Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 114 of 199
Found at i:37736612 original size:88 final size:89
Alignment explanation
Indices: 37736512--37736674 Score: 258
Period size: 89 Copynumber: 1.8 Consensus size: 89
37736502 CCTTAAACCA
* *
37736512 CTAACCACTAACCCCTAAACCTTA-TTAATATATAAATAAAAAAACACTAATTAATCTAAATCCT
1 CTAACCACTAACCCCTAAACATTATTTAATATATAAATAAAAAAACACTAATTAATCTAAACCCT
37736576 AAACCCTAACCCAACCCCAAATCC
66 AAACCCTAACCCAACCCCAAATCC
* * *
37736600 CTAACC-CATAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATTTAAACCC
1 CTAACCAC-TAACCCCTAAACATTATTTAATATATAAATAAAAAAACACTAATTAATCTAAACCC
37736664 TAAACCCTAAC
65 TAAACCCTAAC
37736675 TTGACACCAG
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
87 1 0.01
88 21 0.31
89 46 0.68
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (89 bp):
CTAACCACTAACCCCTAAACATTATTTAATATATAAATAAAAAAACACTAATTAATCTAAACCCT
AAACCCTAACCCAACCCCAAATCC
Found at i:37736722 original size:7 final size:7
Alignment explanation
Indices: 37736702--37736745 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
37736692 AACCTTAAAT
37736702 CCCTAAC
1 CCCTAAC
* *
37736709 TCTTAAC
1 CCCTAAC
*
37736716 CTCTAAC
1 CCCTAAC
37736723 CCCTAAC
1 CCCTAAC
37736730 CCCTAAC
1 CCCTAAC
37736737 CCCTAAC
1 CCCTAAC
37736744 CC
1 CC
37736746 ATAAACCTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.27, C:0.52, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:37736904 original size:29 final size:29
Alignment explanation
Indices: 37736840--37736905 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
37736830 TCTTAAACCG
37736840 ACCCTAAATCCTAAATTAACCATATATAT
1 ACCCTAAATCCTAAATTAACCATATATAT
*
37736869 GCCCTAAATCCTAAATTAACCATATATAT
1 ACCCTAAATCCTAAATTAACCATATATAT
*
37736898 ACTCTAAA
1 ACCCTAAA
37736906 CCATATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (29 bp):
ACCCTAAATCCTAAATTAACCATATATAT
Found at i:37737308 original size:41 final size:41
Alignment explanation
Indices: 37737244--37737478 Score: 310
Period size: 41 Copynumber: 5.7 Consensus size: 41
37737234 AAATGTTTTT
* ** *
37737244 GCGGCGCTTTTCAAAAAACGCCGCTAAAGCCCCAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTAAGCATTA
* *
37737285 GCGGCG-TTTTCCAAGAAATGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAA-AAACGCCGCTAAAGATCTAAGCATTA
* * *
37737326 GCGACGGTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTAAGCATTA
* *
37737367 GCGACGCTTTTCCAAAACCGCCGCTAAAGATCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTAAGCATTA
*
37737408 GCGGCGCTTTTCCAAAACCGCCGCTAAAGATCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTAAGCATTA
* * *
37737449 GTGGCGCTTTTCTTAAAATCGCCGCTAAAG
1 GCGGCGCTTTTC-CAAAAACGCCGCTAAAG
37737479 CCCCGAAAGG
Statistics
Matches: 176, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
40 7 0.04
41 146 0.83
42 23 0.13
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTAAGCATTA
Found at i:37752708 original size:15 final size:15
Alignment explanation
Indices: 37752678--37752723 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
37752668 AAAATCAGGG
*
37752678 GAAGACAAAA-GATT
1 GAAGATAAAATGATT
37752692 G-AGATTAAAATGATT
1 GAAGA-TAAAATGATT
37752707 GAAGATAAAGATGATT
1 GAAGATAAA-ATGATT
37752723 G
1 G
37752724 GTTGATCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 3 0.11
14 5 0.19
15 9 0.33
16 10 0.37
ACGTcount: A:0.50, C:0.02, G:0.24, T:0.24
Consensus pattern (15 bp):
GAAGATAAAATGATT
Found at i:37753626 original size:6 final size:6
Alignment explanation
Indices: 37753615--37753639 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37753605 TTTATTTGTG
37753615 TCATGT TCATGT TCATGT TCATGT T
1 TCATGT TCATGT TCATGT TCATGT T
37753640 TTTCTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TCATGT
Found at i:37759450 original size:123 final size:123
Alignment explanation
Indices: 37759277--37759508 Score: 342
Period size: 123 Copynumber: 1.9 Consensus size: 123
37759267 AAAAATCATT
* * *
37759277 TTTATCCGGCTATAAACTAATTTATACTTCCCTTTTATTGTTTTTCTTTCCATATTTTGAATTTT
1 TTTATCCAGCAATAAACTAATTTACACTTCCCTTTTATTGTTTTTCTTTCCATATTTTGAATTTT
* *
37759342 ATTACTATCATATTAGGAAAATAAAATATCATTTTTTAAGAAAATGATTACACTACTG
66 ATTACTATCATATTAGGAAAATAAAATATCACTTTTTAAAAAAATGATTACACTACTG
* *
37759400 TTTATCCAGCAATAAACTAATTTACACTTCCTTTTTATT-TTTCATT-TTTCCTTATTTTGAATT
1 TTTATCCAGCAATAAACTAATTTACACTTCCCTTTTATTGTTT--TTCTTTCCATATTTTGAATT
* * *
37759463 TTATTACTATTATATTAGGAAAGTAAAATATCCCTTTTTAAAAAAA
64 TTATTACTATCATATTAGGAAAATAAAATATCACTTTTTAAAAAAA
37759509 AAGTAGTTAC
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
122 3 0.03
123 92 0.95
124 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (123 bp):
TTTATCCAGCAATAAACTAATTTACACTTCCCTTTTATTGTTTTTCTTTCCATATTTTGAATTTT
ATTACTATCATATTAGGAAAATAAAATATCACTTTTTAAAAAAATGATTACACTACTG
Found at i:37764055 original size:15 final size:15
Alignment explanation
Indices: 37764035--37764068 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
37764025 ATTTACTTTC
*
37764035 AATAAATTGGTTATT
1 AATAAATTGGTGATT
37764050 AATAAATTGGTGATT
1 AATAAATTGGTGATT
37764065 AATA
1 AATA
37764069 TATAGGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (15 bp):
AATAAATTGGTGATT
Found at i:37764806 original size:103 final size:105
Alignment explanation
Indices: 37764692--37764891 Score: 264
Period size: 105 Copynumber: 1.9 Consensus size: 105
37764682 ATCATACTAG
*
37764692 GAAAATAAAATA-TTATTTTTTTAGAAAATGGTT-CGACCATT-TTTCATCCAGCTGTAAACTAA
1 GAAAATAAAATACTTATTTTTTTAGAAAATGGTTAC-ACCATTGTTT-ATCCAGCTATAAACTAA
* * * * *
37764754 TTTATACTTCTCTTTTATTGTT-TTTTTTCCATATTTTGGAT
64 TTCACACTTCCCTTTTATGGTTCTTTATTCCATATTTTGGAT
* * *
37764795 GAAAATAAAATATCTTTTTTTTTTTGAAAATGGTTACACCATTGTTTATCCAGCTATACACTAAT
1 GAAAATAAAATA-CTTATTTTTTTAGAAAATGGTTACACCATTGTTTATCCAGCTATAAACTAAT
37764860 TCACACTTCCCTTTTATGGTTCTTTATTCCAT
65 TCACACTTCCCTTTTATGGTTCTTTATTCCAT
37764892 GCTTTGAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
103 12 0.14
105 58 0.70
106 13 0.16
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (105 bp):
GAAAATAAAATACTTATTTTTTTAGAAAATGGTTACACCATTGTTTATCCAGCTATAAACTAATT
CACACTTCCCTTTTATGGTTCTTTATTCCATATTTTGGAT
Found at i:37765005 original size:115 final size:116
Alignment explanation
Indices: 37764795--37765016 Score: 252
Period size: 115 Copynumber: 1.9 Consensus size: 116
37764785 TATTTTGGAT
** * *
37764795 GAAAATAAAATATCTTTTTTTTTTTGAAAATGGTTACACCATTGTTTATCCAGCTATACACTAAT
1 GAAAATAAAATATC-TCCTTTTTTAGAAAATGGTCACACCATTGTTTATCCAGCTATACACTAAT
* *
37764860 TCACACTTCCCTTTTATGGTTCTTTATTCCATGCTTTGAATTTTATTACTAG
65 TCACACTTCCCTTTTATGCTTCTTTATTCCATACTTTGAATTTTATTACTAG
* * * *
37764912 GAAAATAAAATATC-CCTTTTTTAGTAAATGGTCACATCATTTTTTATCCCG-TCATACACTAAT
1 GAAAATAAAATATCTCCTTTTTTAGAAAATGGTCACACCATTGTTTATCCAGCT-ATACACTAAT
* * * * * *
37764975 TTATACTT-TCTTTTATTGCTTTTTTTTTCCATATTTTGAATT
65 TCACACTTCCCTTTTA-TGCTTCTTTATTCCATACTTTGAATT
37765017 GAATTTGAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
114 7 0.08
115 66 0.76
117 14 0.16
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (116 bp):
GAAAATAAAATATCTCCTTTTTTAGAAAATGGTCACACCATTGTTTATCCAGCTATACACTAATT
CACACTTCCCTTTTATGCTTCTTTATTCCATACTTTGAATTTTATTACTAG
Found at i:37787261 original size:21 final size:21
Alignment explanation
Indices: 37787226--37787292 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
37787216 GTGAATATCT
*
37787226 ACACACCCATGTGAAAGAGGC
1 ACACGCCCATGTGAAAGAGGC
* * *
37787247 ACACGCCCCTTTGAAAGAAGC
1 ACACGCCCATGTGAAAGAGGC
*
37787268 ATACGCCCATGTGAAAAGAGGC
1 ACACGCCCATGTG-AAAGAGGC
37787290 ACA
1 ACA
37787293 TGGCCGTGTG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 27 0.75
22 9 0.25
ACGTcount: A:0.37, C:0.28, G:0.22, T:0.12
Consensus pattern (21 bp):
ACACGCCCATGTGAAAGAGGC
Found at i:37788128 original size:7 final size:7
Alignment explanation
Indices: 37788110--37788151 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
37788100 TTCCCAAGTA
37788110 AAATAA-
1 AAATAAT
37788116 AAATAAT
1 AAATAAT
37788123 AAATAAT
1 AAATAAT
37788130 AAATAGAT
1 AAATA-AT
*
37788138 AAAAATAT
1 AAATA-AT
37788146 AAATAA
1 AAATAA
37788152 GTAACTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
6 6 0.19
7 13 0.42
8 12 0.39
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (7 bp):
AAATAAT
Found at i:37788132 original size:16 final size:17
Alignment explanation
Indices: 37788111--37788151 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
37788101 TCCCAAGTAA
37788111 AATAAA-AATAATAAAT
1 AATAAATAATAATAAAT
37788127 AATAAATAGATAA-AAAT
1 AATAAATA-ATAATAAAT
37788144 -ATAAATAA
1 AATAAATAA
37788152 GTAACTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 13 0.57
17 5 0.22
18 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AATAAATAATAATAAAT
Found at i:37800553 original size:52 final size:51
Alignment explanation
Indices: 37800492--37800622 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
37800482 TGAACAAATC
*
37800492 AGTTACATAATGCATGACTTAATTTAATGATGCAAACTTTAAATAACATGGG
1 AGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAAATAACATGAG
* *
37800544 AGTTACATAATGCAT-ATCATAATTT-ATGATGCAAACTTAACTAACATGAG
1 AGTTACATAATGCATGA-CTTAATTTAATGATGCAAACTTAAATAACATGAG
* *
37800594 AGTTACATAATGCATGACTTTATTAAATG
1 AGTTACATAATGCATGACTTAATTTAATG
37800623 CAGAACGCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
50 32 0.46
51 16 0.23
52 22 0.31
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (51 bp):
AGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAAATAACATGAG
Found at i:37804733 original size:6 final size:6
Alignment explanation
Indices: 37804722--37804752 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
37804712 ACATGAAAAG
37804722 AAAATA AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA A
37804753 TTAAATATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:37805139 original size:17 final size:17
Alignment explanation
Indices: 37805117--37805153 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
37805107 AATTATATAA
37805117 AAATAAATAATG-AAAAT
1 AAATAAATAA-GAAAAAT
37805134 AAATAAATAAGAAAAAT
1 AAATAAATAAGAAAAAT
37805151 AAA
1 AAA
37805154 AAAACGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
AAATAAATAAGAAAAAT
Found at i:37812210 original size:13 final size:13
Alignment explanation
Indices: 37812192--37812217 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37812182 AGGAGCAACA
37812192 GGAACTCCCACTT
1 GGAACTCCCACTT
37812205 GGAACTCCCACTT
1 GGAACTCCCACTT
37812218 TTATAGGCCC
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:0.38, G:0.15, T:0.23
Consensus pattern (13 bp):
GGAACTCCCACTT
Found at i:37814063 original size:26 final size:26
Alignment explanation
