTTT
30845348 T
1 T
30845349 AAGCCTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 3 0.15
11 17 0.85
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (11 bp):
TTTAGATTTTT
Found at i:30845464 original size:5 final size:5
Alignment explanation
Indices: 30845456--30845532 Score: 109
Period size: 5 Copynumber: 14.6 Consensus size: 5
30845446 GTCCTTTTTT
*
30845456 TTTCA TTTCA TTTCTA TTTCTA TTTCA TTTCA TTTCA TTTCCA TTCCA
1 TTTCA TTTCA TTTC-A TTTC-A TTTCA TTTCA TTTCA TTT-CA TTTCA
30845504 TTTCA TTTCA TTTCA TTTCCA TTTCA TTT
1 TTTCA TTTCA TTTCA TTT-CA TTTCA TTT
30845533 AAATTATCTC
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
5 47 0.70
6 20 0.30
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:30845490 original size:16 final size:15
Alignment explanation
Indices: 30845456--30845532 Score: 109
Period size: 16 Copynumber: 4.9 Consensus size: 15
30845446 GTCCTTTTTT
30845456 TTTCATTTCATTTCTA
1 TTTCATTTCATTTC-A
30845472 TTTCTATTTCATTTCA
1 TTTC-ATTTCATTTCA
*
30845488 TTTCATTTCCATTCCA
1 TTTCATTT-CATTTCA
30845504 TTTCATTTCATTTCA
1 TTTCATTTCATTTCA
30845519 TTTCCATTTCATTT
1 TTT-CATTTCATTT
30845533 AAATTATCTC
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
15 13 0.23
16 33 0.59
17 10 0.18
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTCATTTCATTTCA
Found at i:30845505 original size:21 final size:21
Alignment explanation
Indices: 30845459--30845532 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
30845449 CTTTTTTTTT
* *
30845459 CATTTCATTTCTATTTCTATTT
1 CATTTCATTTC-ATTTCCATTC
30845481 CATTTCATTTCATTTCCATTC
1 CATTTCATTTCATTTCCATTC
30845502 CATTTCATTTCATTT-CATTTC
1 CATTTCATTTCATTTCCA-TTC
30845523 CATTTCATTT
1 CATTTCATTT
30845533 AAATTATCTC
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
20 2 0.04
21 36 0.73
22 11 0.22
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (21 bp):
CATTTCATTTCATTTCCATTC
Found at i:30845505 original size:624 final size:632
Alignment explanation
Indices: 30844394--30845581 Score: 1516
Period size: 624 Copynumber: 1.9 Consensus size: 632
30844384 AAATTACATT
**
30844394 TCATTCCATATTCATATTTCATTTAACATTTCATTTAATTAATTTTTTTTCATTTAAATTTATTT
1 TCATTCCATATTCATATTTCATTTAACATTTCATTTAATTAAAATTTTTTCATTTAAATTTATTT
**
30844459 TTTTCCTAATATACAATTTTTTTTCATATTAATCACAACTAGTCTCATTTCAAGTTATCTTTTTT
66 TTTTCCTAATATACAATTTTTTTTCATATTAATCACAACTAGTCTCATTTCAAGTTATAATTTTT
30844524 CAATTCAAAATTTTTTTAATTCATTTCATATTTTTTCATATTAATTAGAAGTAGTCTCAATATTA
131 --ATTC-AAA----TTT-ATT-ATTTCATATTTTTTCATATTAATTAGAAGTAGTCTCAATATTA
* * * * *
30844589 GGGTCATTTAAATTTTTCATATTTTATTTAAATTTTTTTCTCTATTTTAATATCATTCTATTAGA
187 AGGTCATTTAAATTTTTCATATTTTATTTAAATTTTTTTCTCAATTTAAATATCATTCCATTACA
* * * * * *
30844654 AAATTTTAAATTTCATTTAAATTTAAAAACTTCCTCATTTCATATTTTTTGGGTTTTCATTTTTA
252 AAATTTTAAATTTCATTTAAATTAAAAAAATTCCTCATTTAATATTTTTTAGATTTT-ATTTTGA
* ** * * ***
30844719 TTTTTTAGGCCTAAAATATTAGGTCAAATTGTAGGCACTAAGCGTATTGGTGCTGGCCACTAATA
316 TTTTTTAAGCCTAAAATATTAGGTCAAATCCTAAGCACTAAGCCTATTGGTGCCAACCACTAATA
* * * * * *
30844784 TACCATTTCCCAAGCCTGGCCTAACATGTCTTTTCATCTTTATTTCTTTTTTTCATTTCATTTCA
381 TACCATTTCCCAAGCCTGGCCTAACATGGC-TCTAATATGTACTTCTTTTTTTCATTTCATTTCA
* ** *
30844849 TTTCTTTCTTTTCATTTCATTTGTATTTCCATTTCATTTCATTTACATTTACTTTTCATTTAAAT
445 TTTCTTTCATTTCATTTCATTTCCATTTCCATTTCATTTCATTT-CATTTACATTTCATTTAAAT
30844914 TA-TTTTTTTCCATTTAAATTTAA-TTATTTCTCATTTCAAAATTTTTATTTTCATTTCACTTTT
509 TATTTTTTTTCCATTTAAATTTAATTTATTTCTCATTTCAAAATTTTTATTTTCATTTCACTTTT
30844977 TGTTTTCATTTAAATTTATAATTTATTTTCATTTAAACTTTCATTCCATTTCATAATCA
574 TGTTTTCATTTAAATTTATAATTTATTTTCATTTAAACTTTCATTCCATTTCATAATCA
* *
30845036 TCATTTCAT-TTCATA-TTCATTTAACATTTCATTTAATTAAAATTTTTTCATTTATATTTATTT
1 TCATTCCATATTCATATTTCATTTAACATTTCATTTAATTAAAATTTTTTCATTTAAATTTATTT
*
30845099 TTTTCCTAATATACAATTTTTTTTCATATTAATCACAAGTAGTCTCATTTCAA-TT-TAATTTTT
66 TTTTCCTAATATACAATTTTTTTTCATATTAATCACAACTAGTCTCATTTCAAGTTATAATTTTT
30845162 -TTC-AA-TT-TT-TTTCATATTTTTTCATATTAATTAGAAGTAGTCTCAATATTAAGGTCATTT
131 ATTCAAATTTATTATTTCATATTTTTTCATATTAATTAGAAGTAGTCTCAATATTAAGGTCATTT
30845222 AAAATTTTTCATATTTTATTTAAA-TTTTTTCTCAATTTAAATATCATTCCATTACAAAATTTTA
196 -AAATTTTTCATATTTTATTTAAATTTTTTTCTCAATTTAAATATCATTCCATTACAAAATTTTA
* *
30845286 AATTTTATTTAAATTAAAAAAAATTTCTCATTTAAT-TTTTATTAGATTTT-TTTTAGATTTTTT
260 AATTTCATTTAAATT-AAAAAAATTCCTCATTTAATATTTT-TTAGATTTTATTTT-GATTTTTT
* * * * * * * *
30845349 AAGCCTGAAATGTTGGGTCAAATCCTAAGCATTAGGCCTGTTGGTGCCAACCATTGATACT-CCA
322 AAGCCTAAAATATTAGGTCAAATCCTAAGCACTAAGCCTATTGGTGCCAACCACTAATA-TACCA
* * * *
30845413 TTTCCC-AGACCTGTCGC-AGGCCTGGC-CTAATATGTCCTT-TTTTTTTCATTTCATTTCTATT
386 TTTCCCAAG-CCTGGC-CTA-ACATGGCTCTAATATGTACTTCTTTTTTTCATTTCATTTC-ATT
*
30845474 TCTATTTCATTTCATTTCATTTCCA-TTCCATTTCATTTCATTTCATTTCCATTTCATTTAAATT
447 TC--TTTCATTTCATTTCATTTCCATTTCCATTTCATTTCATTTCATTTACATTTCATTTAAATT
*
30845538 ATCTCTTTTTTTTCCATTTAAATTTAATTTTTTTTCTCATTTCA
510 A----TTTTTTTTCCATTTAAATTTAA-TTTATTTCTCATTTCA
30845582 TTTAAGTTAT
Statistics
Matches: 476, Mismatches: 52, Indels: 48
0.83 0.09 0.08
Matches are distributed among these distances:
622 18 0.04
623 38 0.08
624 187 0.39
625 70 0.15
626 2 0.00
628 23 0.05
630 14 0.03
633 2 0.00
635 3 0.01
638 6 0.01
639 2 0.00
640 97 0.20
641 6 0.01
642 8 0.02
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.52
Consensus pattern (632 bp):
TCATTCCATATTCATATTTCATTTAACATTTCATTTAATTAAAATTTTTTCATTTAAATTTATTT
TTTTCCTAATATACAATTTTTTTTCATATTAATCACAACTAGTCTCATTTCAAGTTATAATTTTT
ATTCAAATTTATTATTTCATATTTTTTCATATTAATTAGAAGTAGTCTCAATATTAAGGTCATTT
AAATTTTTCATATTTTATTTAAATTTTTTTCTCAATTTAAATATCATTCCATTACAAAATTTTAA
ATTTCATTTAAATTAAAAAAATTCCTCATTTAATATTTTTTAGATTTTATTTTGATTTTTTAAGC
CTAAAATATTAGGTCAAATCCTAAGCACTAAGCCTATTGGTGCCAACCACTAATATACCATTTCC
CAAGCCTGGCCTAACATGGCTCTAATATGTACTTCTTTTTTTCATTTCATTTCATTTCTTTCATT
TCATTTCATTTCCATTTCCATTTCATTTCATTTCATTTACATTTCATTTAAATTATTTTTTTTCC
ATTTAAATTTAATTTATTTCTCATTTCAAAATTTTTATTTTCATTTCACTTTTTGTTTTCATTTA
AATTTATAATTTATTTTCATTTAAACTTTCATTCCATTTCATAATCA
Found at i:30845611 original size:27 final size:26
Alignment explanation
Indices: 30845548--30845686 Score: 102
Period size: 27 Copynumber: 5.6 Consensus size: 26
30845538 ATCTCTTTTT
*
30845548 TTTCCATTTAAATTTAA-T-T-TTT-
1 TTTCCATTTTAATTTAATTATCTTTC
*
30845570 TTTCTCA-TTTCATTTAAGTTATCTTTC
1 TTTC-CATTTTAATTTAA-TTATCTTTC
*
30845597 TTTCCATTTTAATTTAATT-TTTTTC
1 TTTCCATTTTAATTTAATTATCTTTC
* *
30845622 TCATTTCATTTAAATTTAATTAT-TTTC
1 T--TTCCATTTTAATTTAATTATCTTTC
*
30845649 --T-C-TTTTCATTTAAGTTATCTTTC
1 TTTCCATTTTAATTTAA-TTATCTTTC
30845672 TTTCCATTTTAATTT
1 TTTCCATTTTAATTT
30845687 TTTTTCATAT
Statistics
Matches: 92, Mismatches: 9, Indels: 27
0.72 0.07 0.21
Matches are distributed among these distances:
21 9 0.10
22 17 0.18
23 7 0.08
24 1 0.01
25 8 0.09
26 8 0.09
27 41 0.45
28 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.01, T:0.63
Consensus pattern (26 bp):
TTTCCATTTTAATTTAATTATCTTTC
Found at i:30845615 original size:49 final size:50
Alignment explanation
Indices: 30845519--30845637 Score: 172
Period size: 48 Copynumber: 2.4 Consensus size: 50
30845509 TTTCATTTCA
*
30845519 TTTC-CATTTCATTTAAATTATCTCTTTTTTTTCCATTTAAATTTAATTTTT
1 TTTCTCATTTCATTTAAATTA-CTCTTTTCTTTCCATTTAAATTTAA-TTTT
* *
30845570 TTTCTCATTTCATTTAAGTTA-TC-TTTCTTTCCATTTTAATTTAATTTT
1 TTTCTCATTTCATTTAAATTACTCTTTTCTTTCCATTTAAATTTAATTTT
30845618 TTTCTCATTTCATTTAAATT
1 TTTCTCATTTCATTTAAATT
30845638 TAATTATTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
48 23 0.37
49 19 0.30
50 2 0.03
51 4 0.06
52 15 0.24
ACGTcount: A:0.23, C:0.14, G:0.01, T:0.62
Consensus pattern (50 bp):
TTTCTCATTTCATTTAAATTACTCTTTTCTTTCCATTTAAATTTAATTTT
Found at i:30845660 original size:21 final size:20
Alignment explanation
Indices: 30845635--30845692 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
30845625 TTTCATTTAA
*
30845635 ATTTAATTATTTTCTCTTTTC
1 ATTTAATTATTTT-TCTTTCC
*
30845656 ATTTAAGTTATCTTTCTTTCC
1 ATTTAA-TTATTTTTCTTTCC
*
30845677 ATTTTAATTTTTTTTC
1 A-TTTAATTATTTTTC
30845693 ATATTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.19, C:0.14, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTAATTATTTTTCTTTCC
Found at i:30845732 original size:15 final size:15
Alignment explanation
Indices: 30845676--30845732 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
30845666 TCTTTCTTTC
30845676 CATTTTAATTTTTTTT
1 CATTTTAA-TTTTTTT
*
30845692 CATATTAATTTTTCTCT
1 CATTTTAATTTTT-T-T
* *
30845709 CATTGTAATTTATTT
1 CATTTTAATTTTTTT
30845724 CATTTTAAT
1 CATTTTAAT
30845733 GTGTTTTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 14 0.41
16 9 0.26
17 11 0.32
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.63
Consensus pattern (15 bp):
CATTTTAATTTTTTT
Found at i:30848724 original size:12 final size:12
Alignment explanation
Indices: 30848693--30848718 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30848683 TTCAACTAAT
30848693 AAAGCAAACAAA
1 AAAGCAAACAAA
30848705 AAAGCAAACAAA
1 AAAGCAAACAAA
30848717 AA
1 AA
30848719 CTCAAATGGA
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:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAGCAAACAAA
Found at i:30849068 original size:49 final size:50
Alignment explanation
Indices: 30848960--30849076 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 50
30848950 CCGAAAATTG
* *
30848960 TACCTGGTGCCGGCCATTTACTGGCCAGCACCCAATTTTTTTTATTAAATG
1 TACCTGGTGCCGGCCA-TTACTGGCCAACACCCAATTTTTTTTATTAAATA
* *
30849011 TACTTGGTGCCGACCATTACATGGCCAACA-CCAATTTTTTTT-TTAAA-A
1 TACCTGGTGCCGGCCATTAC-TGGCCAACACCCAATTTTTTTTATTAAATA
30849059 TACACTGGTGCCGGCCAT
1 TAC-CTGGTGCCGGCCAT
30849077 CAGTGTTTGA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
48 3 0.05
49 17 0.29
50 16 0.28
51 22 0.38
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (50 bp):
TACCTGGTGCCGGCCATTACTGGCCAACACCCAATTTTTTTTATTAAATA
Found at i:30849965 original size:18 final size:18
Alignment explanation
Indices: 30849926--30849965 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
30849916 TTATACGTAT
30849926 TATGATTTTGGTATTTAA
1 TATGATTTTGGTATTTAA
**
30849944 -ATGATTTTTTTATTTAA
1 TATGATTTTGGTATTTAA
30849961 TATGA
1 TATGA
30849966 CACCTGAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (18 bp):
TATGATTTTGGTATTTAA
Found at i:30850375 original size:38 final size:43
Alignment explanation
Indices: 30850288--30850378 Score: 102
Period size: 45 Copynumber: 2.2 Consensus size: 43
30850278 AGGGAGAATT
*
30850288 AAAAAATAAAAAATAATCAAAATTTAAAAATATTAGAATATTTTG
1 AAAAAATAAAAAATAATCAAAATTT-AAAATA-TAGAATATTTTA
**
30850333 AAAAAATAAAAAATCCT-AAAATTT-AAATA-AG-ATA-TTTA
1 AAAAAATAAAAAATAATCAAAATTTAAAATATAGAATATTTTA
30850371 AAAAAATA
1 AAAAAATA
30850379 CATAAATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
38 11 0.26
39 3 0.07
40 2 0.05
42 5 0.12
44 7 0.16
45 15 0.35
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (43 bp):
AAAAAATAAAAAATAATCAAAATTTAAAATATAGAATATTTTA
Found at i:30852140 original size:34 final size:34
Alignment explanation
Indices: 30852102--30852171 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
30852092 CCATTTAAAA
*
30852102 AAAAATCGGTGTTGCCATTTTTGTTGGCGGCACC
1 AAAAATCGGTGTCGCCATTTTTGTTGGCGGCACC
30852136 AAAAATCGGTGTCGCCATTTTTGTTGGCGGCACC
1 AAAAATCGGTGTCGCCATTTTTGTTGGCGGCACC
30852170 AA
1 AA
30852172 TATGTATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (34 bp):
AAAAATCGGTGTCGCCATTTTTGTTGGCGGCACC
Found at i:30855961 original size:26 final size:26
Alignment explanation
Indices: 30855930--30856013 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
30855920 CTTATGAACG
30855930 TCCCGA-TATATGGCTCTTCGTGAGCT
1 TCCCGATTA-ATGGCTCTTCGTGAGCT
* *
30855956 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* *
30855982 TCCTGATTAATGGCTCTCCG-GAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
*
30856007 TTCCGAT
1 TCCCGAT
30856014 ATTGATTCGC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
25 10 0.20
26 37 0.76
27 2 0.04
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.35
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTCGTGAGCT
Found at i:30863557 original size:13 final size:13
