Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 75 of 202
Found at i:22229543 original size:49 final size:49
Alignment explanation
Indices: 22229485--22229608 Score: 185
Period size: 49 Copynumber: 2.5 Consensus size: 49
22229475 ATGATGGTCC
* *
22229485 ACTGGTAGGGCAAGTTAGTTGCTAACCAGATTGGCATATGTGTTGGACT
1 ACTGGTAGGGCATGTTAGTTGCTAACCAGATTGACATATGTGTTGGACT
* * **
22229534 ACTGGTAGGGCATGTTAGTTGCTAGCCAGATTGACGTATGTGTTGGGTT
1 ACTGGTAGGGCATGTTAGTTGCTAACCAGATTGACATATGTGTTGGACT
*
22229583 ACTGGTAGGGCATGTTAATTGCTAAC
1 ACTGGTAGGGCATGTTAGTTGCTAAC
22229609 TAGTCTGGAA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (49 bp):
ACTGGTAGGGCATGTTAGTTGCTAACCAGATTGACATATGTGTTGGACT
Found at i:22234843 original size:50 final size:50
Alignment explanation
Indices: 22234732--22234847 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 50
22234722 GGTAAAGAGG
* * * **
22234732 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGAGATGAGAAC
*** *
22234782 TCCCCCATAAGACCATGTCTGAGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGAGATGAGAAC
22234832 TCCCATGTAAGACCAT
1 TCCCATGTAAGACCAT
22234848 ATTTGGGATA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.20
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGAGATGAGAAC
Found at i:22237177 original size:25 final size:25
Alignment explanation
Indices: 22237128--22237177 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
22237118 TTCATACTAT
* *
22237128 TTTTTGAAATTTTTTATAATTTTTA
1 TTTTTAAAATTTTTTATAATGTTTA
22237153 TTTTTAAAATATTTTTATAA-GTTTA
1 TTTTTAAAAT-TTTTTATAATGTTTA
22237178 ATATTTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTTTAAAATTTTTTATAATGTTTA
Found at i:22238106 original size:18 final size:18
Alignment explanation
Indices: 22238083--22238122 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22238073 TATAATTTTA
*
22238083 AAAAATA-TATAATACATC
1 AAAAATACTAGAA-ACATC
22238101 AAAAATACTAGAAACATC
1 AAAAATACTAGAAACATC
22238119 AAAA
1 AAAA
22238123 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.20
Consensus pattern (18 bp):
AAAAATACTAGAAACATC
Found at i:22238240 original size:30 final size:30
Alignment explanation
Indices: 22238206--22238264 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
22238196 CTTAACAAGA
*
22238206 AAATGTCTCTAAAATAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
* *
22238236 AAATGCCTTTAAAATAATAATAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
22238265 CAATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:22239732 original size:23 final size:24
Alignment explanation
Indices: 22239691--22239737 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
22239681 ATACTTTTAC
**
22239691 ATATTCATATTTTTTAATT-TTTT
1 ATATTCATATTTTGCAATTATTTT
22239714 ATATTCATATTTTGCAATTATTTT
1 ATATTCATATTTTGCAATTATTTT
22239738 TAACCTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (24 bp):
ATATTCATATTTTGCAATTATTTT
Found at i:22242417 original size:21 final size:21
Alignment explanation
Indices: 22242391--22242434 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
22242381 TTGACCAATC
*
22242391 AAGGAGACAAGACATGAAGAG
1 AAGGAGACAAAACATGAAGAG
22242412 AAGGAGACAAAACATGAAGAG
1 AAGGAGACAAAACATGAAGAG
22242433 AA
1 AA
22242435 TGTTTGCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.57, C:0.09, G:0.30, T:0.05
Consensus pattern (21 bp):
AAGGAGACAAAACATGAAGAG
Found at i:22255273 original size:51 final size:50
Alignment explanation
Indices: 22255214--22255401 Score: 225
Period size: 51 Copynumber: 3.7 Consensus size: 50
22255204 TTCGGTTCAC
** *
22255214 ATAGTAGCCTGCACATAGTACTACACATATGACCATTACCATCCGATACAT
1 ATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGGTACAT
* * * * * *
22255265 GTAGTAGCCTGCGCATAGTACTACACACGTGATCGAAACTATCCGGTACGT
1 ATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGGTACAT
* * * *
22255316 ATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACAC
1 ATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGGTACAT
22255366 ATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 ATAGTAGCCTGCACATAGTACTACACACGTGACCAT
22255402 CACTTTCACT
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 41 0.36
51 68 0.60
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
ATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGGTACAT
Found at i:22255421 original size:101 final size:99
Alignment explanation
Indices: 22255212--22255397 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 99
22255202 TGTTCGGTTC
* **
22255212 ACATAGTAGCCTGCACATAGTACTACACATATGACCATTACCATCCGATACATGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATACGACCA-TACCATCCGATACACATAGTAGCCTGC
* *
22255277 GCATAGTACTACACACGTGATCGAAACTATCCGGT
65 ACATAGTACTACACACGTGATCCAAACTATCCGGT
* * *
22255312 ACGTATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACATAGTAGCCT
1 AC--ATAGTAGCCTGCACATAGTACTACACATACGACCATACCA-TCCGATACACATAGTAGCCT
22255376 GCACATAGTACTACACACGTGA
63 GCACATAGTACTACACACGTGA
22255398 CCATCACTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
100 6 0.08
101 38 0.50
102 32 0.42
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATACGACCATACCATCCGATACACATAGTAGCCTGCA
CATAGTACTACACACGTGATCCAAACTATCCGGT
Found at i:22268080 original size:138 final size:138
Alignment explanation
Indices: 22267832--22268103 Score: 517
Period size: 138 Copynumber: 2.0 Consensus size: 138
22267822 AGGTTTGGGA
*
22267832 GTGTGATAACTCTTGAAAAGAGTTATATTTTAGGATATTATATTAGTATTTTAGGACATTGCATC
1 GTGTGATAACTCTTGAAAAGAGTTAAATTTTAGGATATTATATTAGTATTTTAGGACATTGCATC
* *
22267897 ATGAACTTGGATTGTGCTTAAATGTTATTATGTTACTTTTACTTGTGGGTGGAAAAGATTTTTTT
66 ATGAACTTGGACTGTGCTTAAATGTTATTATGTTACTTTTACTTGTGGGTGGAAAAGATTTGTTT
22267962 GGATAGGG
131 GGATAGGG
22267970 GTGTGATAACTCTTGAAAAGAGTTAAATTTTAGGATATTATATTAGTATTTTAGGACATTGCATC
1 GTGTGATAACTCTTGAAAAGAGTTAAATTTTAGGATATTATATTAGTATTTTAGGACATTGCATC
22268035 ATGAACTTGGACTGTGCTTAAATGTTATTATGTTACTTTTACTTGTGGGTGGAAAAGATTTGTTT
66 ATGAACTTGGACTGTGCTTAAATGTTATTATGTTACTTTTACTTGTGGGTGGAAAAGATTTGTTT
22268100 GGAT
131 GGAT
22268104 GACAAGTGTA
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 131 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (138 bp):
GTGTGATAACTCTTGAAAAGAGTTAAATTTTAGGATATTATATTAGTATTTTAGGACATTGCATC
ATGAACTTGGACTGTGCTTAAATGTTATTATGTTACTTTTACTTGTGGGTGGAAAAGATTTGTTT
GGATAGGG
Found at i:22269424 original size:3 final size:3
Alignment explanation
Indices: 22269416--22269445 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22269406 CGAGGAGATA
22269416 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
22269446 TAGAACTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:22297201 original size:25 final size:24
Alignment explanation
Indices: 22297151--22297201 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
22297141 GGGTATCAAC
*
22297151 AAAAAAAATATCAAATTAAAATAT
1 AAAAAAAATATCAAATTAAAACAT
* **
22297175 AAAAATAAATATTAAATTTTAACAT
1 AAAAA-AAATATCAAATTAAAACAT
22297200 AA
1 AA
22297202 TCCACTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAAAAAATATCAAATTAAAACAT
Found at i:22297293 original size:71 final size:70
Alignment explanation
Indices: 22297158--22297293 Score: 218
Period size: 71 Copynumber: 1.9 Consensus size: 70
22297148 AACAAAAAAA
* * * **
22297158 ATATCAAATTAAAATATAAAAATAAATATTAAATTTTAACATAATCCACTAATAATTAGTCAAAA
1 ATATCAAAATAAAATATAAAAATAAATATTAAAATTTAACATAATCCACTAATAATAACCCAAAA
22297223 TATAT
66 TATAT
22297228 ATATCAAAATAAAATATAAAAAATAAATATTAAAATTTAACATAATCCACTAATAATAACCCAAA
1 ATATCAAAATAAAATAT-AAAAATAAATATTAAAATTTAACATAATCCACTAATAATAACCCAAA
22297293 A
65 A
22297294 GCTAATCTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
70 16 0.27
71 44 0.73
ACGTcount: A:0.59, C:0.10, G:0.01, T:0.30
Consensus pattern (70 bp):
ATATCAAAATAAAATATAAAAATAAATATTAAAATTTAACATAATCCACTAATAATAACCCAAAA
TATAT
Found at i:22305826 original size:3 final size:3
Alignment explanation
Indices: 22305818--22305866 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
22305808 GGCCCCGCCA
22305818 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22305866 T
1 T
22305867 TCTTTACTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22308488 original size:19 final size:17
Alignment explanation
Indices: 22308461--22308514 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 17
22308451 AGAATTTAAC
22308461 AAAAGAAAACTGTGAAAA
1 AAAAGAAAA-TGTGAAAA
* * *
22308479 GAAAACAAAAGAGAGAAAA
1 -AAAAGAAAA-TGTGAAAA
22308498 AAAAGAAAATGTGAAAA
1 AAAAGAAAATGTGAAAA
22308515 CTAATGGGGA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 6 0.21
18 8 0.29
19 14 0.50
ACGTcount: A:0.70, C:0.04, G:0.19, T:0.07
Consensus pattern (17 bp):
AAAAGAAAATGTGAAAA
Found at i:22317176 original size:39 final size:39
Alignment explanation
Indices: 22317095--22317380 Score: 302
Period size: 39 Copynumber: 7.5 Consensus size: 39
22317085 CACAGCACAA
* * * *
22317095 AAGTGCTATTAGGAGTATCGAAGTACAACCA--GGCACGT
1 AAGTGCGATCAGGGGTATCCAAGTACAA-CAGGGGCACGT
* *
22317133 AAGTGCGATCAGGGGTA-CCAAGGTACAACAAGGGCACAT
1 AAGTGCGATCAGGGGTATCCAA-GTACAACAGGGGCACGT
* * **
22317172 AAGTGCAATTAGGGGTATTGAAGTACAACAGGGGCACGT
1 AAGTGCGATCAGGGGTATCCAAGTACAACAGGGGCACGT
* *
22317211 AAGAGCGATCAGGGGTATCGAAGTACAACAGGGGCACGT
1 AAGTGCGATCAGGGGTATCCAAGTACAACAGGGGCACGT
* *
22317250 AAGTACGATCAGGGGTA-CCGAAGTACAATAGGGGCACGT
1 AAGTGCGATCAGGGGTATCC-AAGTACAACAGGGGCACGT
* *
22317289 AAGTGCG-TCAGGGGTATCGAAGTACAACAGGGGCACAT
1 AAGTGCGATCAGGGGTATCCAAGTACAACAGGGGCACGT
* *
22317327 TAGTGCGATCAAGGGTA-CCAAAGTAC-A-A-GGGCACGT
1 AAGTGCGATCAGGGGTATCC-AAGTACAACAGGGGCACGT
*
22317363 AAGTGCCATCAGGGGTAT
1 AAGTGCGATCAGGGGTAT
22317381 AATTATAGAA
Statistics
Matches: 209, Mismatches: 30, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
36 21 0.10
37 6 0.03
38 55 0.26
39 125 0.60
40 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.17
Consensus pattern (39 bp):
AAGTGCGATCAGGGGTATCCAAGTACAACAGGGGCACGT
Found at i:22317225 original size:20 final size:20
Alignment explanation
Indices: 22317200--22317324 Score: 95
