Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 38 of 318
Found at i:14288568 original size:47 final size:47
Alignment explanation
Indices: 14288459--14288569 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
14288449 CCGGGATAAG
*
14288459 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
14288506 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
14288553 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
14288570 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:14289341 original size:4 final size:4
Alignment explanation
Indices: 14289332--14289360 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
14289322 CCCTTTTCTA
14289332 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
14289361 CACGTTTGCT
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:14297596 original size:21 final size:22
Alignment explanation
Indices: 14297557--14297597 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14297547 TTACTAAATA
14297557 ATTTAAATATATGAAATATGCC
1 ATTTAAATATATGAAATATGCC
*
14297579 ATTTAAGTATAT-AAATATG
1 ATTTAAATATATGAAATATG
14297598 GGAGAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (22 bp):
ATTTAAATATATGAAATATGCC
Found at i:14298290 original size:18 final size:18
Alignment explanation
Indices: 14298263--14298355 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
14298253 TACGACCGTT
14298263 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
14298281 TACGGCACTATTCACATA
1 TACGGTACTATTCACGTA
*
14298299 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
14298317 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
14298335 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
14298353 TAC
1 TAC
14298356 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:14315649 original size:27 final size:25
Alignment explanation
Indices: 14315623--14315673 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
14315613 AATTACATTA
14315623 AAAAAAACTAAATATATATCAAAATT
1 AAAAAAACTAAA-ATATATCAAAATT
* * *
14315649 AAAATAATTAAAATATATTAAAATT
1 AAAAAAACTAAAATATATCAAAATT
14315674 TATAAAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAAAAACTAAAATATATCAAAATT
Found at i:14315679 original size:9 final size:10
Alignment explanation
Indices: 14315646--14315682 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
14315636 ATATATCAAA
14315646 ATTAAAATA-
1 ATTAAAATAT
14315655 ATTAAAATAT
1 ATTAAAATAT
*
14315665 ATTAAAATTT
1 ATTAAAATAT
14315675 A-TAAAATA
1 ATTAAAATA
14315683 CAAATGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 15 0.60
10 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:14329636 original size:21 final size:21
Alignment explanation
Indices: 14329611--14329653 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
14329601 AATATATTTT
*
14329611 TATTT-AAATTTAATTATAAAA
1 TATTTAAAAATTAA-TATAAAA
14329632 TATTTAAAAATTAATATAAAA
1 TATTTAAAAATTAATATAAAA
14329653 T
1 T
14329654 TATATATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTTAAAAATTAATATAAAA
Found at i:14329746 original size:27 final size:28
Alignment explanation
Indices: 14329710--14329768 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
14329700 AATAGGATTT
14329710 TATATATATTT-AAAATTAATAATATTAA
1 TATATATATTTGAAAA-TAATAATATTAA
* *
14329738 TATAT-TATTTGTAAATATTAATATTAA
1 TATATATATTTGAAAATAATAATATTAA
14329765 TATA
1 TATA
14329769 AAATTGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
TATATATATTTGAAAATAATAATATTAA
Found at i:14330064 original size:20 final size:20
Alignment explanation
Indices: 14330037--14330305 Score: 178
Period size: 20 Copynumber: 13.4 Consensus size: 20
14330027 TTTTTAACGG
*
14330037 TTACCAATAATTCTAAGGAT
1 TTACCAATAATTCTAACGAT
*
14330057 TTATCAATATATT-TAACGAT
1 TTACCAATA-ATTCTAACGAT
* * *
14330077 TTATCAATATTTCTAAGGAT
1 TTACCAATAATTCTAACGAT
* * *
14330097 ATATCAAT-ATATCTAACAAT
1 TTACCAATAAT-TCTAACGAT
* * *
14330117 TTGCAAAAAAATT-TAACGAT
1 TTAC-CAATAATTCTAACGAT
* * *
14330137 TTATCAATAATTGTAACAAT
1 TTACCAATAATTCTAACGAT
14330157 TTACCAA-AATATCTAACGAT
1 TTACCAATAAT-TCTAACGAT
* * *
14330177 TGACCAATAATTTTAAAGAT
1 TTACCAATAATTCTAACGAT
14330197 TTACCAA-AATATCTAACGAT
1 TTACCAATAAT-TCTAACGAT
*
14330217 TTACCAA-AATTTCTAAAGAT
1 TTACCAATAA-TTCTAACGAT
*
14330237 TTACCAATATATTGT-ACGAT
1 TTACCAATA-ATTCTAACGAT
* **
14330257 TTTCCAA-AATTTCTAATAAT
1 TTACCAATAA-TTCTAACGAT
* *
14330277 TTATCAA-AATATCTAATGAT
1 TTACCAATAAT-TCTAACGAT
14330297 TTACCAATA
1 TTACCAATA
14330306 TTTATGAGAC
Statistics
Matches: 194, Mismatches: 39, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.01
19 20 0.10
20 155 0.80
21 15 0.08
22 3 0.02
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (20 bp):
TTACCAATAATTCTAACGAT
Found at i:14330243 original size:60 final size:60
Alignment explanation
Indices: 14330037--14330306 Score: 219
Period size: 60 Copynumber: 4.5 Consensus size: 60
14330027 TTTTTAACGG
* * * * **
14330037 TTACCAATAAT-TCTAAGGATTTATCAATATA-TTTAACGATTTATCAATATTTCTAAGGAT
1 TTACCAA-AATATCTAAAGATTTACCAATATATTTTAACGATTTACCAA-AATTCTAACAAT
* * * * * * * * *
14330097 ATATCAATATATCTAACA-ATTT-GCAAAAAAATTTAACGATTTATCAATAATTGTAACAAT
1 TTACCAAAATATCTAA-AGATTTACCAATATATTTTAACGATTTACCAA-AATTCTAACAAT
* * * *
14330157 TTACCAAAATATCTAACGATTGACCAATA-ATTTTAAAGATTTACCAAAATATCTAACGAT
1 TTACCAAAATATCTAAAGATTTACCAATATATTTTAACGATTTACCAAAAT-TCTAACAAT
* * * *
14330217 TTACCAAAATTTCTAAAGATTTACCAATATATTGT-ACGATTTTCCAAAATTTCTAATAAT
1 TTACCAAAATATCTAAAGATTTACCAATATATTTTAACGATTTACCAAAA-TTCTAACAAT
* *
14330277 TTATCAAAATATCTAATGATTTACCAATAT
1 TTACCAAAATATCTAAAGATTTACCAATAT
14330307 TTATGAGACT
Statistics
Matches: 168, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
59 10 0.06
60 149 0.89
61 9 0.05
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (60 bp):
TTACCAAAATATCTAAAGATTTACCAATATATTTTAACGATTTACCAAAATTCTAACAAT
Found at i:14330321 original size:40 final size:40
Alignment explanation
Indices: 14330037--14330308 Score: 207
Period size: 40 Copynumber: 6.8 Consensus size: 40
14330027 TTTTTAACGG
* * *
14330037 TTACCAATAAT-TCTAAGGATTTATCAATATATT-TAACGAT
1 TTACCAA-AATATCTAACGATTTACCAATAT-TTCTAAAGAT
* * * * * * *
14330077 TTATCAATATTTCTAAGGATATATCAATATATCTAACA-AT
1 TTACCAAAATATCTAACGATTTACCAATATTTCTAA-AGAT
* * * * * * *
14330117 TTGCAAAAAAATTTAACGATTTATCAATAATTGTAACA-AT
1 TTACCAAAATATCTAACGATTTACCAATATTTCTAA-AGAT
*
14330157 TTACCAAAATATCTAACGATTGACCAATAATTT-TAAAGAT
1 TTACCAAAATATCTAACGATTTACCAAT-ATTTCTAAAGAT
*
14330197 TTACCAAAATATCTAACGATTTACCAAAATTTCTAAAGAT
1 TTACCAAAATATCTAACGATTTACCAATATTTCTAAAGAT
* * * *
14330237 TTACCAATATAT-TGTACGATTTTCCAAAATTTCTAATA-AT
1 TTACCAAAATATCT-AACGATTTACCAATATTTCTAA-AGAT
* *
14330277 TTATCAAAATATCTAATGATTTACCAATATTT
1 TTACCAAAATATCTAACGATTTACCAATATTT
14330309 ATGAGACTTT
Statistics
Matches: 188, Mismatches: 35, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
39 9 0.05
40 174 0.93
41 5 0.03
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.38
Consensus pattern (40 bp):
TTACCAAAATATCTAACGATTTACCAATATTTCTAAAGAT
Found at i:14330349 original size:20 final size:20
Alignment explanation
Indices: 14329998--14330349 Score: 123
Period size: 20 Copynumber: 17.6 Consensus size: 20
14329988 ATCTTAGTAA
*
14329998 TTATCAAAATTTCT-ATGACT
1 TTATCAATATTTCTAATGA-T
* * * *
14330018 TTATCAAAATTTTTAACG-G
1 TTATCAATATTTCTAATGAT
* * *
14330037 TTACCAATAATTCTAAGGAT
1 TTATCAATATTTCTAATGAT
*
14330057 TTATCAATATATT-TAACGAT
1 TTATCAATAT-TTCTAATGAT
*
14330077 TTATCAATATTTCTAAGGAT
1 TTATCAATATTTCTAATGAT
* * **
14330097 ATATCAATATATCTAACAAT
1 TTATCAATATTTCTAATGAT
* * * *
14330117 TTGCA-AAAAAATT-TAACGAT
1 TT--ATCAATATTTCTAATGAT
* * **
14330137 TTATCAATAATTGTAACAAT
1 TTATCAATATTTCTAATGAT
* * * *
14330157 TTACCAAAATATCTAACGAT
1 TTATCAATATTTCTAATGAT
* * *
14330177 TGACCAATAATTT-TAAAGAT
1 TTATCAAT-ATTTCTAATGAT
* * * *
14330197 TTACCAAAATATCTAACGAT
1 TTATCAATATTTCTAATGAT
* * *
14330217 TTACCAAAATTTCTAAAGAT
1 TTATCAATATTTCTAATGAT
* * *
14330237 TTACCAATATATTGT-ACGAT
1 TTATCAATAT-TTCTAATGAT
* *
14330257 TT-TCCAAAATTTCTAATAAT
1 TTAT-CAATATTTCTAATGAT
* *
14330277 TTATCAAAATATCTAATGAT
1 TTATCAATATTTCTAATGAT
* * *
14330297 TTACCAATATTTATGA-GACT
1 TTATCAATATTTCTAATGA-T