Alignment explanation
Indices: 30863539--30863588 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
30863529 TTTAAACCAA
30863539 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
* *
30863552 AATTTTCAAAAGC
1 ACTTTTCAAAAGT
* *
30863565 ACTTTTCCATAGT
1 ACTTTTCAAAAGT
30863578 ACTTTTCAAAA
1 ACTTTTCAAAA
30863589 ACAATGAAGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:30863568 original size:26 final size:26
Alignment explanation
Indices: 30863539--30863588 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
30863529 TTTAAACCAA
30863539 ACTTTTCAAAAGTAATTTTCAAAAGC
1 ACTTTTCAAAAGTAATTTTCAAAAGC
* * *
30863565 ACTTTTCCATAGTACTTTTCAAAA
1 ACTTTTCAAAAGTAATTTTCAAAA
30863589 ACAATGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (26 bp):
ACTTTTCAAAAGTAATTTTCAAAAGC
Found at i:30865472 original size:54 final size:54
Alignment explanation
Indices: 30865390--30865493 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 54
30865380 TACTTTTTAA
* * *
30865390 ATTATTTCATCTCCATCGCTTCTAACCCATAATTTTAGGTCCTCGTTTGGTTAG
1 ATTATCTCATCTCCAGCGCTTCTAACCCATAATTTTAGGTCCTCATTTGGTTAG
30865444 ATTATCTCATCTCCAGCGCTTCTAACCCATAATTTTAGGTCCTCATTTGG
1 ATTATCTCATCTCCAGCGCTTCTAACCCATAATTTTAGGTCCTCATTTGG
30865494 CTACTTTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.40
Consensus pattern (54 bp):
ATTATCTCATCTCCAGCGCTTCTAACCCATAATTTTAGGTCCTCATTTGGTTAG
Found at i:30865644 original size:263 final size:263
Alignment explanation
Indices: 30865177--30865705 Score: 986
Period size: 263 Copynumber: 2.0 Consensus size: 263
30865167 ATTTTACTTT
*
30865177 TTAGATTATCTCATCTCCAACGTTTCTAACCCATAATTTTAGGTACTCATTTGGCTACTTTATAA
1 TTAGATTATCTCATCTCCAACGCTTCTAACCCATAATTTTAGGTACTCATTTGGCTACTTTATAA
*
30865242 CTAGCCTCCGAATTAAAAGGAAACGATTGTTATACTTATTAACTAGTCACTATCAAACATTAGAA
66 CTAGCCTCCGAATCAAAAGGAAACGATTGTTATACTTATTAACTAGTCACTATCAAACATTAGAA
30865307 TCTAACTGATGATACCAAGCAAAGCCATAAGAACACCCCTCTAGAGGTCGAAGCTAAAATGGCCA
131 TCTAACTGATGATACCAAGCAAAGCCATAAGAACACCCCTCTAGAGGTCGAAGCTAAAATGGCCA
30865372 ATATATTTTACTTTTTAAATTATTTCATCTCCATCGCTTCTAACCCATAATTTTAGGTCCTCGTT
196 ATATATTTTACTTTTTAAATTATTTCATCTCCATCGCTTCTAACCCATAATTTTAGGTCCTCGTT
30865437 TGG
261 TGG
* *
30865440 TTAGATTATCTCATCTCCAGCGCTTCTAACCCATAATTTTAGGTCCTCATTTGGCTACTTTATAA
1 TTAGATTATCTCATCTCCAACGCTTCTAACCCATAATTTTAGGTACTCATTTGGCTACTTTATAA
* * *
30865505 CTAGCCTTCGAATCAAAGGGGAACGATTGTTATACTTATTAACTAGTCACTATCAAACATTAGAA
66 CTAGCCTCCGAATCAAAAGGAAACGATTGTTATACTTATTAACTAGTCACTATCAAACATTAGAA
*
30865570 TCTAATTGATGATACCAAGCAAAGCCATAAGAACACCCCTCTAGAGGTCGAAGCTAAAATGGCCA
131 TCTAACTGATGATACCAAGCAAAGCCATAAGAACACCCCTCTAGAGGTCGAAGCTAAAATGGCCA
30865635 ATATATTTTACTTTTTAAATTATTTCATCTCCATCGCTTCTAACCCATAATTTTAGGTCCTCGTT
196 ATATATTTTACTTTTTAAATTATTTCATCTCCATCGCTTCTAACCCATAATTTTAGGTCCTCGTT
30865700 TGG
261 TGG
30865703 TTA
1 TTA
30865706 TTTTATAACT
Statistics
Matches: 258, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
263 258 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.34
Consensus pattern (263 bp):
TTAGATTATCTCATCTCCAACGCTTCTAACCCATAATTTTAGGTACTCATTTGGCTACTTTATAA
CTAGCCTCCGAATCAAAAGGAAACGATTGTTATACTTATTAACTAGTCACTATCAAACATTAGAA
TCTAACTGATGATACCAAGCAAAGCCATAAGAACACCCCTCTAGAGGTCGAAGCTAAAATGGCCA
ATATATTTTACTTTTTAAATTATTTCATCTCCATCGCTTCTAACCCATAATTTTAGGTCCTCGTT
TGG
Found at i:30873992 original size:26 final size:27
Alignment explanation
Indices: 30873940--30874002 Score: 119
Period size: 26 Copynumber: 2.4 Consensus size: 27
30873930 ATTAAAAATA
30873940 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
30873967 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
30873993 ACCAAAATAT
1 ACCAAAATAT
30874003 ACAAAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.58
27 15 0.42
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:30874272 original size:19 final size:21
Alignment explanation
Indices: 30874234--30874272 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
30874224 AATAATTGAT
*
30874234 TATATTGTTGTTATTGTTTTG
1 TATATTGTTGTTATTATTTTG
30874255 TATATT-TTG-TATTATTTT
1 TATATTGTTGTTATTATTTT
30874273 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.69
Consensus pattern (21 bp):
TATATTGTTGTTATTATTTTG
Found at i:30884259 original size:32 final size:33
Alignment explanation
Indices: 30884219--30884291 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
30884209 ACCTTTTTTT
*
30884219 TTCTTTTTT-TCCT-TCCTTCCCTCTTCTTCTTC
1 TTCTTTTTTCTCCTCTCCTTCCCTCTTCTT-TCC
* * *
30884251 TTCTTTTTTCTCTTCTCCTTTCCTTTTCTTTCC
1 TTCTTTTTTCTCCTCTCCTTCCCTCTTCTTTCC
30884284 TTCTTTTT
1 TTCTTTTT
30884292 CTTTCTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 9 0.26
33 13 0.37
34 13 0.37
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (33 bp):
TTCTTTTTTCTCCTCTCCTTCCCTCTTCTTTCC
Found at i:30884264 original size:21 final size:21
Alignment explanation
Indices: 30884239--30884304 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
30884229 CCTTCCTTCC
30884239 CTCTTCTTCTTCTTCTTTTTT
1 CTCTTCTTCTTCTTCTTTTTT
* *
30884260 CTCTTCTCCTT-TCCTTTTCTT
1 CTCTTCTTCTTCTTCTTTT-TT
*
30884281 -TCCTTCTTTTTCTTTCTTTTTT
1 CT-CTTCTTCTTC-TTCTTTTTT
30884303 CT
1 CT
30884305 TCTCCTTTCC
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
20 7 0.20
21 19 0.54
22 2 0.06
23 7 0.20
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (21 bp):
CTCTTCTTCTTCTTCTTTTTT
Found at i:30884297 original size:36 final size:35
Alignment explanation
Indices: 30884243--30884330 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 35
30884233 CCTTCCCTCT
*
30884243 TCTTCTTCTTCTTTTTTCTCTTCTCCTT-TCCTTTTC
1 TCTTCTTCTT-TTTTTTCT-TTCTCCTTCTCCTTTCC
* *
30884279 T-TTCCTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCC
1 TCTT-CTTCTTTTT-TTTCTTTCTCCTTCTCCTTTCC
30884315 TCTTCTTCTTTTTTTT
1 TCTTCTTCTTTTTTTT
30884331 TCTGTTAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
35 14 0.31
36 29 0.64
37 2 0.04
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (35 bp):
TCTTCTTCTTTTTTTTCTTTCTCCTTCTCCTTTCC
Found at i:30884321 original size:41 final size:42
Alignment explanation
Indices: 30884241--30884321 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 42
30884231 TTCCTTCCCT
*
30884241 CTTCTTCTTCTTCTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTCTTCTTCTTTTTTCTCTTCTCCTTTCCTCTTCTTTC
*
30884283 CTTCTTTTTCTT-TCTTTTT-TCTTCTCCTTTCCTCTTCTT
1 CTTCTTCTTCTTCT-TTTTTCTCTTCTCCTTTCCTCTTCTT
30884322 CTTTTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 20 0.56
42 16 0.44
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (42 bp):
CTTCTTCTTCTTCTTTTTTCTCTTCTCCTTTCCTCTTCTTTC
Found at i:30886283 original size:26 final size:26
Alignment explanation
Indices: 30886212--30886264 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
30886202 ATTTTCCCAT
*
30886212 TCTCCTTTCCTTCTTTTTCTTTCTTTCC
1 TCTCC-TTCCTTC-CTTTCTTTCTTTCC
30886240 TCTCCTTCCTTCCTTTCTTTCTTTC
1 TCTCCTTCCTTCCTTTCTTTCTTTC
30886265 TTTCTTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.50
27 7 0.29
28 5 0.21
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (26 bp):
TCTCCTTCCTTCCTTTCTTTCTTTCC
Found at i:30886355 original size:27 final size:26
Alignment explanation
Indices: 30886317--30886367 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
30886307 TATTATAACA
*
30886317 TTGGTCCCGCCAATCACTTTGGCACCT
1 TTGGTCCCGCCAA-CACCTTGGCACCT
*
30886344 TTGGTGCCGCCAACACCTTGGCAC
1 TTGGTCCCGCCAACACCTTGGCAC
30886368 GACCAGGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.16, C:0.37, G:0.22, T:0.25
Consensus pattern (26 bp):
TTGGTCCCGCCAACACCTTGGCACCT
Found at i:30886452 original size:26 final size:28
Alignment explanation
Indices: 30886423--30886483 Score: 108
Period size: 26 Copynumber: 2.2 Consensus size: 28
30886413 ATTTTTTGGT
30886423 ATATTTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
30886449 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
30886477 ATATTTT
1 ATATTTT
30886484 AATTATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 14 0.42
27 7 0.21
28 12 0.36
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:30890867 original size:180 final size:177
Alignment explanation
Indices: 30890544--30890869 Score: 483
Period size: 180 Copynumber: 1.8 Consensus size: 177
30890534 GCATATGTGG
* * *
30890544 CATGCGAAACTTCATCTCCATGCGAGATTAATTCTGCAGCCTTATCTTTAATAATCCTAGCTACA
1 CATGCGAAACTTCATCTCCACGCGAGATTAATTCTGCAGCCTTACCTTTAAGAATCCTAGCTACA
* * * *
30890609 TCATTAGCTATAACATGGCACACCGTCTCTGTCAAAGCCTCAAACTTAGCTATAACATCTTCACT
66 CCATCAGCTATAACATGGCACACCGTCTCTGTCAAAGCCTCAAACTTAGCCATAACATCTTCACC
*
30890674 CGTGATCTTATCACCAGATACATATGTTTCTTCTACTTCATTATAGA
131 CATGATCTTATCACCAGATACATATGTTTCTTCTACTTCATTATAGA
* * *
30890721 CATGGGAAACTTCATTTCTTCCACGCGAGATTGATTCTGCAGCCTTACCTTTAAGGATCCTAGCT
1 CATGCGAAACTTCA--TC-TCCACGCGAGATTAATTCTGCAGCCTTACCTTTAAGAATCCTAGCT
* * *
30890786 ACACCATCAGCTATAATATGGGA-AGCCTTCTCTGTCAAAGCCTCAAACTTAGCCATAACATCTT
63 ACACCATCAGCTATAACATGGCACA-CCGTCTCTGTCAAAGCCTCAAACTTAGCCATAACATCTT
30890850 CACCCATGATCTTATCACCA
127 CACCCATGATCTTATCACCA
30890870 AACTTAGCCA
Statistics
Matches: 131, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
177 13 0.10
179 3 0.02
180 115 0.88
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (177 bp):
CATGCGAAACTTCATCTCCACGCGAGATTAATTCTGCAGCCTTACCTTTAAGAATCCTAGCTACA
CCATCAGCTATAACATGGCACACCGTCTCTGTCAAAGCCTCAAACTTAGCCATAACATCTTCACC
CATGATCTTATCACCAGATACATATGTTTCTTCTACTTCATTATAGA
Found at i:30890888 original size:39 final size:39
Alignment explanation
Indices: 30890829--30890908 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
30890819 GTCAAAGCCT
*
30890829 CAAACTTAGCCATAACATCTTCACCCATGATCTTATCAC
1 CAAACTTAGCCATAACATCTTCACCCACGATCTTATCAC
* *
30890868 CAAACTTAGCCATAAGATCTTCACTCACGATCTTATCAC
1 CAAACTTAGCCATAACATCTTCACCCACGATCTTATCAC
30890907 CA
1 CA
30890909 GATGCATATG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.34, C:0.33, G:0.06, T:0.28
Consensus pattern (39 bp):
CAAACTTAGCCATAACATCTTCACCCACGATCTTATCAC
Found at i:30894165 original size:7 final size:7
Alignment explanation
Indices: 30894155--30894179 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30894145 GATTTAAGGT
30894155 TTAGGGG
1 TTAGGGG
30894162 TTAGGGG
1 TTAGGGG
30894169 TTAGGGG
1 TTAGGGG
30894176 TTAG
1 TTAG
30894180 ATATTATGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:30894221 original size:8 final size:8
Alignment explanation
Indices: 30894199--30894227 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
30894189 GGTTTAATAG
30894199 TTAGGGAT
1 TTAGGGAT
30894207 TTA-GGAT
1 TTAGGGAT
30894214 TTAGGGAT
1 TTAGGGAT
30894222 TTAGGG
1 TTAGGG
30894228 GCCAGGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (8 bp):
TTAGGGAT
Found at i:30912118 original size:29 final size:29
Alignment explanation
Indices: 30912085--30912201 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
30912075 TGTAATTTTT
*
30912085 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
30912114 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
30912144 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
30912173 GGAAAAGTTTAGGGGTCAAAATGTAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
30912202 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:30912140 original size:30 final size:30
Alignment explanation
Indices: 30912100--30912201 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
30912090 ATTTAGGATT
*
30912100 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
30912130 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
30912160 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
30912190 AAAATGTAATTT
1 AAAATGAAATTT
30912202 TTATTTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:30912201 original size:60 final size:59
Alignment explanation
Indices: 30912072--30912201 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 59
30912062 TTCTGGGGCT
** * * *
30912072 AAATGTAATTTTTAGAAAATTTAGGATTAAAATGAAATTTAATGAAAGTTTAGGGGTCT
1 AAATGTAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTAGGGGTCA
* * * *
30912131 AAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTAAAGAAAATTT-AGGATCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCA
30912191 AAATGTAATTT
1 AAATGTAATTT
30912202 TTATTTTTTA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 19 0.33
60 39 0.67
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (59 bp):
AAATGTAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTAGGGGTCA
Found at i:30915910 original size:20 final size:20
Alignment explanation
Indices: 30915876--30915917 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
30915866 AACTATTTAA
** *
30915876 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
30915896 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
30915916 AT
1 AT
30915918 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:30918799 original size:23 final size:24
Alignment explanation
Indices: 30918769--30918814 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
30918759 ATAATTTATC
*
30918769 TTAAAAAA-ATTTTAAACGTAATG
1 TTAAAAAACATTTAAAACGTAATG
*
30918792 TTAAAAAACATTTAAAACTTAAT
1 TTAAAAAACATTTAAAACGTAAT
30918815 TTCCCACCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (24 bp):
TTAAAAAACATTTAAAACGTAATG
Found at i:30920662 original size:23 final size:23
Alignment explanation
Indices: 30920599--30920665 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
30920589 GCATTCTGTT
* * *
30920599 ATGCCTGTGTGGCATATTTTGTA
1 ATGCCTTTGTGGCATATTCTGCA
* * *
30920622 ACGCATTTGTGAG-GTATTCTGCA
1 ATGCCTTTGTG-GCATATTCTGCA
30920645 ATGCCTTTGTGGCATATTCTG
1 ATGCCTTTGTGGCATATTCTG
30920666 TGATCTCTCT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
22 1 0.03
23 31 0.94
24 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.40
Consensus pattern (23 bp):
ATGCCTTTGTGGCATATTCTGCA
Found at i:30924909 original size:28 final size:28
Alignment explanation
Indices: 30924869--30925022 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
30924859 TAAATTGTAC
30924869 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
30924897 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
30924925 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
30924953 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
30924981 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
30925008 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30925023 GACTTAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.20
28 98 0.80
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:30924935 original size:56 final size:55
Alignment explanation
Indices: 30924844--30925022 Score: 268
Period size: 56 Copynumber: 3.2 Consensus size: 55
30924834 GAGATTGGCG
* * * *
30924844 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATGTAGCA
*
30924901 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATGTAGCA
*
30924957 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATGTAGCA
*
30925012 CTGAGTGTGCG
1 CTAAGTGTGCG
30925023 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
55 23 0.20
56 75 0.66
57 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (55 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATGTAGCA
Found at i:30962479 original size:50 final size:49
Alignment explanation
Indices: 30962414--30962650 Score: 241
Period size: 50 Copynumber: 4.8 Consensus size: 49
30962404 ATTATGAGAT
30962414 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC-AGATAAGAG
* *
30962464 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAGGATGATAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-GATAAGAG
* * *
30962514 GTCTCC-CGTAAGACCATGTCTGGGACATGGCGTGGGCACC-GATATGAGAA
1 GTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAGATA--AGAG
* * * * * *
30962564 CTCCCATGTAAGACCATATCTGGGATATGGCATT--CA-CAGTACAAGAAAC
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAG-ATAAG--AG
* * *
30962613 ATACCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
30962651 TGTTATTATC
Statistics
Matches: 156, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
47 3 0.02
48 6 0.04
49 35 0.22
50 108 0.69
51 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (49 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAGATAAGAG
Found at i:30962865 original size:20 final size:20
Alignment explanation
Indices: 30962840--30962879 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
30962830 ATGAGTTATT
30962840 CAAGTAAGCA-AGTAAGTAAA
1 CAAGTAAG-AGAGTAAGTAAA
30962860 CAAGTAAGAGAGTAAGTAAA
1 CAAGTAAGAGAGTAAGTAAA
30962880 GAAAAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.55, C:0.07, G:0.23, T:0.15
Consensus pattern (20 bp):
CAAGTAAGAGAGTAAGTAAA
Found at i:30967197 original size:6 final size:6
Alignment explanation
Indices: 30967188--30967216 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
30967178 ACTAGAGATA
30967188 GAAATG GAAATG GAAATG GAAATG GAAAT
1 GAAATG GAAATG GAAATG GAAATG GAAAT
30967217 AATTCATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
GAAATG
Found at i:30972550 original size:125 final size:125
Alignment explanation
Indices: 30972323--30972700 Score: 578
Period size: 125 Copynumber: 3.0 Consensus size: 125
30972313 TTAGGGTTTT
* *
30972323 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGC
* * * * * * *
30972388 AGAATGCTGTTTGATAAGAATTTGTGAAATCGTGCCCTCGTGGATGCGCTTTTGCTACAG
66 AGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
*
30972448 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATAGATTCTAGC
1 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGC
*
30972513 AGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCTCTTTTTCTACAG
66 AGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
* * * *
30972573 CAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTAAGCAAATAATATAAAATCA-CTTCTAG
1 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAT-AGCTTCTAG
* * *
30972637 CAGGATGCTATTTGAGAAGAATTTGTGAAAGCGCGCCCTCGTGGACGTACTTTTTCTACAG
65 CAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
30972698 TAG
1 TAG
30972701 CATGTTTGGG
Statistics
Matches: 232, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 231 1.00
126 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGC
AGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
Found at i:30975898 original size:21 final size:21
Alignment explanation
Indices: 30975874--30977423 Score: 431
Period size: 23 Copynumber: 71.3 Consensus size: 21
30975864 ATCAAATAAA
*
30975874 TTTAAGTTAAGGGTTACGATT
1 TTTAAGTTAAGGGTTAGGATT
* * * *
30975895 TTTAAGTTCTA-GTTTA-AAGTC
1 TTTAAGTT-AAGGGTTAGGA-TT
* * *
30975916 TTAAAGTTAATGGTTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
* *
30975938 TTTAAGTTAAGTGTTAAGATT
1 TTTAAGTTAAGGGTTAGGATT
* *
30975959 TTTAAGTTGAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGATT
*
30975980 TTTAAGTTAAGGGTTTAAGGTTT
1 TTTAAGTTAAGGG-TT-AGGATT
** *
30976003 TTTAA-TTAAATTAGTTAGGGTT
1 TTTAAGTT-AA-GGGTTAGGATT
* *
30976025 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
30976048 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
30976067 TTTAAGTTAAGGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
30976089 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
30976112 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
30976131 TTTAAGTTAAGGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
30976153 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
30976176 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
30976195 TTTAAGTTAAGGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
30976217 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
30976240 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
30976259 TTTAAGTTAAGGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
30976281 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
30976304 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
30976323 TTTAAGTTAAGGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
30976345 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
30976368 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
30976387 TTTAAGTTAAGGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
30976409 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
30976432 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
30976451 TTTAAGTTAAGGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
30976473 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
30976496 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
30976515 TTTAAGTTAAGGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
30976537 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
30976560 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
30976579 TTTAAGTTAAGGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
30976601 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
30976624 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
30976643 TTTAAGTTAAGGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
30976665 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
30976688 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
30976707 TTTAAGTTAAGGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
30976729 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
30976752 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
30976771 TTTAAGTTAAGGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
30976793 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* * *
30976816 TTTAA-TTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA--GGGTTAGGATT
*
30976839 TTTAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGATT
* *
30976861 TTTAATTTTAAGGGTTTAGGGTT
1 TTTAA-GTTAAGGG-TTAGGATT
* *
30976884 TTTAA-TTAAATTAGTTTAAGG-TT
1 TTTAAGTT-AA--GGGTT-AGGATT
**
30976907 TTTAAGTTAAGGGATTAGGGGT
1 TTTAAGTTAAGGG-TTAGGATT
* * * *
30976929 TTTAATTTTAAAGGTTTGGGGTT
1 TTTAA-GTT-AAGGGTTAGGATT
* * *
30976952 TTTAATTTAAAGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGATT
* *
30976973 TATAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGATT
* *
30976995 TTTAATTTTAAGGGTTAGGGTT
1 TTTAA-GTTAAGGGTTAGGATT
*
30977017 TTTAAGTTAAGGGTTTAGG-GT
1 TTTAAGTTAAGGG-TTAGGATT
* * **
30977038 TTTAA-TTAAATTAGTTTAGGGGT
1 TTTAAGTT-AA--GGGTTAGGATT
30977061 TTTAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGG-TTAGGATT
* *
30977083 TTTAA-TTAAATTGGTTTAGG-GT
1 TTTAAGTT-AA--GGGTTAGGATT
**
30977105 TTTAAGTTAAGGGTTAGGGGT
1 TTTAAGTTAAGGGTTAGGATT
* *
30977126 TTTAAGTTTAATGGTTTAGG-GT
1 TTTAAG-TTAA-GGGTTAGGATT
* * * **
30977148 TTTAAATTAA--ATTAGTTAAAG
1 TTTAAGTTAAGGGTTAG--GATT
* * * *
30977169 GTCAAGGTTTAGGGTTTAGGGTT
1 TTTAA-GTTAAGGG-TTAGGATT
** *
30977192 TTTATTTTTAAGGGTTTAGGGTT
1 TTTA-AGTTAAGGG-TTAGGATT
* * *
30977215 TTTAA-TTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA--GGGTTAGGATT
*
30977238 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGATT
* *
30977260 TTTAATTTTAAGGGTTTAGGGTT
1 TTTAA-GTTAAGGG-TTAGGATT
**
30977283 TTTATTTTAAGGGTTAAGG-TT
1 TTTAAGTTAAGGGTT-AGGATT
*
30977304 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGATT
* * *
30977326 TTAAATTTCAAGGGTTTAGGGTT
1 TTTAAGTT-AAGGG-TTAGGATT
* * *
30977349 TTTAA-TTGAATTTGTTTAGGGTT
1 TTTAAGTT-AA--GGGTTAGGATT
* *
30977372 TTTAAGTTGAATGTTTA-GATTT
1 TTTAAGTT-AAGGGTTAGGA-TT
* *
30977394 TTTAATTTTAAGGGTTTAGGGTT
1 TTTAA-GTTAAGGG-TTAGGATT
30977417 TTTAAGT
1 TTTAAGT
30977424 AATAACTCAA
Statistics
Matches: 1228, Mismatches: 137, Indels: 327
0.73 0.08 0.19
Matches are distributed among these distances:
18 28 0.02
19 132 0.11
20 59 0.05
21 187 0.15
22 345 0.28
23 443 0.36
24 30 0.02
25 4 0.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.46
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGATT
Found at i:30975987 original size:64 final size:64
Alignment explanation
Indices: 30975929--30977421 Score: 1942
Period size: 64 Copynumber: 22.9 Consensus size: 64
30975919 AAGTTAATGG
* * * *
30975929 TTAAGGGTTTTTAAGTTAA-GTGTTAAGATTTTT-AAGTTGAGGG-TTAGGGTTTTTAAGTTAAG
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAA-TTAA-
*
30975991 GGT
64 --A
* *** *
30975994 TTAAGGTTTTTTAA-TTAAATTAGTTAGGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTT-AAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