Indices: 37814014--37814063 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
37814004 ACCTAAGTCC
*
37814014 ATAACAGAAACAGACATCAGAATCAG
1 ATAACAGAAACAGACATCAAAATCAG
*
37814040 ATAACAG-ATCAGACATACAAAATC
1 ATAACAGAAACAGACAT-CAAAATC
37814064 CTACCCCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.54, C:0.20, G:0.12, T:0.14
Consensus pattern (26 bp):
ATAACAGAAACAGACATCAAAATCAG
Found at i:37815618 original size:29 final size:29
Alignment explanation
Indices: 37815567--37815654 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 29
37815557 GGACATTACA
* * * *
37815567 ACTGGTACACAGTACCTAGAACTGTAATC
1 ACTGGCACAAAGTACTTGGAACTGTAATC
* * *
37815596 A-TGGGCACAGAGTTCTTGGAACTATAA-C
1 ACT-GGCACAAAGTACTTGGAACTGTAATC
* *
37815624 ACTGGTACAAAGTACTTGAAACTGTAATC
1 ACTGGCACAAAGTACTTGGAACTGTAATC
37815653 AC
1 AC
37815655 CTGCAACTAG
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (29 bp):
ACTGGCACAAAGTACTTGGAACTGTAATC
Found at i:37816462 original size:14 final size:14
Alignment explanation
Indices: 37816445--37816475 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
37816435 TTCATTCCTT
*
37816445 ATTTTTCAAACATC
1 ATTTCTCAAACATC
37816459 ATTTCTCAAACATC
1 ATTTCTCAAACATC
37816473 ATT
1 ATT
37816476 CATCCTTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTTCTCAAACATC
Found at i:37819978 original size:24 final size:24
Alignment explanation
Indices: 37819951--37819997 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
37819941 CAAAGGCTTA
37819951 ACCTTTAATTCAGCTAAAATAAAC
1 ACCTTTAATTCAGCTAAAATAAAC
37819975 ACCTTTAATTCAGCTAAAATAAA
1 ACCTTTAATTCAGCTAAAATAAA
37819998 ACCGTCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (24 bp):
ACCTTTAATTCAGCTAAAATAAAC
Found at i:37820009 original size:24 final size:24
Alignment explanation
Indices: 37819957--37820009 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
37819947 CTTAACCTTT
* *
37819957 AATTCAGCTAAAATAAACACCTTT
1 AATTCAGCTAAAATAAACACCGTC
37819981 AATTCAGCTAAAATAAA-ACCGTC
1 AATTCAGCTAAAATAAACACCGTC
37820004 ACATTC
1 A-ATTC
37820010 CAACTTAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (24 bp):
AATTCAGCTAAAATAAACACCGTC
Found at i:37822304 original size:25 final size:25
Alignment explanation
Indices: 37822266--37822332 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
37822256 TCCTATACAT
* * *
37822266 GTATGCTCATACGAGCTGTAGATTG
1 GTATGCTCACACGAGCTATAGATCG
*
37822291 GTATGCTCACACGAGATATAGATCG
1 GTATGCTCACACGAGCTATAGATCG
* *
37822316 GTATGCTCTCATGAGCT
1 GTATGCTCACACGAGCT
37822333 TTGGGTCAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (25 bp):
GTATGCTCACACGAGCTATAGATCG
Found at i:37825299 original size:33 final size:33
Alignment explanation
Indices: 37825262--37825411 Score: 100
Period size: 33 Copynumber: 4.5 Consensus size: 33
37825252 TACGGTGGGT
37825262 TCAGCACTTAGCAACCACCAATGATTCAGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCAGGGAA
*
37825295 TCAGCACTTAGCAA-C-CC-----TTCGGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTC-AGGGAA
* * *
37825322 TCAGCACTTAGCAACCCCTTCACATTTCAGATGCGGTGGAA
1 TCAGCACTTAGCAACCAC--CA-A--T--GATTCAG-GGAA
*
37825363 TCAGCACTTAGCAACCACCAATGAAT-AGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCA-GGGAA
*
37825396 TTAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
37825412 CCTCGGGGGA
Statistics
Matches: 93, Mismatches: 7, Indels: 34
0.69 0.05 0.25
Matches are distributed among these distances:
26 3 0.03
27 19 0.20
28 1 0.01
29 1 0.01
31 3 0.03
32 1 0.01
33 33 0.35
34 3 0.03
36 1 0.01
38 1 0.01
39 2 0.02
40 2 0.02
41 23 0.25
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGATTCAGGGAA
Found at i:37825497 original size:103 final size:102
Alignment explanation
Indices: 37825215--37825543 Score: 471
Period size: 101 Copynumber: 3.2 Consensus size: 102
37825205 CAATGAATCA
** **
37825215 GGGAATCAGCACACAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
* * *
37825280 CAATGATTCAGGGAATCAGCACTTAGCAACCCTTCGG
66 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGG
* *
37825317 GGGAATCAGCACTTAGCAACCCC-TTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
* *
37825381 CAATGAATAGGGGAATTAGCACTTAGCAACCCCTCGG
66 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGG
* * * *
37825418 GGGAACCAGCACTTCGCAACCCCTTTTCACATTTAAAATACGGTGGAATCAGCACTTAACAACCA
1 GGGAATCAGCACTTAGCAACCCC-TTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* ** *
37825483 CCAATAAATCGGGGAATCAGCACACAGCAACCCCTTGG
65 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGG
37825521 GGGAATCAGCACTTAGCAACCCC
1 GGGAATCAGCACTTAGCAACCCC
37825544 CTTTATATGC
Statistics
Matches: 200, Mismatches: 25, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
101 90 0.45
102 21 0.10
103 89 0.44
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (102 bp):
GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
CAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGG
Found at i:37825896 original size:30 final size:30
Alignment explanation
Indices: 37825856--37825913 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
37825846 TAATCCTCCA
*
37825856 CCCAACTTTTTGA-AAATTTACAATTTTGCC
1 CCCAAATTTTT-ACAAATTTACAATTTTGCC
* *
37825886 CCCAAATTTTTACATATTTACACTTTTG
1 CCCAAATTTTTACAAATTTACAATTTTG
37825914 TCCCTAAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (30 bp):
CCCAAATTTTTACAAATTTACAATTTTGCC
Found at i:37828480 original size:21 final size:22
Alignment explanation
Indices: 37828443--37828485 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
37828433 GATCAGTGAA
37828443 GATTCGGCACTTTTCACCATAC
1 GATTCGGCACTTTTCACCATAC
37828465 GATTCGGCAC-TTTCACCATAC
1 GATTCGGCACTTTTCACCATAC
37828486 AAATAATGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (22 bp):
GATTCGGCACTTTTCACCATAC
Found at i:37832931 original size:101 final size:101
Alignment explanation
Indices: 37832797--37833126 Score: 439
Period size: 101 Copynumber: 3.2 Consensus size: 101
37832787 CCAATGAATC
** * **
37832797 GGGGAATCAGCACACAGCAACCGCTTTCACATTTAAGATATGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACC-CCTTCACATTTAAGATATGGTGGAATCAGCACTTAGCAACCA
* *
37832862 CCAATGATTCAGGGAATCAGTACTTAGCAACCCCTCG
65 CCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCG
*
37832899 GGGGAATCAGCACTTAGCAACCCCTTCACATTTCAGAT-TCGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTCACATTTAAGATAT-GGTGGAATCAGCACTTAGCAACCA
* *
37832963 CCAATGAAT-AGGGGAATTAACACTTAGCAACCCCTCG
65 CCAATGAATCA-GGGAATCAGCACTTAGCAACCCCTCG
* * *
37833000 GGGGAACCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAA-CCCC-TTCACATTTAAGATATGGTGGAATCAGCACTTAGCAACC
* ** *
37833065 ACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTG
64 ACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCG
*
37833103 GGGGAATCAACACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
37833127 CTTTATATGC
Statistics
Matches: 200, Mismatches: 22, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
100 2 0.01
101 86 0.43
102 28 0.14
103 84 0.42
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.19
Consensus pattern (101 bp):
GGGGAATCAGCACTTAGCAACCCCTTCACATTTAAGATATGGTGGAATCAGCACTTAGCAACCAC
CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCG
Found at i:37833130 original size:103 final size:102
Alignment explanation
Indices: 37832797--37833126 Score: 464
Period size: 103 Copynumber: 3.2 Consensus size: 102
37832787 CCAATGAATC
** * * **
37832797 GGGGAATCAGCACACAGCAACCGCTTTCACATTTAAGATATGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* * *
37832862 CCAATGATTCAGGGAATCAGTACTTAGCAACCCCTCG
66 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCG
* *
37832899 GGGGAATCAGCACTTAGCAACCCC-TTCACATTTCAGATTCGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* * *
37832963 CCAATGAATAGGGGAATTAACACTTAGCAACCCCTCG
66 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCG
* *
37833000 GGGGAACCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAA-CCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACC
** *
37833065 ACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTG
65 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCG
*
37833103 GGGGAATCAACACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
37833127 CTTTATATGC
Statistics
Matches: 200, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
101 85 0.43
102 29 0.14
103 86 0.43
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.19
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:37841661 original size:12 final size:12
Alignment explanation
Indices: 37841644--37841669 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37841634 CTTAACAATG
37841644 TTGTTTTTTTCT
1 TTGTTTTTTTCT
37841656 TTGTTTTTTTCT
1 TTGTTTTTTTCT
37841668 TT
1 TT
37841670 TTAGAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTGTTTTTTTCT
Found at i:37847859 original size:26 final size:26
Alignment explanation
Indices: 37847830--37847883 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
37847820 GATACAAGTG
*
37847830 TTTTGTTTTATCCTCTTTTTATTAAA
1 TTTTGTTTTATCCTCTTTTTACTAAA
37847856 TTTTGTTTTATCCTCTTTTTACTAAA
1 TTTTGTTTTATCCTCTTTTTACTAAA
37847882 TT
1 TT
37847884 AACCAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.13, G:0.04, T:0.65
Consensus pattern (26 bp):
TTTTGTTTTATCCTCTTTTTACTAAA
Found at i:37848290 original size:29 final size:29
Alignment explanation
Indices: 37848257--37848319 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
37848247 AGAAGAAACT
*
37848257 AAATTAATTAATTTTAATATCATGGTAAC
1 AAATTAATTAATTTTAATATCATAGTAAC
37848286 AAATTAATTAATTTTAATATCATAGTAAC
1 AAATTAATTAATTTTAATATCATAGTAAC
37848315 AAATT
1 AAATT
37848320 GAGTGACATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (29 bp):
AAATTAATTAATTTTAATATCATAGTAAC
Found at i:37848378 original size:17 final size:16
Alignment explanation
Indices: 37848353--37848386 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37848343 TTAATAATTT
37848353 ATTTAATTAATTTAAAA
1 ATTTAATT-ATTTAAAA
*
37848370 ATTTTATTATTTAAAA
1 ATTTAATTATTTAAAA
37848386 A
1 A
37848387 AAATATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTAATTATTTAAAA
Found at i:37873572 original size:16 final size:16
Alignment explanation
Indices: 37873551--37873582 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37873541 GGACACTTCT
37873551 GCTAATGGTGCTCTCA
1 GCTAATGGTGCTCTCA
37873567 GCTAATGGTGCTCTCA
1 GCTAATGGTGCTCTCA
37873583 TTTCTAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (16 bp):
GCTAATGGTGCTCTCA
Found at i:37878992 original size:47 final size:47
Alignment explanation
Indices: 37878959--37879305 Score: 568
Period size: 47 Copynumber: 7.3 Consensus size: 47
37878949 GTGAACACGC
