Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 101 of 172
Found at i:34012214 original size:30 final size:30
Alignment explanation
Indices: 34012144--34012225 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
34012134 TTTTGTTTCA
* *
34012144 ATTTCTTTTTCATCTTCTTTTTCACTCTCAG
1 ATTTCTTTTTCTTC-TCTTTTTCAATCTCAG
34012175 ATTTC-TTTTCGTTCTCTTTTTCAATCTCA-
1 ATTTCTTTTTC-TTCTCTTTTTCAATCTCAG
* *
34012204 TTTTCTTTTTCATTTTCTTTTT
1 ATTTCTTTTTC-TTCTCTTTTT
34012226 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 4 0.09
30 33 0.75
31 7 0.16
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (30 bp):
ATTTCTTTTTCTTCTCTTTTTCAATCTCAG
Found at i:34012225 original size:18 final size:18
Alignment explanation
Indices: 34012176--34012231 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
34012166 CACTCTCAGA
* *
34012176 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
34012193 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
34012211 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
34012230 TT
1 TT
34012232 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:34012232 original size:12 final size:12
Alignment explanation
Indices: 34012201--34012225 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34012191 TTTTTCAATC
34012201 TCATTTTCTTTT
1 TCATTTTCTTTT
34012213 TCATTTTCTTTT
1 TCATTTTCTTTT
34012225 T
1 T
34012226 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:34012317 original size:16 final size:15
Alignment explanation
Indices: 34012296--34012356 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
34012286 CTTGCCTCTC
34012296 TTTTCTTTTTATTTCA
1 TTTTCTTTTT-TTTCA
*
34012312 TTTTCTTTTTCTTC-
1 TTTTCTTTTTTTTCA
*
34012326 TTTTACTTTTTCTTTTA
1 TTTT-CTTTTT-TTTCA
*
34012343 TTTTCTTTATTTTC
1 TTTTCTTTTTTTTC
34012357 TCTTTACAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 17 0.46
17 4 0.11
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTTTTTCA
Found at i:34012334 original size:15 final size:14
Alignment explanation
Indices: 34012294--34012339 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
34012284 CTCTTGCCTC
*
34012294 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
34012309 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
34012324 TCTTTTACTTTTTCT
1 TCTTTT-CTTTTTCT
34012339 T
1 T
34012340 TTATTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:34012336 original size:31 final size:31
Alignment explanation
Indices: 34012294--34012363 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
34012284 CTCTTGCCTC
34012294 TCTTTT-CTTTTTATTTCATTTTCTTT-TTCT
1 TCTTTTACTTTTTATTTCATTTTCTTTATT-T
* *
34012324 TCTTTTACTTTTTCTTTTATTTTCTTTATTT
1 TCTTTTACTTTTTATTTCATTTTCTTTATTT
34012355 TCTCTTTAC
1 TCT-TTTAC
34012364 AAGAATGTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 6 0.17
31 22 0.63
32 7 0.20
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (31 bp):
TCTTTTACTTTTTATTTCATTTTCTTTATTT
Found at i:34012338 original size:12 final size:10
Alignment explanation
Indices: 34012311--34012362 Score: 54
Period size: 9 Copynumber: 5.1 Consensus size: 10
34012301 TTTTTATTTC
34012311 ATTTTCTTTT
1 ATTTTCTTTT
*
34012321 -TCTTCTTTT
1 ATTTTCTTTT
34012330 ACTTTTTCTTTT
1 A--TTTTCTTTT
34012342 ATTTTC-TTT
1 ATTTTCTTTT
34012351 ATTTTCTCTTT
1 ATTTTCT-TTT
34012362 A
1 A
34012363 CAAGAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
9 17 0.49
10 5 0.14
11 4 0.11
12 9 0.26
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (10 bp):
ATTTTCTTTT
Found at i:34012351 original size:21 final size:20
Alignment explanation
Indices: 34012312--34012361 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
34012302 TTTTATTTCA
34012312 TTTTCTTTTTCTTCTTTTACT
1 TTTTCTTTTTCTTCTTTTA-T
*
34012333 TTTTCTTTTATTTTC-TTTAT
1 TTTTCTTTT-TCTTCTTTTAT
34012353 TTTCTCTTT
1 TTT-TCTTT
34012362 ACAAGAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 4 0.15
21 18 0.69
22 4 0.15
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTCTTCTTTTAT
Found at i:34013302 original size:12 final size:12
Alignment explanation
Indices: 34013282--34013329 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 12
34013272 TTCATATTTT
34013282 TTTTCTTTTCGAAA
1 TTTT-TTTT-GAAA
*
34013296 TTTTTTTTTGAAT
1 -TTTTTTTTGAAA
34013309 TTTTTTTTG-AA
1 TTTTTTTTGAAA
34013320 TTTTTTTTGA
1 TTTTTTTTGA
34013330 CTTGTATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 10 0.33
12 9 0.30
13 3 0.10
14 4 0.13
15 4 0.13
ACGTcount: A:0.17, C:0.04, G:0.08, T:0.71
Consensus pattern (12 bp):
TTTTTTTTGAAA
Found at i:34013329 original size:11 final size:12
Alignment explanation
Indices: 34013294--34013327 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
34013284 TTCTTTTCGA
34013294 AATTTTTTTTTG
1 AATTTTTTTTTG
34013306 AATTTTTTTTTG
1 AATTTTTTTTTG
34013318 AATTTTTTTT
1 AATTTTTTTT
34013328 GACTTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:34016320 original size:10 final size:11
Alignment explanation
Indices: 34016300--34016332 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
34016290 TTTAAAACAA
34016300 ACATATTAAAC
1 ACATATTAAAC
34016311 ACAT-TTAAAC
1 ACATATTAAAC
*
34016321 ACTTATTAAAC
1 ACATATTAAAC
34016332 A
1 A
34016333 AAAAACACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (11 bp):
ACATATTAAAC
Found at i:34016713 original size:16 final size:16
Alignment explanation
Indices: 34016683--34016712 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34016673 TGTAAAGTTA
34016683 TTAATTTAAATAAAAC
1 TTAATTTAAATAAAAC
34016699 TTAA-TTAAATAAAA
1 TTAATTTAAATAAAA
34016713 AAGTCCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAATTTAAATAAAAC
Found at i:34017455 original size:24 final size:24
Alignment explanation
Indices: 34017428--34017476 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
34017418 CATAGTTTTG
34017428 GTCACTCATTCCATAATGTAGCAA
1 GTCACTCATTCCATAATGTAGCAA
34017452 GTCACTCATTCCATAATGTAGCAA
1 GTCACTCATTCCATAATGTAGCAA
34017476 G
1 G
34017477 AATTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (24 bp):
GTCACTCATTCCATAATGTAGCAA
Found at i:34018366 original size:15 final size:15
Alignment explanation
Indices: 34018343--34018376 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
34018333 TTCTTTTTTG
*
34018343 ATTTCTTTTTCTCTC
1 ATTTATTTTTCTCTC
*
34018358 ATTTATTTTTCTCTT
1 ATTTATTTTTCTCTC
34018373 ATTT
1 ATTT
34018377 CAATTTCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTATTTTTCTCTC
Found at i:34019307 original size:22 final size:22
Alignment explanation
Indices: 34019258--34019311 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
34019248 TTCTTTCTCT
34019258 TTTTCTTTTTACTTTCGAACATC
1 TTTT-TTTTTACTTTCGAACATC
* * **
34019281 CTTTTTTTTACTTTTGAATTTC
1 TTTTTTTTTACTTTCGAACATC
34019303 TTTTTTTTT
1 TTTTTTTTT
34019312 TCTACTACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.13, C:0.15, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTTTTTTACTTTCGAACATC
Found at i:34019388 original size:17 final size:17
Alignment explanation
Indices: 34019366--34019400 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34019356 TTTTCATGAA
34019366 TTTTTTTCAATTTTTTT
1 TTTTTTTCAATTTTTTT
**
34019383 TTTTTTTTTATTTTTTT
1 TTTTTTTCAATTTTTTT
34019400 T
1 T
34019401 CAAAACTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTTTCAATTTTTTT
Found at i:34020144 original size:24 final size:21
Alignment explanation
Indices: 34020097--34020146 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 21
34020087 CTACTAATGT
*
34020097 GTTCACACAACAATTAAAAAG
1 GTTCACACAAAAATTAAAAAG
*
34020118 GTTCACACTAAAACATTAAAGATG
1 GTTCACAC-AAAA-ATTAAA-AAG
34020142 GTTCA
1 GTTCA
34020147 TGAATTCAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 3 0.12
23 6 0.25
24 7 0.29
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (21 bp):
GTTCACACAAAAATTAAAAAG
Found at i:34025616 original size:20 final size:20
Alignment explanation
Indices: 34025574--34025618 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34025564 AAGCTGACCT
* *
34025574 AGCTCAATTCCAGCTCGTTG
1 AGCTCAATTCCAGCTCATCG
*
34025594 AGCTCAATTCTAGCTCATCG
1 AGCTCAATTCCAGCTCATCG
34025614 AGCTC
1 AGCTC
34025619 GTTTTCATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (20 bp):
AGCTCAATTCCAGCTCATCG
Found at i:34028151 original size:56 final size:56
Alignment explanation
Indices: 34028032--34028166 Score: 209
Period size: 56 Copynumber: 2.4 Consensus size: 56
34028022 CCATGGCATT
* * *
34028032 GATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATCTGACTCC
1 GATATATGTCTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATCTGACTCC
*
34028088 GATATATGTCTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGACTCC
1 GATATATGTCTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATCTGACTCC
*
34028144 GATATATGCGCT-CGAGTAAGACC
1 GATATATG-TCTGCGAGTAAGACC
34028167 CTGTCTGGGA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 71 0.97
57 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (56 bp):
GATATATGTCTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATCTGACTCC
Found at i:34028184 original size:56 final size:56
Alignment explanation
Indices: 34028035--34028195 Score: 190
Period size: 56 Copynumber: 2.9 Consensus size: 56
34028025 TGGCATTGAT
* * *
34028035 ATATAT-G-TGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATCTGACTCCG
1 ATATATGGCTGCGAGTAAGACCACGTTGAATACGTTGGCATCAATATGTGACTCCG
* *
34028089 ATATATGTCTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGACTCCG
1 ATATATGGCTGCGAGTAAGACCACGTTGAATACGTTGGCATCAATATGTGACTCCG
*
34028145 ATATATGCGCT-CGAGTAAGACC-CTGTCTGGGATA-G-TGGCATCAATATGTGA
1 ATATATG-GCTGCGAGTAAGACCAC-GT-T-GAATACGTTGGCATCAATATGTGA
34028196 TTACATGTAA
Statistics
Matches: 95, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
54 6 0.06
55 1 0.01
56 81 0.85
57 4 0.04
58 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (56 bp):
ATATATGGCTGCGAGTAAGACCACGTTGAATACGTTGGCATCAATATGTGACTCCG
Found at i:34033405 original size:39 final size:39
Alignment explanation
