Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 273 of 352
Found at i:89557075 original size:19 final size:19
Alignment explanation
Indices: 89557038--89557079 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
89557028 AGTTTTTCAT
* *
89557038 TTTTCTATATTTTTTATTA
1 TTTTCTATATTTCTAATTA
89557057 TTTTCTATATTTCTAATTA
1 TTTTCTATATTTCTAATTA
89557076 TTTT
1 TTTT
89557080 AAATATAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTCTATATTTCTAATTA
Found at i:89565448 original size:38 final size:38
Alignment explanation
Indices: 89565346--89565449 Score: 163
Period size: 38 Copynumber: 2.7 Consensus size: 38
89565336 TTTAAGCTTA
* * *
89565346 GATATAATACCAGCACTAGGCCTGCGAGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
89565384 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
* *
89565422 GATATATTACCAGCGCGAAGCCTGCGGG
1 GATATAATACCAGCACGAAGCCTGCGGG
89565450 TCTTTAAGCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.19
Consensus pattern (38 bp):
GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
Found at i:89571363 original size:38 final size:38
Alignment explanation
Indices: 89571244--89571367 Score: 158
Period size: 38 Copynumber: 3.2 Consensus size: 38
89571234 CAGCATAAAA
* * * *
89571244 CCTGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGG
1 CCTGCGGGA-TTTAA-CCCGGATATAATACCAGCACGAAG
* * *
89571284 CCTACGAGATTTAACCCGGATATAATACTAGCACGAAG
1 CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
*
89571322 CCTGCGGGATTTAACCCGGATATATTACCAGCACGAAG
1 CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
89571360 CCTGCGGG
1 CCTGCGGG
89571368 TCTTTAAGCC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 61 0.84
39 5 0.07
40 7 0.10
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (38 bp):
CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
Found at i:89577762 original size:155 final size:155
Alignment explanation
Indices: 89577476--89577786 Score: 604
Period size: 155 Copynumber: 2.0 Consensus size: 155
89577466 TAGAAGCCCA
89577476 AATAATCTCAGGCCCATTTTAACCTAAACCTACCCCAACCCATACAAAGACCCATTAAACCCAAA
1 AATAATCTCAGGCCCATTTTAACCTAAACCTACCCCAACCCATACAAAGACCCATTAAACCCAAA
89577541 CCCAATTAACATATCCCAAGCCCAAACTAACCATAATAGCCCAAATCAAAAAAAAAAAAAGAAAA
66 CCCAATTAACATATCCCAAGCCCAAACTAACCATAATAGCCCAAATCAAAAAAAAAAAAAGAAAA
89577606 AAGAAACAAAAACCCTAGGTGCGCC
131 AAGAAACAAAAACCCTAGGTGCGCC
*
89577631 AATAATCTCAGGCCCATTTTAACCTAAACCTACCCCAACCCATATAAAGACCCATTAAACCCAAA
1 AATAATCTCAGGCCCATTTTAACCTAAACCTACCCCAACCCATACAAAGACCCATTAAACCCAAA
89577696 CCCAATTAACATATCCCAAGCCCAAACTAACCATAATAGCCCAAATCAAAAAAAAAGAAAAGAAA
66 CCCAATTAACATATCCCAAGCCCAAACTAACCATAATAGCCCAAATCAAAAAAAAA-AAAAGAAA
89577761 AAAGAAACAAAAACCCTAGGTGCGCC
130 AAAGAAACAAAAACCCTAGGTGCGCC
89577787 GCACCTAGGT
Statistics
Matches: 154, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
155 120 0.78
156 34 0.22
ACGTcount: A:0.48, C:0.30, G:0.07, T:0.14
Consensus pattern (155 bp):
AATAATCTCAGGCCCATTTTAACCTAAACCTACCCCAACCCATACAAAGACCCATTAAACCCAAA
CCCAATTAACATATCCCAAGCCCAAACTAACCATAATAGCCCAAATCAAAAAAAAAAAAAGAAAA
AAGAAACAAAAACCCTAGGTGCGCC
Found at i:89578190 original size:15 final size:15
Alignment explanation
Indices: 89578161--89578190 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89578151 ATATATATAT
*
89578161 TAAAAATACAAAAAA
1 TAAAAATAAAAAAAA
89578176 TAAAAATAAAAAAAA
1 TAAAAATAAAAAAAA
89578191 AGAAGAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (15 bp):
TAAAAATAAAAAAAA
Found at i:89578832 original size:3 final size:3
Alignment explanation
Indices: 89578819--89578893 Score: 53
Period size: 3 Copynumber: 23.7 Consensus size: 3
89578809 CCATTATTTA
* * * *
89578819 TAT TGT TAT TAT TAT TAT TAA TAT TAT TAT TAG TA- TAT GTTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
*
89578864 TAT GTAT ATATT TAT GTAG TAT TAT TAT TA
1 TAT -TAT -TA-T TAT -TAT TAT TAT TAT TA
89578894 GTCGTTTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
2 2 0.04
3 43 0.75
4 11 0.19
5 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:89578966 original size:13 final size:12
Alignment explanation
Indices: 89578947--89579047 Score: 62
Period size: 13 Copynumber: 8.0 Consensus size: 12
89578937 TACTATATTA
89578947 TATATATATTTT
1 TATATATATTTT
* *
89578959 TCATATATGTTATG
1 T-ATATATATT-TT
89578973 TATATATATATTT
1 TATATATAT-TTT
*
89578986 TA-ATATTATATT
1 TATATA-TATTTT
*
89578998 TATATATATTAT
1 TATATATATTTT
*
89579010 TATGTATATATTT
1 TATATATAT-TTT
*
89579023 TA-ATATTATTAGT
1 TATATA-TATT-TT
*
89579036 TATATATCTTTT
1 TATATATATTTT
89579048 ATACTATTGT
Statistics
Matches: 67, Mismatches: 13, Indels: 18
0.68 0.13 0.18
Matches are distributed among these distances:
12 24 0.36
13 37 0.55
14 6 0.09
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (12 bp):
TATATATATTTT
Found at i:89578981 original size:37 final size:38
Alignment explanation
Indices: 89578940--89579042 Score: 86
Period size: 39 Copynumber: 2.6 Consensus size: 38
89578930 TATTTAATAC
* *
89578940 TATATTATATATATATTTTTCATATA-TGTTATGTATATA
1 TATATTATATATATATTTAT-ATATATTATTATG-ATATA
*
89578979 TATATTTTAATATTATATTTATATATATTATTATG-TATA
1 TATATTAT-ATA-TATATTTATATATATTATTATGATATA
* *
89579018 TATTTTA-ATATTATTAGTTATATAT
1 TATATTATATA-TA-TATTTATATAT
89579043 CTTTTATACT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
37 6 0.11
38 10 0.19
39 16 0.30
40 8 0.15
41 14 0.26
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (38 bp):
TATATTATATATATATTTATATATATTATTATGATATA
Found at i:89579038 original size:26 final size:25
Alignment explanation
Indices: 89578992--89579065 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 25
89578982 ATTTTAATAT
89578992 TATA-TTTATATATATTA-TTATGTA
1 TATATTTTATAT-TATTAGTTATGTA
89579016 TATATTTTAATATTATTAGTTA--TA
1 TATATTTT-ATATTATTAGTTATGTA
* *
89579040 TATCTTTTATACTATT-G-TATGTA
1 TATATTTTATATTATTAGTTATGTA
89579063 TAT
1 TAT
89579066 TTCTAATGCT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
21 2 0.05
22 1 0.02
23 12 0.28
24 13 0.30
25 8 0.19
26 7 0.16
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (25 bp):
TATATTTTATATTATTAGTTATGTA
Found at i:89579186 original size:9 final size:9
Alignment explanation
Indices: 89579172--89579214 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
89579162 CTAACATATG
89579172 TATATATTA
1 TATATATTA
89579181 TATATATTA
1 TATATATTA
*
89579190 TGTATA-TA
1 TATATATTA
89579198 T-TATTATTA
1 TATA-TATTA
89579207 TATATATT
1 TATATATT
89579215 TTTATCCCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
7 2 0.07
8 5 0.17
9 21 0.70
10 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
TATATATTA
Found at i:89579195 original size:11 final size:11
Alignment explanation
Indices: 89579168--89579201 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
89579158 ATTTCTAACA
89579168 TATGTATATAT
1 TATGTATATAT
89579179 TA--TATATAT
1 TATGTATATAT
89579188 TATGTATATAT
1 TATGTATATAT
89579199 TAT
1 TAT
89579202 TATTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (11 bp):
TATGTATATAT
Found at i:89579214 original size:15 final size:15
Alignment explanation
Indices: 89579179--89579219 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
89579169 ATGTATATAT
*
89579179 TATATA-TATTA-TG
1 TATATATTATTATTA
89579192 TATATATTATTATTA
1 TATATATTATTATTA
*
89579207 TATATATTTTTAT
1 TATATATTATTAT
89579220 CCCTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 6 0.25
14 5 0.21
15 13 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TATATATTATTATTA
Found at i:89579443 original size:3 final size:3
Alignment explanation
Indices: 89579393--89579428 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
89579383 TATATACATC
*
89579393 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89579429 GTATATGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:89579460 original size:21 final size:21
Alignment explanation
Indices: 89579417--89579476 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
89579407 ATTATTATAA
*
89579417 TTATTAT-TAT-TAGTATATGT
1 TTATTATATATGTA-TATATCT
89579437 TTATTATATATGTATATATCT
1 TTATTATATATGTATATATCT
89579458 TTAATATATATATGTATAT
1 TT-AT-TATATATGTATAT
89579477 GTTTATGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 7 0.20
21 11 0.31
22 4 0.11
23 13 0.37
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATTATATATGTATATATCT
Found at i:89579481 original size:21 final size:21
Alignment explanation
Indices: 89579429--89579481 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
89579419 ATTATTATTA
* *
89579429 GTATATGTTTATTATATATGT
1 GTATATGTTTAATATATATAT
* *
89579450 ATATATCTTTAATATATATAT
1 GTATATGTTTAATATATATAT
89579471 GTATATGTTTA
1 GTATATGTTTA
89579482 TGCAATGTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (21 bp):
GTATATGTTTAATATATATAT
Found at i:89583503 original size:22 final size:22
Alignment explanation
Indices: 89583478--89583533 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
89583468 ATTCATGACT
*
89583478 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTCATTC
*
89583500 AACATTCATTTGTCATTCATTC
1 AACATTCATTCGTCATTCATTC
*
89583522 ATTCATTCATTC
1 A-ACATTCATTC
89583534 ATTGTATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.27, C:0.23, G:0.04, T:0.46
Consensus pattern (22 bp):
AACATTCATTCGTCATTCATTC