*
37878959 ATATATGTGATAAGGCCTAATGGCCGATGTGATGCATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
37879006 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
37879053 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
*
37879102 ATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
37879149 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
37879198 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * * * *
37879245 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
37879292 ATAAATGTGATAAG
1 ATATATGTGATAAG
37879306 TCCCGAAGGG
Statistics
Matches: 283, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
47 190 0.67
49 93 0.33
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:37879118 original size:143 final size:142
Alignment explanation
Indices: 37878959--37879305 Score: 570
Period size: 143 Copynumber: 2.4 Consensus size: 142
37878949 GTGAACACGC
*
37878959 ATATATGTGATAAGGCCTAATGGCCGATGTGATGCATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
37879024 AATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 AATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
37879088 ATGTGAAAGTGTAT
131 ATGTGAAAGTG--T
*
37879102 ATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
37879167 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 AATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
37879232 AATGTGAAAGTGT
130 AATGTGAAAGTGT
* * * * * * * *
37879245 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
37879306 TCCCGAAGGG
Statistics
Matches: 191, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
143 144 0.75
145 47 0.25
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (142 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGT
Found at i:37879158 original size:96 final size:96
Alignment explanation
Indices: 37878959--37879305 Score: 585
Period size: 96 Copynumber: 3.7 Consensus size: 96
37878949 GTGAACACGC
*
37878959 ATATATGTGATAAGGCCTAATGGCCGATGTGATGCATGTGAAAGTG--TATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
37879022 CTAATGGCCGATGTGATGAATGTGAAAGTGT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGT
*
37879053 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGGGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
37879118 CTAATGGCCGATGTGATGAATGTGAAAGTGT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGT
37879149 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
37879214 CTAATGGCCGATGTGATGAATGTGAAAGTGT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * * * *
37879245 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
37879306 TCCCGAAGGG
Statistics
Matches: 241, Mismatches: 10, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
94 55 0.23
95 1 0.00
96 185 0.77
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:37879480 original size:37 final size:37
Alignment explanation
Indices: 37879424--37879502 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
37879414 CCGAGCTCTA
* * *
37879424 AAGACCCGATGACTACGTGTGG-GAATTTTGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
37879461 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37879498 AAGAC
1 AAGAC
37879503 TTCGAATAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37883864 original size:25 final size:23
Alignment explanation
Indices: 37883811--37883866 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
37883801 AGTTTTCTCC
*
37883811 TAAATTTTAATTTTTCAATTTAT
1 TAAATTTTAATTTTTCAATTAAT
*
37883834 TGAATTATTAATATTTT-ATATTAAT
1 TAAATT-TTAAT-TTTTCA-ATTAAT
37883859 TAAATTTT
1 TAAATTTT
37883867 TGAGAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 5 0.19
24 8 0.30
25 14 0.52
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TAAATTTTAATTTTTCAATTAAT
Found at i:37887568 original size:21 final size:21
Alignment explanation
Indices: 37887538--37887581 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
37887528 ATTTAATCAA
37887538 TTTAGCTTGAATTTAATTT-GT
1 TTTAGCTTG-ATTTAATTTCGT
* *
37887559 TTTAGGTTGATTTCATTTCGT
1 TTTAGCTTGATTTAATTTCGT
37887580 TT
1 TT
37887582 GTTAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.18, C:0.07, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTAGCTTGATTTAATTTCGT
Found at i:37888371 original size:15 final size:15
Alignment explanation
Indices: 37888351--37888388 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
37888341 AACTCAATAT
37888351 TTACTTGTCACTTTA
1 TTACTTGTCACTTTA
37888366 TTACTTGTCACTTTA
1 TTACTTGTCACTTTA
37888381 TTACTTGT
1 TTACTTGT
37888389 TGCGATTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.55
Consensus pattern (15 bp):
TTACTTGTCACTTTA
Found at i:37890741 original size:10 final size:10
Alignment explanation
Indices: 37890726--37890773 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
37890716 TAAAATTTTG
37890726 AATTTTAATT
1 AATTTTAATT
*
37890736 AATTTTATAATA
1 AA-TTT-TAATT
*
37890748 AATTTTTATT
1 AATTTTAATT
37890758 AATTTTAATT
1 AATTTTAATT
*
37890768 TATTTT
1 AATTTT
37890774 CGACAGATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 19 0.61
11 6 0.19
12 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTAATT
Found at i:37894042 original size:42 final size:42
Alignment explanation
Indices: 37893995--37894321 Score: 423
Period size: 42 Copynumber: 7.8 Consensus size: 42
37893985 CAGACAAAAA
* * *
37893995 CGCCGCTAAAGACCATGTTCTTCAGCGGCGTTTTTTCTTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTTAAG
* *
37894037 CGCCGCTAAAGAACATGGTCTTTAGTGGCTTTTTTTC-TAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTTAAG
* * *
37894078 CGCCTCTGAAGAACATGGTCTTTAGCGGCCTTTTTT-TTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTTAAG
* * *
37894119 TGCCGCTAAAAAACATGGTCTTTAGCAGCGTTTCTTTC-TAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTTCTTAAG
*
37894161 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTT-TCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCT-TAAG
* *
37894203 CGCCGTTAAAGAACATAGTCTTTAGCGGCGTTTTTT-TCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCT-TAAG
* *
37894245 CGCCTCTGAAGAACATGGTCTTTAGCGGCGTTTCTTTC-TAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTTCTTAAG
*
37894287 CGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
37894322 ATACAAAAAC
Statistics
Matches: 249, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
41 72 0.29
42 174 0.70
43 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTTAAG
Found at i:37894287 original size:126 final size:125
Alignment explanation
Indices: 37893995--37894321 Score: 489
Period size: 126 Copynumber: 2.6 Consensus size: 125
37893985 CAGACAAAAA
* * *
37893995 CGCCGCTAAAGACCATGTTCTTCAGCGGCGTTT-TTTCTTAAGCGCCGCTAAAGAACATGGTCTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTC-TAAGCGCCGCTAAAGAACATGGTCTT
* *
37894059 TAGTGGC-TTTTTTTCTAAGCGCCTCTGAAGAACATGGTCTTTAGCGGCCTTTTTTTTAAG
65 TAGTGGCGTTTTTTTCTAAGCGCCTCTAAAGAACATAGTCTTTAGCGGCCTTTTTTTTAAG
* * * *
37894119 TGCCGCTAAAAAACATGGTCTTTAGCAGCGTTTCTTTCTAAGCGCCGCTAAAGAACATGTTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
* *
37894184 AGCGGCGTTTTTTTCTAAGCGCCGT-TAAAGAACATAGTCTTTAGCGGCGTTTTTTTCTAAG
66 AGTGGCGTTTTTTTCTAAGCGCC-TCTAAAGAACATAGTCTTTAGCGGCCTTTTTTT-TAAG
* *
37894245 CGCCTCTGAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
37894310 AGTGGCGTTTTT
66 AGTGGCGTTTTT
37894322 ATACAAAAAC
Statistics
Matches: 181, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
124 58 0.32
125 48 0.27
126 75 0.41
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (125 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
AGTGGCGTTTTTTTCTAAGCGCCTCTAAAGAACATAGTCTTTAGCGGCCTTTTTTTTAAG
Found at i:37894697 original size:21 final size:21
Alignment explanation
Indices: 37894640--37894697 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
37894630 TTGCTCTGTT
* *
37894640 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCG
* * *
37894661 CTGCATCCTTCGCTGCAGTCG
1 CTGCTTCCCTCGCTGCAGCCG
*
37894682 CTGCTTCCCTCACTGC
1 CTGCTTCCCTCGCTGC
37894698 CGCCTCTACT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.07, C:0.43, G:0.19, T:0.31
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCG
Found at i:37900233 original size:25 final size:25
Alignment explanation
Indices: 37900205--37900615 Score: 161
Period size: 25 Copynumber: 16.3 Consensus size: 25
37900195 GTTACATAAT
*
37900205 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
37900230 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
*
37900256 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* * * *
37900281 TTGTGTATTATGTAACTTATGTTAG
1 TTATGTATTAAGTAAGTTATGTAAG
** ** *
37900306 TTATCAAAGAAATGTATGTTATGTAAG
1 TTAT-GTATTAA-GTAAGTTATGTAAG
* *
37900333 -T-TGTAAGTTATGT-A-TTATGTAAC
1 TTATGT-A-TTAAGTAAGTTATGTAAG
*** * * *
37900356 TTATGTAAGTTATCAAAGTAACGTATG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* * *
37900383 TTATG---TAAGT-TG-TAAGTTA-
1 TTATGTATTAAGTAAGTTATGTAAG
*
37900402 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* * *
37900427 TTATGTATTATGCATGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* * **
37900452 TTGTGTAAGCTATTTAAGTTATGTAAG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* *
37900479 TTTTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
37900504 TTATGTATGCTATGT-A-TTATGTAAGTTG
1 TTATGTAT--TAAGTAAGTTATGTAA---G
* *
37900532 TTATGTTATTATGTAAGTTATGTATG
1 TTATG-TATTAAGTAAGTTATGTAAG
* * *
37900558 CTATGTACTATGT-A-TTATGTAAGTTG
1 TTATGTATTAAGTAAGTTATGTAA---G
* *
37900584 TTATGTATTATGTAGGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
37900609 TTGTGTA
1 TTATGTA
37900616 AGCTATGTAT
Statistics
Matches: 292, Mismatches: 60, Indels: 68
0.70 0.14 0.16
Matches are distributed among these distances:
19 5 0.02
20 3 0.01
21 1 0.00
22 6 0.02
23 17 0.06
24 9 0.03
25 129 0.44
26 44 0.15
27 52 0.18
28 16 0.05
29 10 0.03
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:37900322 original size:59 final size:58
Alignment explanation
Indices: 37900258--37900430 Score: 222
Period size: 59 Copynumber: 2.9 Consensus size: 58
37900248 TATGTAAGTT
* * *
37900258 ATGTA-TTAAGTAAGCTATGTAAGTTGTGTATTATGTAACTTATGTTAGTTATCAAAGAA
1 ATGTAGTTATGTAAG-T-TGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAAGAA
*
37900317 ATGTATGTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAAGTA
1 ATGTA-GTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAAGAA
* *
37900376 ACGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTAT
1 ATGTA-GTTATGTAAGTTGTAAG---TTATGTATTATGTAACTTATGTAAGTTAT
37900431 GTATTATGCA
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
59 66 0.64
60 1 0.01
61 8 0.08
62 28 0.27
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (58 bp):
ATGTAGTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAAGAA
Found at i:37900342 original size:16 final size:17
Alignment explanation
Indices: 37900222--37900661 Score: 163
Period size: 16 Copynumber: 25.7 Consensus size: 17
37900212 TTAAGTAAAT
*
37900222 TATGTAAGTTATGTACG
1 TATGTAAGTTATGTAAG
* *
37900239 TGTATAAGTTATGTAAG
1 TATGTAAGTTATGTAAG
*
37900256 TTATGT-A-TTAAGTAAG
1 -TATGTAAGTTATGTAAG
* *
37900272 CTATGTAAGTTGTGT-AT
1 -TATGTAAGTTATGTAAG
* *
37900289 TATGTAACTTATGTTAG
1 TATGTAAGTTATGTAAG
** ** *
37900306 TTATCAAAGAAATGTATG
1 -TATGTAAGTTATGTAAG
37900324 TTATGTAAG-T-TGTAAG
1 -TATGTAAGTTATGTAAG
*
37900340 TTATGT-A-TTATGTAACT
1 -TATGTAAGTTATGTAA-G
**
37900357 TATGTAAGTTATCAAAG
1 TATGTAAGTTATGTAAG
* *
37900374 TAACGTATGTTATGTAAG
1 T-ATGTAAGTTATGTAAG
*
37900392 T-TGTAAGTTAT-TATGTAT
1 TATGTAAGTTATGTA---AG
37900410 TATGTAAGTTATGTAAG
1 TATGTAAGTTATGTAAG
* *
37900427 TTATGT-A-TTATGCATG
1 -TATGTAAGTTATGTAAG
*
37900443 TTATGTAAGTTGTGTAAG
1 -TATGTAAGTTATGTAAG
*
37900461 CTATTTAAGTTATGTAAG
1 -TATGTAAGTTATGTAAG
*
37900479 TTTTGT-A-TTATGTAAG
1 -TATGTAAGTTATGTAAG
*
37900495 TTATGTAAGTTATGTATG
1 -TATGTAAGTTATGTAAG
37900513 CTATGT-A-TTATGTAAG
1 -TATGTAAGTTATGTAAG
*
37900529 T-TGTTATGTTATTATGTAAG
1 TATG-TAAG---TTATGTAAG
* * *
37900549 TTATGTATGCTATGT-AC
1 -TATGTAAGTTATGTAAG
37900566 TATGT-A-TTATGTAAG
1 TATGTAAGTTATGTAAG
* *
37900581 T-TGTTATGTATTATGTAGG
1 TATG-TAAG--TTATGTAAG
*
37900600 TTATGTAAGTTGTGTAAG
1 -TATGTAAGTTATGTAAG
37900618 CTATGT-A-TTATGTAAG
1 -TATGTAAGTTATGTAAG
* *
37900634 T-TGTTATGTTAT-TATG
1 TATG-TAAGTTATGTAAG
37900650 TATGTAAGTTAT
1 TATGTAAGTTAT
37900662 ATATAAGTTT
Statistics
Matches: 315, Mismatches: 67, Indels: 83
0.68 0.14 0.18
Matches are distributed among these distances:
14 11 0.03
15 11 0.03
16 113 0.36
17 34 0.11
18 104 0.33
19 18 0.06
20 15 0.05
21 7 0.02
22 2 0.01
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (17 bp):
TATGTAAGTTATGTAAG
Found at i:37900407 original size:19 final size:19
Alignment explanation
Indices: 37900383--37900421 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37900373 GTAACGTATG
37900383 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
37900402 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
37900421 T
1 T
37900422 GTAAGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:37900472 original size:43 final size:41
Alignment explanation
Indices: 37900216--37900582 Score: 153
Period size: 43 Copynumber: 9.0 Consensus size: 41
37900206 TATGTATTAA
* *
37900216 GTAAATTATGTAAGTTATGTACGTGTAT-AAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTA--T-TATGTA-TTATGTAAGTTAT
* * * *
37900260 GT-A-TTAAGTAAGCTATGTAAGTTGTGTATTATGTAACTTAT
1 GTAAGTTATGTAAGTTATGT-A-TTATGTATTATGTAAGTTAT
* ** ** *
37900301 GTTAGTTATCAAAGAAATGTATGTTATGTAAGT-TGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTA--TTATGT-ATTATGTAAGTTAT
* ** * * *
37900344 GT-A-TTATGTAACTTATGTAAGTTATCAAAGTAACGTATGTTAT
1 GTAAGTTATGTAAGTTATGT-A-TTAT-GTA-TTATGTAAGTTAT
37900387 GTAAG-T-TGTAAG---T-TATTATGTATTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTATTATGTATTATGTAAGTTAT
* *
37900422 GTAAGTTATGT-A-TTATG---CATG--TTATGTAAGTTGT
1 GTAAGTTATGTAAGTTATGTATTATGTATTATGTAAGTTAT
* * *
37900456 GTAAGCTATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGT-A-TTATGTATTATGTAAGTTAT
* * *
37900499 GTAAGTTATGTATGCTATGTATTATGTAAGTTGTTATGTTA-TTAT
1 GTAAGTTATGTAAGTTATGTATTATGT-A----TTATGTAAGTTAT
* * *
37900544 GTAAGTTATGTATGCTATGTACTATGTATTATGTAAGTT
1 GTAAGTTATGTAAGTTATGTATTATGTATTATGTAAGTT
37900583 GTTATGTATT
Statistics
Matches: 245, Mismatches: 45, Indels: 69
0.68 0.13 0.19
Matches are distributed among these distances:
34 21 0.09
35 16 0.07
36 11 0.04
37 7 0.03
38 2 0.01
39 1 0.00
40 8 0.03
41 41 0.17
42 22 0.09
43 72 0.29
44 7 0.03
45 30 0.12
46 7 0.03
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (41 bp):
GTAAGTTATGTAAGTTATGTATTATGTATTATGTAAGTTAT
Found at i:37900474 original size:52 final size:50
Alignment explanation
Indices: 37900418--37900635 Score: 251
Period size: 52 Copynumber: 4.2 Consensus size: 50
37900408 ATTATGTAAG
* * * *
37900418 TTATGTAAGTTATGTATTATGCATGTTATGTAAGTTGTGTAAGCTATTTAA
1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTAAGCTATGT-A
* *
37900469 GTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATGTATGCTATGTA
1 -TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTAAGCTATGTA
* *
37900520 TTATGTAAGTTGTTATGTTATTATGTAAGTTATGTATGCTATGT-A-CTATGTA
1 TTATGTAA---GTTATG-TATTATGTAAGTTATGTAAGTTATGTAAGCTATGTA
* *
37900572 TTATGTAAGTTGTTATGTATTATGTAGGTTATGTAAGTTGTGTAAGCTATGTA
1 TTATGTAA---GTTATGTATTATGTAAGTTATGTAAGTTATGTAAGCTATGTA
37900625 TTATGTAAGTT
1 TTATGTAAGTT
37900636 GTTATGTTAT
Statistics
Matches: 146, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
50 11 0.08
51 23 0.16
52 68 0.47
53 20 0.14
54 24 0.16
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (50 bp):
TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTAAGCTATGTA
Found at i:37900588 original size:19 final size:17
Alignment explanation
Indices: 37900566--37900651 Score: 77
Period size: 19 Copynumber: 4.8 Consensus size: 17
37900556 TGCTATGTAC
37900566 TATGTATTATGTAAGTTGT
1 TATGTATTATGTAAG--GT
37900585 TATGTATTATGT-AGGT
1 TATGTATTATGTAAGGT
* *
37900601 TATGTAAGTTGTGTAA-GC
1 TATGT-A-TTATGTAAGGT
37900619 TATGTATTATGTAAGTTGT
1 TATGTATTATGTAAG--GT
37900638 TATGTTATTATGTA
1 TATG-TATTATGTA
37900652 TGTAAGTTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
16 14 0.25
17 2 0.04
18 13 0.23
19 18 0.32
20 9 0.16
ACGTcount: A:0.27, C:0.01, G:0.22, T:0.50
Consensus pattern (17 bp):
TATGTATTATGTAAGGT
Found at i:37900673 original size:12 final size:12
Alignment explanation
Indices: 37900654--37900682 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37900644 ATTATGTATG
37900654 TAAG-TTATATA
1 TAAGTTTATATA
37900665 TAAGTTTATATA
1 TAAGTTTATATA
37900677 TAAGTT
1 TAAGTT
37900683 ATGTAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (12 bp):
TAAGTTTATATA
Found at i:37900691 original size:9 final size:9
Alignment explanation
Indices: 37900216--37900661 Score: 261
Period size: 9 Copynumber: 52.0 Consensus size: 9
37900206 TATGTATTAA
*
37900216 GTAAATTAT
1 GTAAGTTAT
37900225 GTAAGTTAT
1 GTAAGTTAT
*
37900234 GTACGTGTA-
1 GTAAGT-TAT
37900243 -TAAGTTAT
1 GTAAGTTAT
37900251 GTAAGTTAT
1 GTAAGTTAT
*
37900260 GT-A-TTAA
1 GTAAGTTAT
*
37900267 GTAAGCTAT
1 GTAAGTTAT
*
37900276 GTAAGTTGT
1 GTAAGTTAT
37900285 GT-A-TTAT
1 GTAAGTTAT
*
37900292 GTAACTTAT
1 GTAAGTTAT
*
37900301 GTTAGTTAT
1 GTAAGTTAT
** **
37900310 CAAAGAAAT
1 GTAAGTTAT
*
37900319 GTATGTTAT
1 GTAAGTTAT
37900328 GTAAG-T-T
1 GTAAGTTAT
37900335 GTAAGTTAT
1 GTAAGTTAT
37900344 GT-A-TTAT
1 GTAAGTTAT
*
37900351 GTAACTTAT
1 GTAAGTTAT
37900360 GTAAGTTAT
1 GTAAGTTAT
** * *
37900369 CAAAGTAAC
1 GTAAGTTAT
*
37900378 GTATGTTAT
1 GTAAGTTAT
37900387 GTAAG-T-T
1 GTAAGTTAT
37900394 GTAAGTTAT
1 GTAAGTTAT
*
37900403 -TATGTATTAT
1 GTAAG--TTAT
37900413 GTAAGTTAT
1 GTAAGTTAT
37900422 GTAAGTTAT
1 GTAAGTTAT
37900431 GT-A-TTAT
1 GTAAGTTAT
* *
37900438 GCATGTTAT
1 GTAAGTTAT
*
37900447 GTAAGTTGT
1 GTAAGTTAT
*
37900456 GTAAGCTAT
1 GTAAGTTAT
*
37900465 TTAAGTTAT
1 GTAAGTTAT
*
37900474 GTAAGTTTT
1 GTAAGTTAT
37900483 GT-A-TTAT
1 GTAAGTTAT
37900490 GTAAGTTAT
1 GTAAGTTAT
37900499 GTAAGTTAT
1 GTAAGTTAT
* *
37900508 GTATGCTAT
1 GTAAGTTAT
37900517 GT-A-TTAT
1 GTAAGTTAT
37900524 GTAAGTTGTTAT
1 GTAA---GTTAT
*
37900536 GTTA-TTAT
1 GTAAGTTAT
37900544 GTAAGTTAT
1 GTAAGTTAT
* *
37900553 GTATGCTAT
1 GTAAGTTAT
*
37900562 GT-A-CTAT
1 GTAAGTTAT
37900569 GT-A-TTAT
1 GTAAGTTAT
37900576 GTAAGTTGTTAT
1 GTAA---GTTAT
37900588 GT-A-TTAT
1 GTAAGTTAT
*
37900595 GTAGGTTAT
1 GTAAGTTAT
*
37900604 GTAAGTTGT
1 GTAAGTTAT
*
37900613 GTAAGCTAT
1 GTAAGTTAT
37900622 GT-A-TTAT
1 GTAAGTTAT
*
37900629 GTAAGTTGT
1 GTAAGTTAT
*
37900638 -TATGTTAT
1 GTAAGTTAT
*
37900646 -TATG-TAT
1 GTAAGTTAT
37900653 GTAAGTTAT
1 GTAAGTTAT
37900662 ATATAAGTTT
Statistics
Matches: 333, Mismatches: 67, Indels: 74
0.70 0.14 0.16
Matches are distributed among these distances:
7 71 0.21
8 44 0.13
9 195 0.59
10 6 0.02
11 4 0.01
12 13 0.04
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:37900795 original size:20 final size:19
Alignment explanation
Indices: 37900770--37900828 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
37900760 TATGATTGAT
37900770 AAATTTT-TCAAATATATATA
1 AAATTTTAT-AAATATAT-TA
37900790 AAATTTTAATAAATATATTA
1 AAATTTT-ATAAATATATTA
37900810 AAATTGTATATAAATATAT
1 AAATT-T-TATAAATATAT
37900829 ATATCAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
20 14 0.40
21 19 0.54
22 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
AAATTTTATAAATATATTA
Found at i:37900805 original size:19 final size:20
Alignment explanation
Indices: 37900783--37900829 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
37900773 TTTTTCAAAT
*
37900783 ATATATAAAATTTTA-ATAA
1 ATATATAAAATTGTATATAA
37900802 ATATATTAAAATTGTATATAA
1 ATATA-TAAAATTGTATATAA
37900823 ATATATA
1 ATATATA
37900830 TATCAAAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 5 0.20
20 11 0.44
21 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATATATAAAATTGTATATAA
Found at i:37900805 original size:21 final size:22
Alignment explanation
Indices: 37900779--37900831 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
37900769 TAAATTTTTC
*
37900779 AAATATATATAAAATTTTA-AT
1 AAATATATATAAAATTGTATAT
37900800 AAATATAT-TAAAATTGTATAT
1 AAATATATATAAAATTGTATAT
37900821 AAATATATATA
1 AAATATATATA
37900832 TCAAAGATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.31
21 18 0.62
22 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATATATATAAAATTGTATAT
Found at i:37903437 original size:27 final size:27
Alignment explanation
Indices: 37903405--37903456 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
37903395 TCTTACATTT
*
37903405 AAAT-AATTAATTACCTATTTATTTAAC
1 AAATAAATT-ATTACCTACTTATTTAAC
37903432 AAATAAATTATTACCTACTTATTTA
1 AAATAAATTATTACCTACTTATTTA
37903457 TTTGTTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (27 bp):
AAATAAATTATTACCTACTTATTTAAC
Found at i:37904799 original size:30 final size:31
Alignment explanation
Indices: 37904763--37904822 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
37904753 TTTCTGTCTT
37904763 ACATATAAATAATTA-ATACCTATTTATTTA
1 ACATATAAATAATTACATACCTATTTATTTA
* *
37904793 ACATATAAATAATTACCTACTTATTTATTT
1 ACATATAAATAATTACATACCTATTTATTT
37904823 GTTTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (31 bp):
ACATATAAATAATTACATACCTATTTATTTA
Found at i:37904817 original size:27 final size:29
Alignment explanation