14330317 TTATCCAAT-TTTCT-ATGATT
1 TTAT-CAATATTTCTAATGA-T
14330337 TTATCAATATTTC
1 TTATCAATATTTC
14330350 CAAAATTTCT
Statistics
Matches: 254, Mismatches: 60, Indels: 36
0.73 0.17 0.10
Matches are distributed among these distances:
18 1 0.00
19 34 0.13
20 199 0.78
21 19 0.07
22 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (20 bp):
TTATCAATATTTCTAATGAT
Found at i:14330434 original size:20 final size:20
Alignment explanation
Indices: 14330408--14330471 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
14330398 TGAATTTGTT
14330408 AAAATATCTAATGATTTACC
1 AAAATATCTAATGATTTACC
* **
14330428 AATATATCTAACAATTTACC
1 AAAATATCTAATGATTTACC
* * *
14330448 AAAATTTCTATTGATTTATC
1 AAAATATCTAATGATTTACC
14330468 AAAA
1 AAAA
14330472 CTTTTGAGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAATATCTAATGATTTACC
Found at i:14330613 original size:40 final size:40
Alignment explanation
Indices: 14330569--14330644 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
14330559 CACTTCACCT
* *
14330569 ATATTTCTAATGATTTACCAAAATTTTTAAGATTTTGTCA
1 ATATTTCTAATGATTCACCAAAATTTATAAGATTTTGTCA
14330609 ATATTTCTAATGATTCACCAAAATTTATAAGATTTT
1 ATATTTCTAATGATTCACCAAAATTTATAAGATTTT
14330645 ACCGATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (40 bp):
ATATTTCTAATGATTCACCAAAATTTATAAGATTTTGTCA
Found at i:14330653 original size:40 final size:40
Alignment explanation
Indices: 14330569--14330654 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
14330559 CACTTCACCT
* * **
14330569 ATATTTCTAATGATTTACCAAAATTTTTAAGATTTTGTCA
1 ATATTTCTAATGATTCACCAAAATTTATAAGATTTTACCA
*
14330609 ATATTTCTAATGATTCACCAAAATTTATAAGATTTTACCG
1 ATATTTCTAATGATTCACCAAAATTTATAAGATTTTACCA
14330649 ATATTT
1 ATATTT
14330655 GCAAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (40 bp):
ATATTTCTAATGATTCACCAAAATTTATAAGATTTTACCA
Found at i:14332131 original size:25 final size:23
Alignment explanation
Indices: 14332103--14332164 Score: 63
Period size: 25 Copynumber: 2.7 Consensus size: 23
14332093 ATTTTGAAGT
* *
14332103 ATTTTTTATATTATATTATTTTGAC
1 ATTTTTTATATTAT-TTAGTTT-AA
* *
14332128 ATTTTGTATAATATTTAGTTTAA
1 ATTTTTTATATTATTTAGTTTAA
14332151 ATTTTTT-TATTATT
1 ATTTTTTATATTATT
14332165 ATCTGTACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 6 0.19
23 7 0.23
24 6 0.19
25 12 0.39
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (23 bp):
ATTTTTTATATTATTTAGTTTAA
Found at i:14334156 original size:11 final size:11
Alignment explanation
Indices: 14334121--14334156 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
14334111 TTTATAAGAA
*
14334121 TTTACCAAAAC
1 TTTACCAAAAT
14334132 TTTACCAAATAT
1 TTTACCAAA-AT
14334144 TTTACCAAAAT
1 TTTACCAAAAT
14334155 TT
1 TT
14334157 CAAACCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (11 bp):
TTTACCAAAAT
Found at i:14334294 original size:20 final size:20
Alignment explanation
Indices: 14334251--14334294 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
14334241 ATCTAAGATT
* * *
14334251 TTACCAATATTTTTATTAAT
1 TTACCAATATTTATATGAAC
*
14334271 TTACCAGTATTTATATGAAC
1 TTACCAATATTTATATGAAC
14334291 TTAC
1 TTAC
14334295 TAAAATATCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.48
Consensus pattern (20 bp):
TTACCAATATTTATATGAAC
Found at i:14334333 original size:21 final size:20
Alignment explanation
Indices: 14334291--14334332 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14334281 TTATATGAAC
*
14334291 TTACTAAAATATCTAACATT
1 TTACTAAAAGATCTAACATT
14334311 TTACTAAAAAGAT-TAACATT
1 TTACT-AAAAGATCTAACATT
14334331 TT
1 TT
14334333 TGGACTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (20 bp):
TTACTAAAAGATCTAACATT
Found at i:14334435 original size:107 final size:107
Alignment explanation
Indices: 14334235--14334440 Score: 240
Period size: 107 Copynumber: 1.9 Consensus size: 107
14334225 TTAGATTTGC
* * *
14334235 CAAAATATCTAAGATTTTACCAATATTTTTATTAATTTACCAGTATTTATATGAACTTACTAAAA
1 CAAAATATCTAAGACTTTACCAATATTTTTATTAATTTACCAATATCTATATGAACTTACTAAAA
* *
14334300 TATCTAACATTTTACTAAAAAGATTAACATTTTTGGACTTAT
66 TATCTAAAAATTTACTAAAAAGATTAACATTTTTGGACTTAT
* * * *
14334342 CAAAATATTTAAGACTTTATCAATATTTTTATTGATTTACCAATATCTA-AT-AATTTAC-AGAA
1 CAAAATATCTAAGACTTTACCAATATTTTTATTAATTTACCAATATCTATATGAACTTACTA-AA
* * *
14334404 ATATTTATATAAATTTA-TCAAAATATCTAACATTTTT
65 ATATCTA-A-AAATTTACTAAAAAGAT-TAACATTTTT
14334441 ATCAATATAT
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
104 1 0.01
105 14 0.17
106 10 0.12
107 58 0.70
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.43
Consensus pattern (107 bp):
CAAAATATCTAAGACTTTACCAATATTTTTATTAATTTACCAATATCTATATGAACTTACTAAAA
TATCTAAAAATTTACTAAAAAGATTAACATTTTTGGACTTAT
Found at i:14334443 original size:21 final size:21
Alignment explanation
Indices: 14334417--14334456 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14334407 TTTATATAAA
*
14334417 TTTATCAAAATATCTAACATT
1 TTTATCAAAATATATAACATT
*
14334438 TTTATCAATATATATAACA
1 TTTATCAAAATATATAACA
14334457 ATTTACCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTATCAAAATATATAACATT
Found at i:14342411 original size:8 final size:8
Alignment explanation
Indices: 14342400--14342425 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14342390 TAATTTTTTG
14342400 AATTTTAA
1 AATTTTAA
14342408 AATTTTAA
1 AATTTTAA
14342416 AATTTTAA
1 AATTTTAA
14342424 AA
1 AA
14342426 AATTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AATTTTAA
Found at i:14343291 original size:14 final size:15
Alignment explanation
Indices: 14343258--14343293 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
14343248 AGTTTTAAAC
14343258 AAAAATGAATATTGT
1 AAAAATGAATATTGT
*
14343273 AAAAATGTATATTGT
1 AAAAATGAATATTGT
14343288 AAAAAT
1 AAAAAT
14343294 ATTAATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:14349854 original size:13 final size:13
Alignment explanation
Indices: 14349836--14349863 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14349826 TGTAATTGAC
14349836 TTCTCTGATTAAT
1 TTCTCTGATTAAT
14349849 TTCTCTGATTAAT
1 TTCTCTGATTAAT
14349862 TT
1 TT
14349864 GTGGTCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (13 bp):
TTCTCTGATTAAT
Found at i:14375440 original size:32 final size:30
Alignment explanation
Indices: 14375394--14375458 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 30
14375384 ACTTAACAAG
14375394 CAAATGCTTCTAAAATAATAAAAAAAATTTAA
1 CAAATGCTTCTAAAATAAT-AAAAAAA-TTAA
*
14375426 CAAATGCCTT-TAAAATAATAAGAAAATTAA
1 CAAATG-CTTCTAAAATAATAAAAAAATTAA
14375456 CAA
1 CAA
14375459 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 7 0.23
31 6 0.19
32 15 0.48
33 3 0.10
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (30 bp):
CAAATGCTTCTAAAATAATAAAAAAATTAA
Found at i:14377986 original size:60 final size:62
Alignment explanation
Indices: 14377910--14378031 Score: 167
Period size: 62 Copynumber: 2.0 Consensus size: 62
14377900 ATATGTAAAA
* *
14377910 AAATTCATACAAATTTAAAA-AAA-AAAAAAACTAGAGTACACATAAATTGTATCTAAACTC
1 AAATTCATACAAATTTAAAATAAATAAAAAAACTAAAGTACACATAAATTGTATATAAACTC
* * * **
14377970 AAATTGATACAAATTTAAAATAAATAAATAAATTAAAGTACACATGGATTGTATATAAACTC
1 AAATTCATACAAATTTAAAATAAATAAAAAAACTAAAGTACACATAAATTGTATATAAACTC
14378032 TTAATATTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
60 19 0.36
61 3 0.06
62 31 0.58
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.28
Consensus pattern (62 bp):
AAATTCATACAAATTTAAAATAAATAAAAAAACTAAAGTACACATAAATTGTATATAAACTC
Found at i:14379997 original size:5 final size:5
Alignment explanation
Indices: 14379987--14380012 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14379977 GAGTGTTGGT
14379987 ATAGA ATAGA ATAGA ATAGA ATAGA A
1 ATAGA ATAGA ATAGA ATAGA ATAGA A
14380013 GTGAGTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
ATAGA
Found at i:14387185 original size:22 final size:24
Alignment explanation
Indices: 14387159--14387203 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
14387149 AATATAAATT
14387159 ATAAC-TTTAAAAAA-ATTAACAA
1 ATAACTTTTAAAAAATATTAACAA
14387181 ATAACTTTTAAAAAATATTAACA
1 ATAACTTTTAAAAAATATTAACA
14387204 TTTTTTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.24
23 9 0.43
24 7 0.33