30976058 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
30976122 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
30976186 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
30976250 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
30976314 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
30976378 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
30976442 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
30976506 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
30976570 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
30976634 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
30976698 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
30976762 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
* *
30976826 TTAGTTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTTTAAGGGTTTAGGGTTTTTAATT
1 TTA----AGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATT
30976891 AAA
62 AAA
* * * * * * *
30976894 TTAGTTTAAGGTTTTTAAGTTAAGGGATTAGGGGTTTTAATTTTAAAGGTTTGGGGTTTTTAATT
1 TTA----AGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAA-T
30976959 TAAA
61 TAAA
* * * *
30976963 GGTT-AGGGTTTATAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGG-TTAGGGTTTTTAAGTTA
1 --TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAA-TTA
*
30977026 AGGG
63 A--A
* ** * * * * *
30977030 TTTAGGG-TTTTAA-TTAAATTAGTTTAGGGGTTTT-AAGTTAAGGGTTTAGGATTTTTAATTAA
1 TTAAGGGTTTTTAAGTT-AA-GGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAA
30977092 A
64 A
* * * * * *
30977093 TTGGTTTAGGG-TTTTAAGTTAA-GGGTTAGGGGTTTTAAGTTTAATGGTTTAGGGTTTTAAATT
1 ----TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATT
30977156 AAA
62 AAA
* * * * * **
30977159 TT-A--GTTAAAGGTCAAGGTTTAGGGTTTAGGGTTTTTATTTTTAAGGGTTTAGGGTTTTTAAT
1 TTAAGGGTT----TTTAA-GTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAAT
30977221 TAAA
61 TAAA
* * * *
30977225 TTAGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGGGTTTTTATTT
1 TTA----AGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTA-AT
*
30977290 TAAGGG
61 TAA--A
* *
30977296 TTAA-GGTTTTTAAGTTAA-GGGTTTAGGGTTTTAAATTTCAAGGGTTTAGGGTTTTTAATTGAA
1 TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTT-AAGGGTTTAGGGTTTTTAATT-AA
*
30977359 TTTG
64 ---A
* * * * *
30977363 TTTAGGGTTTTTAAGTTGAA--TGTTTAGATTTTTTAATTTTAAGGGTTTAGGGTTTTTAA
1 TTAAGGGTTTTTAAGTT-AAGGGGTTAAG-GTTTTTAAATTTAAGGGTTTAGGGTTTTTAA
30977422 GTAATAACTC
Statistics
Matches: 1310, Mismatches: 71, Indels: 91
0.89 0.05 0.06
Matches are distributed among these distances:
59 1 0.00
60 1 0.00
61 1 0.00
62 2 0.00
64 770 0.59
65 87 0.07
66 173 0.13
67 32 0.02
68 211 0.16
69 23 0.02
71 6 0.00
73 3 0.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (64 bp):
TTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAATTAAA
Found at i:30977388 original size:45 final size:45
Alignment explanation
Indices: 30975922--30977423 Score: 1028
Period size: 45 Copynumber: 34.5 Consensus size: 45
30975912 AGTCTTAAAG
* * * * *
30975922 TTAATGGTTAAGGGTTTTTAAGTTAAGTG-TTAAGATTTTTAA-G
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * *
30975965 TTGA-GGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTTAA-T
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTT-AGGGTTTTTAATT
* * *
30976009 TAAATTAG-TTAGGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAA--
1 TTAA-TGGTTTAGGGTTTTT-AAGTTAAGGGTTTAGGGTTTTTAATT
* * * * *
30976053 TTAA--ATTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAAT
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30976096 TTAAGGGTTTAGGGTTTTTAA-TTAA--ATTAAGGGTTTTTAA-G
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30976137 TTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAA--
1 TTAATGGTTTAGGGTTTTT-AAGTTAAGGGTTTAGGGTTTTTAATT
* * * * *
30976181 TTAA--ATTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAAT
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30976224 TTAAGGGTTTAGGGTTTTTAA-TTAA--ATTAAGGGTTTTTAA-G
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30976265 TTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAA--
1 TTAATGGTTTAGGGTTTTT-AAGTTAAGGGTTTAGGGTTTTTAATT
* * * * *
30976309 TTAA--ATTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAAT
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30976352 TTAAGGGTTTAGGGTTTTTAA-TTAA--ATTAAGGGTTTTTAA-G
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30976393 TTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAA--
1 TTAATGGTTTAGGGTTTTT-AAGTTAAGGGTTTAGGGTTTTTAATT
* * * * *
30976437 TTAA--ATTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAAT
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30976480 TTAAGGGTTTAGGGTTTTTAA-TTAA--ATTAAGGGTTTTTAA-G
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30976521 TTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAA--
1 TTAATGGTTTAGGGTTTTT-AAGTTAAGGGTTTAGGGTTTTTAATT
* * * * *
30976565 TTAA--ATTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAAT
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30976608 TTAAGGGTTTAGGGTTTTTAA-TTAA--ATTAAGGGTTTTTAA-G
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30976649 TTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAA--
1 TTAATGGTTTAGGGTTTTT-AAGTTAAGGGTTTAGGGTTTTTAATT
* * * * *
30976693 TTAA--ATTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAAT
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30976736 TTAAGGGTTTAGGGTTTTTAA-TTAA--ATTAAGGGTTTTTAA-G
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30976777 TTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTTAA-T
1 TTAATGGTTTAGGGTTTTT-AAGTTAAGGGTTTAGGGTTTTTAATT
* * *
30976822 TAAATTAGTTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATT
1 TTAA-TGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* ** * *
30976868 TTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAAGGTTTTTAA-G
1 TTAATGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAATT
* * * * * *
30976913 TTAAGGGATTAGGGGTTTTAATTTTAAAGGTTTGGGGTTTTTAA-T
1 TTAATGGTTTAGGGTTTTTAA-GTTAAGGGTTTAGGGTTTTTAATT
* *
30976958 TTAAAGG-TTAGGGTTTATAAGTTAAGGGTTTAGGGTTTTTAATT
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
*
30977002 TTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG-TTTTAA-T
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * *
30977044 TAAATTAGTTTAGGGGTTTTAAGTTAAGGGTTTAGGATTTTTAA-T
1 TTAA-TGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * *
30977089 TAAATTGGTTTAGGG-TTTTAAGTTAAGGG-TTAGGGGTTTTAAGT
1 TTAA-TGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* ** * * * *
30977133 TTAATGGTTTAGGG-TTTTAAATTAAATTAGTTAAAGG---TCAAGGT
1 TTAATGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TT
* **
30977177 TT-AGGGTTTAGGGTTTTTATTTTTAAGGGTTTAGGGTTTTTAA-T
1 TTAATGGTTTAGGGTTTTTA-AGTTAAGGGTTTAGGGTTTTTAATT
* *
30977221 TAAATTAGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
1 TTAA-TGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* ** * *
30977267 TTAAGGGTTTAGGGTTTTTATTTTAAGGG-TTAAGGTTTTTAA-G
1 TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * *
30977310 TTAAGGGTTTAGGGTTTTAAATTTCAAGGGTTTAGGGTTTTTAA-T
1 TTAATGGTTTAGGGTTTTTAAGTT-AAGGGTTTAGGGTTTTTAATT
* * * **
30977355 TGAATTTGTTTAGGGTTTTTAAGTTGAA-TGTTTAGATTTTTTAATT
1 TTAA-TGGTTTAGGGTTTTTAAGTT-AAGGGTTTAGGGTTTTTAATT
*
30977401 TTAAGGGTTTAGGGTTTTTAAGT
1 TTAATGGTTTAGGGTTTTTAAGT
30977424 AATAACTCAA
Statistics
Matches: 1177, Mismatches: 200, Indels: 162
0.76 0.13 0.11
Matches are distributed among these distances:
41 228 0.19
42 158 0.13
43 150 0.13
44 180 0.15
45 369 0.31
46 90 0.08
47 2 0.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (45 bp):
TTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
Found at i:30977634 original size:21 final size:21
Alignment explanation
Indices: 30977588--30977635 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
30977578 TTTGTCCAGT
*
30977588 TTCCGGCGGCGGTTGTGGTGC
1 TTCCGGCGGCGGTTCTGGTGC
* *
30977609 CTCCGGCGG-GGATTCTGGTTC
1 TTCCGGCGGCGG-TTCTGGTGC
30977630 TTCCGG
1 TTCCGG
30977636 TACGACATCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.02, C:0.27, G:0.42, T:0.29
Consensus pattern (21 bp):
TTCCGGCGGCGGTTCTGGTGC
Found at i:30977923 original size:18 final size:18
Alignment explanation
Indices: 30977896--30977930 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30977886 AGAAAAGTAA
* *
30977896 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
30977914 ACATAAAAGGGCTAGGA
1 ACATAAAAGGGCTAGGA
30977931 AATGCACCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.20
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:30978588 original size:7 final size:7
Alignment explanation
Indices: 30978578--30978610 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
30978568 TTATATACAT
30978578 AATACTA
1 AATACTA
30978585 AATACTA
1 AATACTA
30978592 AATACTA
1 AATACTA
30978599 AATACTA
1 AATACTA
30978606 AATAC
1 AATAC
30978611 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:30978817 original size:20 final size:20
Alignment explanation
Indices: 30978780--30978817 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30978770 TTTATTTTTA
*
30978780 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
30978800 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
30978818 TACCTTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:30979735 original size:21 final size:21
Alignment explanation
Indices: 30979709--30979748 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30979699 ATTTTTACAG
30979709 TTTAAAAAATTTAAAAAAAAA
1 TTTAAAAAATTTAAAAAAAAA
**
30979730 TTTAAACTATTTAAAAAAA
1 TTTAAAAAATTTAAAAAAA
30979749 GGGAGTTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
TTTAAAAAATTTAAAAAAAAA
Found at i:30979817 original size:11 final size:11
Alignment explanation
Indices: 30979803--30979857 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
30979793 TTAAATATAG
30979803 ATTTGAGAGAA
1 ATTTGAGAGAA
*
30979814 ATTTG-GAAGGA
1 ATTTGAG-AGAA
30979825 ATTTGAGAGGAA
1 ATTTGAGA-GAA
30979837 A-TTGAGATGAA
1 ATTTGAGA-GAA
30979848 ATTTGAGAGA
1 ATTTGAGAGA
30979858 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.03
11 26 0.70
12 10 0.27
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:30979850 original size:23 final size:23
Alignment explanation
Indices: 30979803--30979856 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
30979793 TTAAATATAG
*
30979803 ATTTGAGA-GAAATTTGGAAGGA
1 ATTTGAGAGGAAATTTGGAAGAA
*
30979825 ATTTGAGAGGAAA-TTGAGATGAA
1 ATTTGAGAGGAAATTTG-GAAGAA
30979848 ATTTGAGAG
1 ATTTGAGAG
30979857 AGGATTAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (23 bp):
ATTTGAGAGGAAATTTGGAAGAA
Found at i:30984076 original size:87 final size:86
Alignment explanation
Indices: 30983922--30984294 Score: 428
Period size: 87 Copynumber: 4.3 Consensus size: 86
30983912 TCATCAACCA
* *
30983922 ATGAAGAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAGAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGA-AA
* *
30983987 GGGATAGTTTCGGCTATCGATT
65 GGGATAGTTTCGACCATCGATT
* * * *
30984009 ATGAGAAGGGATAGCTTCGACTATCGATTATGAGAAGGGATAGCTTTGGCTATCGATTATGATAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGA-AA
* * * *
30984074 GGGATAGCTTCGGCTATTGATT
65 GGGATAGTTTCGACCATCGATT
* * *
30984096 ATGAGAAGGGATAGCTTC-AGCTATCGAATATGAAAAGGGATAGCTTCGGTTATCAATTATGGAA
1 ATGAAAAGGGATAGCTTCGA-CTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTAT-GAA
* ** * *
30984160 AGGGATGGTGACGACCATCAACT
64 AGGGATAGTTTCGACCATCGATT
* * *
30984183 ATGAAAAGGGAT-GGTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
1 ATGAAAAGGGATAGCT-TCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATG-AA
* *
30984247 AGGGATGGTTTCGACCATCGAAT
64 AGGGATAGTTTCGACCATCGATT
*
30984270 ATGAAAAGGGAT-GATTACGACTATC
1 ATGAAAAGGGATAGCTT-CGACTATC
30984295 ATTTAGCACA
Statistics
Matches: 244, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
86 4 0.02
87 237 0.97
88 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.26
Consensus pattern (86 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAG
GGATAGTTTCGACCATCGATT
Found at i:30984282 original size:29 final size:29
Alignment explanation
Indices: 30983922--30984281 Score: 377
Period size: 29 Copynumber: 12.4 Consensus size: 29
30983912 TCATCAACCA
*
30983922 ATGAAGAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
30983951 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
30983980 ATGAGAAGGGATAGTTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
30984009 ATGAGAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
30984038 ATGAGAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
30984067 ATGATAAGGGATAGCTTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
30984096 ATGAGAAGGGATAGCTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
30984125 ATGAAAAGGGATAGCTTCGGTTATC-AATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAA-T
* * * * *
30984154 ATGGAAAGGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAA-T
* * * *
30984183 ATGAAAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAAT
*
30984212 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * *
30984241 ATGAAAAGGGATGGTTTCGACCATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
30984270 ATGAAAAGGGAT
1 ATGAAAAGGGAT
30984282 GATTACGACT
Statistics
Matches: 291, Mismatches: 36, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
28 4 0.01
29 283 0.97
30 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:30996085 original size:50 final size:50
Alignment explanation
Indices: 30995978--30996209 Score: 216
Period size: 50 Copynumber: 4.5 Consensus size: 50
30995968 AGCCACAACT
* * * *
30995978 ATGTCCCAGACATAGTCTTACATGGGATGTT-TCTTATA-CTACCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAGGTGCCAATGCC
* * * *
30996027 ATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGGTGCCAATGCC
** ** * * *
30996077 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGGTGCCAATGCC
** *
30996127 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--T--A-GGTGCCAATGCC
*
30996183 ATGTCCCAAACATGGTCTTACATGGGA
1 ATGTCCCAGACATGGTCTTACATGGGA
30996210 TCTCTTTACC
Statistics
Matches: 149, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
48 3 0.02
49 29 0.19
50 80 0.54
53 1 0.01
56 36 0.24
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGGTGCCAATGCC
Found at i:30998493 original size:15 final size:16
Alignment explanation
Indices: 30998469--30998504 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
30998459 ATTTGTTCCG
30998469 TTTCAAAATTT-ACTT
1 TTTCAAAATTTCACTT
*
30998484 TTTCATAATTTCACTT
1 TTTCAAAATTTCACTT
30998500 TTTCA
1 TTTCA
30998505 CTTTCAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTCAAAATTTCACTT
Found at i:30998800 original size:51 final size:49
Alignment explanation
Indices: 30998724--30998859 Score: 182
Period size: 50 Copynumber: 2.7 Consensus size: 49
30998714 CTGGTTCACA
*
30998724 TAGTAGCCTGCACATTGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-T-TCCGATACACG
* * * *
30998775 TAGTAGCTTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCATTCCGATACACG
* *
30998825 TAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
30998860 AACTTTGACT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 2 0.03
50 38 0.51
51 31 0.41
52 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCATTCCGATACACG
Found at i:31000193 original size:13 final size:13
Alignment explanation
Indices: 31000175--31000200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31000165 CTGTACATAC
31000175 TTTCACTAGAACA
1 TTTCACTAGAACA
31000188 TTTCACTAGAACA
1 TTTCACTAGAACA
31000201 CTCTTCAAAT
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:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTCACTAGAACA
Found at i:31002051 original size:49 final size:50
Alignment explanation
Indices: 31001996--31002091 Score: 149
Period size: 49 Copynumber: 1.9 Consensus size: 50
31001986 TTATTTTCTT
* * *
31001996 GATGCCATAGTCCAACTATGGTCTTACACGTAATCAC-ATATCACATACC
1 GATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAAATCACATACC
*
31002045 GATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAAATCACAT
1 GATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAAATCACAT
31002092 TTTCACATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 34 0.81
50 8 0.19
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (50 bp):
GATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAAATCACATACC
Found at i:31004289 original size:15 final size:15
Alignment explanation
Indices: 31004257--31004292 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
31004247 ATCTGTTCCG
*
31004257 TTTCAAATTTTACTT
1 TTTCAAATTTCACTT
31004272 TTTCATAATTTCACTT
1 TTTCA-AATTTCACTT
31004288 TTTCA
1 TTTCA
31004293 CTTTCAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTCAAATTTCACTT
Found at i:31004597 original size:51 final size:51
Alignment explanation
Indices: 31004511--31004708 Score: 185
Period size: 51 Copynumber: 4.0 Consensus size: 51
31004501 ATTAATGATA
* * * *
31004511 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAATACTACACACGTGACCATCACTAT
* * *
31004562 CCGATACACGTAGTAGCCTGCACATAATGCTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAATACTACACACGTGA-CCATCA-CTAT
* * * * *
31004613 TCGGTACGCATAGTAGCCTGCAC---ATACTACACATGTGACTTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAATACTACACACGTGAC-CATCACTAT
* * *
31004660 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACATGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAATACTACACACGTGACCATCACT
31004709 TTCACTTTCA
Statistics
Matches: 116, Mismatches: 22, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
47 21 0.18
48 15 0.13
49 4 0.03
50 16 0.14
51 58 0.50
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAATACTACACACGTGACCATCACTAT
Found at i:31004724 original size:98 final size:99
Alignment explanation
Indices: 31004514--31004700 Score: 234
Period size: 98 Copynumber: 1.9 Consensus size: 99
31004504 AATGATACCG
31004514 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCAC--A-TACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
* * * *
31004579 CTGCACATAATGCTACACACGTGATCGAAGCTATTCG
63 CTGCACATAATACTACACACATGATCCAAGCTATTCC
* * * * *
31004616 GTACGCATAGTAGCCTGCACATACTACACATGTGACTTATCA-T-TCTGGTACACGTAGTAGCCT
1 GTTCACATAGTAGCCTGCACATACTACACATGTGAC-CATCACTATCCGATACACGTAGTAGCCT
*
31004679 GCACATAGTACTACACACATGA
65 GCACATAATACTACACACATGA
31004701 CCATCACTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
98 37 0.49
99 16 0.21
100 5 0.07
102 18 0.24
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
GTTCACATAGTAGCCTGCACATACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTG
CACATAATACTACACACATGATCCAAGCTATTCC
Found at i:31009056 original size:4 final size:4
Alignment explanation
Indices: 31009047--31009098 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
31009037 CAAACCAACT
31009047 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
31009095 CATA
1 CATA
31009099 TATAATGAGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:31011609 original size:20 final size:21
Alignment explanation
Indices: 31011584--31011625 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31011574 GATTCTTTTT
* *
31011584 ATAAAAT-ATTATATTTTTAA
1 ATAAAATAATCATATTTATAA
31011604 ATAAAATAATCATATTTATAA
1 ATAAAATAATCATATTTATAA
31011625 A
1 A
31011626 ATTTTAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAAAATAATCATATTTATAA
Found at i:31011914 original size:12 final size:12
Alignment explanation
Indices: 31011897--31011923 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31011887 AATCATTCGC
31011897 TAAAATAAATAA
1 TAAAATAAATAA
31011909 TAAAATAAATAA
1 TAAAATAAATAA
31011921 TAA
1 TAA
31011924 TTAATTGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:31013551 original size:15 final size:15
Alignment explanation
Indices: 31013531--31013560 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31013521 TGAAGTTAAT
31013531 TATATATATATACAC
1 TATATATATATACAC
31013546 TATATATATATACAC
1 TATATATATATACAC
31013561 GTGAACAAAA
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:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (15 bp):
TATATATATATACAC
Found at i:31015589 original size:132 final size:132
Alignment explanation
Indices: 31015420--31015764 Score: 501
Period size: 132 Copynumber: 2.6 Consensus size: 132
31015410 AGATATATCG
* * *
31015420 TCTTCGATCTATGCTCCACTACTTCTTAGGGAGATAAGATTTGTAATTTTCAACCTATTCCACTG
1 TCTTCGATC--TGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTG
* *
31015485 CCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCC
64 CCAACCAGGGAGATAGAATTACTAGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCC
31015550 ACCA
129 ACCA
* * * *
31015554 TCTTCGGTCTGCTTCACTACTACTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCC
1 TCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTGCC
* * * *
31015619 AACTAGGGAGATAGAATTACTAGCTTCAATATACTCCACTGTAACCTCGGGGAGGTAAAATCCTC
66 AACCAGGGAGATAGAATTACTAGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCCAC
31015684 CA
131 CA
* * * **
31015686 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAACCTATTCCACTGTT
1 TCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTGCC
*
31015751 GACCAGGGAGATAG
66 AACCAGGGAGATAG
31015765 GATTTGTGGC
Statistics
Matches: 187, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
132 179 0.96
134 8 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
TCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTGCC
AACCAGGGAGATAGAATTACTAGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCCAC
CA
Found at i:31015852 original size:128 final size:128
Alignment explanation
Indices: 31015683--31016283 Score: 909
Period size: 128 Copynumber: 4.7 Consensus size: 128
31015673 GTAAAATCCT
* *
31015683 CCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTT-CAACCTATTCCAC
1 CCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAAT-TTCCAACCTATTCCAC
* * *
31015747 TGTTGACCAGGGAGATAGGATTTGTGGCTTAAATCTGATTCCTTACTCTTGAAGATAAGATTCG
65 TGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCG
* * * *
31015811 CCATCTTCGATCTGCTCTGCTACTGCTTAGAGAGACAAGATCTGTAATTTCCAACCCATTTCACT
1 CCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACT
* * * *
31015876 GCTGACCAGGGATATAGGACTTGTGACTTAAATCTGCTTCCTTACTCTTGAAGATTAGATTCT
66 GCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCG
* * *
31015939 CCGTCTTCGATTTGCTCCGCTACTACTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACT
1 CCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACT
* *
31016004 ACTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGA-TCAA
66 GCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTC-G
** * * *
31016067 CTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACT
* *
31016132 GCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCTTTACTCTTGAAAATAAGATTCG
66 GCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCG
* * * *
31016195 CCATCTTCGATCTGCTCTGCTACTGATTAAGGAGACAAGATCCGTAATTTCCAACCTATTCCACT
1 CCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACT
31016260 GCTGACCAGGGAGATAGGACTTGT
66 GCTGACCAGGGAGATAGGACTTGT
31016284 TTTCGATCTG
Statistics
Matches: 426, Mismatches: 44, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
127 4 0.01
128 420 0.99
129 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (128 bp):
CCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACT
GCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCG
Found at i:31017597 original size:7 final size:7
Alignment explanation
Indices: 31017577--31017623 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
31017567 TTAGCCTCTC
31017577 CATTTTT
1 CATTTTT
*
31017584 ACTTTTTT
1 -CATTTTT
31017592 CATTTTTT
1 CA-TTTTT
31017600 CATTTTT
1 CATTTTT
31017607 CA-TTTT
1 CATTTTT
*
31017613 CGTTTTT
1 CATTTTT
31017620 CATT
1 CATT
31017624 CATTTTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
6 5 0.15
7 15 0.45
8 13 0.39
ACGTcount: A:0.13, C:0.15, G:0.02, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:31017597 original size:15 final size:15
Alignment explanation
Indices: 31017577--31017612 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
