Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 26 of 106
Found at i:10448967 original size:19 final size:19
Alignment explanation
Indices: 10448928--10448973 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
10448918 TTAATATTTT
*
10448928 AATATTATTTTATTATTAA
1 AATATTATTTTATTATAAA
*
10448947 AATATTATTTTATTCTAAA
1 AATATTATTTTATTATAAA
*
10448966 AATTTTAT
1 AATATTAT
10448974 CTTGTCTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
AATATTATTTTATTATAAA
Found at i:10450606 original size:98 final size:98
Alignment explanation
Indices: 10450366--10451061 Score: 816
Period size: 98 Copynumber: 7.1 Consensus size: 98
10450356 CATTATCTAG
* * * * * * **
10450366 AGGTTTTTAAGATATACCCGGAGGTTTTAAAAAAAAAAGGTCGTTCCTCATCTTAGAATGAGGTT
1 AGGTTTTGAAGATGTACCCGGAGGTTTT-AAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACT
*
10450431 ACATAACTTTGTAAAAATCTTGAAACTAATTACCCGG
65 ACATAACTTTG---AAATCTTGAAACTAATTACCCGA
* * *
10450468 AGGTTTT-AAAATGTATCCGGAGGTTTTAAATGAAAAGGTTGTTCCTCATAGT-AGAATGAGACT
1 AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATA-TCAGAATGAGACT
**
10450531 ATGTAACTTTGAAATCTTGAAACTAATTACCCGA
65 ACATAACTTTGAAATCTTGAAACTAATTACCCGA
10450565 AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTA
1 AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTA
* * *
10450630 CTTAACTTTGAAATCTTGAAACTAATTACCTGG
66 CATAACTTTGAAATCTTGAAACTAATTACCCGA
* ** * * **
10450663 AGGTTTTGAAGATGTACTCGGAGGTTTTAAAAGAAAAGGTCATTCCTCATCTTAGAATGAGGTTA
1 AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTA
* * *
10450728 CATAACTTTGTAAAAATCTTGAAATTAATGA-CCTA
66 CATAACTTTG---AAATCTTGAAACTAATTACCCGA
* ** *
10450763 GAGGTTTT-AAAATGTACTTGAAGGTTTTAAAAGAAAAGGTTGTTCC-CAATATCAGAATGAGAC
1 -AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTC-ATATCAGAATGAGAC
*
10450826 TACGTAACTTTGAAATCTTGAAACTAATTACCCGA
64 TACATAACTTTGAAATCTTGAAACTAATTACCCGA
* * *
10450861 AAGTTTTAAAGATGTACTCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACT-
1 AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTA
*
10450925 -GTAACTTTGAAATCTTGAAACTAATTACCC-A
66 CATAACTTTGAAATCTTGAAACTAATTACCCGA
** ** * * **
10450956 GAGGTTTTGAAGATGTACCTAGAGGTTTTAAAAGAAAAGGTCATTCTTCATATCAAAATGAGGTT
1 -AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACT
*
10451021 ACATAACTTTAAAATCTTGAAACTAATTACCC-A
65 ACATAACTTTGAAATCTTGAAACTAATTACCCGA
10451054 GAGGTTTT
1 -AGGTTTT
10451062 AGGAATGTAC
Statistics
Matches: 518, Mismatches: 62, Indels: 32
0.85 0.10 0.05
Matches are distributed among these distances:
95 1 0.00
96 83 0.16
97 52 0.10
98 239 0.46
99 2 0.00
100 93 0.18
101 41 0.08
102 7 0.01
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (98 bp):
AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTA
CATAACTTTGAAATCTTGAAACTAATTACCCGA
Found at i:10450797 original size:198 final size:193
Alignment explanation
Indices: 10450342--10451088 Score: 849
Period size: 198 Copynumber: 3.8 Consensus size: 193
10450332 TAACTTTGAA
* * * * * * * *
10450342 GAAATTTTGAAACTCATTATCTAGAGGTTTTTAAGATATACCCGGAGGTTTTAAAAAAAAAAGGT
1 GAAATCTTGAAACTAATTA-CCAGAGGTTTTGAAGATGTACCTGAAGGTTTT-AAAAGAAAAGGT
* * **
10450407 CGTTCCTCATCTTAGAATGAGGTTACATAACTTTGTAAAAATCTTGAAACTAATTACCCGGAGGT
64 CGTTCCTCATATCAGAATGAGACTACATAACTTTG---AAATCTTGAAACTAATTACCCGGAGGT
* * * * *
10450472 TTTAAAATGTA-TCCGGAGGTTTTAAATGAAAAGGTTGTTCCTCATAGTAGAATGAGACTATGTA
126 TTTAAGATGTACT-CGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATTAGAATGAG-GTACGTA
10450536 ACTTT
189 ACTTT
* * * *
10450541 GAAATCTTGAAACTAATTACCCGAAGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTT
1 GAAATCTTGAAACTAATTACCAG-AGGTTTTGAAGATGTACCTGAAGGTTTTAAAAGAAAAGGTC
* *
10450606 GTTCCTCATATCAGAATGAGACTACTTAACTTTGAAATCTTGAAACTAATTACCTGGAGGTTTTG
65 GTTCCTCATATCAGAATGAGACTACATAACTTTGAAATCTTGAAACTAATTACCCGGAGGTTTT-
** * *
10450671 AAGATGTACTCGGAGGTTTTAAAAGAAAAGGTCATTCCTCATCTTAGAATGAGGTTACATAACTT
129 AAGATGTACTCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATTAGAATGAGG-TACGTAACTT
10450736 T
193 T
* * * *
10450737 GTAAAAATCTTGAAATTAATGACCTAGAGGTTTT-AAAATGTACTTGAAGGTTTTAAAAGAAAAG
1 G---AAATCTTGAAACTAATTACC-AGAGGTTTTGAAGATGTACCTGAAGGTTTTAAAAGAAAAG
* * * *
10450801 GTTGTTCC-CAATATCAGAATGAGACTACGTAACTTTGAAATCTTGAAACTAATTACCCGAAAGT
62 GTCGTTCCTC-ATATCAGAATGAGACTACATAACTTTGAAATCTTGAAACTAATTACCCGGAGGT
*
10450865 TTTAAAGATGTACTCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGA-G-ACTGTA
126 TTT-AAGATGTACTCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATTAGAATGAGGTAC-GTA
10450928 ACTTT
189 ACTTT
10450933 GAAATCTTGAAACTAATTACCCAGAGGTTTTGAAGATGTACCT-AGAGGTTTTAAAAGAAAAGGT
1 GAAATCTTGAAACTAATTA-CCAGAGGTTTTGAAGATGTACCTGA-AGGTTTTAAAAGAAAAGGT
* * * ** * *
10450997 CATTCTTCATATCAAAATGAGGTTACATAACTTTAAAATCTTGAAACTAATTACCCAGAGGTTTT
64 CGTTCCTCATATCAGAATGAGACTACATAACTTTGAAATCTTGAAACTAATTACCCGGAGGTTTT
* * * *
10451062 AGGAATGTACTTGAAGGTTTTGAAAGA
129 AAG-ATGTACTCGGAGGTTTTAAAAGA
10451089 TGTAACCAGA
Statistics
Matches: 474, Mismatches: 59, Indels: 35
0.83 0.10 0.06
Matches are distributed among these distances:
193 28 0.06
194 102 0.22
195 32 0.07
196 63 0.13
197 3 0.01
198 177 0.37
199 68 0.14
200 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (193 bp):
GAAATCTTGAAACTAATTACCAGAGGTTTTGAAGATGTACCTGAAGGTTTTAAAAGAAAAGGTCG
TTCCTCATATCAGAATGAGACTACATAACTTTGAAATCTTGAAACTAATTACCCGGAGGTTTTAA
GATGTACTCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATTAGAATGAGGTACGTAACTTT
Found at i:10451119 original size:20 final size:21
Alignment explanation
Indices: 10451076--10451128 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
10451066 ATGTACTTGA
10451076 AGGTTTTGAAAGATGTAACCAG
1 AGGTTTTG-AAGATGTAACCAG
*
10451098 AGGTTTTGAAGAT-TAGCCAG
1 AGGTTTTGAAGATGTAACCAG
10451118 AGGTTTT-AAGA
1 AGGTTTTGAAGA
10451129 GAAAAGGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.13
20 13 0.43
21 5 0.17
22 8 0.27
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (21 bp):
AGGTTTTGAAGATGTAACCAG
Found at i:10451250 original size:143 final size:141
Alignment explanation
Indices: 10450950--10451246 Score: 411
Period size: 140 Copynumber: 2.1 Consensus size: 141
10450940 TGAAACTAAT
*
10450950 TACCCAGAGGTTTTGAAGATGTACCTAGAGGTTTTAAAAGAAAAGGTCATTCTTCATATCAAAAT
1 TACCCAGAGGTTTTGAAGATGTACCTAGAGGTTTTAAAAGAAAAGGTCATTCCTCATATCAAAAT
* * * **
10451015 GAGGTTACATAACTTTAAAATCTTGAAACTAATTACCCAGAGGTTTTAGGAATGTACTTGAAGGT
66 GAAGCTACATAACTTTAAAATCTTGAAACTAATTACCAAGAGGTTTTAGGAATGTACACGAAGGT
*
10451080 TTTGAAAGATG
131 TTTGAAAGATA
* * ** *
10451091 TAACCAGAGGTTTTGAAGAT-TAGCC-AGAGGTTTTAAGAGAAAAGGTTGTTCCTCATCTCAAAA
1 TACCCAGAGGTTTTGAAGATGTA-CCTAGAGGTTTTAAAAGAAAAGGTCATTCCTCATATCAAAA
*
10451154 TGAAGCTACATAACTTTGAAGAAATCTTGAAACTAATTACCAAGAGGTTTTAGGAATGTACACGG
65 TGAAGCTACATAACTTT--A-AAATCTTGAAACTAATTACCAAGAGGTTTTAGGAATGTACACGA
10451219 AGGTTTTG-AAGATA
127 AGGTTTTGAAAGATA
*
10451233 TACCCGGAGGTTTT
1 TACCCAGAGGTTTT
10451247 TGAATAAAAA
Statistics
Matches: 137, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
140 50 0.36
141 21 0.15
142 18 0.13
143 48 0.35
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (141 bp):
TACCCAGAGGTTTTGAAGATGTACCTAGAGGTTTTAAAAGAAAAGGTCATTCCTCATATCAAAAT
GAAGCTACATAACTTTAAAATCTTGAAACTAATTACCAAGAGGTTTTAGGAATGTACACGAAGGT
TTTGAAAGATA
Found at i:10451298 original size:122 final size:121
Alignment explanation
Indices: 10451097--10451326 Score: 320
Period size: 122 Copynumber: 1.9 Consensus size: 121
10451087 GATGTAACCA
* *
10451097 GAGGTTTTGAAGATTAGCCAGAGGTTTTAAGAGAAAAGGTTGTTCCTCATCTCAAAATGAAGCTA
1 GAGGTTTTGAAGATTACCCAGAGGTTTTAAGAGAAAAGATTGTTCCTCATCTCAAAATGAAGCTA
*
10451162 CATAACTTTGAAGAAATCTTGAAACTAATTACCAAGAGGTTTTAGGAATGTACACG
66 CATAACTTTAAAGAAATCTTGAAACTAATTACCAAGAGGTTTTAGGAATGTACACG
* * * * *
10451218 GAGGTTTTGAAGATATACCCGGAGGTTTTTGAATA-AAAA-ATTGTTCTTCATCTTAAAATGAGG
1 GAGGTTTTGAAGAT-TACCCAGAGG-TTTT-AAGAGAAAAGATTGTTCCTCATCTCAAAATGAAG
* **
10451281 TTACATAACTTTAAAGAAATCTTGAAACTAATTACCCGGAGGTTTT
63 CTACATAACTTTAAAGAAATCTTGAAACTAATTACCAAGAGGTTTT
10451327 TGAATAAAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
121 14 0.15
122 70 0.74
123 8 0.08
124 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.32
Consensus pattern (121 bp):
GAGGTTTTGAAGATTACCCAGAGGTTTTAAGAGAAAAGATTGTTCCTCATCTCAAAATGAAGCTA
CATAACTTTAAAGAAATCTTGAAACTAATTACCAAGAGGTTTTAGGAATGTACACG
Found at i:10451324 original size:80 final size:80
Alignment explanation
Indices: 10451233--10451406 Score: 287
Period size: 80 Copynumber: 2.2 Consensus size: 80
10451223 TTTGAAGATA
*
10451233 TACCCGGAGGTTTTTGAATAAAAAATTG-TTCTTCATCTTAAAATGAGGTTACATAACTTTAAAG
1 TACCCGGAGGTTTTTGAATAAAAAATTGTTTC-TCATCTCAAAATGAGGTTACATAACTTTAAAG
*
10451297 AAATCTTGAAACTAAT
65 AAATCTTAAAACTAAT
*
10451313 TACCCGGAGGTTTTTGAATAAAAAATTGTTTCTCATCTCAAAATGAGGTTACGTAACTTTAAAGA
1 TACCCGGAGGTTTTTGAATAAAAAATTGTTTCTCATCTCAAAATGAGGTTACATAACTTTAAAGA
*
10451378 AATCTTAAAAGTAAT
66 AATCTTAAAACTAAT
*
10451393 TACCCGAAGGTTTT
1 TACCCGGAGGTTTT
10451407 GAAGATGTAC
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 85 0.97
81 3 0.03
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (80 bp):
TACCCGGAGGTTTTTGAATAAAAAATTGTTTCTCATCTCAAAATGAGGTTACATAACTTTAAAGA
AATCTTAAAACTAAT
Found at i:10451439 original size:22 final size:21
Alignment explanation
Indices: 10451393--10451470 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
10451383 TAAAAGTAAT
10451393 TACCCGAAGGTTTTGAAGATG
1 TACCCGAAGGTTTTGAAGATG
* *
10451414 TACCCGGAGGTTTTAGAAGATA
1 TACCCGAAGGTTTT-GAAGATG
* *
10451436 TA-CCTAGAGGTTTTGAGGATG
1 TACCCGA-AGGTTTTGAAGATG
*
10451457 TACCAGAAGGTTTT
1 TACCCGAAGGTTTT
10451471 AAAAGAAAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 29 0.63
22 17 0.37
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (21 bp):
TACCCGAAGGTTTTGAAGATG
Found at i:10454255 original size:98 final size:98
Alignment explanation
Indices: 10454015--10454710 Score: 807
Period size: 98 Copynumber: 7.1 Consensus size: 98
10454005 CATTATCTAG
* * * * * * **
10454015 AGGTTTTTAAGATATACCCGGAGGTTTTAAAAAAAAAAGGTCGTTCCTCATCTTAGAATGAGGTT
1 AGGTTTTGAAGATGTACCCGGAGGTTTT-AAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACT
*
10454080 ACATAACTTTGTAAAAATCTTGAAACTAATTACCCGG
65 ACATAACTTTG---AAATCTTGAAACTAATTACCCGA
* * *
10454117 AGGTTTT-AAAATGTATCCGGAGGTTTTAAATGAAAAGGTTGTTCCTCATAGT-AGAATGAGACT
1 AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATA-TCAGAATGAGACT
**
10454180 ATGTAACTTTGAAATCTTGAAACTAATTACCCGA
65 ACATAACTTTGAAATCTTGAAACTAATTACCCGA
10454214 AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTA
1 AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTA
* * *
10454279 CTTAACTTTGAAATCTTGAAACTAATTACCTGG
66 CATAACTTTGAAATCTTGAAACTAATTACCCGA
* ** * * **
10454312 AGGTTTTGAAGATGTACTCGGAGGTTTTAAAAGAAAAGGTCATTCCTCATCTTAGAATGAGGTTA
1 AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTA
* * *
10454377 CATAACTTTGTAAAAATCTTGAAATTAATGA-CCTA
66 CATAACTTTG---AAATCTTGAAACTAATTACCCGA
* ** *
10454412 GAGGTTTT-AAAATGTACTTGAAGGTTTTAAAAGAAAAGGTTGTTCC-CAATATCAGAATGAGAC
1 -AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTC-ATATCAGAATGAGAC
*
10454475 TACGTAACTTTGAAATCTTGAAACTAATTACCCGA
64 TACATAACTTTGAAATCTTGAAACTAATTACCCGA
* * * *
10454510 AAGTTTTAAAGATGTACTCGGAGGTTTTAAAAGAAAAAGTTGTTCCTCATATCAGAATGAGACT-
1 AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTA
*
10454574 -GTAACTTTGAAATCTTGAAACTAATTACCC-A
66 CATAACTTTGAAATCTTGAAACTAATTACCCGA
** ** * * **
10454605 GAGGTTTTGAAGATGTACCTAGAGGTTTTAAAAGAAAAGGTCATTCTTCATATCAAAATGAGGTT
1 -AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACT
*
10454670 ACATAACTTTAAAATCTTGAAACTAATTACCC-A
65 ACATAACTTTGAAATCTTGAAACTAATTACCCGA
10454703 GAGGTTTT
1 -AGGTTTT
10454711 AGGAATGTAC
Statistics
Matches: 516, Mismatches: 64, Indels: 32
0.84 0.10 0.05
Matches are distributed among these distances:
95 1 0.00
96 82 0.16
97 52 0.10
98 238 0.46
99 2 0.00
100 93 0.18
101 41 0.08
102 7 0.01
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (98 bp):
AGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATCAGAATGAGACTA
CATAACTTTGAAATCTTGAAACTAATTACCCGA
Found at i:10454446 original size:198 final size:193
Alignment explanation
Indices: 10453991--10454737 Score: 840
Period size: 198 Copynumber: 3.8 Consensus size: 193
10453981 TAACTTTGAA
* * * * * * * *
10453991 GAAATTTTGAAACTCATTATCTAGAGGTTTTTAAGATATACCCGGAGGTTTTAAAAAAAAAAGGT
1 GAAATCTTGAAACTAATTA-CCAGAGGTTTTGAAGATGTACCTGAAGGTTTT-AAAAGAAAAGGT
* * **
10454056 CGTTCCTCATCTTAGAATGAGGTTACATAACTTTGTAAAAATCTTGAAACTAATTACCCGGAGGT
64 CGTTCCTCATATCAGAATGAGACTACATAACTTTG---AAATCTTGAAACTAATTACCCGGAGGT
* * * * *
10454121 TTTAAAATGTA-TCCGGAGGTTTTAAATGAAAAGGTTGTTCCTCATAGTAGAATGAGACTATGTA
126 TTTAAGATGTACT-CGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATTAGAATGAG-GTACGTA
10454185 ACTTT
189 ACTTT
* * * *
10454190 GAAATCTTGAAACTAATTACCCGAAGGTTTTGAAGATGTACCCGGAGGTTTTAAAAGAAAAGGTT
1 GAAATCTTGAAACTAATTACCAG-AGGTTTTGAAGATGTACCTGAAGGTTTTAAAAGAAAAGGTC
* *
10454255 GTTCCTCATATCAGAATGAGACTACTTAACTTTGAAATCTTGAAACTAATTACCTGGAGGTTTTG
65 GTTCCTCATATCAGAATGAGACTACATAACTTTGAAATCTTGAAACTAATTACCCGGAGGTTTT-
** * *
10454320 AAGATGTACTCGGAGGTTTTAAAAGAAAAGGTCATTCCTCATCTTAGAATGAGGTTACATAACTT
129 AAGATGTACTCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATTAGAATGAGG-TACGTAACTT
10454385 T
193 T
* * * *
10454386 GTAAAAATCTTGAAATTAATGACCTAGAGGTTTT-AAAATGTACTTGAAGGTTTTAAAAGAAAAG
1 G---AAATCTTGAAACTAATTACC-AGAGGTTTTGAAGATGTACCTGAAGGTTTTAAAAGAAAAG
* * * *
10454450 GTTGTTCC-CAATATCAGAATGAGACTACGTAACTTTGAAATCTTGAAACTAATTACCCGAAAGT
62 GTCGTTCCTC-ATATCAGAATGAGACTACATAACTTTGAAATCTTGAAACTAATTACCCGGAGGT
* *
10454514 TTTAAAGATGTACTCGGAGGTTTTAAAAGAAAAAGTTGTTCCTCATATCAGAATGA-G-ACTGTA
126 TTT-AAGATGTACTCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATTAGAATGAGGTAC-GTA
10454577 ACTTT
189 ACTTT
10454582 GAAATCTTGAAACTAATTACCCAGAGGTTTTGAAGATGTACCT-AGAGGTTTTAAAAGAAAAGGT
1 GAAATCTTGAAACTAATTA-CCAGAGGTTTTGAAGATGTACCTGA-AGGTTTTAAAAGAAAAGGT
* * * ** * *
10454646 CATTCTTCATATCAAAATGAGGTTACATAACTTTAAAATCTTGAAACTAATTACCCAGAGGTTTT
64 CGTTCCTCATATCAGAATGAGACTACATAACTTTGAAATCTTGAAACTAATTACCCGGAGGTTTT
* * * *
10454711 AGGAATGTACTTGAAGGTTTTGAAAGA
129 AAG-ATGTACTCGGAGGTTTTAAAAGA
10454738 TGTAACCAGA
Statistics
Matches: 473, Mismatches: 60, Indels: 35
0.83 0.11 0.06
Matches are distributed among these distances:
193 28 0.06
194 102 0.22
195 32 0.07
196 63 0.13
197 3 0.01
198 176 0.37
199 68 0.14
200 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (193 bp):
GAAATCTTGAAACTAATTACCAGAGGTTTTGAAGATGTACCTGAAGGTTTTAAAAGAAAAGGTCG
TTCCTCATATCAGAATGAGACTACATAACTTTGAAATCTTGAAACTAATTACCCGGAGGTTTTAA
GATGTACTCGGAGGTTTTAAAAGAAAAGGTTGTTCCTCATATTAGAATGAGGTACGTAACTTT
Found at i:10454768 original size:20 final size:21
Alignment explanation
Indices: 10454725--10454777 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
10454715 ATGTACTTGA
10454725 AGGTTTTGAAAGATGTAACCAG
1 AGGTTTTG-AAGATGTAACCAG
*
10454747 AGGTTTTGAAGAT-TAGCCAG
1 AGGTTTTGAAGATGTAACCAG
10454767 AGGTTTT-AAGA
1 AGGTTTTGAAGA
10454778 GAAAAGGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.13
20 13 0.43
21 5 0.17
22 8 0.27
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (21 bp):
AGGTTTTGAAGATGTAACCAG
Found at i:10454801 original size:140 final size:143
Alignment explanation
Indices: 10454602--10454876 Score: 387
Period size: 140 Copynumber: 1.9 Consensus size: 143
10454592 AACTAATTAC
* *
10454602 CCAGAGGTTTTGAAGATGTACCTAGAGGTTTTAAAAGAAAAGGTCATTCTTCATATCAAAATGAG
1 CCAGAGGTTTTGAAGATGTACCTAGAGGTTTTAAAAGAAAAGGTCATTCCTCATATCAAAATGAA
* * **
10454667 GTTACATAACTTT-AA-AATCTTGAAACTAATTACCCAGAGGTTTTAGGAATGTACTTGAAGGTT
66 GCTACATAACTTTAAAGAATCTTAAAACTAATTACCCAGAGGTTTTAGGAATGTACACGAAGGTT
10454730 TTGAAAGATGTAA
131 TTGAAAGATGTAA
* ** *
10454743 CCAGAGGTTTTGAAGAT-TAGCC-AGAGGTTTTAAGAGAAAAGGTTGTTCCTCATCTCAAAATGA
1 CCAGAGGTTTTGAAGATGTA-CCTAGAGGTTTTAAAAGAAAAGGTCATTCCTCATATCAAAATGA
* * * *
10454806 AGCTGCATAACTTTAAAGAATCTTAAAACTAATTACTCGGAGGTTTTAGGAATGTACACGGAGGT
65 AGCTACATAACTTTAAAGAATCTTAAAACTAATTACCCAGAGGTTTTAGGAATGTACACGAAGGT
10454871 TTTGAA
130 TTTGAA
10454877 GATATACCCG
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
140 49 0.42
141 21 0.18
142 47 0.40
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (143 bp):
CCAGAGGTTTTGAAGATGTACCTAGAGGTTTTAAAAGAAAAGGTCATTCCTCATATCAAAATGAA
GCTACATAACTTTAAAGAATCTTAAAACTAATTACCCAGAGGTTTTAGGAATGTACACGAAGGTT
TTGAAAGATGTAA
Found at i:10454979 original size:80 final size:80
Alignment explanation
Indices: 10454881--10455054 Score: 287
Period size: 80 Copynumber: 2.2 Consensus size: 80
10454871 TTTGAAGATA
*
10454881 TACCCGAAGGTTTTTGAATAAAAAATTG-TTCTTCATCTTAAAATGAGGTTACATAACTTTAAAG
1 TACCCGAAGGTTTTTGAATAAAAAATTGTTTC-TCATCTCAAAATGAGGTTACATAACTTTAAAG
*
10454945 AAATCTTGAAACTAAT
65 AAATCTTAAAACTAAT
* *
10454961 TACCCGGAGGTTTTTGAATAAAAAATTGTTTCTCATCTCAAAATGAGGTTACGTAACTTTAAAGA
1 TACCCGAAGGTTTTTGAATAAAAAATTGTTTCTCATCTCAAAATGAGGTTACATAACTTTAAAGA
*
10455026 AATCTTAAAAGTAAT
66 AATCTTAAAACTAAT
10455041 TACCCGAAGGTTTT
1 TACCCGAAGGTTTT
10455055 GAAGATGTAC
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 84 0.97
81 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.34
Consensus pattern (80 bp):
TACCCGAAGGTTTTTGAATAAAAAATTGTTTCTCATCTCAAAATGAGGTTACATAACTTTAAAGA
AATCTTAAAACTAAT
Found at i:10455087 original size:22 final size:21
Alignment explanation
Indices: 10455041--10455118 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
10455031 TAAAAGTAAT
10455041 TACCCGAAGGTTTTGAAGATG
1 TACCCGAAGGTTTTGAAGATG
* *
10455062 TACCCGGAGGTTTTAGAAGATA
1 TACCCGAAGGTTTT-GAAGATG
* *
10455084 TA-CCTAGAGGTTTTGAGGATG
1 TACCCGA-AGGTTTTGAAGATG
*
10455105 TACCAGAAGGTTTT
1 TACCCGAAGGTTTT
10455119 AAAAGAAAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 29 0.63
22 17 0.37
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (21 bp):
TACCCGAAGGTTTTGAAGATG
Found at i:10461520 original size:12 final size:12
Alignment explanation
Indices: 10461503--10461531 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10461493 CATGGATTAT
10461503 TTATTTATTTTA
1 TTATTTATTTTA
10461515 TTATTTATTTTA
1 TTATTTATTTTA
10461527 -TATTT
1 TTATTT
10461532 TCTATCTAAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:10461921 original size:2 final size:2
Alignment explanation
Indices: 10461914--10461945 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10461904 CATATTATTT
10461914 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10461946 TTACAAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10463317 original size:16 final size:15
Alignment explanation
Indices: 10463292--10463326 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
10463282 TCTTCTTCTT
*
10463292 TTTTTTTTATTATTTA
1 TTTTTGTTATT-TTTA
10463308 TTTTTGTTATTTTTA
1 TTTTTGTTATTTTTA
10463323 TTTT
1 TTTT
10463327 GGGTGTCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTGTTATTTTTA
Found at i:10475421 original size:21 final size:21
Alignment explanation
Indices: 10475359--10475421 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
10475349 TGTTCATGTA
* *
10475359 ATTCATGACAAAGACTAATAC
1 ATTCATAACAAAGACTAATGC
*
10475380 ATTCATAACAAAGACTGATGC
1 ATTCATAACAAAGACTAATGC
* * *
10475401 ATTTATAACAAGGATTAATGC
1 ATTCATAACAAAGACTAATGC
10475422 CTCCATTCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (21 bp):
ATTCATAACAAAGACTAATGC
Found at i:10475659 original size:21 final size:21
Alignment explanation
Indices: 10475635--10475680 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
10475625 AATTTAATCT
10475635 GATGAGAAAGAAATTGAAAAA
1 GATGAGAAAGAAATTGAAAAA
*
10475656 GATGAGAAAGGAATTGAAAAA
1 GATGAGAAAGAAATTGAAAAA
10475677 GATG
1 GATG
10475681 CTACAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.28, T:0.15
Consensus pattern (21 bp):
GATGAGAAAGAAATTGAAAAA
Found at i:10485450 original size:28 final size:29
Alignment explanation
Indices: 10485409--10485468 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
10485399 GTCTATGGGC
*
10485409 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
10485437 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
10485467 AA
1 AA
10485469 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:10490676 original size:24 final size:24
Alignment explanation
Indices: 10490649--10490697 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
10490639 AGTTTTGCGC
10490649 CAACGAAAAGTGAAGATTTTGCAT
1 CAACGAAAAGTGAAGATTTTGCAT
10490673 CAACGAAAAGTGAAGATTTTGCAT
1 CAACGAAAAGTGAAGATTTTGCAT
10490697 C
1 C
10490698 CTATTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.24
Consensus pattern (24 bp):
CAACGAAAAGTGAAGATTTTGCAT
Found at i:10502445 original size:28 final size:30
Alignment explanation
Indices: 10502404--10502463 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
10502394 GTCTATGGGC
*
10502404 AATTTTTCAGTTTT-T-GGGGCAAAAATGT
1 AATTTTTCACTTTTATAGGGGCAAAAATGT
* *
10502432 AATTTTTGACTTTTATAGGGGCAAAAGTGT
1 AATTTTTCACTTTTATAGGGGCAAAAATGT
10502462 AA
1 AA
10502464 ATTTCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 1 0.04
30 14 0.52
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (30 bp):
AATTTTTCACTTTTATAGGGGCAAAAATGT
Found at i:10507459 original size:34 final size:34
Alignment explanation
Indices: 10507416--10507486 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
10507406 TAAGAGAAAG
*
10507416 AAAAGTTAGAGAATTTTTGAGATGGCTACATAAA
1 AAAAGTTAGAGAATTTTTGAGATGACTACATAAA
*
10507450 AAAAGTTAGAGAATTTTTTAGATGACTACATAAA
1 AAAAGTTAGAGAATTTTTGAGATGACTACATAAA
10507484 AAA
1 AAA
10507487 TAAATTAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.30
Consensus pattern (34 bp):
AAAAGTTAGAGAATTTTTGAGATGACTACATAAA
Found at i:10516776 original size:5 final size:6
Alignment explanation
Indices: 10516759--10516783 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10516749 CCTCAAGCTC
10516759 AGAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA A
10516784 TTAGAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:10526074 original size:77 final size:76
Alignment explanation
Indices: 10525966--10526129 Score: 265
Period size: 77 Copynumber: 2.1 Consensus size: 76
10525956 TGAATTTTCC
* *
10525966 AAATTAAAATACTATCCTTAATTTTAAGAATTTCTTTTAAAGTAGGAAACAATTTTCTATTTTTT
1 AAATTAAAATACTATCCTTAATTTTAAGAATTGCTTTTAAAGTAGGAAACAATTTCCTA-TTTTT
*
10526031 ATGAGTCACCCA
65 ATGAATCACCCA
* * *
10526043 AAATTAAAATTCTATCTTTAATTTTAGGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTTTTA
1 AAATTAAAATACTATCCTTAATTTTAAGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTTTTA
10526108 TGAATCACCCA
66 TGAATCACCCA
10526119 AAATTAAAATA
1 AAATTAAAATA
10526130 GATGGTATTT
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
76 26 0.32
77 54 0.68
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (76 bp):
AAATTAAAATACTATCCTTAATTTTAAGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTTTTA
TGAATCACCCA
Found at i:10529441 original size:3 final size:3
Alignment explanation
Indices: 10529433--10529458 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10529423 AGGTAGCGTT
10529433 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