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (24 bp):
ATAACTTTTAAAAAATATTAACAA
Found at i:14395158 original size:29 final size:30
Alignment explanation
Indices: 14395126--14395191 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
14395116 AAATATACTT
* *
14395126 TTTTTAATAATTTATATTTATT-TTAAAAA
1 TTTTTAATAATTTAGAATTATTGTTAAAAA
** *
14395155 TTTTTAATTTTTTAGAATTATTGTTAATAA
1 TTTTTAATAATTTAGAATTATTGTTAAAAA
14395185 TTTTTAA
1 TTTTTAA
14395192 AAAAATCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (30 bp):
TTTTTAATAATTTAGAATTATTGTTAAAAA
Found at i:14396005 original size:30 final size:29
Alignment explanation
Indices: 14395967--14396028 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
14395957 AATTTATATA
*
14395967 TTTTTAATTTTTAAATAATT-AAATTG-AAT
1 TTTTTAA-TTTTAAA-AATTCAAAATGTAAT
14395996 TTTTATAATTTTAAAAATTCAAAATGTAAT
1 TTTT-TAATTTTAAAAATTCAAAATGTAAT
14396026 TTT
1 TTT
14396029 ACTTGTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.14
29 16 0.55
30 9 0.31
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (29 bp):
TTTTTAATTTTAAAAATTCAAAATGTAAT
Found at i:14397168 original size:4 final size:4
Alignment explanation
Indices: 14397159--14397189 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
14397149 TCTGTTTCTC
14397159 TTTA TTTA TTTA TTTA TTTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TT
14397190 ATTATTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:14397181 original size:13 final size:13
Alignment explanation
Indices: 14397159--14397195 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
14397149 TCTGTTTCTC
14397159 TTTA-TTTATTTA
1 TTTATTTTATTTA
14397171 TTTATTTTATTTA
1 TTTATTTTATTTA
14397184 TTTATTATTATT
1 TTTATT-TTATT
14397196 AACTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 4 0.17
13 14 0.61
14 5 0.22
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:14397263 original size:25 final size:24
Alignment explanation
Indices: 14397213--14397263 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
14397203 AAAATTTTGA
*
14397213 AATATATATTTGAAATATTTTATT
1 AATATATATTTGAAATACTTTATT
14397237 AATATATATTTTGAAATTACTTT-TT
1 AATATATA-TTTGAAA-TACTTTATT
14397262 AA
1 AA
14397264 AATTTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 11 0.46
26 5 0.21
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
AATATATATTTGAAATACTTTATT
Found at i:14397282 original size:22 final size:21
Alignment explanation
Indices: 14397244--14397298 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
14397234 ATTAATATAT
*
14397244 ATTTTGAA-ATTACTTTTTAAA
1 ATTTTAAATATTACTTTTT-AA
* *
14397265 ATTTTAAATATTATTTTTTTA
1 ATTTTAAATATTACTTTTTAA
14397286 ATATTTAAATATT
1 AT-TTTAAATATT
14397299 TTAAACTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAAATATTACTTTTTAA
Found at i:14397704 original size:22 final size:20
Alignment explanation
Indices: 14397671--14397727 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
14397661 TATATATATA
14397671 TTTTTAAA--ATTTTAAATAT
1 TTTTTAAATTATTTTAAA-AT
14397690 TATTTTAAATTATTTTTAAAAT
1 T-TTTTAAATTA-TTTTAAAAT
*
14397712 TTTGTTATATTATTTT
1 TTT-TTAAATTATTTT
14397728 TTTAGACATT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 1 0.03
20 7 0.22
21 6 0.19
22 11 0.34
23 7 0.22
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTAAATTATTTTAAAAT
Found at i:14397728 original size:22 final size:23
Alignment explanation
Indices: 14397680--14397728 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
14397670 ATTTTTAAAA
14397680 TTTTAAATATTATTTTAAATTAT
1 TTTTAAATATTATTTTAAATTAT
*
14397703 TTTTAAA-ATT-TTGTTATATTAT
1 TTTTAAATATTATT-TTAAATTAT
14397725 TTTT
1 TTTT
14397729 TTAGACATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 2 0.08
22 15 0.62
23 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTAAATATTATTTTAAATTAT
Found at i:14397836 original size:19 final size:21
Alignment explanation
Indices: 14397812--14397860 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
14397802 TATTAGTTTT
14397812 TTTAA-TATTTT-TAATATTA
1 TTTAATTATTTTATAATATTA
14397831 TTTAATTTATTTTATAATATT-
1 TTTAA-TTATTTTATAATATTA
*
14397852 TTAAATTAT
1 TTTAATTAT
14397861 AATTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 4 0.15
21 10 0.38
22 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTAATTATTTTATAATATTA
Found at i:14397854 original size:10 final size:9
Alignment explanation
Indices: 14397810--14397853 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 9
14397800 ATTATTAGTT
14397810 TTTTTAATA
1 TTTTTAATA
14397819 TTTTTAATA
1 TTTTTAATA
14397828 TTATTTAATTTA
1 TT-TTTAA--TA
14397840 TTTTATAATA
1 TTTT-TAATA
14397850 TTTT
1 TTTT
14397854 AAATTATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 11 0.35
10 11 0.35
11 2 0.06
12 7 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:14397854 original size:20 final size:21
Alignment explanation
Indices: 14397817--14397860 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
14397807 GTTTTTTTAA
*
14397817 TATTTTTAATATTATTTAATT
1 TATTTTTAATATTATTTAAAT
14397838 TATTTTATAATA-T-TTTAAAT
1 TATTTT-TAATATTATTTAAAT
14397858 TAT
1 TAT
14397861 AATTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 7 0.33
22 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTTAATATTATTTAAAT
Found at i:14397867 original size:14 final size:15
Alignment explanation
Indices: 14397842--14397874 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14397832 TTAATTTATT
14397842 TTATAATATTTTAAA
1 TTATAATATTTTAAA
14397857 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
14397871 TTAT
1 TTAT
14397875 TTTTAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:14398122 original size:22 final size:23
Alignment explanation
Indices: 14398084--14398139 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
14398074 AAAAGTTTAA
14398084 AATATTT-AAATAGTAAAAAAAT
1 AATATTTAAAATAGTAAAAAAAT
* *
14398106 AATATTTAAAAT-TTAAAAAAGT
1 AATATTTAAAATAGTAAAAAAAT
*
14398128 AAT-TTCAAAATA
1 AATATTTAAAATA
14398140 TATATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 7 0.24
22 18 0.62
23 4 0.14
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (23 bp):
AATATTTAAAATAGTAAAAAAAT
Found at i:14398211 original size:10 final size:9
Alignment explanation
Indices: 14398193--14398225 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
14398183 AGTTAATGAT
14398193 AATAAATAA
1 AATAAATAA
14398202 AATGAAATAA
1 AAT-AAATAA
14398212 AATAAAT-A
1 AATAAATAA
14398220 AATAAA
1 AATAAA
14398226 GAGAAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.30
9 7 0.30
10 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
AATAAATAA
Found at i:14399661 original size:7 final size:7
Alignment explanation
Indices: 14399649--14399678 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
14399639 TTTAATCTTA
14399649 CATTCAC
1 CATTCAC
14399656 CATTCAC
1 CATTCAC
14399663 CATTCAC
1 CATTCAC
14399670 CATTCAC
1 CATTCAC
14399677 CA
1 CA
14399679 ATACCATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.43, G:0.00, T:0.27
Consensus pattern (7 bp):
CATTCAC
Found at i:14402213 original size:24 final size:25
Alignment explanation
Indices: 14402177--14402224 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
14402167 TGCCCAGTAC
*
14402177 TATTTTTGGATTTATT-TTTTTTAAA
1 TATTTTTGCATTT-TTATTTTTTAAA
14402202 TATTTTT-CATTTTTATTTTTTAA
1 TATTTTTGCATTTTTATTTTTTAA
14402225 TTTTTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.57
25 7 0.33
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (25 bp):
TATTTTTGCATTTTTATTTTTTAAA
Found at i:14405212 original size:22 final size:21
Alignment explanation
Indices: 14405174--14405214 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
14405164 TTTTTTTGCA
* *
14405174 TTTAGGGATAGGGTTTAGGGT
1 TTTAAGGATAGGATTTAGGGT
14405195 TTTAAGGATTAGGATTTAGG
1 TTTAAGGA-TAGGATTTAGG
14405215 ATTTAGGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (21 bp):
TTTAAGGATAGGATTTAGGGT
Found at i:14405219 original size:21 final size:21
Alignment explanation
Indices: 14405173--14405219 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
14405163 ATTTTTTTGC
* *
14405173 ATTTAGGGATAGGGTTTAGGG
1 ATTTAAGGATAGGATTTAGGG
*
