Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2122
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: 141392
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:3564 original size:13 final size:13
Alignment explanation
Indices: 3546--3571 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3536 CAATTTTTTG
3546 TGTATCGATACAT
1 TGTATCGATACAT
3559 TGTATCGATACAT
1 TGTATCGATACAT
3572 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3583 original size:32 final size:33
Alignment explanation
Indices: 3526--3589 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3516 TACAAGCCAA
**
3526 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
3559 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
3590 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:3666 original size:20 final size:21
Alignment explanation
Indices: 3619--3673 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
3609 AATCCCAATG
* *
3619 ACATGTATCGATACATCTTTT
1 ACATGTATCGATACATCTGTA
*
3640 TCATGTATCGATACAT-TGTA
1 ACATGTATCGATACATCTGTA
*
3660 ACATGTAGCGATAC
1 ACATGTATCGATAC
3674 TTTGAATTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (21 bp):
ACATGTATCGATACATCTGTA
Found at i:4274 original size:40 final size:40
Alignment explanation
Indices: 4215--4296 Score: 98
Period size: 40 Copynumber: 2.0 Consensus size: 40
4205 TTTTGTTTCT
4215 CCCTTAACTAAAGTAATTTTAACAAAATT-CGTACATTCTCC
1 CCCTTAACTAAAGTAATTTTAACAAAATTACG--CATTCTCC
* *
4256 CCCTTAA-T-AAGATAATTTTAGCAAATTTACGCATTCTCC
1 CCCTTAACTAAAG-TAATTTTAACAAAATTACGCATTCTCC
4295 CC
1 CC
4297 TTTTAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
39 13 0.35
40 15 0.41
41 9 0.24
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (40 bp):
CCCTTAACTAAAGTAATTTTAACAAAATTACGCATTCTCC
Found at i:5692 original size:21 final size:20
Alignment explanation
Indices: 5663--5705 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
5653 GACTAGTGTG
* *
5663 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
5684 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
5704 GG
1 GG
5706 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:12364 original size:13 final size:13
Alignment explanation
Indices: 12346--12371 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12336 CATTTTTTTG
12346 TGTATCGATACAT
1 TGTATCGATACAT
12359 TGTATCGATACAT
1 TGTATCGATACAT
12372 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:12370 original size:33 final size:32
Alignment explanation
Indices: 12326--12389 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
12316 TACAAGCCAA
**
12326 TGTATCAATACATTTTTTTGTGTATCGATACAT
1 TGTATCAATACA-TACTTTGTGTATCGATACAT
*
12359 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCAATACATACTTTGTGTATCGATACA
12390 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (32 bp):
TGTATCAATACATACTTTGTGTATCGATACAT
Found at i:14150 original size:33 final size:32
Alignment explanation
Indices: 14113--14180 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
14103 CCGTTAAAGC
*
14113 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATATTATG-TGTATCGATA
*
14146 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTATGTGTATCGATA
14178 CAA
1 CAA
14181 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATATTATGTGTATCGATA
Found at i:14153 original size:13 final size:13
Alignment explanation
Indices: 14135--14160 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14125 ACATTTTATG
14135 ATGTATCGATACA
1 ATGTATCGATACA
14148 ATGTATCGATACA
1 ATGTATCGATACA
14161 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:14249 original size:20 final size:21
Alignment explanation
Indices: 14202--14254 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
14192 GCCAATGACC
**
14202 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
14223 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
14243 TGTATCGATACA
1 TGTATCGATACA
14255 ATGTATCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:15169 original size:21 final size:21
Alignment explanation
Indices: 15145--15185 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15135 CTAAGTAAAA
15145 ATACGTATTG-TATCAATACAT
1 ATAC-TATTGATATCAATACAT
*
15166 ATACTATTGATATTAATACA
1 ATACTATTGATATCAATACA
15186 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (21 bp):
ATACTATTGATATCAATACAT
Found at i:15348 original size:53 final size:53
Alignment explanation
Indices: 15267--15401 Score: 234
Period size: 53 Copynumber: 2.5 Consensus size: 53
15257 ATTGCATAGG
15267 ATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTGT
1 ATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTGT
*
15321 ATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTTGT
1 ATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTGT
* *
15374 ATCGATACATAGAATATGTATCGATACA
1 ATCGATACACACAATATGTATCGATACA
15402 TTGGAAGTAG
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.85
54 12 0.15
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
ATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTGT
Found at i:15474 original size:21 final size:22
Alignment explanation
Indices: 15446--15496 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
15436 CACTATTCAT
15446 ACTGTTCATGTATCGATACATC
1 ACTGTTCATGTATCGATACATC
15468 ACT-TTCATGTATCGATACATC
1 ACTGTTCATGTATCGATACATC
15489 ACTGTTCA
1 ACTGTTCA
15497 CTATTCATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (22 bp):
ACTGTTCATGTATCGATACATC
Found at i:15504 original size:29 final size:31
Alignment explanation
Indices: 15465--15552 Score: 101
Period size: 34 Copynumber: 2.8 Consensus size: 31
15455 GTATCGATAC
15465 ATCACT-TTCATGTATCGATACATCACTG-T
1 ATCACTATTCATGTATCGATACATCACTGTT
* * *
15494 -TCACTATTCATGTATCGTTAAAAATCCCTGTT
1 ATCACTATTCATGTATCG--ATACATCACTGTT
15526 CATCACTATTCATGTATCGATACATCA
1 -ATCACTATTCATGTATCGATACATCA
15553 TAAATAGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
28 5 0.11
29 11 0.23
31 8 0.17
32 6 0.13
34 17 0.36
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.38
Consensus pattern (31 bp):
ATCACTATTCATGTATCGATACATCACTGTT
Found at i:19786 original size:20 final size:20
Alignment explanation
Indices: 19761--19837 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
19751 TTTCACCCAG
19761 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
19781 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
19801 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTTTTCA
*
19821 ATATATCGATACATTTT
1 ATGTATCGATACATTTT
19838 ATTTTTTTAC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:29576 original size:32 final size:32
Alignment explanation
Indices: 29533--29642 Score: 100
Period size: 32 Copynumber: 3.4 Consensus size: 32
29523 ACATTTTATA
29533 ATGTATCGATACATCTGGGCAAATTTGCCTGC
1 ATGTATCGATACATCTGGGCAAATTTGCCTGC
* ** ** * *
29565 ATGTATTGATACA-AAGATC-AATGTAT-CGATAC
1 ATGTATCGATACATCTGGGCAAAT-T-TGC-CTGC
29597 AATGTATCGATACATCTGGGCAAATTTGCCTGC
1 -ATGTATCGATACATCTGGGCAAATTTGCCTGC
29630 ATGTATCGATACA
1 ATGTATCGATACA
29643 AAGATCAGTG
Statistics
Matches: 57, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
30 3 0.05
31 4 0.07
32 28 0.49
33 15 0.26
34 4 0.07
35 3 0.05
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (32 bp):
ATGTATCGATACATCTGGGCAAATTTGCCTGC
Found at i:29577 original size:104 final size:110
Alignment explanation
Indices: 29397--29642 Score: 360
Period size: 104 Copynumber: 2.2 Consensus size: 110
29387 CGAAATATGA
29397 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGCCTGCA
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGCCTGCA
*
29462 TGTATCGATAC-AT-T-T-T-AT-AGTGTATCGATACATCTGGGC
66 TGTATCGATACAATATGTATCATAAATGTATCGATACATCTGGGC
*
29501 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCA
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGCCTGCA
*
29566 TGTATTGATACAAAGATCAATGTATCGATACAATGTATCGATACATCTGGGC
66 TGTATCGATAC--A-AT--ATGTATC-ATA-AATGTATCGATACATCTGGGC
29618 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
29643 AAGATCAGTG
Statistics
Matches: 126, Mismatches: 3, Indels: 13
0.89 0.02 0.09
Matches are distributed among these distances:
104 74 0.59
108 2 0.02
111 1 0.01
112 1 0.01
113 1 0.01
115 2 0.02
117 45 0.36
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (110 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGCCTGCA
TGTATCGATACAATATGTATCATAAATGTATCGATACATCTGGGC
Found at i:29597 original size:52 final size:52
Alignment explanation