10529459 CAGATGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:10539441 original size:28 final size:28
Alignment explanation
Indices: 10539399--10539457 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
10539389 GGAAAAATAT
*
10539399 CCTGGTGGTGGAAAATTACAATTTTGCC
1 CCTGGTGGTGGAAAATTACAATTTTACC
*
10539427 CCTGG-GGTGGCAAAATTACCATTTTACC
1 CCTGGTGGTGG-AAAATTACAATTTTACC
10539455 CCT
1 CCT
10539458 ATACTCCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (28 bp):
CCTGGTGGTGGAAAATTACAATTTTACC
Found at i:10548153 original size:95 final size:95
Alignment explanation
Indices: 10547989--10548181 Score: 323
Period size: 95 Copynumber: 2.0 Consensus size: 95
10547979 GATATGTGGA
* *
10547989 TAGGATTTAACAATCTCAGCTACCATGTGTCTTGTCCCACCTCCAACATCGACCAATGATCCTAC
1 TAGGATTTAACAATCTCAGCTACCATGTGTCATGTCCCACCTCCAACATCGACCAACGATCCTAC
* *
10548054 GTTGCTCAACTTATCTTTATACCCTGAGAT
66 GTTGCTCAACTCATCTTTATACCCTAAGAT
* * *
10548084 TAGGATTTAACAATCTCAGCTACCATGTGTCATGTCCCACCTCTAACATTGACCAACGATCCTAG
1 TAGGATTTAACAATCTCAGCTACCATGTGTCATGTCCCACCTCCAACATCGACCAACGATCCTAC
10548149 GTTGCTCAACTCATCTTTATACCCTAAGAT
66 GTTGCTCAACTCATCTTTATACCCTAAGAT
10548179 TAG
1 TAG
10548182 CAAGGGTCCT
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.31
Consensus pattern (95 bp):
TAGGATTTAACAATCTCAGCTACCATGTGTCATGTCCCACCTCCAACATCGACCAACGATCCTAC
GTTGCTCAACTCATCTTTATACCCTAAGAT
Found at i:10548512 original size:32 final size:31
Alignment explanation
Indices: 10548476--10548588 Score: 120
Period size: 32 Copynumber: 3.4 Consensus size: 31
10548466 TTTACCGAAA
10548476 TCAACCAAATCCTAAAGTGGTTTTTCAAAGGC
1 TCAACCAAA-CCTAAAGTGGTTTTTCAAAGGC
**
10548508 TCAACCACAACCTTTCACAA-TGGTTTTTCATGGGC
1 TCAACCA-AACC--T-A-AAGTGGTTTTTCAAAGGC
*
10548543 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACC-AAACCTAAAGTGGTTTTTCAAAGGC
10548575 TCAACCACAACCTA
1 TCAACCA-AACCTA
10548589 CAACAACGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
31 3 0.04
32 34 0.51
33 2 0.03
34 1 0.01
35 24 0.36
36 3 0.04
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (31 bp):
TCAACCAAACCTAAAGTGGTTTTTCAAAGGC
Found at i:10548529 original size:67 final size:67
Alignment explanation
Indices: 10548449--10548623 Score: 219
Period size: 67 Copynumber: 2.6 Consensus size: 67
10548439 ACTTAGCCAA
* * *
10548449 AACCTTTTACAATGGTTTTT-ACCGAAATCAACCAAATCCTAAAGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCA-CGAAATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
10548513 CAC
65 CAC
* ***
10548516 AACCTTTCACAATGGTTTTTCATGGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGAAATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
10548581 AC
66 AC
* * **
10548583 AACC-TACAACAACGGTTTTTCACGGGATCAACCAAAACCCA
1 AACCTTTC-ACAATGGTTTTTCACGAAATCAACCAAAACCCA
10548624 GCAACTAACT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
66 2 0.02
67 92 0.97
68 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACGAAATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
AC
Found at i:10548614 original size:35 final size:34
Alignment explanation
Indices: 10548476--10548621 Score: 131
Period size: 35 Copynumber: 4.4 Consensus size: 34
10548466 TTTACCGAAA
* *
10548476 TCAACCAAATCCT-AA-AGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAACAATGGTTTTTCAAAGGC
* **
10548508 TCAACCACAACCTTTC-ACAATGGTTTTTCATGGGC
1 TCAACCAAAACC--TCAACAATGGTTTTTCAAAGGC
*
10548543 TCAACCAAAACC-CAA-AGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAACAATGGTTTTTCAAAGGC
* * ** *
10548575 TCAACCACAACCTACAACAACGGTTTTTCACGGGA
1 TCAACCAAAACCT-CAACAATGGTTTTTCAAAGGC
10548610 TCAACCAAAACC
1 TCAACCAAAACC
10548622 CAGCAACTAA
Statistics
Matches: 90, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
32 36 0.40
33 1 0.01
34 5 0.06
35 48 0.53
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (34 bp):
TCAACCAAAACCTCAACAATGGTTTTTCAAAGGC
Found at i:10549725 original size:21 final size:19
Alignment explanation
Indices: 10549689--10549729 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
10549679 ATATGTTGAC
10549689 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
10549708 TAGTTAAATTTTATGTTATTT
1 TAGTT-AA-TTTAAGTTATTT
10549729 T
1 T
10549730 GTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:10551668 original size:193 final size:193
Alignment explanation
Indices: 10551331--10551720 Score: 645
Period size: 193 Copynumber: 2.0 Consensus size: 193
10551321 AACATCAATT
* * * * * *
10551331 ACCATCGTCATCTTTATTCCCTGAGATTAGTAAGGGTCTTATGTTGCTGAATTCATCTTTATACC
1 ACCACCGTCATCTTTATACCCCGAGATTAGCAAGGGTCCTATGTTGCTGAACTCATCTTTATACC
* **
10551396 CTGAGATTAGAAGCTTTGGACGTGATCCTAGCGTACACGCCATGGCTTCATTAAACATTTTGTTG
66 CCGAGATTAGAAGCTTTCAACGTGATCCTAGCGTACACGCCATGGCTTCATTAAACATTTTGTTG
* *
10551461 ATTCCGGATTTTGACATTAAACAACTTCCCAAATATTTCTGGCCGCTATTGTTGAGATCAGTC
131 ATTCCGGATTTTGACATTAAACAACTTCCCAAATATTCCTGGCCACTATTGTTGAGATCAGTC
*
10551524 ACCACCGTCATCTTTATACCCCGAGATTAGCAGGGGTCCTATGTTGCTGAACTCATCTTTATACC
1 ACCACCGTCATCTTTATACCCCGAGATTAGCAAGGGTCCTATGTTGCTGAACTCATCTTTATACC
10551589 CCGAGATTAGAAGCTTTCAACGTGATCCTAGCGTACACGCCATGGCTTCATTAAACATTTTGTTG
66 CCGAGATTAGAAGCTTTCAACGTGATCCTAGCGTACACGCCATGGCTTCATTAAACATTTTGTTG
* * *
10551654 ATTCCGGGTTTTGACATTTAACAACTTCCCAAATATTCCTGGCCATTATTGTTGAGATCAGTC
131 ATTCCGGATTTTGACATTAAACAACTTCCCAAATATTCCTGGCCACTATTGTTGAGATCAGTC
10551717 ACCA
1 ACCA
10551721 TGTAATTTTA
Statistics
Matches: 182, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
193 182 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (193 bp):
ACCACCGTCATCTTTATACCCCGAGATTAGCAAGGGTCCTATGTTGCTGAACTCATCTTTATACC
CCGAGATTAGAAGCTTTCAACGTGATCCTAGCGTACACGCCATGGCTTCATTAAACATTTTGTTG
ATTCCGGATTTTGACATTAAACAACTTCCCAAATATTCCTGGCCACTATTGTTGAGATCAGTC
Found at i:10555380 original size:53 final size:52
Alignment explanation
Indices: 10555272--10555384 Score: 124
Period size: 53 Copynumber: 2.1 Consensus size: 52
10555262 ATTTTGAAAC
* *
10555272 TTTTATAACAATTCTTATTTTTTTAAAATTTTATAATTGGCCTTTTATAAAAA
1 TTTTATAACAATTCTTATTTTTTTAAAATTGTATAATTGG-CTTTTACAAAAA
* *
10555325 TTTTATAACATATT-TTCA-TTTTTTAAAATTGTATAATTTTG-TTCTTACAATAA
1 TTTTATAACA-ATTCTT-ATTTTTTTAAAATTGTATAA-TTGGCTT-TTACAAAAA
10555378 TTTTATA
1 TTTTATA
10555385 CTTTATTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
52 2 0.04
53 43 0.83
54 7 0.13
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.55
Consensus pattern (52 bp):
TTTTATAACAATTCTTATTTTTTTAAAATTGTATAATTGGCTTTTACAAAAA
Found at i:10561364 original size:782 final size:785
Alignment explanation
Indices: 10559858--10561437 Score: 2560
Period size: 782 Copynumber: 2.0 Consensus size: 785
10559848 CACCAATAAC
* *
10559858 CTTTTCATCTTTATCAGTTCTTCCATATGAGCTATTTCTAATAAAAGTAGAAACATTATTCATTG
1 CTTTTCATCTTTATCAGTTCTTCCATATGAGCTATTTCCAATAAAAGTAAAAACATTATTCATTG
* * *
10559923 TTGATTTTCCTTTCTTGAAGTTTCCTTTTCCCATTCTGAATTTAAAGTCTTCGAGGAACCCTATT
66 GTGATTTTCCTTTCTTGAAGTTTCCCTTTCCCATTCTGAATTTAAAGTCTTAGAGGAACCCTATT
*
10559988 AATTTGTAAAACTTCTCCTTAACATGACTTTTCTTTCCACAGTGATTACAGATCAATTTAGCTTT
131 AATTTGTAAAACTTCTCCTTAACATGACCTTTCTTTCCACAGTGATTACAGATCAATTTAGCTTT
* * * *
10560053 AGTTTTCCTCTTATTATCCATAGTAGTTATCATGGTAGATGATTTTATTGTAGGATTAGATTGAA
196 AGCTTTCCTCTTATTATCCATAGTAGTTATCATGGTAGATGATTCTATTATAGGATTAGACTGAA
* *
10560118 CAGCAAACTTCTTTGAGATTTTTCCCTCAGAATCATATTGTAAACTTTGTCAAGCTTAGGAATTG
261 CAGCAAACTTCTCTGAGATTTTTCCCTCAGAATCATATTGTAAACTTTGTCAAGCTTAAGAATTG
*
10560183 GTTCCATTGAGATAATTTGAGACCTCAATGTAGAATATGACTTATTGAGTCAAATTTAAAAAACC
326 ATTCCATTGAGATAATTTGAGACCTCAATGTAGAATATGACTTATTGAGTCAAATTTAAAAAACC
* *
10560248 TAAAAACCATTTTTTTTTTTTATATTGGTTTGAGTACTTGTTAAAACATGCAGGATTACATTTAC
391 TAAAAACCA-TTATTTTTTTTATATTGGTTTGAGTACTTGTTAAAACATGCAAGATTACATTTAC
* * *
10560313 CACATACGTAATGTGGTAGTGGCCTGAAATTTCTTAATTCTTCCTAAATGCCTTTTAACTTAATG
455 CACATACGTAATGTGATAGTGGCCTGAAATTTCTTAATTCTTCCCAAATCCCTTTTAACTTAATG
*
10560378 AAATACAAATCCATTGTCCTAGTCCCTTTATTCACATTATCTAATGTGTATTGCAAGTTGCATAC
520 AAATACAAATCCATTGTCCTAGTCCCTTGATTCACATTATCTAATGTGTATTGCAAGTTGCATAC
* * * *
10560443 ACGAATGTCATTAAGTTTTGCAAAATTTTGCTTTAGAGTATTCCATATTTCAGCTACATTGTCCA
585 ACGAATGTCATTAAGTTCTACAAAATTTTACTTTAAAGTATTCCATATTTCAGCTACATTGTCCA
** *
10560508 TGTAGAAGACAATCAAGGCAATGGGAGGTGTAATTAAATCTAGAAGGCAAGCTACTATCAATTGT
650 TACAGAAGACAATCAAGGCAATGGGAGGTGTAATTAAATCTAGAAGCCAAGCTACTATCAATTGT
*
10560573 TACACCTTAACTAAGAACTAAAGAAAAGA-TGTCAAGGTAGGTTTAGGAATTGCCCCATCCAAAA
715 TACACCTTAACTAAGAACTAAAGAAAAGACTGTCAAGCTAGGTTTAGGAATTGCCCCATCCAAAA
10560637 ATCCAA
780 ATCCAA
* * *
10560643 CTTTTCATCTTTATCAGTTCTTGCATATGAGTTATTTCCAATAAAAGTAAAAACATTGTTCATTG
1 CTTTTCATCTTTATCAGTTCTTCCATATGAGCTATTTCCAATAAAAGTAAAAACATTATTCATTG
* *
10560708 GTGATTTTCCTTTCTTGAAGTTTCCCTTTCCCATTGTGAATTTAAAGTCTTTAG-GGAACCTTAT
66 GTGATTTTCCTTTCTTGAAGTTTCCCTTTCCCATTCTGAATTTAAAGTC-TTAGAGGAACCCTAT
*
10560772 TAATTTGTAAAACTTCTCCTTAACATGACCTTTCTTTCCACAGTGATTACAGATTAATTTAGCTT
130 TAATTTGTAAAACTTCTCCTTAACATGACCTTTCTTTCCACAGTGATTACAGATCAATTTAGCTT
*
10560837 TAGCTTTCTTCTTATTATCCATAGTAGTTATCATGGTAGATGATTCTATTATAGGATTAGACTGA
195 TAGCTTTCCTCTTATTATCCATAGTAGTTATCATGGTAGATGATTCTATTATAGGATTAGACTGA
* * *
10560902 ACAAGTAGACTTCTCTGAGATTTTTCCC-CTAGAATCATGTTGTAAACTTTGTCAAGCTTAAGAA
260 AC-AGCAAACTTCTCTGAGATTTTTCCCTC-AGAATCATATTGTAAACTTTGTCAAGCTTAAGAA
* *
10560966 TTGATTCCATTGAGATAATTTGAGACCTCAATGTAGAATATGACTTGTTGAGTC-CATTT-AAAA
323 TTGATTCCATTGAGATAATTTGAGACCTCAATGTAGAATATGACTTATTGAGTCAAATTTAAAAA
* * * *
10561029 ACTTAAAAACCA-TATTTTTTTTATTTTGGTTTGAGTACTTGTTAAAGCATGGAAGATTACATTT
388 ACCTAAAAACCATTATTTTTTTTATATTGGTTTGAGTACTTGTTAAAACATGCAAGATTACATTT
* * *
10561093 ACCACATTCGTAATGTGATAGTGGCTTGAAATTTTTTAATTCTTCCCAAATCCCTTTTAACTTAA
453 ACCACATACGTAATGTGATAGTGGCCTGAAATTTCTTAATTCTTCCCAAATCCCTTTTAACTTAA
*
10561158 TGATATACAAATCCATTGTCCTAGTCCCTTGATTCACATTATCTAATGTGTATTGCAAGTTGCAT
518 TGAAATACAAATCCATTGTCCTAGTCCCTTGATTCACATTATCTAATGTGTATTGCAAGTTGCAT
* * * *
10561223 ACACGAGTGTCATTAAGTTCTATAAAATTTTACTTTAAAGTATTCCATATTTTAGCTGCATTGTC
583 ACACGAATGTCATTAAGTTCTACAAAATTTTACTTTAAAGTATTCCATATTTCAGCTACATTGTC
*
10561288 CATACAGAAGACAGTCAAGGCAATGGGAGGTGTAATTAAATCTAGAAGCCAAGCTACTATCAATT
648 CATACAGAAGACAATCAAGGCAATGGGAGGTGTAATTAAATCTAGAAGCCAAGCTACTATCAATT
* * *
10561353 GTTACACCTTAACTAGGAACTAAAGAAAGGATCTGTCAAGCTAGGTTTAGGAATTGCCTCATCCA
713 GTTACACCTTAACTAAGAACTAAAGAAAAGA-CTGTCAAGCTAGGTTTAGGAATTGCCCCATCCA
*
10561418 GAAATCCAA
777 AAAATCCAA
*
10561427 CTTTACATCTT
1 CTTTTCATCTT
10561438 ATGGATAAAG
Statistics
Matches: 733, Mismatches: 57, Indels: 11
0.92 0.07 0.01
Matches are distributed among these distances:
782 316 0.43
784 63 0.09
785 245 0.33
786 109 0.15
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (785 bp):
CTTTTCATCTTTATCAGTTCTTCCATATGAGCTATTTCCAATAAAAGTAAAAACATTATTCATTG
GTGATTTTCCTTTCTTGAAGTTTCCCTTTCCCATTCTGAATTTAAAGTCTTAGAGGAACCCTATT
AATTTGTAAAACTTCTCCTTAACATGACCTTTCTTTCCACAGTGATTACAGATCAATTTAGCTTT
AGCTTTCCTCTTATTATCCATAGTAGTTATCATGGTAGATGATTCTATTATAGGATTAGACTGAA
CAGCAAACTTCTCTGAGATTTTTCCCTCAGAATCATATTGTAAACTTTGTCAAGCTTAAGAATTG
ATTCCATTGAGATAATTTGAGACCTCAATGTAGAATATGACTTATTGAGTCAAATTTAAAAAACC
TAAAAACCATTATTTTTTTTATATTGGTTTGAGTACTTGTTAAAACATGCAAGATTACATTTACC
ACATACGTAATGTGATAGTGGCCTGAAATTTCTTAATTCTTCCCAAATCCCTTTTAACTTAATGA
AATACAAATCCATTGTCCTAGTCCCTTGATTCACATTATCTAATGTGTATTGCAAGTTGCATACA
CGAATGTCATTAAGTTCTACAAAATTTTACTTTAAAGTATTCCATATTTCAGCTACATTGTCCAT
ACAGAAGACAATCAAGGCAATGGGAGGTGTAATTAAATCTAGAAGCCAAGCTACTATCAATTGTT
ACACCTTAACTAAGAACTAAAGAAAAGACTGTCAAGCTAGGTTTAGGAATTGCCCCATCCAAAAA
TCCAA
Found at i:10566612 original size:2 final size:2
Alignment explanation
