Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 86 of 190
Found at i:25188093 original size:33 final size:33
Alignment explanation
Indices: 25188051--25188375 Score: 118
Period size: 33 Copynumber: 9.4 Consensus size: 33
25188041 GTGGATTCAG
*
25188051 CACTTAGCAACCACCAGTGATTCGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
* *
25188084 CACTTAGCAACCCCTTTCACATTCAATGATACGGTGGAATCAG
1 CACTTAGCAA---C---CAC---CAATGATTCGG-GGAATCAA
*
25188127 CACTTAGCAACCACCAATGAATCGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
* *
25188160 CACTTAGCAACC-CC-----TTAGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
* * * *
25188187 CACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAG
1 CACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAATCAA
* * *
25188229 CACTTAGAAACCACCAATGAATCGAGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
* *
25188262 CACTTAGCAACC-CC-----TTGGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
* * * *
25188289 CACTTA-CAAAACCCCTTCACATTTAAAATACGGTGGAATCAG
1 CACTTAGC--AACCAC--CA-A--T--GATTCGG-GGAATCAA
*
25188331 CACTTAGCAACCACCAATGAATCGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
25188364 CACTTAGCAACC
1 CACTTAGCAACC
25188376 CCTTGGGGAA
Statistics
Matches: 220, Mismatches: 30, Indels: 84
0.66 0.09 0.25
Matches are distributed among these distances:
26 1 0.00
27 35 0.16
28 6 0.03
29 2 0.01
31 2 0.01
32 4 0.02
33 66 0.30
34 16 0.07
36 3 0.01
37 3 0.01
38 2 0.01
39 7 0.03
40 1 0.00
41 14 0.06
42 40 0.18
43 18 0.08
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAA
Found at i:25188245 original size:102 final size:101
Alignment explanation
Indices: 25188074--25188406 Score: 560
Period size: 102 Copynumber: 3.3 Consensus size: 101
25188064 CCAGTGATTC
* * * *
25188074 GGGGAATCAACACTTAGCAACCCCTTTCACATTCAATGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAA-AATACGGTGGAATCAGCACTTAGCAACC
25188139 ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
65 ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
*
25188176 AGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGAAACC
1 -GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
*
25188241 ACCAATGAATCGAGGAATCAACACTTAGCAACCCCTT
65 ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
*
25188278 GGGGGAATCAGCACTTA-CAAAACCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAAC
1 -GGGGAATCAGCACTTAGC-AACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAAC
25188342 CACCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
64 CACCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
25188380 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
25188407 TATATTCAAA
Statistics
Matches: 217, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
101 25 0.12
102 159 0.73
103 33 0.15
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (101 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
Found at i:25188383 original size:26 final size:26
Alignment explanation
Indices: 25188354--25188403 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
25188344 CCAATGAATC
25188354 GGGGAATCAACACTTAGCAACCCCTT
1 GGGGAATCAACACTTAGCAACCCCTT
*
25188380 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAACACTTAGCAACCCC
25188404 CTTTATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (26 bp):
GGGGAATCAACACTTAGCAACCCCTT
Found at i:25188503 original size:51 final size:51
Alignment explanation
Indices: 25188427--25188621 Score: 236
Period size: 51 Copynumber: 3.8 Consensus size: 51
25188417 GATATCAGTT
*
25188427 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA
* *
25188478 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGATA
** ** * * *
25188529 TGCATAGTAGTTTGCACATAGTACTACACATGCGACCTATCA-T-TCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGATA
*
25188579 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
25188622 TTCACTTTTA
Statistics
Matches: 119, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
49 4 0.03
50 38 0.32
51 74 0.62
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA
Found at i:25188605 original size:101 final size:102
Alignment explanation
Indices: 25188429--25188613 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
25188419 TATCAGTTCA
*
25188429 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACATAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACATAGTAGCCTGCA
25188494 CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
** * *
25188531 CATAGTAGTTTGCACATAGTACTACACATGCGACCTATCA-T-TCTGATACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACATAGTAGCCTGC
25188594 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
25188614 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 40 0.52
102 33 0.43
103 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACATAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
Found at i:25191192 original size:8 final size:8
Alignment explanation
Indices: 25191179--25191203 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25191169 TATACTAAAC
25191179 AATAAAAT
1 AATAAAAT
25191187 AATAAAAT
1 AATAAAAT
25191195 AATAAAAT
1 AATAAAAT
25191203 A
1 A
25191204 TTATTTAAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:25195395 original size:19 final size:19
Alignment explanation
Indices: 25195371--25195408 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25195361 GCCAAATTGA
25195371 ATTGAGATATGCTTTGGGT
1 ATTGAGATATGCTTTGGGT
25195390 ATTGAGATATGCTTTGGGT
1 ATTGAGATATGCTTTGGGT
25195409 TTACTTCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.32, T:0.42
Consensus pattern (19 bp):
ATTGAGATATGCTTTGGGT
Found at i:25212048 original size:15 final size:15
Alignment explanation
Indices: 25212024--25212063 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
25212014 TTAGTCAAAA
*
25212024 AAATTAATTATTATG
1 AAATTTATTATTATG
25212039 AAATTTATTATTATG
1 AAATTTATTATTATG
*
25212054 TAATTCTATT
1 AAATT-TATT
25212064 TTACTTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (15 bp):
AAATTTATTATTATG
Found at i:25214370 original size:17 final size:17
Alignment explanation
Indices: 25214350--25214389 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
25214340 AACATTGTTG
*
25214350 TTGCATTTTTATTGTCA
1 TTGCATTTTTAATGTCA
25214367 TTGCA-TTTTAATGTCA
1 TTGCATTTTTAATGTCA
*
25214383 CTGCATT
1 TTGCATT
25214390 GGGGACAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (17 bp):
TTGCATTTTTAATGTCA
Found at i:25220657 original size:17 final size:17
Alignment explanation
Indices: 25220635--25220667 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25220625 GACCGTGTAG
25220635 CCAGGCCGTGTGACTCC
1 CCAGGCCGTGTGACTCC
25220652 CCAGGCCGTGTGACTC
1 CCAGGCCGTGTGACTC
25220668 ACATGGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.39, G:0.30, T:0.18
Consensus pattern (17 bp):
CCAGGCCGTGTGACTCC
Found at i:25221983 original size:15 final size:16
Alignment explanation
Indices: 25221952--25221986 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
25221942 CACTCCATTT
*
25221952 ATTTTCTTACTATTCC
1 ATTTACTTACTATTCC
25221968 ATTTACTTAC-ATTCC
1 ATTTACTTACTATTCC
25221983 ATTT
1 ATTT
25221987 CATTTACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTACTTACTATTCC
Found at i:25222994 original size:138 final size:137
Alignment explanation
Indices: 25222742--25222996 Score: 305
Period size: 138 Copynumber: 1.9 Consensus size: 137
25222732 TAAATGGGTT
* * *
25222742 TGCTTACACAAGCTGACGGTCGAAATGTAGCTACACGATGCCGCTCATACAAGTTGATGAGTATC
1 TGCTCACACAAGCTGACGGTCGAAATGTAGCTACACGATACCGCTCACACAAGTTGATGAGTATC
** * * *
25222807 TGTAAAAAATGTTAGAACTCAACCATCAATAGGACATTCAGTACTAGCACCCTGAACATGGTAAC
66 TACAAAAAATGTTAGAACTCAACCATCAATAGAACATTCAGGACCAGCACCCTGAACATGGTAAC
25222872 CTAGGTC
131 CTAGGTC
* * * * *
25222879 TGCTCACACAAGTTGACGGTTGGAATGTAAGCTACTCGATACTGCTCACACAAGTTGATGAGTAT
1 TGCTCACACAAGCTGACGGTCGAAATGT-AGCTACACGATACCGCTCACACAAGTTGATGAGTAT
* * * * ** *
25222944 CTACAACAAAT-TTCGGACCTCAGCCATCGGTAGAACATTTAGGACCAGCACCC
65 CTACAAAAAATGTT-AGAACTCAACCATCAATAGAACATTCAGGACCAGCACCC
25222997 AAAACATGAA
Statistics
Matches: 96, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
137 26 0.27
138 70 0.73
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (137 bp):
TGCTCACACAAGCTGACGGTCGAAATGTAGCTACACGATACCGCTCACACAAGTTGATGAGTATC
TACAAAAAATGTTAGAACTCAACCATCAATAGAACATTCAGGACCAGCACCCTGAACATGGTAAC
CTAGGTC
Found at i:25228726 original size:7 final size:7
Alignment explanation
Indices: 25228716--25228758 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
25228706 TAGTCTTTAG
25228716 TCTTTTC
1 TCTTTTC
25228723 TCTTTTC
1 TCTTTTC
25228730 TCTTTTC
1 TCTTTTC
25228737 TCTTTTC
1 TCTTTTC
25228744 TCTTTTC
1 TCTTTTC
25228751 TCTTTTC
1 TCTTTTC
25228758 T
1 T
25228759 TAGGCTTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTTC
Found at i:25228733 original size:21 final size:21
Alignment explanation
Indices: 25228709--25228755 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
25228699 TTAGATTTAG
*
25228709 TCTTTAGTCTTTTCTCTTTTC
1 TCTTTACTCTTTTCTCTTTTC
*
25228730 TCTTTTCTCTTTTCTCTTTTC
1 TCTTTACTCTTTTCTCTTTTC
25228751 TCTTT
1 TCTTT
25228756 TCTTAGGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (21 bp):
TCTTTACTCTTTTCTCTTTTC
Found at i:25231211 original size:20 final size:20
Alignment explanation
Indices: 25231175--25231213 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25231165 TCACTTCTTC
**
25231175 TTTACTTACTTTCTTACTTG
1 TTTACTTACTTGATTACTTG
25231195 TTTACTTACTTGATTACTT
1 TTTACTTACTTGATTACTT
25231214 AAATAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTACTTACTTGATTACTTG
Found at i:25231483 original size:50 final size:50
Alignment explanation
Indices: 25231417--25231618 Score: 215
Period size: 50 Copynumber: 3.9 Consensus size: 50
25231407 GATAATAACA
* **
25231417 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *** *
25231467 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* **
25231517 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAGAACCTCAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA-TA--TCGG
* * *
25231570 TAACGCCAATGCCATGTCCTAAACATGGTCTTACATGGGACCTCTCATA
1 T---GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
25231619 ACCTCAATAA
Statistics
Matches: 125, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
50 81 0.65
53 3 0.02
55 1 0.01
56 40 0.32
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:25231585 original size:56 final size:56
Alignment explanation
Indices: 25231518--25231665 Score: 233
Period size: 56 Copynumber: 2.6 Consensus size: 56
25231508 TCATCTCGGT
* * *
25231518 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAGAACCTCAATAAC
1 GCCAATGCCATGTCCTAAACATGGTCTTACATGGGACCTCTCAGAACCTCAATAAC
* *
