Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7304151
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 31
Found at i:1003981 original size:2 final size:2
Alignment explanation
Indices: 1003974--1004009 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1003964 AATTTTAAGA
1003974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1004010 TTATTTACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1005780 original size:3 final size:3
Alignment explanation
Indices: 1005772--1005872 Score: 62
Period size: 3 Copynumber: 34.0 Consensus size: 3
1005762 CTATAATATG
* * *
1005772 TAA TAA TAA TATT TAT TAA TAA TAA TAA AAA T-A TAA TAA TAA T-A
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * * * * *
1005816 TTA TTA TTT TTA TAA TAA TTA TAA CAA TTA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1005864 TAA AAA TAA
1 TAA TAA TAA
1005873 AACGGGCCAA
Statistics
Matches: 78, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
2 4 0.05
3 72 0.92
4 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:1006452 original size:139 final size:136
Alignment explanation
Indices: 1006100--1006455 Score: 367
Period size: 139 Copynumber: 2.6 Consensus size: 136
1006090 GCAAAAAGTT
* * * *
1006100 GAACAAATTCTTCTCATTATGGATTTCTTC-TCCTTCTTCAGATGAA-TTCTTCTCATTATGAAC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGAT-AAGTTATTCTCATTATGAAC
* * * * * * * * * *
1006163 TGCTTCTGGAAATGATGATCTTCAAAAGAGGGGTTGTTGATTCAGCTTCATATGTGATGAATTAA
64 T-TTTCTGGAAATGTTGACCCTCAAAAGAGGGCTTGTTCATTCAACTCCATAGGTGATGAATCAA
*
1006228 GGCAAGGTT
128 GGCAAGGTC
* * * * *
1006237 GAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTATTTAGATGAGTTATTCTTATTATGAACTT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTATTCTCATTATGAACTT
* * * * * * *
1006302 CCTATGAAAATGTTGACCCTCAAATGAGGTTCTTCTTTCATTCAACTCCATCGGTGATGAATCAA
66 -TTCTGGAAATGTTGACCCTCAAAAGAGG-GCTT-GTTCATTCAACTCCATAGGTGATGAATCAA
1006367 -GCTAAGGTC
128 GGC-AAGGTC
*
1006376 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTATTCTCATTATGAACTT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTATTCTCATTATGAACTT
1006441 TATCTGGAAATGTTG
66 T-TCTGGAAATGTTG
1006456 GTGCTGATCT
Statistics
Matches: 176, Mismatches: 36, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
136 1 0.01
137 70 0.40
138 7 0.04
139 98 0.56
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (136 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTATTCTCATTATGAACTT
TTCTGGAAATGTTGACCCTCAAAAGAGGGCTTGTTCATTCAACTCCATAGGTGATGAATCAAGGC
AAGGTC
Found at i:1006632 original size:112 final size:113
Alignment explanation
Indices: 1006487--1006808 Score: 465
Period size: 112 Copynumber: 2.9 Consensus size: 113
1006477 TGATAGAGTA
* *
1006487 AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAAATGAGTTCTTC
1 AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *
1006551 TCATTATGAACT-TCCTCTGGAAAAT-TTGATCCATCGAGTGATGAATTC
66 TCATTATGAACTCTAC-CTGG-AAATGTTGATCCATCAAGTGATGAATTC
* *
1006599 AAGCAAAAGGTTGAACAAATTATTCTCATTATGAATTTCTTC-TCCTTCTTCAGATGAGTTCTTC
1 AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
1006663 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTC
66 TCATTATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGAATTC
* * *
1006711 GAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTTAGATGAGTTCTTC
1 AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* ** *
1006776 TCATTATGAATTCT-TTTGGAAATGTCGATCCAT
66 TCATTATGAACTCTACCTGGAAATGTTGATCCAT
1006809 TGAGTGTATG
Statistics
Matches: 189, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
111 6 0.03
112 147 0.78
113 36 0.19
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGAATTC
Found at i:1007534 original size:54 final size:55
Alignment explanation
Indices: 1007444--1007593 Score: 152
Period size: 54 Copynumber: 2.8 Consensus size: 55
1007434 TAACTGGTTT
* *
1007444 GTAAAACATTTGACAACACATTCTTCAC-CTCATGTGGTTTCTGAT-C-AAATGTTC
1 GTAAAACATTTGACAACACATTCATC-CTTTCATGTGGTTTCTG-TCCAAAATGTTC
*
1007498 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTT-T-TCCAAAATGTTC
1 GTAAAACATTTGACAACACATTCATCCTTTCATGTGG-TTTCTGTCCAAAATGTTC
* * * *
1007552 ATAAAGA-ACTTGACAA-ACATTCATCCTTTCTTGTGTTTTCTG
1 GTAAA-ACATTTGACAACACATTCATCCTTTCATGTGGTTTCTG
1007594 CACAGATTTC
Statistics
Matches: 82, Mismatches: 7, Indels: 14
0.80 0.07 0.14
Matches are distributed among these distances:
52 4 0.05
53 21 0.26
54 53 0.65
55 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (55 bp):
GTAAAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGTCCAAAATGTTC
Found at i:1011200 original size:14 final size:13
Alignment explanation
Indices: 1011169--1011203 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
1011159 AAGAAAAAGA
1011169 GAAAAAAGATAAC
1 GAAAAAAGATAAC
*
1011182 GAAAAAAGATAGC
1 GAAAAAAGATAAC
1011195 GAAAAAAGA
1 GAAAAAAGA
1011204 GGAAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.69, C:0.06, G:0.20, T:0.06
Consensus pattern (13 bp):
GAAAAAAGATAAC
Found at i:1012283 original size:23 final size:24
Alignment explanation
Indices: 1012256--1012314 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
1012246 CAGTTGAAAC
* *
1012256 TGCCACATAGAAT-TGCACCGAAG
1 TGCCACGTAGAATACGCACCGAAG
*
1012279 TGCCACGTAGAATACGCACTGAAG
1 TGCCACGTAGAATACGCACCGAAG
1012303 TGCCACGTAGAA
1 TGCCACGTAGAA
1012315 ATTTCCCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.17
Consensus pattern (24 bp):
TGCCACGTAGAATACGCACCGAAG
Found at i:1012374 original size:24 final size:23
Alignment explanation
Indices: 1012305--1012407 Score: 89
Period size: 23 Copynumber: 4.4 Consensus size: 23
1012295 CACTGAAGTG
* *
1012305 CCACGTAGAAATTTCCCAAAGGA
1 CCACGTAGAAATGTCCTAAAGGA
* * * *
1012328 CCACATAGAAATATCATGAAGGA
1 CCACGTAGAAATGTCCTAAAGGA
*
1012351 TCACGTAGAATATGTCCTAAAGGA
1 CCACGTAGAA-ATGTCCTAAAGGA
* * **
1012375 CCAAGTAGAATTGTCCCGAAGGA
1 CCACGTAGAAATGTCCTAAAGGA
*
1012398 CCGCGTAGAA
1 CCACGTAGAA
1012408 CCCTCGACTC
Statistics
Matches: 62, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
23 44 0.71
24 18 0.29
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (23 bp):
CCACGTAGAAATGTCCTAAAGGA
Found at i:1012396 original size:23 final size:24
Alignment explanation
Indices: 1012345--1012399 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
1012335 GAAATATCAT
* * *
1012345 GAAGGATCACGTAGAATATGTCCT
1 GAAGGACCAAGTAGAATATGTCCC
*
1012369 AAAGGACCAAGTAGAAT-TGTCCC
1 GAAGGACCAAGTAGAATATGTCCC
1012392 GAAGGACC
1 GAAGGACC
1012400 GCGTAGAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (24 bp):
GAAGGACCAAGTAGAATATGTCCC
Found at i:1012396 original size:47 final size:46
Alignment explanation
Indices: 1012305--1012407 Score: 109
Period size: 47 Copynumber: 2.2 Consensus size: 46
1012295 CACTGAAGTG
* *
1012305 CCACGTAGAAATTTCCCAAAGGACCACATAGAAATATCATGAAGGA
1 CCACGTAGAAATGTCCCAAAGGACCACATAGAAATATCACGAAGGA
* * * * *
1012351 TCACGTAGAATATGTCCTAAAGGACCA-AGTAGAATTGTCCCGAAGGA
1 CCACGTAGAA-ATGTCCCAAAGGACCACA-TAGAAATATCACGAAGGA
*
1012398 CCGCGTAGAA
1 CCACGTAGAA
1012408 CCCTCGACTC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
46 10 0.22
47 36 0.78
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (46 bp):
CCACGTAGAAATGTCCCAAAGGACCACATAGAAATATCACGAAGGA
Found at i:1012530 original size:15 final size:16
Alignment explanation
Indices: 1012493--1012535 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
1012483 TCACATAGCT
*
1012493 TATATCACATA-TTCA
1 TATATCACATAGATCA
1012508 TATAATCACATAGATCA
1 TAT-ATCACATAGATCA
1012525 -ATATCACATAG
1 TATATCACATAG
1012536 TATGAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 10 0.40
17 3 0.12
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.33
Consensus pattern (16 bp):
TATATCACATAGATCA
Found at i:1019331 original size:24 final size:23
Alignment explanation
Indices: 1019291--1019349 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
1019281 CAGTCGAAAC
* *
1019291 TGCCACATAGAATTGCATCGAAG
1 TGCCACGTAGAATTGCACCGAAG
*
1019314 TGCCGCGTAGAATATGCACCGAAG
1 TGCCACGTAGAAT-TGCACCGAAG
1019338 TGCCACGTAGAA
1 TGCCACGTAGAA
1019350 ATGTCCTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 11 0.35
24 20 0.65
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (23 bp):
TGCCACGTAGAATTGCACCGAAG
Found at i:1019366 original size:23 final size:23
Alignment explanation
Indices: 1019340--1019419 Score: 106
Period size: 23 Copynumber: 3.4 Consensus size: 23
1019330 CACCGAAGTG
1019340 CCACGTAGAAATGTCCTGAAGGA
1 CCACGTAGAAATGTCCTGAAGGA
* * *
1019363 CCACATAGAAATGTCCCGAAAGA
1 CCACGTAGAAATGTCCTGAAGGA
* *
1019386 CCGCGTAGATTATGTCCTGAAGGA
1 CCACGTAGA-AATGTCCTGAAGGA
1019410 CCACGTAGAA
1 CCACGTAGAA
1019420 TTATCCCGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
23 27 0.59
24 19 0.41
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (23 bp):
CCACGTAGAAATGTCCTGAAGGA
Found at i:1019372 original size:47 final size:48
Alignment explanation
Indices: 1019340--1019429 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 48
1019330 CACCGAAGTG
1019340 CCACGTAGA-AATGTCCTGAAGGACCACATAGAA-ATGTCCCGAAAGA
1 CCACGTAGATAATGTCCTGAAGGACCACATAGAATATGTCCCGAAAGA
* * * *
1019386 CCGCGTAGATTATGTCCTGAAGGACCACGTAGAAT-TATCCCGAA
1 CCACGTAGATAATGTCCTGAAGGACCACATAGAATATGTCCCGAA
1019430 TAACCGAGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
46 8 0.21
47 30 0.79
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.19
Consensus pattern (48 bp):
CCACGTAGATAATGTCCTGAAGGACCACATAGAATATGTCCCGAAAGA
Found at i:1019564 original size:15 final size:16
Alignment explanation
Indices: 1019527--1019569 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
1019517 TCACATAGCT
*
1019527 TATATCACATA-TTCA
1 TATATCACATAGATCA
1019542 TATAATCACATAGATCA
1 TAT-ATCACATAGATCA
1019559 -ATATCACATAG
1 TATATCACATAG
1019570 TATGAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 10 0.40
17 3 0.12
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.33
Consensus pattern (16 bp):
TATATCACATAGATCA
Found at i:1021140 original size:45 final size:45
Alignment explanation
Indices: 1021089--1021187 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
1021079 AAGAAGATTC
* * *
1021089 TAAATGAAATGGATAACGGTGCATTAAATGCATGAAAGTATGCCA
1 TAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCA
* * *
1021134 TAAATGAAATGCATAACGGTGCATTAGAGGCATGAAAGGGTGTCA
1 TAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCA
1021179 TAAATGAAA
1 TAAATGAAA
1021188 ATAATGAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.23
Consensus pattern (45 bp):
TAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCA
Found at i:1027425 original size:22 final size:22
Alignment explanation