14405194 TTTTAAGGATTAGGATTTA-GG
1 ATTTAAGGA-TAGGATTTAGGG
14405215 ATTTA
1 ATTTA
14405220 GGGTTTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (21 bp):
ATTTAAGGATAGGATTTAGGG
Found at i:14405743 original size:126 final size:125
Alignment explanation
Indices: 14405460--14405821 Score: 521
Period size: 126 Copynumber: 2.9 Consensus size: 125
14405450 TATCTGGAAA
* * *
14405460 TTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGTTTTAAGCATGATGCACTGTCAGCAAA
1 TTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAA
* * * *
14405525 AGTACTGAAAAAAGCTACCAC-TAGGA-CTTTTTTTCTACAGTAGTTTTTGAAAAAATAAT
66 AGTACTGAAAAAAGCTCCCACGT-GGAGCTCTTTTTCTACAGTAGTTTCTAAAAAAATAAT
* ** * *
14405584 TTTGAGAATATGTTTCTGAACAAATAGTGTCAAAAATACTTCGACCAGGATGCACTGTCAGCAAA
1 TTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAA
*
14405649 AGTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTTCTAAAAAAATAAT
66 AGTACTGAAAAAAGCTCCCACGTGGA-GCTCTTTTTCTACAGTAGTTTCTAAAAAAATAAT
* *
14405710 TTTGAGAAAATGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAA
1 TTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAA
* * *
14405775 AGTACTGAAAAAAACTCCCACGTGTACGTTCTTTTTCTACAGTAGTT
66 AGTACTGAAAAAAGCTCCCACGTGGA-GCTCTTTTTCTACAGTAGTT
14405822 CATATTTGGC
Statistics
Matches: 210, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
124 80 0.38
125 1 0.00
126 129 0.61
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (125 bp):
TTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAA
AGTACTGAAAAAAGCTCCCACGTGGAGCTCTTTTTCTACAGTAGTTTCTAAAAAAATAAT
Found at i:14406650 original size:12 final size:12
Alignment explanation
Indices: 14406635--14406659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14406625 AAAATCGAGC
14406635 TATAAATATTTT
1 TATAAATATTTT
14406647 TATAAATATTTT
1 TATAAATATTTT
14406659 T
1 T
14406660 GGAGTGTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATAAATATTTT
Found at i:14407894 original size:40 final size:38
Alignment explanation
Indices: 14407791--14407956 Score: 181
Period size: 35 Copynumber: 4.6 Consensus size: 38
14407781 CATGGCAAAG
14407791 TGTG-AATGTAGGTATGG---TATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGT
*
14407825 TGTGAAATGTAGGTATGGTATTAT--T-CATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGT
14407860 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATC--ATCCATACTGAGT
** * *
14407900 TAAGAAATGTAGGTATGGCATT-TC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGT
**
14407935 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
14407957 TCAATGAGGA
Statistics
Matches: 114, Mismatches: 9, Indels: 17
0.81 0.06 0.12
Matches are distributed among these distances:
34 4 0.04
35 75 0.66
36 1 0.01
38 3 0.03
39 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (38 bp):
TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGT
Found at i:14407897 original size:75 final size:75
Alignment explanation
Indices: 14407791--14407960 Score: 203
Period size: 75 Copynumber: 2.4 Consensus size: 75
14407781 CATGGCAAAG
** *
14407791 TGTG-AATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
* *
14407849 TCATACTGAGC
65 CCATACCGAGC
14407860 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
14407925 CATACCGAGT
66 CATACCGAGC
**
14407935 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
14407961 TGAGGAAAAG
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
69 4 0.05
70 13 0.15
73 4 0.05
74 5 0.06
75 60 0.70
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:14423300 original size:11 final size:11
Alignment explanation
Indices: 14423284--14423326 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
14423274 GAAAAGGAGC
14423284 TTTGAGAGGAA
1 TTTGAGAGGAA
*
14423295 TTTGAGAGAAA
1 TTTGAGAGGAA
14423306 TTTGAGA-GAA
1 TTTGAGAGGAA
*
14423316 TATTGAAAGGA
1 T-TTGAGAGGA
14423327 TTGGAGTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 3 0.11
11 22 0.81
12 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (11 bp):
TTTGAGAGGAA
Found at i:14424123 original size:12 final size:12
Alignment explanation
Indices: 14424106--14424131 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14424096 TATTTGTTTC
14424106 TTGTTTTAATAT
1 TTGTTTTAATAT
14424118 TTGTTTTAATAT
1 TTGTTTTAATAT
14424130 TT
1 TT
14424132 TTAAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:14424144 original size:24 final size:25
Alignment explanation
Indices: 14424115--14424161 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
14424105 CTTGTTTTAA
*
14424115 TATTTGTTTTAATAT-TTTTAAATG
1 TATTTGATTTAATATATTTTAAATG
*
14424139 TATTTGATTTATTATATTTTAAA
1 TATTTGATTTAATATATTTTAAA
14424162 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (25 bp):
TATTTGATTTAATATATTTTAAATG
Found at i:14426907 original size:21 final size:21
Alignment explanation
Indices: 14426873--14426917 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
14426863 GCGCGACCCA
14426873 TTTTTTTAATAATATAATTTAT
1 TTTTTTTAATAATATAA-TTAT
* *
14426895 TTTTTTTTA-AATATTATTAT
1 TTTTTTTAATAATATAATTAT
14426915 TTT
1 TTT
14426918 ATTATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 6 0.29
22 8 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTTTAATAATATAATTAT
Found at i:14426907 original size:24 final size:25
Alignment explanation
Indices: 14426873--14426939 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 25
14426863 GCGCGACCCA
14426873 TTTTTTT-AATAATA-TAATTTATT
1 TTTTTTTAAATAATATTAATTTATT
* *
14426896 TTTTTTTAAATATTATTATTTTATT
1 TTTTTTTAAATAATATTAATTTATT
* * * *
14426921 ATATTTTAAAAAATTTTAA
1 TTTTTTTAAATAATATTAA
14426940 ATTCGGGTCA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
23 7 0.21
24 6 0.18
25 21 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTTTTAAATAATATTAATTTATT
Found at i:14427002 original size:27 final size:27
Alignment explanation
Indices: 14426972--14427035 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
14426962 GCCAGACCCG
14426972 GAGGCGCGACCAGTCGCTCCTGCTGCA
1 GAGGCGCGACCAGTCGCTCCTGCTGCA
*
14426999 GAGGCGTGACCAGTCGCTCCTGCTGCA
1 GAGGCGCGACCAGTCGCTCCTGCTGCA
14427026 GAGGCGCGAC
1 GAGGCGCGAC
14427036 TCCCCTGCAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.16, C:0.34, G:0.36, T:0.14
Consensus pattern (27 bp):
GAGGCGCGACCAGTCGCTCCTGCTGCA
Found at i:14428494 original size:11 final size:11
Alignment explanation
Indices: 14428480--14428507 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
14428470 ACATTATATC
14428480 AAAATTACATT
1 AAAATTACATT
14428491 AAAATTACATT
1 AAAATTACATT
14428502 AAAATT
1 AAAATT
14428508 TCTTACTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATTACATT
Found at i:14429569 original size:3 final size:3
Alignment explanation
Indices: 14429563--14429625 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
14429553 ACTAACATTT
* * * *
14429563 TTC TTC TTTC TCC TCC TTC TCC TTC TTC TTC TTT TTC TTC TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
14429609 TTA TTC TT- TTC TCTC TT
1 TTC TTC TTC TTC T-TC TT
14429626 TGCTGCTGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 41 0.84
4 6 0.12
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:14429892 original size:18 final size:17
Alignment explanation
Indices: 14429861--14429900 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
14429851 AAAATATAAT
14429861 AAAATAATAATATTTAAA
1 AAAATAATAATA-TTAAA
* *
14429879 AAAATTATATTATTAAA
1 AAAATAATAATATTAAA
14429896 AAAAT
1 AAAAT
14429901 GAGTCGCGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATAATAATATTAAA
Found at i:14430329 original size:22 final size:22
Alignment explanation
Indices: 14430278--14430338 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 22
14430268 ATTATATTCA
*
14430278 ATAACTTAATTAA-ACTAATTAAT
1 ATAA-TTAATTAATA-TAATTAAC
* *
14430301 ATTATTAATTAATATAATTGAC
1 ATAATTAATTAATATAATTAAC
*
14430323 ATAATTACATTTATAT
1 ATAATTA-ATTAATAT
14430339 TCAATTACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAATTAATTAATATAATTAAC
Found at i:14447120 original size:13 final size:14
Alignment explanation
Indices: 14447104--14447139 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
14447094 CAATCTCATA