31017567 TTAGCCTCTC
*
31017577 CATTTTTACTTTTTT
1 CATTTTTACATTTTT
*
31017592 CATTTTTTCATTTTT
1 CATTTTTACATTTTT
31017607 CATTTT
1 CATTTT
31017613 CGTTTTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (15 bp):
CATTTTTACATTTTT
Found at i:31018588 original size:12 final size:12
Alignment explanation
Indices: 31018573--31018607 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
31018563 TTTCTTCTTT
31018573 TTTTGTTTTTGA
1 TTTTGTTTTTGA
*
31018585 TTTTGATTTTGA
1 TTTTGTTTTTGA
31018597 TTTT-TTTTTGA
1 TTTTGTTTTTGA
31018608 ATTGGATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.11, C:0.00, G:0.14, T:0.74
Consensus pattern (12 bp):
TTTTGTTTTTGA
Found at i:31024760 original size:16 final size:17
Alignment explanation
Indices: 31024728--31024760 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31024718 ATAATTAATT
31024728 TTAAAATTTTAAATATA
1 TTAAAATTTTAAATATA
31024745 TTAAAATTTT-AATATA
1 TTAAAATTTTAAATATA
31024761 CTTATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAATTTTAAATATA
Found at i:31034188 original size:56 final size:57
Alignment explanation
Indices: 31034102--31034215 Score: 176
Period size: 56 Copynumber: 2.0 Consensus size: 57
31034092 GAAGAATTCC
* * *
31034102 TATAATCAAGGATTGACTCAATCCTAAAGAAAGAAATA-AATAAAATCTGATCAAAT
1 TATAACCAAGGATTGACTCAATCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
**
31034158 TATAACCAAGGATTGACTCCGTCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
1 TATAACCAAGGATTGACTCAATCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
31034215 T
1 T
31034216 TGTCTCAATC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
56 34 0.65
57 18 0.35
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.25
Consensus pattern (57 bp):
TATAACCAAGGATTGACTCAATCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
Found at i:31036920 original size:13 final size:13
Alignment explanation
Indices: 31036902--31036926 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31036892 TAGGGAGGGA
31036902 AAAAAGAAAGAAC
1 AAAAAGAAAGAAC
31036915 AAAAAGAAAGAA
1 AAAAAGAAAGAA
31036927 AGTAAACATA
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:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAAC
Found at i:31045280 original size:51 final size:51
Alignment explanation
Indices: 31045204--31045391 Score: 211
Period size: 51 Copynumber: 3.7 Consensus size: 51
31045194 TGCCTATAAA
* *
31045204 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATA-GATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-AGGAT-ATGGT
* * * *
31045255 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAGGATATGGT
* * * * * *
31045306 CACGTGTGTAGGACTATGTCCAGGCTACTACGTGAACCAGAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAGGATATGGT
* *
31045356 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
31045392 TCGAATGATA
Statistics
Matches: 118, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
50 36 0.31
51 78 0.66
52 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAGGATATGGT
Found at i:31045381 original size:101 final size:102
Alignment explanation
Indices: 31045204--31045391 Score: 272
Period size: 101 Copynumber: 1.9 Consensus size: 102
31045194 TGCCTATAAA
* * * * * *
31045204 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGTCACGTGTGTAGTAC
1 CACGTGTGTAGGACTAAGTCCAGGCTACTACGTGAACCGAAAGATAATGATCACGTGTGTAGTAC
*
31045269 TATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGT
66 TATGTGAAGGCTACTATGTGTACCGGAAGGCTTTGGT
* *
31045306 CACGTGTGTAGGACTATGTCCAGGCTACTACGTGAACCAGAAAG-T-TTGATCACGTGTGTAGTA
1 CACGTGTGTAGGACTAAGTCCAGGCTACTACGTGAACC-GAAAGATAATGATCACGTGTGTAGTA
31045369 CTATGTGAAGGCTACTATGTGTA
65 CTATGTGAAGGCTACTATGTGTA
31045392 TCGAATGATA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
101 38 0.50
102 34 0.45
103 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGGACTAAGTCCAGGCTACTACGTGAACCGAAAGATAATGATCACGTGTGTAGTAC
TATGTGAAGGCTACTATGTGTACCGGAAGGCTTTGGT
Found at i:31046966 original size:79 final size:79
Alignment explanation
Indices: 31046835--31047151 Score: 625
Period size: 79 Copynumber: 4.0 Consensus size: 79
31046825 AATGTTTAAA
31046835 ATGTGTCATATCTTTACTGAAAGATGCAACATATCATTGGTGGATAACATTAGTATCTGTGGTTC
1 ATGTGTCATATCTTTACTGAAAGATGCAACATATCATTGGTGGATAACATTAGTATCTGTGGTTC
31046900 CGAAAGAAAGGGTT
66 CGAAAGAAAGGGTT
31046914 ATGTGTCATATCTTTACTGAAAGATGCAACATATCATTGGTGGATAACATTAGTATCTGTGGTTC
1 ATGTGTCATATCTTTACTGAAAGATGCAACATATCATTGGTGGATAACATTAGTATCTGTGGTTC
31046979 CGAAAGAAAGGGTT
66 CGAAAGAAAGGGTT
31046993 ATGTGTCATATCTTTACTGAAAGATGCAACATATCATTGGTGGATAACATTAGTATCTGTGGTTC
1 ATGTGTCATATCTTTACTGAAAGATGCAACATATCATTGGTGGATAACATTAGTATCTGTGGTTC
31047058 CGAAAGAAAGGGTT
66 CGAAAGAAAGGGTT
31047072 ATGTGTCATATCTTTACTGAAAGATGCAACATATCATTGGTGGATAACATTAGTATCTGTGGTTC
1 ATGTGTCATATCTTTACTGAAAGATGCAACATATCATTGGTGGATAACATTAGTATCTGTGGTTC
*
31047137 CGAAAGAAAGTGTT
66 CGAAAGAAAGGGTT
31047151 A
1 A
31047152 CATGGGATTT
Statistics
Matches: 237, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 237 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (79 bp):
ATGTGTCATATCTTTACTGAAAGATGCAACATATCATTGGTGGATAACATTAGTATCTGTGGTTC
CGAAAGAAAGGGTT
Found at i:31049443 original size:19 final size:19
Alignment explanation
Indices: 31049419--31049456 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
31049409 GTGTTGGTGC
31049419 AACCTGAGACAGGGAAAGA
1 AACCTGAGACAGGGAAAGA
*
31049438 AACCTGAGACAGGTAAAGA
1 AACCTGAGACAGGGAAAGA
31049457 GTTTATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.16, G:0.29, T:0.08
Consensus pattern (19 bp):
AACCTGAGACAGGGAAAGA
Found at i:31052771 original size:51 final size:49
Alignment explanation
Indices: 31052695--31052887 Score: 215
Period size: 51 Copynumber: 3.8 Consensus size: 49
31052685 TGCCTATAAA
* * ** *
31052695 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGTTAGATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAG-T-TTGGT
* *
31052746 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAAG-TTTGGT
* * * * *
31052797 CACATGTGTAGGACTATGTCCAGGCTACTACGTGAACCAGAAAGTTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAAGTTTGGT
* *
31052847 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
31052888 TAATAATTAC
Statistics
Matches: 119, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 3 0.03
50 37 0.31
51 76 0.64
52 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGTTTGGT
Found at i:31058506 original size:17 final size:17
Alignment explanation
Indices: 31058470--31058530 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
31058460 ATAAAAGGAG
*
31058470 ATTTGGAGGTTTTAAGA
1 ATTTAGAGGTTTTAAGA
*
31058487 ATTTTGAGGTTTT-AGAA
1 ATTTAGAGGTTTTAAG-A
31058504 ATTTAGAGGATTTTTAGAGA
1 ATTTAGAGG--TTTTA-AGA
31058524 A-TTAGAG
1 ATTTAGAG
31058531 TTTAAAGAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 2 0.05
17 21 0.57
19 10 0.27
20 2 0.05
21 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (17 bp):
ATTTAGAGGTTTTAAGA
Found at i:31058949 original size:13 final size:15
Alignment explanation
Indices: 31058931--31058962 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
31058921 TTTAAAGAAA
31058931 TTTAAAT-ATCAA-T
1 TTTAAATAATCAAGT
31058944 TTTAAATAATCAAGT
1 TTTAAATAATCAAGT
31058959 TTTA
1 TTTA
31058963 CTACTGGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 5 0.29
15 5 0.29
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (15 bp):
TTTAAATAATCAAGT
Found at i:31061715 original size:31 final size:31
Alignment explanation
Indices: 31061672--31061732 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
31061662 ACCAACTGCC
*
31061672 GTGTTAGGTTTTCTTGCTCAATTAACTAGTT
1 GTGTCAGGTTTTCTTGCTCAATTAACTAGTT
31061703 GTGTCAGGTTTTCTTGCTCAATTAACTAGT
1 GTGTCAGGTTTTCTTGCTCAATTAACTAGT
31061733 CAATACCCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (31 bp):
GTGTCAGGTTTTCTTGCTCAATTAACTAGTT
Found at i:31066735 original size:67 final size:67
Alignment explanation
Indices: 31066663--31066821 Score: 255
Period size: 67 Copynumber: 2.4 Consensus size: 67
31066653 CCATATACTA
*
31066663 CCATAGTCGAGCTATGGTCTTACACATCATGCCCAATGTTTAATGTCCTGGCAGACTCTATTGGT
1 CCATAGTCGAGCTATGGTCTTACACATCATGCCCAATGTTTAATGTCCTGGAAGACTCTATTGGT
31066728 TG
66 TG
* *
31066730 CCATAGTCGAGCTATGGTCTTTCACATCATGCCTAATGTTTAATGTCCTGGAAGACTCTATTGGT
1 CCATAGTCGAGCTATGGTCTTACACATCATGCCCAATGTTTAATGTCCTGGAAGACTCTATTGGT
31066795 TG
66 TG
* * * *
31066797 CCAAAGCCGATCTATAGTCTTACAC
1 CCATAGTCGAGCTATGGTCTTACAC
31066822 CTGTAATCCC
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 84 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (67 bp):
CCATAGTCGAGCTATGGTCTTACACATCATGCCCAATGTTTAATGTCCTGGAAGACTCTATTGGT
TG
Found at i:31068937 original size:56 final size:50
Alignment explanation
Indices: 31068727--31068966 Score: 187
Period size: 50 Copynumber: 4.7 Consensus size: 50
31068717 GATAATAACA
* * ** * * *
31068727 TGCCAAAGCCATGTCCCAGACATGGTTTTACATGGGATGTTTC-T-TGTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCT-G
* * * * * ** * *
31068776 TGCCAATGTCATATCCCAGATATGCTCTTACATGGGAGTTCTCATACCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCTG
* * ** *
31068826 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCTG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCTG
31068876 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATATCAATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATATC--TG
* * *
31068931 ATGCCAATGCCATGTCCTAGACATGATCTTACATGG
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGG
31068967 TATCTCTTTA
Statistics
Matches: 150, Mismatches: 33, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
49 34 0.23
50 78 0.52
53 4 0.03
55 2 0.01
56 32 0.21
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCTG
Found at i:31076330 original size:50 final size:51
Alignment explanation
Indices: 31076252--31076449 Score: 220
Period size: 50 Copynumber: 3.8 Consensus size: 51
31076242 TTTCTTGTAC
* * * * * **
31076252 TGCCAATGTCATATCCCAGATATAGTCTTACCTGGGAGTTCTCATAC-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCGG
* * **
31076302 TGCCCATGCCATGTCCCAGGCATGGTCTTACGGGGGACCTCTCAT-CTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCGG
*
31076352 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A-CTC---GG
*
31076408 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
31076450 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 79 0.63
53 3 0.02
56 42 0.34
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCGG
Found at i:31079733 original size:11 final size:11
Alignment explanation
Indices: 31079717--31079762 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
31079707 CAAAAGAAGG
31079717 AAAAATAAAAT
1 AAAAATAAAAT
31079728 AAAAATAAAAT
1 AAAAATAAAAT
* *
31079739 -AAGATAAGAT
1 AAAAATAAAAT
31079749 AACAAAT-AAAT
1 AA-AAATAAAAT
31079760 AAA
1 AAA
31079763 TTAAAAAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
10 9 0.31
11 17 0.59
12 3 0.10
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:31080020 original size:35 final size:35
Alignment explanation
Indices: 31079965--31080033 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
31079955 TAATTTGCAG
* *
31079965 AAGTTTCAAGGTCGATGGTGGTGGCAGAGGCATGA
1 AAGTTTCAAGGCCGACGGTGGTGGCAGAGGCATGA
31080000 AAGTTTCAAGGCCGACGGTGGTGGCAGAGGCATG
1 AAGTTTCAAGGCCGACGGTGGTGGCAGAGGCATG
31080034 TGTGAGGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.25, C:0.14, G:0.41, T:0.20
Consensus pattern (35 bp):
AAGTTTCAAGGCCGACGGTGGTGGCAGAGGCATGA
Found at i:31080660 original size:127 final size:126
Alignment explanation
Indices: 31080428--31081081 Score: 1013
Period size: 127 Copynumber: 5.2 Consensus size: 126
31080418 GGATTAGATT
* * * *
31080428 TGGTTTTAATCTGCTCCACTGCAAATTTAGGGAGATAGGATTGATTTCTTCCGTCTGCTCTACTA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT-CGTCTGCTCCACTA
* *
31080493 CTGCTTAGGGAGATAAGACTTGATGCGATCTACTCAACTACTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
* * *
31080555 TAGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTTGTCTGCTCCACTA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT-CTTCGTCTGCTCCACTA