Indices: 1027400--1027456 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
1027390 CTGAAAGGGG
*
1027400 GTATCAATACCATAGTATAGAA
1 GTATCGATACCATAGTATAGAA
1027422 GTATCGATACCATAGTATAGAA
1 GTATCGATACCATAGTATAGAA
1027444 GTATCGATACCAT
1 GTATCGATACCAT
1027457 GGTAGAGGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (22 bp):
GTATCGATACCATAGTATAGAA
Found at i:1030224 original size:36 final size:37
Alignment explanation
Indices: 1030173--1030254 Score: 121
Period size: 36 Copynumber: 2.2 Consensus size: 37
1030163 CGCTCTAGTT
* * *
1030173 CTTCTTAGGATGGTTTTTCTAGAAATTCA-TTTTTTC
1 CTTCTTAGGACGGTTTCTCTAGAAATTCACTTTTTCC
*
1030209 CTTCCTAGGACGGTTTCTCTAGAAATTCACTTTTTCC
1 CTTCTTAGGACGGTTTCTCTAGAAATTCACTTTTTCC
1030246 CTTCTTAGG
1 CTTCTTAGG
1030255 GTCGTTTCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 26 0.65
37 14 0.35
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (37 bp):
CTTCTTAGGACGGTTTCTCTAGAAATTCACTTTTTCC
Found at i:1030262 original size:37 final size:36
Alignment explanation
Indices: 1030173--1030266 Score: 109
Period size: 36 Copynumber: 2.6 Consensus size: 36
1030163 CGCTCTAGTT
* * * *
1030173 CTTCTTAGGATGGTTTTTCTAGAAATTCATTTTTTC
1 CTTCTTAGGGTCGTTTCTCTAGAAATTCATTTTTCC
* *
1030209 CTTCCTA-GGACGGTTTCTCTAGAAATTCACTTTTTCC
1 CTTCTTAGGGTC-GTTTCTCTAGAAATTCA-TTTTTCC
1030246 CTTCTTAGGGTCGTTTCTCTA
1 CTTCTTAGGGTCGTTTCTCTA
1030267 AAAAATTGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
35 1 0.02
36 22 0.47
37 21 0.45
38 3 0.06
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.47
Consensus pattern (36 bp):
CTTCTTAGGGTCGTTTCTCTAGAAATTCATTTTTCC
Found at i:1030288 original size:37 final size:37
Alignment explanation
Indices: 1030245--1030330 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
1030235 TCACTTTTTC
* *
1030245 CCTTCTTAGGGTCGTTTCTCTAAAAAATTGTTAGAGT
1 CCTTCTTAGGATCATTTCTCTAAAAAATTGTTAGAGT
* * **
1030282 CTTTCTTAGGATCATTTCTCTAAAAATTTGTTTTAGT
1 CCTTCTTAGGATCATTTCTCTAAAAAATTGTTAGAGT
1030319 CCTTCTTAGGAT
1 CCTTCTTAGGAT
1030331 TGTTTTCCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.45
Consensus pattern (37 bp):
CCTTCTTAGGATCATTTCTCTAAAAAATTGTTAGAGT
Found at i:1030425 original size:45 final size:45
Alignment explanation
Indices: 1030355--1030926 Score: 646
Period size: 45 Copynumber: 12.7 Consensus size: 45
1030345 CCTCAACTTA
* * * *
1030355 ACTTTCTCATGAAGATGAG-CTAATCTTTTAGTGTTGTCGTCCTTG
1 ACTTTCTCGTGAAGAGGAGTC-AATCTTTTAGTGTTGTCATTCTTG
* *
1030400 ACTTTCTCGTGAAGGGGAGTCAATCTTTTAGTGTTGTCATTATTG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATTCTTG
* * * * *
1030445 ACTTTCTTGTGAAGAGGAGTTAACCTTTAAGTGTTTTCATTCTTG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATTCTTG
* *
1030490 ACTTTCTCGTGAAGAGGATTCAATCTTTTAGAGTT-TCCATTCTTG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGT-CATTCTTG
* * *
1030535 ACTTTCTCGTGAAGGGGAGTCAATCTTTCAATGTTGTCATTCTTG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATTCTTG
* * * *
1030580 ATTTTCTTGTGGAGAGGAGTCAATCTTTTAGTGTTGTCATTCTTT
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATTCTTG
* * ** * * *
1030625 ATTTTATCACGAAGAAGAGTTAAT-TCTTTAGTGATGTCATTCTTG
1 ACTTTCTCGTGAAGAGGAGTCAATCT-TTTAGTGTTGTCATTCTTG
* * *
1030670 ACTTTCTCATGAAGATGAGTCAATCTTTTAGTGTTGTCCTTCTTG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATTCTTG
* * * * *
1030715 AATTTTTCATGACGAGGAGTCAATCTTTCAGTGTTGTCATTCTTG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATTCTTG
* *
1030760 ACTTTCTCGTGAAAAGGAGTCAATCTTTTAGTGTTGTCTTTCTTG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATTCTTG
* * * * *
1030805 AATTTCTCATGAAGAGGAGTCAAACTTTTAGTGATGTTATTCTTG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATTCTTG
* * *
1030850 ACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATTCTTG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATTCTTG
* * * * *
1030895 ACTTTCTGGGGAAAAGAAGTCAACCTTTTAGT
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGT
1030927 AATGATATTT
Statistics
Matches: 446, Mismatches: 76, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
44 2 0.00
45 441 0.99
46 3 0.01
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (45 bp):
ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATTCTTG
Found at i:1031529 original size:130 final size:131
Alignment explanation
Indices: 1031287--1031568 Score: 298
Period size: 130 Copynumber: 2.2 Consensus size: 131
1031277 AGCGGAGTAG
* * * * * ** *
1031287 ATCCATTTTTTCAAATTTGATCTTCTCTGAAGAGCAGTGAAGCAAACCAACCTTTATTCAATCTT
1 ATCCCTTTTTTCAGATTTGATATTCTCTAAAGAACAGTGAAGCAAACCAACCTCGATTAAATCTT
** * * * * * ** * **
1031352 CCCTAAAGAGTGGTGAAGTGAATTAATGTTTCCATATTTGATCTA-CCCTGAAAGCAGTGGAGCA
66 CCCTAAAGAGCAGTGAAGTGAATCAACGTTTCCAGATCTGATATACCCCAAAAAACAGCAGAGCA
1031416 T
131 T
* *
1031417 ATCCCTTTTTCCAGATTTGATATTCTCTAAAGAACAGTGAAGCAAA-TATACCTCGATTAAATCT
1 ATCCCTTTTTTCAGATTTGATATTCTCTAAAGAACAGTGAAGCAAACCA-ACCTCGATTAAATCT
* * * * *
1031481 TCCCTGAAGAGCATTGAATTGAATCAACGTTTCTAGATCTGATATACCCCAAAAAATAGCAGAGC
65 TCCCTAAAGAGCAGTGAAGTGAATCAACGTTTCCAGATCTGATATACCCCAAAAAACAGCAGAGC
1031546 AT
130 AT
1031548 ATCCCTTTTTTCAGATTTGAT
1 ATCCCTTTTTTCAGATTTGAT
1031569 CTTACCTGAA
Statistics
Matches: 122, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
129 1 0.01
130 87 0.71
131 34 0.28
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (131 bp):
ATCCCTTTTTTCAGATTTGATATTCTCTAAAGAACAGTGAAGCAAACCAACCTCGATTAAATCTT
CCCTAAAGAGCAGTGAAGTGAATCAACGTTTCCAGATCTGATATACCCCAAAAAACAGCAGAGCA
T
Found at i:1035976 original size:23 final size:23
Alignment explanation
Indices: 1035950--1035998 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1035940 AGATAGAGAA
*
1035950 AAACATATCACAAAGACAAAGAT
1 AAACATATCACAAAAACAAAGAT
* * *
1035973 AAACGTGTCACAAAAACAGAGAT
1 AAACATATCACAAAAACAAAGAT
1035996 AAA
1 AAA
1035999 TGTGCCATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.59, C:0.16, G:0.12, T:0.12
Consensus pattern (23 bp):
AAACATATCACAAAAACAAAGAT
Found at i:1036010 original size:23 final size:23
Alignment explanation
Indices: 1035958--1036013 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
1035948 AAAAACATAT
* * *
1035958 CACAAAGACAAAGATAAACGTGT
1 CACAAAAACAGAGATAAACGTGC
*
1035981 CACAAAAACAGAGATAAATGTGC
1 CACAAAAACAGAGATAAACGTGC
*
1036004 CATAAAAACA
1 CACAAAAACA
1036014 AAGAACATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.55, C:0.18, G:0.14, T:0.12
Consensus pattern (23 bp):
CACAAAAACAGAGATAAACGTGC
Found at i:1040390 original size:2 final size:2
Alignment explanation
Indices: 1040385--1040411 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1040375 CTCCCCCTCC
1040385 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1040412 GCACTAGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1042326 original size:20 final size:21
Alignment explanation
Indices: 1042282--1042337 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
1042272 CAGTTTCTAA
* *
1042282 ATTCGCAACGCGAATATCCAG
1 ATTCGCAACGCGATTATCAAG
*
1042303 ATTCGCAACGCGATTGT-AAG
1 ATTCGCAACGCGATTATCAAG
1042323 ATTCGCAACGCGATT
1 ATTCGCAACGCGATT
1042338 TTGAAAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (21 bp):
ATTCGCAACGCGATTATCAAG
Found at i:1042414 original size:44 final size:41
Alignment explanation
Indices: 1042337--1042418 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
1042327 GCAACGCGAT
* *
1042337 TTTGAAAAATGTGTTGCGATAGTTAAAATGTGTTGCGAAAG
1 TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAAAG
1042378 TTTGAAAAACGTGTTGTTGCGATAGTGAAAAAGTGTTGCGA
1 TTTGAAAAA--TG-TGTTGCGATAGTGAAAAAGTGTTGCGA
1042419 TAGTGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 9 0.25
43 2 0.06
44 25 0.69
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (41 bp):
TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAAAG
Found at i:1042428 original size:19 final size:20
Alignment explanation
Indices: 1042339--1042429 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 20
1042329 AACGCGATTT
1042339 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
* *
1042359 T-TAAAATGTGTTGCGAAAG
1 TGAAAAATGTGTTGCGATAG
1042378 TTTGAAAAACGTGTTGTTGCGATAG
1 --TGAAAAA--TG-TGTTGCGATAG
1042403 TGAAAAA-GTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
1042422 TGAAAAAT
1 TGAAAAAT
1042430 CCAAAATAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 34 0.57
20 2 0.03
21 1 0.02
22 4 0.07
23 7 0.12
24 2 0.03
25 10 0.17
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:1042906 original size:20 final size:20
Alignment explanation
Indices: 1042881--1042975 Score: 111
Period size: 20 Copynumber: 4.7 Consensus size: 20
1042871 AAATTTGGAA
*
1042881 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
1042901 AATCGCGTTGCGATTTTGT-AT
1 AATCGCGTTGCGA--TAGTCAG
*
1042922 TATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
1042942 AATCGCGTTGCGTTAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
1042962 AATCGTGTTGCGAT
1 AATCGCGTTGCGAT
1042976 TCAGAATTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.69
21 13 0.21
22 3 0.05
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:1049494 original size:15 final size:15
Alignment explanation
Indices: 1049466--1049505 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
1049456 AAAACTTGAG
*
1049466 AGTT-TGCTACAACA
1 AGTTGTGCTATAACA
1049480 AGTTGTGCTATAACA
1 AGTTGTGCTATAACA
1049495 AGTTGTGCTAT
1 AGTTGTGCTAT
1049506 CTTGTTATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (15 bp):
AGTTGTGCTATAACA
Found at i:1051003 original size:30 final size:29
Alignment explanation
Indices: 1050964--1051021 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
1050954 TCTGATTACC
*
1050964 ATTTTATAATCATTAAAAATTTTAATAATT
1 ATTTAATAATCATTAAAAA-TTTAATAATT
** *
1050994 ATTTAATAATTTTTATAAATTTAATAAT
1 ATTTAATAATCATTAAAAATTTAATAAT
1051022 AATAAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTTAATAATCATTAAAAATTTAATAATT
Found at i:1063293 original size:18 final size:19
Alignment explanation
Indices: 1063247--1063295 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
1063237 CAAGTTTTAC
*
1063247 CGGGTCGGGTCAGGTCAAAT
1 CGGGTTGGG-CAGGTCAAAT
* *
1063267 CGAGTTGGGCAGG-CAAGT
1 CGGGTTGGGCAGGTCAAAT
1063285 CGGGTTGGGCA
1 CGGGTTGGGCA
1063296 AACGGGTCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 14 0.56
19 4 0.16
20 7 0.28
ACGTcount: A:0.18, C:0.18, G:0.45, T:0.18
Consensus pattern (19 bp):
CGGGTTGGGCAGGTCAAAT
Found at i:1068860 original size:25 final size:21
Alignment explanation
Indices: 1068810--1068859 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 21
1068800 GCAAACTCAC
1068810 ATTATTAGTATGTTTTATCTT
1 ATTATTAGTATGTTTTATCTT
1068831 ATTATTAGTATGTTTTATCTT
