Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 65
Found at i:949389 original size:35 final size:35
Alignment explanation
Indices: 949346--949451 Score: 126
Period size: 35 Copynumber: 3.1 Consensus size: 35
949336 AAAGATTTAA
*
949346 TTCGTTTCAAGGGAAACGATCTTAAAGATGTTTGT
1 TTCGTTTCAAGGGAAACGATCTCAAAGATGTTTGT
* * * **
949381 TTTGTTTCAAGGGAAACAAACTCAAAGA--TTTAA
1 TTCGTTTCAAGGGAAACGATCTCAAAGATGTTTGT
* *
949414 TTCGTTTCAAGGGAAACGATATCAAAGATGGTTGT
1 TTCGTTTCAAGGGAAACGATCTCAAAGATGTTTGT
949449 TTC
1 TTC
949452 ATGAGAAACA
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
33 27 0.48
35 29 0.52
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (35 bp):
TTCGTTTCAAGGGAAACGATCTCAAAGATGTTTGT
Found at i:949439 original size:33 final size:33
Alignment explanation
Indices: 949334--949442 Score: 130
Period size: 33 Copynumber: 3.2 Consensus size: 33
949324 TTAAAATAAC
*
949334 TCAAAGATTTAATTCGTTTCAAGGGAAACGATC
1 TCAAAGATTTAATTCGTTTCAAGGGAAACGATA
* ** * *
949367 TTAAAGATGTTTGTTTTGTTTCAAGGGAAAC-AAA
1 TCAAAGA--TTTAATTCGTTTCAAGGGAAACGATA
949401 CTCAAAGATTTAATTCGTTTCAAGGGAAACGATA
1 -TCAAAGATTTAATTCGTTTCAAGGGAAACGATA
949435 TCAAAGAT
1 TCAAAGAT
949443 GGTTGTTTCA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
33 33 0.54
34 3 0.05
35 25 0.41
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (33 bp):
TCAAAGATTTAATTCGTTTCAAGGGAAACGATA
Found at i:949563 original size:33 final size:33
Alignment explanation
Indices: 949500--949563 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
949490 GAGAAATGAT
* * *
949500 CTCAAAGATGGTTGTTGTTTCCAGTAAAACAGA
1 CTCAAAGATGATTGTTATTTCAAGTAAAACAGA
* *
949533 CTCAAAGATGATTTTTATTTCAAGTGAAACA
1 CTCAAAGATGATTGTTATTTCAAGTAAAACA
949564 ATTTCAGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (33 bp):
CTCAAAGATGATTGTTATTTCAAGTAAAACAGA
Found at i:949940 original size:34 final size:32
Alignment explanation
Indices: 949892--949956 Score: 85
Period size: 34 Copynumber: 2.0 Consensus size: 32
949882 AAAGGAAAAA
*
949892 TATCTCAAGCGAGACGAGATTTGTTTTGAGAAAT
1 TATCTCAAGAGAGAC-A-ATTTGTTTTGAGAAAT
* *
949926 TATCTCAAGAGAGACAATTTTTTTTTAGAAA
1 TATCTCAAGAGAGACAATTTGTTTTGAGAAA
949957 AACACCATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 13 0.46
33 1 0.04
34 14 0.50
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (32 bp):
TATCTCAAGAGAGACAATTTGTTTTGAGAAAT
Found at i:951354 original size:2 final size:2
Alignment explanation
Indices: 951347--951373 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
951337 AGCTTTATTG
951347 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 T
951374 TATTTGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:954239 original size:27 final size:28
Alignment explanation
Indices: 954209--954261 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
954199 ATGAAAAATG
*
954209 ATACAAACAAAAG-AAATAAGTTAGTGT
1 ATACAAACAAAAGAAAATAAATTAGTGT
954236 ATACAAACAAAAGAAAATAAATTAGT
1 ATACAAACAAAAGAAAATAAATTAGT
954262 TAGTACAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.60, C:0.08, G:0.11, T:0.21
Consensus pattern (28 bp):
ATACAAACAAAAGAAAATAAATTAGTGT
Found at i:956345 original size:2 final size:2
Alignment explanation
Indices: 956340--956435 Score: 176
Period size: 2 Copynumber: 48.0 Consensus size: 2
956330 ATATAGAAAC
956340 TA TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
956383 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
956425 TA TA TA T- TA TA
1 TA TA TA TA TA TA
956436 GTTGTTTCAA
Statistics
Matches: 92, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.01
2 89 0.97
3 2 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:956561 original size:12 final size:13
Alignment explanation
Indices: 956544--956576 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
956534 TGTTGTTTAA
956544 TTTATTTA-AATT
1 TTTATTTATAATT
956556 TTTATTTATAATT
1 TTTATTTATAATT
956569 TTATATTT
1 TT-TATTT
956577 GTTCAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 6 0.32
14 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTATTTATAATT
Found at i:956852 original size:32 final size:32
Alignment explanation
Indices: 956811--956883 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
956801 TAGTTCTTAA
956811 ATTTTTATTTTTCATAAAATTGATCCATGATT
1 ATTTTTATTTTTCATAAAATTGATCCATGATT
956843 ATTTTTATTTTTCATAAAATTGATCCATGATT
1 ATTTTTATTTTTCATAAAATTGATCCATGATT
956875 ATTTTTATT
1 ATTTTTATT
956884 CTTAGTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.56
Consensus pattern (32 bp):
ATTTTTATTTTTCATAAAATTGATCCATGATT
Found at i:957446 original size:15 final size:16
Alignment explanation
Indices: 957423--957455 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
957413 AACATATTTT
*
957423 ATATAAACAAGATTAA
1 ATATAAACAAAATTAA
957439 ATAT-AACAAAATTAA
1 ATATAAACAAAATTAA
957454 AT
1 AT
957456 TATATCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (16 bp):
ATATAAACAAAATTAA
Found at i:957842 original size:21 final size:22
Alignment explanation
Indices: 957799--957843 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
957789 TACTGAATTT
* *
957799 TTAATACACATTTTTTTATTAA
1 TTAATACACATTTTTTAAATAA
*
957821 TTAATACATA-TTTTTAAATAA
1 TTAATACACATTTTTTAAATAA
957842 TT
1 TT
957844 TAAAATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATACACATTTTTTAAATAA
Found at i:957846 original size:22 final size:23
Alignment explanation
Indices: 957798--957846 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
957788 CTACTGAATT
* *
957798 TTTAATACACATTTTTTTATTAA
1 TTTAATACACATTTTTTAAATAA
*
957821 -TTAATACATA-TTTTTAAATAA
1 TTTAATACACATTTTTTAAATAA
957842 TTTAA
1 TTTAA
957847 AATTTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTAATACACATTTTTTAAATAA
Found at i:958003 original size:2 final size:2
Alignment explanation
Indices: 957996--958088 Score: 177
Period size: 2 Copynumber: 46.5 Consensus size: 2
957986 AATATGCTTA
*
957996 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
958038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
958080 AT AT AT AT A
1 AT AT AT AT A
958089 ATCGCATATA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 89 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:959209 original size:3 final size:3
Alignment explanation
Indices: 959201--959268 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
959191 GTACATTTAA
*
959201 ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
959249 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
959269 CAGTCCAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:966386 original size:21 final size:21
Alignment explanation
Indices: 966362--966412 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
966352 GAATGAACAA
*
966362 GTATCCATATCAGATGAGTTG
1 GTATCCATATCAGATGAATTG
* *
966383 GTATTCATATCGGATGAATTG
1 GTATCCATATCAGATGAATTG
966404 GTATCCATA
1 GTATCCATA
966413 CAAAAAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (21 bp):
GTATCCATATCAGATGAATTG
Found at i:977708 original size:24 final size:24
Alignment explanation
Indices: 977664--977751 Score: 146
Period size: 24 Copynumber: 3.8 Consensus size: 24
977654 TCAGAGAACA
977664 TTACCAAGGT-A--CTTCATCCTC
1 TTACCAAGGTAATCCTTCATCCTC
*
977685 TTACCAAGGTAATCATTCATCCTC
1 TTACCAAGGTAATCCTTCATCCTC
977709 TTACCAAGGTAATCCTTCATCCTC
1 TTACCAAGGTAATCCTTCATCCTC
977733 TTACCAAGGTAATCCTTCA
1 TTACCAAGGTAATCCTTCA
977752 AATCCTTCAT
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
21 10 0.16
22 1 0.02
24 51 0.82
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (24 bp):
TTACCAAGGTAATCCTTCATCCTC
Found at i:994255 original size:59 final size:59
Alignment explanation
Indices: 994163--994279 Score: 234
Period size: 59 Copynumber: 2.0 Consensus size: 59
994153 AGCTGAGGTA
994163 ACACACTTTAACTCTTCTCTACTACTTGTAGTGCATACCATTTAGTATGGGTTGATTGC
1 ACACACTTTAACTCTTCTCTACTACTTGTAGTGCATACCATTTAGTATGGGTTGATTGC
994222 ACACACTTTAACTCTTCTCTACTACTTGTAGTGCATACCATTTAGTATGGGTTGATTG
1 ACACACTTTAACTCTTCTCTACTACTTGTAGTGCATACCATTTAGTATGGGTTGATTG
994280 TATGGGTTGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (59 bp):
ACACACTTTAACTCTTCTCTACTACTTGTAGTGCATACCATTTAGTATGGGTTGATTGC
Found at i:994714 original size:21 final size:22
Alignment explanation
Indices: 994688--994782 Score: 108
Period size: 21 Copynumber: 4.5 Consensus size: 22
994678 CCGAATTACT
994688 TGGTATCCATATCAG-ATGAAC
1 TGGTATCCATATCAGAATGAAC
* *
994709 TGGTATCCATA-CCGAATAAAC
1 TGGTATCCATATCAGAATGAAC
* *
994730 TAGTATTCATATCAG-ATGAAC
1 TGGTATCCATATCAGAATGAAC
**
994751 TGGTATCCATATC-GAATGAGT
1 TGGTATCCATATCAGAATGAAC
994772 TGGTATCCATA
1 TGGTATCCATA
994783 CCAAAGATTG
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
20 3 0.05
21 56 0.92
22 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (22 bp):
TGGTATCCATATCAGAATGAAC
Found at i:994721 original size:42 final size:42
Alignment explanation
Indices: 994675--994782 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 42
994665 GCTGGTGTTT
*
994675 ATACCGAATTACTTGGTATCCATATCAGATGAACTGGTATCC
1 ATACCGAATAACTTGGTATCCATATCAGATGAACTGGTATCC
* *
994717 ATACCGAATAAAC-TAGTATTCATATCAGATGAACTGGTATCC
