Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 237 of 279
Found at i:77392296 original size:16 final size:16
Alignment explanation
Indices: 77392211--77392298 Score: 115
Period size: 16 Copynumber: 5.5 Consensus size: 16
77392201 CGTTTGGTTG
*
77392211 GCTGTAATGGAATAGG
1 GCTGTAATGGAATAGA
*
77392227 GCTGTAATGAAATAG-
1 GCTGTAATGGAATAGA
*
77392242 GACTGTAATTGAATAGA
1 G-CTGTAATGGAATAGA
77392259 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
77392275 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAGA
*
77392291 GTTGTAAT
1 GCTGTAAT
77392299 AAGTAATTCA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
15 1 0.02
16 62 0.97
17 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:77392332 original size:46 final size:44
Alignment explanation
Indices: 77392280--77392373 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
77392270 ATAGAGCTGT
*
77392280 AATGGAATA-AAGTTGTAATAAGTAATTCAACTGTTTGGTTGAATGA
1 AATGGAATAGAA-CTGTAATAA-T-ATTCAACTGTTTGGTTGAATGA
*** *
77392326 AATGGAATAGAACTGTAATAATATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAATATTCAACTGTTTGGTTGAATGA
77392370 AATG
1 AATG
77392374 ATGTTGTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 22 0.52
45 1 0.02
46 17 0.40
47 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAATATTCAACTGTTTGGTTGAATGA
Found at i:77392541 original size:58 final size:56
Alignment explanation
Indices: 77392478--77392601 Score: 151
Period size: 58 Copynumber: 2.2 Consensus size: 56
77392468 TTTTAATAAG
* * *
77392478 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAGTTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAATAAAAA-AAT--ATAATTTAACAACATTCTTAACATA
** * *
77392536 ATTATTATTAATTATAATTTAATAAAAAAATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAAAAATATAATTTAACAACATTCTTAACATA
77392592 ATTATTATTA
1 ATTATTATTA
77392602 TATGAATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
55 12 0.21
56 17 0.29
57 3 0.05
58 26 0.45
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (56 bp):
ATTATTATTAAAAATAATTTAATAAAAAAATATAATTTAACAACATTCTTAACATA
Found at i:77394234 original size:26 final size:26
Alignment explanation
Indices: 77394205--77394281 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
77394195 AAAAAAATTC
77394205 AAAATGTATTAAAACCATTAAAAATA
1 AAAATGTATTAAAACCATTAAAAATA
* *
77394231 AAAATTGT-TT--AA-GA--AAAACT-
1 AAAA-TGTATTAAAACCATTAAAAATA
77394251 AAAATGTATTAAAACCATTAAAAATA
1 AAAATGTATTAAAACCATTAAAAATA
77394277 AAAAT
1 AAAAT
77394282 TACAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 3 0.08
20 6 0.15
21 5 0.13
22 2 0.05
23 2 0.05
24 2 0.05
25 5 0.13
26 11 0.28
27 3 0.08
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.27
Consensus pattern (26 bp):
AAAATGTATTAAAACCATTAAAAATA
Found at i:77394300 original size:46 final size:46
Alignment explanation
Indices: 77394194--77394291 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 46
77394184 TAGTACAATA
* **
77394194 AAAAAAAATTCAAAATGTATTAAAACCATTAAAAATAAAAATTGTTT
1 AAAAAAAACT-AAAATGTATTAAAACCATTAAAAATAAAAATTGTAC
*
77394241 AAGAAAAACTAAAATGTATTAAAACCATTAAAAATAAAAA-T-TAC
1 AAAAAAAACTAAAATGTATTAAAACCATTAAAAATAAAAATTGTAC
77394285 AAAAAAA
1 AAAAAAA
77394292 GTATTAAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 7 0.15
45 1 0.02
46 30 0.65
47 8 0.17
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.24
Consensus pattern (46 bp):
AAAAAAAACTAAAATGTATTAAAACCATTAAAAATAAAAATTGTAC
Found at i:77401767 original size:23 final size:22
Alignment explanation
Indices: 77401737--77401781 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
77401727 GAAGGATGAG
*
77401737 GGAAAAAAAGGGGTAAATGAGGA
1 GGAAAAAAAAGGGTAAAT-AGGA
77401760 GGAAAAAAAAGGGTAAATAGGA
1 GGAAAAAAAAGGGTAAATAGGA
77401782 AAAACAGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.09
Consensus pattern (22 bp):
GGAAAAAAAAGGGTAAATAGGA
Found at i:77407358 original size:37 final size:37
Alignment explanation
Indices: 77407316--77407391 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
77407306 CTTCAGAGAC
*
77407316 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGTTT
1 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
77407353 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
1 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
77407390 AT
1 AT
77407392 AGTATGGGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (37 bp):
ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
Found at i:77409351 original size:26 final size:26
Alignment explanation
Indices: 77409322--77409377 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
77409312 TGGTACAAAT
77409322 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
77409348 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77409374 TGAT
1 TGAT
77409378 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:77412581 original size:15 final size:15
Alignment explanation
Indices: 77412557--77412593 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
77412547 ACTCCATTCC
*
77412557 CTTTACTCATGGTAA
1 CTTTAGTCATGGTAA
77412572 CTTTAGTCATGGTAA
1 CTTTAGTCATGGTAA
77412587 CTTTAGT
1 CTTTAGT
77412594 TATTGTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (15 bp):
CTTTAGTCATGGTAA
Found at i:77417782 original size:29 final size:30
Alignment explanation
Indices: 77417750--77417806 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
77417740 ACCATGAATA
* *
77417750 TAATTAAACTAACAA-ATTCAACCAAAAAT
1 TAATGAAACTAACAAGACTCAACCAAAAAT
*
77417779 TAATGACACTAACAAGACTCAACCAAAA
1 TAATGAAACTAACAAGACTCAACCAAAA
77417807 GTAATCGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.56, C:0.21, G:0.04, T:0.19
Consensus pattern (30 bp):
TAATGAAACTAACAAGACTCAACCAAAAAT
Found at i:77424254 original size:31 final size:32
Alignment explanation
Indices: 77424181--77424260 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
77424171 GAAATTTAGT
* *
77424181 TTGTTGGATTTTGAAATTATTATGTCTTAAAT
1 TTGTTGGATATTGAAATTATTATGTCTTAAAC
* * *
77424213 TTGTTAGATATTGAATTTATTATGT-TTAAGC
1 TTGTTGGATATTGAAATTATTATGTCTTAAAC
77424244 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
77424261 GACTGACAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 19 0.46
32 22 0.54
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTCTTAAAC
Found at i:77425616 original size:20 final size:19
Alignment explanation
Indices: 77425571--77425608 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
77425561 AATCCAAACA
77425571 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
77425590 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
77425609 TCCTGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:77425954 original size:16 final size:16
Alignment explanation
Indices: 77425933--77425967 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
77425923 TAAATTTTAA
77425933 TTAATTAAGAGATATT
1 TTAATTAAGAGATATT
77425949 TTAATTAAGAGATATT
1 TTAATTAAGAGATATT
77425965 TTA
1 TTA
77425968 GTTATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (16 bp):
TTAATTAAGAGATATT
Found at i:77429770 original size:3 final size:3
Alignment explanation
Indices: 77429762--77429786 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
77429752 GGAATACTAT
77429762 AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC A
77429787 TAATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:77429792 original size:3 final size:3
Alignment explanation
Indices: 77429786--77429833 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
77429776 CAACAACAAC
77429786 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
77429834 TAAATAAGGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:77429871 original size:7 final size:6
Alignment explanation
Indices: 77429788--77429872 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
77429778 ACAACAACAT
* * * * * * * *
77429788 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATATA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
*
77429836 AATAAGGTA AATTAA AATAAA AATAAA AATAGAA AAT
1 AATAA---A AATAAA AATAAA AATAAA AATA-AA AAT
77429873 GTATGATTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
6 60 0.86
7 5 0.07
9 5 0.07
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (6 bp):
AATAAA
Found at i:77430002 original size:24 final size:22
Alignment explanation
Indices: 77429951--77430005 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
77429941 ACGAGTAAAG
*
77429951 AAATAAAAATAAAATAATAACA
1 AAATAAAAATAAAAAAATAACA
77429973 ACAATAATAAATAAAAAAA-ATACA
1 A-AATAA-AAATAAAAAAATA-ACA
77429997 CAAATAAAA
1 -AAATAAAA
77430006 GAGCATAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 1 0.04
23 8 0.29
24 18 0.64
25 1 0.04
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.16
Consensus pattern (22 bp):
AAATAAAAATAAAAAAATAACA
Found at i:77430054 original size:16 final size:16
Alignment explanation
Indices: 77430033--77430068 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
77430023 TATTTAAGCG
77430033 TAAAAAGAAAAAAAAA
1 TAAAAAGAAAAAAAAA
* *
77430049 TAAAAAGATAAATAAA
1 TAAAAAGAAAAAAAAA
77430065 TAAA
1 TAAA
77430069 TGCTCGATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.14
Consensus pattern (16 bp):
TAAAAAGAAAAAAAAA
Found at i:77431769 original size:28 final size:28
Alignment explanation
Indices: 77431716--77431769 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
77431706 CTATAATTAT
* *
77431716 TATATATATAACTAATGTTTATTAAAAA
1 TATATATATAAATAATGTTTAATAAAAA
*
77431744 TATATATATAAATTAT-TTTAAATAAA
1 TATATATATAAATAATGTTT-AATAAA
77431770 TTAAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.14
28 19 0.86
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (28 bp):
TATATATATAAATAATGTTTAATAAAAA
Found at i:77432107 original size:160 final size:160
Alignment explanation
Indices: 77431935--77432253 Score: 629
Period size: 160 Copynumber: 2.0 Consensus size: 160
77431925 TCCCAAATAC