Indices: 34033348--34033428 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
34033338 GAACATATAT
* * *
34033348 TAATGATGTTCAAACTATGACATAATTAAAGACTCATAC
1 TAATAATGTTCAAACTATGACATAATTAAAGACACAAAC
34033387 TAATAATGTTCAAACTATGACATAATTAAAGACACAAAC
1 TAATAATGTTCAAACTATGACATAATTAAAGACACAAAC
34033426 TAA
1 TAA
34033429 AATAACTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (39 bp):
TAATAATGTTCAAACTATGACATAATTAAAGACACAAAC
Found at i:34034028 original size:34 final size:34
Alignment explanation
Indices: 34033960--34034030 Score: 83
Period size: 36 Copynumber: 2.1 Consensus size: 34
34033950 TCTCACTCTC
* *
34033960 TTTTTCTTTTTCAATTTCTTTTTTTATCATTTCCT
1 TTTTTCTTTCTCAATTTCTTTTTTTAGCA-TTCCT
34033995 TTTTTCTTCTCTCAATTTCTTTTTCTT-GC-TTCCT
1 TTTTTCTT-TCTCAATTTCTTTTT-TTAGCATTCCT
34034029 TT
1 TT
34034031 CATTACAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 7 0.22
35 8 0.25
36 15 0.47
37 2 0.06
ACGTcount: A:0.08, C:0.21, G:0.01, T:0.69
Consensus pattern (34 bp):
TTTTTCTTTCTCAATTTCTTTTTTTAGCATTCCT
Found at i:34034647 original size:63 final size:63
Alignment explanation
Indices: 34034536--34034659 Score: 146
Period size: 63 Copynumber: 2.0 Consensus size: 63
34034526 ACATCTTAAG
* * *
34034536 TTGATGCAAACCCAGTCGCATCATGTTATGACACAACTCGATGCCATCGATATTGGCCTAAAC
1 TTGATACAAACCCAGTCGCATCATGTTATGACACAACTCGATGCCATCGAGAATGGCCTAAAC
* * *
34034599 TTGATACAAACCTAGTCGTATCATGTTTTGACACAGAC-C-AT-CAACATCGAGAATGGCCTAA
1 TTGATACAAACCCAGTCGCATCATGTTATGACACA-ACTCGATGC--CATCGAGAATGGCCTAA
34034660 GCTCGAAGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
61 1 0.02
62 2 0.04
63 47 0.90
64 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (63 bp):
TTGATACAAACCCAGTCGCATCATGTTATGACACAACTCGATGCCATCGAGAATGGCCTAAAC
Found at i:34035266 original size:29 final size:29
Alignment explanation
Indices: 34035233--34035291 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
34035223 CATATTAATT
*
34035233 GAGCTGCTGGTG-TATGGAACAGCATTAAA
1 GAGCTGCTGGTGCT-TAGAACAGCATTAAA
*
34035262 GAGCTGCTGGTGCTTAGAACGGCATTAAA
1 GAGCTGCTGGTGCTTAGAACAGCATTAAA
34035291 G
1 G
34035292 GAGTTGTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (29 bp):
GAGCTGCTGGTGCTTAGAACAGCATTAAA
Found at i:34038650 original size:34 final size:35
Alignment explanation
Indices: 34038599--34038670 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
34038589 ATTCTGTAGT
*
34038599 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
* *
34038633 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGACAG
34038668 TAG
1 TAG
34038671 CTAGGATACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 6 0.18
34 15 0.45
35 12 0.36
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
Found at i:34042585 original size:24 final size:25
Alignment explanation
Indices: 34042558--34042651 Score: 84
Period size: 26 Copynumber: 3.7 Consensus size: 25
34042548 GAGGAAGTGC
*
34042558 AAAAGGGCTATGCCCTA-ATTACAG
1 AAAAGGGCTATGCCCCAGATTACAG
* * *
34042582 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGATTACAG
* *
34042607 AAAAGGGCTTTTGCCCCAGTTTATCA-
1 AAAAGGGC-TATGCCCCAGATTA-CAG
*
34042633 AAAAGGGCTTTTGCCCCAG
1 AAAAGGGC-TATGCCCCAG
34042652 TTATTAAAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
24 15 0.24
25 13 0.21
26 33 0.53
27 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGATTACAG
Found at i:34042626 original size:26 final size:26
Alignment explanation
Indices: 34042576--34042653 Score: 122
Period size: 26 Copynumber: 3.0 Consensus size: 26
34042566 TATGCCCTAA
*
34042576 TTACAGAAAAGGGC-TTTGCCCCAGT
1 TTACCGAAAAGGGCTTTTGCCCCAGT
34042601 TTACCGAAAAGGGCTTTTGCCCCAGT
1 TTACCGAAAAGGGCTTTTGCCCCAGT
* *
34042627 TTATCAAAAAGGGCTTTTGCCCCAGT
1 TTACCGAAAAGGGCTTTTGCCCCAGT
34042653 T
1 T
34042654 ATTAAAAGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
25 13 0.27
26 36 0.73
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (26 bp):
TTACCGAAAAGGGCTTTTGCCCCAGT
Found at i:34042666 original size:25 final size:25
Alignment explanation
Indices: 34042582--34042666 Score: 111
Period size: 26 Copynumber: 3.4 Consensus size: 25
34042572 CTAATTACAG
*
34042582 AAAAGGGC-TTTGCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
34042606 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
*
34042632 AAAAAGGGCTTTTGCCCCAG-TTATT
1 -AAAAGGGCTTTTGCCCCAGTTTATC
34042657 AAAAGAGGCT
1 AAAAG-GGCT
34042667 AGGCCTCCAG
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
24 5 0.09
25 16 0.29
26 34 0.62
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:34050457 original size:24 final size:24
Alignment explanation
Indices: 34050430--34050475 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
34050420 TATAGTATGG
* * *
34050430 AAATGACTATTTTGCCCCTAGGTA
1 AAATGACCATTATACCCCTAGGTA
34050454 AAATGACCATTATACCCCTAGG
1 AAATGACCATTATACCCCTAGG
34050476 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (24 bp):
AAATGACCATTATACCCCTAGGTA
Found at i:34050538 original size:11 final size:10
Alignment explanation
Indices: 34050506--34050551 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
34050496 CATGAGATTT
34050506 TGATAT-ACA
1 TGATATGACA
*
34050515 TGATTTGACA
1 TGATATGACA
34050525 TGATATGCACA
1 TGATATG-ACA
*
34050536 TGATATG-TA
1 TGATATGACA
34050545 TGATATG
1 TGATATG
34050552 CACGTGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 13 0.41
10 9 0.28
11 10 0.31
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (10 bp):
TGATATGACA
Found at i:34050633 original size:24 final size:25
Alignment explanation
Indices: 34050606--34050689 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
34050596 GAGGAAGTGC
34050606 AAAAGGGCTATG-CCCTAG-TTACAG
1 AAAAGGGCTATGTCCC-AGTTTACAG
* *
34050630 AAAAGGGCTTTGTCCCAGTTTACCG
1 AAAAGGGCTATGTCCCAGTTTACAG
* * *
34050655 AAAAGGGCTTTTTCCCCTGTTTATCA-
1 AAAAGGGCTATGT-CCCAGTTTA-CAG
34050681 AAAAGGGCT
1 AAAAGGGCT
34050690 TTTGCCCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 13 0.25
25 20 0.39
26 17 0.33
27 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTATGTCCCAGTTTACAG
Found at i:34050708 original size:25 final size:26
Alignment explanation
Indices: 34050606--34050701 Score: 92
Period size: 26 Copynumber: 3.8 Consensus size: 26
34050596 GAGGAAGTGC
* *
34050606 AAAAGGGC-TATGCCCTAG-TTA-CA
1 AAAAGGGCTTTTGCCCCAGTTTATCA
* * *
34050629 GAAAAGGGC-TTTGTCCCAGTTTACCG
1 -AAAAGGGCTTTTGCCCCAGTTTATCA
* *
34050655 AAAAGGGCTTTTTCCCCTGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTATCA
34050681 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
34050702 ATTAAAAGAG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
24 15 0.26
25 11 0.19
26 32 0.55
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTATCA
Found at i:34050714 original size:25 final size:26
Alignment explanation
Indices: 34050630--34050714 Score: 72
Period size: 26 Copynumber: 3.4 Consensus size: 26
34050620 CTAGTTACAG
* *
34050630 AAAAG-GGC-TTTGTCCCAGTTTACC
1 AAAAGAGGCTTTTGCCCCAGTTTATC
* *
34050654 GAAAAG-GGCTTTTTCCCCTGTTTATC
1 -AAAAGAGGCTTTTGCCCCAGTTTATC
*
34050680 AAAA-AGGGCTTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTTGCCCCAGTTTATC
34050705 AAAAGAGGCT
1 AAAAGAGGCT
34050715 AGGCCTTCTG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
25 24 0.49
26 25 0.51
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (26 bp):
AAAAGAGGCTTTTGCCCCAGTTTATC
Found at i:34050963 original size:31 final size:31
Alignment explanation
Indices: 34050925--34050988 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
34050915 CGTTTACAGT
34050925 AAAGGCTTCAGCCCAGTAACATGAAATATGA
1 AAAGGCTTCAGCCCAGTAACATGAAATATGA
* ***
34050956 AAAGGCTTCAGCGCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAACATGAAATATGA
34050987 AA
1 AA
34050989 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAACATGAAATATGA
Found at i:34052555 original size:60 final size:59
Alignment explanation
Indices: 34052484--34052618 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 59
34052474 CTGTGTTAAT
* *
34052484 ATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTGAC
1 ATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTGAC
* * * * *
34052544 ATGGGCTAGGCCCAGTATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTGAT
1 ATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTGAC
34052604 ATGGGCTAAGGCCCA
1 ATGGGCT-AGGCCCA
34052619 GTTAACTCTG
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.02
60 48 0.75
61 15 0.23
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (59 bp):
ATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTGAC
Found at i:34054384 original size:50 final size:51
Alignment explanation
Indices: 34054328--34054432 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 51
34054318 TGTTCTGCAT
**
34054328 TTAATAAAGTA-ATGCATTATGTAACTTTCATGTTAG-TTAAGTATGCATCA
1 TTAATAAAG-ACATGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCA
* * * *
34054378 TTAATAATGACTTGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATTA
1 TTAATAAAGACATGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCA
34054429 TTAA
1 TTAA
34054433 ATTAAGTCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.02
50 30 0.64
51 16 0.34
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (51 bp):
TTAATAAAGACATGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCA
Found at i:34060251 original size:43 final size:43
Alignment explanation
Indices: 34060203--34060289 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
34060193 TCTTCTACGG
*
34060203 AATGCCGTTACCAATACTCGGTAGTATTTCACATTTTCCAAGT
1 AATGCCGATACCAATACTCGGTAGTATTTCACATTTTCCAAGT
*
34060246 AATGCCGATACCGATACTCGGTAGTATTTCACATTTTCCAAGT
1 AATGCCGATACCAATACTCGGTAGTATTTCACATTTTCCAAGT
34060289 A
1 A
34060290 TATCACATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (43 bp):
AATGCCGATACCAATACTCGGTAGTATTTCACATTTTCCAAGT
Found at i:34065740 original size:24 final size:24
Alignment explanation
Indices: 34065662--34065797 Score: 87
Period size: 24 Copynumber: 5.6 Consensus size: 24
34065652 TTTAAAGGTC
