Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 58 of 322
Found at i:18370036 original size:11 final size:11
Alignment explanation
Indices: 18370000--18370075 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
18369990 CATGGTATGT
18370000 ATGATATGCAC
1 ATGATATGCAC
* *
18370011 ATGACATG--T
1 ATGATATGCAC
18370020 ATGATATGCAC
1 ATGATATGCAC
*
18370031 ATGATATG--T
1 ATGATATGCAC
18370040 ATGATATGCAC
1 ATGATATGCAC
*
18370051 ATGATATG--T
1 ATGATATGCAC
18370060 ATGATATGCAC
1 ATGATATGCAC
18370071 ATGAT
1 ATGAT
18370076 GTATTCATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:18370045 original size:9 final size:9
Alignment explanation
Indices: 18369995--18370067 Score: 56
Period size: 9 Copynumber: 7.4 Consensus size: 9
18369985 ATAAACATGG
18369995 TATGTATGA
1 TATGTATGA
*
18370004 TATGCACATGA
1 TATG--TATGA
*
18370015 CATGTATGA
1 TATGTATGA
*
18370024 TATGCACATGA
1 TATG--TATGA
18370035 TATGTATGA
1 TATGTATGA
*
18370044 TATGCACATGA
1 TATG--TATGA
18370055 TATGTATGA
1 TATGTATGA
18370064 TATG
1 TATG
18370068 CACATGATGT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 27 0.54
11 23 0.46
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.36
Consensus pattern (9 bp):
TATGTATGA
Found at i:18370152 original size:24 final size:24
Alignment explanation
Indices: 18370125--18370269 Score: 184
Period size: 24 Copynumber: 6.0 Consensus size: 24
18370115 GAGGAAGTGC
*
18370125 AAAAGGGCTTATGCCCCAGTTACTA
1 AAAAGGGCTTATGCCCCAGTTA-TT
*
18370150 AAAAGAGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
**
18370174 AAAAGGGCTTATGCCCCAGTTACC
1 AAAAGGGCTTATGCCCCAGTTATT
*
18370198 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
18370222 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
18370246 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18370270 ATGATAAAGC
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
24 73 0.70
25 31 0.30
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:18378336 original size:26 final size:26
Alignment explanation
Indices: 18378265--18378387 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
18378255 CCTCTTTAAT
**
18378265 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
18378290 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
18378315 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
18378341 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
18378367 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
18378388 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 32 0.36
26 57 0.64
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:18378377 original size:52 final size:51
Alignment explanation
Indices: 18378265--18378387 Score: 221
Period size: 52 Copynumber: 2.4 Consensus size: 51
18378255 CCTCTTTAAT
18378265 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
*
18378315 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
18378367 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
18378388 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
50 9 0.13
51 25 0.36
52 35 0.51
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
Found at i:18378442 original size:16 final size:16
Alignment explanation
Indices: 18378421--18378451 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18378411 ACCCAACCCA
*
18378421 ATGCAGCATGTCATGT
1 ATGCAGAATGTCATGT
18378437 ATGCAGAATGTCATG
1 ATGCAGAATGTCATG
18378452 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (16 bp):
ATGCAGAATGTCATGT
Found at i:18379252 original size:27 final size:27
Alignment explanation
Indices: 18379190--18379267 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
18379180 GGGCATATTT
18379190 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
18379217 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
18379244 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
18379268 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:18379338 original size:27 final size:27
Alignment explanation
Indices: 18379308--18379590 Score: 198
Period size: 27 Copynumber: 10.4 Consensus size: 27
18379298 GTAAATCTAC
**
18379308 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTTGGTAATTTTGT
** ***
18379335 AAACCAATTGTATTTCCATAATTTT-T
1 AAACCAAGGGTATTTTGGTAATTTTGT
** *
18379361 AGAAAGTTAAGGGTATTTCT-GTAACTTTGT
1 --AAA-CCAAGGGTATTT-TGGTAATTTTGT
** * *
18379391 AAATTAGGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTTGGTAATTTTGT
** * ***
18379418 AAATTAAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTTGGTAATTTTGT
* **
18379445 AAACC-AGTGGTATTTTGGCAATTTTAC
1 AAACCAAG-GGTATTTTGGTAATTTTGT
* **
18379472 AAACC-AGTGGTATTTTAGTAATTTTAC
1 AAACCAAG-GGTATTTTGGTAATTTTGT
* *
18379499 AGA-CTAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTGGTAATTTTGT
18379525 AAACCAAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTGGTAATTTTGT
*
18379552 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTGGTAATTTTGT
* *
18379579 AAATCGAGGGTA
1 AAACCAAGGGTA
18379591 AAACGGTAAT
Statistics
Matches: 213, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
26 23 0.11
27 169 0.79
28 6 0.03
29 14 0.07
30 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTTGGTAATTTTGT
Found at i:18379537 original size:80 final size:81
Alignment explanation
Indices: 18379398--18379576 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 81
18379388 TGTAAATTAG
* * *
18379398 GGGTATTTTGGTAATTTTATAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGG
18379463 CAATTTTACAAACC-A
66 CAATTTTACAAACCAA
* * ***
18379478 GTGGTATTTTAGTAATTTTACAGACT-AGGGTATTTTGGTAATTTTGTAAACCAAG-GGTATTTT
1 G-GGTATTTTAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTT
* **
18379541 GGTAATTTTGTAAACCAA
64 GGCAATTTTACAAACCAA
18379559 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
18379577 GTAAATCGAG
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 61 0.72
81 24 0.28
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGG
CAATTTTACAAACCAA
Found at i:18379599 original size:27 final size:27
Alignment explanation
Indices: 18379569--18379640 Score: 126
Period size: 27 Copynumber: 2.7 Consensus size: 27
18379559 GGGTATTTTA
*
18379569 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
18379596 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
18379623 GTAATTCTATAAATCGAG
1 GTAATTCTGTAAATCGAG
18379641 TGTACTTTGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:18379599 original size:54 final size:54
Alignment explanation
Indices: 18379504--18379617 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
18379494 TTTACAGACT
* **** *
18379504 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTGTAAACCAAGGGTAAAACGGTAATTCTGTAAACCA
* * * *
18379558 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTAGTAATTTTGTAAACCAAGGGTAAAACGGTAATTCTGTAAACCA
18379612 AGGGTA
1 AGGGTA
18379618 AAACGGTAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTGTAAACCAAGGGTAAAACGGTAATTCTGTAAACCA
Found at i:18384187 original size:21 final size:21
Alignment explanation
Indices: 18384162--18384203 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18384152 AATGGAAATC
18384162 CATGTTTCACTAAAGAAATGA
1 CATGTTTCACTAAAGAAATGA
18384183 CATGTTTCACTAAAGAAATGA
1 CATGTTTCACTAAAGAAATGA
18384204 ACTACTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (21 bp):
CATGTTTCACTAAAGAAATGA
Found at i:18385584 original size:38 final size:38
Alignment explanation
Indices: 18385525--18385601 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
18385515 GGTCACACCC
*
18385525 TATGGTTGAAACAAATTGAATCCAAATATAGTTGGCAT
1 TATGGTTGAAACAAATGGAATCCAAATATAGTTGGCAT
*
18385563 TATGGTTGAAACGAATGGAATCCAAATATAGTTGGCAT
1 TATGGTTGAAACAAATGGAATCCAAATATAGTTGGCAT
18385601 T
1 T
18385602 GTTTTTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (38 bp):
TATGGTTGAAACAAATGGAATCCAAATATAGTTGGCAT
Found at i:18392903 original size:43 final size:42
Alignment explanation
Indices: 18392774--18392927 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
18392764 TGAGACTATG
* *
18392774 TGTAAGACCATATCTGGGATATGGCATCAATATGAGA-CTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAATACGAGATC-TCA
* * *
18392816 TGTAAGACCATATCTGGGATATGGCATCGATGCGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATACGAGATCTCA
* * *
18392858 TGTAAGACCATAGCTGGGCTATTGGCATCAATACGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCAATACGAGATCTCA
*
18392901 TGTAAGACCATATATGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
18392928 TGGTATCGTA
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 61 0.64
43 35 0.36
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATACGAGATCTCA
Found at i:18393868 original size:12 final size:12
Alignment explanation
Indices: 18393851--18393879 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
18393841 TTGAGCACAA
18393851 GGGCAGAGACAC
1 GGGCAGAGACAC
18393863 GGGCAGAGACAC
1 GGGCAGAGACAC
18393875 GGGCA
1 GGGCA
18393880 TGTGTCTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.24, G:0.45, T:0.00
Consensus pattern (12 bp):
GGGCAGAGACAC
Found at i:18395705 original size:27 final size:27
Alignment explanation
Indices: 18395675--18395852 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
18395665 ATATTGAGCC
* *
18395675 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
18395702 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
18395729 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
18395757 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
18395784 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
18395811 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
