Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 309 of 325
Found at i:94037669 original size:11 final size:11
Alignment explanation
Indices: 94037634--94037675 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
94037624 ATATTTTACG
*
94037634 TATATTATGTA
1 TATATTTTGTA
*
94037645 TATATTTT-AA
1 TATATTTTGTA
*
94037655 TATATTTTGTG
1 TATATTTTGTA
94037666 TATATTTTGT
1 TATATTTTGT
94037676 TTTGTATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (11 bp):
TATATTTTGTA
Found at i:94037970 original size:8 final size:8
Alignment explanation
Indices: 94037959--94038006 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
94037949 CTATTATTTC
94037959 TTTATTAT
1 TTTATTAT
94037967 TTTATTACT
1 TTTATTA-T
*
94037976 ATTATT-T
1 TTTATTAT
*
94037983 TTTTTTAT
1 TTTATTAT
*
94037991 TTTTTTAT
1 TTTATTAT
94037999 TTTATTAT
1 TTTATTAT
94038007 GCTACCCTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
7 5 0.15
8 23 0.68
9 6 0.18
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTATTAT
Found at i:94037980 original size:14 final size:14
Alignment explanation
Indices: 94037944--94037983 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
94037934 CTACTACTAG
94037944 TATTACTATTA-TT
1 TATTACTATTATTT
*
94037957 TCTT--TATTATTT
1 TATTACTATTATTT
94037969 TATTACTATTATTT
1 TATTACTATTATTT
94037983 T
1 T
94037984 TTTTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
11 5 0.23
12 5 0.23
13 3 0.14
14 9 0.41
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTACTATTATTT
Found at i:94037994 original size:25 final size:25
Alignment explanation
Indices: 94037944--94037993 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
94037934 CTACTACTAG
94037944 TATTACTATTATTTCTTTATTATTT
1 TATTACTATTATTTCTTTATTATTT
*
94037969 TATTACTATTATTT-TTTTTTATTT
1 TATTACTATTATTTCTTTATTATTT
94037993 T
1 T
94037994 TTTATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (25 bp):
TATTACTATTATTTCTTTATTATTT
Found at i:94037996 original size:13 final size:13
Alignment explanation
Indices: 94037959--94038006 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
94037949 CTATTATTTC
94037959 TTTATTATTTTAT
1 TTTATTATTTTAT
* *
94037972 TACTATTATTTTTT
1 T-TTATTATTTTAT
*
94037986 TTTATTTTTTTAT
1 TTTATTATTTTAT
94037999 TTTATTAT
1 TTTATTAT
94038007 GCTACCCTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:94040648 original size:19 final size:20
Alignment explanation
Indices: 94040614--94040651 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
94040604 GACATTAGAC
*
94040614 TTATTAATTTTTGGGTTTTG
1 TTATTAATTATTGGGTTTTG
94040634 TTATT-ATTATTGGGTTTT
1 TTATTAATTATTGGGTTTT
94040652 ATAAAGGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.16, C:0.00, G:0.18, T:0.66
Consensus pattern (20 bp):
TTATTAATTATTGGGTTTTG
Found at i:94044595 original size:20 final size:20
Alignment explanation
Indices: 94044546--94044597 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
94044536 TTATGCCACA
*
94044546 TCAGTATTCTTATCTTGAATT
1 TCAGTATT-TTATCCTGAATT
94044567 TCAAG-ATTTTATCCTGAATT
1 TC-AGTATTTTATCCTGAATT
94044587 TCAGTATTTTA
1 TCAGTATTTTA
94044598 ATTTGGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 19 0.68
21 5 0.18
22 2 0.07
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:94044764 original size:247 final size:247
Alignment explanation
Indices: 94044326--94044967 Score: 1140
Period size: 247 Copynumber: 2.6 Consensus size: 247
94044316 ACATCAATAT
94044326 TTTTATCCTGAATTTCAGTATTTTAATTTGGATTTGATTTTTTTCAGGATAAAATCCTGAAATTC
1 TTTTATCCTGAATTTCAGTATTTTAATTTGGATTTGATTTTTTTCAGGATAAAATCCTGAAATTC
* *
94044391 AAAATAAGAATACTAATGTGGCATAAAACTATTGGAAAGGGATAGAGATGACGTGGCGTCACTGT
66 AAAATAAGAATACTAATGTGGCATAAAACTATTAGAAAGGGATACAGATGACGTGGCGTCACTGT
** *
94044456 TTGGTACAATCTTTTCTCTTTTCGGGAAAGGATTGTATGAAACAGTAACACCACGTCATCTGCAT
131 TTCATACAATCTTTTCTCTTTTCGGGAAAGGATTGTATGAAACAGTAACACCACATCATCTGCAT
*
94044521 CACTTTCCAATAGTTTTATGCCACATCAGTATTCTTATCTTGAATTTCAAGA
196 CACTTTCCAATAGTTTTATGCCACATCAGTATTCTTATCCTGAATTTCAAGA
94044573 TTTTATCCTGAATTTCAGTATTTTAATTTGGATTTGATTTTTTTCAGGATAAAATCCTGAAATTC
1 TTTTATCCTGAATTTCAGTATTTTAATTTGGATTTGATTTTTTTCAGGATAAAATCCTGAAATTC
*
94044638 AAAATAAGAATACTAATGTGGCATAAAACTATTAGAAAGTGATACAGATGACGTGGCGTCACTGT
66 AAAATAAGAATACTAATGTGGCATAAAACTATTAGAAAGGGATACAGATGACGTGGCGTCACTGT
* * *
94044703 TTCATACAATCCTTTCTCTTTTCGGGAAAGGATTGTATGAAACAGTAACGCCACATCATCTGTAT
131 TTCATACAATCTTTTCTCTTTTCGGGAAAGGATTGTATGAAACAGTAACACCACATCATCTGCAT
*
94044768 CCCTTTCCAATAGTTTTATGCCACATCAGTATTCTTATCCTGAATTTCAAGA
196 CACTTTCCAATAGTTTTATGCCACATCAGTATTCTTATCCTGAATTTCAAGA
* *
94044820 TTTTATCCTAAATTTCAGTATTTTAATTTGGATTTGATTTTTTTCAGGATAAAATCTTGAAATTC
1 TTTTATCCTGAATTTCAGTATTTTAATTTGGATTTGATTTTTTTCAGGATAAAATCCTGAAATTC
* * *
94044885 AAAATAAGAATACTAATGTGACATAAAATTATTAGAAAGGGATACAGATAACGTGGCGTCACTGT
66 AAAATAAGAATACTAATGTGGCATAAAACTATTAGAAAGGGATACAGATGACGTGGCGTCACTGT
94044950 TTCATACAATCTTTTCTC
131 TTCATACAATCTTTTCTC
94044968 AAAATTTTCA
Statistics
Matches: 377, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
247 377 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (247 bp):
TTTTATCCTGAATTTCAGTATTTTAATTTGGATTTGATTTTTTTCAGGATAAAATCCTGAAATTC
AAAATAAGAATACTAATGTGGCATAAAACTATTAGAAAGGGATACAGATGACGTGGCGTCACTGT
TTCATACAATCTTTTCTCTTTTCGGGAAAGGATTGTATGAAACAGTAACACCACATCATCTGCAT
CACTTTCCAATAGTTTTATGCCACATCAGTATTCTTATCCTGAATTTCAAGA
Found at i:94044842 original size:20 final size:20
Alignment explanation
Indices: 94044793--94044844 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
94044783 TTATGCCACA
*
94044793 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTAAATT
94044814 TCAAG-ATTTTATCCTAAATT
1 TC-AGTATTTTATCCTAAATT
94044834 TCAGTATTTTA
1 TCAGTATTTTA
94044845 ATTTGGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 19 0.68
21 5 0.18
22 2 0.07
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (20 bp):
TCAGTATTTTATCCTAAATT
Found at i:94049491 original size:21 final size:21
Alignment explanation
Indices: 94049467--94049509 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
94049457 AAAAATATTT
94049467 TAGTATGATAAACTTGAATCA
1 TAGTATGATAAACTTGAATCA
94049488 TAGTATGATAAACTTGAATCA
1 TAGTATGATAAACTTGAATCA
94049509 T
1 T
94049510 TATTAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (21 bp):
TAGTATGATAAACTTGAATCA
Found at i:94050004 original size:28 final size:29
Alignment explanation
Indices: 94049959--94050019 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
94049949 TCTAAATTTG
* *
94049959 ATATTTAATTTCTATCTTTTAATTTT-TA
1 ATATATAATTTCTATCTTATAATTTTATA
* * *
94049987 ATATATAATTTGTTTCTTATACTTTTATA
1 ATATATAATTTCTATCTTATAATTTTATA
94050016 ATAT
1 ATAT
94050020 TATTAATTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (29 bp):
ATATATAATTTCTATCTTATAATTTTATA
Found at i:94054257 original size:25 final size:25
Alignment explanation
Indices: 94054229--94054278 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
94054219 TGGTGAAAGT
94054229 TGGTGAAATATTTAAAAATGATATA
1 TGGTGAAATATTTAAAAATGATATA
94054254 TGGTGAAATATTTAAAAATGATATA
1 TGGTGAAATATTTAAAAATGATATA
94054279 CGAGTAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (25 bp):
TGGTGAAATATTTAAAAATGATATA
Found at i:94054484 original size:15 final size:15
Alignment explanation
Indices: 94054466--94054506 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
94054456 TAATAATGCA
* * *
94054466 AATAATAATGATATC
1 AATAATAATAACAAC
94054481 AATAATAATAACAAC
1 AATAATAATAACAAC
94054496 AATAATAATAA
1 AATAATAATAA
94054507 ATCTAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (15 bp):
AATAATAATAACAAC
Found at i:94054539 original size:27 final size:28
Alignment explanation
Indices: 94054501--94054555 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
94054491 ACAACAATAA
94054501 TAATAAATCTAAA-TTTGAAAGTACATG
1 TAATAAATCTAAATTTTGAAAGTACATG
94054528 TAATAAATCTAAATTTTGAAAGTACATG
1 TAATAAATCTAAATTTTGAAAGTACATG
94054556 AAATGTAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (28 bp):
TAATAAATCTAAATTTTGAAAGTACATG
Found at i:94057957 original size:42 final size:45
Alignment explanation
Indices: 94057898--94058003 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
94057888 ACTGGGTGCA
* *
94057898 CAAGATATTTTACATGGCTGTGAGT-C-TAT-CTCCTTGATCCCC
1 CAAGATATTTTTCATGGCTGCGAGTACATATCCTCCTTGATCCCC
* * * * *
94057940 CAAGATATTTTTCATGGCAGCGTGTACATCTCCTCCTTGGTTCCC
1 CAAGATATTTTTCATGGCTGCGAGTACATATCCTCCTTGATCCCC
94057985 CAAGATATTTTTCATGGCT
1 CAAGATATTTTTCATGGCT
94058004 CCTGGATCCT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 21 0.40
43 1 0.02
44 2 0.04
45 29 0.55
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (45 bp):
CAAGATATTTTTCATGGCTGCGAGTACATATCCTCCTTGATCCCC
Found at i:94068245 original size:46 final size:42
Alignment explanation
Indices: 94068194--94068296 Score: 134
Period size: 43 Copynumber: 2.3 Consensus size: 42
94068184 GCCGCAAAAC
*
94068194 TTAGCGGCGTTTTTTCGAAAAAAAATGCCACTAAAGACCAGGACTT
1 TTAGCGGCGTTTTTT----AAAAAACGCCACTAAAGACCAGGACTT
*
94068240 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTT
1 TTAGCGGCG-TTTTTTAAAAAACGCCACTAAAGACCAGGACTT
*
94068283 TTAGCGGCGCTTTT
1 TTAGCGGCGTTTTT
94068297 CCCGCAAACA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
42 4 0.08
43 34 0.64
46 9 0.17
47 6 0.11
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAACGCCACTAAAGACCAGGACTT
Found at i:94068274 original size:43 final size:43
Alignment explanation
Indices: 94068213--94068296 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