* *
34065662 CGCACACATAGTGCTCTTACTCAT-T
1 CGCACACATAGTGC-CATA-TAATCT
* * *
34065687 CGCACACATAGTGCCGTGT-TTCCT
1 CGCACACATAGTGCCATATAAT-CT
* *
34065711 CACACACATAGTGCTATATAATCT
1 CGCACACATAGTGCCATATAATCT
* * *
34065735 CGCACACATAGTGCCATGTAGTTTT
1 CGCACACATAGTGCCATATA-ATCT
* ** * *
34065760 TGCACACATAGTGCCGCATAACCA
1 CGCACACATAGTGCCATATAATCT
34065784 CGCACACATAGTGC
1 CGCACACATAGTGC
34065798 TGAAATTTAT
Statistics
Matches: 85, Mismatches: 22, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 50 0.59
25 33 0.39
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (24 bp):
CGCACACATAGTGCCATATAATCT
Found at i:34065766 original size:49 final size:47
Alignment explanation
Indices: 34065662--34065797 Score: 123
Period size: 49 Copynumber: 2.8 Consensus size: 47
34065652 TTTAAAGGTC
* *
34065662 CGCACACATAGTGCTCT-TACTCATTCGCACACATAGTGCCGTGTTTCCT
1 CGCACACATAGTGCTATATAATC--TCGCACACATAGTGCCGTGTTT-CT
*
34065711 CACACACATAGTGCTATATAATCTCGCACACATAGTGCCATGTAGTTT-T
1 CGCACACATAGTGCTATATAATCTCGCACACATAGTGCC--GT-GTTTCT
* *** * *
34065760 TGCACACATAGTGCCGCATAACCACGCACACATAGTGC
1 CGCACACATAGTGCTATATAATCTCGCACACATAGTGC
34065798 TGAAATTTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
48 16 0.22
49 47 0.64
50 6 0.08
51 4 0.05
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (47 bp):
CGCACACATAGTGCTATATAATCTCGCACACATAGTGCCGTGTTTCT
Found at i:34066639 original size:27 final size:27
Alignment explanation
Indices: 34066615--34067046 Score: 602
Period size: 27 Copynumber: 16.1 Consensus size: 27
34066605 ATCCATTTTA
* * **
34066615 GTAATTCTACCATATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
34066642 GTAATTCTACCGTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
34066669 GTAATTCTATCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
34066696 GTAATTCTATCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
34066723 ATAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * **
34066750 GTAATTCTACCATATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
34066777 GTAATTCTACCCTACATGAGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
34066804 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
34066831 GTAATTCTACCCTACA-GGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
34066857 GTAATTCTACCGTACA-GGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
34066883 GTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
34066910 ATAATTTTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
34066937 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
34066964 GTAATTCTA-CCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
34066990 GTAATTCTACCTTACA-AGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
34067016 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
34067043 GTAA
1 GTAA
34067047 CTTTTTTGAT
Statistics
Matches: 359, Mismatches: 43, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
26 96 0.27
27 263 0.73
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:34066933 original size:133 final size:133
Alignment explanation
Indices: 34066615--34067040 Score: 640
Period size: 133 Copynumber: 3.2 Consensus size: 133
34066605 ATCCATTTTA
* * * *
34066615 GTAATTCTACCATATAGGGGTATTTTAGTAATTCTACCGTACAGGGGTATTTCGGTAATTCTATC
1 GTAATTCTACCATACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
*
34066680 CTACAGGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTA
66 CTACAGGGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCGGTAATTCTACCCTAC-AGGGTA
34066745 TTTCG
129 TTTCG
* * * *
34066750 GTAATTCTACCATATAGGGGTATTTTAGTAATTCTACCCTACATGAGTATTTTGGTAATTCTACC
1 GTAATTCTACCATACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
*
34066815 CTACAGGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTCGGTAATTCTACCGTACAGGGTAT
66 CTACAGGGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTAT
34066879 TTCG
130 TTCG
* *
34066883 GTAATTCTACCCTACAGGGGTATTTT-GATAATTTTACCCTACAAGGGTATTTCGGTAATTCTAC
1 GTAATTCTACCATACAGGGGTATTTTAG-TAATTCTACCCTACAAGGGTATTTCGGTAATTCTAC
* * * *
34066947 CCTACAGGGGTATTTCGGTAATTCTACCTATAGGGGTATTTCAGTAATTCTACCTTACAAGGTAT
65 CCTACAGGGGTATTTCGGTAATTCTACCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTAT
34067012 TTCG
130 TTCG
* *
34067016 ATAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCATACAGGGGTATTT
34067041 CGGTAACTTT
Statistics
Matches: 270, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
132 6 0.02
133 150 0.56
134 23 0.09
135 91 0.34
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (133 bp):
GTAATTCTACCATACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
CTACAGGGGTATTTCGGTAATTCTACCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTATT
TCG
Found at i:34069134 original size:31 final size:31
Alignment explanation
Indices: 34069096--34069167 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
34069086 ATCAAAATGT
* * *
34069096 GAATCAGAATCAGAATTAGGTGACAGAATTA
1 GAATCAGAATCAGAATCAGGTAACAGAATCA
* *
34069127 GAATCAGAATTAGTATCAGGTAACAGAATCA
1 GAATCAGAATCAGAATCAGGTAACAGAATCA
*
34069158 AAATCAGAAT
1 GAATCAGAAT
34069168 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.22
Consensus pattern (31 bp):
GAATCAGAATCAGAATCAGGTAACAGAATCA
Found at i:34069701 original size:27 final size:27
Alignment explanation
Indices: 34069662--34069771 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
34069652 TCGATCAGTC
*
34069662 AACAGATA-TTGTGGCAGAGTCACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
34069688 ATACAGATA-TTGTGGCAGAGCCACCAG
1 A-ACAGATATTTGTGGCAGAGCCACCAG
* *
34069715 AACAGATATTTGTGGCATA-ACACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
* *
34069741 AAACAGATATTTGTGACATAGCCACCAG
1 -AACAGATATTTGTGGCAGAGCCACCAG
34069769 AAC
1 AAC
34069772 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
26 14 0.19
27 55 0.73
28 6 0.08
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (27 bp):
AACAGATATTTGTGGCAGAGCCACCAG
Found at i:34069747 original size:53 final size:54
Alignment explanation
Indices: 34069662--34069771 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
34069652 TCGATCAGTC
* * *
34069662 AACAGATATTGTGGCAGAGTCACCAGATACAGATA-TTGTGGCAGAGCCACCAG
1 AACAGATATTGTGGCAGAGACACCAGAAACAGATATTTGTGACAGAGCCACCAG
* *
34069715 AACAGATATTTGTGGCATA-ACACCAGAAACAGATATTTGTGACATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGACACCAGAAACAGATATTTGTGACAGAGCCACCAG
34069769 AAC
1 AAC
34069772 GCTTCCTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 22 0.44
54 28 0.56
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (54 bp):
AACAGATATTGTGGCAGAGACACCAGAAACAGATATTTGTGACAGAGCCACCAG
Found at i:34070024 original size:27 final size:27
Alignment explanation
Indices: 34069995--34070589 Score: 831
Period size: 27 Copynumber: 22.2 Consensus size: 27
34069985 GGGGTAAAAT
* * * *
34069995 GGTAATTTTACCCCATAAGGGTATCTT-
1 GGTAATTCTACCCTACAGGGGTAT-TTC
*
34070022 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34070049 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34070076 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34070103 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
34070130 ACTAATTTTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34070157 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34070184 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
34070211 GGTAATTCTACCATATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34070238 AGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34070265 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34070292 TGTAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34070318 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
34070345 GGTAATTCTACCATATAGGGGAATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34070372 AGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34070399 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34070426 TGTAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34070452 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34070479 GGTAATTCTACCCTACAGGTGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34070506 GGTAATTCTA-CCTACAGGGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34070532 AGTAATTCTACCTTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34070558 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34070585 GGTAA
1 GGTAA
34070590 CTTTCTTGAT
Statistics
Matches: 507, Mismatches: 56, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
26 97 0.19
27 410 0.81
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:34071184 original size:20 final size:20
Alignment explanation
Indices: 34071156--34071198 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
34071146 CATATAAATA
* *
34071156 AAAACTTATAATTATTTTTT
1 AAAACTTATAATGAATTTTT
* *
34071176 AAAATTTATTATGAATTTTT
1 AAAACTTATAATGAATTTTT
34071196 AAA
1 AAA
34071199 GTTAGAATAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AAAACTTATAATGAATTTTT
Found at i:34072142 original size:46 final size:46
Alignment explanation
Indices: 34072067--34072233 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
34072057 AACCCGCCCC
* *
34072067 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
*
34072113 TAAGAGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACATCCA
* * * * *
34072161 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
*
34072206 TAGGTGAACTCGGACTCAACTCAACGAG
1 TAAGTGAACTCGGACTCAACTCAACGAG
34072234 TTCAGATGCT
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 54 0.53
47 27 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
Found at i:34072182 original size:93 final size:93
Alignment explanation
Indices: 34072072--34072242 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
34072062 GCCCCTAAGT
* * * *
34072072 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGAGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGAGAACTCGGACTCAACTCAA
*
34072137 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCAGATGCCTAGTTACATCTCAC
* * *