1 ATACCGAAT-AACTTGGTATCCATATCAGATGAACTGGTATCC
* * *
994759 ATATCGAATGAGTTGGTATCCATA
1 ATACCGAATAACTTGGTATCCATA
994783 CCAAAGATTG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 53 0.95
43 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (42 bp):
ATACCGAATAACTTGGTATCCATATCAGATGAACTGGTATCC
Found at i:994816 original size:20 final size:19
Alignment explanation
Indices: 994751--994818 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
994741 TCAGATGAAC
994751 TGGTATCCATATCGAATGAGT
1 TGGTATCCATATCGAA-G-GT
* * *
994772 TGGTATCCATACCAAAGAT
1 TGGTATCCATATCGAAGGT
994791 TGGGTATCCATATCGAAGGCT
1 T-GGTATCCATATCGAAGG-T
994812 TGGTATC
1 TGGTATC
994819 AATACCCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.05
20 21 0.54
21 16 0.41
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (19 bp):
TGGTATCCATATCGAAGGT
Found at i:995490 original size:20 final size:21
Alignment explanation
Indices: 995465--995504 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
995455 GATGGATATC
*
995465 GATACTGAAGGG-TTAGTATT
1 GATACTAAAGGGCTTAGTATT
995485 GATACTAAAGGGCTTAGTAT
1 GATACTAAAGGGCTTAGTAT
995505 CATTACCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.33
Consensus pattern (21 bp):
GATACTAAAGGGCTTAGTATT
Found at i:997970 original size:22 final size:22
Alignment explanation
Indices: 997938--997983 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
997928 CCGAAGTAAC
* *
997938 ATTCATAATAAACATCATATAT
1 ATTCATAATAAAAATAATATAT
*
997960 ATTCATGATAAAAATAATATAT
1 ATTCATAATAAAAATAATATAT
997982 AT
1 AT
997984 AATAACCAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTCATAATAAAAATAATATAT
Found at i:1000288 original size:31 final size:31
Alignment explanation
Indices: 1000220--1000290 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
1000210 AGTTTTATTA
* *
1000220 ATATTTTTATAAAATATAATATAATATTTTT
1 ATATTTTTATAAAATATAATATAATATTATC
*
1000251 AT-TTTTTAT-AGATATTCAATATAAT-TTATC
1 ATATTTTTATAAAATA-T-AATATAATATTATC
1000281 ATATTTTTAT
1 ATATTTTTAT
1000291 TTATAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 4 0.12
30 13 0.38
31 17 0.50
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (31 bp):
ATATTTTTATAAAATATAATATAATATTATC
Found at i:1000413 original size:23 final size:21
Alignment explanation
Indices: 1000360--1000414 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
1000350 ATTATTCTAA
*
1000360 TATTTTTAAAATAATAATATT
1 TATTTTTATAATAATAATATT
*
1000381 AAGTTTTTATAATAAATAATATT
1 TA-TTTTTATAAT-AATAATATT
1000404 TATTTATTATA
1 TATTT-TTATA
1000415 TTTTATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.04
22 12 0.43
23 15 0.54
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTTTTATAATAATAATATT
Found at i:1007532 original size:40 final size:38
Alignment explanation
Indices: 1007457--1007536 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 38
1007447 TCAACTTGAC
*
1007457 ACCTTCTTCATAACATTTTCGATTGACAACTAAAATTGTT
1 ACCTTCTTCATAACATTTTCGATT-ACAAC-AAAAATGTT
*
1007497 ACCTTTTTCATAACATTTTCGATT-CAACCGAAAAATGTT
1 ACCTTCTTCATAACATTTTCGATTACAA-C-AAAAATGTT
1007536 A
1 A
1007537 AAAAATTATC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 3 0.08
39 10 0.28
40 23 0.64
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (38 bp):
ACCTTCTTCATAACATTTTCGATTACAACAAAAATGTT
Found at i:1010183 original size:134 final size:134
Alignment explanation
Indices: 1010018--1010278 Score: 445
Period size: 134 Copynumber: 1.9 Consensus size: 134
1010008 ATCTTTAATA
* * *
1010018 TTCAAAGTTAAAAAGGTAACAAATACTTTTTTAAATTGACATATTCAAAGATTAATTATCCTACT
1 TTCAAAGTTAAAAAGATAACAAATACTTTTTTAAATTGACATATTAAAAGAATAATTATCCTACT
1010083 AATATTCAAATTAAATAATATATTTAATTTACAATGG-TCAAAAGGTAAACTCCTTTTACTATGT
66 AATATTCAAATTAAATAATATATTTAATTTACAATGGAT-AAAAGGTAAACTCCTTTTACTATGT
1010147 TTAAG
130 TTAAG
1010152 TTCAAAGTTAAAAAGATAACAAATA-TATTTTTAAATTGACATATTAAAAGAATAATTATCCTAC
1 TTCAAAGTTAAAAAGATAACAAATACT-TTTTTAAATTGACATATTAAAAGAATAATTATCCTAC
* *
1010216 TAATGTTCAAATTAAATAATATATTTAATTTACAATGGATAAAAGGTAAACTTCTTTTACTAT
65 TAATATTCAAATTAAATAATATATTTAATTTACAATGGATAAAAGGTAAACTCCTTTTACTAT
1010279 TCAAATTTAA
Statistics
Matches: 120, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
133 1 0.01
134 118 0.98
135 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (134 bp):
TTCAAAGTTAAAAAGATAACAAATACTTTTTTAAATTGACATATTAAAAGAATAATTATCCTACT
AATATTCAAATTAAATAATATATTTAATTTACAATGGATAAAAGGTAAACTCCTTTTACTATGTT
TAAG
Found at i:1014007 original size:30 final size:30
Alignment explanation
Indices: 1013973--1014106 Score: 139
Period size: 30 Copynumber: 4.5 Consensus size: 30
1013963 CTTTGAGGAT
* * *
1013973 TTTAAGGGACCAAAATAATC-ATAACAGAAA
1 TTTAAGGGACTAAAATAA-CAAAAATAGAAA
* *
1014003 TTTAAAGGACTAAAATAGCAAAAATAGAAA
1 TTTAAGGGACTAAAATAACAAAAATAGAAA
*
1014033 CTTAAGGGACTAAAATAACAAAAATAGAAA
1 TTTAAGGGACTAAAATAACAAAAATAGAAA
* *
1014063 TTTAAAGTG-CTAAAATAGC-AAAATCAGAAA
1 TTT-AAGGGACTAAAATAACAAAAAT-AGAAA
*
1014093 CTTAAGGGACTAAA
1 TTTAAGGGACTAAA
1014107 CAAAAAAATA
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
29 10 0.11
30 73 0.84
31 4 0.05
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.20
Consensus pattern (30 bp):
TTTAAGGGACTAAAATAACAAAAATAGAAA
Found at i:1014103 original size:60 final size:60
Alignment explanation
Indices: 1013974--1014106 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 60
1013964 TTTGAGGATT
* *
1013974 TTAAGGGACCAAAATAATCATAACAGAAATTTAAAGGACTAAAATAGCAAAAATAGAAAC
1 TTAAGGGACTAAAATAATCAAAACAGAAATTTAAAGGACTAAAATAGCAAAAATAGAAAC
*
1014034 TTAAGGGACTAAAATAA-CAAAAATAGAAATTTAAAGTG-CTAAAATAGC-AAAATCAGAAAC
1 TTAAGGGACTAAAATAATC-AAAACAGAAATTTAAAG-GACTAAAATAGCAAAAAT-AGAAAC
1014094 TTAAGGGACTAAA
1 TTAAGGGACTAAA
1014107 CAAAAAAATA
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
59 6 0.09
60 60 0.90
61 1 0.01
ACGTcount: A:0.56, C:0.11, G:0.14, T:0.20
Consensus pattern (60 bp):
TTAAGGGACTAAAATAATCAAAACAGAAATTTAAAGGACTAAAATAGCAAAAATAGAAAC
Found at i:1019564 original size:13 final size:13
Alignment explanation
Indices: 1019546--1019572 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1019536 TTACAGACGC
1019546 GCATATGAAGACT
1 GCATATGAAGACT
1019559 GCATATGAAGACT
1 GCATATGAAGACT
1019572 G
1 G
1019573 TTCAACTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:1022421 original size:2 final size:2
Alignment explanation
Indices: 1022416--1022466 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
1022406 ATCATCAATA
1022416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1022458 AT AA AT AT A
1 AT AT AT AT A
1022467 ATTGCTTGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1023786 original size:16 final size:17
Alignment explanation
Indices: 1023765--1023816 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
1023755 TTTTTAATTT
1023765 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
1023781 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
1023796 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
1023813 AATT
1 AATT
1023817 TATTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:1024041 original size:50 final size:51
Alignment explanation
Indices: 1023980--1024081 Score: 170
Period size: 50 Copynumber: 2.0 Consensus size: 51
1023970 GAGCAAGAAG
*
1023980 ATAGTTGAGTGATAAATTATGTAATTTATCCATAAAAATGCAGTGTCGTTA
1 ATAGTTGAGTGATAAATGATGTAATTTATCCATAAAAATGCAGTGTCGTTA
* *
1024031 ATAGTT-AGTGATGAATGATGTAATTTATCTATAAAAATGCAGTGTCGTTA
1 ATAGTTGAGTGATAAATGATGTAATTTATCCATAAAAATGCAGTGTCGTTA
1024081 A
1 A
1024082 GTTTTTTAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 42 0.88
51 6 0.12
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (51 bp):
ATAGTTGAGTGATAAATGATGTAATTTATCCATAAAAATGCAGTGTCGTTA
Found at i:1025777 original size:21 final size:21
Alignment explanation
Indices: 1025753--1025792 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1025743 GACTTCCGAT
1025753 AATATCACTCACAAATAACTC
1 AATATCACTCACAAATAACTC
*
1025774 AATATCATTCACAAATAAC
1 AATATCACTCACAAATAAC
1025793 AATAAGGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (21 bp):
AATATCACTCACAAATAACTC
Found at i:1027028 original size:23 final size:23
Alignment explanation
Indices: 1027001--1027048 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1026991 ATTTCCCAAA
*
1027001 AATTTAACTTTAAGATAATTTTG
1 AATTTAACTTCAAGATAATTTTG
*
1027024 AATTTGACTTCAAGATAATTTTG
1 AATTTAACTTCAAGATAATTTTG
1027047 AA
1 AA
1027049 CAATCTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (23 bp):
AATTTAACTTCAAGATAATTTTG
Found at i:1027858 original size:2 final size:2
Alignment explanation
Indices: 1027851--1027897 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1027841 TATGCATTGT
1027851 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1027893 TA TA T
1 TA TA T
1027898 TCCTTTATGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1028124 original size:81 final size:81
Alignment explanation
Indices: 1028019--1028948 Score: 1425
Period size: 81 Copynumber: 11.5 Consensus size: 81
1028009 TTATTGGCAT
* * * * * * *
1028019 CTTTATGCCAAATGCACCGTTA-GACATTTAGTCTTTTACCCAAAGGTAATTAACCTTTCATCTA