94068203 TTTTTTCGAA
*
94068213 AAAAAATGCCACTAAAGACCAGGACTTTTAGCGGCGCTTTTTT
1 AAAAAACGCCACTAAAGACCAGGACTTTTAGCGGCGCTTTTTT
*
94068256 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTT
1 AAAAAACGCCACTAAAGACCAGGACTTTTAGCGGCGCTTTT
94068297 CCCGCAAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (43 bp):
AAAAAACGCCACTAAAGACCAGGACTTTTAGCGGCGCTTTTTT
Found at i:94068311 original size:43 final size:43
Alignment explanation
Indices: 94068224--94068315 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
94068214 AAAAATGCCA
** *
94068224 CTAAAGACCAGGACTTTTAGCGGCGCTTTTTTAAAAAACGCCG
1 CTAAAGACCAGGACTTTTAGCGGCGCTTTTCCAAAAAACACCG
***
94068267 CTAAAGACCAGGACTTTTAGCGGCGCTTTTCCCGCAAACACCG
1 CTAAAGACCAGGACTTTTAGCGGCGCTTTTCCAAAAAACACCG
94068310 CTAAAG
1 CTAAAG
94068316 GTCATAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (43 bp):
CTAAAGACCAGGACTTTTAGCGGCGCTTTTCCAAAAAACACCG
Found at i:94071541 original size:29 final size:29
Alignment explanation
Indices: 94071508--94071609 Score: 177
Period size: 29 Copynumber: 3.5 Consensus size: 29
94071498 GTGACGAGAT
*
94071508 TGGCACTAAGTGTGCATGCTGAAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
94071537 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
94071566 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
94071595 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
94071610 GAGCTCGAAG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:94071625 original size:29 final size:29
Alignment explanation
Indices: 94071593--94071669 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
94071583 GCTGGAAATA
* *
94071593 TATGGCACTAAGTGTGCGAGCTCGAAGGG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
** * * *
94071622 TATGGCACTGTGTGTGCGGGCTTAAATCG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
*
94071651 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
94071670 AATCAAGTAT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAGCTCAAAGCG
Found at i:94071626 original size:58 final size:59
Alignment explanation
Indices: 94071504--94071669 Score: 178
Period size: 58 Copynumber: 2.9 Consensus size: 59
94071494 TACGGTGACG
* * *
94071504 AGAT-TGGCACTAAGTGTGCATGCTGAAAATATATGGCACTGAGTGTGC-ATGCTGGAA
1 AGATATGGCACTGAGTGTGCATGCTGAAAATATATGGCACTAAGTGTGCGATGCTCGAA
* *
94071561 ATATATGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTGAGTGTGCATGCTGAAAATATATGGCACTAAGTGTGCGATGCTCGAA
* * * ** * **
94071619 GGGTATGGCACTGTGTGTGCGGGCT-TAAATCGCATGGCACTAAGTGTGCGA
1 AGATATGGCACTGAGTGTGCATGCTGAAAAT-ATATGGCACTAAGTGTGCGA
94071670 AATCAAGTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
57 7 0.08
58 84 0.91
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.26
Consensus pattern (59 bp):
AGATATGGCACTGAGTGTGCATGCTGAAAATATATGGCACTAAGTGTGCGATGCTCGAA
Found at i:94075482 original size:16 final size:16
Alignment explanation
Indices: 94075450--94075493 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
94075440 AACTAAAATA
*
94075450 TTAAATTTTTAAGTTTT
1 TTAAATTTTTTA-TTTT
94075467 TT--ATTTTTTATTTT
1 TTAAATTTTTTATTTT
94075481 TTAAATTTTTTAT
1 TTAAATTTTTTAT
94075494 GAAGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.25
15 7 0.29
16 9 0.38
17 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TTAAATTTTTTATTTT
Found at i:94076119 original size:7 final size:7
Alignment explanation
Indices: 94076107--94076286 Score: 69
Period size: 7 Copynumber: 24.7 Consensus size: 7
94076097 ACTAACTAAT
94076107 CTAAACC
1 CTAAACC
94076114 CTAAACTC
1 CTAAAC-C
*
94076122 CTAATCC
1 CTAAACC
*
94076129 CTAAACA
1 CTAAACC
*
94076136 TTAAACC
1 CTAAACC
*
94076143 CTAAAAC
1 CTAAACC
*
94076150 ATAAACC
1 CTAAACC
*
94076157 CTGAACC
1 CTAAACC
94076164 CTAAACC
1 CTAAACC
* *
94076171 ATGAACC
1 CTAAACC
* *
94076178 TTGAACCC
1 CT-AAACC
*
94076186 CT-CACC
1 CTAAACC
*
94076192 CTTAACCC
1 C-TAAACC
*
94076200 CTAACCC
1 CTAAACC
94076207 CT-AACAC
1 CTAAAC-C
94076214 CTAAACC
1 CTAAACC
*
94076221 TTAAACC
1 CTAAACC
*
94076228 C-CAACC
1 CTAAACC
94076234 CTTAAACTAC
1 C-TAAAC--C
94076244 CTTTAAACC
1 C--TAAACC
* *
94076253 ATAATCC
1 CTAAACC
94076260 CTAAACC
1 CTAAACC
*
94076267 CATAATCC
1 C-TAAACC
*
94076275 ATAAACC
1 CTAAACC
*
94076282 TTAAA
1 CTAAA
94076287 ATAGTGAGAC
Statistics
Matches: 126, Mismatches: 35, Indels: 24
0.68 0.19 0.13
Matches are distributed among these distances:
6 10 0.08
7 83 0.66
8 24 0.19
9 1 0.01
10 2 0.02
11 6 0.05
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:94076146 original size:14 final size:14
Alignment explanation
Indices: 94076108--94076158 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
94076098 CTAACTAATC
94076108 TAAACCCTAAAC-T
1 TAAACCCTAAACAT
*
94076121 CCTAATCCCTAAACAT
1 --TAAACCCTAAACAT
94076137 TAAACCCTAAAACA-
1 TAAACCCT-AAACAT
94076151 TAAACCCT
1 TAAACCCT
94076159 GAACCCTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 15 0.47
15 16 0.50
16 1 0.03
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACAT
Found at i:94076271 original size:15 final size:15
Alignment explanation
Indices: 94076247--94076281 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
94076237 AAACTACCTT
*
94076247 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
94076261 TAAACCCATAATCCA
1 TAAACCCATAATCCA
94076276 TAAACC
1 TAAACC
94076282 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:94076372 original size:41 final size:41
Alignment explanation
Indices: 94076319--94076518 Score: 267
Period size: 41 Copynumber: 4.9 Consensus size: 41
94076309 CTAGTTGGTA
* *
94076319 TCTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTTTGG
1 TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTTTAG
* * * *
94076360 TCTTTAGCGGCGTTTCACCAAAAGCGCTGCTAATGCTGTGG
1 TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTTTAG
*
94076401 TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAG
1 TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTTTAG
* * *
94076442 TCTTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGC-TCAA
1 TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTTTAG
* * * *
94076482 TTTTTAGCGGCGTTTTAACAAAAGTGCCGCTATTGCT
1 TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCT
94076519 CTGTGTTTTA
Statistics
Matches: 141, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 32 0.23
41 109 0.77
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.31
Consensus pattern (41 bp):
TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTTTAG
Found at i:94076456 original size:82 final size:81
Alignment explanation
Indices: 94076318--94076520 Score: 298
Period size: 82 Copynumber: 2.5 Consensus size: 81
94076308 CCTAGTTGGT
* * *
94076318 ATCTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTTTGGTCTTTAGCGGCGTTTCACCAAAA
1 ATCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGGCGTTTCACCAAAA
* **
94076383 GCGCTGCTAATGCTGTG
66 GCGCCGCTAATGCT-CA
*
94076400 GTCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGGCGTTTCACCAAAA
1 ATCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGGCGTTTCACCAAAA
94076465 GCGCCGCTAATGCTCA
66 GCGCCGCTAATGCTCA
* * * *
94076481 ATTTTTAGCGGCGTTTTAACAAAAGTGCCGCTATTGCTCT
1 ATCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT
94076521 GTGTTTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 35 0.32
82 74 0.68
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.31
Consensus pattern (81 bp):
ATCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGGCGTTTCACCAAAA
GCGCCGCTAATGCTCA
Found at i:94085884 original size:30 final size:31
Alignment explanation
Indices: 94085848--94085916 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
94085838 TGATTTCAAT
94085848 TCAATCACTTAAC-TT-TCGAAAAATAACAAA
1 TCAATCAC-TAACGTTATCGAAAAATAACAAA
* *
94085878 TCAATCACTAACGTTATCGAAAAGTGACAAA
1 TCAATCACTAACGTTATCGAAAAATAACAAA
*
94085909 TCAGTCAC
1 TCAATCAC
94085917 CCATTAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 4 0.12
30 10 0.29
31 20 0.59
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.25
Consensus pattern (31 bp):
TCAATCACTAACGTTATCGAAAAATAACAAA
Found at i:94089938 original size:30 final size:30
Alignment explanation
Indices: 94089897--94089956 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
94089887 CATTTATTGT
*
94089897 TAACATTAATGGCAGACAAACAATAATGGC
1 TAACATTAATGGCAAACAAACAATAATGGC
*
94089927 TAACGTTAATGGCAAACAAACAATAATGGC
1 TAACATTAATGGCAAACAAACAATAATGGC
94089957 AGCCATCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.20
Consensus pattern (30 bp):
TAACATTAATGGCAAACAAACAATAATGGC
Found at i:94094699 original size:30 final size:30
Alignment explanation
Indices: 94094658--94094733 Score: 118
Period size: 30 Copynumber: 2.5 Consensus size: 30
94094648 TGTGGAGATT
*
94094658 GTTAACATTAATGGCAGACAAACAATAATG
1 GTTAGCATTAATGGCAGACAAACAATAATG
94094688 GTTAGCATTAATGGCAGACAAACAATAATG
1 GTTAGCATTAATGGCAGACAAACAATAATG
*
94094718 G-CAGCCATTAATGGCA
1 GTTAG-CATTAATGGCA
94094734 ACCATCAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 2 0.05
30 41 0.95
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (30 bp):
GTTAGCATTAATGGCAGACAAACAATAATG
Found at i:94097438 original size:21 final size:21
Alignment explanation
Indices: 94097412--94097452 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94097402 ATCTGCTCAA
* *
94097412 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
94097433 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
94097453 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:94102216 original size:21 final size:22