*
31080620 CTGCTTAGGGAGATAAGACTCGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
** * *
31080682 TGGTTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTCTCGTCTGCTCCACAA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT-TCGTCTGCTCCACTA
*
31080747 CTGCTTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
* *
31080809 TGGTTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTCTCATCTGCTCCACTA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT-TCGTCTGCTCCACTA
* * *
31080874 CTGCTTAGGGATATAAGACTTGTTGCAATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
* *
31080936 TGGTTTTAATCAGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTTGTCTGCTCCACTA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT-CTTCGTCTGCTCCACTA
* * * *
31081001 CTACTTAGGGAGATAAGACTTGAGGCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
*
31081063 TGGTTCT-ATCTGCTCCACT
1 TGGTTTTAATCTGCTCCACT
31081082 ACTTCAGGAA
Statistics
Matches: 488, Mismatches: 36, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
126 13 0.03
127 470 0.96
128 5 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (126 bp):
TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCGTCTGCTCCACTAC
TGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
Found at i:31080751 original size:87 final size:84
Alignment explanation
Indices: 31080427--31081084 Score: 300
Period size: 84 Copynumber: 7.8 Consensus size: 84
31080417 GGGATTAGAT
** * * * * ** *
31080427 TTGGTTTTAATCTGCTCCACTGCAAATTTAGGGAGATAGGA-TTGATTTCTTCCGTCTGCTCTAC
1 TTGGTTTTAATCCACTCCACTAC-AACTTAGGGAGATAAGACTTGGTTTC-T-AATCTGCTCCAC
31080491 TACTGCTTAGGGAGATAAGA-C
63 TACTGCTTAGGGAGATAAGACC
* *** * * ** * *
31080512 TT-GATGCGATCTACTCAACTACTGCTTAGGGAGATAAGACCTGTAGTTT-TAATCCGCTCCACT
1 TTGGTTTTAATCCACTCCACTACAACTTAGGGAGATAAGA-CT-TGGTTTCTAATCTGCTCCACT
* ** *
31080575 GCAACTTCAGGGAGATAGGA--
64 ACTGCTT-AGGGAGATAAGACC
** ** ** * * * *
31080595 TTGGTTTCCTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGAC-TCGATGC-GATCTGCTCCAC
1 TTGG-TT--TTAATCCACTCCACTACAACTTAGGGAGATAAGACTTGGTTTCTAATCTGCTCCAC
31080658 TACTGCTTAGGGAGATAAGACC
63 TACTGCTTAGGGAGATAAGACC
* * **
31080680 TGTGGTTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGA-TTGGTTTCTCTCGTCTGCTCCA
1 T-TGGTTTTAATCCACTCCACTACAAC-TTAGGGAGATAAGACTTGG-TT-TCTAATCTGCTCCA
*
31080744 CAACTGCTTAGGGAGATAAGA-C
62 CTACTGCTTAGGGAGATAAGACC
*** ** ** *
31080766 TT-GTTGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTGGTTT-TAATCTACTCCACT
1 TTGGTTTTAATCCACTCCACTACAACTTAGGGAGATAAGA-CT-TGGTTTCTAATCTGCTCCACT
* ** *
31080829 GCAACTTCAGGGAGATAGGA--
64 ACTGCTT-AGGGAGATAAGACC
* ** ** * *
31080849 TTGGTTTCTCTCATCTGCTCCACTACTGCTTAGGGATATAAGACTT-GTTGC-AATCTGCTCCAC
1 TTGG-TT-T-TAATCCACTCCACTACAACTTAGGGAGATAAGACTTGGTTTCTAATCTGCTCCAC
31080912 TACTGCTTAGGGAGATAAGACC
63 TACTGCTTAGGGAGATAAGACC
* * **
31080934 TGTGGTTTTAAT-CAGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCCTTTGTCTGCTCC
1 T-TGGTTTTAATCCA-CTCCACTACAACTT-AGGGAGATAAGACTTGGTTT-C-TAATCTGCTCC
*
31080997 ACTACTACTTAGGGAGATAAGA-C
61 ACTACTGCTTAGGGAGATAAGACC
*** * **
31081020 TTGAG--GCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGG-TTCT-ATCTGCTCCAC
1 TTG-GTTTTAATCCACTCCACTACAACTTAGGGAGATAAGA-CT-TGGTTTCTAATCTGCTCCAC
31081081 TACT
63 TACT
31081085 TCAGGAAAGT
Statistics
Matches: 434, Mismatches: 99, Indels: 83
0.70 0.16 0.13
Matches are distributed among these distances:
82 14 0.03
83 120 0.28
84 134 0.31
85 25 0.06
86 25 0.06
87 116 0.27
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (84 bp):
TTGGTTTTAATCCACTCCACTACAACTTAGGGAGATAAGACTTGGTTTCTAATCTGCTCCACTAC
TGCTTAGGGAGATAAGACC
Found at i:31080761 original size:43 final size:41
Alignment explanation
Indices: 31080481--31081084 Score: 385
Period size: 40 Copynumber: 14.3 Consensus size: 41
31080471 ATTTCTTCCG
* * *
31080481 TCTGCTCTACTACTGCTTAGGGAGATAAGACTT-G-ATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTTC-A
* * * *
31080521 TCTACTCAACTACTGCTTAGGGAGATAAGACCTGTAGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTTCA
* * ** * **
31080564 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCCTTTG
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG-TT--TTCA
* * *
31080608 TCTGCTCCACTACTGCTTAGGGAGATAAGAC-TCG-ATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTTC-A
*
31080648 TCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTTCA
** * ** * *
31080691 TCCACTCCACTGCAACTTTAGGGAGATAGGA-TTGGTTTCTCTCG
1 TCTGCTCCACTACTGC-TTAGGGAGATAAGACTTGG-TT-T-TCA
* *
31080735 TCTGCTCCACAACTGCTTAGGGAGATAAGACTT-G-TTGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTTC-A
*
31080775 TCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTTCA
* * ** *
31080818 TCTACTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTCTCA
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG-TT-T-TCA
* *
31080862 TCTGCTCCACTACTGCTTAGGGATATAAGACTT-G-TTGCAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTTC-A
*
31080902 TCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTTCA
* * ** * **
31080945 TCAGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCCTTTG
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG-TT--TTCA
* *
31080989 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGAG---GCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTG-GTTTTC-A
* *
31081029 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCT-A
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTTCA
31081071 TCTGCTCCACTACT
1 TCTGCTCCACTACT
31081085 TCAGGAAAGT
Statistics
Matches: 435, Mismatches: 83, Indels: 90
0.72 0.14 0.15
Matches are distributed among these distances:
39 3 0.01
40 147 0.34
41 23 0.05
42 31 0.07
43 111 0.26
44 119 0.27
45 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (41 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTTCA
Found at i:31081170 original size:50 final size:51
Alignment explanation
Indices: 31081086--31081232 Score: 138
Period size: 50 Copynumber: 2.9 Consensus size: 51
31081076 TCCACTACTT
* * ** *
31081086 CAGGAAAGTACGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAAT-GT
1 CAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTGCAATCGC
* * ** ** *
31081136 CGGGGAAGTAAGATTCACCGTTGTAGCTTTAATCTACTCCACTGC-ATCGC
1 CAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTGCAATCGC
* *
31081186 CATGGAAGTAAAATTCACCGTTGTAGCTTCAATC-TTTTATATTGCAA
1 CAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTTTTTA-ATTGCAA
31081233 CCTAAGGGGT
Statistics
Matches: 73, Mismatches: 21, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
49 3 0.04
50 69 0.95
51 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (51 bp):
CAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTGCAATCGC
Found at i:31081870 original size:108 final size:108
Alignment explanation
Indices: 31081680--31081875 Score: 295
Period size: 108 Copynumber: 1.8 Consensus size: 108
31081670 GAAAAATGCT
*
31081680 TGAAAAATATTATCAAAATGGACAAAATGAAATTTTATTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTATTGAGAGCAAAGCTCTAAACAAACAAAT
*
31081745 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
66 CAATCAAGATAGAAAATTTTGCTGAGATACGAGATGAATAAGA
* * * * **
31081788 TGAAAAAGATTATCACAATGGATAAGATAGAAA-TTTGTTGAGAGCAAAGCTCTAAATGAACAAA
1 TGAAAAAGATTATCAAAATGGACAAAAT-GAAATTTTATTGAGAGCAAAGCTCTAAACAAACAAA
*
31081852 TTAATCAAGATAGAAAATTTTGCT
65 TCAATCAAGATAGAAAATTTTGCT
31081876 AGAATACAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 74 0.95
109 4 0.05
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTATTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGATAGAAAATTTTGCTGAGATACGAGATGAATAAGA
Found at i:31083495 original size:23 final size:23
Alignment explanation
Indices: 31083469--31083514 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
31083459 GCGTAACTGC
31083469 TGTATAGTAATAGGGTGCCCGAA
1 TGTATAGTAATAGGGTGCCCGAA
* *
31083492 TGTATAGTTATAGGGTGCGCGAA
1 TGTATAGTAATAGGGTGCCCGAA
31083515 GCCCACCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.11, G:0.33, T:0.28
Consensus pattern (23 bp):
TGTATAGTAATAGGGTGCCCGAA
Found at i:31083694 original size:25 final size:25
Alignment explanation
Indices: 31083666--31083715 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
31083656 ACTAATTACT
* *
31083666 TTATTGTCTGGTAAGCCTGCCCGAG
1 TTATTGTCCGGTAAGCCTCCCCGAG
31083691 TTATTGTCCGGTAAGCCTCCCCGAG
1 TTATTGTCCGGTAAGCCTCCCCGAG
31083716 GGAGGTATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.26, T:0.30
Consensus pattern (25 bp):
TTATTGTCCGGTAAGCCTCCCCGAG
Found at i:31086443 original size:16 final size:14
Alignment explanation
Indices: 31086422--31086461 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 14
31086412 AGGAAAAAGA
31086422 AAATAAAAATAAAAT
1 AAATAAAAAT-AAAT
31086437 AAGATAACAAATAAAT
1 AA-ATAA-AAATAAAT
31086453 AAATAAAAA
1 AAATAAAAA
31086462 ATGAAAAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.13
15 6 0.26
16 10 0.43
17 4 0.17
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:31094531 original size:103 final size:103
Alignment explanation
Indices: 31094407--31094612 Score: 317
Period size: 103 Copynumber: 2.0 Consensus size: 103
31094397 CATACGTTGG
* * *
31094407 CAAATATCTACAATCTAAATAAATATTGATTTCATTGACTTCGCTTGCA-CTTTTGTGCTATTGA
1 CAAATATCTACAATCTAAATAAATATTGATTTCATTGAATTCACTTGCATC-TTTATGCTATTGA
*
31094471 GATTCATC-ACCTTTATACCTTAAATAACTACTCAAGTTC
65 GATTCA-CAACCTTTATACCTTAAATAACAACTCAAGTTC
* * *
31094510 CAAATATCTACAATCTAAATAAGTATTTATTTCATTGAATTTACTTGCATCTTTATGCTATTGAG
1 CAAATATCTACAATCTAAATAAATATTGATTTCATTGAATTCACTTGCATCTTTATGCTATTGAG
31094575 ATTCACAACCTTTATACCTTAAATAACAACTCAAGTTC
66 ATTCACAACCTTTATACCTTAAATAACAACTCAAGTTC
31094613 TGTCCAGTTC
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
102 1 0.01
103 92 0.98
104 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (103 bp):
CAAATATCTACAATCTAAATAAATATTGATTTCATTGAATTCACTTGCATCTTTATGCTATTGAG
ATTCACAACCTTTATACCTTAAATAACAACTCAAGTTC
Found at i:31100808 original size:40 final size:40
Alignment explanation
Indices: 31100753--31100977 Score: 441
Period size: 40 Copynumber: 5.6 Consensus size: 40
31100743 ATTTGAATAC
*
31100753 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
31100793 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
31100833 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
31100873 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
31100913 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
31100953 ATCCGGGCTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCAAT
31100978 CCCCTTATAA
Statistics
Matches: 184, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 184 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
Found at i:31115128 original size:40 final size:40
Alignment explanation
Indices: 31115070--31115253 Score: 176
Period size: 40 Copynumber: 4.4 Consensus size: 40
31115060 TCAGAACATT
*
31115070 GGCATTAAGCCTACTAGACATTAAGTCTGTAAAGTTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
* *
31115110 GGCATTAAGCCTGTTAGACATTAAGTCTGTAAAGTTCACT
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
* ** **
31115150 GGCACTAAGCCTGCTGANGTTA-AGCTTGAAG-CT-TAAATCAGAACATT
1 GGCATTAAGCCTGCT-A-G--ACA--TT-AAGTCTGT-AA--AGTTCACC
31115197 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
*
31115237 GGCATTAATCCTGCTAG
1 GGCATTAAGCCTGCTAG
31115254 GCATAGGACC
Statistics
Matches: 117, Mismatches: 14, Indels: 26
0.75 0.09 0.17
Matches are distributed among these distances:
40 70 0.60
41 4 0.03
42 7 0.06
43 3 0.03
44 3 0.03
45 7 0.06
46 4 0.03
47 19 0.16
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (40 bp):
GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
Found at i:31115692 original size:49 final size:49
Alignment explanation
Indices: 31115612--31115710 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
31115602 TATATATATG
*
31115612 TATAATCGAAACTCACATATACATTACAACATACATACCTTAAATCAAT
1 TATAATCGAAACTCACATATACAATACAACATACATACCTTAAATCAAT
* *
31115661 TATAATCGAAACTGACATATACAATATAACATACATACCTTAAATCAAT
1 TATAATCGAAACTCACATATACAATACAACATACATACCTTAAATCAAT