Found at i:89583519 original size:4 final size:4
Alignment explanation
Indices: 89583512--89583536 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
89583502 CATTCATTTG
89583512 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
89583537 GTATGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:89588334 original size:21 final size:21
Alignment explanation
Indices: 89588308--89588370 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
89588298 TCGATGTTAG
89588308 TACCTCCAACTCCAGGAAGAC
1 TACCTCCAACTCCAGGAAGAC
89588329 TACCTCCAACTCCAGGAAGAC
1 TACCTCCAACTCCAGGAAGAC
89588350 TACCTCCAACTCCAGGAAGAC
1 TACCTCCAACTCCAGGAAGAC
89588371 CGTTAATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.33, C:0.38, G:0.14, T:0.14
Consensus pattern (21 bp):
TACCTCCAACTCCAGGAAGAC
Found at i:89591638 original size:75 final size:76
Alignment explanation
Indices: 89591421--89591640 Score: 256
Period size: 75 Copynumber: 2.9 Consensus size: 76
89591411 TTCTGTTTTC
* *
89591421 AAAAAATCAACTCATATTGCT-AGAGGTGAGTTGAGCCTCA--AGATGCATTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTG-TGAGAGGTGAGTTGAGCCTCAGGACATGCA--GAAGTATTTTCAA
* *
89591483 TTTCTG-TCTTTCA
63 TTTCTGTTCTATAA
* * * *
89591496 AAAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCAGGACACGCAGAAGTAATTTT-AATT
1 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGCAGAAGT-ATTTTCAATT
89591560 TCTGTTC-ATAA
65 TCTGTTCTATAA
* *
89591571 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGCCA-ATGTATTTTCAAAT
1 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATG-CAGAAGTATTTTCAATT
89591635 TCTGTT
65 TCTGTT
89591641 TTAATATCTA
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
74 5 0.04
75 105 0.85
76 9 0.07
77 5 0.04
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (76 bp):
AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGCAGAAGTATTTTCAATTT
CTGTTCTATAA
Found at i:89591861 original size:173 final size:173
Alignment explanation
Indices: 89591572--89591917 Score: 434
Period size: 173 Copynumber: 2.0 Consensus size: 173
89591562 TGTTCATAAA
* * * * *
89591572 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGCCAATGTATTTTCAAATTC
1 AAAAATCAACTCATATGGCGAGAAGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTCAAATTC
* *
89591637 TGTTTTAATATCTATTTTTCAAAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAACCTTGGCTC
66 TGTTTTAATATCTAGTTTTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAACCTTGGCTC
* *
89591702 ACACGCCGAGGTATT-TCAATTTCTGTTTTTAATGTCTGTTTTC
130 ACACGCCGAGCTATTCTCAATTTCTATTTTTAATGTCTGTTTTC
*
89591745 AAAAATCAACTCATATGGCGAGAAGTGAGTTGAGCCT-TGGCTCACACGCCAAGGTATTTTC-AA
1 AAAAATCAACTCATATGGCGAGAAGTGAGTTGAGCCTCAGG---ACACGCCAAGGTATTTTCAAA
* * *
89591808 TTCCTGTTTCTCA-AT-TACGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
63 TT-CTGTTT-TAATATCTA-GTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAACCTT
** * *
89591870 GGCTCACGTGCTGAGCTATTCTCAATTTCTATTTTTAATGTCTTTTTT
125 GGCTCACACGCCGAGCTATTCTCAATTTCTATTTTTAATGTCTGTTTT
89591918 TTAAAAAAAA
Statistics
Matches: 149, Mismatches: 17, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
172 2 0.01
173 85 0.57
174 31 0.21
175 29 0.19
176 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (173 bp):
AAAAATCAACTCATATGGCGAGAAGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTCAAATTC
TGTTTTAATATCTAGTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAACCTTGGCTCA
CACGCCGAGCTATTCTCAATTTCTATTTTTAATGTCTGTTTTC
Found at i:89592003 original size:97 final size:92
Alignment explanation
Indices: 89591568--89592055 Score: 413
Period size: 87 Copynumber: 5.4 Consensus size: 92
89591558 TTTCTGTTCA
* * * * **
89591568 TAAAAAA-AATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG---ACATGCCAATG-TATT
1 TAAAAAAGAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGCTGA-GCTATT
* * * *
89591628 TTCAAATTCT-GTTTTAATATCTATTTTT
64 CTCAATTTCTATTTTTAATGTCTATTTTT
* * * * ** * *
89591656 CAAAAAA-A-TCAGCTCATATTGCGAAAGGTGAGTTGAACCTTGGCTCACACGCCGAGGTATT-T
1 TAAAAAAGAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTCT
* *
89591718 CAATTTCTGTTTTTAATGTC--TGTTT
66 CAATTTCTATTTTTAATGTCTATTTTT
* * * ** ** * *
89591743 T-CAAAA-A-TCAACTCATATGGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTT
1 TAAAAAAGAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTCT
* * * **
89591805 CAATTCCTGTTTCTCAA--T-TACGTTT
66 CAATTTCTATTT-TTAATGTCTATTTTT
*
89591830 T-CAAAA-A-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTCT
1 TAAAAAAGAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTCT
*
89591892 CAATTTCTATTTTTAATGTCTTTTTTT
66 CAATTTCTATTTTTAATGTCTATTTTT
*
89591919 TAAAAAAAAAAAGAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGCT
1 T-----AAAAAAGAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCT
89591984 ATTCTCAATTTCTATTTTTAATGTCTATTTTT
61 ATTCTCAATTTCTATTTTTAATGTCTATTTTT
* *
89592016 TAAAAAAGAGTCAGCTCATATTGCGAGAAGTGAGTTGAGC
1 TAAAAAAGAGTCAACTCATATTGCGAGAGGTGAGTTGAGC
89592056 TTAGGATTAC
Statistics
Matches: 338, Mismatches: 42, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
86 58 0.17
87 112 0.33
88 20 0.06
89 25 0.07
92 37 0.11
95 4 0.01
96 1 0.00
97 81 0.24
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (92 bp):
TAAAAAAGAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTCT
CAATTTCTATTTTTAATGTCTATTTTT
Found at i:89593696 original size:3 final size:3
Alignment explanation
Indices: 89593683--89593760 Score: 59
Period size: 3 Copynumber: 24.7 Consensus size: 3
89593673 CCATTATTTA
* * * * *
89593683 TAT TGT TAT TAT TAT TAT TAA TAA TAT TAT TAT TAG TA- TAT GTTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
89593728 TAT TAT GTAT ATATT TAT GTAT TAT TAT TAT TA
1 TAT TAT -TAT -TA-T TAT -TAT TAT TAT TAT TA
89593761 GTCGCTTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
2 2 0.03
3 47 0.76
4 12 0.19
5 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:89593842 original size:26 final size:24
Alignment explanation
Indices: 89593800--89593872 Score: 87
Period size: 24 Copynumber: 3.0 Consensus size: 24
89593790 ATTGTAAATA
*
89593800 TTTAATACTATAT-TATATATATT
1 TTTAATATTATATGTATATATATT
89593823 TTTCATATATGT-TATGTATATATATT
1 TTT-A-ATAT-TATATGTATATATATT
*
89593849 TTTAATATTATATTTATATATATT
1 TTTAATATTATATGTATATATATT
89593873 ATTATGTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
23 4 0.09
24 18 0.42
25 7 0.16
26 14 0.33
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (24 bp):
TTTAATATTATATGTATATATATT
Found at i:89593878 original size:40 final size:36
Alignment explanation
Indices: 89593817--89593907 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 36
89593807 CTATATTATA
* *
89593817 TATATTTTTCATATATGTTATGTATATATATTTTTAATAT
1 TATATTTAT-ATATATATTATG--TATATA-TTTTAATAT
89593857 TATATTTATATATATTATTATGTATATATTTTAATAT
1 TATATTTATATATA-TATTATGTATATATTTTAATAT
*
89593894 TATTAGTTATATAT
1 TA-TATTTATATAT
89593908 CTTTTATACT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
37 11 0.24
38 16 0.35
39 5 0.11
40 14 0.30
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (36 bp):
TATATTTATATATATATTATGTATATATTTTAATAT
Found at i:89593884 original size:24 final size:24
Alignment explanation
Indices: 89593808--89593930 Score: 78
Period size: 24 Copynumber: 5.1 Consensus size: 24
89593798 TATTTAATAC
* *
89593808 TATA-TTATATATATTTTTCATATA
1 TATATTTATATATATTATT-ATGTA
* * * *
89593832 TGTTATGTATATATATTTTTA-ATA
1 T-ATATTTATATATATTATTATGTA
89593856 TTATATTTATATATATTATTATGTA
1 -TATATTTATATATATTATTATGTA
89593881 TATATTT-TA-ATATTATTA-GTTA
1 TATATTTATATATATTATTATG-TA
* *
89593903 TATATCTTTTATACTATT-GTATGTA
1 TATAT-TTATATA-TATTATTATGTA
89593928 TAT
1 TAT
89593931 TTCTAATGCT
Statistics
Matches: 82, Mismatches: 7, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
21 1 0.01
22 16 0.20
23 4 0.05
24 29 0.35
25 14 0.17
26 18 0.22
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (24 bp):
TATATTTATATATATTATTATGTA
Found at i:89593929 original size:23 final size:25
Alignment explanation
Indices: 89593857--89593977 Score: 73
Period size: 24 Copynumber: 5.2 Consensus size: 25
89593847 TTTTTAATAT
*
89593857 TATA-TTTATATA-TATTATTATGTA
1 TATATTTTA-ATACTATTAGTATGTA
* *
89593881 TATATTTTAATATTATTAGT-TATA
1 TATATTTTAATACTATTAGTATGTA
*
89593905 TATCTTTT-ATACTATT-GTATGTA
1 TATATTTTAATACTATTAGTATGTA
* *
89593928 TAT-TTCTAATGCTA-TA-T-TGTA
1 TATATTTTAATACTATTAGTATGTA
* * * *
89593949 TAT-TTCTAATACCATTATTATTTA
1 TATATTTTAATACTATTAGTATGTA
89593973 TATAT
1 TATAT
89593978 ATATGTACGT
Statistics
Matches: 78, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
21 16 0.21
22 9 0.12
23 19 0.24
24 23 0.29
25 11 0.14
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (25 bp):
TATATTTTAATACTATTAGTATGTA
Found at i:89594054 original size:11 final size:11
Alignment explanation
Indices: 89594038--89594084 Score: 94
Period size: 11 Copynumber: 4.3 Consensus size: 11
89594028 ATTTCTAACA
89594038 TATGTATATAT
1 TATGTATATAT
89594049 TATGTATATAT
1 TATGTATATAT
89594060 TATGTATATAT
1 TATGTATATAT
89594071 TATGTATATAT
1 TATGTATATAT
89594082 TAT
1 TAT
89594085 TATTATATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (11 bp):
TATGTATATAT
Found at i:89594065 original size:22 final size:22
Alignment explanation
Indices: 89594038--89594092 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