Indices: 10566605--10566737 Score: 165
Period size: 2 Copynumber: 69.0 Consensus size: 2
10566595 GCTGAAACTA
10566605 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
10566647 A- AT AT AT AT AT AT AT AT AT ANT -T A- AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* *
10566686 AT AT AT AT AT AT AT AT AT AT AT AT AT TT GA- AG A- 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
10566727 AT AT AT A- AT AT
1 AT AT AT AT AT AT
10566738 TTACGTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 22
0.83 0.01 0.15
Matches are distributed among these distances:
1 8 0.07
2 108 0.92
3 2 0.02
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10569532 original size:28 final size:29
Alignment explanation
Indices: 10569477--10569532 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
10569467 AAAGTTTTTT
* * *
10569477 AAATGAAGTTTTTTCTATTTAAGTTAAGA
1 AAATGAAGTATTTTCTATTGAACTTAAGA
*
10569506 AAATGAGGTATTTT-TATTGAACTTAAG
1 AAATGAAGTATTTTCTATTGAACTTAAG
10569533 GAAGAACAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.43
Consensus pattern (29 bp):
AAATGAAGTATTTTCTATTGAACTTAAGA
Found at i:10570422 original size:10 final size:10
Alignment explanation
Indices: 10570386--10570436 Score: 66
Period size: 10 Copynumber: 4.9 Consensus size: 10
10570376 GCTTGTGAAA
10570386 TTTATTATTAT
1 TTTATT-TTAT
10570397 TTTATTATTAT
1 TTTATT-TTAT
*
10570408 TTTATTTTTT
1 TTTATTTTAT
*
10570418 TTTATTTTTT
1 TTTATTTTAT
10570428 TTTATTTTA
1 TTTATTTTA
10570437 AGTGTCTCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
10 21 0.55
11 17 0.45
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:10570627 original size:27 final size:27
Alignment explanation
Indices: 10570597--10570650 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
10570587 ATTGCATGAT
10570597 ATTTTATTTCA-TATATATCTTAATTCC
1 ATTTTATTTCATTATATATCTT-ATTCC
* * *
10570624 ATTTTCTTTTATTATCTATCTTATTCC
1 ATTTTATTTCATTATATATCTTATTCC
10570651 CCCTTTCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (27 bp):
ATTTTATTTCATTATATATCTTATTCC
Found at i:10571436 original size:18 final size:17
Alignment explanation
Indices: 10571398--10571436 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
10571388 ACTATATACC
*
10571398 TTTATTTTTATATTATA
1 TTTATTTTTATATTAGA
10571415 -TTATTTTTATATATAGA
1 TTTATTTTTATAT-TAGA
10571432 TTTAT
1 TTTAT
10571437 ATTCCTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 12 0.63
17 3 0.16
18 4 0.21
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTATTTTTATATTAGA
Found at i:10572202 original size:34 final size:34
Alignment explanation
Indices: 10572158--10572239 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 34
10572148 CCCTAATCAA
10572158 CAGCACAAACCCCCAAACT-TAAACACCCCACCGG
1 CAGCACAAACCCCCAAACTCT-AACACCCCACCGG
* *
10572192 TAGCACAAACCTCCAAACTCTAACACCCCACCGG
1 CAGCACAAACCCCCAAACTCTAACACCCCACCGG
*
10572226 CAGCACAAAACCCC
1 CAGCACAAACCCCC
10572240 TCAATATTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 41 0.98
35 1 0.02
ACGTcount: A:0.38, C:0.46, G:0.09, T:0.07
Consensus pattern (34 bp):
CAGCACAAACCCCCAAACTCTAACACCCCACCGG
Found at i:10573098 original size:21 final size:23
Alignment explanation
Indices: 10573072--10573113 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10573062 TTAATTTTTA
*
10573072 TATATT-TT-TAATATAATTAAT
1 TATATTATTATAATAAAATTAAT
10573093 TATATTATTATAATAAAATTA
1 TATATTATTATAATAAAATTA
10573114 TGAGATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 2 0.11
23 10 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATTATTATAATAAAATTAAT
Found at i:10577446 original size:249 final size:249
Alignment explanation
Indices: 10577008--10577504 Score: 737
Period size: 249 Copynumber: 2.0 Consensus size: 249
10576998 ATGACATGTT
* * * *
10577008 AATCTTTGGTACTGATTTAGAACAAGTGGATGACACAAAAAAGTTCCTGTCAAAGAATTTTGATA
1 AATCTTTGGTACTAATTTAGAACAAGTGGAGGACACAAAAAAGTTCCTGTCAAAGAATTTGGACA
* ** * * *
10577073 TAAAAGATATAGGTATGGAGGATGTTATTCTTGGTATGAGAATAATGAGAGACAATAATGGCTTA
66 CAAAAGATATAGGTATGGAGGATGTTATTCTCAGTATAAGAATAATGAGAGACAATAATAGCCTA
10577138 ACATTGTCTCAATCTCATTACATTAAAAAGATTATAATGAAGTATGGTAAATCAGATTGTATGCC
131 ACATTGTCTCAATCTCATTACATTAAAAAGATTATAATGAAGTATGGTAAATCAGATTGTATGCC
* * * * *
10577203 AATGTCTATGCCTTATGATTCTAATATAAAGCCGGTACCTAACAAAGACAAGTC
196 AATGTCTACGCCTTACGATTCTAATATAAAACCAGTACCCAACAAAGACAAGTC
10577257 AATCTTTGGTACTAATTTA-AATCAAGTGGAGGACACAAAAAAGTT-CTCGTCAAAGAATTTGGA
1 AATCTTTGGTACTAATTTAGAA-CAAGTGGAGGACACAAAAAAGTTCCT-GTCAAAGAATTTGGA
* * * *
10577320 CACGAAAGATATGGGTATGGTGGATGTTATTCTCAGTATAAGAATAATGAGAGATAATAATAGCC
64 CACAAAAGATATAGGTATGGAGGATGTTATTCTCAGTATAAGAATAATGAGAGACAATAATAGCC
* * *
10577385 TAACATTGTCTCAATCTCATTACATTGAAAAGATTATAATGAAGTATGGTAAGTTAGATTGTATG
129 TAACATTGTCTCAATCTCATTACATTAAAAAGATTATAATGAAGTATGGTAAATCAGATTGTATG
* * *
10577450 CCAATGTCTACGCCTTACGATTCTAATCTAAAACTAGTACCCCACAAAGACAAGT
194 CCAATGTCTACGCCTTACGATTCTAATATAAAACCAGTACCCAACAAAGACAAGT
10577505 TAATAGCACA
Statistics
Matches: 221, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
248 4 0.02
249 217 0.98
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (249 bp):
AATCTTTGGTACTAATTTAGAACAAGTGGAGGACACAAAAAAGTTCCTGTCAAAGAATTTGGACA
CAAAAGATATAGGTATGGAGGATGTTATTCTCAGTATAAGAATAATGAGAGACAATAATAGCCTA
ACATTGTCTCAATCTCATTACATTAAAAAGATTATAATGAAGTATGGTAAATCAGATTGTATGCC
AATGTCTACGCCTTACGATTCTAATATAAAACCAGTACCCAACAAAGACAAGTC
Found at i:10578318 original size:48 final size:48
Alignment explanation
Indices: 10578252--10578346 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
10578242 TGGATACTAA
*
10578252 CCATTCTACCACATGGATGATTGCAAGCACTAATTTATATTTTCCATT
1 CCATTCTACCACATGGATGATTGCAAGCACTAATTTACATTTTCCATT
* *
10578300 CCATTCTACCACATGGATGGTTGCAAGCCCTAATTTACATTTTCCAT
1 CCATTCTACCACATGGATGATTGCAAGCACTAATTTACATTTTCCAT
10578347 CCCAAGGTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (48 bp):
CCATTCTACCACATGGATGATTGCAAGCACTAATTTACATTTTCCATT
Found at i:10580438 original size:21 final size:21
Alignment explanation
Indices: 10580413--10580452 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10580403 AATATAAATA
10580413 TATTATGTTATT-TTTTAATGT
1 TATTAT-TTATTATTTTAATGT
10580434 TATTATTTATTATTTTAAT
1 TATTATTTATTATTTTAAT
10580453 TGCTTAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TATTATTTATTATTTTAATGT
Found at i:10581548 original size:47 final size:45
Alignment explanation
Indices: 10581448--10581549 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
10581438 ATTTTTTAAA
* * *** *
10581448 ATAAAAATACTTTTTATTATAATTTAATAAAATTTATGTTAGAAG
1 ATAAAATTATTTTTTATTATAATTTAATAAAATTTATACCAAAAG
10581493 ATAAAATTATTTTTTATTATAATTTAATAATATATTTATACCAAAAG
1 ATAAAATTATTTTTTATTATAATTTAATAA-A-ATTTATACCAAAAG
*
10581540 ATGAAATTAT
1 ATAAAATTAT
10581550 CTTATATATG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 28 0.58
46 1 0.02
47 19 0.40
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (45 bp):
ATAAAATTATTTTTTATTATAATTTAATAAAATTTATACCAAAAG
Found at i:10582788 original size:20 final size:21
Alignment explanation
Indices: 10582763--10582801 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10582753 TTGTGTTAAA
10582763 AATTTA-TACTTTATTTATGT
1 AATTTATTACTTTATTTATGT
*
10582783 AATTTATTAGTTTATTTAT
1 AATTTATTACTTTATTTAT
10582802 ATTTGGTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
AATTTATTACTTTATTTATGT
Found at i:10590829 original size:26 final size:27
Alignment explanation
Indices: 10590795--10590856 Score: 99
Period size: 26 Copynumber: 2.3 Consensus size: 27
10590785 AAAAAATATT
*
10590795 ATTGTTACACGTTATGTT-CAAAAAAA
1 ATTGTTACACGTTATGTTGAAAAAAAA
*
10590821 GTTGTTACACGTTATGTTGAAAAAAAA
1 ATTGTTACACGTTATGTTGAAAAAAAA
10590848 ATTGTTACA
1 ATTGTTACA
10590857 GACCATACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 17 0.53
27 15 0.47
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (27 bp):
ATTGTTACACGTTATGTTGAAAAAAAA
Found at i:10601745 original size:2 final size:2
Alignment explanation
Indices: 10601738--10601765 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10601728 CAGTAAGGAC
10601738 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10601766 TGTACATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10607415 original size:24 final size:23
Alignment explanation
Indices: 10607374--10607427 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
10607364 ATTTATTATA
* * *
10607374 AAAATTATTTTTATATTAATATT
1 AAAATTATTTTAAAATTAAAATT
*
10607397 TAAATATATTTTAAAATTAAAATT
1 AAAAT-TATTTTAAAATTAAAATT
10607421 AAAATTA
1 AAAATTA
10607428 AAAAATTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAATTATTTTAAAATTAAAATT
Found at i:10610922 original size:3 final size:3
Alignment explanation
Indices: 10610914--10610941 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10610904 TCAATGAAAT
10610914 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10610942 CAATTGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10613670 original size:3 final size:3
Alignment explanation
Indices: 10613662--10613688 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10613652 TCTACGTAAT
10613662 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
10613689 ATTAATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10621204 original size:20 final size:21
Alignment explanation
Indices: 10621168--10621206 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
10621158 TTACCCAAAG
*
10621168 CCAAAATCCTTCCCTAAAATT
1 CCAAAATCCTCCCCTAAAATT
10621189 CCAAAAT-CTCCCCTAAAA
1 CCAAAATCCTCCCCTAAAA
10621207 CCCAAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (21 bp):
CCAAAATCCTCCCCTAAAATT
Found at i:10627911 original size:13 final size:13
Alignment explanation
Indices: 10627893--10627917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10627883 TTTCAGAAAA
10627893 TTTATAAAATCAT
1 TTTATAAAATCAT
10627906 TTTATAAAATCA
1 TTTATAAAATCA
10627918 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:10629866 original size:30 final size:30
Alignment explanation
Indices: 10629806--10629866 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
10629796 CAAACCCATG
* * *
10629806 TATTTTTATTTTGAGCTAAATAAGCTCTTA
1 TATTATTATTTTGAGCTAAATAAACACTTA
10629836 TATTATTATTTTGAG-TCAAATAAACACTTA
1 TATTATTATTTTGAGCT-AAATAAACACTTA
10629866 T
1 T
10629867 GACTAACGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (30 bp):
TATTATTATTTTGAGCTAAATAAACACTTA
Found at i:10630869 original size:25 final size:25
Alignment explanation
Indices: 10630836--10630887 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
10630826 AATGGCTAAT
*
10630836 AATATTAATCTTTATACAATAAATA
1 AATATTAATCTTCATACAATAAATA
10630861 AATATTAATCTTCATACAATAAATA
1 AATATTAATCTTCATACAATAAATA
10630886 AA
1 AA
10630888 CTTTAGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (25 bp):
AATATTAATCTTCATACAATAAATA
Found at i:10633868 original size:16 final size:17
Alignment explanation
Indices: 10633844--10633877 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10633834 TTGCTATATA
10633844 TATTATTA-TTTATTTT
1 TATTATTATTTTATTTT
*
10633860 TATTTTTATTTTATTTT
1 TATTATTATTTTATTTT
10633877 T
1 T
10633878 TAAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTATTATTTTATTTT
Found at i:10634187 original size:154 final size:154
Alignment explanation
Indices: 10633876--10634305 Score: 532
Period size: 154 Copynumber: 2.8 Consensus size: 154
10633866 TATTTTATTT
** *
10633876 TTTAAATATTAATATTTTATTTATAATTGCAT-ATTAACATTATAAAATACTAATATTTTATTTA
1 TTTAAATATTAATATTTTATTTATAATTTAATCATTAACATTATAAAATACTAATATTTTCTTTA
* * * *