34072165 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGAGAACTCGGACTCAACTCAA
*
34072230 CGAGTTCAGATGC
66 CGAGCTCAGATGC
34072243 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGAGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:34077313 original size:55 final size:55
Alignment explanation
Indices: 34077229--34077337 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
34077219 AAATCTCGAG
*
34077229 TTCCCTACACTGGCTGCCGAAGTAGTCTGGGATTTAGGACCCACATTTTGCTTCT
1 TTCCCTACACTGGCTACCGAAGTAGTCTGGGATTTAGGACCCACATTTTGCTTCT
34077284 TTCCCTACACTGGCTACCGAAGTAGTCTGGGATTTAGGACCCACATTTTGCTTC
1 TTCCCTACACTGGCTACCGAAGTAGTCTGGGATTTAGGACCCACATTTTGCTTC
34077338 CTATAATTCC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (55 bp):
TTCCCTACACTGGCTACCGAAGTAGTCTGGGATTTAGGACCCACATTTTGCTTCT
Found at i:34081442 original size:37 final size:36
Alignment explanation
Indices: 34081358--34081458 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 36
34081348 ATCATAGTGG
* * *
34081358 CATGCTTAACATGCGAATCAGAATA-AAAAATTTGA
1 CATGCTTAACATGCGAATCAGAACATCAAAATTTAA
*
34081393 CATGCTTAACATGCGAATCAGAACATCAGAATATTAA
1 CATGCTTAACATGCGAATCAGAACATCAAAAT-TTAA
* ** *
34081430 CATGTTTAACATGTAAATTAGAACATCAA
1 CATGCTTAACATGCGAATCAGAACATCAA
34081459 TAACTCAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 24 0.44
36 4 0.07
37 27 0.49
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.27
Consensus pattern (36 bp):
CATGCTTAACATGCGAATCAGAACATCAAAATTTAA
Found at i:34082368 original size:25 final size:25
Alignment explanation
Indices: 34082317--34082368 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
34082307 GGTGGTCGAT
* * *
34082317 GGCGGTGGTGCGACAGTGCAACGGA
1 GGCGATGGTGCGACAGTACAACAGA
* *
34082342 GGCGATGGTGCGATAGTATAACAGA
1 GGCGATGGTGCGACAGTACAACAGA
34082367 GG
1 GG
34082369 TAGTGGTGAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.15, G:0.44, T:0.15
Consensus pattern (25 bp):
GGCGATGGTGCGACAGTACAACAGA
Found at i:34082417 original size:3 final size:3
Alignment explanation
Indices: 34082409--34082433 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
34082399 GTGACCTTGA
34082409 GTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG G
34082434 AGTGTAGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:34084452 original size:20 final size:20
Alignment explanation
Indices: 34084427--34084465 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34084417 TTTTGAAAAG
34084427 CTCTGTTTT-AAGTTACGATA
1 CTCTGTTTTCAA-TTACGATA
34084447 CTCTGTTTTCAATTACGAT
1 CTCTGTTTTCAATTACGAT
34084466 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
CTCTGTTTTCAATTACGATA
Found at i:34084607 original size:40 final size:40
Alignment explanation
Indices: 34084552--34084773 Score: 205
Period size: 40 Copynumber: 5.5 Consensus size: 40
34084542 TTTTTCAAGC
* * *
34084552 TGTGTATCAGAAAAGCTCCCATGTGAGATTATGGATAAAT
1 TGTGTATCAGCAAAGCTCCCATGTGAGCTTATGGATAAGT
** * * *
34084592 TGTGTATCAGCAAAGCTTTCTTGTGAGTTTATGGATAAGC
1 TGTGTATCAGCAAAGCTCCCATGTGAGCTTATGGATAAGT
* * *
34084632 TGTGTATCAGTAAAGTTCCCTTGTGAGCTTATGGATAAGT
1 TGTGTATCAGCAAAGCTCCCATGTGAGCTTATGGATAAGT
* * * * *
34084672 TGTGTATTAGCACAGCTCCCCTGTGAGC-TAAGGACAAGT
1 TGTGTATCAGCAAAGCTCCCATGTGAGCTTATGGATAAGT
* * ** *
34084711 TGTGCATCA-AAGAAGCTCCCCACATGAGCTTAAGTGATGAAGT
1 TGTGTATCAGCA-AAGCT-CCCATGTGAGCTTATG-GAT-AAGT
34084754 TGTGTATCAGCAAAGCTCCC
1 TGTGTATCAGCAAAGCTCCC
34084774 CATGCGACTT
Statistics
Matches: 146, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
38 1 0.01
39 20 0.14
40 98 0.67
41 4 0.03
42 5 0.03
43 17 0.12
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (40 bp):
TGTGTATCAGCAAAGCTCCCATGTGAGCTTATGGATAAGT
Found at i:34087521 original size:21 final size:21
Alignment explanation
Indices: 34087495--34087536 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
34087485 GTGGAAAACA
*
34087495 ATGGGCAAACCTTAGGTGATG
1 ATGGGCAAACCTCAGGTGATG
34087516 ATGGGCAAACCTCAGGTGATG
1 ATGGGCAAACCTCAGGTGATG
34087537 CTGAGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (21 bp):
ATGGGCAAACCTCAGGTGATG
Found at i:34094959 original size:14 final size:14
Alignment explanation
Indices: 34094923--34094961 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
34094913 TTGTTTCACT
*
34094923 GAAAATGACTTCCA
1 GAAAATGATTTCCA
**
34094937 GAAAATGATTTCTG
1 GAAAATGATTTCCA
34094951 GAAAATGATTT
1 GAAAATGATTT
34094962 ACTTTTCTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCA
Found at i:34095535 original size:20 final size:22
Alignment explanation
Indices: 34095506--34095566 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
34095496 AATAAAATTG
*
34095506 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
34095526 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
34095548 TATTAATAATTTATTATTT
1 AAATAATAAATTA-TATTT
34095567 GAATAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 18 0.53
23 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:34097842 original size:17 final size:17
Alignment explanation
Indices: 34097822--34097873 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
34097812 TTTAAAAAAA
34097822 ATTTATG-ATCTTTTTAT
1 ATTTATGAAT-TTTTTAT
34097839 ATTTTATGAATTTTTTAT
1 A-TTTATGAATTTTTTAT
34097857 -TTT-TGAATATTTTTAT
1 ATTTATGAAT-TTTTTAT
34097873 A
1 A
34097874 ATTTTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 5 0.16
16 10 0.32
17 1 0.03
18 13 0.42
19 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (17 bp):
ATTTATGAATTTTTTAT
Found at i:34097846 original size:18 final size:18
Alignment explanation
Indices: 34097823--34097878 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
34097813 TTAAAAAAAA
*
34097823 TTTATGATCTTTTTATAT
1 TTTATGATATTTTTATAT
34097841 TTTATGA-ATTTTT-TAT
1 TTTATGATATTTTTATAT
34097857 TTT-TGAATATTTTTATAAT
1 TTTATG-ATATTTTTAT-AT
34097876 TTT
1 TTT
34097879 TAAATTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 2 0.06
16 7 0.21
17 11 0.33
18 8 0.24
19 5 0.15
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTATGATATTTTTATAT
Found at i:34097857 original size:16 final size:15
Alignment explanation
Indices: 34097832--34097872 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 15
34097822 ATTTATGATC
34097832 TTTTTATATTTTATGAA
1 TTTTT-TATTTT-TGAA
34097849 TTTTTTATTTTTGAA
1 TTTTTTATTTTTGAA
34097864 TATTTTTAT
1 T-TTTTTAT
34097873 AATTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.22
16 13 0.57
17 5 0.22
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (15 bp):
TTTTTTATTTTTGAA
Found at i:34098082 original size:16 final size:16
Alignment explanation
Indices: 34098061--34098105 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
34098051 ATTTAGTTTA
34098061 AAAAAATTAAATTTTT
1 AAAAAATTAAATTTTT
*
34098077 AAAAAATATAAA-TATT
1 AAAAAAT-TAAATTTTT
34098093 -AAAAATTAAATTT
1 AAAAAATTAAATTT
34098106 CTCGTTATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 4 0.16
15 7 0.28
16 10 0.40
17 4 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAAATTAAATTTTT
Found at i:34112225 original size:25 final size:25
Alignment explanation
Indices: 34112197--34112245 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
34112187 AACCCTCTCT
*
34112197 TGAGCCATATAACGGGAAGCTTATG
1 TGAGCCATATAACGAGAAGCTTATG
*
34112222 TGAGCCATGTAACGAGAAGCTTAT
1 TGAGCCATATAACGAGAAGCTTAT
34112246 TCAGGCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (25 bp):
TGAGCCATATAACGAGAAGCTTATG
Found at i:34112333 original size:23 final size:23
Alignment explanation
Indices: 34112303--34112348 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
34112293 TGAAGAACCA
34112303 TATCGGGAAGCTCACAAAGAGCC
1 TATCGGGAAGCTCACAAAGAGCC
* *
34112326 TATCGGGAAGTTCATAAAGAGCC
1 TATCGGGAAGCTCACAAAGAGCC
34112349 ATGTAACGGA
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:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (23 bp):
TATCGGGAAGCTCACAAAGAGCC
Found at i:34115658 original size:17 final size:17
Alignment explanation
Indices: 34115636--34115673 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
34115626 GAATTGGACT
34115636 TGTGGGCCACATGGGCG
1 TGTGGGCCACATGGGCG
*
34115653 TGTGGGCCACATGTGCG
1 TGTGGGCCACATGGGCG
34115670 TGTG
1 TGTG
34115674 ATATATGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.21, G:0.45, T:0.24
Consensus pattern (17 bp):
TGTGGGCCACATGGGCG
Found at i:34122796 original size:61 final size:62
Alignment explanation
Indices: 34122701--34122824 Score: 232
Period size: 61 Copynumber: 2.0 Consensus size: 62
34122691 AACTTGGTTA
34122701 AAATTTACTCAAACTAATAAATAACATATAAATAAAAATTAAATAATTTCT-AAAATTAAAT
1 AAATTTACTCAAACTAATAAATAACATATAAATAAAAATTAAATAATTTCTAAAAATTAAAT
*
34122762 AAATTTACTCAAACTAATAAGTAACATATAAATAAAAATTAAATAATTTCTAAAAATTAAAT
1 AAATTTACTCAAACTAATAAATAACATATAAATAAAAATTAAATAATTTCTAAAAATTAAAT
34122824 A
1 A
34122825 TAATAATTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 50 0.82
62 11 0.18
ACGTcount: A:0.59, C:0.08, G:0.01, T:0.32
Consensus pattern (62 bp):
AAATTTACTCAAACTAATAAATAACATATAAATAAAAATTAAATAATTTCTAAAAATTAAAT
Found at i:34124025 original size:10 final size:10
Alignment explanation
Indices: 34124010--34124040 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
34124000 ATGACAATTT
34124010 TTTAAATATA
1 TTTAAATATA
34124020 TTTAAATATA
1 TTTAAATATA
34124030 -TTAAATATA
1 TTTAAATATA
34124039 TT
1 TT
34124041 ATTTATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTAAATATA
Found at i:34124035 original size:9 final size:9
Alignment explanation
Indices: 34124011--34124041 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
34124001 TGACAATTTT
34124011 TTAAATATA
1 TTAAATATA
34124020 TTTAAATATA
1 -TTAAATATA
34124030 TTAAATATA
1 TTAAATATA
34124039 TTA
1 TTA
34124042 TTTATTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTAAATATA
Found at i:34130163 original size:52 final size:49
Alignment explanation
Indices: 34130090--34130201 Score: 134
Period size: 52 Copynumber: 2.2 Consensus size: 49
34130080 AATGGTAAAA
* * * * *
34130090 TAAAAAATTTAATCCTTAACATTTATATATTATATCAATTTAATCGTAATTC