89594028 ATTTCTAACA
89594038 TATGTATATATTATGTATATAT
1 TATGTATATATTATGTATATAT
89594060 TATGTATATATTATGTATATAT
1 TATGTATATATTATGTATATAT
89594082 TAT-TATTATAT
1 TATGTA-TATAT
89594093 CTATTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.56
Consensus pattern (22 bp):
TATGTATATATTATGTATATAT
Found at i:89594091 original size:11 final size:11
Alignment explanation
Indices: 89594044--89594148 Score: 60
Period size: 11 Copynumber: 9.5 Consensus size: 11
89594034 AACATATGTA
89594044 TATATTATGTA-
1 TATATTAT-TAT
89594055 TATATTATGTA-
1 TATATTAT-TAT
89594066 TATATTATGTA-
1 TATATTAT-TAT
89594077 TATATTATTAT
1 TATATTATTAT
89594088 TATATCTATT-T
1 TATAT-TATTAT
***
89594099 T-TATCCCTAT
1 TATATTATTAT
89594109 TATATTTATTAT
1 TATA-TTATTAT
* *
89594121 TAATATTAGTACA
1 T-ATATTATTA-T
89594134 TATATT-TTAT
1 TATATTATTAT
89594144 TATAT
1 TATAT
89594149 GGGTATATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
9 1 0.01
10 12 0.16
11 41 0.53
12 19 0.25
13 4 0.05
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (11 bp):
TATATTATTAT
Found at i:89594328 original size:21 final size:21
Alignment explanation
Indices: 89594285--89594344 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
89594275 CTTTTTATTA
*
89594285 TTATTAT-TAT-TAGTATATGT
1 TTATTATATATGTA-TATATCT
89594305 TTATTATATATGTATATATCT
1 TTATTATATATGTATATATCT
89594326 TTAATATATATATGTATAT
1 TT-AT-TATATATGTATAT
89594345 GTTTATGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 7 0.20
21 11 0.31
22 4 0.11
23 13 0.37
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATTATATATGTATATATCT
Found at i:89594349 original size:21 final size:21
Alignment explanation
Indices: 89594297--89594349 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
89594287 ATTATTATTA
* *
89594297 GTATATGTTTATTATATATGT
1 GTATATGTTTAATATATATAT
* *
89594318 ATATATCTTTAATATATATAT
1 GTATATGTTTAATATATATAT
89594339 GTATATGTTTA
1 GTATATGTTTA
89594350 TGCAATGTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (21 bp):
GTATATGTTTAATATATATAT
Found at i:89599172 original size:18 final size:18
Alignment explanation
Indices: 89599149--89599192 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
89599139 TTCTCTTCTC
89599149 CTTGATTTTCCACTCGTT
1 CTTGATTTTCCACTCGTT
89599167 CTTGATTTTCCACTCGTT
1 CTTGATTTTCCACTCGTT
*
89599185 CTTAATTT
1 CTTGATTT
89599193 AAAATAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.25, G:0.09, T:0.52
Consensus pattern (18 bp):
CTTGATTTTCCACTCGTT
Found at i:89602883 original size:43 final size:43
Alignment explanation
Indices: 89602822--89602908 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
89602812 TAATCCATAC
*
89602822 CCTTCTCTTAGATTCTCAATCAAACCACCCTTCTCACCAGCTT
1 CCTTCTCTAAGATTCTCAATCAAACCACCCTTCTCACCAGCTT
89602865 CCTTCTCTAAGATTCTCAATCAAACCACCCTTCTCACCAGCTT
1 CCTTCTCTAAGATTCTCAATCAAACCACCCTTCTCACCAGCTT
89602908 C
1 C
89602909 GTCCTCTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.40, G:0.05, T:0.31
Consensus pattern (43 bp):
CCTTCTCTAAGATTCTCAATCAAACCACCCTTCTCACCAGCTT
Found at i:89603702 original size:2 final size:2
Alignment explanation
Indices: 89603695--89603725 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
89603685 TGACCCAAGG
89603695 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
89603726 GTCTGGGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:89606998 original size:12 final size:12
Alignment explanation
Indices: 89606976--89607004 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
89606966 AATACATCAA
89606976 AAATA-CAAAAT
1 AAATATCAAAAT
89606987 AAATATCAAAAT
1 AAATATCAAAAT
89606999 AAATAT
1 AAATAT
89607005 TTCCCAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATATCAAAAT
Found at i:89607114 original size:30 final size:30
Alignment explanation
Indices: 89607080--89607142 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
89607070 ACTTAACAAG
89607080 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
89607110 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
89607140 CAA
1 CAA
89607143 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:89613565 original size:243 final size:243
Alignment explanation
Indices: 89613137--89613625 Score: 798
Period size: 243 Copynumber: 2.0 Consensus size: 243
89613127 AAGATAGTGG
* * *
89613137 CTTGATACATGCCTTGGAGCCTTATCCTATTTCTTCATTTTCTATTTGAGTTTTGTTCATATGTT
1 CTTGATACAAGCCTTGGAGCCTTATCCTATTTCTTCATTTTCTATTCGAGTTTCGTTCATATGTT
* * * *
89613202 CGAGATTTTCCTCGCCAGAGACTTGTACTAACAATTTTAAGGTTATATTTCATGATGGCTACCAC
66 CGAGATTTTCCTCACCAGAGACTTGTAATAACAATTTTAAGGTTATATTTCATAATGGCCACCAC
* * * * * *
89613267 AACATATGAAAGTGGAATACTAAGGGAGTTGGCTTCCAACTTTGTCAAACTTGATCGGTTTGATG
131 AACACATAAAAGCGGAACACTAAGGAAGTTGGCTTCCAACTTTGTCAAACTTGATCGGTTTGATA
* *
89613332 GTGGCAGTTTCCGACGATGGCAGAAAAAGATGCATTTCTTATTGTCAA
196 GTGGCAATTTCCGACGATGGCAGAAAAAGATGCATTTCTTATTATCAA
*
89613380 CTTGATACAAGCGTTGGAGCCTTATCCTATTTCTTCATTTTCTATTCGAGTTTCGTTCATATGTT
1 CTTGATACAAGCCTTGGAGCCTTATCCTATTTCTTCATTTTCTATTCGAGTTTCGTTCATATGTT
* *
89613445 CGAGATTTTCCTCACCAGATATTTGTAATAACAATTTTAAGGTTATATTTCATAATGGCCACCAC
66 CGAGATTTTCCTCACCAGAGACTTGTAATAACAATTTTAAGGTTATATTTCATAATGGCCACCAC
89613510 AACACATAAAAGCGGAACACTAAGGAAGTTGGCTTCCAACTTTGTCAAACTTGATCGGTTTGATA
131 AACACATAAAAGCGGAACACTAAGGAAGTTGGCTTCCAACTTTGTCAAACTTGATCGGTTTGATA
* *
89613575 GTGGCAATTTTCGACGATGGCAGAAAAAGATGCATTTTTTATTATCAA
196 GTGGCAATTTCCGACGATGGCAGAAAAAGATGCATTTCTTATTATCAA
89613623 CTT
1 CTT
89613626 TGAAGATTGC
Statistics
Matches: 226, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
243 226 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (243 bp):
CTTGATACAAGCCTTGGAGCCTTATCCTATTTCTTCATTTTCTATTCGAGTTTCGTTCATATGTT
CGAGATTTTCCTCACCAGAGACTTGTAATAACAATTTTAAGGTTATATTTCATAATGGCCACCAC
AACACATAAAAGCGGAACACTAAGGAAGTTGGCTTCCAACTTTGTCAAACTTGATCGGTTTGATA
GTGGCAATTTCCGACGATGGCAGAAAAAGATGCATTTCTTATTATCAA
Found at i:89616295 original size:20 final size:18
Alignment explanation
Indices: 89616254--89616297 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
89616244 CTTTAGCCAT
* *
89616254 AATTTTTATTTTTTATTT
1 AATTTTTATTTTTTACTA
89616272 AATTTTGTATTTATTTACTA
1 AATTTT-TATTT-TTTACTA
89616292 AATTTT
1 AATTTT
89616298 CTTTTTCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 5 0.23
20 11 0.50
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
AATTTTTATTTTTTACTA
Found at i:89623003 original size:16 final size:16
Alignment explanation
Indices: 89622969--89623040 Score: 67
Period size: 17 Copynumber: 4.5 Consensus size: 16
89622959 TATCATCCTC
*
89622969 TTCTTTT-CTTTGA-T
1 TTCTTTTACTTTTATT
89622983 TTCTTTTACTTTTATT
1 TTCTTTTACTTTTATT
*
89622999 TTCTTTTATTCTTTATT
1 TTCTTTTACT-TTTATT
* *
89623016 TTATTTTAATTTTATCT
1 TTCTTTTACTTTTAT-T
*
89623033 CTCTTTTA
1 TTCTTTTA
89623041 TTAATCCTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
14 7 0.15
15 5 0.10
16 15 0.31
17 21 0.44
ACGTcount: A:0.14, C:0.12, G:0.01, T:0.72
Consensus pattern (16 bp):
TTCTTTTACTTTTATT
Found at i:89623028 original size:23 final size:23
Alignment explanation
Indices: 89622987--89623042 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
89622977 TTTGATTTCT
*
89622987 TTTACTTTTATTTTCTTTTATTC
1 TTTACTTTTATTTTATTTTATTC
89623010 TTTA-TTTTATTTTAATTTTA-TC
1 TTTACTTTTATTTT-ATTTTATTC
*
89623032 TCT-CTTTTATT
1 TTTACTTTTATT
89623043 AATCCTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTACTTTTATTTTATTTTATTC
Found at i:89624672 original size:11 final size:11
Alignment explanation
Indices: 89624658--89624699 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
89624648 TTTAGATTGT
89624658 TTTTCTTTTTC
1 TTTTCTTTTTC
89624669 TTTTCTTTTT-
1 TTTTCTTTTTC
*
89624679 TTTTATTTTTGC
1 TTTTCTTTTT-C
*
89624691 ATTTCTTTT
1 TTTTCTTTT
89624700 GGACTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:89634183 original size:99 final size:100
Alignment explanation
Indices: 89634007--89634241 Score: 294
Period size: 99 Copynumber: 2.4 Consensus size: 100
89633997 TGTGAGGTAG
* *
89634007 CATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCAAAAACTGTGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAAACTGTGATCACGTGTGTAGTACTA
**
89634072 AGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCA
66 AGTGCAGGCTACTACGTGTATCAAATAATT-GGTCA
* * ** * *
89634108 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAAACTGTGATCACGTGTGTAGTACTA
* ** *
89634171 AGTGCAGGCTACTATGTGTATCGGATAATTGGTCG
66 AGTGCAGGCTACTACGTGTATCAAATAATTGGTCA
* * *
89634206 CATGTGTAGTACTATGTGCAGGCTCCTATGCGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
89634242 AGATAGCTTT
Statistics
Matches: 115, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 35 0.30
99 44 0.38
100 1 0.01
101 35 0.30
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (100 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAAACTGTGATCACGTGTGTAGTACTA
AGTGCAGGCTACTACGTGTATCAAATAATTGGTCA
Found at i:89634235 original size:49 final size:49
Alignment explanation
Indices: 89634009--89634229 Score: 262
Period size: 49 Copynumber: 4.4 Consensus size: 49
89633999 TGAGGTAGCA
* * * * ** * *
89634009 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCAAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAA-T-TGGTCACG