25231574 GCCAATGCCATGTCCTAAACATGGTCTTACATGGGACCTCTCATAACCTCAATAAT
1 GCCAATGCCATGTCCTAAACATGGTCTTACATGGGACCTCTCAGAACCTCAATAAC
* *
25231630 GCCAATTCCATGTGCTAAACATGGTCTTACATGGGA
1 GCCAATGCCATGTCCTAAACATGGTCTTACATGGGA
25231666 TCTCATCCCT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 85 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (56 bp):
GCCAATGCCATGTCCTAAACATGGTCTTACATGGGACCTCTCAGAACCTCAATAAC
Found at i:25235534 original size:20 final size:20
Alignment explanation
Indices: 25235509--25235568 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
25235499 ATGCACATAC
25235509 ATGCCCCTATTTGTACTTCG
1 ATGCCCCTATTTGTACTTCG
** * *
25235529 ATGCCCCTAAATGAACATACG
1 ATGCCCCTATTTGTAC-TTCG
25235550 -TGCCCCTATTTGTACTTCG
1 ATGCCCCTATTTGTACTTCG
25235569 GTACCCCTGA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGCCCCTATTTGTACTTCG
Found at i:25235575 original size:20 final size:20
Alignment explanation
Indices: 25235510--25235576 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
25235500 TGCACATACA
*
25235510 TGCCCCTATTTGTACTTCGA
1 TGCCCCTATTTGTACTTCGG
** * *
25235530 TGCCCCTAAATGAACATAC-G
1 TGCCCCTATTTGTAC-TTCGG
25235550 TGCCCCTATTTGTACTTCGG
1 TGCCCCTATTTGTACTTCGG
*
25235570 TACCCCT
1 TGCCCCT
25235577 GAATGTACAT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.19, C:0.33, G:0.15, T:0.33
Consensus pattern (20 bp):
TGCCCCTATTTGTACTTCGG
Found at i:25235596 original size:80 final size:80
Alignment explanation
Indices: 25235495--25235646 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 80
25235485 ATAATTATTG
* *
25235495 CTGAATGCACATACATGCCCCTATTTGTACTTCGATGCCCCTAAATGAACATACGTGCCCCTATT
1 CTGAATGCACATACATCCCCCTATTTGTACTTCGATACCCCTAAATGAACATACGTGCCCCTATT
25235560 TGTACTTCGGTACCC
66 TGTACTTCGGTACCC
* * * * * * **
25235575 CTGAATGTACATACATCCCCCTGTTTGTACTTTGGTACCTCTGAATGGCCATACGTGCCCCTATT
1 CTGAATGCACATACATCCCCCTATTTGTACTTCGATACCCCTAAATGAACATACGTGCCCCTATT
25235640 TGTACTT
66 TGTACTT
25235647 TGGCAACTCT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.33
Consensus pattern (80 bp):
CTGAATGCACATACATCCCCCTATTTGTACTTCGATACCCCTAAATGAACATACGTGCCCCTATT
TGTACTTCGGTACCC
Found at i:25235649 original size:40 final size:40
Alignment explanation
Indices: 25235495--25235646 Score: 187
Period size: 40 Copynumber: 3.8 Consensus size: 40
25235485 ATAATTATTG
* * *
25235495 CTGAATGCACATACATGCCCCTATTTGTACTTCGATGCCC
1 CTGAATGGACATACATGCCCCTATTTGTACTTCGGTACCC
* * *
25235535 CTAAATGAACATACGTGCCCCTATTTGTACTTCGGTACCC
1 CTGAATGGACATACATGCCCCTATTTGTACTTCGGTACCC
* * * * *
25235575 CTGAATGTACATACATCCCCCTGTTTGTACTTTGGTACCT
1 CTGAATGGACATACATGCCCCTATTTGTACTTCGGTACCC
* *
25235615 CTGAATGGCCATACGTGCCCCTATTTGTACTT
1 CTGAATGGACATACATGCCCCTATTTGTACTT
25235647 TGGCAACTCT
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.33
Consensus pattern (40 bp):
CTGAATGGACATACATGCCCCTATTTGTACTTCGGTACCC
Found at i:25242179 original size:40 final size:40
Alignment explanation
Indices: 25242135--25242245 Score: 168
Period size: 40 Copynumber: 2.8 Consensus size: 40
25242125 ATAATTAGTG
* *
25242135 CTGAATGCACACACATGCCCCTGTTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
25242175 CTGAATGCTCATACGTGCCCCTATTTGTAGTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
*
25242215 CTGAATACACATACGTGCCCCTGTTTGTACT
1 CTGAATGCACATACGTGCCCCTGTTTGTACT
25242246 CTGGTAACTC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.20, C:0.32, G:0.18, T:0.31
Consensus pattern (40 bp):
CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:25265490 original size:23 final size:21
Alignment explanation
Indices: 25265449--25265504 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
25265439 CCTTTTTTTT
25265449 ATTTTTATTTTAAAATTTATA
1 ATTTTTATTTTAAAATTTATA
*
25265470 ATTTTTATATTTCAAATTTTATA
1 ATTTTTAT-TTT-AAAATTTATA
*
25265493 A-TTTAATTTTAA
1 ATTTTTATTTTAA
25265505 TTATTAGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 2 0.06
21 11 0.35
22 8 0.26
23 10 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTATTTTAAAATTTATA
Found at i:25277979 original size:16 final size:16
Alignment explanation
Indices: 25277958--25277990 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25277948 ATTGATTTGA
25277958 TTAATTTAATTTTACT
1 TTAATTTAATTTTACT
25277974 TTAATTTAATTTTACT
1 TTAATTTAATTTTACT
25277990 T
1 T
25277991 GATCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TTAATTTAATTTTACT
Found at i:25279168 original size:16 final size:16
Alignment explanation
Indices: 25279147--25279177 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25279137 CTATGCATGC
*
25279147 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
25279163 AAAATACAAAAGACA
1 AAAATACAAAAGACA
25279178 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:25284782 original size:25 final size:25
Alignment explanation
Indices: 25284738--25284809 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
25284728 AGCTGTAACT
*
25284738 GGTAAGCTC-TTCTGACCTGAATGA-C
1 GGTAAGCTCATTC-GAGCTGAAT-ATC
*
25284763 GGTAAGCTCATTCGAGCTGAGTATC
1 GGTAAGCTCATTCGAGCTGAATATC
* *
25284788 AGTAAGCTCATACGAGCTGAAT
1 GGTAAGCTCATTCGAGCTGAAT
25284810 CGGTAACCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 36 0.90
26 3 0.08
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (25 bp):
GGTAAGCTCATTCGAGCTGAATATC
Found at i:25290528 original size:41 final size:41
Alignment explanation
Indices: 25290464--25290613 Score: 174
Period size: 41 Copynumber: 3.7 Consensus size: 41
25290454 TTGGGCTCTG
* * * *
25290464 TGCCTAACAGGCTTTATGCCGGTGAATTATATCAGGCTTTA
1 TGCCTAGCAGGCTTCATGCCGGTGTATCATATCAGGCTTTA
* * *
25290505 TGCCTAGCAGGCTTCATGTCGGTGTACCATAACAGGCTTTA
1 TGCCTAGCAGGCTTCATGCCGGTGTATCATATCAGGCTTTA
* * * *
25290546 TGCCTAGCAGGCTTCGTGCCAGTGTATCATATCTGGCTTTG
1 TGCCTAGCAGGCTTCATGCCGGTGTATCATATCAGGCTTTA
* * *
25290587 TGCCTCGAAGGCTTCATGCTGGTGTAT
1 TGCCTAGCAGGCTTCATGCCGGTGTAT
25290614 TTTAATAAGC
Statistics
Matches: 90, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 90 1.00
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (41 bp):
TGCCTAGCAGGCTTCATGCCGGTGTATCATATCAGGCTTTA
Found at i:25290626 original size:82 final size:81
Alignment explanation
Indices: 25290464--25290647 Score: 181
Period size: 82 Copynumber: 2.2 Consensus size: 81
25290454 TTGGGCTCTG
* * * *
25290464 TGCCTAACAGGCTTTATGCCGGTGAATTATATCAGGCTTTATGCCTAGCAGGCTTCATGTCGGTG
1 TGCCT-ACAGGCTTCATGCCAGTGAATCATATCAGGCTTTATGCCTAGAAGGCTTCATGTCGGTG
*
25290529 TACCATAACAGGCTTTA
65 TACCATAACAAGCTTTA
* * * * *
25290546 TGCCTAGCAGGCTTCGTGCCAGTGTATCATATCTGGCTTTGTGCCTCGAAGGCTTCATG-CTGGT
1 TGCCTA-CAGGCTTCATGCCAGTGAATCATATCAGGCTTTATGCCTAGAAGGCTTCATGTC-GGT
*** *
25290610 GTATTTTAATAAGCTTTA
64 GTACCATAACAAGCTTTA
* *
25290628 TACCTTACAGGCTTTATGCC
1 TGCC-TACAGGCTTCATGCC
25290648 GATGCGGCAT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
81 2 0.02
82 78 0.95
83 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (81 bp):
TGCCTACAGGCTTCATGCCAGTGAATCATATCAGGCTTTATGCCTAGAAGGCTTCATGTCGGTGT
ACCATAACAAGCTTTA
Found at i:25300123 original size:20 final size:20
Alignment explanation
Indices: 25300085--25300124 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25300075 ATGGTATTTT
**
25300085 TTGTGGTGGTTAATTTGATG
1 TTGTGGTGGTTAAGATGATG
*
25300105 TTGTGTTGGTTAAGATGATG
1 TTGTGGTGGTTAAGATGATG
25300125 GTAAGGAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.47
Consensus pattern (20 bp):
TTGTGGTGGTTAAGATGATG
Found at i:25310615 original size:15 final size:15
Alignment explanation
Indices: 25310582--25310616 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25310572 TAACCTTTCT
* *
25310582 TTTATTATTATTACT
1 TTTATTATTATAACC
25310597 TTTATTATTATAACC
1 TTTATTATTATAACC
25310612 TTTAT
1 TTTAT
25310617 ACATATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTATTATTATAACC
Found at i:25327435 original size:51 final size:51
Alignment explanation
Indices: 25327325--25327435 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 51
25327315 GATACCGGTT
* *
25327325 CACATAGTAGCCTGAACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGAACATAGTACTACACACGTGACCATAACTATCCGATA
** * * *
25327376 CATGTAGTAGCCTGCACATAGTACTACACACGTGATCA-AAGCTATCCGGTA
1 CACATAGTAGCCTGAACATAGTACTACACACGTGACCATAA-CTATCCGATA
*
25327427 CGCATAGTA
1 CACATAGTA
25327436 TACTACACAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
50 1 0.02
51 48 0.98
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGAACATAGTACTACACACGTGACCATAACTATCCGATA
Found at i:25334142 original size:12 final size:12
Alignment explanation
Indices: 25334117--25334155 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
25334107 ACTCGCTTCT
* *
25334117 TTACTTACTCAC
1 TTACTTGCTTAC
*
25334129 TTACTTGTTTAC
1 TTACTTGCTTAC
25334141 TTACTTGCTTAC
1 TTACTTGCTTAC
25334153 TTA
1 TTA
25334156 AATAAATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:25334555 original size:50 final size:50
Alignment explanation
Indices: 25334426--25334593 Score: 178
Period size: 50 Copynumber: 3.4 Consensus size: 50
25334416 ATCTGGATTA
* * * * *
25334426 GGTCTTACATGAGAGT-TCTTATATCGATGCCCATGCCATGTCCCAGACAT
1 GGTCTTACATGAGA-TCTCTCATCTCGGTGCCAACGCCATGTCCCAGACAT
* * *
25334476 GGTCTTACGA-GGGACCTCTTATCTCGGTGCCAACGCCATGTCCCAGACAT
1 GGTCTTAC-ATGAGATCTCTCATCTCGGTGCCAACGCCATGTCCCAGACAT
* * ***
25334526 GGTCTTACATGAGATCTCTCATCTTGGTGCCAACACCATGTCCCTTTCAT
1 GGTCTTACATGAGATCTCTCATCTCGGTGCCAACGCCATGTCCCAGACAT
*
25334576 GGTCTTAGATGAGATCTC
1 GGTCTTACATGAGATCTC
25334594 ATTCCCTTAA
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 98 0.98
51 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (50 bp):
GGTCTTACATGAGATCTCTCATCTCGGTGCCAACGCCATGTCCCAGACAT
Found at i:25337895 original size:29 final size:29
Alignment explanation
Indices: 25337833--25337889 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
25337823 ATGCCTATGT
* *
25337833 GGTAATTAATTTTTTTCTTATCTTATTTC
1 GGTAATTAATTATTTTCTTATATTATTTC
25337862 GGTAATTAATTAATTTT-TTATATTATTT
1 GGTAATTAATT-ATTTTCTTATATTATTT
25337890 GTGTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.61
Consensus pattern (29 bp):
GGTAATTAATTATTTTCTTATATTATTTC
Found at i:25343615 original size:15 final size:15
Alignment explanation
Indices: 25343570--25343618 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
25343560 CAACACTTCA
25343570 TTTT-TTTCGAATTT
1 TTTTATTTCGAATTT
*
25343584 TTTTATTTCGTACTTT
1 TTTTATTTCG-AATTT
25343600 TTTTATTCTC-AATTT
1 TTTTATT-TCGAATTT
25343615 TTTT
1 TTTT
25343619 TCTTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 4 0.13
15 13 0.43
16 11 0.37
17 2 0.07
ACGTcount: A:0.14, C:0.10, G:0.04, T:0.71
Consensus pattern (15 bp):
TTTTATTTCGAATTT
Found at i:25349163 original size:20 final size:20
