Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 105 of 150
Found at i:32814048 original size:9 final size:9
Alignment explanation
Indices: 32814024--32814060 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
32814014 TGAGTTTTCA
*
32814024 AATTCAAAT
1 AATTCGAAT
*
32814033 AACTCGAAT
1 AATTCGAAT
32814042 AATTCGAAT
1 AATTCGAAT
32814051 AATTCGAAT
1 AATTCGAAT
32814060 A
1 A
32814061 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:32814567 original size:9 final size:9
Alignment explanation
Indices: 32814550--32814609 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
32814540 NNNNNNNNAT
*
32814550 TTATATATA
1 TTATTTATA
32814559 TTATTTATA
1 TTATTTATA
*
32814568 TTA-TTAAA
1 TTATTTATA
*
32814576 TTAAATTTCACA
1 TT--ATTT-ATA
32814588 TT-TTTATA
1 TTATTTATA
32814596 TTATTTATA
1 TTATTTATA
32814605 TTATT
1 TTATT
32814610 GAATTGTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 10 0.24
9 25 0.60
10 1 0.02
11 2 0.05
12 4 0.10
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (9 bp):
TTATTTATA
Found at i:32816122 original size:17 final size:19
Alignment explanation
Indices: 32816102--32816151 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
32816092 ATTTATTAAA
32816102 TAAATTAATTTT-TCAAT-
1 TAAATTAATTTTCTCAATC
32816119 TAAA-TAATTTTCTCAATC
1 TAAATTAATTTTCTCAATC
*
32816137 TAATTCTAATTTTCT
1 TAAAT-TAATTTTCT
32816152 TAAAGTCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.25
17 9 0.32
18 3 0.11
20 9 0.32
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAATTAATTTTCTCAATC
Found at i:32826507 original size:25 final size:26
Alignment explanation
Indices: 32826479--32826599 Score: 130
Period size: 25 Copynumber: 4.8 Consensus size: 26
32826469 AATCTTACGG
32826479 AAAGCCTTTGTGGCGTATTATCTA-A
1 AAAGCCTTTGTGGCGTATTATCTAGA
* *
32826504 AAAGCCATTGTGGC-TAATAT-TATGA
1 AAAGCCTTTGTGGCGTATTATCTA-GA
32826529 AAAGCCTTTGTGGCGTATTATCTA-A
1 AAAGCCTTTGTGGCGTATTATCTAGA
*
32826554 AAAGCCTTTGAGGC-TA--ATCTTATGA
1 AAAGCCTTTGTGGCGTATTATC-TA-GA
*
32826579 AAAGCCTTTGTGGTGTATTAT
1 AAAGCCTTTGTGGCGTATTAT
32826600 TTGGAATGCC
Statistics
Matches: 79, Mismatches: 7, Indels: 17
0.77 0.07 0.17
Matches are distributed among these distances:
22 3 0.04
23 4 0.05
24 7 0.09
25 54 0.68
26 7 0.09
27 2 0.03
28 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (26 bp):
AAAGCCTTTGTGGCGTATTATCTAGA
Found at i:32826536 original size:50 final size:50
Alignment explanation
Indices: 32826453--32826649 Score: 250
Period size: 50 Copynumber: 3.9 Consensus size: 50
32826443 GAATTACCTG
* * * *
32826453 AAAAGCCTTTGGGGATAATCTTACGGAAAGCCTTTGTGGCGTATTATCTA
1 AAAAGCCTTTGTGGCTAATCTTATGAAAAGCCTTTGTGGCGTATTATCTA
* *
32826503 AAAAGCCATTGTGGCTAATATTATGAAAAGCCTTTGTGGCGTATTATCTA
1 AAAAGCCTTTGTGGCTAATCTTATGAAAAGCCTTTGTGGCGTATTATCTA
* * * *
32826553 AAAAGCCTTTGAGGCTAATCTTATGAAAAGCCTTTGTGGTGTATTATTTG
1 AAAAGCCTTTGTGGCTAATCTTATGAAAAGCCTTTGTGGCGTATTATCTA
* * * * * *
32826603 GAATGCCTTTATGACTAATCTTATGAAAAACTTTTGTGGCGTATTAT
1 AAAAGCCTTTGTGGCTAATCTTATGAAAAGCCTTTGTGGCGTATTAT
32826650 TTGGAAAGAC
Statistics
Matches: 127, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 127 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (50 bp):
AAAAGCCTTTGTGGCTAATCTTATGAAAAGCCTTTGTGGCGTATTATCTA
Found at i:32830674 original size:23 final size:23
Alignment explanation
Indices: 32830648--32830693 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
32830638 GCACAAAGGT
32830648 TGTTTGATTGATTTTTTTGCTTA
1 TGTTTGATTGATTTTTTTGCTTA
32830671 TGTTTGATTGATTTTTTTGCTTA
1 TGTTTGATTGATTTTTTTGCTTA
32830694 AAAATACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.04, G:0.17, T:0.65
Consensus pattern (23 bp):
TGTTTGATTGATTTTTTTGCTTA
Found at i:32835902 original size:58 final size:55
Alignment explanation
Indices: 32835834--32835954 Score: 138
Period size: 57 Copynumber: 2.1 Consensus size: 55
32835824 AGAGATGGTG
*
32835834 AAATGAAGAAATAGAAAACATTTCGAAATGATTAA-GGTTTTCCCCAAAATAAA-ATTGA
1 AAATGAAGAAAT-GAAAACATTT-GAAA--ATCAACGGTTTTCCCCAAAATAAAGA-TGA
* *
32835892 AAATGGAGAAATGAAATCATTTGAAAATCAACGTGGTTTTCCCCAAAATAAAGATGA
1 AAATGAAGAAATGAAAACATTTGAAAATCAAC--GGTTTTCCCCAAAATAAAGATGA
32835949 AAATGA
1 AAATGA
32835955 CCTGAAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
54 4 0.07
56 4 0.07
57 35 0.64
58 12 0.22
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.25
Consensus pattern (55 bp):
AAATGAAGAAATGAAAACATTTGAAAATCAACGGTTTTCCCCAAAATAAAGATGA
Found at i:32850985 original size:19 final size:19
Alignment explanation
Indices: 32850952--32850999 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
32850942 TAAACAATTC
32850952 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
32850969 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
32850988 AATAATATAAAT
1 AATAATATAAAT
32851000 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:32851500 original size:9 final size:9
Alignment explanation
Indices: 32851483--32851513 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32851473 TCGAGTTGAT
32851483 TCGAATAAC
1 TCGAATAAC
*
32851492 TCGATTAAC
1 TCGAATAAC
32851501 TCGAATAAC
1 TCGAATAAC
32851510 TCGA
1 TCGA
32851514 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:32860453 original size:6 final size:6
Alignment explanation
Indices: 32860368--32860492 Score: 59
Period size: 6 Copynumber: 21.7 Consensus size: 6
32860358 TATTTCATAT
* * * * * *
32860368 TTATTT TTATTA TTAATA TTTTTA TTATT- TT-TTA TTTTTC CT-TTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * *
32860413 TT-TTA TTATTC TTAGT- TTATTA TCATTAA TT-TTA TTATTA TTCTTA
1 TTATTA TTATTA TTATTA TTATTA TTATT-A TTATTA TTATTA TTATTA
* *
32860459 TGATTC TTATTA TTATT- TTCATT- TTCATTA TTAT
1 TTATTA TTATTA TTATTA TT-ATTA TT-ATTA TTAT
32860493 CGTTGTTCTG
Statistics
Matches: 91, Mismatches: 20, Indels: 16
0.72 0.16 0.13
Matches are distributed among these distances:
4 2 0.02
5 21 0.23
6 64 0.70
7 4 0.04
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (6 bp):
TTATTA
Found at i:32862090 original size:15 final size:16
Alignment explanation
Indices: 32862065--32862094 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32862055 TCGAACGGTT
32862065 CACTCGTTTTGAGCGA
1 CACTCGTTTTGAGCGA
32862081 CACT-GTTTTGAGCG
1 CACTCGTTTTGAGCG
32862095 GTTTAACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (16 bp):
CACTCGTTTTGAGCGA
Found at i:32862212 original size:6 final size:6
Alignment explanation
Indices: 32862210--32862267 Score: 82
Period size: 6 Copynumber: 9.7 Consensus size: 6
32862200 CTGATTTTGA
* *
32862210 TTTTAT TTTTAC TTTTAT TTTTAT TTTTAT TTTTAT TTTT-T CTTTTAG
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT
32862258 TTTTAT TTTT
1 TTTTAT TTTT
32862268 TTCTTAGACT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
5 1 0.02
6 45 0.98
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:32862225 original size:12 final size:11
Alignment explanation
Indices: 32862203--32862267 Score: 76
Period size: 12 Copynumber: 5.5 Consensus size: 11
32862193 AATACCACTG
*
32862203 ATTTTGATTTT
1 ATTTTTATTTT
32862214 ATTTTTACTTTT
1 ATTTTTA-TTTT
32862226 ATTTTTATTTTT
1 ATTTTTA-TTTT
32862238 ATTTTTATTTT
1 ATTTTTATTTT
*
32862249 TTCTTTTAGTTTT
1 AT-TTTTA-TTTT
32862262 ATTTTT
1 ATTTTT
32862268 TTCTTAGACT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
11 11 0.23
12 31 0.66
13 5 0.11
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.78
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:32862268 original size:18 final size:17
Alignment explanation
Indices: 32862204--32862269 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 17
32862194 ATACCACTGA
*
32862204 TTTTGATTTTATTTTTAC
1 TTTT-ATTTTTTTTTTAC
*
32862222 TTTTATTTTTATTTTTAT
1 TTTTATTTTT-TTTTTAC
*
32862240 TTTTATTTTTTCTTTTAG
1 TTTTATTTTTT-TTTTAC
32862258 TTTTATTTTTTT
1 TTTTATTTTTTT
32862270 CTTAGACTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
17 7 0.16
18 36 0.84
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTATTTTTTTTTTAC
Found at i:32865451 original size:27 final size:27
Alignment explanation
Indices: 32865412--32865581 Score: 204
Period size: 27 Copynumber: 6.3 Consensus size: 27
32865402 GAGAGGTCAA
32865412 TAAAATGACCAAAATACCCTCATAGGG
1 TAAAATGACCAAAATACCCTCATAGGG
* *
32865439 TAAATTGATCAAAATACTCCT-ATAGGG
1 TAAAATGACCAAAATAC-CCTCATAGGG
* * *
32865466 TAAAATGACCGAAGTACCTTCATAGGG
1 TAAAATGACCAAAATACCCTCATAGGG
*
32865493 TAAAATGACCGAAATACCC-CTATAGGG
1 TAAAATGACCAAAATACCCTC-ATAGGG
*
32865520 TAAAATGACTGAAAA-ACCC-CATAGGG
1 TAAAATGAC-CAAAATACCCTCATAGGG
* *
32865546 TAGAATGATCAAAATACCCTCATAGGG
1 TAAAATGACCAAAATACCCTCATAGGG
32865573 TAAAATGAC
1 TAAAATGAC
32865582 TGTTATACCT
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.03
26 20 0.17
27 91 0.75
28 6 0.05
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCTCATAGGG
Found at i:32865607 original size:80 final size:79
Alignment explanation
Indices: 32865412--32865581 Score: 216
Period size: 80 Copynumber: 2.1 Consensus size: 79
32865402 GAGAGGTCAA
* * * *
32865412 TAAAATGACCAAAATACCCTCATAGGGTAAATTGA-TCAAAATACTCCTATAGGGTAAAATGACC
1 TAAAATGACCGAAATACCCT-ATAGGGTAAAATGACTGAAAA-AC-CCCATAGGGTAAAATGACC
* * *
32865476 GAAGTACCTTCATAGGG
63 AAAATACCCTCATAGGG
* *
32865493 TAAAATGACCGAAATACCCCTATAGGGTAAAATGACTGAAAAACCCCATAGGGTAGAATGATCAA
1 TAAAATGACCGAAATA-CCCTATAGGGTAAAATGACTGAAAAACCCCATAGGGTAAAATGACCAA
32865558 AATACCCTCATAGGG
65 AATACCCTCATAGGG
32865573 TAAAATGAC
1 TAAAATGAC
32865582 TGTTATACCT
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 39 0.50
81 30 0.38
82 9 0.12
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (79 bp):
TAAAATGACCGAAATACCCTATAGGGTAAAATGACTGAAAAACCCCATAGGGTAAAATGACCAAA
ATACCCTCATAGGG
Found at i:32873028 original size:18 final size:18
Alignment explanation