Period size: 19 Copynumber: 6.5 Consensus size: 20
22317190 TGAAGTACAA
22317200 CAGGGGCACGTAAG-AGCGAT
1 CAGGGGCACGTAAGTA-CGAT
* *
22317220 CAGGGGTATCG-AAGTAC-AA
1 CAGGGGCA-CGTAAGTACGAT
22317239 CAGGGGCACGTAAGTACGAT
1 CAGGGGCACGTAAGTACGAT
* *
22317259 CAGGGGTACCG-AAGTACAAT
1 CAGGGGCA-CGTAAGTACGAT
*
22317279 -AGGGGCACGTAAGTGCG-T
1 CAGGGGCACGTAAGTACGAT
* *
22317297 CAGGGGTATCG-AAGTAC-AA
1 CAGGGGCA-CGTAAGTACGAT
22317316 CAGGGGCAC
1 CAGGGGCAC
22317325 ATTAGTGCGA
Statistics
Matches: 83, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
18 6 0.07
19 43 0.52
20 29 0.35
21 5 0.06
ACGTcount: A:0.31, C:0.19, G:0.36, T:0.14
Consensus pattern (20 bp):
CAGGGGCACGTAAGTACGAT
Found at i:22317237 original size:78 final size:77
Alignment explanation
Indices: 22317089--22317380 Score: 342
Period size: 77 Copynumber: 3.8 Consensus size: 77
22317079 CGTAACCACA
* * * * * *
22317089 GCACAAAAGTGCTATTAGGAGTATCGAAGTACAACCA-GGCACGTAAGTGCGATCAGGGGTA-CC
1 GCACATAAGTGCGATCAGGGGTACCGAAGTACAA-CAGGGCACGTAAGTGCGATCAGGGGTATCG
*
22317152 AAGGTACAACAAGG
65 AA-GTACAACAGGG
* * ** *
22317166 GCACATAAGTGCAATTAGGGGTATTGAAGTACAACAGGGGCACGTAAGAGCGATCAGGGGTATCG
1 GCACATAAGTGCGATCAGGGGTACCGAAGTACAACA-GGGCACGTAAGTGCGATCAGGGGTATCG
22317231 AAGTACAACAGGG
65 AAGTACAACAGGG
* * *
22317244 GCACGTAAGTACGATCAGGGGTACCGAAGTACAATAGGGGCACGTAAGTGCG-TCAGGGGTATCG
1 GCACATAAGTGCGATCAGGGGTACCGAAGTACAACA-GGGCACGTAAGTGCGATCAGGGGTATCG
22317308 AAGTACAACAGGG
65 AAGTACAACAGGG
* * * *
22317321 GCACATTAGTGCGATCAAGGGTACCAAAGTAC-A-AGGGCACGTAAGTGCCATCAGGGGTAT
1 GCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGGGCACGTAAGTGCGATCAGGGGTAT
22317381 AATTATAGAA
Statistics
Matches: 190, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
74 14 0.07
75 11 0.06
76 3 0.02
77 82 0.43
78 77 0.41
79 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (77 bp):
GCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGGGCACGTAAGTGCGATCAGGGGTATCGA
AGTACAACAGGG
Found at i:22320063 original size:24 final size:22
Alignment explanation
Indices: 22320031--22320080 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
22320021 ATTTTAAAAT
*
22320031 AAAATCATTAATTAAAAATTAATA
1 AAAAACATTAATT-AAAA-TAATA
**
22320055 AAAAACATTTCTTAAAATAATA
1 AAAAACATTAATTAAAATAATA
22320077 AAAA
1 AAAA
22320081 TGTGTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 9 0.39
23 4 0.17
24 10 0.43
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAACATTAATTAAAATAATA
Found at i:22323544 original size:16 final size:15
Alignment explanation
Indices: 22323519--22323552 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
22323509 AAAGTTTATA
*
22323519 ATAATTAATATATATT
1 ATAATAAATATA-ATT
22323535 ATAATAAATATAATT
1 ATAATAAATATAATT
22323550 ATA
1 ATA
22323553 TACTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:22324522 original size:295 final size:295
Alignment explanation
Indices: 22323992--22324586 Score: 1163
Period size: 295 Copynumber: 2.0 Consensus size: 295
22323982 GAAGTTTGAC
*
22323992 AACTCCGTATGGATAAACTTGGTGAATCATAAATGGACCGGACCAACATGATTTTAACTTACCTA
1 AACTCCGTATGGATAAACTTGGTGAATCATAAATGGACCGAACCAACATGATTTTAACTTACCTA
22324057 GAAAGAACCTTAATCTGGAATTGAATAATAAGACTTGGTGACCTACTTCAAATTCTCGAACTCGA
66 GAAAGAACCTTAATCTGGAATTGAATAATAAGACTTGGTGACCTACTTCAAATTCTCGAACTCGA
22324122 ATGTGCTTGTCATGCCATCTTTTTAGTCTTTCCTTGAGTAATTTGGCATTCTCGTATGAGAACAT
131 ATGTGCTTGTCATGCCATCTTTTTAGTCTTTCCTTGAGTAATTTGGCATTCTCGTATGAGAACAT
22324187 TCAAAACTCTTCTAACTCATTGATTTGAAGCATCTGTTTCTCTTTAGCAAGCTTAAGATCCAAGT
196 TCAAAACTCTTCTAACTCATTGATTTGAAGCATCTGTTTCTCTTTAGCAAGCTTAAGATCCAAGT
22324252 TTAGATGTTGGAGAGCCTAGTAAACTTTGTCCTCT
261 TTAGATGTTGGAGAGCCTAGTAAACTTTGTCCTCT
*
22324287 AACTCCGTATGGATAAACTTGGTGAATCGTAAATGGACCGAACCAACATGATTTTAACTTACCTA
1 AACTCCGTATGGATAAACTTGGTGAATCATAAATGGACCGAACCAACATGATTTTAACTTACCTA
22324352 GAAAGAACCTTAATCTGGAATTGAATAATAAGACTTGGTGACCTACTTCAAATTCTCGAACTCGA
66 GAAAGAACCTTAATCTGGAATTGAATAATAAGACTTGGTGACCTACTTCAAATTCTCGAACTCGA
22324417 ATGTGCTTGTCATGCCATCTTTTTAGTCTTTCCTTGAGTAATTTGGCATTCTCGTATGAGAACAT
131 ATGTGCTTGTCATGCCATCTTTTTAGTCTTTCCTTGAGTAATTTGGCATTCTCGTATGAGAACAT
*
22324482 TCGAAACTCTTCTAACTCATTGATTTGAAGCATCTGTTTCTCTTTAGCAAGCTTAAGATCCAAGT
196 TCAAAACTCTTCTAACTCATTGATTTGAAGCATCTGTTTCTCTTTAGCAAGCTTAAGATCCAAGT
22324547 TTAGATGTTGGAGAGCCTAGTAAACTTTGTCCTCT
261 TTAGATGTTGGAGAGCCTAGTAAACTTTGTCCTCT
22324582 AACTC
1 AACTC
22324587 TAAGGGCAGA
Statistics
Matches: 297, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
295 297 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (295 bp):
AACTCCGTATGGATAAACTTGGTGAATCATAAATGGACCGAACCAACATGATTTTAACTTACCTA
GAAAGAACCTTAATCTGGAATTGAATAATAAGACTTGGTGACCTACTTCAAATTCTCGAACTCGA
ATGTGCTTGTCATGCCATCTTTTTAGTCTTTCCTTGAGTAATTTGGCATTCTCGTATGAGAACAT
TCAAAACTCTTCTAACTCATTGATTTGAAGCATCTGTTTCTCTTTAGCAAGCTTAAGATCCAAGT
TTAGATGTTGGAGAGCCTAGTAAACTTTGTCCTCT
Found at i:22331515 original size:11 final size:10
Alignment explanation
Indices: 22331485--22331532 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
22331475 GAATTTGTCG
* *
22331485 AAAATAAATC
1 AAAATTAATA
22331495 AAAATTAATA
1 AAAATTAATA
22331505 AAAATTTAATA
1 AAAA-TTAATA
*
22331516 TAAAATTAATT
1 -AAAATTAATA
22331527 AAAATT
1 AAAATT
22331533 CAACATGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 18 0.55
11 11 0.33
12 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTAATA
Found at i:22334894 original size:47 final size:46
Alignment explanation
Indices: 22334826--22334914 Score: 151
Period size: 47 Copynumber: 1.9 Consensus size: 46
22334816 TTGTAATGGT
*
22334826 ATGTCGTTGGGAGAGCTCAATCACAATATTATAGTGGAATGATTTG
1 ATGTCGTTGGGAGAGCTCAATCACAATACTATAGTGGAATGATTTG
*
22334872 ATGTCGTTGGGGAGAGCTCAATCACAATGCTATAGTGGAATGA
1 ATGTCGTT-GGGAGAGCTCAATCACAATACTATAGTGGAATGA
22334915 CTTGGTGACT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 8 0.20
47 32 0.80
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.29
Consensus pattern (46 bp):
ATGTCGTTGGGAGAGCTCAATCACAATACTATAGTGGAATGATTTG
Found at i:22335354 original size:26 final size:26
Alignment explanation
Indices: 22335308--22335371 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
22335298 ATGAATTTTC
*
22335308 TCAAAATTTTATCAAGGGTAAAATCA
1 TCAAAATTTTACCAAGGGTAAAATCA
* * **
22335334 TCAAAATTTTACCATGTGTAAAATTG
1 TCAAAATTTTACCAAGGGTAAAATCA
*
22335360 TCGAAATTTTAC
1 TCAAAATTTTAC
22335372 TGGGTAACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGTAAAATCA
Found at i:22336421 original size:25 final size:25
Alignment explanation
Indices: 22336377--22336451 Score: 123
Period size: 25 Copynumber: 3.0 Consensus size: 25
22336367 GGACATAAAT
*
22336377 TAATTTTTCCAAAAAAGATTCCATG
1 TAATTTTTCCAAAAAGGATTCCATG
* *
22336402 TAATTTTTCTAGAAAGGATTCCATG
1 TAATTTTTCCAAAAAGGATTCCATG
22336427 TAATTTTTCCAAAAAGGATTCCATG
1 TAATTTTTCCAAAAAGGATTCCATG
22336452 GCAAGGAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (25 bp):
TAATTTTTCCAAAAAGGATTCCATG
Found at i:22340444 original size:24 final size:25
Alignment explanation
Indices: 22340417--22340473 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
22340407 CTCCTCGAAG
* *
22340417 GAGCTTACCG-TTTACAGCTCGTAA
1 GAGCATACCGATTCACAGCTCGTAA
* *
22340441 GAGCATACCGATTCAGAGCTCGTAT
1 GAGCATACCGATTCACAGCTCGTAA
22340466 GAGCATAC
1 GAGCATAC
22340474 ATGTACAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
GAGCATACCGATTCACAGCTCGTAA
Found at i:22345888 original size:26 final size:26
Alignment explanation
Indices: 22345859--22345932 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
22345849 AATTTTCTTG
22345859 AAATTTTA-TCGAGGGTAAAATTGTCA
1 AAATTTTACT-GAGGGTAAAATTGTCA
* *
22345885 AAATTTTACTGTGTGTAAAATTGTCA
1 AAATTTTACTGAGGGTAAAATTGTCA
* *
22345911 AAATTTAACTG-GGGTAACATTG
1 AAATTTTACTGAGGGTAAAATTG
22345933 GGGTGAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.21
26 32 0.76
27 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (26 bp):
AAATTTTACTGAGGGTAAAATTGTCA
Found at i:22345927 original size:25 final size:26
Alignment explanation
Indices: 22345871--22345932 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
22345861 ATTTTATCGA
*
22345871 GGGTAAAATTGTCAAAATTTTACTGT
1 GGGTAAAATTGTCAAAATTTAACTGT
*
22345897 GTGTAAAATTGTCAAAATTTAACTG-
1 GGGTAAAATTGTCAAAATTTAACTGT
*
22345922 GGGTAACATTG
1 GGGTAAAATTG
22345933 GGGTGAGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 9 0.28
26 23 0.72
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.35
Consensus pattern (26 bp):
GGGTAAAATTGTCAAAATTTAACTGT
Found at i:22350239 original size:15 final size:15
Alignment explanation
Indices: 22350219--22350247 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22350209 GTGAAATAAA
22350219 CTGAAATAATAAAAG
1 CTGAAATAATAAAAG
22350234 CTGAAATAATAAAA
1 CTGAAATAATAAAA
22350248 TATTGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (15 bp):
CTGAAATAATAAAAG
Found at i:22351739 original size:22 final size:18
Alignment explanation
Indices: 22351695--22351736 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
22351685 AATTTTAGGT
22351695 CAATTATACATACACCAA
1 CAATTATACATACACCAA
22351713 CAATTATACATACACCAA
1 CAATTATACATACACCAA
22351731 CAATTA
1 CAATTA
22351737 ATTTTAGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (18 bp):
CAATTATACATACACCAA
Found at i:22351763 original size:51 final size:51
Alignment explanation
Indices: 22351669--22351769 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
22351659 CTTGAAGTAC
* * * * *
22351669 ACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAT
1 ACATACACCAACAATTAATTTTAGGTCAAATAAAAATAAACCAACAATTAT
*
22351720 ACATACACCAACAATTAATTTTAGGGT-AAATAAAAATAAACCAAGAATTA
1 ACATACACCAACAATTAATTTTA-GGTCAAATAAAAATAAACCAACAATTA
22351770 ATTTTAGGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 40 0.93
52 3 0.07
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (51 bp):
ACATACACCAACAATTAATTTTAGGTCAAATAAAAATAAACCAACAATTAT
Found at i:22351815 original size:33 final size:33
Alignment explanation
Indices: 22351713--22351822 Score: 159