Indices: 29397--29577 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
29387 CGAAATATGA
*
29397 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
*
29449 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
29501 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
*
29553 AAATTTGCCTGCATGTATTGATACA
1 AAATTTGCCTGCATGTATCGATACA
29578 AAGATCAATG
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 125 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
Found at i:29601 original size:13 final size:13
Alignment explanation
Indices: 29583--29610 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
29573 ATACAAAGAT
29583 CAATGTATCGATA
1 CAATGTATCGATA
29596 CAATGTATCGATA
1 CAATGTATCGATA
29609 CA
1 CA
29611 TCTGGGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:29641 original size:65 final size:65
Alignment explanation
Indices: 29532--29679 Score: 278
Period size: 65 Copynumber: 2.3 Consensus size: 65
29522 TACATTTTAT
*
29532 AATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATTGATACAAAGATCAATGTATCGATAC
1 AATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAAGATCAATGTATCGATAC
*
29597 AATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATAC
1 AATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAAGATCAATGTATCGATAC
29662 AATGTATCGATACATCTG
1 AATGTATCGATACATCTG
29680 AGTAATGTAT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 81 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (65 bp):
AATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAAGATCAATGTATCGATAC
Found at i:29669 original size:13 final size:13
Alignment explanation
Indices: 29651--29709 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
29641 CAAAGATCAG
29651 TGTATCGATACAA
1 TGTATCGATACAA
29664 TGTATCGATAC-A
1 TGTATCGATACAA
*
29676 --TCT-GAGT--AA
1 TGTATCGA-TACAA
29685 TGTATCGATACAA
1 TGTATCGATACAA
29698 TGTATCGATACA
1 TGTATCGATACA
29710 TCTGAGTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
9 3 0.08
10 3 0.08
11 3 0.08
12 3 0.08
13 25 0.68
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:29694 original size:34 final size:34
Alignment explanation
Indices: 29584--29730 Score: 162
Period size: 34 Copynumber: 4.4 Consensus size: 34
29574 TACAAAGATC
* *
29584 AATGTATCGATACAATGTATCGATACATCTGGGCA
1 AATGTATCGATACAATGTATCGATACATCTGAG-T
* * **
29619 AAT-T-T-GCCTGC-ATGTATCGATACA-AAGA-T
1 AATGTATCG-ATACAATGTATCGATACATCTGAGT
*
29648 CAGTGTATCGATACAATGTATCGATACATCTGAGT
1 -AATGTATCGATACAATGTATCGATACATCTGAGT
29683 AATGTATCGATACAATGTATCGATACATCTGAGT
1 AATGTATCGATACAATGTATCGATACATCTGAGT
29717 AATGTATCGATACA
1 AATGTATCGATACA
29731 TTTTTTGGCA
Statistics
Matches: 92, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
30 2 0.02
31 2 0.02
32 17 0.18
33 17 0.18
34 50 0.54
35 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (34 bp):
AATGTATCGATACAATGTATCGATACATCTGAGT
Found at i:29776 original size:19 final size:19
Alignment explanation
Indices: 29752--29849 Score: 67
Period size: 19 Copynumber: 5.7 Consensus size: 19
29742 TAGCTTAAAT
29752 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
29771 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
29784 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
* *
29803 TGTATTGAT---ATA--T-
1 TGTATCGATACAAAACTTA
*
29816 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
29836 TGTATCGATACAAA
1 TGTATCGATACAAA
29850 TCGTTGAATT
Statistics
Matches: 61, Mismatches: 5, Indels: 25
0.67 0.05 0.27
Matches are distributed among these distances:
13 19 0.31
14 2 0.03
16 6 0.10
18 1 0.02
19 20 0.33
20 13 0.21
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:29789 original size:13 final size:13
Alignment explanation
Indices: 29771--29795 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29761 ACAAAACTTA
29771 TGTATCGATACAT
1 TGTATCGATACAT
29784 TGTATCGATACA
1 TGTATCGATACA
29796 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:29791 original size:32 final size:32
Alignment explanation
Indices: 29750--29847 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
29740 AGTAGCTTAA
*
29750 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
* *
29782 ATTGTATCGATACAACACTTATGTATTGATAT
1 ATTGTATCGATACAACACTTATGTATCGATAC
29814 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
29847 A
1 A
29848 AATCGTTGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 47 0.78
33 13 0.22
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:35562 original size:13 final size:13
Alignment explanation
Indices: 35480--35566 Score: 50
Period size: 13 Copynumber: 6.6 Consensus size: 13
35470 CAATTTACCA
*
35480 TTTGTCAAGAAATG
1 TTTGTCAAG-AATT
*
35494 GTTGTCAAGAAATT
1 TTTGTCAAG-AATT
* ** *
35508 ATCATCAAGAACT
1 TTTGTCAAGAATT
* *
35521 TTTGTCGAGAATG
1 TTTGTCAAGAATT
* **
35534 TTCGT-AAGAAAC
1 TTTGTCAAGAATT
35546 TTTGTCAAGAATT
1 TTTGTCAAGAATT
35559 TTTGTCAA
1 TTTGTCAA
35567 TACGACACTT
Statistics
Matches: 53, Mismatches: 19, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
12 8 0.15
13 27 0.51
14 18 0.34
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (13 bp):
TTTGTCAAGAATT
Found at i:35605 original size:28 final size:28
Alignment explanation
Indices: 35574--36270 Score: 642
Period size: 28 Copynumber: 24.5 Consensus size: 28
35564 CAATACGACA
*
35574 CTTTTAAAGCCAACAAGTCAGTGGCATC
1 CTTTTAAAGCCCACAAGTCAGTGGCATC
* * *
35602 CTTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTTAAAGCCCACAAGTCAGTGGCATC
35630 CTTTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTT-AAAGCCCACAAGTCAGTGGCATC
* * *
35659 CTTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTTAAAGCCCACAAGTCAGTGGCATC
35687 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
1 CTTTT-AAAGCCCACAAGTCAGTGGCATC
* * *
35715 CCTTCAAAGCCCACAAGTCAATGGCATC
1 CTTTTAAAGCCCACAAGTCAGTGGCATC
* *
35743 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTTAAAGCCCACAAGTCAGTGGCATC
*
35771 CTTTCCAAAGCCCACAAGTCAGTGGCA-C
1 CTTT-TAAAGCCCACAAGTCAGTGGCATC
* *
35799 CCTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTTAAAGCCCACAAGTCAGTGGCATC
* * * *
35827 ATTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTTAAAGCCCACAAGTCAGTGGCATC
*
35855 CTTTTCAAAGCCCGCAAGTCAGTGGCA-C
1 CTTTT-AAAGCCCACAAGTCAGTGGCATC
* * *
35883 CCTTCAAAGCCCATAAGTCAGTGGCAT-
1 CTTTTAAAGCCCACAAGTCAGTGGCATC
** *
35910 CTTTTCAAAGCCCATGAGTCAATGGCATC
1 CTTTT-AAAGCCCACAAGTCAGTGGCATC
* * * * * *
35939 CTTTCAAAACCCACATGTTAGTGGTACC
1 CTTTTAAAGCCCACAAGTCAGTGGCATC
* * *
35967 CTTTCAAAACCCACAAGTCAATGGCAT-
1 CTTTTAAAGCCCACAAGTCAGTGGCATC
**
35994 CTTTTCAAAGCCCATGAGTCAGTGGCATC
1 CTTTT-AAAGCCCACAAGTCAGTGGCATC
* * **
36023 CTTTCAAAAGCCTATGAGTCAGTGGCAT-
1 CTTT-TAAAGCCCACAAGTCAGTGGCATC
* * *
36051 CTTTTCAAAAGCCCACGAGTTAGCT-GCACC
1 CTTTT--AAAGCCCACAAGTCAG-TGGCATC
* * *
36081 CTTTCAAAGCTCACGAGTCAGTGGCATC
1 CTTTTAAAGCCCACAAGTCAGTGGCATC
*
36109 TTTTTTCAAAGCCCACAAGTCAGTGGCA-C
1 -CTTTT-AAAGCCCACAAGTCAGTGGCATC
* *
36138 ATTTTTCAAAGCCCACAAGTCAATGGCA-C
1 -CTTTT-AAAGCCCACAAGTCAGTGGCATC
36167 CTTTTCAAAGCCCACAA-TCAGTGGCAT-
1 CTTTT-AAAGCCCACAAGTCAGTGGCATC
*
36194 CTTTTCAAAGCCCACAAGTCAGTGGCAAC
1 CTTTT-AAAGCCCACAAGTCAGTGGCATC
* * *
36223 CTATTCTAAAGCCCACACAAGTCGGTGGTAAC
1 CT-TT-TAAAG-CC-CACAAGTCAGTGGCATC
36255 CTTTTTAAAGCCCACA
1 C-TTTTAAAGCCCACA
36271 CAAGTTGGTG
Statistics
Matches: 566, Mismatches: 76, Indels: 53
0.81 0.11 0.08
Matches are distributed among these distances:
27 94 0.17
28 245 0.43
29 168 0.30
30 32 0.06
31 8 0.01
32 18 0.03
33 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
CTTTTAAAGCCCACAAGTCAGTGGCATC
Found at i:35667 original size:57 final size:57
Alignment explanation
Indices: 35574--36270 Score: 801
Period size: 57 Copynumber: 12.3 Consensus size: 57
35564 CAATACGACA
* *
35574 CTTTT-AAAGCCAACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC
*
35630 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC
* * *
35687 CTTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTCAAAGCCCACAAGTCAATGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC
*
35743 C-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCCAAAGCCCACAAGTCAGTGGCACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTT-CAAAGCCCACAAGTCAGTGGCACC
* *
35800 C--TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC
* * * *
35855 CTTTTCAAAGCCCGCAAGTCAGTGGCA-CCCTTCAAAGCCCATAAGTCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC
** * * * * *
35910 CTTTTCAAAGCCCATGAGTCAATGGCATCCTTTCAAAACCCACATGTTAGTGGTACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC
* * * ** *
35967 C-TTTCAAAACCCACAAGTCAATGGCATCTTTTCAAAGCCCATGAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC
* ** * * *
36023 C-TTTCAAAAGCCTATGAGTCAGTGGCATCTTTTCAAAAGCCCACGAGTTAGCT-GCACC
1 CTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAG-TGGCACC
* * * *
36081 C-TTTCAAAGCTCACGAGTCAGTGGCATCTTTTTTCAAAGCCCACAAGTCAGTGGCACA
1 CTTTTCAAAGCCCACAAGTCAGTGGCATC--CTTTCAAAGCCCACAAGTCAGTGGCACC
* * *
36139 TTTTTCAAAGCCCACAAGTCAATGGCA-CCTTTTCAAAGCCCACAA-TCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCACC
* * * *
36194 CTTTTCAAAGCCCACAAGTCAGTGGCAACCTATTCTAAAGCCCACACAAGTCGGTGGTAAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAG-CC-CACAAGTCAGTGGCACC
*
36255 CTTTTTAAAGCCCACA
1 CTTTTCAAAGCCCACA
36271 CAAGTTGGTG
Statistics
Matches: 554, Mismatches: 65, Indels: 39
0.84 0.10 0.06
Matches are distributed among these distances:
55 98 0.18
56 170 0.31
57 187 0.34
58 44 0.08
59 33 0.06
60 7 0.01
61 15 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (57 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC
Found at i:35746 original size:84 final size:84
Alignment explanation
Indices: 35574--36239 Score: 761
Period size: 84 Copynumber: 7.8 Consensus size: 84
35564 CAATACGACA
* * * *
35574 CTTTTAAAGCCAACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCC--TTCAA
*
35638 AGCCCACAAGTCAGTGGCATC
64 AGCCCACAAGTCAATGGCATC
*
35659 CTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTCAAAG
35724 CCCACAAGTCAATGGCATC
66 CCCACAAGTCAATGGCATC
*
35743 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCCAAAGCCCACAAGTCAGTGGCACCCTTCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTCAAAG
*
35808 CCCACAAGTCAGTGGCATC
66 CCCACAAGTCAATGGCATC
* * *
35827 ATTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGCCCGCAAGTCAGTGGCACCCTTCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTCAAAG
* *
35892 CCCATAAGTCAGTGGCATC
66 CCCACAAGTCAATGGCATC
* ** * * * * * *
35911 TTTTCAAAGCCCATGAGTCAATGGCATCC-TTTCAAAACCCACATGTTAGTGGTACCCTTTCAAA
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCC-TTCAAA
*
35975 ACCCACAAGTCAATGGCATC
65 GCCCACAAGTCAATGGCATC
* ** * * ** **
35995 TTTTCAAAGCCCATGAGTCAGTGGCATCC-TTTCAAAAGCCTATGAGTCAGTGGCATCTTTTCAA
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTC-AAAGCCCACAAGTCAGTGGCA-CCCTTC-A
* * * *
36059 AAGCCCACGAGTTAGCT-GCACC
63 AAGCCCACAAGTCA-ATGGCATC
* * ** **
36081 CTTTCAAAGCTCACGAGTCAGTGGCATCTTTTTTCAAAGCCCACAAGTCAGTGGCACATTTTTCA
1 CTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTTCAAAGCCCACAAGTCAGTGGCAC--CCTTCA
36146 AAGCCCACAAGTCAATGGCA-C
63 AAGCCCACAAGTCAATGGCATC
* *
36167 CTTTTCAAAGCCCACAA-TCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCAACCTATTCT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGC-ACC-CTTC-
36230 AAAGCCCACA
62 AAAGCCCACA
36240 CAAGTCGGTG
Statistics
Matches: 506, Mismatches: 60, Indels: 30
0.85 0.10 0.05
Matches are distributed among these distances:
83 23 0.05
84 292 0.58
85 54 0.11
86 80 0.16
87 48 0.09
88 9 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (84 bp):
CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTCAAAG
CCCACAAGTCAATGGCATC
Found at i:36267 original size:31 final size:31
Alignment explanation
Indices: 36122--36301 Score: 139
Period size: 31 Copynumber: 6.0 Consensus size: 31
36112 TTTCAAAGCC
* * *
36122 CACAAGTCAGTGGC-ACATTTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTTTCT-AAAGCCCA
**
36151 CACAAGTCAATGGC-ACCTTT-TCAAAG-CC-
1 CACAAGTCGGTGGCAACCTTTCT-AAAGCCCA
* * *
36179 CACAA-TCAGTGGCATCTTTTC-AAAG-CC-
1 CACAAGTCGGTGGCAACCTTTCTAAAGCCCA
*
36206 CACAAGTCAGTGGCAACCTATTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCT-TTCTAAAGCCCA
* *
36238 CACAAGTCGGTGGTAACCTTTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTCTAAAGCCCA
*
36269 CACAAGTTGGTGGCAACCTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTT-TCTAAAGCCCA
36301 C
1 C
36302 GTGAGTTGGC
Statistics
Matches: 130, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
27 18 0.14
28 28 0.22
29 21 0.16
30 4 0.03
31 31 0.24
32 28 0.22
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (31 bp):
CACAAGTCGGTGGCAACCTTTCTAAAGCCCA
Found at i:37475 original size:20 final size:20
Alignment explanation
Indices: 37452--37513 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
37442 ACATTTTTCA
37452 ATGTATCGATGTATCGATAC
1 ATGTATCGATGTATCGATAC
*
37472 ATGTAT-GAATGTATTGATAC
1 ATGTATCG-ATGTATCGATAC
* * * *
37492 ATTTTTCAATGCATCGATAC
1 ATGTATCGATGTATCGATAC
37512 AT
1 AT
37514 TCTATTTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (20 bp):
ATGTATCGATGTATCGATAC
Found at i:37482 original size:28 final size:28
Alignment explanation
Indices: 37431--37485 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
37421 TTTTCACCCA
* * *
37431 GATGTATTGATACATTTTTCAATGTATC
1 GATGTATCGATACATGTATCAATGTATC
*
37459 GATGTATCGATACATGTATGAATGTAT
1 GATGTATCGATACATGTATCAATGTAT
37486 TGATACATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (28 bp):
GATGTATCGATACATGTATCAATGTATC
Found at i:39572 original size:30 final size:30
Alignment explanation
Indices: 39497--39579 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 30
39487 TCAACAGCAC
*
39497 CCTTTCTCAAAGTCCACGACTCAGAGGCTTT
1 CCTTT-TCAAAGTCCACGACTCAGAGACTTT
*
39528 CCTTCTTTAAAGTCCACGACTCA-ATGACATTT
1 CCTT-TTCAAAGTCCACGACTCAGA-GAC-TTT
*
39560 -CTTTTCAAAGTCCACAACTC
1 CCTTTTCAAAGTCCACGACTC
39580 TGTGGCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
30 16 0.36
31 25 0.56
32 4 0.09
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (30 bp):
CCTTTTCAAAGTCCACGACTCAGAGACTTT
Found at i:39646 original size:29 final size:29
Alignment explanation
Indices: 39533--39823 Score: 179
Period size: 29 Copynumber: 9.6 Consensus size: 29
39523 GCTTTCCTTC
* ** * *
39533 TTTAAAGTCCACGACTCAATGACATTTCT
1 TTTAAAGTCCACAACTCCGTGGCATCTCT
* * *
39562 TTTCAAAGTCCACAACTCTGTGGCAACCTTT
1 TTT-AAAGTCCACAACTCCGTGGC-ATCTCT
*
39593 TTTAAAGTCCATGACAACTCCATGGCATCTCT
1 TTTAAAGTCC---ACAACTCCGTGGCATCTCT
*
39625 TTTAAAGTCCACAACTCCATGGCATCTCT
1 TTTAAAGTCCACAACTCCGTGGCATCTCT
* * *
39654 TTTAAAGTCCACAACTCCGTGACACATTTTT
1 TTTAAAGTCCACAACTCCGTG--GCATCTCT
** * * * *
39685 CTTTAAAGTTTATAGCTCTGTGGCACCTTTTTCT
1 -TTTAAAGTCCACAACTCCGTGGCA----TCTCT
* * *
39719 TTTAAAGTCCATAACTCTGTGGCACCTCT
1 TTTAAAGTCCACAACTCCGTGGCATCTCT
* * *
39748 TTTAAAGTCCACAACTCCGTAGCACCTTTTT
1 TTTAAAGTCCACAACTCCGTGGCA--TCTCT
** *
39779 TTTCAAAGTCCACAACTCTATGGTATC-CT
1 TTT-AAAGTCCACAACTCCGTGGCATCTCT
*
39808 TTTAAAGTCTACAACT
1 TTTAAAGTCCACAACT
39824 TCGAAGCACC
Statistics
Matches: 207, Mismatches: 40, Indels: 31
0.74 0.14 0.11
Matches are distributed among these distances:
28 12 0.06
29 70 0.34
30 26 0.13
31 16 0.08
32 47 0.23
33 32 0.15
34 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.35
Consensus pattern (29 bp):
TTTAAAGTCCACAACTCCGTGGCATCTCT
Found at i:39693 original size:123 final size:119
Alignment explanation
Indices: 39533--39765 Score: 265
Period size: 123 Copynumber: 1.9 Consensus size: 119
39523 GCTTTCCTTC
*
39533 TTTAAAGTCCACGACTCAATGACATTTCTTTTCAAAGTCCACAACTCTGTGGCAACC-TT-TTTT
1 TTTAAAGTCCACAACTCAATGACATTTCTTTTCAAAGTCCACAACTCTGTGGC-ACCTTTCTTTT
*
39596 AAAGTCCATGACAACTCCATGGCATCTCTTTTAAAGTCCACAACTCCATGGCATCTCT
65 AAAGTCCAT---AACTCCATGGCACCTCTTTTAAAGTCCACAACTCCATGGCATCTCT
** * ** * *
39654 TTTAAAGTCCACAACTCCGTGACACATTT-TTCTTTAAAGTTTATAGCTCTGTGGCACCTTTTTC
1 TTTAAAGTCCACAACTCAATG--ACATTTCTT-TTCAAAGTCCACAACTCTGTGGCACC--TTTC
**
39718 TTTTAAAGTCCATAACTCTGTGGCACCTCTTTTAAAGTCCACAACTCC
61 TTTTAAAGTCCATAACTCCATGGCACCTCTTTTAAAGTCCACAACTCC
39766 GTAGCACCTT
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
121 18 0.19
122 5 0.05
123 56 0.60
125 2 0.02
126 13 0.14
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (119 bp):
TTTAAAGTCCACAACTCAATGACATTTCTTTTCAAAGTCCACAACTCTGTGGCACCTTTCTTTTA
AAGTCCATAACTCCATGGCACCTCTTTTAAAGTCCACAACTCCATGGCATCTCT
Found at i:39716 original size:32 final size:33
Alignment explanation
Indices: 39651--39797 Score: 144
Period size: 32 Copynumber: 4.6 Consensus size: 33
39641 CCATGGCATC
* * * *
39651 TCTTTTAAAGTCCACAACTCCGTGACACATTTT
1 TCTTTTAAAGTCCATAACTCTGTGGCACCTTTT
** *
39684 TC-TTTAAAGTTTATAGCTCTGTGGCACCTTTT
1 TCTTTTAAAGTCCATAACTCTGTGGCACCTTTT
39716 TCTTTTAAAGTCCATAACTCTGTGGCACC----
1 TCTTTTAAAGTCCATAACTCTGTGGCACCTTTT
* * *
39745 TCTTTTAAAGTCCACAACTCCGTAGCACCTTTT