77431935 TGTTTTAAAATCACTGAGAGGACTAAATTGAAACAAAATTAAAACATTAGAGCTAAATTAAAAAA
1 TGTTTTAAAATCACTGAGAGGACTAAATTGAAACAAAATTAAAACATTAGAGCTAAATTAAAAAA
*
77432000 TAAATAAAATGAAATTATAAATATAAAAAATGTGGGAGAATCAATTGAGTAATTAACCCAATCTT
66 TAAATAAAATAAAATTATAAATATAAAAAATGTGGGAGAATCAATTGAGTAATTAACCCAATCTT
77432065 CAAAAACACGCGGATCCTCCCCGGGTAATT
131 CAAAAACACGCGGATCCTCCCCGGGTAATT
77432095 TGTTTTAAAATCACTGAGAGGACTAAATTGAAACAAAATTAAAACATTAGAGCTAAATTAAAAAA
1 TGTTTTAAAATCACTGAGAGGACTAAATTGAAACAAAATTAAAACATTAGAGCTAAATTAAAAAA
77432160 TAAATAAAATAAAATTATAAATATAAAAAATGTGGGAGAATCAATTGAGTAATTAACCCAATCTT
66 TAAATAAAATAAAATTATAAATATAAAAAATGTGGGAGAATCAATTGAGTAATTAACCCAATCTT
77432225 CAAAAACACGCGGATCCTCCCCGGGTAAT
131 CAAAAACACGCGGATCCTCCCCGGGTAAT
77432254 CGGGTCAACA
Statistics
Matches: 158, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 158 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.25
Consensus pattern (160 bp):
TGTTTTAAAATCACTGAGAGGACTAAATTGAAACAAAATTAAAACATTAGAGCTAAATTAAAAAA
TAAATAAAATAAAATTATAAATATAAAAAATGTGGGAGAATCAATTGAGTAATTAACCCAATCTT
CAAAAACACGCGGATCCTCCCCGGGTAATT
Found at i:77433418 original size:4 final size:4
Alignment explanation
Indices: 77433411--77433439 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
77433401 AATAAATAGA
77433411 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
77433440 TCTTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:77436315 original size:27 final size:27
Alignment explanation
Indices: 77436250--77436346 Score: 108
Period size: 27 Copynumber: 3.5 Consensus size: 27
77436240 GAATATCCAA
*
77436250 CCCAAACACACCCAGAATAATATAAATCCT
1 CCCAAACACA-CCAGTATAATAT--ATCCT
*
77436280 -CCATAACACACCAGTATAATATAGCCT
1 CCCA-AACACACCAGTATAATATATCCT
*
77436307 CCCAAACACACCGGTAT-ATCATATCCT
1 CCCAAACACACCAGTATAAT-ATATCCT
77436334 CCCAAACACACCA
1 CCCAAACACACCA
77436347 ATAAGGCATT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.03
27 34 0.58
28 3 0.05
29 14 0.24
30 6 0.10
ACGTcount: A:0.41, C:0.36, G:0.05, T:0.18
Consensus pattern (27 bp):
CCCAAACACACCAGTATAATATATCCT
Found at i:77436877 original size:17 final size:18
Alignment explanation
Indices: 77436847--77436880 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77436837 AATTTTTATT
*
77436847 CAATTTATTCCCTAATTC
1 CAATTTAATCCCTAATTC
77436865 CAATTTAAT-CCTAATT
1 CAATTTAATCCCTAATT
77436881 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTAATCCCTAATTC
Found at i:77450415 original size:21 final size:21
Alignment explanation
Indices: 77450389--77450431 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
77450379 GAAGACTAAA
77450389 AAAGTATAAATTTAAAATTAT
1 AAAGTATAAATTTAAAATTAT
77450410 AAAGTATAAATTTAAAATTAT
1 AAAGTATAAATTTAAAATTAT
77450431 A
1 A
77450432 TGAGGATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (21 bp):
AAAGTATAAATTTAAAATTAT
Found at i:77451078 original size:18 final size:18
Alignment explanation
Indices: 77451051--77451090 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
77451041 TTGATTTTCA
* *
77451051 TTTATATTCTTTTATTTG
1 TTTATATTCTTGTATGTG
*
77451069 TTTATGTTCTTGTATGTG
1 TTTATATTCTTGTATGTG
77451087 TTTA
1 TTTA
77451091 ACTTCTCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTATATTCTTGTATGTG
Found at i:77453359 original size:148 final size:150
Alignment explanation
Indices: 77453132--77453445 Score: 399
Period size: 151 Copynumber: 2.1 Consensus size: 150
77453122 GAAAAGTTTA
*
77453132 AATTTTTTAAGAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTCTTTAGTCATTTCA
1 AATTTTTTTAGAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTCTTTAGTCATTTCA
* * *
77453197 AATGGAAAGTTTAAA-TTTTTAAAATAA-ATTTTGA-TTTTTTAACTATTTCAAAATAAAAATTT
66 AATGAAAAGTTTAAATTTTTTAAAATAATATTTTGATTTTTTTAACTAATTCAAAATAAAAACTT
*
77453259 TGATTTTTAAGAAAAATAGT
131 TGATTTGTAAGAAAAATAGT
*
77453279 AATTTTTTTAGAAAAAGGAGAAAGTTTAGATTTTTAAAATAAAAAT-T-TATTTT-TTTAGTCAT
1 AATTTTTTTAGAAAAA-GAG--AGTTTAGATTTTAAAAATAAAAATATGT-TTTTCTTTAGTCA-
* * * * *
77453341 TTTTAAA-GAAAAGTTTAAATTTTTTAAAGTAATTTTTTTATTTTTTTAACTAATTCGAAATAAA
61 TTTCAAATGAAAAGTTTAAATTTTTTAAAATAATATTTTGATTTTTTTAACTAATTCAAAATAAA
* *
77453405 AGCTTTGATTTGTAAGAAAAGTAGT
126 AACTTTGATTTGTAAGAAAAATAGT
* *
77453430 GATTTTTTTAAAAAAA
1 AATTTTTTTAGAAAAA
77453446 ACTTCGATTT
Statistics
Matches: 144, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
147 15 0.10
148 23 0.16
149 22 0.15
150 28 0.19
151 56 0.39
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (150 bp):
AATTTTTTTAGAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTCTTTAGTCATTTCA
AATGAAAAGTTTAAATTTTTTAAAATAATATTTTGATTTTTTTAACTAATTCAAAATAAAAACTT
TGATTTGTAAGAAAAATAGT
Found at i:77453683 original size:12 final size:12
Alignment explanation
Indices: 77453663--77453695 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
77453653 CGTTTCATCG
77453663 CACACGGCCTAC
1 CACACGGCCTAC
*
77453675 CACATGGCCTAC
1 CACACGGCCTAC
77453687 CACACGGCC
1 CACACGGCC
77453696 GTGTAGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:77459139 original size:20 final size:20
Alignment explanation
Indices: 77459093--77459140 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
77459083 GGTCACACAT
* *
77459093 GCCCGTATGGCTTAGGACAC
1 GCCCGTGTGGCTCAGGACAC
77459113 GCCCGTGTGGCTCAGGACAC
1 GCCCGTGTGGCTCAGGACAC
*
77459133 GTCCGTGT
1 GCCCGTGT
77459141 CCTCCACCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.21
Consensus pattern (20 bp):
GCCCGTGTGGCTCAGGACAC
Found at i:77461076 original size:48 final size:48
Alignment explanation
Indices: 77460999--77461425 Score: 430
Period size: 48 Copynumber: 8.9 Consensus size: 48
77460989 GTAAAATGTT
* * *
77460999 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * * * * *
77461047 AATGCCATATCCCAGACATGGTCTGACACTAGCTCCCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
** *
77461095 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-AT-GTGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATATCAAGGCC
* *
77461143 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * **
77461191 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGCC
** * * *
77461239 GATGTTATATCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * **
77461287 GATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGCC
* * * * ** *
77461335 GATGTCATATCCCAGAAATGGTCTTACACTAGCACACATATCAACACT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * **
77461383 GATGTCATGTCCTAGACATGGTCTTAGACTAAATCACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
77461426 CATGTTCGCA
Statistics
Matches: 305, Mismatches: 66, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
46 5 0.02
47 6 0.02
48 285 0.93
49 5 0.02
50 4 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
Found at i:77461121 original size:96 final size:96
Alignment explanation
Indices: 77460999--77461408 Score: 570
Period size: 96 Copynumber: 4.3 Consensus size: 96
77460989 GTAAAATGTT
* * *
77460999 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-GTCGAGGCCAATGCCATATCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT-GTGGCCGATGCCATATCCCAGA
* * * * * *
77461063 CATGGTCTGACACTAGCTCCCGTCTCAATGCC
65 CATGGTCTTACACTAGCACACATATCAACGCC
* * * * *
77461095 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATGTGGTCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCCATATCCCAGAC
77461160 ATGGTCTTACACTAGCACACATATCAACGCC
66 ATGGTCTTACACTAGCACACATATCAACGCC
* **
77461191 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGTTATATCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCCATATCCCAGAC
77461256 ATGGTCTTACACTAGCACACATATCAACGCC
66 ATGGTCTTACACTAGCACACATATCAACGCC
* * * * *
77461287 GATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGTCATATCCCAGAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCCATATCCCAGAC
* *
77461352 ATGGTCTTACACTAGCACACATATCAACACT
66 ATGGTCTTACACTAGCACACATATCAACGCC
* *
77461383 GATGTCATGTCCTAGACATGGTCTTA
1 GATGCCATGTCCCAGACATGGTCTTA
77461409 GACTAAATCA
Statistics
Matches: 284, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
96 283 1.00
97 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCCATATCCCAGAC
ATGGTCTTACACTAGCACACATATCAACGCC
Found at i:77464701 original size:38 final size:39
Alignment explanation
Indices: 77464610--77464703 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 39
77464600 CGGTACCTTT
* *
77464610 TGGTGTGTAGGGTTGGATAGGTTGATTATATCCCCATGCT
1 TGGTGTGTAGGGTTGGATAGGTTAATTATATCCCCA-GCA
* * *
77464650 TGGTGTGTAGGGTTGGGTGGGTTAATTCTATCCCCA-CA
1 TGGTGTGTAGGGTTGGATAGGTTAATTATATCCCCAGCA
*
77464688 TGGTGTGTTGGGTTGG
1 TGGTGTGTAGGGTTGG
77464704 TCGGAGATGG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
38 16 0.33
40 32 0.67
ACGTcount: A:0.14, C:0.12, G:0.37, T:0.37
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATAGGTTAATTATATCCCCAGCA
Found at i:77466725 original size:37 final size:37
Alignment explanation
Indices: 77466624--77466726 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 37
77466614 TAGTTTACTT
* *
77466624 GATGCCATAGTCCAACTATGGTCTTACACAAAATCAC
1 GATGCCATAGCCCAACTATGGTCTTACATAAAATCAC
* * * * * *** *
77466661 AATGCCATAGCCCAGCTAAGATATTACATGTCATTAC
1 GATGCCATAGCCCAACTATGGTCTTACATAAAATCAC
77466698 GATGCCATAGCCCAACTATGGTCTTACAT
1 GATGCCATAGCCCAACTATGGTCTTACAT
77466727 TCCATACTTT
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (37 bp):
GATGCCATAGCCCAACTATGGTCTTACATAAAATCAC
Found at i:77469759 original size:96 final size:96
Alignment explanation
Indices: 77469588--77470005 Score: 570
Period size: 96 Copynumber: 4.4 Consensus size: 96
77469578 AGGGTAAAAT
* * * *
77469588 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACAT-GTCGAGGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCCATATCC
* * * * * * *
77469651 CAAACATAGTCTTACACTAGCTCTCGTCTCAAT
64 CAGACATGGTCTTACACTAGCACACATATCAAC
* * * * * *
77469684 ACCGATGTCATGTCCCAAACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCCATGTCCTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