Indices: 32872997--32873033 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32872987 ACGAAATCGA
*
32872997 TAGCAGCACCGTCAACTG
1 TAGCAACACCGTCAACTG
*
32873015 TAGCAACACGGTCAACTG
1 TAGCAACACCGTCAACTG
32873033 T
1 T
32873034 CAACATGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (18 bp):
TAGCAACACCGTCAACTG
Found at i:32888488 original size:26 final size:28
Alignment explanation
Indices: 32888459--32888510 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
32888449 TTGTTAAAAC
*
32888459 TTTTCTAAAAG-AAACTCAAA-AGAAAT
1 TTTTCAAAAAGAAAACTCAAAGAGAAAT
*
32888485 TTTTGAAAAAGAAAACTCAAAGAGAA
1 TTTTCAAAAAGAAAACTCAAAGAGAA
32888511 TTTATTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 9 0.41
28 4 0.18
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.23
Consensus pattern (28 bp):
TTTTCAAAAAGAAAACTCAAAGAGAAAT
Found at i:32891394 original size:11 final size:11
Alignment explanation
Indices: 32891378--32891402 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32891368 GTGGCTATAT
32891378 AAATTTGAGAG
1 AAATTTGAGAG
32891389 AAATTTGAGAG
1 AAATTTGAGAG
32891400 AAA
1 AAA
32891403 AAGTGAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (11 bp):
AAATTTGAGAG
Found at i:32891524 original size:11 final size:12
Alignment explanation
Indices: 32891503--32891537 Score: 63
Period size: 11 Copynumber: 3.0 Consensus size: 12
32891493 ATTTTCATAA
32891503 TAAAATATTAAT
1 TAAAATATTAAT
32891515 TAAAAT-TTAAT
1 TAAAATATTAAT
32891526 TAAAATATTAAT
1 TAAAATATTAAT
32891538 ATTATAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAAATATTAAT
Found at i:32895998 original size:24 final size:22
Alignment explanation
Indices: 32895950--32895999 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
32895940 ATTCATTAAT
*
32895950 TCATTTACATAGTATCACATTC
1 TCATTTACATAGTATCACATAC
32895972 TCATTTAAGCATA-TATCACAATAC
1 TCATTT-A-CATAGTATCAC-ATAC
32895996 TCAT
1 TCAT
32896000 AAACATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 7 0.29
24 11 0.46
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (22 bp):
TCATTTACATAGTATCACATAC
Found at i:32900680 original size:16 final size:16
Alignment explanation
Indices: 32900650--32900699 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 16
32900640 TATATATTAC
32900650 AATTATAAAATTAATATT
1 AATTA-AAAA-TAATATT
32900668 AATTAAAAATAAT-TT
1 AATTAAAAATAATATT
32900683 --TTAATAAATAATATT
1 AATTAA-AAATAATATT
32900698 AA
1 AA
32900700 ATTTTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 4 0.14
14 7 0.25
15 4 0.14
16 4 0.14
17 4 0.14
18 5 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAAAAATAATATT
Found at i:32902406 original size:42 final size:42
Alignment explanation
Indices: 32902351--32902478 Score: 193
Period size: 44 Copynumber: 3.0 Consensus size: 42
32902341 GCCACTACAA
32902351 AACATGACCTTTAGCGGCGCTTTCCCACAAATGCCGCTAAAC
1 AACATGACCTTTAGCGGCGCTTTCCCACAAATGCCGCTAAAC
* * *
32902393 AACATGACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTACAG
1 AACATGACCTTTAGCGGCGCTTT-CCCACAAATGCCGCTAAAC
*
32902436 AACATGGACCTTTAGCGGCGCTTTTCCCAAAAATGCCGCTAAA
1 AACAT-GACCTTTAGCGGCGC-TTTCCCACAAATGCCGCTAAA
32902479 GTTCATGTTC
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
42 23 0.30
43 21 0.27
44 30 0.39
45 3 0.04
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (42 bp):
AACATGACCTTTAGCGGCGCTTTCCCACAAATGCCGCTAAAC
Found at i:32902440 original size:43 final size:42
Alignment explanation
Indices: 32902337--32902476 Score: 192
Period size: 42 Copynumber: 3.3 Consensus size: 42
32902327 CATTGTAGAA
*
32902337 AAACGCCACTACAAAACATGACCTTTAGCGGCGCTTTCCCAC
1 AAACGCCGCTACAAAACATGACCTTTAGCGGCGCTTTCCCAC
*
32902379 AAATGCCGCTA-AACAACATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTACAA-AACATGACCTTTAGCGGCGCTTT-CCCAC
* *
32902422 AAACGCCGCTACAGAACATGGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTACAAAACAT-GACCTTTAGCGGCGC-TTTCCCAC
*
32902466 AAATGCCGCTA
1 AAACGCCGCTA
32902477 AAGTTCATGT
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
41 2 0.02
42 32 0.37
43 20 0.23
44 30 0.34
45 3 0.03
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (42 bp):
AAACGCCGCTACAAAACATGACCTTTAGCGGCGCTTTCCCAC
Found at i:32902474 original size:44 final size:43
Alignment explanation
Indices: 32902335--32902476 Score: 189
Period size: 44 Copynumber: 3.3 Consensus size: 43
32902325 GGCATTGTAG
*
32902335 AAAAACGCCACTACAAAACATGACCTTTAGCGGCGC-TTTCCC
1 AAAAACGCCGCTACAAAACATGACCTTTAGCGGCGCTTTTCCC
* * *
32902377 ACAAATGCCGCTA-AACAACATGACCTTTAGCGGCGCTTTCCCC
1 AAAAACGCCGCTACAA-AACATGACCTTTAGCGGCGCTTTTCCC
* *
32902420 ACAAACGCCGCTACAGAACATGGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTACAAAACAT-GACCTTTAGCGGCGCTTTTCCC
*
32902464 AAAAATGCCGCTA
1 AAAAACGCCGCTA
32902477 AAGTTCATGT
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
41 2 0.02
42 30 0.34
43 22 0.25
44 33 0.38
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (43 bp):
AAAAACGCCGCTACAAAACATGACCTTTAGCGGCGCTTTTCCC
Found at i:32902874 original size:21 final size:21
Alignment explanation
Indices: 32902850--32902889 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32902840 TTCTGCTTTG
*
32902850 CTCTACTTCCCTCGTTGCTGC
1 CTCTACTTCCCTCGCTGCTGC
*
32902871 CTCTGCTTCCCTCGCTGCT
1 CTCTACTTCCCTCGCTGCT
32902890 ACCTTCGCTT
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:0.03, C:0.45, G:0.15, T:0.38
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCTGC
Found at i:32905330 original size:26 final size:26
Alignment explanation
Indices: 32905294--32905343 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
32905284 TTGGATAAAA
32905294 AGGGGTCGCTAAGTGCAGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
* *
32905320 AGGGGTTGCTAAGTGCTGATTCCC
1 AGGGGTCGCTAAGTGCAGATTCCC
32905344 TGAATTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.24, G:0.34, T:0.24
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCCG
Found at i:32905375 original size:42 final size:42
Alignment explanation
Indices: 32905323--32905549 Score: 205
Period size: 43 Copynumber: 5.4 Consensus size: 42
32905313 TTCCCCGAGG
* * *
32905323 GGTTGCTAAGTGCTGATTCCCTGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
*
32905365 GGTTTCTAAGTGCTGATTCCACCGTA-TATTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATTA-TTGATTGT-AAAGGT
* * * * * * *
32905408 GGATACTATGTGCTGATTCCCCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
*
32905450 GGTTCCTAAGTGCTGATTCCACCGTATCT-TTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGATTGT-AAAGGT
* * * *
32905493 GGTTGCTATGTGCTGATTCCCTGTATCACTGAATT-TAAA-GT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTG-ATTGTAAAGGT
32905534 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
32905550 ATCCACCGAG
Statistics
Matches: 150, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
40 1 0.01
41 23 0.15
42 56 0.37
43 60 0.40
44 10 0.07
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
Found at i:32905463 original size:85 final size:85
Alignment explanation
Indices: 32905358--32905557 Score: 321
Period size: 85 Copynumber: 2.4 Consensus size: 85
32905348 TTATTGATTC
*
32905358 TAAAGGTGGTTTCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGATACTATGTGCTG
1 TAAAGGTGGTTCCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGATACTATGTGCTG
32905423 ATTCCCCGTATCACTGAATA
66 ATTCCCCGTATCACTGAATA
* * *
32905443 TAAAGGTGGTTCCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGCTG
1 TAAAGGTGGTTCCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGATACTATGTGCTG
* *
32905508 ATTCCCTGTATCACTGAATT
66 ATTCCCCGTATCACTGAATA
* *
32905528 TAAA-GTGGTTGCTAAGTGCTGAATCCACCG
1 TAAAGGTGGTTCCTAAGTGCTGATTCCACCG
32905558 AGTAATGGAT
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 24 0.22
85 83 0.78
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (85 bp):
TAAAGGTGGTTCCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGATACTATGTGCTG
ATTCCCCGTATCACTGAATA
Found at i:32911674 original size:9 final size:9
Alignment explanation
Indices: 32911660--32911729 Score: 56
Period size: 9 Copynumber: 8.0 Consensus size: 9
32911650 TAAGTATAAT
32911660 TAAGTTATG
1 TAAGTTATG
32911669 TAAGTTATG
1 TAAGTTATG
* * *
32911678 ATATGATATA
1 -TAAGTTATG
*
32911688 T-ATTTATG
1 TAAGTTATG
32911696 T-A-TTATG
1 TAAGTTATG
*
32911703 TAAATTATG
1 TAAGTTATG
32911712 TAAGTTATG
1 TAAGTTATG
*
32911721 TAAATTATG
1 TAAGTTATG
32911730 ATCCAAAGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 31 0.63
10 6 0.12
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:32914707 original size:40 final size:41
Alignment explanation
Indices: 32914624--32914712 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
32914614 TTCTCCTAGC
* **
32914624 GCCGCTAATACTCGACCTTTTGTGGCGTTTTTTTCATAAAT
1 GCCGCTAATACTCGACCTATTGCAGCGTTTTTTTCATAAAT
* * *
32914665 GCCGCTAATGCTTGACCTATTGCAGCG-TTTTTTCGTAAAT
1 GCCGCTAATACTCGACCTATTGCAGCGTTTTTTTCATAAAT
*
32914705 GCCACTAA
1 GCCGCTAA
32914713 AAAGTCAATC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 19 0.46
41 22 0.54
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (41 bp):
GCCGCTAATACTCGACCTATTGCAGCGTTTTTTTCATAAAT
Found at i:32914833 original size:41 final size:41
Alignment explanation
Indices: 32914756--32914867 Score: 127
Period size: 41 Copynumber: 2.7 Consensus size: 41
32914746 ACAAAATGAT
* * *
32914756 TTTTTCAGCGTTTTTCTCATAAACGCCACTACTGCTT-GACC
1 TTTTGCAGTGTTTTTCTCATAAACACCACTACTGCTTAG-CC
* * *
32914797 TTTTGCAGTGTTTTTCTCCTAAACACCGCTATTGCTTAGCC
1 TTTTGCAGTGTTTTTCTCATAAACACCACTACTGCTTAGCC
* * *
32914838 TTTTGCGGTGTTTCTCTCATAAACGCCACT
1 TTTTGCAGTGTTTTTCTCATAAACACCACT
32914868 TTAGCTCTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 58 0.98
42 1 0.02
ACGTcount: A:0.18, C:0.28, G:0.14, T:0.40
Consensus pattern (41 bp):
TTTTGCAGTGTTTTTCTCATAAACACCACTACTGCTTAGCC
Found at i:32916762 original size:6 final size:6