18395838 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
18395853 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:18395814 original size:82 final size:81
Alignment explanation
Indices: 18395696--18395851 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
18395686 TGCTATATAA
* * * *
18395696 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
18395761 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18395778 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
18395842 CCCTTAGTGC
65 CACTTAGTGC
18395852 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:18397953 original size:28 final size:26
Alignment explanation
Indices: 18397889--18397953 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 26
18397879 AGCAAAGTTG
18397889 CTAATAACAGTAAACGTGGCAAAGCCA
1 CTAAT-ACAGTAAACGTGGCAAAGCCA
* *
18397916 CCAGA-GCAGTAATTACGTGGCAAAGCCA
1 CTA-ATACAGTAA--ACGTGGCAAAGCCA
18397944 CTAATACAGT
1 CTAATACAGT
18397954 GCTTCCTCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
26 6 0.20
27 3 0.10
28 21 0.70
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (26 bp):
CTAATACAGTAAACGTGGCAAAGCCA
Found at i:18412936 original size:17 final size:17
Alignment explanation
Indices: 18412914--18412966 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
18412904 AAGGGACATT
18412914 ATGAATGAATTCAGAAA
1 ATGAATGAATTCAGAAA
**
18412931 ATGAATAGTAATTC--ATT
1 ATGAAT-G-AATTCAGAAA
18412948 ATGAATGAATTCAGAAA
1 ATGAATGAATTCAGAAA
18412965 AT
1 AT
18412967 AAATAGTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 5 0.18
16 1 0.04
17 16 0.57
18 1 0.04
19 5 0.18
ACGTcount: A:0.49, C:0.06, G:0.15, T:0.30
Consensus pattern (17 bp):
ATGAATGAATTCAGAAA
Found at i:18412953 original size:34 final size:34
Alignment explanation
Indices: 18412910--18412977 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
18412900 ATTTAAGGGA
*
18412910 CATTATGAATGAATTCAGAAAATGAATAGTAATT
1 CATTATGAATGAATTCAGAAAATAAATAGTAATT
18412944 CATTATGAATGAATTCAGAAAATAAATAGTAATT
1 CATTATGAATGAATTCAGAAAATAAATAGTAATT
18412978 GACTTGAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (34 bp):
CATTATGAATGAATTCAGAAAATAAATAGTAATT
Found at i:18413310 original size:29 final size:31
Alignment explanation
Indices: 18413264--18413324 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
18413254 AAAAAAATAC
*
18413264 AATTTAATTTCAGTTTTAAAATCAAA-TTAA
1 AATTTAATTTCAGCTTTAAAATCAAACTTAA
*
18413294 AATTTGATTT-AGCTTTAAAATCAAACTTAA
1 AATTTAATTTCAGCTTTAAAATCAAACTTAA
18413324 A
1 A
18413325 GACTAATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (31 bp):
AATTTAATTTCAGCTTTAAAATCAAACTTAA
Found at i:18413337 original size:30 final size:29
Alignment explanation
Indices: 18413278--18413343 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
18413268 TAATTTCAGT
* * *
18413278 TTTAAAATCAAATTAAAATTTGATTTAGC
1 TTTAAAATCAAATTAAAATCTAATGTAGC
18413307 TTTAAAATCAAACTTAAAGA-CTAATGTAGC
1 TTTAAAATCAAA-TTAAA-ATCTAATGTAGC
*
18413337 TTGAAAA
1 TTTAAAA
18413344 AGCCTATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 12 0.39
30 18 0.58
31 1 0.03
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (29 bp):
TTTAAAATCAAATTAAAATCTAATGTAGC
Found at i:18414028 original size:9 final size:9
Alignment explanation
Indices: 18414016--18414080 Score: 66
Period size: 9 Copynumber: 7.7 Consensus size: 9
18414006 TTGCCCTAAT
18414016 TGTTTTACA
1 TGTTTTACA
*
18414025 TGTTTTA-T
1 TGTTTTACA
18414033 TGTTTTAC-
1 TGTTTTACA
18414041 -GTTTTACA
1 TGTTTTACA
*
18414049 TGTGTTACA
1 TGTTTTACA
*
18414058 TGTTTTA-T
1 TGTTTTACA
*
18414066 TGTTATACA
1 TGTTTTACA
18414075 TGTTTT
1 TGTTTT
18414081 TATGATAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
7 7 0.16
8 13 0.29
9 25 0.56
ACGTcount: A:0.18, C:0.08, G:0.14, T:0.60
Consensus pattern (9 bp):
TGTTTTACA
Found at i:18414036 original size:17 final size:17
Alignment explanation
Indices: 18414014--18414080 Score: 84
Period size: 17 Copynumber: 4.0 Consensus size: 17
18414004 AATTGCCCTA
18414014 ATTGTTTTACATGTTTT
1 ATTGTTTTACATGTTTT
18414031 ATTGTTTTAC--GTTTT
1 ATTGTTTTACATGTTTT
* *
18414046 ACATGTGTTACATGTTTT
1 A-TTGTTTTACATGTTTT
*
18414064 ATTGTTATACATGTTTT
1 ATTGTTTTACATGTTTT
18414081 TATGATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
15 6 0.14
16 7 0.17
17 23 0.55
18 6 0.14
ACGTcount: A:0.19, C:0.07, G:0.13, T:0.60
Consensus pattern (17 bp):
ATTGTTTTACATGTTTT
Found at i:18414044 original size:24 final size:26
Alignment explanation
Indices: 18414017--18414080 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
18414007 TGCCCTAATT
*
18414017 GTTTTACATGTTTTA-TTGTTTTA-C
1 GTTTTACATGTTTTACATGTTTTATC
* *
18414041 GTTTTACATGTGTTACATGTTTTATT
1 GTTTTACATGTTTTACATGTTTTATC
*
18414067 GTTATACATGTTTT
1 GTTTTACATGTTTT
18414081 TATGATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 14 0.42
25 7 0.21
26 12 0.36
ACGTcount: A:0.19, C:0.08, G:0.14, T:0.59
Consensus pattern (26 bp):
GTTTTACATGTTTTACATGTTTTATC
Found at i:18414407 original size:37 final size:37
Alignment explanation
Indices: 18414356--18414431 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
18414346 CTAAATTGGG
*
18414356 TTACAAAGCTTTACCGTAAAAACATAACTTGAATACA
1 TTACAAAGCATTACCGTAAAAACATAACTTGAATACA
*
18414393 TTACAAAGCATTACCGTAAAAGCATAACTTGAATACA
1 TTACAAAGCATTACCGTAAAAACATAACTTGAATACA
18414430 TT
1 TT
18414432 CATTTCCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (37 bp):
TTACAAAGCATTACCGTAAAAACATAACTTGAATACA
Found at i:18415421 original size:17 final size:17
Alignment explanation
Indices: 18415399--18415438 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
18415389 GGTCTCCAAT
18415399 GAGCTTCTCAA-TCGAAC
1 GAGCTTCTCAACT-GAAC
18415416 GAGCTTCTCAACTGAAC
1 GAGCTTCTCAACTGAAC
18415433 GAGCTT
1 GAGCTT
18415439 TCGATTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (17 bp):
GAGCTTCTCAACTGAAC
Found at i:18421612 original size:79 final size:81
Alignment explanation
Indices: 18421511--18421695 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
18421501 GCTACTCGTT
* *
18421511 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
18421574 GTATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
18421591 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
18421655 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
18421671 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18421696 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:18421695 original size:40 final size:40
Alignment explanation
Indices: 18421492--18421695 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
18421482 CGGAATTTAA
** *
18421492 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18421532 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18421572 CCGTATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18421611 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
18421651 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
18421691 CCGGA
1 CCGGA
18421696 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:18426897 original size:28 final size:28
Alignment explanation
Indices: 18426865--18426992 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
18426855 ATAGTAAGTC
*
18426865 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
18426893 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
18426922 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
18426950 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
18426979 CGCACACTTAGTGC
1 CGCACACTTAGTGC
18426993 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:18426955 original size:57 final size:57
Alignment explanation
Indices: 18426864--18426992 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
18426854 TATAGTAAGT
*
18426864 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
18426921 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
18426978 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
18426993 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:18431208 original size:15 final size:15
Alignment explanation
Indices: 18431188--18431223 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
18431178 GAATTTTTGA
18431188 TTGAATAAATTAAAT
1 TTGAATAAATTAAAT
18431203 TTGAATAAATTAAAT
1 TTGAATAAATTAAAT
18431218 TTGAAT
1 TTGAAT
18431224 TTATATAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (15 bp):
TTGAATAAATTAAAT
Found at i:18442470 original size:20 final size:20
Alignment explanation
Indices: 18442447--18442495 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
18442437 GAACCACTCT
18442447 ATTTACTTACTTACCATTCC
1 ATTTACTTACTTACCATTCC
* *
18442467 ATTTACTTACTTTCCATTTC
1 ATTTACTTACTTACCATTCC
18442487 ATTTACTTA
1 ATTTACTTA
18442496 GCATAAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:18442483 original size:15 final size:16
Alignment explanation
Indices: 18442453--18442485 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
18442443 CTCTATTTAC
18442453 TTACTTACCATTCCAT
1 TTACTTACCATTCCAT
*
18442469 TTACTTA-CTTTCCAT
1 TTACTTACCATTCCAT
18442484 TT
1 TT
18442486 CATTTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (16 bp):
TTACTTACCATTCCAT
Found at i:18445590 original size:21 final size:21
Alignment explanation
Indices: 18445566--18445609 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
18445556 TTTAACTGTC
18445566 TAAGTATAATCCTATTTGAGT
1 TAAGTATAATCCTATTTGAGT
18445587 TAAGTATAATCCTATTTGAGT
1 TAAGTATAATCCTATTTGAGT
18445608 TA
1 TA
18445610 GGTGGTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (21 bp):
TAAGTATAATCCTATTTGAGT
Found at i:18446408 original size:41 final size:41
Alignment explanation