1 TCTTTTAAAGTCCATAACTCTGTGGCACCTTTT
* *
39778 T-TTTCAAAGTCCACAACTCT
1 TCTTTTAAAGTCCATAACTCT
39798 ATGGTATCCT
Statistics
Matches: 94, Mismatches: 15, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
29 26 0.28
32 42 0.45
33 26 0.28
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (33 bp):
TCTTTTAAAGTCCATAACTCTGTGGCACCTTTT
Found at i:39796 original size:61 final size:60
Alignment explanation
Indices: 39533--39840 Score: 212
Period size: 61 Copynumber: 5.0 Consensus size: 60
39523 GCTTTCCTTC
* * * ** *
39533 TTTAAAGTCCACGACTCAATGACATTTCTTTTCAAAGTCCACAACTCTGTGGCAACC--TTT
1 TTTAAAGTCCACAACTCCATGGCACCTCTTTT-AAAGTCCACAACTCCGTGGC-ACCTTTTT
* * * *
39593 TTTAAAGTCCATGACAACTCCATGGCATCTCTTTTAAAGTCCACAACTCCATGGCA--TCTCT
1 TTTAAAGTCC---ACAACTCCATGGCACCTCTTTTAAAGTCCACAACTCCGTGGCACCTTTTT
* * * * ** * * *
39654 TTTAAAGTCCACAACTCCGTGACACATTTTTCTTTAAAGTTTATAGCTCTGTGGCACCTTTTTCT
1 TTTAAAGTCCACAACTCCATGGCAC--CTCT-TTTAAAGTCCACAACTCCGTGGCACC-TTTT-T
* ** *
39719 TTTAAAGTCCATAACTCTGTGGCACCTCTTTTAAAGTCCACAACTCCGTAGCACCTTTTT
1 TTTAAAGTCCACAACTCCATGGCACCTCTTTTAAAGTCCACAACTCCGTGGCACCTTTTT
* * * * * **
39779 TTTCAAAGTCCACAACTCTATGGTATC-CTTTTAAAGTCTACAACTTCGAAGCACCTTTTT
1 TTT-AAAGTCCACAACTCCATGGCACCTCTTTTAAAGTCCACAACTCCGTGGCACCTTTTT
39839 TT
1 TT
39841 AAGCCCACAC
Statistics
Matches: 197, Mismatches: 38, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
58 12 0.06
60 48 0.24
61 54 0.27
62 38 0.19
63 20 0.10
64 2 0.01
65 23 0.12
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (60 bp):
TTTAAAGTCCACAACTCCATGGCACCTCTTTTAAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:39822 original size:60 final size:61
Alignment explanation
Indices: 39707--39840 Score: 180
Period size: 60 Copynumber: 2.2 Consensus size: 61
39697 TAGCTCTGTG
* * * *
39707 GCACCTTTTTCTTTTAAAGTCCATAACTCTGTGGCACCTCTTTTAAAGTCCACAACTCCGTA
1 GCACCTTTTT-TTTCAAAGTCCACAACTCTATGGCACCTCTTTTAAAGTCCACAACTCCGAA
* * * *
39769 GCACCTTTTTTTTCAAAGTCCACAACTCTATGGTATC-CTTTTAAAGTCTACAACTTCGAA
1 GCACCTTTTTTTTCAAAGTCCACAACTCTATGGCACCTCTTTTAAAGTCCACAACTCCGAA
39829 GCACCTTTTTTT
1 GCACCTTTTTTT
39841 AAGCCCACAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 32 0.50
61 22 0.34
62 10 0.16
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (61 bp):
GCACCTTTTTTTTCAAAGTCCACAACTCTATGGCACCTCTTTTAAAGTCCACAACTCCGAA
Found at i:40024 original size:33 final size:32
Alignment explanation
Indices: 39841--40230 Score: 396
Period size: 33 Copynumber: 12.0 Consensus size: 32
39831 ACCTTTTTTT
* *
39841 AAGCCCACACAAGTCGATGGCAACCCTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
** *
39873 AAGCCCATGCAAGTCGGTGGCAACCTCTTTTTTTTA
1 AAGCCCACACAAGTCGGTGGCAACC-C---TTTCTA
* * *
39909 AAACCCACATAAGTCGATGGCAACCC-TTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* * *
39940 AAGTCCATACAAGTTGGTGGCAACCC-TTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* * * *
39971 AAGTCCATACAAGTCAGTGGCAACCCCTTTCAA
1 AAGCCCACACAAGTCGGTGGCAA-CCCTTTCTA
40004 AAGCCCACACAAGTCGGTGGCAACCCCTTTTCTA
1 AAGCCCACACAAGTCGGTGGCAA-CCC-TTTCTA
*
40038 AAGCCCACACAAGTCAGTGGCAACCCTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTT-TCTA
* * *
40071 AAGCCCACATAAGTTGGTGGCAATCC-TTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* *
40102 AAGCCCACACAAGTCAGTGGCAATCCTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTT-TCTA
* * * *
40135 AAGCCCACATACGTTGGTGGCAATCC-TTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
40166 AAGCCCACACAAGTCGGTGGCAA-CCTTTCACTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTT--CTA
* *
40199 AATCCCACACAAGTCGATGGCAACCC-TTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
40230 A
1 A
40231 GTCTAATGTC
Statistics
Matches: 303, Mismatches: 41, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
30 2 0.01
31 107 0.35
32 30 0.10
33 110 0.36
34 29 0.10
35 1 0.00
36 24 0.08
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.22
Consensus pattern (32 bp):
AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
Found at i:40025 original size:131 final size:130
Alignment explanation
Indices: 39841--40230 Score: 443
Period size: 131 Copynumber: 3.0 Consensus size: 130
39831 ACCTTTTTTT
* ** *
39841 AAGCCCACACAAGTC-GATGGCAACCCTCTCTAAAGCCCATGCAAGTCGGTGGCAACCTCTTTTT
1 AAGCCCACACAAGTCAG-TGGCAACCCTTTCTAAAGCCCACACAAGTCGGTGGCAACC-C-CTTT
* * * *
39905 TTTAAAACCCACATAAGTC-GATGGCAACCC-T-TCTAAAGTCCATACAAGTTGGTGGCAACCCT
63 TCTAAAACCCACACAAGTCAG-TGGCAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCT
39967 TCTA
127 TCTA
* * *
39971 AAGTCCATACAAGTCAGTGGCAACCCCTTTCAAAAGCCCACACAAGTCGGTGGCAACCCCTTTTC
1 AAGCCCACACAAGTCAGTGGCAA-CCCTTTCTAAAGCCCACACAAGTCGGTGGCAACCCCTTTTC
* * *
40036 TAAAGCCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACATAAGTTGGTGGCAATCCTTCT
65 TAAAACCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCTTCT
40101 A
130 A
* * * * *
40102 AAGCCCACACAAGTCAGTGGCAATCCTTCTCTAAAGCCCACATACGTTGGTGGCAA-TCC--TTC
1 AAGCCCACACAAGTCAGTGGCAACCCTT-TCTAAAGCCCACACAAGTCGGTGGCAACCCCTTTTC
* * * * * * *
40164 TAAAGCCCACACAAGTCGGTGGCAACCTTTCACTAAATCCCACACAAGTCGATGGCAACCCTTCT
65 TAAAACCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCTTCT
40229 A
130 A
40230 A
1 A
40231 GTCTAATGTC
Statistics
Matches: 224, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
128 62 0.28
129 28 0.12
130 28 0.12
131 106 0.47
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.22
Consensus pattern (130 bp):
AAGCCCACACAAGTCAGTGGCAACCCTTTCTAAAGCCCACACAAGTCGGTGGCAACCCCTTTTCT
AAAACCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCTTCTA
Found at i:40026 original size:64 final size:63
Alignment explanation
Indices: 39841--40230 Score: 410
Period size: 64 Copynumber: 6.0 Consensus size: 63
39831 ACCTTTTTTT
* ** *
39841 AAGCCCACACAAGTC-GATGGCAACCCTCTCTAAAGCCCATGCAAGTCGGTGGCAACCTCTTTTT
1 AAGCCCACACAAGTCAG-TGGCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACC-C----T
*
39905 TTTA
60 TCTA
* * * *
39909 AAACCCACATAAGTC-GATGGCAACCC-TTCTAAAGTCCATACAAGTTGGTGGCAACCCTTCTA
1 AAGCCCACACAAGTCAG-TGGCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTTCTA
* * * *
39971 AAGTCCATACAAGTCAGTGGCAACCCCTTTCAAAAGCCCACACAAGTCGGTGGCAACCCCTTTTC
1 AAGCCCACACAAGTCAGTGGCAA-CCCTTTCTAAAGCCCACACAAGTTGGTGGCAA-CCC--TTC
40036 TA
62 TA
* *
40038 AAGCCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACATAAGTTGGTGGCAATCCTTCTA
1 AAGCCCACACAAGTCAGTGGCAACCCTT-TCTAAAGCCCACACAAGTTGGTGGCAACCCTTCTA
* * * *
40102 AAGCCCACACAAGTCAGTGGCAATCCTTCTCTAAAGCCCACATACGTTGGTGGCAATCCTTCTA
1 AAGCCCACACAAGTCAGTGGCAACCCTT-TCTAAAGCCCACACAAGTTGGTGGCAACCCTTCTA
* * * *
40166 AAGCCCACACAAGTCGGTGGCAA-CCTTTCACTAAATCCCACACAAGTCGATGGCAACCCTTCTA
1 AAGCCCACACAAGTCAGTGGCAACCCTTT--CTAAAGCCCACACAAGTTGGTGGCAACCCTTCTA
40230 A
1 A
40231 GTCTAATGTC
Statistics
Matches: 283, Mismatches: 30, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
62 22 0.08
63 8 0.03
64 142 0.50
65 3 0.01
66 8 0.03
67 76 0.27
68 24 0.08
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.22
Consensus pattern (63 bp):
AAGCCCACACAAGTCAGTGGCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTTCTA
Found at i:40357 original size:52 final size:51
Alignment explanation
Indices: 40300--40488 Score: 200
Period size: 52 Copynumber: 3.6 Consensus size: 51
40290 GTCCGATATC
* * * *
40300 GCTGGCCTTGAATTAGCATATTAGCACCTTTATTTTCTTTAAACCTAATGTC
1 GCTGGCCTTGAATCAGCACATTAGCACCTTTATTTT-TTTAAGCCTAATGTT
* * * *
40352 ACTGGCCTTGAATCAGCACATTGGCA-CTTTTTCTCATTTTTAAGCCTATTGTT
1 GCTGGCCTTGAATCAGCACATTAGCACCTTTAT-T--TTTTTAAGCCTAATGTT
* * ** *
40405 GCTGGCCTTGAATCAGCATATTGGCACCTTTACCATTATTAAGCCTAATGTT
1 GCTGGCCTTGAATCAGCACATTAGCACCTTTA-TTTTTTTAAGCCTAATGTT
40457 GCTGGCCTTGAATCAGCACATTAGCACTCTTT
1 GCTGGCCTTGAATCAGCACATTAGCAC-CTTT
40489 TCATCCTTAT
Statistics
Matches: 114, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
51 5 0.04
52 63 0.55
53 40 0.35
54 6 0.05
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (51 bp):
GCTGGCCTTGAATCAGCACATTAGCACCTTTATTTTTTTAAGCCTAATGTT
Found at i:40412 original size:53 final size:52
Alignment explanation
Indices: 40338--40490 Score: 207
Period size: 53 Copynumber: 2.9 Consensus size: 52
40328 TTTATTTTCT
* ** *
40338 TTAAACCTAATGTCACTGGCCTTGAATCAGCACATTGGCACTTTTTCTCATTT
1 TTAAGCCTAATGTTGCTGGCCTTGAATCAGCACATTGGCACTTTTTC-CATTA
* * * *
40391 TTAAGCCTATTGTTGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATTA
1 TTAAGCCTAATGTTGCTGGCCTTGAATCAGCACATTGGCACTTTTTCCATTA
*