10633940 TAATTTAAATATTGTTATGATTATTTATTTTTATATTCT-TTTCTTTATATATATATATATAATT
66 TAATTTAAAT-GTATTATGATTATTTATTTTTAT-TT-TATTTATTTA-A-ATAT-TA-AGAATT
*
10634004 TTCATTTATTTAAAATATGAATAATTGATCA
124 TTCATTCATTTAAAATATGAATAATTGATCA
* ** * *
10634035 TTTAAATATTAATAGTTTATTTATAATTTAATCATTAGTATTTTAAAATATTAATATTTTCTTTA
1 TTTAAATATTAATATTTTATTTATAATTTAATCATTAACATTATAAAATACTAATATTTTCTTTA
10634100 TAATTTCAAA-GTCATTATGATTATTTATTTTTATTTTATTT-TTTAAATATTAAGAATTTAT-A
66 TAATTT-AAATGT-ATTATGATTATTTATTTTTATTTTATTTATTTAAATATTAAGAATTT-TCA
* *
10634162 TTCATTTAAAATCTTAATAATTGATCA
128 TTCATTTAAAATATGAATAATTGATCA
* * *
10634189 TTTAAATATTAATTTTTTATTTATAATTTAATCATCAACATTATAAAATACCAATATTTTCTTTA
1 TTTAAATATTAATATTTTATTTATAATTTAATCATTAACATTATAAAATACTAATATTTTCTTTA
* *
10634254 TAATTTAAATGTA--ATTATTATTTATTTTTATTTTATTTATATTTAATATTAA
66 TAATTTAAATGTATTATGATTATTTATTTTTATTTTATTTAT-TTAAATATTAA
10634306 TAGTTGATAA
Statistics
Matches: 239, Mismatches: 24, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
151 24 0.10
152 1 0.00
153 14 0.06
154 96 0.40
155 3 0.01
156 4 0.02
157 1 0.00
158 5 0.02
159 35 0.15
160 53 0.22
161 3 0.01
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (154 bp):
TTTAAATATTAATATTTTATTTATAATTTAATCATTAACATTATAAAATACTAATATTTTCTTTA
TAATTTAAATGTATTATGATTATTTATTTTTATTTTATTTATTTAAATATTAAGAATTTTCATTC
ATTTAAAATATGAATAATTGATCA
Found at i:10634367 original size:16 final size:17
Alignment explanation
Indices: 10634336--10634424 Score: 56
Period size: 19 Copynumber: 4.9 Consensus size: 17
10634326 AATATTTTAT
10634336 TTATAATTTATATATTA
1 TTATAATTTATATATTA
* *
10634353 TTATAATTATTTATTTTTA
1 TTATAATT-TATA-TATTA
*
10634372 TTTTAGATATTA-ATATT-
1 TTATA-AT-TTATATATTA
*
10634389 TTATAATTTATTTATAATA
1 TTATAATTTA--TATATTA
10634408 TTAATAATTTATCATAT
1 TT-ATAATTTAT-ATAT
10634425 AAATATTAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
15 3 0.06
16 2 0.04
17 12 0.22
18 11 0.20
19 14 0.26
20 11 0.20
21 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (17 bp):
TTATAATTTATATATTA
Found at i:10634388 original size:15 final size:14
Alignment explanation
Indices: 10634370--10634482 Score: 52
Period size: 15 Copynumber: 7.5 Consensus size: 14
10634360 TATTTATTTT
10634370 TATTTTAGATATTAA
1 TATTTTA-ATATTAA
10634385 TATTTT-ATAATT--
1 TATTTTAAT-ATTAA
10634397 TATTTATAATATTAA
1 TATTT-TAATATTAA
* *
10634412 TAATTTATCATATAAA
1 T-ATTT-TAATATTAA
* *
10634428 TATTAATTATTTGATTTA
1 TATT--TTA-AT-ATTAA
*
10634446 TAATTTAATCATTAA
1 TATTTTAAT-ATTAA
*
10634461 TTTTTTAAATATTAA
1 TATTTT-AATATTAA
10634476 TATTTTA
1 TATTTTA
10634483 TTTATAATTT
Statistics
Matches: 74, Mismatches: 13, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
12 5 0.07
13 6 0.08
14 6 0.08
15 29 0.39
16 20 0.27
17 2 0.03
18 6 0.08
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (14 bp):
TATTTTAATATTAA
Found at i:10634432 original size:22 final size:20
Alignment explanation
Indices: 10634288--10634494 Score: 71
Period size: 22 Copynumber: 9.9 Consensus size: 20
10634278 TTTTTATTTT
*
10634288 ATTTATATTTAATATTAATA
1 ATTTATATATAATATTAATA
* * *
10634308 GTTGATAATTTGAATATTAATA
1 ATTTAT-ATAT-AATATTAATA
* *
10634330 TTTTATTTATAAT-TTATATA
1 ATTTATATATAATATTA-ATA
* * **
10634350 TTATTATA-ATTATTTATTTTTA
1 AT-TTATATA-TA-ATATTAATA
* * *
10634372 TTTTAGATATTAATATTTTATA
1 ATTTATATA-TAATA-TTAATA
*
10634394 ATTTATTTATAATATTAATA
1 ATTTATATATAATATTAATA
*
10634414 ATTTATCATATAAATATTAATT
1 ATTTAT-ATAT-AATATTAATA
* *
10634436 ATTTGATTTATAAT-TTAATC
1 ATTT-ATATATAATATTAATA
* * *
10634456 ATTAATTTTTTAAATATTAATA
1 ATTTA-TATAT-AATATTAATA
* *
10634478 TTTTATTTATAAT-TTAA
1 ATTTATATATAATATTAA
10634495 ATGCTATTAG
Statistics
Matches: 145, Mismatches: 27, Indels: 31
0.71 0.13 0.15
Matches are distributed among these distances:
19 8 0.06
20 39 0.27
21 36 0.25
22 58 0.40
23 4 0.03
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTATATATAATATTAATA
Found at i:10634480 original size:106 final size:106
Alignment explanation
Indices: 10634288--10634482 Score: 227
Period size: 106 Copynumber: 1.8 Consensus size: 106
10634278 TTTTTATTTT
* * * *
10634288 ATTTATATTTAATATTAATAGTTGATAATTTGAATATTAATATTTTATTTATAATTTATATATTA
1 ATTTATATTTAATATTAATAATTGATAATATAAATATTAATATTTGATTTATAATTTATATATTA
** **
10634353 TTATAATTATTTATTTTTATTTTAGATATTAATATTTTATA
66 TTATAATTAAATATTAATATTTTAGATATTAATATTTTATA
* *
10634394 ATTTAT-TTATAATATTAATAATTTATCATATAAATATTAATTATTTGATTTATAATTTA-ATCA
1 ATTTATATT-TAATATTAATAATTGATAATATAAATATTAA-TATTTGATTTATAATTTATAT-A
*
10634457 TTAATT-T-TTTAAATATTAATATTTTA
63 TT-ATTATAATTAAATATTAATATTTTA
10634483 TTTATAATTT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
105 2 0.03
106 48 0.65
107 21 0.28
108 3 0.04
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (106 bp):
ATTTATATTTAATATTAATAATTGATAATATAAATATTAATATTTGATTTATAATTTATATATTA
TTATAATTAAATATTAATATTTTAGATATTAATATTTTATA
Found at i:10643969 original size:30 final size:29
Alignment explanation
Indices: 10643904--10643975 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
10643894 AAGTTTTAAA
*
10643904 AAATTAAATTAACTAATTTAAATTAGTGT
1 AAATTAAATTAACTAATTTAAATTAATGT
* *
10643933 ATAATTATATTAACTAATTATTTAATTAAT-T
1 A-AATTAAATTAACTAA-T-TTAAATTAATGT
*
10643964 AAATTAAGTTAA
1 AAATTAAATTAA
10643976 AATAATTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.03
30 23 0.66
31 3 0.09
32 8 0.23
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (29 bp):
AAATTAAATTAACTAATTTAAATTAATGT
Found at i:10643998 original size:23 final size:23
Alignment explanation
Indices: 10643955--10643998 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
10643945 ACTAATTATT
*
10643955 TAATTAATTAAATTAAGTTAAAA
1 TAATTAATTAAATTAAATTAAAA
*
10643978 TAATTAA-TCAATTAATATTAA
1 TAATTAATTAAATTAA-ATTAA
10643999 TCACACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TAATTAATTAAATTAAATTAAAA
Found at i:10644930 original size:15 final size:16
Alignment explanation
Indices: 10644898--10644932 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10644888 TATTTCAATA
*
10644898 TTATCAAAAAGTAGAT
1 TTATCAAAAAATAGAT
10644914 TTATCAAAAAATA-AT
1 TTATCAAAAAATAGAT
10644929 TTAT
1 TTAT
10644933 ATATTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (16 bp):
TTATCAAAAAATAGAT
Found at i:10645411 original size:18 final size:18
Alignment explanation
Indices: 10645375--10645413 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10645365 ACATAAGATC
*
10645375 ATATTTTATTTAATTCTA
1 ATATTTTATTTAATGCTA
10645393 ATATTTTAGTTT-ATGCTA
1 ATATTTTA-TTTAATGCTA
10645411 ATA
1 ATA
10645414 AGTAGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
ATATTTTATTTAATGCTA
Found at i:10648942 original size:10 final size:10
Alignment explanation
Indices: 10648927--10648965 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
10648917 CCTCACCAAA
10648927 CATCAAATAT
1 CATCAAATAT
10648937 CATCAAAATAT
1 CATC-AAATAT
*
10648948 CATGAAATAT
1 CATCAAATAT
10648958 CATCAAAT
1 CATCAAAT
10648966 TCAGCTACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (10 bp):
CATCAAATAT
Found at i:10650256 original size:24 final size:25
Alignment explanation
Indices: 10650224--10650270 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
10650214 AACAATTTTA
*
10650224 TTAAGATATTAAAAATT-TTATTTG
1 TTAAAATATTAAAAATTATTATTTG
*
10650248 TTAAAATATTTAAAATTATTATT
1 TTAAAATATTAAAAATTATTATT
10650271 ATTATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
TTAAAATATTAAAAATTATTATTTG
Found at i:10657866 original size:3 final size:3
Alignment explanation
Indices: 10657852--10657883 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
10657842 CTTACCACCT
*
10657852 CAG CAA CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
10657884 ACTTCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.34, G:0.28, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:10660752 original size:2 final size:2
Alignment explanation
Indices: 10660745--10660786 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
10660735 CACTTGGACA
* * *
10660745 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10660787 TAAAACAACC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10668617 original size:42 final size:42
Alignment explanation
Indices: 10668584--10668832 Score: 108
Period size: 42 Copynumber: 6.1 Consensus size: 42
10668574 ATTTTAATCC
* *
10668584 TAATAAT-ATTTAAATTATAAAT-AATTATTAATATCTTAAAA
1 TAATAATGA-TTAAATTATAAATAAAATATTAATATTTTAAAA
** *
10668625 TTTTAATGATTAAATTATAAATAAAATATTAATA-TTTAAAT
1 TAATAATGATTAAATTATAAATAAAATATTAATATTTTAAAA
** * * * * * *
10668666 TACCAATTATCAATATCT-TAAATCAATTATAAAT-TTTTAATA
1 TAATAATGATTAA-AT-TATAAATAAAATATTAATATTTTAAAA
* ** ** * * * * *
10668708 T-TTAAAAAACAAAATA-AAATAAAA-ATAAATA-ATCATAA
1 TAATAATGATTAAATTATAAATAAAATATTAATATTTTAAAA
* *
10668746 TAA-CAT--TTAAATTATAAATAAAATATTAATATTTTATAA
1 TAATAATGATTAAATTATAAATAAAATATTAATATTTTAAAA
** * * *
10668785 TGTTAATGATTAGATTATAAATAAAATATTACTATTTAAAAA
1 TAATAATGATTAAATTATAAATAAAATATTAATATTTTAAAA
*
10668827 AAATAA
1 TAATAA
10668833 AAAAAATATA
Statistics
Matches: 148, Mismatches: 46, Indels: 27
0.67 0.21 0.12
Matches are distributed among these distances:
36 5 0.03
37 8 0.05
38 17 0.11
39 13 0.09
40 3 0.02
41 37 0.25
42 64 0.43
43 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (42 bp):
TAATAATGATTAAATTATAAATAAAATATTAATATTTTAAAA
Found at i:10668856 original size:28 final size:28
Alignment explanation
Indices: 10668801--10668856 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
10668791 TGATTAGATT
* *
10668801 ATAAATAAAATATTACTATTTAAAAAAA
1 ATAAAAAAAATATTACTATATAAAAAAA
*
10668829 ATAAAAAAAATATATA-TATATAATAAAA
1 ATAAAAAAAATAT-TACTATATAAAAAAA
10668857 GATATTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (28 bp):
ATAAAAAAAATATTACTATATAAAAAAA
Found at i:10673382 original size:130 final size:127
Alignment explanation
Indices: 10673157--10673523 Score: 384
Period size: 130 Copynumber: 2.9 Consensus size: 127
10673147 TCGACTTATA
* * * ** * *
10673157 TTTTTTCCTTAACCCAAATTCCTAAATTGTTTGGTTCGACTTATCTTAATTCTTTCAATTTTTAT
1 TTTTTTCCTTAATCCAAATTCCTAGATCGTTTAATTCGATTTATCTTAATTCTTTCAGTTTTTAT
* ** * * * *
10673222 AGGAGTTGCAAAATATGCATTTTCAATTAGAAAAATTGTAGAGACGAGATTGTTGG-A-ATT
66 AGCAACTACAGAATGTGCATTTTCAATTAGAAAAATTGTAAAGACGAGATTGTTGGAATATT
* **
10673282 TTTTTT-CTTAA-CTCAAATTTCTCA-ATCGTTTGGTTCGACTTATCTTTATCTTAATTCTTTCA
1 TTTTTTCCTTAATC-CAAATTCCT-AGATCGTTTAATTCG----A--TTTATCTTAATTCTTTCA
* * * * * *
10673344 GTTTTTATAGCAACAACAGAATGTTCATTTTTAGTTAGAAAAATTGTAAAGATGAGGTTGTTGGA
58 GTTTTTATAGCAACTACAGAATGTGCATTTTCAATTAGAAAAATTGTAAAGACGAGATTGTTGGA
10673409 ATTATT
123 A-TATT
* *
10673415 TTTTTTCCTTAATCCAAATTCCTAGATCGTTTAATTCGATTTATCTTAACTCTTTCAGGTTTTAT
1 TTTTTTCCTTAATCCAAATTCCTAGATCGTTTAATTCGATTTATCTTAATTCTTTCAGTTTTTAT
*
10673480 AGTAACTACAGAATGTGCATTTTCAATTAGAAAAATTGTAAAGA
66 AGCAACTACAGAATGTGCATTTTCAATTAGAAAAATTGTAAAGA
10673524 TGAGGTTATG
Statistics
Matches: 201, Mismatches: 27, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
123 1 0.00
124 25 0.12
125 7 0.03
128 64 0.32
130 68 0.34
131 1 0.00
133 10 0.05
134 24 0.12
135 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (127 bp):
TTTTTTCCTTAATCCAAATTCCTAGATCGTTTAATTCGATTTATCTTAATTCTTTCAGTTTTTAT
AGCAACTACAGAATGTGCATTTTCAATTAGAAAAATTGTAAAGACGAGATTGTTGGAATATT
Found at i:10673501 original size:128 final size:125
Alignment explanation
Indices: 10673152--10673530 Score: 413
Period size: 128 Copynumber: 3.0 Consensus size: 125
10673142 TTGGTTCGAC
* * * *
10673152 TTATATTTTTTCCTTAACCCAAATTCCTAAATTGTTTGGTTCGACTTATCTTAATTCTTTCAATT