Indices: 18446341--18446422 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
18446331 CTTCCAGTGG
*
18446341 AAAGCGTGGTGGCCCCGCCTTCGTTGGCCAAGTCTTTAGCA
1 AAAGAGTGGTGGCCCCGCCTTCGTTGGCCAAGTCTTTAGCA
*
18446382 AAAGAGTGGTGGCCCCGCCTTTGTTGGCCAAGTCTTTAGCA
1 AAAGAGTGGTGGCCCCGCCTTCGTTGGCCAAGTCTTTAGCA
18446423 TGTGTGATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.18, C:0.27, G:0.29, T:0.26
Consensus pattern (41 bp):
AAAGAGTGGTGGCCCCGCCTTCGTTGGCCAAGTCTTTAGCA
Found at i:18448388 original size:48 final size:47
Alignment explanation
Indices: 18448336--18448430 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 47
18448326 TCTCATCTAA
18448336 GAACTAAACATCTTTAAATTTTTGTTTGTCTATTTGATGGCACACTC
1 GAACTAAACATCTTTAAATTTTTGTTTGTCTATTTGATGGCACACTC
*
18448383 NGAACTAAACATCTTTAAATTTTTGTTTGTCTATTTGATGGCTCACTC
1 -GAACTAAACATCTTTAAATTTTTGTTTGTCTATTTGATGGCACACTC
18448431 TTTCTTTCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (47 bp):
GAACTAAACATCTTTAAATTTTTGTTTGTCTATTTGATGGCACACTC
Found at i:18450850 original size:65 final size:65
Alignment explanation
Indices: 18450746--18450901 Score: 240
Period size: 65 Copynumber: 2.4 Consensus size: 65
18450736 GGCGCTTACT
* **
18450746 GCATGTATAAGGCCTATGGCAGTTGATGGGAATAGTGTAACTTATGCGACTAACTAGCGCGTATA
1 GCATGTATAAGGCCCATGATAGTTGATGGGAATAGTGTAACTTATGCGACTAACTAGCGCGTATA
* * * *
18450811 GCATGTATAAGGCCCATGATTGTTGATGGGGATAGTGTAACTTGTGCGACTAACTAGCGCGTATT
1 GCATGTATAAGGCCCATGATAGTTGATGGGAATAGTGTAACTTATGCGACTAACTAGCGCGTATA
*
18450876 GCATGTATAATGCCCATGATAGTTGA
1 GCATGTATAAGGCCCATGATAGTTGA
18450902 CTTGAACTCA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 82 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (65 bp):
GCATGTATAAGGCCCATGATAGTTGATGGGAATAGTGTAACTTATGCGACTAACTAGCGCGTATA
Found at i:18453824 original size:40 final size:40
Alignment explanation
Indices: 18453756--18454641 Score: 1679
Period size: 40 Copynumber: 22.2 Consensus size: 40
18453746 AACCCAAGTA
* *
18453756 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
18453795 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
18453835 CCTTCGGGACTTAGCCGGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18453875 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18453915 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18453955 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18453995 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454035 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454075 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454115 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454155 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454195 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454235 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454275 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454315 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454355 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454395 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454435 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454475 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454515 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454555 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454595 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18454635 CCTTCGG
1 CCTTCGG
18454642 ATCTTAGTCC
Statistics
Matches: 840, Mismatches: 5, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
39 13 0.02
40 826 0.98
41 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:18461976 original size:40 final size:40
Alignment explanation
Indices: 18461902--18462067 Score: 237
Period size: 40 Copynumber: 4.2 Consensus size: 40
18461892 AACCCAAGTA
* *
18461902 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
18461941 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
**
18461981 CCTTCGAAAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
* *
18462021 CCTTCGGGAATTAGCCCGGATATAGACACTAGCACAATTG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
18462061 CCTTCGG
1 CCTTCGG
18462068 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.11
40 100 0.88
41 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:18464831 original size:39 final size:41
Alignment explanation
Indices: 18464736--18464919 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 41
18464726 TTGAATGATG
*
18464736 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
18464775 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
18464815 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* * * *
18464854 TTCGGGTTAAGTCCCGAAGGCATTTGTACGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* * *
18464894 ACCGGGCTATGTCCCGAAGACATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18464920 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
39 53 0.43
40 58 0.48
41 11 0.09
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:18468147 original size:30 final size:30
Alignment explanation
Indices: 18468113--18468173 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
18468103 TTCCCGAGCC
*
18468113 TAGGGGCAAAAGTGTAAATTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATTTCCAAAAGTT
* * *
18468143 TAGGGGCAAAATTGTAATTTTCCCAAAGTT
1 TAGGGGCAAAAGTGTAAATTTCCAAAAGTT
18468173 T
1 T
18468174 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATTTCCAAAAGTT
Found at i:18470049 original size:47 final size:47
Alignment explanation
Indices: 18469978--18470390 Score: 630
Period size: 47 Copynumber: 8.7 Consensus size: 47
18469968 CCCTTCGGGA
* * * * * *
18469978 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
18470025 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18470072 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18470119 CTTTTCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18470166 CTTATCACATATATACACTTTCACACTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18470213 CTTATCACATATATATACGCTTTCACACTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18470262 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18470309 CTTATCACATATATACACTTTCACATTCATCACATCAGCCAATAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18470356 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
18470391 AGAATCCTAA
Statistics
Matches: 343, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 296 0.86
49 46 0.13
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18470056 original size:25 final size:25
Alignment explanation
Indices: 18470028--18470106 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
18470018 ACTCGGCCCT
18470028 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
18470053 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
18470075 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
18470100 ATCACAT
1 ATCACAT
18470107 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:18470288 original size:143 final size:143
Alignment explanation
Indices: 18469978--18470369 Score: 626
Period size: 143 Copynumber: 2.8 Consensus size: 143
18469968 CCCTTCGGGA
* * * * * * *
18469978 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
18470043 TTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACACTCATCACA
18470106 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
18470119 CTTTTCACATATATACACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
18470184 TTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATATACGCTTTCACACTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACACTCATCACA
18470249 TCGGCCATTAGGC
131 TCGGCCATTAGGC
18470262 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
18470327 TTTCACATTCATCACATCAGCCAATAGGCCTTATCACATATAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
18470370 GCATGTTCAC
Statistics
Matches: 230, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
141 90 0.39
143 140 0.61
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACACTCATCACA
TCGGCCATTAGGC
Found at i:18470299 original size:190 final size:188
Alignment explanation
Indices: 18469978--18470390 Score: 641
Period size: 190 Copynumber: 2.2 Consensus size: 188
18469968 CCCTTCGGGA
* * * *
18469978 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* * *
18470043 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* * * *
18470108 GGCCATTAGGCCTTTTCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCAATAGGC
* *
18470166 CTTATCACATATATACACTTTCACA-CTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACTTTCACATC-CATCACATCGGCCACTAGGCCCTATCAC--ATATATA
*
18470230 CGCTTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
63 CACTTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
18470295 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCAATAGGC
128 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCAATAGGC
*
18470356 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
18470391 AGAATCCTAA
Statistics
Matches: 205, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
187 1 0.00
188 47 0.23
189 1 0.00
190 155 0.76
191 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCAATAGGC
Found at i:18472736 original size:16 final size:16
Alignment explanation
Indices: 18472715--18472746 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18472705 ATCATATTCA
18472715 AATAATTTGGTGACTC
1 AATAATTTGGTGACTC
18472731 AATAATTTGGTGACTC
1 AATAATTTGGTGACTC
18472747 GGTTTAGTTT
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:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
AATAATTTGGTGACTC
Found at i:18472759 original size:18 final size:18
Alignment explanation
