Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 343 of 410
Found at i:105854365 original size:22 final size:21
Alignment explanation
Indices: 105854318--105854365 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 21
105854308 TAAGATTTGT
105854318 TATG-TATAGAGCATGTCTATG
1 TATGTTATAGAGCATG-CTATG
105854339 TATGTTATACGAGCATG-TATG
1 TATGTTATA-GAGCATGCTATG
105854360 TGATGT
1 T-ATGT
105854366 AAGTTCTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 9 0.38
22 8 0.33
23 7 0.29
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.40
Consensus pattern (21 bp):
TATGTTATAGAGCATGCTATG
Found at i:105863620 original size:15 final size:15
Alignment explanation
Indices: 105863595--105863652 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
105863585 TCATATATAT
105863595 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
105863611 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
105863626 AATAATTTCAATCAA
1 TATAAATTCAATCAA
105863641 TATAAATTCAAT
1 TATAAATTCAAT
105863653 AAAATAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:105863637 original size:30 final size:28
Alignment explanation
Indices: 105863598--105863658 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 28
105863588 TATATATTAT
105863598 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
105863627 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
105863656 ATA
1 ATA
105863659 GATATTCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.32
30 21 0.68
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:105863825 original size:2 final size:2
Alignment explanation
Indices: 105863820--105863854 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
105863810 CACACACACT
105863820 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
105863855 ATTCAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:105865268 original size:24 final size:26
Alignment explanation
Indices: 105865221--105865274 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
105865211 TTTTTTTTTG
105865221 TCAATAAAAAATCACTCCTATCTCTT
1 TCAATAAAAAATCACTCCTATCTCTT
* * *
105865247 TCAATAAAAAATCGCTCTTCTCTCTT
1 TCAATAAAAAATCACTCCTATCTCTT
105865273 TC
1 TC
105865275 TAAGGTTCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.37
Consensus pattern (26 bp):
TCAATAAAAAATCACTCCTATCTCTT
Found at i:105876323 original size:15 final size:15
Alignment explanation
Indices: 105876303--105876333 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
105876293 TTGGTAGTTT
105876303 AGATGTTAATAATTC
1 AGATGTTAATAATTC
105876318 AGATGTTAATAATTC
1 AGATGTTAATAATTC
105876333 A
1 A
105876334 TTAGTTGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (15 bp):
AGATGTTAATAATTC
Found at i:105879413 original size:24 final size:23
Alignment explanation
Indices: 105879382--105879430 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
105879372 GATGATGATG
105879382 TTTAATTTCAT-TTTATATTTATT
1 TTTAATTT-ATATTTATATTTATT
105879405 TTTATATTTATATTTATATTTATT
1 TTTA-ATTTATATTTATATTTATT
105879429 TT
1 TT
105879431 ATTTTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTAATTTATATTTATATTTATT
Found at i:105879416 original size:18 final size:17
Alignment explanation
Indices: 105879382--105879432 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
105879372 GATGATGATG
105879382 TTTA-ATTTCATTTTATA
1 TTTATATTT-ATTTTATA
*
105879399 TTTATTTTTATATTTATA
1 TTTATATTTAT-TTTATA
105879417 TTTATATTTATTTTAT
1 TTTATATTTATTTTAT
105879433 TTTTTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.37
18 19 0.63
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATATTTATTTTATA
Found at i:105879436 original size:6 final size:6
Alignment explanation
Indices: 105879393--105879432 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
105879383 TTAATTTCAT
*
105879393 TTTATA TTTATT TTTATA TTTATA TTTATA TTTAT- TTTAT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTAT
105879433 TTTTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTATA
Found at i:105884070 original size:23 final size:23
Alignment explanation
Indices: 105884044--105884166 Score: 147
Period size: 23 Copynumber: 5.3 Consensus size: 23
105884034 ATCAAAATAG
* *
105884044 AGCCTTTGTGGTGTATTATGATT
1 AGCCTTTGTGGCGTATTCTGATT
* *
105884067 AGCCTTTGTGGTGTATTTTGATT
1 AGCCTTTGTGGCGTATTCTGATT
* * *
105884090 AGCCTTTCTGGCATATTCTAATT
1 AGCCTTTGTGGCGTATTCTGATT
* *
105884113 AACCTTTGTCGCGTATTCTGATT
1 AGCCTTTGTGGCGTATTCTGATT
* *
105884136 AGTCTTTGTGGCATATTCTGATT
1 AGCCTTTGTGGCGTATTCTGATT
105884159 AGCCTTTG
1 AGCCTTTG
105884167 CGTTAGCCTT
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 84 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.46
Consensus pattern (23 bp):
AGCCTTTGTGGCGTATTCTGATT
Found at i:105885719 original size:20 final size:18
Alignment explanation
Indices: 105885694--105885737 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
105885684 ATGTCACAGT
105885694 TCAAATAAACAGTACAATTA
1 TCAAATAAACAG-A-AATTA
105885714 TCAAAT-AACAGAAATTA
1 TCAAATAAACAGAAATTA
105885731 T-AAATAA
1 TCAAATAA
105885738 TACATCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 7 0.30
18 1 0.04
19 5 0.22
20 6 0.26
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (18 bp):
TCAAATAAACAGAAATTA
Found at i:105897529 original size:24 final size:25
Alignment explanation
Indices: 105897502--105897550 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
105897492 CTTTTTTTAT
*
105897502 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
105897526 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
105897551 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:105897543 original size:25 final size:23
Alignment explanation
Indices: 105897514--105897578 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
105897504 AATAAAAAAC
*
105897514 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
105897539 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
105897560 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
105897579 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:105897577 original size:19 final size:20
Alignment explanation
Indices: 105897540--105897578 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
105897530 TCAAATACAT
105897540 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
105897560 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
105897579 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:105897693 original size:12 final size:11
Alignment explanation
Indices: 105897656--105897694 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
105897646 TAAAATTGAA
105897656 AAATTAAAAC-
1 AAATTAAAACT
105897666 AAATTAAAACT
1 AAATTAAAACT
*
105897677 AAATTAAGAATT
1 AAATTAA-AACT
105897689 AAATTA
1 AAATTA
105897695 TATTAATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.38
11 7 0.27
12 9 0.35
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (11 bp):
AAATTAAAACT
Found at i:105898403 original size:17 final size:17
Alignment explanation
Indices: 105898381--105898414 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
105898371 TCAAAAAGGA
105898381 AAAAGTTTGAACTCAAG
1 AAAAGTTTGAACTCAAG
105898398 AAAAGTTTGAACTCAAG
1 AAAAGTTTGAACTCAAG
105898415 CAGGTTGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (17 bp):
AAAAGTTTGAACTCAAG
Found at i:105905285 original size:18 final size:19
Alignment explanation
Indices: 105905262--105905297 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
105905252 AGATTTAGAC
105905262 TAAATTGT-AAATAAATGT
1 TAAATTGTGAAATAAATGT
*
105905280 TAAATTGTGTAATAAATG
1 TAAATTGTGAAATAAATG
105905298 CTCATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (19 bp):
TAAATTGTGAAATAAATGT
Found at i:105910199 original size:46 final size:46
Alignment explanation
Indices: 105910134--105910407 Score: 363
Period size: 46 Copynumber: 6.0 Consensus size: 46
105910124 TTATCTTTGA
* * * *
105910134 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* *
105910180 CATGTTGCCATGGTATCTTTCAACTATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
105910226 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-CGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* **
105910272 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAAAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
105910318 CATGTTGCCATGGTATCTTTCAGCCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
105910364 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
105910408 TTCAAAGAGC
Statistics
Matches: 202, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
45 8 0.04
46 190 0.94
47 4 0.02
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:105910387 original size:138 final size:138
Alignment explanation
Indices: 105910134--105910397 Score: 422
Period size: 138 Copynumber: 1.9 Consensus size: 138
105910124 TTATCTTTGA
* * * **
105910134 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCAATCATGTTGCCATGGTATCTT
*
105910199 TCAACTATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCA
66 TCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCA
105910264 TTTTCCGT