Alignment explanation
Indices: 25349138--25349245 Score: 121
Period size: 20 Copynumber: 5.4 Consensus size: 20
25349128 GCTTGTACGA
*
25349138 GATTGCACTTTGGTGCCCCT
1 GATTGCACTTTGGTGCCTCT
*
25349158 GATTGCACATTT-GTGTCTCT
1 GATTGCAC-TTTGGTGCCTCT
*
25349178 GTTTGCACTTTGGTGCCTCT
1 GATTGCACTTTGGTGCCTCT
*
25349198 AATTGCACATTT-GTGCCTCT
1 GATTGCAC-TTTGGTGCCTCT
* * *
25349218 GTTTCCACTTCGGTGCCTCT
1 GATTGCACTTTGGTGCCTCT
25349238 GATTGCAC
1 GATTGCAC
25349246 AATTGTGCCT
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
19 5 0.07
20 61 0.85
21 6 0.08
ACGTcount: A:0.12, C:0.27, G:0.21, T:0.40
Consensus pattern (20 bp):
GATTGCACTTTGGTGCCTCT
Found at i:25349203 original size:40 final size:40
Alignment explanation
Indices: 25349140--25349267 Score: 184
Period size: 40 Copynumber: 3.2 Consensus size: 40
25349130 TTGTACGAGA
* *
25349140 TTGCACTTTGGTGCCCCTGATTGCACATTTGTGTCTCTGT
1 TTGCACTTTGGTGCCTCTGATTGCACATTTGTGCCTCTGT
*
25349180 TTGCACTTTGGTGCCTCTAATTGCACATTTGTGCCTCTGT
1 TTGCACTTTGGTGCCTCTGATTGCACATTTGTGCCTCTGT
* * * *
25349220 TTCCACTTCGGTGCCTCTGATTGCACAATTGTGCCTTTGT
1 TTGCACTTTGGTGCCTCTGATTGCACATTTGTGCCTCTGT
*
25349260 CTGCACTT
1 TTGCACTT
25349268 CGATGCCTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.12, C:0.27, G:0.20, T:0.41
Consensus pattern (40 bp):
TTGCACTTTGGTGCCTCTGATTGCACATTTGTGCCTCTGT
Found at i:25357507 original size:5 final size:5
Alignment explanation
Indices: 25357499--25357546 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
25357489 CAATTTTTGT
* *
25357499 TTTTA TTTTA TTTTTA CTTTA TTTATTA CTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA -TTTTA TTTTA -TT-TTA TTTTA TTTTA TTTTA TTTTA
25357547 CTTATTTGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 26 0.72
6 7 0.19
7 3 0.08
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:25357551 original size:27 final size:28
Alignment explanation
Indices: 25357500--25357552 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
25357490 AATTTTTGTT
*
25357500 TTTATTTTATTTTTACTTTATTTATTAC
1 TTTATTTTATTTTTACTTTACTTATTAC
*
25357528 TTTATTTTA-TTTTATTTTACTTATT
1 TTTATTTTATTTTTACTTTACTTATT
25357553 TGGATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTATTTTATTTTTACTTTACTTATTAC
Found at i:25363648 original size:33 final size:33
Alignment explanation
Indices: 25363606--25363687 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
25363596 CTTGGTGGAT
* *
25363606 TCAGCACTTAGCAACCACCAGTGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGAAA
*
25363639 TCAGCACTTAGCAACCACCAATGATTCGGGAAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGAAA
25363672 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
25363688 CCTTATACAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGAGTCGGGAAA
Found at i:25363810 original size:76 final size:74
Alignment explanation
Indices: 25363635--25363841 Score: 274
Period size: 76 Copynumber: 2.8 Consensus size: 74
25363625 AGTGAGTCGG
* * *
25363635 GGAATCAGCACTTAGCAACCACCAATGATTCGGGAAATCAGCACTTAGCAACCCCTTATACAATC
1 GGAATCAGCACTTAGCAACCACCGATGATTTGGGGAATCAGCACTTAGCAACCCCTTATACAATC
**
25363700 CGTTACAGT
66 CGAGACAGT
* * *
25363709 GGAATCAGCACTTACCAACCACCGATGATTTGGGGAATCAACACTTACCAACCCCTT-T-CATAT
1 GGAATCAGCACTTAGCAACCACCGATGATTTGGGGAATCAGCACTTAGCAACCCCTTATACA-AT
*
25363772 TCGAAGACATTGT
65 CCG-AGACA--GT
*
25363785 GGAATCAGTACTTAGCAACCACCGATGATTTGGGGAATCAGCACTTAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCACCGATGATTTGGGGAATCAGCACTTAGCAACCCCTT
25363842 GGGGGAATCA
Statistics
Matches: 116, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
72 2 0.02
73 5 0.04
74 54 0.47
76 55 0.47
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (74 bp):
GGAATCAGCACTTAGCAACCACCGATGATTTGGGGAATCAGCACTTAGCAACCCCTTATACAATC
CGAGACAGT
Found at i:25370074 original size:80 final size:80
Alignment explanation
Indices: 25369941--25370100 Score: 239
Period size: 80 Copynumber: 2.0 Consensus size: 80
25369931 AGAAAATTAT
** * *
25369941 TCTGATTGCACATACGTGCCCCTGTTCATACTTCGGTACCCCTGATTACACATACTTGCTCATGT
1 TCTGATTGCACATACGTGCCCCTGTTCATACTTCGGTACCAATGATTACACATACATGCCCATGT
25370006 TTGTACTTTGATACC
66 TTGTACTTTGATACC
* * * * *
25370021 TCTGATTGCATATACGTGCCCCTGTTCGTACTTTGGTACCAATGATTGCACATACATGCCCCTGT
1 TCTGATTGCACATACGTGCCCCTGTTCATACTTCGGTACCAATGATTACACATACATGCCCATGT
25370086 TTGTACTTTGATACC
66 TTGTACTTTGATACC
25370101 CATTAATGCA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (80 bp):
TCTGATTGCACATACGTGCCCCTGTTCATACTTCGGTACCAATGATTACACATACATGCCCATGT
TTGTACTTTGATACC
Found at i:25370111 original size:40 final size:40
Alignment explanation
Indices: 25369943--25370123 Score: 184
Period size: 40 Copynumber: 4.5 Consensus size: 40
25369933 AAAATTATTC
* * * *
25369943 TGATTGCACATACGTGCCCCTGTTCATACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTCGTACTTTGATACCCA
* * * * *
25369983 TGATTACACATACTTGCTCATGTTTGTACTTTGATACCTC-
1 TGATTGCACATACGTGCCCCTGTTCGTACTTTGATACC-CA
* * *
25370023 TGATTGCATATACGTGCCCCTGTTCGTACTTTGGTACCAA
1 TGATTGCACATACGTGCCCCTGTTCGTACTTTGATACCCA
* *
25370063 TGATTGCACATACATGCCCCTGTTTGTACTTTGATACCCA
1 TGATTGCACATACGTGCCCCTGTTCGTACTTTGATACCCA
* * * *
25370103 TTAATGCACTTCCGTGCCCCT
1 TGATTGCACATACGTGCCCCT
25370124 CTTTATGCTC
Statistics
Matches: 113, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
40 112 0.99
41 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTCGTACTTTGATACCCA
Found at i:25378540 original size:20 final size:20
Alignment explanation
Indices: 25378515--25378557 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
25378505 GCCATGTGTC
*
25378515 CCTAGAGCTATGTCACACGG
1 CCTAGAGCTATGTCACAAGG
25378535 CCTAGAGCTATGTCACAAGG
1 CCTAGAGCTATGTCACAAGG
25378555 CCT
1 CCT
25378558 TGTGACCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (20 bp):
CCTAGAGCTATGTCACAAGG
Found at i:25386213 original size:51 final size:50
Alignment explanation
Indices: 25386048--25386238 Score: 204
Period size: 51 Copynumber: 3.8 Consensus size: 50
25386038 AGTGAAAGTG
* *
25386048 ATGGTCACGTGTGTAGTACTATTTGCAGGCTACTATGTGTACCGGAATGAT
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAATGGT
* * * * *
25386099 A-GGTCGCTTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGGT
* * * * * * *
25386148 TTCGATCATGTGTGTAGTAATATGTGCAGCCTACTACGTGTATCGAATGGT
1 AT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGGT
* *
25386199 AATGGTCACATGTGTAGTACTATGCGCAGGCTACTATGTG
1 -ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTG
25386239 AACTGAACAT
Statistics
Matches: 110, Mismatches: 27, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 4 0.04
50 37 0.34
51 68 0.62
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (50 bp):
ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGGT
Found at i:25393320 original size:136 final size:135
Alignment explanation
Indices: 25393077--25393321 Score: 339
Period size: 135 Copynumber: 1.8 Consensus size: 135
25393067 CGAGCTATTG
* * *
25393077 GTCGAAACATAGCTACATGGTGCTGCTCCACAAGTTGTCAAGTCTCCACAAAAATGCCAGAACTC
1 GTCGAAACATAGCTACATGGTGCTGCTCAACAAGCTGTCAAGTATCCACAAAAATGCCAGAACTC
* * * *
25393142 AGCCAACGATAGGACATTCAAGTCCACCACCCGAAACATGGTAACTTGGGTCTGCTTACACAAGC
66 AGCCAACCATAGGACAGTCAAGTCCACAACCCAAAACATGGTAACTTGGGTCTGCTTACACAAGC
25393207 TGTCA
131 TGTCA
** * * **
25393212 GTCGAAATGTAGCTACATGGTGCTGCTCAACAAGCTGTCGAGTATCCGCAACAAATGCTGGAACT
1 GTCGAAACATAGCTACATGGTGCTGCTCAACAAGCTGTCAAGTATCCACAA-AAATGCCAGAACT
*
25393277 CAGCC-ACCATTAGGACAGTCAAGTCCAGAACCCAAAACATGGTAA
65 CAGCCAACCA-TAGGACAGTCAAGTCCACAACCCAAAACATGGTAA
25393322 ACCCTAATGA
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
135 47 0.50
136 47 0.50
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (135 bp):
GTCGAAACATAGCTACATGGTGCTGCTCAACAAGCTGTCAAGTATCCACAAAAATGCCAGAACTC
AGCCAACCATAGGACAGTCAAGTCCACAACCCAAAACATGGTAACTTGGGTCTGCTTACACAAGC
TGTCA
Found at i:25399909 original size:16 final size:16
Alignment explanation
Indices: 25399890--25399924 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
25399880 TAGTAATTTT
25399890 AATGTTAAA-TGACTAA
1 AATGTTAAAGTGA-TAA
25399906 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
25399922 AAT
1 AAT
25399925 TACGAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.31
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:25405896 original size:18 final size:19
Alignment explanation
Indices: 25405873--25405934 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 19
25405863 AGATTCAGTT
25405873 CAAAAAAAAATA-AAAAAA
1 CAAAAAAAAATAGAAAAAA
25405891 C-AAAAAAAATAGAAAAAA
1 CAAAAAAAAATAGAAAAAA
*
25405909 -AGAAAAAAATAGAAAAAA
1 CAAAAAAAAATAGAAAAAA
*
25405927 GAAAAAAA
1 CAAAAAAA
25405935 TAGAAAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.26
18 23 0.59
19 6 0.15
ACGTcount: A:0.85, C:0.03, G:0.06, T:0.05
Consensus pattern (19 bp):
CAAAAAAAAATAGAAAAAA
Found at i:25405897 original size:17 final size:17
Alignment explanation
Indices: 25405875--25405979 Score: 79
Period size: 18 Copynumber: 5.9 Consensus size: 17
25405865 ATTCAGTTCA
25405875 AAAAAAAATAAAAAAAC
1 AAAAAAAATAAAAAAAC
25405892 AAAAAAAATAGAAAAAA-
1 AAAAAAAATA-AAAAAAC
*
25405909 AGAAAAAAATAGAAAAAAG
1 A-AAAAAAATA-AAAAAAC
*
25405928 AAAAAAATAGAAAAGAGAAC
1 AAAAAAA-ATAAAA-A-AAC
* * *
25405948 AAAAAGAA-CAAGAAAC
1 AAAAAAAATAAAAAAAC
*
25405964 AAAAAGAAACAAAAAA
1 AAAAA-AAATAAAAAA
25405980 CCTCTACCGG
Statistics
Matches: 72, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
16 8 0.11
17 14 0.19
18 37 0.51
19 5 0.07
20 8 0.11
ACGTcount: A:0.82, C:0.05, G:0.10, T:0.04
Consensus pattern (17 bp):
AAAAAAAATAAAAAAAC
Found at i:25405916 original size:35 final size:34
Alignment explanation
Indices: 25405876--25405968 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 34
25405866 TTCAGTTCAA
25405876 AAAAAAATAAAAAAACAAAAAAAATAGAAAAAAAG
1 AAAAAAATAAAAAAACAAAAAAAATAG-AAAAAAG
* *
25405911 AAAAAAATAGAAAAAA-GAAAAAAATAGAAAAGAG
1 AAAAAAATA-AAAAAACAAAAAAAATAGAAAAAAG
*
25405945 AACAAAAAGAACAAGAAACAAAAA
1 AA-AAAAATAA-AA-AAACAAAAA
25405969 GAAACAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
34 9 0.18
35 27 0.55
36 9 0.18
37 4 0.08
ACGTcount: A:0.82, C:0.04, G:0.10, T:0.04
Consensus pattern (34 bp):
AAAAAAATAAAAAAACAAAAAAAATAGAAAAAAG
Found at i:25405952 original size:1 final size:1
Alignment explanation
Indices: 25405874--25405934 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
25405864 GATTCAGTTC
* * * * * * * *
25405874 AAAAAAAAATAAAAAAACAAAAAAAATAGAAAAAAAGAAAAAAATAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
25405935 TAGAAAAGAG
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.87, C:0.02, G:0.07, T:0.05
Consensus pattern (1 bp):
A
Found at i:25405953 original size:26 final size:26
Alignment explanation