Indices: 18472736--18472772 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
18472726 GACTCAATAA
18472736 TTTGGTGACTCGGTTTAG
1 TTTGGTGACTCGGTTTAG
18472754 TTTGGTGACTCGGTTTAG
1 TTTGGTGACTCGGTTTAG
18472772 T
1 T
18472773 GGTCCCGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.32, T:0.46
Consensus pattern (18 bp):
TTTGGTGACTCGGTTTAG
Found at i:18473383 original size:48 final size:48
Alignment explanation
Indices: 18473312--18473487 Score: 178
Period size: 48 Copynumber: 3.7 Consensus size: 48
18473302 ATGTGTGTTG
* *
18473312 GTGTAAGACCATGTCTGGGACATGGAATCGGCCACATTAAAAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTAAGAGAGCTA
* * *
18473360 GTGTAAGACCATGTTTGGGACATGGCAT---CCGCATTGAGACGAGACCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-A-A-GAGAGCTA
* * * ** * * *
18473408 GTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAACATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTAAGAGAGCTA
*
18473456 GTGTAAGACCATGTCTAGGACATGGCATCGGC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC
18473488 AATTTACCCT
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 6 0.06
46 1 0.01
47 1 0.01
48 94 0.88
50 1 0.01
51 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTAAGAGAGCTA
Found at i:18481281 original size:39 final size:33
Alignment explanation
Indices: 18481207--18481273 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
18481197 TTGCACTGTA
18481207 CTGATACTAAATAGGGCTTTGGCCCAGACCGTG
1 CTGATACTAAATAGGGCTTTGGCCCAGACCGTG
* *
18481240 CTGATACTGAATAGGGCTTTGGCCCAGACTGTG
1 CTGATACTAAATAGGGCTTTGGCCCAGACCGTG
18481273 C
1 C
18481274 GGATGCTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (33 bp):
CTGATACTAAATAGGGCTTTGGCCCAGACCGTG
Found at i:18484647 original size:40 final size:40
Alignment explanation
Indices: 18484602--18484677 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
18484592 ACTATGTTTG
* *
18484602 GCACTTATTGTGCG-TTTCAAAATAGCTTCGGCTATAAATA
1 GCACTTAGTGTGCGAATT-AAAATAGCTTCGGCTATAAATA
**
18484642 GCACTTAGTGTGCGAATTGGAATAGCTTCGGCTATA
1 GCACTTAGTGTGCGAATTAAAATAGCTTCGGCTATA
18484678 TGAGGCACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 29 0.94
41 2 0.06
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (40 bp):
GCACTTAGTGTGCGAATTAAAATAGCTTCGGCTATAAATA
Found at i:18484686 original size:40 final size:39
Alignment explanation
Indices: 18484622--18484713 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 39
18484612 TGCGTTTCAA
* *
18484622 AATAGCTTCGGCTATAAATAGCACTTAGTGTGCGA-ATTGG
1 AATAGCTTCGGCTAT-AATAGCACTAAGTGTGCGATACT-G
18484662 AATAGCTTCGGCTAT-ATGAGGCACTAAGTGTGCGATACTG
1 AATAGCTTCGGCTATAAT-A-GCACTAAGTGTGCGATACTG
18484702 AGATAGCTTCGG
1 A-ATAGCTTCGG
18484714 TTTAAATGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 31 0.67
41 12 0.26
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (39 bp):
AATAGCTTCGGCTATAATAGCACTAAGTGTGCGATACTG
Found at i:18488717 original size:19 final size:18
Alignment explanation
Indices: 18488682--18488723 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
18488672 CTGCAAAATA
18488682 TTTTTTATTGTTTTCTTT
1 TTTTTTATTGTTTTCTTT
18488700 TTTTCTTATT-TTTCTCTTT
1 TTTT-TTATTGTTT-TCTTT
18488719 TTTTT
1 TTTTT
18488724 GAACTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTTTATTGTTTTCTTT
Found at i:18495941 original size:47 final size:47
Alignment explanation
Indices: 18495890--18496488 Score: 1038
Period size: 47 Copynumber: 12.7 Consensus size: 47
18495880 TTAGGATTCT
* * * *
18495890 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTATTGGCTG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
18495937 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
18495984 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
18496031 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
18496078 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
18496125 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
18496172 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
18496219 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
18496266 ATGTGATGAGTGTGAAAGTGTATATATGTGATAAGGCCTAATGACCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
18496313 ATGTGATGAATGTGAAAGTGTATATATGTGAAAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
18496360 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
18496407 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
18496454 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
18496489 TCCCGAAGGG
Statistics
Matches: 533, Mismatches: 18, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
46 1 0.00
47 532 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:18496388 original size:25 final size:25
Alignment explanation
Indices: 18496360--18496438 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
18496350 CTAATGGCCG
18496360 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ***
18496385 ATGTGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
18496407 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
18496432 ATGTGAT
1 ATGTGAT
18496439 AGGGCCGAGT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 15 0.38
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:18497822 original size:68 final size:68
Alignment explanation
Indices: 18497702--18497828 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
18497692 GCTACATCTA
* * * *
18497702 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCGTGCGACCTAGCTACCTCATA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
18497767 ATG
66 ATG
* * *
18497770 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGCGACCTAGCTAC
18497829 ATACCATCTG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
68 48 0.96
69 2 0.04
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
ATG
Found at i:18498327 original size:30 final size:30
Alignment explanation
Indices: 18498293--18498353 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
18498283 TCCTTAACTC
*
18498293 AAACTTTGGGAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * *
18498323 AAACTTTTGCAAATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
18498353 A
1 A
18498354 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:18501013 original size:70 final size:70
Alignment explanation
Indices: 18500932--18501071 Score: 253
Period size: 70 Copynumber: 2.0 Consensus size: 70
18500922 CAAAAGACTT
18500932 TTGGGGAAGAGTGTTTACAGAAAAAGATGCCCCCAAATAGAGTCACTTCACCCCATATTTATAGT
1 TTGGGGAAGAGTGTTTACAGAAAAAGATGCCCCCAAATAGAGTCACTTCACCCCATATTTATAGT
18500997 GCTAG
66 GCTAG
* * *
18501002 TTGGGGGAGAGTGTTTATAGAAAAAGATGCCCCCAAATAGAGTCACTTCACCCCCTATTTATAGT
1 TTGGGGAAGAGTGTTTACAGAAAAAGATGCCCCCAAATAGAGTCACTTCACCCCATATTTATAGT
18501067 GCTAG
66 GCTAG
18501072 GGAGATAGTC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (70 bp):
TTGGGGAAGAGTGTTTACAGAAAAAGATGCCCCCAAATAGAGTCACTTCACCCCATATTTATAGT
GCTAG
Found at i:18501600 original size:34 final size:34
Alignment explanation
Indices: 18501561--18501658 Score: 112
Period size: 34 Copynumber: 2.9 Consensus size: 34
18501551 TCAAGCCCAT
* *
18501561 TGGGCCTAAGCCCTATTCAGATAACAGTATGTAC
1 TGGGCCTAAGCCCTTTTCAGATAACAGTATGAAC
* *
18501595 TGGGCCGAAGCCCTTTTTAGA-ATACAGTA--AAC
1 TGGGCCTAAGCCCTTTTCAGATA-ACAGTATGAAC
*
18501627 TGGGCCTTAGCCCCTTTTCAGATAACAGTATG
1 TGGGCCTAAG-CCCTTTTCAGATAACAGTATG
18501659 GCCCATAGGC
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
32 10 0.19
33 17 0.33
34 25 0.48
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (34 bp):
TGGGCCTAAGCCCTTTTCAGATAACAGTATGAAC
Found at i:18506214 original size:27 final size:27
Alignment explanation
Indices: 18506184--18506361 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18506174 ATATTGAGTC
* * * *
18506184 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
18506211 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18506238 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18506266 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18506293 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18506320 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18506347 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18506362 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18506323 original size:82 final size:81
Alignment explanation
Indices: 18506205--18506360 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18506195 TGCTATATAA
* *
18506205 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18506270 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18506287 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18506351 CACTTAGTGC
65 CACTTAGTGC
18506361 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:18514297 original size:27 final size:27
Alignment explanation
Indices: 18514267--18514444 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18514257 ATATTGAGTC
* * * *
18514267 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
18514294 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18514321 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18514349 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18514376 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18514403 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18514430 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18514445 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18514406 original size:82 final size:81
Alignment explanation
Indices: 18514288--18514443 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18514278 TGCTATATAA
* *
18514288 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18514353 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18514370 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18514434 CACTTAGTGC