14447104 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
14447117 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
14447130 TCTC-ATTTCA
1 TCTCAATTTCA
14447140 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:14447129 original size:18 final size:19
Alignment explanation
Indices: 14447091--14447131 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
14447081 TGGTTCATGT
14447091 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
14447110 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
14447128 TTTC
1 TTTC
14447132 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:14447321 original size:39 final size:38
Alignment explanation
Indices: 14447246--14447388 Score: 103
Period size: 39 Copynumber: 3.7 Consensus size: 38
14447236 CCAAACACAC
* *
14447246 CAATA-TTG-CACCCAGTGCCTCATCGGATAGTTCGAAG
1 CAATATTTGACACCCAGTGCCTCATCGGCTAG-CCGAAG
*
14447283 CAATATTTGACACCCAGTGTCTCATCGGCCTAGCCGAAG
1 CAATATTTGACACCCAGTGCCTCATCGG-CTAGCCGAAG
* * ** * * *
14447322 TAA-AGTTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 CAATATTTGACACCCAGTGCCTCATCG--GCTAGCCGAAG
* * *
14447361 AAATATAGTGACACCCAGTGTCTCATCG
1 CAATAT-TTGACACCCAGTGCCTCATCG
14447389 ACTCGAGGTC
Statistics
Matches: 81, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
37 5 0.06
38 21 0.26
39 35 0.43
40 4 0.05
41 16 0.20
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (38 bp):
CAATATTTGACACCCAGTGCCTCATCGGCTAGCCGAAG
Found at i:14447654 original size:18 final size:19
Alignment explanation
Indices: 14447628--14447666 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
14447618 TTTCAATTCA
14447628 ATTCAAATAATCAAAATAT
1 ATTCAAATAATCAAAATAT
* *
14447647 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAAAATAT
14447665 AT
1 AT
14447667 ATCTATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTCAAATAATCAAAATAT
Found at i:14448998 original size:12 final size:12
Alignment explanation
Indices: 14448981--14449023 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
14448971 TTTACTTATT
14448981 TATATAATATAA
1 TATATAATATAA
14448993 TATATAATATAA
1 TATATAATATAA
*
14449005 TATAATAATTTAA
1 TAT-ATAATATAA
14449018 TATATA
1 TATATA
14449024 TATTTTAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATAATATAA
Found at i:14449004 original size:17 final size:18
Alignment explanation
Indices: 14448982--14449025 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
14448972 TTACTTATTT
14448982 ATATAATATAAT-ATATA
1 ATATAATATAATAATATA
*
14448999 ATATAATATAATAATTTA
1 ATATAATATAATAATATA
14449017 ATAT-ATATA
1 ATATAATATA
14449026 TTTTAACACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATATAATAATATA
Found at i:14453532 original size:26 final size:25
Alignment explanation
Indices: 14453494--14453556 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
14453484 AACCTTTTGG
*
14453494 TTCATGTTTTCAATCTC-ATATCTCAAT
1 TTCA-GTTCTCAAT-TCAATATCTC-AT
*
14453521 TTCAGTTCTCAATTCAATTTCTCAT
1 TTCAGTTCTCAATTCAATATCTCAT
14453546 TTCA-TTC-CAAT
1 TTCAGTTCTCAAT
14453557 AGCTCAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.12
24 3 0.09
25 8 0.24
26 14 0.42
27 4 0.12
ACGTcount: A:0.25, C:0.24, G:0.03, T:0.48
Consensus pattern (25 bp):
TTCAGTTCTCAATTCAATATCTCAT
Found at i:14454329 original size:13 final size:14
Alignment explanation
Indices: 14454313--14454348 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
14454303 CAATCTCATA
14454313 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
14454326 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
14454339 TCTC-ATTTCA
1 TCTCAATTTCA
14454349 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:14454338 original size:18 final size:19
Alignment explanation
Indices: 14454300--14454340 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
14454290 TGGTTCATGT
14454300 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
14454319 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
14454337 TTTC
1 TTTC
14454341 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:14454530 original size:39 final size:38
Alignment explanation
Indices: 14454455--14454597 Score: 103
Period size: 39 Copynumber: 3.7 Consensus size: 38
14454445 CCAAACACAC
* * *
14454455 CAATA-TTG-CACCCAGTGCCTCATCGGATAGTTCGAAG
1 CAATATTTGACACCCAGTGTCTCATCGGCTAG-CCGAAG
14454492 CAATATTTGACACCCAGTGTCTCATCGGCCTAGCCGAAG
1 CAATATTTGACACCCAGTGTCTCATCGG-CTAGCCGAAG
* * ** * * * *
14454531 TAA-AGTTGGTACCCAGTATCTCATCGAATCTATCTGAAG
1 CAATATTTGACACCCAGTGTCTCATCG--GCTAGCCGAAG
* *
14454570 AAATATAGTGACACCCAGTGTCTCATCG
1 CAATAT-TTGACACCCAGTGTCTCATCG
14454598 ACTCGAGGTC
Statistics
Matches: 82, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
37 5 0.06
38 22 0.27
39 34 0.41
40 4 0.05
41 17 0.21
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (38 bp):
CAATATTTGACACCCAGTGTCTCATCGGCTAGCCGAAG
Found at i:14454863 original size:18 final size:19
Alignment explanation
Indices: 14454837--14454875 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
14454827 TTTCAATTCA
14454837 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
14454856 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
14454874 AT
1 AT
14454876 ATATCTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:14456210 original size:12 final size:12
Alignment explanation
Indices: 14456193--14456235 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
14456183 TTTACTTATT
14456193 TATATAATATAA
1 TATATAATATAA
14456205 TATATAATATAA
1 TATATAATATAA
*
14456217 TATAATAATTTAA
1 TAT-ATAATATAA
14456230 TATATA
1 TATATA
14456236 TATTTTAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATAATATAA
Found at i:14456216 original size:17 final size:18
Alignment explanation
Indices: 14456194--14456237 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
14456184 TTACTTATTT
14456194 ATATAATATAAT-ATATA
1 ATATAATATAATAATATA
*
14456211 ATATAATATAATAATTTA
1 ATATAATATAATAATATA
14456229 ATAT-ATATA
1 ATATAATATA
14456238 TTTTAACACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATATAATAATATA
Found at i:14466714 original size:4 final size:4
Alignment explanation
Indices: 14466705--14466730 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
14466695 AATCTGATCG
14466705 AACA AACA AACA AACA AACA AACA AA
1 AACA AACA AACA AACA AACA AACA AA
14466731 AATGAAACCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:14466801 original size:15 final size:15
Alignment explanation
Indices: 14466781--14466814 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
14466771 AACAGAAAAC
14466781 GAATAGAAGAGAAGG
1 GAATAGAAGAGAAGG
14466796 GAATAGAAGAGAAGG
1 GAATAGAAGAGAAGG
14466811 GAAT
1 GAAT
14466815 GGGGGAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.38, T:0.09
Consensus pattern (15 bp):
GAATAGAAGAGAAGG
Found at i:14473589 original size:23 final size:23
Alignment explanation
Indices: 14473562--14473628 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
14473552 CATATTTATT
14473562 ATATTATTTATATAAATAAAAAA
1 ATATTATTTATATAAATAAAAAA
* *
14473585 ATATTAATTA-AAAAAT-AAAAA
1 ATATTATTTATATAAATAAAAAA
*
14473606 ATAATATATTTAT-TAATTAAAAA
1 AT-AT-TATTTATATAAATAAAAA
14473629 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 7 0.20
22 7 0.20
23 17 0.49
24 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATATTATTTATATAAATAAAAAA
Found at i:14475235 original size:18 final size:18
Alignment explanation
Indices: 14475199--14475249 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
14475189 TATAGGTATA
* * *
14475199 AAAACATATAATTATTTT
1 AAAATATATAATAAATTT
*
14475217 AATATATATAATAAATTT
1 AAAATATATAATAAATTT
14475235 AAAAT-TATATATAAA
1 AAAATATATA-ATAAA
14475250 AATAAGAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATATAATAAATTT
Found at i:14475356 original size:41 final size:44
Alignment explanation
Indices: 14475310--14475398 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
14475300 TAATATAAAA
*
14475310 TTTAAA-TTTAT-TATTATATTTT-TCAAGAAT-ATTTATGTATT
1 TTTAAATTTTATATATTATATTTTGTCAACAATCATTT-TGTATT
* *
14475351 TTTAAATTTTATATATTATTTTTTGTCAACAATCATTTTTTATT
1 TTTAAATTTTATATATTATATTTTGTCAACAATCATTTTGTATT
14475395 TTTA
1 TTTA
14475399 TATATTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 6 0.15