1 TAAAAAAATTAACCCTGAACATTTACATATTATATC--TTCAAT-GTAATTC
* *
34130142 TAAAAAAATTAACCCTGAACATTTACATATTATATCTTCAATTTGATTC
1 TAAAAAAATTAACCCTGAACATTTACATATTATATCTTCAATGTAATTC
34130191 TAAAAAAATTA
1 TAAAAAAATTA
34130202 TAAATTTCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 16 0.30
50 5 0.09
52 32 0.60
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (49 bp):
TAAAAAAATTAACCCTGAACATTTACATATTATATCTTCAATGTAATTC
Found at i:34130275 original size:38 final size:39
Alignment explanation
Indices: 34130210--34130286 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 39
34130200 TATAAATTTC
34130210 TTTTCTTTTTTACTTCTATTCTGTTTTCCTTCTCTTTTT
1 TTTTCTTTTTTACTTCTATTCTGTTTTCCTTCTCTTTTT
** *
34130249 TTTTCTTTTTTTTTTC-ATT-TGATTTTCCTTTTCTTTTT
1 TTTTCTTTTTTACTTCTATTCTG-TTTTCCTTCTCTTTTT
34130287 CGTCCTCACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 2 0.06
38 18 0.53
39 14 0.41
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (39 bp):
TTTTCTTTTTTACTTCTATTCTGTTTTCCTTCTCTTTTT
Found at i:34138145 original size:63 final size:63
Alignment explanation
Indices: 34138068--34138318 Score: 493
Period size: 63 Copynumber: 4.0 Consensus size: 63
34138058 AGAGAATAAA
34138068 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAAGATACAGTTAGTTTCTTGC
1 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAAGATACAGTTAGTTTCTTGC
34138131 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAAGATACAGTTAGTTTCTTGC
1 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAAGATACAGTTAGTTTCTTGC
34138194 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAAGATACAGTTAGTTTCTTGC
1 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAAGATACAGTTAGTTTCTTGC
*
34138257 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAACATACAGTTAGTTTCTTG
1 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAAGATACAGTTAGTTTCTTG
34138319 GATTGCAATT
Statistics
Matches: 187, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 187 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (63 bp):
ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAAGATACAGTTAGTTTCTTGC
Found at i:34139645 original size:23 final size:22
Alignment explanation
Indices: 34139619--34139668 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
34139609 ATATAAATTT
34139619 TAAAATC-TAAAAACTAAAACAA
1 TAAAATCATAAAAA-TAAAACAA
* *
34139641 CTAAATTCATAAAAATAAAATAA
1 -TAAAATCATAAAAATAAAACAA
34139664 TAAAA
1 TAAAA
34139669 ATTTTAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 4 0.17
23 13 0.57
24 6 0.26
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAAATCATAAAAATAAAACAA
Found at i:34140341 original size:29 final size:31
Alignment explanation
Indices: 34140291--34140350 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
34140281 TTTATGTTAA
*
34140291 TTATAAATATAATTATAATTATATTATTTTT
1 TTATAAATATAATTATAATTATATTAATTTT
*
34140322 TTATAAATA-ACTTAT-ATTATATTAATTTT
1 TTATAAATATAATTATAATTATATTAATTTT
34140351 AAAAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 13 0.48
30 5 0.19
31 9 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
TTATAAATATAATTATAATTATATTAATTTT
Found at i:34140598 original size:86 final size:85
Alignment explanation
Indices: 34140442--34140607 Score: 228
Period size: 86 Copynumber: 1.9 Consensus size: 85
34140432 ATTTTTAATT
* * * *
34140442 TTTTTTAAAAAAGCAATTAAGTCCTTATTTTTTTCACTCAATTGGGTACTTAAACTTTTAAAATG
1 TTTTTTAAAAAAGCAATTAAGTCCTTATTTTTTGCACTCAATTAGGTACTTAAACTTTCAAAATA
34140507 CATCAAAAAAGCCCTCAAAA
66 CATCAAAAAAGCCCTCAAAA
* *
34140527 TTTTTTAAATAAAGCAATTAAGGTCCTT-TTTTTTGCACTCAATTAGGTACTTGAA-TTGTCAAT
1 TTTTTTAAA-AAAGCAATTAA-GTCCTTATTTTTTGCACTCAATTAGGTACTTAAACTT-TCAAA
*
34140590 ATATATCAAAAAAGCCCT
63 ATACATCAAAAAAGCCCT
34140608 TTCACTGTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 11 0.15
86 54 0.76
87 6 0.08
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (85 bp):
TTTTTTAAAAAAGCAATTAAGTCCTTATTTTTTGCACTCAATTAGGTACTTAAACTTTCAAAATA
CATCAAAAAAGCCCTCAAAA
Found at i:34140792 original size:20 final size:18
Alignment explanation
Indices: 34140767--34140808 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
34140757 ATATAATTAT
34140767 AAATCAGAACAAAATTATAA
1 AAATCA-AA-AAAATTATAA
*
34140787 AAATCATAAAAATTATAA
1 AAATCAAAAAAATTATAA
34140805 AAAT
1 AAAT
34140809 TTATTAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 1 0.05
20 6 0.29
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (18 bp):
AAATCAAAAAAATTATAA
Found at i:34140805 original size:50 final size:48
Alignment explanation
Indices: 34140751--34140886 Score: 120
Period size: 50 Copynumber: 2.8 Consensus size: 48
34140741 TTAAATTTTA
* *
34140751 ATAAAAATATAATTATAAATCAGAACAAAATTATAAAAAT-CATAAAAATT
1 ATAAAAAT-T-ATTATAAATCAGAA-AAAATTATAAAAATAAAAAAAAATT
*
34140801 ATAAAAATTTATTA-AAAGC-GTAAAAAATTATAAAATATAGAAAAAAAATT
1 ATAAAAA-TTATTATAAATCAG-AAAAAATTATAAAA-ATA-AAAAAAAATT
*
34140851 AT-AAAATT-TTATAAAGTCATAAGAAAATTATAAAAA
1 ATAAAAATTATTATAAA-TCAGAA-AAAATTATAAAAA
34140887 AGGAAAGAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
47 16 0.22
48 13 0.18
49 12 0.17
50 30 0.42
51 1 0.01
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (48 bp):
ATAAAAATTATTATAAATCAGAAAAAATTATAAAAATAAAAAAAAATT
Found at i:34140807 original size:10 final size:10
Alignment explanation
Indices: 34140777--34140887 Score: 52
Period size: 10 Copynumber: 11.4 Consensus size: 10
34140767 AAATCAGAAC
34140777 AAAATTAT-A
1 AAAATTATAA
*
34140786 AAAATCAT-A
1 AAAATTATAA
34140795 AAAATTATAA
1 AAAATTATAA
* *
34140805 AAATTTAT-T
1 AAAATTATAA
***
34140814 AAAAGCGTAA
1 AAAATTATAA
34140824 AAAATTATAA
1 AAAATTATAA
* * *
34140834 AATATAGAAAA
1 AAAAT-TATAA
34140845 AAAATTAT--
1 AAAATTATAA
* *
34140853 AAAATTTTAT
1 AAAATTATAA
* *
34140863 AAAGTCATAA
1 AAAATTATAA
34140873 GAAAATTATAA
1 -AAAATTATAA
34140884 AAAA
1 AAAA
34140888 GGAAAGAAAT
Statistics
Matches: 71, Mismatches: 25, Indels: 11
0.66 0.23 0.10
Matches are distributed among these distances:
8 7 0.10
9 19 0.27
10 30 0.42
11 15 0.21
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (10 bp):
AAAATTATAA
Found at i:34140835 original size:9 final size:9
Alignment explanation
Indices: 34140777--34140809 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
34140767 AAATCAGAAC
34140777 AAAATTATA
1 AAAATTATA
*
34140786 AAAATCATA
1 AAAATTATA
34140795 AAAATTATA
1 AAAATTATA
34140804 AAAATT
1 AAAATT
34140810 TATTAAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:34141055 original size:21 final size:21
Alignment explanation
Indices: 34141006--34141048 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
34140996 CACACGCCAT
34141006 GTTGTATTGCTACACATGATG
1 GTTGTATTGCTACACATGATG
34141027 GTTGTATTGCTACACATGATG
1 GTTGTATTGCTACACATGATG
34141048 G
1 G
34141049 CTTTATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (21 bp):
GTTGTATTGCTACACATGATG
Found at i:34143142 original size:35 final size:35
Alignment explanation
Indices: 34143096--34143166 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
34143086 AGATTTGATC
34143096 TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
1 TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
34143131 TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
1 TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
34143166 T
1 T
34143167 ATACTCTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (35 bp):
TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
Found at i:34143553 original size:13 final size:13
Alignment explanation
Indices: 34143535--34143560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34143525 CGTGAATAAA
34143535 TTTCTATATCCAT
1 TTTCTATATCCAT
34143548 TTTCTATATCCAT
1 TTTCTATATCCAT
34143561 CTCTATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTCTATATCCAT
Found at i:34148396 original size:21 final size:20
Alignment explanation
Indices: 34148349--34148397 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
34148339 TAAAACAAAT
*
34148349 AAAGTAAATAAAGAATAAACA
1 AAAG-AAATAAAGAATAAAAA
34148370 AAAGAAA-AAAGAATAGAAAA
1 AAAGAAATAAAGAATA-AAAA
34148390 GAAAGAAA
1 -AAAGAAA
34148398 GAGGGGGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 6 0.24
21 11 0.44
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (20 bp):
AAAGAAATAAAGAATAAAAA
Found at i:34148448 original size:12 final size:12
Alignment explanation
Indices: 34148431--34148455 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34148421 AAACAAAGAA
34148431 AGAAAGAAAAAG
1 AGAAAGAAAAAG
34148443 AGAAAGAAAAAG
1 AGAAAGAAAAAG
34148455 A
1 A
34148456 AGGAGAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:34158616 original size:40 final size:40
Alignment explanation
Indices: 34158554--34158891 Score: 538
Period size: 40 Copynumber: 8.5 Consensus size: 40
34158544 AAGCCAAGTA
* * * *
34158554 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
34158593 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34158633 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34158673 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34158713 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34158753 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34158793 CCTTCGGGACTTAGCCCGGATATCGTCACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
34158833 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
34158873 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34158892 TTATCATCCA
Statistics
Matches: 284, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 13 0.05
40 271 0.95
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34164388 original size:39 final size:39
Alignment explanation
Indices: 34164231--34164532 Score: 207
Period size: 40 Copynumber: 7.4 Consensus size: 39
34164221 CTGTCCGCGC
* * * * * *
34164231 TAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGAT
1 TAAGTCCCGAAGGCATTGTG-TGAGTTACTAAATCCGGGT
* * *
34164271 TAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCCGAAGG-CATTGTGTGAGTTACTAAATCCGGGT