31115710 T
1 T
31115711 TCAAAAATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.29
Consensus pattern (49 bp):
TATAATCGAAACTCACATATACAATACAACATACATACCTTAAATCAAT
Found at i:31115811 original size:76 final size:76
Alignment explanation
Indices: 31115727--31115883 Score: 314
Period size: 76 Copynumber: 2.1 Consensus size: 76
31115717 ATTACACAAG
31115727 TATATACATATATATTCGAACAATATATATATTCATACATAAATCTTTCATACTTTAATTAAATT
1 TATATACATATATATTCGAACAATATATATATTCATACATAAATCTTTCATACTTTAATTAAATT
31115792 CAACCTATATA
66 CAACCTATATA
31115803 TATATACATATATATTCGAACAATATATATATTCATACATAAATCTTTCATACTTTAATTAAATT
1 TATATACATATATATTCGAACAATATATATATTCATACATAAATCTTTCATACTTTAATTAAATT
31115868 CAACCTATATA
66 CAACCTATATA
31115879 TATAT
1 TATAT
31115884 TTTATCACAG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 81 1.00
ACGTcount: A:0.43, C:0.14, G:0.01, T:0.41
Consensus pattern (76 bp):
TATATACATATATATTCGAACAATATATATATTCATACATAAATCTTTCATACTTTAATTAAATT
CAACCTATATA
Found at i:31116973 original size:20 final size:20
Alignment explanation
Indices: 31116948--31116986 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
31116938 TTTCGACTCA
31116948 GTTTCATGGTCCCAAAACCT
1 GTTTCATGGTCCCAAAACCT
31116968 GTTTCATGGTCCCAAAACC
1 GTTTCATGGTCCCAAAACC
31116987 ACTATGTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (20 bp):
GTTTCATGGTCCCAAAACCT
Found at i:31123253 original size:40 final size:40
Alignment explanation
Indices: 31123193--31123282 Score: 153
Period size: 40 Copynumber: 2.2 Consensus size: 40
31123183 ACTGGTATTC
*
31123193 AGCCTGCTAGACATTAAGTCTGTAAAATTCACCGGCATTA
1 AGCCTGCTAGACATTAAGTCTGTAAAATTCACCGGCACTA
* *
31123233 AGCCTGCTAGACATTTAGTCTGTAAAGTTCACCGGCACTA
1 AGCCTGCTAGACATTAAGTCTGTAAAATTCACCGGCACTA
31123273 AGCCTGCTAG
1 AGCCTGCTAG
31123283 GAACAGGACC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (40 bp):
AGCCTGCTAGACATTAAGTCTGTAAAATTCACCGGCACTA
Found at i:31126843 original size:29 final size:29
Alignment explanation
Indices: 31126811--31127055 Score: 216
Period size: 29 Copynumber: 8.4 Consensus size: 29
31126801 GTTGCAACCG
* *
31126811 TCCCTTTTCATATTCGATGGTCGAAATCA
1 TCCCTTTTCATATTCGATGGTCGACACCA
*
31126840 TCCCTTTTCATTAATCGATGGTC-ATCACCA
1 TCCCTTTTCA-TATTCGATGGTCGA-CACCA
31126870 TCCCTTTTCATAGTT-GATGGTC-ATCACCA
1 TCCCTTTTCATA-TTCGATGGTCGA-CACCA
* * * * *
31126899 TCCCTTTTCATAATCGATAG-CCAAAGCTA
1 TCCCTTTTCATATTCGATGGTCGACA-CCA
* * *
31126928 TCCCTTTTCATATTCGATAGCCGA-AGCTA
1 TCCCTTTTCATATTCGATGGTCGACA-CCA
* *
31126957 TCCCTTTTCATATTTGATGGTCGTCACCA
1 TCCCTTTTCATATTCGATGGTCGACACCA
* *
31126986 TCCCTTTACATATTCGATGGTCGTCACCA
1 TCCCTTTTCATATTCGATGGTCGACACCA
**
31127015 TCCCTTTTCATAGTT-GATTATC-ATCACCA
1 TCCCTTTTCATA-TTCGATGGTCGA-CACCA
31127044 TCCCTTTTCATA
1 TCCCTTTTCATA
31127056 ATCGTTAGCC
Statistics
Matches: 185, Mismatches: 21, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
28 3 0.02
29 152 0.82
30 30 0.16
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (29 bp):
TCCCTTTTCATATTCGATGGTCGACACCA
Found at i:31126989 original size:58 final size:58
Alignment explanation
Indices: 31126811--31127094 Score: 186
Period size: 58 Copynumber: 4.9 Consensus size: 58
31126801 GTTGCAACCG
* * * * * *
31126811 TCCCTTTTCATATTCGATGGTCGAA-ATCATCCCTTTTCATTAATCGATGGTCATCACCA
1 TCCCTTTTCATATTCGATAGCCGAAGCT-ATCCCTTTTCA-TATTTGATGATCATCACCA
* * * * * * * *
31126870 TCCCTTTTCATAGTT-GATGGTC-ATCA-CCATCCCTTTTCATAATCGAT-AGCCA-AAGCTA
1 TCCCTTTTCATA-TTCGATAGCCGA--AGCTATCCCTTTTCATATTTGATGA-TCATCA-CCA
* *
31126928 TCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGGTCGTCACCA
1 TCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGATCATCACCA
* * * * * * *
31126986 TCCCTTTACATATTCGATGGTCGTCA-CCATCCCTTTTCATAGTTGATTATCATCACCA
1 TCCCTTTTCATATTCGATAGCCG-AAGCTATCCCTTTTCATATTTGATGATCATCACCA
* * * * * *
31127044 TCCCTTTTCATAATCGTTAGCCAAAGCTATCCTTTTTCAAATTCGATGATC
1 TCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGATC
31127095 GCCGATACGC
Statistics
Matches: 175, Mismatches: 38, Indels: 25
0.74 0.16 0.11
Matches are distributed among these distances:
57 5 0.03
58 134 0.77
59 33 0.19
60 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (58 bp):
TCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGATCATCACCA
Found at i:31127018 original size:87 final size:86
Alignment explanation
Indices: 31126811--31127055 Score: 253
Period size: 87 Copynumber: 2.8 Consensus size: 86
31126801 GTTGCAACCG
* * *
31126811 TCCCTTTTCATATTCGATGGTCGAAATCATCCCTTTTCATTAATCGATGGTCATCACCATCCCTT
1 TCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCA-TAATCGATAGCCA-CACCATCCCTT
31126876 TTCATAGTTGATGGTCATCACCA
64 TTCATAGTTGATGGTCATCACCA
* * * * * *
31126899 TCCCTTTTCATAATCGATAG-CCAAAGCTATCCCTTTTCATATTCGATAGCCGA-AGCTATCCCT
1 TCCCTTTTCATATTCGATGGTCGAAA-CCATCCCTTTTCATAATCGATAGCC-ACA-CCATCCCT
* *
31126962 TTTCATATTTGATGGTCGTCACCA
63 TTTCATAGTTGATGGTCATCACCA
* ** * * *
31126986 TCCCTTTACATATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATTA-TCATCACCATCCCTT
1 TCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATAATCGA-TAGCCA-CACCATCCCTT
31127050 TTCATA
64 TTCATA
31127056 ATCGTTAGCC
Statistics
Matches: 128, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
86 2 0.02
87 91 0.71
88 35 0.27
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (86 bp):
TCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATAATCGATAGCCACACCATCCCTTTT
CATAGTTGATGGTCATCACCA
Found at i:31127047 original size:116 final size:116
Alignment explanation
Indices: 31126811--31127091 Score: 327
Period size: 116 Copynumber: 2.4 Consensus size: 116
31126801 GTTGCAACCG
* * * *
31126811 TCCCTTTTCATATTCGATGGTCGAA-ATCATCCCTTTTCATTAATCGATGGTCATCACCATCCCT
1 TCCCTTTTCATATTCGATAGCCGAAGCT-ATCCCTTTTCA-TATTCGATGGTCATCACCATCCCT
* *
31126875 TTTCATAGTTGATGGTCATCACCATCCCTTTTCATAATCGATAGCCAAAGCTA
64 TTACATAGTTGATGGTCATCACCATCCCTTTTCATAATCGATAGCCAAAGCCA
* *
31126928 TCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGGTCGTCACCATCCCTTT
1 TCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCATCACCATCCCTTT
* * * * *
31126993 ACATA-TTCGATGGTCGTCACCATCCCTTTTCATAGTTGATTA-TCATCA-CCA
66 ACATAGTT-GATGGTCATCACCATCCCTTTTCATAATCGA-TAGCCA-AAGCCA
* * * * *
31127044 TCCCTTTTCATAATCGTTAGCCAAAGCTATCCTTTTTCAAATTCGATG
1 TCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTCGATG
31127092 ATCGCCGATA
Statistics
Matches: 141, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
115 2 0.01
116 101 0.72
117 37 0.26
118 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.37
Consensus pattern (116 bp):
TCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCATCACCATCCCTTT
ACATAGTTGATGGTCATCACCATCCCTTTTCATAATCGATAGCCAAAGCCA
Found at i:31136389 original size:45 final size:45
Alignment explanation
Indices: 31136264--31136391 Score: 202
Period size: 45 Copynumber: 2.8 Consensus size: 45
31136254 TACCGGAATT
*
31136264 GAGTAAGACCATGGCTAAAAGACGTTATGGCATCACGATTCTATC
1 GAGTAAGACCATGGCTAAAAGACGTTATGGCATCATGATTCTATC
* *
31136309 GAGTAAGACCATGGCTGAAAGACGTTATGGCATCATGATTCTTTC
1 GAGTAAGACCATGGCTAAAAGACGTTATGGCATCATGATTCTATC
** *
31136354 GAGTAAGACCATACCTAAAAGACGCTATGGCATCATGA
1 GAGTAAGACCATGGCTAAAAGACGTTATGGCATCATGA
31136392 ATCAAAGAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (45 bp):
GAGTAAGACCATGGCTAAAAGACGTTATGGCATCATGATTCTATC
Found at i:31136406 original size:90 final size:90
Alignment explanation
Indices: 31136264--31136430 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 90
31136254 TACCGGAATT
** * * ** * *
31136264 GAGTAAGACCATGGCTAAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCATGGCTGAAA
1 GAGTAAGACCATACCTAAAAGACGCTATGGCATCACGAATCTAAAGAATAAGACCATAGCTGAAA
**
31136329 GACGTTATGGCATCATGATTCTTTC
66 GACACTATGGCATCATGATTCTTTC
* *
31136354 GAGTAAGACCATACCTAAAAGACGCTATGGCATCATGAATC-AAAGAAATAAGACCATAGTTGAA
1 GAGTAAGACCATACCTAAAAGACGCTATGGCATCACGAATCTAAAG-AATAAGACCATAGCTGAA
31136418 AGACACTATGGCA
65 AGACACTATGGCA
31136431 ATACAACGAA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
89 2 0.03
90 62 0.97
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (90 bp):
GAGTAAGACCATACCTAAAAGACGCTATGGCATCACGAATCTAAAGAATAAGACCATAGCTGAAA
GACACTATGGCATCATGATTCTTTC
Found at i:31142589 original size:22 final size:22
Alignment explanation
Indices: 31142564--31142615 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
31142554 GTGCATATAT
* *
31142564 ATATATATATATTTTTGTAAGA
1 ATATATATATATTTTTATAAAA
* * *
31142586 ATATTTTTATCTTTTTATAAAA
1 ATATATATATATTTTTATAAAA
31142608 ATATATAT
1 ATATATAT
31142616 TAAATAAATT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (22 bp):
ATATATATATATTTTTATAAAA
Found at i:31147483 original size:96 final size:96
Alignment explanation
Indices: 31147319--31147503 Score: 280
Period size: 96 Copynumber: 1.9 Consensus size: 96
31147309 CTTACTTTCT
* * * * *
31147319 TCTCTAGTTGGATATTTAATTGGATATTGGAAATCCTTATGATCTTCTGAATTACACTAATAACA
1 TCTCTAGTTGGATATTTAAGTGGACATTGGAAACCCTTATGACCTTCTGAACTACACTAATAACA
*
31147384 TTGCACAAAAGGTGATATCTCAATTGTCTTC
66 TTGCACAAAAGGTGATAGCTCAATTGTCTTC
* * *
31147415 TCTCTATTTGGATATTTAAGTGGGCATTGGAAACCCTTATGACCTTTTGAACTACACTAATAACA
1 TCTCTAGTTGGATATTTAAGTGGACATTGGAAACCCTTATGACCTTCTGAACTACACTAATAACA
*
31147480 TTGCACAAAATGTGATAGCTCAAT
66 TTGCACAAAAGGTGATAGCTCAAT
31147504 CGTATTCCTC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 79 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (96 bp):
TCTCTAGTTGGATATTTAAGTGGACATTGGAAACCCTTATGACCTTCTGAACTACACTAATAACA
TTGCACAAAAGGTGATAGCTCAATTGTCTTC
Found at i:31150694 original size:30 final size:30
Alignment explanation
Indices: 31150653--31150725 Score: 130
Period size: 30 Copynumber: 2.5 Consensus size: 30
31150643 TATTCATAAC
*
31150653 AACAA-ATAATTTATTTTAGAATTGAAAGT
1 AACAATATAATTTATTTTAGAATTGAAAAT
31150682 AACAATATAATTTATTTTAGAATTGAAAAT
1 AACAATATAATTTATTTTAGAATTGAAAAT
31150712 AACAATATAATTTA
1 AACAATATAATTTA
31150726 ATACATGATT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 5 0.12
30 37 0.88
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (30 bp):
AACAATATAATTTATTTTAGAATTGAAAAT
Found at i:31161768 original size:16 final size:15
Alignment explanation
Indices: 31161747--31161780 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
31161737 GATTTTACAC
*
31161747 TATTATTTGTTTTATT
1 TATTATTTCTTTT-TT
31161763 TATTATTTCTTTTTT
1 TATTATTTCTTTTTT
31161778 TAT
1 TAT
31161781 ATATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (15 bp):
TATTATTTCTTTTTT
Found at i:31173475 original size:37 final size:37
Alignment explanation
Indices: 31173425--31173498 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
31173415 CACAACTCAC
31173425 GATGTTGGGATTATGAAGATCTCAAGTGGGAGGATCA
1 GATGTTGGGATTATGAAGATCTCAAGTGGGAGGATCA
*
31173462 GATGTTGGGATTATGATGATCTCAAGTGGGAGGATCA
1 GATGTTGGGATTATGAAGATCTCAAGTGGGAGGATCA
31173499 TATACATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.35, T:0.28
Consensus pattern (37 bp):
GATGTTGGGATTATGAAGATCTCAAGTGGGAGGATCA
Found at i:31178469 original size:12 final size:13
Alignment explanation
Indices: 31178452--31178480 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
31178442 CTCATACATG
31178452 AATAAATAAA-GC
1 AATAAATAAATGC
31178464 AATAAATAAATGC
1 AATAAATAAATGC
31178477 AATA
1 AATA
31178481 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:31183312 original size:96 final size:96
Alignment explanation
Indices: 31183136--31183313 Score: 248
Period size: 96 Copynumber: 1.9 Consensus size: 96
31183126 AAGCCCCTAG
* * * * * * *
31183136 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCACACCGAAGATAGCAAACCTTATCTCCCTAAAGTTGC
*
31183201 AGTGGAATAGATTGAAGCTATAAATTACAGA
66 AGTGGAACAGATTGAAGCTATAAATTACAGA
* *
31183232 TCTTATCTCTCTGAAGTTGCAGTAGAGCACACCGAAGATAGCAAACCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCACACCGAAGATAGCAAACCTTATCTCCCTAAAGTTGC
* *
31183297 AGTGGAGCAGGTTGAAG
66 AGTGGAACAGATTGAAG
31183314 ATACCAATCT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (96 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCACACCGAAGATAGCAAACCTTATCTCCCTAAAGTTGC
AGTGGAACAGATTGAAGCTATAAATTACAGA
Done.