1 ATTATTAGTATGTTTTATCTT
1068852 ACTTATTA
1 A-TTATTA
1068860 TGGATGGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTATTAGTATGTTTTATCTT
Found at i:1076002 original size:21 final size:21
Alignment explanation
Indices: 1075978--1076022 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
1075968 GAGTTGTTTT
1075978 GGGAGTGAATAGAGTCGTTGG
1 GGGAGTGAATAGAGTCGTTGG
1075999 GGGAGTGAATAGAGTCGTTGG
1 GGGAGTGAATAGAGTCGTTGG
1076020 GGG
1 GGG
1076023 TAATTTTCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.04, G:0.51, T:0.22
Consensus pattern (21 bp):
GGGAGTGAATAGAGTCGTTGG
Found at i:1077082 original size:21 final size:20
Alignment explanation
Indices: 1077037--1077082 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1077027 CAGGTAAGGG
*
1077037 GTATCGATACCAAAGGGTTA
1 GTATCGATACCAAAGGGTCA
**
1077057 GTATCGATACTGAAGGGTACA
1 GTATCGATACCAAAGGGT-CA
1077078 GTATC
1 GTATC
1077083 AGTACCTACG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (20 bp):
GTATCGATACCAAAGGGTCA
Found at i:1077459 original size:30 final size:30
Alignment explanation
Indices: 1077424--1077483 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1077414 GATCTCACCC
*
1077424 TAGTATAATCGA-TGGTGAATGCATGTAGTG
1 TAGTATAAT-GATTAGTGAATGCATGTAGTG
*
1077454 TAGTATAATTATTAGTGAATGCATGTAGTG
1 TAGTATAATGATTAGTGAATGCATGTAGTG
1077484 AATGCAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.37
Consensus pattern (30 bp):
TAGTATAATGATTAGTGAATGCATGTAGTG
Found at i:1080463 original size:2 final size:2
Alignment explanation
Indices: 1080456--1080480 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1080446 TATGTGAAGA
1080456 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
1080481 TTGGGTCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1085169 original size:2 final size:2
Alignment explanation
Indices: 1085164--1085203 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
1085154 AGAAATCCTA
* * *
1085164 AT AT AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1085204 TAGATCAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
AT
Found at i:1085204 original size:12 final size:12
Alignment explanation
Indices: 1085164--1085203 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
1085154 AGAAATCCTA
*
1085164 ATATATATATAT
1 ATATATATATTT
1085176 ATATATATATTT
1 ATATATATATTT
*
1085188 ATATTTATATTT
1 ATATATATATTT
1085200 ATAT
1 ATAT
1085204 TAGATCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATATATATATTT
Found at i:1094456 original size:17 final size:17
Alignment explanation
Indices: 1094436--1094484 Score: 98
Period size: 17 Copynumber: 2.9 Consensus size: 17
1094426 TTCAATGAAG
1094436 CATGCTTGGGTAGATAC
1 CATGCTTGGGTAGATAC
1094453 CATGCTTGGGTAGATAC
1 CATGCTTGGGTAGATAC
1094470 CATGCTTGGGTAGAT
1 CATGCTTGGGTAGAT
1094485 GTTATATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (17 bp):
CATGCTTGGGTAGATAC
Found at i:1096939 original size:23 final size:24
Alignment explanation
Indices: 1096913--1096974 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
1096903 GCAATATTTT
1096913 TTTTTCAAAATTTTTATTAA-T-CA
1 TTTTTCAAAATTTTT-TTAATTACA
*
1096936 TTTTTCAAAATTCTTTTAATTGACA
1 TTTTTCAAAATTTTTTTAATT-ACA
*
1096961 TTTTTCAGAATTTT
1 TTTTTCAAAATTTT
1096975 GAAAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 4 0.12
23 15 0.45
25 14 0.42
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (24 bp):
TTTTTCAAAATTTTTTTAATTACA
Found at i:1096952 original size:25 final size:24
Alignment explanation
Indices: 1096913--1096974 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
1096903 GCAATATTTT
1096913 TTTTTCAAAA-TTTTT-ATTAATCA
1 TTTTTCAAAATTTTTTAATTAA-CA
*
1096936 TTTTTCAAAATTCTTTTAATTGACA
1 TTTTTCAAAATT-TTTTAATTAACA
*
1096961 TTTTTCAGAATTTT
1 TTTTTCAAAATTTT
1096975 GAAAATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 10 0.29
24 3 0.09
25 17 0.50
26 4 0.12
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (24 bp):
TTTTTCAAAATTTTTTAATTAACA
Found at i:1099753 original size:3 final size:3
Alignment explanation
Indices: 1099745--1099796 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
1099735 CATGGTACGC
* *
1099745 GAA GAA GAA GAA GAA GAA -AA GAA GAA GAA GAA GAA GAA AAA GAA AAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1099792 GAA GA
1 GAA GA
1099797 GAACCACTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1102969 original size:176 final size:178
Alignment explanation
Indices: 1102658--1103013 Score: 680
Period size: 176 Copynumber: 2.0 Consensus size: 178
1102648 ATAATAAAAT
1102658 CATAAAACATTTATTTACACATTTCATAGAAAACATTTCTCAAAGAATTTAAGGTACTTTACATA
1 CATAAAACA-TTATTTACACATTTCATAGAAAACATTTCTCAAAGAATTTAAGGTACTTTACATA
1102723 ACAAAAATGTATACTTTAATCAATTGTTAAGTTTATATCACTTTATTTTTAATAGCCCAATGCAT
65 ACAAAAATGTATACTTTAATCAATTGTTAAGTTTATATCACTTTATTTTTAATAGCCCAATGCAT
1102788 ACTACTGAGAACGCTAAGTA-TTGAGTACATTGAGGTTGTGCACTAATG
130 ACTACTGAGAACGCTAAGTATTTGAGTACATTGAGGTTGTGCACTAATG
*
1102836 CATAAAACA-TATTTGCACATTTCATAGAAAACATTTCTCAAAGAATTTAAGGTACTTTACATAA
1 CATAAAACATTATTTACACATTTCATAGAAAACATTTCTCAAAGAATTTAAGGTACTTTACATAA
1102900 CAAAAATGTATACTTTAATCAATTGTTAAGTTTATATCACTTTATTTTTAATAGCCCAATGCATA
66 CAAAAATGTATACTTTAATCAATTGTTAAGTTTATATCACTTTATTTTTAATAGCCCAATGCATA
1102965 CTACTGAGAACGCTAAGTATTTGAGTACATTGAGGTTGTGCACTAATG
131 CTACTGAGAACGCTAAGTATTTGAGTACATTGAGGTTGTGCACTAATG
1103013 C
1 C
1103014 TATCACCACA
Statistics
Matches: 176, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
176 138 0.78
177 29 0.16
178 9 0.05
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (178 bp):
CATAAAACATTATTTACACATTTCATAGAAAACATTTCTCAAAGAATTTAAGGTACTTTACATAA
CAAAAATGTATACTTTAATCAATTGTTAAGTTTATATCACTTTATTTTTAATAGCCCAATGCATA
CTACTGAGAACGCTAAGTATTTGAGTACATTGAGGTTGTGCACTAATG
Found at i:1103084 original size:23 final size:22
Alignment explanation
Indices: 1103048--1103099 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
1103038 CACTGAAGTG
1103048 CCACATA-TTTGTCC-CAAAGGA
1 CCACATAGTTTGTCCTCAAA-GA
*
1103069 CCACATAGTTTTGTCCTGAAAGA
1 CCACATAG-TTTGTCCTCAAAGA
1103092 CCACATAG
1 CCACATAG
1103100 AACCCTTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 7 0.26
23 17 0.63
24 3 0.11
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (22 bp):
CCACATAGTTTGTCCTCAAAGA
Found at i:1104551 original size:95 final size:95
Alignment explanation
Indices: 1104330--1104538 Score: 305
Period size: 95 Copynumber: 2.2 Consensus size: 95
1104320 TGTTGAATAC
* * *
1104330 TATAGTTGTATCGATACTAAGAGAAAGGTATCGATACCAGAGATTCTAGAATGTAGAAATGGTAT
1 TATAGTAGTATCGATACTAAGAGAAAGGTATCGATACCAGAGATTCCAGAATGTAGAAATGATAT
1104395 CGATACTAAAAGGGAGTATCGATACCATAG
66 CGATACTAAAAGGGAGTATCGATACCATAG
* * *
1104425 TATAGTAGTACCGATACTAAGAGAAAGGTATCGATACCATTA-ATTCCATAATGTAGAAATGATA
1 TATAGTAGTATCGATACTAAGAGAAAGGTATCGATACCA-GAGATTCCAGAATGTAGAAATGATA
* * *
1104489 TCGATACTGAAAGGGAGTATCGGTACCATGG
65 TCGATACTAAAAGGGAGTATCGATACCATAG
1104520 TATA-TAAGTATCGATACTA
1 TATAGT-AGTATCGATACTA
1104539 TGATAGGGGT
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
94 1 0.01
95 100 0.98
96 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (95 bp):
TATAGTAGTATCGATACTAAGAGAAAGGTATCGATACCAGAGATTCCAGAATGTAGAAATGATAT
CGATACTAAAAGGGAGTATCGATACCATAG
Found at i:1105005 original size:45 final size:45
Alignment explanation
Indices: 1104954--1105278 Score: 454
Period size: 45 Copynumber: 7.2 Consensus size: 45
1104944 AAAATAAGAA
* *
1104954 ATAAATGAAAAGCATAGTGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
*
1104999 ATAAATGAAATTCATAATGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
* * * * *
1105044 ATATATGAAATGAATAACT-ATGTATTATCGGTATGAAAGGATGCC
1 ATAAATGAAATGCATAA-TGGTGCATTATCGGCATGAAAGGATGCC
* *
1105089 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAATGATGCC
1 ATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
*
1105134 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
** * * ** *
1105179 ATAAATGAAATGCATAACAGTGCATTATCGACATAAAAGGACACA
1 ATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
* *
1105224 ATAAATAAAATGCATAATTGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
1105269 ATAAATGAAA
1 ATAAATGAAA
1105279 ATAACGAATA
Statistics
Matches: 246, Mismatches: 32, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
45 245 1.00
46 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (45 bp):
ATAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
Found at i:1112559 original size:45 final size:45
Alignment explanation
Indices: 1112490--1112814 Score: 454
Period size: 45 Copynumber: 7.2 Consensus size: 45
1112480 AAAATGAGTA
* *
1112490 ATAAATGAAATGCATAATGGTGCATTATCGACATG-AAGGAATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGG-ATGCC
** *
1112535 ATAAATGAAATGCATAACAATGCATTATCGGCATGAAAGGATGTC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
1112580 ATAAATAAAATACATAACAGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
1112625 ACAAATGAAATGTATAATGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* **
1112670 ATAAATGAAATGCATAATGGTGCATTATCAACATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * **
1112715 ATAAATAAAATGCATAACGATGCATTATCGGCATGAAAATATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
1112760 ATAAATGAAATGCATAACGGTGCATTATCGACATGAAATGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
1112805 ATAAATGAAA
1 ATAAATGAAA
1112815 ATAACGAATA
Statistics
Matches: 248, Mismatches: 31, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 244 0.98
46 4 0.02
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (45 bp):
ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
Found at i:1115129 original size:45 final size:45
Alignment explanation
Indices: 1115001--1115217 Score: 269
Period size: 47 Copynumber: 4.8 Consensus size: 45
1114991 TATAAAATCT
* ** *
1115001 CTTACCATTTATCCCATAAGCTTGTAAGCTTATTTTTCCAAAATA
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTTCCAATATA
*
1115046 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTAT-CAATATA
1 CTTACCATTT--ATTCCATAAGCTCATAAGCTTATTTT-TCCAATATA
* *
1115093 TTTACCATTTGTTCCATAAGCTC-TAAGCTTATTTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTT-CCAATATA
* *
1115138 TTTACCATTTAATACCATAAGCTCATAAGCTTATTTTTCCAATATA
1 CTTACCATTT-ATTCCATAAGCTCATAAGCTTATTTTTCCAATATA
* *
1115184 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTT
1115218 GCATGGTTAC
Statistics
Matches: 154, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.01
44 35 0.23
45 41 0.27
46 24 0.16
47 52 0.34
48 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTTCCAATATA
Found at i:1115168 original size:91 final size:91
Alignment explanation
Indices: 1115001--1115217 Score: 287