* *
34164311 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGT
* *
34164351 TAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGC
1 TAAGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGGT
* * *
34164390 TATGTCCCGAAGGCATT-TGATCGAG-GAGCTATATCC-GGT
1 TAAGTCCCGAAGGCATTGTG-T-GAGTTA-CTAAATCCGGGT
* * * * *
34164429 TAAATCCCGAAGGTACGTGATTTGGTAATGAATGAGTTAAATCCGGGT
1 TAAGTCCCGAAGG--C---A-TT-GT-GTGAGTTA-CTAAATCCGGGT
* * *
34164477 TATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGC
1 TAAGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGGT
*
34164516 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
34164533 TGAACGAGGA
Statistics
Matches: 211, Mismatches: 33, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
38 2 0.01
39 79 0.37
40 85 0.40
41 11 0.05
42 2 0.01
43 1 0.00
44 1 0.00
45 2 0.01
46 3 0.01
47 11 0.05
48 14 0.07
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGGT
Found at i:34164426 original size:79 final size:80
Alignment explanation
Indices: 34164229--34164441 Score: 213
Period size: 79 Copynumber: 2.7 Consensus size: 80
34164219 TGCTGTCCGC
* * * * *
34164229 GCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCTTTGTG
1 GCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTATATCCGGGTTAAG-TCCCGAAGGCCATTGTG
*
34164292 CGAGATACTAAATCCGG
64 CGAGATACTAAAACCGG
* * * * *
34164309 GTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG-CATTGTGTG
1 GCTAAGTCCCGAAGGCATTCGTGCGAGTGACTATATCCGGGTTAAGTCCCGAAGGCCATTGTGCG
*
34164373 AGTTACTAAAACCGG
66 AGATACTAAAACCGG
* * *
34164388 GCTATGTCCCGAAGGCATTTGAT-CGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGGCATTCG-TGCGAGTGA-CTATATCCGGGTTAAGTCCCGAAGG
34164442 TACGTGATTT
Statistics
Matches: 111, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
78 16 0.14
79 49 0.44
80 40 0.36
81 6 0.05
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
GCTAAGTCCCGAAGGCATTCGTGCGAGTGACTATATCCGGGTTAAGTCCCGAAGGCCATTGTGCG
AGATACTAAAACCGG
Found at i:34164495 original size:126 final size:126
Alignment explanation
Indices: 34164339--34164590 Score: 486
Period size: 126 Copynumber: 2.0 Consensus size: 126
34164329 GTGCGAGTTA
34164339 TTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
*
34164404 ATTTGATCGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGTAATGAATGAG
66 ATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGTAATGAATGAG
*
34164465 TTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
34164530 ATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGTAATGAATGAG
66 ATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGTAATGAATGAG
34164591 CTTGCTGTAA
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 124 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (126 bp):
TTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
ATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGTAATGAATGAG
Found at i:34170014 original size:40 final size:40
Alignment explanation
Indices: 34169952--34170209 Score: 396
Period size: 40 Copynumber: 6.5 Consensus size: 40
34169942 AAGCCAAGTA
* * * *
34169952 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
34169991 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34170031 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34170071 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34170111 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
34170151 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
34170191 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34170210 TTATCATCCA
Statistics
Matches: 206, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 13 0.06
40 193 0.94
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34174240 original size:177 final size:177
Alignment explanation
Indices: 34173931--34174282 Score: 625
Period size: 177 Copynumber: 2.0 Consensus size: 177
34173921 TTTCAGTTGA
34173931 TCAAAACTTTTCTGACATTTTTCCGTCCATTCGAACTTAACATCTTTCTGAAGTAGCTTCGTCAT
1 TCAAAACTTTTCTGACATTTTTCCGTCCATTCGAACTTAACATCTTTCTGAAGTAGCTTCGTCAT
* *
34173996 TGGTGTGGCTATCATCGAGAAACCTTTTACAAACCGTCGGTAGTAACCGGCAAGTCCCTAAAAGC
66 TGGTGTGGCTATCATCGAGAAACCTTTTACAAACCGTCGGTAATAACCGGCAAGTCCCCAAAAGC
34174061 TCCGAACCTCAGTAATATTTCTCGGAGGCTTCCAGTTAAGTATGGCT
131 TCCGAACCTCAGTAATATTTCTCGGAGGCTTCCAGTTAAGTATGGCT
34174108 TCAAAACTTTTCTGACATTTTTCCGTCCATTCGAACTTAACATCTTTCTGAAGTAGCTTCGTCAT
1 TCAAAACTTTTCTGACATTTTTCCGTCCATTCGAACTTAACATCTTTCTGAAGTAGCTTCGTCAT
* *
34174173 TGGTGTGGCTATCATCGAGAAACCTTTTACAAACCGTCGGTAATAACCGGCGAG-CCCCAGGAAG
66 TGGTGTGGCTATCATCGAGAAACCTTTTACAAACCGTCGGTAATAACCGGCAAGTCCCCA-AAAG
* * *
34174237 CTCCGAACTTCGGTAATATTTCTTGGAGGCTTCCAGTTAAGTATGG
130 CTCCGAACCTCAGTAATATTTCTCGGAGGCTTCCAGTTAAGTATGG
34174283 TTGAAATTTT
Statistics
Matches: 167, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
176 4 0.02
177 163 0.98
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (177 bp):
TCAAAACTTTTCTGACATTTTTCCGTCCATTCGAACTTAACATCTTTCTGAAGTAGCTTCGTCAT
TGGTGTGGCTATCATCGAGAAACCTTTTACAAACCGTCGGTAATAACCGGCAAGTCCCCAAAAGC
TCCGAACCTCAGTAATATTTCTCGGAGGCTTCCAGTTAAGTATGGCT
Found at i:34174696 original size:315 final size:315
Alignment explanation
Indices: 34174124--34174752 Score: 1152
Period size: 315 Copynumber: 2.0 Consensus size: 315
34174114 CTTTTCTGAC
34174124 ATTTTTCCGTCCATTCGAACTTAACATCTTTCTGAAGTAGCTTCGTCATTGGTGTGGCTATCATC
1 ATTTTTCCGTCCATTCGAACTTAACATCTTTCTGAAGTAGCTTCGTCATTGGTGTGGCTATCATC
* * * *
34174189 GAGAAACCTTTTACAAACCGTCGGTAATAACCGGCGAGCCCCAGGAAGCTCCGAACTTCGGTAAT
66 GAGAAACCTTTTACAAACCGTCGGTAATAACCGGCAAGCCCCAGAAAGCTCCGAACCTCAGTAAT
* *
34174254 ATTTCTTGGAGGCTTCCAGTTAAGTATGGTTGAAATTTTGCTCGGATCAACTCGAATACCCGATG
131 ATTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATG
34174319 CGGATACCACATGACCCAAGAAGCTAACCTCTCTCTCACACTTACTGAACTTAGCATATAACTGC
196 CGGATACCACATGACCCAAGAAGCTAACCTCTCTCTCACACTTACTGAACTTAGCATATAACTGC
34174384 TTATCCCGTAAAATTCGCAACACTAATCTCAGGTGCTCAGCATGTTCGGTCTTAG
261 TTATCCCGTAAAATTCGCAACACTAATCTCAGGTGCTCAGCATGTTCGGTCTTAG
34174439 ATTTTTCCGTCCATTCGAACTTAACATCTTTCTGAAGTAGCTTCGTCATTGGTGTGGCTATCATC
1 ATTTTTCCGTCCATTCGAACTTAACATCTTTCTGAAGTAGCTTCGTCATTGGTGTGGCTATCATC
* *
34174504 GAGAAACCTTTTACAAACCGTCGGTAGTAACCGGCAAGTCCCTA-AAAGCTCCGAACCTCAGTAA
66 GAGAAACCTTTTACAAACCGTCGGTAATAACCGGCAAG-CCCCAGAAAGCTCCGAACCTCAGTAA
34174568 TATTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGAT
130 TATTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGAT
34174633 GCGGATACCACATGACCCAAGAAGCTAACCTCTCTCTCACACTTACTGAACTTAGCATATAACTG
195 GCGGATACCACATGACCCAAGAAGCTAACCTCTCTCTCACACTTACTGAACTTAGCATATAACTG
* *
34174698 CTTATCCCGTAAAATTTGCAACACTAATCTTAGGTGCTCAGCATGTTCGGTCTTA
260 CTTATCCCGTAAAATTCGCAACACTAATCTCAGGTGCTCAGCATGTTCGGTCTTA
34174753 TCTCTTGAAT
Statistics
Matches: 303, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
315 299 0.99
316 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (315 bp):
ATTTTTCCGTCCATTCGAACTTAACATCTTTCTGAAGTAGCTTCGTCATTGGTGTGGCTATCATC
GAGAAACCTTTTACAAACCGTCGGTAATAACCGGCAAGCCCCAGAAAGCTCCGAACCTCAGTAAT
ATTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATG
CGGATACCACATGACCCAAGAAGCTAACCTCTCTCTCACACTTACTGAACTTAGCATATAACTGC
TTATCCCGTAAAATTCGCAACACTAATCTCAGGTGCTCAGCATGTTCGGTCTTAG
Found at i:34195061 original size:47 final size:47
Alignment explanation
Indices: 34195001--34195632 Score: 1050
Period size: 47 Copynumber: 13.4 Consensus size: 47
34194991 CAGCCAAGAC
*
34195001 AGTGTATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
34195048 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
34195095 AGTGTATATATGTGATACGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
34195142 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
34195189 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
34195238 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
34195285 AGGGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
34195332 AGGGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
34195379 AGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
34195426 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
34195473 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
34195520 AGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * *
34195567 AGTGTATATATGTGA-AAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAA-GGCCTAATGGCCGATGTGATGAATGTGAA
* *
34195614 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
34195633 TCCCGAAGGG
Statistics
Matches: 556, Mismatches: 25, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
46 2 0.00
47 505 0.91
48 2 0.00
49 47 0.08
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:34195807 original size:37 final size:37
Alignment explanation
Indices: 34195751--34195829 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
34195741 CCGAGCTCTA
* *
34195751 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
34195788 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
34195825 AAGAC
1 AAGAC
34195830 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:34200757 original size:25 final size:25
Alignment explanation
Indices: 34200725--34200772 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34200715 TTATAATATG
* * *
34200725 AAAATGACTATTTTGCCCTTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
34200750 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
34200773 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:34200965 original size:25 final size:26
Alignment explanation
Indices: 34200892--34200963 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
34200882 GAGGAAGTGC
* * * *
34200892 AAAAGGGCTAT-GCCCAAGTTTACCG
1 AAAAGGGCTTTCGCCCCAGTTTATCA
* * *
34200917 AAAAGGGCTTTTGTCCTAGTTTATCA
1 AAAAGGGCTTTCGCCCCAGTTTATCA
34200943 AAAAGGGCTTTCGCCCCAGTT
1 AAAAGGGCTTTCGCCCCAGTT
34200964 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 10 0.26
26 28 0.74
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTTCGCCCCAGTTTATCA
Found at i:34201221 original size:31 final size:31
Alignment explanation