Indices: 37904763--37904819 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
37904753 TTTCTGTCTT
*
37904763 ACATATAAATAATTAATACCTATTTATTTA
1 ACATATAAATAATT-ATACCTACTTATTTA
37904793 ACATATAAATAA-T-TACCTACTTATTTA
1 ACATATAAATAATTATACCTACTTATTTA
37904820 TTTGTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 13 0.50
29 1 0.04
30 12 0.46
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (29 bp):
ACATATAAATAATTATACCTACTTATTTA
Found at i:37905571 original size:41 final size:41
Alignment explanation
Indices: 37905510--37905664 Score: 165
Period size: 41 Copynumber: 3.8 Consensus size: 41
37905500 TTTTGTTACT
* * * *
37905510 ATTAGCAGCGCTTCGTCAAAAACGCCGCTAAAGCTAC-ATTC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGCTCCGA-TC
* * *
37905551 ATTAGCGGCGCTTAGACAAAAGCGCCACTAAAGC-CCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGCTCCGATC
*
37905591 ATTAGCGGCGCTTA-ACTAAAAACGCCGCTAAAGGTCCGATC
1 ATTAGCGGCGCTTAGAC-AAAAACGCCGCTAAAGCTCCGATC
* *
37905632 ATTAGCGTCGCATTCG-CAAAAACGCCGCTAAAG
1 ATTAGCGGCGC-TTAGACAAAAACGCCGCTAAAG
37905665 GCTCGAAAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.02
40 30 0.31
41 61 0.64
42 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.18
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGCTCCGATC
Found at i:37906344 original size:10 final size:9
Alignment explanation
Indices: 37906308--37906343 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
37906298 AATTATAAGT
*
37906308 TTTTTATAA
1 TTTTTAAAA
37906317 TTTTTAAAA
1 TTTTTAAAA
37906326 TTTTTAAAA
1 TTTTTAAAA
37906335 TTTTTAAAA
1 TTTTTAAAA
37906344 AAATTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:37918187 original size:40 final size:40
Alignment explanation
Indices: 37918089--37918351 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
37918079 TCCTCGTTCA
* * * * *
37918089 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
37918128 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
37918168 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37918208 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
37918248 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
37918288 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
37918328 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37918352 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37926124 original size:40 final size:40
Alignment explanation
Indices: 37926026--37926288 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
37926016 TCCTCGTTCA
* * * * *
37926026 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
37926065 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
37926105 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37926145 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
37926185 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
37926225 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
37926265 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37926289 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37931775 original size:46 final size:46
Alignment explanation
Indices: 37931708--37931869 Score: 179
Period size: 46 Copynumber: 3.5 Consensus size: 46
37931698 TGTAACCCGC
*
37931708 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
37931754 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
37931804 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
37931847 CCGTAAGTGAACTCGGACTCAAC
1 CCATAAGCGAACTCGGACTCAAC
37931870 GAGTTCGGAT
Statistics
Matches: 97, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 49 0.51
47 28 0.29
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:37939380 original size:93 final size:93
Alignment explanation
Indices: 37939267--37939438 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37939257 CGCCCATAAG
* *
37939267 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37939332 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
37939360 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37939425 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
37939439 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:37939435 original size:46 final size:46
Alignment explanation
Indices: 37939260--37939435 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37939250 TGTAACCCGC
* * *
37939260 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
37939306 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
37939356 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
37939399 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
37939436 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:37947035 original size:50 final size:50
Alignment explanation
Indices: 37946919--37947210 Score: 252
Period size: 50 Copynumber: 5.7 Consensus size: 50
37946909 GATAATAACA
* * * * * *
37946919 TGCCAAAGCCATGTCCTAGACATGGTCTTACACGGGA-TGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATAT-CGG
* * *
37946968 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* ** * *
37947018 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* * * *
37947068 TGCCAACGTCATGTCCCAAACATGGTCTTACATGGGACCTT-TCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CTTCTCATATCGG
* * * *
37947118 TGCCAACT-CCATGTCCCAGACATGGTCTTGCATGGGACCTCTCATAATATTAATGA
1 TGCCAA-TGCCATGTCCCAGACATGGTCTTACATGGGA-CT-TC-TCATA-T--CGG
*
37947174 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
37947211 TCTCATTCCC
Statistics
Matches: 198, Mismatches: 33, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
48 1 0.01
49 37 0.19
50 118 0.60
51 3 0.02
53 3 0.02
54 1 0.01
55 1 0.01
56 34 0.17
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:37948300 original size:24 final size:23
Alignment explanation
Indices: 37948273--37948318 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
37948263 GCCCAAACGT
37948273 CGAAAT-TTTTGAACAAAATTTTCA
1 CGAAATATTTTG-A-AAAATTTTCA
37948297 CGAAATCATTTTGAAAAATTTT
1 CGAAAT-ATTTTGAAAAATTTT
37948319 AGGCCATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 14 0.70
25 1 0.05
26 5 0.25
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (23 bp):
CGAAATATTTTGAAAAATTTTCA
Found at i:37952086 original size:25 final size:25
Alignment explanation
Indices: 37952054--37952201 Score: 140
Period size: 25 Copynumber: 6.0 Consensus size: 25
37952044 AGCATCTTGA
*
37952054 TATATGGCTCTCTTGAGCTTCCCGT
1 TATATGGCTCTCATGAGCTTCCCGT
* * *
37952079 TATTTGGCTCTCACGAGCTTCCCGA
1 TATATGGCTCTCATGAGCTTCCCGT
37952104 TA-ACTGGCTCTCATGAGCTTCCCGAT
1 TATA-TGGCTCTCATGAGCTTCCCG-T
* * *
37952130 TACA--GCTCTTATGAGCTTCCCAT
1 TATATGGCTCTCATGAGCTTCCCGT
* * *
37952153 TACATGGCTCACATGAGCTTCTCGT
1 TATATGGCTCTCATGAGCTTCCCGT
** *
37952178 TATATGGCTCGAAAGAGCTTCCCG
1 TATATGGCTCTCATGAGCTTCCCG
37952202 ATTACATGCT
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
23 5 0.05
24 16 0.16
25 76 0.76
26 2 0.02
27 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.32
Consensus pattern (25 bp):
TATATGGCTCTCATGAGCTTCCCGT
Found at i:37952161 original size:49 final size:50
Alignment explanation
Indices: 37952057--37952180 Score: 137
Period size: 49 Copynumber: 2.5 Consensus size: 50
37952047 ATCTTGATAT
* **
37952057 ATGGCTCTCTTGAGCTTCCCGTTATTTGGCTCTCACGAGCTTCCCGATAAC
1 ATGGCTCTCATGAGCTTCCCGTTA-TCAGCTCTCACGAGCTTCCCGATAAC
* * *
37952108 -TGGCTCTCATGAGCTTCCCGATTA-CAGCTCTTATGAGCTTCCC-ATTAC
1 ATGGCTCTCATGAGCTTCCCG-TTATCAGCTCTCACGAGCTTCCCGATAAC
* *
37952156 ATGGCTCACATGAGCTTCTCGTTAT
1 ATGGCTCTCATGAGCTTCCCGTTAT
37952181 ATGGCTCGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
48 7 0.11
49 33 0.53
50 19 0.31
51 3 0.05
ACGTcount: A:0.18, C:0.30, G:0.19, T:0.34
Consensus pattern (50 bp):
ATGGCTCTCATGAGCTTCCCGTTATCAGCTCTCACGAGCTTCCCGATAAC
Found at i:37952161 original size:74 final size:74
Alignment explanation
Indices: 37952067--37952207 Score: 176
Period size: 74 Copynumber: 1.9 Consensus size: 74
37952057 ATGGCTCTCT
* ** * ** *
37952067 TGAGCTTCCCGTTATTTGGCTCTCACGAGCTTCCCGATA-ACTGGCTCTCATGAGCTTCCCGATT
1 TGAGCTTCCCATTACATGGCTCACACGAGCTTCCCGATATA-TGGCTCGAAAGAGCTTCCCGATT
37952131 ACAGCTCTTA
65 ACAGCTCTTA
* * *
37952141 TGAGCTTCCCATTACATGGCTCACATGAGCTTCTCGTTATATGGCTCGAAAGAGCTTCCCGATTA
1 TGAGCTTCCCATTACATGGCTCACACGAGCTTCCCGATATATGGCTCGAAAGAGCTTCCCGATTA
37952206 CA
66 CA
37952208 TGCTTGCATG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
74 55 0.98
75 1 0.02
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (74 bp):
TGAGCTTCCCATTACATGGCTCACACGAGCTTCCCGATATATGGCTCGAAAGAGCTTCCCGATTA
CAGCTCTTA
Found at i:37952220 original size:25 final size:25
Alignment explanation
Indices: 37952057--37952220 Score: 110
Period size: 25 Copynumber: 6.6 Consensus size: 25
37952047 ATCTTGATAT
* *
37952057 ATGGCTCTCTTGAGCTTCCCG-TTAT
1 ATGGCT-TCATGAGCTTCCCGATTAC
* * *
37952082 TTGGCTCTCACGAGCTTCCCGATAAC
1 ATGGCT-TCATGAGCTTCCCGATTAC
37952108 -TGGCTCTCATGAGCTTCCCGATTAC
1 ATGGCT-TCATGAGCTTCCCGATTAC
*
37952133 A--GCTCTTATGAGCTTCCC-ATTAC
1 ATGGCT-TCATGAGCTTCCCGATTAC
* * *
37952156 ATGGCTCACATGAGCTTCTCG-TTAT
1 ATGGCT-TCATGAGCTTCCCGATTAC
*
37952181 ATGGC-TCGAAAGAGCTTCCCGATTAC
1 ATGGCTTC--ATGAGCTTCCCGATTAC
37952207 AT-GCTTGCATGAGC
1 ATGGCTT-CATGAGC
37952221 ATACCTGTAT
Statistics
Matches: 112, Mismatches: 17, Indels: 20
0.75 0.11 0.13
Matches are distributed among these distances:
23 7 0.06
24 16 0.14
25 80 0.71
26 8 0.07
27 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.32
Consensus pattern (25 bp):
ATGGCTTCATGAGCTTCCCGATTAC
Found at i:37954489 original size:179 final size:179
Alignment explanation
Indices: 37954171--37954546 Score: 646
Period size: 179 Copynumber: 2.1 Consensus size: 179
37954161 TTACTTAATT
* *
37954171 AATTTAATCACAATTTAC-TTAATCTTATTTATCTACAAATCAAACAAATTGGATTCCATCATGA
1 AATTTAAT-A-AAATTACTTTAATCTTATTTATCTACAAATCAAACAAAGTGGATTCCATCATGA
*
37954235 AATTCCACTATCCACTATTAATAATTGCTCTTTTGTTCTATTAGCTAATTAAAAATCTATAGCGA
64 AATTCCACTATCCACTATTAACAATTGCTCTTTTGTTCTATTAGCTAATTAAAAATCTATAGCGA
*
37954300 TTAAACTTTTATCATTTTTACGATTTAATCCTTATACTTTAATTAACTATC
129 TTAAACTTTTACCATTTTTACGATTTAATCCTTATACTTTAATTAACTATC
* *
37954351 AATTTAATAAAATTACTTTAATCTTATTTATCTACTAATCAAACAACGTGGATTCCATCATGAAA
1 AATTTAATAAAATTACTTTAATCTTATTTATCTACAAATCAAACAAAGTGGATTCCATCATGAAA
*
37954416 TTCCACTATCCACTATTAACAATTGCTCTTTTGTTCTATTAGCTAATTAAAAATCTATATCGATT
66 TTCCACTATCCACTATTAACAATTGCTCTTTTGTTCTATTAGCTAATTAAAAATCTATAGCGATT
* *
37954481 AAACTTTTACCATTTTTATGATTTAATCCTTATACTTTAATTAGCTATC
131 AAACTTTTACCATTTTTACGATTTAATCCTTATACTTTAATTAACTATC
37954530 AATTTAATAAAATTACT
1 AATTTAATAAAATTACT
37954547 AGACCGAAAT
Statistics
Matches: 186, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
178 6 0.03
179 172 0.92
180 8 0.04