1 TTATTTTTTTTCCTTAA-CCAAATTCCT-AATCGTTTGGTTCGATTTATCTTAATTCTTTCAGTT
* ** * * * * * *
10673217 TTTATAGGAGTTGCAAAATATGCATTTTCAATTAGAAAAATTGTAGAGACGAGATTGTTGGA
64 TTTATAGCAACTACAGAATGTGCATTTTCAATTAGAAAAATTGTAAAGATGAGGTTGTTGGA
*
10673279 --ATTTTTTTT-CTTAACTCAAATTTCTCAATCGTTTGGTTCGACTTATCTTTATCTTAATTCTT
1 TTATTTTTTTTCCTTAAC-CAAATTCCT-AATCGTTTGGTTCG----A--TTTATCTTAATTCTT
* * * *
10673341 TCAGTTTTTATAGCAACAACAGAATGTTCATTTTTAGTTAGAAAAATTGTAAAGATGAGGTTGTT
58 TCAGTTTTTATAGCAACTACAGAATGTGCATTTTCAATTAGAAAAATTGTAAAGATGAGGTTGTT
10673406 GGAA
123 GG-A
** * *
10673410 TTATTTTTTTTCCTTAATCCAAATTCCTAGATCGTTTAATTCGATTTATCTTAACTCTTTCAGGT
1 TTATTTTTTTTCCTTAA-CCAAATTCCTA-ATCGTTTGGTTCGATTTATCTTAATTCTTTCAGTT
*
10673475 TTTATAGTAACTACAGAATGTGCATTTTCAATTAGAAAAATTGTAAAGATGAGGTT
64 TTTATAGCAACTACAGAATGTGCATTTTCAATTAGAAAAATTGTAAAGATGAGGTT
10673531 ATGTAATAAG
Statistics
Matches: 210, Mismatches: 29, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
123 1 0.00
124 26 0.12
125 8 0.04
128 71 0.34
130 68 0.32
131 1 0.00
133 10 0.05
134 24 0.11
135 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (125 bp):
TTATTTTTTTTCCTTAACCAAATTCCTAATCGTTTGGTTCGATTTATCTTAATTCTTTCAGTTTT
TATAGCAACTACAGAATGTGCATTTTCAATTAGAAAAATTGTAAAGATGAGGTTGTTGGA
Found at i:10673820 original size:22 final size:21
Alignment explanation
Indices: 10673777--10673820 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
10673767 ATATTATAAT
*
10673777 TTAATTTTATTTCAAAAGTGA
1 TTAATTTTATTTCAAAACTGA
* *
10673798 TTAATTTTTTATTCCAAACTGA
1 TTAATTTTAT-TTCAAAACTGA
10673820 T
1 T
10673821 CATTGATCCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (21 bp):
TTAATTTTATTTCAAAACTGA
Found at i:10679110 original size:31 final size:31
Alignment explanation
Indices: 10679074--10679171 Score: 133
Period size: 31 Copynumber: 3.2 Consensus size: 31
10679064 CAAATTTTGA
*
10679074 ATTTAGTTTTTATATTTTATCAAAATGTTAG
1 ATTTAGTTTTTATATTTTATCAAAATATTAG
* * * * *
10679105 ATTTAGTTTTTGTATTCTACCAAAACATTTG
1 ATTTAGTTTTTATATTTTATCAAAATATTAG
*
10679136 ATTAAGTTTTTATATTTTATCAAAATATTAG
1 ATTTAGTTTTTATATTTTATCAAAATATTAG
10679167 ATTTA
1 ATTTA
10679172 ACCCCTCTAT
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (31 bp):
ATTTAGTTTTTATATTTTATCAAAATATTAG
Found at i:10685618 original size:30 final size:31
Alignment explanation
Indices: 10685552--10685619 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 31
10685542 GGATATTTTC
*
10685552 AAATAAAAGAAAAGTCATGTCTGTTAGAAATTAAA
1 AAATAAAAGAAAAGTCATGACTGTTAG--A--AAA
10685587 AAATAAAAGAAAAGTCATGACTGTTAGAAAA
1 AAATAAAAGAAAAGTCATGACTGTTAGAAAA
10685618 AA
1 AA
10685620 CCAATAGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 5 0.16
33 1 0.03
35 26 0.81
ACGTcount: A:0.57, C:0.06, G:0.15, T:0.22
Consensus pattern (31 bp):
AAATAAAAGAAAAGTCATGACTGTTAGAAAA
Found at i:10686341 original size:22 final size:23
Alignment explanation
Indices: 10686316--10686358 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10686306 TTTGGTGTTT
*
10686316 TAAAAAATATATATAT-ATATAA
1 TAAAAAATAAATATATGATATAA
*
10686338 TAAATAATAAATATATGATAT
1 TAAAAAATAAATATATGATAT
10686359 CATGTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAAAAATAAATATATGATATAA
Found at i:10686348 original size:29 final size:30
Alignment explanation
Indices: 10686316--10686376 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
10686306 TTTGGTGTTT
10686316 TAAAAAATAT-ATAT-ATATATAATAAATAA
1 TAAAAAATATGATATCATATA-AATAAATAA
* *
10686345 T-AAATATATGATATCATGTAAATAAATAA
1 TAAAAAATATGATATCATATAAATAAATAA
10686374 TAA
1 TAA
10686377 TAATAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
28 7 0.26
29 15 0.56
30 5 0.19
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (30 bp):
TAAAAAATATGATATCATATAAATAAATAA
Found at i:10686353 original size:18 final size:18
Alignment explanation
Indices: 10686320--10686383 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
10686310 GTGTTTTAAA
*
10686320 AAATATATATATATATAAT
1 AAATA-ATAAATATATAAT
*
10686339 AAATAATAAATATATGAT
1 AAATAATAAATATATAAT
* * *
10686357 ATCAT-GTAAATAAATAAT
1 A-AATAATAAATATATAAT
10686375 -AATAATAAA
1 AAATAATAAA
10686384 CAAAAGATAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
16 2 0.06
17 4 0.11
18 22 0.63
19 7 0.20
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (18 bp):
AAATAATAAATATATAAT
Found at i:10687110 original size:90 final size:91
Alignment explanation
Indices: 10686986--10687212 Score: 255
Period size: 90 Copynumber: 2.5 Consensus size: 91
10686976 GGCACCGACA
* * * * **
10686986 GTAGAGAGGGAAGAGAGAGAACTGCTGGCGGCTTGGTAGAGAGAAAGAGCTGCCGGTACAAGGAA
1 GTAGAGAGGGAAGAGAGGGAGCTGCCGGCAGCTTGGTAGAGAGAAAGAGCTGCCGACACAAGG--
*
10687051 GAGAAGAGG-GAGAG-GCT-GAGTTG-CG
64 GAG-AGAGGAGAGAGTGCTGGAGCTGACG
* * * *
10687076 GTAGAGAGGGAAGAAAGGGAGCTGCCGACAGCTTGGTAGAGAGAAGGAGCTGCCGACGCAAGGGA
1 GTAGAGAGGGAAGAGAGGGAGCTGCCGGCAGCTTGGTAGAGAGAAAGAGCTGCCGACACAAGGGA
**
10687141 GAGAGGAGAGAGTTTTGGAGCTGACG
66 GAGAGGAGAGAGTGCTGGAGCTGACG
* *
10687167 GTAGAGAGGGAAGAGAGGGAGTTGGCCGGCTGCTTGGTAGAGAGAA
1 GTAGAGAGGGAAGAGAGGGAGCT-GCCGGCAGCTTGGTAGAGAGAA
10687213 GGGAGAGAGT
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
87 5 0.04
88 8 0.07
89 1 0.01
90 58 0.50
91 23 0.20
92 20 0.17
ACGTcount: A:0.31, C:0.11, G:0.45, T:0.13
Consensus pattern (91 bp):
GTAGAGAGGGAAGAGAGGGAGCTGCCGGCAGCTTGGTAGAGAGAAAGAGCTGCCGACACAAGGGA
GAGAGGAGAGAGTGCTGGAGCTGACG
Found at i:10688015 original size:16 final size:15
Alignment explanation
Indices: 10687990--10688096 Score: 62
Period size: 15 Copynumber: 7.1 Consensus size: 15
10687980 ACACAAAATC
10687990 ATAAAAAAAATACATA
1 ATAAAAAAAATA-ATA
*
10688006 ATAAATAAAATAATA
1 ATAAAAAAAATAATA
**
10688021 A-ATAAGCAAATAATA
1 ATA-AAAAAAATAATA
*
10688036 GATAAAAAAAGAGAA-A
1 -ATAAAAAAA-ATAATA
**
10688052 A-GGAAAAAATATATA
1 ATAAAAAAAATA-ATA
*
10688067 A-AAAAAACATAATA
1 ATAAAAAAAATAATA
*
10688081 AT-AAAACAATAATA
1 ATAAAAAAAATAATA
10688095 AT
1 AT
10688097 GATTCAAATA
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
13 2 0.03
14 23 0.33
15 24 0.34
16 17 0.24
17 4 0.06
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.19
Consensus pattern (15 bp):
ATAAAAAAAATAATA
Found at i:10688072 original size:14 final size:14
Alignment explanation
Indices: 10688055--10688096 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
10688045 AGAGAAAAGG
10688055 AAAAAATATATAA-A
1 AAAAAATA-ATAATA
10688069 AAAAACATAATAATA
1 AAAAA-ATAATAATA
*
10688084 AAACAATAATAAT
1 AAAAAATAATAAT
10688097 GATTCAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAAATAATAATA
Found at i:10688439 original size:26 final size:26
Alignment explanation
Indices: 10688410--10688460 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10688400 AATAGAAAAT
10688410 ATGATACTAAAA-AATAAAAAAATAAA
1 ATGA-ACTAAAATAATAAAAAAATAAA
* *
10688436 ATGAAGTAAAATAATAATAAAATAA
1 ATGAACTAAAATAATAAAAAAATAA
10688461 TAATAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.22
Consensus pattern (26 bp):
ATGAACTAAAATAATAAAAAAATAAA
Found at i:10688486 original size:11 final size:11
Alignment explanation
Indices: 10688442--10688467 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10688432 TAAAATGAAG
10688442 TAAAATAATAA
1 TAAAATAATAA
10688453 TAAAATAATAA
1 TAAAATAATAA
10688464 TAAA
1 TAAA
10688468 TGACAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:10707648 original size:189 final size:190
Alignment explanation
Indices: 10707309--10707687 Score: 532
Period size: 189 Copynumber: 2.0 Consensus size: 190
10707299 ATAGTATAAA
* * * * * *
10707309 AAATTGTTGACTATGCCACTGAGTCAACAGTTAGAACAAAAAGTTTATTTGATTCAAAATAAAAA
1 AAATTGTTAACTATACCACTGAATCAACAGTTAGAAAAAAAAGCTTATTTGATCCAAAATAAAAA
* *
10707374 TTTAAGGACTTATTTGAACACAATAAAAAAATATGAGCTAAATTGACTTTTTTGATATAATTTTG
66 TTTAAAGACTTATTTGAACACAATAAAAAAATATGAGCTAAATTGACTTTCTTGATATAATTTTG
* * * **
10707439 TTAGTTAACACTTAAAAAAAAGA-GCTTATTTGACTCAAAATAAAAGTTTTGAAACTTAT
131 TTAATCAACACTTAAAAAAAAGAGGCTTATTTAACTCAAAATAAAAGTTTAAAAACTTAT
* *
10707498 AAATTGTTAACTATACCATTGAATCAACAGTTA-AAAAGAAAAGCTTATTTGATCCAAAATAAGA
1 AAATTGTTAACTATACCACTGAATCAACAGTTAGAAAA-AAAAGCTTATTTGATCCAAAATAAAA
* *
10707562 ATTTAAAGATTTATTTGAACATC-ATAAAAAAGATATGAGTTAAATTGACTTTCTTGATATAATT
65 ATTTAAAGACTTATTTGAACA-CAATAAAAAA-ATATGAGCTAAATTGACTTTCTTGATATAATT
* *
10707626 TTGTTAATCAATACTT-AAAAAAAGAGGCTTATTTAACTCAAAATAAGAGTTTAAAAACTTAT
128 TTGTTAATCAACACTTAAAAAAAAGAGGCTTATTTAACTCAAAATAAAAGTTTAAAAACTTAT
10707688 TTGAATGCAA
Statistics
Matches: 167, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
188 3 0.02
189 88 0.53
190 76 0.46
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (190 bp):
AAATTGTTAACTATACCACTGAATCAACAGTTAGAAAAAAAAGCTTATTTGATCCAAAATAAAAA
TTTAAAGACTTATTTGAACACAATAAAAAAATATGAGCTAAATTGACTTTCTTGATATAATTTTG
TTAATCAACACTTAAAAAAAAGAGGCTTATTTAACTCAAAATAAAAGTTTAAAAACTTAT
Found at i:10710796 original size:9 final size:9
Alignment explanation
Indices: 10710757--10710815 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
10710747 GCCTCCACCG
*
10710757 AAAGATGGC
1 AAAGATGGA
*
10710766 AAGGATGG-
1 AAAGATGGA
*
10710774 CAAGAATGGA
1 AAAG-ATGGA
10710784 AAAGA-GGA
1 AAAGATGGA
10710792 GAAAGATGGA
1 -AAAGATGGA
*
10710802 AAAGATGCA
1 AAAGATGGA
10710811 AAAGA
1 AAAGA
10710816 AGGGAAGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 5 0.12
9 30 0.73
10 6 0.15
ACGTcount: A:0.53, C:0.05, G:0.34, T:0.08
Consensus pattern (9 bp):
AAAGATGGA
Found at i:10710799 original size:27 final size:27
Alignment explanation
Indices: 10710769--10710841 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
10710759 AGATGGCAAG
*
10710769 GATGGCAAGAATGGAAAAG-AGGAGAAA
1 GATGGCAAGAATGCAAAAGAAGG-GAAA
* *
10710796 GATGG-AAAAGATGCAAAAGAAGGGAAG
1 GATGGCAAGA-ATGCAAAAGAAGGGAAA
*
10710823 GATGCCAAGAATGACAAAA
1 GATGGCAAGAATG-CAAAA
10710842 CTTCAACTCC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 3 0.08
27 23 0.62
28 11 0.30
ACGTcount: A:0.52, C:0.07, G:0.33, T:0.08
Consensus pattern (27 bp):
GATGGCAAGAATGCAAAAGAAGGGAAA
Found at i:10720681 original size:47 final size:47
Alignment explanation
Indices: 10720630--10720749 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 47
10720620 TGGTGAGACT
*
10720630 CCATGGAGGAAATCTGTGAGAC-GCTAGAGTTAAGAGTTGATGACAGG
1 CCATGGAGGAAATCTGTGAGACGGC-AGAGTTAAGAGTTGATGAAAGG
* * * * * *
10720677 CCATGG-TGAGAATTTGTGATACGGCAGCGTTCAGAGTTGGTGAAAGG
1 CCATGGAGGA-AATCTGTGAGACGGCAGAGTTAAGAGTTGATGAAAGG
* *
10720724 CCATGGAGGGAATCTGTGACACGGCA
1 CCATGGAGGAAATCTGTGAGACGGCA
10720750 TGGAGGGAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
46 2 0.03
47 54 0.92
48 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (47 bp):
CCATGGAGGAAATCTGTGAGACGGCAGAGTTAAGAGTTGATGAAAGG
Found at i:10720742 original size:23 final size:23
Alignment explanation
Indices: 10720716--10720767 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
10720706 TTCAGAGTTG
10720716 GTGA-AAGGCCATGGAGGGAATCT
1 GTGACAAGG-CATGGAGGGAATCT
*
10720739 GTGACACGGCATGGAGGGAATCT
1 GTGACAAGGCATGGAGGGAATCT
10720762 GTGACA
1 GTGACA
10720768 CGCCAACCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.29, C:0.15, G:0.38, T:0.17
Consensus pattern (23 bp):
GTGACAAGGCATGGAGGGAATCT
Found at i:10720768 original size:23 final size:23
Alignment explanation
Indices: 10720725--10720769 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10720715 GGTGAAAGGC
10720725 CATGGAGGGAATCTGTGACACGG
1 CATGGAGGGAATCTGTGACACGG
10720748 CATGGAGGGAATCTGTGACACG
1 CATGGAGGGAATCTGTGACACG
10720770 CCAACCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.38, T:0.18
Consensus pattern (23 bp):