40443 TTAAGCCTAATGTTGCTGGCCTTGAATCAGCACATTAGCACTCTTTTC
1 TTAAGCCTAATGTTGCTGGCCTTGAATCAGCACATTGGCACT-TTTTC
40491 ATCCTTATCA
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 42 0.49
53 44 0.51
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (52 bp):
TTAAGCCTAATGTTGCTGGCCTTGAATCAGCACATTGGCACTTTTTCCATTA
Found at i:40434 original size:105 final size:106
Alignment explanation
Indices: 40300--40490 Score: 278
Period size: 105 Copynumber: 1.8 Consensus size: 106
40290 GTCCGATATC
* ** *
40300 GCTGGCCTTGAATTAGCATATTAGCACCTTTA-TTTTCTTTAAACCTAATGTCACTGGCCTTGAA
1 GCTGGCCTTGAATCAGCATATTAGCACCTTTACCATT-ATTAAACCTAATGTCACTGGCCTTGAA
*
40364 TCAGCACATTGGCACT-TTTTCTCATTTTTAAGCCTATTGTT
65 TCAGCACATTAGCACTCTTTTCTCATTTTTAAGCCTATTGTT
* * **
40405 GCTGGCCTTGAATCAGCATATTGGCACCTTTACCATTATTAAGCCTAATGTTGCTGGCCTTGAAT
1 GCTGGCCTTGAATCAGCATATTAGCACCTTTACCATTATTAAACCTAATGTCACTGGCCTTGAAT
40470 CAGCACATTAGCACTCTTTTC
66 CAGCACATTAGCACTCTTTTC
40491 ATCCTTATCA
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
105 68 0.91
106 7 0.09
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.38
Consensus pattern (106 bp):
GCTGGCCTTGAATCAGCATATTAGCACCTTTACCATTATTAAACCTAATGTCACTGGCCTTGAAT
CAGCACATTAGCACTCTTTTCTCATTTTTAAGCCTATTGTT
Found at i:41115 original size:19 final size:20
Alignment explanation
Indices: 41072--41164 Score: 89
Period size: 21 Copynumber: 4.6 Consensus size: 20
41062 TTCTATAATT
* *
41072 TGTATCGATATAACAAGTGAA
1 TGTATCGATA-CATAAGTGAA
*
41093 TGTATCGATACGTAAGT-AA
1 TGTATCGATACATAAGTGAA
*
41112 TGTATTGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* ***
41132 TGTATCGATCCATTTTTGAAA
1 TGTATCGATACATAAGTG-AA
41153 TGTATCGATACA
1 TGTATCGATACA
41165 AGATATGTCA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
19 17 0.29
20 19 0.32
21 23 0.39
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:41276 original size:51 final size:51
Alignment explanation
Indices: 41206--41313 Score: 164
Period size: 52 Copynumber: 2.1 Consensus size: 51
41196 AGAAAATGTA
* *
41206 ATACATTTTTATCGTATCGATACATTCT-GGGTTTTGATCCAAATGTATCG
1 ATACATTTTCATCGTATCGATACATTCTAGGGTTTTGACCCAAATGTATCG
* *
41256 ATACATTCTTCATTGTATCGATACATTCTAGGTTTTTGACCCAAATGTATCG
1 ATACATT-TTCATCGTATCGATACATTCTAGGGTTTTGACCCAAATGTATCG
41308 ATACAT
1 ATACAT
41314 CTAATTAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 7 0.13
51 19 0.37
52 26 0.50
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (51 bp):
ATACATTTTCATCGTATCGATACATTCTAGGGTTTTGACCCAAATGTATCG
Found at i:44123 original size:13 final size:13
Alignment explanation
Indices: 44105--44131 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44095 ACATACTGCT
44105 TTGTATCGATACA
1 TTGTATCGATACA
44118 TTGTATCGATACA
1 TTGTATCGATACA
44131 T
1 T
44132 GTTCAATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:44170 original size:21 final size:19
Alignment explanation
Indices: 44119--44172 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
44109 ATCGATACAT
**
44119 TGTATCGATACATGTTCAA
1 TGTATCGATACATGGACAA
* *
44138 TGCATTGATACATGGACAAA
1 TGTATCGATACATGGAC-AA
44158 CTGTATCGATACATG
1 -TGTATCGATACATG
44173 AAATTGGCAG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 13 0.48
20 2 0.07
21 12 0.44
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (19 bp):
TGTATCGATACATGGACAA
Found at i:50383 original size:13 final size:13
Alignment explanation
Indices: 50365--50393 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
50355 ACAACATTCC
50365 TTGTATCGATACA
1 TTGTATCGATACA
50378 TTGTATCGATACA
1 TTGTATCGATACA
50391 TTG
1 TTG
50394 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:52267 original size:18 final size:19
Alignment explanation
Indices: 52237--52275 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
52227 ATAAATTTTT
52237 TATAAAAAGGGGGAGAAGA
1 TATAAAAAGGGGGAGAAGA
52256 TATAAAAA-GGGGAGAAGA
1 TATAAAAAGGGGGAGAAGA
52274 TA
1 TA
52276 ATTGTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.54, C:0.00, G:0.33, T:0.13
Consensus pattern (19 bp):
TATAAAAAGGGGGAGAAGA
Found at i:52313 original size:36 final size:37
Alignment explanation
Indices: 52271--52340 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
52261 AAAGGGGAGA
* *
52271 AGATAATTGTTTAATAGGGAGAAT-TTTTTTAAGAAG
1 AGATAATCGTTTAAGAGGGAGAATATTTTTTAAGAAG
*
52307 AGATAATCGTTTAAGGGGGAGAATATTTTTTAAG
1 AGATAATCGTTTAAGAGGGAGAATATTTTTTAAG
52341 GGGAGAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 21 0.70
37 9 0.30
ACGTcount: A:0.37, C:0.01, G:0.24, T:0.37
Consensus pattern (37 bp):
AGATAATCGTTTAAGAGGGAGAATATTTTTTAAGAAG
Found at i:53009 original size:20 final size:19
Alignment explanation
Indices: 52984--53036 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
52974 TATCACTATT
52984 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
53004 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
53024 TGTATCGATACAT
1 TGTATCGATACAT
53037 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:54335 original size:13 final size:13
Alignment explanation
Indices: 54317--54341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54307 AGATTGCACA
54317 GTATCGATACATT
1 GTATCGATACATT
54330 GTATCGATACAT
1 GTATCGATACAT
54342 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:54354 original size:20 final size:21
Alignment explanation
Indices: 54329--54381 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
54319 ATCGATACAT
**
54329 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
**
54349 TGTATCGATATTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
54370 TGTATCGATACA
1 TGTATCGATACA
54382 GGTCATTGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:54449 original size:13 final size:13
Alignment explanation
Indices: 54431--54456 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54421 ACACACAATA
54431 TGTATCGATACAT
1 TGTATCGATACAT
54444 TGTATCGATACAT
1 TGTATCGATACAT
54457 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:54472 original size:33 final size:32
Alignment explanation
Indices: 54411--54478 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
54401 CCTTAACTAT
*
54411 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
54443 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
54476 TTG
1 TTG
54479 GCTTGTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:60627 original size:13 final size:13
Alignment explanation
Indices: 60609--60646 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
60599 CAGCATTCTC
*
60609 TGTATCGATACAT
1 TGTATCGATACAG
*
60622 TGTATCGATATAG
1 TGTATCGATACAG
60635 TGTATCGATACA
1 TGTATCGATACA
60647 AAGGGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:61112 original size:20 final size:21
Alignment explanation
Indices: 61080--61131 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
61070 CCTCTAGGCA
*
61080 GCACCCACCAGGTCGCGACC-G
1 GCACCC-CCAGGTCGCAACCGG
61101 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAACCGG
61122 GCAGCCCCCA
1 GCA-CCCCCA
61132 CACTAGCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.43
21 10 0.36
22 6 0.21
ACGTcount: A:0.19, C:0.50, G:0.27, T:0.04
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAACCGG
Found at i:61561 original size:20 final size:20
Alignment explanation
Indices: 61536--61578 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
61526 ATTCGTTCAT
61536 ATCTAATGGGTCAAGAATTG
1 ATCTAATGGGTCAAGAATTG
61556 ATCTAATGGGTCAAGAATTG
1 ATCTAATGGGTCAAGAATTG
61576 ATC
1 ATC
61579 CTTTCTCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (20 bp):
ATCTAATGGGTCAAGAATTG
Found at i:63298 original size:20 final size:20
Alignment explanation
Indices: 63273--63325 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
63263 ATCGATACAT
*
63273 TGTATCGATATATCCCAAAA
1 TGTATCGATACATCCCAAAA
63293 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCCCAAAA
*
63313 TATATCGATACAT
1 TGTATCGATACAT
63326 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATCCCAAAA
Found at i:63301 original size:33 final size:32
Alignment explanation
Indices: 63240--63305 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
63230 CCTTAACTGT
*
63240 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
* *
63272 TTGTATCGATATATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
63305 T
1 T
63306 CCCAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:72838 original size:28 final size:28
Alignment explanation
Indices: 72798--72860 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