Indices: 25405922--25405978 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
25405912 AAAAAATAGA
*
25405922 AAAAAGAA-AA-AAATAGAAAAGAGAAC
1 AAAAAGAACAAGAAACA-AAAAGA-AAC
25405948 AAAAAGAACAAGAAACAAAAAGAAAC
1 AAAAAGAACAAGAAACAAAAAGAAAC
25405974 AAAAA
1 AAAAA
25405979 ACCTCTACCG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 16 0.57
27 8 0.29
28 4 0.14
ACGTcount: A:0.79, C:0.07, G:0.12, T:0.02
Consensus pattern (26 bp):
AAAAAGAACAAGAAACAAAAAGAAAC
Found at i:25405955 original size:16 final size:17
Alignment explanation
Indices: 25405876--25405972 Score: 103
Period size: 17 Copynumber: 5.8 Consensus size: 17
25405866 TTCAGTTCAA
*
25405876 AAAAAAATA-AAAAAACA
1 AAAAAAATAGAAAAAA-G
25405893 AAAAAAATAGAAAAAAAG
1 AAAAAAATAG-AAAAAAG
25405911 AAAAAAATAGAAAAAAG
1 AAAAAAATAGAAAAAAG
*
25405928 AAAAAAATAGAAAAGAG
1 AAAAAAATAGAAAAAAG
* *
25405945 AACAAAA-AG-AACAAG
1 AAAAAAATAGAAAAAAG
25405960 AAACAAAA-AGAAA
1 AAA-AAAATAGAAA
25405973 CAAAAAACCT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.09
16 8 0.11
17 40 0.57
18 10 0.14
19 6 0.09
ACGTcount: A:0.81, C:0.04, G:0.10, T:0.04
Consensus pattern (17 bp):
AAAAAAATAGAAAAAAG
Found at i:25405980 original size:17 final size:17
Alignment explanation
Indices: 25405873--25405980 Score: 59
Period size: 17 Copynumber: 6.5 Consensus size: 17
25405863 AGATTCAGTT
* *
25405873 CAAAAAAAAATAAAAAAA
1 CAAAAAACAA-AAAGAAA
*
25405891 C-AAAAA-AAATAGAAA
1 CAAAAAACAAAAAGAAA
*
25405906 -AAAAGAAAAAAATAGAAA
1 CAAAA-AACAAAA-AGAAA
25405924 -AAAGAAA-AAAATAGAAA
1 CAAA-AAACAAAA-AGAAA
* *
25405941 -AGAGAACAAAAAG-AA
1 CAAAAAACAAAAAGAAA
*
25405956 CAAGAAACAAAAAGAAA
1 CAAAAAACAAAAAGAAA
25405973 CAAAAAAC
1 CAAAAAAC
25405981 CTCTACCGGG
Statistics
Matches: 73, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
15 10 0.14
16 18 0.25
17 33 0.45
18 11 0.15
19 1 0.01
ACGTcount: A:0.81, C:0.06, G:0.09, T:0.04
Consensus pattern (17 bp):
CAAAAAACAAAAAGAAA
Found at i:25406466 original size:10 final size:10
Alignment explanation
Indices: 25406451--25406484 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
25406441 TTGAGTCGCA
25406451 AAAAAAAAAC
1 AAAAAAAAAC
25406461 AAAAAAAAAC
1 AAAAAAAAAC
25406471 AAAACAAAAA-
1 AAAA-AAAAAC
25406481 AAAA
1 AAAA
25406485 GAAATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:25406495 original size:15 final size:15
Alignment explanation
Indices: 25406450--25406484 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
25406440 TTTGAGTCGC
25406450 AAAAAA-AAAACAAA
1 AAAAAACAAAACAAA
25406464 AAAAAACAAAACAAA
1 AAAAAACAAAACAAA
25406479 AAAAAA
1 AAAAAA
25406485 GAAATGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAACAAA
Found at i:25408054 original size:44 final size:44
Alignment explanation
Indices: 25408006--25408319 Score: 155
Period size: 44 Copynumber: 7.2 Consensus size: 44
25407996 TATGAATTGC
*
25408006 AGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAGGCATT
1 AGTGGAATAGATTGAAGATGTCAAATCTTATCTCCCTAGGCATT
** * * * * *
25408050 AGTGGAGCAGATCGAAGATGGCAAATTTTACCTCCCT-GTG-GTT
1 AGTGGAATAGATTGAAGATGTCAAATCTTATCTCCCTAG-GCATT
** * * * * * **
25408093 ACAGTGGAGCACATTGAAGCTAAT-AATTC-TATCTCCCTGGGCAGC
1 --AGTGGAATAGATTGAAGAT-GTCAAATCTTATCTCCCTAGGCATT
*
25408138 AGTGGAATAGATTGAAGAT-TACAGATCTTATCTCCCTAGGCATT
1 AGTGGAATAGATTGAAGATGT-CAAATCTTATCTCCCTAGGCATT
* * * * * * *
25408182 AGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCT-GTG-GTT
1 AGTGGAATAGATTGAAGATGTCAAATCTTATCTCCCTAG-GCATT
* * ** * * *
25408225 ACAGTGGAGTACATTGAAGCCGT-AATTC-TATCT--CTATGAATT
1 --AGTGGAATAGATTGAAGATGTCAAATCTTATCTCCCTAGGCATT
* *
25408267 GCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATT
1 --AGTGGAATAGATTGAAGATGTCAAATCTTATCTCCCTAGGCATT
25408313 AGTGGAA
1 AGTGGAA
25408320 CAAATCGAAG
Statistics
Matches: 196, Mismatches: 55, Indels: 38
0.68 0.19 0.13
Matches are distributed among these distances:
41 4 0.02
42 19 0.10
43 31 0.16
44 99 0.51
45 36 0.18
46 7 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (44 bp):
AGTGGAATAGATTGAAGATGTCAAATCTTATCTCCCTAGGCATT
Found at i:25408155 original size:88 final size:88
Alignment explanation
Indices: 25408034--25408525 Score: 313
Period size: 88 Copynumber: 5.6 Consensus size: 88
25408024 TTTCAAATCT
* ** ** * *
25408034 TATCTCCCTAGGCATTAGTGGAGCAGATCGAAGATGGCAAATTTTACCTCCCTGTGGTTACAGTG
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTG
*
25408099 GAGCACATTGAAGCTAATAATTC
66 GAGTACATTGAAGCTAATAATTC
** * * *
25408122 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAG-GCATT--AG
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCT-GTG-GTTACAG
* * * *** *
25408184 TGGAGTAGATCGAAGATGGCAGATTT
64 TGGAGTACATTGAAGCTAATA-ATTC
* * * * ** * * * * * *
25408210 TACCTCCCTGTGGTTA-CAGTGGAGTACATTGAAG-CCGTA-ATTCTA--TCTCTATGAATTGCA
1 TATCTCCCTG-GG-CAGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTGTG-GTTACA
* * * *
25408270 GTGGAATAGATTGAAGAT-TTCAGA-TC
63 GTGGAGTACATTGAAGCTAAT-A-ATTC
* ** * * * *
25408296 TTATCTCCCTAGGCATTAGTGGAACAAATCGAAGACGGCAGATTTTACCTCCCTGTGGTTACAGT
1 -TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGT
* *
25408361 GGAGTACATTGAAGCCAATAATTT
65 GGAGTACATTGAAGCTAATAATTC
** * *
25408385 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTGTGGTTACAGTG
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTG
* *
25408450 GAGTACATTGAAGCCAGTAATTC
66 GAGTACATTGAAGCTAATAATTC
* ** * *
25408473 T-CCTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
1 TATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCT
25408526 AACCAGTAAT
Statistics
Matches: 312, Mismatches: 74, Indels: 36
0.74 0.18 0.09
Matches are distributed among these distances:
85 9 0.03
86 16 0.05
87 52 0.17
88 186 0.60
89 41 0.13
90 8 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (88 bp):
TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTG
GAGTACATTGAAGCTAATAATTC
Found at i:25408186 original size:132 final size:131
Alignment explanation
Indices: 25407853--25408437 Score: 864
Period size: 131 Copynumber: 4.5 Consensus size: 131
25407843 TCGAAGATAC
* * ** *
25407853 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAACCAG
1 TAATTCTATCTCCCTGGATAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
* *
25407918 TAATGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCA
*
25407983 G
131 A
** * * *
25407984 TAATTCTATCTCTATGAATTGCAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGATAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
* *
25408049 TAGTGGAGCAGATCGAAGATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGCACATTGAAGCT
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC-
25408114 AA
130 AA
** *
25408116 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGATAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
* *
25408181 TAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCA
*
25408246 G
131 A
** * *
25408247 TAATTCTATCTCTATGAATTGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGATAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
* * *
25408312 TAGTGGAACAAATCGAAGACGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG-C
25408377 AA
130 AA
* ** *
25408379 TAATTTTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT
1 TAATTCTATCTCCCTGGATAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
25408438 GTGGTTACAG
Statistics
Matches: 404, Mismatches: 48, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
131 234 0.58
132 170 0.42
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (131 bp):
TAATTCTATCTCCCTGGATAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCA
A
Found at i:25408257 original size:263 final size:263
Alignment explanation
Indices: 25407853--25408437 Score: 1017
Period size: 263 Copynumber: 2.2 Consensus size: 263
25407843 TCGAAGATAC
*** *
25407853 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAACCAG
1 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAACCAG
25407918 TAATGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAATGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
25407983 GTAATTCTATCTCTATGAATTGCAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAGGCA
131 GTAATTCTATCTCTATGAATTGCAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAGGCA
* * *
25408048 TTAGTGGAGCAGATCGAAGATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGCACATTGAAGC
196 TTAGTGGAACAAATCGAAGACGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGCACATTGAAGC
*
25408113 TAA
261 CAA
** *
25408116 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAACCAG
* *
25408181 TAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAATGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
*
25408246 GTAATTCTATCTCTATGAATTGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
131 GTAATTCTATCTCTATGAATTGCAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAGGCA
* *
25408311 TTAGTGGAACAAATCGAAGACGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
196 TTAGTGGAACAAATCGAAGACGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGCACATTGAAGC
25408376 CAA
261 CAA
*
25408379 TAATTTTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT
1 TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT
25408438 GTGGTTACAG
Statistics
Matches: 305, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
263 305 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (263 bp):
TAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAACCAG
TAATGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
GTAATTCTATCTCTATGAATTGCAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAGGCA
TTAGTGGAACAAATCGAAGACGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGCACATTGAAGC
CAA
Found at i:25408385 original size:44 final size:44
Alignment explanation
Indices: 25408337--25408471 Score: 148
Period size: 44 Copynumber: 3.1 Consensus size: 44
25408327 AAGACGGCAG
*
25408337 ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATA
1 ATTTTATCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATA
* * * *** *
25408381 ATTTTATCTCCCTG-GG-CAGCAGTGGAATAGATTGAAGATTACA
1 ATTTTATCTCCCTGTGGTTA-CAGTGGAGTACATTGAAGCCAATA
* *
25408424 GATCTTATCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 -ATTTTATCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATA
25408469 ATT
1 ATT
25408472 CTCCTTCCCT
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
42 1 0.01
43 20 0.29
44 28 0.41
45 19 0.28
46 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (44 bp):
ATTTTATCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATA
Found at i:25408416 original size:43 final size:43
Alignment explanation
Indices: 25408357--25408505 Score: 131
Period size: 43 Copynumber: 3.4 Consensus size: 43
25408347 CCTGTGGTTA
*