65 CACTTAGTGC
18514444 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:18517893 original size:24 final size:25
Alignment explanation
Indices: 18517866--18517917 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
18517856 GCCTAGCCTC
18517866 TTTTAAT-AACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
**
18517890 TTTTGGTAAACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
18517915 TTT
1 TTT
18517918 CGCACTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:18517992 original size:21 final size:22
Alignment explanation
Indices: 18517968--18518025 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
18517958 AATGAGTATA
18517968 TCATAGCATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
*
18517989 TCATAACATATCATGTGCATAC
1 TCATAGCATATCATGTGCATAC
18518011 -CAT-GTCATATCATGT
1 TCATAG-CATATCATGT
18518026 ATAACAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:18525234 original size:13 final size:13
Alignment explanation
Indices: 18525216--18525240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18525206 ACAAACGATT
18525216 AAATTTTCATACG
1 AAATTTTCATACG
18525229 AAATTTTCATAC
1 AAATTTTCATAC
18525241 ATATTAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
AAATTTTCATACG
Found at i:18526064 original size:51 final size:51
Alignment explanation
Indices: 18526009--18526122 Score: 119
Period size: 51 Copynumber: 2.2 Consensus size: 51
18525999 TTCATTTTTA
* *
18526009 ATTTTTATTTTAGAGAAAACCACATTCA-TTTCCAAAT-TATT-TCATTTCTCC
1 ATTTTTATTTTAGA-AAAAACACATT-ATTTTCCAAATGT-TTCCCATTTCTCC
* *
18526060 ATTTTTCATTTTCGAAAAAACATATTATTTTCCAAATGTTTCCCATTTCTCC
1 ATTTTT-ATTTTAGAAAAAACACATTATTTTCCAAATGTTTCCCATTTCTCC
*
18526112 -TTTTTTTTTTA
1 ATTTTTATTTTA
18526123 CCATTTTTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
50 5 0.09
51 31 0.58
52 17 0.32
ACGTcount: A:0.28, C:0.18, G:0.04, T:0.50
Consensus pattern (51 bp):
ATTTTTATTTTAGAAAAAACACATTATTTTCCAAATGTTTCCCATTTCTCC
Found at i:18528924 original size:61 final size:61
Alignment explanation
Indices: 18528825--18528950 Score: 236
Period size: 61 Copynumber: 2.1 Consensus size: 61
18528815 TTGGTAATGC
18528825 AAAG-AATGAAAAACTTGAGTGTGATCAATGTGGAAGACGAGATTTTGAAAAGTTCTGGGG
1 AAAGAAATGAAAAACTTGAGTGTGATCAATGTGGAAGACGAGATTTTGAAAAGTTCTGGGG
*
18528885 AAAGAAATGAAAAACTTGAGTGTGATCAATGTGGAAGACGAGATTTTGAAAAGTTCTGGGT
1 AAAGAAATGAAAAACTTGAGTGTGATCAATGTGGAAGACGAGATTTTGAAAAGTTCTGGGG
18528946 AAAGA
1 AAAGA
18528951 GTAATAAGCG
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 4 0.06
61 60 0.94
ACGTcount: A:0.40, C:0.06, G:0.29, T:0.25
Consensus pattern (61 bp):
AAAGAAATGAAAAACTTGAGTGTGATCAATGTGGAAGACGAGATTTTGAAAAGTTCTGGGG
Found at i:18545159 original size:56 final size:56
Alignment explanation
Indices: 18545073--18545475 Score: 770
Period size: 56 Copynumber: 7.2 Consensus size: 56
18545063 ATGACAAGGG
18545073 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGA
1 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGA
*
18545129 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTGATGGAAAAATAAAATAAGA
1 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGA
18545185 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGA
1 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGA
*
18545241 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTGATGGAAAAATAAAATAAGA
1 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGA
18545297 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGA
1 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGA
*
18545353 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTGATGGAAAAATAAAATAAGA
1 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGA
*
18545409 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGA
1 AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGA
18545465 AGCATGGGCAA
1 AGCATGGGCAA
18545476 TAAACTAATA
Statistics
Matches: 340, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 340 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
AGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGA
Found at i:18547561 original size:40 final size:40
Alignment explanation
Indices: 18546603--18547547 Score: 1718
Period size: 40 Copynumber: 23.6 Consensus size: 40
18546593 TCGAATGATG
* * * * * *
18546603 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAACTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
18546643 TCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18546683 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18546722 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18546762 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18546802 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18546842 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18546882 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18546922 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18546962 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547002 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547042 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547082 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547122 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547162 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547202 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547242 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547282 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547322 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547362 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547402 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547442 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18547482 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
18547523 -CCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
18547548 AACGAGTAGC
Statistics
Matches: 887, Mismatches: 13, Indels: 10
0.97 0.01 0.01
Matches are distributed among these distances:
39 35 0.04
40 842 0.95
41 10 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18547951 original size:75 final size:75
Alignment explanation
Indices: 18547861--18548002 Score: 239
Period size: 75 Copynumber: 1.9 Consensus size: 75
18547851 TGCTGGAATC
* * * *
18547861 CCTTGCTCAAAACTTACTAAGCATAAATTGCTTACTCCGTTTCTTTGTTTCTCTGTTTTATAGAT
1 CCTTGCTCAAAACTTACTAAGCATAAATTGCTTACTCCATTTCATTGCTCCTCTGTTTTATAGAT
18547926 TTTGGCTCGT
66 TTTGGCTCGT
*
18547936 CCTTGCTCAAAACTTAGTAAGCATAAATTGCTTACTCCATTTCATTGCTCCTCTGTTTTATAGAT
1 CCTTGCTCAAAACTTACTAAGCATAAATTGCTTACTCCATTTCATTGCTCCTCTGTTTTATAGAT
18548001 TT
66 TT
18548003 GGTTCTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 62 1.00
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.44
Consensus pattern (75 bp):
CCTTGCTCAAAACTTACTAAGCATAAATTGCTTACTCCATTTCATTGCTCCTCTGTTTTATAGAT
TTTGGCTCGT
Found at i:18556774 original size:17 final size:19
Alignment explanation
Indices: 18556732--18556775 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18556722 ATGAAATTTT
*
18556732 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
18556751 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
18556769 AA-TATTA
1 AATTATTA
18556776 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:18556987 original size:51 final size:51
Alignment explanation
Indices: 18556926--18557027 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
18556916 TATTTATAAA
*
18556926 AGTATTATTGTTTTGGTGTTTAAACTCTAGGAAAAAAATTCTTTTAATTTT
1 AGTATCATTGTTTTGGTGTTTAAACTCTAGGAAAAAAATTCTTTTAATTTT
* *
18556977 AGTATCATTGTTTTGGTGTTTAAACTCTAGGAAAAAAGTTGTTTTAATTTT
1 AGTATCATTGTTTTGGTGTTTAAACTCTAGGAAAAAAATTCTTTTAATTTT
18557028 TGCCTCATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.30, C:0.06, G:0.16, T:0.48
Consensus pattern (51 bp):
AGTATCATTGTTTTGGTGTTTAAACTCTAGGAAAAAAATTCTTTTAATTTT
Found at i:18557812 original size:4 final size:5
Alignment explanation
Indices: 18557791--18557831 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
18557781 CTACTTCCTT
18557791 TTTTC TTCTTC TTTTC -TTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
18557832 CTTCATCTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:18557813 original size:9 final size:9
Alignment explanation
Indices: 18557799--18557828 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
18557789 TTTTTTCTTC
18557799 TTCTTTTCT
1 TTCTTTTCT
18557808 TTCTTTTCTT
1 TTCTTTTC-T
18557818 TTCTTTTCT
1 TTCTTTTCT
18557827 TT
1 TT
18557829 TCTCTTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTCTTTTCT
Found at i:18557823 original size:19 final size:20
Alignment explanation
Indices: 18557791--18557828 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
18557781 CTACTTCCTT
18557791 TTTTCTTCTTCTTTTCTTTC
1 TTTTCTTCTTCTTTTCTTTC
18557811 TTTTCTT-TTCTTTTCTTT
1 TTTTCTTCTTCTTTTCTTT
18557829 TCTCTTCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTCTTCTTCTTTTCTTTC
Found at i:18557845 original size:20 final size:20
Alignment explanation
Indices: 18557772--18557851 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
18557762 TCTTTTCTCC
*
18557772 TCTCTTCATCTACTTCCTTT
1 TCTCTTCATCTACTTTCTTT
* * *
18557792 TTTCTTCTTCTTTTCTTTCTTT
1 TCTCTTCATC--TACTTTCTTT
18557814 TCT-TT--TCT--TTTCTTT
1 TCTCTTCATCTACTTTCTTT
*
18557829 TCTCTTCATCTACTTTCTCT
1 TCTCTTCATCTACTTTCTTT
18557849 TCT
1 TCT
18557852 TCTTTTTCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
15 10 0.21
16 2 0.04
17 1 0.02
18 3 0.06
19 2 0.04
20 17 0.36
21 2 0.04
22 10 0.21
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66