Alignment explanation
Indices: 32916751--32916777 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
32916741 GTAAGTCAAC
32916751 CCCTCT CCCTCT CCCTCT CCCTCT CCC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCC
32916778 ATTTTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (6 bp):
CCCTCT
Found at i:32921137 original size:19 final size:19
Alignment explanation
Indices: 32921113--32921164 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
32921103 AAAAATAAAA
32921113 AAAATTCAAAATAATTTTC
1 AAAATTCAAAATAATTTTC
* *
32921132 AAAATTTTAAAATAATTTTT
1 AAAA-TTCAAAATAATTTTC
32921152 AAAATTCAAAATA
1 AAAATTCAAAATA
32921165 TTTATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTC
Found at i:32921174 original size:19 final size:19
Alignment explanation
Indices: 32921112--32921174 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
32921102 AAAAAATAAA
32921112 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
* *
32921131 CAAAATTTTAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
*
32921151 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
32921170 AAAAA
1 AAAAA
32921175 CTCCAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 4 0.11
19 15 0.42
20 17 0.47
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:32921746 original size:2 final size:2
Alignment explanation
Indices: 32921739--32921775 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32921729 TGAACCGTAT
32921739 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32921776 TATTTTTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32926225 original size:22 final size:22
Alignment explanation
Indices: 32926193--32926243 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
32926183 ATTTAAATTT
* *
32926193 TTTA-ATTCATCTTATATATCTA
1 TTTATATTCATCTAAAATAT-TA
32926215 -TTATATTCATCTAAAATATTA
1 TTTATATTCATCTAAAATATTA
32926236 TTTATATT
1 TTTATATT
32926244 AATAGGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTATATTCATCTAAAATATTA
Found at i:32930997 original size:32 final size:32
Alignment explanation
Indices: 32930961--32931024 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
32930951 ATAAAGAAGA
32930961 AAACATATTAACAGCGGATCTAAAGCAAAATC
1 AAACATATTAACAGCGGATCTAAAGCAAAATC
32930993 AAACATATTAACAGCGGATCTAAAGCAAAATC
1 AAACATATTAACAGCGGATCTAAAGCAAAATC
32931025 CATAAGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (32 bp):
AAACATATTAACAGCGGATCTAAAGCAAAATC
Found at i:32932849 original size:13 final size:13
Alignment explanation
Indices: 32932831--32932858 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32932821 GTGAATTTAC
32932831 TTGTGTGAAAATT
1 TTGTGTGAAAATT
32932844 TTGTGTGAAAATT
1 TTGTGTGAAAATT
32932857 TT
1 TT
32932859 ATCGTTTGTG
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:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (13 bp):
TTGTGTGAAAATT
Found at i:32934079 original size:2 final size:2
Alignment explanation
Indices: 32934031--32934059 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32934021 AAGGTACATA
32934031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32934060 CATAAGGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32934754 original size:41 final size:41
Alignment explanation
Indices: 32934697--32934841 Score: 263
Period size: 41 Copynumber: 3.5 Consensus size: 41
32934687 GACTTTAAGT
32934697 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
32934738 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
32934779 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
32934820 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
32934842 ATATGTTAAA
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:32940439 original size:13 final size:13
Alignment explanation
Indices: 32940421--32940445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32940411 GAATTTACTT
32940421 GTGTGAAAATTTC
1 GTGTGAAAATTTC
32940434 GTGTGAAAATTT
1 GTGTGAAAATTT
32940446 TATCGTTTGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:32942099 original size:41 final size:41
Alignment explanation
Indices: 32942042--32942227 Score: 336
Period size: 41 Copynumber: 4.5 Consensus size: 41
32942032 GACTTTAAGT
*
32942042 CTAGCAGGCTAAGTGCCGGCGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
32942083 CTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
32942124 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
32942165 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
32942206 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
32942228 ATATGTTAAA
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 140 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:32944231 original size:16 final size:19
Alignment explanation
Indices: 32944188--32944224 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
32944178 ACAAACACCA
*
32944188 ATCGACCGACCACCACAAC
1 ATCGACCAACCACCACAAC
32944207 ATCGACCAACCACCACAA
1 ATCGACCAACCACCACAA
32944225 ACACCAATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.46, G:0.08, T:0.05
Consensus pattern (19 bp):
ATCGACCAACCACCACAAC
Found at i:32946974 original size:19 final size:19
Alignment explanation
Indices: 32946937--32946974 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
32946927 CTAATTAATT
*
32946937 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
32946956 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
32946975 GAAAAAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:32948476 original size:23 final size:22
Alignment explanation
Indices: 32948449--32948577 Score: 122
Period size: 21 Copynumber: 6.0 Consensus size: 22
32948439 GGCTTTGCCG
* *
32948449 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGT-T
* *
32948472 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGT-T
* * *
32948495 TTTAGGCACCTCGTGTGTCG-T
1 ATCAGGCACCTCATGTGTCGTT
*
32948516 ATCAGGCACCTCGTGTGTCGTT
1 ATCAGGCACCTCATGTGTCGTT
*
32948538 -TCAGGCACCTCGTGTGTCGTT
1 ATCAGGCACCTCATGTGTCGTT
*
32948559 -TCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
32948578 ATACTGATCA
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
20 10 0.10
21 47 0.49
22 1 0.01
23 38 0.40
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (22 bp):
ATCAGGCACCTCATGTGTCGTT
Found at i:32948557 original size:42 final size:43
Alignment explanation
Indices: 32948462--32948576 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
32948452 AGGCACTTTA
* * *
32948462 TGTGTCGTATATCAGGCACTTTATGTGTCGTATTTTAGGCACCTCG
1 TGTGTCG--TATCAGGCACCTCATGTGTCG-ATTTCAGGCACCTCG
*
32948508 TGTGTCGTATCAGGCACCTCGTGTGTCG-TTTCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCATGTGTCGATTTCAGGCACCTCG
* *
32948550 TGTGTCGTTTCAGGCA-CTTATGTGTCG
1 TGTGTCGTATCAGGCACCTCATGTGTCG
32948577 TATACTGATC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 9 0.15
42 28 0.45
44 18 0.29
46 7 0.11
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.37
Consensus pattern (43 bp):
TGTGTCGTATCAGGCACCTCATGTGTCGATTTCAGGCACCTCG
Found at i:32948847 original size:19 final size:19
Alignment explanation
Indices: 32948823--32948860 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
32948813 AGTAAAGGTA
*
32948823 ATTAAAGTT-ATGACATAAT
1 ATTAAAATTGATG-CATAAT
32948842 ATTAAAATTGATGCATAAT
1 ATTAAAATTGATGCATAAT
32948861 TAAAAGTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (19 bp):
ATTAAAATTGATGCATAAT
Found at i:32953901 original size:21 final size:21
Alignment explanation
Indices: 32953875--32953915 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
32953865 TAATCTGGGC
32953875 TTGTT-TTT-GTTTTGGG-TT
1 TTGTTGTTTAGTTTTGGGCTT
32953893 TTGTTGTTTAGTTTTGGGCTT
1 TTGTTGTTTAGTTTTGGGCTT
32953914 TT
1 TT
32953916 AGCCCGGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 3 0.15
20 8 0.40
21 4 0.20
ACGTcount: A:0.02, C:0.02, G:0.27, T:0.68
Consensus pattern (21 bp):
TTGTTGTTTAGTTTTGGGCTT
Found at i:32956082 original size:12 final size:12
Alignment explanation
Indices: 32956065--32956091 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32956055 TTTAAATCAT
32956065 AAAAAAACAAAA
1 AAAAAAACAAAA
32956077 AAAAAAACAAAA
1 AAAAAAACAAAA
32956089 AAA
1 AAA
32956092 GAATATAAAG
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:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:32964092 original size:44 final size:45
Alignment explanation
Indices: 32963999--32964093 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 45
32963989 GGTTCGCTGT
* *
32963999 AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTAGTTGAATGG
* * *
32964044 AATGGAATAGAGGTGTAATAG-TATTC-TTGTGTTTAGTTGAATGG
1 AATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTAGTTGAATGG
32964088 AATGGA
1 AATGGA
32964094 GATGTAATAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 20 0.45
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (45 bp):
AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTAGTTGAATGG
Found at i:32964511 original size:18 final size:17
Alignment explanation
Indices: 32964488--32964524 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
32964478 AATTATTATT
32964488 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
32964504 AAATATATGATTTAATA
1 AAATATATGATTTAATA
32964521 AAAT
1 AAAT
32964525 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:32964629 original size:16 final size:16
Alignment explanation
Indices: 32964591--32964631 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
32964581 AAAATATAAT
32964591 TTGAAATA-ATTATTA
1 TTGAAATATATTATTA
32964606 TT-AAATATATT-TTAA
1 TTGAAATATATTATT-A
32964621 TTGAAATATAT
1 TTGAAATATAT
32964632 GATTTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.30
15 8 0.35
16 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (16 bp):
TTGAAATATATTATTA
Found at i:32964647 original size:28 final size:29