25408357 CAGTGGAGTACATTGAAGCCAATAATTTTATCTCCCTGGGCAG
1 CAGTGGAATACATTGAAGCCAATAATTTTATCTCCCTGGGCAG
* *** * * *
25408400 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTGTGGTTA-
1 CAGTGGAATACATTGAAGCCAATA-ATTTTATCTCCCTG-GG-CAG
* * * *
25408445 CAGTGGAGTACATTGAAGCCAGTAATTCT-CCTTCCCTGGGCAG
1 CAGTGGAATACATTGAAGCCAATAATTTTATC-TCCCTGGGCAG
*
25408488 CAGTGGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
25408506 ATTTCAGATC
Statistics
Matches: 80, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
42 1 0.01
43 37 0.46
44 22 0.28
45 19 0.24
46 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
CAGTGGAATACATTGAAGCCAATAATTTTATCTCCCTGGGCAG
Found at i:25408481 original size:44 final size:45
Alignment explanation
Indices: 25408344--25408473 Score: 144
Period size: 45 Copynumber: 2.9 Consensus size: 45
25408334 CAGATTTTAC
25408344 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATT-TTAT
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTTAT
* * * * *
25408388 CTCCCTG-GG-CAGCAGTGGAATAGATTGAAG--ATTACAGATCTTAT
1 CTCCCTGTGGTTA-CAGTGGAGTACATTGAAGCCAATA-A-TTCTTAT
*
25408432 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCT
25408474 CCTTCCCTGG
Statistics
Matches: 68, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
41 3 0.04
42 2 0.03
43 19 0.28
44 18 0.26
45 21 0.31
46 2 0.03
47 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTTAT
Found at i:25408514 original size:220 final size:218
Alignment explanation
Indices: 25408165--25408657 Score: 657
Period size: 220 Copynumber: 2.2 Consensus size: 218
25408155 ATTACAGATC
* ** * * ** * *
25408165 TTATCTCCCTAGGCATTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGT
1 TTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTGTGGTTACAGT
* *
25408230 GGAGTACATTGAAGCCGTAATTCTATCTCTATGAATTGCAGTGGAATAGATTGAAGATTTCAGAT
66 GGAGTACATTGAAGCCGTAATTCTATCCCTAGGAA-TGCAGTGGAATAGATTGAAGATTTCAGAT
** * * *
25408295 CTTATCTCCCTAGGCATTAGTGGAACAAATCGAAGACGGC-AGATTTTACCTCCCTGTGGTTACA
130 CTTATCTCCCTAACCAGTAATGGAACAAATCGAAGACGGCGA-ATTTTACCTCCCTGGGGTTACA
25408359 GTGGAGTACATTGAAGCCAATAATT
194 GTGGAGTACATTGAAGCCAATAATT
25408384 TTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTGTGGTTACAGT
1 TTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTGTGGTTACAGT
* * *
25408449 GGAGTACATTGAAGCCAGTAATTCTCCTTCCCTGGGCA-GCAGTGGAATAGATTGAAGATTTCAG
66 GGAGTACATTGAAGCC-GTAATTCT--ATCCCTAGGAATGCAGTGGAATAGATTGAAGATTTCAG
* * *
25408513 ATCTTATCTCCCTAACCAGTAATGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGGGGTTAC
128 ATCTTATCTCCCTAACCAGTAATGGAACAAATCGAAGACGGCGAATTTTACCTCCCTGGGGTTAC
*
25408578 AGTGGAGTACATTGAAGCCAGTAATT
193 AGTGGAGTACATTGAAGCCAATAATT
* * *** * *
25408604 CTATCCCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATTTCCCT
1 TTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT
25408658 AAGCGGTAGT
Statistics
Matches: 240, Mismatches: 30, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
219 72 0.30
220 161 0.67
221 1 0.00
222 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (218 bp):
TTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTGTGGTTACAGT
GGAGTACATTGAAGCCGTAATTCTATCCCTAGGAATGCAGTGGAATAGATTGAAGATTTCAGATC
TTATCTCCCTAACCAGTAATGGAACAAATCGAAGACGGCGAATTTTACCTCCCTGGGGTTACAGT
GGAGTACATTGAAGCCAATAATT
Found at i:25408520 original size:132 final size:130
Alignment explanation
Indices: 25408384--25408804 Score: 533
Period size: 132 Copynumber: 3.2 Consensus size: 130
25408374 GCCAATAATT
** * ** ** * * *
25408384 TTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTGTGGTTACAGT
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGC-GATTTTACCTCCCTGGGGTTACAGT
*
25408449 GGAGTACATTGAAGCCAGTAATTCTCCTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGA
65 GGAGTACATTGAAGCCAGTAATTCTCCTTCCCTGGTC-GCAGTGGAATAGATTGAAGATTTCAGA
25408514 TC
129 TC
* * *
25408516 TTATCTCCCTAACCAGTAATGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGGGGTTACAGT
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCG-ATTTTACCTCCCTGGGGTTACAGT
*
25408581 GGAGTACATTGAAGCCAGTAATTCTATCC--CCCTGGTTGGCAGTGGAATAGATTGAAGATTTCA
65 GGAGTACATTGAAGCCAGTAATTC--TCCTTCCCTGG-TCGCAGTGGAATAGATTGAAGATTTCA
25408644 GATC
127 GATC
* *
25408648 TTATTTCCCTAAGCGGTAGTGGAGCAGATTGAAGATGGCGGATTTTACCTCCCTGGGGTTACAGT
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGC-GATTTTACCTCCCTGGGGTTACAGT
* * * **
25408713 GGAGTACATTGAAGCCAGTAATTCT-ATCTCCCTGGTCGACAGTGGAATCGATCGAAGAATAGCA
65 GGAGTACATTGAAGCCAGTAATTCTCCT-TCCCTGGTCG-CAGTGGAATAGATTGAAG-ATTTCA
25408777 GATC
127 GATC
25408781 TTATCTCCCTAAGCAGTAGTGGAG
1 TTATCTCCCTAAGCAGTAGTGGAG
25408805 TAGACTGATG
Statistics
Matches: 251, Mismatches: 28, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
130 1 0.00
131 3 0.01
132 213 0.85
133 31 0.12
134 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (130 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGATTTTACCTCCCTGGGGTTACAGTG
GAGTACATTGAAGCCAGTAATTCTCCTTCCCTGGTCGCAGTGGAATAGATTGAAGATTTCAGATC
Found at i:25408569 original size:88 final size:88
Alignment explanation
Indices: 25408353--25408572 Score: 214
Period size: 88 Copynumber: 2.5 Consensus size: 88
25408343 CCTCCCTGTG
* * * ** *
25408353 GTTACAGTGGAGTACATTGAAGCCAATAATTTTATCTCCCTGGGCAGCAGTGGAATAGATTGAAG
1 GTTACAGTGGAGCACATCGAAGACAGGAATTTTACCTCCCTGGGCAGCAGTGGAATAGATTGAAG
***
25408418 ATTACAGATCTTATCTCCCTGTG
66 ATTACAGATCTTATCTCCCTCCA
* * * * *
25408441 GTTACAGTGGAGTACATTGAAGCCAGTAATTCT-CCTTCCCTGGGCAGCAGTGGAATAGATTGAA
1 GTTACAGTGGAGCACATCGAAGACAGGAATTTTACC-TCCCTGGGCAGCAGTGGAATAGATTGAA
*
25408505 GATTTCAGATCTTATCTCCCTAACCA
65 GATTACAGATCTTATCTCCCT--CCA
* **
25408531 G-TA-A-TGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGGG
1 GTTACAGTGGAGCACATCGAAGACAG-GAATTTTACCTCCCTGGG
25408573 GTTACAGTGG
Statistics
Matches: 112, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
87 14 0.12
88 93 0.83
89 4 0.04
90 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (88 bp):
GTTACAGTGGAGCACATCGAAGACAGGAATTTTACCTCCCTGGGCAGCAGTGGAATAGATTGAAG
ATTACAGATCTTATCTCCCTCCA
Found at i:25410207 original size:3 final size:3
Alignment explanation
Indices: 25410199--25410232 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
25410189 TTTATATTGT
*
25410199 TTA TTA TTA TAA TTA TTA TTA -TA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25410233 GTATTTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:25410229 original size:14 final size:14
Alignment explanation
Indices: 25410199--25410237 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25410189 TTTATATTGT
25410199 TTATTATTATA--A
1 TTATTATTATATTA
25410211 TTATTATTATATTA
1 TTATTATTATATTA
*
25410225 TTATTATTGTATT
1 TTATTATTATATT
25410238 TATATGTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
14 13 0.54
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (14 bp):
TTATTATTATATTA
Found at i:25410564 original size:11 final size:11
Alignment explanation
Indices: 25410548--25410578 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
25410538 TGTATTAATA
25410548 TATTTTATGTG
1 TATTTTATGTG
25410559 TATTTTATGTG
1 TATTTTATGTG
25410570 TATTATTAT
1 TATT-TTAT
25410579 TTTTATGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.65
Consensus pattern (11 bp):
TATTTTATGTG
Found at i:25411516 original size:19 final size:19
Alignment explanation
Indices: 25411492--25411528 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25411482 TTTGTAAAAA
25411492 CATAAAAAATACTTAATTG
1 CATAAAAAATACTTAATTG
* *
25411511 CATAAAAATTAGTTAATT
1 CATAAAAAATACTTAATT
25411529 TTACTATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.35
Consensus pattern (19 bp):
CATAAAAAATACTTAATTG
Found at i:25413628 original size:45 final size:45
Alignment explanation
Indices: 25413579--25413667 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
25413569 AATTTGAGCT
* *
25413579 AAATTTTATTATTAATTAAATTGGGTTTAATTGTAAAATAAGGTA
1 AAATTTTATTATTAATCAAATTGGGTTTAATTGTAAAACAAGGTA
25413624 AAATTTTATTATTAATCAAATTGGGTTTAATTGTAAAACAAGGT
1 AAATTTTATTATTAATCAAATTGGGTTTAATTGTAAAACAAGGT
25413668 GAAGTTTAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.43
Consensus pattern (45 bp):
AAATTTTATTATTAATCAAATTGGGTTTAATTGTAAAACAAGGTA
Found at i:25414751 original size:17 final size:17
Alignment explanation
Indices: 25414729--25414772 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
25414719 TAATTAGTAC
25414729 ATTAATTAATGATTAAA
1 ATTAATTAATGATTAAA
* *
25414746 ATTAATTAATGGTTCAA
1 ATTAATTAATGATTAAA
25414763 ATTAATTAAT
1 ATTAATTAAT
25414773 TATGGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (17 bp):
ATTAATTAATGATTAAA
Found at i:25422112 original size:17 final size:15
Alignment explanation
Indices: 25422085--25422123 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
25422075 TTGCTGGGGA
*
25422085 TGTTGTTTGTTTGATG
1 TGTTTTTTGTTTG-TG
25422101 TGTATTTTTGTTTGTG
1 TGT-TTTTTGTTTGTG
25422117 TGTTTTT
1 TGTTTTT
25422124 GCACTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 8 0.38
17 9 0.43
ACGTcount: A:0.05, C:0.00, G:0.26, T:0.69
Consensus pattern (15 bp):
TGTTTTTTGTTTGTG
Found at i:25446207 original size:15 final size:16
Alignment explanation
Indices: 25446189--25446219 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25446179 TTTAACTAAG
25446189 TAAAAT-AAAATAAAA
1 TAAAATAAAAATAAAA
25446204 TAAAATAAAAATAAAA
1 TAAAATAAAAATAAAA
25446220 GTTTCAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:25446216 original size:6 final size:5
Alignment explanation
Indices: 25446189--25446219 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
25446179 TTTAACTAAG
25446189 TAAAA TAAAA TAAAA TAAAA TAAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA
25446220 GTTTCAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:25447687 original size:22 final size:22
Alignment explanation
Indices: 25447652--25447731 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
25447642 GAATCTGTCG
25447652 AAAATAAATCAAAATTTATTATA
1 AAAAT-AATCAAAATTTATTATA
* *
25447675 AAAATAATTAAAATTTA--A-C
1 AAAATAATCAAAATTTATTATA
*
25447694 AATA-AATCAAAATTTATTATA
1 AAAATAATCAAAATTTATTATA
*
25447715 AAAATAATTAAAATTTA
1 AAAATAATCAAAATTTA
25447732 ACATGCTAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
18 11 0.24
19 3 0.07
20 2 0.04
21 3 0.07
22 22 0.48
23 5 0.11
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAATAATCAAAATTTATTATA
Found at i:25447698 original size:40 final size:40
Alignment explanation
Indices: 25447654--25447734 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
25447644 ATCTGTCGAA
25447654 AATAAATCAAAATTTATTATAAAAATAATTAAAATTTAAC
1 AATAAATCAAAATTTATTATAAAAATAATTAAAATTTAAC
25447694 AATAAATCAAAATTTATTATAAAAATAATTAAAATTTAAC