72788 CGGATGCCTA
72798 TTAAAACCTATGTTTTGAGTTACGAAAC
1 TTAAAACCTATGTTTTGAGTTACGAAAC
*
72826 TTAAAACCTATGTTTTGAGTTATGAAAC
1 TTAAAACCTATGTTTTGAGTTACGAAAC
*
72854 TCAAAAC
1 TTAAAAC
72861 ATCACTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (28 bp):
TTAAAACCTATGTTTTGAGTTACGAAAC
Found at i:73382 original size:20 final size:21
Alignment explanation
Indices: 73354--73392 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
73344 AAGAAGAGTA
73354 TAATGATCA-AGATTATCTAG
1 TAATGATCATAGATTATCTAG
* *
73374 TAATTATCATCGATTATCT
1 TAATGATCATAGATTATCT
73393 TGAGATAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (21 bp):
TAATGATCATAGATTATCTAG
Found at i:73622 original size:95 final size:96
Alignment explanation
Indices: 73521--73703 Score: 251
Period size: 96 Copynumber: 1.9 Consensus size: 96
73511 AACAATGATG
* * *
73521 GAGTGTCT-CAATGGTGACAATTTAAGAAAAAATAAGATTTAAATTTTAACAAGTTTAAAAATGG
1 GAGTGTCTCCAATGATGACAATTTAAGAAAAAATAAGATTTAAATCTTAACAAGATTAAAAATGG
*
73585 GGTTAGAGTATCCCCTCGGAAGAATGGGTTA
66 GGTTAGAATATCCCCTCGGAAGAATGGGTTA
* * * * *
73616 GAGTGTCTCCAATGATGATAATTTAAGCAAAAATAGGATTTAAATCTTGACGAGATTAAAAATGG
1 GAGTGTCTCCAATGATGACAATTTAAGAAAAAATAAGATTTAAATCTTAACAAGATTAAAAATGG
* * *
73681 GGTTGGAATATCCCTTTGGAAGA
66 GGTTAGAATATCCCCTCGGAAGA
73704 TAGGTTGGAG
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
95 8 0.11
96 67 0.89
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (96 bp):
GAGTGTCTCCAATGATGACAATTTAAGAAAAAATAAGATTTAAATCTTAACAAGATTAAAAATGG
GGTTAGAATATCCCCTCGGAAGAATGGGTTA
Found at i:76207 original size:20 final size:21
Alignment explanation
Indices: 76182--76232 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
76172 CGTGGTCCAA
*
76182 TATCGATACATTCACTT-ATG
1 TATCGATACATTAACTTGATG
* *
76202 TATCGATGCATTAACTTGTTG
1 TATCGATACATTAACTTGATG
76223 TATCGATACA
1 TATCGATACA
76233 AATTGCAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (21 bp):
TATCGATACATTAACTTGATG
Found at i:77829 original size:13 final size:12
Alignment explanation
Indices: 77806--77847 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
77796 ACACACCCAG
77806 ATGTATCGATAC
1 ATGTATCGATAC
*
77818 ATGCTGTCGATAC
1 ATG-TATCGATAC
77831 ATTGTATCGATAC
1 A-TGTATCGATAC
77844 ATGT
1 ATGT
77848 TCATTGCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 6 0.23
13 18 0.69
14 2 0.08
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:77952 original size:13 final size:13
Alignment explanation
Indices: 77931--77961 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
77921 TGATACATGG
*
77931 TACAATGTATCGA
1 TACATTGTATCGA
77944 TACATTGTATCGA
1 TACATTGTATCGA
77957 TACAT
1 TACAT
77962 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:84078 original size:20 final size:20
Alignment explanation
Indices: 84053--84104 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
84043 TTTTCCAAAA
84053 TGTATCGATACAACATTCCT
1 TGTATCGATACAACATTCCT
84073 TGTATCGATACAACATTCCT
1 TGTATCGATACAACATTCCT
84093 TGTATCGATACA
1 TGTATCGATACA
84105 TTGGGTACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAACATTCCT
Found at i:85977 original size:18 final size:19
Alignment explanation
Indices: 85947--85985 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
85937 AATAAATTTT
*
85947 TATAAAAAGGGGGAGTAGA
1 TATAAAAAGGGGGAGAAGA
85966 TATAAAAA-GGGGAGAAGA
1 TATAAAAAGGGGGAGAAGA
85984 TA
1 TA
85986 ATCGTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.33, T:0.15
Consensus pattern (19 bp):
TATAAAAAGGGGGAGAAGA
Found at i:86198 original size:46 final size:46
Alignment explanation
Indices: 86138--86231 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
86128 ACAAAGTTTC
*
86138 TACAAGAGAATGATTGATTATAAGCTTGAATAATTCAGTAAGTTCA
1 TACAAGAGAATGATTGATTATAAGCTTGAACAATTCAGTAAGTTCA
*
86184 TACAAGAGAATGATTGATTATAAGCTTGAACAATTCGGTAAGTTCA
1 TACAAGAGAATGATTGATTATAAGCTTGAACAATTCAGTAAGTTCA
86230 TA
1 TA
86232 AATGCTACCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (46 bp):
TACAAGAGAATGATTGATTATAAGCTTGAACAATTCAGTAAGTTCA
Found at i:86503 original size:21 final size:22
Alignment explanation
Indices: 86463--86503 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
86453 TCTATCAATA
**
86463 AATGTTTTTAAAGTTATAAACG
1 AATGTTTTTAAACCTATAAACG
86485 AATGTTTTTAAACCT-TAAA
1 AATGTTTTTAAACCTATAAA
86504 TTCAAGTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (22 bp):
AATGTTTTTAAACCTATAAACG
Found at i:86745 original size:13 final size:13
Alignment explanation
Indices: 86724--86754 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
86714 CGATACATGG
*
86724 TACAATGTATCGA
1 TACATTGTATCGA
86737 TACATTGTATCGA
1 TACATTGTATCGA
86750 TACAT
1 TACAT
86755 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:86750 original size:33 final size:32
Alignment explanation
Indices: 86708--86774 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
86698 CTATCACTAT
86708 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
86741 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
86774 T
1 T
86775 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:94107 original size:13 final size:13
Alignment explanation
Indices: 94088--94126 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
94078 ACTATTTATG
94088 ATGTATCGATACA
1 ATGTATCGATACA
*
94101 CTGTATCGATACA
1 ATGTATCGATACA
94114 ATGTATCGATACA
1 ATGTATCGATACA
94127 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:94192 original size:23 final size:22
Alignment explanation
Indices: 94161--94205 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
94151 TAAAGGTACA
* *
94161 TGAATAGTGATACGTGAATAGTG
1 TGAACAGTGATACATGAA-AGTG
94184 TGAACAGTGATACATGAAAGTG
1 TGAACAGTGATACATGAAAGTG
94206 ATGTATCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.38, C:0.07, G:0.29, T:0.27
Consensus pattern (22 bp):
TGAACAGTGATACATGAAAGTG
Found at i:94237 original size:10 final size:10
Alignment explanation
Indices: 94218--94248 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
94208 GTATCGATAC
94218 ATGAACAGTG
1 ATGAACAGTG
*
94228 ATGAATAGTG
1 ATGAACAGTG
94238 ATGAACAGTG
1 ATGAACAGTG
94248 A
1 A
94249 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:94346 original size:53 final size:53
Alignment explanation
Indices: 94272--94408 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
94262 CTACTACCAA
* * *
94272 TGTACCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGACTACTGCCAATGACC
*
94325 TGTATCGATACATATTGTGTGTATCGATACAAATTTGACTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGACTACTGCCAATGACC
94378 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
94409 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 63 0.80
54 16 0.20
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGACTACTGCCAATGACC
Found at i:94444 original size:21 final size:20
Alignment explanation
Indices: 94396--94450 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
94386 TACATATTTG
**
94396 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
94416 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
94437 TGTGTATCGATACT
1 TGTGTATCGATACT
94451 TATCAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:94515 original size:21 final size:21
Alignment explanation
Indices: 94489--94529 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
94479 GTCAACCTTG
94489 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
94510 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
94530 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:96617 original size:21 final size:22
Alignment explanation
Indices: 96592--96634 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
96582 CTAATCCTAC
*
96592 TAGAATTC-AATTCCAAAATTT
1 TAGAAATCAAATTCCAAAATTT
*
96613 TAGAAATCAAATTCCTAAATTT
1 TAGAAATCAAATTCCAAAATTT
96635 AAGTAACTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (22 bp):
TAGAAATCAAATTCCAAAATTT
Found at i:98856 original size:84 final size:84
Alignment explanation
Indices: 98715--98931 Score: 247
Period size: 84 Copynumber: 2.6 Consensus size: 84
98705 TATTAACAGA
* * *** * *
98715 TCTTAAGACATGTCTACTTTAGACATTGTCTTATTAAGACAAAT-TTATTTGTATTTTCTTGTTG
1 TCTTAACACATGTATACTTTAGACATTGTCTTATTAAGAC-AATCTTATCCATATTTTCTTATTA
* * * *
98779 GGATAAGCTTAACTATTTTG
65 AGACAAGCTTAACCATATTG
* *
98799 TCTTAACACATGTATACTTTAAACATTGTCTTGTTAAGACAATCTTATCCATATTTTCTTATTAA
1 TCTTAACACATGTATACTTTAGACATTGTCTTATTAAGACAATCTTATCCATATTTTCTTATTAA
*
98864 GACAAGCTTATCCATATTG
66 GACAAGCTTAACCATATTG