Alignment explanation
Indices: 94102191--94102248 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 22
94102181 CTTTTATTTT
94102191 TTTAAAATTTATTTTACAA-AA
1 TTTAAAATTTATTTTACAATAA
* **
94102212 TTT-AAATTGATTTTTTAATAA
1 TTTAAAATTTATTTTACAATAA
94102233 TTATAAAAATTTATTT
1 TT-T-AAAATTTATTT
94102249 AAAAATATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 12 0.41
21 7 0.24
22 1 0.03
24 9 0.31
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTAAAATTTATTTTACAATAA
Found at i:94104116 original size:24 final size:23
Alignment explanation
Indices: 94104073--94104124 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
94104063 TCAAATTGTT
* * * *
94104073 AAATATAATTACAATTTTTTATTC
1 AAATATAATAAAAATATTTT-TTA
94104097 AAATATAATAAAAATATTTTTTA
1 AAATATAATAAAAATATTTTTTA
94104120 AAATA
1 AAATA
94104125 ACCTATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATATAATAAAAATATTTTTTA
Found at i:94105266 original size:18 final size:19
Alignment explanation
Indices: 94105233--94105268 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
94105223 CAAATGAATC
*
94105233 ATTTCTCATTTTCATTTTT
1 ATTTCTCATTTCCATTTTT
94105252 ATTTCT-ATTTCCATTTT
1 ATTTCTCATTTCCATTTT
94105269 GAGAAGACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTCTCATTTCCATTTTT
Found at i:94106658 original size:33 final size:33
Alignment explanation
Indices: 94106621--94106685 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
94106611 TATAAAGGGC
94106621 TTGTTTTTGCTAATTTGAATACCCGGGATTTGA
1 TTGTTTTTGCTAATTTGAATACCCGGGATTTGA
*
94106654 TTGTTTTTTCTAATTTGAATACCCGGGATTTG
1 TTGTTTTTGCTAATTTGAATACCCGGGATTTG
94106686 TGCTAACTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.48
Consensus pattern (33 bp):
TTGTTTTTGCTAATTTGAATACCCGGGATTTGA
Found at i:94108364 original size:31 final size:31
Alignment explanation
Indices: 94108327--94108387 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
94108317 ACTTCAAAAA
*
94108327 AAAAAAAATT-AATAGCATAGTGACTTAAAT
1 AAAAAAAATTCAATAACATAGTGACTTAAAT
**
94108357 AAAAAAAATTCAATAATTTAGTGACTTAAAT
1 AAAAAAAATTCAATAACATAGTGACTTAAAT
94108388 GATAACTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.30
Consensus pattern (31 bp):
AAAAAAAATTCAATAACATAGTGACTTAAAT
Found at i:94111994 original size:18 final size:16
Alignment explanation
Indices: 94111958--94112000 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
94111948 AATTAACAAT
*
94111958 TAATTTAATTATAAAA
1 TAATTTAATTACAAAA
94111974 TAATTTATATTACATAAA
1 TAATTTA-ATTACA-AAA
94111992 TAATTTAAT
1 TAATTTAAT
94112001 AAAAACCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 10 0.42
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTTAATTACAAAA
Found at i:94114068 original size:13 final size:13
Alignment explanation
Indices: 94114050--94114075 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94114040 AGACATTCAT
94114050 TAAAATTAAGCCC
1 TAAAATTAAGCCC
94114063 TAAAATTAAGCCC
1 TAAAATTAAGCCC
94114076 AAACTTATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
TAAAATTAAGCCC
Found at i:94132868 original size:19 final size:19
Alignment explanation
Indices: 94132844--94132924 Score: 144
Period size: 19 Copynumber: 4.2 Consensus size: 19
94132834 AATCTTTAAG
94132844 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
94132863 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
94132882 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
94132901 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
94132922 GAT
1 GAT
94132925 CTTGTAATCT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
19 51 0.85
21 9 0.15
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:94138576 original size:1 final size:1
Alignment explanation
Indices: 94138570--94138635 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
94138560 CTTCTATTTC
* * * * * * * * *
94138570 AAAAAAAAAAGAGAAAAAAAGAAAAGAAAAAGAGAAAAAAATAAAAGAAAAAAGAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
94138635 A
1 A
94138636 TGGAGAGGCC
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (1 bp):
A
Found at i:94138635 original size:13 final size:13
Alignment explanation
Indices: 94138570--94138635 Score: 71
Period size: 13 Copynumber: 4.9 Consensus size: 13
94138560 CTTCTATTTC
*
94138570 AAAAAAAAAAGAG
1 AAAAAAAAAAAAG
*
94138583 AAAAAAAGAAAAG
1 AAAAAAAAAAAAG
94138596 AAAAAGAGAAAAAA-
1 AAAAA-A-AAAAAAG
*
94138610 ATAAAAGAAAAAAG
1 A-AAAAAAAAAAAG
94138624 AAAAAAAAAAAA
1 AAAAAAAAAAAA
94138636 TGGAGAGGCC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
13 32 0.73
14 3 0.07
15 9 0.20
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:94140586 original size:29 final size:29
Alignment explanation
Indices: 94140554--94140654 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
94140544 ATAGTGAATC
*
94140554 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
94140583 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * *
94140611 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
94140641 CGCACACTTAGTGC
1 CGCACACTTAGTGC
94140655 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 21 0.34
30 17 0.28
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:94140647 original size:30 final size:29
Alignment explanation
Indices: 94140553--94140654 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
94140543 TATAGTGAAT
* * *
94140553 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
94140582 TCGCACACTTAGTGCTATATAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
94140610 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
94140640 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
94140655 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:94142084 original size:44 final size:44
Alignment explanation
Indices: 94142036--94142137 Score: 170
Period size: 44 Copynumber: 2.3 Consensus size: 44
94142026 AGCGTCTTAA
* *
94142036 TCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
1 TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCAGATCTTATC
*
94142080 TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGGATCTTATC
1 TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCAGATCTTATC
94142124 T-CCCTAAGCAGTAG
1 TCCCCTAAGCAGTAG
94142138 TGGAGTAGAT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 13 0.24
44 42 0.76
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (44 bp):
TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCAGATCTTATC
Found at i:94142494 original size:87 final size:89
Alignment explanation
Indices: 94142317--94142498 Score: 250
Period size: 87 Copynumber: 2.1 Consensus size: 89
94142307 CGGAGAGCAG
* *
94142317 ATCGAAGACATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGG
1 ATCGAAGACATAGCAGATCTGACCTTAGGATGTTTACACATCGAAGCAGATCCAAGATGATTTGG
* *
94142382 CATTATTGTGTTTACAAGGAGCAA
66 CATTATTGTATTTACAAGGAACAA
94142406 ATCGAAGACATAGCAGATCTGACCTTCAGG-TGTTTACAC-T-GAAGCAGATCCAAGATGATTTG
1 ATCGAAGACATAGCAGATCTGACCTT-AGGATGTTTACACATCGAAGCAGATCCAAGATGATTTG
94142468 GCA-TATCTGTATTGT-C-AGAGAACAA
65 GCATTAT-TGTATT-TACAAG-GAACAA
94142493 ATCGAA
1 ATCGAA
94142499 AAAATAGATT
Statistics
Matches: 85, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
86 5 0.06
87 42 0.49
88 2 0.02
89 34 0.40
90 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (89 bp):
ATCGAAGACATAGCAGATCTGACCTTAGGATGTTTACACATCGAAGCAGATCCAAGATGATTTGG
CATTATTGTATTTACAAGGAACAA
Found at i:94142582 original size:220 final size:220
Alignment explanation
Indices: 94142200--94142914 Score: 1143
Period size: 220 Copynumber: 3.2 Consensus size: 220
94142190 AAAGTATAAT
* * * *
94142200 AGATCTGGCCTTCAGATGTTCACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCA
1 AGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCA
94142265 GAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAG
66 GAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAG
94142330 CAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTATTGTGTTT
131 CAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTATTGTGTTT
*
94142395 ACAAGGAGCAAATCGAAGACATAGC
196 ACAAGGAGTAAATCGAAGACATAGC
*
94142420 AGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATATCTGTATTGTCA
1 AGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCA
* * *
94142485 GAGAACAAATCGAAAAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAA
66 GAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAG
* *
94142550 CAGATCTGACCTTTGGATGTTTTCACATCGAAGCATATCCAAGATGATTTGGCATTCTTGTGTTT
131 CAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTATTGTGTTT
94142615 ACAAGGAGTAAATCGAAGACATAGC
196 ACAAGGAGTAAATCGAAGACATAGC
*
94142640 AGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTGTCA
1 AGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCA
* *
94142705 GAGAACAAATCGAAGAAACAGATTTGGTATCTCCATATTCGATGGAGAGCAGATCGAAGACATAG
66 GAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAG
94142770 CAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATCTCCATAT-T
131 CAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCAT-T--AT-TGT
* ** *
94142834 CG-AT-GGA-GAGTAGATCGAAGACATAGC
192 -GTTTACAAGGAGTAAATCGAAGACATAGC
* *
94142861 AGATCTGACCTT-TGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCAT
1 AGATCTGACCTTCAGG-TGTTTACAC-T-GAAGCAGATCCAAGATGATTTGGCAT
94142915 TCTTGTGTTT
Statistics
Matches: 460, Mismatches: 27, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
220 388 0.84
221 40 0.09
222 2 0.00
223 28 0.06