Period size: 33 Copynumber: 3.3 Consensus size: 33
22351703 CATACACCAA
22351713 CAATTATACATACACCAACAATTAATTTTAGGGT
1 CAATTATACATACACCAACAATTAATTTTA-GGT
* * * * *
22351747 -AAATAAAAATAAACCAAGAATTAATTTTAGGT
1 CAATTATACATACACCAACAATTAATTTTAGGT
22351779 CAATTATACATACACCAACAATTAATTTTAGGT
1 CAATTATACATACACCAACAATTAATTTTAGGT
22351812 CAATTATACAT
1 CAATTATACAT
22351823 GCTTTATAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
32 3 0.05
33 62 0.95
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
CAATTATACATACACCAACAATTAATTTTAGGT
Found at i:22355206 original size:120 final size:120
Alignment explanation
Indices: 22354988--22355834 Score: 1631
Period size: 120 Copynumber: 7.1 Consensus size: 120
22354978 NNNNNNNNNN
22354988 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
1 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
*
22355053 ATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAATAATAA
66 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
22355108 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
1 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
* *
22355173 ATTATAAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAA
66 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
22355228 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
1 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
*
22355293 ATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAATAATAA
66 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
22355348 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
1 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
* *
22355413 ATTATAAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAA
66 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
22355468 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
1 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
*
22355533 ATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAA
66 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
22355588 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
1 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
22355653 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
66 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
22355708 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
1 TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
22355773 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
66 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
22355828 TTATGTT
1 TTATGTT
22355835 TAAATATGAT
Statistics
Matches: 716, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 716 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
TTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
Found at i:22355691 original size:18 final size:17
Alignment explanation
Indices: 22355663--22355697 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22355653 ATTATTAAGA
*
22355663 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22355680 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22355698 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22355811 original size:18 final size:17
Alignment explanation
Indices: 22355783--22355817 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22355773 ATTATTAAGA
*
22355783 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22355800 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22355818 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22356073 original size:45 final size:44
Alignment explanation
Indices: 22355982--22356073 Score: 112
Period size: 45 Copynumber: 2.1 Consensus size: 44
22355972 ACCTCTATTC
* * *
22355982 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
*** *
22356026 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCAATA
22356071 CAT
1 CAT
22356074 CTCTAATCCA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
Found at i:22356077 original size:16 final size:16
Alignment explanation
Indices: 22356053--22356104 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
22356043 GATTTGCTAT
22356053 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
22356069 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
*
22356085 TACACCTCTAATACAA
1 TACACCTCTAATCCAA
22356101 TACA
1 TACA
22356105 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:22368738 original size:27 final size:25
Alignment explanation
Indices: 22368683--22368740 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 25
22368673 TATATATAAT
* *
22368683 ATATATATTTGATTACAAATAAAAT
1 ATATATATTTGATTAAAAATAAAAA
22368708 ATATATATTTGATTAAAAATTTAAAAA
1 ATATATATTTGATTAAAAA--TAAAAA
22368735 ATATAT
1 ATATAT
22368741 TTAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 18 0.62
27 11 0.38
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (25 bp):
ATATATATTTGATTAAAAATAAAAA
Found at i:22368742 original size:25 final size:25
Alignment explanation
Indices: 22368680--22368727 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
22368670 TAATATATAT
*
22368680 AATATATATATTTGATTACAAATAA
1 AATATATATATTTGATTAAAAATAA
22368705 AATATATATATTTGATTAAAAAT
1 AATATATATATTTGATTAAAAAT
22368728 TTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (25 bp):
AATATATATATTTGATTAAAAATAA
Found at i:22378935 original size:41 final size:40
Alignment explanation
Indices: 22378890--22379048 Score: 248
Period size: 41 Copynumber: 3.9 Consensus size: 40
22378880 CTTCTTTTTC
22378890 TTTCTTT-TTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTT
1 TTTCTTTCTTTTT-TCTTCTCCTTTCCTTTTCTTTCC-TCTT
22378931 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTCTTT
1 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTC-TT
*
22378972 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTCCT
1 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTCTT
*
22379012 TTTCTTTCTTTTTTTTCTTCTCATTTCCTTTTCTTTC
1 TTTCTTTC--TTTTTTCTTCTCCTTTCCTTTTCTTTC
22379049 TTTTCCTTCC
Statistics
Matches: 112, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
40 11 0.10
41 70 0.62
42 31 0.28
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (40 bp):
TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTCTT
Found at i:22378954 original size:17 final size:16
Alignment explanation
Indices: 22378884--22379079 Score: 76
Period size: 17 Copynumber: 12.0 Consensus size: 16
22378874 TTCCCTCTTC
22378884 TTTTTCTTT-CTTT-T
1 TTTTTCTTTCCTTTCT
22378898 TTTTCTCTTCTCCTTTC-
1 TTTT-TCTT-TCCTTTCT
*
22378915 CTTTTCTTTCC-TTC-
1 TTTTTCTTTCCTTTCT
22378929 TTTTTCTTT-CTTT-T
1 TTTTTCTTTCCTTTCT
22378943 TTCTTCTCCTTTCCTTTTCT
1 TT-TT-T-CTTTCC-TTTCT
*
22378963 TTCCTCTT-TTTTCTTTCT
1 TT--T-TTCTTTCCTTTCT
22378981 TTTTTCTTCTCCTTTC-
1 TTTTTCTT-TCCTTTCT
*
22378997 CTTTTCTTTCC--TC-
1 TTTTTCTTTCCTTTCT
* * *
22379010 CTTTTCTTTCTTTTTT
1 TTTTTCTTTCCTTTCT
22379026 TTCTTCTCATTTCCTTTTCTT
1 TT-TT-TC-TTTCC-TTTC-T
*
22379047 TCTTTTCCTTCCTTTCT
1 T-TTTTCTTTCCTTTCT
*
22379064 TCCTTTCTTT-CTTTCT
1 T-TTTTCTTTCCTTTCT
22379080 CTCTCCTTCT
Statistics
Matches: 144, Mismatches: 13, Indels: 48
0.70 0.06 0.23
Matches are distributed among these distances:
13 13 0.09
14 19 0.13
15 15 0.10
16 23 0.16
17 28 0.19
18 14 0.10
19 15 0.10
20 8 0.06
21 7 0.05
22 2 0.01
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTCTTTCCTTTCT
Found at i:22378981 original size:51 final size:48
Alignment explanation
Indices: 22378881--22379079 Score: 155
Period size: 46 Copynumber: 4.1 Consensus size: 48
22378871 TCCTTCCCTC
* *
22378881 TTCTTTTTCTTTCTTTTTT-TTCT-CTT-C-TCCTTTCCTTTTCTTTCC
1 TTCTTTTTCTTTCTTTTTTCTTCTCCTTCCTTTCTTTCCTTTT-TTTCT
22378926 TTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTCTTTTTTCT
1 TTCTTTTTCTTTCTTTTTTCTTCTCC-TTCC-TTTCTTTCCT-TTTTTTCT
*
22378977 TTCTTTTTTCTTCTCCTTTCCTTTTCTT-TCC-TCCTTTTCTTTCTTTTTTTTC-
1 TTC-TTTTTCTT-T-C-TT--TTTTCTTCTCCTTCC-TTTCTTTCCTTTTTTTCT
* * * * *
22379029 TTCTCATTTCCTT-TTCTTTCTTTTCCTTCCTTTC-TTCCTTTCTTTCT
1 TTCT-TTTTCTTTCTTTTTTCTTCTCCTTCCTTTCTTTCCTTTTTTTCT
22379076 TTCT
1 TTCT
22379080 CTCTCCTTCT
Statistics
Matches: 129, Mismatches: 8, Indels: 32
0.76 0.05 0.19
Matches are distributed among these distances:
45 19 0.15
46 20 0.16
47 12 0.09
48 7 0.05
49 1 0.01
51 17 0.13
52 19 0.15
53 8 0.06
54 14 0.11
55 2 0.02
56 3 0.02
57 7 0.05
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (48 bp):
TTCTTTTTCTTTCTTTTTTCTTCTCCTTCCTTTCTTTCCTTTTTTTCT
Found at i:22378993 original size:82 final size:82
Alignment explanation
Indices: 22378890--22379048 Score: 259
Period size: 83 Copynumber: 1.9 Consensus size: 82
22378880 CTTCTTTTTC
* *
22378890 TTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTC-TTTTTTCTTCTCCTT
1 TTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCC-TCCTTTTCTTTCTTTTTTTCTTCTCATT
22378954 TCCTTTTCTTTCCTCTTT
65 TCCTTTTCTTTCCTCTTT
22378972 TTTCTTTCTTTTT-TCTTCTCCTTTCCTTTTCTTTCCTCCTTTTCTTTCTTTTTTTTCTTCTCAT
1 TTTCTTT-TTTTTCTCTTCTCCTTTCCTTTTCTTTCCTCCTTTTCTTTC-TTTTTTTCTTCTCAT
22379036 TTCCTTTTCTTTC
64 TTCCTTTTCTTTC
22379049 TTTTCCTTCC
Statistics
Matches: 72, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
81 11 0.15
82 30 0.42
83 31 0.43
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (82 bp):
TTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTCCTTTTCTTTCTTTTTTTCTTCTCATTT
CCTTTTCTTTCCTCTTT
Found at i:22379089 original size:26 final size:27
Alignment explanation
Indices: 22378911--22379077 Score: 91
Period size: 29 Copynumber: 6.1 Consensus size: 27
22378901 TCTCTTCTCC
* *
22378911 TTTCCTTTTCTTTCCTTCTTTTTCTTTCT
1 TTTCC-TTCCTTT-CTTCCTTTTCTTTCT
22378940 TTT--TT-CTTCTCCTTTCCTTTTCTTTCCT
1 TTTCCTTCCTT-T-C-TTCCTTTTCTTT-CT
* *
22378968 CTTT--TTTCTTTCTT--TTTTCTTCTCC
1 -TTTCCTTCCTTTCTTCCTTTTCTT-TCT
* *
22378993 TTTCCTTTTCTTTCCTCCTTTTCTTTCT
1 TTTCC-TTCCTTTCTTCCTTTTCTTTCT
* *
22379021 TTT-TTTTCTTCTCATTTCCTTTTCTTTCT
1 TTTCCTTCCTT-TC--TTCCTTTTCTTTCT
22379050 TTTCCTTCCTTTCTTCC-TTTCTTTCT
1 TTTCCTTCCTTTCTTCCTTTTCTTTCT
22379076 TT
1 TT
22379078 CTCTCTCCTT
Statistics
Matches: 115, Mismatches: 8, Indels: 33
0.74 0.05 0.21