*
77469749 GACATGGTCTTACACTAGCACACATATCAAT
66 GACATGGTCTTACACTAGCACACATATCAAC
*
77469780 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
77469845 GACATGGTCTTACACTAGCACACATATCAAC
66 GACATGGTCTTACACTAGCACACATATCAAC
* * ** *
77469876 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCCCTCATAATGTGGCTAATGCCATATCACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
*
77469941 GACATGGTATTACACTAGCACACATATCAAC
66 GACATGGTCTTACACTAGCACACATATCAAC
*
77469972 GCCGATGCCATGTCCTAGACATGGTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG
77470006 AATCACATAT
Statistics
Matches: 289, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
96 287 0.99
97 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
GACATGGTCTTACACTAGCACACATATCAAC
Found at i:77470013 original size:48 final size:48
Alignment explanation
Indices: 77469588--77470017 Score: 398
Period size: 48 Copynumber: 9.0 Consensus size: 48
77469578 AGGGTAAAAT
* * *
77469588 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* * * * * * * *
77469636 GTCGATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* * * * * **
77469684 ACCGATGTCATGTCCCAAACATGGTCTTACATTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAG
* * * *
77469732 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* * **
77469780 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAG
* * * *
77469828 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* * * **
77469876 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCCCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAG
** * * * * * *
77469924 GCTAATGCCATATCACAGACATGGTATTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* **
77469972 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAATCACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
77470018 CATGTTCGCA
Statistics
Matches: 298, Mismatches: 78, Indels: 12
0.77 0.20 0.03
Matches are distributed among these distances:
47 6 0.02
48 287 0.96
49 5 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
Found at i:77479722 original size:43 final size:43
Alignment explanation
Indices: 77479623--77479724 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
77479613 ACCAAGATGT
* * * *
77479623 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATTGA
1 GATTACGTATAAGACCATGTCTAGGACATTGGCATCGTAATCA
* *
77479666 GATTACGTGTAAGACCATGTCTAGGATATTGGCATCGTTAATCA
1 GATTACGTATAAGACCATGTCTAGGACATTGGCATCG-TAATCA
*
77479710 -ATTTCGTATAAGACC
1 GATTACGTATAAGACC
77479725 TTGTTTGGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 48 0.92
44 4 0.08
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
GATTACGTATAAGACCATGTCTAGGACATTGGCATCGTAATCA
Found at i:77488672 original size:19 final size:21
Alignment explanation
Indices: 77488634--77488678 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
77488624 AATTATGATA
*
77488634 ATTTTTAATTTTTTATAAA-T
1 ATTTTTAATTTTTGATAAATT
77488654 ATTTTTAATTTTTGA-AAATT
1 ATTTTTAATTTTTGATAAATT
77488674 ATTTT
1 ATTTT
77488679 GATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTTTAATTTTTGATAAATT
Found at i:77488685 original size:20 final size:19
Alignment explanation
Indices: 77488636--77488686 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
77488626 TTATGATAAT
77488636 TTTTAATTTTTTATAAATA
1 TTTTAATTTTTTATAAATA
*
77488655 TTTTTAATTTTTGA-AAATTA
1 -TTTTAATTTTTTATAAA-TA
*
77488675 TTTTGATTTTTT
1 TTTTAATTTTTT
77488687 TTGTTGAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTAATTTTTTATAAATA
Found at i:77489900 original size:3 final size:3
Alignment explanation
Indices: 77489894--77489958 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
77489884 CCAAAGGAGG
77489894 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
77489942 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
77489959 GGAGAAGGAG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:77489966 original size:6 final size:6
Alignment explanation
Indices: 77489957--77490017 Score: 86
Period size: 6 Copynumber: 9.8 Consensus size: 6
77489947 TAATAATAAT
* *
77489957 AAGGAG AAGGAG AAGGAG AAGGAG CAGGAG AAGGAG AAGAAG AAGAAGAG
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAG--GAG
77490007 AAGGAG AAGGA
1 AAGGAG AAGGA
77490018 AAAGAAGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
6 44 0.90
8 5 0.10
ACGTcount: A:0.52, C:0.02, G:0.46, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:77489999 original size:3 final size:3
Alignment explanation
Indices: 77489961--77490063 Score: 54
Period size: 3 Copynumber: 35.3 Consensus size: 3
77489951 AATAATAAGG
* * * * * *
77489961 AGA AGG AGA AGG AGA AGG AGC AGG AGA AGG AGA AGA AGA AGA AG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * * *
77490008 AGG AGA AGGA A-A AGA AGA ATA A-A A-A AAA AGA AGG AGA ATG- AGA
1 AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA
*
77490051 AGA AAA AGA AGA A
1 AGA AGA AGA AGA A
77490064 AGCTTTATAC
Statistics
Matches: 76, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
2 9 0.12
3 63 0.83
4 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.36, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:77490771 original size:23 final size:23
Alignment explanation
Indices: 77490745--77490790 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
77490735 TTCGGTGTTT
77490745 TCCCACTACACGCTTCAACGTTG
1 TCCCACTACACGCTTCAACGTTG
* *
77490768 TCCCATTACACGCTTCGACGTTG
1 TCCCACTACACGCTTCAACGTTG
77490791 CTTCGCTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.37, G:0.15, T:0.28
Consensus pattern (23 bp):
TCCCACTACACGCTTCAACGTTG
Found at i:77493296 original size:24 final size:22
Alignment explanation
Indices: 77493243--77493297 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
77493233 TATATATATC
77493243 ATTTAT-TTATTTTAAAAAACT
1 ATTTATATTATTTTAAAAAACT
*
77493264 ATACATATATTATTATTAAAAATACT
1 AT--TTATATTATT-TTAAAAA-ACT
77493290 ATTTATAT
1 ATTTATAT
77493298 AAAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.07
23 3 0.11
24 10 0.37
25 7 0.26
26 5 0.19
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTATATTATTTTAAAAAACT
Found at i:77493384 original size:24 final size:23
Alignment explanation
Indices: 77493334--77493398 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
77493324 TTCCTATCTA
* *
77493334 TATTATATTTTCTTATATAACATT
1 TATTATATTTT-TTATATATCACT
*
77493358 TATTATATTTTGTTATATATTACT
1 TATTATATTTT-TTATATATCACT
77493382 TA-T-TATTTTTTATATAT
1 TATTATATTTTTTATATAT
77493399 GTTATGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 8 0.22
22 6 0.16
23 1 0.03
24 22 0.59
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (23 bp):
TATTATATTTTTTATATATCACT
Found at i:77493440 original size:21 final size:21
Alignment explanation
Indices: 77493411--77493457 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
77493401 TATGTATATA
*
77493411 GTATATTATCTAATATATTAT
1 GTATATTATATAATATATTAT
* *
77493432 GTATGTTATATATTATATTAT
1 GTATATTATATAATATATTAT
*
77493453 TTATA
1 GTATA
77493458 ATTTTAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (21 bp):
GTATATTATATAATATATTAT
Found at i:77493678 original size:19 final size:19
Alignment explanation
Indices: 77493654--77493721 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
77493644 CCAATATATT
77493654 TTATTTTTATATATAATTA
1 TTATTTTTATATATAATTA
* *
77493673 TTATTTTT-TTTATTATATA
1 TTATTTTTATATATAAT-TA
* *
77493692 TTATATATTATATATTAAATA
1 TTAT-TTTTATATA-TAATTA
*
77493713 CTATTTTTA
1 TTATTTTTA
77493722 AAATTATTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
18 6 0.16
19 14 0.38
20 7 0.19
21 8 0.22
22 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATTTTTATATATAATTA
Found at i:77493682 original size:22 final size:23
Alignment explanation
Indices: 77493647--77493700 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
77493637 TTTTAAACCA
77493647 ATATATTTTATTTT-TATATATAATT
1 ATATATTTT-TTTTAT-TATAT-ATT
77493672 AT-TATTTTTTTTATTATATATT
1 ATATATTTTTTTTATTATATATT
77493694 ATATATT
1 ATATATT
77493701 ATATATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 5 0.19
23 13 0.48
24 7 0.26
25 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATATTTTTTTTATTATATATT
Found at i:77493683 original size:23 final size:26
Alignment explanation
Indices: 77493650--77493702 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
77493640 TAAACCAATA
77493650 TATTTTATTT-TTATATATAAT-TAT
1 TATTTTATTTATTATATATAATATAT
* *
77493674 TATTTTTTTTATTATATATTATATAT
1 TATTTTATTTATTATATATAATATAT
77493700 TAT
1 TAT
77493703 ATATTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.36
25 10 0.40
26 6 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
TATTTTATTTATTATATATAATATAT
Found at i:77493695 original size:7 final size:7
Alignment explanation
Indices: 77493683--77493708 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
77493673 TTATTTTTTT
77493683 TATTATA
1 TATTATA
77493690 TATTATA
1 TATTATA
77493697 TATTATA
1 TATTATA
77493704 TATTA
1 TATTA
77493709 AATACTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:77493733 original size:25 final size:28
Alignment explanation
Indices: 77493698--77493748 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
77493688 TATATTATAT
77493698 ATTATATATTAAATA-C-TATTTTTAAA
1 ATTATATATTAAATATCATATTTTTAAA
77493724 ATTAT-TATTAAATATCATATTTTTA
1 ATTATATATTAAATATCATATTTTTA
77493749 TTTGTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTATATATTAAATATCATATTTTTAAA
Found at i:77494014 original size:16 final size:15
Alignment explanation
Indices: 77493989--77494018 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
77493979 TTCATCTTCA
77493989 ATATATGCTATGTAT
1 ATATATGCTATGTAT
77494004 ATATGATGCTATGTA
1 ATAT-ATGCTATGTA
77494019 ATTTTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (15 bp):
ATATATGCTATGTAT
Found at i:77496530 original size:803 final size:803