** **
89634060 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT-GGTCACG
*
89634110 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCACG
* * *
89634159 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCACG
*
89634208 TGTGTAGTACTATGTGCAGGCT
1 TGTGTAGTACTAAGTGCAGGCT
89634230 CCTATGCGTA
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 74 0.49
50 44 0.29
51 32 0.21
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCACG
Found at i:89636767 original size:28 final size:28
Alignment explanation
Indices: 89636735--89636803 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
89636725 AATGAGATTG
*
89636735 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
89636763 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
89636791 GCACTAAGTGTGC
1 GCACTAAGTGTGC
89636804 AGACTTACTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:89638854 original size:31 final size:31
Alignment explanation
Indices: 89638816--89638874 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
89638806 TCTTTGAGTT
*
89638816 AATTAAGTTATTCGGATCAACTCGAATAAAA
1 AATTAAGTTATTCAGATCAACTCGAATAAAA
* * *
89638847 AATTAAGTTTTTCAGTTTAACTCGAATA
1 AATTAAGTTATTCAGATCAACTCGAATA
89638875 TGAATTACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (31 bp):
AATTAAGTTATTCAGATCAACTCGAATAAAA
Found at i:89639890 original size:20 final size:20
Alignment explanation
Indices: 89639856--89639897 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
89639846 AACTATTCAA
** *
89639856 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
89639876 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
89639896 AT
1 AT
89639898 GTGTATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:89641920 original size:29 final size:29
Alignment explanation
Indices: 89641888--89642035 Score: 79
Period size: 31 Copynumber: 5.0 Consensus size: 29
89641878 TTTTTTTAAC
89641888 TTTTAAAATTAGAATTAAATTGATAAATT
1 TTTTAAAATTAGAATTAAATTGATAAATT
* ** * *
89641917 TTTTAAATGTTGAGAGCTAAATTTATTGAA-T
1 TTTTAAA-ATT-AGAATTAAATTGA-TAAATT
* * *
89641948 TTTTAGAATTAGAACTAAA-TGACAAATT
1 TTTTAAAATTAGAATTAAATTGATAAATT
* *
89641976 TTTTAAACATTGAGAGCTAAAATT-ATTAAA-T
1 TTTTAAA-ATT-AGA-ATTAAATTGA-TAAATT
* * * *
89642007 TTTTAGATTTAGGATCAAATTGATAAATT
1 TTTTAAAATTAGAATTAAATTGATAAATT
89642036 GTGTAAACAT
Statistics
Matches: 87, Mismatches: 21, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
27 2 0.02
28 19 0.22
29 22 0.25
30 9 0.10
31 28 0.32
32 7 0.08
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (29 bp):
TTTTAAAATTAGAATTAAATTGATAAATT
Found at i:89641958 original size:60 final size:60
Alignment explanation
Indices: 89641888--89642057 Score: 207
Period size: 59 Copynumber: 2.8 Consensus size: 60
89641878 TTTTTTTAAC
* ** * *
89641888 TTTTAAAATTAGAATTAAATTGATAAATTTTTTAAATGTTGAGAGCTAAATTTATTGAAT
1 TTTTAGAATTAGAATTAAATTGATAAATTTTTTAAACATTGAGAGCTAAAATTATTAAAT
* *
89641948 TTTTAGAATTAGAACTAAA-TGACAAATTTTTTAAACATTGAGAGCTAAAATTATTAAAT
1 TTTTAGAATTAGAATTAAATTGATAAATTTTTTAAACATTGAGAGCTAAAATTATTAAAT
* * * * * *
89642007 TTTTAGATTTAGGATCAAATTGATAAATTGTGTAAACATTGAAGGGCTAAA
1 TTTTAGAATTAGAATTAAATTGATAAATTTTTTAAACATTG-AGAGCTAAA
89642058 TTTGTTATTA
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
59 50 0.54
60 35 0.38
61 8 0.09
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (60 bp):
TTTTAGAATTAGAATTAAATTGATAAATTTTTTAAACATTGAGAGCTAAAATTATTAAAT
Found at i:89642319 original size:21 final size:21
Alignment explanation
Indices: 89642293--89642332 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
89642283 ATTTAATTTA
*
89642293 ATAAATTAATATATAATTATG
1 ATAAATCAATATATAATTATG
*
89642314 ATAAATCAATGTATAATTA
1 ATAAATCAATATATAATTA
89642333 CAGTTTGAAT
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:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (21 bp):
ATAAATCAATATATAATTATG
Found at i:89652419 original size:93 final size:91
Alignment explanation
Indices: 89652247--89652422 Score: 214
Period size: 93 Copynumber: 1.9 Consensus size: 91
89652237 TTTAAGTATG
* * * * *
89652247 AAAAAAGCCATCAAACTTTTTCAAAAAAACAATTAAATCCCCTTTTTTTTTTGCACTCATTTGAG
1 AAAAAAGCCATCAAACATTTTCAAAAAAACAAGTAAATCCCCTCTTTTTTTGGCACTCATTGGAG
* *
89652312 TATTTGAACTTTCAAAATACATAAAA
66 TACTTGAACCTTCAAAATACATAAAA
*
89652338 AAAAAAGTCC-TCAAACATTTTCAAAAAAA-AAGTAAATTAAGCCCTCTTTTTTTGGCACTCAAT
1 AAAAAAG-CCATCAAACATTTTCAAAAAAACAAGTAAA-T--CCCCTCTTTTTTTGGCACTC-AT
89652401 TGGA-TACTTGAACCTTCAAAAT
61 TGGAGTACTTGAACCTTCAAAAT
89652423 GCATCAATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
90 6 0.08
91 26 0.36
92 2 0.03
93 33 0.46
94 5 0.07
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.33
Consensus pattern (91 bp):
AAAAAAGCCATCAAACATTTTCAAAAAAACAAGTAAATCCCCTCTTTTTTTGGCACTCATTGGAG
TACTTGAACCTTCAAAATACATAAAA
Found at i:89652640 original size:9 final size:9
Alignment explanation
Indices: 89652545--89652650 Score: 58
Period size: 10 Copynumber: 11.7 Consensus size: 9
89652535 TTAAATGTTA
89652545 ATAAAAATT
1 ATAAAAATT
* *
89652554 TTAAACA-T
1 ATAAAAATT
89652562 -TAAAAATT
1 ATAAAAATT
* *
89652570 AGAAAAAAAT
1 A-TAAAAATT
*
89652580 ATAAAAATC
1 ATAAAAATT
89652589 ATAAAAATT
1 ATAAAAATT
*
89652598 A-AAAATTT
1 ATAAAAATT
* *
89652606 GTAAAATTTT
1 ATAAAA-ATT
89652616 ATAAAAATCGT
1 ATAAAAAT--T
89652627 A-AAAAATT
1 ATAAAAATT
*
89652635 ATAAAATTTT
1 ATAAAA-ATT
89652645 ATAAAA
1 ATAAAA
89652651 TCTTAAAAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 17
0.70 0.13 0.16
Matches are distributed among these distances:
7 5 0.07
8 10 0.14
9 28 0.38
10 29 0.39
11 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:89652871 original size:9 final size:9
Alignment explanation
Indices: 89652857--89652909 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
89652847 TCATTAATTT
89652857 TTTTTATAA
1 TTTTTATAA
89652866 TTTTTATAAA
1 TTTTTAT-AA
* *
89652876 ATTTTACAA
1 TTTTTATAA
*
89652885 TTTTT-TAT
1 TTTTTATAA
*
89652893 TTTTTATGA
1 TTTTTATAA
89652902 TTTTTATA
1 TTTTTATA
89652910 TAAAAATTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
8 6 0.18
9 21 0.62
10 7 0.21
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:89652912 original size:38 final size:36
Alignment explanation
Indices: 89652856--89652927 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 36
89652846 GTCATTAATT
*
89652856 TTTTTTATAATTTTTATAAAATTTTAC-AATTTTTTA
1 TTTTTTATAATTTTTATAAAAATTT-CTAATTTTTTA
*
89652892 TTTTTTATGATTTTTATATAAAAATTTCTAATTTTT
1 TTTTTTAT-AATTTT-TATAAAAATTTCTAATTTTT
89652928 AAAAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 8 0.26
37 6 0.19
38 17 0.55
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (36 bp):
TTTTTTATAATTTTTATAAAAATTTCTAATTTTTTA
Found at i:89652935 original size:19 final size:19
Alignment explanation
Indices: 89652901--89652954 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
89652891 ATTTTTTATG
*
89652901 ATTTTTATATAAAAATTTCTA
1 ATTTTTA-A-AAAAATTACTA
89652922 ATTTTTAAAAAAATTACTA
1 ATTTTTAAAAAAATTACTA
89652941 ATTTTTTAAAAAAA
1 A-TTTTTAAAAAAA
89652955 ACTATTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 11 0.35
20 13 0.42
21 7 0.23
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTTAAAAAAATTACTA
Found at i:89652951 original size:18 final size:18
Alignment explanation
Indices: 89652910--89652967 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
89652900 GATTTTTATA
*
89652910 TAAAAATTTCTAATTTTT
1 TAAAAATTACTAATTTTT
*
89652928 AAAAAAATTACTAATTTTT
1 -TAAAAATTACTAATTTTT
** *
89652947 TAAAAAAAACTATTTTTT
1 TAAAAATTACTAATTTTT
89652965 TAA
1 TAA
89652968 TTTTTATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAAAATTACTAATTTTT
Found at i:89652990 original size:20 final size:20
Alignment explanation
Indices: 89652965--89653014 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
89652955 ACTATTTTTT
89652965 TAATTTTTATTAAAATTTAA
1 TAATTTTTATTAAAATTTAA
* *
89652985 TAATTTTT-CTAAAATTTAT
1 TAATTTTTATTAAAATTTAA
*
89653004 TATTTTTTATT
1 TAATTTTTATT
89653015 TTTCATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATTTTTATTAAAATTTAA
Found at i:89654381 original size:17 final size:17
Alignment explanation
Indices: 89654359--89654392 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
89654349 GGAGTTCTAC
89654359 AAATAAAAATAATTATA
1 AAATAAAAATAATTATA
*
89654376 AAATAAGAATAATTATA
1 AAATAAAAATAATTATA
89654393 TAAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAAAAATAATTATA
Found at i:89658079 original size:24 final size:24
Alignment explanation
Indices: 89658045--89658098 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
89658035 AGACACACAG
*
89658045 TCAGAAGCAGATAC-AGTTTCAGAT
1 TCAGAAGCAGAT-CTAGATTCAGAT
*
89658069 TCAGAATCAGATCTAGATTCAGAT
1 TCAGAAGCAGATCTAGATTCAGAT
89658093 TACAGA
1 T-CAGA
89658099 TACAAATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.04
24 21 0.81
25 4 0.15
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (24 bp):
TCAGAAGCAGATCTAGATTCAGAT
Found at i:89661339 original size:3 final size:3
Alignment explanation
Indices: 89661331--89661382 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
89661321 CTTTAGATCT
* * * * *
89661331 TTA TTA TTA -TA TTA TTA TTA CTA TCA TCA TCA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89661378 TTA TT
1 TTA TT
89661383 TTTAATTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:89661380 original size:15 final size:15