* * * *
98883 TCTTAAACATATGTATACTTTAGACATTATCTTATTAAGATAACCTTAT
1 TCTT-AACACATGTATACTTTAGACATTGTCTTATTAAGACAATCTTAT
98932 TTGCTTTGTC
Statistics
Matches: 111, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
83 3 0.03
84 70 0.63
85 38 0.34
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (84 bp):
TCTTAACACATGTATACTTTAGACATTGTCTTATTAAGACAATCTTATCCATATTTTCTTATTAA
GACAAGCTTAACCATATTG
Found at i:98867 original size:28 final size:28
Alignment explanation
Indices: 98823--98887 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
98813 TACTTTAAAC
* *
98823 ATTGTCTTGTTAAGACAATCTTATCCAT
1 ATTGTCTTATTAAGACAAGCTTATCCAT
*
98851 ATTTTCTTATTAAGACAAGCTTATCCAT
1 ATTGTCTTATTAAGACAAGCTTATCCAT
98879 ATTGTCTTA
1 ATTGTCTTA
98888 AACATATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.09, T:0.45
Consensus pattern (28 bp):
ATTGTCTTATTAAGACAAGCTTATCCAT
Found at i:98948 original size:85 final size:85
Alignment explanation
Indices: 98722--98972 Score: 260
Period size: 85 Copynumber: 3.0 Consensus size: 85
98712 AGATCTTAAG
* * * **
98722 ACATGTCTACTTTAGACATTGTCTTATTAAGACAAATTTATTTG-TATTTTCTTGTTGGGATAAG
1 ACATGTATACTTTAGACATTGTCTTATTAAGACAAACTTATTTGCTATTTTCTTATTAAGATAAG
* *
98786 CTTAACTATTTTGTCTT-AAC
66 CTTATCCA-TTTGTCTTAAAC
* * * * *
98806 ACATGTATACTTTAAACATTGTCTTGTTAAGACAATCTTA--TCCATATTTTCTTATTAAGACAA
1 ACATGTATACTTTAGACATTGTCTTATTAAGACAAACTTATTTGC-TATTTTCTTATTAAGATAA
98869 GCTTATCCATATTGTCTTAAAC
65 GCTTATCCAT-TTGTCTTAAAC
* * * * * *
98891 ATATGTATACTTTAGACATTATCTTATTAAGATAACCTTATTTGCT-TTGTCTAATTAAGATAAG
1 ACATGTATACTTTAGACATTGTCTTATTAAGACAAACTTATTTGCTATTTTCTTATTAAGATAAG
*
98955 TTTATCCACTTTGTCTTA
66 CTTATCCA-TTTGTCTTA
98973 TTAAGACAAA
Statistics
Matches: 137, Mismatches: 23, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
82 1 0.01
83 1 0.01
84 64 0.47
85 67 0.49
86 2 0.01
87 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (85 bp):
ACATGTATACTTTAGACATTGTCTTATTAAGACAAACTTATTTGCTATTTTCTTATTAAGATAAG
CTTATCCATTTGTCTTAAAC
Found at i:98959 original size:28 final size:28
Alignment explanation
Indices: 98916--98988 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
98906 ACATTATCTT
***
98916 ATTAAGATAACCTTATTTGCTTTGTCTA
1 ATTAAGATAACCTTATCCACTTTGTCTA
** *
98944 ATTAAGATAAGTTTATCCACTTTGTCTT
1 ATTAAGATAACCTTATCCACTTTGTCTA
*
98972 ATTAAGACAAACCTTAT
1 ATTAAGA-TAACCTTAT
98989 TTGGATTTCT
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 29 0.83
29 6 0.17
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (28 bp):
ATTAAGATAACCTTATCCACTTTGTCTA
Found at i:102867 original size:52 final size:51
Alignment explanation
Indices: 102782--102884 Score: 152
Period size: 52 Copynumber: 2.0 Consensus size: 51
102772 TACAAGCCTA
* * *
102782 ATTTATCTTGAGTGCTTAATGTTAATGTCTATGATTGTTGAAATTGATGTT
1 ATTTATCTTAAGTGCCTAATGTTAATCTCTATGATTGTTGAAATTGATGTT
* *
102833 ATTTGATCTTAAGTGCCTAATGTTTATCTTTATGATTGTTGAAATTGATGTT
1 ATTT-ATCTTAAGTGCCTAATGTTAATCTCTATGATTGTTGAAATTGATGTT
102885 GTGCTTAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 4 0.09
52 42 0.91
ACGTcount: A:0.25, C:0.07, G:0.18, T:0.50
Consensus pattern (51 bp):
ATTTATCTTAAGTGCCTAATGTTAATCTCTATGATTGTTGAAATTGATGTT
Found at i:104725 original size:19 final size:21
Alignment explanation
Indices: 104682--104754 Score: 73
Period size: 20 Copynumber: 3.7 Consensus size: 21
104672 CACATCCAGA
*
104682 TGTATCGATACAT-TATACTT
1 TGTATCGATACATGTATACAT
104702 TGTATCGATACATGT-T-CAT
1 TGTATCGATACATGTATACAT
* * *
104721 TGTATCGAAACATGCAGA-AT
1 TGTATCGATACATGTATACAT
*
104741 TATATCGATACATG
1 TGTATCGATACATG
104755 AAACTGGCAG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 15 0.34
20 28 0.64
21 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATCGATACATGTATACAT
Found at i:104821 original size:33 final size:32
Alignment explanation
Indices: 104784--104848 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
104774 TATCACTATT
104784 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
104817 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGA-GAATTGTATCGATACA
104849 TTGCTTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:104822 original size:13 final size:13
Alignment explanation
Indices: 104804--104828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104794 CATGGCACAT
104804 TGTATCGATACAA
1 TGTATCGATACAA
104817 TGTATCGATACA
1 TGTATCGATACA
104829 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:106269 original size:17 final size:16
Alignment explanation
Indices: 106224--106277 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
106214 ACTTTTAATG
106224 TTTTTTTCCTTCATTT-
1 TTTTTTTCCTTC-TTTC
* *
106240 TTTCTTTCTTTCTTTC
1 TTTTTTTCCTTCTTTC
*
106256 TTTTTTGTCCTTCTATC
1 TTTTTT-TCCTTCTTTC
106273 TTTTT
1 TTTTT
106278 ACAAACAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 3 0.10
16 15 0.48
17 13 0.42
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTTTTTCCTTCTTTC
Found at i:106269 original size:21 final size:20
Alignment explanation
Indices: 106228--106275 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
106218 TTAATGTTTT
* *
106228 TTTCCTTCATTTTTTCTTTC
1 TTTCTTTCATTTTTTCCTTC
*
106248 TTTCTTTCTTTTTTGTCCTTC
1 TTTCTTTCATTTTT-TCCTTC
*
106269 TATCTTT
1 TTTCTTT
106276 TTACAAACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.04, C:0.23, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTCTTTCATTTTTTCCTTC
Found at i:107193 original size:7 final size:7
Alignment explanation
Indices: 107181--107220 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
107171 ATAAAAAGAT
107181 AAGAAAA
1 AAGAAAA
107188 AAGAAAA
1 AAGAAAA
*
107195 AAGAATA
1 AAGAAAA
*
107202 AA-AATA
1 AAGAAAA
107208 AAGAAAA
1 AAGAAAA
107215 AAGAAA
1 AAGAAA
107221 CGTGTTAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (7 bp):
AAGAAAA
Found at i:107202 original size:20 final size:20
Alignment explanation
Indices: 107173--107219 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
107163 GTTTATTTAT
107173 AAAAAG-ATAAGAAA-AAAGA
1 AAAAAGAATAA-AAATAAAGA
107192 AAAAAGAATAAAAATAAAGA
1 AAAAAGAATAAAAATAAAGA
107212 AAAAAGAA
1 AAAAAGAA
107220 ACGTGTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (20 bp):
AAAAAGAATAAAAATAAAGA
Found at i:112963 original size:3 final size:3
Alignment explanation
Indices: 112955--112985 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
112945 CATTAGTTTT
112955 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
112986 AATTATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:113883 original size:31 final size:29
Alignment explanation
Indices: 113823--113892 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 29
113813 TAATATTTGA
*
113823 TAAAATATATTAAAAACCTTTATTATATTTTT
1 TAAAAT-TATTAAAAACATTTATTATA--TTT
113855 TAAAATTATTAAAAACAAATTT-TT-TATTT
1 TAAAATTATTAAAAAC--ATTTATTATATTT
113884 TAAAATTAT
1 TAAAATTAT
113893 AAATTTTGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
29 12 0.34
31 12 0.34
32 8 0.23
33 3 0.09
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (29 bp):
TAAAATTATTAAAAACATTTATTATATTT
Found at i:114840 original size:16 final size:16
Alignment explanation
Indices: 114821--114855 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
114811 GTTCTTTTGA
114821 GTTCGAACTTATTCGG
1 GTTCGAACTTATTCGG
114837 GTTCGAACTTATTCGG
1 GTTCGAACTTATTCGG
114853 GTT
1 GTT
114856 TAAGCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.40
Consensus pattern (16 bp):
GTTCGAACTTATTCGG
Found at i:114918 original size:6 final size:6
Alignment explanation
Indices: 114897--114935 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
114887 TTGGGCTTTT
* * *
114897 TTCGGA TTCAGG TTCGGG TTCGGG TTCGGG TTCGAG TTC
1 TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTC
114936 AAATCGGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.08, C:0.18, G:0.38, T:0.36
Consensus pattern (6 bp):
TTCGGG
Found at i:115356 original size:13 final size:13
Alignment explanation
Indices: 115338--115362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115328 CATAAAATGT
115338 TGTATCGATACAA
1 TGTATCGATACAA
115351 TGTATCGATACA
1 TGTATCGATACA
115363 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:115358 original size:33 final size:33
Alignment explanation
Indices: 115321--115384 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
115311 AACGATTTGC
115321 ATCGATACATAAAATGTTGTATCGATACAATGT
1 ATCGATACATAAAATGTTGTATCGATACAATGT
*** *
115354 ATCGATACATATTTTTTTGTATCGATACAAT