Alignment explanation
Indices: 77494986--77496591 Score: 3203
Period size: 803 Copynumber: 2.0 Consensus size: 803
77494976 ATCTGTACCT
77494986 GTGGTTTCGTGATATTTTCATCTCTGTGTAGCCATAGAGAAATGTATTCCCCTGAACTGAACTCA
1 GTGGTTTCGTGATATTTTCATCTCTGTGTAGCCATAGAGAAATGTATTCCCCTGAACTGAACTCA
77495051 ATTCAAATGAGCCTATAATGGGTGAGAATCGAGGAATCTGTTGGTTTGGGTACCTCAAACTTTAG
66 ATTCAAATGAGCCTATAATGGGTGAGAATCGAGGAATCTGTTGGTTTGGGTACCTCAAACTTTAG
77495116 AAACAACCTCATATAGAAAAACCGTAAGAGCCCAACTTAGTTAGAGTTAAAATTTAGATATTACC
131 AAACAACCTCATATAGAAAAACCGTAAGAGCCCAACTTAGTTAGAGTTAAAATTTAGATATTACC
77495181 CTTATAAACTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTCTTTTCTTTTGTCTG
196 CTTATAAACTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTCTTTTCTTTTGTCTG
77495246 CATGACATTTTGCATTTACAAAGGTATCGATTCACAGTCAGTTTCTAAGTTAGGAAGTTTTATTA
261 CATGACATTTTGCATTTACAAAGGTATCGATTCACAGTCAGTTTCTAAGTTAGGAAGTTTTATTA
77495311 TGGAGAACGGACTTCTTGATAGAGTGGAAGGCAACGCTAACGTCCATAGATGGTCTGAGCAAACT
326 TGGAGAACGGACTTCTTGATAGAGTGGAAGGCAACGCTAACGTCCATAGATGGTCTGAGCAAACT
77495376 CAACTAGAAAAGGGGGACAGTATAGCTATGGGGTATATGTCAGAGCTGTCAGACTACACTCGCAT
391 CAACTAGAAAAGGGGGACAGTATAGCTATGGGGTATATGTCAGAGCTGTCAGACTACACTCGCAT
77495441 CAGTCACACAGAATAATCTTCAGGAGCTTAAGGAGATTTGGGATCAGTGGGGCAATGAGACTAAA
456 CAGTCACACAGAATAATCTTCAGGAGCTTAAGGAGATTTGGGATCAGTGGGGCAATGAGACTAAA
77495506 CAGTCATTCTACGGTAATTATGGAGATTTACCTCACTTACTTGATATTCAGGTTGATGAGCACTT
521 CAGTCATTCTACGGTAATTATGGAGATTTACCTCACTTACTTGATATTCAGGTTGATGAGCACTT
77495571 GTTTCGAGCTCTCGTTCAGTTTTGGAACCCTCCATACAGTTTTTTTACCTTTGGGGAGGTGGATT
586 GTTTCGAGCTCTCGTTCAGTTTTGGAACCCTCCATACAGTTTTTTTACCTTTGGGGAGGTGGATT
77495636 TAGTGCCTATTGTGGAGGAGTACACCGCCTTACTTCGGTGTCCTAGATTTTAGTGTGATAGGATT
651 TAGTGCCTATTGTGGAGGAGTACACCGCCTTACTTCGGTGTCCTAGATTTTAGTGTGATAGGATT
77495701 TATTCTCGATCTGCTTGTGTCCCAGCCTTTGGCAAGAAGCTGATGACCATTACAGGGATGAGTGA
716 TATTCTCGATCTGCTTGTGTCCCAGCCTTTGGCAAGAAGCTGATGACCATTACAGGGATGAGTGA
77495766 GCAGTGGATCATGGCTAGAATCA
781 GCAGTGGATCATGGCTAGAATCA
77495789 GTGGTTTCGTGATATTTTCATCTCTGTGTAGCCATAGAGAAATGTATTCCCCTGAACTGAACTCA
1 GTGGTTTCGTGATATTTTCATCTCTGTGTAGCCATAGAGAAATGTATTCCCCTGAACTGAACTCA
77495854 ATTCAAATGAGCCTATAATGGGTGAGAATCGAGGAATCTGTTGGTTTGGGTACCTCAAACTTTAG
66 ATTCAAATGAGCCTATAATGGGTGAGAATCGAGGAATCTGTTGGTTTGGGTACCTCAAACTTTAG
*
77495919 AACCAACCTCATATAGAAAAACCGTAAGAGCCCAACTTAGTTAGAGTTAAAATTTAGATATTACC
131 AAACAACCTCATATAGAAAAACCGTAAGAGCCCAACTTAGTTAGAGTTAAAATTTAGATATTACC
77495984 CTTATAAACTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTCTTTTCTTTTGTCTG
196 CTTATAAACTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTCTTTTCTTTTGTCTG
77496049 CATGACATTTTGCATTTACAAAGGTATCGATTCACAGTCAGTTTCTAAGTTAGGAAGTTTTATTA
261 CATGACATTTTGCATTTACAAAGGTATCGATTCACAGTCAGTTTCTAAGTTAGGAAGTTTTATTA
77496114 TGGAGAACGGACTTCTTGATAGAGTGGAAGGCAACGCTAACGTCCATAGATGGTCTGAGCAAACT
326 TGGAGAACGGACTTCTTGATAGAGTGGAAGGCAACGCTAACGTCCATAGATGGTCTGAGCAAACT
77496179 CAACTAGAAAAGGGGGACAGTATAGCTATGGGGTATATGTCAGAGCTGTCAGACTACACTCGCAT
391 CAACTAGAAAAGGGGGACAGTATAGCTATGGGGTATATGTCAGAGCTGTCAGACTACACTCGCAT
77496244 CAGTCACACAGAATAATCTTCAGGAGCTTAAGGAGATTTGGGATCAGTGGGGCAATGAGACTAAA
456 CAGTCACACAGAATAATCTTCAGGAGCTTAAGGAGATTTGGGATCAGTGGGGCAATGAGACTAAA
77496309 CAGTCATTCTACGGTAATTATGGAGATTTACCTCACTTACTTGATATTCAGGTTGATGAGCACTT
521 CAGTCATTCTACGGTAATTATGGAGATTTACCTCACTTACTTGATATTCAGGTTGATGAGCACTT
77496374 GTTTCGAGCTCTCGTTCAGTTTTGGAACCCTCCATACAGTTTTTTTACCTTTGGGGAGGTGGATT
586 GTTTCGAGCTCTCGTTCAGTTTTGGAACCCTCCATACAGTTTTTTTACCTTTGGGGAGGTGGATT
77496439 TAGTGCCTATTGTGGAGGAGTACACCGCCTTACTTCGGTGTCCTAGATTTTAGTGTGATAGGATT
651 TAGTGCCTATTGTGGAGGAGTACACCGCCTTACTTCGGTGTCCTAGATTTTAGTGTGATAGGATT
77496504 TATTCTCGATCTGCTTGTGTCCCAGCCTTTGGCAAGAAGCTGATGACCATTACAGGGATGAGTGA
716 TATTCTCGATCTGCTTGTGTCCCAGCCTTTGGCAAGAAGCTGATGACCATTACAGGGATGAGTGA
77496569 GCAGTGGATCATGGCTAGAATCA
781 GCAGTGGATCATGGCTAGAATCA
77496592 AGGAAAAGGG
Statistics
Matches: 802, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
803 802 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (803 bp):
GTGGTTTCGTGATATTTTCATCTCTGTGTAGCCATAGAGAAATGTATTCCCCTGAACTGAACTCA
ATTCAAATGAGCCTATAATGGGTGAGAATCGAGGAATCTGTTGGTTTGGGTACCTCAAACTTTAG
AAACAACCTCATATAGAAAAACCGTAAGAGCCCAACTTAGTTAGAGTTAAAATTTAGATATTACC
CTTATAAACTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTCTTTTCTTTTGTCTG
CATGACATTTTGCATTTACAAAGGTATCGATTCACAGTCAGTTTCTAAGTTAGGAAGTTTTATTA
TGGAGAACGGACTTCTTGATAGAGTGGAAGGCAACGCTAACGTCCATAGATGGTCTGAGCAAACT
CAACTAGAAAAGGGGGACAGTATAGCTATGGGGTATATGTCAGAGCTGTCAGACTACACTCGCAT
CAGTCACACAGAATAATCTTCAGGAGCTTAAGGAGATTTGGGATCAGTGGGGCAATGAGACTAAA
CAGTCATTCTACGGTAATTATGGAGATTTACCTCACTTACTTGATATTCAGGTTGATGAGCACTT
GTTTCGAGCTCTCGTTCAGTTTTGGAACCCTCCATACAGTTTTTTTACCTTTGGGGAGGTGGATT
TAGTGCCTATTGTGGAGGAGTACACCGCCTTACTTCGGTGTCCTAGATTTTAGTGTGATAGGATT
TATTCTCGATCTGCTTGTGTCCCAGCCTTTGGCAAGAAGCTGATGACCATTACAGGGATGAGTGA
GCAGTGGATCATGGCTAGAATCA
Found at i:77498860 original size:21 final size:21
Alignment explanation
Indices: 77498830--77498869 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
77498820 TCATTCTTTG
*
77498830 TATATTCTTTCATACCCCCTA
1 TATATCCTTTCATACCCCCTA
77498851 TATATCCTTTCATACCCCC
1 TATATCCTTTCATACCCCC
77498870 ACAGGTCCCT
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:0.23, C:0.38, G:0.00, T:0.40
Consensus pattern (21 bp):
TATATCCTTTCATACCCCCTA
Found at i:77503549 original size:205 final size:205
Alignment explanation
Indices: 77503180--77503968 Score: 1326
Period size: 205 Copynumber: 3.8 Consensus size: 205
77503170 ATAGGCCGCA
* * *
77503180 ACATAACAGATCTCACCTTCAGATCTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
** * *
77503245 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTTGCGTGTTTATGTTGAAGCAAATT
66 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
*
77503310 TAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTCTGGCGTCTCCATTTCGACG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCCATTTCGACG
77503375 GAGAGCAGAT
196 GAGAGCAGAT
* **
77503385 ACATAGCAGATTTAACCTTCAGATGTTGCTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
77503450 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
66 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
* * *
77503515 TAAGATCATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCATTTCGACG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCCATTTCGACG
77503580 GAGAGCAGAT
196 GAGAGCAGAT
*
77503590 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCGTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
77503655 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
66 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
* * *
77503720 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCTATTTCAACA
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCCATTTCGACG
77503785 GAGAGCAGAT
196 GAGAGCAGAT
*
77503795 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
* * * * * *
77503860 GTTTACAAGGAACAAATCAAAGACATAGATGATTTGGCTTTCACGTGCTTACGATGAAGCGAATC
66 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
* * *
77503925 TAAGATGATTTTGCATCTCTGTATTGTCAGAAAATAAATCGAAG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
77503969 AAGCAGATTT
Statistics
Matches: 549, Mismatches: 35, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
205 549 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (205 bp):
ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCCATTTCGACG
GAGAGCAGAT
Found at i:77505658 original size:24 final size:22
Alignment explanation
Indices: 77505605--77505659 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
77505595 TATATATATC
77505605 ATTTAT-TTATTTTAAAAAACT
1 ATTTATATTATTTTAAAAAACT
*
77505626 ATACATATATTATTATTAAAAATACT
1 AT--TTATATTATT-TTAAAAA-ACT
77505652 ATTTATAT
1 ATTTATAT
77505660 AAAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.07
23 3 0.11
24 10 0.37
25 7 0.26
26 5 0.19
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTATATTATTTTAAAAAACT
Found at i:77513261 original size:39 final size:39
Alignment explanation
Indices: 77513206--77513679 Score: 669
Period size: 39 Copynumber: 12.2 Consensus size: 39
77513196 TAGNGGCTAT
* * *
77513206 GTGCTGGAATTATATCCGGGCTAAAGTCCCGCAGGCTTC
1 GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
* *
77513245 GTGCTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTC
1 GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
* * *
77513284 GTGCTGGAAATGTATCCGGACTAAAGTCCCGTAGGCTTC
1 GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
* *
77513323 GTGCTGGAAATGTATCTGGGCCAAAGTCTCGCAGGCTTC
1 GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
* *
77513362 GTGCTGGAAATGTATCTGGGCCAAAGTCTCGCAGGCTTC
1 GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
* *
77513401 GTGCTGGAAATGTATCTGGGCCAAAGTCTCGCAGGCTTC
1 GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
* *
77513440 GTGCTGGAAATGTATCTGGGCCAAAGTCTCGCAGGCTTC
1 GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
* *
77513479 GTGCTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTC
1 GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
* * *
77513518 GTGCTGGAAATGTATCTAGGCTAAAGTTCCGTAGGCTTC
1 GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
* * *
77513557 GTGCTGGAAATGTATCTAGGCTAAAGTTCCGTAGGCTTC
1 GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
* * *
77513596 GTGCTGGAAATGTATCTAGGCTAAAGTTCCGTAGGCTTC
1 GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
* * * *
77513635 GTGCTGGAAATGTATCCGGGTTAAAGTCCGGCAGGCTTT
1 GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
77513674 GTGCTG
1 GTGCTG
77513680 ATAATATAAT
Statistics
Matches: 410, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 410 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (39 bp):
GTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTC
Found at i:77515998 original size:33 final size:33
Alignment explanation