Alignment explanation
Indices: 89661331--89661388 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
89661321 CTTTAGATCT
89661331 TTATTATT-ATATTA
1 TTATTATTAATATTA
* *
89661345 TTATTACTATCATCATCA
1 TTATTA-T-TAAT-ATTA
89661363 TTATTATTAATATTA
1 TTATTATTAATATTA
*
89661378 TTATTTTTAAT
1 TTATTATTAAT
89661389 TTGTTTTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 6 0.17
15 14 0.39
16 4 0.11
17 3 0.08
18 9 0.25
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTATTAATATTA
Found at i:89663566 original size:41 final size:42
Alignment explanation
Indices: 89663506--89663633 Score: 167
Period size: 41 Copynumber: 3.1 Consensus size: 42
89663496 ACAAAAATTG
* *
89663506 TAAAATAC-AGAGCAATAGCGACG-TTTGCGGTAAAACGCCGC
1 TAAAA-ACTAGAGCATTAGCGGCGCTTTGCGGTAAAACGCCGC
*
89663547 TAAAAACTAGAGCATTAGCGGCGCTTT-CGGTAAAACGCCAC
1 TAAAAACTAGAGCATTAGCGGCGCTTTGCGGTAAAACGCCGC
*
89663588 TAAAAACTAGAGCATTAGTGGCGCTTTTGC--TAAAACGCCGC
1 TAAAAACTAGAGCATTAGCGGCGC-TTTGCGGTAAAACGCCGC
89663629 TAAAA
1 TAAAA
89663634 GTCATATAAC
Statistics
Matches: 78, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
40 2 0.03
41 69 0.88
42 6 0.08
43 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (42 bp):
TAAAAACTAGAGCATTAGCGGCGCTTTGCGGTAAAACGCCGC
Found at i:89663851 original size:14 final size:14
Alignment explanation
Indices: 89663800--89663844 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
89663790 TTAATTATCA
*
89663800 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
89663814 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
*
89663828 ATATGGTTTAAGGT
1 TTATGGTTTAAGGT
89663842 TTA
1 TTA
89663845 ATGTTTAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:89663916 original size:7 final size:7
Alignment explanation
Indices: 89663889--89664010 Score: 61
Period size: 7 Copynumber: 17.1 Consensus size: 7
89663879 GATGAATTAT
89663889 GGGTTTA
1 GGGTTTA
* *
89663896 GAGATTA
1 GGGTTTA
*
89663903 TGGTTTA
1 GGGTTTA
89663910 GGGTTTA
1 GGGTTTA
89663917 GGG-TT-
1 GGGTTTA
89663922 GGAGTTTA
1 GG-GTTTA
* *
89663930 AGGTGTAA
1 GGGT-TTA
*
89663938 GGGTTTG
1 GGGTTTA
*
89663945 GGGTTAA
1 GGGTTTA
89663952 GGGTTTA
1 GGGTTTA
* *
89663959 AGGTTAA
1 GGGTTTA
*
89663966 GTGTTTA
1 GGGTTTA
*
89663973 GTGTTTA
1 GGGTTTA
*
89663980 TGGG-ATA
1 -GGGTTTA
*
89663987 GGGGTTAA
1 -GGGTTTA
89663995 GAGGTTTA
1 G-GGTTTA
89664003 GGGTTTA
1 GGGTTTA
89664010 G
1 G
89664011 ATTAATTAGT
Statistics
Matches: 83, Mismatches: 25, Indels: 14
0.68 0.20 0.11
Matches are distributed among these distances:
5 2 0.02
6 3 0.04
7 63 0.76
8 15 0.18
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.39
Consensus pattern (7 bp):
GGGTTTA
Found at i:89667360 original size:29 final size:29
Alignment explanation
Indices: 89667322--89667412 Score: 164
Period size: 29 Copynumber: 3.1 Consensus size: 29
89667312 GAGTCTGGAT
*
89667322 TTCAGCAATTTTTAAATGTAGTCAATGTTA
1 TTCAG-AATTTTTTAATGTAGTCAATGTTA
89667352 TTCAGAATTTTTTAATGTAGTCAATGTTA
1 TTCAGAATTTTTTAATGTAGTCAATGTTA
89667381 TTCAGAATTTTTTAATGTAGTCAATGTTA
1 TTCAGAATTTTTTAATGTAGTCAATGTTA
89667410 TTC
1 TTC
89667413 CGGTATAAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
29 55 0.92
30 5 0.08
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (29 bp):
TTCAGAATTTTTTAATGTAGTCAATGTTA
Found at i:89667926 original size:24 final size:24
Alignment explanation
Indices: 89667899--89667948 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
89667889 AAACGTATTT
* * *
89667899 TATATTATTGATTAATATTTTATA
1 TATAATATTGATAAATATTATATA
*
89667923 TATAATATTTATAAATATTATATA
1 TATAATATTGATAAATATTATATA
89667947 TA
1 TA
89667949 ATTTTTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TATAATATTGATAAATATTATATA
Found at i:89667933 original size:13 final size:12
Alignment explanation
Indices: 89667918--89667950 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
89667908 GATTAATATT
89667918 TTATATATAATA
1 TTATATATAATA
89667930 TT-TATA-AATA
1 TTATATATAATA
89667940 TTATATATAAT
1 TTATATATAAT
89667951 TTTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.32
11 8 0.42
12 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTATATATAATA
Found at i:89667943 original size:22 final size:22
Alignment explanation
Indices: 89667918--89667961 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
89667908 GATTAATATT
89667918 TTATATATAATATTTATAAATA
1 TTATATATAATATTTATAAATA
* *
89667940 TTATATATAATTTTTTTAAATA
1 TTATATATAATATTTATAAATA
89667962 ACAATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATATATAATATTTATAAATA
Found at i:89669195 original size:28 final size:28
Alignment explanation
Indices: 89669155--89669209 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
89669145 AGAAGTGGCA
*
89669155 TTTGTGGGAGAAGCGCTGCTAAAGGTCG
1 TTTGTGGGAGAAGCGCCGCTAAAGGTCG
*
89669183 TTTGTGGGAGAAGTGCCGCTAAAGGTC
1 TTTGTGGGAGAAGCGCCGCTAAAGGTC
89669210 ATGACTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.38, T:0.25
Consensus pattern (28 bp):
TTTGTGGGAGAAGCGCCGCTAAAGGTCG
Found at i:89674505 original size:22 final size:22
Alignment explanation
Indices: 89674457--89674517 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
89674447 ACCACACCAG
* ** *
89674457 TAGGCATCGAAGTGCTTTAACAG
1 TAGGCACCGAAGTGC-AAAACAA
*
89674480 TAGGCACCGTAGTGCAAAACAA
1 TAGGCACCGAAGTGCAAAACAA
*
89674502 TAGGCACTGAAGTGCA
1 TAGGCACCGAAGTGCA
89674518 GAATAGTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (22 bp):
TAGGCACCGAAGTGCAAAACAA
Found at i:89674764 original size:26 final size:23
Alignment explanation
Indices: 89674726--89674772 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
89674716 TCAAATTCAC
89674726 ACCAATATAATTCGATTAATCATA
1 ACCAATATAATTC-ATTAATCATA
*
89674750 ACCAACTATCAATTCATTTATCA
1 ACCAA-TAT-AATTCATTAATCA
89674773 AAATTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 10 0.50
26 5 0.25
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (23 bp):
ACCAATATAATTCATTAATCATA
Found at i:89682232 original size:27 final size:27
Alignment explanation
Indices: 89682202--89682399 Score: 306
Period size: 27 Copynumber: 7.3 Consensus size: 27
89682192 TACTGAAATG
*
89682202 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* ** *
89682229 CCCTCGATTTATAAAATTACTGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
89682256 CCCTCGATTTACAAAATTATCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
89682283 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
89682310 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
89682337 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
89682364 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
89682391 CCCTCGATT
1 CCCTCGATT
89682400 GTGAAATTAT
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:89682443 original size:28 final size:27
Alignment explanation
Indices: 89682412--89682557 Score: 105
Period size: 27 Copynumber: 5.4 Consensus size: 27
89682402 GAAATTATTG
* *
89682412 AAATACCCCTTGTAGGATAGAATTACCA
1 AAATACCCCTAGTAGG-TAAAATTACCA
**
89682440 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTAGTAGGTAAAATTACCA
** * *
89682467 AAATACCCCTAGTTTGTGAAATTACCG
1 AAATACCCCTAGTAGGTAAAATTACCA
** * ** * *
89682494 AAATACCATTGGTTTGTGAAATTACCG
1 AAATACCCCTAGTAGGTAAAATTACCA
* **
89682521 AAATA-CCCTCAATTTGTAAAATTACCA
1 AAATACCCCT-AGTAGGTAAAATTACCA
89682548 AAATACCCCT
1 AAATACCCCT
89682558 GATTTACAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 82 0.81
28 17 0.17
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (27 bp):
AAATACCCCTAGTAGGTAAAATTACCA
Found at i:89682468 original size:27 final size:27
Alignment explanation
Indices: 89682432--89682582 Score: 164
Period size: 27 Copynumber: 5.6 Consensus size: 27
89682422 TGTAGGATAG
89682432 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
89682459 AATTACCAAAATACCCCTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* ** * *
89682486 AATTACCGAAATACCATTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
89682513 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
89682540 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
89682567 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
89682583 TTGACTTTCT
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.04
27 98 0.92
28 4 0.04
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:89682474 original size:81 final size:80
Alignment explanation
Indices: 89682362--89682555 Score: 187
Period size: 81 Copynumber: 2.4 Consensus size: 80
89682352 ATTACCATTT
* ** *** * ** *
89682362 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTGTGAAATTATTGAAATACCCCTT-GTA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTAGATTGTGAAATTACCGAAATA-CCATTGGTA
89682426 GGAT-AGAATTACCAAAA
65 GG-TGA-AATTACCAAAA
* *
89682443 TACCC-CTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTGAAATTACCGAAATACCATTGGT
1 TACCCTC-AATTTGTAAAATTACCAAAATA-CCCTAGATTGTGAAATTACCGAAATACCATTGGT
** *
89682507 TTGTGAAATTACCGAAA
64 AGGTGAAATTACCAAAA
89682524 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
89682556 CTGATTTACA
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
80 4 0.04
81 61 0.66
82 27 0.29
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (80 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTAGATTGTGAAATTACCGAAATACCATTGGTAG