42 5 0.12
43 10 0.24
44 16 0.39
45 4 0.10
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (44 bp):
TTTAAATTTTATATATTATATTTTGTCAACAATCATTTTGTATT
Found at i:14475414 original size:22 final size:21
Alignment explanation
Indices: 14475389--14475451 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
14475379 ACAATCATTT
14475389 TTTATTTTTATATATTTTTAAA
1 TTTATTTTTATAT-TTTTTAAA
*
14475411 TTTATTATTATATTTTTTGAAA
1 TTTATTTTTATATTTTTT-AAA
*
14475433 ---ATATTTATATTTTTTAAA
1 TTTATTTTTATATTTTTTAAA
14475451 T
1 T
14475452 ATTTCTTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 3 0.08
19 13 0.36
21 5 0.14
22 15 0.42
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTATTTTTATATTTTTTAAA
Found at i:14475440 original size:19 final size:17
Alignment explanation
Indices: 14475395--14475455 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 17
14475385 ATTTTTTATT
14475395 TTTATATATTTTTAAATTTA
1 TTTATAT-TTTTTAAA--TA
14475415 TTATTATATTTTTTGAAAATA
1 -T-TTATATTTTTT--AAATA
14475436 TTTATATTTTTTAAATA
1 TTTATATTTTTTAAATA
14475453 TTT
1 TTT
14475456 CTTTGAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
17 8 0.22
19 11 0.30
20 1 0.03
21 8 0.22
22 6 0.16
23 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTATATTTTTTAAATA
Found at i:14479147 original size:15 final size:14
Alignment explanation
Indices: 14479118--14479160 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
14479108 AGAAAAAAGT
**
14479118 AAATATAAATTATA
1 AAATATAAAAAATA
*
14479132 AAGATTTAAAAAATA
1 AA-ATATAAAAAATA
14479147 AAATATAAAAAATA
1 AAATATAAAAAATA
14479161 TTTTTAAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (14 bp):
AAATATAAAAAATA
Found at i:14480452 original size:66 final size:64
Alignment explanation
Indices: 14480343--14480465 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 64
14480333 AATTATTTTA
* *
14480343 TTTTATTTTCCAATATGGCAATACCTTAACATTGTTTTGTTGGCACAACTTAATACTATCATTG
1 TTTTATTTTCCAATATGGCAATACCTTAACATTGCTTTATTGGCACAACTTAATACTATCATTG
* * * *
14480407 TTTTATTTTTCTCAATATGTCAGTACTTTAACATTGCTTTATTGGCACAACTTGATACT
1 TTTTA-TTTTC-CAATATGGCAATACCTTAACATTGCTTTATTGGCACAACTTAATACT
14480466 CTCTAATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
64 5 0.10
65 5 0.10
66 41 0.80
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.46
Consensus pattern (64 bp):
TTTTATTTTCCAATATGGCAATACCTTAACATTGCTTTATTGGCACAACTTAATACTATCATTG
Found at i:14495559 original size:23 final size:24
Alignment explanation
Indices: 14495506--14495559 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
14495496 AAACGTCTTC
14495506 TAAACT-TCTAATCACTTTACTAG
1 TAAACTATCTAATCACTTTACTAG
* * * *
14495529 TAATCTATCTAATTA-TTTATTAT
1 TAAACTATCTAATCACTTTACTAG
14495552 TAAACTAT
1 TAAACTAT
14495560 TTGTACAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (24 bp):
TAAACTATCTAATCACTTTACTAG
Found at i:14497265 original size:16 final size:17
Alignment explanation
Indices: 14497234--14497266 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14497224 TTCATAAGTA
14497234 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
14497251 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
14497267 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:14497481 original size:46 final size:46
Alignment explanation
Indices: 14497419--14497684 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
14497409 TTTGACATGA
* * * * *
14497419 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
14497465 TGCCATGGTATATTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14497511 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
14497557 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
14497603 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14497641 TGCCATGGTAACTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
14497685 AGAGCACACT
Statistics
Matches: 195, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
38 32 0.16
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 149 0.76
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:14497649 original size:38 final size:38
Alignment explanation
Indices: 14497598--14497673 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
14497588 CATTTCATAT
*
14497598 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTAACTTTCAACCATGGTCTTACACA
14497636 CAGGTTGCCATGGTAACTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTAACTTTCAACCATGGTCTTACACA
14497674 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (38 bp):
CAGGTTGCCATGGTAACTTTCAACCATGGTCTTACACA
Found at i:14511402 original size:39 final size:39
Alignment explanation
Indices: 14511359--14511489 Score: 181
Period size: 39 Copynumber: 3.3 Consensus size: 39
14511349 GGTTTTTAAC
** *
14511359 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * * *
14511398 CCGGATATATTTCTAGCATATAGCCTACGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
14511437 CCGGATATTTTTCCAGCATATAGCCTGCGGACTTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
14511476 CCGGATATATTTTC
1 CCGGATAT-TTTTC
14511490 AATCTCATAC
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 74 0.94
40 5 0.06
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:14513372 original size:53 final size:53
Alignment explanation
Indices: 14513246--14513396 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
14513236 ATAAGTGCGC
* **
14513246 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
14513299 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* * *
14513352 CCGTATAAGACCAT-GTCTGGGATTTGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
14513397 ACCGTGTAAG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:14530494 original size:24 final size:22
Alignment explanation
Indices: 14530467--14530512 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
14530457 TTTATATGAT
*
14530467 TATATATTTATTATATAATATAAA
1 TATATATTTA--AAATAATATAAA
*
14530491 TATATCTTTAAAATAATATAAA
1 TATATATTTAAAATAATATAAA
14530513 ATAAGTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
24 9 0.45
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TATATATTTAAAATAATATAAA
Found at i:14530932 original size:31 final size:30
Alignment explanation
Indices: 14530897--14530966 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
14530887 CAAAATACTG
14530897 TTATTT-ATAGTAATTATATCATTATATTAAA
1 TTATTTAATA-TAATT-TATCATTATATTAAA
* *
14530928 TTATTTAAATATCATTTATCATTATATTAAT
1 TTATTT-AATATAATTTATCATTATATTAAA
*
14530959 TTACTTAA
1 TTATTTAA
14530967 ATATTATTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 2 0.06
31 25 0.74
32 4 0.12
33 3 0.09
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (30 bp):
TTATTTAATATAATTTATCATTATATTAAA
Found at i:14531674 original size:11 final size:12
Alignment explanation
Indices: 14531642--14531675 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
14531632 TAAATATACA
14531642 TTTAATATATAT
1 TTTAATATATAT
14531654 TTTAATATATAT
1 TTTAATATATAT
14531666 TTTAA-ATATA
1 TTTAATATATA
14531676 ATATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAATATATAT
Found at i:14531684 original size:27 final size:25
Alignment explanation
Indices: 14531645--14531698 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
14531635 ATATACATTT
*
14531645 AATATATATTTTA-ATATATATTTTA
1 AATATATATTTTATA-AAATATTTTA
14531670 AATATAATATATTTATAAAATATTTTA
1 AATAT-ATAT-TTTATAAAATATTTTA
14531697 AA
1 AA
14531699 GAAAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 5 0.20
26 4 0.16
27 15 0.60
28 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
AATATATATTTTATAAAATATTTTA
Found at i:14541601 original size:51 final size:51
Alignment explanation
Indices: 14541525--14541643 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
14541515 AACTAAGTTA
* *
14541525 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
* * *
14541576 TCCGGATGAAATATGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
*
14541627 TCCGGATGAAGTATGAA
1 TCCGGATGAAATATGAA
14541644 TTAAGTTTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
Found at i:14544124 original size:132 final size:132
Alignment explanation
Indices: 14543942--14544332 Score: 416