131 TTTTCCGT
* *
105910272 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCAAATCATGTTGCCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACACATTTTC-AATCATGTTGCCATGGTATCT
* *
105910336 TTCAGCCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
65 TTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTA
105910398 CACATTTCAT
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
137 4 0.03
138 111 0.97
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (138 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCAATCATGTTGCCATGGTATCTT
TCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCA
TTTTCCGT
Found at i:105915013 original size:137 final size:136
Alignment explanation
Indices: 105914767--105915052 Score: 500
Period size: 137 Copynumber: 2.1 Consensus size: 136
105914757 CATTGGGCCT
** *
105914767 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTTAGATTACAATAAACTGAGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTT
* *
105914832 AGCCCCTTATTCAGACAACAGTATGGCCTATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGACAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
105914897 CATATGC
131 -ATATGC
*
105914904 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTT
*
105914969 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
66 AGCCCCTTATTCAGACAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
105915034 ATATGC
131 ATATGC
105915040 AAGCCCATTTGGG
1 AAGCCCATTTGGG
105915053 GAGACTACTC
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 19 0.13
137 123 0.87
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTT
AGCCCCTTATTCAGACAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
ATATGC
Found at i:105915337 original size:25 final size:27
Alignment explanation
Indices: 105915300--105915352 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
105915290 TCAAACATGC
105915300 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
105915326 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
105915352 A
1 A
105915353 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:105916860 original size:26 final size:26
Alignment explanation
Indices: 105916824--105916957 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
105916814 ACATGAATTC
105916824 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
105916850 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
105916876 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
105916902 TTATCAT-AAACATTTA-CTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
105916926 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
105916952 TTATCA
1 TTATCA
105916958 ATTTGTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
24 14 0.14
25 16 0.16
26 70 0.70
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:105916940 original size:50 final size:52
Alignment explanation
Indices: 105916824--105916957 Score: 236
Period size: 50 Copynumber: 2.6 Consensus size: 52
105916814 ACATGAATTC
* *
105916824 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
105916876 TTATCATGGAACATTTACCTAACCTATTATCAT-AAACATTTA-CTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
105916926 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
105916958 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
50 40 0.50
51 9 0.11
52 31 0.39
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:105920973 original size:136 final size:136
Alignment explanation
Indices: 105920703--105920987 Score: 518
Period size: 136 Copynumber: 2.1 Consensus size: 136
105920693 CATTGGGCCT
**
105920703 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGCCTTA
* *
105920768 GCCCCTTATTCAGATAACAGTATGGCCTATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
105920833 ATATGC
131 ATATGC
105920839 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACT-GGCCTT
105920904 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
105920969 -ATATGC
130 CATATGC
105920975 AAGCCCATTTGGG
1 AAGCCCATTTGGG
105920988 GAGACTACTC
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
136 75 0.52
137 69 0.48
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATGC
Found at i:105921272 original size:25 final size:26
Alignment explanation
Indices: 105921235--105921286 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
105921225 TCAAACATGC
105921235 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
105921261 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
105921286 A
1 A
105921287 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:105922792 original size:26 final size:26
Alignment explanation
Indices: 105922756--105922891 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
105922746 CATGATATTC
105922756 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
105922782 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
105922808 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
105922834 TTATCATAAAACATTTACTTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
105922860 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
105922886 TTATCA
1 TTATCA
105922892 ATTTGTATCA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 100 1.00
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:105923761 original size:25 final size:25
Alignment explanation
Indices: 105923744--105923820 Score: 145
Period size: 25 Copynumber: 3.1 Consensus size: 25
105923734 AGCTCTTCCC
105923744 AGTTGAATAACGGGAAGCTCATACG
1 AGTTGAATAACGGGAAGCTCATACG
105923769 AGTTGAATAACGGGAAGCTCATACG
1 AGTTGAATAACGGGAAGCTCATACG
*
105923794 AGTTGAATAACGGGAAGCTCATTCG
1 AGTTGAATAACGGGAAGCTCATACG
105923819 AG
1 AG
105923821 CTAACCATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.21
Consensus pattern (25 bp):
AGTTGAATAACGGGAAGCTCATACG
Found at i:105923959 original size:193 final size:193
Alignment explanation
Indices: 105923630--105923988 Score: 619
Period size: 193 Copynumber: 1.9 Consensus size: 193
105923620 GTACCCATTG
* * *
105923630 AACCATTTAAAATATTGTTGATACATGGGTAGTACACACGAGATGTACTAAACTGTAATCTGTCA
1 AACCATTTAAAATATCGTCGATACATGGGTAGTACACACAAGATGTACTAAACTGTAATCTGTCA
*
105923695 ATTCATACTCATGTATGCTCATACAAGCTGTAAATAGTAAGCTCTTCCCAGTTGAATAACGGGAA
66 ATTCATACTCATGTATGCTCATACAAGCTGTAAACAGTAAGCTCTTCCCAGTTGAATAACGGGAA
* * *
105923760 GCTCATACGAGTTGAATAACGGGAAGCTCATACGAGTTGAATAACGGGAAGCTCATTCGAGCT
131 GCTCATACAAGCTGAATAACGAGAAGCTCATACGAGTTGAATAACGGGAAGCTCATTCGAGCT
*
105923823 AACCATTTAAAATATCGTCGATACATGGGTAGTACACACAAGATGTACTGAACTGTAATCTGTCA
1 AACCATTTAAAATATCGTCGATACATGGGTAGTACACACAAGATGTACTAAACTGTAATCTGTCA
* *
105923888 ATTCATACTCATGTATGCTCATACGAGCTGTAAACAGTAAGCTCTTCCGAGTTGAATAACGGGAA
66 ATTCATACTCATGTATGCTCATACAAGCTGTAAACAGTAAGCTCTTCCCAGTTGAATAACGGGAA
*
105923953 GCTCATACAAGCTGAATAACGAGAAGCTCATTCGAG
131 GCTCATACAAGCTGAATAACGAGAAGCTCATACGAG
105923989 CTATGGTGTG
Statistics
Matches: 155, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
193 155 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (193 bp):
AACCATTTAAAATATCGTCGATACATGGGTAGTACACACAAGATGTACTAAACTGTAATCTGTCA
ATTCATACTCATGTATGCTCATACAAGCTGTAAACAGTAAGCTCTTCCCAGTTGAATAACGGGAA
GCTCATACAAGCTGAATAACGAGAAGCTCATACGAGTTGAATAACGGGAAGCTCATTCGAGCT
Found at i:105923990 original size:25 final size:25
Alignment explanation
Indices: 105923904--105923990 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 25
105923894 ACTCATGTAT
*
105923904 GCTCATACGAGCTGTA-AAC-AGTAA
1 GCTCATACGAGCTGAATAACGAG-AA
* * * *
105923928 GCTCTTCCGAGTTGAATAACGGGAA
1 GCTCATACGAGCTGAATAACGAGAA
*
105923953 GCTCATACAAGCTGAATAACGAGAA
1 GCTCATACGAGCTGAATAACGAGAA
*
105923978 GCTCATTCGAGCT
1 GCTCATACGAGCT
105923991 ATGGTGTGTC
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
24 12 0.24
25 36 0.73
26 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGAGAA
Found at i:105926362 original size:31 final size:31
Alignment explanation
Indices: 105926296--105926368 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
105926286 ACGAGTTAAG
* * * *
105926296 AAACCATCATTGTTGGGTAATTCGGGGTGAT
1 AAACCATCATTGTTGAGCAATTCGGGATGAC
* *
105926327 AAACCATTATTGTTGAGCAATTCGGGATGGC
1 AAACCATCATTGTTGAGCAATTCGGGATGAC
105926358 AAACCATCATT
1 AAACCATCATT
105926369 TTCGGGTAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (31 bp):
AAACCATCATTGTTGAGCAATTCGGGATGAC
Found at i:105928559 original size:27 final size:27
Alignment explanation
Indices: 105928529--105928607 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 27
105928519 AGCAATGAAT
105928529 TTTGTACTTGGTGCATAAATTGATAGG
1 TTTGTACTTGGTGCATAAATTGATAGG
* * *
105928556 TTTG--GTTGGAG-AGT--ATTGA-A-T
1 TTTGTACTTGGTGCA-TAAATTGATAGG
*
105928577 TTTTTACTTGGTGCATAAATTGATAGG
1 TTTGTACTTGGTGCATAAATTGATAGG
105928604 TTTG
1 TTTG
105928608 GTTGGAGAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 16
0.60 0.13 0.27
Matches are distributed among these distances:
21 3 0.08
22 1 0.03
23 11 0.31
24 2 0.06
25 11 0.31
26 1 0.03
27 7 0.19
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.44
Consensus pattern (27 bp):
TTTGTACTTGGTGCATAAATTGATAGG
Found at i:105928579 original size:48 final size:48
Alignment explanation