Consensus pattern (20 bp):
TCTCTTCATCTACTTTCTTT
Found at i:18557850 original size:52 final size:54
Alignment explanation
Indices: 18557754--18557857 Score: 140
Period size: 57 Copynumber: 1.9 Consensus size: 54
18557744 TCTTCTTCTA
*
18557754 TTTTCTTTTCTTTTCTCCTCTCTTCATCTACTTCCTTTTTTCTTCTTCTTTTCTTTC
1 TTTTCTTTTCTTTTCTCCTCTCTTCATCTA---CCTTTTCTCTTCTTCTTTTCTTTC
**
18557811 TTTTCTTTTCTTTTCTTTTCTCTTCATCTA-C-TTTCTCTTCTTCTTTT
1 TTTTCTTTTCTTTTCTCCTCTCTTCATCTACCTTTTCTCTTCTTCTTTT
18557858 TCTCCATAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
52 15 0.34
53 1 0.02
57 28 0.64
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (54 bp):
TTTTCTTTTCTTTTCTCCTCTCTTCATCTACCTTTTCTCTTCTTCTTTTCTTTC
Found at i:18559138 original size:27 final size:27
Alignment explanation
Indices: 18559084--18559167 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
18559074 AGCATGGCTG
** * *
18559084 CCAGAACAGATAA-TGTGATAGTGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
18559110 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
18559137 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
18559164 CCAG
1 CCAG
18559168 GACGCTTCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 13 0.25
27 38 0.75
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:18560633 original size:24 final size:24
Alignment explanation
Indices: 18560600--18560668 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
18560590 AACACCGTTA
*
18560600 TCCCTAATCAGCTCCTAAATCCTC
1 TCCCTTATCAGCTCCTAAATCCTC
*
18560624 TCCCTTATCAGCTCTTAAATCCTC
1 TCCCTTATCAGCTCCTAAATCCTC
*
18560648 TCCTTTATCAGCTCCTAAATC
1 TCCCTTATCAGCTCCTAAATC
18560669 TTCTTCTGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.23, C:0.38, G:0.04, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAGCTCCTAAATCCTC
Found at i:18575854 original size:42 final size:42
Alignment explanation
Indices: 18575737--18575856 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
18575727 AAAAAGCTCG
* * * * *
18575737 TACAATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAATATCCTAGACATGGTCTTACACGAAATCAAA
* * * * *
18575779 TACCGATACCACTATCTTAGACAGGGTCTTACACGAAATCAAA
1 TA-CAATGCCAATATCCTAGACATGGTCTTACACGAAATCAAA
18575822 TACAATGCCAATATCCTAGACATGGTCTTACACGA
1 TACAATGCCAATATCCTAGACATGGTCTTACACGA
18575857 TAACACATAT
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 30 0.48
43 32 0.52
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (42 bp):
TACAATGCCAATATCCTAGACATGGTCTTACACGAAATCAAA
Found at i:18587318 original size:37 final size:37
Alignment explanation
Indices: 18587268--18587346 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
18587258 TTATTACGAA
* * * *
18587268 GTCTTACCCGGACATAATCTCCAGACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
18587305 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
18587342 GTCTT
1 GTCTT
18587347 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:18587552 original size:47 final size:47
Alignment explanation
Indices: 18587509--18588032 Score: 868
Period size: 47 Copynumber: 11.1 Consensus size: 47
18587499 TTGGCCACTC
* * *
18587509 GGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
18587556 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
18587603 GGCCTTATCACACACATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
* * *
18587650 GGCCCTATCACACATATACATTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
18587697 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGTTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
* * *
18587744 GGCCCTATCACACATATACACTTTCACATTCATCACGTTGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
18587791 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGTTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
* * *
18587838 GGCCCTATCACACATATACACTTTCACATTCATCACGTTGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
18587885 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGTTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
* * *
18587932 GGCCCTATCACACATATACACTTTCACATTCATCACGTTGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
18587979 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
18588026 GGCCTTA
1 GGCCTTA
18588033 CTATCATTTC
Statistics
Matches: 442, Mismatches: 35, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 442 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (47 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
Found at i:18598578 original size:19 final size:18
Alignment explanation
Indices: 18598533--18598580 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
18598523 GTGTCCCCTA
*
18598533 TTTTCAAATTTTTCTACT
1 TTTTCAAATTTTTCTAAT
* *
18598551 TTTCCCAAATTTTTTTAAT
1 TTT-TCAAATTTTTCTAAT
18598570 TGTTTCAAATT
1 T-TTTCAAATT
18598581 GGTCCTAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.12
19 19 0.79
20 2 0.08
ACGTcount: A:0.25, C:0.15, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTTCAAATTTTTCTAAT
Found at i:18601007 original size:27 final size:27
Alignment explanation
Indices: 18600964--18601068 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
18600954 CGTCCTAGTT
*
18600964 GCTATGCCACAATTATCTGATCTGGTG
1 GCTATGCCACAATTATCTGTTCTGGTG
*
18600991 GCTCTGCCACACA-TATCTGTTCTGGTG
1 GCTATGCCACA-ATTATCTGTTCTGGTG
18601018 GCTATGCCACAATTATCTGTTCTGGTG
1 GCTATGCCACAATTATCTGTTCTGGTG
* * *
18601045 ACTTTGTCAC-ATTATCTGTTCTGG
1 GCTATGCCACAATTATCTGTTCTGG
18601069 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
26 15 0.21
27 54 0.77
28 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
GCTATGCCACAATTATCTGTTCTGGTG
Found at i:18608803 original size:27 final size:26
Alignment explanation
Indices: 18608763--18608873 Score: 159
Period size: 27 Copynumber: 4.2 Consensus size: 26
18608753 AGGAAGTGTC
* *
18608763 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
18608790 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
18608817 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
18608844 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
18608870 CTGG
1 CTGG
18608874 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
26 16 0.21
27 60 0.77
28 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:18608847 original size:54 final size:53
Alignment explanation
Indices: 18608763--18608873 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 53
18608753 AGGAAGTGTC
*
18608763 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * *
18608817 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
18608870 CTGG
1 CTGG
18608874 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 12 0.23
54 41 0.77
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:18623809 original size:40 final size:40
Alignment explanation
Indices: 18623726--18624661 Score: 1720
Period size: 40 Copynumber: 23.5 Consensus size: 40
18623716 CAACCAAGTA
** *
18623726 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
18623764 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18623804 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18623844 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18623884 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18623924 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18623964 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624004 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624044 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624084 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624124 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624164 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624204 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624244 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624284 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624324 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624364 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624404 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624444 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624484 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18624524 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
18624564 CCTTCGGGACTTAGCCCGGATATAATAACTCGCATAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
18624604 CCTTCGGG-CTTAGCCC-GAAATTAGTCACTTGCACAGATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
18624643 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
18624662 TTATCATCCG
Statistics
Matches: 877, Mismatches: 15, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
38 16 0.02
39 40 0.05
40 820 0.94
41 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:18627485 original size:40 final size:40
Alignment explanation
Indices: 18627415--18627571 Score: 226
Period size: 40 Copynumber: 4.0 Consensus size: 40
18627405 CCTCATAATT
* *** *
18627415 CTAGCATGAATGC-CTTCGAGGTTTAACCCGGATATATCA
1 CTAGCACGAATGCTCTTCGAAACTTAGCCCGGATATATCA
18627454 CTAGCACGAATGCTCTTCGAAACTTAGCCCGGATATATCA
1 CTAGCACGAATGCTCTTCGAAACTTAGCCCGGATATATCA
*
18627494 CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATCA
1 CTAGCACGAATGCTCTTCGAAACTTAGCCCGGATATATCA
* * *
18627534 CTAGCACGAATGCTCTTCGGAACTTAGTCTGGATATAT
1 CTAGCACGAATGCTCTTCGAAACTTAGCCCGGATATAT
18627572 AACTCTCAAT
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 12 0.11
40 97 0.89
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (40 bp):
CTAGCACGAATGCTCTTCGAAACTTAGCCCGGATATATCA
Found at i:18629077 original size:46 final size:46
Alignment explanation
Indices: 18629009--18629144 Score: 191
Period size: 46 Copynumber: 3.0 Consensus size: 46