Period size: 91 Copynumber: 2.4 Consensus size: 91
1114991 TATAAAATCT
* * *
1115001 CTTACCATTTATCCCATAAGCTTGTAAGCTTATTTTTCCAAAATACTTACCATTTAAATTCCATA
1 CTTACCATTTATTCCATAAGC-TCTAAGCTTATTTTTCCAAAATACTTACCATTTAAATACCATA
*
1115066 AGCTCGTAAGCTTATTTTAT-CAATATA
65 AGCTCATAAGCTTATTTT-TCCAATATA
* * * *
1115093 TTTACCATTTGTTCCATAAGCTCTAAGCTTATTTTTACCAATATATTTACCATTT-AATACCATA
1 CTTACCATTTATTCCATAAGCTCTAAGCTTATTTTT-CCAAAATACTTACCATTTAAATACCATA
1115157 AGCTCATAAGCTTATTTTTCCAATATA
65 AGCTCATAAGCTTATTTTTCCAATATA
* *
1115184 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTC-TAAGCTTATTT
1115218 GCATGGTTAC
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
90 14 0.13
91 62 0.56
92 34 0.31
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (91 bp):
CTTACCATTTATTCCATAAGCTCTAAGCTTATTTTTCCAAAATACTTACCATTTAAATACCATAA
GCTCATAAGCTTATTTTTCCAATATA
Found at i:1121637 original size:23 final size:23
Alignment explanation
Indices: 1121606--1121651 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1121596 GTGTCACATA
* *
1121606 TGTCCCGAAGAACCATATAGTTT
1 TGTCACGAAGAACCACATAGTTT
*
1121629 TGTCACGAAGGACCACATAGTTT
1 TGTCACGAAGAACCACATAGTTT
1121652 GTCCAAATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (23 bp):
TGTCACGAAGAACCACATAGTTT
Found at i:1125850 original size:19 final size:19
Alignment explanation
Indices: 1125817--1125863 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
1125807 CTTCCTTTGA
1125817 TATCGATAC-CCACTTCAG
1 TATCGATACTCCACTTCAG
1125835 TATCGATACTCCACTTCAG
1 TATCGATACTCCACTTCAG
1125854 TATCGATACT
1 TATCGATACT
1125864 ACTTGCATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.32
Consensus pattern (19 bp):
TATCGATACTCCACTTCAG
Found at i:1128186 original size:36 final size:36
Alignment explanation
Indices: 1128070--1128186 Score: 94
Period size: 36 Copynumber: 3.2 Consensus size: 36
1128060 TTGTTTCTTC
* *
1128070 TGAAACAAAGTTTCGTCTCGTTTGAGACAATTT-TCCT
1 TGAAACAAA-TTTTGTCTCGCTTGAGACAATTTCT-CT
** * ***
1128107 TGAAA-AAAAATTGATCTCACTTGAGATTGTTTTCTCT
1 TGAAACAAATTTTG-TCTCGCTTGAGA-CAATTTCTCT
**
1128144 AAAAACAAATTTTGTCTCGCTTGAGACAATTTCTCT
1 TGAAACAAATTTTGTCTCGCTTGAGACAATTTCTCT
1128180 TGAAACA
1 TGAAACA
1128187 CAAATCCTTG
Statistics
Matches: 58, Mismatches: 18, Indels: 9
0.68 0.21 0.11
Matches are distributed among these distances:
35 2 0.03
36 25 0.43
37 24 0.41
38 7 0.12
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (36 bp):
TGAAACAAATTTTGTCTCGCTTGAGACAATTTCTCT
Found at i:1128383 original size:106 final size:103
Alignment explanation
Indices: 1128254--1128445 Score: 260
Period size: 106 Copynumber: 1.8 Consensus size: 103
1128244 CGCAAATTTT
* *
1128254 GAAATTGTTTCACTTGAAACAAAATTGAT-CTTGCTTGAGATAGTTTTCCTTAAAGAAACTAATT
1 GAAATTGTTTCACTTGAAACAAAATTGATACAT--TTGAGATAGTTTTCCTT-AA-AAACAAATT
* *
1128318 TCATCTCGCTTGAGACAGTTTTCCATCAAAACACAAAAATTG
62 TCATCTCGCTTCAGACAATTTTCCATCAAAACACAAAAATTG
* * * *
1128360 GAAATTGTTTCACTTGAATCAAAATTGATAACATTTGAGATTGTTTTTCTTAAAAACAAATTTCG
1 GAAATTGTTTCACTTGAAACAAAATTGAT-ACATTTGAGATAGTTTTCCTTAAAAACAAATTTCA
1128425 TCTCGCTTCAGACAATTTTCC
65 TCTCGCTTCAGACAATTTTCC
1128446 CTTGAAACGC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
104 29 0.38
105 2 0.03
106 43 0.57
108 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (103 bp):
GAAATTGTTTCACTTGAAACAAAATTGATACATTTGAGATAGTTTTCCTTAAAAACAAATTTCAT
CTCGCTTCAGACAATTTTCCATCAAAACACAAAAATTG
Found at i:1129172 original size:122 final size:122
Alignment explanation
Indices: 1128954--1129396 Score: 500
Period size: 122 Copynumber: 3.6 Consensus size: 122
1128944 CTAGAACATA
* * * * *
1128954 TTCAACACCAAATTATCTTCAGATTGACCCGACTTACTTAACAAGAAGGAACAACTTCATCTTCA
1 TTCAACACCAAATTATCTCCAGATTGACCCGATTTCCTCAACAAGAAGGAACAACGTCATCTTCA
* * * * *
1129019 ACAATA-AAGTTACCTAAAAGCGGCTAGAACTCTTAAACACTTATGATCAGAGTCATC
66 ACAA-ACAATTTACCTAAAAGCAGCTAGAACTCTTCAACACTGATGAACAGAGTCATC
** * * * * *
1129076 TTCAACACCGTATTATCTCCATATTAACCTGATTTCCTCAACTAGAAGGAGCAACGTCATCTTCA
1 TTCAACACCAAATTATCTCCAGATTGACCCGATTTCCTCAACAAGAAGGAACAACGTCATCTTCA
* * * * * *
1129141 ACAAACAATTTATCTAAAAGCAGCCAAAACTCTTCAACA-TGGATGAGCAGTGTCGTC
66 ACAAACAATTTACCTAAAAGCAGCTAGAACTCTTCAACACT-GATGAACAGAGTCATC
* * * * *
1129198 TTTAACACCAAATTATCTCCAGATTGACCCGACTTCCTCAACGAGAA-GAGACTATGTCATCTT-
1 TTCAACACCAAATTATCTCCAGATTGACCCGATTTCCTCAACAAGAAGGA-ACAACGTCATCTTC
* * * *
1129261 ATGCAAATAATTTACCTGAAAGCTA-CTAGAACTCTTCAACACGGATGAACAGAGTCATC
65 A-ACAAACAATTTACCTAAAAGC-AGCTAGAACTCTTCAACACTGATGAACAGAGTCATC
* *
1129320 TTCATCACCAAATTATCTCCAGATTGACCCGATTTCCTTAACAAGAAGGAACAACGTCATCTTCA
1 TTCAACACCAAATTATCTCCAGATTGACCCGATTTCCTCAACAAGAAGGAACAACGTCATCTTCA
1129385 ACAAACAATTTA
66 ACAAACAATTTA
1129397 TCTCAAAATA
Statistics
Matches: 261, Mismatches: 52, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
121 5 0.02
122 252 0.97
123 4 0.02
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (122 bp):
TTCAACACCAAATTATCTCCAGATTGACCCGATTTCCTCAACAAGAAGGAACAACGTCATCTTCA
ACAAACAATTTACCTAAAAGCAGCTAGAACTCTTCAACACTGATGAACAGAGTCATC
Found at i:1129386 original size:244 final size:245
Alignment explanation
Indices: 1128957--1129404 Score: 618
Period size: 244 Copynumber: 1.8 Consensus size: 245
1128947 GAACATATTC
* *
1128957 AACACCAAATTATCTTCAGATTGACCCGACTTACTTAACAAGAAGGAACAACTTCATCTTCAACA
1 AACACCAAATTATCTCCAGATTGACCCGACTTACTCAACAAGAAGGAACAACTTCATCTTCAACA
* ** * **
1129022 ATAAAGTTACCTAAAAGCGGCTAGAACTCTTAAACACTTATGATCAGAGTCATCTTCAACACCGT
66 ATAAAGTTACCTAAAAGCGACTAGAACTCTTAAACACGGATGAACAGAGTCATCTTCAACACCAA
* * * *
1129087 ATTATCTCCATATTAACCTGATTTCCTCAACTAGAAGGAGCAACGTCATCTTCAACAAACAATTT
131 ATTATCTCCAGATTAACCCGATTTCCTCAACAAGAAGGAACAACGTCATCTTCAACAAACAATTT
1129152 ATCT-AAAAGCAGCCAAAACTCTTCAACATGGATGAGCAGTGTCGTCTTT
196 ATCTCAAAAGCAGCCAAAACTCTTCAACATGGATGAGCAGTGTCGTCTTT
* * *
1129201 AACACCAAATTATCTCCAGATTGACCCGACTTCCTCAACGAGAA-GAGACTA-TGTCATCTT-AT
1 AACACCAAATTATCTCCAGATTGACCCGACTTACTCAACAAGAAGGA-ACAACT-TCATCTTCA-
* * * * * *
1129263 GCAA-ATAATTTACCTGAAAGCTACTAGAACTCTTCAACACGGATGAACAGAGTCATCTTCATCA
63 ACAATA-AAGTTACCTAAAAGCGACTAGAACTCTTAAACACGGATGAACAGAGTCATCTTCAACA
* *
1129327 CCAAATTATCTCCAGATTGACCCGATTTCCTTAACAAGAAGGAACAACGTCATCTTCAACAAACA
127 CCAAATTATCTCCAGATTAACCCGATTTCCTCAACAAGAAGGAACAACGTCATCTTCAACAAACA
1129392 ATTTATCTCAAAA
192 ATTTATCTCAAAA
1129405 TATGACCAAA
Statistics
Matches: 176, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
243 5 0.03
244 167 0.95
245 4 0.02
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (245 bp):
AACACCAAATTATCTCCAGATTGACCCGACTTACTCAACAAGAAGGAACAACTTCATCTTCAACA
ATAAAGTTACCTAAAAGCGACTAGAACTCTTAAACACGGATGAACAGAGTCATCTTCAACACCAA
ATTATCTCCAGATTAACCCGATTTCCTCAACAAGAAGGAACAACGTCATCTTCAACAAACAATTT
ATCTCAAAAGCAGCCAAAACTCTTCAACATGGATGAGCAGTGTCGTCTTT
Found at i:1130933 original size:32 final size:32
Alignment explanation
Indices: 1130889--1130979 Score: 119
Period size: 32 Copynumber: 2.8 Consensus size: 32
1130879 TCACTAACTT
**
1130889 ACTAACATTCTAACCTTTATTTTATTATTCGA
1 ACTAACATTCTAATATTTATTTTATTATTCGA
* **
1130921 ACTAACACTCTAATATTTATTTTATCGTTCGA
1 ACTAACATTCTAATATTTATTTTATTATTCGA
*
1130953 ACTAACATTCTAATTGTTTATTTTATT
1 ACTAACATTCTAA-TATTTATTTTATT
1130980 TGTTCTTACT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
32 39 0.78
33 11 0.22
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.48
Consensus pattern (32 bp):
ACTAACATTCTAATATTTATTTTATTATTCGA
Found at i:1139882 original size:3 final size:3
Alignment explanation
Indices: 1139869--1139906 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
1139859 ATTAAAAATG
1139869 ATA AT- 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
1139907 TACTTTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1140693 original size:55 final size:55
Alignment explanation
Indices: 1140619--1141076 Score: 704
Period size: 55 Copynumber: 8.3 Consensus size: 55
1140609 TTTATTAAGA
* * * *
1140619 TGCACACGTAGTGCCTGTACGGTTATTTATCAGCTCATGATGAATTTTGTGGTTT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGTTT
*
1140674 TGCTCACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGTTT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGTTT
* *
1140729 TGCACACTTAGTGCTTGTACAGTTATTCATCAACTCATGATGAATTTCGTGGTTT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGTTT
*
1140784 TGCACACTTAGTGCCTGTACGATTATTCATCAACTCATGATGAA-TTCTGTGGTTT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTC-GTGGTTT
* *
1140839 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCAAGATGAATTTCGTGGTTT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGTTT
* * * *
1140894 TGCACATTTAGTGCTTGTACAGTTATTCATCAACTCATGATGAATTACGTGGTTT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGTTT
* * *
1140949 TGCACACTTAG-GCCTGTACGGTTATTCATCAACTCTTGATAAATTTCATGGTTT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGTTT
* *
1141003 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGACTTTCGTGGTTT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGTTT
* *
1141058 TGCACATTTAGTTCCTGTA
1 TGCACACTTAGTGCCTGTA
1141077 GTACACGTAG
Statistics
Matches: 366, Mismatches: 34, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
54 51 0.14
55 312 0.85
56 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (55 bp):
TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGTTT
Found at i:1141186 original size:3 final size:3
Alignment explanation
Indices: 1141178--1141290 Score: 190
Period size: 3 Copynumber: 37.7 Consensus size: 3
1141168 ATATTATAAA
* * *
1141178 TAT TAT TAT TAT TGT TAT TAT AAT AAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1141226 TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1141274 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
1141291 AATATATTAA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 104 1.00
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1141298 original size:9 final size:10
Alignment explanation
Indices: 1141286--1141324 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
1141276 TTATTATTAT
1141286 TATTAAAT-A
1 TATTAAATAA
1141295 TATTAAATACA
1 TATTAAATA-A
1141306 TATATAAATAA
1 TAT-TAAATAA
1141317 TATTAAAT
1 TATTAAAT
1141325 TACAAAGCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.30
10 5 0.19
11 8 0.30
12 6 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:1143488 original size:15 final size:13
Alignment explanation
Indices: 1143468--1143505 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
1143458 TTTATATGTT
1143468 TTATTTTATTTGCAA
1 TTATTTTATTT-C-A
1143483 TTATTTTATTTCA
1 TTATTTTATTTCA
1143496 TTA-TTTATTT
1 TTATTTTATTT
1143506 TGCTGTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 1 0.04
15 11 0.48