Indices: 77515961--77516059 Score: 117
Period size: 33 Copynumber: 3.0 Consensus size: 33
77515951 ATTTTCAATT
** *
77515961 GTACACTCGTGGTGCACACTCCCTTTTCCAGTG
1 GTACACTCAAGGTGCACACTCCCTTTTCCAGTA
* *
77515994 GTACACTCAAGGTGCACATTTCCTTTTCCAGTA
1 GTACACTCAAGGTGCACACTCCCTTTTCCAGTA
* ** *
77516027 GTACACTCAAGGTGTACGTTTCCTTTTCCAGTA
1 GTACACTCAAGGTGCACACTCCCTTTTCCAGTA
77516060 ATACCTTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.33
Consensus pattern (33 bp):
GTACACTCAAGGTGCACACTCCCTTTTCCAGTA
Found at i:77520761 original size:50 final size:50
Alignment explanation
Indices: 77520686--77520797 Score: 206
Period size: 50 Copynumber: 2.2 Consensus size: 50
77520676 TGCACTTTAA
**
77520686 CCGGATAACGTAAGAATTTCAAGCAGAGCACCAACAGCAACATATTATAC
1 CCGGATAAAATAAGAATTTCAAGCAGAGCACCAACAGCAACATATTATAC
77520736 CCGGATAAAATAAGAATTTCAAGCAGAGCACCAACAGCAACATATTATAC
1 CCGGATAAAATAAGAATTTCAAGCAGAGCACCAACAGCAACATATTATAC
77520786 CCGGATAAAATA
1 CCGGATAAAATA
77520798 TGAAGGAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (50 bp):
CCGGATAAAATAAGAATTTCAAGCAGAGCACCAACAGCAACATATTATAC
Found at i:77530597 original size:10 final size:10
Alignment explanation
Indices: 77530566--77530604 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
77530556 TAATAATTAA
77530566 ATTTATAATTT
1 ATTTA-AATTT
*
77530577 ATTTAATTTT
1 ATTTAAATTT
*
77530587 ATATAAATTT
1 ATTTAAATTT
77530597 ATTTAAAT
1 ATTTAAAT
77530605 ATTTTGATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 19 0.79
11 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:77531003 original size:22 final size:24
Alignment explanation
Indices: 77530973--77531022 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
77530963 ATTTAATTAA
*
77530973 TTTAGGATTAAGG-TTTTT-AGGG
1 TTTAAGATTAAGGTTTTTTAAGGG
*
77530995 TTTAAGATTAGGGTTTTTTAAGGG
1 TTTAAGATTAAGGTTTTTTAAGGG
77531019 TTTA
1 TTTA
77531023 GGTTTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 11 0.46
23 5 0.21
24 8 0.33
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (24 bp):
TTTAAGATTAAGGTTTTTTAAGGG
Found at i:77531767 original size:125 final size:126
Alignment explanation
Indices: 77531438--77531806 Score: 514
Period size: 126 Copynumber: 2.9 Consensus size: 126
77531428 AATTCTAAGC
* * *
77531438 AGACGTTTCT-AGA-AAATAGTGTTGGAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAATTTC
1 AGACGTTTCTGA-ACAAATAATGTCGGAAAACG-TTCAAGCAGGATGCACTGTCAGCAAAATTTC
* ** *
77531501 TAGAAAAAGCTCCCATGTGAACGCTCTTTTGCTACAGTA-TCTCGTAGAAAAATAATTTTGAGT
64 TGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGT-TCGTAGAAAAATAATTTTGAGT
* * *
77531564 AGATGTTTCTGAACAAATAGTGTCGGAAACAC-TTTAAGCAGGATGCACTGTCAGCAAAATTTCT
1 AGACGTTTCTGAACAAATAATGTCGGAAA-ACGTTCAAGCAGGATGCACTGTCAGCAAAATTTCT
* * * * *
77531628 GGAAAAAGCTCCCACATGGACGCTCTTTCGCTATAATAGTTCATAGAAAAATAATTTTGATT
65 GGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAATAATTTTGAGT
*
77531690 AGACGTTTTTGAACAAATAATGTC-GAAAACGTTCAAGCAGGATGCACTGTCAGCAAAATTTCTG
1 AGACGTTTCTGAACAAATAATGTCGGAAAACGTTCAAGCAGGATGCACTGTCAGCAAAATTTCTG
*
77531754 GAAAAAGCTCCCACATGGACGTTCTTTTGCTACAGTAGTTCGTAGAAAAATAA
66 GAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAATAA
77531807 GGCTATAAAT
Statistics
Matches: 216, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
124 2 0.01
125 84 0.39
126 112 0.52
127 16 0.07
128 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (126 bp):
AGACGTTTCTGAACAAATAATGTCGGAAAACGTTCAAGCAGGATGCACTGTCAGCAAAATTTCTG
GAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAATAATTTTGAGT
Found at i:77535323 original size:18 final size:18
Alignment explanation
Indices: 77535302--77535337 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
77535292 AAAAGGAAAC
*
77535302 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
77535320 ATATAAGGGCTAGGATAT
1 ATATAAGGGCTAGGATAT
77535338 GCACCTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.31
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:77535942 original size:7 final size:7
Alignment explanation
Indices: 77535932--77535964 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
77535922 CATAATACAT
77535932 AATACTA
1 AATACTA
77535939 AATACTA
1 AATACTA
77535946 AATACTA
1 AATACTA
77535953 AATACTA
1 AATACTA
77535960 AATAC
1 AATAC
77535965 GAAACGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:77537021 original size:48 final size:47
Alignment explanation
Indices: 77536969--77537080 Score: 147
Period size: 48 Copynumber: 2.3 Consensus size: 47
77536959 AAAATCAAGC
77536969 AGTATTGAAATTGTAATTATAA-TTGCATAAATGAATAA-AATATCAAAT
1 AGTATTGAAATT-TAATTA-AATTTGCATAAATGAA-AATAATATCAAAT
* *
77537017 AGTATTGCAAATTTAATTAAATTTGCATAAATTAAAATAATATCGAAT
1 AGTATTG-AAATTTAATTAAATTTGCATAAATGAAAATAATATCAAAT
77537065 AGTATTGAAAATTTAA
1 AGTATTG-AAATTTAA
77537081 AATTATCACT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
47 4 0.07
48 49 0.84
49 5 0.09
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (47 bp):
AGTATTGAAATTTAATTAAATTTGCATAAATGAAAATAATATCAAAT
Found at i:77545815 original size:30 final size:30
Alignment explanation
Indices: 77545781--77545841 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
77545771 AACCAGAGGG
*
77545781 TTTACAGTATCAGAAAAAGTGGACTATGTT
1 TTTACAGTATCAGAAAAAGAGGACTATGTT
77545811 TTTACAGTATCAGAAAAAGAGGACTATGTT
1 TTTACAGTATCAGAAAAAGAGGACTATGTT
77545841 T
1 T
77545842 GCTTGCTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (30 bp):
TTTACAGTATCAGAAAAAGAGGACTATGTT
Found at i:77548721 original size:16 final size:17
Alignment explanation
Indices: 77548695--77548739 Score: 74
Period size: 16 Copynumber: 2.7 Consensus size: 17
77548685 GTTTAATTGG
77548695 TTTAGTTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
77548712 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
*
77548728 TTTAGTTATTTA
1 TTTAGTTGTTTA
77548740 ATTTCCAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:77550787 original size:13 final size:13
Alignment explanation
Indices: 77550769--77550793 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77550759 TTTAATTCTA
77550769 AATAATTATCCTT
1 AATAATTATCCTT
77550782 AATAATTATCCT
1 AATAATTATCCT
77550794 AGTATAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATTATCCTT
Found at i:77552566 original size:18 final size:18
Alignment explanation
Indices: 77552543--77552656 Score: 169
Period size: 18 Copynumber: 6.3 Consensus size: 18
77552533 AAGATTACAA
77552543 AATCATATCTAAGATTGC
1 AATCATATCTAAGATTGC
77552561 AATCATATCTAAGATTG-
1 AATCATATCTAAGATTGC
*
77552578 TATCATATCTAAGATTGC
1 AATCATATCTAAGATTGC
77552596 AATCATATCTAAGATTG-
1 AATCATATCTAAGATTGC
*
77552613 TATCATATCTAAGATTGC
1 AATCATATCTAAGATTGC
*
77552631 ATATCACATCTAAGATTGC
1 A-ATCATATCTAAGATTGC
77552650 ATATCAT
1 A-ATCAT
77552657 TGAAGATTAT
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
17 32 0.37
18 33 0.38
19 22 0.25
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
AATCATATCTAAGATTGC
Found at i:77552583 original size:35 final size:35
Alignment explanation
Indices: 77552544--77552648 Score: 192
Period size: 35 Copynumber: 3.0 Consensus size: 35
77552534 AGATTACAAA
77552544 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
77552579 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
*
77552614 ATCATATCTAAGATTGCATATCACATCTAAGATTG
1 ATCATATCTAAGATTGCA-ATCATATCTAAGATTG
77552649 CATATCATTG
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
35 53 0.78
36 15 0.22
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (35 bp):
ATCATATCTAAGATTGCAATCATATCTAAGATTGT
Found at i:77552584 original size:17 final size:18
Alignment explanation
Indices: 77552544--77552656 Score: 167
Period size: 17 Copynumber: 6.3 Consensus size: 18
77552534 AGATTACAAA
*
77552544 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCT
77552562 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
*
77552579 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCT
77552597 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
77552614 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
*
77552633 ATCACATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
77552652 ATCAT
1 ATCAT
77552657 TGAAGATTAT
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
17 32 0.37
18 32 0.37
19 23 0.26
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
ATCATATCTAAGATTGCT
Found at i:77553229 original size:10 final size:10
Alignment explanation
Indices: 77553202--77553251 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
77553192 TTAACTTCTA
77553202 AAAGATAAAT
1 AAAGATAAAT
*
77553212 ACAA-ATAATT
1 A-AAGATAAAT
77553222 AAAGATAAAT
1 AAAGATAAAT
77553232 AAAGATAAAT
1 AAAGATAAAT
77553242 GAAA-ATAAAT
1 -AAAGATAAAT
77553252 CCTAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:77553735 original size:44 final size:45
Alignment explanation
Indices: 77553685--77553771 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
77553675 AAAATTAGTC
77553685 AAAATGCATACG-AAAATAAAGAGAACCCTTAGCTTGATTTAAAA
1 AAAATGCATACGAAAAATAAAGAGAACCCTTAGCTTGATTTAAAA
*
77553729 AAAATGCATAGGAAAAATAAAGAGAACCCTTAGCTTGATTTAA
1 AAAATGCATACGAAAAATAAAGAGAACCCTTAGCTTGATTTAA
77553772 GTAACATTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 11 0.27
45 30 0.73
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (45 bp):
AAAATGCATACGAAAAATAAAGAGAACCCTTAGCTTGATTTAAAA
Found at i:77554653 original size:18 final size:18
Alignment explanation
Indices: 77554630--77554665 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
77554620 TGGGCATCAT
77554630 CAACAACCAAAATAGCAG
1 CAACAACCAAAATAGCAG
*
77554648 CAACAACGAAAATAGCAG
1 CAACAACCAAAATAGCAG
77554666 ATAAAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.14, T:0.06
Consensus pattern (18 bp):
CAACAACCAAAATAGCAG
Found at i:77555680 original size:13 final size:13
Alignment explanation
Indices: 77555662--77555687 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77555652 AAATAATTAG