1 CTTTCTGCCAAATGCACAGCTAGGCCA-TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* *
1028083 ACTGACATGATTGACAC
65 ACTGGCATAATTGACAC
* ** * * *
1028100 CTTTCTGCCAAAGGCACAATTAGACCATTAATCTTTTACCCAAAGGTATTTAACCTTTCATCTTA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
* *
1028165 CTGACATAATTAACAC
66 CTGGCATAATTGACAC
* **
1028181 CTTTCTGCCAAGTGCACAGCTAGGCCATTAATCTTTTACTCAAAAATATTTAACCTTTCATCTAA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
*
1028246 CTGGTATAATTGACAC
66 CTGGCATAATTGACAC
* ** *
1028262 ATTTCTGCCAAACACACAGCTAGGCCATTAAT-TTTTACTCAAATGTATTTAACCTTTCATCTAA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
1028326 CTGGCATAATTGACAC
66 CTGGCATAATTGACAC
* * *
1028342 CTTTCTGTCAAATGCACATG-TAGGCCATTAATATTTTACTCAATGGTATTTAACCTTTCATCTA
1 CTTTCTGCCAAATGCACA-GCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
1028406 ACTGGCATAATTGACAC
65 ACTGGCATAATTGACAC
1028423 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
1028488 CTGGCATAATTGACAC
66 CTGGCATAATTGACAC
**
1028504 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAATTATTTAACCTTTCATCTAA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
*
1028569 CTGACATAATTGACAC
66 CTGGCATAATTGACAC
*
1028585 CTTTCTTCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
*
1028650 CTGACATAATTGACAC
66 CTGGCATAATTGACAC
*
1028666 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAATCTTTCATCTAA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
1028731 CTGGCATAATTGACAC
66 CTGGCATAATTGACAC
*
1028747 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
*
1028812 TTGGCATAATTGACAC
66 CTGGCATAATTGACAC
* * *
1028828 ATTTTTACCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
*
1028893 CAGGCATAATTGACAC
66 CTGGCATAATTGACAC
* * * *
1028909 CTTTCTGCCAAATACATAACTAGACCATTAATCTTTTACT
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
1028949 TTAGAACAAT
Statistics
Matches: 781, Mismatches: 64, Indels: 8
0.92 0.08 0.01
Matches are distributed among these distances:
80 72 0.09
81 707 0.91
82 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (81 bp):
CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
CTGGCATAATTGACAC
Found at i:1029155 original size:55 final size:55
Alignment explanation
Indices: 1029091--1029199 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
1029081 CACACTACCA
* *
1029091 ATACAGAAATTCATAAACTTATTATGAATTTATTATTTTTTCACACAAAGTGCCC
1 ATACAGAAATTCATAAACTTATTATGAATTTATTAGTTTTGCACACAAAGTGCCC
* *
1029146 ATACGGAAATTCATAAACTTATTATGAATTTATTAGTTTTGCACACATAGTGCC
1 ATACAGAAATTCATAAACTTATTATGAATTTATTAGTTTTGCACACAAAGTGCC
1029200 ATTTGTTAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (55 bp):
ATACAGAAATTCATAAACTTATTATGAATTTATTAGTTTTGCACACAAAGTGCCC
Found at i:1032705 original size:21 final size:21
Alignment explanation
Indices: 1032679--1032725 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
1032669 TAATAAAGAG
1032679 TGACATGAATCACACTCTAAT
1 TGACATGAATCACACTCTAAT
1032700 TGACATGAATCACACTCTAAT
1 TGACATGAATCACACTCTAAT
1032721 TGACA
1 TGACA
1032726 CCATATCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (21 bp):
TGACATGAATCACACTCTAAT
Found at i:1034970 original size:18 final size:18
Alignment explanation
Indices: 1034934--1034971 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1034924 ATAAATAAAT
*
1034934 AAATAAATGATTAATAAG
1 AAATAAATGAGTAATAAG
1034952 AAATAAATGTAGTAA-AAG
1 AAATAAATG-AGTAATAAG
1034970 AA
1 AA
1034972 TTCAATGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (18 bp):
AAATAAATGAGTAATAAG
Found at i:1039782 original size:27 final size:27
Alignment explanation
Indices: 1039744--1039805 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
1039734 ACTTGGCAAT
1039744 ACCTCTCGGCATTATTACTAGCATTTA
1 ACCTCTCGGCATTATTACTAGCATTTA
1039771 ACCTCTCGGCATTATTACTAGCATTTA
1 ACCTCTCGGCATTATTACTAGCATTTA
1039798 ACCTCTCG
1 ACCTCTCG
1039806 ACTGAGCACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.35
Consensus pattern (27 bp):
ACCTCTCGGCATTATTACTAGCATTTA
Found at i:1040041 original size:21 final size:23
Alignment explanation
Indices: 1040012--1040054 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1040002 CTTAATACAT
*
1040012 TAAGCATCAT-AAGCAAAACAAA
1 TAAGCATCATAAAGAAAAACAAA
1040034 TAAG-ATCATAAAGAAAAACAA
1 TAAGCATCATAAAGAAAAACAA
1040055 CCATCCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.63, C:0.14, G:0.09, T:0.14
Consensus pattern (23 bp):
TAAGCATCATAAAGAAAAACAAA
Found at i:1040569 original size:25 final size:25
Alignment explanation
Indices: 1040534--1040584 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
1040524 AAAGTTGGTG
* *
1040534 GTGGTCTCCTCCTT-GGTGGCTGGCA
1 GTGGTCCCCT-CTTGGGAGGCTGGCA
1040559 GTGGTCCCCTCTTGGGAGGCTGGCA
1 GTGGTCCCCTCTTGGGAGGCTGGCA
1040584 G
1 G
1040585 CTAGGCATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.06, C:0.27, G:0.39, T:0.27
Consensus pattern (25 bp):
GTGGTCCCCTCTTGGGAGGCTGGCA
Found at i:1041558 original size:22 final size:22
Alignment explanation
Indices: 1041526--1041568 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1041516 TTTATTCACA
*
1041526 ATTTCATTTTTTCATCATTTTT
1 ATTTCAATTTTTCATCATTTTT
**
1041548 ATTTCAATTTTTTTTCATTTT
1 ATTTCAATTTTTCATCATTTT
1041569 GAGTAACATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (22 bp):
ATTTCAATTTTTCATCATTTTT
Found at i:1047405 original size:17 final size:16
Alignment explanation
Indices: 1047363--1047407 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
1047353 ACCTTTCCTT
*
1047363 TCTTTGAGAGAAATTC
1 TCTTTGAGAAAAATTC
1047379 TCTTTCGAGAAAAACTTC
1 TCTTT-GAGAAAAA-TTC
*
1047397 TGTTTGAGAAA
1 TCTTTGAGAAA
1047408 CAAACACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.20
17 13 0.52
18 7 0.28
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (16 bp):
TCTTTGAGAAAAATTC
Found at i:1050476 original size:2 final size:2
Alignment explanation
Indices: 1050469--1050499 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1050459 TGCAAAATAA
1050469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1050500 AACGTTGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1052002 original size:15 final size:14
Alignment explanation
Indices: 1051982--1052021 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
1051972 AATTAACCAA
*
1051982 AAAATAACTGAATAT
1 AAAATAAATGAA-AT
1051997 AAAATAAAATGAAAT
1 AAAAT-AAATGAAAT
1052012 AAAATAAATG
1 AAAATAAATG
1052022 TTTTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 12 0.52
16 6 0.26
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAATAAATGAAAT
Found at i:1068113 original size:65 final size:65
Alignment explanation
Indices: 1067933--1068101 Score: 320
Period size: 65 Copynumber: 2.6 Consensus size: 65
1067923 GATAAAAGGT
* *
1067933 TGCAAATGTTATGATTCGATGCAATTTCCATGTTCATGGACTCAACTTAAGTTACTATAATAGAA
1 TGCAAATGCTACGATTCGATGCAATTTCCATGTTCATGGACTCAACTTAAGTTACTATAATAGAA
1067998 TGCAAATGCTACGATTCGATGCAATTTCCATGTTCATGGACTCAACTTAAGTTACTATAATAGAA
1 TGCAAATGCTACGATTCGATGCAATTTCCATGTTCATGGACTCAACTTAAGTTACTATAATAGAA
1068063 TGCAAATGCTACGATTCGATGCAATTTCCATGTTCATGG
1 TGCAAATGCTACGATTCGATGCAATTTCCATGTTCATGG
1068102 CCTTGACTTA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 102 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (65 bp):
TGCAAATGCTACGATTCGATGCAATTTCCATGTTCATGGACTCAACTTAAGTTACTATAATAGAA
Found at i:1072509 original size:13 final size:13
Alignment explanation
Indices: 1072491--1072535 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
1072481 GGTCTAGAAG
*
1072491 CCGTTTACTTTAC
1 CCGTTTACTTCAC
*
1072504 CCGTTTACTTCAG
1 CCGTTTACTTCAC
*
1072517 CCGTTTACTTCAG
1 CCGTTTACTTCAC
1072530 CCGTTT
1 CCGTTT
1072536 TTCTCAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.13, C:0.31, G:0.13, T:0.42
Consensus pattern (13 bp):
CCGTTTACTTCAC
Found at i:1083928 original size:32 final size:32
Alignment explanation
Indices: 1083892--1083964 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
1083882 TAAGGTGACT
* ** *
1083892 CTTGGGTAAGCTCTTAGGCGCCGAGGTACTCC
1 CTTGGGTAAGCTCTAAAACGCCAAGGTACTCC
* *
1083924 CTTGGGTAGGCTCTAAAACTCCAAGGTACTCC
1 CTTGGGTAAGCTCTAAAACGCCAAGGTACTCC
*
1083956 ATTGGGTAA
1 CTTGGGTAA
1083965 ATCATGGCAC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (32 bp):
CTTGGGTAAGCTCTAAAACGCCAAGGTACTCC
Found at i:1084413 original size:26 final size:26
Alignment explanation
Indices: 1084374--1084427 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
1084364 GAATCAATGG
1084374 ATATGTTATCATGATTCCCAAATTCT
1 ATATGTTATCATGATTCCCAAATTCT
*
1084400 ATATGTTATTATGATTCCCAAATTCT
1 ATATGTTATCATGATTCCCAAATTCT
1084426 AT
1 AT
1084428 GCAAGTGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.44
Consensus pattern (26 bp):
ATATGTTATCATGATTCCCAAATTCT
Found at i:1089110 original size:24 final size:24
Alignment explanation
Indices: 1089078--1089124 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1089068 CACATACTAG
1089078 GAATACTTGGATAAGAAATTACAT
1 GAATACTTGGATAAGAAATTACAT
1089102 GAATACTTGGATAAGAAATTACA
1 GAATACTTGGATAAGAAATTACA
1089125 AAAATACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (24 bp):