Indices: 105928524--105928619 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
105928514 TTTTTAGCAA
105928524 TGAATTTTGTACTTGGTGCATAAATTGATAGGTTTGGTTGGAGAGTAT
1 TGAATTTTGTACTTGGTGCATAAATTGATAGGTTTGGTTGGAGAGTAT
*
105928572 TGAATTTTTTACTTGGTGCATAAATTGATAGGTTTGGTTGGAGAGTAT
1 TGAATTTTGTACTTGGTGCATAAATTGATAGGTTTGGTTGGAGAGTAT
105928620 GAAATAGGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.25, C:0.04, G:0.28, T:0.43
Consensus pattern (48 bp):
TGAATTTTGTACTTGGTGCATAAATTGATAGGTTTGGTTGGAGAGTAT
Found at i:105928612 original size:25 final size:25
Alignment explanation
Indices: 105928536--105928612 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
105928526 AATTTTGTAC
105928536 TTGGTGCATAAATTGATAGGTTTGG
1 TTGGTGCATAAATTGATAGGTTTGG
* ** **
105928561 TTGGAG-AGT--ATTGA-ATTTTTTAC
1 TTGGTGCA-TAAATTGATA-GGTTTGG
105928584 TTGGTGCATAAATTGATAGGTTTGG
1 TTGGTGCATAAATTGATAGGTTTGG
105928609 TTGG
1 TTGG
105928613 AGAGTATGAA
Statistics
Matches: 36, Mismatches: 10, Indels: 12
0.62 0.17 0.21
Matches are distributed among these distances:
22 1 0.03
23 14 0.39
24 2 0.06
25 18 0.50
26 1 0.03
ACGTcount: A:0.23, C:0.04, G:0.30, T:0.43
Consensus pattern (25 bp):
TTGGTGCATAAATTGATAGGTTTGG
Found at i:105931696 original size:20 final size:21
Alignment explanation
Indices: 105931671--105931709 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
105931661 GTATACCATG
105931671 CAATAC-TTTACATTTCAATC
1 CAATACTTTTACATTTCAATC
*
105931691 CAATACTTTTTCATTTCAA
1 CAATACTTTTACATTTCAA
105931710 ACTTACTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (21 bp):
CAATACTTTTACATTTCAATC
Found at i:105931987 original size:19 final size:20
Alignment explanation
Indices: 105931942--105931988 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
105931932 TGACCCTTAA
*
105931942 TCAATATTTTACACTTTTTC
1 TCAATTTTTTACACTTTTTC
105931962 TCTAATTTTTTACA-TTTTAT-
1 TC-AATTTTTTACACTTTT-TC
105931982 TCAATTT
1 TCAATTT
105931989 AATCCCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 11 0.46
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.60
Consensus pattern (20 bp):
TCAATTTTTTACACTTTTTC
Found at i:105933993 original size:16 final size:17
Alignment explanation
Indices: 105933956--105933996 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
105933946 ATTAGCATGT
* *
105933956 AATTTAAACTTGTTTTA
1 AATTTAAAATTGTTTAA
105933973 AATTTAAAATT-TTTAA
1 AATTTAAAATTGTTTAA
105933989 AATTTAAA
1 AATTTAAA
105933997 TATAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
AATTTAAAATTGTTTAA
Found at i:105935510 original size:43 final size:42
Alignment explanation
Indices: 105935359--105935530 Score: 125
Period size: 43 Copynumber: 4.0 Consensus size: 42
105935349 CATAGGATTC
* * * * *
105935359 CGATATGTGATTTCATGTAAGACCAC-GTCAGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACC-CTATCTGGGAAG-TGGCAT
* * * *
105935402 CGAT-TTGAGATTTACATGTAAGACCATATCTGGAACATTGGCAT
1 CGATATT-TGA-TTACATGTAAGACCCTATCTGGGA-AGTGGCAT
* * * *
105935446 C-ATATATGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCAT
1 CGATATTTGATTACATGTAAGACCCTATCTGGGA-AGTGGCAT
* *
105935488 CGATATTTGATTACATGTAAGACCTTATCTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCCTATCTGGGAAG-TGGCAT
105935531 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 24, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
42 29 0.30
43 43 0.44
44 26 0.27
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
CGATATTTGATTACATGTAAGACCCTATCTGGGAAGTGGCAT
Found at i:105938414 original size:2 final size:2
Alignment explanation
Indices: 105938407--105938433 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
105938397 CATAGTTGGC
105938407 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
105938434 ATTTCCTTAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105939567 original size:40 final size:40
Alignment explanation
Indices: 105939512--105939755 Score: 364
Period size: 40 Copynumber: 6.1 Consensus size: 40
105939502 TCACAAGCAC
* * *
105939512 ATTAATAGAAAACTGTATAATTTATCCGGATGAAGTATAT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
*
105939552 ATTAATAGAAAACTGTATAATTTACCCGGTTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* *
105939592 ATTAATAGAAAACTGTATAATTTACTCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* * *
105939632 ATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
*
105939672 ATTAATAGAAAACTGTATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* * *
105939712 ATTAACAGAAAATTGTATAATTT-CCCGGATGAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
105939751 ATTAA
1 ATTAA
105939756 CAGATATACT
Statistics
Matches: 185, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 19 0.10
40 166 0.90
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (40 bp):
ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
Found at i:105939729 original size:120 final size:119
Alignment explanation
Indices: 105939512--105939759 Score: 415
Period size: 120 Copynumber: 2.1 Consensus size: 119
105939502 TCACAAGCAC
*
105939512 ATTAATAGAAAACTGTATAATTTATCCGGATGAAGTATATATTAATAGAAAACTGTATAATTTAC
1 ATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATATATTAATAGAAAACTGTATAATTTAC
* * * *
105939577 CCGGTTAAAGTATGTATTAATAGAAAACTGTATAATTTACTCGGGTAAAGTATGT
66 CCGGGTAAAGTATGTATTAACAGAAAACTGTATAATTT-CCCGGATAAAGTATGT
*
105939632 ATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATGTATTAATAGAAAACTGTATAATTTAC
1 ATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATATATTAATAGAAAACTGTATAATTTAC
* *
105939697 CCGGGTAAAGTATGTATTAACAGAAAATTGTATAATTTCCCGGATGAAGTATGT
66 CCGGGTAAAGTATGTATTAACAGAAAACTGTATAATTTCCCGGATAAAGTATGT
105939751 ATTAACAGA
1 ATTAACAGA
105939760 TATACTTAAG
Statistics
Matches: 120, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 22 0.18
120 98 0.82
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (119 bp):
ATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATATATTAATAGAAAACTGTATAATTTAC
CCGGGTAAAGTATGTATTAACAGAAAACTGTATAATTTCCCGGATAAAGTATGT
Found at i:105939786 original size:18 final size:18
Alignment explanation
Indices: 105939763--105939797 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
105939753 TAACAGATAT
*
105939763 ACTTAAGATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
105939781 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
105939798 ACTACCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:105940160 original size:14 final size:14
Alignment explanation
Indices: 105940137--105940175 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
105940127 TCTAGAAAAG
*
105940137 TAAATCATTTTCCA
1 TAAATTATTTTCCA
105940151 TAAATTATTTTCCA
1 TAAATTATTTTCCA
* *
105940165 GAAAATATTTT
1 TAAATTATTTT
105940176 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (14 bp):
TAAATTATTTTCCA
Found at i:105940324 original size:17 final size:17
Alignment explanation
Indices: 105940302--105940334 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
105940292 ATAATGAATG
105940302 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
105940319 TTATTAAATTATATTT
1 TTATTAAATTATATTT
105940335 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:105940602 original size:16 final size:16
Alignment explanation
Indices: 105940581--105940651 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
105940571 TAAATTACTT
*
105940581 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
105940597 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
105940613 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
* *
105940629 ATTACAACCCTATTCC
1 ATTACAGCTCTATTCC
105940645 ATTACAG
1 ATTACAG
105940652 TGAACCAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:105941681 original size:23 final size:23
Alignment explanation
Indices: 105941651--105941694 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
105941641 AATGCCTAAG
105941651 AGCTTTGTTATTAGTTTGGTAAA
1 AGCTTTGTTATTAGTTTGGTAAA
105941674 AGCTTTGTTATTAGTTTGGTA
1 AGCTTTGTTATTAGTTTGGTA
105941695 TGTTACTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.50
Consensus pattern (23 bp):
AGCTTTGTTATTAGTTTGGTAAA
Found at i:105947487 original size:18 final size:18
Alignment explanation
Indices: 105947464--105947501 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
105947454 AAAAACAAAG
105947464 TAAATTCTTCTAACTTGA
1 TAAATTCTTCTAACTTGA
105947482 TAAATTCTTCTAACTTGA
1 TAAATTCTTCTAACTTGA
105947500 TA
1 TA
105947502 TGAACTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (18 bp):
TAAATTCTTCTAACTTGA
Found at i:105956397 original size:35 final size:35
Alignment explanation
Indices: 105956352--105956558 Score: 189
Period size: 35 Copynumber: 5.9 Consensus size: 35
105956342 AGGTAAGTAT
* *
105956352 ATGTAAGGTTATATTGAACTTGTATATTCGGCTGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* **
105956387 ATGTGAGGTTATATTGAACTTGTGTATTCGATTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * *
105956422 ATGTGAGTTTATATTGAATTTGTATATCCGGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * * *
105956457 ATGTGAGATTATATTGTATTTGTATATTTGGCCAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * * * * *
105956492 ATGAGATGTTTTATTGAACTTGAACATTAGGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * *
105956527 ATGTGATGATATATTGAACATATATATTCGGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGC
105956559 CATATGAAAT
Statistics
Matches: 136, Mismatches: 36, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 136 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
Found at i:105958093 original size:67 final size:66
Alignment explanation
Indices: 105957847--105958106 Score: 243
Period size: 68 Copynumber: 3.8 Consensus size: 66
105957837 GGGTATTACA
* * * * * * *
105957847 TCATATGCTGTCATAGCCCAATTATGGTCTTACACGATATAATCCCATGTTTACTATCATGGCAG
1 TCATATGCTG-CATAACCC-ACTATGGTCTTACGCAATATAATCTCATGTTTACTGTCCTGGCAG
105957912 ACT
64 ACT
* * * * * *
105957915 TCATATGCTGCCATAGCCCAATCATGATCTTACGCAATATAGT-TCCATGTTTATTGGCCTGGCA
1 TCATATGCTG-CATAACCCACT-ATGGTCTTACGCAATATAATCT-CATGTTTACTGTCCTGGCA
105957979 GACT
63 GACT
* ** * * *
105957983 TCTTATAATGGCATAACCCAACTATAGTCTTATGCAATATAATCTCATGTTTACTGTCCTGGTAG
1 TCATATGCT-GCATAACCC-ACTATGGTCTTACGCAATATAATCTCATGTTTACTGTCCTGGCAG
105958048 ACT
64 ACT
* * *
105958051 TCATATGCTGCATAATCTAGCTATGGTCTTACGCAATGTAATCTCATGTTTACTGT
1 TCATATGCTGCATAACCCA-CTATGGTCTTACGCAATATAATCTCATGTTTACTGT
105958107 TTTGACAAAC
Statistics
Matches: 155, Mismatches: 31, Indels: 13
0.78 0.16 0.07
Matches are distributed among these distances:
66 1 0.01
67 42 0.27
68 108 0.70
69 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (66 bp):
TCATATGCTGCATAACCCACTATGGTCTTACGCAATATAATCTCATGTTTACTGTCCTGGCAGAC
T
Found at i:105958148 original size:67 final size:66
Alignment explanation
Indices: 105957874--105958149 Score: 178
Period size: 68 Copynumber: 4.1 Consensus size: 66
105957864 CCAATTATGG
* * * * * * * * *
105957874 TCTTACACGATATAATCCCATGTTTACTATCATGGCAGACTTCATATGCTGCCATAGCCCA-ATC
1 TCTTACGCAATATAATCTCATGTTTACTGTCCTGACAAACTTCATATGCT-CCATAACCCAGCT-
105957938 ATGA
64 A-GA
* * * * * * ** * *
105957942 TCTTACGCAATATAGT-TCCATGTTTATTGGCCTGGCAGACTTCTTATAATGGCATAACCCAACT
1 TCTTACGCAATATAATCT-CATGTTTACTGTCCTGACAAACTTCATATGCT-CCATAACCCAGCT
*
105958006 ATA
64 AGA
* ** * * * *
105958009 GTCTTATGCAATATAATCTCATGTTTACTGTCCTGGTAGACTTCATATGCTGCATAATCTAGCTA
1 -TCTTACGCAATATAATCTCATGTTTACTGTCCTGACAAACTTCATATGCTCCATAACCCAGCTA
*
105958074 TGG
65 -GA
* ** *
105958077 TCTTACGCAATGTAATCTCATGTTTACTGTTTTGACAAACTTTATATGCTACCATAACCCAGCTA
1 TCTTACGCAATATAATCTCATGTTTACTGTCCTGACAAACTTCATATGCT-CCATAACCCAGCTA
105958142 GA
65 GA
105958144 TCTTAC
1 TCTTAC
105958150 ACATTAAACC
Statistics
Matches: 162, Mismatches: 40, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
67 61 0.38
68 99 0.61
69 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (66 bp):
TCTTACGCAATATAATCTCATGTTTACTGTCCTGACAAACTTCATATGCTCCATAACCCAGCTAG
A
Found at i:105965110 original size:48 final size:48
Alignment explanation
Indices: 105964996--105965110 Score: 167
Period size: 48 Copynumber: 2.4 Consensus size: 48
105964986 TATCGGCAAT
* **
105964996 TATGTGGTGGTTTATCCACGATGTGCTAAATGACCGTTCATTGGTATC
1 TATGTGGTGGCTTATCCACGATGTGCTAAATGACCGTTCATCAGTATC
* * *
105965044 TATGTGCTGGCTCATCCACGATGTGCTATATGACCGTTCATCAGTATC
1 TATGTGGTGGCTTATCCACGATGTGCTAAATGACCGTTCATCAGTATC
*
105965092 TATGTGGTGGCTTGTCCAC
1 TATGTGGTGGCTTATCCAC
105965111 AAACTGGTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (48 bp):
TATGTGGTGGCTTATCCACGATGTGCTAAATGACCGTTCATCAGTATC
Found at i:105969442 original size:16 final size:16
Alignment explanation
Indices: 105969423--105969473 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 16
105969413 TAAACTTTTT
*
105969423 TTTTGTAATTATATAA
1 TTTTATAATTATATAA
*
105969439 TTTTTTAATT-TATAA
1 TTTTATAATTATATAA
* *
105969454 ATTTATATTTATAT-A
1 TTTTATAATTATATAA
105969469 TTTTA
1 TTTTA
105969474 CTTATTTCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTTATAATTATATAA
Found at i:105978776 original size:45 final size:46
Alignment explanation
Indices: 105978725--105979029 Score: 200
Period size: 46 Copynumber: 6.7 Consensus size: 46
105978715 TCTCATCCAC
* * *
105978725 GGTCTTATTAATCTT-TGACATGATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTCATCTTCTGACATGATGCCATAGTATCTTTCAACCAT
* * * * * *
105978770 GGTCTTACTCATTTTCTGTCATGCTTCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATCTTCTGACATGATGCCATAGTATCTTTCAACCAT
* * *
105978816 GGTCTTATTCAT-TTCCTGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATCTT-CTGACATGATGCCATAGTATCTTTCAACCAT
* * * *
105978862 GGTCTTATTCAT-TTCCTGTCATGTTACCATGGTATCTTTCAACCAT
1 GGTCTTATTCATCTT-CTGACATGATGCCATAGTATCTTTCAACCAT
* ** * *
105978908 GGTCTTA--CA-CATT-TGAATCTTGATGCCATAGCGTCTTTCAGCTAT
1 GGTCTTATTCATC-TTCTG-A-CATGATGCCATAGTATCTTTCAACCAT
* ** * *
105978953 GGTCTTA--C-TCGTCTGAATCATGATGCCATAGCGTCTTTCAGCTAT
1 GGTCTTATTCATCTTCTG-A-CATGATGCCATAGTATCTTTCAACCAT
* * **
105978998 GATCTTACTCAT-TTCTGGTATGATGCCATAGT
1 GGTCTTATTCATCTTCTGACATGATGCCATAGT
105979030 CCAACTATGG
Statistics
Matches: 220, Mismatches: 29, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
43 2 0.01
44 3 0.01
45 93 0.42
46 116 0.53
47 5 0.02
48 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (46 bp):
GGTCTTATTCATCTTCTGACATGATGCCATAGTATCTTTCAACCAT
Found at i:105978810 original size:46 final size:46
Alignment explanation
Indices: 105978758--105978921 Score: 258
Period size: 46 Copynumber: 3.6 Consensus size: 46
105978748 TGCCATAGTG
* *
105978758 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGCTT-CCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATG-TTACCATGGTA
* *
105978804 TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTACCATGGTA
*
105978850 TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTACCATGGTA
*
105978896 TCTTTCAACCATGGTCTTACACATTT
1 TCTTTCAACCATGGTCTTACTCATTT
105978922 GAATCTTGAT
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.02
46 109 0.98
ACGTcount: A:0.19, C:0.24, G:0.13, T:0.44
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTACCATGGTA
Found at i:105978921 original size:92 final size:92
Alignment explanation
Indices: 105978743--105978962 Score: 273
Period size: 92 Copynumber: 2.4 Consensus size: 92
105978733 TAATCTTTGA
* * *
105978743 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGCTTCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGCTTCCATGGTATCTT
**
105978808 TCAACCATGGTCTTATTCATTTCCTGT
66 TCAACCATGGTCTTACACATTTCCTGT
* * *
105978835 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATG-TTACCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGCTT-CCATGGTATCT
***
105978899 TTCAACCATGGTCTTACACATTT-GAAT
65 TTCAACCATGGTCTTACACATTTCCTGT
* ** * *
105978926 CTTGATGCCATAGCGTCTTTCAGCTATGGTCTTACTC
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTC
105978963 GTCTGAATCA
Statistics
Matches: 108, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
91 32 0.30
92 76 0.70
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (92 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGCTTCCATGGTATCTT
TCAACCATGGTCTTACACATTTCCTGT
Found at i:105984026 original size:56 final size:56
Alignment explanation
Indices: 105983966--105984101 Score: 236
Period size: 56 Copynumber: 2.4 Consensus size: 56
105983956 TCCTAGGCAG
105983966 GGTCTTACTCGCACACATATATCGGAGACACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGGAGACACATATCGATGCCAACGTATAAAACGT
** *
105984022 GGTCTTACTTACACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGGAGACACATATCGATGCCAACGTATAAAACGT
*
105984078 GGTCTTACTCGCACATATATATCG
1 GGTCTTACTCGCACACATATATCG
105984102 ATGCCATGGT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAGACACATATCGATGCCAACGTATAAAACGT
Found at i:105987871 original size:49 final size:49
Alignment explanation
Indices: 105987804--105988041 Score: 305
Period size: 49 Copynumber: 4.8 Consensus size: 49
105987794 TAGCCAAAGC
* * * * *
105987804 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
105987853 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
105987902 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * *
105987952 CATCTGATACACATAGTAGCCTGCACTTAGTACTACACACATGATCATAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* ** *
105988003 TTTAGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
105988042 TGCGACCTCA
Statistics
Matches: 166, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 88 0.53
50 42 0.25
51 36 0.22
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:105988049 original size:101 final size:99
Alignment explanation
Indices: 105987809--105988049 Score: 331
Period size: 101 Copynumber: 2.4 Consensus size: 99
105987799 AAAGCTATCT
* ** * *
105987809 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACATAGTAGC
* *
105987873 CTGCACTTAGTACTACACACGTGACCAATTATCC
66 CTGCACTTAGTACTACACACATGACCAATTATAC
* * * *
105987907 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACATAGTAGC
* * *
105987972 CTGCACTTAGTACTACACACATGATCATAATTTTAG
66 CTGCACTTAGTACTACACACATGA-C-CAATTATAC
105988008 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
105988050 CACAATAGAT
Statistics