77555662 TAACATCAGTTCC
1 TAACATCAGTTCC
77555675 TAACATCAGTTCC
1 TAACATCAGTTCC
77555688 AATACGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
TAACATCAGTTCC
Found at i:77556736 original size:23 final size:23
Alignment explanation
Indices: 77556706--77556752 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
77556696 TGGAACAAGA
77556706 GCTGTTTGGCTGCAGGGTTATGG
1 GCTGTTTGGCTGCAGGGTTATGG
*
77556729 GCTGTTTGGCTGTAGGGTTATGG
1 GCTGTTTGGCTGCAGGGTTATGG
77556752 G
1 G
77556753 TCTTCTCTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.11, G:0.45, T:0.36
Consensus pattern (23 bp):
GCTGTTTGGCTGCAGGGTTATGG
Found at i:77556843 original size:15 final size:14
Alignment explanation
Indices: 77556817--77556873 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
77556807 ATTTTTTATT
77556817 AATAA-TAA-AATA
1 AATAATTAATAATA
77556829 AATAATTAAGTAATA
1 AATAATTAA-TAATA
77556844 AATAATTAA-AATA
1 AATAATTAATAATA
*
77556857 AAGTAATAAATAATA
1 AA-TAATTAATAATA
77556872 AA
1 AA
77556874 ATTGAAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 5 0.13
13 9 0.23
14 6 0.15
15 19 0.49
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (14 bp):
AATAATTAATAATA
Found at i:77556856 original size:28 final size:27
Alignment explanation
Indices: 77556817--77556873 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
77556807 ATTTTTTATT
*
77556817 AATAATAAAATAAA-TAATTAAGTAATA
1 AATAATAAAATAAAGTAA-TAAATAATA
77556844 AATAATTAAAATAAAGTAATAAATAATA
1 AATAA-TAAAATAAAGTAATAAATAATA
77556872 AA
1 AA
77556874 ATTGAAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 5 0.19
28 19 0.70
29 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (27 bp):
AATAATAAAATAAAGTAATAAATAATA
Found at i:77556862 original size:21 final size:20
Alignment explanation
Indices: 77556836--77556875 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
77556826 ATAAATAATT
77556836 AAGTAATAAATAATTAAAATA
1 AAGTAATAAATAA-TAAAATA
77556857 AAGTAATAAATAATAAAAT
1 AAGTAATAAATAATAAAAT
77556876 TGAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AAGTAATAAATAATAAAATA
Found at i:77561183 original size:12 final size:13
Alignment explanation
Indices: 77561166--77561203 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
77561156 ATCCTGGAAT
77561166 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
77561178 ATTAAGAACACATA
1 ATTAAGAACA-AGA
77561192 ATTAAGAACAAG
1 ATTAAGAACAAG
77561204 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:77564529 original size:10 final size:10
Alignment explanation
Indices: 77564502--77564550 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
77564492 TTAACTTCTA
77564502 AAAGATAAAT
1 AAAGATAAAT
77564512 ACAA-ATAAAT
1 A-AAGATAAAT
*
77564522 AAAGATAATT
1 AAAGATAAAT
77564532 AAAGATAAAT
1 AAAGATAAAT
77564542 AAAGATAAA
1 AAAGATAAA
77564551 AGAAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:77564559 original size:20 final size:20
Alignment explanation
Indices: 77564514--77564561 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
77564504 AGATAAATAC
*
77564514 AAATAAATAAAGATAATTAA
1 AAATAAATAAAGATAATAAA
*
77564534 AGATAAATAAAGATAA-AAGA
1 AAATAAATAAAGATAATAA-A
77564554 AAATAAAT
1 AAATAAAT
77564562 CCTAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
AAATAAATAAAGATAATAAA
Found at i:77566324 original size:27 final size:27
Alignment explanation
Indices: 77566269--77566348 Score: 144
Period size: 27 Copynumber: 3.0 Consensus size: 27
77566259 ACGGAAAAGA
77566269 AGATTGATGAGGGAGTT-GACCATGTC
1 AGATTGATGAGGGAGTTAGACCATGTC
*
77566295 AGATTGATGAGGGAGTTAGACCATTTC
1 AGATTGATGAGGGAGTTAGACCATGTC
77566322 AGATTGATGAGGGAGTTAGACCATGTC
1 AGATTGATGAGGGAGTTAGACCATGTC
77566349 CAGAGAACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
26 17 0.33
27 34 0.67
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.28
Consensus pattern (27 bp):
AGATTGATGAGGGAGTTAGACCATGTC
Found at i:77569048 original size:50 final size:50
Alignment explanation
Indices: 77568924--77569273 Score: 409
Period size: 50 Copynumber: 7.0 Consensus size: 50
77568914 GTAACCGAAG
* * * * *
77568924 CTATCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
77568973 CAATCTGGTACACGTAGTAGCCTGCACTTTGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * *
77569023 CCATCTGATACACGTAGTAGGCTGCAGTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * * * * * * *
77569073 GTTGTCGGGTACGCATAGTAGCCTGTACTTAGTACTATACATGCGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
*
77569124 CTATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * *
77569174 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCT-ACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACG-TGACCTAA
* *
77569224 CTATCTGGTACACGTAGTAGCCTACATTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
77569274 AACCATCTTA
Statistics
Matches: 249, Mismatches: 46, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
49 42 0.17
50 171 0.69
51 35 0.14
52 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:77569171 original size:151 final size:150
Alignment explanation
Indices: 77568930--77569213 Score: 487
Period size: 151 Copynumber: 1.9 Consensus size: 150
77568920 GAAGCTATCT
*
77568930 GGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCC
* * *
77568995 TGCACTTTGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGGCTGCAGTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
77569060 ACACGTGATTGAAGTTGTCG
131 ACACGTGATTGAAGTTGTCG
* * * *
77569080 GGTACGCATAGTAGCCTGTACTTAGTACTATACATGCGACCTAACTATTTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCTGGTACACGTAGTAGC
77569145 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
65 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
77569210 CACA
130 CACA
77569214 TGCTACCTAA
Statistics
Matches: 125, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
150 38 0.30
151 87 0.70
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
ACACGTGATTGAAGTTGTCG
Found at i:77573047 original size:5 final size:5
Alignment explanation
Indices: 77573037--77573101 Score: 121
Period size: 5 Copynumber: 12.8 Consensus size: 5
77573027 AATGAATAAG
77573037 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
77573087 TTATA TTATTA TTAT
1 TTATA TTA-TA TTAT
77573102 TTTAAAGGCC
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
5 54 0.92
6 5 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:77573419 original size:49 final size:49
Alignment explanation
Indices: 77573347--77573453 Score: 205
Period size: 49 Copynumber: 2.2 Consensus size: 49
77573337 ATTATTGATA
77573347 TCTCATATCCAAATATCCTTTAATAGAGATTTTGTACTTTTAGTTCCTT
1 TCTCATATCCAAATATCCTTTAATAGAGATTTTGTACTTTTAGTTCCTT
*
77573396 TCTCATATCCAAATATCCTTTAATGGAGATTTTGTACTTTTAGTTCCTT
1 TCTCATATCCAAATATCCTTTAATAGAGATTTTGTACTTTTAGTTCCTT
77573445 TCTCATATC
1 TCTCATATC
77573454 ACTTCACTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 57 1.00
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (49 bp):
TCTCATATCCAAATATCCTTTAATAGAGATTTTGTACTTTTAGTTCCTT
Found at i:77577059 original size:17 final size:18
Alignment explanation
Indices: 77577037--77577071 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
77577027 GATATGATAC
*
77577037 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
77577054 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
77577072 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:77577360 original size:22 final size:21
Alignment explanation
Indices: 77577325--77577400 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
77577315 AAAAGGTATC
* *
77577325 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
77577346 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
77577369 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
77577388 TGC-AATCATATCT
1 TACAAATCATATCT
77577401 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:77577417 original size:35 final size:37
Alignment explanation
Indices: 77577354--77577432 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
77577344 ATTACAAAAT
77577354 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
77577390 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
77577425 CATATCAT
1 CATATCAT
77577433 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:77577430 original size:14 final size:15
Alignment explanation
Indices: 77577375--77577430 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
77577365 AGATTGCATA
77577375 TCATATCTAAGATTG
1 TCATATCTAAGATTG
77577390 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
77577408 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
77577425 -CATATC
1 TCATATC
77577431 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:77577440 original size:17 final size:19
Alignment explanation
Indices: 77577361--77577432 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
77577351 AATCATATCT
77577361 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
77577380 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
77577398 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
77577415 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
77577433 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:77577845 original size:45 final size:45
Alignment explanation
Indices: 77577788--77578056 Score: 267
Period size: 45 Copynumber: 5.9 Consensus size: 45
77577778 CAATATCTAC
* * *
77577788 TATCTTTGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * *
77577833 TATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * *
77577878 T-TCTTCAATCTACTCCCCGTCTAATACAGAGATGTCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * *
77577922 TATCTCCGATTTGCTCCCCATCTAATACAGAGATGTCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * * * * * *
77577967 CATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAGATCTGT
1 TATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTGT
77578012 TAATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 T-A--TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
77578057 ATCTTGGATC
Statistics
Matches: 183, Mismatches: 31, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
43 5 0.03
44 45 0.25
45 102 0.56
46 1 0.01
48 19 0.10
49 5 0.03
50 6 0.03
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.31
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
Found at i:77577917 original size:89 final size:89
Alignment explanation
Indices: 77577796--77577965 Score: 250
Period size: 89 Copynumber: 1.9 Consensus size: 89
77577786 ACTATCTTTG
* * * *
77577796 ATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTTATCTTCAATCTGCTCCCCGTCTAATAC
1 ATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGCTCCCCATCTAATAC
77577861 AGAGACGCCAAATCTGCTTCTTCA
66 AGAGACGCCAAATCTGCTTCTTCA
* * * *
77577885 ATCTACTCCCCGTCTAATACAGAGATGTCAAATCTGTTATCTCCGATTTGCTCCCCATCTAATAC
1 ATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGCTCCCCATCTAATAC
* *
77577950 AGAGATGTCAAATCTG
66 AGAGACGCCAAATCTG
77577966 TCATCTTGGA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (89 bp):
ATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGCTCCCCATCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:77578125 original size:78 final size:78
Alignment explanation
Indices: 77577995--77578212 Score: 328
Period size: 78 Copynumber: 2.8 Consensus size: 78
77577985 ATGTAAACAC
*
77577995 ATGAAGGTCAGATCTGTTAATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCAGATCTGCT-ATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
77578060 TTGGATCTGCTTCA
65 TTGGATCTACTTCA
* * *
77578074 ATGAAGGTCAGATTTGCTGTGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
77578139 TGGATCTATTTCA
66 TGGATCTACTTCA
* * ** *
77578152 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAAATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
77578213 TGTTTCTTCG
Statistics
Matches: 125, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
78 109 0.87
79 16 0.13
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTACTTCA
Found at i:77579245 original size:81 final size:81
Alignment explanation
Indices: 77579105--77579261 Score: 260
Period size: 81 Copynumber: 1.9 Consensus size: 81
77579095 TATTTGAATG
** * * *
77579105 AATTTGTCAAAAATATGAAGGAAATTAATCTGATAGCCTATCTTTGAGAAGAAACAGAATCTTAA
1 AATTTGTCAAAAATACAAAGGAAATTAATCTGAAAGCCTATCTTTGAGAAGAAAAAGAATCTAAA
77579170 GATAGCAAACAAGAAA
66 GATAGCAAACAAGAAA
*
77579186 AATTTGTCAAAAGTACAAAGGAAATTAATCTGAAAGCCTATCTTTGAGAAGAAAAAGAATCTAAA
1 AATTTGTCAAAAATACAAAGGAAATTAATCTGAAAGCCTATCTTTGAGAAGAAAAAGAATCTAAA
77579251 GATAGCAAACA
66 GATAGCAAACA
77579262 GGACAAAAGT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (81 bp):
AATTTGTCAAAAATACAAAGGAAATTAATCTGAAAGCCTATCTTTGAGAAGAAAAAGAATCTAAA
GATAGCAAACAAGAAA
Found at i:77588550 original size:22 final size:21
Alignment explanation
Indices: 77588515--77588590 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
77588505 AAAAGGTATC
* * *
77588515 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
77588536 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* * *
77588559 TGCATATCATA--TCTAAGAC
1 TACAAATCATATCTCTAAGAT
77588578 TAC-AATCATATCT
1 TACAAATCATATCT
77588591 AAGATTGTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.14
19 9 0.21
20 1 0.02
21 3 0.07
22 15 0.35
23 9 0.21
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:77588575 original size:19 final size:19
Alignment explanation
Indices: 77588551--77588641 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
77588541 AATCATATCT
77588551 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
77588570 TCTAAGACTACA-ATCATA
1 TCTAAGATTGCATATCATA
77588588 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
77588605 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
77588624 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
77588642 TGAAGATTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 16 0.25
18 14 0.22
19 35 0.54
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:77590137 original size:21 final size:20
Alignment explanation
Indices: 77590105--77590145 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
77590095 ATACATGAGT
77590105 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
*
77590125 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
77590146 TTATACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:77597130 original size:10 final size:10
Alignment explanation
Indices: 77597103--77597162 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
77597093 TGAAATTCTA
77597103 AAAGATAAAT
1 AAAGATAAAT
77597113 ACAA-ATAAAT
1 A-AAGATAAAT
*
77597123 AAAGATAATT
1 AAAGATAAAT
77597133 AAAGATAAAT
1 AAAGATAAAT
*
77597143 AAGGATAAAT
1 AAAGATAAAT
77597153 GAAA-ATAAAT
1 -AAAGATAAAT
77597163 CCTAGAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 37 0.86
11 4 0.09
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:77597981 original size:96 final size:97
Alignment explanation
Indices: 77597816--77598002 Score: 295
Period size: 96 Copynumber: 1.9 Consensus size: 97
77597806 ATTCTATTTA
** * * *
77597816 TTTATTTTTACTTAGGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAAAACATATCGAACCTTTTGAGGCGAAGAGAGATGACAGCCAAGCACCCCA
*
77597881 CCCCGGTTACTCAGCCCAACACATTCCTAATT
66 CCCCGGTTACTCAACCCAACACATTCCTAATT
*
77597913 TTTATTTTT-CTTAAAAACATATCGAACCTTTTGAGGCGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAAAACATATCGAACCTTTTGAGGCGAAGAGAGATGACAGCCAAGCACCCCA
*
77597977 CCCCGGTTACTTAACCCAACACATTC
66 CCCCGGTTACTCAACCCAACACATTC
77598003 TTAAAAATTA
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 73 0.89
97 9 0.11
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTTAAAAACATATCGAACCTTTTGAGGCGAAGAGAGATGACAGCCAAGCACCCCA
CCCCGGTTACTCAACCCAACACATTCCTAATT
Found at i:77598069 original size:57 final size:57
Alignment explanation
Indices: 77597981--77598094 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 57
77597971 ACCTCACCCC
*
77597981 GGTTACTTAACCCAACACATTCTTAAAAATTAATTCTAATTAGCGGAGTTTTACCTA
1 GGTTACTTAACCCAACACATTCTTAAAAATTAATTCCAATTAGCGGAGTTTTACCTA
* * ** *
77598038 GGTTACTTAGCCCAACACATTCTTATAAATTAATTCCGGTTAGCGGTGTTTTACCTA
1 GGTTACTTAACCCAACACATTCTTAAAAATTAATTCCAATTAGCGGAGTTTTACCTA
77598095 ACACATCACA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (57 bp):
GGTTACTTAACCCAACACATTCTTAAAAATTAATTCCAATTAGCGGAGTTTTACCTA
Found at i:77598577 original size:15 final size:15
Alignment explanation
Indices: 77598557--77598586 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
77598547 AATTTTATAT
77598557 GGGCAGCAACAACCA
1 GGGCAGCAACAACCA
*
77598572 GGGCAGCAACGACCA
1 GGGCAGCAACAACCA
77598587 AATCAGCATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.33, G:0.30, T:0.00
Consensus pattern (15 bp):
GGGCAGCAACAACCA
Found at i:77598854 original size:18 final size:15
Alignment explanation
Indices: 77598821--77598861 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
77598811 TTAATATCTG
77598821 AAAATAATAAATAAT
1 AAAATAATAAATAAT
*
77598836 AAAATAAT-AA-GAT
1 AAAATAATAAATAAT
77598849 AAAATAA-AAATAA
1 AAAATAATAAATAA
77598862 AAATTGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAATAATAAATAAT
Found at i:77604639 original size:23 final size:23
Alignment explanation
Indices: 77604557--77604643 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
77604547 CCTGATCAGT
*
77604557 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
77604579 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
77604599 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
77604622 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
77604644 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:77606114 original size:16 final size:17
Alignment explanation
Indices: 77606079--77606114 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
77606069 CCTAATTCTC
77606079 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
77606095 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
77606110 CCTTC
1 CCTTC
77606115 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:77608315 original size:10 final size:10
Alignment explanation
Indices: 77608288--77608347 Score: 72
Period size: 10 Copynumber: 6.0 Consensus size: 10
77608278 TGAAATTCTA
77608288 AAAGATAAAT
1 AAAGATAAAT
77608298 ACAA-ATAAAT
1 A-AAGATAAAT
77608308 AAAGAT-AAT
1 AAAGATAAAT
77608317 CAAAGATAAAT
1 -AAAGATAAAT
77608328 AAAGATAAAT
1 AAAGATAAAT
77608338 GAAA-ATAAAT
1 -AAAGATAAAT
77608348 CCTAGAATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
9 5 0.11
10 32 0.71
11 8 0.18
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:77608324 original size:30 final size:30
Alignment explanation
Indices: 77608288--77608345 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
77608278 TGAAATTCTA
77608288 AAAGATAAATACAA-ATAAAT-AAAGATAATC
1 AAAGATAAATA-AAGATAAATGAAA-ATAATC
77608318 AAAGATAAATAAAGATAAATGAAAATAA
1 AAAGATAAATAAAGATAAATGAAAATAA
77608346 ATCCTAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 2 0.08
30 21 0.81
31 3 0.12
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.19
Consensus pattern (30 bp):
AAAGATAAATAAAGATAAATGAAAATAATC
Found at i:77614183 original size:52 final size:52
Alignment explanation
Indices: 77614105--77614209 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
77614095 TGCAACTTGC
* *
77614105 AAACATCCAAACTCTAAATTGGACAATTAGGAATTAACCTTAAATTCTTCAA
1 AAACATCCAAACTCTAAATTGGACAATTAGGAATCAACCCTAAATTCTTCAA
77614157 AAACATCCAAACTCTAAATTGGACAATTAGGAATCAACCCTAAATTCTTCAA
1 AAACATCCAAACTCTAAATTGGACAATTAGGAATCAACCCTAAATTCTTCAA
77614209 A
1 A
77614210 TAGGAATTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.27
Consensus pattern (52 bp):
AAACATCCAAACTCTAAATTGGACAATTAGGAATCAACCCTAAATTCTTCAA
Found at i:77614962 original size:49 final size:48
Alignment explanation
Indices: 77614889--77614983 Score: 154