Alignment explanation
Indices: 32964566--32964648 Score: 71
Period size: 28 Copynumber: 2.8 Consensus size: 29
32964556 CTAAAATCAT
* *
32964566 AATATATGATACT-ATAAAATATAATTTGA
1 AATATATGAT-TTAATAAAATTTAATTTGA
* * * *
32964595 AATAATTATTATTAAATATATTTTAA-TTGA
1 AAT-A-TATGATTTAATAAAATTTAATTTGA
32964625 AATATATGATTTAATAAAATTTAA
1 AATATATGATTTAATAAAATTTAA
32964649 AATAATTATT
Statistics
Matches: 41, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
28 16 0.39
29 4 0.10
30 8 0.20
31 13 0.32
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.43
Consensus pattern (29 bp):
AATATATGATTTAATAAAATTTAATTTGA
Found at i:32964654 original size:120 final size:120
Alignment explanation
Indices: 32964236--32964645 Score: 759
Period size: 120 Copynumber: 3.4 Consensus size: 120
32964226 ATATTTTAAC
* *
32964236 ATAATTATTATTAAATATATTTTAATTAAAATACATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
32964301 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
32964356 ATAATTATTATTAAATATATTTTAATTAAAATATATCG-TTTAATAAAATTCTTAATAATCAATA
1 ATAATTATTATTAAATATATTTTAATTAAAATATAT-GATTTAATAAAATTCTTAATAATCAATA
* *
32964420 TTCTTATATGAATTTACTTAAATCATAATATATGATAGTATAAAATATAATTTGAA
65 TTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
32964476 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
32964541 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
*
32964596 ATAATTATTATTAAATATATTTTAATTGAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
32964646 TAAAATAATT
Statistics
Matches: 281, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
119 1 0.00
120 280 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:32964736 original size:44 final size:43
Alignment explanation
Indices: 32964686--32964828 Score: 114
Period size: 44 Copynumber: 3.2 Consensus size: 43
32964676 TATGAATTTG
32964686 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAAT-ATAATA
* * *
32964730 TATAATTTCATAA-AATTCTTGA-T-AATA-AATTTTCTAATATGAATTTG
1 TATAATTT-AAAATAATTATT-ATTAAATATAA--TT-TAATAT-AA--TA
* * *
32964777 TATAATTTAAAATAATTAATATTAAATATAATTTAATCGTGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAAT-ATAATA
32964821 TATAATTT
1 TATAATTT
32964829 CATAAAAATT
Statistics
Matches: 77, Mismatches: 9, Indels: 26
0.69 0.08 0.23
Matches are distributed among these distances:
42 2 0.03
43 4 0.05
44 28 0.36
45 10 0.13
46 9 0.12
47 18 0.23
48 4 0.05
49 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATATAATA
Found at i:32964744 original size:47 final size:45
Alignment explanation
Indices: 32964693--32964835 Score: 109
Period size: 47 Copynumber: 3.1 Consensus size: 45
32964683 TTGTATAATT
32964693 TAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTA-TATTAAATATAATTTAAT-ATAATATATAATTTCA
** * *
32964740 TAAAATTCTTGATAATAAAT-T--TTCTAATATGAATTTGTATAA-TT--
1 TAAAATAATT-ATATTAAATATAATT-TAATAT-AA--TATATAATTTCA
* *
32964784 TAAAATAATTAATATTAAATATAATTTAATCGTGATATATAATTTCA
1 TAAAATAATT-ATATTAAATATAATTTAAT-ATAATATATAATTTCA
32964831 TAAAA
1 TAAAA
32964836 ATTCTTAATA
Statistics
Matches: 73, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
44 26 0.36
45 9 0.12
46 8 0.11
47 29 0.40
48 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (45 bp):
TAAAATAATTATATTAAATATAATTTAATATAATATATAATTTCA
Found at i:32964756 original size:91 final size:92
Alignment explanation
Indices: 32964652--32964867 Score: 344
Period size: 91 Copynumber: 2.4 Consensus size: 92
32964642 AATTTAAAAT
* * *
32964652 AATTATTACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAATATTAAATATAA
32964717 TTTAATAATAATATATAATTTCAT-AA
66 TTTAATAATAATATATAATTTCATAAA
* *
32964743 AATTCTTGATAATAAATTTTCTAATATGAATTTGTATAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAATATTAAATATAA
** *
32964808 TTTAATCGTGATATATAATTTCATAAA
66 TTTAATAATAATATATAATTTCATAAA
*
32964835 AATTCTTAATAATAAATATTCTTATATGAATTT
1 AATTCTTAATAATAAATTTTCTTATATGAATTT
32964868 ACTAAAATCA
Statistics
Matches: 113, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 81 0.72
92 32 0.28
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAATATTAAATATAA
TTTAATAATAATATATAATTTCATAAA
Found at i:32970429 original size:18 final size:18
Alignment explanation
Indices: 32970408--32970443 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
32970398 AAACAAATTG
32970408 CCAAAAAGAAACCCAAAT
1 CCAAAAAGAAACCCAAAT
32970426 CCAAAAAGAAACCCAAAT
1 CCAAAAAGAAACCCAAAT
32970444 TTTGTCTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.28, G:0.06, T:0.06
Consensus pattern (18 bp):
CCAAAAAGAAACCCAAAT
Found at i:32971389 original size:20 final size:20
Alignment explanation
Indices: 32971322--32971397 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
32971312 CCAAAAAATT
*
32971322 TATTTT-AAAAATTAAAAAAG
1 TATTTTAAAAAATT-TAAAAG
*
32971342 TATTTTAAAAATATTTTAAA-
1 TATTTTAAAAA-ATTTAAAAG
*
32971362 -A-TTAAAAAAATTTAAAAG
1 TATTTTAAAAAATTTAAAAG
32971380 TATTTTAAAAAATTTAAA
1 TATTTTAAAAAATTTAAA
32971398 TTTAAAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
17 7 0.15
18 7 0.15
19 2 0.04
20 20 0.43
21 7 0.15
22 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
TATTTTAAAAAATTTAAAAG
Found at i:32972066 original size:238 final size:238
Alignment explanation
Indices: 32971648--32972087 Score: 837
Period size: 238 Copynumber: 1.8 Consensus size: 238
32971638 AAAAACTATT
32971648 ATAATATACAACAGCATAAATTAAACAAAAAAAAAATATGTTAAACTACATTTATAAAAAATGGT
1 ATAATATACAACAGCATAAATTAAACAAAAAAAAAATATGTTAAACTACATTTATAAAAAATGGT
32971713 TGAATTGTTTTATTTTATAATTATAAGTTTTTGAATATATAAAATAATAACTAAATTAGAAAGAA
66 TGAATTGTTTTATTTTATAATTATAAGTTTTTGAATATATAAAATAATAACTAAATTAGAAAGAA
32971778 CAACAATAAATCTGCAGCTTCAAAATGATGGCTATAATTTGATGATGATTGGTGCATACAAAAAT
131 CAACAATAAATCTGCAGCTTCAAAATGATGGCTATAATTTGATGATGATTGGTGCATACAAAAAT
32971843 AATTGACATTCTTTTCTCCTCAATCGATTAAATTAAAAATTAA
196 AATTGACATTCTTTTCTCCTCAATCGATTAAATTAAAAATTAA
* *
32971886 ATAATATACAGCAGCATAAATTAAAC-AAAAAAAAGTATGTTAAACTACATTTATAAAAAATGGT
1 ATAATATACAACAGCATAAATTAAACAAAAAAAAAATATGTTAAACTACATTTATAAAAAATGGT
32971950 TGAATTGTTTTATTTTTATAATTATAAGTTTTTGAATATATAAAATAATAACTAAATTAGAAAGA
66 TGAATTGTTTTA-TTTTATAATTATAAGTTTTTGAATATATAAAATAATAACTAAATTAGAAAGA
*
32972015 ACAACAATAAATCTGCAGCTTCAAAATGATGGCTATAGTTTGATGATGATTGGTGCATACAAAAA
130 ACAACAATAAATCTGCAGCTTCAAAATGATGGCTATAATTTGATGATGATTGGTGCATACAAAAA
32972080 TAATTGAC
195 TAATTGAC
32972088 TGCATATTCC
Statistics
Matches: 198, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
237 49 0.25
238 149 0.75
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (238 bp):
ATAATATACAACAGCATAAATTAAACAAAAAAAAAATATGTTAAACTACATTTATAAAAAATGGT
TGAATTGTTTTATTTTATAATTATAAGTTTTTGAATATATAAAATAATAACTAAATTAGAAAGAA
CAACAATAAATCTGCAGCTTCAAAATGATGGCTATAATTTGATGATGATTGGTGCATACAAAAAT
AATTGACATTCTTTTCTCCTCAATCGATTAAATTAAAAATTAA
Found at i:32973776 original size:27 final size:29
Alignment explanation
Indices: 32973719--32973777 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
32973709 TTTGTTTTAA
*
32973719 ATGTAGTGTATTTTAAAAATAAAAAATAT
1 ATGTAGTATATTTTAAAAATAAAAAATAT
32973748 ATGTAGTATATTTTAAAAATAAAAAATAT
1 ATGTAGTATATTTTAAAAATAAAAAATAT
32973777 A
1 A
32973778 GTTTTTATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.37
Consensus pattern (29 bp):
ATGTAGTATATTTTAAAAATAAAAAATAT
Found at i:32979161 original size:42 final size:42
Alignment explanation
Indices: 32979101--32979433 Score: 488
Period size: 42 Copynumber: 7.9 Consensus size: 42
32979091 CAGCGTTTAC
* *
32979101 AAAAAGAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 AAAAA-AACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
* *
32979144 AAAAAAACGCCGCTAAAGAACATGTTTTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
* *
32979186 AAAAAAAACGCCGCTAAAGAACATGTTCTTTAGTGGCGCTTAG
1 -AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
** *
32979229 AAAAAAA-GCCTTTAAAGACCATGTTCTTTAGCGGCACTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
* *
32979270 AAAAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTATA
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA-G
* *
32979313 AAAAAAACACCGCTAAAGACCATGTTCTTTAACGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
* *
32979355 AGAAAAACGCCGCTGAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
*
32979397 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
32979434 TTTTTATACA
Statistics
Matches: 263, Mismatches: 24, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
41 36 0.14
42 144 0.55
43 83 0.32
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
Found at i:32979203 original size:85 final size:84
Alignment explanation
Indices: 32979101--32979433 Score: 488
Period size: 85 Copynumber: 3.9 Consensus size: 84
32979091 CAGCGTTTAC
* * *
32979101 AAAAAGAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACA
1 AAAAA-AACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCA
*
32979166 TGTTTTTTAGCGGCGCTTAG
65 TGTTCTTTAGCGGCGCTTAG
* * **
32979186 AAAAAAAACGCCGCTAAAGAACATGTTCTTTAGTGGCGCTTAGAAAAAAA-GCCTTTAAAGACCA
1 -AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCA
*
32979250 TGTTCTTTAGCGGCACTTAG
65 TGTTCTTTAGCGGCGCTTAG
* * *
32979270 AAAAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTATAAAAAAAACACCGCTAAAGACCA
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAGACCA
*
32979335 TGTTCTTTAACGGCGCTTAG
65 TGTTCTTTAGCGGCGCTTAG
* * *
32979355 AGAAAAACGCCGCTGAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCAT
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCAT
32979420 GTTCTTTAGCGGCG
66 GTTCTTTAGCGGCG
32979434 TTTTTATACA
Statistics
Matches: 221, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
83 38 0.17
84 70 0.32
85 108 0.49
86 5 0.02
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (84 bp):
AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCAT
GTTCTTTAGCGGCGCTTAG