1 AATAAATCAAAATTTATTATAAAAATAATTAAAATTTAAC
25447734 A
1 A
25447735 TGCTAATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (40 bp):
AATAAATCAAAATTTATTATAAAAATAATTAAAATTTAAC
Found at i:25451277 original size:16 final size:15
Alignment explanation
Indices: 25451252--25451285 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
25451242 AAAGTTGATA
*
25451252 ATAATTAATATATATT
1 ATAATAAATATA-ATT
25451268 ATAATAAATATAATT
1 ATAATAAATATAATT
25451283 ATA
1 ATA
25451286 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:25451405 original size:29 final size:29
Alignment explanation
Indices: 25451348--25451405 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
25451338 TGCCTTTAAA
* * *
25451348 AATATTTACAAAAAGAGCATCTAATTTTT
1 AATATTTACAAAAAGAGCAACCAAATTTT
*
25451377 AATATTTACAAAAAGAGTAACCAAATTTT
1 AATATTTACAAAAAGAGCAACCAAATTTT
25451406 GAAAAGAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (29 bp):
AATATTTACAAAAAGAGCAACCAAATTTT
Found at i:25453389 original size:27 final size:27
Alignment explanation
Indices: 25453327--25453463 Score: 100
Period size: 27 Copynumber: 5.1 Consensus size: 27
25453317 TTAGAATACT
*
25453327 TTGGTTTACAAAATTACTGAAATACCC
1 TTGGTTTGCAAAATTACTGAAATACCC
* ** * *
25453354 TCGACTTGTAAAATTACTGAAGTACCC
1 TTGGTTTGCAAAATTACTGAAATACCC
* * *
25453381 TTGGTTTGTAAATTTAC-CAAAGTACCC
1 TTGGTTTGCAAAATTACTGAAA-TACCC
** *
25453408 TTAATTTGCAAAATTAAC-AAAATACCC
1 TTGGTTTGCAAAATT-ACTGAAATACCC
* *
25453435 TTAGTTTGAAAAATTA-TCGAAATACCC
1 TTGGTTTGCAAAATTACT-GAAATACCC
25453462 TT
1 TT
25453464 ATAAGTTAAA
Statistics
Matches: 86, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
26 3 0.03
27 78 0.91
28 5 0.06
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (27 bp):
TTGGTTTGCAAAATTACTGAAATACCC
Found at i:25453964 original size:27 final size:27
Alignment explanation
Indices: 25453926--25453980 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
25453916 GTACTGATAT
* *
25453926 TGTATTGGGCTAAGGCCCACCTTGTTC
1 TGTATTGGGCTAAAGCCCACATTGTTC
*
25453953 TGTATTGGGCTAAAGTCCACATTGTTC
1 TGTATTGGGCTAAAGCCCACATTGTTC
25453980 T
1 T
25453981 ATTTTGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (27 bp):
TGTATTGGGCTAAAGCCCACATTGTTC
Found at i:25459088 original size:53 final size:54
Alignment explanation
Indices: 25458977--25459115 Score: 149
Period size: 53 Copynumber: 2.6 Consensus size: 54
25458967 CTGGACCGAT
* ** *
25458977 AATGACCGAAATACCCTCGATGGGTAAAATGATTGAAATGCCCCCATAGGGTAA
1 AATGACCGAAATACCCCCGATGGGTAAAATGACCGAAATACCCCCATAGGGTAA
* *
25459031 AATGACCGAAATACCCCCG-TAGGGTAGAAT-ACCGAAATACCTCCATAGGGTAA
1 AATGACCGAAATACCCCCGAT-GGGTAAAATGACCGAAATACCCCCATAGGGTAA
* * * *
25459084 AATGATCGTAATA-CCTCTATAGGGTAAAATGA
1 AATGACCGAAATACCCCCGAT-GGGTAAAATGA
25459116 TCGTAATAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
52 3 0.04
53 41 0.58
54 27 0.38
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (54 bp):
AATGACCGAAATACCCCCGATGGGTAAAATGACCGAAATACCCCCATAGGGTAA
Found at i:25459114 original size:80 final size:80
Alignment explanation
Indices: 25458981--25459256 Score: 245
Period size: 80 Copynumber: 3.4 Consensus size: 80
25458971 ACCGATAATG
* * * *
25458981 ACCGAAATACCCTCGAT-GGGTAAAATGATTGAAATGCCCCCATAGGGTAAAATGACCGAAATAC
1 ACCGAAATA-CCTCCATAGGGTAAAATGATCGTAAT-CCCCTATAGGGTAAAATGACCGAAATAC
* * *
25459045 CCCCGTAGGGTAGAAT-
64 CCCTGTAGGATAAAATA
* * * *
25459061 ACCGAAATACCTCCATAGGGTAAAATGATCGTAATACCTCTATAGGGTAAAATGATCGTAATAAC
1 ACCGAAATACCTCCATAGGGTAAAATGATCGTAAT-CCCCTATAGGGTAAAATGACCGAAATACC
* *
25459126 CTTGTAGGTTAAAATA
65 CCTGTAGGATAAAATA
* * * * ** * *
25459142 ATCGTAATGCTTCTGTAGGGTAAAATAATCGTAATCCCCTATAAGGTAAAATGACC-ATAATACC
1 ACCGAAATACCTCCATAGGGTAAAATGATCGTAATCCCCTATAGGGTAAAATGACCGA-AATACC
*
25459206 CCTGTAGGATAAAATG
65 CCTGTAGGATAAAATA
* * * *
25459222 ATCGTAATACC-CCTGTAGGGTAAAATGACCGTAAT
1 ACCGAAATACCTCC-ATAGGGTAAAATGATCGTAAT
25459257 GTACTGGTGG
Statistics
Matches: 159, Mismatches: 33, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
79 7 0.04
80 124 0.78
81 28 0.18
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (80 bp):
ACCGAAATACCTCCATAGGGTAAAATGATCGTAATCCCCTATAGGGTAAAATGACCGAAATACCC
CTGTAGGATAAAATA
Found at i:25459148 original size:54 final size:54
Alignment explanation
Indices: 25459023--25459256 Score: 222
Period size: 53 Copynumber: 4.4 Consensus size: 54
25459013 AATGCCCCCA
* * * * * * **
25459023 TAGGGTAAAATGACCGAAATACCCCCGTAGGGTAGAAT-ACCGAAATA-CCTCCA
1 TAGGGTAAAATGACCGTAATACCTCTGTAGGGTAAAATGATCGTAATACCCT-TG
* * *
25459076 TAGGGTAAAATGATCGTAATACCTCTATAGGGTAAAATGATCGTAATAACCTTG
1 TAGGGTAAAATGACCGTAATACCTCTGTAGGGTAAAATGATCGTAATACCCTTG
* * * * * * * *
25459130 TAGGTTAAAATAATCGTAATGCTTCTGTAGGGTAAAATAATCGTAAT-CCCCTA
1 TAGGGTAAAATGACCGTAATACCTCTGTAGGGTAAAATGATCGTAATACCCTTG
* * * * *
25459183 TAAGGTAAAATGACCATAATACCCCTGTAGGATAAAATGATCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCTCTGTAGGGTAAAATGATCGTAATACCCTTG
25459237 TAGGGTAAAATGACCGTAAT
1 TAGGGTAAAATGACCGTAAT
25459257 GTACTGGTGG
Statistics
Matches: 146, Mismatches: 32, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
53 72 0.49
54 71 0.49
55 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
TAGGGTAAAATGACCGTAATACCTCTGTAGGGTAAAATGATCGTAATACCCTTG
Found at i:25459254 original size:27 final size:27
Alignment explanation
Indices: 25458998--25459256 Score: 236
Period size: 27 Copynumber: 9.7 Consensus size: 27
25458988 TACCCTCGAT
* * * **
25458998 GGGTAAAATGATTGAAATGCCCCCATA
1 GGGTAAAATGATCGTAATACCCCTGTA
* * *
25459025 GGGTAAAATGACCGAAATACCCCCGTA
1 GGGTAAAATGATCGTAATACCCCTGTA
* * * *
25459052 GGGTAGAAT-ACCGAAATACCTCC-ATA
1 GGGTAAAATGATCGTAATACC-CCTGTA
* *
25459078 GGGTAAAATGATCGTAATACCTCTATA
1 GGGTAAAATGATCGTAATACCCCTGTA
* *
25459105 GGGTAAAATGATCGTAATAACCTTGTA
1 GGGTAAAATGATCGTAATACCCCTGTA
* * * **
25459132 GGTTAAAATAATCGTAATGCTTCTGTA
1 GGGTAAAATGATCGTAATACCCCTGTA
* *
25459159 GGGTAAAATAATCGTAAT-CCCCTATA
1 GGGTAAAATGATCGTAATACCCCTGTA
* * *
25459185 AGGTAAAATGACCATAATACCCCTGTA
1 GGGTAAAATGATCGTAATACCCCTGTA
*
25459212 GGATAAAATGATCGTAATACCCCTGTA
1 GGGTAAAATGATCGTAATACCCCTGTA
*
25459239 GGGTAAAATGACCGTAAT
1 GGGTAAAATGATCGTAAT
25459257 GTACTGGTGG
Statistics
Matches: 192, Mismatches: 36, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
26 41 0.21
27 151 0.79
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GGGTAAAATGATCGTAATACCCCTGTA
Found at i:25459591 original size:32 final size:31
Alignment explanation
Indices: 25459550--25459758 Score: 151
Period size: 32 Copynumber: 6.5 Consensus size: 31
25459540 GCTGCGATGC
25459550 TACTGATGGCTTTGTGCCGATCATAGTATCAT
1 TACTGATGGCTTTGTGCCGATCATA-TATCAT
* *
25459582 TACTGATGGCTTTGTACCAATCATAATATCAT
1 TACTGATGGCTTTGTGCCGATCAT-ATATCAT
* *
25459614 TACTAATGGCTTTGTG-CGAATCATATTTCATTGT
1 TACTGATGGCTTTGTGCCG-ATCATATATCA---T
25459648 TACTGATGG-TTGTGTGCCGATC--ATATCACT
1 TACTGATGGCTT-TGTGCCGATCATATATCA-T
* * * * *
25459678 GCTACTGATTGCTTTGTGCCAATCATTACACCGT
1 --TACTGATGGCTTTGTGCCGATCA-TATATCAT
* *
25459712 TACTGATGGCTGTGTACCGATCATATCACTGCA-
1 TACTGATGGCTTTGTGCCGATCATAT-A-T-CAT
25459745 -ACTGATGGCTTTGT
1 TACTGATGGCTTTGT
25459759 TCCAATCACA
Statistics
Matches: 139, Mismatches: 22, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
30 1 0.01
31 8 0.06
32 102 0.73
33 5 0.04
34 18 0.13
35 5 0.04
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (31 bp):
TACTGATGGCTTTGTGCCGATCATATATCAT
Found at i:25459732 original size:64 final size:64
Alignment explanation
Indices: 25459551--25459766 Score: 206
Period size: 64 Copynumber: 3.3 Consensus size: 64
25459541 CTGCGATGCT
* * * * * *
25459551 ACTGATGGCTTTGTGCCGATCA-TAGTATCATTACTGATGGCTTTGTACCAATCATAAT-A-T-C
1 ACTGATGGCTTTGTGCCAATCATTA-CACCGTTACTGATGGCTGTGTACCGATCAT-ATCACTGC
25459612 A
64 A
* * * ** * *
25459613 TTACTAATGGCTTTGTGCGAATCATATTTCATTGTTACTGATGGTTGTGTGCCGATCATATCACT
1 --ACTGATGGCTTTGTGCCAATC--ATTACACCGTTACTGATGGCTGTGTACCGATCATATCACT
*
25459678 GCT
62 GCA
*
25459681 ACTGATTGCTTTGTGCCAATCATTACACCGTTACTGATGGCTGTGTACCGATCATATCACTGCA
1 ACTGATGGCTTTGTGCCAATCATTACACCGTTACTGATGGCTGTGTACCGATCATATCACTGCA
*
25459745 ACTGATGGCTTTGTTCCAATCA
1 ACTGATGGCTTTGTGCCAATCA
25459767 CATTATTGTA
Statistics
Matches: 123, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
64 75 0.61
65 2 0.02
66 43 0.35
67 2 0.02
68 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (64 bp):
ACTGATGGCTTTGTGCCAATCATTACACCGTTACTGATGGCTGTGTACCGATCATATCACTGCA
Found at i:25459735 original size:98 final size:97
Alignment explanation
Indices: 25459550--25459758 Score: 214
Period size: 98 Copynumber: 2.2 Consensus size: 97
25459540 GCTGCGATGC
* *
25459550 TACTGATGGCTTTGTGCCGATCATAGTATCATTACTGATGGCTTTGTACCAATCATAATATCATT
1 TACTGATGGCTTTGTGCCGATCATAGTATCA-TACTGATGGCTTTGTACCAATCATAACACCATT
* *
25459615 ACTAATGGCTTTGTGCGAATCATATTTCATTGT
65 ACTAATGGCTGTGTCCGAATCATATTTCATTGT
* * *
25459648 TACTGATGG-TTGTGTGCCGATCATA-TCACTGC-TACTGATTGCTTTGTGCCAATCATTACACC
1 TACTGATGGCTT-TGTGCCGATCATAGT-A-T-CATACTGATGGCTTTGTACCAATCATAACACC
* * * *
25459710 GTTACTGATGGCTGTGTACCG-ATCATA--TCACTGC
62 ATTACTAATGGCTGTGT-CCGAATCATATTTCATTGT
*
25459744 AACTGATGGCTTTGT
1 TACTGATGGCTTTGT
25459759 TCCAATCACA
Statistics
Matches: 93, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
96 16 0.17
97 5 0.05
98 68 0.73
99 3 0.03
100 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (97 bp):
TACTGATGGCTTTGTGCCGATCATAGTATCATACTGATGGCTTTGTACCAATCATAACACCATTA
CTAATGGCTGTGTCCGAATCATATTTCATTGT
Found at i:25463652 original size:20 final size:20
Alignment explanation
Indices: 25463629--25463675 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
25463619 AATGAGTCTT
* *
25463629 TTTGCACTTCGGTGCCTTTG
1 TTTGCACTACGGTGCCATTG
25463649 TTTGCACTACGGTGCCATTG
1 TTTGCACTACGGTGCCATTG
25463669 TATTGCA
1 T-TTGCA
25463676 TTATGATGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.40
Consensus pattern (20 bp):
TTTGCACTACGGTGCCATTG
Found at i:25467061 original size:51 final size:50
Alignment explanation
Indices: 25466930--25467117 Score: 198
Period size: 51 Copynumber: 3.7 Consensus size: 50
25466920 TGTCATCCGA
* * * *
25466930 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAGCTTTTTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTATCTGG
* * * *
25466980 TTCATGTAGTAGCCTGTACATAGTACTACACACGTGACCAAGGCCATCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAA-GCTATCTGG
* * * * * *
25467031 TACACATAGTAGCTTGCACATAGTTCTACACATGTGACCATTATCTATC-GA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA--AGCTATCTGG
* *
25467082 TACACGTAGTAGCTTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
25467118 TTCATAGGTA
Statistics
Matches: 113, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
50 36 0.32
51 72 0.64