Matches are distributed among these distances:
24 3 0.03
25 11 0.10
26 23 0.20
27 28 0.24
28 8 0.07
29 34 0.30
30 8 0.07
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTCCTTCCTTTCTTCCTTTTCTTTCT
Found at i:22379166 original size:27 final size:27
Alignment explanation
Indices: 22379124--22379194 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
22379114 TATAACACTA
22379124 GTGCCGCCAATGACTTTGGCACCATCG
1 GTGCCGCCAATGACTTTGGCACCATCG
* * *
22379151 GTGCCGCCAATCACTTTGGCACCTTTG
1 GTGCCGCCAATGACTTTGGCACCATCG
22379178 GTGCCGCCAATGACTTT
1 GTGCCGCCAATGACTTT
22379195 CCCTCCACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.17, C:0.32, G:0.24, T:0.27
Consensus pattern (27 bp):
GTGCCGCCAATGACTTTGGCACCATCG
Found at i:22380818 original size:30 final size:28
Alignment explanation
Indices: 22380737--22380820 Score: 86
Period size: 30 Copynumber: 3.0 Consensus size: 28
22380727 CATTTTACAT
22380737 TCAATATTTATATATTTTATTAATTTAA-TC
1 TCAATATTTATATATTTTA--AA-TTAATTC
*
22380767 TCAAT-TTTA-ATA-ATTAAATTAATTC
1 TCAATATTTATATATTTTAAATTAATTC
22380792 TCAATATTTATATATTTGTCAAATTAATT
1 TCAATATTTATATATTT-T-AAATTAATT
22380821 TTAATTTTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
24 4 0.09
25 9 0.20
26 4 0.09
27 6 0.13
28 4 0.09
29 5 0.11
30 14 0.30
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.52
Consensus pattern (28 bp):
TCAATATTTATATATTTTAAATTAATTC
Found at i:22380889 original size:7 final size:7
Alignment explanation
Indices: 22380877--22380907 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
22380867 TTAAATCTAA
22380877 AAAAATT
1 AAAAATT
22380884 AAAAATT
1 AAAAATT
22380891 AAAAATT
1 AAAAATT
22380898 AAAAA-T
1 AAAAATT
22380904 AAAA
1 AAAA
22380908 TAATTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:22380894 original size:15 final size:14
Alignment explanation
Indices: 22380876--22380912 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
22380866 TTTAAATCTA
22380876 AAAAAATTAAAAAT
1 AAAAAATTAAAAAT
*
22380890 TAAAAATTAAAAAT
1 AAAAAATTAAAAAT
22380904 AAAATAATT
1 AAAA-AATT
22380913 TGAACTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAAATTAAAAAT
Found at i:22383559 original size:31 final size:30
Alignment explanation
Indices: 22383497--22383560 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
22383487 ACTATATAAA
* *
22383497 AAATTCAATAAATAAAAATTATTAAATATT
1 AAATTAAATAAATAAAAATTATTAAAAATT
*
22383527 AAATTAAATAATATAAATATT-TTAAAAAATT
1 AAATTAAATAA-ATAAAAATTATT-AAAAATT
22383558 AAA
1 AAA
22383561 AAAAATGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 12 0.41
31 17 0.59
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATTAAATAAATAAAAATTATTAAAAATT
Found at i:22394298 original size:9 final size:9
Alignment explanation
Indices: 22394284--22394308 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22394274 AAAATATTTA
22394284 TTTTAATAT
1 TTTTAATAT
22394293 TTTTAATAT
1 TTTTAATAT
22394302 TTTTAAT
1 TTTTAAT
22394309 GTATTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTAATAT
Found at i:22394346 original size:51 final size:49
Alignment explanation
Indices: 22394247--22394350 Score: 111
Period size: 51 Copynumber: 2.1 Consensus size: 49
22394237 TTAAGTATGC
* * * * *
22394247 ATATTTTTAATTTTTTAAATATTTTGGAAAATATTTATTTTAATATTTTTA
1 ATATTTTTAATTTTATAAATATTTT-GAAAAAATTTA-TATAAAAATTTTA
*
22394298 ATATTTTTAATGTATTATATATATTTT-AAAAAATTTATATAAAAATTTTA
1 ATATTTTTAAT-T-TTATAAATATTTTGAAAAAATTTATATAAAAATTTTA
22394348 ATA
1 ATA
22394351 CGGGCAGCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
50 13 0.29
51 20 0.44
52 1 0.02
53 11 0.24
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (49 bp):
ATATTTTTAATTTTATAAATATTTTGAAAAAATTTATATAAAAATTTTA
Found at i:22400244 original size:41 final size:41
Alignment explanation
Indices: 22400199--22400347 Score: 102
Period size: 41 Copynumber: 3.3 Consensus size: 41
22400189 CTATATTTAA
22400199 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
1 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
* * ** *
22400240 ATTTTTTTAATATTATACATATATATATTCATTTACGTATGTAAGCTATATTTA-A
1 ATTTTATTAATA--ATA-A-AT-T-TA-T-A---ACTTAAATAAG---TA-TTACT
22400295 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
1 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
*
22400336 ATTTTTTTAATA
1 ATTTTATTAATA
22400348 TTATACATAT
Statistics
Matches: 81, Mismatches: 11, Indels: 32
0.65 0.09 0.26
Matches are distributed among these distances:
40 3 0.04
41 24 0.30
43 3 0.04
44 9 0.11
45 2 0.02
46 1 0.01
47 3 0.04
48 2 0.02
49 3 0.04
50 1 0.01
51 2 0.02
52 9 0.11
53 3 0.04
55 13 0.16
56 3 0.04
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (41 bp):
ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
Found at i:22400305 original size:55 final size:55
Alignment explanation
Indices: 22400240--22400402 Score: 158
Period size: 55 Copynumber: 3.2 Consensus size: 55
22400230 AAGTATTACT
*
22400240 ATTTTTTTAATATTATACATATATATATTCATTTACGTATGTAAGCTATATTTAA
1 ATTTTATTAATATTATACATATATATATTCATTTACGTATGTAAGCTATATTTAA
* ** *
22400295 ATTTTATTAATA--ATA-A-AT-T-TA-T-A---ACTTAAATAAG---TATT-ACT
1 ATTTTATTAATATTATACATATATATATTCATTTACGTATGTAAGCTATATTTA-A
*
22400336 ATTTTTTTAATATTATACATATATATATTCATTTACGTATGTAAGCTATATTTAA
1 ATTTTATTAATATTATACATATATATATTCATTTACGTATGTAAGCTATATTTAA
22400391 ATTTTATTAATA
1 ATTTTATTAATA
22400403 ATAAATTTAT
Statistics
Matches: 81, Mismatches: 11, Indels: 32
0.65 0.09 0.26
Matches are distributed among these distances:
40 1 0.01
41 15 0.19
43 3 0.04
44 9 0.11
45 2 0.02
46 1 0.01
47 3 0.04
48 2 0.02
49 3 0.04
50 1 0.01
51 2 0.02
52 9 0.11
53 3 0.04
55 26 0.32
56 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.50
Consensus pattern (55 bp):
ATTTTATTAATATTATACATATATATATTCATTTACGTATGTAAGCTATATTTAA
Found at i:22400318 original size:96 final size:96
Alignment explanation
Indices: 22400115--22400454 Score: 616
Period size: 96 Copynumber: 3.6 Consensus size: 96
22400105 CCTCTCCACG
22400115 AATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATAC----ATATATTCAT
1 AATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATATATTCAT
22400176 TTACGTATGTAAGCTATATTTAAATTTTATT
66 TTACGTATGTAAGCTATATTTAAATTTTATT
22400207 AATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATATATTCAT
1 AATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATATATTCAT
22400272 TTACGTATGTAAGCTATATTTAAATTTTATT
66 TTACGTATGTAAGCTATATTTAAATTTTATT
22400303 AATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATATATTCAT
1 AATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATATATTCAT
22400368 TTACGTATGTAAGCTATATTTAAATTTTATT
66 TTACGTATGTAAGCTATATTTAAATTTTATT
* * **
22400399 AATAATAAATTTATTACTTAAATATGTATTACTATTTTTTTAATGCTATACATATA
1 AATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATA
22400455 AATTTTATTA
Statistics
Matches: 240, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
92 51 0.21
96 189 0.79
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (96 bp):
AATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATATATTCAT
TTACGTATGTAAGCTATATTTAAATTTTATT
Found at i:22400516 original size:9 final size:9
Alignment explanation
Indices: 22400504--22400891 Score: 114
Period size: 9 Copynumber: 44.0 Consensus size: 9
22400494 TAATACAAAG
22400504 CTTACATAA
1 CTTACATAA
*
22400513 CTTACATAC
1 CTTACATAA
*
22400522 CCTACATAA
1 CTTACATAA
* *
22400531 ATTAAATAA
1 CTTACATAA
*
22400540 GTTACATAA
1 CTTACATAA
*
22400549 -TAATACATAC
1 CT--TACATAA
*
22400559 CCTACATAA
1 CTTACATAA
* *
22400568 ATTAAATAA
1 CTTACATAA
*
22400577 GTTACATAA
1 CTTACATAA
*
22400586 -TAATACATAC
1 CT--TACATAA
*
22400596 CCTACATAA
1 CTTACATAA
* *
22400605 ATTAAATAA
1 CTTACATAA
*
22400614 GTTACATAA
1 CTTACATAA
* *
22400623 -TAATGCATAC
1 CT--TACATAA
*
22400633 CCTACATAA
1 CTTACATAA
*
22400642 CTTAAATAA
1 CTTACATAA
*
22400651 GTTACATAA
1 CTTACATAA
*
22400660 -TAATACATAC
1 CT--TACATAA
*
22400670 CCTACATAA
1 CTTACATAA
* *
22400679 ATTAAATAA
1 CTTACATAA
*
22400688 GTTACATAA
1 CTTACATAA
*
22400697 -TAATACATAC
1 CT--TACATAA
*
22400707 CCTACATAA
1 CTTACATAA
22400716 CTTACATAA
1 CTTACATAA
*
22400725 --GACATAA
1 CTTACATAA
*
22400732 CTTTCATAA
1 CTTACATAA
*
22400741 --TACACAA
1 CTTACATAA
**
22400748 CTTACGCAA
1 CTTACATAA
22400757 CTTACAT-A
1 CTTACATAA
**
22400765 -GGACATAA
1 CTTACATAA
22400773 CTTACAT--
1 CTTACATAA
* *
22400780 GTGTAAATAA
1 CT-TACATAA
*
22400790 --TACATAT
1 CTTACATAA
*
22400797 TTTACATAA
1 CTTACATAA
22400806 CTTACATAA
1 CTTACATAA
* *
22400815 --GATATAA
1 CTTACATAA
22400822 CTTACATAA
1 CTTACATAA
* *
22400831 GTTTCATAA
1 CTTACATAA
* *
22400840 --TACACAT
1 CTTACATAA
*
22400847 CTTACGCT-A
1 CTTAC-ATAA
*
22400856 CTTACACAA
1 CTTACATAA
22400865 CTTACATAA
1 CTTACATAA
22400874 CTTACATAA
1 CTTACATAA
22400883 CTTACATAA
1 CTTACATAA
22400892 TGTATATCTT
Statistics
Matches: 269, Mismatches: 78, Indels: 64
0.65 0.19 0.16
Matches are distributed among these distances:
7 30 0.11
8 11 0.04
9 199 0.74
10 29 0.11
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (9 bp):
CTTACATAA
Found at i:22400559 original size:37 final size:37
Alignment explanation
Indices: 22400515--22400725 Score: 386
Period size: 37 Copynumber: 5.7 Consensus size: 37
22400505 TTACATAACT
22400515 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
22400552 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
22400589 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
* *
22400626 TGCATACCCTACATAACTTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
22400663 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
* *
22400700 TACATACCCTACATAACTTACATAAG
1 TACATACCCTACATAAATTAAATAAG
22400726 ACATAACTTT
Statistics
Matches: 168, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 168 1.00
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.29
Consensus pattern (37 bp):
TACATACCCTACATAAATTAAATAAGTTACATAATAA
Found at i:22400729 original size:16 final size:16
Alignment explanation
Indices: 22400710--22400831 Score: 64
Period size: 16 Copynumber: 8.0 Consensus size: 16