Period size: 132 Copynumber: 3.0 Consensus size: 132
14543932 ATTATTCGTT
* * *
14543942 TAAAAATTTCTTTAAAACGAAGGCGA-GATTTGATATTTGACAATTCGCGGAATCGTGCCCTAAC
1 TAAAAA-TCCTTTAAAACGAAGGCGATG-TTCGATATTTGACAATTCGCGGAATCGTGCCCTATC
* * * *
14544006 GTGCTGGGTTGCAATTTCTC-ATTTGTTCAAAATAATCTAATATCCC-TTCAAATTTCCATTTAT
64 GTGCTGGGTTGCAATTTCTCGA-TTGTTCAAAATAATCCAAGATCCCTTTCAAATTT-CACTCAT
14544069 GTCTTC
127 GTCTTC
* *
14544075 TAAAAATCCTTTAAAACGAGGGCGATGTTCGATATTTGACAATTCGCGGAATCATGCCCTATCGT
1 TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGCGGAATCGTGCCCTATCGT
* ** *
14544140 GCTGGGTTGCAATTTCTCGATTGTTCAAAATAATCCAAGGTCCCTTTTGAATTTCACTCATGTTT
66 GCTGGGTTGCAATTTCTCGATTGTTCAAAATAATCCAAGATCCCTTTCAAATTTCACTCATGTCT
14544205 TC
131 TC
* * ** * * * * *
14544207 TAAAAA-CTCTTCAAAACAAAGGTAATATTCGATGTTTGGCCATTCGGGGAATCGTGCCCTATCG
1 TAAAAATC-CTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGCGGAATCGTGCCCTATCG
* * * * * * *
14544271 TGCTGGGTTGCGATCTC-CTGTTTGTCCAAAATGATCGAAGATTCCTTT-AGAATTTCACTCAT
65 TGCTGGGTTGCAATTTCTC-GATTGTTCAAAATAATCCAAGATCCCTTTCA-AATTTCACTCAT
14544333 ACTTTTTAAA
Statistics
Matches: 219, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
131 2 0.01
132 202 0.92
133 15 0.07
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (132 bp):
TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGCGGAATCGTGCCCTATCGT
GCTGGGTTGCAATTTCTCGATTGTTCAAAATAATCCAAGATCCCTTTCAAATTTCACTCATGTCT
TC
Found at i:14549882 original size:9 final size:10
Alignment explanation
Indices: 14549847--14549881 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
14549837 TTATGGAAAA
14549847 TATTTTCATT
1 TATTTTCATT
14549857 TATTTTCATT
1 TATTTTCATT
14549867 TATTTT-ATT
1 TATTTTCATT
14549876 TATTTT
1 TATTTT
14549882 AATATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTTTCATT
Found at i:14549889 original size:20 final size:19
Alignment explanation
Indices: 14549847--14549894 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
14549837 TTATGGAAAA
*
14549847 TATTTTCATTTATTTTCATT
1 TATTTT-ATTTATTTTAATT
14549867 TATTTTATTTATTTTAATAT
1 TATTTTATTTATTTTAAT-T
*
14549887 TATATTAT
1 TATTTTAT
14549895 CCTATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTTTATTTATTTTAATT
Found at i:14557391 original size:22 final size:22
Alignment explanation
Indices: 14557355--14557408 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
14557345 AAAAATTTTA
14557355 TAAAATTAATTTTTAAAAA-TCAT
1 TAAAATT-ATTTTTAAAAAGT-AT
14557378 TAAAATTATTTTTAAAAAGTAT
1 TAAAATTATTTTTAAAAAGTAT
*
14557400 AAAAATTAT
1 TAAAATTAT
14557409 AAAAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTATTTTTAAAAAGTAT
Found at i:14563992 original size:19 final size:18
Alignment explanation
Indices: 14563970--14564009 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 18
14563960 TAAATAATTT
14563970 AAAATTCATAAAATTATAAA
1 AAAATT-ATAAAATT-TAAA
14563990 AAAATTATAAAATTTAAA
1 AAAATTATAAAATTTAAA
14564008 AA
1 AA
14564010 TAAAAATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 8 0.40
20 6 0.30
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAATTATAAAATTTAAA
Found at i:14567385 original size:27 final size:27
Alignment explanation
Indices: 14567337--14567495 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
14567327 GCGAGGCTGC
* *
14567337 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
14567364 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
14567390 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
14567417 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
14567444 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
14567471 CAAATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
14567496 GACGCTTCCT
Statistics
Matches: 116, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:14567430 original size:54 final size:54
Alignment explanation
Indices: 14567355--14567495 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
14567345 GTGACGAAGT
*
14567355 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
14567409 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
14567463 CACCAGATCAAATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
14567496 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:14567663 original size:28 final size:26
Alignment explanation
Indices: 14567601--14567674 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
14567591 AAATTAACCC
** * *
14567601 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAATAGTAATTTTCCACA
14567627 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCC--ACA
*
14567655 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
14567675 AGTTGCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 20 0.49
28 21 0.51
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTCCACA
Found at i:14569152 original size:26 final size:26
Alignment explanation
Indices: 14569123--14569223 Score: 166
Period size: 26 Copynumber: 3.9 Consensus size: 26
14569113 CCCATCACGA
*
14569123 AACATTTACCTAAACCATTATCATGG
1 AACATTTACCTAACCCATTATCATGG
14569149 AACATTTACCTAACCCATTATCATGG
1 AACATTTACCTAACCCATTATCATGG
* *
14569175 AATATTTACCTAATCCATTATCATGG
1 AACATTTACCTAACCCATTATCATGG
*
14569201 AATATTTACCTAACCCATTATCA
1 AACATTTACCTAACCCATTATCA
14569224 ATCTGTACCA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
AACATTTACCTAACCCATTATCATGG
Found at i:14570622 original size:22 final size:22
Alignment explanation
Indices: 14570597--14570651 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
14570587 AAAAAAATCA
*
14570597 AAATATAACTTTGTTAAATAGT
1 AAATATAACTTTCTTAAATAGT
* *
14570619 AAATGATAA-ATTCTTAAATTGT
1 AAAT-ATAACTTTCTTAAATAGT
14570641 AAATATTAACT
1 AAATA-TAACT
14570652 CTATTGAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 1 0.04
22 21 0.81
23 4 0.15
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATATAACTTTCTTAAATAGT
Found at i:14571413 original size:50 final size:50
Alignment explanation
Indices: 14571359--14571457 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
14571349 GATTTAAATT
14571359 TTAAAATATGAAAAATAAAATAAAATAATTC-TTAAAATTAAAATTTCAAA
1 TTAAAATATGAAAAATAAAATAAAATAATTCTTTAAAA-TAAAATTTCAAA
* * *
14571409 TTAAAATATGAAAAATAGAATGATATAATTCTTTAAAATAAAATTTCAA
1 TTAAAATATGAAAAATAAAATAAAATAATTCTTTAAAATAAAATTTCAA
14571458 TTTCGAGGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 39 0.87
51 6 0.13
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (50 bp):
TTAAAATATGAAAAATAAAATAAAATAATTCTTTAAAATAAAATTTCAAA
Found at i:14574330 original size:19 final size:19
Alignment explanation
Indices: 14574303--14574339 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14574293 TTAATATTAA
*
14574303 TATTTCAATAATAAATATT
1 TATTACAATAATAAATATT
*
14574322 TATTACAATTATAAATAT
1 TATTACAATAATAAATAT
14574340 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTACAATAATAAATATT
Found at i:14574779 original size:14 final size:14
Alignment explanation
Indices: 14574757--14574803 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
14574747 CTAGGAAAGT
*
14574757 AAATTATTTTTCAA
1 AAATAATTTTTCAA
14574771 AAATAATTTTT-AA
1 AAATAATTTTTCAA
*
14574784 AAATTA-TTTTCAA
1 AAATAATTTTTCAA
14574797 AACATAA
1 AA-ATAA
14574804 AGTGTGTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 4 0.14
13 11 0.39
14 13 0.46
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATAATTTTTCAA
Found at i:14575113 original size:17 final size:18
Alignment explanation
Indices: 14575093--14575126 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14575083 ATAATTATTT
14575093 TAAAT-TTATAAAAAATA
1 TAAATATTATAAAAAATA
*
14575110 TAAATATTATCAAAAAT
1 TAAATATTATAAAAAAT
14575127 TTCAAAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAATATTATAAAAAATA
Found at i:14579786 original size:92 final size:92
Alignment explanation
Indices: 14579629--14579796 Score: 291
Period size: 92 Copynumber: 1.8 Consensus size: 92
14579619 AGTTGCTGAA
* * *
14579629 CGGTTCATTGGGTAGGATTTTTTGACCAATTTTATCCCATTGGATACAACATTATAGGATGGGCA
1 CGGTTCATTGGATAGGATTTTTTGACCAAGTTTATCCAATTGGATACAACATTATAGGATGGGCA
14579694 AAAACCAAAAAATTTGAGCTGAACATG
66 AAAACCAAAAAATTTGAGCTGAACATG
*
14579721 CGGTTCATTGGATAGGATTTTTTGACCAAGTTTATCCAATTGGATAGAACATTATAGGATGGGCA