GAATACTTGGATAAGAAATTACAT
Found at i:1089130 original size:24 final size:24
Alignment explanation
Indices: 1089079--1089131 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
1089069 ACATACTAGG
**
1089079 AATACTTGGATAAGAAATTACATG
1 AATACTTGGATAAGAAATTACAAA
1089103 AATACTTGGATAAGAAATTACAAA
1 AATACTTGGATAAGAAATTACAAA
1089127 AATAC
1 AATAC
1089132 CCCTACATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.26
Consensus pattern (24 bp):
AATACTTGGATAAGAAATTACAAA
Found at i:1101320 original size:11 final size:11
Alignment explanation
Indices: 1101284--1101314 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1101274 AGATAAGTTT
1101284 CATTGGCATTG
1 CATTGGCATTG
*
1101295 CATTGGAATTG
1 CATTGGCATTG
1101306 CATTGGCAT
1 CATTGGCAT
1101315 CTCATTTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (11 bp):
CATTGGCATTG
Found at i:1111268 original size:22 final size:22
Alignment explanation
Indices: 1111240--1111281 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
1111230 CTAATTTTAA
1111240 TCATCAATTCATATCATCAAAC
1 TCATCAATTCATATCATCAAAC
1111262 TCATCAATTCATATCATCAA
1 TCATCAATTCATATCATCAA
1111282 CTTGTATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.33
Consensus pattern (22 bp):
TCATCAATTCATATCATCAAAC
Found at i:1113169 original size:24 final size:24
Alignment explanation
Indices: 1113111--1113169 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
1113101 ATTTCCGATT
*
1113111 TGAATTTTGTTATGATACGTGACA
1 TGAATTATGTTATGATACGTGACA
* * * *
1113135 TGGATTCTGTTCTGATATC-TGACC
1 TGAATTATGTTATGATA-CGTGACA
1113159 TGAATTATGTT
1 TGAATTATGTT
1113170 TTTATTTTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (24 bp):
TGAATTATGTTATGATACGTGACA
Found at i:1115320 original size:24 final size:24
Alignment explanation
Indices: 1115281--1115342 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
1115271 CGGGTCAACT
1115281 CGTTGACT-TTGACTGAGCCAGCC
1 CGTTGACTGTTGACTGAGCCAGCC
1115304 CGTTGACTGTTGACTGAGCCAGCC
1 CGTTGACTGTTGACTGAGCCAGCC
1115328 CGTTGACTGTTGACT
1 CGTTGACTGTTGACT
1115343 TTGACCAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 8 0.21
24 30 0.79
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.29
Consensus pattern (24 bp):
CGTTGACTGTTGACTGAGCCAGCC
Found at i:1117321 original size:24 final size:24
Alignment explanation
Indices: 1117252--1117331 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
1117242 TTCGATTTGT
* *
1117252 ATTCTGTTATGATACCTGACATGG
1 ATTCTGTTATGATATCTGACCTGG
* *
1117276 ATTGTGTTATGATATCTAACCTGG
1 ATTCTGTTATGATATCTGACCTGG
* *
1117300 ATTCTGTTCTGATATCTGACCTGA
1 ATTCTGTTATGATATCTGACCTGG
*
1117324 ATTATGTT
1 ATTCTGTT
1117332 TTAATTTTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (24 bp):
ATTCTGTTATGATATCTGACCTGG
Found at i:1120978 original size:64 final size:64
Alignment explanation
Indices: 1120865--1120987 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 64
1120855 AGATATAATA
* * * *
1120865 CGGTGTTAATTGATTATTTTCGATTTTATTTGAATACTGATTAGCAGTCGAAATATATTTAAGG
1 CGGTATTAATTGATTAGTTCCGATTTTATTTGAATACTGATTAACAGTCGAAATATATTTAAGG
* * *
1120929 CGGTATTAATTGATTAGTTCCGATTTTATTTGGATACT-AGTTAATAGTCGGAATATATT
1 CGGTATTAATTGATTAGTTCCGATTTTATTTGAATACTGA-TTAACAGTCGAAATATATT
1120988 GTTTCCAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 1 0.02
64 50 0.98
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (64 bp):
CGGTATTAATTGATTAGTTCCGATTTTATTTGAATACTGATTAACAGTCGAAATATATTTAAGG
Found at i:1128750 original size:21 final size:21
Alignment explanation
Indices: 1128726--1128769 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1128716 ATATATTTTA
*
1128726 TTTTATTTTATTAATTAAATC
1 TTTTATTTTATTAACTAAATC
* *
1128747 TTTTATTTTTTTAACTAGATC
1 TTTTATTTTATTAACTAAATC
1128768 TT
1 TT
1128770 ATATATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTATTTTATTAACTAAATC
Found at i:1131393 original size:2 final size:2
Alignment explanation
Indices: 1131386--1131410 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1131376 GGACTCGAAC
1131386 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1131411 CCTTGCTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1133239 original size:42 final size:41
Alignment explanation
Indices: 1133159--1133240 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
1133149 CTATTTTTTA
* * *
1133159 TTTCAAGTAATTTTTTGTTTGATTATATAAATGGATTATAG
1 TTTCAAGTAAATTTTTGTTTGATTAGATAAATGAATTATAG
* **
1133200 TTTCAAGTAAATTTTTGTTTGACTTGGATAGTTGAATTATA
1 TTTCAAGTAAATTTTTGTTTGA-TTAGATAAATGAATTATA
1133241 TAAATGTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 21 0.62
42 13 0.38
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.50
Consensus pattern (41 bp):
TTTCAAGTAAATTTTTGTTTGATTAGATAAATGAATTATAG
Found at i:1135000 original size:131 final size:130
Alignment explanation
Indices: 1134760--1135099 Score: 466
Period size: 131 Copynumber: 2.6 Consensus size: 130
1134750 ATTTTAAGAG
* * * * *
1134760 AGAAAACGATAATATCTGATTATTTCCAATCGTGAATAAATAACCTTTCATGCCTTAAAACAGTC
1 AGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTC
* * *
1134825 ATTTATTACCCCAATTGAAATGAAGAGATATCATTATTTCGTCTTAAAAATCAATATTGATTCGA
66 ATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATT-ATTCGA
1134890 GT
130 -T
* * * * * **
1134892 -GAAAATGATAATATTTAATGATTTCCAATCGAGAATAAATGGCATCTCATGTATTAAAGCAGTC
1 AGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTC
* * *
1134956 ATTTATTGCTCCAATCGAAATGAAGAGATATCACTATTTTGTCTTAAAAATCAATATTATTTGAT
66 ATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTATTCGAT
* * *
1135021 AGAAAACGGTAATATCGAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCGGTC
1 AGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTC
1135086 ATTTATTACTCCAA
66 ATTTATTACTCCAA
1135100 CCAAAATAAA
Statistics
Matches: 178, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
129 1 0.01
130 72 0.40
131 105 0.59
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.34
Consensus pattern (130 bp):
AGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTC
ATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTATTCGAT
Found at i:1136259 original size:19 final size:17
Alignment explanation
Indices: 1136237--1136279 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
1136227 TAAATACAAC
*
1136237 ATTTTTTTCCTTCTTTTT
1 ATTTTTTTCATT-TTTTT
1136255 AATTTTCTTTCATTTTTTT
1 -ATTTT-TTTCATTTTTTT
1136274 ATTTTT
1 ATTTTT
1136280 AGAGAGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 5 0.23
19 10 0.45
20 6 0.27
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTTTTCATTTTTTT
Found at i:1137671 original size:11 final size:11
Alignment explanation
Indices: 1137655--1137714 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
1137645 AATATATAGT
1137655 TTTTGAAAACA
1 TTTTGAAAACA
1137666 TTTTGAAAACA
1 TTTTGAAAACA
* *
1137677 TATAT-AATATATA
1 T-TTTGAA-A-ACA
1137690 GTTTTTGAAAACA
1 --TTTTGAAAACA
1137703 TTTTGAAAACA
1 TTTTGAAAACA
1137714 T
1 T
1137715 ATATATAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
11 26 0.67
12 3 0.08
13 4 0.10
14 3 0.08
15 3 0.08
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:1137680 original size:37 final size:37
Alignment explanation
Indices: 1137631--1137902 Score: 347
Period size: 37 Copynumber: 7.5 Consensus size: 37
1137621 TATAATTTTT
1137631 TTTTG-AAA-ATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
1137666 TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
1137703 TTTTGAAAACATATAT-ATAATATAGTTTTTGAAAACA
1 TTTTGAAAACATATATAAT-ATATAGTTTTTGAAAACA
* * *
1137740 TTTTGATAATATATATAATATGTAG----T-------
1 TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
1137766 TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
1137803 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAAC--ATATATAATATATAGTTTTTGAAAACA
1137842 TTTTTGAAAACCTATATATAATATATAGTTTTTGAAAACA
1 -TTTTGAAAA-C-ATATATAATATATAGTTTTTGAAAACA
*
1137882 CTTTTGAAAATATATATAATA
1 -TTTTGAAAACATATATAATA
1137903 GTTTTTTGAA
Statistics
Matches: 210, Mismatches: 8, Indels: 35
0.83 0.03 0.14
Matches are distributed among these distances:
26 22 0.10
30 1 0.00
33 1 0.00
35 5 0.02
36 5 0.02
37 90 0.43
38 12 0.06
39 27 0.13
40 46 0.22
41 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (37 bp):
TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
Found at i:1137734 original size:63 final size:62
Alignment explanation
Indices: 1137666--1137803 Score: 156
Period size: 63 Copynumber: 2.2 Consensus size: 62
1137656 TTTGAAAACA
* *
1137666 TTTTGAAAACATAT-ATAATATATAGT-TTTTGAAAACATTTTGAAAACATATAT-ATAATATAG
1 TTTTGAAAACATATGATAATATATA-TAATATG--AACATTTTGAAAACATATATAAT-ATATAG
1137728 T
62 T
* * **
1137729 TTTTGAAAACATTTTGATAATATATATAATATGTAGTTTTTGAAAACATATATAATATATAGT
1 TTTTGAAAACA-TATGATAATATATATAATATGAACATTTTGAAAACATATATAATATATAGT
1137792 TTTTGAAAACAT
1 TTTTGAAAACAT
1137804 TTTGAAAACA
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
62 1 0.02
63 46 0.71
64 5 0.08
65 13 0.20
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (62 bp):
TTTTGAAAACATATGATAATATATATAATATGAACATTTTGAAAACATATATAATATATAGT