22400700 TACATACCCT
22400710 ACATAACTTACATAAG
1 ACATAACTTACATAAG
* *
22400726 ACATAACTTTCATAAT
1 ACATAACTTACATAAG
*
22400742 ACACAACTTAC----G
1 ACATAACTTACATAAG
*
22400754 -C--AACTTACATAGG
1 ACATAACTTACATAAG
**
22400767 ACATAACTTACATGTG
1 ACATAACTTACATAAG
* **
22400783 TAAATAA--TACATATTTT
1 -ACATAACTTACATA--AG
22400800 ACATAACTTACATAAG
1 ACATAACTTACATAAG
*
22400816 ATATAACTTACATAAG
1 ACATAACTTACATAAG
22400832 TTTCATAATA
Statistics
Matches: 80, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
9 7 0.09
11 1 0.01
13 1 0.01
14 1 0.01
15 5 0.06
16 53 0.66
17 6 0.08
18 6 0.08
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (16 bp):
ACATAACTTACATAAG
Found at i:22400850 original size:25 final size:25
Alignment explanation
Indices: 22400726--22400901 Score: 97
Period size: 25 Copynumber: 7.0 Consensus size: 25
22400716 CTTACATAAG
* * *
22400726 ACATAACTTTCATAATACACAACTT
1 ACATAACTTACATAATACATATCTT
** ** *
22400751 ACGCAACTTACATAGGACATAACTT
1 ACATAACTTACATAATACATATCTT
* * *
22400776 ACAT--GTGTAAATAATACATATTTT
1 ACATAACT-TACATAATACATATCTT
* * *
22400800 ACATAACTTACATAAGATATAACTT
1 ACATAACTTACATAATACATATCTT
* * *
22400825 ACATAAGTTTCATAATACACATCTT
1 ACATAACTTACATAATACATATCTT
* * *
22400850 ACGCT-ACTTACACAACTTACATAACTT
1 AC-ATAACTTACATAA--TACATATCTT
**
22400877 ACATAACTTACATAATGTATATCTT
1 ACATAACTTACATAATACATATCTT
22400902 GTTGTCAAAT
Statistics
Matches: 107, Mismatches: 37, Indels: 14
0.68 0.23 0.09
Matches are distributed among these distances:
23 1 0.01
24 16 0.15
25 68 0.64
26 3 0.03
27 19 0.18
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (25 bp):
ACATAACTTACATAATACATATCTT
Found at i:22406371 original size:21 final size:21
Alignment explanation
Indices: 22406346--22406414 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
22406336 CAGCAACTTA
* *
22406346 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
* **
22406367 AAGCAGAAGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
*
22406388 AAGCAGAGGCCGCAACGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
22406409 AAGCAG
1 AAGCAG
22406415 CGAGAGAAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.38, C:0.20, G:0.41, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:22406420 original size:12 final size:12
Alignment explanation
Indices: 22406403--22406438 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
22406393 GAGGCCGCAA
22406403 CGAGAGAAGCAG
1 CGAGAGAAGCAG
22406415 CGAGAGAAGCAG
1 CGAGAGAAGCAG
* *
22406427 CAATAGAAGCAG
1 CGAGAGAAGCAG
22406439 AGATTCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.17, G:0.36, T:0.03
Consensus pattern (12 bp):
CGAGAGAAGCAG
Found at i:22406872 original size:42 final size:42
Alignment explanation
Indices: 22406811--22407124 Score: 352
Period size: 42 Copynumber: 7.4 Consensus size: 42
22406801 GCGTTTGTGA
* *
22406811 AATAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTG
1 AATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTT
* * *
22406853 AATAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTT
1 AATAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TT
*
22406896 CCA-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 -AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
**
22406938 TCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
** *
22406980 TCTAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTGTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTT
* *
22407023 -CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTGTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTT
* *
22407065 -CTAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT
* *
22407107 ATGTAAGCGCCGCAAAAG
1 A-ATAAGCGCCGCTAAAG
22407125 TTAGCGACGT
Statistics
Matches: 245, Mismatches: 18, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
41 1 0.00
42 190 0.78
43 39 0.16
44 15 0.06
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (42 bp):
AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
Found at i:22407024 original size:84 final size:83
Alignment explanation
Indices: 22406813--22407105 Score: 394
Period size: 84 Copynumber: 3.5 Consensus size: 83
22406803 GTTTGTGAAA
* ** * *
22406813 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTGAATAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCTAAGCGCCGCTAAAGAACATG
* *
22406876 A-CTTTTAGAGGCGTTTTCTTCC
63 ATC-TTTAGCGGCGTTTT-TTTC
*
22406898 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCTAAGCGCCGCTAAAGAACATGAT
22406963 CTTTAGCGGCGTTTTTTTC
65 CTTTAGCGGCGTTTTTTTC
*
22406982 TAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTGTTTCTAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCTAAGCGCCGCTAAAGAACATGAT
* *
22407047 CTTTAGCGGTGTTTGTTTC
65 CTTTAGCGGCGTTTTTTTC
*
22407066 TAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
22407106 TATGTAAGCG
Statistics
Matches: 189, Mismatches: 14, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
83 6 0.03
84 115 0.61
85 61 0.32
86 7 0.04
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (83 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTTTTTC
Found at i:22407085 original size:126 final size:127
Alignment explanation
Indices: 22406813--22407124 Score: 418
Period size: 126 Copynumber: 2.4 Consensus size: 127
22406803 GTTTGTGAAA
* ** * *
22406813 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTGAATAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATG
* *
22406876 ACTTTTAGAGGCGTTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
64 ACTTTTAGAGACGTTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTTTC
*
22406940 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGA-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGAC
* * *
22407004 TCTTTAGCGACGTTTGT-TT-CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTGTTTC
66 T-TTTAGAGACGTTT-TCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTTTC
* *
22407066 TAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATGTAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTA--TAAGCGCCGCTAAAG
22407125 TTAGCGACGT
Statistics
Matches: 165, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
126 82 0.50
127 67 0.41
128 16 0.10
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (127 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGAC
TTTTAGAGACGTTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTTTC
Found at i:22407227 original size:22 final size:22
Alignment explanation
Indices: 22407196--22407238 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22407186 TAGTGGCGTT
* *
22407196 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAAACCTA
22407218 AAAAAACGCCGCTAAAAACCT
1 AAAAAACGCCGCTAAAAACCT
22407239 GTTCTGCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:22407452 original size:18 final size:18
Alignment explanation
Indices: 22407396--22407452 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
22407386 TGGCACCTCG
* *
22407396 GTTTTTACATATATCTCT
1 GTTTATACATATATCTGT
* *
22407414 GTGTATAGATATATCCATGT
1 GTTTATACATATAT-C-TGT
*
22407434 GTTTCTACATATATCTGT
1 GTTTATACATATATCTGT
22407452 G
1 G
22407453 CAATTATGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 15 0.50
19 2 0.07
20 13 0.43
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (18 bp):
GTTTATACATATATCTGT
Found at i:22424720 original size:85 final size:85
Alignment explanation
Indices: 22424577--22424746 Score: 259
Period size: 85 Copynumber: 2.0 Consensus size: 85
22424567 TTAGAGTAGA
* * * *
22424577 GGTTTAGGCTATTTCTAAATTCCTAAATAACGTAATGAATCATGTCTACAAGCAGCGATTCCAAG
1 GGTTTAGGCTATTTCTAAATTCCCAAATAACGCAATGAATCATGTCTACAAGCAGCGATTACAAA
*
22424642 CAGTCACCAATTACTTTCGC
66 CACTCACCAATTACTTTCGC
* * *
22424662 GGTTTAGGCTATTTTTAAATTCCCAAATAACGCATTGAATCGTGTCTACAAGCAGCGATTACAAA
1 GGTTTAGGCTATTTCTAAATTCCCAAATAACGCAATGAATCATGTCTACAAGCAGCGATTACAAA
*
22424727 CACTCGCCAATTACTTTCGC
66 CACTCACCAATTACTTTCGC
22424747 CTAGACGCCG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (85 bp):
GGTTTAGGCTATTTCTAAATTCCCAAATAACGCAATGAATCATGTCTACAAGCAGCGATTACAAA
CACTCACCAATTACTTTCGC
Found at i:22427084 original size:12 final size:12
Alignment explanation
Indices: 22427067--22427096 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22427057 TCGAAACCTG
*
22427067 AGATTTGCCTCT
1 AGATTTACCTCT
22427079 AGATTTACCTCT
1 AGATTTACCTCT
22427091 AGATTT
1 AGATTT
22427097 TGGGGTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.43
Consensus pattern (12 bp):
AGATTTACCTCT
Found at i:22429495 original size:16 final size:16
Alignment explanation
Indices: 22429470--22429500 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22429460 TTTAAGTGAA
22429470 TTGAAATACTATATGT
1 TTGAAATACTATATGT
*
22429486 TTGAATTACTATATG
1 TTGAAATACTATATG
22429501 ATATGGTTAT
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:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (16 bp):
TTGAAATACTATATGT
Found at i:22432679 original size:25 final size:25
Alignment explanation
Indices: 22432651--22432698 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
22432641 TTTAATGTTC
*
22432651 AATTTGATA-TATGTGTTTTTTTTCT
1 AATTTGATACT-TGAGTTTTTTTTCT
*
22432676 AATTTGGTACTTGAGTTTTTTTT
1 AATTTGATACTTGAGTTTTTTTT
22432699 TCTCAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.19, C:0.04, G:0.15, T:0.62
Consensus pattern (25 bp):
AATTTGATACTTGAGTTTTTTTTCT
Found at i:22437175 original size:63 final size:63
Alignment explanation
Indices: 22437076--22437204 Score: 224
Period size: 63 Copynumber: 2.0 Consensus size: 63
22437066 CAACCTGATT
*
22437076 TATAACTTAAATTTTGTAATTCAAACTCTATTAAGATGCGCCTCATT-CTCGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGCGCCTCATTCCT-GATGTGATAAGAA
*
22437139 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGTGCCTCATTCCTGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGCGCCTCATTCCTGATGTGATAAGAA
22437202 TAT
1 TAT
22437205 CTCTTTGTGA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 61 0.97
64 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (63 bp):
TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGCGCCTCATTCCTGATGTGATAAGAA
Found at i:22438825 original size:2 final size:2
Alignment explanation
Indices: 22438818--22438846 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22438808 ATCCCATTAT
22438818 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22438847 GTTCTAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22441205 original size:16 final size:17
Alignment explanation
Indices: 22441173--22441206 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22441163 TAATAGTGGT
*
22441173 TTGAAATGTTAACTTAA
1 TTGAAATATTAACTTAA
22441190 TTGAAATATT-ACTTAA
1 TTGAAATATTAACTTAA
22441206 T
1 T
22441207 GACTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (17 bp):
TTGAAATATTAACTTAA
Found at i:22444170 original size:24 final size:24
Alignment explanation
Indices: 22444123--22444170 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
22444113 CATATTTAAA
** *
22444123 TTATAAATAAAATATTAATTAACC
1 TTATAAATAAAATAACAATCAACC
*
22444147 TTATAAATAAAATAACACTCAACC
1 TTATAAATAAAATAACAATCAACC
22444171 AGGCTTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (24 bp):
TTATAAATAAAATAACAATCAACC
Found at i:22446862 original size:14 final size:14
Alignment explanation
Indices: 22446843--22446869 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22446833 TGGAAGATGG
22446843 TAATATATAAAATT
1 TAATATATAAAATT
22446857 TAATATATAAAAT
1 TAATATATAAAAT
22446870 AAGCTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATATATAAAATT
Found at i:22447328 original size:20 final size:20
Alignment explanation
Indices: 22447291--22447346 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
22447281 ATTATAATGC
22447291 TGTTGTTTACTT-CGACTCA
1 TGTTGTTTACTTGCGACTCA
22447310 TGTTGTTTACTTGCGACTCA
1 TGTTGTTTACTTGCGACTCA
22447330 TGTTGTTTACTTG-GACT
1 TGTTGTTTACTTGCGACT
22447347 TTTACTTATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.48
Consensus pattern (20 bp):
TGTTGTTTACTTGCGACTCA
Found at i:22448880 original size:36 final size:36
Alignment explanation
Indices: 22448840--22448922 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 36
22448830 AATCCCTCCA
* * *
22448840 AAACACACCAAGTACTCACAAGAGCTAGTCCAACCG
1 AAACACACCAAATACTCAAAAGAGCTAATCCAACCG
** *
22448876 AAACA-TGCAAATGCTCAAAAGAGCTAATCCAACCG
1 AAACACACCAAATACTCAAAAGAGCTAATCCAACCG
*
22448911 AAACACGCCAAA
1 AAACACACCAAA
22448923 CAGAAAGTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
35 29 0.76
36 9 0.24
ACGTcount: A:0.46, C:0.30, G:0.13, T:0.11
Consensus pattern (36 bp):
AAACACACCAAATACTCAAAAGAGCTAATCCAACCG
Found at i:22457287 original size:20 final size:19
Alignment explanation
Indices: 22457264--22457368 Score: 84
Period size: 20 Copynumber: 5.3 Consensus size: 19
22457254 TAAGTGCGTT
22457264 CAGGGGTACTGAAGTACAAA
1 CAGGGGTAC-GAAGTACAAA
* * ** *
22457284 CAGGGGCACGTATGTGTAAT
1 CAGGGGTACG-AAGTACAAA
22457304 CAGGGGTACGAAGTACAAA
1 CAGGGGTACGAAGTACAAA
* * * *
22457323 CAGGGGCACGTATGTGCAAT
1 CAGGGGTACG-AAGTACAAA
22457343 CAGGGGTACCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
*
22457363 TAGGGG
1 CAGGGG
22457369 CATGTATGTG
Statistics
Matches: 63, Mismatches: 19, Indels: 6
0.72 0.22 0.07
Matches are distributed among these distances:
19 15 0.24
20 46 0.73
21 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.34, T:0.16
Consensus pattern (19 bp):
CAGGGGTACGAAGTACAAA
Found at i:22457376 original size:79 final size:81
Alignment explanation
Indices: 22457244--22457423 Score: 247
Period size: 79 Copynumber: 2.2 Consensus size: 81
22457234 AGAGTATAAT
* * ** * * *
22457244 CAGGGGCACTTAAGTGCGTTCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGTAA-TCAGG
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAG
22457308 GGTAC-GAAGTACAAA
66 GGTACTGAAGTACAAA
* *
22457323 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAATAGGGGCATGTATGTGCAATTCAAG
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAG
22457388 GGTACTGAAGTACAAA
66 GGTACTGAAGTACAAA
* *
22457404 TAGGGACACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
22457424 TCATGCAATA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 51 0.58
80 9 0.10
81 28 0.32
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (81 bp):
CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAG
GGTACTGAAGTACAAA
Found at i:22457403 original size:41 final size:41
Alignment explanation
Indices: 22457244--22457426 Score: 248
Period size: 40 Copynumber: 4.6 Consensus size: 41
22457234 AGAGTATAAT
* * *
22457244 CAGGGGCACTTAAGTGC-GTTCAGGGGTACTGAAGTACAAA
1 CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
*
22457284 CAGGGGCACGTATGTGTAA-TCAGGGGTAC-GAAGTACAAA
1 CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
*
22457323 CAGGGGCACGTATGTGCAA-TCAGGGGTACCGAAGTACAAA
1 CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
* * *
22457363 TAGGGGCATGTATGTGCAATTCAAGGGTACTGAAGTACAAA
1 CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
* *
22457404 TAGGGACACGTATGTGCAATTCA
1 CAGGGGCACGTATGTGCAATTCA
22457427 TGCAATAATT
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 38 0.29
40 51 0.40
41 40 0.31
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.20
Consensus pattern (41 bp):
CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
Found at i:22457522 original size:22 final size:22
Alignment explanation
Indices: 22457494--22457538 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22457484 GAAATTCATT
22457494 TACATATTGAAATACTATGAAC
1 TACATATTGAAATACTATGAAC
22457516 TACATATTGAAATACTATGAAC
1 TACATATTGAAATACTATGAAC
22457538 T
1 T
22457539 TACTTGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.33
Consensus pattern (22 bp):
TACATATTGAAATACTATGAAC
Found at i:22460311 original size:34 final size:33
Alignment explanation
Indices: 22460195--22460306 Score: 107
Period size: 34 Copynumber: 3.3 Consensus size: 33
22460185 TTCTAATCTT
* * * *
22460195 ATATGAAATTCTAATCTGACATATGCTTCTAGAA
1 ATATGAAATTCTAATCTGATATATG-TTTTTGGA
* * *
22460229 ATATGACATTCTAATCCGATATAAGTTTTTGGA
1 ATATGAAATTCTAATCTGATATATGTTTTTGGA
* * *
22460262 ATTATGACATTTTGATCTGATATATGTTTTTGGTA
1 A-TATGAAATTCTAATCTGATATATGTTTTTGG-A
22460297 ATATGAAATT
1 ATATGAAATT
22460307 TTGATATTAT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
33 6 0.09
34 56 0.88
35 2 0.03
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (33 bp):
ATATGAAATTCTAATCTGATATATGTTTTTGGA
Found at i:22463267 original size:12 final size:12
Alignment explanation
Indices: 22463247--22463282 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
22463237 TAAACTATGC
*
22463247 CCAACATCATTT
1 CCAAGATCATTT
22463259 CCAAGATCATTT
1 CCAAGATCATTT
22463271 CCAAGATCATTT
1 CCAAGATCATTT
22463283 ATCATTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (12 bp):
CCAAGATCATTT
Found at i:22466617 original size:12 final size:12
Alignment explanation
Indices: 22466600--22466633 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22466590 CGGCCCGCCC
22466600 ATATTAATTTTT
1 ATATTAATTTTT
*
22466612 ATATTATTTTTT
1 ATATTAATTTTT
22466624 ATA-TAATTTT
1 ATATTAATTTT
22466634 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:22466787 original size:30 final size:30
Alignment explanation
Indices: 22466753--22466821 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
22466743 GATGCAACTT
*
22466753 AATTAACAAATATCTTTAAAATAATAACAA
1 AATTAACAAATATATTTAAAATAATAACAA
22466783 AATTAACAAATATATTTAAAATAATAACAA
1 AATTAACAAATATATTTAAAATAATAACAA
22466813 AATTAACAA
1 AATTAACAA
22466822 TAAAATAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (30 bp):
AATTAACAAATATATTTAAAATAATAACAA
Found at i:22470295 original size:3 final size:3
Alignment explanation
Indices: 22470287--22470314 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22470277 TTGCTGGTAC
22470287 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
22470315 AACTACTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:22470420 original size:4 final size:4
Alignment explanation
Indices: 22470411--22470436 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
22470401 ATTTGTGCCG
22470411 ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT
22470437 GGCATCATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:22474779 original size:33 final size:33
Alignment explanation
Indices: 22474737--22474804 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
22474727 CAGCGGAAGT
22474737 TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
1 TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
22474770 TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
1 TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
22474803 TA
1 TA
22474805 ACATTAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.12, G:0.26, T:0.13
Consensus pattern (33 bp):
TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
Found at i:22481168 original size:35 final size:30
Alignment explanation
Indices: 22481129--22481202 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 30
22481119 TAATTTTAAT
22481129 AATTAAATTTACATTATTAAATCAAAAAATAGAAA-
1 AATTAAATTTAC-TTA--AAAT--AAAAATA-AAAG
22481164 AATTAAA-TTACTTAAAATAAAAATAAAAG
1 AATTAAATTTACTTAAAATAAAAATAAAAG
22481193 AATTAAATTT
1 AATTAAATTT
22481203 CAAATATACA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
28 3 0.08
29 14 0.38
30 2 0.05
31 4 0.11
33 3 0.08
34 4 0.11
35 7 0.19
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (30 bp):
AATTAAATTTACTTAAAATAAAAATAAAAG
Found at i:22481215 original size:29 final size:28
Alignment explanation
Indices: 22481153--22481223 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
22481143 TATTAAATCA
*
22481153 AAAAATAGAAAAATTAAATTACTTAAAAT
1 AAAAATAGAAAAATTAAATTA-TCAAAAT
22481182 AAAAATA-AAAGAATTAAATT-TCAAATAT
1 AAAAATAGAAA-AATTAAATTATCAAA-AT
22481210 ACAAAA-AGTAAAAA
1 A-AAAATAG-AAAAA
22481224 AGCGTATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
27 4 0.11
28 7 0.19
29 22 0.61
30 3 0.08
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.24