Found at i:32979803 original size:21 final size:21
Alignment explanation
Indices: 32979754--32979803 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
32979744 TTTTAGCCTG
* *
32979754 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
32979775 TTCCGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
32979796 CTCTGCTT
1 CTCTGCTT
32979804 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.44, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:32985864 original size:9 final size:9
Alignment explanation
Indices: 32985852--32986073 Score: 119
Period size: 9 Copynumber: 25.4 Consensus size: 9
32985842 ATTAAGTCAA
32985852 TTATGTAAG
1 TTATGTAAG
*
32985861 TTATGTACG
1 TTATGTAAG
32985870 TGTA--TAAG
1 T-TATGTAAG
32985878 TTATGTAAG
1 TTATGTAAG
32985887 TTATGT-A-
1 TTATGTAAG
*
32985894 TTAAGTAAG
1 TTATGTAAG
* *
32985903 CTATTTAAG
1 TTATGTAAG
*
32985912 TTGTGT-AG
1 TTATGTAAG
32985920 -TATGTAAG
1 TTATGTAAG
*
32985928 TTATGCAAG
1 TTATGTAAG
**
32985937 TTATCAAAG
1 TTATGTAAG
* *
32985946 TAATGTATG
1 TTATGTAAG
32985955 TTATGTAAG
1 TTATGTAAG
32985964 -T-TGTAAG
1 TTATGTAAG
*
32985971 TTAT-TATG
1 TTATGTAAG
**
32985979 TATTATGTCGG
1 --TTATGTAAG
32985990 TTATGTAAG
1 TTATGTAAG
*
32985999 TTTTGT-AG
1 TTATGTAAG
*
32986007 -TATTTAAG
1 TTATGTAAG
*
32986015 TTGTGTAAG
1 TTATGTAAG
*
32986024 TTATGTATG
1 TTATGTAAG
*
32986033 CTATGTAAG
1 TTATGTAAG
*
32986042 TAATTTGT-A-
1 T--TATGTAAG
32986051 TTATGTAAG
1 TTATGTAAG
*
32986060 CTTATATAAG
1 -TTATGTAAG
32986070 TTAT
1 TTAT
32986074 TATGTAACTA
Statistics
Matches: 157, Mismatches: 37, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
7 24 0.15
8 20 0.13
9 92 0.59
10 15 0.10
11 6 0.04
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:32985912 original size:51 final size:50
Alignment explanation
Indices: 32985836--32985940 Score: 131
Period size: 51 Copynumber: 2.1 Consensus size: 50
32985826 TGATATATAT
* * *
32985836 TTATGTATTAAGTCAATTATGTAAGTTATGTACGTGTATAAGTTATGTAAG
1 TTATGTATTAAGTCAACTATGTAAGTTATGTA-GTATATAAGTTATGCAAG
* * *
32985887 TTATGTATTAAGT-AAGCTATTTAAGTTGTGTAGTATGTAAGTTATGCAAG
1 TTATGTATTAAGTCAA-CTATGTAAGTTATGTAGTATATAAGTTATGCAAG
32985937 TTAT
1 TTAT
32985941 CAAAGTAATG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 21 0.45
51 26 0.55
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.44
Consensus pattern (50 bp):
TTATGTATTAAGTCAACTATGTAAGTTATGTAGTATATAAGTTATGCAAG
Found at i:32986432 original size:13 final size:13
Alignment explanation
Indices: 32986414--32986457 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
32986404 CACATTTTAG
32986414 TAAGTAATGTATT
1 TAAGTAATGTATT
32986427 TAAGTAA-GTTATT
1 TAAGTAATG-TATT
*
32986440 TAAGTAATATATT
1 TAAGTAATGTATT
*
32986453 CAAGT
1 TAAGT
32986458 TAATTTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 26 0.96
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (13 bp):
TAAGTAATGTATT
Found at i:32986537 original size:34 final size:34
Alignment explanation
Indices: 32986493--32986617 Score: 151
Period size: 34 Copynumber: 3.5 Consensus size: 34
32986483 GTAAGTAATG
*
32986493 TAAGTCATGTAAAATATACTTAAAAATATATATT
1 TAAGTAATGTAAAATATACTTAAAAATATATATT
* *
32986527 TAAGTAATGTAAGATATCAATTTTAAAATATATATATT
1 TAAGTAATGTAAAATAT--A-CTTAAAA-ATATATATT
*
32986565 AATAAGTCATGTAAAATATACTTAAAAATATATATT
1 --TAAGTAATGTAAAATATACTTAAAAATATATATT
*
32986601 TAAGTAATGTAAGATAT
1 TAAGTAATGTAAAATAT
32986618 CAATTTTTAA
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
34 30 0.39
36 10 0.13
37 12 0.16
38 10 0.13
40 15 0.19
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (34 bp):
TAAGTAATGTAAAATATACTTAAAAATATATATT
Found at i:32986574 original size:74 final size:74
Alignment explanation
Indices: 32986493--32986734 Score: 299
Period size: 74 Copynumber: 3.1 Consensus size: 74
32986483 GTAAGTAATG
32986493 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
32986558 ATATATTAA
66 ATATATTAA
32986567 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTTAAAATA
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAA-TTTTAAAATA
32986632 TATATATATATA
65 TATATAT-TA-A
* *
32986644 TATA-T-ATATTAATAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATAT
1 TA-AGTCAT-GTAA-AA-T-A--T---A-CT---TAAAAATATATATTTAAGTAATGTAAGATAT
32986707 CAATTTTAAAATATATATATTAA
52 CAATTTTAAAATATATATATTAA
32986730 TAAGT
1 TAAGT
32986735 TAAATTAAAT
Statistics
Matches: 148, Mismatches: 2, Indels: 24
0.85 0.01 0.14
Matches are distributed among these distances:
74 54 0.36
75 17 0.11
76 4 0.03
77 7 0.05
78 3 0.02
79 1 0.01
80 1 0.01
82 1 0.01
85 2 0.01
86 5 0.03
87 2 0.01
88 17 0.11
89 34 0.23
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.40
Consensus pattern (74 bp):
TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
ATATATTAA
Found at i:32986658 original size:89 final size:88
Alignment explanation
Indices: 32986554--32986726 Score: 337
Period size: 89 Copynumber: 2.0 Consensus size: 88
32986544 CAATTTTAAA
32986554 ATATATATATTAATAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATC
1 ATATATATATTAATAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATC
32986619 AATTTTTAAAATATATATATATAT
66 AA-TTTTAAAATATATATATATAT
32986643 ATATATATATTAATAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATC
1 ATATATATATTAATAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATC
32986708 AATTTTAAAATATATATAT
66 AATTTTAAAATATATATAT
32986727 TAATAAGTTA
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 17 0.20
89 67 0.80
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (88 bp):
ATATATATATTAATAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATC
AATTTTAAAATATATATATATAT
Found at i:32986685 original size:36 final size:39
Alignment explanation
Indices: 32986643--32986734 Score: 113
Period size: 34 Copynumber: 2.5 Consensus size: 39
32986633 ATATATATAT
*
32986643 ATATATATATTAATAAGTCATGTAAAATAT-A-CTTAAA
1 ATATATATATTAATAAGTAATGTAAAATATAATCTTAAA
* *
32986680 A-ATATATATT--TAAGTAATGTAAGATATCAATTTTAAA
1 ATATATATATTAATAAGTAATGTAAAATAT-AATCTTAAA
32986717 ATATATATATTAATAAGT
1 ATATATATATTAATAAGT
32986735 TAAATTAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
34 15 0.33
36 10 0.22
37 7 0.15
38 9 0.20
40 5 0.11
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (39 bp):
ATATATATATTAATAAGTAATGTAAAATATAATCTTAAA
Found at i:32986694 original size:34 final size:35
Alignment explanation
Indices: 32986645--32986761 Score: 91
Period size: 36 Copynumber: 3.3 Consensus size: 35
32986635 ATATATATAT
*
32986645 ATATATATTAATAAGTCATGTAAAATAT-ACTTAAAA
1 ATATATATT--TAAGTAATGTAAAATATAACTTAAAA
* * *
32986681 ATATATATTTAAGTAATGTAAGATATCAATTTTAAA
1 ATATATATTTAAGTAATGTAAAATAT-AACTTAAAA
* * *
32986717 ATATATATATTAA-TAA-GTTAAAT-TAAATTGTAAA
1 ATATATAT-TTAAGTAATGTAAAATATAACTT-AAAA
32986751 A-ATATATTTAA
1 ATATATATTTAA
32986762 AAATATAATA
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
32 4 0.06
33 10 0.14
34 21 0.30
35 5 0.07
36 26 0.37
37 4 0.06
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (35 bp):
ATATATATTTAAGTAATGTAAAATATAACTTAAAA
Found at i:32986971 original size:66 final size:68
Alignment explanation
Indices: 32986859--32986997 Score: 239
Period size: 67 Copynumber: 2.1 Consensus size: 68
32986849 TTTGTTGAGA
*
32986859 ATTCATTATATAATGAATTTATTAAACATTCAATCAATTAACTAA-CCAAAATTGATAATTCATT
1 ATTCATTATATAATGAATTTATAAAACATTCAATCAATTAACTAACCCAAAATTGATAATTCATT
32986923 GAC
66 GAC
32986926 ATTCATTATATAATGAA-TTATAAAACATTCAATCAATTAGA-TAACCCAAAATTGATAATTCAT
1 ATTCATTATATAATGAATTTATAAAACATTCAATCAATTA-ACTAACCCAAAATTGATAATTCAT
32986989 TGAC
65 TGAC
32986993 ATTCA
1 ATTCA
32986998 ATCAATTAAT
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
66 24 0.35
67 45 0.65
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (68 bp):
ATTCATTATATAATGAATTTATAAAACATTCAATCAATTAACTAACCCAAAATTGATAATTCATT
GAC
Found at i:32987083 original size:16 final size:16
Alignment explanation
Indices: 32987062--32987094 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32987052 TTAACCAGAT
*
32987062 AAATTGTAAATCGATA
1 AAATTGCAAATCGATA
32987078 AAATTGCAAATCGATA
1 AAATTGCAAATCGATA
32987094 A
1 A
32987095 TTATAAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (16 bp):
AAATTGCAAATCGATA
Found at i:32988669 original size:44 final size:44
Alignment explanation
Indices: 32988583--32988670 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
32988573 TGAAATACAT
* * *
32988583 TTTTGCGGCGTTTTAAGCAAAGCGCCACAATATATAGGTCAAAA
1 TTTTGCGGCGTTTTAAACAAAGCGCCACAATATACAGCTCAAAA
*
32988627 TTTTGCGGCGTTTTAAACTAAGCGCCACTAACTAT-CA-CTCAAAA
1 TTTTGCGGCGTTTTAAACAAAGCGCCAC-AA-TATACAGCTCAAAA
32988671 CGCAGTCGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 32 0.84
45 3 0.08
46 3 0.08
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (44 bp):
TTTTGCGGCGTTTTAAACAAAGCGCCACAATATACAGCTCAAAA
Found at i:32988892 original size:147 final size:147
Alignment explanation
Indices: 32988625--32988905 Score: 327
Period size: 147 Copynumber: 1.9 Consensus size: 147
32988615 TATAGGTCAA
* * * ** *
32988625 AATTTTGCGGCGTTTTAAACTAAGCGCCACTAACTATCACTCAAAACGCAGTCGCTTCATCAACA
1 AATTTTGCGGCATTTTAAACTAAGCGCCACTAACTATAACTCAAAACGAACCCGCTTCACCAACA
* * * *
32988690 CTTACCTCAAACCCGTGGCGTTTTCGATAAAACGCCACTAATAACATTAACAAAACGGCAACGTT
66 CTTACCTCAAACCCGTGGCGTTTCCGATAAAACGCCACTAATAACAATAACAAAACGACAACATT
32988755 TCAACAAATGTTTGAAC
131 TCAACAAATGTTTGAAC
* * *
32988772 AATTTTGCGGCATTTT-AAGTAAAGCGCCACTAACTATAACTCAAAACGAACCCGTTTCCCCAAC
1 AATTTTGCGGCATTTTAAACT-AAGCGCCACTAACTATAACTCAAAACGAACCCGCTTCACCAAC
* **** *
32988836 AGTTTACC-CAATGTTGTGGCGTTTCCGA-CAAACGCCACTAAT-ACAATAGACAAAAACGACAA
65 A-CTTACCTCAAACCCGTGGCGTTTCCGATAAAACGCCACTAATAACAATA-AC-AAAACGACAA
32988898 CATTTCAA
127 CATTTCAA
32988906 TAAACATAAT
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
145 5 0.05