Indices: 34201183--34201261 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
34201173 TCATTACAGT
34201183 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
34201214 AAAGGCTTCAGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
34201245 GAAGGCTTGGGCCCAGT
1 AAAGGCTTCGGCCCAGT
34201262 ATCTACTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:34205606 original size:42 final size:42
Alignment explanation
Indices: 34205554--34205811 Score: 311
Period size: 42 Copynumber: 6.1 Consensus size: 42
34205544 TCGATGCCTC
* *
34205554 TGTCCCAGACATGGTCTTACACGAAATTAGATATGATGTCGA
1 TGTCCCAGACATGGTCTTACACAAAATTAGATACGATGTCGA
* * * * * *
34205596 TGTCCTAGACATGGACTTACACGAAATAAGATCCGATGCCGA
1 TGTCCCAGACATGGTCTTACACAAAATTAGATACGATGTCGA
34205638 TGTCCCAGACATGGTCTTACACAAAATTAGATACGATG-CTGA
1 TGTCCCAGACATGGTCTTACACAAAATTAGATACGATGTC-GA
* * * * * * *
34205680 TGTCCTAGACGTGGCCTTACTCAAAATCAGATACGATGCCAA
1 TGTCCCAGACATGGTCTTACACAAAATTAGATACGATGTCGA
* * *
34205722 TGTCCCATACATGGTCTTACAGAAAATTAGATACGATGTTGA
1 TGTCCCAGACATGGTCTTACACAAAATTAGATACGATGTCGA
* * *
34205764 TGTCGCAGACATGGTCTTACACAAAATCAAATACGATGTCGA
1 TGTCCCAGACATGGTCTTACACAAAATTAGATACGATGTCGA
34205806 TGTCCC
1 TGTCCC
34205812 TTTAGAAACA
Statistics
Matches: 180, Mismatches: 34, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
41 1 0.01
42 178 0.99
43 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACAAAATTAGATACGATGTCGA
Found at i:34212738 original size:42 final size:42
Alignment explanation
Indices: 34212686--34212937 Score: 346
Period size: 42 Copynumber: 6.0 Consensus size: 42
34212676 CCTCTGTCTT
* * *
34212686 AGACAGGGTCTTACACGAAATCAGATATGATGCCTATGTCCC
1 AGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCCC
* *
34212728 AAACATGGTCTTACATGAAATCAGATACGATGCCGATGTCCC
1 AGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCCC
*
34212770 AGACATGGTCTTACACGAAATCAGATACGATGCAGATGTCCC
1 AGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCCC
* * *
34212812 AGAAATGATCTTACA-GAAAATCAGATAAGATGCCGATGTCCC
1 AGACATGGTCTTACACG-AAATCAGATACGATGCCGATGTCCC
* *
34212854 AGACATGGTCTTATA-GAAAATCAGATACGATGTCGATGTCCC
1 AGACATGGTCTTACACG-AAATCAGATACGATGCCGATGTCCC
* * *
34212896 AGACATGGTTTTACACAAAATCAGATACGATGCCGATATCCC
1 AGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCCC
34212938 TTTAGAAACA
Statistics
Matches: 186, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 1 0.01
42 185 0.99
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (42 bp):
AGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCCC
Found at i:34215648 original size:13 final size:13
Alignment explanation
Indices: 34215632--34215664 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34215622 TTTAATTAAA
*
34215632 TTAGTTAATTAGT
1 TTAGATAATTAGT
34215645 TTAGATAATTAGT
1 TTAGATAATTAGT
34215658 TTA-ATAA
1 TTAGATAA
34215665 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:34221022 original size:5 final size:5
Alignment explanation
Indices: 34220996--34221088 Score: 68
Period size: 5 Copynumber: 17.8 Consensus size: 5
34220986 ATCCTCCTTT
34220996 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA TTTTA -TTTA TTTTTA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA
* *
34221042 TTTTTC TTTTGA TTTTTA TTTTCA TTTAAA TTTTA --TTA TTTTA TTTT
1 -TTTTA TTTT-A -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
34221089 GAAAGACATA
Statistics
Matches: 73, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
3 3 0.04
4 8 0.11
5 32 0.44
6 24 0.33
7 6 0.08
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:34221058 original size:7 final size:6
Alignment explanation
Indices: 34221001--34221068 Score: 66
Period size: 6 Copynumber: 11.2 Consensus size: 6
34220991 CCTTTTTTTA
* * *
34221001 TTTATT CTTATT TTTA-T TTTATT TTATTTT ATTTATT TTTATT TTTCTT
1 TTTATT TTTATT TTTATT TTTATT TT-TATT -TTTATT TTTATT TTTATT
* *
34221050 TTGATT TTTATT TTCATT T
1 TTTATT TTTATT TTTATT T
34221069 AAATTTTATT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 5 0.10
6 37 0.74
7 6 0.12
8 2 0.04
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:34221075 original size:18 final size:16
Alignment explanation
Indices: 34220995--34221069 Score: 73
Period size: 16 Copynumber: 4.6 Consensus size: 16
34220985 AATCCTCCTT
* *
34220995 TTTTTATTTATTCTTA
1 TTTTCATTTATTTTTA
*
34221011 TTTTTATTT-TATTTTA
1 TTTTCATTTAT-TTTTA
34221027 TTTT-ATTTATTTTTA
1 TTTTCATTTATTTTTA
*
34221042 TTTTTCTTTTGATTTTTA
1 -TTTTCATTT-ATTTTTA
34221060 TTTTCATTTA
1 TTTTCATTTA
34221070 AATTTTATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
15 10 0.20
16 23 0.45
17 11 0.22
18 7 0.14
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.77
Consensus pattern (16 bp):
TTTTCATTTATTTTTA
Found at i:34229825 original size:13 final size:13
Alignment explanation
Indices: 34229803--34229835 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34229793 AAGGGTTTGT
34229803 TTAT-TAAACTAA
1 TTATCTAAACTAA
34229815 TTATCTAAACTAA
1 TTATCTAAACTAA
*
34229828 TTAACTAA
1 TTATCTAA
34229836 TTTAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:34241302 original size:47 final size:47
Alignment explanation
Indices: 34241244--34241524 Score: 420
Period size: 47 Copynumber: 6.0 Consensus size: 47
34241234 TTTAGGATTT
* *
34241244 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
34241291 AATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
34241338 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
34241385 AATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
34241432 AATGTGATGAACGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
34241479 AATGT-AGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 AATGTGA-TGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
34241525 TAGTGTGAAA
Statistics
Matches: 212, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 1 0.00
47 211 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:34241372 original size:25 final size:25
Alignment explanation
Indices: 34241338--34241417 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
34241328 CCGAATGGCC
34241338 TATGTGATGAATGTGAACATGCATA
1 TATGTGATGAATGTGAACATGCATA
* * *
34241363 TATGTGATG-AGGCCG-A-ATGGC-CA
1 TATGTGATGAATG-TGAACAT-GCATA
*
34241386 -ATGTGATGAATGTGAGCATGCATA
1 TATGTGATGAATGTGAACATGCATA
34241410 TATGTGAT
1 TATGTGAT
34241418 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 9 0.22
23 7 0.17
24 8 0.20
25 17 0.41
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.30
Consensus pattern (25 bp):
TATGTGATGAATGTGAACATGCATA
Found at i:34241745 original size:37 final size:37
Alignment explanation
Indices: 34241695--34241838 Score: 207
Period size: 37 Copynumber: 3.9 Consensus size: 37
34241685 ATTCCAGGTG
* * *
34241695 AGACCTGATGACTACGTGTGGAGAGTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTA
*
34241732 AGACCCGATGACTACGTGTAGAGATTTTGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTA
*
34241769 AGACCCGATGACTACGTGTGGAGCTTTTGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTA
* * * *
34241806 AGACCCGATAACTTCATGTGGAGATTTCGTCCG
1 AGACCCGATGACTACGTGTGGAGATTTTGTCCG
34241839 AGCTAAAGGT
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTA
Found at i:34245113 original size:47 final size:47
Alignment explanation
Indices: 34245044--34245139 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
34245034 TGGAAAATGT
*
34245044 GAAATACTACCGAGTATCGGTATCGGCATTCTGTAGAAGATGGTTGA
1 GAAATACTACCGAGTATCGGTATCGGCATTCCGTAGAAGATGGTTGA
34245091 GAAATACTACCGAGTATCGGTATCGGCATTCCGTAGAAGATGGTTGA
1 GAAATACTACCGAGTATCGGTATCGGCATTCCGTAGAAGATGGTTGA
34245138 GA
1 GA
34245140 CACATGATTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (47 bp):
GAAATACTACCGAGTATCGGTATCGGCATTCCGTAGAAGATGGTTGA
Found at i:34245270 original size:46 final size:46
Alignment explanation
Indices: 34245220--34245395 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
34245210 TGGTTGAGCA
*
34245220 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
34245266 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
34245313 TCCGAACGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
34245359 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34245396 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.59
47 27 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:34245369 original size:93 final size:93
Alignment explanation
Indices: 34245217--34245387 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
34245207 GGATGGTTGA
* * *
34245217 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
34245282 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
34245310 GCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
34245375 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
34245388 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:34248341 original size:15 final size:15
Alignment explanation
Indices: 34248321--34248376 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
34248311 GTATCTTGGG
34248321 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
34248336 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
34248351 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
34248366 TTTCTTTATTC
1 TTTCTTTATTC
34248377 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:34250359 original size:46 final size:46
Alignment explanation
Indices: 34250309--34250480 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
34250299 TGAGCATCCA
*
34250309 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * *
34250355 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* * *
34250402 AACTCGTTGAGTTGAGTTCGAGTTCACTCATGGATGCGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-G
* * *
34250448 AGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34250481 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 55 0.54
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:34250461 original size:93 final size:93
Alignment explanation
Indices: 34250302--34250473 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