CATGGAGGGAATCTGTGACACGG
Found at i:10720818 original size:47 final size:47
Alignment explanation
Indices: 10720739--10720940 Score: 226
Period size: 47 Copynumber: 4.3 Consensus size: 47
10720729 GAGGGAATCT
* * **
10720739 GTGACACGGCATGGAGGGAATCTGTGACACGCCAACCATCAGAGTTG
1 GTGAGACGCCATGGAGGGAATCTGTGACACGCCAACGTTCAGAGTTG
** * * *
10720786 GTGAGACGCCATGGATTGAATCTGTGAGACGCCAAAGTTAAGAGTTG
1 GTGAGACGCCATGGAGGGAATCTGTGACACGCCAACGTTCAGAGTTG
* * *
10720833 GTGACACGCCATGGAGGGAATCTGTGACACGTCAGCGTTCAGAGTTG
1 GTGAGACGCCATGGAGGGAATCTGTGACACGCCAACGTTCAGAGTTG
* * * *
10720880 GTGAGTCGCCATGAAGGGAATCTGTGACACGCTAGA-GTTTAGAGTTG
1 GTGAGACGCCATGGAGGGAATCTGTGACACGCCA-ACGTTCAGAGTTG
* *
10720927 GTGACATGCCATGG
1 GTGAGACGCCATGG
10720941 TCATGTTTAG
Statistics
Matches: 126, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (47 bp):
GTGAGACGCCATGGAGGGAATCTGTGACACGCCAACGTTCAGAGTTG
Found at i:10720871 original size:164 final size:164
Alignment explanation
Indices: 10720590--10720910 Score: 448
Period size: 164 Copynumber: 2.0 Consensus size: 164
10720580 ACGTCATGTT
* * * *
10720590 GGGAATGTGTGACACGACACCGCTCAGAGTTGGTGAGACTCCATGGAGGAAATCTGTGAGACGCT
1 GGGAATCTGTGACACGACACCGATCAGAGTTGGTGAGACGCCATGGAGGAAATCTGTGAGACGCC
* * * * *
10720655 AGAGTTAAGAGTTGATGACAGGCCATGGTGAGAATTTGTGATACGGCAGCGTTCAGAGTTGGTGA
66 AAAGTTAAGAGTTGATGACACGCCATGGAGAGAATCTGTGACACGGCAGCGTTCAGAGTTGGTGA
* *
10720720 AAGGCCATGGAGGGAATCTGTGACACGGCATGGA
131 AACGCCATGAAGGGAATCTGTGACACGGCATGGA
* *
10720754 GGGAATCTGTGACACGCCAACC-ATCAGAGTTGGTGAGACGCCATGGATTG-AATCTGTGAGACG
1 GGGAATCTGTGACACGAC-ACCGATCAGAGTTGGTGAGACGCCATGGA-GGAAATCTGTGAGACG
* * *
10720817 CCAAAGTTAAGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTCAGCGTTCAGAGTTGGT
64 CCAAAGTTAAGAGTTGATGACACGCCATGGAGAGAATCTGTGACACGGCAGCGTTCAGAGTTGGT
**
10720882 GAGTCGCCATGAAGGGAATCTGTGACACG
129 GAAACGCCATGAAGGGAATCTGTGACACG
10720911 CTAGAGTTTA
Statistics
Matches: 137, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
164 133 0.97
165 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.34, T:0.21
Consensus pattern (164 bp):
GGGAATCTGTGACACGACACCGATCAGAGTTGGTGAGACGCCATGGAGGAAATCTGTGAGACGCC
AAAGTTAAGAGTTGATGACACGCCATGGAGAGAATCTGTGACACGGCAGCGTTCAGAGTTGGTGA
AACGCCATGAAGGGAATCTGTGACACGGCATGGA
Found at i:10720901 original size:94 final size:94
Alignment explanation
Indices: 10720739--10720940 Score: 278
Period size: 94 Copynumber: 2.1 Consensus size: 94
10720729 GAGGGAATCT
* * **
10720739 GTGACACGGCATGGAGGGAATCTGTGACACGCCAACCATCAGAGTTGGTGAGACGCCATGGATTG
1 GTGACACGCCATGGAGGGAATCTGTGACACGCCAACCATCAGAGTTGGTGAGACGCCATGAAGGG
*
10720804 AATCTGTGAGACGCCAAAGTTAAGAGTTG
66 AATCTGTGACACGCCAAAGTTAAGAGTTG
* * ** *
10720833 GTGACACGCCATGGAGGGAATCTGTGACACGTCAGCGTTCAGAGTTGGTGAGTCGCCATGAAGGG
1 GTGACACGCCATGGAGGGAATCTGTGACACGCCAACCATCAGAGTTGGTGAGACGCCATGAAGGG
* * *
10720898 AATCTGTGACACGCTAGAGTTTAGAGTTG
66 AATCTGTGACACGCCAAAGTTAAGAGTTG
*
10720927 GTGACATGCCATGG
1 GTGACACGCCATGG
10720941 TCATGTTTAG
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (94 bp):
GTGACACGCCATGGAGGGAATCTGTGACACGCCAACCATCAGAGTTGGTGAGACGCCATGAAGGG
AATCTGTGACACGCCAAAGTTAAGAGTTG
Found at i:10720991 original size:23 final size:23
Alignment explanation
Indices: 10720957--10721009 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
10720947 TTAGAGTGTG
*
10720957 TGACACGGCATTGCTTGAAAAGC
1 TGACACGACATTGCTTGAAAAGC
10720980 TGACACGACATTGCTTGAAAAGC
1 TGACACGACATTGCTTGAAAAGC
10721003 TGACACG
1 TGACACG
10721010 CCATGGTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (23 bp):
TGACACGACATTGCTTGAAAAGC
Found at i:10721074 original size:76 final size:75
Alignment explanation
Indices: 10720928--10721075 Score: 206
Period size: 76 Copynumber: 2.0 Consensus size: 75
10720918 TTAGAGTTGG
* * *
10720928 TGACATGCCATGGTCATGTTTAGAGTGTGTGACACGGCATTGCTTGAAAAGCTGACACGACATTG
1 TGACACGCCATGGTCATGTTTAGAGTGTGTGACACGGCAGTGCTTGAAAAGCTGACACGACATGG
10720993 CTTGAAAAGC
66 CTTGAAAAGC
* ** * *
10721003 TGACACGCCATGGTCATGGTTTAGAGTGTGTGACATGGCAGTGCTTGAGCAGTTGACACGTCATG
1 TGACACGCCATGGTCAT-GTTTAGAGTGTGTGACACGGCAGTGCTTGAAAAGCTGACACGACATG
*
10721068 GTTTGAAA
65 GCTTGAAA
10721076 TAGAGAAAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
75 16 0.25
76 47 0.75
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (75 bp):
TGACACGCCATGGTCATGTTTAGAGTGTGTGACACGGCAGTGCTTGAAAAGCTGACACGACATGG
CTTGAAAAGC
Found at i:10721716 original size:93 final size:93
Alignment explanation
Indices: 10721541--10721804 Score: 320
Period size: 93 Copynumber: 2.8 Consensus size: 93
10721531 TAGTTATTGA
* * * * * * *
10721541 TGTGTGACAGCATTTTACTTGATACGCATAGCGTGTGACAGCATTTTACTTGATATGCATGGTGT
1 TGTGTCACAGAATTTTACTTGTTATGCATGGCGTGTGATAGCATTTTACTTGATATGCATGGCGT
* *
10721606 GTGACAACATTTTACTTGATATGCAT-G
66 GTCACAACATTTAACTTGATATGCATGG
*
10721633 TCGTGTCACAGAATTTTACTTGTTATGCATGGCATGTGATAGCATTTTACTTGATATGCATGGCG
1 T-GTGTCACAGAATTTTACTTGTTATGCATGGCGTGTGATAGCATTTTACTTGATATGCATGGCG
* * *
10721698 TGTCATAACGTTTAACTTGCTATGCATGG
65 TGTCACAACATTTAACTTGATATGCATGG
* *
10721727 TGTGTCACA-ACATTTTACTTGTTATGCATGGCGTGTCATAACATTTTGA-TTGCA-ATGCATGG
1 TGTGTCACAGA-ATTTTACTTGTTATGCATGGCGTGTGATAGCATTTT-ACTTG-ATATGCATGG
*
10721789 CGCGTCACAACATTTA
63 CGTGTCACAACATTTA
10721805 TTCCTTATTT
Statistics
Matches: 148, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
92 2 0.01
93 142 0.96
94 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (93 bp):
TGTGTCACAGAATTTTACTTGTTATGCATGGCGTGTGATAGCATTTTACTTGATATGCATGGCGT
GTCACAACATTTAACTTGATATGCATGG
Found at i:10721763 original size:31 final size:31
Alignment explanation
Indices: 10721542--10721803 Score: 278
Period size: 31 Copynumber: 8.5 Consensus size: 31
10721532 AGTTATTGAT
* * * *
10721542 GTGTGACAGCATTTTACTTGATACGCATAGC
1 GTGTCACAACATTTTACTTGATATGCATGGC
* * *
10721573 GTGTGACAGCATTTTACTTGATATGCATGGT
1 GTGTCACAACATTTTACTTGATATGCATGGC
* *
10721604 GTGTGACAACATTTTACTTGATATGCATGTC
1 GTGTCACAACATTTTACTTGATATGCATGGC
*
10721635 GTGTCACAGA-ATTTTACTTGTTATGCATGGC
1 GTGTCACA-ACATTTTACTTGATATGCATGGC
* * * *
10721666 ATGTGATAGCATTTTACTTGATATGCATGGC
1 GTGTCACAACATTTTACTTGATATGCATGGC
* * * * *
10721697 GTGTCATAACGTTTAACTTGCTATGCATGGT
1 GTGTCACAACATTTTACTTGATATGCATGGC
*
10721728 GTGTCACAACATTTTACTTGTTATGCATGGC
1 GTGTCACAACATTTTACTTGATATGCATGGC
*
10721759 GTGTCATAACATTTTGA-TTGCA-ATGCATGGC
1 GTGTCACAACATTTT-ACTTG-ATATGCATGGC
*
10721790 GCGTCACAACATTT
1 GTGTCACAACATTT
10721804 ATTCCTTATT
Statistics
Matches: 197, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
31 195 0.99
32 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (31 bp):
GTGTCACAACATTTTACTTGATATGCATGGC
Found at i:10723693 original size:156 final size:155
Alignment explanation
Indices: 10723434--10723917 Score: 623
Period size: 156 Copynumber: 3.1 Consensus size: 155
10723424 GTTTATCGAG
* * * * *
10723434 TAACACAGTAATTTCTGTAATTGCAGTTTACGAAAGACACGACAGGTCCTCAAGCACCGATCGGT
1 TAACACAGTTATATATGTAATTGCAGTTTACGAAAGAGACGACAGGTCCTGAAGCACCGATCGGT
* * * * * ** *
10723499 CCAGCTCAACCGTAAACAGCTAACGAGCCAACAATAAGGATATTAAAATTGTAACGGTTAATGTT
66 CCGGCTCCACCGCAGATAGCTAACGAG-CAACGGTAAGGATATTAAAGTTGTAACGGTTAATGTT
*
10723564 CAACAATTTCATACATGATTATTGAA
130 CAACAATTCCATACATGATTATTGAA
* * * *
10723590 TAACACAATTATATATGTAATTGCAATTTACGAAAGTGACGACAGGTCTTGAAGCACCGATCGGT
1 TAACACAGTTATATATGTAATTGCAGTTTACGAAAGAGACGACAGGTCCTGAAGCACCGATCGGT
*
10723655 CCGGCTCCACCGCAGATAGCTAACGAGCTGACGGTAAGGATATTAAAGTTGTAACGGTTAATGTT
66 CCGGCTCCACCGCAGATAGCTAACGAGC-AACGGTAAGGATATTAAAGTTGTAACGGTTAATGTT
10723720 CAACAATTCCATACATGATTATTGAA
130 CAACAATTCCATACATGATTATTGAA
* * * * * * *
10723746 TAACATAGTTATATATGTAATTGCAGTATGCGGAAGCGACGACAAGTCCTGAAGCAACGATCGGT
1 TAACACAGTTATATATGTAATTGCAGTTTACGAAAGAGACGACAGGTCCTGAAGCACCGATCGGT
* * * * * *
10723811 CTGGCTCCTCTGCAGACT-GCTAACAAGCCACTGGTTAGGATATTAAAGTTGTAACGGTTAATGT
66 CCGGCTCCACCGCAGA-TAGCTAACGAGCAAC-GGTAAGGATATTAAAGTTGTAACGGTTAATGT
10723875 TCAACAATTCCAT--ATGATTATTGAA
129 TCAACAATTCCATACATGATTATTGAA
10723900 TAACACAGTTATATATGT
1 TAACACAGTTATATATGT
10723918 TATTATAGTT
Statistics
Matches: 289, Mismatches: 36, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
154 29 0.10
155 3 0.01
156 256 0.89
157 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (155 bp):
TAACACAGTTATATATGTAATTGCAGTTTACGAAAGAGACGACAGGTCCTGAAGCACCGATCGGT
CCGGCTCCACCGCAGATAGCTAACGAGCAACGGTAAGGATATTAAAGTTGTAACGGTTAATGTTC
AACAATTCCATACATGATTATTGAA
Found at i:10724319 original size:31 final size:31
Alignment explanation
Indices: 10724281--10724608 Score: 266
Period size: 31 Copynumber: 10.6 Consensus size: 31
10724271 GTCAGTTTTA
* * *
10724281 GCGTGTCACAACGTTTGATTTGATATGCATG
1 GCGTGTCACAACATTTTATTTGTTATGCATG
* ** * *
10724312 GCGTGTCAGAACATTTTGCTTGTTATCCTTG
1 GCGTGTCACAACATTTTATTTGTTATGCATG
* *
10724343 GCGTGTCACCA-AGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTAT-TTGTTATGCATG
* * *
10724374 GTGTGTCACAACATTTTAATTGTTTTGCATG
1 GCGTGTCACAACATTTTATTTGTTATGCATG
** * * *
10724405 GCGTGTCACAACATTTTCCTCGTTATCCTTG
1 GCGTGTCACAACATTTTATTTGTTATGCATG
* * *
10724436 GCGTGTCACCA-AGTTTATCTTGTTATGCATA
1 GCGTGTCACAACATTTTAT-TTGTTATGCATG
* *
10724467 GCGTGTCACAACATTTTAATTGTTTTGCATG
1 GCGTGTCACAACATTTTATTTGTTATGCATG
* * ** ** * *
10724498 GTGTGTCACAACATTATCCTCATTATCCTTG
1 GCGTGTCACAACATTTTATTTGTTATGCATG
* * *
10724529 ACGTGTCACTA-AGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTAT-TTGTTATGCATG
* * *
10724560 GCGTGTCACAACATTTTAATTGTTTTGTATG
1 GCGTGTCACAACATTTTATTTGTTATGCATG
*
10724591 GCGTGTGACAACATTTTA
1 GCGTGTCACAACATTTTA
10724609 CTGTTTATGG
Statistics
Matches: 224, Mismatches: 67, Indels: 12
0.74 0.22 0.04
Matches are distributed among these distances:
30 11 0.05
31 198 0.88
32 15 0.07
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (31 bp):
GCGTGTCACAACATTTTATTTGTTATGCATG
Found at i:10724442 original size:93 final size:93
Alignment explanation
Indices: 10724281--10724607 Score: 501
Period size: 93 Copynumber: 3.5 Consensus size: 93
10724271 GTCAGTTTTA
* * * * * * * *
10724281 GCGTGTCACAACGTTTGATTTGATATGCATGGCGTGTCAGAACATTTTGCTTGTTATCCTTGGCG
1 GCGTGTCACAACATTTTAATTGTTTTGCATGGCGTGTCACAACATTTTCCTCGTTATCCTTGGCG
10724346 TGTCACCAAGTTTATCTTGTTATGCATG
66 TGTCACCAAGTTTATCTTGTTATGCATG
*
10724374 GTGTGTCACAACATTTTAATTGTTTTGCATGGCGTGTCACAACATTTTCCTCGTTATCCTTGGCG
1 GCGTGTCACAACATTTTAATTGTTTTGCATGGCGTGTCACAACATTTTCCTCGTTATCCTTGGCG
*
10724439 TGTCACCAAGTTTATCTTGTTATGCATA
66 TGTCACCAAGTTTATCTTGTTATGCATG
* * * *
10724467 GCGTGTCACAACATTTTAATTGTTTTGCATGGTGTGTCACAACATTATCCTCATTATCCTTGACG
1 GCGTGTCACAACATTTTAATTGTTTTGCATGGCGTGTCACAACATTTTCCTCGTTATCCTTGGCG
*
10724532 TGTCACTAAGTTTATCTTGTTATGCATG
66 TGTCACCAAGTTTATCTTGTTATGCATG
* *
10724560 GCGTGTCACAACATTTTAATTGTTTTGTATGGCGTGTGACAACATTTT
1 GCGTGTCACAACATTTTAATTGTTTTGCATGGCGTGTCACAACATTTT
10724608 ACTGTTTATG
Statistics
Matches: 213, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 213 1.00
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (93 bp):
GCGTGTCACAACATTTTAATTGTTTTGCATGGCGTGTCACAACATTTTCCTCGTTATCCTTGGCG
TGTCACCAAGTTTATCTTGTTATGCATG
Found at i:10726103 original size:16 final size:14
Alignment explanation
Indices: 10726055--10726142 Score: 63
Period size: 14 Copynumber: 5.9 Consensus size: 14
10726045 TAGGCCCTTG
*
10726055 TTTGTATA-ATTTT
1 TTTGTATACAATTT
*
10726068 TTTGGTATACAAAAATT
1 TTT-GTATAC--AATTT
*
10726085 TTTGTATACAATTCA
1 TTTGTATACAATT-T
10726100 TTT-TATACACATTT
1 TTTGTATACA-ATTT
10726114 TTTGTATACACAATTT
1 TTTGTAT--ACAATTT
*
10726130 ATTGTATACAATT
1 TTTGTATACAATT
10726143 CATTATAAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