Matches: 123, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 37 0.30
99 41 0.33
100 1 0.01
101 44 0.36
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACATAGTAGC
CTGCACTTAGTACTACACACATGACCAATTATAC
Found at i:105990105 original size:39 final size:39
Alignment explanation
Indices: 105990046--105990185 Score: 235
Period size: 39 Copynumber: 3.6 Consensus size: 39
105990036 ATCGTGATCT
* * *
105990046 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
105990085 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
105990124 GAAGCCCGAAGGCTAATTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
105990163 GAAGCCCGAAGGCTAACTAAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
105990186 TCATCAGAGC
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:105992403 original size:26 final size:27
Alignment explanation
Indices: 105992374--105992424 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
105992364 TGACCTAAAA
*
105992374 TAGTGACTA-CAGCTCGCCAAGCCCAT
1 TAGTGAATACCAGCTCGCCAAGCCCAT
* *
105992400 TAGTGAATACCAGCTTGCCTAGCCC
1 TAGTGAATACCAGCTCGCCAAGCCC
105992425 TCTGACGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (27 bp):
TAGTGAATACCAGCTCGCCAAGCCCAT
Found at i:106017431 original size:13 final size:14
Alignment explanation
Indices: 106017413--106017441 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
106017403 CCATAAAATC
106017413 AATTTATTTTT-AA
1 AATTTATTTTTCAA
106017426 AATTTATTTTTCAA
1 AATTTATTTTTCAA
106017440 AA
1 AA
106017442 CAGTTCTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTATTTTTCAA
Found at i:106018592 original size:15 final size:15
Alignment explanation
Indices: 106018552--106018599 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
106018542 AATTGTAAAT
106018552 AACAATTAATTAATTAA
1 AACAATT-ATTAA-TAA
* *
106018569 AA-AAGTATTACTAA
1 AACAATTATTAATAA
106018583 AACAATTATTAATAA
1 AACAATTATTAATAA
106018598 AA
1 AA
106018600 TATTAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 5 0.19
15 16 0.62
16 3 0.12
17 2 0.08
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (15 bp):
AACAATTATTAATAA
Found at i:106018611 original size:26 final size:27
Alignment explanation
Indices: 106018559--106018612 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
106018549 AATAACAATT
*
106018559 AATTAATTAAAAAAGTATTACTAAAAC
1 AATTAATTAAAAAAGTATTAATAAAAC
*
106018586 AATT-ATTAATAAAA-TATTAATTAAAC
1 AATTAATTAA-AAAAGTATTAATAAAAC
106018612 A
1 A
106018613 CAACTACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (27 bp):
AATTAATTAAAAAAGTATTAATAAAAC
Found at i:106024469 original size:19 final size:19
Alignment explanation
Indices: 106024426--106024474 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
106024416 AAATACATTT
* *
106024426 AAAAACATAAAAACAAATAT
1 AAAAACA-AGAAACAAATAA
*
106024446 TAAAACAAGAAACAAATAA
1 AAAAACAAGAAACAAATAA
*
106024465 AAAAATAAGA
1 AAAAACAAGA
106024475 CTAAAACAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (19 bp):
AAAAACAAGAAACAAATAA
Found at i:106024794 original size:25 final size:25
Alignment explanation
Indices: 106024766--106024813 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
106024756 CAGCTCTTAT
106024766 GAACATCCCGA-TATATGGCTCTTCG
1 GAACATCCCGATTA-ATGGCTCTTCG
* *
106024791 GAACTTCTCGATTAATGGCTCTT
1 GAACATCCCGATTAATGGCTCTT
106024814 TCATGAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (25 bp):
GAACATCCCGATTAATGGCTCTTCG
Found at i:106024970 original size:25 final size:23
Alignment explanation
Indices: 106024915--106024976 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
106024905 TATTAGCTCA
*
106024915 TATGAGCTTCCCGTTAATGGCTT
1 TATGAGCTTCCCCTTAATGGCTT
* *
106024938 TCTGGAGCTTCCCCTTTATGTGCTT
1 TAT-GAGCTTCCCCTTAATG-GCTT
106024963 GTATGAGCATTCCC
1 -TATGAGC-TTCCC
106024977 GAATATGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 2 0.06
24 14 0.45
25 8 0.26
26 7 0.23
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.39
Consensus pattern (23 bp):
TATGAGCTTCCCCTTAATGGCTT
Found at i:106027487 original size:22 final size:20
Alignment explanation
Indices: 106027437--106027489 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
106027427 TGTGGAATGT
*
106027437 ATTATA-TTAATTAAAAGTA
1 ATTATATTTAATTAAAACTA
*
106027456 GTTAT-TTTAATATAATAACTA
1 ATTATATTTAAT-TAA-AACTA
106027477 ATTATATTTAATT
1 ATTATATTTAATT
106027490 TACGTAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 9 0.33
20 3 0.11
21 9 0.33
22 6 0.22
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (20 bp):
ATTATATTTAATTAAAACTA
Found at i:106028619 original size:29 final size:29
Alignment explanation
Indices: 106028586--106028644 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
106028576 AACTAAAAAA
106028586 CGTTGTTGAAAGGTTAAAGTTTTTTTTTT
1 CGTTGTTGAAAGGTTAAAGTTTTTTTTTT
106028615 CGTTGTTGAAAGGTTAAAGTTTTTTTTTT
1 CGTTGTTGAAAGGTTAAAGTTTTTTTTTT
106028644 C
1 C
106028645 TTTTTTGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.54
Consensus pattern (29 bp):
CGTTGTTGAAAGGTTAAAGTTTTTTTTTT
Found at i:106029840 original size:5 final size:5
Alignment explanation
Indices: 106029830--106029856 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
106029820 TTTGTATGTA
106029830 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
106029857 AGTAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:106033763 original size:43 final size:41
Alignment explanation
Indices: 106033637--106033750 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 41
106033627 TAAAGACAGA
* * *
106033637 ATTTAGCCTGGACTGGTAATTCTGATCTTATGTTGAAATCAGG
1 ATTTAGCCTGGACTGGTAATCCTGATC-TATGTTGATAT-GGG
* * * *
106033680 ATTTAACTTGGACTGGTAATCTTGATTATATGTTGGATATGGG
1 ATTTAGCCTGGACTGGTAATCCTGA-TCTATGTT-GATATGGG
106033723 ATTTAGCCTGGACTGGTAATCCTGATCT
1 ATTTAGCCTGGACTGGTAATCCTGATCT
106033751 CACTGATTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
42 2 0.03
43 51 0.88
44 5 0.09
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.39
Consensus pattern (41 bp):
ATTTAGCCTGGACTGGTAATCCTGATCTATGTTGATATGGG
Found at i:106042675 original size:5 final size:5
Alignment explanation
Indices: 106042665--106042762 Score: 85
Period size: 5 Copynumber: 18.8 Consensus size: 5
106042655 AATATTTAAC
* * *
106042665 TAAAA TAAAA TAAAA TAAAA TAATAA -ATAA TAAAA TAAAA GAAAA -ATAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA TAAAA
106042714 T-AAA TAAAAA TAAAAA TAAAAA TAAAA TAAAAA TAAAAA TAAAAA TAAA
1 TAAAA T-AAAA T-AAAA T-AAAA TAAAA T-AAAA T-AAAA T-AAAA TAAA
106042763 GATTGGGTTG
Statistics
Matches: 82, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
4 8 0.10
5 39 0.48
6 35 0.43
ACGTcount: A:0.80, C:0.00, G:0.01, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:106042724 original size:6 final size:6
Alignment explanation
Indices: 106042666--106042762 Score: 114
Period size: 6 Copynumber: 16.3 Consensus size: 6
106042656 ATATTTAACT
*
106042666 AAAAT- AAAAT- AAAAT- AAAATA ATAAATA ATAAA-A TAAAAGA AAAATA
1 AAAATA AAAATA AAAATA AAAATA A-AAATA A-AAATA -AAAATA AAAATA
106042713 ATAAATA AAAATA AAAATA AAAAT- AAAATA AAAATA AAAATA AAAATA
1 A-AAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
106042761 AA
1 AA
106042763 GATTGGGTTG
Statistics
Matches: 85, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
5 20 0.24
6 47 0.55
7 18 0.21
ACGTcount: A:0.80, C:0.00, G:0.01, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:106042758 original size:23 final size:21
Alignment explanation
Indices: 106042666--106042762 Score: 108
Period size: 23 Copynumber: 4.4 Consensus size: 21
106042656 ATATTTAACT
106042666 AAAATAAAATAAAATAAAATA
1 AAAATAAAATAAAATAAAATA
*
106042687 ATAAAT--AATAAAATAAAAGA
1 A-AAATAAAATAAAATAAAATA
106042707 AAAATAATAAATAAAAATAAAAATA
1 AAAAT-A-AAAT-AAAAT-AAAATA
106042732 AAAATAAAATAAAAATAAAAATA
1 AAAATAAAAT-AAAAT-AAAATA
106042755 AAAATAAA
1 AAAATAAA
106042763 GATTGGGTTG
Statistics
Matches: 67, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
19 4 0.06
20 14 0.21
21 1 0.01
22 4 0.06
23 28 0.42
24 6 0.09
25 10 0.15
ACGTcount: A:0.80, C:0.00, G:0.01, T:0.19
Consensus pattern (21 bp):
AAAATAAAATAAAATAAAATA
Found at i:106054263 original size:23 final size:23
Alignment explanation
Indices: 106054213--106054264 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
106054203 GTTAGGTGTC
* *
106054213 AGTATAAAGACATGTCAGATATG
1 AGTATGAAGACATGTCAGAGATG
* * *
106054236 GGTATGAAGGCATGTCTGAGATG
1 AGTATGAAGACATGTCAGAGATG
106054259 AGTATG
1 AGTATG
106054265 TTCAATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27
Consensus pattern (23 bp):
AGTATGAAGACATGTCAGAGATG
Found at i:106058256 original size:3 final size:3
Alignment explanation
Indices: 106058248--106058290 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
106058238 AAATATAAAT
106058248 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
106058291 AAAGCATCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:106061160 original size:78 final size:78
Alignment explanation
Indices: 106061011--106061162 Score: 243
Period size: 78 Copynumber: 1.9 Consensus size: 78
106061001 GAGTCACATC
* *