Found at i:1137769 original size:26 final size:26
Alignment explanation
Indices: 1137740--1137803 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
1137730 TTTGAAAACA
* * *
1137740 TTTTGATAATATATATAATATGTAGT
1 TTTTGAAAACATATATAATATATAGT
1137766 TTTTGAAAACATATATAATATATAGT
1 TTTTGAAAACATATATAATATATAGT
1137792 TTTTGAAAACAT
1 TTTTGAAAACAT
1137804 TTTGAAAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.45
Consensus pattern (26 bp):
TTTTGAAAACATATATAATATATAGT
Found at i:1137786 original size:100 final size:104
Alignment explanation
Indices: 1137666--1137881 Score: 377
Period size: 100 Copynumber: 2.1 Consensus size: 104
1137656 TTTGAAAACA
1137666 TTTTGAAAACATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATAT-A-ATATAGT
1 TTTTGAAAACATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATAGT
* *
1137729 TTTTGAAAACA-TTTTGATAA-TATATATAATATGTAGT
66 TTTTGAAAACATTTTTGAAAACTATATATAATATATAGT
1137766 TTTTGAAAACATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATAGT
1 TTTTGAAAACATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATAGT
1137831 TTTTGAAAACATTTTTGAAAACCTATATATAATATATAGT
66 TTTTGAAAACATTTTTGAAAA-CTATATATAATATATAGT
1137871 TTTTGAAAACA
1 TTTTGAAAACA
1137882 CTTTTGAAAA
Statistics
Matches: 109, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
100 55 0.50
101 1 0.01
102 18 0.17
103 8 0.07
105 27 0.25
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.42
Consensus pattern (104 bp):
TTTTGAAAACATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATAGT
TTTTGAAAACATTTTTGAAAACTATATATAATATATAGT
Found at i:1137804 original size:63 final size:65
Alignment explanation
Indices: 1137703--1137842 Score: 232
Period size: 63 Copynumber: 2.2 Consensus size: 65
1137693 TTTGAAAACA
* *
1137703 TTTTGAAAACATATATATAATATAGTTTTTGAAAACATTTTG-ATA-ATATATATAATATGTAGT
1 TTTTGAAAACATATATATAATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATAGT
1137766 TTTTGAAAACATATATA-ATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATAG
1 TTTTGAAAACATATATATA-ATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATAG
1137830 T
65 T
1137831 TTTTGAAAACAT
1 TTTTGAAAACAT
1137843 TTTTGAAAAC
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
62 1 0.01
63 40 0.56
64 2 0.03
65 29 0.40
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (65 bp):
TTTTGAAAACATATATATAATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATAGT
Found at i:1137858 original size:40 final size:39
Alignment explanation
Indices: 1137765--1137902 Score: 228
Period size: 40 Copynumber: 3.6 Consensus size: 39
1137755 TAATATGTAG
1137765 TTTTTGAAAAC-ATATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAAACTATATATAATATATAGTTTTTGAAAACA
1137803 -TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAAAC-TATATATAATATATAGTTTTTGAAAACA
1137842 TTTTTGAAAACCTATATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAAA-CTATATATAATATATAGTTTTTGAAAACA
*
1137882 CTTTTGAAAA-TATATATAATA
1 TTTTTGAAAACTATATATAATA
1137903 GTTTTTTGAA
Statistics
Matches: 95, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
37 10 0.11
38 11 0.12
39 27 0.28
40 46 0.48
41 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (39 bp):
TTTTTGAAAACTATATATAATATATAGTTTTTGAAAACA
Found at i:1137949 original size:18 final size:17
Alignment explanation
Indices: 1137926--1137961 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1137916 ATTTATATTA
1137926 TATATTATAGTATAGTAT
1 TATATTATA-TATAGTAT
*
1137944 TATATTATATATATTAT
1 TATATTATATATAGTAT
1137961 T
1 T
1137962 TTTTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TATATTATATATAGTAT
Found at i:1137966 original size:1 final size:1
Alignment explanation
Indices: 1137960--1138067 Score: 99
Period size: 1 Copynumber: 108.0 Consensus size: 1
1137950 ATATATATTA
** * * * * *
1137960 TTTTTTTTTTAATTTTTTTTTATTTTTTTTTTATTTTTTTTTTTATTTTTTATTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * *
1138025 ATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1138068 GTGTAATTTG
Statistics
Matches: 83, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:1137985 original size:7 final size:7
Alignment explanation
Indices: 1137955--1138066 Score: 160
Period size: 7 Copynumber: 16.1 Consensus size: 7
1137945 ATATTATATA
1137955 TATTATTT
1 TATT-TTT
1137963 T-TTTTT
1 TATTTTT
1137969 TAATTTTT
1 T-ATTTTT
1137977 T-TTTATT
1 TATTT-TT
*
1137984 TTTTTTT
1 TATTTTT
1137991 TA-TTTT
1 TATTTTT
1137997 T-TTTTT
1 TATTTTT
1138003 TATTTTT
1 TATTTTT
1138010 TATTTTT
1 TATTTTT
1138017 TATTTTT
1 TATTTTT
1138024 TATTTTT
1 TATTTTT
1138031 TATTTTT
1 TATTTTT
1138038 TATTTTT
1 TATTTTT
1138045 TATTTTT
1 TATTTTT
1138052 TATTTTT
1 TATTTTT
1138059 TATTTTT
1 TATTTTT
1138066 T
1 T
1138067 TGTGTAATTT
Statistics
Matches: 97, Mismatches: 1, Indels: 13
0.87 0.01 0.12
Matches are distributed among these distances:
6 17 0.18
7 70 0.72
8 10 0.10
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TATTTTT
Found at i:1138168 original size:21 final size:22
Alignment explanation
Indices: 1138142--1138184 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
1138132 AGGCCTGACC
1138142 CAGCAAACCAACCTGG-CTAAG
1 CAGCAAACCAACCTGGCCTAAG
*
1138163 CAGCAAACCGACCTGGCCTAAG
1 CAGCAAACCAACCTGGCCTAAG
1138185 TTCGCCTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.35, C:0.35, G:0.21, T:0.09
Consensus pattern (22 bp):
CAGCAAACCAACCTGGCCTAAG
Found at i:1139406 original size:13 final size:12
Alignment explanation
Indices: 1139382--1139415 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
1139372 ACATTTGTTA
1139382 TTTATT-TTTTT
1 TTTATTATTTTT
1139393 TTTATTTATTTTT
1 TTTA-TTATTTTT
1139406 TTTATTATTT
1 TTTATTATTT
1139416 AATTTTTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 8 0.38
13 9 0.43
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTATTATTTTT
Found at i:1139407 original size:16 final size:16
Alignment explanation
Indices: 1139379--1139422 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
1139369 CCAACATTTG
1139379 TTATTTATTTTTTTT-
1 TTATTTATTTTTTTTA
1139394 TTATTTATTTTTTTTA
1 TTATTTATTTTTTTTA
1139410 TTATTTAATTTTT
1 TTATTT-ATTTTT
1139423 GTCTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 15 0.56
16 6 0.22
17 6 0.22
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
TTATTTATTTTTTTTA
Found at i:1145178 original size:37 final size:37
Alignment explanation
Indices: 1145128--1145229 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
1145118 GAGTCGAGGG
*
1145128 TTACCTATGTTCTTCAGGACATATGGACAATTACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAATTACAGA
* * *
1145165 TTACCTATGTTCTTTGGGACATATGGACATTTATAGA
1 TTACCTATGTTCTTCGGGACATATGGACAATTACAGA
1145202 TTACCTATGTTCTTCGGGACATATGGAC
1 TTACCTATGTTCTTCGGGACATATGGAC
1145230 TGATTACCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (37 bp):
TTACCTATGTTCTTCGGGACATATGGACAATTACAGA
Found at i:1145956 original size:21 final size:21
Alignment explanation
Indices: 1145932--1145972 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1145922 GTAACAGTAC
*
1145932 TGTAGCAGTGCATCGGTACAT
1 TGTAGCAGTGCATCGATACAT
1145953 TGTAGCAGTGCATCGATACA
1 TGTAGCAGTGCATCGATACA
1145973 CAATTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (21 bp):
TGTAGCAGTGCATCGATACAT
Found at i:1153719 original size:24 final size:25
Alignment explanation
Indices: 1153691--1153765 Score: 118
Period size: 24 Copynumber: 3.0 Consensus size: 25
1153681 TATATAATAT
*
1153691 ATATATATATAAATA-TTTTTGAAA
1 ATATATATATATATAGTTTTTGAAA
1153715 ATATATA-ATATATAGTTTTTGAAA
1 ATATATATATATATAGTTTTTGAAA
1153739 ATATATATAATATATAGTTTTTGAAA
1 ATATATAT-ATATATAGTTTTTGAAA
1153765 A
1 A
1153766 CATTTTGATA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
23 6 0.13
24 23 0.49
26 18 0.38
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (25 bp):
ATATATATATATATAGTTTTTGAAA
Found at i:1153779 original size:26 final size:26
Alignment explanation
Indices: 1153691--1153815 Score: 113
Period size: 26 Copynumber: 5.1 Consensus size: 26
1153681 TATATAATAT
*
1153691 ATATATATATAAATA-TTTTTG-AAA-
1 ATATATA-ATATATAGTTTTTGAAAAC
*
1153715 ATATATAATATATAGTTTTTGAAAAT
1 ATATATAATATATAGTTTTTGAAAAC
1153741 ATATATAATATATAGTTTTTGAAAAC
1 ATATATAATATATAGTTTTTGAAAAC
* * * * * *
1153767 AT-TTTGATA-ATA-TATAT--ATAT
1 ATATATAATATATAGTTTTTGAAAAC
1153788 ATATATAATATATAGTTTTTGAAAAC
1 ATATATAATATATAGTTTTTGAAAAC
1153814 AT
1 AT
1153816 TTTGAAAACA
Statistics
Matches: 79, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
21 4 0.05
22 5 0.06
23 12 0.15
24 19 0.24
25 8 0.10
26 31 0.39
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (26 bp):
ATATATAATATATAGTTTTTGAAAAC
Found at i:1153779 original size:37 final size:37
Alignment explanation
Indices: 1153731--1153935 Score: 176
Period size: 37 Copynumber: 5.4 Consensus size: 37
1153721 AATATATAGT
1153731 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
1153768 TTTTGATAATATATATATATATATATAATATATAGTTTTTGAAAACA
1 TTTTG-------A-A-A-ATATATATAATATATAGTTTTTGAAAACA
* *
1153815 TTTTGAAAACATGTATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
* *
1153852 TTTTGAAAACATATATAAAATAAATAGTTTTTGAAAAC-