1 ATCGATACATAAAATGTTGTATCGATACAAT
115385 TTAAGCTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (33 bp):
ATCGATACATAAAATGTTGTATCGATACAATGT
Found at i:115443 original size:13 final size:13
Alignment explanation
Indices: 115425--115449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115415 ATTACTCAAA
115425 TGTATCGATACAT
1 TGTATCGATACAT
115438 TGTATCGATACA
1 TGTATCGATACA
115450 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:118656 original size:29 final size:30
Alignment explanation
Indices: 118623--118692 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
118613 TAAAAAGTAA
118623 ATTATTAAAT-TATTATTTTTAAGTAAATTT
1 ATTATTAAATATATTATTTTTAA-TAAATTT
* *
118653 -TTATTATAATATGTTATTTTTAATATATTT
1 ATTATTA-AATATATTATTTTTAATAAATTT
118683 ATCTATTAAA
1 AT-TATTAAA
118693 ATTTATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
29 6 0.18
30 9 0.26
31 14 0.41
32 5 0.15
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (30 bp):
ATTATTAAATATATTATTTTTAATAAATTT
Found at i:118701 original size:20 final size:19
Alignment explanation
Indices: 118676--118732 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 19
118666 TTATTTTTAA
*
118676 TATATTTATCTATTAAAATT
1 TATATTTATATA-TAAAATT
118696 TATATTTATATATAAAA-T
1 TATATTTATATATAAAATT
*
118714 TA-ATTTCTTATATAAAATT
1 TATATTT-ATATATAAAATT
118733 AATTTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 4 0.12
18 12 0.36
19 6 0.18
20 11 0.33
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATTTATATATAAAATT
Found at i:122822 original size:13 final size:13
Alignment explanation
Indices: 122804--122829 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122794 ACAAAAATCC
122804 ATGTATCGATACA
1 ATGTATCGATACA
122817 ATGTATCGATACA
1 ATGTATCGATACA
122830 TGGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:123313 original size:9 final size:9
Alignment explanation
Indices: 123299--123328 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
123289 CATTAATTAT
123299 TTTTTAAAA
1 TTTTTAAAA
123308 TTTTTAAAA
1 TTTTTAAAA
123317 TTTTTAAAA
1 TTTTTAAAA
123326 TTT
1 TTT
123329 ATTTATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:123334 original size:4 final size:4
Alignment explanation
Indices: 123325--123351 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
123315 AATTTTTAAA
123325 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
123352 AATGAGATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:125655 original size:17 final size:17
Alignment explanation
Indices: 125633--125666 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
125623 TATTTAAAAT
125633 AATAATAATATAATAAG
1 AATAATAATATAATAAG
* *
125650 AATAATATTCTAATAAG
1 AATAATAATATAATAAG
125667 CACTTAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (17 bp):
AATAATAATATAATAAG
Found at i:128603 original size:13 final size:13
Alignment explanation
Indices: 128585--128611 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
128575 TTTTTTTTAT
128585 AGTTAAAAAATTG
1 AGTTAAAAAATTG
128598 AGTTAAAAAATTG
1 AGTTAAAAAATTG
128611 A
1 A
128612 AAAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (13 bp):
AGTTAAAAAATTG
Found at i:129096 original size:2 final size:2
Alignment explanation
Indices: 129089--129124 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
129079 CACTTCTTTG
129089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
129125 TGTTAGCTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129920 original size:13 final size:13
Alignment explanation
Indices: 129902--129930 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
129892 GATACTATTC
129902 ACACTATATCGAT
1 ACACTATATCGAT
129915 ACACTATATCGAT
1 ACACTATATCGAT
129928 ACA
1 ACA
129931 TGAACAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (13 bp):
ACACTATATCGAT
Found at i:129948 original size:14 final size:14
Alignment explanation
Indices: 129931--129983 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
129921 TATCGATACA
129931 TGAACAGTGATATG
1 TGAACAGTGATATG
* * **
129945 TGAATAATGATACA
1 TGAACAGTGATATG
**
129959 CAAACAGTGATATG
1 TGAACAGTGATATG
129973 TGAACAGTGAT
1 TGAACAGTGAT
129984 GAATAGTAAT
Statistics
Matches: 27, Mismatches: 12, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (14 bp):
TGAACAGTGATATG
Found at i:130057 original size:20 final size:19
Alignment explanation
Indices: 130032--130083 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
130022 TACCAATTTT
* *
130032 ATGTATCGATACAATTTAAG
1 ATGTATCGATACAA-TGAAC
* *
130052 ATGTATCAATATAATGAAC
1 ATGTATCGATACAATGAAC
130071 ATGTATCGATACA
1 ATGTATCGATACA
130084 TTGTATTGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:130398 original size:2 final size:2
Alignment explanation
Indices: 130391--130428 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
130381 AAAGCTTAAC
*
130391 AT AT AT AT AT AT AT AT -T CAT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
130429 TCATTCTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.94
3 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130776 original size:33 final size:32
Alignment explanation
Indices: 130734--130795 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
130724 CACACCCAGA
* *
130734 TGTATCGATACATTATGCTTTGTATCGATATAT
1 TGTATCGATACATGAT-CATTGTATCGATATAT
130767 TGTATCGATACATGATCATTGTATCGATA
1 TGTATCGATACATGATCATTGTATCGATA
130796 CATGGACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCGATATAT
Found at i:130789 original size:19 final size:19
Alignment explanation
Indices: 130765--130820 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
130755 GTATCGATAT
130765 ATTGTATCGATACATGATC-
1 ATTGTATCGATACATGA-CA
130784 ATTGTATCGATACATGGACA
1 ATTGTATCGATACAT-GACA
130804 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
130821 AACTGGCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:130809 original size:20 final size:20
Alignment explanation
Indices: 130765--130819 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
130755 GTATCGATAT
130765 ATTGTATCGATACAT-GATC
1 ATTGTATCGATACATGGATC
130784 ATTGTATCGATACATGGA-C
1 ATTGTATCGATACATGGATC
130803 AATTGTATCGATACATG
1 -ATTGTATCGATACATG
130820 AAACTGGCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACATGGATC
Found at i:130885 original size:13 final size:13
Alignment explanation
Indices: 130867--130891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
130857 TACATGGTAC
130867 ATTGTATCGATAT
1 ATTGTATCGATAT
130880 ATTGTATCGATA
1 ATTGTATCGATA
130892 CATGATGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGTATCGATAT
Found at i:130890 original size:33 final size:33
Alignment explanation
Indices: 130848--130916 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
130838 CTACCACTGT
* *
130848 TTGTATCGATACATGGT-ACATTGTATCGATATA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
130881 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
130914 TTG
1 TTG
130917 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:133150 original size:21 final size:21
Alignment explanation
Indices: 133122--133173 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
133112 AAGTTGATAT
133122 TAAAAAATTGGCTAATG-AAAA
1 TAAAAAATTGGCTAA-GAAAAA
* *
133143 TAATAAATTAGCTAAGAAAAA
1 TAAAAAATTGGCTAAGAAAAA
133164 TAAAAAATTG
1 TAAAAAATTG
133174 CATGATTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.25
Consensus pattern (21 bp):
TAAAAAATTGGCTAAGAAAAA
Found at i:137095 original size:13 final size:13
Alignment explanation
Indices: 137077--137103 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
137067 ACAACATTCC
137077 TTGTATCGATACA
1 TTGTATCGATACA
137090 TTGTATCGATACA
1 TTGTATCGATACA
137103 T
1 T
137104 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:137267 original size:20 final size:22
Alignment explanation
Indices: 137233--137273 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
137223 ACAAATTTCC
*
137233 TCATTTTTACTTC-AAATCACT
1 TCATTTTTACATCAAAATCACT
137254 TCATTTTT-CATCAAAATCAC
1 TCATTTTTACATCAAAATCAC
137274 CAACAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (22 bp):
TCATTTTTACATCAAAATCACT
Found at i:139644 original size:13 final size:13
Alignment explanation
Indices: 139626--139652 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
139616 ATACATTACT
139626 TTGTATCGATACA
1 TTGTATCGATACA
139639 TTGTATCGATACA
1 TTGTATCGATACA
139652 T
1 T
139653 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Done.