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.42
Consensus pattern (179 bp):
AATTTAATAAAATTACTTTAATCTTATTTATCTACAAATCAAACAAAGTGGATTCCATCATGAAA
TTCCACTATCCACTATTAACAATTGCTCTTTTGTTCTATTAGCTAATTAAAAATCTATAGCGATT
AAACTTTTACCATTTTTACGATTTAATCCTTATACTTTAATTAACTATC
Found at i:37970798 original size:21 final size:21
Alignment explanation
Indices: 37970774--37970821 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
37970764 ACGGTTTGCA
* *
37970774 CACACGGA-TGTGTGGAATAGT
1 CACACGAAGTGTGTGG-ATAGC
37970795 CACAC-AAGTGTGTGGATAGC
1 CACACGAAGTGTGTGGATAGC
37970815 CACACGA
1 CACACGA
37970822 CCATGTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (21 bp):
CACACGAAGTGTGTGGATAGC
Found at i:37972213 original size:9 final size:9
Alignment explanation
Indices: 37972199--37972226 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
37972189 TATAGTTTGA
37972199 TATTCGAAT
1 TATTCGAAT
37972208 TATTCGAAT
1 TATTCGAAT
37972217 TATTCGAAT
1 TATTCGAAT
37972226 T
1 T
37972227 CAAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:37978663 original size:64 final size:64
Alignment explanation
Indices: 37978562--37978688 Score: 254
Period size: 64 Copynumber: 2.0 Consensus size: 64
37978552 TTTTTGACTA
37978562 AAGAATAAGGTAATTACAAATGAGGAGAAAATCTCTATTTATATTTGAGTTTCTTAAATTCAAT
1 AAGAATAAGGTAATTACAAATGAGGAGAAAATCTCTATTTATATTTGAGTTTCTTAAATTCAAT
37978626 AAGAATAAGGTAATTACAAATGAGGAGAAAATCTCTATTTATATTTGAGTTTCTTAAATTCAA
1 AAGAATAAGGTAATTACAAATGAGGAGAAAATCTCTATTTATATTTGAGTTTCTTAAATTCAA
37978689 GAGTACAATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (64 bp):
AAGAATAAGGTAATTACAAATGAGGAGAAAATCTCTATTTATATTTGAGTTTCTTAAATTCAAT
Found at i:37979341 original size:16 final size:16
Alignment explanation
Indices: 37979295--37979342 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
37979285 TCATCCTAAT
37979295 TATA-AAAAAAT-TAA
1 TATATAAAAAATATAA
37979309 TATATAAAAATATATAA
1 TATATAAAAA-ATATAA
* *
37979326 TATTTTAAAAATATAA
1 TATATAAAAAATATAA
37979342 T
1 T
37979343 GATAAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 4 0.14
15 5 0.17
16 9 0.31
17 11 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TATATAAAAAATATAA
Found at i:37980569 original size:15 final size:15
Alignment explanation
Indices: 37980545--37980578 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
37980535 TATGTGTTTG
*
37980545 TATTTATTTATTATT
1 TATTTATTTATCATT
*
37980560 TATTTGTTTATCATT
1 TATTTATTTATCATT
37980575 TATT
1 TATT
37980579 AACATTGTTC
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:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (15 bp):
TATTTATTTATCATT
Found at i:37980611 original size:24 final size:23
Alignment explanation
Indices: 37980584--37980666 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
37980574 TTATTAACAT
37980584 TGTTCATGAACATATTCAATTATA
1 TGTTCATGAACATATTCAATTA-A
* **
37980608 TGTTTATGAACATATTCGTTTAA
1 TGTTCATGAACATATTCAATTAA
* * *
37980631 TGTTCGTGAACATGTTTAATTAA
1 TGTTCATGAACATATTCAATTAA
37980654 -GTTACATGAACAT
1 TGTT-CATGAACAT
37980667 GTTTGTGAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 3 0.06
23 26 0.54
24 19 0.40
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (23 bp):
TGTTCATGAACATATTCAATTAA
Found at i:37982595 original size:12 final size:11
Alignment explanation
Indices: 37982578--37982612 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
37982568 AACAAATCCT
37982578 CTCTCATATTTC
1 CTCTCA-ATTTC
37982590 CTCTCAA-TTC
1 CTCTCAATTTC
37982600 CTCTCAATTTC
1 CTCTCAATTTC
37982611 CT
1 CT
37982613 TCCAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:37982657 original size:51 final size:53
Alignment explanation
Indices: 37982593--37982716 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 53
37982583 ATATTTCCTC
* * *
37982593 TCAATTCCTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATA-TTT-A-ATT
1 TCAATTTCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTTAATATT
*
37982643 TCAAATTTCTCTCAATTTTCTTCAAAAATTCTCTCAAATCCATATTTTGAATATT
1 TC-AATTTCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTT-AATATT
37982698 TCAATTTCCTCTCAATTTC
1 TCAATTT-CTCTCAATTTC
37982717 TTTTTTTTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
50 2 0.03
51 37 0.59
52 3 0.05
54 6 0.10
55 15 0.24
ACGTcount: A:0.30, C:0.24, G:0.01, T:0.45
Consensus pattern (53 bp):
TCAATTTCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTTAATATT
Found at i:37985153 original size:30 final size:30
Alignment explanation
Indices: 37985119--37985181 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
37985109 ACTTAAAAAA
37985119 CCTAACCTAATTT-ACTTAAAACCCCTAAAC
1 CCTAACCTAATTTAACTTAAAA-CCCTAAAC
*
37985149 CCTAACCTAATTTAATTTAAAACCCTAAAC
1 CCTAACCTAATTTAACTTAAAACCCTAAAC
37985179 CCT
1 CCT
37985182 TAACTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.29
Consensus pattern (30 bp):
CCTAACCTAATTTAACTTAAAACCCTAAAC
Found at i:37985164 original size:75 final size:74
Alignment explanation
Indices: 37985038--37985206 Score: 277
Period size: 75 Copynumber: 2.3 Consensus size: 74
37985028 TTTGATGTAA
*
37985038 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAA
1 TAAAAAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAA
37985103 CCCTTAACT
66 CCCTTAACT
* * *
37985112 TAAAAAACCTAACCTAATTTACTTAAAACCCCTAAACCCTAACCTAATTTAATTTAAAACCCTAA
1 TAAAAAACCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAA
37985177 ACCCTTAACT
65 ACCCTTAACT
37985187 T-AAAAACTCTAACCTAATTT
1 TAAAAAAC-CTAACCTAATTT
37985207 GATAATTTTA
Statistics
Matches: 89, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
74 36 0.40
75 53 0.60
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (74 bp):
TAAAAAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAA
CCCTTAACT
Found at i:37988814 original size:126 final size:125
Alignment explanation
Indices: 37988537--37988847 Score: 432
Period size: 126 Copynumber: 2.5 Consensus size: 125
37988527 GAGATTTTAT
*
37988537 AAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATATTATTTGCTCAGAAACGTC--AAA
1 AAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAA
* *
37988600 AAAATTATTTCTTACATGACCTACTGTAGCAAAAACGCGCTGATGAGGCCGCGATTTCAC
66 AAAATTATTTCTTACATGACCTACTGTAGCAAAAACGCGCTCATGAGGCCACGATTTCAC
*
37988660 AAATTCTTCTCAAATAGCATCCTCCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAA
1 AAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAA
* * * *
37988725 AATAATTATTTCTTCCGTGACCTACTGTAGCAAAAGCGCG-TCCATGAAGG-CACGATTTCGC
66 AA-AATTATTTCTTACATGACCTACTGTAGCAAAAACGCGCT-CATG-AGGCCACGATTTCAC
* ** * * **
37988786 AAATTCTTCTCAAATACCATAATGCTAGAAGTGATTTTATGCTATTTTATCAGAAACGTCAA
1 AAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
37988848 CTCGAAATTA
Statistics
Matches: 167, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
123 58 0.35
125 6 0.04
126 100 0.60
127 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (125 bp):
AAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAA
AAAATTATTTCTTACATGACCTACTGTAGCAAAAACGCGCTCATGAGGCCACGATTTCAC
Found at i:37994783 original size:96 final size:96
Alignment explanation
Indices: 37994651--37994874 Score: 315
Period size: 96 Copynumber: 2.3 Consensus size: 96
37994641 GTGTTTATTT
* * *
37994651 TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAATTATT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTAAAAATT-TT
*
37994716 TA-AAAATCAGATAATGGTTTAGAGTTAAGGG
65 TATAAAATCAGATAAGGGTTTAGAGTTAAGGG
* *
37994747 TTTTTAAGGAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTAAAAATTTTT
* * * *
37994812 ATAAAATTAGATTAGGGTTTAGGGTTTAGGG
66 ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
* *
37994843 TTTTTAAGTAAAAACTTAAATAAATTAGGGTT
1 TTTTTAAG-AAAAAATCAAATAAATTAGGGTT
37994875 TGGGGTTTAG
Statistics
Matches: 113, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
95 4 0.04
96 89 0.79
97 20 0.18
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.38
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTAAAAATTTTT
ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
Found at i:37995146 original size:126 final size:126
Alignment explanation
Indices: 37994914--37995202 Score: 434
Period size: 126 Copynumber: 2.3 Consensus size: 126
37994904 TTGTTAATTT
* * *
37994914 AAAGAAGCTCCCACGTGGACTCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAACTCCTGAAAAAATAATTTCGAGTAGAC
* * * * *
37994979 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAAGATGCTTTGTCAGTAGAAGTATTG
66 ATTTCTGAGCAAATAGTGTAAAAAACGCTTTAAACAAGATGCTTTGTCAGTAGAAGTACTG
* * *
37995040 AAAGAAGCTCCCATGTGGACGCGCTTTTGCTACAGTAACTTCTTAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAACTCCTGAAAAAATAATTTCGAGTAGAC
* * *
37995105 ATTTCTGAGCATATGGTGTAAAAAACGCTTTAAACAGGATGCTTTGTCAGTAGAAGTACTG
66 ATTTCTGAGCAAATAGTGTAAAAAACGCTTTAAACAAGATGCTTTGTCAGTAGAAGTACTG
* *
37995166 AAAAAAGCTCTCACGTGGACGCGCTTTTGCTACAGTA
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTA
37995203 GCGCATGTTT
Statistics
Matches: 146, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 146 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAACTCCTGAAAAAATAATTTCGAGTAGAC
ATTTCTGAGCAAATAGTGTAAAAAACGCTTTAAACAAGATGCTTTGTCAGTAGAAGTACTG
Found at i:37998845 original size:18 final size:18
Alignment explanation
Indices: 37998804--37998846 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
37998794 GACTAGAAAA
* * *
37998804 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
*
37998822 AAGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
37998840 AGGATAC
1 AGGATAC
37998847 GCACCTATCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:38000622 original size:13 final size:13
Alignment explanation
Indices: 38000601--38000634 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
38000591 AATTTTTACG
*
38000601 ATTTAAAAAAAAA
1 ATTTTAAAAAAAA
38000614 ATTTTAAAAAAAA
1 ATTTTAAAAAAAA
38000627 A-TTTAAAA
1 ATTTTAAAA
38000635 CTTTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATTTTAAAAAAAA
Found at i:38000634 original size:22 final size:21
Alignment explanation
Indices: 38000609--38000659 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
38000599 CGATTTAAAA
38000609 AAAAAATTTTAAAAAAAAATTT
1 AAAAAATTTTAAAAAAAAA-TT
** * *
38000631 AAAACTTTTTTAAAAATAATT
1 AAAAAATTTTAAAAAAAAATT
38000652 AAAAAATT
1 AAAAAATT
38000660 AAAACTCTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAAATTTTAAAAAAAAATT
Found at i:38000692 original size:11 final size:11
Alignment explanation
Indices: 38000678--38000742 Score: 94
Period size: 11 Copynumber: 5.9 Consensus size: 11
38000668 TTTAAATAGA
38000678 AATTTGAGAGG
1 AATTTGAGAGG
38000689 AATTTGAGAGG
1 AATTTGAGAGG
*
38000700 AAATTGAGAGG
1 AATTTGAGAGG