52 4 0.04
53 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTATCTGG
Found at i:25474686 original size:51 final size:50
Alignment explanation
Indices: 25474565--25474752 Score: 198
Period size: 51 Copynumber: 3.7 Consensus size: 50
25474555 TATCATCCGA
* * *
25474565 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAGCTTTCTGG
1 TACACATAGTAGCCTACACATAGTACTACACACGTGACCAAGCTATCTGG
* ** *
25474615 TTCATGTAGTAGCCTACACATAGTACTACACACGTGACCAAGGCCATCTGG
1 TACACATAGTAGCCTACACATAGTACTACACACGTGACCAA-GCTATCTGG
* * * * * *
25474666 TACACATAGTAACCTGCACATAATACTACACATGTGACCATTATCTATC-GA
1 TACACATAGTAGCCTACACATAGTACTACACACGTGACCA--AGCTATCTGG
* * *
25474717 TGCACATAGTAGCCTGCACTTAGTACTACACACGTG
1 TACACATAGTAGCCTACACATAGTACTACACACGTG
25474753 TTCAAGGTAC
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 38 0.33
51 72 0.63
52 4 0.03
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
TACACATAGTAGCCTACACATAGTACTACACACGTGACCAAGCTATCTGG
Found at i:25478250 original size:36 final size:36
Alignment explanation
Indices: 25478181--25478251 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
25478171 GGAGCGCATT
* *
25478181 AGTCATAATAGATCTGAAAGGCTACAGAGCTAAATC
1 AGTCAGAATAGATCTGAAAGGCTACAGAACTAAATC
25478217 AGTCAGAATAGATCTGAAAGGCTACTA-AACTAAAT
1 AGTCAGAATAGATCTGAAAGGCTAC-AGAACTAAAT
25478252 AGAGTTTACT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (36 bp):
AGTCAGAATAGATCTGAAAGGCTACAGAACTAAATC
Found at i:25488661 original size:40 final size:40
Alignment explanation
Indices: 25488617--25488762 Score: 134
Period size: 40 Copynumber: 3.6 Consensus size: 40
25488607 TAGGGGCACT
* *
25488617 AAAGTGCAAACAAGGGAACAG-ATGTGC-ATTCAAGGGTACC
1 AAAGTACAAACAAGGGAAC-GTAAGTGCAATT-AAGGGTACC
* * *
25488657 AAAGTACAAACATGGGCACGTAAGTGCAATTAGGGGTACC
1 AAAGTACAAACAAGGGAACGTAAGTGCAATTAAGGGTACC
* * * *
25488697 AAAGTACAAACAGGGGCACATAAGTGCAATTAGGGGTACC
1 AAAGTACAAACAAGGGAACGTAAGTGCAATTAAGGGTACC
* * * * *
25488737 GATGTACAAACAGGGGCACATAAGTG
1 AAAGTACAAACAAGGGAACGTAAGTG
25488763 TAATAATTCA
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 91 0.96
41 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (40 bp):
AAAGTACAAACAAGGGAACGTAAGTGCAATTAAGGGTACC
Found at i:25488701 original size:80 final size:80
Alignment explanation
Indices: 25488600--25488762 Score: 193
Period size: 80 Copynumber: 2.0 Consensus size: 80
25488590 GAGTACGAAT
* * * *
25488600 GTGCAGTTAGGGGCACTAAAGTGCAAACAAGGGAACAGATGTGC-ATTCAAGGGTACCAAAGTAC
1 GTGCAATTAGGGGCACCAAAGTACAAACAAGGGAACAGAAGTGCAATT-AAGGGTACCAAAGTAC
* *
25488664 AAACATGGGCACGTAA
65 AAACAGGGGCACATAA
* * * * * * *
25488680 GTGCAATTAGGGGTACCAAAGTACAAACAGGGGCACATAAGTGCAATTAGGGGTACCGATGTACA
1 GTGCAATTAGGGGCACCAAAGTACAAACAAGGGAACAGAAGTGCAATTAAGGGTACCAAAGTACA
25488745 AACAGGGGCACATAA
66 AACAGGGGCACATAA
25488760 GTG
1 GTG
25488763 TAATAATTCA
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
80 66 0.96
81 3 0.04
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (80 bp):
GTGCAATTAGGGGCACCAAAGTACAAACAAGGGAACAGAAGTGCAATTAAGGGTACCAAAGTACA
AACAGGGGCACATAA
Found at i:25488711 original size:20 final size:20
Alignment explanation
Indices: 25488650--25488752 Score: 73
Period size: 20 Copynumber: 5.2 Consensus size: 20
25488640 GTGCATTCAA
*
25488650 GGGTACCAAAGTACAAACAT
1 GGGTACCAAAGTACAAACAG
* ** * **
25488670 GGGCACGTAAGTGCAATTAG
1 GGGTACCAAAGTACAAACAG
25488690 GGGTACCAAAGTACAAACAG
1 GGGTACCAAAGTACAAACAG
* * **
25488710 GGGCA-CATAAGTGCAATTAG
1 GGGTACCA-AAGTACAAACAG
* *
25488730 GGGTACCGATGTACAAACAG
1 GGGTACCAAAGTACAAACAG
25488750 GGG
1 GGG
25488753 CACATAAGTG
Statistics
Matches: 58, Mismatches: 23, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
19 2 0.03
20 55 0.95
21 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.16
Consensus pattern (20 bp):
GGGTACCAAAGTACAAACAG
Found at i:25498752 original size:327 final size:327
Alignment explanation
Indices: 25498158--25498815 Score: 1307
Period size: 327 Copynumber: 2.0 Consensus size: 327
25498148 TATAGTGACC
25498158 AAATGACATCTTCCTTACTTGGTGTTTCTTATTTGAAGGATGATTTCAAGCGTGTAATTTCCTAT
1 AAATGACATCTTCCTTACTTGGTGTTTCTTATTTGAAGGATGATTTCAAGCGTGTAATTTCCTAT
25498223 GATTCAAAAAGTGAAATCATATTGGATTAATGAAGAGTAAGTATTGTCATAGAAGCCAAAGCATA
66 GATTCAAAAAGTGAAATCATATTGGATTAATGAAGAGTAAGTATTGTCATAGAAGCCAAAGCATA
25498288 ATCATTTATCAAAGATTTGTCAAGGGTGTTTTAGTGATGGGTTATTCGTTTTATGTTTGGATCTA
131 ATCATTTATCAAAGATTTGTCAAGGGTGTTTTAGTGATGGGTTATTCGTTTTATGTTTGGATCTA
25498353 AGATAGATCTAATTAAATTCAGAAGTGGGCATTAGAAGGAGTTTTCACATTTGAATTACTACGAT
196 AGATAGATCTAATTAAATTCAGAAGTGGGCATTAGAAGGAGTTTTCACATTTGAATTACTACGAT
25498418 CAGGTGTGAGTTTTAACACTAAACAAAATTAAATCTATGTTTTATACTGATAAAATCGTCATTAT
261 CAGGTGTGAGTTTTAACACTAAACAAAATTAAATCTATGTTTTATACTGATAAAATCGTCATTAT
25498483 TT
326 TT
*
25498485 AAATGACATCTTCTTTACTTGGTGTTTCTTATTTGAAGGATGATTTCAAGCGTGTAATTTCCTAT
1 AAATGACATCTTCCTTACTTGGTGTTTCTTATTTGAAGGATGATTTCAAGCGTGTAATTTCCTAT
25498550 GATTCAAAAAGTGAAATCATATTGGATTAATGAAGAGTAAGTATTGTCATAGAAGCCAAAGCATA
66 GATTCAAAAAGTGAAATCATATTGGATTAATGAAGAGTAAGTATTGTCATAGAAGCCAAAGCATA
25498615 ATCATTTATCAAAGATTTGTCAAGGGTGTTTTAGTGATGGGTTATTCGTTTTATGTTTGGATCTA
131 ATCATTTATCAAAGATTTGTCAAGGGTGTTTTAGTGATGGGTTATTCGTTTTATGTTTGGATCTA
25498680 AGATAGATCTAATTAAATTCAGAAGTGGGCATTAGAAGGAGTTTTCACATTTGAATTACTACGAT
196 AGATAGATCTAATTAAATTCAGAAGTGGGCATTAGAAGGAGTTTTCACATTTGAATTACTACGAT
25498745 CAGGTGTGAGTTTTAACACTAAACAAAATTAAATCTATGTTTTATACTGATAAAATCGTCATTAT
261 CAGGTGTGAGTTTTAACACTAAACAAAATTAAATCTATGTTTTATACTGATAAAATCGTCATTAT
25498810 TT
326 TT
25498812 AAAT
1 AAAT
25498816 TATGTTTTTT
Statistics
Matches: 330, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
327 330 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (327 bp):
AAATGACATCTTCCTTACTTGGTGTTTCTTATTTGAAGGATGATTTCAAGCGTGTAATTTCCTAT
GATTCAAAAAGTGAAATCATATTGGATTAATGAAGAGTAAGTATTGTCATAGAAGCCAAAGCATA
ATCATTTATCAAAGATTTGTCAAGGGTGTTTTAGTGATGGGTTATTCGTTTTATGTTTGGATCTA
AGATAGATCTAATTAAATTCAGAAGTGGGCATTAGAAGGAGTTTTCACATTTGAATTACTACGAT
CAGGTGTGAGTTTTAACACTAAACAAAATTAAATCTATGTTTTATACTGATAAAATCGTCATTAT
TT
Found at i:25499578 original size:27 final size:27
Alignment explanation
Indices: 25499538--25499593 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
25499528 CAGTAACAGA
* *
25499538 ACAGAACAATGTGGGCTTTAGCCCAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
*
25499565 ACAGAACAAGGTGGGCCTTAGCCTAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
25499592 AC
1 AC
25499594 CACATCAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
ACAGAACAAGGTGGGCCTTAGCCCAAT
Found at i:25500163 original size:27 final size:26
Alignment explanation
Indices: 25500120--25500244 Score: 106
Period size: 27 Copynumber: 4.7 Consensus size: 26
25500110 TTAAGAGTAC
* *
25500120 TTTGGTAATGTTGTAAATCGAGGGTA
1 TTTGATAATTTTGTAAATCGAGGGTA
* *
25500146 TTTCGATAATTTTGTAAACCGAGGGTGC
1 TTT-GATAATTTTGTAAATCGAGGGT-A
* ** *
25500174 TTTGGTAATTTTACAAGTCGAGGGTA
1 TTTGATAATTTTGTAAATCGAGGGTA
* *
25500200 TTTTAGTAATTTTGTAAATCAAGGGTA
1 TTTGA-TAATTTTGTAAATCGAGGGTA
* *
25500227 ATTCAGTAATTTTGTAAA
1 TTTGA-TAATTTTGTAAA
25500245 CCAAAGTATT
Statistics
Matches: 78, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
26 6 0.08
27 69 0.88
28 3 0.04
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (26 bp):
TTTGATAATTTTGTAAATCGAGGGTA
Found at i:25500225 original size:54 final size:54
Alignment explanation
Indices: 25500085--25500244 Score: 146
Period size: 54 Copynumber: 3.0 Consensus size: 54
25500075 TCTCCAAACT
* * * * * *
25500085 GAGGGTATTTCAATAATTTTGCAATTTAAGAGTACTTTGGTAATGTTGTAAATC
1 GAGGGTATTTTAGTAATTTTGTAAATCAAGGGTACTTTGGTAATGTTGTAAATC
* * * *
25500139 GAGGGTA-TTTCGATAATTTTGTAAACCGAGGGTGCTTTGGTAAT-TT-TACAAGTC
1 GAGGGTATTTTAG-TAATTTTGTAAATCAAGGGTACTTTGGTAATGTTGTA-AA-TC
* ** *
25500193 GAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAATTCAGTAATTTTGTAAA
1 GAGGGTATTTTAGTAATTTTGTAAATCAAGGGTACTTTGGTAATGTTGTAAA
25500245 CCAAAGTATT
Statistics
Matches: 83, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
52 2 0.02
53 6 0.07
54 65 0.78
55 8 0.10
56 2 0.02
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (54 bp):
GAGGGTATTTTAGTAATTTTGTAAATCAAGGGTACTTTGGTAATGTTGTAAATC
Found at i:25502302 original size:19 final size:18
Alignment explanation
Indices: 25502269--25502307 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
25502259 ATCGTGAATT
*
25502269 AAAAAGTTAGTCCTTTAA
1 AAAAAGTTAGTCCTTCAA
*
25502287 AAAAAGTTATTACCTTCAA
1 AAAAAGTTAGT-CCTTCAA
25502306 AA
1 AA
25502308 CCTTGTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.31
Consensus pattern (18 bp):
AAAAAGTTAGTCCTTCAA
Found at i:25502897 original size:27 final size:27
Alignment explanation
Indices: 25502857--25502912 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
25502847 CAGTAACAGA
* *
25502857 ACAGAACAATGTGGGCTTTAGCCCAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
*
25502884 ACAGAGCAAGGTGGGCCTTAGCCCAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
25502911 AC
1 AC
25502913 CACATCAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (27 bp):
ACAGAACAAGGTGGGCCTTAGCCCAAT
Found at i:25503435 original size:27 final size:27
Alignment explanation
Indices: 25503405--25503562 Score: 135
Period size: 27 Copynumber: 5.9 Consensus size: 27
25503395 CTCCAAACTG
* * *
25503405 AGGGTATTTCAATAATTTTGTAATTTA
1 AGGGTATTTCAGTAATTTTGTAAATCA
25503432 AGGGTACTTT--GTTAATTTT-TCAAATCA
1 AGGGTA-TTTCAG-TAATTTTGT-AAATCA
* * * ** * *
25503459 GGGGTACTTCGGTAATTTTACAAGTCG
1 AGGGTATTTCAGTAATTTTGTAAATCA
* *
25503486 AGGGTATTTTAGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTTGTAAATCA
*
25503513 AGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTTGTAAATCA
*
25503540 AGGGTATTTCAATAATTTT-TAAA
1 AGGGTATTTCAGTAATTTTGTAAA
25503563 ACCAAAGTAT
Statistics
Matches: 106, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
26 7 0.07
27 95 0.90
28 4 0.04
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTGTAAATCA
Found at i:25506841 original size:23 final size:23
Alignment explanation
Indices: 25506806--25506851 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
25506796 AACCCAACTT
* *
25506806 TGCCTCAATGGCATCACAAAATA
1 TGCCACAAAGGCATCACAAAATA
25506829 TGCCACAAAGGCATCACAAAATA
1 TGCCACAAAGGCATCACAAAATA
25506852 CACCACGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.26, G:0.13, T:0.17
Consensus pattern (23 bp):
TGCCACAAAGGCATCACAAAATA
Found at i:25506857 original size:23 final size:23
Alignment explanation
Indices: 25506815--25506873 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
25506805 TTGCCTCAAT
**
25506815 GGCATCACAAAATATGCCACAAA
1 GGCATCACAAAATACACCACAAA
*
25506838 GGCATCACAAAATACACCACGAA
1 GGCATCACAAAATACACCACAAA