18628999 TATATATACA
* * *
18629009 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
18629055 CATCTCATACATGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
18629101 TATCTCATACACATTCCGCATTAGCCATTCGGCCTTACCACATA
1 CATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATA
18629145 AATACATGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:18629179 original size:47 final size:47
Alignment explanation
Indices: 18629119--18629407 Score: 362
Period size: 47 Copynumber: 6.1 Consensus size: 47
18629109 ACACATTCCG
* * *
18629119 CATTAGCCATTCGGCCTTACCACATAAATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
18629166 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * **
18629213 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
18629260 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * *
18629307 CATTAGCCATTCGGCCTTATCCCGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT----CACATATATACATGTTCACATTCATCA
* * ** *
18629358 CATTTGCCATTCGGCCTTATCTCATATATACACATTCGCATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
18629405 CAT
1 CAT
18629408 AAAATCCTAA
Statistics
Matches: 216, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
47 175 0.81
51 41 0.19
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:18629408 original size:25 final size:25
Alignment explanation
Indices: 18629334--18629408 Score: 59
Period size: 25 Copynumber: 3.1 Consensus size: 25
18629324 TATCCCGCAT
** *
18629334 ATATATACAGGTTCACATTCATCAC
1 ATATATACACATTCGCATTCATCAC
* * *
18629359 AT-T-TGC-CATTCGGCCTT-ATCTC
1 ATATATACACATTC-GCATTCATCAC
18629381 ATATATACACATTCGCATTCATCAC
1 ATATATACACATTCGCATTCATCAC
18629406 ATA
1 ATA
18629409 AAATCCTAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
22 9 0.25
23 6 0.17
24 7 0.19
25 14 0.39
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (25 bp):
ATATATACACATTCGCATTCATCAC
Found at i:18632181 original size:26 final size:25
Alignment explanation
Indices: 18632152--18632211 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
18632142 TAATTAGTAT
*
18632152 AAAATATTAATAATTCAAT-AAATTGA
1 AAAAT-TTAATAATTAAATGAAATT-A
* *
18632178 AAAATTAAATGATTAAATGAAATTA
1 AAAATTTAATAATTAAATGAAATTA
18632203 AAAATTTAA
1 AAAATTTAA
18632212 GAGAAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (25 bp):
AAAATTTAATAATTAAATGAAATTA
Found at i:18633649 original size:53 final size:53
Alignment explanation
Indices: 18633468--18633674 Score: 191
Period size: 53 Copynumber: 3.8 Consensus size: 53
18633458 ATTAGGGTCT
* * * * * * *
18633468 AAGGATATCAAGTAAGACCATGCCAATG-CATGGCATTGGTAAGTTTTACAATGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCAATGATAAG-TTCATAAGGC
* * * * * *
18633522 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTATGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGAT-AAGT-TCATAAGGC
** * * *
18633577 AAATATCCCATGTAAGACCATGCCAAGGCATGGCAATGATGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCATAAGGC
* *
18633630 AAGGATACCATGGAAGACCATGTCAAGACATGGCAATGATAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTT
18633675 TAAAAAGGAA
Statistics
Matches: 124, Mismatches: 26, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
53 47 0.38
54 37 0.30
55 40 0.32
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCATAAGGC
Found at i:18633690 original size:53 final size:54
Alignment explanation
Indices: 18633479--18633696 Score: 190
Period size: 53 Copynumber: 4.1 Consensus size: 54
18633469 AGGATATCAA
* * * * * * * * *
18633479 GTAAGACCATGCCAATG-CATGGCATTGGTAAGTTTTACAATGCAAGGAAATCAT
1 GTAAGACCATGTCAA-GACATGGCAATGATAAGTTTAATAAGGCAAAGATACCAT
* * * * * *
18633533 GTAAGACCATGTCAAGACATGGCATTGATAAACTATGATAAGGCAAATATCCCAT
1 GTAAGACCATGTCAAGACATGGCAATGAT-AAGTTTAATAAGGCAAAGATACCAT
* * * * *
18633588 GTAAGACCATGCCAAGGCATGGCAATGATGAG-TTCATAAGGCAAGGATACCAT
1 GTAAGACCATGTCAAGACATGGCAATGATAAGTTTAATAAGGCAAAGATACCAT
* * *
18633641 GGAAGACCATGTCAAGACATGGCAATGATAAGTTTAAAAAGG-AAAGATACCCT
1 GTAAGACCATGTCAAGACATGGCAATGATAAGTTTAATAAGGCAAAGATACCAT
18633694 GTA
1 GTA
18633697 TCCTTAGTAT
Statistics
Matches: 130, Mismatches: 31, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
53 56 0.43
54 33 0.25
55 41 0.32
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (54 bp):
GTAAGACCATGTCAAGACATGGCAATGATAAGTTTAATAAGGCAAAGATACCAT
Found at i:18636229 original size:49 final size:49
Alignment explanation
Indices: 18636157--18636345 Score: 220
Period size: 49 Copynumber: 3.8 Consensus size: 49
18636147 TGAGGTCACG
* *
18636157 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * *
18636206 TGTGTAGTACTAAGTGCAGGCTACT--GTGCATACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTG--TACCAGATAA-T-TGGTCGCA
* *
18636257 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
18636306 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
18636346 CTTCGGCTAC
Statistics
Matches: 117, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
47 3 0.03
49 72 0.62
50 2 0.02
51 37 0.32
53 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:18636327 original size:100 final size:100
Alignment explanation
Indices: 18636152--18636339 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
18636142 TATTGTGAGG
* *
18636152 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGAATGTGTAGTACT
*
18636217 AAGTGCAGGCTACTGTGCATACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCATACCCGAAAACTGTGA
* *
18636252 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGAATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGAATGTGTAGTACT
* *
18636317 AAGTGTAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCATACC
18636340 AGATAACTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGAATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGAAAACTGTGA
Found at i:18639435 original size:22 final size:20
Alignment explanation
Indices: 18639396--18639442 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
18639386 TGTAAAGTTG
18639396 ATAATAATTAATATATATT-
1 ATAATAATTAATATATATTA
18639415 ATAATAGATATAATTATATATTA
1 ATAATA-AT-TAA-TATATATTA
18639438 ATAAT
1 ATAAT
18639443 TATCATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 3 0.12
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATAATTAATATATATTA
Found at i:18642520 original size:6 final size:6
Alignment explanation
Indices: 18642511--18642547 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
18642501 ATGATGATGA
*
18642511 AAAAAG -AAAAG AGAAAG AAAAAG AAAAA- AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
18642548 GGCTCTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:18642533 original size:17 final size:17
Alignment explanation
Indices: 18642511--18642547 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
18642501 ATGATGATGA
* *
18642511 AAAAAGAAAAGAGAAAG
1 AAAAAGAAAAAAAAAAG
18642528 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
18642545 AAA
1 AAA
18642548 GGCTCTCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:18643900 original size:40 final size:40
Alignment explanation
Indices: 18643845--18644128 Score: 482
Period size: 40 Copynumber: 7.1 Consensus size: 40
18643835 AGTGACTAGT
18643845 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
18643885 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
18643925 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
18643965 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
18644005 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
* *
18644045 GAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
* * * * *
18644085 GAAGGCATTCGAGCAAG-TAGCTATATCC-GGTTAAATCCC
1 GAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCC
18644124 GAAGG
1 GAAGG
18644129 TACTTGGCTT
Statistics
Matches: 235, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
39 15 0.06
40 220 0.94
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
Found at i:18646209 original size:27 final size:27
Alignment explanation
Indices: 18646171--18646223 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
18646161 AGTACCTTAC
18646171 GTTCTAATTTAGGTGGCTCCTCGATTA
1 GTTCTAATTTAGGTGGCTCCTCGATTA
18646198 GTTCTAATTTAGGTGGCTCCTCGATT
1 GTTCTAATTTAGGTGGCTCCTCGATT
18646224 GACGCTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (27 bp):
GTTCTAATTTAGGTGGCTCCTCGATTA
Found at i:18650602 original size:10 final size:10
Alignment explanation
Indices: 18650589--18650628 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
18650579 TCGAAAAATG
18650589 ATCAAAATTA
1 ATCAAAATTA
18650599 ATCAAAATTA
1 ATCAAAATTA
*
18650609 ATTATAAATTA
1 ATCA-AAATTA
*
18650620 ATTAAAATT
1 ATCAAAATT
18650629 CAACACGTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (10 bp):
ATCAAAATTA
Found at i:18651492 original size:47 final size:47
Alignment explanation
Indices: 18651391--18651501 Score: 134
Period size: 47 Copynumber: 2.4 Consensus size: 47
18651381 CACAGTAATG
*
18651391 TAGATAAACTGCCACTTAATAATATTGTGAACAAGCCACCACTTTTG
1 TAGATAAACTGCCACTTAATAATATTGTGAACAAGCCACCACTTTTC
* * * ** *
18651438 AAAATAAACTGCCACTCT-ATAATATTGTGTATGAGCCACCATTTTTC
1 TAGATAAACTGCCACT-TAATAATATTGTGAACAAGCCACCACTTTTC
*
18651485 TAGATAAACTACCACTT
1 TAGATAAACTGCCACTT
18651502 CGTCCTCCTT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
46 1 0.02
47 51 0.96
48 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.32
Consensus pattern (47 bp):
TAGATAAACTGCCACTTAATAATATTGTGAACAAGCCACCACTTTTC
Found at i:18653348 original size:25 final size:25
Alignment explanation
Indices: 18653314--18653383 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
18653304 CTCTTTTAAT
* *
18653314 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