Consensus pattern (28 bp):
AAAAATAGAAAAATTAAATTATCAAAAT
Found at i:22482218 original size:123 final size:122
Alignment explanation
Indices: 22481998--22482250 Score: 389
Period size: 123 Copynumber: 2.1 Consensus size: 122
22481988 AAATAGTGGG
** * * *
22481998 AAATCGCTTCTACCAGAATGCTATTTGAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGAATGCTATATGAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
22482063 TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTGACGTTTTCTGAGCAAATAGTATA
66 TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTGACG-TTTCTGAGCAAATAGTATA
* *
22482121 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGAATGCTATATGAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
* * * *
22482186 TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTGACGTTTCTGAGTAAATAGTGTC
66 TCGCTACAG-TGGTCATGTAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATA
22482244 AAATCGC
1 AAATCGC
22482251 GCCATCGTGG
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
123 90 0.76
124 28 0.24
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (122 bp):
AAATCGCTGATACCAGAATGCTATATGAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:22484410 original size:14 final size:15
Alignment explanation
Indices: 22484393--22484426 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22484383 AATAAATATC
22484393 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
22484407 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
22484422 TAAAA
1 TAAAA
22484427 TTTAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:22484557 original size:28 final size:29
Alignment explanation
Indices: 22484525--22484580 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
22484515 TGAAAATATT
22484525 AAAAATTTTAAAATTAT-TTAAAAAAATA
1 AAAAATTTTAAAATTATCTTAAAAAAATA
*
22484553 AAAAATTTTAAAATTTTCTTAAAAAAAT
1 AAAAATTTTAAAATTATCTTAAAAAAAT
22484581 GAAATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAATTTTAAAATTATCTTAAAAAAATA
Found at i:22484652 original size:22 final size:22
Alignment explanation
Indices: 22484622--22484663 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22484612 ATTTGGAGAT
*
22484622 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
22484644 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
22484664 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:22484671 original size:30 final size:30
Alignment explanation
Indices: 22484635--22484693 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
22484625 TTGAAGGAAA
* *
22484635 TTGAGAGGATTTTGGAA-GGAATTTGAGAGT
1 TTGAGAGAATTTTGAAAGGGAA-TTGAGAGT
22484665 TTGAGAGAATTTTGAAAGGGAATTGAGAG
1 TTGAGAGAATTTTGAAAGGGAATTGAGAG
22484694 AATTTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGAAAGGGAATTGAGAGT
Found at i:22484691 original size:22 final size:22
Alignment explanation
Indices: 22484665--22484734 Score: 115
Period size: 22 Copynumber: 3.2 Consensus size: 22
22484655 ATTTGAGAGT
22484665 TTGAGAGAA-TTTTGAAAGGGAA
1 TTGAGAGAATTTTTG-AAGGGAA
22484687 TTGAGAGAATTTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAGGGAA
*
22484709 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGGGAA
22484731 TTGA
1 TTGA
22484735 TATTGAATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
22 41 0.89
23 5 0.11
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.31
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGGAA
Found at i:22488627 original size:15 final size:16
Alignment explanation
Indices: 22488609--22488640 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22488599 AAAATATAAT
22488609 TTTAT-AATATAAAAA
1 TTTATCAATATAAAAA
22488624 TTTATCAATATAAAAA
1 TTTATCAATATAAAAA
22488640 T
1 T
22488641 CTTGATTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTATCAATATAAAAA
Found at i:22491377 original size:4 final size:4
Alignment explanation
Indices: 22491368--22491394 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
22491358 ATGCGTATAC
22491368 ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATG
22491395 AATGCCTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:22492038 original size:2 final size:2
Alignment explanation
Indices: 22492031--22492067 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
22492021 TCTACGAAAT
*
22492031 TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
22492068 ATAATTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:22493009 original size:76 final size:76
Alignment explanation
Indices: 22492883--22493028 Score: 258
Period size: 76 Copynumber: 1.9 Consensus size: 76
22492873 AAGTGGTTGG
* *
22492883 TAAGGTAGGATTAGCAATGGGTTTACTAATATCATCTGCAAATCTAAAGTAAAGCCAGTCCC-AA
1 TAAGGTAAGATTAACAATGGGTTTACTAATATCATCTGCAAATCTAAAGTAAAGCCAG-CCCTAA
22492947 GGTCATGGCTAT
65 GGTCATGGCTAT
22492959 TAAGGTAAGATTAACAATGGGTTTACTAATATCATCTGCAAATCTAAAGTAAAGCCAGCCCTAAG
1 TAAGGTAAGATTAACAATGGGTTTACTAATATCATCTGCAAATCTAAAGTAAAGCCAGCCCTAAG
22493024 GTCAT
66 GTCAT
22493029 TATTCTTGTC
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
75 3 0.04
76 64 0.96
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (76 bp):
TAAGGTAAGATTAACAATGGGTTTACTAATATCATCTGCAAATCTAAAGTAAAGCCAGCCCTAAG
GTCATGGCTAT
Found at i:22497550 original size:20 final size:19
Alignment explanation
Indices: 22497527--22497600 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 19
22497517 AGTTTTAGTG
22497527 AAGTATCAATACTTTACCTT
1 AAGTATCAATACTTTA-CTT
*
22497547 AAGTATCAATA-TTT-TTT
1 AAGTATCAATACTTTACTT
*
22497564 AAAACTATCAATACTTTAGCTT
1 --AAGTATCAATACTTTA-CTT
22497586 AAGTATCAATACTTT
1 AAGTATCAATACTTT
22497601 TGTTAAAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.04
19 13 0.29
20 28 0.62
22 2 0.04
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (19 bp):
AAGTATCAATACTTTACTT
Found at i:22497573 original size:39 final size:41
Alignment explanation
Indices: 22497530--22497607 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 41
22497520 TTTAGTGAAG
22497530 TATCAATACTTTACCTTAAGTATCAATA-TTTT-TTAAAAC
1 TATCAATACTTTACCTTAAGTATCAATACTTTTGTTAAAAC
*
22497569 TATCAATACTTTAGCTTAAGTATCAATACTTTTGTTAAA
1 TATCAATACTTTACCTTAAGTATCAATACTTTTGTTAAA
22497608 GTATCTTCAG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 27 0.75
40 4 0.11
41 5 0.14
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (41 bp):
TATCAATACTTTACCTTAAGTATCAATACTTTTGTTAAAAC
Found at i:22497609 original size:20 final size:19
Alignment explanation
Indices: 22497527--22497612 Score: 77
Period size: 20 Copynumber: 4.4 Consensus size: 19
22497517 AGTTTTAGTG
**
22497527 AAGTATCAATACTTTACCTT
1 AAGTATCAATACTTT-TGTT
22497547 AAGTATCAATA-TTTT-TT
1 AAGTATCAATACTTTTGTT
* *
22497564 AAAACTATCAATACTTTAGCTT
1 --AAGTATCAATACTTTTG-TT
22497586 AAGTATCAATACTTTTGTT
1 AAGTATCAATACTTTTGTT
22497605 AAAGTATC
1 -AAGTATC
22497613 TTCAGCTACC
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.04
19 15 0.27
20 36 0.65
22 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (19 bp):
AAGTATCAATACTTTTGTT
Found at i:22504750 original size:68 final size:71
Alignment explanation
Indices: 22504608--22504752 Score: 165
Period size: 68 Copynumber: 2.1 Consensus size: 71
22504598 TATTCAATCT
* *
22504608 TATTAAATTAATAAAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAAGATAATC
1 TATTAAATTAATAAAATATCTATCTA-AAGATAAACATTAAATTAAATTTAATATTAAGATAATA
**
22504673 AGTTGAA
65 AAATGAA
** *
22504680 TATTAAATTAATAAAATA-CTAT-T-AAGATAAGTATTAAATTAAATTTAATGTTAA-ATATATT
1 TATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATATTAAGATA-A-T
22504741 AAAAT-AA
64 AAAATGAA
22504748 TATTA
1 TATTA
22504753 TTTTTGGAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
67 3 0.05
68 36 0.56
69 3 0.05
70 1 0.02
71 3 0.05
72 18 0.28
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.39
Consensus pattern (71 bp):
TATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATATTAAGATAATAA
AATGAA
Found at i:22505154 original size:19 final size:19
Alignment explanation
Indices: 22505130--22505172 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
22505120 AAAACATCAT
* *
22505130 ATTAATTTTAATTAATTTG
1 ATTAATTTAAATTAACTTG
*
22505149 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTAACTTG
22505168 ATTAA
1 ATTAA
22505173 AATTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:22506642 original size:22 final size:22
Alignment explanation
Indices: 22506608--22506671 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 22
22506598 ATAAACTGAG
*
22506608 AGCACAAATGTGCTAATCAGAA
1 AGCACTAATGTGCTAATCAGAA
* *
22506630 AGCACTAACGTGCTAATAGTCAGAG
1 AGCACTAATGTGCT-A-A-TCAGAA
22506655 AGCACTAATGTGCTAAT
1 AGCACTAATGTGCTAAT
22506672 AATCAGAGCG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 13 0.37
23 2 0.06
24 2 0.06
25 18 0.51
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (22 bp):
AGCACTAATGTGCTAATCAGAA
Found at i:22506658 original size:25 final size:25
Alignment explanation
Indices: 22506621--22506679 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
22506611 ACAAATGTGC
*
22506621 TAATCAGAAAGCACTAACGTGCTAA
1 TAATCAGAGAGCACTAACGTGCTAA
* *
22506646 TAGTCAGAGAGCACTAATGTGCTAA
1 TAATCAGAGAGCACTAACGTGCTAA
22506671 TAATCAGAG
1 TAATCAGAG
22506680 CGCGCGCTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACGTGCTAA
Found at i:22512033 original size:25 final size:25
Alignment explanation
Indices: 22511981--22512046 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
22511971 ATAAAATACA
*
22511981 TCTTTGCATTCATTTTTGAGCTAATAT
1 TCTTT-CATTC-TTTTTGAACTAATAT
22512008 TCTTTCATTCTTTTTGAAC-AATTAT
1 TCTTTCATTCTTTTTGAACTAA-TAT
22512033 TCTTTCATTCTTTT
1 TCTTTCATTCTTTT
22512047 GGATTTTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 2 0.05
25 25 0.68
26 5 0.14
27 5 0.14
ACGTcount: A:0.20, C:0.17, G:0.06, T:0.58
Consensus pattern (25 bp):
TCTTTCATTCTTTTTGAACTAATAT
Found at i:22513123 original size:12 final size:12
Alignment explanation
Indices: 22513108--22513154 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
22513098 AATTTCATAA
22513108 AAAAAAAGAAAG