146 18 0.16
147 83 0.75
148 5 0.05
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.25
Consensus pattern (147 bp):
AATTTTGCGGCATTTTAAACTAAGCGCCACTAACTATAACTCAAAACGAACCCGCTTCACCAACA
CTTACCTCAAACCCGTGGCGTTTCCGATAAAACGCCACTAATAACAATAACAAAACGACAACATT
TCAACAAATGTTTGAAC
Found at i:32989423 original size:21 final size:20
Alignment explanation
Indices: 32989399--32989454 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
32989389 TTGTAATCCT
32989399 TAAACCTCAAAAACCAAACCC
1 TAAACC-CAAAAACCAAACCC
* *
32989420 TAAACCCCAAACACTAAACCC
1 TAAA-CCCAAAAACCAAACCC
* *
32989441 CAAACCCTAAAACC
1 TAAACCCAAAAACC
32989455 CCAAACAGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 7 0.25
21 19 0.68
22 2 0.07
ACGTcount: A:0.50, C:0.41, G:0.00, T:0.09
Consensus pattern (20 bp):
TAAACCCAAAAACCAAACCC
Found at i:32989429 original size:14 final size:14
Alignment explanation
Indices: 32989412--32989460 Score: 80
Period size: 14 Copynumber: 3.4 Consensus size: 14
32989402 ACCTCAAAAA
32989412 CCAAACCCTAAACC
1 CCAAACCCTAAACC
*
32989426 CCAAACACTAAACC
1 CCAAACCCTAAACC
32989440 CCAAACCCTAAAACC
1 CCAAACCCT-AAACC
32989455 CCAAAC
1 CCAAAC
32989461 AGTAAAAGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.06
Consensus pattern (14 bp):
CCAAACCCTAAACC
Found at i:32989460 original size:7 final size:7
Alignment explanation
Indices: 32989412--32989460 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
32989402 ACCTCAAAAA
32989412 CCAAACC
1 CCAAACC
*
32989419 CTAAACC
1 CCAAACC
*
32989426 CCAAACA
1 CCAAACC
*
32989433 CTAAACC
1 CCAAACC
32989440 CCAAACC
1 CCAAACC
*
32989447 CTAAAACC
1 C-CAAACC
32989455 CCAAAC
1 CCAAAC
32989461 AGTAAAAGTC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.06
Consensus pattern (7 bp):
CCAAACC
Found at i:32989461 original size:29 final size:28
Alignment explanation
Indices: 32989412--32989466 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
32989402 ACCTCAAAAA
32989412 CCAAACCCTAAACCCCAAACACTAAACC
1 CCAAACCCTAAACCCCAAACACTAAACC
*
32989440 CCAAACCCTAAAACCCCAAACAGTAAA
1 CCAAACCCT-AAACCCCAAACACTAAA
32989467 AGTCAAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.49, C:0.42, G:0.02, T:0.07
Consensus pattern (28 bp):
CCAAACCCTAAACCCCAAACACTAAACC
Found at i:32989466 original size:15 final size:15
Alignment explanation
Indices: 32989412--32989467 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 15
32989402 ACCTCAAAAA
*
32989412 CCAAACCCT-AAACC
1 CCAAACACTAAAACC
32989426 CCAAACACT-AAACC
1 CCAAACACTAAAACC
*
32989440 CCAAACCCTAAAACC
1 CCAAACACTAAAACC
*
32989455 CCAAACAGTAAAA
1 CCAAACACTAAAA
32989468 GTCAAAACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
14 21 0.57
15 16 0.43
ACGTcount: A:0.50, C:0.41, G:0.02, T:0.07
Consensus pattern (15 bp):
CCAAACACTAAAACC
Found at i:32990270 original size:20 final size:20
Alignment explanation
Indices: 32990235--32990272 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32990225 GTATCTTTTC
32990235 TAATTATATATGAAATTATT
1 TAATTATATATGAAATTATT
32990255 TAATATATATAT-AAATTA
1 TAAT-TATATATGAAATTA
32990273 CAAATCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATTATATATGAAATTATT
Found at i:32990402 original size:18 final size:18
Alignment explanation
Indices: 32990379--32990414 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
32990369 ATTGAATTTT
32990379 AATT-AATATAAATAAACA
1 AATTAAATATAAA-AAACA
32990397 AATTAAATATAAAAAACA
1 AATTAAATATAAAAAACA
32990415 TATAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AATTAAATATAAAAAACA
Found at i:32990422 original size:18 final size:19
Alignment explanation
Indices: 32990383--32990422 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
32990373 AATTTTAATT
*
32990383 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
32990402 AATATAAA-AAACATATAA
1 AATATAAATAAACAAATAA
32990420 AAT
1 AAT
32990423 GATTTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:32991076 original size:114 final size:114
Alignment explanation
Indices: 32990574--32991061 Score: 318
Period size: 114 Copynumber: 4.3 Consensus size: 114
32990564 TTAATTCTAG
* * * * * * * * * *
32990574 TATACATCAAGAACTAAACGCTGTGTTTTGGTTAAGATACTTTGCGGCGCGTTACAC-AAACGCT
1 TATACATCAAG-ACCAAACGCTGCGTGTTGGTTAACATATTTTGCGGTGC-TTTCGCTAAGCGCC
* * *
32990638 GCTAATGA-TATACTTTAGCGGC-ATTT-TTCATCAAGCGCCACTAATT-CTAA
64 GCTAAT-ACTATACATTACCGGCGTTTTCTTCAT-AAGCGCCACTAATTGC-AA
* * * * * * * * * * * *
32990688 TACT-CCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTGGAGGCGCTTACCACAAAACGCT
1 TA-TACATCAAGACCAAACGCTGCGTGTTGGTTAACATATTTTGCGGTGCTT-TCGCTAAGCGCC
* * * * ** *
32990752 GCT-ATAACTATCCTTTACTGGCATTTTCCTT-A-AA-CGCCACTAATTATAG
64 GCTAAT-ACTATACATTACCGGCGTTTT-CTTCATAAGCGCCACTAATTGCAA
* * * * * * * **
32990801 TATACATCAAGACCAAAATGGTGCGTTTTGATTAAGATATCTTGCGGCG-TTTAACGCTCTGCGC
1 TATACATCAAGACC-AAACGCTGCGTGTTGGTTAACATATTTTGCGGTGCTTT--CGCTAAGCGC
* *
32990865 CGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTAATTGCAA
63 CGCTAATACTATACATTACCGGCGTTTTCTTCATAAGCGCCACTAATTGCAA
* * * *
32990917 TATACATCAAGACTAAACTCTGCGTTTTGGTTAACATCTTTTGCGGTGCTTTCGCTAAGCGCCGC
1 TATACATCAAGACCAAACGCTGCGTGTTGGTTAACATATTTTGCGGTGCTTTCGCTAAGCGCCGC
* *
32990982 TAATACTGTACATTACCGGCG-TTTGTTCATAAGCGCCACTAA-TGCCAA
66 TAATACTATACATTACCGGCGTTTTCTTCATAAGCGCCACTAATTG-CAA
32991030 TATACATCAAGACCAGAACGCTGCGTGTTGGT
1 TATACATCAAGACCA-AACGCTGCGTGTTGGT
32991062 CTTGATATTT
Statistics
Matches: 299, Mismatches: 56, Indels: 38
0.76 0.14 0.10
Matches are distributed among these distances:
112 5 0.02
113 102 0.34
114 127 0.42
115 34 0.11
116 29 0.10
117 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (114 bp):
TATACATCAAGACCAAACGCTGCGTGTTGGTTAACATATTTTGCGGTGCTTTCGCTAAGCGCCGC
TAATACTATACATTACCGGCGTTTTCTTCATAAGCGCCACTAATTGCAA
Found at i:32991156 original size:40 final size:40
Alignment explanation
Indices: 32991091--32991204 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 40
32991081 GCGTGGTAAA
*
32991091 CGCCGCTAATGATGTTCTTTAGCGGCGTTTTGTTAAAAT-
1 CGCCGCTAATGATGATCTTTAGCGGCGTTTTGTTAAAATG
* ****
32991130 CGCCGCTAATGCTAGATCTTTAGCGGCGTTTT-TTTCTTTG
1 CGCCGCTAATGAT-GATCTTTAGCGGCGTTTTGTTAAAATG
* *
32991170 CGCCGCTAATGGTTGATTTTTAGCGGCG-TTTGTTA
1 CGCCGCTAAT-GATGATCTTTAGCGGCGTTTTGTTA
32991205 TCAAAATGCC
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
39 18 0.29
40 42 0.68
41 2 0.03
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.40
Consensus pattern (40 bp):
CGCCGCTAATGATGATCTTTAGCGGCGTTTTGTTAAAATG
Found at i:32992027 original size:20 final size:20
Alignment explanation
Indices: 32992002--32992047 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
32991992 TATTTTTCAA
32992002 CCATGTCTCGAGACATCTTG
1 CCATGTCTCGAGACATCTTG
*
32992022 CCATGTCTTGAGACATCTTG
1 CCATGTCTCGAGACATCTTG
32992042 CCATGT
1 CCATGT
32992048 TTCAAGACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (20 bp):
CCATGTCTCGAGACATCTTG
Found at i:32992055 original size:20 final size:20
Alignment explanation
Indices: 32992002--32992055 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
32991992 TATTTTTCAA
*
32992002 CCATGTCTCGAGACATCTTG
1 CCATGTTTCGAGACATCTTG
32992022 CCATGTCTT-GAGACATCTTG
1 CCATGT-TTCGAGACATCTTG
*
32992042 CCATGTTTCAAGAC
1 CCATGTTTCGAGAC
32992056 CTAGGTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 27 0.90
21 1 0.03
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (20 bp):
CCATGTTTCGAGACATCTTG
Found at i:32993237 original size:30 final size:31
Alignment explanation
Indices: 32993182--32993242 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
32993172 AGGCAAATTA
32993182 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
32993213 CAAGAGTAATTGAATCCT-ATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
32993243 AAAATTATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:32999475 original size:31 final size:31
Alignment explanation
Indices: 32999440--32999500 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
32999430 GGAAAATTAC
*
32999440 AAGAGTAACTGAATCCTAATAAAAATCTTTG
1 AAGAGTAACTGAATCCCAATAAAAATCTTTG
* *
32999471 AAGAGTAATTGAATCCCAATAAAACTCTTT
1 AAGAGTAACTGAATCCCAATAAAAATCTTT
32999501 AAAATTATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (31 bp):
AAGAGTAACTGAATCCCAATAAAAATCTTTG
Found at i:33001518 original size:53 final size:52
Alignment explanation
Indices: 33001431--33001667 Score: 273
Period size: 53 Copynumber: 4.5 Consensus size: 52
33001421 TTCATCTCCA
** *
33001431 GGGGTATAACAGTCATTTTACCCTAT-GTGGGTATTTCGGTCATTTGACCCTTC
1 GGGGTATTTCAGTCATTTTACCCT-TCG-GGGTATTTCGGTCATTTTACCCTTC
* *
33001484 GAGGGTATTTC-GATCATTGTACCCTTCGGGGTATTTCGGTCATTTTACTCTTC
1 G-GGGTATTTCAG-TCATTTTACCCTTCGGGGTATTTCGGTCATTTTACCCTTC
* * * * *
33001537 GAGGGTATTTCAGT-TTTTTCACCCTTCAAGGGCATTTCAGTCATTTTACCTTTC
1 G-GGGTATTTCAGTCATTTT-ACCCTTC-GGGGTATTTCGGTCATTTTACCCTTC
*
33001591 GGGGTATTTCAGTCATTTTACCTTTCGGGGTATTTCGGTCATTTTACCCTTC
1 GGGGTATTTCAGTCATTTTACCCTTCGGGGTATTTCGGTCATTTTACCCTTC
* *
33001643 GGGATATTTCGGTCATTTTACCCTT
1 GGGGTATTTCAGTCATTTTACCCTT
33001668 TCGATCTTTT
Statistics
Matches: 156, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
52 47 0.30
53 63 0.40
54 46 0.29
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (52 bp):
GGGGTATTTCAGTCATTTTACCCTTCGGGGTATTTCGGTCATTTTACCCTTC
Found at i:33001526 original size:26 final size:26
Alignment explanation
Indices: 33001442--33001667 Score: 267
Period size: 26 Copynumber: 8.5 Consensus size: 26
33001432 GGGTATAACA
33001442 GTCATTTTACCCTAT-GTGGGTATTTCG
1 GTCATTTTACCCT-TCG-GGGTATTTCG
*
33001469 GTCATTTGACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCG-GGGTATTTCG
* *
33001496 ATCATTGTACCCTTCGGGGTATTTCG
1 GTCATTTTACCCTTCGGGGTATTTCG
* *
33001522 GTCATTTTACTCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCG-GGGTATTTCG
* * * *
33001549 GT-TTTTTCACCCTTCAAGGGCATTTCA