224 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (220 bp):
AGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCA
GAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAG
CAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTATTGTGTTT
ACAAGGAGTAAATCGAAGACATAGC
Found at i:94142719 original size:87 final size:89
Alignment explanation
Indices: 94142537--94142720 Score: 218
Period size: 87 Copynumber: 2.1 Consensus size: 89
94142527 CGGAGAGCAG
* * * *
94142537 ATCGAAGACATAACAGATCTGACCTTTGGATGTTTTCACATCGAAGCATATCCAAGATGATTTGG
1 ATCGAAGACATAACAGATCTGACCTTAGGATGTTTACACATCGAAGCAGATCCAAGATGATTTGA
* **
94142602 CATTCTTGTGTTTACAAGGAGTAA
66 CATTCTTGTATTTACAAGGAACAA
*
94142626 ATCGAAGACATAGCAGATCTGACCTTCAGG-TGTTTACAC-T-GAAGCAGATCCAAGATGATTTG
1 ATCGAAGACATAACAGATCTGACCTT-AGGATGTTTACACATCGAAGCAGATCCAAGATGATTTG
94142688 ACA-TCTCTGTATTGT-C-AGAGAACAA
65 ACATTCT-TGTATT-TACAAG-GAACAA
94142713 ATCGAAGA
1 ATCGAAGA
94142721 AACAGATTTG
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
86 5 0.06
87 41 0.49
88 2 0.02
89 33 0.40
90 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (89 bp):
ATCGAAGACATAACAGATCTGACCTTAGGATGTTTACACATCGAAGCAGATCCAAGATGATTTGA
CATTCTTGTATTTACAAGGAACAA
Found at i:94142851 original size:310 final size:310
Alignment explanation
Indices: 94142505--94143135 Score: 1091
Period size: 310 Copynumber: 2.0 Consensus size: 310
94142495 CGAAAAAATA
94142505 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTTGGATGT
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTTGGATGT
* *
94142570 TTTCACATCGAAGCATATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGTAAATCGAAGAC
66 TTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGAAAATCGAAGAC
94142635 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTAT
131 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTAT
** *
94142700 TGTCAGAGAACAAATCGAAGAAACAGATTTGGTATCTCCATATTCGATGGAGAGCAGATCGAAGA
196 TGTCAGAGAACAAATCGAAGAAACAGATTTGACATCTCCATATTCGACGGAGAGCAGATCGAAGA
* * *
94142765 CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGAT
261 CATAGCAGATCTGACCTTCGGATATTTTCACATCGAAACAGATCCAAGAT
* * *
94142815 GATTTGGCATCTCCATATTCGATGGAGAGTAGATCGAAGACATAGCAGATCTGACCTTTGGATGT
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTTGGATGT
94142880 TTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGAAAATCGAAGAC
66 TTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGAAAATCGAAGAC
* *
94142945 ATAGCAGATCTGACCTTTAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGACATCTCTGTAT
131 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTAT
* *
94143010 TGTCAGAGAACAAATTGAATAAACAGATTTGACATCTCCATATTCGACGGAGAGCAGATCGAAGA
196 TGTCAGAGAACAAATCGAAGAAACAGATTTGACATCTCCATATTCGACGGAGAGCAGATCGAAGA
* * *
94143075 CATAGCAGATCTGACCTTCGGATATTTTCATATTGAAATAGATCCAAGAT
261 CATAGCAGATCTGACCTTCGGATATTTTCACATCGAAACAGATCCAAGAT
*
94143125 GATTTAGCATC
1 GATTTGGCATC
94143136 CTTGTGTTTA
Statistics
Matches: 302, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
310 302 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (310 bp):
GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTTGGATGT
TTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGAAAATCGAAGAC
ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTAT
TGTCAGAGAACAAATCGAAGAAACAGATTTGACATCTCCATATTCGACGGAGAGCAGATCGAAGA
CATAGCAGATCTGACCTTCGGATATTTTCACATCGAAACAGATCCAAGAT
Found at i:94142878 original size:90 final size:89
Alignment explanation
Indices: 94142725--94143004 Score: 385
Period size: 90 Copynumber: 3.1 Consensus size: 89
94142715 CGAAGAAACA
*
94142725 GATTTGGTATCTCCATATTCGATGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTTGGATGT
1 GATTTGGCATCTCCATATTCGATGGAGAG-AGATCGAAGACATAGCAGATCTGACCTTTGGATGT
94142790 TTTCACATCGAAGCAGATCCAAGAT
65 TTTCACATCGAAGCAGATCCAAGAT
94142815 GATTTGGCATCTCCATATTCGATGGAGAGTAGATCGAAGACATAGCAGATCTGACCTTTGGATGT
1 GATTTGGCATCTCCATATTCGATGGAGAG-AGATCGAAGACATAGCAGATCTGACCTTTGGATGT
94142880 TTTCACATCGAAGCAGATCCAAGAT
65 TTTCACATCGAAGCAGATCCAAGAT
** * * *
94142905 GATTTGGCAT-TCTTGTGTTTAC-AAGGAGA-AAATCGAAGACATAGCAGATCTGACCTTTAGG-
1 GATTTGGCATCTC-CAT-ATT-CGATGGAGAGAGATCGAAGACATAGCAGATCTGACCTTT-GGA
94142966 TGTTTAT-AC-T-GAAGCAGATCCAAGAT
62 TGTTT-TCACATCGAAGCAGATCCAAGAT
*
94142992 GATTTGACATCTC
1 GATTTGGCATCTC
94143005 TGTATTGTCA
Statistics
Matches: 176, Mismatches: 8, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
87 25 0.14
88 3 0.02
89 37 0.21
90 102 0.58
91 8 0.05
92 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (89 bp):
GATTTGGCATCTCCATATTCGATGGAGAGAGATCGAAGACATAGCAGATCTGACCTTTGGATGTT
TTCACATCGAAGCAGATCCAAGAT
Found at i:94143081 original size:220 final size:220
Alignment explanation
Indices: 94142815--94143234 Score: 696
Period size: 220 Copynumber: 1.9 Consensus size: 220
94142805 GATCCAAGAT
* * * * *
94142815 GATTTGGCATCTCCATATTCGATGGAGAGTAGATCGAAGACATAGCAGATCTGACCTTTGGATGT
1 GATTTGACATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCGGATAT
* * *
94142880 TTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGAAAATCGAAGAC
66 TTTCACATCGAAACAGATCCAAGATGATTTAGCATCCTTGTGTTTACAAGGAGAAAATCGAAGAC
* *
94142945 ATAGCAGATCTGACCTTTAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGACATCTCTGTAT
131 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTAT
94143010 TGTCAGAGAACAAATTGAATAAACA
196 TGTCAGAGAACAAATTGAATAAACA
94143035 GATTTGACATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCGGATAT
1 GATTTGACATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCGGATAT
* * * * *
94143100 TTTCATATTGAAATAGATCCAAGATGATTTAGCATCCTTGTGTTTACAAGGAGCAAATTGAAGAC
66 TTTCACATCGAAACAGATCCAAGATGATTTAGCATCCTTGTGTTTACAAGGAGAAAATCGAAGAC
*
94143165 ATAGCAGATCTGACCTTCAGGTGTTTACGCTGAAGCAGATCCAAGATGATTTGACATCTCTGTAT
131 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTAT
94143230 TGTCA
196 TGTCA
94143235 AGGAATGAAT
Statistics
Matches: 184, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
220 184 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (220 bp):
GATTTGACATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCGGATAT
TTTCACATCGAAACAGATCCAAGATGATTTAGCATCCTTGTGTTTACAAGGAGAAAATCGAAGAC
ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTAT
TGTCAGAGAACAAATTGAATAAACA
Found at i:94143654 original size:19 final size:19
Alignment explanation
Indices: 94143627--94143724 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
94143617 AATCTTTAAG
94143627 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
94143646 GACATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
94143665 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
94143682 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
94143701 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
94143722 GAT
1 GAT
94143725 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 47 0.64
21 9 0.12
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:94143658 original size:36 final size:35
Alignment explanation
Indices: 94143617--94143723 Score: 101
Period size: 36 Copynumber: 2.9 Consensus size: 35
94143607 ATGAAAATAT
94143617 AATCTTTAAGGATATGCAATCTTAGATATGACATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGACATGC
*
94143653 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGACATGC
*
94143689 AATCTTAGATATGATATGCAATCTTGAAGATATGA
1 AATCTT---TAAGATATGCAATCTT--AGATATGA
94143724 TCTTGTAATC
Statistics
Matches: 59, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 27 0.46
37 1 0.02
38 7 0.12
40 9 0.15
41 6 0.10
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGACATGC
Found at i:94144285 original size:26 final size:26
Alignment explanation
Indices: 94144232--94144282 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
94144222 AGTTTCATTT
*
94144232 TTTTATATGCTATGTTTAATTATTTA
1 TTTTATATGCTATGTTTAATTATATA
*
94144258 TTTTATATGCTAT-TTT-ATGATATA
1 TTTTATATGCTATGTTTAATTATATA
94144282 T
1 T
94144283 ATTGTTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.61
Consensus pattern (26 bp):
TTTTATATGCTATGTTTAATTATATA
Found at i:94145684 original size:11 final size:11
Alignment explanation
Indices: 94145669--94145755 Score: 97
Period size: 11 Copynumber: 7.8 Consensus size: 11
94145659 TAAATATATT
94145669 TAAAATAATAA
1 TAAAATAATAA
*
94145680 CAAAATTAATAA
1 TAAAA-TAATAA
94145692 TAAAATAATAA
1 TAAAATAATAA
* *
94145703 TTATATAATAA
1 TAAAATAATAA
94145714 TAATAA-AATAA
1 TAA-AATAATAA
94145725 TAACAAT-ATAA
1 TAA-AATAATAA
*
94145736 TAAAATACTAA
1 TAAAATAATAA
94145747 TAAAATAAT
1 TAAAATAAT
94145756 GAAAAAAAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
10 3 0.05
11 49 0.78
12 11 0.17
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:94145692 original size:3 final size:3
Alignment explanation
Indices: 94145672--94145755 Score: 74
Period size: 3 Copynumber: 30.0 Consensus size: 3
94145662 ATATATTTAA
* *
94145672 AAT AAT AAC AA- AATT AAT AAT AA- AAT AAT AAT TAT -AT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
94145715 AAT AA- AAT AAT AAC AAT -AT AAT AA- AAT ACT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
94145756 GAAAAAAAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
2 14 0.21
3 51 0.76
4 2 0.03
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:94145700 original size:8 final size:8
Alignment explanation
Indices: 94145669--94145742 Score: 55
Period size: 8 Copynumber: 8.9 Consensus size: 8
94145659 TAAATATATT
94145669 TAAAATAA
1 TAAAATAA
94145677 TAACAA-AA
1 TAA-AATAA
*
94145685 T-TAATAA
1 TAAAATAA