1 AAAAAAAGAAAG
22513120 AAAAGAAA-AAAG
1 AAAA-AAAGAAAG
*
22513132 AAAAAAACAAA-
1 AAAAAAAGAAAG
22513143 ATAAAAAAGAAA
1 A-AAAAAAGAAA
22513155 AATCAAAGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
11 4 0.13
12 24 0.77
13 3 0.10
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:22513132 original size:7 final size:7
Alignment explanation
Indices: 22513109--22513156 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
22513099 ATTTCATAAA
22513109 AAAAAAG
1 AAAAAAG
22513116 AAAGAAAAG
1 -AA-AAAAG
22513125 AAAAAAG
1 AAAAAAG
22513132 AAAAAA-
1 AAAAAAG
* *
22513138 ACAAAAT
1 AAAAAAG
22513145 AAAAAAG
1 AAAAAAG
22513152 AAAAA
1 AAAAA
22513157 TCAAAGTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
6 5 0.14
7 21 0.60
8 4 0.11
9 5 0.14
ACGTcount: A:0.85, C:0.02, G:0.10, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:22513136 original size:13 final size:13
Alignment explanation
Indices: 22513106--22513222 Score: 55
Period size: 13 Copynumber: 8.8 Consensus size: 13
22513096 TCAATTTCAT
22513106 AAAA-AAAAAGAAA
1 AAAAGAAAAAG-AA
22513119 GAAAAGAAAAAAGAA
1 -AAAAG-AAAAAGAA
*
22513134 AAAA-ACAAAATAA
1 AAAAGA-AAAAGAA
**
22513147 AAAAGAAAAATCA
1 AAAAGAAAAAGAA
*** *
22513160 AAGTCAAAATACAA
1 AAAAGAAAA-AGAA
*
22513174 AAAA-ATGAAAATAA
1 AAAAGA--AAAAGAA
*
22513188 AAAATAAAAAG--
1 AAAAGAAAAAGAA
22513199 AAAAGAAAAAGAA
1 AAAAGAAAAAGAA
22513212 AAAAGAAAAAG
1 AAAAGAAAAAG
22513223 GAGAGGCCAA
Statistics
Matches: 81, Mismatches: 12, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
11 10 0.12
12 1 0.01
13 38 0.47
14 20 0.25
15 6 0.07
16 6 0.07
ACGTcount: A:0.80, C:0.03, G:0.10, T:0.06
Consensus pattern (13 bp):
AAAAGAAAAAGAA
Found at i:22513168 original size:20 final size:20
Alignment explanation
Indices: 22513104--22513197 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
22513094 ATTCAATTTC
* *
22513104 ATAAAAAA-AAAGAAAGAAA
1 ATAAAAAAGAAAAAAACAAA
*
22513123 AGAAAAAAGAAAAAAACAAA
1 ATAAAAAAGAAAAAAACAAA
*
22513143 ATAAAAAAG-AAAAATCAAA
1 ATAAAAAAGAAAAAAACAAA
* * * *
22513162 GTCAAAATACAAAAAAATGAAA
1 AT-AAAAAAGAAAAAAA-CAAA
*
22513184 ATAAAAAATAAAAA
1 ATAAAAAAGAAAAA
22513198 GAAAAGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 17 0.29
20 22 0.38
21 15 0.26
22 4 0.07
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (20 bp):
ATAAAAAAGAAAAAAACAAA
Found at i:22514121 original size:61 final size:59
Alignment explanation
Indices: 22514049--22514163 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 59
22514039 GAGAAAGGAT
** * *
22514049 CAAGGTGAAAACCTGCAAAGGGCGCTTTGATTCCTAAAAATAATAATAAT-AATAAAAAGAC
1 CAAGGTGAAAACCCACAAAGGGCACTTTGAGTCC-AAAAA-AATAA-AATAAATAAAAAGAC
22514110 CAAGGTGAAAACCCACAAAGGGCACTTTGAGTCCAAAAAAATAAAATAAATAAA
1 CAAGGTGAAAACCCACAAAGGGCACTTTGAGTCCAAAAAAATAAAATAAATAAA
22514164 TAAATAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 3 0.06
59 11 0.22
60 5 0.10
61 30 0.61
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (59 bp):
CAAGGTGAAAACCCACAAAGGGCACTTTGAGTCCAAAAAAATAAAATAAATAAAAAGAC
Found at i:22515864 original size:44 final size:44
Alignment explanation
Indices: 22515769--22515868 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
22515759 AAGCCACTAG
* ** **
22515769 TCTTATCTCCCTGGACAGCAGTGGAATATGTTGAAGGTTGTGAA
1 TCTTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTCAGAA
* *
22515813 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTACAG-A
1 TCTTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATT-CAGAA
22515857 TCTTATCTCCCT
1 TCTTATCTCCCT
22515869 AAGCAATAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 46 0.98
45 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (44 bp):
TCTTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTCAGAA
Found at i:22516018 original size:44 final size:44
Alignment explanation
Indices: 22515970--22516232 Score: 168
Period size: 44 Copynumber: 6.0 Consensus size: 44
22515960 AACAGGGGAA
* *
22515970 TAGGTGGAAGATGGTAAGCCTTATCTCCCTAAGCAGTAGTGGAG
1 TAGGTTGAAGATGGTAAGTCTTATCTCCCTAAGCAGTAGTGGAG
* *
22516014 TAGGTTGAAAAT--TACAGATCTTATATCCCTAAGCAGTAGTGGAG
1 TAGGTTGAAGATGGTA-AG-TCTTATCTCCCTAAGCAGTAGTGGAG
* * * * *
22516058 TAGATTGAAGACAGCG-AA-TCTTATTTTCCC-CAGAAGTAG-GGAAG
1 TAGGTTGAAGA-TG-GTAAGTCTTA-TCTCCCTAAGCAGTAGTGG-AG
* * **** * * *
22516102 CAGGTTTAAGCCACT-AGTCTTATCTCCCT-GGACAGCAGTGGAA
1 TAGGTTGAAGATGGTAAGTCTTATCTCCCTAAG-CAGTAGTGGAG
* *
22516145 TAGGTTGAAGATTGTAAGCCTTATCTCCCTAAGCAGTAGTGGAG
1 TAGGTTGAAGATGGTAAGTCTTATCTCCCTAAGCAGTAGTGGAG
* * *
22516189 TAGGTT-AA-AAGTTACAGATCTTATCTCCCTAAACAGTAGTGGAG
1 TAGGTTGAAGATGGTA-AG-TCTTATCTCCCTAAGCAGTAGTGGAG
22516233 CAGATAAAAA
Statistics
Matches: 165, Mismatches: 37, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
42 12 0.07
43 27 0.16
44 118 0.72
45 6 0.04
46 1 0.01
47 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (44 bp):
TAGGTTGAAGATGGTAAGTCTTATCTCCCTAAGCAGTAGTGGAG
Found at i:22516254 original size:175 final size:175
Alignment explanation
Indices: 22515480--22516237 Score: 1110
Period size: 175 Copynumber: 4.3 Consensus size: 175
22515470 TCCCTGGGTT
* * * *
22515480 GTAGTGGAGCAGGTTGAAAATAATAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGAC
1 GTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
* *
22515545 GGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGGAC
66 AGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGAC
* *
22515610 AGCAGGGGAATAGGTGGAAGATTGTAAGCCTTATCTCCCGAAGTA
131 AGCAGGGGAATAGGTGGAAGATTGTAAGCCTTATCTCCCTAAGCA
22515655 GTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
1 GTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
* * * *
22515720 -GACGAATCTTATCTTCCCCAGGAGTCGCGAAGTAGATTTAAGCCACTAGTCTTATCTCCCTGGA
66 AG-CGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGA
* * * * * *
22515784 CAGCAGTGGAATATGTTGAAGGTTGTGAATCC-TATCTCCCT-GGTCA
130 CAGCAGGGGAATAGGTGGAAGATTGT-AAGCCTTATCTCCCTAAG-CA
* * * * *
22515830 GCAGTGGAATAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCGAAGAT
1 GTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
* * *
22515895 GGCGAATTTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGTCACTAGTCCTATCTCCCTGGAC
66 AGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGAC
* *
22515960 AACAGGGGAATAGGTGGAAGATGGTAAGCCTTATCTCCCTAAGCA
131 AGCAGGGGAATAGGTGGAAGATTGTAAGCCTTATCTCCCTAAGCA
* * *
22516005 GTAGTGGAGTAGGTTGAAAATTACAGATCTTATATCCCTAAGCAGTAGTGGAGTAGATTGAAGAC
1 GTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
* * * *
22516070 AGCGAATCTTATTTTCCCCAGAAGTAGGGAAGCAGGTTTAAGCCACTAGTCTTATCTCCCTGGAC
66 AGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGAC
* *
22516135 AGCAGTGGAATAGGTTGAAGATTGTAAGCCTTATCTCCCTAAGCA
131 AGCAGGGGAATAGGTGGAAGATTGTAAGCCTTATCTCCCTAAGCA
*
22516180 GTAGTGGAGTAGGTT-AAAAGTTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGAT
1 GTAGTGGAGTAGGTTGAAAA-TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
22516238 AAAAAATAGT
Statistics
Matches: 518, Mismatches: 58, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
174 10 0.02
175 502 0.97
176 6 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (175 bp):
GTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
AGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGAC
AGCAGGGGAATAGGTGGAAGATTGTAAGCCTTATCTCCCTAAGCA
Found at i:22524290 original size:17 final size:17
Alignment explanation
Indices: 22524268--22524301 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22524258 CTTAGAAGAA
22524268 CTTAGTCCAACAAACTT
1 CTTAGTCCAACAAACTT
*
22524285 CTTAGTCCAACATACTT
1 CTTAGTCCAACAAACTT
22524302 TTTAACATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (17 bp):
CTTAGTCCAACAAACTT
Found at i:22533266 original size:28 final size:27
Alignment explanation
Indices: 22533201--22533266 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
22533191 CATCTTTCAG
**
22533201 TTTTAAATTTTGTCTATTTATTCATTT
1 TTTTAAATTTTGAATATTTATTCATTT
*
22533228 TTTTATTATTTTGAATATTTATTC-TTAGT
1 TTTTA-AATTTTGAATATTTATTCATT--T
22533257 TTTTAAATTT
1 TTTTAAATTT
22533267 ATTCTTTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 7 0.22
28 19 0.59
29 6 0.19
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTTAAATTTTGAATATTTATTCATTT
Found at i:22538487 original size:16 final size:16
Alignment explanation
Indices: 22538463--22538505 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
22538453 AAGAGAGTGA
*
22538463 AAAAGAAATGGAAAAGG
1 AAAA-AAATGGAAAAAG
*
22538480 AAAAAAATAGAAAAAG
1 AAAAAAATGGAAAAAG
22538496 AAAAAGAATG
1 AAAAA-AATG
22538506 AGAGAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (16 bp):
AAAAAAATGGAAAAAG
Found at i:22539361 original size:44 final size:44
Alignment explanation
Indices: 22539311--22539395 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
22539301 AATTAATTAT
22539311 AGAAAATACTTACTAATCTAATCGAGTCACGAATTAGTAGTTAC
1 AGAAAATACTTACTAATCTAATCGAGTCACGAATTAGTAGTTAC
*
22539355 AGAAAATACTTACTAATCTAATCGAGTCATGAATTAGTAGT
1 AGAAAATACTTACTAATCTAATCGAGTCACGAATTAGTAGT
22539396 GTGAATCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (44 bp):
AGAAAATACTTACTAATCTAATCGAGTCACGAATTAGTAGTTAC
Found at i:22542141 original size:102 final size:102
Alignment explanation
Indices: 22542015--22542219 Score: 401
Period size: 102 Copynumber: 2.0 Consensus size: 102
22542005 TAATGCCAAA
22542015 GAATGAAGGAGAAGTTACATTGAAGATAACTCCAAAGGACTTATTGAAGGTATTGGTTCTATAGG
1 GAATGAAGGAGAAGTTACATTGAAGATAACTCCAAAGGACTTATTGAAGGTATTGGTTCTATAGG
22542080 TATAAATTCTTCCACTCTCATTAAAAATATGCTTTAT
66 TATAAATTCTTCCACTCTCATTAAAAATATGCTTTAT
22542117 GAATGAAGGAGAAGTTACATTGAAGATAACTCCAAAGGACTTATTGAAGGTATTGGTTCTATAGG
1 GAATGAAGGAGAAGTTACATTGAAGATAACTCCAAAGGACTTATTGAAGGTATTGGTTCTATAGG
*
22542182 TATAAATTCTTCCACTCTCATTAAAAATGTGCTTTAT
66 TATAAATTCTTCCACTCTCATTAAAAATATGCTTTAT
22542219 G
1 G
22542220 TCTATGGTCT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.33
Consensus pattern (102 bp):
GAATGAAGGAGAAGTTACATTGAAGATAACTCCAAAGGACTTATTGAAGGTATTGGTTCTATAGG
TATAAATTCTTCCACTCTCATTAAAAATATGCTTTAT
Done.