* *
38000711 AATTTGAAAGA
1 AATTTGAGAGG
*
38000722 AAATTGAGAGG
1 AATTTGAGAGG
38000733 AATTTGAGAG
1 AATTTGAGAG
38000743 AATATTAGAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 46 1.00
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (11 bp):
AATTTGAGAGG
Found at i:38000744 original size:22 final size:22
Alignment explanation
Indices: 38000675--38000767 Score: 116
Period size: 22 Copynumber: 4.2 Consensus size: 22
38000665 TCTTTTAAAT
*
38000675 AGAAATTTGAGAGGAATTTGAG
1 AGAAAATTGAGAGGAATTTGAG
* *
38000697 AGGAAATTGAGAGGAATTTGAA
1 AGAAAATTGAGAGGAATTTGAG
38000719 AGAAAATTGAGAGGAATTTGAG
1 AGAAAATTGAGAGGAATTTGAG
* * *
38000741 AGAATATT-AGAGACAAATTGAG
1 AGAAAATTGAGAG-GAATTTGAG
38000763 AGAAA
1 AGAAA
38000768 GGATTTAGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
21 4 0.07
22 57 0.93
ACGTcount: A:0.47, C:0.01, G:0.29, T:0.23
Consensus pattern (22 bp):
AGAAAATTGAGAGGAATTTGAG
Found at i:38001291 original size:9 final size:9
Alignment explanation
Indices: 38001268--38001313 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
38001258 GAATTTTATG
*
38001268 ATTCGAATA
1 ATTCAAATA
*
38001277 ACTCAAATA
1 ATTCAAATA
38001286 ATTCAAATA
1 ATTCAAATA
*
38001295 ACTCAAATA
1 ATTCAAATA
*
38001304 ATTCGAATA
1 ATTCAAATA
38001313 A
1 A
38001314 CAGATTAGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (9 bp):
ATTCAAATA
Found at i:38001294 original size:18 final size:18
Alignment explanation
Indices: 38001268--38001314 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
38001258 GAATTTTATG
38001268 ATTCGAATAACTCAAATA
1 ATTCGAATAACTCAAATA
*
38001286 ATTCAAATAACTCAAATA
1 ATTCGAATAACTCAAATA
38001304 ATTCGAATAAC
1 ATTCGAATAAC
38001315 AGATTAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.51, C:0.17, G:0.04, T:0.28
Consensus pattern (18 bp):
ATTCGAATAACTCAAATA
Found at i:38002808 original size:13 final size:13
Alignment explanation
Indices: 38002792--38002836 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
38002782 TTTAAACTAA
38002792 ACTTTTCCACAAC
1 ACTTTTCCACAAC
* *
38002805 ACTTTT-CAAAAGT
1 ACTTTTCCACAA-C
38002818 ACTTTTCCACAAC
1 ACTTTTCCACAAC
38002831 ACTTTT
1 ACTTTT
38002837 TAAAAGCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.31, C:0.29, G:0.02, T:0.38
Consensus pattern (13 bp):
ACTTTTCCACAAC
Found at i:38002810 original size:26 final size:26
Alignment explanation
Indices: 38002791--38002842 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
38002781 TTTTAAACTA
38002791 AACTTTTCCACAACACTTTTCAAAAG
1 AACTTTTCCACAACACTTTTCAAAAG
* *
38002817 TACTTTTCCACAACACTTTTTAAAAG
1 AACTTTTCCACAACACTTTTCAAAAG
38002843 CATTGCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.35
Consensus pattern (26 bp):
AACTTTTCCACAACACTTTTCAAAAG
Found at i:38007042 original size:20 final size:21
Alignment explanation
Indices: 38007004--38007042 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
38006994 TGAATTTTGG
*
38007004 ATTAAATTGAATAGTATGTGT
1 ATTAAATTGAATAGAATGTGT
*
38007025 ATTAAA-TGAATTGAATGT
1 ATTAAATTGAATAGAATGT
38007043 TCTTATTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (21 bp):
ATTAAATTGAATAGAATGTGT
Found at i:38010667 original size:21 final size:22
Alignment explanation
Indices: 38010634--38010676 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
38010624 CAATGGGTAA
*
38010634 AGTTCTGATATGAAAC-AATATG
1 AGTTCTGAAATG-AACTAATATG
38010656 AGTT-TGAAATGAACTAATATG
1 AGTTCTGAAATGAACTAATATG
38010677 GGTATATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 12 0.63
22 4 0.21
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.33
Consensus pattern (22 bp):
AGTTCTGAAATGAACTAATATG
Found at i:38015275 original size:545 final size:545
Alignment explanation
Indices: 38014246--38015333 Score: 2077
Period size: 545 Copynumber: 2.0 Consensus size: 545
38014236 TTATTTTGCT
38014246 GCCTAATTCGTGTGAGTGGTAGAGTTGGATTGAAATACTGCTAAATGGAGTTTGAACTGGTCATA
1 GCCTAATTCGTGTGAGTGGTAGAGTTGGATTGAAATACTGCTAAATGGAGTTTGAACTGGTCATA
* *
38014311 GAGAGAATTGAGGAGGGATATTTGGAGATGTTAGATGAGAGAATATTGGGATTTGGGGAGGTTGT
66 GAGAGAATTGAGGAGGGATATTTGGAGATATTAGAGGAGAGAATATTGGGATTTGGGGAGGTTGT
*
38014376 TGTTGTGGAGAGATATATATCACATCTCATTTGTTCCTTGTTCTCGATGGGAGATCGGTGAGGTT
131 TGTTATGGAGAGATATATATCACATCTCATTTGTTCCTTGTTCTCGATGGGAGATCGGTGAGGTT
*
38014441 TTCAAGGTTTTCGTCGCTTTCTCTAACCTGCATTGTTTCCATTCCTAACTGGTGGTGGTCGAGGT
196 TTCAAGGTTTTCGTCGCTTTCTCTAACATGCATTGTTTCCATTCCTAACTGGTGGTGGTCGAGGT
* *
38014506 TGATTGGCACATTGCCTGGGAACCAATGGTGCGATGATTATTGATTTTTGGGATAAGAGTGTTCG
261 TGATTGGCACATTACCTGGGAACCAATGGTGCGATGATTATTGATTTTTGCGATAAGAGTGTTCG
*
38014571 GAACAAAGGGAATATGCAAATCGCAACAGGTGTGTAACCAACCCACTGTAAGTGTAAAATGACAA
326 GAACAAAGGGAATATGCAAATCGCAACAGGTGTGTAACCAACCCACTGTAACTGTAAAATGACAA
38014636 AAGTCAAAAAGCCGAAATACGACGTTGAGACCACACGAGTGTGCGATCACTCATGTGGAAAGCCA
391 AAGTCAAAAAGCCGAAATACGACGTTGAGACCACACGAGTGTGCGATCACTCATGTGGAAAGCCA
38014701 AACCTGTGAATCATGGGCGATAAACTGTAGAGGTCTCCATGAGCATTTCCATGGGCTTAGGCCGT
456 AACCTGTGAATCATGGGCGATAAACTGTAGAGGTCTCCATGAGCATTTCCATGGGCTTAGGCCGT
38014766 AATGAGCCACGTTGGACCAAAATGA
521 AATGAGCCACGTTGGACCAAAATGA
*
38014791 GCCTAATTCGTGTGGGTGGTAGAGTTGGATTGAAATACTGCTAAATGGAGTTTGAACTGGTCATA
1 GCCTAATTCGTGTGAGTGGTAGAGTTGGATTGAAATACTGCTAAATGGAGTTTGAACTGGTCATA
38014856 GAGAGAATTGAGGAGGGATATTTGGAGATATTAGAGGAGAGAATATTGGGATTTGGGGAGGTTGT
66 GAGAGAATTGAGGAGGGATATTTGGAGATATTAGAGGAGAGAATATTGGGATTTGGGGAGGTTGT
38014921 TGTTATGGAGAGATATATATCACATCTCATTTGTTCCTTGTTCTCGATGGGAGATCGGTGAGGTT
131 TGTTATGGAGAGATATATATCACATCTCATTTGTTCCTTGTTCTCGATGGGAGATCGGTGAGGTT
38014986 TTCAAGGTTTTCGTCGCTTTCTCTAACATGCATTGTTTCCATTCCTAACTGGTGGTGGTCGAGGT
196 TTCAAGGTTTTCGTCGCTTTCTCTAACATGCATTGTTTCCATTCCTAACTGGTGGTGGTCGAGGT
*
38015051 TGGTTGGCACATTACCTGGGAACCAATGGTGCGATGATTATTGATTTTTGCGATAAGAGTGTTCG
261 TGATTGGCACATTACCTGGGAACCAATGGTGCGATGATTATTGATTTTTGCGATAAGAGTGTTCG
38015116 GAACAAAGGGAATATGCAAATCGCAACAGGTGTGTAACCAACCCACTGTAACTGTAAAATGACAA
326 GAACAAAGGGAATATGCAAATCGCAACAGGTGTGTAACCAACCCACTGTAACTGTAAAATGACAA
**
38015181 AAGTCAAAAAGCCGAAATACGACGTTGAGACCACACGAGTGTGCGATTGCTCATGTGGAAAGCCA
391 AAGTCAAAAAGCCGAAATACGACGTTGAGACCACACGAGTGTGCGATCACTCATGTGGAAAGCCA
38015246 AACCTGTGAATCATGGGCGATAAACTGTAGAGGTCTCCATGAGCATTTCCATGGGCTTAGGCCGT
456 AACCTGTGAATCATGGGCGATAAACTGTAGAGGTCTCCATGAGCATTTCCATGGGCTTAGGCCGT
38015311 AATGAGCCACGTTGGACCAAAAT
521 AATGAGCCACGTTGGACCAAAAT
38015334 AGGCCGTGTG
Statistics
Matches: 532, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
545 532 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (545 bp):
GCCTAATTCGTGTGAGTGGTAGAGTTGGATTGAAATACTGCTAAATGGAGTTTGAACTGGTCATA
GAGAGAATTGAGGAGGGATATTTGGAGATATTAGAGGAGAGAATATTGGGATTTGGGGAGGTTGT
TGTTATGGAGAGATATATATCACATCTCATTTGTTCCTTGTTCTCGATGGGAGATCGGTGAGGTT
TTCAAGGTTTTCGTCGCTTTCTCTAACATGCATTGTTTCCATTCCTAACTGGTGGTGGTCGAGGT
TGATTGGCACATTACCTGGGAACCAATGGTGCGATGATTATTGATTTTTGCGATAAGAGTGTTCG
GAACAAAGGGAATATGCAAATCGCAACAGGTGTGTAACCAACCCACTGTAACTGTAAAATGACAA
AAGTCAAAAAGCCGAAATACGACGTTGAGACCACACGAGTGTGCGATCACTCATGTGGAAAGCCA
AACCTGTGAATCATGGGCGATAAACTGTAGAGGTCTCCATGAGCATTTCCATGGGCTTAGGCCGT
AATGAGCCACGTTGGACCAAAATGA
Found at i:38015625 original size:27 final size:27
Alignment explanation
Indices: 38015594--38015955 Score: 429
Period size: 27 Copynumber: 13.4 Consensus size: 27
38015584 CCCTAAAATA
* * *
38015594 GGTAAAATAACCAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
38015621 GGTAAGATGACCAAAATACCTCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
38015648 AGTAAAATGACCAAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* * **
38015675 GATAAAATGACCGGAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
38015702 GATAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
38015729 GGTAAAATGATCGAAATACTCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
38015756 GGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
38015783 GGTAGAATGATCGAAATATCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
38015810 GGTAAAATGACCGATAGACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
38015837 GGTAAAATGATCGAAATA-CCCTATTAG
1 GGTAAAATGACCGAAATACCCCCA-TAG
38015864 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
38015891 GGTAGAATGGCCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** *
38015918 GGTAAAATGATTGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
38015945 GGTAAAATGAC
1 GGTAAAATGAC
38015956 TGTTATACCC
Statistics
Matches: 286, Mismatches: 47, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 4 0.01
27 278 0.97
28 4 0.01
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:38017547 original size:24 final size:23
Alignment explanation
Indices: 38017519--38017581 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 23
38017509 TTTTCTCTCG
38017519 TTTCTTTTACAAGCTCTCTTTCCC
1 TTTCTTTTAC-AGCTCTCTTTCCC
* **
38017543 TTTCTTTTTCAG-TCTCTTTTTC
1 TTTCTTTTACAGCTCTCTTTCCC
38017565 TTT-TTTTACA-CTCTCTT
1 TTTCTTTTACAGCTCTCTT
38017582 CTATTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 12 0.35
22 11 0.32
23 2 0.06
24 9 0.26
ACGTcount: A:0.10, C:0.27, G:0.03, T:0.60
Consensus pattern (23 bp):
TTTCTTTTACAGCTCTCTTTCCC
Found at i:38017783 original size:30 final size:29
Alignment explanation
Indices: 38017744--38017801 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
38017734 CCTTTTCACT
38017744 CTCGAACTCTTTTTCATAGTTCTTTTCTTG
1 CTCGAACTCTTTTTC-TAGTTCTTTTCTTG
* **
38017774 CTCGCACTCTTTTTCTTTTTCTTTTCTT
1 CTCGAACTCTTTTTCTAGTTCTTTTCTT
38017802 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.09, C:0.26, G:0.07, T:0.59
Consensus pattern (29 bp):
CTCGAACTCTTTTTCTAGTTCTTTTCTTG
Found at i:38018922 original size:23 final size:21
Alignment explanation
Indices: 38018895--38018941 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 21
38018885 TTTTTTCAAA
38018895 TTTTATAT-TTTGCACAAACTTTT
1 TTTTATATATTTG-A-AAA-TTTT
38018918 TTTTATATATTTGAAAATTTT
1 TTTTATATATTTGAAAATTTT
38018939 TTT
1 TTT
38018942 AATCGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.30
22 3 0.13
23 9 0.39
24 4 0.17
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTATATATTTGAAAATTTT
Found at i:38021246 original size:21 final size:22
Alignment explanation
Indices: 38021212--38021254 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
38021202 CAACGGGTAA
*
38021212 AGTTCTGATATGAAAC-AATATG
1 AGTTCGGATATG-AACTAATATG
38021234 AGTTCGGA-ATGAACTAATATG
1 AGTTCGGATATGAACTAATATG
38021255 GATATATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 9 0.47
22 7 0.37
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (22 bp):
AGTTCGGATATGAACTAATATG
Found at i:38023497 original size:33 final size:33
Alignment explanation
Indices: 38023428--38023578 Score: 136