13 3 0.05
14 23 0.38
15 9 0.15
16 16 0.27
17 9 0.15
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (14 bp):
TTTGTATACAATTT
Found at i:10727281 original size:31 final size:31
Alignment explanation
Indices: 10727241--10727633 Score: 434
Period size: 31 Copynumber: 12.7 Consensus size: 31
10727231 ACACACCAGA
* *
10727241 ACTTGTTATGCATGACAG-GTCAGAACAATTT
1 ACTTGTTATGCATGGC-GTGTCACAACAATTT
*
10727272 AATTGTTATGCATGGCGTGTCA-ACACAATTT
1 ACTTGTTATGCATGGCGTGTCACA-ACAATTT
* *
10727303 ACTTGTTATGCATGACGTGTCACAACATTTT
1 ACTTGTTATGCATGGCGTGTCACAACAATTT
* *
10727334 ACTTGTTATGCATGGCGGGTCAGAACAATTT
1 ACTTGTTATGCATGGCGTGTCACAACAATTT
* *
10727365 AATTGTTATGCATGGCGTGTCACAAC-GTTT
1 ACTTGTTATGCATGGCGTGTCACAACAATTT
*
10727395 AACTTGTTATACATGGCGTGTCAGC-ACAATTT
1 -ACTTGTTATGCATGGCGTGTCA-CAACAATTT
*
10727427 ACTTGTTATGCATGGCGTGTCACAACATTTT
1 ACTTGTTATGCATGGCGTGTCACAACAATTT
* * *** *
10727458 ACTTGTTATGTATGGTGTGTCATTTCATTTT
1 ACTTGTTATGCATGGCGTGTCACAACAATTT
* * *
10727489 TCTTGTTATGCATGACGTGTCACAACATTTT
1 ACTTGTTATGCATGGCGTGTCACAACAATTT
* *** *
10727520 ACTTGTTATGTATGGCGTGTCATTTCATTTT
1 ACTTGTTATGCATGGCGTGTCACAACAATTT
* * *
10727551 TCTTGTTATGCATGGCGTGTCACAATATTTT
1 ACTTGTTATGCATGGCGTGTCACAACAATTT
* * * *
10727582 ATTTGATATGCACGGCGTGTCACAACAGTTT
1 ACTTGTTATGCATGGCGTGTCACAACAATTT
10727613 ACTTGTTATGCATGGCGTGTC
1 ACTTGTTATGCATGGCGTGTC
10727634 TCATATTTAT
Statistics
Matches: 304, Mismatches: 51, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
30 6 0.02
31 293 0.96
32 5 0.02
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (31 bp):
ACTTGTTATGCATGGCGTGTCACAACAATTT
Found at i:10731161 original size:31 final size:31
Alignment explanation
Indices: 10731115--10731196 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
10731105 TTGTCAGTCG
* *
10731115 TGTTGTTACATGCCATGCATAT-AACGTAAAA
1 TGTTGTAACACGCCATGCATATCAA-GTAAAA
*
10731146 TGTTGTAACACGCCATGCATATCAAGTCAAA
1 TGTTGTAACACGCCATGCATATCAAGTAAAA
* *
10731177 TGTCGTGACACGCCATGCAT
1 TGTTGTAACACGCCATGCAT
10731197 CAGCATCGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
31 43 0.96
32 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (31 bp):
TGTTGTAACACGCCATGCATATCAAGTAAAA
Found at i:10731228 original size:23 final size:24
Alignment explanation
Indices: 10731177--10731237 Score: 90
Period size: 23 Copynumber: 2.6 Consensus size: 24
10731167 TCAAGTCAAA
10731177 TGTCGTGACACGCCATGCATCAGC
1 TGTCGTGACACGCCATGCATCAGC
* *
10731201 -ATCGTTACACGCCATGCATCA-C
1 TGTCGTGACACGCCATGCATCAGC
10731223 TGTCGTGACACGCCA
1 TGTCGTGACACGCCA
10731238 ATCACTGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.21
Consensus pattern (24 bp):
TGTCGTGACACGCCATGCATCAGC
Found at i:10731357 original size:55 final size:55
Alignment explanation
Indices: 10731266--10731451 Score: 207
Period size: 55 Copynumber: 3.4 Consensus size: 55
10731256 TGGTTACATC
* * *
10731266 AACATCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACGACATGCCAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAATCAGTTAACCCACAACATGCCAGG
* * * * *
10731321 AACAGCCGTGACACACCAAAAACCCATAAATTCAGTTAACCCACCACA--CCTTAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAATCAGTTAACCCACAACATGCC--AGG
* * * *
10731376 AACAGTCATGACACGCTAACAACCCAAATAA-CTAGTTAACCCACAACATGCCAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAATC-AGTTAACCCACAACATGCCAGG
*
10731431 AACAGTCGTGACACGCTAAAA
1 AACAGCCGTGACACGCTAAAA
10731452 TAACTCTAAC
Statistics
Matches: 108, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
53 2 0.02
54 1 0.01
55 103 0.95
57 2 0.02
ACGTcount: A:0.41, C:0.32, G:0.13, T:0.13
Consensus pattern (55 bp):
AACAGCCGTGACACGCTAAAAACCCAAAAAATCAGTTAACCCACAACATGCCAGG
Found at i:10733208 original size:117 final size:116
Alignment explanation
Indices: 10733016--10733241 Score: 427
Period size: 117 Copynumber: 1.9 Consensus size: 116
10733006 GGATAATTAT
10733016 TTAAAATATAATTTAATTATATTATATTTTATCCATCATAATCAATTAAATTTGTGTATAGATGT
1 TTAAAATATAATTTAATTATATTATATTTTATCCATCATAATCAATTAAATTTGTGTATAGATGT
10733081 TTTTTTTTAGCCAATTCTTCATATATTATGAATCATTTTCCAANAAATTAAA
66 TTTTTTTTAGCCAATTCTTCATATATTATGAATCATTTTCCAA-AAATTAAA
10733133 TTAAAATATAATTTAATTAT-TTATATTTTATCCATCATAATCAATTAAATTATGTGTATAGATG
1 TTAAAATATAATTTAATTATATTATATTTTATCCATCATAATCAATTAAATT-TGTGTATAGATG
10733197 TTTTTTTTTAGCCAATTCTTCATATATTATGAATCATTTTCCAAA
65 TTTTTTTTTAGCCAATTCTTCATATATTATGAATCATTTTCCAAA
10733242 TATTGTTTAG
Statistics
Matches: 108, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
116 32 0.30
117 76 0.70
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (116 bp):
TTAAAATATAATTTAATTATATTATATTTTATCCATCATAATCAATTAAATTTGTGTATAGATGT
TTTTTTTTAGCCAATTCTTCATATATTATGAATCATTTTCCAAAAATTAAA
Found at i:10733465 original size:86 final size:87
Alignment explanation
Indices: 10733314--10733508 Score: 202
Period size: 86 Copynumber: 2.3 Consensus size: 87
10733304 ATAAAGAATC
* * * * *
10733314 ATGTTTTTTGATATATTAAATAAAAAATCATATCTTTGAAATTAAAAAGATAGTCTTCCATTTTT
1 ATGTCTTTTGATATATTAAATAAAAAATCATATCTCTAAAATTAAAAAGATAGCCTTCCAATTTT
10733379 TTCT-AAAAAAAAAAGTAAGA-T
66 TTCTCAAAAAAAAAAGTAA-ATT
* * *
10733400 ATGTCTTTTGATATATGAAATATAAAATCATATCTAGCTAAAATT-AAATGAT-GACCTT-CAAT
1 ATGTCTTTTGATATATTAAATAAAAAATCATATCT--CTAAAATTAAAAAGATAG-CCTTCCAAT
* ** *
10733462 TTTTTTTCCCAAAAAAATGTAAATT
63 TTTTTCTCAAAAAAAAAAGTAAATT
*
10733487 ATGTCTTTTGATAGATTAAATA
1 ATGTCTTTTGATATATTAAATA
10733509 CAACTTCATA
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
86 43 0.48
87 41 0.46
88 6 0.07
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (87 bp):
ATGTCTTTTGATATATTAAATAAAAAATCATATCTCTAAAATTAAAAAGATAGCCTTCCAATTTT
TTCTCAAAAAAAAAAGTAAATT
Found at i:10735411 original size:23 final size:22
Alignment explanation
Indices: 10735371--10735414 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
10735361 AGAGTGGCTA
*
10735371 AGAGAGAGGGGAAGACCAACTG
1 AGAGAGAGGAGAAGACCAACTG
10735393 AGAGAGAGGAAGAAGACCAACT
1 AGAGAGAGG-AGAAGACCAACT
10735415 AAGAAAGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.45, C:0.14, G:0.36, T:0.05
Consensus pattern (22 bp):
AGAGAGAGGAGAAGACCAACTG
Found at i:10735430 original size:23 final size:23
Alignment explanation
Indices: 10735381--10735432 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
10735371 AGAGAGAGGG
*
10735381 GAAGACCAACTGAGAGAGAGGAA
1 GAAGACCAACTGAGAGAAAGGAA
10735404 GAAGACCAACT-A-AGAAAGGAGA
1 GAAGACCAACTGAGAGAAAGGA-A
10735426 TGAAGAC
1 -GAAGAC
10735433 GGGGGAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 2 0.08
23 17 0.65
ACGTcount: A:0.50, C:0.13, G:0.31, T:0.06
Consensus pattern (23 bp):
GAAGACCAACTGAGAGAAAGGAA
Found at i:10736636 original size:14 final size:14
Alignment explanation
Indices: 10736617--10736643 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10736607 TGTGTCCCAC
10736617 AAAAGGGATTAGGT
1 AAAAGGGATTAGGT
10736631 AAAAGGGATTAGG
1 AAAAGGGATTAGG
10736644 ATCAACCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.37, T:0.19
Consensus pattern (14 bp):
AAAAGGGATTAGGT
Found at i:10736657 original size:62 final size:62
Alignment explanation
Indices: 10736582--10736704 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
10736572 CACGATCCAC
10736582 ATCAACCTTTGTGAAGTATTACGGTTGTGTCCCACAAAAGGGATTAGGTAAAAGGGATTAGG
1 ATCAACCTTTGTGAAGTATTACGGTTGTGTCCCACAAAAGGGATTAGGTAAAAGGGATTAGG
*
10736644 ATCAACCTTTGTGAGGTATTACGGTTGTGTCCCACAAAAGGGATTAGGTAAAAGGGATTAG
1 ATCAACCTTTGTGAAGTATTACGGTTGTGTCCCACAAAAGGGATTAGGTAAAAGGGATTAG
10736705 TTTAAAAGTG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.28
Consensus pattern (62 bp):
ATCAACCTTTGTGAAGTATTACGGTTGTGTCCCACAAAAGGGATTAGGTAAAAGGGATTAGG
Found at i:10738190 original size:22 final size:20
Alignment explanation
Indices: 10738160--10738199 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
10738150 GAGGAGGGAG
10738160 AGAGGGAAGCTTTGAAAACAAT
1 AGAGGGAAGC--TGAAAACAAT
*
10738182 AGAGTGAAGCTGAAAACA
1 AGAGGGAAGCTGAAAACA
10738200 GGCCATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.47, C:0.10, G:0.28, T:0.15
Consensus pattern (20 bp):
AGAGGGAAGCTGAAAACAAT
Found at i:10740093 original size:32 final size:32
Alignment explanation
Indices: 10740044--10740104 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
10740034 CATTGAGTTT
*
10740044 CATTTTTATCACTCATTTTACTTGTTTATGTA
1 CATTTTTATCACCCATTTTACTTGTTTATGTA
* *
10740076 CATTTTTGTCACCCATTTTCCTTGTTTAT
1 CATTTTTATCACCCATTTTACTTGTTTAT
10740105 TTACTCAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.18, C:0.20, G:0.07, T:0.56
Consensus pattern (32 bp):
CATTTTTATCACCCATTTTACTTGTTTATGTA
Found at i:10748394 original size:31 final size:30
Alignment explanation
Indices: 10748337--10748394 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
10748327 AAAAAAGTTA
* *
10748337 TAAAAAAGATAAAATTATAAATATAATCAG
1 TAAAAAAGATAAAATTAAAAAAATAATCAG
10748367 TAAAAAA-ATTAAATATTAAAAAAATAAT
1 TAAAAAAGA-TAAA-ATTAAAAAAATAAT
10748395 AACAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.04
30 11 0.46
31 12 0.50
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (30 bp):
TAAAAAAGATAAAATTAAAAAAATAATCAG
Found at i:10756836 original size:24 final size:24
Alignment explanation
Indices: 10756804--10756852 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10756794 TCCTGCTCCT
* *
10756804 CCTCTTTCTACTTCTACTGTTGCC
1 CCTCCTTCTACTTCAACTGTTGCC
* *
10756828 CCTCCTTCTGCTTCAAGTGTTGCC
1 CCTCCTTCTACTTCAACTGTTGCC
10756852 C
1 C
10756853 TTTATGCTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.08, C:0.39, G:0.12, T:0.41
Consensus pattern (24 bp):
CCTCCTTCTACTTCAACTGTTGCC
Found at i:10757015 original size:24 final size:24
Alignment explanation
Indices: 10756987--10757034 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10756977 ACAGATGCAG
* *
10756987 TCAATGCAATTCGAGATCCAGCAA
1 TCAATACAATTAGAGATCCAGCAA
*
10757011 TCAATACAGTTAGAGATCCAGCAA
1 TCAATACAATTAGAGATCCAGCAA
10757035 GCGAGGCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.21
Consensus pattern (24 bp):
TCAATACAATTAGAGATCCAGCAA
Found at i:10757079 original size:24 final size:24
Alignment explanation
Indices: 10757046--10757095 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
10757036 CGAGGCAAAT
*
10757046 GCAGTTAATGCAGTTGGAGATCCA
1 GCAGTCAATGCAGTTGGAGATCCA
*
10757070 GCAGTCAATGTAGTTGGAGATCCA
1 GCAGTCAATGCAGTTGGAGATCCA
10757094 GC
1 GC
10757096 GGGCGATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (24 bp):
GCAGTCAATGCAGTTGGAGATCCA
Found at i:10757111 original size:63 final size:63
Alignment explanation
Indices: 10756978--10757112 Score: 171
Period size: 63 Copynumber: 2.1 Consensus size: 63
10756968 TATGCAGATA
10756978 CAGATGCAGTCAATGCAATTCGAGATCCAGCAATCAATACAGTTAGAGATCCAGCAAGCGAGG
1 CAGATGCAGTCAATGCAATTCGAGATCCAGCAATCAATACAGTTAGAGATCCAGCAAGCGAGG
* * * * * ** * ** *
10757041 CAAATGCAGTTAATGCAGTTGGAGATCCAGCAGTCAATGTAGTTGGAGATCCAGCGGGCGATG
1 CAGATGCAGTCAATGCAATTCGAGATCCAGCAATCAATACAGTTAGAGATCCAGCAAGCGAGG
10757104 CAGATGCAG
1 CAGATGCAG
10757113 ACGCAGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (63 bp):
CAGATGCAGTCAATGCAATTCGAGATCCAGCAATCAATACAGTTAGAGATCCAGCAAGCGAGG
Found at i:10758737 original size:26 final size:26
Alignment explanation
Indices: 10758707--10758757 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
10758697 TAACATTATT
* *
10758707 TTGTATCTTTTCCATATTATTCTTTA
1 TTGTATCATTTACATATTATTCTTTA
10758733 TTGTATCATTTACATATTATTCTTT
1 TTGTATCATTTACATATTATTCTTT
10758758 GTATTCATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.61
Consensus pattern (26 bp):
TTGTATCATTTACATATTATTCTTTA
Done.