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATTTTATTTCA
Found at i:1154109 original size:11 final size:10
Alignment explanation
Indices: 1154094--1154160 Score: 77
Period size: 10 Copynumber: 6.9 Consensus size: 10
1154084 TATTATGCTT
1154094 GAAGAAAAAA
1 GAAGAAAAAA
1154104 TGAAGAAAAAA
1 -GAAGAAAAAA
*
1154115 AAAGAAAAAA
1 GAAGAAAAAA
*
1154125 GAAAAAAAAA
1 GAAGAAAAAA
1154135 GAA-AAAAAA
1 GAAGAAAAAA
*
1154144 -AAGAGAAAA
1 GAAGAAAAAA
1154153 -AAGAAAAA
1 GAAGAAAAA
1154161 GGAGGGTCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
8 2 0.04
9 18 0.36
10 20 0.40
11 10 0.20
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (10 bp):
GAAGAAAAAA
Found at i:1154113 original size:1 final size:1
Alignment explanation
Indices: 1154109--1154160 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
1154099 AAAAATGAAG
* * * * * *
1154109 AAAAAAAAAGAAAAAAGAAAAAAAAAGAAAAAAAAAAGAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1154161 GGAGGGTCAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:1154119 original size:21 final size:20
Alignment explanation
Indices: 1154095--1154154 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 20
1154085 ATTATGCTTG
1154095 AAGAAAAAATGAAGAAAAAAA
1 AAGAAAAAA-GAAGAAAAAAA
*
1154116 AAGAAAAAAGAAAAAAAAAGA
1 AAGAAAAAAGAAGAAAAAA-A
*
1154137 AAAAAAAAAG-AGAAAAAA
1 AAGAAAAAAGAAGAAAAAA
1154155 GAAAAAGGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (20 bp):
AAGAAAAAAGAAGAAAAAAA
Found at i:1154128 original size:17 final size:17
Alignment explanation
Indices: 1154106--1154160 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 17
1154096 AGAAAAAATG
1154106 AAGAAAAAAAAAGAAAA
1 AAGAAAAAAAAAGAAAA
1154123 AAGAAAAAAAAAGAAAAA
1 AAGAAAAAAAAAG-AAAA
*
1154141 AAAAAGAGAAAAAAGAAAA
1 AAGAA-A-AAAAAAGAAAA
1154160 A
1 A
1154161 GGAGGGTCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 13 0.38
18 8 0.24
19 6 0.18
20 7 0.21
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAGAAAA
Found at i:1154143 original size:30 final size:30
Alignment explanation
Indices: 1154098--1154160 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
1154088 ATGCTTGAAG
* *
1154098 AAAAAATGAAGAAAAAAAAAGAAAAAAGAA
1 AAAAAAAGAAAAAAAAAAAAGAAAAAAGAA
*
1154128 AAAAAAAGAAAAAAAAAAGAGAAAAAAGAA
1 AAAAAAAGAAAAAAAAAAAAGAAAAAAGAA
1154158 AAA
1 AAA
1154161 GGAGGGTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.86, C:0.00, G:0.13, T:0.02
Consensus pattern (30 bp):
AAAAAAAGAAAAAAAAAAAAGAAAAAAGAA
Found at i:1156580 original size:216 final size:217
Alignment explanation
Indices: 1156199--1156955 Score: 1011
Period size: 216 Copynumber: 3.4 Consensus size: 217
1156189 CCATAATGAT
*
1156199 GGATCAACTTTTCCAGAAAGAGTTCATAATGAGAAGAA-C-TCATCTGAAGAAGGAAGAAGAAGT
1 GGATCAACATTTCCAGAAAGAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAGT
*
1156262 TCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGAGTCAATGTTTCCA
66 TCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGA-TCAATATTTCCA
1156327 GTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
130 GTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
1156392 TGTTCAACCTTTTGCTCAAATCC
195 TGTTCAACCTTTTGCTCAAATCC
* *
1156415 GGATCAGCTTTTCCAGAAAGAGTTCATAATGAGAAGAA-C-TCATCTGAAGAAGGAAGAAGAAGT
1 GGATCAACATTTCCAGAAAGAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAGT
*
1156478 TCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGATTCAGTATTTCCA
66 TCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGA-TCAATATTTCCA
1156543 GTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
130 GTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
* * ** **
1156608 TATTCAACCTTTTTTCATCATTTGAG
195 TGTTCAACC-TTTTGC-TCAAAT-CC
* ** *
1156634 GGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAATAAG
1 GGATCAACATTTCCAGAAAGAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGGAAGAAGAAG
* * *
1156699 TTCATAATGAGAAGAACTTGTTCAATCTTTT-GCTTGAATTCATCATTTGATGGATCAACATTGC
65 TTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCATTCGAT-GATCAATATTTC
* * *
1156763 CAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
128 CAGTTCGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
* * * *
1156828 GAACTTGTTCAACCTTTTGTTTGAATTCATCATTT
190 GAATTTGTTCAACCTTTTG-CTCAA---ATC---C
* ** *
1156863 GATGTATCAACATTGCCAGGTAGAGTTCATAATGAAAAGAACTCGTCATCTGAAGAAGGAAGAAG
1 G--G-ATCAACATTTCCAGAAAGAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGGAAGAAG
*
1156928 AAGTTCATAATAAGAAGAACTTGTTCAA
62 AAGTTCATAATGAGAAGAACTTGTTCAA
1156956 TAATTCTATC
Statistics
Matches: 484, Mismatches: 36, Indels: 26
0.89 0.07 0.05
Matches are distributed among these distances:
216 197 0.41
217 5 0.01
218 4 0.01
219 33 0.07
221 1 0.00
222 96 0.20
223 7 0.01
224 7 0.01
225 47 0.10
227 1 0.00
229 1 0.00
231 1 0.00
232 84 0.17
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (217 bp):
GGATCAACATTTCCAGAAAGAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGATCAATATTTCCAG
TTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
GTTCAACCTTTTGCTCAAATCC
Found at i:1156777 original size:116 final size:115
Alignment explanation
Indices: 1156433--1156955 Score: 766
Period size: 116 Copynumber: 4.6 Consensus size: 115
1156423 TTTTCCAGAA
1156433 AGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
1 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* ** * *
1156495 TGTTCAACTTTTCGCTTGAATTCATCATTCGAT-GATTCAGTATTTCCAGTT
66 TGTTCAACTTTT-GCTTGAATTCATCATTTGATGGA-TCAACATTGCCAGGT
* * *
1156546 CGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
1 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* * * *
1156608 TATTCAAC-CTT--TT---TTCATCATTTGAGGGATCAACATTACCAGGT
66 TGTTCAACTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGT
*
1156652 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACT
1 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
1156717 TGTTCAATCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGT
66 TGTTCAA-CTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGT
1156768 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
1 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* *
1156833 TGTTCAACCTTTTGTTTGAATTCATCATTTGATGTATCAACATTGCCAGGT
66 TGTTCAA-CTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGT
* *
1156884 AGAGTTCATAATGAAAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACT
1 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
1156949 TGTTCAA
66 TGTTCAA
1156956 TAATTCTATC
Statistics
Matches: 374, Mismatches: 25, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
106 41 0.11
107 2 0.01
108 1 0.00
109 46 0.12
110 1 0.00
111 2 0.01
112 2 0.01
113 68 0.18
116 211 0.56
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (115 bp):
AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
TGTTCAACTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGT
Found at i:1157288 original size:3 final size:3
Alignment explanation
Indices: 1157280--1157362 Score: 130
Period size: 3 Copynumber: 27.7 Consensus size: 3
1157270 ATATTATAAA
* * *
1157280 TAT TAT TAT TAT TGT TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1157328 CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1157363 AATATATATT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1157374 original size:11 final size:10
Alignment explanation
Indices: 1157358--1157398 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
1157348 TTATTATTAT
1157358 TATTAAATATA
1 TATTAAATA-A
1157369 TATTAAATACA
1 TATTAAATA-A
1157380 TATATAAATAA
1 TAT-TAAATAA
1157391 TATTAAAT
1 TATTAAAT
1157399 TACAAAGCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:1161610 original size:2 final size:2
Alignment explanation
Indices: 1161603--1161655 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1161593 TCTTAACAAT
1161603 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1161645 TA TA TA TA TA T
1 TA TA TA TA TA T
1161656 TCGTTTCTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1162064 original size:16 final size:16
Alignment explanation
Indices: 1162043--1162075 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1162033 TTTTAAAAAT
1162043 AAAAAATATAATCATG
1 AAAAAATATAATCATG
1162059 AAAAAATATAATCATG
1 AAAAAATATAATCATG
1162075 A
1 A
1162076 TAAGTTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAAAATATAATCATG
Found at i:1164311 original size:18 final size:19
Alignment explanation
Indices: 1164270--1164311 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
1164260 AATGTCATAA
1164270 ATAAA-TTTAGAAGTGTTT
1 ATAAATTTTAGAAGTGTTT
1164288 ATAAATTTTATGAAGT-TTT
1 ATAAATTTTA-GAAGTGTTT
1164307 A-AAAT
1 ATAAAT
1164312 ATTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.41
19 8 0.36
20 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (19 bp):
ATAAATTTTAGAAGTGTTT
Found at i:1164315 original size:20 final size:19
Alignment explanation
Indices: 1164275--1164316 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1164265 CATAAATAAA
*
1164275 TTTAGAAGTGTTTATAAAT
1 TTTAGAAGTGTTTAAAAAT
1164294 TTTATGAAGT-TTTAAAATAT
1 TTTA-GAAGTGTTTAAAA-AT
1164314 TTT
1 TTT
1164317 TTAAATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (19 bp):
TTTAGAAGTGTTTAAAAAT
Found at i:1177890 original size:17 final size:19
Alignment explanation
Indices: 1177865--1177902 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
1177855 CGATGCAACT
1177865 GGTACCGATAC-AG-AAAG
1 GGTACCGATACTAGCAAAG
*
1177882 GGTATCGATACTAGCAAAG
1 GGTACCGATACTAGCAAAG
1177901 GG
1 GG
1177903 AAGTATCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.37, C:0.16, G:0.32, T:0.16
Consensus pattern (19 bp):
GGTACCGATACTAGCAAAG
Found at i:1177982 original size:22 final size:22
Alignment explanation
Indices: 1177956--1178026 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
1177946 ACTGAAAGAG
1177956 AGTATCGGTACCATAGTATAGT
1 AGTATCGGTACCATAGTATAGT
* * *
1177978 AGTATCGATACTGAAAG-A-AG-
1 AGTATCGGTAC-CATAGTATAGT
* *
1177998 GGTATTGGTACCATAGTATAGT
1 AGTATCGGTACCATAGTATAGT
1178020 AGTATCG
1 AGTATCG
1178027 ATACTAGAAG
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
19 3 0.09
20 9 0.26
21 4 0.11
22 16 0.46
23 3 0.09
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (22 bp):
AGTATCGGTACCATAGTATAGT
Found at i:1178020 original size:42 final size:42
Alignment explanation
Indices: 1177938--1178053 Score: 182
Period size: 42 Copynumber: 2.8 Consensus size: 42
1177928 TGTGAAAATG
* *
1177938 GTATCGATACTGAAAG-AGAGTATCGGTACCATAGTATAGTA
1 GTATCGATACTGAAAGAAGGGTATTGGTACCATAGTATAGTA
1177979 GTATCGATACTGAAAGAAGGGTATTGGTACCATAGTATAGTA
1 GTATCGATACTGAAAGAAGGGTATTGGTACCATAGTATAGTA
*
1178021 GTATCGATACT-AGAAGAAGGGTATTGATACCAT