* *
25506861 GGTATCAAAAAAT
1 GGCATCACAAAAT
25506874 GGATATTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.49, C:0.24, G:0.14, T:0.14
Consensus pattern (23 bp):
GGCATCACAAAATACACCACAAA
Found at i:25508377 original size:24 final size:20
Alignment explanation
Indices: 25508333--25508373 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
25508323 CGGCTAAGAA
25508333 ACTCTATCATCCAATCAATT
1 ACTCTATCATCCAATCAATT
25508353 ACTCTATCATCCAATCAATT
1 ACTCTATCATCCAATCAATT
25508373 A
1 A
25508374 ATTAAGTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (20 bp):
ACTCTATCATCCAATCAATT
Found at i:25508643 original size:13 final size:14
Alignment explanation
Indices: 25508622--25508653 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25508612 CTTAAGAATG
25508622 AAAAA-AAAA-CCT
1 AAAAATAAAACCCT
25508634 AAAAATAAAACCCT
1 AAAAATAAAACCCT
25508648 AAAAAT
1 AAAAAT
25508654 TATGTGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.28
13 4 0.22
14 9 0.50
ACGTcount: A:0.72, C:0.16, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAATAAAACCCT
Found at i:25513065 original size:36 final size:36
Alignment explanation
Indices: 25513025--25513136 Score: 206
Period size: 36 Copynumber: 3.1 Consensus size: 36
25513015 TTTCGTTTCC
25513025 TTTTCAATTTTCTTTTCGTTCTCACACTCATCTTCT
1 TTTTCAATTTTCTTTTCGTTCTCACACTCATCTTCT
*
25513061 TTTTCAATTTTCTTTTCGTTCTCACACTCATTTTCT
1 TTTTCAATTTTCTTTTCGTTCTCACACTCATCTTCT
*
25513097 TTTTAAATTTTCTTTTCGTTCTCACACTCATCTTCT
1 TTTTCAATTTTCTTTTCGTTCTCACACTCATCTTCT
25513133 TTTT
1 TTTT
25513137 TTCATTTCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 73 1.00
ACGTcount: A:0.14, C:0.25, G:0.03, T:0.58
Consensus pattern (36 bp):
TTTTCAATTTTCTTTTCGTTCTCACACTCATCTTCT
Found at i:25513147 original size:13 final size:14
Alignment explanation
Indices: 25513124--25513152 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25513114 GTTCTCACAC
25513124 TCATCTTCTTTTTT
1 TCATCTTCTTTTTT
25513138 TCAT-TTCTTTTTT
1 TCATCTTCTTTTTT
25513151 TC
1 TC
25513153 GTCTCTCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (14 bp):
TCATCTTCTTTTTT
Found at i:25513350 original size:129 final size:129
Alignment explanation
Indices: 25513205--25513467 Score: 517
Period size: 129 Copynumber: 2.0 Consensus size: 129
25513195 ACATTTCTTG
25513205 TCTTTCTTTTCTTTTATTTTCTTTTTGTCTCGTTCTTTCATTACAAGAAGATGATAACTTATAAG
1 TCTTTCTTTTCTTTTATTTTCTTTTTGTCTCGTTCTTTCATTACAAGAAGATGATAACTTATAAG
*
25513270 AATCATAACGACAGGCTTCTCATTAGAAAGAAGTGATAGAATCTTAATGCAAGTCACGATCAAC
66 AATCATAACGACAGGCTTCTCATTAGAAAGAAGTGATAGAATCTTAATGCAAGTCACAATCAAC
25513334 TCTTTCTTTTCTTTTATTTTCTTTTTGTCTCGTTCTTTCATTACAAGAAGATGATAACTTATAAG
1 TCTTTCTTTTCTTTTATTTTCTTTTTGTCTCGTTCTTTCATTACAAGAAGATGATAACTTATAAG
25513399 AATCATAACGACAGGCTTCTCATTAGAAAGAAGTGATAGAATCTTAATGCAAGTCACAATCAAC
66 AATCATAACGACAGGCTTCTCATTAGAAAGAAGTGATAGAATCTTAATGCAAGTCACAATCAAC
25513463 TCTTT
1 TCTTT
25513468 GTGAATAACC
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 133 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.40
Consensus pattern (129 bp):
TCTTTCTTTTCTTTTATTTTCTTTTTGTCTCGTTCTTTCATTACAAGAAGATGATAACTTATAAG
AATCATAACGACAGGCTTCTCATTAGAAAGAAGTGATAGAATCTTAATGCAAGTCACAATCAAC
Found at i:25515838 original size:20 final size:20
Alignment explanation
Indices: 25515815--25515862 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
25515805 GAGCTTAAAC
*
25515815 GAGCTGAATTAAGCTCATGT
1 GAGCTGAATTAAACTCATGT
25515835 GAGCTGAATTAAACTCATGT
1 GAGCTGAATTAAACTCATGT
*
25515855 GAGTTGAA
1 GAGCTGAA
25515863 CAGAGCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (20 bp):
GAGCTGAATTAAACTCATGT
Found at i:25522955 original size:40 final size:40
Alignment explanation
Indices: 25522912--25523161 Score: 240
Period size: 40 Copynumber: 6.2 Consensus size: 40
25522902 ATGTTACTGA
* * * * *
25522912 AATGCACATTATTGCCCCTGTTTGTACTTCGCTACCCCTA
1 AATGCACATTACTGCTCCTATTTGTACTTCGGTACCCCTG
* *
25522952 AATGCACA-TGCATGCTCCTATTTGTACTTCGGTACCCCTA
1 AATGCACATTAC-TGCTCCTATTTGTACTTCGGTACCCCTG
* *
25522992 AATGAACA-TACGTGCTCCTATTTGTACTTCGGTACCCTTG
1 AATGCACATTAC-TGCTCCTATTTGTACTTCGGTACCCCTG
* ** * *
25523032 AATGTACA-TACGTGCTTTTGTTTGTACTTTGGTACCCCTG
1 AATGCACATTAC-TGCTCCTATTTGTACTTCGGTACCCCTG
* * *
25523072 AATGCACA-TACATGCTCCTGTTTATACTTCGGTACCCTTG
1 AATGCACATTAC-TGCTCCTATTTGTACTTCGGTACCCCTG
* * *
25523112 AATGCATA-TGCATGCTCCTATTTGTACTTTGGTACCCCTG
1 AATGCACATTAC-TGCTCCTATTTGTACTTCGGTACCCCTG
25523152 AATGCACATT
1 AATGCACATT
25523162 CGTTCTTTGA
Statistics
Matches: 178, Mismatches: 30, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 176 0.99
41 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (40 bp):
AATGCACATTACTGCTCCTATTTGTACTTCGGTACCCCTG
Found at i:25523056 original size:80 final size:80
Alignment explanation
Indices: 25522936--25523160 Score: 297
Period size: 80 Copynumber: 2.8 Consensus size: 80
25522926 CCCCTGTTTG
* * * * * * *
25522936 TACTTCGCTACCCCTAAATGCACATGCATGCTCCTATTTGTACTTCGGTACCCCTAAATGAACAT
1 TACTTCGGTACCCTTGAATGCACATACATGCTCCTATTTGTACTTTGGTACCCCTGAATGCACAT
* *
25523001 ACGTGCTCCTATTTG
66 ACATGCTCCTATTTA
* * ** *
25523016 TACTTCGGTACCCTTGAATGTACATACGTGCTTTTGTTTGTACTTTGGTACCCCTGAATGCACAT
1 TACTTCGGTACCCTTGAATGCACATACATGCTCCTATTTGTACTTTGGTACCCCTGAATGCACAT
*
25523081 ACATGCTCCTGTTTA
66 ACATGCTCCTATTTA
* *
25523096 TACTTCGGTACCCTTGAATGCATATGCATGCTCCTATTTGTACTTTGGTACCCCTGAATGCACAT
1 TACTTCGGTACCCTTGAATGCACATACATGCTCCTATTTGTACTTTGGTACCCCTGAATGCACAT
25523161 TCGTTCTTTG
Statistics
Matches: 123, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 123 1.00
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.36
Consensus pattern (80 bp):
TACTTCGGTACCCTTGAATGCACATACATGCTCCTATTTGTACTTTGGTACCCCTGAATGCACAT
ACATGCTCCTATTTA
Found at i:25523146 original size:120 final size:120
Alignment explanation
Indices: 25522930--25523169 Score: 327
Period size: 120 Copynumber: 2.0 Consensus size: 120
25522920 TTATTGCCCC
* *
25522930 TGTTTGTACTTCGCTACCCCTAAATGCACATGCATGCTCCTATTTGTACTTCGGTACCCCTAAAT
1 TGTTTGTACTTCGCTACCCCTAAATGCACATACATGCTCCTATTTATACTTCGGTACCCCTAAAT
* * *
25522995 GAACATACGTGCTCCTATTTGTACTTCGGTACCCTTGAATGTACATACGTGCTTT
66 GAACATACATGCTCCTATTTGTACTTCGGTACCCCTGAATGCACATACGTGCTTT
* * * * * *
25523050 TGTTTGTACTTTGGTACCCCTGAATGCACATACATGCTCCTGTTTATACTTCGGTACCCTTGAAT
1 TGTTTGTACTTCGCTACCCCTAAATGCACATACATGCTCCTATTTATACTTCGGTACCCCTAAAT
* * * * * *
25523115 GCATATGCATGCTCCTATTTGTACTTTGGTACCCCTGAATGCACATTCGTTCTTT
66 GAACATACATGCTCCTATTTGTACTTCGGTACCCCTGAATGCACATACGTGCTTT
25523170 GAATGCACTT
Statistics
Matches: 103, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
120 103 1.00
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (120 bp):
TGTTTGTACTTCGCTACCCCTAAATGCACATACATGCTCCTATTTATACTTCGGTACCCCTAAAT
GAACATACATGCTCCTATTTGTACTTCGGTACCCCTGAATGCACATACGTGCTTT
Found at i:25538631 original size:6 final size:6
Alignment explanation
Indices: 25538622--25538647 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25538612 TATGAAAAAT
25538622 AAAAGG AAAAGG AAAAGG AAAAGG AA
1 AAAAGG AAAAGG AAAAGG AAAAGG AA
25538648 TAGTTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:25549708 original size:22 final size:22
Alignment explanation
Indices: 25549677--25549757 Score: 117
Period size: 22 Copynumber: 3.7 Consensus size: 22
25549667 ACCATTAACA
**
25549677 TAACGTACTAAGCTCTCATGTT
1 TAACGTACTAAGCTCTCATGGC
* * *
25549699 TAACGAACTAAACCCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
25549721 TAACGTACTAAGCTCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
25549743 TAACGTACTAAGCTC
1 TAACGTACTAAGCTC
25549758 AATGCTAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (22 bp):
TAACGTACTAAGCTCTCATGGC
Found at i:25551970 original size:78 final size:78
Alignment explanation
Indices: 25551862--25552027 Score: 278
Period size: 78 Copynumber: 2.1 Consensus size: 78
25551852 TGCTTAATCC
* * *
25551862 TAAATCTAGTCCCTAAATCAAGACTAATTTTAATACCCATATTTAACCTCAAATTTTTATACTAA
1 TAAATTTAGTCCCTAAACCAAGACTAATTTTAATACCCATATTTAACCACAAATTTTTATACTAA
25551927 TTTTACTCTAAGA
66 TTTTACTCTAAGA
* *
25551940 TAAATTTAGTCCCTAAACCAATACTGATTTTAATACCCATATTTAACCACAAATTTTTATACTAA
1 TAAATTTAGTCCCTAAACCAAGACTAATTTTAATACCCATATTTAACCACAAATTTTTATACTAA
*
25552005 TTTTACTCTAAGC
66 TTTTACTCTAAGA
25552018 TAAATTTAGT
1 TAAATTTAGT
25552028 TCTCTATTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (78 bp):
TAAATTTAGTCCCTAAACCAAGACTAATTTTAATACCCATATTTAACCACAAATTTTTATACTAA
TTTTACTCTAAGA
Found at i:25552363 original size:14 final size:14
Alignment explanation
Indices: 25552340--25552369 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25552330 CGTCGGTCTC
25552340 TTCTTGTTCTTTCT
1 TTCTTGTTCTTTCT
*
25552354 TTCTTTTTCTTTCT
1 TTCTTGTTCTTTCT
25552368 TT
1 TT
25552370 TAATTTTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (14 bp):
TTCTTGTTCTTTCT
Found at i:25554870 original size:15 final size:17
Alignment explanation
Indices: 25554826--25554865 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
25554816 TTTTAAGCCA
25554826 AACTTCTCATCCTTTTT
1 AACTTCTCATCCTTTTT
25554843 AACTTCTCATCCTTTTT
1 AACTTCTCATCCTTTTT
*
25554860 AGCTTC
1 AACTTC
25554866 ATCCTAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.30, G:0.03, T:0.50
Consensus pattern (17 bp):
AACTTCTCATCCTTTTT
Found at i:25555814 original size:73 final size:73
Alignment explanation
Indices: 25555737--25555936 Score: 181
Period size: 73 Copynumber: 2.7 Consensus size: 73
25555727 TATATAACAG
* * * * * *
25555737 GAAGCTCATAAGAGCCATAATTAGGAAGCTCATACGAGCCAATAACGGGTAGCTCTGAAGAGCCA
1 GAAGCTCATAAGAGCCATAATCAGGAAGCTCATAAGAGCCAATATCGGGAAGCTCCGAAGAACCA
25555802 TTAATCAA
66 TTAATCAA
* * * * * *
25555810 GAAGCTC-TGAATAGCTATATATCGGGAAGTTCA-AGTGAGCC-ATATCGGGAAGCTCCGGAGAA
1 GAAGCTCAT-AAGAGCCATA-ATCAGGAAGCTCATA-AGAGCCAATATCGGGAAGCTCCGAAGAA
*
25555872 CCATTAATCAG
63 CCATTAATCAA
* *
25555883 GAAGCTCAGAAAGAGCCTTTAATCAGGAAGCTCACTAAGAGCCATATATCGGGA
1 GAAGCTCA-TAAGAGCC-ATAATCAGGAAGCTCA-TAAGAGCCA-ATATCGGGA
25555937 CGTTCATAAG
Statistics
Matches: 98, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
72 1 0.01
73 49 0.50
74 31 0.32
75 7 0.07
76 1 0.01
77 9 0.09
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (73 bp):
GAAGCTCATAAGAGCCATAATCAGGAAGCTCATAAGAGCCAATATCGGGAAGCTCCGAAGAACCA
TTAATCAA
Found at i:25555908 original size:26 final size:26
Alignment explanation
Indices: 25555875--25555925 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
25555865 CGGAGAACCA
*
25555875 TTAATCAGGAAGCTCAGAAAGAGCCT
1 TTAATCAGGAAGCTCACAAAGAGCCT
*
25555901 TTAATCAGGAAGCTCACTAAGAGCC
1 TTAATCAGGAAGCTCACAAAGAGCC
25555926 ATATATCGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
TTAATCAGGAAGCTCACAAAGAGCCT
Done.