94145692 TAAAATAA
1 TAAAATAA
*
94145700 T-AATTATA
1 TAAAATA-A
94145708 TAATAATAA
1 TAA-AATAA
94145717 TAAAATAA
1 TAAAATAA
94145725 TAACAATATAA
1 T-A-AA-ATAA
94145736 TAAAATA
1 TAAAATA
94145743 CTAATAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
6 2 0.04
7 7 0.13
8 23 0.43
9 10 0.19
10 6 0.11
11 5 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (8 bp):
TAAAATAA
Found at i:94145712 original size:14 final size:13
Alignment explanation
Indices: 94145686--94145755 Score: 53
Period size: 14 Copynumber: 5.5 Consensus size: 13
94145676 ATAACAAAAT
94145686 TAATAATA-A-AA
1 TAATAATATATAA
94145697 TAATAATTATATAA
1 TAATAA-TATATAA
94145711 TAATAATA-A-AA
1 TAATAATATATAA
*
94145722 TAATAACAATATAA
1 TAATAA-TATATAA
94145736 TAA-AATACTAATAA
1 TAATAATA-T-ATAA
94145750 -AATAAT
1 TAATAAT
94145756 GAAAAAAAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
11 14 0.29
12 5 0.10
13 9 0.19
14 20 0.42
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAATATATAA
Found at i:94145720 original size:25 final size:25
Alignment explanation
Indices: 94145669--94145742 Score: 100
Period size: 25 Copynumber: 3.1 Consensus size: 25
94145659 TAAATATATT
*
94145669 TAAAATAATAACAA-A-ATTAATAA
1 TAAAATAATAACAATATAATAATAA
**
94145692 TAAAATAATAATTATATAATAATAA
1 TAAAATAATAACAATATAATAATAA
94145717 TAAAATAATAACAATATAATAA-AA
1 TAAAATAATAACAATATAATAATAA
94145741 TA
1 TA
94145743 CTAATAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
23 12 0.27
24 5 0.11
25 27 0.61
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (25 bp):
TAAAATAATAACAATATAATAATAA
Found at i:94148758 original size:28 final size:28
Alignment explanation
Indices: 94148718--94148773 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
94148708 GGATATTTTC
94148718 TTCAAGGTATAGCTAAAGATGCATTGAA
1 TTCAAGGTATAGCTAAAGATGCATTGAA
94148746 TTCAAGGTATAGCTAAAGATGCATTGAA
1 TTCAAGGTATAGCTAAAGATGCATTGAA
94148774 CTTGTTCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (28 bp):
TTCAAGGTATAGCTAAAGATGCATTGAA
Found at i:94148957 original size:13 final size:13
Alignment explanation
Indices: 94148939--94148964 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94148929 GCACAACATG
94148939 GACATTAAAGGTT
1 GACATTAAAGGTT
94148952 GACATTAAAGGTT
1 GACATTAAAGGTT
94148965 TATGTAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
GACATTAAAGGTT
Found at i:94149044 original size:26 final size:26
Alignment explanation
Indices: 94149008--94149062 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
94148998 CCTTCTTACA
94149008 TACGATCAATTTTGAGGATTAATTAT
1 TACGATCAATTTTGAGGATTAATTAT
* *
94149034 TACGATTAATTTTGAGGATTAATTGT
1 TACGATCAATTTTGAGGATTAATTAT
94149060 TAC
1 TAC
94149063 ACCTCAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (26 bp):
TACGATCAATTTTGAGGATTAATTAT
Found at i:94151727 original size:19 final size:19
Alignment explanation
Indices: 94151699--94151736 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
94151689 TTTCCAAGTG
*
94151699 CATAACTAGTATTACACCA
1 CATAACTAGTACTACACCA
*
94151718 CATAATTAGTACTACACCA
1 CATAACTAGTACTACACCA
94151737 TATTAAAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
CATAACTAGTACTACACCA
Found at i:94153466 original size:4 final size:4
Alignment explanation
Indices: 94153459--94153528 Score: 58
Period size: 4 Copynumber: 17.2 Consensus size: 4
94153449 GAATAAATAA
*
94153459 AAAG AAAG AAAG ATAG AAACG AAACAG AAAG -AA- AAAG AAAG AAAG AAA-
1 AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG AAAG AAAG
94153507 AAA- AAAGG AAAG AAATG AAAG A
1 AAAG AAA-G AAAG AAA-G AAAG A
94153529 GAAAGCCACG
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
3 10 0.18
4 32 0.57
5 10 0.18
6 3 0.05
7 1 0.02
ACGTcount: A:0.73, C:0.03, G:0.21, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:94153521 original size:33 final size:34
Alignment explanation
Indices: 94153453--94153533 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
94153443 AATAAAGAAT
* * *
94153453 AAAT-AAAAAGAAAGAAAGATAGAAACGAAACAG
1 AAATGAAAAAGAAAGAAAGAAAAAAAAGAAACAG
*
94153486 AAA-GAAAAAGAAAGAAAGAAAAAAAAAGGAA-AG
1 AAATGAAAAAGAAAGAAAG-AAAAAAAAGAAACAG
*
94153519 AAATGAAAGAGAAAG
1 AAATGAAAAAGAAAG
94153534 CCACGGCCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 22 0.55
34 18 0.45
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (34 bp):
AAATGAAAAAGAAAGAAAGAAAAAAAAGAAACAG
Found at i:94154242 original size:24 final size:24
Alignment explanation
Indices: 94154198--94154245 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
94154188 ATTTAAATGG
94154198 ATTGATTTAGTATGTGATGAATTT
1 ATTGATTTAGTATGTGATGAATTT
94154222 ATTGAATTTA-TAT-TGATTGAATTT
1 ATTG-ATTTAGTATGTGA-TGAATTT
94154246 GTATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.14
24 14 0.64
25 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (24 bp):
ATTGATTTAGTATGTGATGAATTT
Found at i:94154280 original size:2 final size:2
Alignment explanation
Indices: 94154247--94154271 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
94154237 ATTGAATTTG
94154247 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
94154272 TGAATATATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94159394 original size:24 final size:24
Alignment explanation
Indices: 94159362--94159411 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
94159352 GTTTAAGATT
94159362 ACCTAATCCTTCCTATGTATAAAA
1 ACCTAATCCTTCCTATGTATAAAA
94159386 ACCTAATCCTTCCTATGTATAAAA
1 ACCTAATCCTTCCTATGTATAAAA
94159410 AC
1 AC
94159412 TCAGGAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (24 bp):
ACCTAATCCTTCCTATGTATAAAA
Found at i:94159946 original size:13 final size:13
Alignment explanation
Indices: 94159928--94159953 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94159918 GCACAACATG
94159928 GACATTAAAGGTT
1 GACATTAAAGGTT
94159941 GACATTAAAGGTT
1 GACATTAAAGGTT
94159954 TATGTAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
GACATTAAAGGTT
Found at i:94162419 original size:27 final size:27
Alignment explanation
Indices: 94162382--94162435 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
94162372 CCCCAAAAAG
94162382 AAAACAGAAAAAGCTGTCTGGATCTCA
1 AAAACAGAAAAAGCTGTCTGGATCTCA
94162409 AAAACAGAAAAAGCTGTCTGGATCTCA
1 AAAACAGAAAAAGCTGTCTGGATCTCA
94162436 GTATGGCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (27 bp):
AAAACAGAAAAAGCTGTCTGGATCTCA
Found at i:94168009 original size:21 final size:21
Alignment explanation
Indices: 94167970--94168010 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
94167960 TAACGGGAGC
* *
94167970 GCTGACGTGGCAAGTTAACTA
1 GCTGACGTGACAAGCTAACTA
*
94167991 GCTGACGTGACCAGCTAACT
1 GCTGACGTGACAAGCTAACT
94168011 TGCCACGTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (21 bp):
GCTGACGTGACAAGCTAACTA
Found at i:94170348 original size:21 final size:21
Alignment explanation
Indices: 94170324--94170388 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
94170314 AAATCTAACT
94170324 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
94170345 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
94170363 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
94170384 GAAGC
1 GAAGC
94170389 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:94170364 original size:39 final size:39
Alignment explanation
Indices: 94170318--94170406 Score: 178
Period size: 39 Copynumber: 2.3 Consensus size: 39
94170308 AACCCGAAAT
94170318 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
94170357 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
94170396 CTAACTGAAGC
1 CTAACTGAAGC
94170407 TCATCAGAGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.38, C:0.24, G:0.25, T:0.13
Consensus pattern (39 bp):
CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
Found at i:94175245 original size:52 final size:52
Alignment explanation
Indices: 94175089--94175248 Score: 180
Period size: 52 Copynumber: 3.1 Consensus size: 52
94175079 TGGATCACAT
* ** * *
94175089 ATCATACCGATGCCATATCCCAAATATGGTATTATACGGAATCACATTATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCACA-TATCAC
* *
94175142 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACGC-GA-ATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAA-GCACATATCAC
** * *
94175194 ATTGTACCAATGCCATAGCCCAGCTATGGTCTTATACGGAAGCATATATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCACATATCAC
94175246 ATC
1 ATC
94175249 TTTTCCATCA
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
50 2 0.02
51 5 0.06
52 45 0.50
53 32 0.36
54 5 0.06
55 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCACATATCAC
Found at i:94180399 original size:2 final size:2
Alignment explanation
Indices: 94180392--94180433 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
94180382 AAACTACCAA
* *
94180392 AT AT AT AT AT AT GT AT A- AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94180433 A
1 A
94180434 AATAACTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:94180960 original size:12 final size:12
Alignment explanation
Indices: 94180943--94180968 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
94180933 TATTGCAGGG
94180943 TTGGTGGCAATT
1 TTGGTGGCAATT
94180955 TTGGTGGCAATT
1 TTGGTGGCAATT
94180967 TT
1 TT
94180969 TTTTTTCATT
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:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (12 bp):
TTGGTGGCAATT
Found at i:94183522 original size:10 final size:11
Alignment explanation
Indices: 94183503--94183535 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