1 GTATCGATACTGA-AAGAAGGGTATTGGTACCAT
1178054 GTAACACATA
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
41 17 0.24
42 53 0.76
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (42 bp):
GTATCGATACTGAAAGAAGGGTATTGGTACCATAGTATAGTA
Found at i:1178615 original size:45 final size:45
Alignment explanation
Indices: 1178547--1178958 Score: 497
Period size: 45 Copynumber: 9.1 Consensus size: 45
1178537 AACGAATGAA
* * *
1178547 CAAAATAATAACGTATATAGGTGCATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* *
1178592 TAAAATAATAATGCATATGGGTGCATTATCGGCATAAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* * * *
1178637 CAAAATAATAATGCCTATGAGTGCATTATAGGCATGAAAGGAAGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* * ***
1178682 CAAAATAATAATGTATATGAGTGCATTATATACATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* * * * **
1178727 CAAAAAAATAATTCATATGGGTGCATTATAGGTATGAAA-GATTT
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* *
1178771 CAAAATAATAATGCATATAGGCGCATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
*
1178816 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* *
1178861 CAAAATAATAATGCATATGGGTGCATTATTGGTATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* * * * *
1178906 CATAACTGA-AATGCATGAACGGATGCATTA-AGGCATGAAAGGATGC
1 CA-AAATAATAATGCAT--ATGGGTGCATTATCGGCATGAAAGGATGC
1178952 CATAAAT
1 CA-AAAT
1178959 GAAATGTATG
Statistics
Matches: 317, Mismatches: 46, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
44 36 0.11
45 247 0.78
46 24 0.08
47 10 0.03
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
Found at i:1178645 original size:90 final size:90
Alignment explanation
Indices: 1178547--1179040 Score: 514
Period size: 90 Copynumber: 5.5 Consensus size: 90
1178537 AACGAATGAA
* * * * *
1178547 CAAAATAATAACGTATATAGGTGCATTATCGGCATGAAAGGATGCTAAAATAATAATGCATATGG
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGG
*
1178612 GTGCATTATCGGCATAAAAGGATGC
66 GTGCATTATCGGCATGAAAGGATGC
* * * * *
1178637 CAAAATAATAATGCCTATGAGTGCATTATAGGCATGAAAGGAAGCCAAAATAATAATGTATATGA
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGG
***
1178702 GTGCATTATATACATGAAAGGATGC
66 GTGCATTATCGGCATGAAAGGATGC
* * * ** *
1178727 CAAAAAAATAATTCATATGGGTGCATTATAGGTATGAAA-GATTTCAAAATAATAATGCATATAG
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGG
*
1178791 GCGCATTATCGGCATGAAAGGATGC
66 GTGCATTATCGGCATGAAAGGATGC
* *
1178816 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGCCAAAATAATAATGCATATGG
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGG
* *
1178881 GTGCATTATTGGTATGAAAGGATGC
66 GTGCATTATCGGCATGAAAGGATGC
* * * * * *
1178906 CATAACTGA-AATGCATGAACGGATGCATTA-AGGCATGAAAGGATGCCATAAATGA-AATGTAT
1 CA-AAATAATAATGCAT--ATGGGTGCATTATAGGCATGAAAGGATGCCA-AAATAATAATGCAT
* * * **
1178968 GAAAGGATTCATTA-AAGCATGAAAGGATGC
62 --ATGGGTGCATTATCGGCATGAAAGGATGC
* * *
1178998 CATAACTAAAAATGCATGAATGGATGCATTA-AGGCATGAAAGG
1 CA-AAATAATAATGCAT--ATGGGTGCATTATAGGCATGAAAGG
1179041 GTACCATAAA
Statistics
Matches: 340, Mismatches: 56, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
89 74 0.22
90 163 0.48
91 26 0.08
92 36 0.11
93 41 0.12
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (90 bp):
CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGG
GTGCATTATCGGCATGAAAGGATGC
Found at i:1178867 original size:179 final size:180
Alignment explanation
Indices: 1178561--1178907 Score: 511
Period size: 179 Copynumber: 1.9 Consensus size: 180
1178551 ATAATAACGT
* * *
1178561 ATATAGGTGCATTATCGGCATGAAAGGATGCTAAAATAATAATGCATATGGGTGCATTATCGGCA
1 ATATAGGTGCATTATAGGCATGAAAGGATGCTAAAATAATAATGCATATAGGCGCATTATCGGCA
* *
1178626 TAAAAGGATGCCAAAATAATAATGCCTATGAGTGCATTATAGGCATGAAAGGAAGCCAAAATAAT
66 TAAAAGGATGCCAAAATAATAATGCATATGAGTGCATTATAGACATGAAAGGAAGCCAAAATAAT
*
1178691 AATGTATATGAGTGCATTATAT-ACATGAAAGGATGCCAAAAAAATAATTC
131 AATGCATATGAGTGCATTAT-TGACATGAAAGGATGCCAAAAAAATAATTC
* * *
1178741 ATATGGGTGCATTATAGGTATGAAA-GAT-TTCAAAATAATAATGCATATAGGCGCATTATCGGC
1 ATATAGGTGCATTATAGGCATGAAAGGATGCT-AAAATAATAATGCATATAGGCGCATTATCGGC
* * * *
1178804 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGCCAAAATAA
65 ATAAAAGGATGCCAAAATAATAATGCATATGAGTGCATTATAGACATGAAAGGAAGCCAAAATAA
* **
1178869 TAATGCATATGGGTGCATTATTGGTATGAAAGGATGCCA
130 TAATGCATATGAGTGCATTATTGACATGAAAGGATGCCA
1178908 TAACTGAAAT
Statistics
Matches: 149, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
178 2 0.01
179 125 0.84
180 22 0.15
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (180 bp):
ATATAGGTGCATTATAGGCATGAAAGGATGCTAAAATAATAATGCATATAGGCGCATTATCGGCA
TAAAAGGATGCCAAAATAATAATGCATATGAGTGCATTATAGACATGAAAGGAAGCCAAAATAAT
AATGCATATGAGTGCATTATTGACATGAAAGGATGCCAAAAAAATAATTC
Found at i:1178952 original size:46 final size:46
Alignment explanation
Indices: 1178568--1179070 Score: 327
Period size: 45 Copynumber: 11.1 Consensus size: 46
1178558 CGTATATAGG
* * *
1178568 TGCATTATCGGCATGAAAGGATGCTA-AAATAATAATGCAT--ATGGG
1 TGCATTA-AGGCATGAAAGGATGCCATAAATAA-AATGCATGAATGGA
* * *
1178613 TGCATTATCGGCATAAAAGGATGCCA-AAATAATAATGCCT--AT-GA
1 TGCATTA-AGGCATGAAAGGATGCCATAAATAA-AATGCATGAATGGA
* *
1178657 GTGCATTATAGGCATGAAAGGAAGCCA-AAATAATAATGTAT--AT-GA
1 -TGCATTA-AGGCATGAAAGGATGCCATAAATAA-AATGCATGAATGGA
** * * *
1178702 GTGCATTATATACATGAAAGGATGCCA-AAAAAATAATTCAT--ATGGG
1 -TGCATTA-AGGCATGAAAGGATGCCATAAATAA-AATGCATGAATGGA
* **
1178748 TGCATTATAGGTATGAAA-GATTTCA-AAATAATAATGCAT--ATAGG-
1 TGCATTA-AGGCATGAAAGGATGCCATAAATAA-AATGCATGAAT-GGA
* * *
1178792 CGCATTATCGGCATGAAAGGATGCCA-AAATAATAATGCAT--ATGGG
1 TGCATTA-AGGCATGAAAGGATGCCATAAATAA-AATGCATGAATGGA
* * *
1178837 TGCATTATCGACATGAAAGGATGCCA-AAATAATAATGCAT--ATGGG
1 TGCATTA-AGGCATGAAAGGATGCCATAAATAA-AATGCATGAATGGA
* * * * *
1178882 TGCATTATTGGTATGAAAGGATGCCATAACTGAAATGCATGAACGGA
1 TGCATTA-AGGCATGAAAGGATGCCATAAATAAAATGCATGAATGGA
* * *
1178929 TGCATTAAGGCATGAAAGGATGCCATAAATGAAATGTATGAAAGGA
1 TGCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATGAATGGA
* * *
1178975 TTCATTAAAGCATGAAAGGATGCCATAACTAAAAATGCATGAATGGA
1 TGCATTAAGGCATGAAAGGATGCCATAAAT-AAAATGCATGAATGGA
* * * *
1179022 TGCATTAAGGCATGAAAGGGTACCATAAATGAAATGCATGAAAGGA
1 TGCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATGAATGGA
1179068 TGC
1 TGC
1179071 CATAAATGAA
Statistics
Matches: 394, Mismatches: 55, Indels: 17
0.85 0.12 0.04
Matches are distributed among these distances:
44 37 0.09
45 226 0.57
46 83 0.21
47 48 0.12
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (46 bp):
TGCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATGAATGGA
Found at i:1178970 original size:26 final size:25
Alignment explanation
Indices: 1178894--1179082 Score: 138
Period size: 26 Copynumber: 7.9 Consensus size: 25
1178884 CATTATTGGT
1178894 ATGAAAGGATGCCATAACTGAAATGC
1 ATGAAAGGATGCCATAA-TGAAATGC
* *
1178920 ATGAACGGATG-CAT--T--AAGGC
1 ATGAAAGGATGCCATAATGAAATGC
*
1178940 ATGAAAGGATGCCATAAATGAAATGT
1 ATGAAAGGATGCCAT-AATGAAATGC
*
1178966 ATGAAAGGAT-TCAT--T-AAA-GC
1 ATGAAAGGATGCCATAATGAAATGC
*
1178986 ATGAAAGGATGCCATAACTAAAAATGC
1 ATGAAAGGATGCCATAA-T-GAAATGC
* *
1179013 ATGAATGGATG-CAT--T--AAGGC
1 ATGAAAGGATGCCATAATGAAATGC
* *
1179033 ATGAAAGGGTACCATAAATGAAATGC
1 ATGAAAGGATGCCAT-AATGAAATGC
1179059 ATGAAAGGATGCCATAAATGAAAT
1 ATGAAAGGATGCCAT-AATGAAAT
1179083 TAATGAATAA
Statistics
Matches: 128, Mismatches: 16, Indels: 38
0.70 0.09 0.21
Matches are distributed among these distances:
20 37 0.29
21 12 0.09
22 2 0.02
23 1 0.01
24 3 0.02
25 6 0.05
26 55 0.43
27 12 0.09
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (25 bp):
ATGAAAGGATGCCATAATGAAATGC
Found at i:1179027 original size:93 final size:92
Alignment explanation
Indices: 1178894--1179068 Score: 296
Period size: 93 Copynumber: 1.9 Consensus size: 92
1178884 CATTATTGGT
* *
1178894 ATGAAAGGATGCCATAACTGAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAAT
1 ATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAAAT
*
1178959 GAAATGTATGAAAGGATTCATTAAAGC
66 GAAATGCATGAAAGGATTCATTAAAGC
* *
1178986 ATGAAAGGATGCCATAACTAAAAATGCATGAATGGATGCATTAAGGCATGAAAGGGTACCATAAA
1 ATGAAAGGATGCCATAACT-AAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAAA
1179051 TGAAATGCATGAAAGGAT
65 TGAAATGCATGAAAGGAT
1179069 GCCATAAATG
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 19 0.25
93 58 0.75
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.21
Consensus pattern (92 bp):
ATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAAAT
GAAATGCATGAAAGGATTCATTAAAGC
Found at i:1179088 original size:26 final size:26
Alignment explanation
Indices: 1179033--1179089 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
1179023 GCATTAAGGC
* *
1179033 ATGAAAGGGTACCATAAATGAAATGC
1 ATGAAAGGATACCATAAATGAAATGA
* *
1179059 ATGAAAGGATGCCATAAATGAAATTA
1 ATGAAAGGATACCATAAATGAAATGA
1179085 ATGAA
1 ATGAA
1179090 TAATTACTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (26 bp):
ATGAAAGGATACCATAAATGAAATGA
Found at i:1181457 original size:2 final size:2
Alignment explanation
Indices: 1181450--1181475 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1181440 GATGTCAAAA
1181450 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1181476 TTTATAGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1184261 original size:45 final size:45
Alignment explanation
Indices: 1184197--1184466 Score: 477
Period size: 45 Copynumber: 6.0 Consensus size: 45
1184187 AACGAATGAT
*
1184197 CAAAATAATAATGCATATGGGTGTATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
1184242 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
*
1184287 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
*
1184332 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* *
1184377 CAAAACAATAATGCATATGGGTGCATTATCAGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* *
1184422 CAAAATAATAATGCATATGGTTGCATTATCGACATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
1184467 TGTTGAACTA
Statistics
Matches: 216, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 216 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
Found at i:1184571 original size:29 final size:30
Alignment explanation
Indices: 1184500--1184559 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
1184490 AAATTTAAGG
1184500 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
1184531 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
1184560 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:1184674 original size:21 final size:21
Alignment explanation
Indices: 1184649--1184728 Score: 91
Period size: 21 Copynumber: 4.0 Consensus size: 21
1184639 TTCAAGATTG
* *
1184649 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATACCCC
1184670 CCCAGGGGGTACAGATA---C
1 CCCAGGGGGTACAGATACCCC
1184688 CCCA---GGTACAGATACCTCC
1 CCCAGGGGGTACAGATACC-CC
1184707 CCCAGGGGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
1184728 C
1 C
1184729 TGCAGGTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
15 10 0.20
18 5 0.10
19 5 0.10
21 18 0.36
22 12 0.24
ACGTcount: A:0.24, C:0.36, G:0.26, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATACCCC
Found at i:1184692 original size:18 final size:18
Alignment explanation
Indices: 1184669--1184727 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 18
1184659 ATAGATTCCC
1184669 CCCCAGGGGGTACAGATA
1 CCCCAGGGGGTACAGATA
1184687 CCCCA---GGTACAGATA
1 CCCCAGGGGGTACAGATA
1184702 CCTCCCCCAGGGGGTACAGATA
1 ----CCCCAGGGGGTACAGATA
1184724 CCCC
1 CCCC
1184728 CTGCAGGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
15 10 0.29
18 9 0.26
19 5 0.15
22 10 0.29
ACGTcount: A:0.25, C:0.37, G:0.25, T:0.12
Consensus pattern (18 bp):
CCCCAGGGGGTACAGATA
Found at i:1184802 original size:20 final size:21
Alignment explanation
Indices: 1184762--1184805 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1184752 AACAGAATGT
1184762 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
1184783 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
1184804 CC
1 CC
1184806 TGTTCAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.45, G:0.27, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACCGATTCCCCC
Found at i:1184867 original size:21 final size:21
Alignment explanation
Indices: 1184841--1184883 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1184831 ATTTGAATAT
*
1184841 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1184862 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1184883 T
1 T
1184884 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1184949 original size:20 final size:22
Alignment explanation
Indices: 1184911--1184950 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1184901 TTTTAGTATA
1184911 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
1184933 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
1184951 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:1187658 original size:20 final size:20
Alignment explanation
Indices: 1187620--1187695 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
1187610 AAGATTGCCC
* *
1187620 AGGGGGTATAGATTCCCCCCT
1 AGGGGGTACAGA-TACCCCCT
1187641 AGGGGGTACAGATA-CCCC-
1 AGGGGGTACAGATACCCCCT
*
1187659 ---GGGTACAGATACCCCCC
1 AGGGGGTACAGATACCCCCT
1187676 AGGGGGTACAGATACCCCCT
1 AGGGGGTACAGATACCCCCT
1187696 GCAGGTTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
15 11 0.23
16 4 0.09
19 4 0.09
20 17 0.36
21 11 0.23
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.16
Consensus pattern (20 bp):
AGGGGGTACAGATACCCCCT
Found at i:1187663 original size:36 final size:35
Alignment explanation
Indices: 1187623--1187693 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
1187613 ATTGCCCAGG
* *
1187623 GGGTATAGATTCCCCCCTAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCC-AGGGGGTACAGATACCCC
1187659 GGGTACAGATACCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCAGGGGGTACAGATACCCC
1187694 CTGCAGGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 18 0.55
36 15 0.45
ACGTcount: A:0.24, C:0.32, G:0.28, T:0.15
Consensus pattern (35 bp):
GGGTACAGATACCCCCCAGGGGGTACAGATACCCC
Found at i:1187664 original size:15 final size:15
Alignment explanation
Indices: 1187644--1187673 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1187634 CCCCCCTAGG
1187644 GGGTACAGATACCCC
1 GGGTACAGATACCCC
1187659 GGGTACAGATACCCC
1 GGGTACAGATACCCC
1187674 CCAGGGGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:1187764 original size:20 final size:21
Alignment explanation
Indices: 1187728--1187769 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1187718 AACAGAATGT
1187728 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
1187749 CCAGGGGGTACC-ATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
1187769 C
1 C
1187770 TGTTCAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.14, C:0.45, G:0.26, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACCGATTCCCCC
Found at i:1187831 original size:21 final size:21
Alignment explanation
Indices: 1187805--1187847 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1187795 ATTTGAATAT
*
1187805 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1187826 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1187847 T
1 T
1187848 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1187913 original size:20 final size:22
Alignment explanation
Indices: 1187875--1187914 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1187865 TTTGAGTATA
1187875 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
1187897 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
1187915 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:1188579 original size:20 final size:20
Alignment explanation
Indices: 1188500--1188580 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 20
1188490 TAAATGAAAA
*
1188500 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
1188520 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
1188547 GCATGAACA-GATGCATTAAG
1 GCATGAA-AGGATGCATTAAG
1188567 GCATGAAAGGATGC
1 GCATGAAAGGATGC
1188581 CATAAATGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
19 1 0.02
20 26 0.53
21 3 0.06
23 1 0.02
24 1 0.02
26 3 0.06
27 13 0.27
28 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.20
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:1188598 original size:93 final size:92
Alignment explanation
Indices: 1188437--1188631 Score: 277
Period size: 93 Copynumber: 2.1 Consensus size: 92
1188427 AATCCCAACA
* * * *
1188437 GATGCCATAACTGAAATGCATGAACGGATGTATTAAGACATGAAATGATGCCATAAATGAAAAGC
1 GATGCCATAACTAAAATGCATGAACAGATGCATTAAGACATGAAAGGATGCCATAAATGAAAAGC
* *
1188502 ATGAAA-TGATGCATTAAGGCATGAAAG
66 ATGAAAGT-ATGCACTAAAGCATGAAAG
*
1188529 GATGCCATAACTAAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATA
1 GATGCCATAACT-AAAATGCATGAACAGATGCATTAAGACATGAAAGGATGCCATAAATGAAA-A
1188594 -CATGAAAGTATGCACTAAAGCATGAAAG
64 GCATGAAAGTATGCACTAAAGCATGAAAG
*
1188622 GATTCCATAA
1 GATGCCATAA
1188632 ATGAAATTAA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
92 12 0.13
93 78 0.85
94 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (92 bp):
GATGCCATAACTAAAATGCATGAACAGATGCATTAAGACATGAAAGGATGCCATAAATGAAAAGC
ATGAAAGTATGCACTAAAGCATGAAAG
Found at i:1188638 original size:46 final size:46
Alignment explanation
Indices: 1188437--1188638 Score: 230
Period size: 46 Copynumber: 4.4 Consensus size: 46
1188427 AATCCCAACA
* * * * * * *
1188437 GATGCCATAACTGAAATGCATGAACGGATGTATTAAGACATGAAAT
1 GATGCCATAAATGAAATACATGAAAGTATGCATTAAGGCATGAAAG
1188483 GATGCCATAAATGAAA-AGCATGAAA-TGATGCATTAAGGCATGAAAG
1 GATGCCATAAATGAAATA-CATGAAAGT-ATGCATTAAGGCATGAAAG
* * *
1188529 GATGCCATAACTAAAAATGCATGAACAG-ATGCATTAAGGCATGAAAG
1 GATGCCATAAAT-GAAATACATGAA-AGTATGCATTAAGGCATGAAAG
* *
1188576 GATGCCATAAATGAAATACATGAAAGTATGCACTAAAGCATGAAAG
1 GATGCCATAAATGAAATACATGAAAGTATGCATTAAGGCATGAAAG
*
1188622 GATTCCATAAATGAAAT
1 GATGCCATAAATGAAAT
1188639 TAACGAATAA
Statistics
Matches: 133, Mismatches: 16, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
45 2 0.02
46 91 0.68
47 39 0.29
48 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (46 bp):
GATGCCATAAATGAAATACATGAAAGTATGCATTAAGGCATGAAAG
Found at i:1189125 original size:81 final size:82
Alignment explanation
Indices: 1188976--1189130 Score: 186
Period size: 81 Copynumber: 1.9 Consensus size: 82
1188966 ACAGTTCTAA
* * * * * * *
1188976 AGTAAAAGATTAATGGCCTAGTTGTGCAATTGGGTAGAAAGGTGTCAATTATACCAGTTAGATAA
1 AGTAAAAGATTAATGGCCTAGCTATGCAAGTGGGCAGAAAAGTGTCAATCATACAAGTTAGATAA
*
1189041 AAGGTTAAATACATTTG
66 AAGGCTAAATACATTTG
* * * * *
1189058 AGTAAAAGATTAATGGCCTAGCTATGTAGGT-GGCAGAAAAGTGTCAATCATGCAAGTTAGGTGA
1 AGTAAAAGATTAATGGCCTAGCTATGCAAGTGGGCAGAAAAGTGTCAATCATACAAGTTAGATAA
1189122 AAGGCTAAA
66 AAGGCTAAA
1189131 GGCCTTTGGG
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
81 34 0.57
82 26 0.43
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (82 bp):
AGTAAAAGATTAATGGCCTAGCTATGCAAGTGGGCAGAAAAGTGTCAATCATACAAGTTAGATAA
AAGGCTAAATACATTTG
Found at i:1190060 original size:40 final size:40
Alignment explanation
Indices: 1189997--1190108 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
1189987 TAAGCACTTT
* *
1189997 AGTGCATATAGTGGGCACGACCTTATGTGTAATGCAATTC
1 AGTGCATATGGTGGGCACGACCTTATGTGTAATGCAATCC
* * * *
1190037 AGTGCACATGGTGTGCACAACCTTATGTGTAATGCACTCC
1 AGTGCATATGGTGGGCACGACCTTATGTGTAATGCAATCC
* *
1190077 GGTGCATATGGTGGGCACGACCTTATATGTAA
1 AGTGCATATGGTGGGCACGACCTTATGTGTAA
1190109 GCACTACGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (40 bp):
AGTGCATATGGTGGGCACGACCTTATGTGTAATGCAATCC
Found at i:1193706 original size:29 final size:28
Alignment explanation
Indices: 1193657--1193711 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
1193647 AAATGGATTT
* *
1193657 AGTTAGTAACCAAATTGTAAAATTTGAA
1 AGTTAGTAACCAAAGTATAAAATTTGAA
* *
1193685 AGTTATGTAGCCAAAGTATAAACTTTG
1 AGTTA-GTAACCAAAGTATAAAATTTG
1193712 GAAAAGTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 5 0.23
29 17 0.77
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (28 bp):
AGTTAGTAACCAAAGTATAAAATTTGAA
Found at i:1196416 original size:40 final size:40
Alignment explanation
Indices: 1196358--1196487 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
1196348 TATCGATTAA
* * *
1196358 GCACTTCGGTGCATATGGTGGGCATGACCTTATGTGTAAT
1 GCACTTCAGTGCACATGGTGGGCACGACCTTATGTGTAAT
*
1196398 GCACTTCAGTGCACATGGTGGGCACAACCTTATGTGTAAT
1 GCACTTCAGTGCACATGGTGGGCACGACCTTATGTGTAAT
* * *
1196438 ACACTCCGGTG--CATGGTGGGCACGACCTTATGTGTAA-
1 GCACTTCAGTGCACATGGTGGGCACGACCTTATGTGTAAT
*
1196475 GCACTACAGTGCA
1 GCACTTCAGTGCA
1196488 TATTTGACTC
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
37 8 0.10
38 25 0.32
40 44 0.57
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GCACTTCAGTGCACATGGTGGGCACGACCTTATGTGTAAT
Found at i:1197180 original size:3 final size:3
Alignment explanation
Indices: 1197160--1197193 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
1197150 GCTTGCTAAC
*
1197160 TCT TCAT TCT TAT TCT TCT TCT TCT TCT TCT TCT
1 TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT
1197194 ATTCCTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:1198700 original size:21 final size:22
Alignment explanation
Indices: 1198652--1198700 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
1198642 TTTCGGAATT
*
1198652 TCTCG-TAGCAGTATTTTGCTG
1 TCTCGTTAGCAGTATTTTGCTA