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAACA
* *
1153890 --------CTATATATAATATATAGGTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
1153919 CTTTTGAAAATATATAT
1 -TTTTGAAAATATATAT
1153936 TATAGTTTTT
Statistics
Matches: 135, Mismatches: 11, Indels: 43
0.71 0.06 0.23
Matches are distributed among these distances:
28 24 0.18
37 37 0.27
38 11 0.08
39 25 0.19
40 1 0.01
44 1 0.01
45 1 0.01
46 1 0.01
47 34 0.25
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:1153797 original size:47 final size:46
Alignment explanation
Indices: 1153738--1153838 Score: 166
Period size: 47 Copynumber: 2.2 Consensus size: 46
1153728 AGTTTTTGAA
* *
1153738 AATATATATAATATATAGTTTTTGAAAACATTTTGATAATATATAT
1 AATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATAT
*
1153784 ATATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATGTAT
1 A-ATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATAT
1153831 AATATATA
1 AATATATA
1153839 GTTTTTGAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 8 0.16
47 43 0.84
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.44
Consensus pattern (46 bp):
AATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATAT
Found at i:1153818 original size:11 final size:11
Alignment explanation
Indices: 1153804--1153863 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
1153794 AATATATAGT
1153804 TTTTGAAAACA
1 TTTTGAAAACA
1153815 TTTTGAAAACA
1 TTTTGAAAACA
* *
1153826 TGTAT-AATATATA
1 T-TTTGAA-A-ACA
1153839 GTTTTTGAAAACA
1 --TTTTGAAAACA
1153852 TTTTGAAAACA
1 TTTTGAAAACA
1153863 T
1 T
1153864 ATATAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
11 26 0.67
12 3 0.08
13 4 0.10
14 3 0.08
15 3 0.08
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:1153930 original size:29 final size:29
Alignment explanation
Indices: 1153852--1153934 Score: 100
Period size: 28 Copynumber: 2.9 Consensus size: 29
1153842 TTTGAAAACA
* *
1153852 TTTTGAAAACA-TATATAAAATAAATAGT
1 TTTTGAAAACACTATATAAAATATATAGG
*
1153880 TTTTGAAAAC-CTATATATAATATATAGG
1 TTTTGAAAACACTATATAAAATATATAGG
*
1153908 TTTTGAAAACACT-TTTGAAAATATATA
1 TTTTGAAAACACTATAT-AAAATATATA
1153935 TTATAGTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 36 0.77
29 11 0.23
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (29 bp):
TTTTGAAAACACTATATAAAATATATAGG
Found at i:1153965 original size:5 final size:5
Alignment explanation
Indices: 1153963--1154021 Score: 59
Period size: 5 Copynumber: 11.2 Consensus size: 5
1153953 ATTTATATTA
1153963 TATAT TATAGT ATAGTAT TATAT TATAT TATA- TATAT TATA- TATAT
1 TATAT TATA-T -TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT
1154009 TATTTAT TATAT T
1 TA--TAT TATAT T
1154022 GGTTTATTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
4 8 0.17
5 26 0.55
6 3 0.06
7 8 0.17
8 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:1153968 original size:7 final size:7
Alignment explanation
Indices: 1153951--1154020 Score: 54
Period size: 7 Copynumber: 9.3 Consensus size: 7
1153941 TTTTTTGAAA
1153951 ATATT-T
1 ATATTAT
1153957 ATATTAT
1 ATATTAT
1153964 ATATTAT
1 ATATTAT
1153971 AGTATAGTATT
1 A-TAT--TA-T
1153982 ATATTAT
1 ATATTAT
1153989 AT-TATAT
1 ATAT-TAT
1153996 ATATTATAT
1 ATA-T-TAT
1154005 ATATTAT
1 ATATTAT
*
1154012 TTATTAT
1 ATATTAT
1154019 AT
1 AT
1154021 TGGTTTATTA
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
6 6 0.11
7 27 0.50
8 6 0.11
9 8 0.15
10 5 0.09
11 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (7 bp):
ATATTAT
Found at i:1153983 original size:25 final size:24
Alignment explanation
Indices: 1153955--1154020 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 24
1153945 TTGAAAATAT
1153955 TTATATTATATATTATAGTATAGTA
1 TTATATTATATATTATA-TATAGTA
*
1153980 TTATA-T-TATATTATATATATTA
1 TTATATTATATATTATATATAGTA
*
1154002 TATATATTATTTATTATAT
1 T-TATATTATATATTATAT
1154021 TGGTTTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.19
23 13 0.36
24 2 0.06
25 14 0.39
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (24 bp):
TTATATTATATATTATATATAGTA
Found at i:1153986 original size:18 final size:16
Alignment explanation
Indices: 1153951--1154020 Score: 71
Period size: 14 Copynumber: 4.6 Consensus size: 16
1153941 TTTTTTGAAA
1153951 ATATT-TATAT-TA-T
1 ATATTATATATATATT
1153964 ATATTATAGTATAGTATT
1 ATATTATA-TATA-TATT
1153982 ATATTATAT-TATA-T
1 ATATTATATATATATT
1153996 ATATTATATATATTATT
1 ATATTATATATA-TATT
1154013 -TATTATAT
1 ATATTATAT
1154021 TGGTTTATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
13 5 0.10
14 12 0.24
15 7 0.14
16 12 0.24
17 4 0.08
18 9 0.18
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATATTATATATATATT
Found at i:1153993 original size:23 final size:23
Alignment explanation
Indices: 1153956--1154020 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
1153946 TGAAAATATT
1153956 TATAT-TA-TATATTATAGTATAG
1 TATATATATTATATTATA-TATAG
*
1153978 TAT-TATATTATATTATATATAT
1 TATATATATTATATTATATATAG
1154000 TATATATATTAT-TTATTATAT
1 TATATATATTATATTA-TATAT
1154021 TGGTTTATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 1 0.03
22 15 0.39
23 22 0.58
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (23 bp):
TATATATATTATATTATATATAG
Found at i:1154034 original size:7 final size:7
Alignment explanation
Indices: 1153978--1154065 Score: 65
Period size: 7 Copynumber: 12.1 Consensus size: 7
1153968 TATAGTATAG
1153978 TATTATAT
1 TATT-TAT
1153986 TATATTAT
1 TAT-TTAT
1153994 ATATATTA-
1 -TAT-TTAT
*
1154002 TATATAT
1 TATTTAT
1154009 TATTTAT
1 TATTTAT
1154016 TA--TAT
1 TATTTAT
*
1154021 TGGTTTAT
1 T-ATTTAT
1154029 TATTTAT
1 TATTTAT
1154036 TATTTAT
1 TATTTAT
*
1154043 TATCTTTT
1 TAT-TTAT
*
1154051 TATTTTT
1 TATTTAT
1154058 TATTTAT
1 TATTTAT
1154065 T
1 T
1154066 TTCTGTTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
5 4 0.06
6 2 0.03
7 37 0.55
8 16 0.24
9 8 0.12
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (7 bp):
TATTTAT
Found at i:1154043 original size:14 final size:14
Alignment explanation
Indices: 1153978--1154065 Score: 65
Period size: 15 Copynumber: 6.1 Consensus size: 14
1153968 TATAGTATAG
1153978 TATTATATTATATTAT
1 TATT-TATTAT-TTAT
*
1153994 ATATATTA-TATATAT
1 -TAT-TTATTATTTAT
1154009 TATTTATTA--TAT
1 TATTTATTATTTAT
*
1154021 TGGTTTATTATTTAT
1 T-ATTTATTATTTAT
*
1154036 TATTTATTATCTTTT
1 TATTTATTAT-TTAT
*
1154051 TATTTTTTATTTAT
1 TATTTATTATTTAT
1154065 T
1 T
1154066 TTCTGTTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
12 4 0.07
13 10 0.17
14 17 0.29
15 19 0.32
16 3 0.05
17 5 0.08
18 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (14 bp):
TATTTATTATTTAT
Found at i:1154053 original size:22 final size:23
Alignment explanation
Indices: 1154028--1154074 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1154018 TATTGGTTTA
1154028 TTATTTATTATTTATTATCT-TT
1 TTATTTATTATTTATTATCTGTT
* *
1154050 TTATTTTTTATTTATTTTCTGTT
1 TTATTTATTATTTATTATCTGTT
1154073 TT
1 TT
1154075 TTTGTGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (23 bp):
TTATTTATTATTTATTATCTGTT
Found at i:1161749 original size:2 final size:2
Alignment explanation
Indices: 1161744--1161802 Score: 97
Period size: 2 Copynumber: 31.0 Consensus size: 2
1161734 ATCGATCATA
1161744 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1161784 AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT
1161803 TAAAAGTTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 3 0.06
2 51 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1168822 original size:17 final size:17
Alignment explanation
Indices: 1168800--1168832 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1168790 TGTCAGCAGC
1168800 TTGGTGTTGGACTTGTA
1 TTGGTGTTGGACTTGTA
1168817 TTGGTGTTGGACTTGT
1 TTGGTGTTGGACTTGT
1168833 GTATTCTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.36, T:0.48
Consensus pattern (17 bp):
TTGGTGTTGGACTTGTA
Found at i:1168922 original size:9 final size:8
Alignment explanation
Indices: 1168908--1168996 Score: 83
Period size: 9 Copynumber: 10.2 Consensus size: 8
1168898 AATTATAAAG
1168908 TAATAATA
1 TAATAATA
1168916 TTAATAATAA
1 -TAATAAT-A
1168926 TAATAATA
1 TAATAATA
1168934 -AAT-ATAA
1 TAATAAT-A
1168941 TAATAATA
1 TAATAATA
1168949 TAATAATAA
1 TAATAAT-A
1168958 TAATAAATA
1 TAAT-AATA
1168967 TAATATATAA
1 TAATA-AT-A
1168977 TAATAAGTA
1 TAATAA-TA
1168986 TAATATATA
1 TAATA-ATA
1168995 TA
1 TA
1168997 TTTTTAATCC
Statistics
Matches: 70, Mismatches: 0, Indels: 20
0.78 0.00 0.22
Matches are distributed among these distances:
6 2 0.03
7 4 0.06
8 13 0.19
9 39 0.56
10 12 0.17
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (8 bp):
TAATAATA
Found at i:1168923 original size:3 final size:3
Alignment explanation
Indices: 1168908--1168982 Score: 93
Period size: 3 Copynumber: 25.0 Consensus size: 3
1168898 AATTATAAAG
*
1168908 TAA TAA TAT TAA TAA TAA TAA TAA TAA -ATA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
1168952 TAA TAA TAA TAA -ATA TAA TATA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA
1168983 GTATAATATA
Statistics
Matches: 64, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