1 GTCATTTT-ACCCTTC-GGGGTATTTCG
* *
33001576 GTCATTTTACCTTTCGGGGTATTTCA
1 GTCATTTTACCCTTCGGGGTATTTCG
*
33001602 GTCATTTTACCTTTCGGGGTATTTCG
1 GTCATTTTACCCTTCGGGGTATTTCG
*
33001628 GTCATTTTACCCTTCGGGATATTTCG
1 GTCATTTTACCCTTCGGGGTATTTCG
33001654 GTCATTTTACCCTT
1 GTCATTTTACCCTT
33001668 TCGATCTTTT
Statistics
Matches: 174, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
26 100 0.57
27 70 0.40
28 4 0.02
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTTCGGGGTATTTCG
Found at i:33001685 original size:43 final size:44
Alignment explanation
Indices: 33001623--33001708 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
33001613 TTTCGGGGTA
*
33001623 TTTCGGTCATTTTACCCTTCG-GGATATTTCGGTCATTTTACCC
1 TTTCGATCATTTTACCCTTCGAGGATATTTCGGTCATTTTACCC
* * *
33001666 TTTCGATCTTTTTATCCTTCGAGGTTATTTCGGTCATTTTACC
1 TTTCGATCATTTTACCCTTCGAGGATATTTCGGTCATTTTACC
33001709 ACGAATCGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 18 0.47
44 20 0.53
ACGTcount: A:0.14, C:0.23, G:0.15, T:0.48
Consensus pattern (44 bp):
TTTCGATCATTTTACCCTTCGAGGATATTTCGGTCATTTTACCC
Found at i:33006603 original size:12 final size:12
Alignment explanation
Indices: 33006586--33006625 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
33006576 TAAGTTTGTA
33006586 AATATTATATTT
1 AATATTATATTT
*
33006598 AATATT-TA-TG
1 AATATTATATTT
33006608 AATATTATATTT
1 AATATTATATTT
33006620 AATATT
1 AATATT
33006626 TACGAGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 7 0.29
11 4 0.17
12 13 0.54
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (12 bp):
AATATTATATTT
Found at i:33006614 original size:22 final size:22
Alignment explanation
Indices: 33006586--33006627 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
33006576 TAAGTTTGTA
33006586 AATATTATATTTAATATTTATG
1 AATATTATATTTAATATTTATG
33006608 AATATTATATTTAATATTTA
1 AATATTATATTTAATATTTA
33006628 CGAGTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AATATTATATTTAATATTTATG
Found at i:33011980 original size:8 final size:8
Alignment explanation
Indices: 33011967--33011991 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33011957 AAAGATATTT
33011967 TAATTAAA
1 TAATTAAA
33011975 TAATTAAA
1 TAATTAAA
33011983 TAATTAAA
1 TAATTAAA
33011991 T
1 T
33011992 GAGATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATTAAA
Found at i:33014800 original size:35 final size:35
Alignment explanation
Indices: 33014754--33014824 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
33014744 CCGAATATCA
33014754 CCATAGGAGGGGAGAAGAGATTTTATTCAAGCTTT
1 CCATAGGAGGGGAGAAGAGATTTTATTCAAGCTTT
33014789 CCATAGGAGGGGAGAAGAGATTTTATTCAAGCTTT
1 CCATAGGAGGGGAGAAGAGATTTTATTCAAGCTTT
33014824 C
1 C
33014825 TCTTTGCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (35 bp):
CCATAGGAGGGGAGAAGAGATTTTATTCAAGCTTT
Found at i:33015667 original size:25 final size:24
Alignment explanation
Indices: 33015615--33015670 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
33015605 TAGCTTGTAT
* *
33015615 GAGCTTACCGATTTTAGCTCCTGA
1 GAGCTTACCGATTTCAGCTCCGGA
33015639 GAGCTTACCGATATTCAGCT-CGGA
1 GAGCTTACCGAT-TTCAGCTCCGGA
33015663 GGAGCTTA
1 -GAGCTTA
33015671 TGTTTATCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (24 bp):
GAGCTTACCGATTTCAGCTCCGGA
Found at i:33030629 original size:4 final size:4
Alignment explanation
Indices: 33030620--33030665 Score: 74
Period size: 4 Copynumber: 11.5 Consensus size: 4
33030610 GGATTACTTG
* *
33030620 TACA TACA TACA TACA TACA TACA TACA TTCA TACA TACA CACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
33030666 TATATATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:33048839 original size:18 final size:19
Alignment explanation
Indices: 33048801--33048843 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
33048791 AGAATAAGAA
* *
33048801 AAATATAATGTGGACATTG
1 AAATGTAATGTGGAAATTG
33048820 AAATGTAATGT-GAAATTG
1 AAATGTAATGTGGAAATTG
33048838 AAATGT
1 AAATGT
33048844 GTAATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (19 bp):
AAATGTAATGTGGAAATTG
Found at i:33050541 original size:12 final size:12
Alignment explanation
Indices: 33050524--33050553 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
33050514 TTTCAAAAGG
33050524 GTACACAGTCTA
1 GTACACAGTCTA
33050536 GTACACAGTCTA
1 GTACACAGTCTA
33050548 GTACAC
1 GTACAC
33050554 GGGCGTGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (12 bp):
GTACACAGTCTA
Found at i:33059641 original size:188 final size:192
Alignment explanation
Indices: 33059320--33059699 Score: 624
Period size: 188 Copynumber: 2.0 Consensus size: 192
33059310 TTTGCTGATA
* *
33059320 GTGCGTCCTGCTTGGAGCATTATCTCTCTACAAATTTCAACCCTCATTTGGGACAAAAAAACCCA
1 GTGCGTCCTACTTGGAGCATTATCTCTCTACAAATTTCAACCCTCACTTGGGACAAAAAAACCCA
* * * *
33059385 TCATATATATCCTGAGATATATTTTCAAAACTCATCTCGTCAATATTAATGCATTGTGATAAATA
66 TCACATATATCCTGAGATATATTTTCAAAACCCATCTCATCAATATTAATGCACTGTGATAAATA
* *
33059450 ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGTAAAATTTTAAAAACTAATATT
131 ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGAAAAAATTTAAAAACTAATATT
*
33059512 GTGCGTCCTACTTGGAGCGTTATCTCTCTACAAA-TTCAACCCTCACTTGGGAC-AAAAAACCCA
1 GTGCGTCCTACTTGGAGCATTATCTCTCTACAAATTTCAACCCTCACTTGGGACAAAAAAACCCA
*
33059575 -C-CATATATCCTGAGATATATTTTCAGAACCCATCTCATCAATATTAATGCACTGTGATAAATA
66 TCACATATATCCTGAGATATATTTTCAAAACCCATCTCATCAATATTAATGCACTGTGATAAATA
* *
33059638 ATTTACTAAAATATTGGATCAAACTAGTATTAAGAATGTGAAAAAATTTAAAAACTAATATT
131 ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGAAAAAATTTAAAAACTAATATT
33059700 TCATCCCAAA
Statistics
Matches: 176, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
188 115 0.65
189 1 0.01
190 10 0.06
191 18 0.10
192 32 0.18
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (192 bp):
GTGCGTCCTACTTGGAGCATTATCTCTCTACAAATTTCAACCCTCACTTGGGACAAAAAAACCCA
TCACATATATCCTGAGATATATTTTCAAAACCCATCTCATCAATATTAATGCACTGTGATAAATA
ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGAAAAAATTTAAAAACTAATATT
Found at i:33060297 original size:15 final size:15
Alignment explanation
Indices: 33060269--33060323 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
33060259 AAGAAAAAAA
33060269 TATAATA-AACATAAT
1 TATAATATAA-ATAAT
33060284 TATAATATAAATAA-
1 TATAATATAAATAAT
* *
33060298 TA-CATCTAAATAAT
1 TATAATATAAATAAT
*
33060312 TATAATTTAAAT
1 TATAATATAAAT
33060324 TTAAATTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.27
14 4 0.12
15 18 0.55
16 2 0.06
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAATATAAATAAT
Found at i:33065170 original size:30 final size:30
Alignment explanation
Indices: 33065134--33065202 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
33065124 TAGTATATTG
*
33065134 TAAAATTATACTTTAACCTTTAAAAAATAA
1 TAAAATTATAATTTAACCTTTAAAAAATAA
* * ** *
33065164 TAAAATTTTAATTTAATCTTTTCAAAATTA
1 TAAAATTATAATTTAACCTTTAAAAAATAA
33065194 TAAATATTA
1 TAAA-ATTA
33065203 AAAATATATA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.43
Consensus pattern (30 bp):
TAAAATTATAATTTAACCTTTAAAAAATAA
Found at i:33070371 original size:15 final size:15
Alignment explanation
Indices: 33070351--33070380 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33070341 GAAGTGTCCA
*
33070351 AAATATGTTTAATTT
1 AAATATATTTAATTT
33070366 AAATATATTTAATTT
1 AAATATATTTAATTT
33070381 GGGTTGGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
AAATATATTTAATTT
Found at i:33073101 original size:19 final size:19
Alignment explanation
Indices: 33073077--33073116 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33073067 GTTTAAACTC
* *
33073077 TATTTTAGAGTAATTAAAA
1 TATTTTAAAATAATTAAAA
*
33073096 TATTTTAAAATAATTTAAA
1 TATTTTAAAATAATTAAAA
33073115 TA
1 TA
33073117 ATATTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TATTTTAAAATAATTAAAA
Found at i:33079638 original size:2 final size:2
Alignment explanation
Indices: 33079631--33079660 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33079621 ATTGAATGGT
33079631 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
33079661 ATTGAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:33085957 original size:78 final size:78
Alignment explanation
Indices: 33085864--33086297 Score: 717
Period size: 78 Copynumber: 5.6 Consensus size: 78
33085854 AACTAATAGT
* ** *
33085864 GGATAATATATGTATATACATGTATATGTTCTTGACTTTAGTTAAAAGTATGTATGTTATATTTA
1 GGAT-ATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
33085929 TATATATAAAGTTC
65 TATATATAAAGTTC
33085943 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
33086008 ATATATAAAGTTC
66 ATATATAAAGTTC
* **
33086021 GGATATATATGTATATACACGAATAAATTCTTGAATTTAGTTAAAAGTATGCCTGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
33086086 ATATATAAAGTTC
66 ATATATAAAGTTC
*
33086099 AGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
*
33086164 ATATATAAAATTC
66 ATATATAAAGTTC
* *
33086177 AGATGTATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
*
33086242 ATATATAAAGTTT
66 ATATATAAAGTTC
** *
33086255 GGATATACGTGTATATACATGAATAAGTT-TTGAATTTAGTTAA
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAA
33086298 TGTTGAATGT
Statistics
Matches: 335, Mismatches: 20, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
77 14 0.04
78 317 0.95
79 4 0.01
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.43
Consensus pattern (78 bp):
GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
ATATATAAAGTTC
Found at i:33087040 original size:41 final size:41
Alignment explanation
Indices: 33086995--33087192 Score: 301
Period size: 41 Copynumber: 4.8 Consensus size: 41
33086985 CATTTCGGAC
* **
33086995 TATAAGTCTAGCAGGCTAAAAGCCGGTG-TACTGAATCAGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGAT-CTGAATCAGGT
*
33087036 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGC
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