GTGAAATTACCAAAA
Found at i:89682570 original size:81 final size:81
Alignment explanation
Indices: 89682432--89682581 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
89682422 TGTAGGATAG
* *** *
89682432 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTGAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAA
89682497 TACCATTGGTTTGTGA
66 TACCATTGGTTTGTGA
*
89682513 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTACAGA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAGA
89682576 AATACC
64 AATACC
89682582 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 5 0.08
81 56 0.92
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAA
TACCATTGGTTTGTGA
Found at i:89682583 original size:54 final size:54
Alignment explanation
Indices: 89682432--89682665 Score: 170
Period size: 54 Copynumber: 4.3 Consensus size: 54
89682422 TGTAGGATAG
** *
89682432 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCA-AAATACCC-CTAGTTTGTGA
1 AATTACCAAAATACCCCTGA-TTTACAAAATTA-CAGAAATACCCTC-AGTTTGTAA
* ** * *** * *
89682486 AATTACCGAAATACCATTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTCAGTTTGTAA
* * *
89682540 AATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCC-TCAGTTTGT-AA
* ** * ** *
89682596 AATTA-TAGAAATACCATTGGTTTACAAAATTATTGAAATACCCTTAGTTTGTAA
1 AATTACCA-AAATACCCCTGATTTACAAAATTACAGAAATACCCTCAGTTTGTAA
* *
89682650 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
89682666 TTGTAGGATG
Statistics
Matches: 141, Mismatches: 32, Indels: 14
0.75 0.17 0.07
Matches are distributed among these distances:
53 1 0.01
54 88 0.62
55 15 0.11
56 37 0.26
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTCAGTTTGTAA
Found at i:89682605 original size:29 final size:27
Alignment explanation
Indices: 89682548--89682645 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
89682538 AAAATTACCA
* * *
89682548 AAATACCCCTGATTTACAAAATTACAG
1 AAATACCCTTGGTTTACAAAATTATAG
*
89682575 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTG-GTTTAC--AAAATTATAG
* *
89682604 AAATACCATTGGTTTACAAAATTATTG
1 AAATACCCTTGGTTTACAAAATTATAG
*
89682631 AAATACCCTTAGTTT
1 AAATACCCTTGGTTT
89682646 GTAAATTTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
27 33 0.56
28 6 0.10
29 20 0.34
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATACCCTTGGTTTACAAAATTATAG
Found at i:89683662 original size:42 final size:42
Alignment explanation
Indices: 89683603--89683736 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
89683593 TAGTCTCCCC
89683603 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
89683645 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* *
89683687 AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
89683729 AAATGGGC
1 AAATGGGC
89683737 CTAAGGGCCA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:89683795 original size:31 final size:31
Alignment explanation
Indices: 89683760--89683905 Score: 258
Period size: 31 Copynumber: 4.7 Consensus size: 31
89683750 CGTTTACAGT
89683760 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
89683791 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
89683822 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
89683853 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
89683884 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
89683906 TCAAGACTAA
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.05
31 105 0.95
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:89689588 original size:26 final size:26
Alignment explanation
Indices: 89689559--89689669 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
89689549 AGCATGGATG
* *
89689559 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
89689585 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
*
89689612 CCAGAACAGGTATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
89689639 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
89689666 CCAG
1 CCAG
89689670 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 13 0.17
27 61 0.80
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:89690076 original size:8 final size:8
Alignment explanation
Indices: 89690050--89690079 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
89690040 CAAAATACTA
89690050 GCTTTTCG
1 GCTTTTCG
*
89690058 GCATTTCG
1 GCTTTTCG
89690066 GCTTTTCG
1 GCTTTTCG
89690074 GCTTTT
1 GCTTTT
89690080 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:89691095 original size:24 final size:24
Alignment explanation
Indices: 89691063--89691136 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
89691053 TGATTTTCTC
89691063 CCCTTATCAACTCCTAAATCCTCT
1 CCCTTATCAACTCCTAAATCCTCT
* *
89691087 CCCTTATCAGCTCCTAAATCCTAT
1 CCCTTATCAACTCCTAAATCCTCT
*
89691111 CCCTTATCAACTCCTAAATCCCCT
1 CCCTTATCAACTCCTAAATCCTCT
89691135 CC
1 CC
89691137 TGGCATACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.24, C:0.43, G:0.01, T:0.31
Consensus pattern (24 bp):
CCCTTATCAACTCCTAAATCCTCT
Found at i:89691217 original size:37 final size:37
Alignment explanation
Indices: 89691167--89691240 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
89691157 TCCACTGTTT
89691167 ACCCTTTCTGTACATAAAAATTAATATCACTAATTTG
1 ACCCTTTCTGTACATAAAAATTAATATCACTAATTTG
89691204 ACCCTTTCTGTACATAAAAATTAATATCACTAATTTG
1 ACCCTTTCTGTACATAAAAATTAATATCACTAATTTG
89691241 CTTACCTTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (37 bp):
ACCCTTTCTGTACATAAAAATTAATATCACTAATTTG
Found at i:89706030 original size:40 final size:40
Alignment explanation
Indices: 89705952--89706171 Score: 272
Period size: 40 Copynumber: 5.5 Consensus size: 40
89705942 ACCCAAGTAT
*
89705952 CTTCGGGATTTAG-CCGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
**
89705991 CTTC-GGATCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
*
89706031 CTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
89706071 CTTCGGGACTTAGCCCGGAGCA-ACT-ACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGA-TATAGTCACTAGCACAAATGC
* * *
89706110 CTTTGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
89706150 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
89706172 CATCCGAATA
Statistics
Matches: 158, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
38 4 0.03
39 42 0.27
40 107 0.68
41 5 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:89706134 original size:79 final size:80
Alignment explanation
Indices: 89705952--89706168 Score: 266
Period size: 79 Copynumber: 2.7 Consensus size: 80
89705942 ACCCAAGTAT
* *
89705952 CTTCGGGATTTAG-CCGGATATAG-CAACTCA-CACAAATGCCTTC-GGATCTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATGCCTTCGGGA-CTTAGCCCGGACAT
* **
89706013 AGTCACTAGCATGAATGC
63 ACTCACTAGCACAAATGC
*
89706031 CTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAGCA-AC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGA-CATAC
*
89706095 T-ACTCGCACAAATGC
65 TCACTAGCACAAATGC
* * *
89706110 CTTTGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
89706169 TATCATCCGA
Statistics
Matches: 122, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
79 78 0.64
80 39 0.32
81 5 0.04
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATACT
CACTAGCACAAATGC
Found at i:89714696 original size:21 final size:21
Alignment explanation
Indices: 89714670--89714710 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
89714660 ATCTTATGGC
89714670 AAAA-GGTTAAAAGATATTTGG
1 AAAAGGGTT-AAAGATATTTGG
89714691 AAAAGGGTTAAAGATATTTG
1 AAAAGGGTTAAAGATATTTG
89714711 ACAGAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (21 bp):
AAAAGGGTTAAAGATATTTGG
Found at i:89722815 original size:28 final size:28
Alignment explanation
Indices: 89722782--89722844 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
89722772 TATAACATAA
89722782 ATTATTTTTTAATATTTTAGTAAAATAG
1 ATTATTTTTTAATATTTTAGTAAAATAG
89722810 ATTATTTTTTAATATTTTAGTAAAATAG
1 ATTATTTTTTAATATTTTAGTAAAATAG
89722838 ATT-TTTT
1 ATTATTTT
89722845 GAGGGAACCA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.11
28 31 0.89
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (28 bp):
ATTATTTTTTAATATTTTAGTAAAATAG
Found at i:89723309 original size:19 final size:19
Alignment explanation
Indices: 89723285--89723345 Score: 86
Period size: 20 Copynumber: 3.1 Consensus size: 19
89723275 ATTTGATCCT
89723285 AATTTTAAAAATACATAAA
1 AATTTTAAAAATACATAAA
*
89723304 AATTTTAAAAATAAAATAAA
1 AATTTTAAAAAT-ACATAAA
*
89723324 AATATTAAAAATACATTAAA
1 AATTTTAAAAATACA-TAAA
89723344 AA
1 AA
89723346 ACTTCAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.38
20 23 0.62
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTTTAAAAATACATAAA
Found at i:89729900 original size:7 final size:7
Alignment explanation
Indices: 89729890--89729920 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
89729880 CAATTTAAAA
89729890 TTTTGAT
1 TTTTGAT
89729897 TTTTGAT
1 TTTTGAT
*
89729904 TTTTGGT
1 TTTTGAT
89729911 TTTTGAT
1 TTTTGAT
89729918 TTT
1 TTT
89729921 CAATTTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.16, T:0.74
Consensus pattern (7 bp):
TTTTGAT
Found at i:89729926 original size:7 final size:7
Alignment explanation
Indices: 89729916--89729945 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
89729906 TTGGTTTTTG
89729916 ATTTTCA
1 ATTTTCA
89729923 ATTTTCA
1 ATTTTCA