1198673 TCTCGTTAGCAGTA-TTTGCTA
1 TCTCGTTAGCAGTATTTTGCTA
1198694 TCTCGTT
1 TCTCGTT
1198701 CTATGTTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (22 bp):
TCTCGTTAGCAGTATTTTGCTA
Found at i:1200419 original size:91 final size:91
Alignment explanation
Indices: 1200265--1200448 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 91
1200255 TTGGGCAATG
*
1200265 AGAATGTGACATGTAACACGTTTTTAGATTAGTAGGAAATAATGATAATTTAGATACCATTTTTA
1 AGAATGTGACATGTAACACGTTTTTAGATTAGTAGAAAATAATGATAATTTAGATACCATTTTTA
1200330 T-AAAAAAAAATTATAATTTAAGGTT
66 TAAAAAAAAAATTATAATTTAAGGTT
*
1200355 AGAATGTGACATGTAACACATTTTATTAGATTAGT-GAAAATAATGATAATTTAGATACCATTTT
1 AGAATGTGACATGTAACAC-GTTT-TTAGATTAGTAGAAAATAATGATAATTTAGATACCATTTT
*
1200419 TATAAAAAAAAAAATTATAATTTGAGGTT
64 TAT-AAAAAAAAAATTATAATTTAAGGTT
1200448 A
1 A
1200449 AATTTTAGTA
Statistics
Matches: 87, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
90 19 0.22
91 34 0.39
92 10 0.11
93 24 0.28
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (91 bp):
AGAATGTGACATGTAACACGTTTTTAGATTAGTAGAAAATAATGATAATTTAGATACCATTTTTA
TAAAAAAAAAATTATAATTTAAGGTT
Found at i:1202017 original size:171 final size:172
Alignment explanation
Indices: 1201706--1202045 Score: 673
Period size: 171 Copynumber: 2.0 Consensus size: 172
1201696 TATGAATGTA
1201706 TTGTAAACGAACCACAAAAGGGATCAATCAATTGAAAGATCATCGACAAACCACAATCAAAATTA
1 TTGTAAACGAACCACAAAAGGGATCAATCAATTGAAAGATCATCGACAAACCACAATCAAAATTA
1201771 AGCAACGCGAGAAAACTATCCACAAACGTAATTCGTGTATTCAAATCCAATCTGAGGGTCTAAAA
66 AGCAACGCGAGAAAACTATCCACAAACGTAATTCGTGTATTCAAATCCAATCTGAGGGTCTAAAA
1201836 TATGTAAGATCAACATGATAACAAATATAGTGTCATCTTTAT
131 TATGTAAGATCAACATGATAACAAATATAGTGTCATCTTTAT
1201878 TTGTAAACGAACCACAAAAGGGATCAATCAATTGAAAGATCATCGACAAACCACAATCAAAATTA
1 TTGTAAACGAACCACAAAAGGGATCAATCAATTGAAAGATCATCGACAAACCACAATCAAAATTA
1201943 AGCAA-GCGAGAAAACTATCCACAAACGTAATTCGTGTATTCAAATCCAATCTGAGGGTCTAAAA
66 AGCAACGCGAGAAAACTATCCACAAACGTAATTCGTGTATTCAAATCCAATCTGAGGGTCTAAAA
1202007 TATGTAAGATCAACATGATAACAAATATAGTGTCATCTT
131 TATGTAAGATCAACATGATAACAAATATAGTGTCATCTT
1202046 AATCAGTCCT
Statistics
Matches: 168, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
171 98 0.58
172 70 0.42
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.24
Consensus pattern (172 bp):
TTGTAAACGAACCACAAAAGGGATCAATCAATTGAAAGATCATCGACAAACCACAATCAAAATTA
AGCAACGCGAGAAAACTATCCACAAACGTAATTCGTGTATTCAAATCCAATCTGAGGGTCTAAAA
TATGTAAGATCAACATGATAACAAATATAGTGTCATCTTTAT
Found at i:1202768 original size:7 final size:8
Alignment explanation
Indices: 1202755--1202806 Score: 83
Period size: 7 Copynumber: 6.9 Consensus size: 8
1202745 TTCAAACTTT
1202755 AAATATTG
1 AAATATTG
1202763 -AATATTG
1 AAATATTG
1202770 AAATATTG
1 AAATATTG
1202778 -AATATTG
1 AAATATTG
1202785 AAATATTG
1 AAATATTG
1202793 -AATATTG
1 AAATATTG
1202800 AAATATT
1 AAATATT
1202807 ATAACAGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
7 21 0.51
8 20 0.49
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (8 bp):
AAATATTG
Found at i:1202775 original size:15 final size:15
Alignment explanation
Indices: 1202755--1202806 Score: 104
Period size: 15 Copynumber: 3.5 Consensus size: 15
1202745 TTCAAACTTT
1202755 AAATATTGAATATTG
1 AAATATTGAATATTG
1202770 AAATATTGAATATTG
1 AAATATTGAATATTG
1202785 AAATATTGAATATTG
1 AAATATTGAATATTG
1202800 AAATATT
1 AAATATT
1202807 ATAACAGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (15 bp):
AAATATTGAATATTG
Found at i:1203948 original size:62 final size:63
Alignment explanation
Indices: 1203879--1204000 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 63
1203869 AGTTATTTAT
* *
1203879 TATCTATTTAACTTTAAATA-TTAAAGATAAT-TATATAC-TTTGAATATTTCAAATTAAAATAA
1 TATCTATTTAACTTTAAATAGTAAAAG-GAATCTATAT-CTTTTGAATATTTCAAATTAAAATAA
* *
1203941 TATCTATTTAAGTTTGAATAGTAAAAGGAATCTATATCTTTTGAATATTTCAAATTAAAA
1 TATCTATTTAACTTTAAATAGTAAAAGGAATCTATATCTTTTGAATATTTCAAATTAAAA
1204001 GATATTATCA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
62 22 0.42
63 31 0.58
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.43
Consensus pattern (63 bp):
TATCTATTTAACTTTAAATAGTAAAAGGAATCTATATCTTTTGAATATTTCAAATTAAAATAA
Found at i:1219325 original size:15 final size:16
Alignment explanation
Indices: 1219305--1219346 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
1219295 GATTAAAATA
1219305 AAATAAATAAAAGAT-
1 AAATAAATAAAAGATG
*
1219320 AAATAAATGAAAGATG
1 AAATAAATAAAAGATG
1219336 AAATAAGATAA
1 AAATAA-ATAA
1219347 TAAAGAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 14 0.61
16 6 0.26
17 3 0.13
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (16 bp):
AAATAAATAAAAGATG
Found at i:1225840 original size:36 final size:36
Alignment explanation
Indices: 1225800--1225877 Score: 120
Period size: 36 Copynumber: 2.1 Consensus size: 36
1225790 CAAGAGGCTT
* *
1225800 CTTGGCTATTTTCTTTGTCCGTGTAACAATTATTTA
1 CTTGGCTATTTTCGTTGCCCGTGTAACAATTATTTA
*
1225836 CTTGGCTATTTTCGTTGCCCGTGTAACAGTTATTTA
1 CTTGGCTATTTTCGTTGCCCGTGTAACAATTATTTA
1225872 CATTGG
1 C-TTGG
1225878 GTCCTTGTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 34 0.89
37 4 0.11
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (36 bp):
CTTGGCTATTTTCGTTGCCCGTGTAACAATTATTTA
Found at i:1227358 original size:32 final size:32
Alignment explanation
Indices: 1227285--1227363 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 32
1227275 CGGGTACCAG
* *
1227285 ATACCCACAAAATCTGGGTACCCGATTAACGA
1 ATACCCACAACATCCGGGTACCCGATTAACGA
*
1227317 ATACCCACAACATCCGGGTACCCGATTAACGG
1 ATACCCACAACATCCGGGTACCCGATTAACGA
* *
1227349 GTACTCACAACATCC
1 ATACCCACAACATCC
1227364 AGGTTGGGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.34, C:0.33, G:0.15, T:0.18
Consensus pattern (32 bp):
ATACCCACAACATCCGGGTACCCGATTAACGA
Found at i:1228006 original size:8 final size:8
Alignment explanation
Indices: 1227993--1228017 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1227983 ATAGATATAT
1227993 TATAATAA
1 TATAATAA
1228001 TATAATAA
1 TATAATAA
1228009 TATAATAA
1 TATAATAA
1228017 T
1 T
1228018 GAATTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TATAATAA
Found at i:1230605 original size:86 final size:86
Alignment explanation
Indices: 1230434--1230597 Score: 242
Period size: 86 Copynumber: 1.9 Consensus size: 86
1230424 AAGCTCTTAA
*
1230434 TTTGATCATCAGTAGACCTACATATCATACGCAATATCGGAAGCCCAACGATGCATCATCTATCC
1 TTTGATCATCAGTAGACCTACATATCATACGCAATATCGCAAGCCCAACGATGCATCATCTATCC
1230499 TAACAGTATCCCCAATCTCAG
66 TAACAGTATCCCCAATCTCAG
* * * * *
1230520 TTTGATCATCAGT-GACCTACGTATTATATGCAATATCGCATGCCCAACAGATGCATTATCTATC
1 TTTGATCATCAGTAGACCTACATATCATACGCAATATCGCAAGCCCAAC-GATGCATCATCTATC
1230584 AC-AACAGTATCCCC
65 -CTAACAGTATCCCC
1230598 GGTCTCAGCG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
85 30 0.43
86 39 0.56
87 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (86 bp):
TTTGATCATCAGTAGACCTACATATCATACGCAATATCGCAAGCCCAACGATGCATCATCTATCC
TAACAGTATCCCCAATCTCAG
Found at i:1232508 original size:452 final size:452
Alignment explanation
Indices: 1231659--1232567 Score: 1577
Period size: 452 Copynumber: 2.0 Consensus size: 452
1231649 AATTATTGAG
* * *
1231659 TTTATCATCCCAATGGATGAACTAGTCGATAACTTGATCACTTATGTAACACTATCACATCGCAA
1 TTTACCATCCCAATGAATGAACTAGTCGATAACTCGATCACTTATGTAACACTATCACATCGCAA
* *
1231724 TGCAACATACTAAGTGGTATGAATAATAAGTATGTTCATATAAAAGAGAAACAATCATAACATAT
66 TGCAAAATACTAAGTGGTATGAATAATAAGTATGTTCATATAAAAGAGAAACAATCACAACATAT
* * * *
1231789 TTGGTTTGTTATGCTCTGCTCATTAGTATAATCATAGTTCGGTATTCGACAAAAGCATACATTGG
131 TTGGCTTATTATGCTCTGCTCATTAGTATAATCATAGTTCGGTATTCGACAAAAGCACACATCGG
1231854 TGAACATGAAAAATAAATATTCAAGTTATATAAGGCATTAAATTCGCATGATTATGCGGACATAT
196 TGAACATGAAAAATAAATATTCAAGTTATATAAGGCATTAAATTCGCATGATTATGCGGACATAT
*
1231919 AAGAAAATATGGCATTCACGACATATCATACACACCTTTAGCAGGCTGTAACACCAAAGCTAAAC
261 AAGAAAATATAGCATTCACGACATATCATACACACCTTTAGCAGGCTGTAACACCAAAGCTAAAC
* **
1231984 ACGCTTCCCCCGACCAATAGTACTAAGTTCAACCGTGTTAGAACCAACAAATTTGAAATACTACA
326 ACCCTTCCCCCGACCAATAGTACTAAGTTCAACCGTGTTAGAACCAACAAATTCAAAATACTACA
*
1232049 TTAATAACCCAAAACAACCTATATTCTAACTTTAAAGATTTA-TGATTTCAATGATAGATCAT
391 TTAATAACCCAAAACAACCTATATTCTAACTTAAAAGATTTACT-ATTTCAATGATAGATCAT
* *
1232111 TTTACCATCCCAATGAATGAACTAGTCGGTAACTCGATCACTTCTGTAACACTATCACATCGCAA
1 TTTACCATCCCAATGAATGAACTAGTCGATAACTCGATCACTTATGTAACACTATCACATCGCAA
*
1232176 TGCAAAATACTAAGTGGTATGAATAATAAGTATGTTCATATAAAAGAGAGACAATCACAACATAT
66 TGCAAAATACTAAGTGGTATGAATAATAAGTATGTTCATATAAAAGAGAAACAATCACAACATAT
1232241 TTGGCTTATTATGCTCTGCTCATTAGTATAATCATAGTTCGGTATTCGACAAAAGCACACATCGG
131 TTGGCTTATTATGCTCTGCTCATTAGTATAATCATAGTTCGGTATTCGACAAAAGCACACATCGG
* *
1232306 TGAACATGAAAAATAAATATTCAAGTTATATAAGGCATTACATTCGCATGATTATGCGGTCATAT
196 TGAACATGAAAAATAAATATTCAAGTTATATAAGGCATTAAATTCGCATGATTATGCGGACATAT
* * *
1232371 AAGAAAATATAGCATTCACGGCATATCATACACACCTTTAGCAGGCTGTAGCACCAATGCTAAAC
261 AAGAAAATATAGCATTCACGACATATCATACACACCTTTAGCAGGCTGTAACACCAAAGCTAAAC
* * *
1232436 ACCCTTCCCCCGACCAGTAGTACTAGGTTCAACTGTGTTAGAACCAACAAATTCAAAATACTACA
326 ACCCTTCCCCCGACCAATAGTACTAAGTTCAACCGTGTTAGAACCAACAAATTCAAAATACTACA
1232501 TTAATAACCCAAAACAACCTATATTCTAACTTAAAAGATTTACTATTTCAATGATAGATCAT
391 TTAATAACCCAAAACAACCTATATTCTAACTTAAAAGATTTACTATTTCAATGATAGATCAT
1232563 TTTAC
1 TTTAC
1232568 GCGTAACTCC
Statistics
Matches: 431, Mismatches: 25, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
452 430 1.00
453 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (452 bp):
TTTACCATCCCAATGAATGAACTAGTCGATAACTCGATCACTTATGTAACACTATCACATCGCAA
TGCAAAATACTAAGTGGTATGAATAATAAGTATGTTCATATAAAAGAGAAACAATCACAACATAT
TTGGCTTATTATGCTCTGCTCATTAGTATAATCATAGTTCGGTATTCGACAAAAGCACACATCGG
TGAACATGAAAAATAAATATTCAAGTTATATAAGGCATTAAATTCGCATGATTATGCGGACATAT
AAGAAAATATAGCATTCACGACATATCATACACACCTTTAGCAGGCTGTAACACCAAAGCTAAAC
ACCCTTCCCCCGACCAATAGTACTAAGTTCAACCGTGTTAGAACCAACAAATTCAAAATACTACA
TTAATAACCCAAAACAACCTATATTCTAACTTAAAAGATTTACTATTTCAATGATAGATCAT
Found at i:1233118 original size:25 final size:26
Alignment explanation
Indices: 1233084--1233194 Score: 158
Period size: 25 Copynumber: 4.3 Consensus size: 26
1233074 CCAAAAAAAG
1233084 CCCAATCCTTCTATAAAGA-ACT-AAC
1 CCCAATCCTTCTATAAAGAGA-TAAAC
*
1233109 CCCAATCCTTCTATAACGAGATAAAC
1 CCCAATCCTTCTATAAAGAGATAAAC
1233135 CCCAATCCTTCTATAAAGA-ACT-AAC
1 CCCAATCCTTCTATAAAGAGA-TAAAC
*
1233160 CCCAATCCTTCTATAACGAGATAAAC
1 CCCAATCCTTCTATAAAGAGATAAAC
1233186 CCCAATCCT
1 CCCAATCCT
1233195 ATAAACAATG
Statistics
Matches: 78, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
25 42 0.54
26 36 0.46
ACGTcount: A:0.38, C:0.33, G:0.05, T:0.23
Consensus pattern (26 bp):
CCCAATCCTTCTATAAAGAGATAAAC
Done.