94183493 TTGATATGTT
94183503 AATGAAGAGAA
1 AATGAAGAGAA
94183514 AAT-AAGAGAA
1 AATGAAGAGAA
*
94183524 AGTGAAGAGAA
1 AATGAAGAGAA
94183535 A
1 A
94183536 TAGTGTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (11 bp):
AATGAAGAGAA
Found at i:94185297 original size:46 final size:46
Alignment explanation
Indices: 94185234--94185461 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
94185224 GCTCTCTGAT
** * *
94185234 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
94185280 ATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
94185326 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
94185372 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
94185418 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
94185462 TCAAAGATAA
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 161 0.99
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:94185393 original size:92 final size:92
Alignment explanation
Indices: 94185244--94185456 Score: 354
Period size: 92 Copynumber: 2.3 Consensus size: 92
94185234 ATGAAATGTG
* *
94185244 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAACGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
* *
94185309 TACCATGGCAACATGACGGGAAATGAA
66 TACCATGGCAACATGACAGAAAATGAA
94185336 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
*
94185401 TACCATGGCAACATGACAGAAAATGAG
66 TACCATGGCAACATGACAGAAAATGAA
* * *
94185428 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
94185457 TCATGTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 113 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.18
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGAAAATGAA
Found at i:94187565 original size:29 final size:29
Alignment explanation
Indices: 94187533--94187633 Score: 177
Period size: 29 Copynumber: 3.5 Consensus size: 29
94187523 CTTCGAGCTC
*
94187533 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTCAGTGCCATATATTTCCAGCAT
94187562 GCACACTCAGTGCCATATATTTCCAGCAT
1 GCACACTCAGTGCCATATATTTCCAGCAT
94187591 GCACACTCAGTGCCATATATTT-CAGCAT
1 GCACACTCAGTGCCATATATTTCCAGCAT
*
94187619 GCACACTTAGTGCCA
1 GCACACTCAGTGCCA
94187634 ATCTCGTCAC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
28 20 0.29
29 50 0.71
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
GCACACTCAGTGCCATATATTTCCAGCAT
Found at i:94187567 original size:58 final size:57
Alignment explanation
Indices: 94187505--94187633 Score: 170
Period size: 58 Copynumber: 2.2 Consensus size: 57
94187495 TTTAAGCCCT
* * * *
94187505 CACACACAGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATG
1 CACACTCAGTGCCATACACTTCCAGCAT-GCACACTCAGTGCCATATATTT-CAGCATG
* *
94187563 CACACTCAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATATTTCAGCATG
1 CACACTCAGTGCCATACACTTCCAGCATGCACACTCAGTGCCATATATTTCAGCATG
*
94187620 CACACTTAGTGCCA
1 CACACTCAGTGCCA
94187634 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 20 0.32
58 42 0.67
59 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.26
Consensus pattern (57 bp):
CACACTCAGTGCCATACACTTCCAGCATGCACACTCAGTGCCATATATTTCAGCATG
Found at i:94195364 original size:29 final size:29
Alignment explanation
Indices: 94195330--94195405 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
94195320 TACTTGATTT
* * *
94195330 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
94195359 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
94195388 CGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
94195406 TATTTCCAGC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:94195421 original size:29 final size:29
Alignment explanation
Indices: 94195389--94195490 Score: 177
Period size: 29 Copynumber: 3.5 Consensus size: 29
94195379 CTTCGAGCTC
*
94195389 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTCAGTGCCATATATTTCCAGCAT
94195418 GCACACTCAGTGCCATATATTTCCAGCAT
1 GCACACTCAGTGCCATATATTTCCAGCAT
*
94195447 GCACACTCAGTGCCATATATTTTCAGCAT
1 GCACACTCAGTGCCATATATTTCCAGCAT
*
94195476 GCACACTTAGTGCCA
1 GCACACTCAGTGCCA
94195491 ATCTCGTCAC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
GCACACTCAGTGCCATATATTTCCAGCAT
Found at i:94195422 original size:58 final size:58
Alignment explanation
Indices: 94195329--94195490 Score: 175
Period size: 58 Copynumber: 2.8 Consensus size: 58
94195319 ATACTTGATT
** * ** * * *
94195329 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCAGCATGCACACTCAGTGCCATACACTTCCAGCA
* *
94195387 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATATATTT-CAGCATGCACACTCAGTGCCATACACTTCCAGCA
* *
94195446 T-GCACACTCAGTGCCATATATTTTCAGCATGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATA-TTTCAGCATGCACACTCAGTGCCA
94195491 ATCTCGTCAC
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
57 4 0.04
58 81 0.91
59 4 0.04
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATATATTTCAGCATGCACACTCAGTGCCATACACTTCCAGCA
Found at i:94201235 original size:22 final size:23
Alignment explanation
Indices: 94201210--94201255 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
94201200 CAACCAAACC
94201210 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
94201232 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
94201255 A
1 A
94201256 CGCCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:94202244 original size:42 final size:42
Alignment explanation
Indices: 94202194--94202320 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
94202184 CTTCATTTTC
** * *
94202194 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
94202237 T-GATGCCATAGCCCAGTTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
94202278 TCGATACCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
94202319 TC
1 TC
94202321 TCACTGATGC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 10 0.14
42 61 0.84
43 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:94202455 original size:31 final size:31
Alignment explanation
Indices: 94202420--94202537 Score: 200
Period size: 31 Copynumber: 3.8 Consensus size: 31
94202410 CTTGTCACTT
*
94202420 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
94202451 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
94202482 GTAGCAGAAGCTACCACTTTTCACTGAACAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
94202513 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
94202538 TGTCATTTGT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:94202617 original size:50 final size:50
Alignment explanation
Indices: 94202513--94202689 Score: 300
Period size: 50 Copynumber: 3.5 Consensus size: 50
94202503 CACTGAACAG
* *
94202513 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
94202564 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
94202614 GTAGCCGAAGCTATTACTTATCACTTTTATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
94202664 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
94202690 GTTGCCATGG
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
50 95 0.80
51 24 0.20
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:94221267 original size:2 final size:2
Alignment explanation
Indices: 94221260--94221295 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
94221250 AAACTACCAA
* *
94221260 AT AT AT AT AA AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94221296 CTAACTCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:94225519 original size:26 final size:25
Alignment explanation
Indices: 94225475--94225530 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
94225465 AAATTTATAT
*
94225475 TAATAATATTAATATTAAATAAATA
1 TAATAATATTAATACTAAATAAATA
* **
94225500 TAATTATATTAATTACTAAATTGATA
1 TAATAATATTAA-TACTAAATAAATA
94225526 TAATA
1 TAATA
94225531 TGTTGAGGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
TAATAATATTAATACTAAATAAATA
Found at i:94229470 original size:6 final size:6
Alignment explanation
Indices: 94229461--94229498 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
94229451 TAATAATAAT
*
94229461 TTTAAA TTTATA TTTATA TTTATA TTTATA TTTATA TT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TT
94229499 ATTAATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTATA
Found at i:94230377 original size:20 final size:20
Alignment explanation
Indices: 94230348--94230402 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
94230338 AATAGTAAGA
94230348 TAAT-TATATATAAAAATTT
1 TAATATATATATAAAAATTT
94230367 TAATATATATA-AAAACA-TT
1 TAATATATATATAAAA-ATTT
* *
94230386 GAATAT-TAAATAAAAAT
1 TAATATATATATAAAAAT
94230403 AATATGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 4 0.13
19 19 0.63
20 7 0.23
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TAATATATATATAAAAATTT
Found at i:94240178 original size:30 final size:30
Alignment explanation
Indices: 94240142--94240201 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
94240132 GGATATTCGA
94240142 TTATTTTAAGCAAACGCGAAATTGCAACCC
1 TTATTTTAAGCAAACGCGAAATTGCAACCC
94240172 TTATTTTAAGCAAACGCGAAATTGCAACCC
1 TTATTTTAAGCAAACGCGAAATTGCAACCC
94240202 AACACATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (30 bp):
TTATTTTAAGCAAACGCGAAATTGCAACCC
Found at i:94240629 original size:14 final size:14
Alignment explanation
Indices: 94240610--94240639 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94240600 AACACGACAC
94240610 AAAAATAATGGACT
1 AAAAATAATGGACT
*
94240624 AAAAATGATGGACT
1 AAAAATAATGGACT
94240638 AA
1 AA
94240640 CAATCAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (14 bp):
AAAAATAATGGACT
Found at i:94241556 original size:19 final size:19