106061011 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
106061076 AATGAATCATGTA
66 AATGAATCATGTA
* *
106061089 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCGCTTTAAGTT-CCTA
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACC-A
*
106061153 TAGTGAATCA
65 TAATGAATCA
106061163 GGAATAAATC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
77 2 0.03
78 66 0.97
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATGTA
Found at i:106061175 original size:40 final size:40
Alignment explanation
Indices: 106061127--106061264 Score: 170
Period size: 40 Copynumber: 3.5 Consensus size: 40
106061117 CTTTTCAGGT
*
106061127 CAAATCCTATCCGCTTTAAGTTCCTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTCCTATAGTGAATCAGGAA
* * *
106061167 TAAATCCTATTCACTTTAAATTACC-ATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTT-CCTATAGTGAATCAGGAA
* * * ** *
106061207 CAAATCCTATGCACTTTGAGGTATTATAGTGAATCCGGAA
1 CAAATCCTATCCACTTTAAGTTCCTATAGTGAATCAGGAA
106061247 CAAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
106061265 TATTCTCGAG
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 80 0.98
41 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAGTTCCTATAGTGAATCAGGAA
Found at i:106065918 original size:18 final size:18
Alignment explanation
Indices: 106065895--106065930 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
106065885 CTTGTACTTT
106065895 TTTATTTTTGAAATTTTA
1 TTTATTTTTGAAATTTTA
106065913 TTTATTTTTGAAATTTTA
1 TTTATTTTTGAAATTTTA
106065931 GTTTTGACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTATTTTTGAAATTTTA
Found at i:106070291 original size:17 final size:18
Alignment explanation
Indices: 106070278--106070402 Score: 100
Period size: 19 Copynumber: 6.9 Consensus size: 18
106070268 TAATCTTCAA
106070278 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
106070297 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
106070314 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
106070333 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
106070349 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
106070368 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
106070386 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
106070403 AGATATGATT
Statistics
Matches: 91, Mismatches: 5, Indels: 20
0.78 0.04 0.17
Matches are distributed among these distances:
15 2 0.02
16 3 0.03
17 24 0.26
18 28 0.31
19 30 0.33
20 4 0.04
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:106070347 original size:35 final size:35
Alignment explanation
Indices: 106070285--106070402 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
106070275 CAATGATATG
*
106070285 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
106070321 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
106070356 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
106070393 CAATCTTAGA
1 CAATCTTAGA
106070403 AGATATGATT
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 51 0.65
36 15 0.19
37 13 0.16
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:106073383 original size:21 final size:21
Alignment explanation
Indices: 106073357--106073396 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
106073347 GGCTTGACCA
106073357 CATTACTGGCAGCACTGTCTG
1 CATTACTGGCAGCACTGTCTG
* *
106073378 CATTACTGGTAGCATTGTC
1 CATTACTGGCAGCACTGTC
106073397 CACAAATTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.33
Consensus pattern (21 bp):
CATTACTGGCAGCACTGTCTG
Found at i:106078400 original size:36 final size:36
Alignment explanation
Indices: 106078358--106078432 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
106078348 AACACTTTTT
* *
106078358 CCAATTTTTTTTGCCCTTTTTTATCATAAAAAGAAG
1 CCAATTTTTTTTCCCCATTTTTATCATAAAAAGAAG
106078394 CCAATTTTTTTTCCCCATTTTTATCATAAAAAGAAG
1 CCAATTTTTTTTCCCCATTTTTATCATAAAAAGAAG
106078430 CCA
1 CCA
106078433 TGAAAAAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (36 bp):
CCAATTTTTTTTCCCCATTTTTATCATAAAAAGAAG
Found at i:106082073 original size:28 final size:28
Alignment explanation
Indices: 106082041--106082099 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
106082031 TGCTTTGCAA
*
106082041 AACATTTGTAATGGGGAATCCTTCTGCC
1 AACATTTGTAATGGGGAATCATTCTGCC
106082069 AACATTTGTAATGGGGAATCATTCTGCC
1 AACATTTGTAATGGGGAATCATTCTGCC
106082097 AAC
1 AAC
106082100 TTATGATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (28 bp):
AACATTTGTAATGGGGAATCATTCTGCC
Found at i:106096573 original size:24 final size:24
Alignment explanation
Indices: 106096496--106096596 Score: 123
Period size: 24 Copynumber: 4.2 Consensus size: 24
106096486 TACCGACATA
* *
106096496 TCAGCTCATAAGAGCTTACTGTTT
1 TCAGCTTATAAAAGCTTACTGTTT
* * ***
106096520 TTAGCTGATTGGAGCTTACTG-TT
1 TCAGCTTATAAAAGCTTACTGTTT
106096543 TCAGCTTATAAAAGCTTACTGTTT
1 TCAGCTTATAAAAGCTTACTGTTT
*
106096567 TCAGCTTATAAAAGCTTATTGTTT
1 TCAGCTTATAAAAGCTTACTGTTT
106096591 TCAGCT
1 TCAGCT
106096597 CGTCAAAACT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
23 18 0.27
24 48 0.73
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (24 bp):
TCAGCTTATAAAAGCTTACTGTTT
Found at i:106096583 original size:47 final size:48
Alignment explanation
Indices: 106096496--106096597 Score: 125
Period size: 47 Copynumber: 2.1 Consensus size: 48
106096486 TACCGACATA
* * ***
106096496 TCAGCTCATAAGAGCTTACTGTTTTTAGCTGATTGGAGCTTACTG-TT
1 TCAGCTCATAAAAGCTTACTGTTTTCAGCTGATAAAAGCTTACTGTTT
* * *
106096543 TCAGCTTATAAAAGCTTACTGTTTTCAGCTTATAAAAGCTTATTGTTT
1 TCAGCTCATAAAAGCTTACTGTTTTCAGCTGATAAAAGCTTACTGTTT
106096591 TCAGCTC
1 TCAGCTC
106096598 GTCAAAACTT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 37 0.82
48 8 0.18
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.41
Consensus pattern (48 bp):
TCAGCTCATAAAAGCTTACTGTTTTCAGCTGATAAAAGCTTACTGTTT
Found at i:106107136 original size:11 final size:11
Alignment explanation
Indices: 106107120--106107169 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
106107110 TAAAATGGTT
106107120 AAATATTAAAA
1 AAATATTAAAA
*
106107131 AAATA-TAACAT
1 AAATATTAA-AA
*
106107142 AAATATTTAAA
1 AAATATTAAAA
106107153 AAA-ATTAAAA
1 AAATATTAAAA
106107163 ATAATAT
1 A-AATAT
106107170 GGGCGAGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
10 10 0.32
11 17 0.55
12 4 0.13
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATATTAAAA
Found at i:106107169 original size:22 final size:23
Alignment explanation
Indices: 106107119--106107162 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
106107109 ATAAAATGGT
*
106107119 TAAATA-TTAAAAAAATATAACA
1 TAAATATTTAAAAAAATATAAAA
106107141 TAAATATTTAAAAAAAT-TAAAA
1 TAAATATTTAAAAAAATATAAAA
106107163 ATAATATGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAATATTTAAAAAAATATAAAA
Found at i:106117689 original size:13 final size:13
Alignment explanation
Indices: 106117671--106117736 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
106117661 AGTTTGACAA
*
106117671 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
106117684 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
* *
106117697 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
106117710 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
106117723 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
106117736 T
1 T
106117737 TTAATTTAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:106122955 original size:21 final size:20
Alignment explanation
Indices: 106122909--106122946 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
106122899 ATTATATCTC
106122909 CAAAAA-CATCAATTTCATG
1 CAAAAATCATCAATTTCATG
106122928 CAAAAATCATCAAATTTCA
1 CAAAAATCATC-AATTTCA
106122947 CTCACAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (20 bp):
CAAAAATCATCAATTTCATG
Found at i:106126935 original size:5 final size:5
Alignment explanation
Indices: 106126925--106126956 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
106126915 CTTTCTTGCC
106126925 AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
106126957 AACAAGAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:106126997 original size:28 final size:28
Alignment explanation
Indices: 106126965--106127025 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
106126955 AAAACAAGAA
*
106126965 TCAAATTAGTTCAA-CTGCAAGTTCTTAG
1 TCAAATCAGTTCAACCT-CAAGTTCTTAG
*
106126993 TCAAATCAGTTCAACCTCAAGTTCTTTG
1 TCAAATCAGTTCAACCTCAAGTTCTTAG
106127021 TCAAA
1 TCAAA
106127026 AGAAAAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (28 bp):
TCAAATCAGTTCAACCTCAAGTTCTTAG
Found at i:106127063 original size:132 final size:131
Alignment explanation
Indices: 106126807--106127053 Score: 316
Period size: 132 Copynumber: 1.9 Consensus size: 131
106126797 TATCTCTTGC
* * *
106126807 AAAAAAAAAAAAAAAAAAAACGAATAATCAAATCAGTTCAACTCCAAGTTCTTAGTTAATGAGTT
1 AAAAAAAAAAAAAAAAAAAACGAAGAATCAAATCAGTTCAACTCCAAGTTCTTAGTAAATCAGTT
* * * * * * *
106126872 CAACCTCAAGTTCTTTGTCTAAAGAAAAATATATATTCTTTATCTTTCTTGCCAATAAAATAAAA
66 CAACCTCAAGTTCTTTGTCAAAAGAAAAATATATATTATATATATATCATGACAATAAAATAAAA
106126937 T
131 T
* * * *
106126938 AAAATAAAATAAAATAAAAAAC-AAGAATCAAATTAGTTCAACTGCAAGTTCTTAGTCAAATCAG