2 4 0.06
3 55 0.86
4 5 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1168988 original size:6 final size:5
Alignment explanation
Indices: 1168910--1168996 Score: 65
Period size: 6 Copynumber: 16.6 Consensus size: 5
1168900 TTATAAAGTA
1168910 ATAAT ATTAAT AATAAT AATAAT A-AAT ATAAT AATAAT ATAAT AATAAT
1 ATAAT A-TAAT -ATAAT -ATAAT ATAAT ATAAT -ATAAT ATAAT -ATAAT
*
1168959 AATAAAT ATAAT AT-AT AATAAT A-AGT ATAAT AT-AT ATA
1 -AT-AAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATA
1168997 TTTTTAATCC
Statistics
Matches: 70, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
4 13 0.19
5 22 0.31
6 31 0.44
7 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:1169322 original size:105 final size:104
Alignment explanation
Indices: 1169123--1169415 Score: 399
Period size: 105 Copynumber: 2.7 Consensus size: 104
1169113 TTGTTGGATT
** *
1169123 GAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTTGTGGATAAGTTCTTATCATTATAAACTCT
1 GAACAAGTTCTTCTCATTATGAAC-T-TTCTC-CTT-TGGACGAGTTCTTCTCATTATAAACTCT
*
1169188 TCACTGAAAATGTTGAGTCACCTCCTTCTGTGGTGGACTTGAAAG
62 T--CTGAAAATGTTGAGTCACCTCCTTCTGTGGTGAACTTGAAAG
* *
1169233 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTCATTATTAACTCTTCT
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTT-GGACGAGTTCTTCTCATTATAAACTCTTCT
* *
1169298 GGAAATGTTG-GTTCACCTCCTTCTGTGGTGAATTTGAAAG
65 GAAAATGTTGAG-TCACCTCCTTCTGTGGTGAACTTGAAAG
*
1169338 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTTGGACGAGTTCTTCTCATTATGAACTCTTCA
1 GAACAAGTTCTTCTCATTATGAACTTTCTCC-TTTGGACGAGTTCTTCTCATTATAAACTCTT--
1169403 CTGAAAATGTTGA
63 CTGAAAATGTTGA
1169416 TCCCTCAAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
104 1 0.01
105 94 0.57
106 4 0.02
107 37 0.22
108 5 0.03
109 1 0.01
110 24 0.14
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (104 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTGGACGAGTTCTTCTCATTATAAACTCTTCTG
AAAATGTTGAGTCACCTCCTTCTGTGGTGAACTTGAAAG
Found at i:1169575 original size:92 final size:91
Alignment explanation
Indices: 1169464--1169632 Score: 275
Period size: 92 Copynumber: 1.8 Consensus size: 91
1169454 ATCGAGTGAT
1169464 AGGTCGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTC-GTCGGATGAGTTCTTCTCATTAT
* *
1169529 GAACTCTTCATTGGAAACACTGATGCG
65 GAACACTCCATTGGAAACACTGATGCG
* * * *
1169556 AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGTATGAGTTCTTCTCATTATG
1 AGGTCGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCGTCGGATGAGTTCTTCTCATTATG
1169621 AACACTCCATTG
66 AACACTCCATTG
1169633 AAAATGTTGA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 32 0.45
92 39 0.55
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (91 bp):
AGGTCGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCGTCGGATGAGTTCTTCTCATTATG
AACACTCCATTGGAAACACTGATGCG
Found at i:1169652 original size:227 final size:227
Alignment explanation
Indices: 1169338--1169872 Score: 889
Period size: 227 Copynumber: 2.4 Consensus size: 227
1169328 AATTTGAAAG
* *
1169338 GAACAAGTTCTTCTCATTATGAAC-T-TTC-TCCT-TTTGGACGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
* * * *
1169399 TTCACTGAAAATGTTGATCCCTCAAGCAAGGCATCACTAATTTGAAATACCGTGAATCGAGTGAT
66 TCCATTGAAAATGTTGATCCCTCAAGCAAGACATCACTAATTCGAAATACCGTGAATCGAGTGAT
* *
1169464 AGGTCGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
131 AGGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
*
1169529 GAACTCTTCATTGGAAACACTGATGCGAGGTC
196 GAACTCTTCATTGGAAACAATGATGCGAGGTC
* *
1169561 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGTATGAGTTCTTCTCATTATGAACAC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
* * **
1169626 TCCATTGAAAATGTTGATCCCTCAAGCGAGACATCACTGATTCGAAATGTCGTGAATCGAGTGAT
66 TCCATTGAAAATGTTGATCCCTCAAGCAAGACATCACTAATTCGAAATACCGTGAATCGAGTGAT
*
1169691 AGGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCCCTTTGTCAGATGAGTTCTTCTCATTAT
131 AGGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
1169756 GAACTCTTCATTGGAAACAATGATGCGAGGTC
196 GAACTCTTCATTGGAAACAATGATGCGAGGTC
*
1169788 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGATTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
1169853 TCCATTGAAAATGTTGATCC
66 TCCATTGAAAATGTTGATCC
1169873 ACCTCTTTTT
Statistics
Matches: 289, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
223 24 0.08
224 1 0.00
225 3 0.01
226 4 0.01
227 257 0.89
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (227 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
TCCATTGAAAATGTTGATCCCTCAAGCAAGACATCACTAATTCGAAATACCGTGAATCGAGTGAT
AGGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
GAACTCTTCATTGGAAACAATGATGCGAGGTC
Found at i:1169859 original size:91 final size:92
Alignment explanation
Indices: 1169691--1169859 Score: 259
Period size: 92 Copynumber: 1.8 Consensus size: 92
1169681 ATCGAGTGAT
*
1169691 AGGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCCCTTTGTCAGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCCCTTCGTCAGATGAGTTCTTCTCATTAT
*
1169756 GAACTCTTCATTGGAAACAATGATGCG
66 GAACTCTCCATTGGAAACAATGATGCG
* * * ** *
1169783 AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCGTTGGATGATTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCCCTTCGTCAGATGAGTTCTTCTCATTAT
1169847 GAACTCTCCATTG
66 GAACTCTCCATTG
1169860 AAAATGTTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
91 33 0.48
92 36 0.52
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (92 bp):
AGGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCCCTTCGTCAGATGAGTTCTTCTCATTAT
GAACTCTCCATTGGAAACAATGATGCG
Found at i:1170001 original size:118 final size:110
Alignment explanation
Indices: 1169783--1170103 Score: 402
Period size: 118 Copynumber: 2.9 Consensus size: 110
1169773 CAATGATGCG
*
1169783 AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGATTTCTTCTCATTATG
1 AGGT-GAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTC-TTGGATGAGTTCTTCTCATTATG
* * *
1169848 AACTCTCCATTGAAAATGTTGATCCACCTCTTTTTGCGATGGACTCGAAACCA
63 AACTCT-CACTGGAAATGTTGATCCACCTCCTTTTGCGATGGACTC--AA--A
1169901 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATG
1 AGG-TGAACAAGTTCTTCTCATTATGAACTTCTTCT-CCTC-TTGGATGAGTTCTTCTCATTATG
1169966 AACTCTCTACTGGAAATGTTGATCCACCTCCTTTTGCGATGGACTCAAA
63 AACTCTC-ACTGGAAATGTTGATCCACCTCCTTTTGCGATGGACTCAAA
* *
1170015 A-G-GAACAAGTTCTTCTCATTATAAAC-T-TTCTCCT-TTAGGACGAGTTCTTCTCATTATGAA
1 AGGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTCTT-GGATGAGTTCTTCTCATTATGAA
* * *
1170075 CTCTC-CTGGAAATATTGGTTCACCTCCTT
65 CTCTCACTGGAAATGTTGATCCACCTCCTT
1170104 CTACGGTGGA
Statistics
Matches: 189, Mismatches: 10, Indels: 21
0.86 0.05 0.10
Matches are distributed among these distances:
105 21 0.11
106 2 0.01
107 27 0.14
108 3 0.02
109 4 0.02
110 1 0.01
111 23 0.12
113 1 0.01
114 2 0.01
116 2 0.01
117 2 0.01
118 100 0.53
119 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (110 bp):
AGGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTCTTGGATGAGTTCTTCTCATTATGAAC
TCTCACTGGAAATGTTGATCCACCTCCTTTTGCGATGGACTCAAA
Found at i:1170981 original size:19 final size:20
Alignment explanation
Indices: 1170959--1170996 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1170949 AACCCTCCTT
1170959 TTTCTCTCTTCAT-TTTTTC
1 TTTCTCTCTTCATCTTTTTC
* *
1170978 TTTCTTTTTTCATCTTTTT
1 TTTCTCTCTTCATCTTTTT
1170997 ATTTGTTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTCTCTCTTCATCTTTTTC
Found at i:1184186 original size:17 final size:17
Alignment explanation
Indices: 1184164--1184196 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1184154 GGTCAGTAGC
1184164 TTGGTGTTGGACTTGTA
1 TTGGTGTTGGACTTGTA
*
1184181 TTGGTGTTGGGCTTGT
1 TTGGTGTTGGACTTGT
1184197 GTATTCTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.06, G:0.39, T:0.48
Consensus pattern (17 bp):
TTGGTGTTGGACTTGTA
Found at i:1184276 original size:3 final size:3
Alignment explanation
Indices: 1184264--1184336 Score: 89
Period size: 3 Copynumber: 24.3 Consensus size: 3
1184254 TGCAAAAATT
*
1184264 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A TACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
1184308 ATA ATA ATA A-A TATA ATA TATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA -ATA ATA ATA A
1184337 GTGTAATATA
Statistics
Matches: 63, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
2 4 0.06
3 54 0.86
4 5 0.08
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1184343 original size:19 final size:19
Alignment explanation
Indices: 1184268--1184348 Score: 82
Period size: 19 Copynumber: 4.4 Consensus size: 19
1184258 AAAATTATAA
1184268 AATA-ATAATAAT-AATAAT
1 AATATATAATAATAAAT-AT
1184286 AATA-ATAATAAT-AATA-
1 AATATATAATAATAAATAT
*
1184302 AATACAATAATAATAAATAT
1 AATA-TATAATAATAAATAT
* *
1184322 AATATATAATAATAAGTGT
1 AATATATAATAATAAATAT
1184341 AATATATA
1 AATATATA
1184349 TTTTTTAATC
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
16 4 0.07
17 1 0.02
18 23 0.41
19 24 0.43
20 4 0.07
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (19 bp):
AATATATAATAATAAATAT
Found at i:1190535 original size:30 final size:29
Alignment explanation