33087077 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
*
33087118 TATAAGCCTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGCT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGG-T
*
33087160 T-TAAGCCTAACAGGCTAAGTGCCGGTGAATCTG
1 TATAAGCCTAGCAGGCTAAGTGCCGGTG-ATCTG
33087193 TTTAAATTAA
Statistics
Matches: 146, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
41 138 0.95
42 8 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
Found at i:33087050 original size:82 final size:82
Alignment explanation
Indices: 33086961--33087192 Score: 251
Period size: 82 Copynumber: 2.8 Consensus size: 82
33086951 GACTTTATGT
* * *
33086961 CTAGCAGGCTTGA-TGCCGGTGAAAC-ATTTC-GGACTATAAGTCTAGCAGGCTAAAAGCCGGTG
1 CTAGCAGGCTTAAGTGCCGGTG-AACTA-ATCAGG-CTATAAGCCTAGCAGGCTAAAAGCCGGTG
33087023 -TACTGAATCAGGTTATAAGC
63 AT-CTGAATCAGGTTATAAGC
* **
33087043 CTAGCAGGC-TAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAT
1 CTAGCAGGCTTAAGTGCCGGTGAACT-AATCAGGCTATAAGCCTAGCAGGCTAAAAGCCGGTGAT
33087107 CTGAATCAGGTTATAAGC
65 CTGAATCAGGTTATAAGC
* * * * **
33087125 CTAGTAGGC-TAAGTGCCGGTGATCTGAATCAGGCTTTAAGCCTAACAGGCTAAGTGCCGGTGAA
1 CTAGCAGGCTTAAGTGCCGGTGAACT-AATCAGGCTATAAGCCTAGCAGGCTAAAAGCCGGTG-A
33087189 TCTG
64 TCTG
33087193 TTTAAATTAA
Statistics
Matches: 135, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
81 4 0.03
82 122 0.90
83 9 0.07
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (82 bp):
CTAGCAGGCTTAAGTGCCGGTGAACTAATCAGGCTATAAGCCTAGCAGGCTAAAAGCCGGTGATC
TGAATCAGGTTATAAGC
Found at i:33090105 original size:108 final size:108
Alignment explanation
Indices: 33089938--33090343 Score: 683
Period size: 108 Copynumber: 3.8 Consensus size: 108
33089928 AATTTGGCTA
*
33089938 AACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
33090003 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGG
* *
33090046 AACGAGAAATCGAAACCCAATACCTTAGGGCACATTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
33090111 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGG
* *
33090154 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCTAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
33090219 TTATTTTTGAAAAGTTTTT-AAAAGGATATT-AG-CTATTTGGTGG
66 TTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAGTC-ATTTGGTGG
* *
33090262 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAATGCAAAATATTACC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
33090327 TTATTTTGAAATATTTT
66 TTATTTTGAAA-ATTTT
33090344 CCTTTTTTTA
Statistics
Matches: 282, Mismatches: 12, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
107 13 0.05
108 244 0.87
109 20 0.07
110 5 0.02
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGG
Found at i:33090841 original size:3 final size:3
Alignment explanation
Indices: 33090790--33090830 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
33090780 AATGAAAATC
33090790 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
33090831 GCACATAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:33092555 original size:44 final size:44
Alignment explanation
Indices: 33092483--33093032 Score: 228
Period size: 44 Copynumber: 12.7 Consensus size: 44
33092473 ACCTGATGCG
* * * *
33092483 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTGTTTCA
* * * * *
33092527 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC-TAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTTGTTTCA
* ** * * *
33092571 ATTTGCTCTGCTGTAATCTCAGGGAGATAAGA-CC--TGATACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTGTTTCA
* * * *
33092612 ATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTGTTTCA
* * * * * * * *
33092656 ATCCGCCCCACTGTAATCTCAAGAAGATAGGATTAC-TAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTTGTTTCA
* ***
33092700 ATCTGCTCCGCTGT-A-CTCAGGGAGATAAGAT-CTAAAATTCGTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTGTT--TCA
* * * * * *
33092744 GTCTGTTCCACTGTAATCTCAGGGAAATAAGA-CC--TGGTGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTGTTTCA
* * * * *
33092785 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTGGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTGTTTCA
* * * * * *
33092829 ATCCGCTCCAATGTAATCTCAGGGAGATAGGATTACTAT-CTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTTGTTTCA
* * *
33092873 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATT-CTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT----TTGTTTCA
* * * * *
33092919 GTCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTAATG---CG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTGTTTCA
* * * ** *
33092960 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTCATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTGTTTCA
*
33093004 ATCCGCTCCACTGTAA-CTTCAGGGAGATA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATA
33093033 GGATAGTGTC
Statistics
Matches: 372, Mismatches: 102, Indels: 64
0.69 0.19 0.12
Matches are distributed among these distances:
40 4 0.01
41 84 0.23
42 24 0.06
43 5 0.01
44 194 0.52
45 11 0.03
46 50 0.13
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTGTTTCA
Found at i:33092649 original size:129 final size:128
Alignment explanation
Indices: 33092419--33092729 Score: 462
Period size: 129 Copynumber: 2.4 Consensus size: 128
33092409 CGCAACGTCG
* * * * * * * * *
33092419 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAACCTGATGCGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA-CTCAGGGAGATAAGACCTGATACGA
*
33092484 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTCA
65 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCCCCACTGTAATCTCA
* *
33092548 GGGAGATAGGATTACTAGCTTCAATTTGCTCTGCTGTAATCTCAGGGAGATAAGACCTGATACGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA-CTCAGGGAGATAAGACCTGATACGA
*
33092613 TCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCCCCACTGTAATCTCA
65 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCCCCACTGTAATCTCA
* *
33092677 AGAAGATAGGATTACTAGCTTCAATCTGCTCCGCTGT-ACTCAGGGAGATAAGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAACTCAGGGAGATAAGA
33092730 TCTAAAATTC
Statistics
Matches: 165, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
127 15 0.09
128 1 0.01
129 149 0.90
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (128 bp):
GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAACTCAGGGAGATAAGACCTGATACGAT
CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCCCCACTGTAATCTCA
Found at i:33092994 original size:175 final size:175
Alignment explanation
Indices: 33092581--33093076 Score: 730
Period size: 175 Copynumber: 2.9 Consensus size: 175
33092571 ATTTGCTCTG
* *
33092581 CTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
* * * * *
33092646 CTTTGTTTTAATCCGCCCCACTGTAATCTCAAGAAGATAGGATTACTAGCTTCAATCTGCTCCGC
66 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGC
**
33092711 TGT-A-CTCAGGGAGATAAGATCTAAAATTCGTCAGTCTGTTCCA
131 TGTAATCTCAGGGAGATAAGATCTAAAATTCGTCAGTCTACTCCA
* *
33092754 CTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
* *
33092819 CTTGGTTTTAATCCGCTCCAATGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGC
66 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGC
* * *
33092884 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCA
131 TGTAATCTCAGGGAGATAAGATCTAAAATTCGTCAGTCTACTCCA
* *
33092929 CTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
* * * * **
33092994 CTTCATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTTTG
66 CTTCGTTTTAATCCGCTCCACTGTAATC-TCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
*
33093057 TTGTAATCTCAGGGAGATAA
130 CTGTAATCTCAGGGAGATAA
33093077 AACCTGTATA
Statistics
Matches: 292, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
173 123 0.42
174 37 0.13
175 132 0.45
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (175 bp):
CTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGC
TGTAATCTCAGGGAGATAAGATCTAAAATTCGTCAGTCTACTCCA
Found at i:33095082 original size:13 final size:12
Alignment explanation
Indices: 33095060--33095089 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
33095050 TGACCTCTCA
33095060 TTTTTCTTTTTC
1 TTTTTCTTTTTC
33095072 TTTTTCTTTTTTC
1 TTTTTC-TTTTTC
33095085 TTTTT
1 TTTTT
33095090 TTTCTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTCTTTTTC
Found at i:33095099 original size:7 final size:6
Alignment explanation
Indices: 33095060--33095089 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
33095050 TGACCTCTCA
33095060 TTTTTC TTTTTC TTTTTC TTTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC -TTTTTC TTTTT
33095090 TTTCTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTC
Found at i:33095112 original size:22 final size:21
Alignment explanation
Indices: 33095087--33095162 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 21
33095077 CTTTTTTCTT
33095087 TTTTTTCTATTTTTGAC-TTTGA
1 TTTTTTCTATTTTT--CTTTTGA
* *
33095109 TTTTTTTTGTTTTTCTTTTGA
1 TTTTTTCTATTTTTCTTTTGA
*
33095130 TTTTTT-GATTTTT-TTTTGA
1 TTTTTTCTATTTTTCTTTTGA
33095149 TTTTTT-TGATTTTT
1 TTTTTTCT-ATTTTT
33095163 TTGATTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
19 12 0.26
20 12 0.26
21 11 0.23
22 12 0.26
ACGTcount: A:0.09, C:0.04, G:0.09, T:0.78
Consensus pattern (21 bp):
TTTTTTCTATTTTTCTTTTGA
Found at i:33095126 original size:20 final size:19
Alignment explanation
Indices: 33095103--33095172 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
33095093 CTATTTTTGA
33095103 CTTTGATTTTTTTTGTTTTT
1 CTTTGA-TTTTTTTGTTTTT
33095123 CTTTTGA-TTTTTTGATTTTT
1 C-TTTGATTTTTTTG-TTTTT
* *
33095143 TTTTGATTTTTTTGATTTT
1 CTTTGATTTTTTTGTTTTT
33095162 -TTTGATTTTTT
1 CTTTGATTTTTT
33095173 GAATTAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
18 11 0.24
19 16 0.36
20 13 0.29
21 5 0.11
ACGTcount: A:0.09, C:0.03, G:0.10, T:0.79
Consensus pattern (19 bp):
CTTTGATTTTTTTGTTTTT
Done.