1 AAAA-AAAAAAAAAAAAAAAACGAAGAATCAAATCAGTTCAACTCCAAGTTCTTAGT-AAATCAG
106127002 TTCAACCTCAAGTTCTTTGTCAAAAGAAAAGAATATATATATATATATATAT
64 TTCAACCTCAAGTTCTTTGTCAAAAG-AAA-AATATATAT-TATATATATAT
106127054 ATACATAAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
131 35 0.35
132 45 0.45
133 3 0.03
134 9 0.09
135 7 0.07
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (131 bp):
AAAAAAAAAAAAAAAAAAAACGAAGAATCAAATCAGTTCAACTCCAAGTTCTTAGTAAATCAGTT
CAACCTCAAGTTCTTTGTCAAAAGAAAAATATATATTATATATATATCATGACAATAAAATAAAA
T
Found at i:106128029 original size:28 final size:28
Alignment explanation
Indices: 106127940--106128029 Score: 69
Period size: 33 Copynumber: 3.1 Consensus size: 28
106127930 AATCAAGATG
106127940 TAGTTAAAAGTAATTATGTAATAAA-TT
1 TAGTTAAAAGTAATTATGTAATAAATTT
* **
106127967 TA-TTAAAATTTAA-TATAAAAATGAAATTTGTTT
1 TAGTTAAAA-GTAATTAT-GTAAT-AAA----TTT
106128000 TAGTTAAAAGTAATTATGTAATAAATTT
1 TAGTTAAAAGTAATTATGTAATAAATTT
106128028 TA
1 TA
106128030 TTTTATATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 19
0.65 0.08 0.26
Matches are distributed among these distances:
26 9 0.19
27 8 0.17
28 8 0.17
32 3 0.06
33 10 0.21
34 9 0.19
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (28 bp):
TAGTTAAAAGTAATTATGTAATAAATTT
Found at i:106129096 original size:29 final size:28
Alignment explanation
Indices: 106129034--106129097 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
106129024 CCGTATATAA
*
106129034 AAAATTAATAAATAAATTATGAGGTGATG
1 AAAATTAATAAATAAATTATAAGGTGA-G
106129063 AAAATTAATAAA-AAATTGATTAAGGTG-G
1 AAAATTAATAAATAAATT-A-TAAGGTGAG
106129091 ACAAATT
1 A-AAATT
106129098 TTATTACGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
28 7 0.23
29 18 0.58
30 6 0.19
ACGTcount: A:0.53, C:0.02, G:0.16, T:0.30
Consensus pattern (28 bp):
AAAATTAATAAATAAATTATAAGGTGAG
Found at i:106131476 original size:26 final size:26
Alignment explanation
Indices: 106131440--106131575 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
106131430 TGATACAAAT
106131440 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
106131466 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
106131492 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
106131518 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
106131544 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
106131570 TGATAA
1 TGATAA
106131576 GAATATCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:106133609 original size:137 final size:136
Alignment explanation
Indices: 106133364--106133649 Score: 491
Period size: 137 Copynumber: 2.1 Consensus size: 136
106133354 GAGTAGTCTC
*
106133364 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
106133429 GTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
66 GTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
106133494 CTATTA
131 CTATTA
106133500 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
106133565 TGTTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTGATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
106133630 ACTGTTA
130 ACTATTA
**
106133637 CCTGAATGGGCTT
1 CCCAAATGGGCTT
106133650 AGGCCAATAG
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 20 0.14
137 121 0.86
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTATTA
Found at i:106136672 original size:14 final size:13
Alignment explanation
Indices: 106136648--106136699 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
106136638 ATATCATTTA
*
106136648 TATTATTATATCT
1 TATTATTATATAT
106136661 TATTATTTATATAT
1 TATTA-TTATATAT
* *
106136675 TA-TAATATCATAG
1 TATTATTAT-ATAT
106136688 TATTATTATATA
1 TATTATTATATA
106136700 CTTTTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
12 3 0.09
13 15 0.47
14 14 0.44
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (13 bp):
TATTATTATATAT
Found at i:106136697 original size:24 final size:25
Alignment explanation
Indices: 106136645--106136698 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
106136635 GTAATATCAT
* * *
106136645 TTATATTATTATATCTTATTATTTA
1 TTATATTATAATATCATAGTATTTA
106136670 -TATATTATAATATCATAGTA-TTA
1 TTATATTATAATATCATAGTATTTA
106136693 TTATAT
1 TTATAT
106136699 ACTTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
TTATATTATAATATCATAGTATTTA
Found at i:106144669 original size:35 final size:35
Alignment explanation
Indices: 106144623--106144693 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
106144613 TAGTGGCTAA
106144623 AAGAAGGTGATAGAAACACAAGGTTTTTTCATGTT
1 AAGAAGGTGATAGAAACACAAGGTTTTTTCATGTT
106144658 AAGAAGGTGATAGAAACACAAGGTTTTTTCATGTT
1 AAGAAGGTGATAGAAACACAAGGTTTTTTCATGTT
106144693 A
1 A
106144694 GAGCAACTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (35 bp):
AAGAAGGTGATAGAAACACAAGGTTTTTTCATGTT
Found at i:106152506 original size:28 final size:28
Alignment explanation
Indices: 106152475--106152530 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
106152465 TACAGATCCC
*
106152475 TAAAAAAACAGTCACTACATGCATATTA
1 TAAAAAAACACTCACTACATGCATATTA
* *
106152503 TAAAAAAATACTCACTGCATGCATATTA
1 TAAAAAAACACTCACTACATGCATATTA
106152531 AAAGATAGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (28 bp):
TAAAAAAACACTCACTACATGCATATTA
Found at i:106154754 original size:32 final size:32
Alignment explanation
Indices: 106154718--106154782 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
106154708 TGTATGCATT
106154718 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
106154750 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
106154782 T
1 T
106154783 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:106156294 original size:26 final size:26
Alignment explanation
Indices: 106156264--106156316 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
106156254 TTTATAGTTT
106156264 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
106156290 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
106156316 T
1 T
106156317 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:106157914 original size:6 final size:6
Alignment explanation
Indices: 106157905--106158070 Score: 127
Period size: 6 Copynumber: 26.7 Consensus size: 6
106157895 AAATAACCCT
* ** * *
106157905 AAATCA AAATCC AAATTG AAATCA AAATCA AAATCA AAATTA AAATCT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * * ** *
106157953 AAA-CTG AGATCG AAATTG AAATCA AAATCA AAATCA AAATCA ATGAGTGTTTCA
1 AAATC-A AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA A--A----ATCA
** * *
106158007 AAATTG AAATCA AAATCG AAATCA AAATTA AAATCA AAATCA AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
106158055 AAATCA AAATCA AAAT
1 AAATCA AAATCA AAAT
106158071 TGAAATCGAA
Statistics
Matches: 128, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
5 1 0.01
6 120 0.94
7 1 0.01
8 1 0.01
10 1 0.01
12 4 0.03
ACGTcount: A:0.58, C:0.13, G:0.06, T:0.22
Consensus pattern (6 bp):
AAATCA
Found at i:106157937 original size:24 final size:24
Alignment explanation
Indices: 106157905--106158082 Score: 151
Period size: 24 Copynumber: 7.2 Consensus size: 24
106157895 AAATAACCCT
*
106157905 AAATCAAAATCCAAATTGAAATCA
1 AAATCAAAATCAAAATTGAAATCA
* *
106157929 AAATCAAAATCAAAATTAAAATCT
1 AAATCAAAATCAAAATTGAAATCA
* * *
106157953 AAA-CTGAGATCGAAATTGAAATCA
1 AAATC-AAAATCAAAATTGAAATCA
**
106157977 AAATCAAAATCAAAATCAATGAGTGTTTCA
1 AAATCAAAATCAAAAT---TGA---AATCA
** *
106158007 AAATTGAAATCAAAATCGAAATCA
1 AAATCAAAATCAAAATTGAAATCA
* **
106158031 AAATTAAAATCAAAATCAAAATCA
1 AAATCAAAATCAAAATTGAAATCA
*
106158055 AAATCAAAATCAAAATTGAAATCG
1 AAATCAAAATCAAAATTGAAATCA
106158079 AAAT
1 AAAT
106158083 AACCCTAAAT
Statistics
Matches: 122, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.01
24 98 0.80
25 1 0.01
27 5 0.04
30 17 0.14
ACGTcount: A:0.58, C:0.13, G:0.07, T:0.22
Consensus pattern (24 bp):
AAATCAAAATCAAAATTGAAATCA
Found at i:106158076 original size:6 final size:6
Alignment explanation
Indices: 106158007--106158082 Score: 53
Period size: 6 Copynumber: 12.7 Consensus size: 6
106157997 GAGTGTTTCA
* * * ** * * *
106158007 AAATTG AAATCA AAATCG AAATCA AAATTA AAATCA AAATCA AAATCA
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
* * *
106158055 AAATCA AAATCA AAATTG AAATCG AAAT
1 AAATCG AAATCG AAATCG AAATCG AAAT
106158083 AACCCTAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.21
Consensus pattern (6 bp):
AAATCG
Found at i:106160949 original size:22 final size:22
Alignment explanation
Indices: 106160851--106160957 Score: 85
Period size: 23 Copynumber: 4.8 Consensus size: 22
106160841 TCACCCACCA
* *
106160851 AACAAAACC-AATCATAGCCTCC
1 AACACAACCAAAT-ATACCCTCC
*
106160873 AGACACAACC-AATTTACCCT-C
1 A-ACACAACCAAATATACCCTCC
* * *
106160894 AAAAGTCAACCAAACATACCCTCAA
1 AACA--CAACCAAATATACCCTC-C
*
106160919 AACATAACCAAATATACCCTCC
1 AACACAACCAAATATACCCTCC
106160941 AACACAACCAAATATAC
1 AACACAACCAAATATAC
106160958 AACCAAATAT
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
20 2 0.03
21 2 0.03
22 27 0.40
23 33 0.49
25 3 0.04
ACGTcount: A:0.48, C:0.35, G:0.03, T:0.15
Consensus pattern (22 bp):
AACACAACCAAATATACCCTCC