18653339 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
18653364 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
18653384 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:18654313 original size:27 final size:28
Alignment explanation
Indices: 18654283--18654497 Score: 119
Period size: 27 Copynumber: 7.9 Consensus size: 28
18654273 GTAAATCTAC
* *
18654283 AAACCAAGGGCATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCTAGTAATTTTAT
* *
18654310 AAACCGAA-GGTATTTCTA-TGATTTTTTT
1 AAACC-AAGGGTATTTCTAGT-AATTTTAT
*
18654338 AAAGTCAAGGGTATTTCT-GTAATTTTAT
1 AAA-CCAAGGGTATTTCTAGTAATTTTAT
* * *
18654366 AAATCAAGGGTATTT-TGGTAATTTTACA
1 AAACCAAGGGTATTTCTAGTAATTTTA-T
* * *
18654394 AAACC-AGTGGTATTT-TGGTAATTTCAC
1 AAACCAAG-GGTATTTCTAGTAATTTTAT
* *
18654421 AAACC-AGTGGTATTT-TGGTAATTTTAC
1 AAACCAAG-GGTATTTCTAGTAATTTTAT
* * * *
18654448 AAACTAGGGGTATTT-TGGTAATTTTAC
1 AAACCAAGGGTATTTCTAGTAATTTTAT
* * *
18654475 AAACTAGGGGTATTT-TGGTAATT
1 AAACCAAGGGTATTTCTAGTAATT
18654498 CTATCCTATA
Statistics
Matches: 165, Mismatches: 13, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.01
27 107 0.65
28 46 0.28
29 11 0.07
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTAGTAATTTTAT
Found at i:18654351 original size:29 final size:27
Alignment explanation
Indices: 18654287--18654380 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 27
18654277 ATCTACAAAC
* * *
18654287 CAAGGGCATTT-TAGTAATTTTGTAAAC
1 CAAGGGTATTTCTA-TAATTTTATAAAT
* *
18654314 CGAA-GGTATTTCTATGATTTTTTTAAAGT
1 C-AAGGGTATTTCTAT-AATTTTATAAA-T
*
18654343 CAAGGGTATTTCTGTAATTTTATAAAT
1 CAAGGGTATTTCTATAATTTTATAAAT
18654370 CAAGGGTATTT
1 CAAGGGTATTT
18654381 TGGTAATTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
27 20 0.36
28 24 0.44
29 11 0.20
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.43
Consensus pattern (27 bp):
CAAGGGTATTTCTATAATTTTATAAAT
Found at i:18654510 original size:54 final size:54
Alignment explanation
Indices: 18654346--18654526 Score: 186
Period size: 54 Copynumber: 3.3 Consensus size: 54
18654336 TTAAAGTCAA
* * * * * *
18654346 GGGTATTTCT-GTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAAACCAG
1 GGGTATTT-TGGTAATTTCACAAACCAGGGGTATTTTGGTAATTCTAC-AAACTAG
* * *
18654401 TGGTATTTTGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTCACAAACCAGGGGTATTTTGGTAATTCTACAAACTAG
* * **
18654455 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTA-TAG
1 GGGTATTTTGGTAATTTCACAAACCAGGGGTATTTTGGTAATTCTA-CAAACTAG
**
18654509 GGGTATTTCAGTAATTTC
1 GGGTATTTTGGTAATTTC
18654527 GCAATTGAGG
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
54 66 0.62
55 41 0.38
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTCACAAACCAGGGGTATTTTGGTAATTCTACAAACTAG
Found at i:18654516 original size:27 final size:27
Alignment explanation
Indices: 18654346--18654497 Score: 200
Period size: 27 Copynumber: 5.6 Consensus size: 27
18654336 TTAAAGTCAA
* *
18654346 GGGTATTTCT-GTAATTTTATAAA-TCAA
1 GGGTATTT-TGGTAATTTTACAAACT-AG
*
18654373 GGGTATTTTGGTAATTTTACAAAACCAG
1 GGGTATTTTGGTAATTTTAC-AAACTAG
* * *
18654401 TGGTATTTTGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
18654428 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
18654455 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
18654482 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
18654498 CTATCCTATA
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
26 1 0.01
27 91 0.80
28 22 0.19
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:18654548 original size:26 final size:27
Alignment explanation
Indices: 18654519--18654620 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 27
18654509 GGGTATTTCA
* *
18654519 GTAATTTCG-CAATTGAGGGTAAAACG
1 GTAATTTCGTAAATCGAGGGTAAAACG
*
18654545 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTCGTAAATCGAGGGTAAAACG
** *
18654572 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTTCGTAAATCGAGGGTAAAACG
*
18654599 GTAA-TTCTGTAAATCAAGGGTA
1 GTAATTTC-GTAAATCGAGGGTA
18654621 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
26 10 0.15
27 56 0.85
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTTCGTAAATCGAGGGTAAAACG
Found at i:18654563 original size:27 final size:27
Alignment explanation
Indices: 18654533--18654620 Score: 140
Period size: 27 Copynumber: 3.3 Consensus size: 27
18654523 TTTCGCAATT
18654533 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
*
18654560 GAGGGTAAAACGGTAATTTTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* *
18654587 GAGGGTAAAACAGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
*
18654614 AAGGGTA
1 GAGGGTA
18654621 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTTTGTAAATC
Found at i:18654629 original size:54 final size:54
Alignment explanation
Indices: 18654533--18654645 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
18654523 TTTCGCAATT
* * * *
18654533 GAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTATAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTACAAATC
**** *
18654587 GAGGGTAAAACAGTAATTCTGTAAATCAAGGGTACTTTGGTAATTTTACAAGTC
1 GAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTACAAATC
18654641 GAGGG
1 GAGGG
18654646 CATTTTAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (54 bp):
GAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTACAAATC
Found at i:18661008 original size:15 final size:15
Alignment explanation
Indices: 18660988--18661020 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18660978 TAAAGTTGAT
*
18660988 ACTTTACTTTGATCA
1 ACTTTACTTAGATCA
18661003 ACTTTACTTAGATCA
1 ACTTTACTTAGATCA
18661018 ACT
1 ACT
18661021 CTAATACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.42
Consensus pattern (15 bp):
ACTTTACTTAGATCA
Found at i:18673013 original size:43 final size:43
Alignment explanation
Indices: 18672966--18673048 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
18672956 ATCAGAATCG
* * *
18672966 TATTTGATTTCGTACAAGACCCTGTCTGGGACAG-TGGCATCAA
1 TATTTGATTGCATACAAGACCATGTCTGGGAC-GTTGGCATCAA
**
18673009 TATTTGATTGCATGTAAGACCATGTCTGGGACGTTGGCAT
1 TATTTGATTGCATACAAGACCATGTCTGGGACGTTGGCAT
18673049 TGTACAAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TATTTGATTGCATACAAGACCATGTCTGGGACGTTGGCATCAA
Found at i:18678155 original size:36 final size:38
Alignment explanation
Indices: 18678080--18678159 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 38
18678070 TGAATGTGAC
* **
18678080 TGGGCCTACTGGGCCATATAAATGTGAATTGGGTGTAA
1 TGGGCCTACTGGGCCATATAAATATGAATTGGGCCTAA
*
18678118 TGGGCCTA-TGGGCCATATGAATAT-AATTGGGCCTAA
1 TGGGCCTACTGGGCCATATAAATATGAATTGGGCCTAA
18678154 TGGGCC
1 TGGGCC
18678160 AGATACAGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 16 0.42
37 14 0.37
38 8 0.21
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (38 bp):
TGGGCCTACTGGGCCATATAAATATGAATTGGGCCTAA
Found at i:18681456 original size:10 final size:10
Alignment explanation
Indices: 18681422--18681448 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
18681412 ATAGCCCATG
18681422 TTAAGGTATA
1 TTAAGGTATA
18681432 TTAAGGTATA
1 TTAAGGTATA
18681442 TTAAGGT
1 TTAAGGT
18681449 CATTTAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (10 bp):
TTAAGGTATA
Found at i:18684913 original size:79 final size:79
Alignment explanation
Indices: 18684783--18684943 Score: 313
Period size: 79 Copynumber: 2.0 Consensus size: 79
18684773 CCTTGATAAC
*
18684783 TTTTCAAATAAATCCCCTAAATAGAAAGATTAGGCTATCCCGATTCTAAAAAATATAGAAATTAC
1 TTTTCAAATAAAACCCCTAAATAGAAAGATTAGGCTATCCCGATTCTAAAAAATATAGAAATTAC
18684848 TAAAAGAGACATGA
66 TAAAAGAGACATGA
18684862 TTTTCAAATAAAACCCCTAAATAGAAAGATTAGGCTATCCCGATTCTAAAAAATATAGAAATTAC
1 TTTTCAAATAAAACCCCTAAATAGAAAGATTAGGCTATCCCGATTCTAAAAAATATAGAAATTAC
18684927 TAAAAGAGACATGA
66 TAAAAGAGACATGA
18684941 TTT
1 TTT
18684944 CATACATCAT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (79 bp):
TTTTCAAATAAAACCCCTAAATAGAAAGATTAGGCTATCCCGATTCTAAAAAATATAGAAATTAC
TAAAAGAGACATGA
Found at i:18685289 original size:65 final size:65
Alignment explanation
Indices: 18685185--18685314 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
18685175 GAATTTCGTA
*
18685185 GCTATTTGATACCTATAGCTACTAGAACCCAACTTCTACATTTTATGCAATTTATTTCTTTCCCT
1 GCTATTTGATACCTATAGCTACTAGAACCCAACTTCTACATTTTATGCAATTTATTGCTTTCCCT
*
18685250 GCTATTTGATACCTATAGCTACTAGAACCCAACTTCTACATTTTATGCATTTTATTGCTTTCCCT
1 GCTATTTGATACCTATAGCTACTAGAACCCAACTTCTACATTTTATGCAATTTATTGCTTTCCCT
18685315 AATTAAACAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (65 bp):
GCTATTTGATACCTATAGCTACTAGAACCCAACTTCTACATTTTATGCAATTTATTGCTTTCCCT
Found at i:18686122 original size:38 final size:37
Alignment explanation
Indices: 18686072--18686166 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 37
18686062 TAAATTAGTT
* *
18686072 TGAGTCTTAATTATGTCATAATTTGAACATCA-TTAATA
1 TGAGT-TTAATTATGTCATAATCTAAACAT-ATTTAATA
*
18686110 TGAGTTTCAATTATGTCATGATCTAAACATATTTAATA
1 TGAGTTT-AATTATGTCATAATCTAAACATATTTAATA
*
18686148 AGAGATTTTAATTATGTCA
1 TGAG--TTTAATTATGTCA
18686167 CAGTTTAGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
37 3 0.06
38 33 0.67
39 10 0.20
40 3 0.06
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (37 bp):
TGAGTTTAATTATGTCATAATCTAAACATATTTAATA
Found at i:18687636 original size:18 final size:18
Alignment explanation
Indices: 18687613--18687648 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18687603 TTATGAAAAG
18687613 TATCAATACTAGATCGAT
1 TATCAATACTAGATCGAT
18687631 TATCAATACTAGATCGAT
1 TATCAATACTAGATCGAT
18687649 ACCTAGCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
TATCAATACTAGATCGAT
Done.