*
89729930 TTTTTCA
1 ATTTTCA
89729937 ATTTTCA
1 ATTTTCA
89729944 AT
1 AT
89729946 CCTCAATCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTCA
Found at i:89729951 original size:7 final size:7
Alignment explanation
Indices: 89729941--89729980 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
89729931 TTTTCAATTT
89729941 TCAATCC
1 TCAATCC
89729948 TCAATCC
1 TCAATCC
89729955 TCAATCC
1 TCAATCC
*
89729962 TCAATTC
1 TCAATCC
*
89729969 TCAATTC
1 TCAATCC
89729976 TCAAT
1 TCAAT
89729981 TATTTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (7 bp):
TCAATCC
Found at i:89729951 original size:14 final size:14
Alignment explanation
Indices: 89729934--89729981 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
89729924 TTTTCATTTT
*
89729934 TCAATTTTCAATCC
1 TCAATTCTCAATCC
*
89729948 TCAATCCTCAATCC
1 TCAATTCTCAATCC
*
89729962 TCAATTCTCAATTC
1 TCAATTCTCAATCC
89729976 TCAATT
1 TCAATT
89729982 ATTTTTTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (14 bp):
TCAATTCTCAATCC
Found at i:89729981 original size:7 final size:7
Alignment explanation
Indices: 89729920--89729981 Score: 61
Period size: 7 Copynumber: 8.9 Consensus size: 7
89729910 TTTTTGATTT
*
89729920 TCAATTT
1 TCAATTC
* *
89729927 TCATTTT
1 TCAATTC
*
89729934 TCAATTT
1 TCAATTC
*
89729941 TCAATCC
1 TCAATTC
*
89729948 TCAATCC
1 TCAATTC
*
89729955 TCAATCC
1 TCAATTC
89729962 TCAATTC
1 TCAATTC
89729969 TCAATTC
1 TCAATTC
89729976 TCAATT
1 TCAATT
89729982 ATTTTTTTAG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (7 bp):
TCAATTC
Found at i:89735697 original size:2 final size:2
Alignment explanation
Indices: 89735690--89735799 Score: 113
Period size: 2 Copynumber: 56.5 Consensus size: 2
89735680 TCTTTTACAT
* *
89735690 TC TC TC TC TC TC TC TC TC -C T- TC -C ATC TC AC TC TC TT TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC -TC TC TC TC TC TC TC TC
* * *
89735730 TC CC TC TC CC CC ATC TC TC TC TC TC TC TC T- TC -C TC TC TC TC
1 TC TC TC TC TC TC -TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
89735771 TC TC TC TC TC TC TC TC TC TC TC TG TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
89735800 TATTTTTCTA
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
1 5 0.05
2 84 0.92
3 2 0.02
ACGTcount: A:0.03, C:0.50, G:0.01, T:0.46
Consensus pattern (2 bp):
TC
Found at i:89738683 original size:44 final size:41
Alignment explanation
Indices: 89738606--89738728 Score: 115
Period size: 42 Copynumber: 2.9 Consensus size: 41
89738596 TCCGATATGT
* * * *
89738606 TTTCGTGTAAGACCACGTTTAGAAC-GTTGGCATCGACTTATGA
1 TTTCGTGTAAGACCATGTCTAGGACAG-TAGCATCGA-TT-TGA
89738649 TTTACGTGTAAGACCATGTCTAGGACA-TCAGCATCGTATTTGA
1 TTT-CGTGTAAGACCATGTCTAGGACAGT-AGCATCG-ATTTGA
* * *
89738692 TTTTGTGTAAGACCCTGTCTGGGACAGTAGCATCGAT
1 TTTCGTGTAAGACCATGTCTAGGACAGTAGCATCGAT
89738729 ATTTGATTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
41 2 0.03
42 27 0.40
43 11 0.16
44 27 0.40
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (41 bp):
TTTCGTGTAAGACCATGTCTAGGACAGTAGCATCGATTTGA
Found at i:89738755 original size:43 final size:42
Alignment explanation
Indices: 89738650--89738759 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
89738640 GACTTATGAT
* *
89738650 TTACGTGTAAGACCATGTCTAGGACATCAGCATCGTATTTGA
1 TTACGTGTAAGACCACGTCTGGGACATCAGCATCGTATTTGA
**
89738692 TTTTGTGTAAGACC-CTGTCTGGGACAGT-AGCATCGATATTTGA
1 TTACGTGTAAGACCAC-GTCTGGGACA-TCAGCATCG-TATTTGA
* *
89738735 TTACATGTATGACCACGTCTGGGAC
1 TTACGTGTAAGACCACGTCTGGGAC
89738760 GTTGGCATTG
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
42 28 0.50
43 27 0.48
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCACGTCTGGGACATCAGCATCGTATTTGA
Found at i:89739094 original size:26 final size:26
Alignment explanation
Indices: 89739058--89739113 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
89739048 TTTAAGTATA
89739058 TATAAGGGACAATTGTGAATGATTAT
1 TATAAGGGACAATTGTGAATGATTAT
89739084 TATAAGGGACAATTGTGAATGATTAT
1 TATAAGGGACAATTGTGAATGATTAT
89739110 TATA
1 TATA
89739114 TATTTTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (26 bp):
TATAAGGGACAATTGTGAATGATTAT
Found at i:89743531 original size:67 final size:68
Alignment explanation
Indices: 89743411--89743650 Score: 263
Period size: 67 Copynumber: 3.6 Consensus size: 68
89743401 GCTGAAAAAA
** * *
89743411 GGTTACAAGGTGTAAGAGTATAGCTCGACTATGGCAACTAATAGTG-TCTACCAGGACATTAAAC
1 GGTTACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTTC-ACCAGGACATTAAAC
89743475 ATGG
65 ATGG
* * * **
89743479 GGTTAC-ATGTGTAAGACCATAGCTCAACTATGGCAACGAATAGAGTTCACCAGGATGTTAAACA
1 GGTTACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTTCACCAGGACATTAAACA
89743543 TGG
66 TGG
* * * ** * * * *
89743546 AGATACAAGGTGTAAGCCCATAGCTCGACTATGAAAACCTATAGAGTCCACAAGGACATTAAGCA
1 GGTTACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTTCACCAGGACATTAAACA
89743611 TGG
66 TGG
*
89743614 GGTTATATA--TGTAAGACCATAGCTCGACTATGGCAAC
1 GGTTACA-AGGTGTAAGACCATAGCTCGACTATGGCAAC
89743651 ATGTTGATTT
Statistics
Matches: 141, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
67 79 0.56
68 61 0.43
69 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (68 bp):
GGTTACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTTCACCAGGACATTAAACA
TGG
Found at i:89747740 original size:29 final size:29
Alignment explanation
Indices: 89747707--89747768 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 29
89747697 GTATTACTTA
89747707 CATAT-AAGCTTACAATATCCCATAATATC
1 CATATGAA-CTTACAATATCCCATAATATC
89747736 CATATGAACTTACAATATCCCATAATATC
1 CATATGAACTTACAATATCCCATAATATC
89747765 CATA
1 CATA
89747769 ATCATAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 30 0.94
30 2 0.06
ACGTcount: A:0.42, C:0.24, G:0.03, T:0.31
Consensus pattern (29 bp):
CATATGAACTTACAATATCCCATAATATC
Found at i:89748220 original size:30 final size:30
Alignment explanation
Indices: 89748186--89748246 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
89748176 CCCTTAACTC
89748186 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
89748216 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
89748246 A
1 A
89748247 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:89751868 original size:21 final size:22
Alignment explanation
Indices: 89751842--89751884 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
89751832 AATGAGAAAG
89751842 ATGATAATT-TTTTTCATCTTT
1 ATGATAATTGTTTTTCATCTTT
89751863 ATGATAATTGTTTTTCATCTTT
1 ATGATAATTGTTTTTCATCTTT
89751885 TAATTAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.60
Consensus pattern (22 bp):
ATGATAATTGTTTTTCATCTTT
Found at i:89753608 original size:57 final size:58
Alignment explanation
Indices: 89753523--89753653 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 58
89753513 ATGATTACTT
* * * * *
89753523 GTCCAAGCTAAATCCTATGTCCAACATATGCTTATA-AGAGCTTA-ATTAGGATTACCC
1 GTCCAGGCTAAATCCTATCTACAACATATGCTCA-AGAGAGCTTATATTAGGATTACCA
** * * *
89753580 GTCTGGGCTAAATCCTATCTATATCATATGCTCAAGAGAGCTTATATTAGGATTACTA
1 GTCCAGGCTAAATCCTATCTACAACATATGCTCAAGAGAGCTTATATTAGGATTACCA
89753638 GTCCAGGCTAAATCCT
1 GTCCAGGCTAAATCCT
89753654 TACTGTAATG
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 1 0.02
57 34 0.57
58 25 0.42
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (58 bp):
GTCCAGGCTAAATCCTATCTACAACATATGCTCAAGAGAGCTTATATTAGGATTACCA
Found at i:89759746 original size:40 final size:40
Alignment explanation
Indices: 89759691--89759957 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
89759681 AACATTGGAT
89759691 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
89759731 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
89759771 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
89759811 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
89759851 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
89759891 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
89759931 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
89759958 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:89768409 original size:40 final size:40
Alignment explanation
Indices: 89768354--89768620 Score: 471
Period size: 40 Copynumber: 6.7 Consensus size: 40
89768344 AACATTGGAT
89768354 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
89768394 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
89768434 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
89768474 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
89768514 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
89768554 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
89768594 TATGTCCGGGTTAAGACCCAAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
89768621 ATGTGTTTGC
Statistics
Matches: 216, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 216 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:89777229 original size:57 final size:58
Alignment explanation
Indices: 89777149--89777257 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 58
89777139 TACTTGTCCA
* * * *
89777149 AGCTAAATCCTATGTCCAACATATGCTCATAAGAGCTTA-ATCAGGATTACCCATCTG
1 AGCTAAATCCTATCTACAACATATGCTCAAAAGAGCTTATATCAAGATTACCCATCTG
* *
89777206 AGCTAAATCCTATCTATATCATATGCTCAAAAGAGCTTATATCAAGATTACC
1 AGCTAAATCCTATCTACAACATATGCTCAAAAGAGCTTATATCAAGATTACC