Indices: 1190462--1190537 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 29
1190452 GAACCAGTTG
* * *
1190462 AAAACCGGTAGAACCGGTTAAGAACCGGT
1 AAAACCGGTTGAACCGGTGAAGAACCGGC
* *
1190491 AAAATCGGGGTGAACCGGCTGAA-AACCGGC
1 AAAA-CCGGTTGAACCGG-TGAAGAACCGGC
1190521 AAAACCGGTTTGAACCG
1 AAAACCGG-TTGAACCG
1190538 CCGGTTCACT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
29 7 0.19
30 27 0.73
31 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.29, T:0.13
Consensus pattern (29 bp):
AAAACCGGTTGAACCGGTGAAGAACCGGC
Found at i:1190792 original size:24 final size:25
Alignment explanation
Indices: 1190756--1190802 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
1190746 GAACTCAAAA
1190756 AAAATTAGAAGCTCGATTGAAGCCT
1 AAAATTAGAAGCTCGATTGAAGCCT
*
1190781 AAAATTTG-AGCTCGATTGAAGC
1 AAAATTAGAAGCTCGATTGAAGC
1190803 GAAAGAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAATTAGAAGCTCGATTGAAGCCT
Found at i:1192478 original size:29 final size:28
Alignment explanation
Indices: 1192364--1192512 Score: 102
Period size: 29 Copynumber: 5.1 Consensus size: 28
1192354 CGTCGCACGG
** * *
1192364 AAATAATTCGTAAGTGGTGATATTTTGGT
1 AAATAATTCGT-TTTGGTGCTATTCTGGT
* * *
1192393 AAATAATCCGATTTTGGTCCTATTTTGGT
1 AAATAATTCG-TTTTGGTGCTATTCTGGT
* * *
1192422 AAATAATTTTGTTTTAGTGCTATACTGGT
1 AAATAA-TTCGTTTTGGTGCTATTCTGGT
* *
1192451 AATTAATTCGATTTTGGTGCTATTCTGGG
1 AAATAATTCG-TTTTGGTGCTATTCTGGT
* *
1192480 AATTAAATTCTGTTTGGGTGCTATT-TGTGT
1 AAAT-AATTC-GTTTTGGTGCTATTCTG-GT
1192510 AAA
1 AAA
1192513 ATTCGGGTGT
Statistics
Matches: 95, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
28 3 0.03
29 68 0.72
30 23 0.24
31 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (28 bp):
AAATAATTCGTTTTGGTGCTATTCTGGT
Found at i:1192500 original size:30 final size:29
Alignment explanation
Indices: 1192438--1192504 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
1192428 TTTTGTTTTA
* * *
1192438 GTGCTATACTGGTAATTAATTCGATTTTG
1 GTGCTATTCTGGGAATTAATTCGATTTGG
1192467 GTGCTATTCTGGGAATTAAATTCTG-TTTGG
1 GTGCTATTCTGGGAATT-AATTC-GATTTGG
1192497 GTGCTATT
1 GTGCTATT
1192505 TGTGTAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 15 0.45
30 17 0.52
31 1 0.03
ACGTcount: A:0.21, C:0.10, G:0.24, T:0.45
Consensus pattern (29 bp):
GTGCTATTCTGGGAATTAATTCGATTTGG
Found at i:1193638 original size:63 final size:63
Alignment explanation
Indices: 1193539--1193661 Score: 228
Period size: 63 Copynumber: 2.0 Consensus size: 63
1193529 TAATCCTAGG
* *
1193539 AGAGTTTGTGAATGATACTAGAAGTCTGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTTAGA
1 AGAGTTTGTGAAGGATACTAGAAGTATGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTTAGA
1193602 AGAGTTTGTGAAGGATACTAGAAGTATGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTT
1 AGAGTTTGTGAAGGATACTAGAAGTATGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTT
1193662 CAAGAAAGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (63 bp):
AGAGTTTGTGAAGGATACTAGAAGTATGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTTAGA
Found at i:1195156 original size:24 final size:24
Alignment explanation
Indices: 1195129--1195247 Score: 159
Period size: 24 Copynumber: 5.0 Consensus size: 24
1195119 TTCGATTTGA
1195129 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
* *
1195153 ATTCTGATATGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
1195177 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
1195201 ATTTTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
1195225 ATTTTGATATGATACTTGACATG
1 ATTCTGATCTGATACTTGACATG
1195248 ATTTATGTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.01
24 82 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:1197330 original size:29 final size:29
Alignment explanation
Indices: 1197284--1197394 Score: 134
Period size: 29 Copynumber: 3.8 Consensus size: 29
1197274 CGTCGCACGG
*** *
1197284 AAATAATTCGAAAGTGGTGATATTTTGGT
1 AAATAATTCGATTTTGGTGCTATTTTGGT
*
1197313 AAATAATCCGATTTTGGTGCTATTTTGGT
1 AAATAATTCGATTTTGGTGCTATTTTGGT
* *
1197342 AAATAATTC-AGTTTTTGTGCTATTCTGGT
1 AAATAATTCGA-TTTTGGTGCTATTTTGGT
*
1197371 AATTAATTCGATTTTGGTGCTATT
1 AAATAATTCGATTTTGGTGCTATT
1197395 CTGGGAATTA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 1 0.01
29 68 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (29 bp):
AAATAATTCGATTTTGGTGCTATTTTGGT
Found at i:1197416 original size:29 final size:29
Alignment explanation
Indices: 1197316--1197405 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 29
1197306 TTTTGGTAAA
* * * * *
1197316 TAATCCGATTTTGGTGCTATTTTGGTAAA
1 TAATTCGATTTGGGTGCTATTCTGGGAAT
** *
1197345 TAATTC-AGTTTTTGTGCTATTCTGGTAAT
1 TAATTCGA-TTTGGGTGCTATTCTGGGAAT
*
1197374 TAATTCGATTTTGGTGCTATTCTGGGAAT
1 TAATTCGATTTGGGTGCTATTCTGGGAAT
1197403 TAA
1 TAA
1197406 ATTTTGTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.02
29 51 0.96
30 1 0.02
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.47
Consensus pattern (29 bp):
TAATTCGATTTGGGTGCTATTCTGGGAAT
Found at i:1198548 original size:63 final size:63
Alignment explanation
Indices: 1198449--1198571 Score: 228
Period size: 63 Copynumber: 2.0 Consensus size: 63
1198439 TAATCCTAGG
* *
1198449 AGAGTTTGTGAATGATACTAGAAGTCTGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTTAGA
1 AGAGTTTGTGAAGGATACTAGAAGTATGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTTAGA
1198512 AGAGTTTGTGAAGGATACTAGAAGTATGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTT
1 AGAGTTTGTGAAGGATACTAGAAGTATGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTT
1198572 CAAGAAAGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (63 bp):
AGAGTTTGTGAAGGATACTAGAAGTATGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTTAGA
Found at i:1200067 original size:24 final size:24
Alignment explanation
Indices: 1200040--1200158 Score: 159
Period size: 24 Copynumber: 5.0 Consensus size: 24
1200030 TTCGATTTGA
1200040 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
* *
1200064 ATTCTGATATGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
1200088 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
1200112 ATTTTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
1200136 ATTTTGATATGATACTTGACATG
1 ATTCTGATCTGATACTTGACATG
1200159 ATTTATGTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.01
24 82 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:1202240 original size:29 final size:29
Alignment explanation
Indices: 1202194--1202304 Score: 134
Period size: 29 Copynumber: 3.8 Consensus size: 29
1202184 CGTCGCACGG
*** *
1202194 AAATAATTCGAAAGTGGTGATATTTTGGT
1 AAATAATTCGATTTTGGTGCTATTTTGGT
*
1202223 AAATAATCCGATTTTGGTGCTATTTTGGT
1 AAATAATTCGATTTTGGTGCTATTTTGGT
* *
1202252 AAATAATTC-AGTTTTTGTGCTATTCTGGT
1 AAATAATTCGA-TTTTGGTGCTATTTTGGT
*
1202281 AATTAATTCGATTTTGGTGCTATT
1 AAATAATTCGATTTTGGTGCTATT
1202305 CTGGGAATTA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 1 0.01
29 68 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (29 bp):
AAATAATTCGATTTTGGTGCTATTTTGGT
Found at i:1202326 original size:29 final size:29
Alignment explanation
Indices: 1202226--1202315 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 29
1202216 TTTTGGTAAA
* * * * *
1202226 TAATCCGATTTTGGTGCTATTTTGGTAAA
1 TAATTCGATTTGGGTGCTATTCTGGGAAT
** *
1202255 TAATTC-AGTTTTTGTGCTATTCTGGTAAT
1 TAATTCGA-TTTGGGTGCTATTCTGGGAAT
*
1202284 TAATTCGATTTTGGTGCTATTCTGGGAAT
1 TAATTCGATTTGGGTGCTATTCTGGGAAT
1202313 TAA
1 TAA
1202316 ATTTTGTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.02
29 51 0.96
30 1 0.02
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.47
Consensus pattern (29 bp):
TAATTCGATTTGGGTGCTATTCTGGGAAT
Found at i:1203461 original size:63 final size:63
Alignment explanation
Indices: 1203362--1203481 Score: 222
Period size: 63 Copynumber: 1.9 Consensus size: 63
1203352 TCCTAGGAGT
* *
1203362 GTTTGTGAATGATACTAGAAGTCTGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTTAGAAGA
1 GTTTGTGAAGGATACTAGAAGTATGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTTAGAAGA
1203425 GTTTGTGAAGGATACTAGAAGTATGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTT
1 GTTTGTGAAGGATACTAGAAGTATGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTT
1203482 CAAGAAAGCA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (63 bp):
GTTTGTGAAGGATACTAGAAGTATGTTAAGAGAACCGTTTCAAGATCAGAGAGTGTTAGAAGA
Found at i:1205068 original size:24 final size:24
Alignment explanation
Indices: 1204951--1205066 Score: 153
Period size: 24 Copynumber: 4.8 Consensus size: 24
1204941 TTCGATTTGA
*
1204951 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
* *
1204975 ATTCTAATATGATA-TCTGACATAG
1 ATTCTGATATGATACT-TGACATGG
*
1204999 ATTCTGATATGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
* *
1205023 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
1205047 ATTTTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
1205067 CTAATTTATG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 1 0.01
24 78 0.98
25 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.40
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Done.