Alignment explanation
Indices: 94241521--94241563 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
94241511 TTAATATAAA
*
94241521 GTTTAAAATAACTAAAATG
1 GTTTAAAATAACTAAAAAG
*
94241540 GTTTGAAATAAAC-AAAAAG
1 GTTTAAAAT-AACTAAAAAG
94241559 GTTTA
1 GTTTA
94241564 TATCACATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (19 bp):
GTTTAAAATAACTAAAAAG
Found at i:94243442 original size:40 final size:35
Alignment explanation
Indices: 94243343--94243508 Score: 190
Period size: 35 Copynumber: 4.6 Consensus size: 35
94243333 CCTCATTGAA
* * *
94243343 ATACCATACCTACATTTTACAACTCGGTATGGGA-A
1 ATACCATACCTACATTTCACAACTCAGTAT-GGATG
* * **
94243378 ATGCGATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
* *
94243415 TTAATACCATACCTACATATCACAACTCAATATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
94243453 ATACCATACCTACATTTCACAACTCAGTATGGATG
1 ATACCATACCTACATTTCACAACTCAGTATGGATG
94243488 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
94243509 CTTTGCCATG
Statistics
Matches: 110, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
34 3 0.03
35 78 0.71
38 2 0.02
40 27 0.25
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:94243449 original size:75 final size:71
Alignment explanation
Indices: 94243342--94243508 Score: 194
Period size: 75 Copynumber: 2.3 Consensus size: 71
94243332 TCCTCATTGA
* ** * * **
94243342 AATACCATACCTACATTTTACAACTCGGTATGGGA-AATGCGATACCTACATTTCTTAACTCAGT
1 AATACCATACCTACATTTCACAACTCAATAT-GGATAATACCATACCTACATTTCACAACTCAGT
94243406 ATGGATTTG
65 ATGGA--TG
* *
94243415 TTAATACCATACCTACATATCACAACTCAATATGGATGATACCATACCTACATTTCACAACTCAG
1 --AATACCATACCTACATTTCACAACTCAATATGGATAATACCATACCTACATTTCACAACTCAG
94243480 TATGGATG
64 TATGGATG
94243488 -ATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
94243509 CTTTGCCATG
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
70 20 0.25
73 2 0.02
74 3 0.04
75 56 0.69
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.31
Consensus pattern (71 bp):
AATACCATACCTACATTTCACAACTCAATATGGATAATACCATACCTACATTTCACAACTCAGTA
TGGATG
Found at i:94245114 original size:19 final size:20
Alignment explanation
Indices: 94245073--94245116 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
94245063 AAAAAATCAT
* **
94245073 AAAATAAATTTTATTTTATA
1 AAAATAAATTTAAAATTATA
94245093 AAAATAAATTTAAAATTA-A
1 AAAATAAATTTAAAATTATA
94245112 AAAAT
1 AAAAT
94245117 TTTATAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATAAATTTAAAATTATA
Found at i:94245635 original size:3 final size:3
Alignment explanation
Indices: 94245627--94245659 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
94245617 ACAATACATT
94245627 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
94245660 ATGAGCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:94247902 original size:43 final size:42
Alignment explanation
Indices: 94247759--94247904 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 42
94247749 TATTGAGATG
** * *
94247759 TGATTACATGTAAGACCCTGTGTGAAATAGTGGCATTGTACTA
1 TGATTACATGTAAGACCCTGTGTGGGACAGTGGCATCGTAC-A
* *
94247802 TGATTACGTGTAAGACCATGTGTGGGACA-TCGGCATCGTTA-A
1 TGATTACATGTAAGACCCTGTGTGGGACAGT-GGCATCG-TACA
* * * *
94247844 TCGATTTCGTATAAGACCCTGTGTGGGACAGTGGCATCGATACG
1 T-GATTACATGTAAGACCCTGTGTGGGACAGTGGCATCG-TACA
*
94247888 TGATAACATGTAAGACC
1 TGATTACATGTAAGACC
94247905 ATATCAAGGA
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
42 3 0.04
43 76 0.92
44 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
TGATTACATGTAAGACCCTGTGTGGGACAGTGGCATCGTACA
Found at i:94252627 original size:93 final size:93
Alignment explanation
Indices: 94252514--94252685 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
94252504 CGCCCATAAG
* * *
94252514 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAATTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
94252579 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
94252607 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
94252672 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
94252686 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:94252682 original size:46 final size:46
Alignment explanation
Indices: 94252507--94252682 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
94252497 TGTAACCCGC
* * *
94252507 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
94252553 CCATAAGTGAATTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
94252603 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
94252646 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
94252683 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:94258603 original size:49 final size:49
Alignment explanation
Indices: 94258550--94258781 Score: 277
Period size: 49 Copynumber: 4.7 Consensus size: 49
94258540 CTGTTACGCA
*
94258550 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTAGTACACG
* * **
94258599 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAACCATCT-GATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTAG-TACACG
* * * ** * *
94258649 TAGTAGCCTGCGCTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTAGTACACG
* *
94258700 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTAGTACACG
* *
94258749 TAGTAACCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
94258782 TCATAATAGA
Statistics
Matches: 154, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 71 0.46
50 46 0.30
51 36 0.23
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTAGTACACG
Found at i:94258725 original size:101 final size:98
Alignment explanation
Indices: 94258550--94258781 Score: 286
Period size: 100 Copynumber: 2.3 Consensus size: 98
94258540 CTGTTACGCA
* * * *
94258550 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGAGTACACATAGTAGCCTGCACTTA
* * *
94258615 GTATTACACACGTGACCTAACCAT-CTGATACACG
66 GTACTACACACGCGACC-AACCATCCAG-TACACG
* * * *
94258649 TAGTAGCCTGCGCTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGAGTACACATAGTAGCCTGCACT
* **
94258714 TAGTACTACACATGCGACCAATTATCCAGTACACG
64 TAGTACTACACACGCGACCAACCATCCAGTACACG
*
94258749 TAGTAACCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
94258782 TCATAATAGA
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
99 29 0.26
100 42 0.37
101 42 0.37
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCAGTACACG
Found at i:94262950 original size:14 final size:15
Alignment explanation
Indices: 94262930--94262976 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
94262920 GGTATAAGAG
94262930 TATATATATAAAATA
1 TATATATATAAAATA
94262945 TA-ATAT-TAAAAGTA
1 TATATATATAAAA-TA
*
94262959 TATACATAATAAAATA
1 TATATAT-ATAAAATA
94262975 TA
1 TA
94262977 GAAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
13 5 0.19
14 8 0.30
15 5 0.19
16 4 0.15
17 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (15 bp):
TATATATATAAAATA
Found at i:94262967 original size:27 final size:26
Alignment explanation
Indices: 94262911--94262967 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
94262901 AAAATAATAA
** * *
94262911 ATAAAATATGGTATAAGAGTATATAT
1 ATAAAATATAATATAAAAGTATATAC
94262937 ATAAAATATAATATTAAAAGTATATAC
1 ATAAAATATAATA-TAAAAGTATATAC
94262964 ATAA
1 ATAA
94262968 TAAAATATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (26 bp):
ATAAAATATAATATAAAAGTATATAC
Found at i:94263156 original size:3 final size:3
Alignment explanation
Indices: 94263150--94263207 Score: 93
Period size: 3 Copynumber: 20.0 Consensus size: 3
94263140 CATATATTAG
*
94263150 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA -CA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94263196 TAA TAA TAA TAA
1 TAA TAA TAA TAA
94263208 CATAAAGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 3 0.06
3 48 0.94
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:94263208 original size:17 final size:17
Alignment explanation
Indices: 94263131--94263212 Score: 91
Period size: 17 Copynumber: 4.9 Consensus size: 17
94263121 AAATACACAT
94263131 ATAATAA-AACATATATTA
1 ATAATAATAACATA-A-TA
*
94263149 GTAATAAT-A-ATAATA
1 ATAATAATAACATAATA
*
94263164 ATAATAATAATA-ATATA
1 ATAATAATAACATA-ATA
94263181 ATAATAATAACATAATA
1 ATAATAATAACATAATA
94263198 ATAATAATAACATAA
1 ATAATAATAACATAA
94263213 AGTAATGGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
15 9 0.16
16 3 0.05
17 36 0.64
18 8 0.14
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (17 bp):
ATAATAATAACATAATA
Found at i:94263212 original size:14 final size:14
Alignment explanation
Indices: 94263150--94263204 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
94263140 CATATATTAG
94263150 TAATAATAATAATAA
1 TAATAATAATAA-AA
*
94263165 TAATAATAATAATA
1 TAATAATAATAAAA
*
94263179 TAATAATAATAACA
1 TAATAATAATAAAA
94263193 TAATAATAATAA
1 TAATAATAATAA
94263205 TAACATAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
14 26 0.68
15 12 0.32
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATAATAATAAAA
Found at i:94265735 original size:19 final size:18
Alignment explanation
Indices: 94265696--94265735 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
94265686 ACCGACTTAT
*
94265696 AAAAAAAAAGAAGAGGAA
1 AAAAAAAAAGAAAAGGAA
94265714 AAAAAACAAAGAAAAGGGAA
1 AAAAAA-AAAGAAAA-GGAA
94265734 AA
1 AA
94265736 GGAGAACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 7 0.37
20 6 0.32
ACGTcount: A:0.78, C:0.03, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGAAAAGGAA
Found at i:94266839 original size:27 final size:28
Alignment explanation