Found at i:106160961 original size:12 final size:12
Alignment explanation
Indices: 106160944--106160969 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
106160934 ACCCTCCAAC
106160944 ACAACCAAATAT
1 ACAACCAAATAT
106160956 ACAACCAAATAT
1 ACAACCAAATAT
106160968 AC
1 AC
106160970 CCTCAAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (12 bp):
ACAACCAAATAT
Found at i:106160967 original size:34 final size:35
Alignment explanation
Indices: 106160924--106160991 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
106160914 CTCAAAACAT
*
106160924 AACCAAATATACCCTCCAA-CACAACCAAATATAC
1 AACCAAATATACCCTCAAAGCACAACCAAATATAC
106160958 AACCAAATATACCCTCAAAGCACAACCAAATATA
1 AACCAAATATACCCTCAAAGCACAACCAAATATA
106160992 GCCTCCTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.56
35 14 0.44
ACGTcount: A:0.51, C:0.32, G:0.01, T:0.15
Consensus pattern (35 bp):
AACCAAATATACCCTCAAAGCACAACCAAATATAC
Found at i:106160982 original size:23 final size:22
Alignment explanation
Indices: 106160956--106161027 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 22
106160946 AACCAAATAT
106160956 ACAACCAAATATACCCTCAAAGC
1 ACAACCAAATATACCCTCAAA-C
* *
106160979 ACAACCAAATATAGCCTCCTAAC
1 ACAACCAAATATACCCT-CAAAC
* *
106161002 AGAACGAAATATACCCTCTAAAC
1 ACAACCAAATATACCCTC-AAAC
106161025 ACA
1 ACA
106161028 TCCACTTAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 1 0.03
23 36 0.90
24 3 0.08
ACGTcount: A:0.47, C:0.32, G:0.06, T:0.15
Consensus pattern (22 bp):
ACAACCAAATATACCCTCAAAC
Found at i:106160988 original size:57 final size:58
Alignment explanation
Indices: 106160900--106161015 Score: 171
Period size: 57 Copynumber: 2.0 Consensus size: 58
106160890 CCTCAAAAGT
*
106160900 CAACCAAACATACCCTCAAAACATAACCAAATATACCCTCC-AACACAACCAAATATA
1 CAACCAAACATACCCTCAAAACACAACCAAATATACCCTCCTAACACAACCAAATATA
* * * * *
106160957 CAACCAAATATACCCTCAAAGCACAACCAAATATAGCCTCCTAACAGAACGAAATATA
1 CAACCAAACATACCCTCAAAACACAACCAAATATACCCTCCTAACACAACCAAATATA
106161015 C
1 C
106161016 CCTCTAAACA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 37 0.71
58 15 0.29
ACGTcount: A:0.49, C:0.33, G:0.03, T:0.15
Consensus pattern (58 bp):
CAACCAAACATACCCTCAAAACACAACCAAATATACCCTCCTAACACAACCAAATATA
Found at i:106162151 original size:26 final size:26
Alignment explanation
Indices: 106162075--106162197 Score: 151
Period size: 26 Copynumber: 4.8 Consensus size: 26
106162065 CCTCTTTAAT
* ***
106162075 AACTAGGGCA-AAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
106162100 AACTGGGGCA-AAGACCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
106162125 AACTAGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
106162151 AATTGGGGCATAAGCCCTTTCCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
106162177 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
106162198 TCACTTCCTC
Statistics
Matches: 83, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
25 29 0.35
26 54 0.65
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:106162186 original size:52 final size:51
Alignment explanation
Indices: 106162075--106162197 Score: 176
Period size: 52 Copynumber: 2.4 Consensus size: 51
106162065 CCTCTTTAAT
* * *
106162075 AACTAGGGCA-AAGCCCTTTTTGGTAAACTGGGGCAAAGACCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCGATAAACTGGGGCAAAGACCTTTCCAATA
* *
106162125 AACTAGGGCATAAGCCCTTTTCGATAAATTGGGGCATAAGCCCTTTCCAATA
1 AACTAGGGCATAAGCCCTTTTCGATAAACTGGGGCA-AAGACCTTTCCAATA
*
106162177 AACTGGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
106162198 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 10 0.15
51 22 0.34
52 33 0.51
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (51 bp):
AACTAGGGCATAAGCCCTTTTCGATAAACTGGGGCAAAGACCTTTCCAATA
Found at i:106162272 original size:20 final size:20
Alignment explanation
Indices: 106162247--106162321 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
106162237 TTATGAATTC
*
106162247 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
106162267 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
106162287 ATCATGTGCATATCATAACA-
1 ATCATGTGCATATCAT-ACAT
106162307 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
106162322 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
17 1 0.02
18 7 0.13
20 42 0.79
21 3 0.06
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:106162278 original size:11 final size:11
Alignment explanation
Indices: 106162247--106162302 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
106162237 TTATGAATTC
106162247 ATCATGTGCAT
1 ATCATGTGCAT
* *
106162258 TTCA--TACAT
1 ATCATGTGCAT
106162267 ATCATGTGCAT
1 ATCATGTGCAT
*
106162278 ATCA--TACAT
1 ATCATGTGCAT
106162287 ATCATGTGCAT
1 ATCATGTGCAT
106162298 ATCAT
1 ATCAT
106162303 AACAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:106164173 original size:46 final size:46
Alignment explanation
Indices: 106164121--106164213 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
106164111 GCTCAAATAG
*
106164121 CCACAACATATAGATCTCAAATAGTGTACATTAAATCAACAATACT
1 CCACAACATATAGATCTCAAATAGTGTACATAAAATCAACAATACT
106164167 CCACAACATATAGATCTCAAATAGTGTACATAAAATCAACAATACT
1 CCACAACATATAGATCTCAAATAGTGTACATAAAATCAACAATACT
106164213 C
1 C
106164214 ATATCATATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.25
Consensus pattern (46 bp):
CCACAACATATAGATCTCAAATAGTGTACATAAAATCAACAATACT
Found at i:106165949 original size:53 final size:53
Alignment explanation
Indices: 106165869--106165972 Score: 208
Period size: 53 Copynumber: 2.0 Consensus size: 53
106165859 TCGGTTAGGA
106165869 AATTTTCATGTTTAGTTAGTTAACTAAGAAAAACATTAAATCGTAAAAGACAT
1 AATTTTCATGTTTAGTTAGTTAACTAAGAAAAACATTAAATCGTAAAAGACAT
106165922 AATTTTCATGTTTAGTTAGTTAACTAAGAAAAACATTAAATCGTAAAAGAC
1 AATTTTCATGTTTAGTTAGTTAACTAAGAAAAACATTAAATCGTAAAAGAC
106165973 GTAAAACTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.34
Consensus pattern (53 bp):
AATTTTCATGTTTAGTTAGTTAACTAAGAAAAACATTAAATCGTAAAAGACAT
Found at i:106166013 original size:25 final size:25
Alignment explanation
Indices: 106165979--106166030 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
106165969 AGACGTAAAA
*
106165979 CTTAATCTCTATTGATTTCTATTAG
1 CTTAATCTCTATTGATTTCTATCAG
106166004 CTTAATCTCTATTGATTTCTATCAG
1 CTTAATCTCTATTGATTTCTATCAG
106166029 CT
1 CT
106166031 AAAATGCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (25 bp):
CTTAATCTCTATTGATTTCTATCAG
Found at i:106170496 original size:50 final size:51
Alignment explanation
Indices: 106170417--106170530 Score: 160
Period size: 50 Copynumber: 2.3 Consensus size: 51
106170407 GGACACACTA
* *
106170417 CAGCTCGTATGAGCTTACCGATTTGTAGCTCATGAGAGCTTACCAATTC-T
1 CAGCTCGTATGAGCTTACCGATTTATAGCTCATGAGAGCATACCAATTCAT
* * **
106170467 CAGCTCGTATGAGCTTACCGATTTATAGCTCGTTAGAGCATACTGATTCAT
1 CAGCTCGTATGAGCTTACCGATTTATAGCTCATGAGAGCATACCAATTCAT
106170518 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
106170531 ATACATGTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 56 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (51 bp):
CAGCTCGTATGAGCTTACCGATTTATAGCTCATGAGAGCATACCAATTCAT
Found at i:106170498 original size:25 final size:25
Alignment explanation
Indices: 106170418--106170530 Score: 115
Period size: 25 Copynumber: 4.5 Consensus size: 25
106170408 GACACACTAC
*
106170418 AGCTCGTATGAGCTTACCGATTTGT
1 AGCTCGTATGAGCTTACCGATTTAT
* * *
106170443 AGCTCATGA-GAGCTTACCAATTCT-C
1 AGCTCGT-ATGAGCTTACCGATT-TAT
106170468 AGCTCGTATGAGCTTACCGATTTAT
1 AGCTCGTATGAGCTTACCGATTTAT
* * *
106170493 AGCTCGT-TAGAGCATACTGATTCAT
1 AGCTCGTAT-GAGCTTACCGATTTAT
106170518 AGCTCGTATGAGC
1 AGCTCGTATGAGC
106170531 ATACATGTAC
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
24 3 0.04
25 67 0.92
26 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATTTAT
Found at i:106173157 original size:40 final size:40
Alignment explanation
Indices: 106173092--106173167 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
106173082 ACTATGTTTG
* *
106173092 GCACTTAGTGTGCATTTCGAGATAGCTTCGGCTATATATA
1 GCACTTAGTGTGCAATTAGAGATAGCTTCGGCTATATATA
*
106173132 GCACTTAGTGTGCGAATTAGA-ATAGCTTTGGCTATA
1 GCACTTAGTGTGC-AATTAGAGATAGCTTCGGCTATA
106173168 CATGTAACGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 27 0.84
41 5 0.16
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (40 bp):
GCACTTAGTGTGCAATTAGAGATAGCTTCGGCTATATATA
Found at i:106174487 original size:27 final size:27
Alignment explanation
Indices: 106174439--106174597 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
106174429 GCGAGGCTGC
*** *
106174439 CAGATATTGTGATGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
106174466 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
106174492 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
106174519 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
106174546 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
106174573 CAGATAATCGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
106174598 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.09
27 101 0.88
28 4 0.03
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Done.