Period size: 49 Copynumber: 2.0 Consensus size: 48
77614879 TGTGAGAAAA
*
77614889 ATAATAGATCATTACTCTAGGTAAGACCCTACAGACGTATATCGAAGAG
1 ATAATAGATCATTACTCTAAGTAAGACCCTACAGAC-TATATCGAAGAG
* *
77614938 ATAATAGATCATTACTCTAAGTAAGGCCCTACAGACTATATTGAAG
1 ATAATAGATCATTACTCTAAGTAAGACCCTACAGACTATATCGAAG
77614984 TTGAAATGCG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
48 9 0.21
49 34 0.79
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (48 bp):
ATAATAGATCATTACTCTAAGTAAGACCCTACAGACTATATCGAAGAG
Found at i:77616645 original size:22 final size:22
Alignment explanation
Indices: 77616606--77616652 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
77616596 AAAAAATAAG
*
77616606 TTAAATTAAAATATTTAAAAAT
1 TTAAATGAAAATATTTAAAAAT
77616628 TTAAATGAGAAATA-TTAAAAAT
1 TTAAATGA-AAATATTTAAAAAT
77616650 TTA
1 TTA
77616653 TTTGAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
TTAAATGAAAATATTTAAAAAT
Found at i:77621076 original size:158 final size:158
Alignment explanation
Indices: 77620873--77621192 Score: 640
Period size: 158 Copynumber: 2.0 Consensus size: 158
77620863 CGATGCATGA
77620873 AAGAGAATATTAACATAACATACGGGATAACATGTTATAGTAATAGGTAAATAAAAGCACAATAG
1 AAGAGAATATTAACATAACATACGGGATAACATGTTATAGTAATAGGTAAATAAAAGCACAATAG
77620938 CGTAAATATCATACATTAACTAACATATACATATGAGAAACATGGCAAATTTTAAATAAGTAAAA
66 CGTAAATATCATACATTAACTAACATATACATATGAGAAACATGGCAAATTTTAAATAAGTAAAA
77621003 TATACATAAAACACGATATATATTTAAG
131 TATACATAAAACACGATATATATTTAAG
77621031 AAGAGAATATTAACATAACATACGGGATAACATGTTATAGTAATAGGTAAATAAAAGCACAATAG
1 AAGAGAATATTAACATAACATACGGGATAACATGTTATAGTAATAGGTAAATAAAAGCACAATAG
77621096 CGTAAATATCATACATTAACTAACATATACATATGAGAAACATGGCAAATTTTAAATAAGTAAAA
66 CGTAAATATCATACATTAACTAACATATACATATGAGAAACATGGCAAATTTTAAATAAGTAAAA
77621161 TATACATAAAACACGATATATATTTAAG
131 TATACATAAAACACGATATATATTTAAG
77621189 AAGA
1 AAGA
77621193 ATAGGTAAAA
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 162 1.00
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.26
Consensus pattern (158 bp):
AAGAGAATATTAACATAACATACGGGATAACATGTTATAGTAATAGGTAAATAAAAGCACAATAG
CGTAAATATCATACATTAACTAACATATACATATGAGAAACATGGCAAATTTTAAATAAGTAAAA
TATACATAAAACACGATATATATTTAAG
Found at i:77621592 original size:21 final size:22
Alignment explanation
Indices: 77621566--77621607 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
77621556 AAAATATCGT
*
77621566 AAAATAAATAGTATA-AAAAAC
1 AAAATAAATAATATATAAAAAC
77621587 AAAATAAATAATATATAAAAA
1 AAAATAAATAATATATAAAAA
77621608 TATAAGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAAATAATATATAAAAAC
Found at i:77621955 original size:14 final size:14
Alignment explanation
Indices: 77621925--77621989 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
77621915 CAATTTTATA
77621925 AAAATATAT-AAA-
1 AAAATATATAAAAT
*
77621937 GAAATATATAAAAT
1 AAAATATATAAAAT
*
77621951 AAAATATATAATAT
1 AAAATATATAAAAT
* * *
77621965 AATATAATTTATAGAT
1 AAAAT-ATATA-AAAT
77621981 AAAATATAT
1 AAAATATAT
77621990 GATAAAATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
12 8 0.20
13 3 0.07
14 16 0.39
15 7 0.17
16 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAATATATAAAAT
Found at i:77624059 original size:207 final size:207
Alignment explanation
Indices: 77623640--77624335 Score: 1196
Period size: 207 Copynumber: 3.4 Consensus size: 207
77623630 GGTCTGCTTT
*
77623640 AGCCAAATCAGCAATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
1 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
* * *
77623705 TTACTTCAGTATAAACATCTGAAAGCCAGATCTGCTATCTGTCTGCTCTCCTGTCGAATATGGAG
66 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCC-GTCGAATATGGAG
*
77623770 ACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATT
130 ACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATC
* *
77623835 GTAAGTATGTGAA
195 GTAAGCACGTGAA
* * * *
77623848 AGCCAAATCAGCTATGTCTTTGATTTGTTCTTTGTAAGCACAAGGATGCCAAATCATCTTAGATC
1 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
* *
77623913 TTGCTTCAATATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCACTCCGTCGAATATGGAGA
66 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGA
**
77623978 CGCCAAACTTTAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
131 CGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
77624043 TAAGCACGTGAA
196 TAAGCACGTGAA
* *
77624055 AGCCAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGAT
1 AGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
77624119 CTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAG
65 CTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAG
77624184 ACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATC
130 ACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATC
77624249 GTAAGCACGTGAA
195 GTAAGCACGTGAA
*
77624262 AGTCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
1 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
*
77624327 TTGCCTCAG
66 TTGCTTCAG
77624336 CCAGATCTGC
Statistics
Matches: 459, Mismatches: 27, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
206 1 0.00
207 351 0.76
208 107 0.23
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (207 bp):
AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGA
CGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
TAAGCACGTGAA
Found at i:77633165 original size:30 final size:30
Alignment explanation
Indices: 77633129--77633189 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
77633119 GTATTTAGTA
77633129 TTTGCATCATACCATTTGGGGTACGGTGGC
1 TTTGCATCATACCATTTGGGGTACGGTGGC
77633159 TTTGCATCATACCATTTGGGGTACGGTGGC
1 TTTGCATCATACCATTTGGGGTACGGTGGC
77633189 T
1 T
77633190 GTAGCGGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.20, G:0.30, T:0.34
Consensus pattern (30 bp):
TTTGCATCATACCATTTGGGGTACGGTGGC
Found at i:77644242 original size:16 final size:16
Alignment explanation
Indices: 77644221--77644252 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
77644211 TTCTGCAGTT
77644221 CTTTTTGTTTCTTTTA
1 CTTTTTGTTTCTTTTA
*
77644237 CTTTTTTTTTCTTTTA
1 CTTTTTGTTTCTTTTA
77644253 TTTCTTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.78
Consensus pattern (16 bp):
CTTTTTGTTTCTTTTA
Found at i:77644271 original size:18 final size:18
Alignment explanation
Indices: 77644248--77644286 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
77644238 TTTTTTTTTC
77644248 TTTTATTT-CTTTAGTTTA
1 TTTTATTTACTTTA-TTTA
77644266 TTTTATTTACTTTATTTA
1 TTTTATTTACTTTATTTA
77644284 TTT
1 TTT
77644287 ACTTTATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTATTTACTTTATTTA
Found at i:77644300 original size:13 final size:13
Alignment explanation
Indices: 77644233--77644294 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 13
77644223 TTTTGTTTCT
77644233 TTTACTTT-TTT-
1 TTTACTTTATTTA
*
77644244 TTT-CTTTTATTTC
1 TTTAC-TTTATTTA
*
77644257 TTTAGTTTATTTTA
1 TTTACTTTA-TTTA
77644271 TTTACTTTATTTA
1 TTTACTTTATTTA
77644284 TTTACTTTATT
1 TTTACTTTATT
77644295 GTTTTAATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
10 1 0.02
11 6 0.14
12 3 0.07
13 22 0.51
14 11 0.26
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTACTTTATTTA
Found at i:77645606 original size:173 final size:173
Alignment explanation
Indices: 77645306--77645796 Score: 615
Period size: 173 Copynumber: 2.9 Consensus size: 173
77645296 CCTTTAGGAG
* ** * * * *
77645306 AAAGAAGAACAC-CAAGGGCTTTATTTTGTTGTC-TAAAGGAGGAATGGAGTAGCTCATTTTA-G
1 AAAGAAGAACACTGAA-GGCTTTATTTCATTGTCTTCAGGGAGGAACGGAGTAGCTCA-TATACG
* *
77645368 GAGGAGTGCTGAAACTGAAACTAGACCCC-AAGAAGTTTATTTTTGTGGAGTTGATA-CTGGGAG
64 GAGGAGTGGTGAAACTGAAACTAGACCCCTAAGAAGTTTATTTTTGTGGAGTTGA-AGCTAGGAG
77645431 ATTACTTTGGGTGTAACACCCCCATACACGACCCAAACATC-AGGTC
128 ATTACTTTGGGTGTAACACCCCCATACACGACCCAAACATCGA-GTC
* * * *
77645477 AAAGAAGAACCCT-AGGGGCTTTATTTCATTGT-TTAGACGGGA-GAACGGAGTAGCTCATCTAC
1 AAAGAAGAACACTGA-AGGCTTTATTTCATTGTCTT-CA-GGGAGGAACGGAGTAGCTCATATAC
* * * *
77645539 GGATGAATGGTGAAATTGAAACTAGACCCCTAAGAAGTTTATTTTTGTAGAGTTGAAGCTAGGAG
63 GGAGGAGTGGTGAAACTGAAACTAGACCCCTAAGAAGTTTATTTTTGTGGAGTTGAAGCTAGGAG
* * * *
77645604 ATTACTTTGGGTGTAACATCCGCATACTCGACCCGAACATCGAGTC
128 ATTACTTTGGGTGTAACACCCCCATACACGACCCAAACATCGAGTC
*
77645650 AAAGAAGAACACTGAAGGCTTTATTTCATTGTCTTCAGGGAGGAACGGAGTAGCTCATATACAGA
1 AAAGAAGAACACTGAAGGCTTTATTTCATTGTCTTCAGGGAGGAACGGAGTAGCTCATATACGGA
* * *
77645715 GGAGTGGTGAAACTGAAACTAGA-CCCTAAGAAGTATATTTTTGTGGAGTTGAAGTTTGGAGATT
66 GGAGTGGTGAAACTGAAACTAGACCCCTAAGAAGTTTATTTTTGTGGAGTTGAAGCTAGGAGATT
*
77645779 ACTTTAGGTGTAACACCC
131 ACTTTGGGTGTAACACCC
77645797 TTATGCCTGA
Statistics
Matches: 276, Mismatches: 32, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
171 30 0.11
172 99 0.36
173 143 0.52
174 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (173 bp):
AAAGAAGAACACTGAAGGCTTTATTTCATTGTCTTCAGGGAGGAACGGAGTAGCTCATATACGGA
GGAGTGGTGAAACTGAAACTAGACCCCTAAGAAGTTTATTTTTGTGGAGTTGAAGCTAGGAGATT
ACTTTGGGTGTAACACCCCCATACACGACCCAAACATCGAGTC
Found at i:77646189 original size:22 final size:22
Alignment explanation
Indices: 77646163--77646205 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
77646153 AATTCCTGAA
77646163 TATATCTTAATAATCAACAAAG
1 TATATCTTAATAATCAACAAAG
* * *
77646185 TATATTTTAGTAATTAACAAA
1 TATATCTTAATAATCAACAAA
77646206 TCATTTCGTA
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:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (22 bp):
TATATCTTAATAATCAACAAAG
Found at i:77650050 original size:14 final size:14
Alignment explanation
Indices: 77650023--77650064 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
77650013 AAAAACCTAG
77650023 CTTTCTC-CTTTTT
1 CTTTCTCTCTTTTT
*
77650036 CTTTCTCTTTTTTT
1 CTTTCTCTCTTTTT
77650050 CTTTCTCTCTTTTT
1 CTTTCTCTCTTTTT
77650064 C
1 C
77650065 CTTTTGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 7 0.27
14 19 0.73
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
CTTTCTCTCTTTTT
Done.