89777258 AGTCCAGACT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 34 0.76
58 11 0.24
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (58 bp):
AGCTAAATCCTATCTACAACATATGCTCAAAAGAGCTTATATCAAGATTACCCATCTG
Found at i:89780719 original size:12 final size:12
Alignment explanation
Indices: 89780704--89780733 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
89780694 GGCTATGTAA
89780704 CAGGCCATGTCC
1 CAGGCCATGTCC
89780716 CAGGCCATGTCC
1 CAGGCCATGTCC
89780728 CAGGCC
1 CAGGCC
89780734 GTGTGCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.43, G:0.27, T:0.13
Consensus pattern (12 bp):
CAGGCCATGTCC
Found at i:89786816 original size:22 final size:22
Alignment explanation
Indices: 89786791--89786834 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
89786781 CCACCATTCT
89786791 TATCTAATCT-TTCTTTCTTTTC
1 TATCTAATCTCTTC-TTCTTTTC
**
89786813 TATCTTTTCTCTTCTTCTTTTC
1 TATCTAATCTCTTCTTCTTTTC
89786835 ATTTCATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.09, C:0.25, G:0.00, T:0.66
Consensus pattern (22 bp):
TATCTAATCTCTTCTTCTTTTC
Found at i:89786821 original size:18 final size:19
Alignment explanation
Indices: 89786787--89786828 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
89786777 TGCACCACCA
89786787 TTCTTATCTAATCTTTCT-
1 TTCTTATCTAATCTTTCTC
*
89786805 TTCTTTTCT-ATCTTTTCTC
1 TTCTTATCTAATC-TTTCTC
89786824 TTCTT
1 TTCTT
89786829 CTTTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 13 0.62
19 5 0.24
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.67
Consensus pattern (19 bp):
TTCTTATCTAATCTTTCTC
Found at i:89786827 original size:23 final size:24
Alignment explanation
Indices: 89786801--89786852 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
89786791 TATCTAATCT
*
89786801 TTCTTTCTTTTC-TATCTTTTCTC
1 TTCTTTCTTTTCATATCATTTCTC
*
89786824 TTC-TTCTTTTCATTTCATTTCTC
1 TTCTTTCTTTTCATATCATTTCTC
89786847 TTCTTT
1 TTCTTT
89786853 TGATCTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.32
23 15 0.60
24 2 0.08
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (24 bp):
TTCTTTCTTTTCATATCATTTCTC
Found at i:89789105 original size:22 final size:22
Alignment explanation
Indices: 89789079--89789122 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
89789069 TTTATTTTTC
89789079 AGTATTTCTGTTTTTTGTCATT
1 AGTATTTCTGTTTTTTGTCATT
89789101 AGTATTTCTGTTTTTTGTCATT
1 AGTATTTCTGTTTTTTGTCATT
89789123 TACATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.64
Consensus pattern (22 bp):
AGTATTTCTGTTTTTTGTCATT
Found at i:89789226 original size:25 final size:26
Alignment explanation
Indices: 89789192--89789249 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
89789182 TCATAATTAT
* *
89789192 TTATTGTTACCATCATTGAT-TAATA
1 TTATTATTACCATCATAGATGTAATA
* * *
89789217 TTATTATTACTATTATAGATGTATTA
1 TTATTATTACCATCATAGATGTAATA
89789243 TTATTAT
1 TTATTAT
89789250 GATCACTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (26 bp):
TTATTATTACCATCATAGATGTAATA
Found at i:89792323 original size:22 final size:23
Alignment explanation
Indices: 89792279--89792326 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
89792269 TTTAATGAAA
89792279 TTTTTTGCTTTCCAAGATAATTT
1 TTTTTTGCTTTCCAAGATAATTT
*
89792302 TTTTTTGCTTTCCAAGA-CATTT
1 TTTTTTGCTTTCCAAGATAATTT
89792324 TTT
1 TTT
89792327 GAAATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (23 bp):
TTTTTTGCTTTCCAAGATAATTT
Found at i:89797290 original size:92 final size:92
Alignment explanation
Indices: 89797025--89797302 Score: 228
Period size: 92 Copynumber: 3.0 Consensus size: 92
89797015 ACTAATCCAC
* * * * * * *
89797025 TCAGATAATAATATGCAG--TAGGGCTAGCGTATGTGTTGTACGGTGCAATGCGGTAGAT-TGCT
1 TCAGATAATGATACGCAGCATA-GGCTAACGTATGTGCTGTACAGTGCAATGCAGTA-ATCTGCA
* * *
89797087 GTATAGAAAAGTTGCAGTTAAACTGCCAGA
64 GTACAGAAAA-TTGCAGTTTAACTACCAGA
* * * * * * * *
89797117 TCAGATAATGGTACGTAGCATA-GCTAACGTACGTACGGTACAGTGCGATGCATTAAACTGCTA-
1 TCAGATAATGATACGCAGCATAGGCTAACGTATGTGCTGTACAGTGCAATGCAGTAATCTGC-AG
* * *
89797180 TACTAGTAAATTACAGTTTAACTATCAGA
65 TAC-AGAAAATTGCAGTTTAACTACCAGA
89797209 TCAGATAAAT-ATACGCAGCA-AGGCTAACGTATGTGCTGTACAGTGCAATGCAGTAATCTGCAG
1 TCAGAT-AATGATACGCAGCATAGGCTAACGTATGTGCTGTACAGTGCAATGCAGTAATCTGCAG
* *
89797272 TACAGACAAATTGTAGTTTGAACTGCCAGA
65 TACAGA-AAATTGCAGTTT-AACTACCAGA
89797302 T
1 T
89797303 TAGACCAGAA
Statistics
Matches: 142, Mismatches: 34, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
91 5 0.04
92 118 0.83
93 17 0.12
94 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (92 bp):
TCAGATAATGATACGCAGCATAGGCTAACGTATGTGCTGTACAGTGCAATGCAGTAATCTGCAGT
ACAGAAAATTGCAGTTTAACTACCAGA
Found at i:89801764 original size:27 final size:26
Alignment explanation
Indices: 89801734--89801796 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
89801724 AGATAATTAA
89801734 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
89801761 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
89801788 AATATAAAT
1 AATA-AAAT
89801797 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:89801783 original size:15 final size:15
Alignment explanation
Indices: 89801763--89801792 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89801753 ATAATCCTAA
*
89801763 TAATTATCTTAATAT
1 TAATTATCCTAATAT
89801778 TAATTATCCTAATAT
1 TAATTATCCTAATAT
89801793 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:89803213 original size:34 final size:33
Alignment explanation
Indices: 89803162--89803227 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
89803152 TGCATTTTGG
89803162 ATACTGTACTGAGATGGGCTAAGACCCACACTA
1 ATACTGTACTGAGATGGGCTAAGACCCACACTA
*
89803195 ATACTGTTACTGTA-ATGGGCTAAGGCCCACACT
1 ATACTG-TACTG-AGATGGGCTAAGACCCACACT
89803228 GATATTGCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 6 0.20
34 23 0.77
35 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (33 bp):
ATACTGTACTGAGATGGGCTAAGACCCACACTA
Found at i:89803247 original size:34 final size:34
Alignment explanation
Indices: 89803169--89803249 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
89803159 TGGATACTGT
* **
89803169 ACTGAGATGGGCTAAGACCCACACTAATACTGTT
1 ACTGATATGGGCTAAGACCCACACTAATACTGCC
* * *
89803203 ACTG-TAATGGGCTAAGGCCCACACTGATATTGCC
1 ACTGAT-ATGGGCTAAGACCCACACTAATACTGCC
89803237 ACTGATATGGGCT
1 ACTGATATGGGCT
89803250 CGGGCCCAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 38 0.97
35 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (34 bp):
ACTGATATGGGCTAAGACCCACACTAATACTGCC
Found at i:89812497 original size:20 final size:20
Alignment explanation
Indices: 89812472--89812523 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
89812462 TTAGTTTCTA
*
89812472 CTCTGTTTCGTTCTGCTTTG
1 CTCTGTTTCGTTCTGCTCTG
*
89812492 CTCTGTTTAGTTCTGCTCTG
1 CTCTGTTTCGTTCTGCTCTG
*
89812512 CTCTGTTCCGTT
1 CTCTGTTTCGTT
89812524 ATGTTCTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.02, C:0.27, G:0.19, T:0.52
Consensus pattern (20 bp):
CTCTGTTTCGTTCTGCTCTG
Found at i:89814117 original size:26 final size:26
Alignment explanation
Indices: 89814088--89814352 Score: 225
Period size: 26 Copynumber: 10.2 Consensus size: 26
89814078 CGGCACAGAT
** *
89814088 CCTGACAACAAATCACCTACACGAAG
1 CCTGACAGTAAATCACCGACACGAAG
89814114 CCTGACAGTAAATCACCGACAC-AGAG
1 CCTGACAGTAAATCACCGACACGA-AG
* *
89814140 -CTAGACAGTAAATCATCAACACGAAG
1 CCT-GACAGTAAATCACCGACACGAAG
* *
89814166 CCTGACAATAAATCACCGATACGAAG
1 CCTGACAGTAAATCACCGACACGAAG
* *
89814192 CCTGATAGTAAATCATC-AGCACGAAG
1 CCTGACAGTAAATCACCGA-CACGAAG
* * *
89814218 CCTGACAGTAAATAATCGGCAC-AGAG
1 CCTGACAGTAAATCACCGACACGA-AG
* * * * *
89814244 CCTGATAGTAAATCATCGGCACAAAT
1 CCTGACAGTAAATCACCGACACGAAG
*
89814270 CCTGACAGTAAATCACC-AGCACAAAG
1 CCTGACAGTAAATCACCGA-CACGAAG
* * *
89814296 CCTGACAATAAATCATCGACACAAAG
1 CCTGACAGTAAATCACCGACACGAAG
* * * *
89814322 CCTAACAGTAAATCACTGGCACAAAG
1 CCTGACAGTAAATCACCGACACGAAG
89814348 CCTGA
1 CCTGA
89814353 TAGAATATTT
Statistics
Matches: 198, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
25 5 0.03
26 188 0.95
27 5 0.03
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.15
Consensus pattern (26 bp):
CCTGACAGTAAATCACCGACACGAAG
Found at i:89814153 original size:52 final size:52
Alignment explanation
Indices: 89814073--89814352 Score: 280
Period size: 52 Copynumber: 5.4 Consensus size: 52
89814063 TGCGGTCCAT
* * ** * *
89814073 ATCACCGGCACAGATCCTGACAACAAATCACCTACACGAAGCCTGACAGTAA
1 ATCACCGACACAGAGCCTGACAGTAAATCATCGACACGAAGCCTGACAGTAA
* *
89814125 ATCACCGACACAGAG-CTAGACAGTAAATCATCAACACGAAGCCTGACAATAA
1 ATCACCGACACAGAGCCT-GACAGTAAATCATCGACACGAAGCCTGACAGTAA
* *
89814177 ATCACCGATAC-GAAGCCTGATAGTAAATCATC-AGCACGAAGCCTGACAGTAA
1 ATCACCGACACAG-AGCCTGACAGTAAATCATCGA-CACGAAGCCTGACAGTAA
* * * * * * *
89814229 ATAATCGGCACAGAGCCTGATAGTAAATCATCGGCACAAATCCTGACAGTAA
1 ATCACCGACACAGAGCCTGACAGTAAATCATCGACACGAAGCCTGACAGTAA
* * * *
89814281 ATCACC-AGCACAAAGCCTGACAATAAATCATCGACACAAAGCCTAACAGTAA
1 ATCACCGA-CACAGAGCCTGACAGTAAATCATCGACACGAAGCCTGACAGTAA
* * *
89814333 ATCACTGGCACAAAGCCTGA
1 ATCACCGACACAGAGCCTGA
89814353 TAGAATATTT
Statistics
Matches: 192, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
51 4 0.02
52 185 0.96
53 3 0.02
ACGTcount: A:0.41, C:0.28, G:0.16, T:0.15
Consensus pattern (52 bp):
ATCACCGACACAGAGCCTGACAGTAAATCATCGACACGAAGCCTGACAGTAA
Done.