Period size: 33 Copynumber: 4.5 Consensus size: 33
38023418 ATATAAAGGG
*
38023428 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
38023455 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
38023488 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGAATC----AT-TG---GT
*
38023530 GGTTGCTAAGT-CTGATTCCCTGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
38023562 GGTTGCTAAGTGCTGAT
1 GGTTGCTAAGTGCTGAT
38023579 CCCACTGTAT
Statistics
Matches: 102, Mismatches: 6, Indels: 26
0.76 0.04 0.19
Matches are distributed among these distances:
27 22 0.22
31 2 0.02
32 14 0.14
33 25 0.25
34 6 0.06
35 2 0.02
36 2 0.02
38 2 0.02
39 2 0.02
40 5 0.05
41 8 0.08
42 12 0.12
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:38023659 original size:75 final size:75
Alignment explanation
Indices: 38023451--38023734 Score: 399
Period size: 74 Copynumber: 3.8 Consensus size: 75
38023441 TGATTCCCCC
*
38023451 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACTGTATC
38023516 TTAAATGTGA
66 TTAAATGTGA
* *
38023526 AAGGGGTTGCTAAGT-CTGATTCCCTGAATCATTGGTGGTTGCTAAGTGCTGATCCCACTGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACTGTATC
38023590 TTAAATGTGA
66 TTAAATGTGA
* * * * * *
38023600 AAGGTGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGTTTGCTTAGTTCTGATTCCACTATATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACTGTA-T
* * *
38023665 TTTGAAGGTGA
65 CTTAAATGTGA
* * * * *
38023676 AAGGGGTTGCTAAGTGTTGATTCCCAGAATCACTAGTGGTTGCTAAGTGCTGAATCCAC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCAC
38023735 CGATAACGGA
Statistics
Matches: 183, Mismatches: 24, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
74 70 0.38
75 55 0.30
76 58 0.32
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACTGTATC
TTAAATGTGA
Found at i:38025136 original size:26 final size:25
Alignment explanation
Indices: 38025113--38025183 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
38025103 CATATGAAAC
38025113 TCTT-TGAAAAGCCTTTGTGGTGAA
1 TCTTCTGAAAAGCCTTTGTGGTGAA
* *
38025137 TCTTCTGGAAAGCCTTTGTTGCT-AA
1 TCTTCTGAAAAGCCTTTG-TGGTGAA
38025162 CTCTCTCTG-AAAGCCTTTGTGG
1 -TCT-TCTGAAAAGCCTTTGTGG
38025184 CATGTTACCT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 4 0.10
25 16 0.40
26 16 0.40
27 4 0.10
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (25 bp):
TCTTCTGAAAAGCCTTTGTGGTGAA
Found at i:38025152 original size:25 final size:25
Alignment explanation
Indices: 38025120--38025183 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 25
38025110 AACTCTTTGA
38025120 AAAGCCTTTGTGGTGAA-TCT-TCTGG
1 AAAGCCTTTGTGGT-AACTCTCTCT-G
*
38025145 AAAGCCTTTGTTGCTAACTCTCTCTG
1 AAAGCCTTTG-TGGTAACTCTCTCTG
38025171 AAAGCCTTTGTGG
1 AAAGCCTTTGTGG
38025184 CATGTTACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 14 0.41
26 17 0.50
27 3 0.09
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (25 bp):
AAAGCCTTTGTGGTAACTCTCTCTG
Found at i:38029735 original size:20 final size:19
Alignment explanation
Indices: 38029710--38029784 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 19
38029700 CTGTTCAAAT
38029710 CCTATAATCATAACTCGATA
1 CCTATAATCATAACT-GATA
*
38029730 CCTATAATCATAACTGTTCAAA
1 CCTATAATCATAACTG---ATA
38029752 TCCTATAATCATAACTTGATA
1 -CCTATAATCATAAC-TGATA
38029773 CCTATAATCATA
1 CCTATAATCATA
38029785 GCCTGCCAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.02
20 27 0.56
21 2 0.04
22 2 0.04
23 14 0.29
24 2 0.04
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (19 bp):
CCTATAATCATAACTGATA
Found at i:38029759 original size:43 final size:43
Alignment explanation
Indices: 38029698--38029784 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
38029688 AATTTAGGTC
38029698 AACTGTTCAAATCCTATAATCATAACTCGATACCTATAATCAT
1 AACTGTTCAAATCCTATAATCATAACTCGATACCTATAATCAT
*
38029741 AACTGTTCAAATCCTATAATCATAACTTGATACCTATAATCAT
1 AACTGTTCAAATCCTATAATCATAACTCGATACCTATAATCAT
38029784 A
1 A
38029785 GCCTGCCAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (43 bp):
AACTGTTCAAATCCTATAATCATAACTCGATACCTATAATCAT
Found at i:38029760 original size:23 final size:23
Alignment explanation
Indices: 38029698--38029767 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
38029688 AATTTAGGTC
38029698 AACTGTTCAAATCCTATAATCAT
1 AACTGTTCAAATCCTATAATCAT
*
38029721 AAC---TC-GATACCTATAATCAT
1 AACTGTTCAAAT-CCTATAATCAT
38029741 AACTGTTCAAATCCTATAATCAT
1 AACTGTTCAAATCCTATAATCAT
38029764 AACT
1 AACT
38029768 TGATACCTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 2 0.05
20 16 0.40
23 20 0.50
24 2 0.05
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (23 bp):
AACTGTTCAAATCCTATAATCAT
Found at i:38031295 original size:37 final size:37
Alignment explanation
Indices: 38031179--38031295 Score: 101
Period size: 37 Copynumber: 3.2 Consensus size: 37
38031169 ATCTGAAAAT
* *
38031179 ACGCCAGAAGCTCATAAGAGCTAATCCACCCGATAAC
1 ACGCCAGATGCTCATAAGAGCTAATCCACCCAATAAC
* * ** ** * * *
38031216 ATGGCA-ATTGCTCCGAAGAGCTTGTCCAACTAAAAAC
1 ACGCCAGA-TGCTCATAAGAGCTAATCCACCCAATAAC
* *
38031253 GCGCCAGATGCTCATTAGAGCTAATCCACCCAATAAC
1 ACGCCAGATGCTCATAAGAGCTAATCCACCCAATAAC
38031290 ACGCCA
1 ACGCCA
38031296 AAAAAAGAGT
Statistics
Matches: 55, Mismatches: 23, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
36 1 0.02
37 53 0.96
38 1 0.02
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (37 bp):
ACGCCAGATGCTCATAAGAGCTAATCCACCCAATAAC
Found at i:38034233 original size:19 final size:20
Alignment explanation
Indices: 38034195--38034235 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
38034185 ACTCTAAGCT
* *
38034195 AAATTTAGCTCCTTATTTTC
1 AAATTTAGCCCCTTAATTTC
38034215 AAATTTA-CCCCTTAATTTC
1 AAATTTAGCCCCTTAATTTC
38034234 AA
1 AA
38034236 TTTTTTTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.32, C:0.22, G:0.02, T:0.44
Consensus pattern (20 bp):
AAATTTAGCCCCTTAATTTC
Found at i:38040002 original size:50 final size:50
Alignment explanation
Indices: 38039878--38040117 Score: 207
Period size: 50 Copynumber: 4.7 Consensus size: 50
38039868 GATAATAACA
* * ** *
38039878 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTTC-T-T-GT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGT
* * * * **
38039925 ACTACCAATGCCATATCCCAGATATGGTCCTACATGGGAGTTCTCATATCGT
1 --TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGT
* ** * *
38039977 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGT
* * *
38040027 TGCCAACGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GT
*
38040083 TGCCAATGCCATGTCCCAGACGTGGTCTTACATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
38040118 AATCTCATTC
Statistics
Matches: 152, Mismatches: 30, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
49 34 0.22
50 80 0.53
51 1 0.01
52 2 0.01
53 2 0.01
56 33 0.22
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGT
Found at i:38043357 original size:19 final size:19
Alignment explanation
Indices: 38043333--38043424 Score: 91
Period size: 18 Copynumber: 4.9 Consensus size: 19
38043323 TTAAAAACAC
38043333 CATATTTCATTTCTCATCT
1 CATATTTCATTTCTCATCT
* *
38043352 CATA-TTCATTTC-AAGTTT
1 CATATTTCATTTCTCA-TCT
* * * *
38043370 TACATCTCATTTCATCATTT
1 CATATTTCATTTC-TCATCT
38043390 CATATTTCATTTCTCATCT
1 CATATTTCATTTCTCATCT
38043409 CATA-TTCATTTCTCAT
1 CATATTTCATTTCTCAT
38043425 ATTTTCTATT
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
17 1 0.02
18 24 0.41
19 20 0.34
20 13 0.22
21 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.01, T:0.51
Consensus pattern (19 bp):
CATATTTCATTTCTCATCT
Found at i:38049615 original size:27 final size:27
Alignment explanation
Indices: 38049582--38049635 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
38049572 AAAAACTAAA
38049582 CTAAAATTATAAAGAGAGATTCTAAGC
1 CTAAAATTATAAAGAGAGATTCTAAGC
38049609 CTAAAATTATAAAGAGAGATTCTAAGC
1 CTAAAATTATAAAGAGAGATTCTAAGC
38049636 TAAGTAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (27 bp):
CTAAAATTATAAAGAGAGATTCTAAGC
Found at i:38051333 original size:21 final size:21
Alignment explanation
Indices: 38051309--38051351 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
38051299 CAAAATCCAT
*
38051309 TTCATCATCTCCTTCTTCTTC
1 TTCATCATCTCCTTCCTCTTC
* *
38051330 TTCATCCTTTCCTTCCTCTTC
1 TTCATCATCTCCTTCCTCTTC
38051351 T
1 T
38051352 CTTTCATGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.40, G:0.00, T:0.53
Consensus pattern (21 bp):
TTCATCATCTCCTTCCTCTTC
Found at i:38065619 original size:75 final size:75
Alignment explanation
Indices: 38065493--38065639 Score: 215
Period size: 75 Copynumber: 2.0 Consensus size: 75
38065483 GAAAACTAGG
* * *
38065493 ATTATTCCTTTATTAATAGTGAAGGCAAATGAAATGTTAAAAAAATGAATTATATTCTTTCCAAA
1 ATTATTCCCTTATTAATAGAGAAGGCAAATGAAAAGTTAAAAAAATGAATTATATTCTTTCCAAA
38065558 AGAATATAGA
66 AGAATATAGA
* * * *
38065568 ATTATTCCCTTATTAATAGAGAAGTCAAATGAAAAGTTCAAAAAA-GAAATTATCTTCTTTCTAA
1 ATTATTCCCTTATTAATAGAGAAGGCAAATGAAAAGTTAAAAAAATG-AATTATATTCTTTCCAA
38065632 AAGAATAT
65 AAGAATAT
38065640 TAATTTACAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
74 1 0.02
75 63 0.98
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.34
Consensus pattern (75 bp):
ATTATTCCCTTATTAATAGAGAAGGCAAATGAAAAGTTAAAAAAATGAATTATATTCTTTCCAAA
AGAATATAGA
Found at i:38065735 original size:40 final size:40
Alignment explanation
Indices: 38065685--38065824 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
38065675 TTAGTATAAC
38065685 TATTTT-TATTAATAAATTTAGTAAAATATATACAATTAA
1 TATTTTATATTAATAAATTTAGTAAAATATATACAATTAA
* * * * *
38065724 TATTTTATATTAATAAATTCA-TATACTA-ACAAGTAATATAA
1 TATTTTATATTAATAAATTTAGTAAAATATA-TA-CAAT-TAA
*
38065765 T-TGTTTATATTAATAAATTTGGTAAAATATATACAATTAA
1 TAT-TTTATATTAATAAATTTAGTAAAATATATACAATTAA
* *
38065805 TATTTTGTATGAATCAAATT
1 TATTTTATATTAAT-AAATT
38065825 CATATACTAA
Statistics
Matches: 79, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
38 1 0.01
39 12 0.15
40 30 0.38
41 29 0.37
42 6 0.08
43 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (40 bp):
TATTTTATATTAATAAATTTAGTAAAATATATACAATTAA
Found at i:38072550 original size:26 final size:26
Alignment explanation
Indices: 38072518--38072600 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
38072508 AGCTTTTCGG
38072518 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* *
38072544 TACACAT-GT-GACCATCATTTA-T-C
1 TACACATAGTAG-CCTTCACTTAGTAC
* **
38072567 GATTCACATAGTAGCCTTCACACAGTAC
1 --TACACATAGTAGCCTTCACTTAGTAC
38072595 TACACA
1 TACACA
38072601 CGTGACCAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
23 1 0.02
24 2 0.05
25 16 0.38
26 20 0.48
27 2 0.05
28 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.29
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Done.