Indices: 94266802--94266941 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
94266792 AGCATGGCTG
* *
94266802 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
94266828 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
94266856 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
94266883 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
94266910 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
94266937 CCAGA
1 CCAGA
94266942 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:94268581 original size:26 final size:26
Alignment explanation
Indices: 94268545--94268654 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
94268535 CATGAAATTC
94268545 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
94268571 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
94268597 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
94268623 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
94268649 TTATCA
1 TTATCA
94268655 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:94273453 original size:26 final size:26
Alignment explanation
Indices: 94273404--94273454 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
94273394 ATAATTAAAA
*
94273404 ATTATATAATATATATAATGTTTATG
1 ATTATATAATATATAGAATGTTTATG
94273430 ATTATATAATATATAAGAAT-TTTAT
1 ATTATATAATATAT-AGAATGTTTAT
94273455 AAATATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (26 bp):
ATTATATAATATATAGAATGTTTATG
Found at i:94273461 original size:26 final size:26
Alignment explanation
Indices: 94273406--94273461 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
94273396 AATTAAAAAT
* * *
94273406 TATATAATATATATAATGTTTATGAT
1 TATATAATATATAGAATGTTTATAAA
94273432 TATATAATATATAAGAAT-TTTATAAA
1 TATATAATATAT-AGAATGTTTATAAA
94273458 TATA
1 TATA
94273462 ATTAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.46
Consensus pattern (26 bp):
TATATAATATATAGAATGTTTATAAA
Found at i:94273819 original size:22 final size:21
Alignment explanation
Indices: 94273758--94273816 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
94273748 GTAAAATAAT
94273758 TAAAAAAATTAATTAAATTGA
1 TAAAAAAATTAATTAAATTGA
*
94273779 TAAAAAAATGT-ATTCAATTGA
1 TAAAAAAAT-TAATTAAATTGA
94273800 -AAAAAAATTACATTAAA
1 TAAAAAAATTA-ATTAAA
94273817 ATTATTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 1 0.03
20 8 0.24
21 23 0.70
22 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (21 bp):
TAAAAAAATTAATTAAATTGA
Found at i:94275855 original size:7 final size:8
Alignment explanation
Indices: 94275826--94275852 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
94275816 CCCTTTTTCA
94275826 AAAATTTT
1 AAAATTTT
94275834 AAAATTTT
1 AAAATTTT
94275842 AAAATTTT
1 AAAATTTT
94275850 AAA
1 AAA
94275853 TTTAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:94276559 original size:131 final size:132
Alignment explanation
Indices: 94276336--94276842 Score: 407
Period size: 132 Copynumber: 3.8 Consensus size: 132
94276326 GTGAAATTCC
* * * * * *
94276336 AAAGAGATATTCGATTGTTTAGAACAAATGAGAGATTGCAACCCAACGCGATAGGGCACGATTCT
1 AAAGAGATATTCGATCGTTTAGAACAAACGAGAAATTACAACCCAACACGATAGGGCACGATTCC
* * *
94276401 CGAATTGCCAAACATCGAACATAGCCTTTGTTTTAAAGGGTTTTTAATAAACATGAGTGAAAATC
66 CGAATTGCCAAACACCGAACATAGCCTTCGTTTTAAAGGATTTTTAATAAACATGAGTGAAAATC
94276466 TA
131 TA
* * * *
94276468 AAAGA-ATATTCGATCGTTTTGAACAAACGAGAAATTATAACCCAGCACGATAGGGCATGATTCC
1 AAAGAGATATTCGATCGTTTAGAACAAACGAGAAATTACAACCCAACACGATAGGGCACGATTCC
* * * * * * * * *
94276532 CGAATTGTCAAACGCCGAATATTGCCTTCGTTTTAGAGGATTTTTAGA-AGACCTGAATG-GAAT
66 CGAATTGCCAAACACCGAACATAGCCTTCGTTTTAAAGGATTTTTA-ATAAACATGAGTGAAAAT
*
94276595 CTC
130 CTA
* * * ** * * * * *
94276598 GAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGTACGATTCT
1 AAAGAGATATTCGATCGTTTAGAACAAACGAGAAATTACAACCCAACACGATAGGGCACGATTC-
* * * * * * * *
94276663 GCGAATTGCCAAATATCGAACTTTGCCTTCGTTTTAAAGAATTTTTAA-AAGGCATGAGTGAAAG
65 CCGAATTGCCAAACACCGAACATAGCCTTCGTTTTAAAGGATTTTTAATAA-ACATGAGTGAAAA
*
94276727 T-TT
129 TCTA
* * ** * * * * *
94276730 GAAGGGATATTCGATTATTTCA-AGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTC
1 AAAGAGATATTCGATCGTTT-AGAACAAACGAGAAATTACAACCCAACACGATAGGGCACGATTC
* * * * *
94276794 CGCGAATTGCCAAATATCGAATC-TTGTCTTCGTTTTAAAGAATTTTTAA
65 C-CGAATTGCCAAACACCGAA-CATAGCCTTCGTTTTAAAGGATTTTTAA
94276843 ATGTATAATC
Statistics
Matches: 309, Mismatches: 58, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
130 8 0.03
131 145 0.47
132 153 0.50
133 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (132 bp):
AAAGAGATATTCGATCGTTTAGAACAAACGAGAAATTACAACCCAACACGATAGGGCACGATTCC
CGAATTGCCAAACACCGAACATAGCCTTCGTTTTAAAGGATTTTTAATAAACATGAGTGAAAATC
TA
Found at i:94276739 original size:132 final size:131
Alignment explanation
Indices: 94276341--94276843 Score: 512
Period size: 131 Copynumber: 3.8 Consensus size: 131
94276331 ATTCCAAAGA
* * * * *
94276341 GATATTCGATTGTTTAGAACAAATGAGAGATTGCAACCCAACGCGATAGGGCACGATTCT-CGAA
1 GATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTCTGCGAA
* * * ** * *
94276405 TTGCCAAACATCGAACATAGCCTTTGTTTTAAAGGGTTTTTAATAA-ACATGAGTGAAAATCTAA
66 TTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAA-AAGACATGAGTG-AAATTTGA
*
94276469 AAG
129 AGG
* ** ** * * *
94276472 AATATTCGATCGTTTTGAACAAACGAGAAATTATAACCCAGCACGATAGGGCATGATTC-CCGAA
1 GATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTCTGCGAA
* ** * * * * * * *
94276536 TTGTCAAACGCCGAATATTGCCTTCGTTTTAGAGGATTTTTAGAAGACCTGAATGGAATCTCGAA
66 TTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAAT-TTGAA
94276601 GG
130 GG
* * * *
94276603 GATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGTACGATTCTGCGAA
1 GATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTCTGCGAA
* *
94276668 TTGCCAAATATCGAACT-TTGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGTTTGA
66 TTGCCAAACATCGAA-TATTGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAA-TTTGA
94276732 AGG
129 AGG
* * * * *
94276735 GATATTCGATTA-TTTCAAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCCGCGA
1 GATATTCGATTATTTTGAA-CAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTCTGCGA
* * *
94276799 ATTGCCAAATATCGAATCTTGTCTTCGTTTTAAAGAATTTTTAAA
65 ATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAAA
94276844 TGTATAATCA
Statistics
Matches: 306, Mismatches: 58, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
130 5 0.02
131 150 0.49
132 149 0.49
133 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (131 bp):
GATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTCTGCGAA
TTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAATTTGAAG
G
Found at i:94282278 original size:72 final size:73
Alignment explanation
Indices: 94282193--94282334 Score: 216
Period size: 73 Copynumber: 2.0 Consensus size: 73
94282183 TTAAAATAAT
* *
94282193 ATATCTTAATAATTCAATTATTTAAATTTGTTC-TTGTTTTATCCCAATAC-CGTTTTTGCCTTC
1 ATATCTTAATAATTCAATTATTTAAATTTATTCTTTGTTTTATCCAAATACAC-TTTTTGCCTTC
94282256 AAAAATCAC
65 AAAAATCAC
** *
94282265 ATATCTTGTTAATTTAATTATTTAAATTTATTCTTTGTTTTATCCAAATACACTTTTTGCCTTCA
1 ATATCTTAATAATTCAATTATTTAAATTTATTCTTTGTTTTATCCAAATACACTTTTTGCCTTCA
94282330 AAAAT
66 AAAAT
94282335 TAAAAGAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
72 29 0.46
73 33 0.52
74 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (73 bp):
ATATCTTAATAATTCAATTATTTAAATTTATTCTTTGTTTTATCCAAATACACTTTTTGCCTTCA
AAAATCAC
Found at i:94285164 original size:25 final size:25
Alignment explanation
Indices: 94285136--94285214 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
94285126 ACTCGGCCCT
*
94285136 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
94285161 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
94285183 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
94285208 ATCACAT
1 ATCACAT
94285215 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:94285317 original size:49 final size:47
Alignment explanation
Indices: 94285086--94285722 Score: 621
Period size: 49 Copynumber: 13.7 Consensus size: 47
94285076 CCCTTCGGGA
* * * * * * *
94285086 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
94285133 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94285180 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94285227 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94285273 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94285322 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94285371 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * **
94285418 CTTATCACATATGATGTGC-CATT-AGGCCTT-ATCACAT-----ATATATAC
1 CTTATCACATAT-A--TACACTTTCA--CATTCATCACATCGGCCAT-TAGGC
* * ** * *
94285463 ATTTTCAC--AT-T-CA---TCACA-TCGGC-CATTAGGCC-TTA-TC
1 CTTATCACATATATACACTTTCACATTCATCACA-TCGGCCATTAGGC
* * *
94285500 ACATATATAT-ACATTTTTACAT--------TCATCACATCGGCCATTAGGC
1 -C---T-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94285543 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94285592 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
94285641 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
94285690 CTTATCACATATATATACACTTTCACATTCATC
1 CTTATCAC--ATATATACACTTTCACATTCATC
94285723 GCATAAAATC
Statistics
Matches: 511, Mismatches: 33, Indels: 90
0.81 0.05 0.14
Matches are distributed among these distances:
34 3 0.01
35 3 0.01
36 1 0.00
37 2 0.00
38 6 0.01
39 5 0.01
41 18 0.04
42 8 0.02
43 4 0.01
44 3 0.01
45 11 0.02
46 36 0.07
47 158 0.31
48 12 0.02
49 230 0.45
50 5 0.01
51 6 0.01
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.