34250292 GGATGGTTGA
* * *
34250302 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCATTGAGT
34250367 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
34250395 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTCATGGATGCGAACG-CCTGAGCTCATTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC-GAACTCATTGAG
34250459 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
34250474 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34253507 original size:25 final size:24
Alignment explanation
Indices: 34253464--34253516 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
34253454 AAGTTCAAGC
34253464 GAGCCATATCAGAAAGCTCA-AGAA
1 GAGCCATATCAGAAAGCTCATA-AA
* *
34253488 GAGCCTATATCAGGACGCTCATAAA
1 GAGCC-ATATCAGAAAGCTCATAAA
34253513 GAGC
1 GAGC
34253517 TGTGTTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 19 0.76
26 1 0.04
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (24 bp):
GAGCCATATCAGAAAGCTCATAAA
Found at i:34271479 original size:28 final size:28
Alignment explanation
Indices: 34271416--34272268 Score: 1638
Period size: 28 Copynumber: 30.5 Consensus size: 28
34271406 ATATTAAGTC
* * *
34271416 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
34271443 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271471 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271499 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271527 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271555 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271583 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271611 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271639 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271667 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271695 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271723 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271751 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271779 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271807 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271835 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271863 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271891 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271919 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271947 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34271975 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34272003 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34272031 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34272059 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34272087 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34272115 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34272143 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34272171 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
34272199 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
* *
34272227 CGCACACTTAGTGCTACATATTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
34272254 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34272269 GCACAATTTA
Statistics
Matches: 820, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
27 39 0.05
28 781 0.95
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAGTCAAACT
Found at i:34274513 original size:200 final size:200
Alignment explanation
Indices: 34274170--34274569 Score: 701
Period size: 200 Copynumber: 2.0 Consensus size: 200
34274160 TTTCAACCTC
*
34274170 TGATGGGCTAATTATATGCGATGGATCAGATCGATAGAGTCGAAGCATCGAAACATGACAGACAT
1 TGATGGGCTAATTATATGCGATGGATCAGATCGATAGAGTCGAAGCATCGAAACATGAAAGACAT
* *
34274235 CGTGAATCTTTTCAAGCTCAGGGGGCAAAATCAATCTATACGCAACTGGTCCAACTTGTTCGGAT
66 CGTGAATCTTTTCAAGCTCAGGGGGCAAAATCAATCGATACGCAACTGGTCCAACTCGTTCGGAT
* *
34274300 ACTTCGTACGGGCCGATGAATCTCGGACTCAATTTGCCCTTACGACCAAATCTAAGCACCTTCTT
131 ACTTCATACGGGCCGATGAATCTCGGACTCAATTTGCCCTTACGACCAAATCTAAGCAACTTCTT
34274365 CCAGG
196 CCAGG
* * *
34274370 TGATGGGCTAATTATGTGCGATGGATCAGATCGATAGCGTCGAAGCATCGAAACATGAAAGACGT
1 TGATGGGCTAATTATATGCGATGGATCAGATCGATAGAGTCGAAGCATCGAAACATGAAAGACAT
* * *
34274435 CGTGAATCTTTTCAAGCTCAGGGGGCAAAATTAATCGGTATGCAACTGGTCCAACTCGTTCGGAT
66 CGTGAATCTTTTCAAGCTCAGGGGGCAAAATCAATCGATACGCAACTGGTCCAACTCGTTCGGAT
34274500 ACTTCATACGGGCCGATGAATCTCGGACTCAATTTGCCCTTACGACCAAATCTAAGCAACTTCTT
131 ACTTCATACGGGCCGATGAATCTCGGACTCAATTTGCCCTTACGACCAAATCTAAGCAACTTCTT
34274565 CCAGG
196 CCAGG
34274570 GTGAAACTTT
Statistics
Matches: 189, Mismatches: 11, Indels: 0
0.94 0.05 0.00
Matches are distributed among these distances:
200 189 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (200 bp):
TGATGGGCTAATTATATGCGATGGATCAGATCGATAGAGTCGAAGCATCGAAACATGAAAGACAT
CGTGAATCTTTTCAAGCTCAGGGGGCAAAATCAATCGATACGCAACTGGTCCAACTCGTTCGGAT
ACTTCATACGGGCCGATGAATCTCGGACTCAATTTGCCCTTACGACCAAATCTAAGCAACTTCTT
CCAGG
Found at i:34277675 original size:72 final size:72
Alignment explanation
Indices: 34277585--34277729 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
34277575 GCAGGAGTAC
*
34277585 GGTTCTCGGCTCGATCAGCCGTATCAGAGGCCCCTCTCTGACTCCCACCCCTACCTCCTAAAATT
1 GGTTCTCGGCTCGATCAGCCGTATCAGAGGCCCCTCTCTGACTACCACCCCTACCTCCTAAAATT
34277650 CTCGGTG
66 CTCGGTG
*
34277657 GGTTCTCGGCTCGATCAGCCGTATCAGAGGGCCCTCTCTGACTACCACCCCTACCTCCTAAAATT
1 GGTTCTCGGCTCGATCAGCCGTATCAGAGGCCCCTCTCTGACTACCACCCCTACCTCCTAAAATT
34277722 CTCGGTG
66 CTCGGTG
34277729 G
1 G
34277730 CCTGCCTCTA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.17, C:0.37, G:0.21, T:0.25
Consensus pattern (72 bp):
GGTTCTCGGCTCGATCAGCCGTATCAGAGGCCCCTCTCTGACTACCACCCCTACCTCCTAAAATT
CTCGGTG
Found at i:34280622 original size:28 final size:27
Alignment explanation
Indices: 34280559--34280710 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
34280549 ATATTAAGTC
* * *
34280559 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
34280586 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
34280614 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34280641 CGCACACTTAGTGCTACATAGTCTAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
34280669 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
34280696 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34280711 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:34280643 original size:55 final size:55
Alignment explanation
Indices: 34280559--34280710 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
34280549 ATATTAAGTC
* * *
34280559 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
34280614 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCTAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
34280669 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
34280711 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:34287888 original size:121 final size:121
Alignment explanation
Indices: 34287741--34287981 Score: 473
Period size: 121 Copynumber: 2.0 Consensus size: 121
34287731 TTAATTCCAT
*
34287741 TCCTACTATTTTTAGTGATTTTTCAATCTCATGTCACTGCTGCTGCCAGCATCTGTTACGAAAGC
1 TCCTACTATTTTTAGTGATTTTTCAATCTCATGTCACTGCTGCTGCCAGCATCTGTTACAAAAGC
34287806 AACTATGCCCACTTCGTGTTTACTCCTTGATCTAACTAATAATTCATCATGCATAC
66 AACTATGCCCACTTCGTGTTTACTCCTTGATCTAACTAATAATTCATCATGCATAC
34287862 TCCTACTATTTTTAGTGATTTTTCAATCTCATGTCACTGCTGCTGCCAGCATCTGTTACAAAAGC
1 TCCTACTATTTTTAGTGATTTTTCAATCTCATGTCACTGCTGCTGCCAGCATCTGTTACAAAAGC
34287927 AACTATGCCCACTTCGTGTTTACTCCTTGATCTAACTAATAATTCATCATGCATA
66 AACTATGCCCACTTCGTGTTTACTCCTTGATCTAACTAATAATTCATCATGCATA
34287982 TCACAAATTA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (121 bp):
TCCTACTATTTTTAGTGATTTTTCAATCTCATGTCACTGCTGCTGCCAGCATCTGTTACAAAAGC
AACTATGCCCACTTCGTGTTTACTCCTTGATCTAACTAATAATTCATCATGCATAC
Found at i:34288740 original size:27 final size:27
Alignment explanation
Indices: 34288710--34288914 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
34288700 ATATTGAGTC
* * * *
34288710 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34288737 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34288764 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34288792 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34288819 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34288846 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
34288873 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34288900 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34288915 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34291878 original size:47 final size:46
Alignment explanation
Indices: 34291705--34291876 Score: 181
Period size: 47 Copynumber: 3.7 Consensus size: 46
34291695 TTTGTGTGCT
*
34291705 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGA-GATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGACTCGATGATG--AGCC
* * * *
34291751 AATGTAAGACATGTCTGGGACATGGCGTCGGCCTCGATTTTGAT-AGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGACTCGA---TGATGAGCC
* *
34291799 AGTGTAAGACTATGTCTAGGACATGGCATC-GACTTGATGGATGAGCC
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGACTCGAT-GATGAGCC
34291846 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACATGGCATCG
34291877 ACATTCTACC
Statistics
Matches: 106, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
45 1 0.01
46 25 0.24
47 42 0.40
48 18 0.17
49 17 0.16
51 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGACTCGATGATGAGCC
Found at i:34293658 original size:43 final size:43
Alignment explanation
Indices: 34293597--34293691 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
34293587 CAAACGGGCT
*
34293597 GAGACACGGCCATGTGTCTCTATCGTGTGAGGGACACGACCTG
1 GAGACACGGCCATGTGTCTCTATCGTGTGAAGGACACGACCTG
*
34293640 GAGACACGGCCATGTGTCTCTATCGTGTGAAGGACACGGCCTG
1 GAGACACGGCCATGTGTCTCTATCGTGTGAAGGACACGACCTG
34293683 GAGACACGG
1 GAGACACGG
34293692 ACGTGTGGCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.22, C:0.25, G:0.34, T:0.19
Consensus pattern (43 bp):
GAGACACGGCCATGTGTCTCTATCGTGTGAAGGACACGACCTG
Done.