1 CGGTTCATTGGATAGGATTTTTTGACCAAGTTTATCCAATTGGATACAACATTATAGGATGGGCA
*
14579786 AAATCCAAAAA
66 AAAACCAAAAA
14579797 GTTACTTCGA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 71 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (92 bp):
CGGTTCATTGGATAGGATTTTTTGACCAAGTTTATCCAATTGGATACAACATTATAGGATGGGCA
AAAACCAAAAAATTTGAGCTGAACATG
Found at i:14583135 original size:24 final size:24
Alignment explanation
Indices: 14583103--14583153 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
14583093 TAATGATAAC
14583103 TCTCCACGAGATCAGCAAGAGTTA
1 TCTCCACGAGATCAGCAAGAGTTA
14583127 TCTCCACGAGATCAGCAAGAGTTA
1 TCTCCACGAGATCAGCAAGAGTTA
14583151 TCT
1 TCT
14583154 TCCCGCAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (24 bp):
TCTCCACGAGATCAGCAAGAGTTA
Found at i:14588774 original size:7 final size:7
Alignment explanation
Indices: 14588762--14588787 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14588752 TAAAAAATTA
14588762 AATATTC
1 AATATTC
14588769 AATATTC
1 AATATTC
14588776 AATATTC
1 AATATTC
14588783 AATAT
1 AATAT
14588788 GAAATTGAAA
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:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:14591763 original size:42 final size:46
Alignment explanation
Indices: 14591700--14591833 Score: 150
Period size: 49 Copynumber: 2.9 Consensus size: 46
14591690 CTTCGTTTAC
** * *
14591700 TCGATGTCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCATATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
14591742 TCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
*
14591791 TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
1 TCGATGTCATAGCCCAGCTATGGTCTTACAC-AAT-ACATATC
14591834 TCACTGATGC
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
42 28 0.35
45 2 0.03
47 1 0.01
48 12 0.15
49 36 0.46
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (46 bp):
TCGATGTCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
Found at i:14591802 original size:49 final size:48
Alignment explanation
Indices: 14591741--14591911 Score: 179
Period size: 47 Copynumber: 3.6 Consensus size: 48
14591731 ATCTTCATAT
* *
14591741 ATCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* *
14591789 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * * *
14591837 CT-GATGCCATATCTCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* * *
14591883 ACCGATTCCATATCCCAGATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
14591912 TACGGAAATC
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 25 0.24
47 35 0.33
48 13 0.12
49 32 0.30
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:14591968 original size:31 final size:31
Alignment explanation
Indices: 14591933--14592143 Score: 314
Period size: 31 Copynumber: 6.8 Consensus size: 31
14591923 CTTGTCACTT
*
14591933 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
14591964 GTAGCCGGAGCTACCATTTTTCATTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
14591995 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
14592026 GTAGCAGAAGCTACCACTTTTCACTTATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
14592057 GCAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
14592088 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
14592119 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
14592144 TGTCATTTGT
Statistics
Matches: 163, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 163 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:14592205 original size:37 final size:37
Alignment explanation
Indices: 14592153--14592233 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
14592143 TTGTCATTTG
* *
14592153 TCCTTGATCAGATAAGTGTAGCCGAAGCTATTACTTA
1 TCCTTGATCAAATAAGTGTAGCCGAAGCTATCACTTA
14592190 TCCTTGATCAAATAAGTGTAGCCGAAGCTATCACTTA
1 TCCTTGATCAAATAAGTGTAGCCGAAGCTATCACTTA
14592227 TCACTTG
1 TC-CTTG
14592234 TTGCCATGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 37 0.90
38 4 0.10
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (37 bp):
TCCTTGATCAAATAAGTGTAGCCGAAGCTATCACTTA
Found at i:14606171 original size:18 final size:19
Alignment explanation
Indices: 14606150--14606191 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
14606140 AATTAAGTAC
14606150 TTAATTTGGC-T-TAAAGAT
1 TTAATTTGGCATCTAAAG-T
14606168 TTAA-TTGGCATCTAAAGT
1 TTAATTTGGCATCTAAAGT
14606186 TTAATT
1 TTAATT
14606192 CGGTCCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.24
18 10 0.48
19 6 0.29
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (19 bp):
TTAATTTGGCATCTAAAGT
Found at i:14611430 original size:133 final size:133
Alignment explanation
Indices: 14611262--14611533 Score: 537
Period size: 133 Copynumber: 2.1 Consensus size: 133
14611252 CAATGCATTG
14611262 GCTA-GAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGATCTCACCTGATTGCTA
1 GCTATGAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGATCTCACCTGATTGCTA
14611326 TTTATGATGAGCATGTTTGTGATGAATAACTTAAAATTTTTTTTATGTGTCTTTGAAAAATAATG
66 TTTATGATGAGCATGTTTGTGATGAATAACTTAAAATTTTTTTTATGTGTCTTTGAAAAATAATG
14611391 CAA
131 CAA
14611394 GCTATGAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGATCTCACCTGATTGCTA
1 GCTATGAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGATCTCACCTGATTGCTA
14611459 TTTATGATGAGCATGTTTGTGATGAATAACTTAAAATTTTTTTTATGTGTCTTTGAAAAATAATG
66 TTTATGATGAGCATGTTTGTGATGAATAACTTAAAATTTTTTTTATGTGTCTTTGAAAAATAATG
14611524 CAA
131 CAA
14611527 GCTATGA
1 GCTATGA
14611534 CTGTTTAAGT
Statistics
Matches: 139, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
132 4 0.03
133 135 0.97
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (133 bp):
GCTATGAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGATCTCACCTGATTGCTA
TTTATGATGAGCATGTTTGTGATGAATAACTTAAAATTTTTTTTATGTGTCTTTGAAAAATAATG
CAA
Found at i:14611465 original size:65 final size:65
Alignment explanation
Indices: 14611266--14611465 Score: 145
Period size: 66 Copynumber: 3.0 Consensus size: 65
14611256 GCATTGGCTA
14611266 GAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGATCTCACCTGATTGCTATTTAT
1 GAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGATCTCACCTGATTGCTATTTAT
** * * * * * ** * ** * * ** * *
14611331 GATGAGCATGTTTGTGA-TGAATAACTTAAAATTTT-TTTTATGTGTCTTTGAAAAAT-AATGCA
1 GAAAAG-AT-CTGGTCATTG-GTAATTTTTATTTTTATTTTA-GTGGATCT--CACCTGATTGCT
**
14611393 AGCTAT
60 ATTTAT
14611399 GAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGATCTCACCTGATTGCTATTTAT
1 GAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGATCTCACCTGATTGCTATTTAT
14611464 GA
1 GA
14611466 TGAGCATGTT
Statistics
Matches: 86, Mismatches: 40, Indels: 18
0.60 0.28 0.12
Matches are distributed among these distances:
64 2 0.02
65 14 0.16
66 28 0.33
67 28 0.33
68 12 0.14
69 2 0.02
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (65 bp):
GAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGATCTCACCTGATTGCTATTTAT
Found at i:14615545 original size:3 final size:3
Alignment explanation
Indices: 14615537--14615570 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
14615527 TTTTATTTGT
*
14615537 TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14615571 ATAACAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:14616261 original size:21 final size:21
Alignment explanation
Indices: 14616237--14616304 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
14616227 CTTCAACAGA
14616237 CCCAATCACCAAC-CCGACAAC
1 CCCAATCA-CAACTCCGACAAC
* *
14616258 CCCAGTCACAACTCCGACAGC
1 CCCAATCACAACTCCGACAAC
* * *
14616279 ACCAGTTACAACTCCGACAAC
1 CCCAATCACAACTCCGACAAC
14616300 CCCAA
1 CCCAA
14616305 CCCCGACTCC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 4 0.10
21 35 0.90
ACGTcount: A:0.35, C:0.47, G:0.09, T:0.09
Consensus pattern (21 bp):
CCCAATCACAACTCCGACAAC
Found at i:14616888 original size:18 final size:18
Alignment explanation
Indices: 14616862--14616896 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14616852 TACCATGACC
14616862 ATGACCCCACCCTTTCCG
1 ATGACCCCACCCTTTCCG
* *
14616880 ATGAGCCCACCTTTTCC
1 ATGACCCCACCCTTTCC
14616897 CGGAGCAGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.46, G:0.11, T:0.26
Consensus pattern (18 bp):
ATGACCCCACCCTTTCCG
Done.