Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 18 of 135
Found at i:7669296 original size:21 final size:21
Alignment explanation
Indices: 7669272--7669325 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
7669262 CCTACTTGAG
7669272 TAGGTATTCCTAACCTTATTT
1 TAGGTATTCCTAACCTTATTT
7669293 TAGGTATTCCTAACCTTATTT
1 TAGGTATTCCTAACCTTATTT
7669314 TAGGTATTCCTA
1 TAGGTATTCCTA
7669326 TCATGGGAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (21 bp):
TAGGTATTCCTAACCTTATTT
Found at i:7672062 original size:20 final size:20
Alignment explanation
Indices: 7672001--7672054 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
7671991 TCTTAACCTA
**
7672001 AAACTCAAAACCTCGAACTTT
1 AAACTC-AAACCTTAAACTTT
7672022 AAACTCAAACCTTAAACTTT
1 AAACTCAAACCTTAAACTTT
7672042 AAACCTCAAACCT
1 AAA-CTCAAACCT
7672055 AAAGTTTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.24
Consensus pattern (20 bp):
AAACTCAAACCTTAAACTTT
Found at i:7673278 original size:40 final size:38
Alignment explanation
Indices: 7673210--7673344 Score: 96
Period size: 40 Copynumber: 3.4 Consensus size: 38
7673200 ACCAGAATGG
* *
7673210 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAGTGA
* *
7673250 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAGTGA
* * * * *
7673287 TACCCAGTACCTCATCGAATCTATCCGAAGGAA-AATAATGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAA-GAATAA-AGTGA
*
7673328 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
7673345 ACTCGAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
37 21 0.28
38 8 0.11
39 1 0.01
40 24 0.32
41 20 0.27
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAGTGA
Found at i:7674159 original size:9 final size:9
Alignment explanation
Indices: 7674145--7674181 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
7674135 CTGTTCTTCC
7674145 TTCTTTTAT
1 TTCTTTTAT
*
7674154 TTCTTTTGT
1 TTCTTTTAT
7674163 TTC-TTTA-
1 TTCTTTTAT
7674170 TTCTTTTAT
1 TTCTTTTAT
7674179 TTC
1 TTC
7674182 ATATACATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 3 0.12
8 7 0.29
9 14 0.58
ACGTcount: A:0.08, C:0.14, G:0.03, T:0.76
Consensus pattern (9 bp):
TTCTTTTAT
Found at i:7674173 original size:16 final size:17
Alignment explanation
Indices: 7674149--7674181 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7674139 TCTTCCTTCT
*
7674149 TTTATTTCTTTTGTTTC
1 TTTATTTCTTTTATTTC
7674166 TTTA-TTCTTTTATTTC
1 TTTATTTCTTTTATTTC
7674182 ATATACATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTATTTCTTTTATTTC
Found at i:7674237 original size:11 final size:12
Alignment explanation
Indices: 7674204--7674264 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 12
7674194 ATATTAGTTA
7674204 ATAATAATAA-T
1 ATAATAATAATT
*
7674215 ATAATACTAATT
1 ATAATAATAATT
7674227 A-AATAATAATTT
1 ATAATAATAA-TT
* *
7674239 ATATTATTATATT
1 ATAATAATA-ATT
*
7674252 ATAATATTAATT
1 ATAATAATAATT
7674264 A
1 A
7674265 ATAAAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
11 16 0.39
12 9 0.22
13 15 0.37
14 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:7674259 original size:13 final size:12
Alignment explanation
Indices: 7674189--7674264 Score: 57
Period size: 13 Copynumber: 6.2 Consensus size: 12
7674179 TTCATATACA
*
7674189 TATATATATTAGT
1 TATA-ATATTAAT
*
7674202 TAATAATAATAA-
1 T-ATAATATTAAT
*
7674214 TATAATACTAAT
1 TATAATATTAAT
*
7674226 TA-AATAATAATT
1 TATAATATTAA-T
*
7674238 TATATTATTATAT
1 TATAATATTA-AT
7674251 TATAATATTAAT
1 TATAATATTAAT
7674263 TA
1 TA
7674265 ATAAAAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
11 16 0.31
12 10 0.20
13 21 0.41
14 4 0.08
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (12 bp):
TATAATATTAAT
Found at i:7680344 original size:40 final size:38
Alignment explanation
Indices: 7680276--7680410 Score: 96
Period size: 40 Copynumber: 3.4 Consensus size: 38
7680266 ACCAGAATGG
* *
7680276 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAGTGA
* *
7680316 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAGTGA
* * * * *
7680353 TACCCAGTACCTCATCGAATCTATCCGAAGGAA-AATAATGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAA-GAATAA-AGTGA
*
7680394 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
7680411 ACTCGAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
37 21 0.28
38 8 0.11
39 1 0.01
40 24 0.32
41 20 0.27
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAGTGA
Found at i:7681179 original size:13 final size:13
Alignment explanation
Indices: 7681163--7681187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7681153 CTTTTCTTTT
7681163 TCCTTCCCTGTTC
1 TCCTTCCCTGTTC
7681176 TCCTTCCCTGTT
1 TCCTTCCCTGTT
7681188 TCGTTTAGCT
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:0.00, C:0.44, G:0.08, T:0.48
Consensus pattern (13 bp):
TCCTTCCCTGTTC
Found at i:7681224 original size:9 final size:9
Alignment explanation
Indices: 7681210--7681246 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
7681200 CTGTTCTTCC
7681210 TTCTTTTAT
1 TTCTTTTAT
*
7681219 TTCTTTTGT
1 TTCTTTTAT
7681228 TTC-TTTA-
1 TTCTTTTAT
7681235 TTCTTTTAT
1 TTCTTTTAT
7681244 TTC
1 TTC
7681247 ATATACATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 3 0.12
8 7 0.29
9 14 0.58
ACGTcount: A:0.08, C:0.14, G:0.03, T:0.76
Consensus pattern (9 bp):
TTCTTTTAT
Found at i:7681238 original size:16 final size:17
Alignment explanation
Indices: 7681214--7681246 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7681204 TCTTCCTTCT
*
7681214 TTTATTTCTTTTGTTTC
1 TTTATTTCTTTTATTTC
7681231 TTTA-TTCTTTTATTTC
1 TTTATTTCTTTTATTTC
7681247 ATATACATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTATTTCTTTTATTTC
Found at i:7681302 original size:11 final size:12
Alignment explanation
Indices: 7681269--7681329 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 12
7681259 ATATTAGTTA
7681269 ATAATAATAA-T
1 ATAATAATAATT
*
7681280 ATAATACTAATT
1 ATAATAATAATT
7681292 A-AATAATAATTT
1 ATAATAATAA-TT
* *
7681304 ATATTATTATATT
1 ATAATAATA-ATT
*
7681317 ATAATATTAATT
1 ATAATAATAATT
7681329 A
1 A
7681330 ATAAAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
11 16 0.39
12 9 0.22
13 15 0.37
14 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:7681324 original size:13 final size:12
Alignment explanation
Indices: 7681254--7681329 Score: 57
Period size: 13 Copynumber: 6.2 Consensus size: 12
7681244 TTCATATACA
*
7681254 TATATATATTAGT
1 TATA-ATATTAAT
*
7681267 TAATAATAATAA-
1 T-ATAATATTAAT
*
7681279 TATAATACTAAT
1 TATAATATTAAT
*
7681291 TA-AATAATAATT
1 TATAATATTAA-T
*
7681303 TATATTATTATAT
1 TATAATATTA-AT
7681316 TATAATATTAAT
1 TATAATATTAAT
7681328 TA
1 TA
7681330 ATAAAAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
11 16 0.31
12 10 0.20
13 21 0.41
14 4 0.08
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (12 bp):
TATAATATTAAT
Found at i:7682890 original size:21 final size:21
Alignment explanation
Indices: 7682866--7682922 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
7682856 AATTTTTTGC
*
7682866 ATTTGTGTTGCATTTGAAGAT
1 ATTTGTGTTGTATTTGAAGAT
* *
7682887 ATTTATGATGTATTTG-AGAT
1 ATTTGTGTTGTATTTGAAGAT
7682907 A-TTGT-TTGTATTTGAA
1 ATTTGTGTTGTATTTGAA
7682923 TATTATGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 8 0.27
19 4 0.13
20 5 0.17
21 13 0.43
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.51
Consensus pattern (21 bp):
ATTTGTGTTGTATTTGAAGAT
Found at i:7687360 original size:5 final size:5
Alignment explanation
Indices: 7687350--7687377 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7687340 TTAAATATTA
7687350 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
7687378 TAGTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:7687363 original size:10 final size:10
Alignment explanation
Indices: 7687320--7687377 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
7687310 AAATTTCAAT
7687320 AAATAAAA-A
1 AAATAAAATA
7687329 AAATAAAAT-
1 AAATAAAATA
* *
7687338 TATTAAATATTAA
1 AAATAAA-A-T-A
7687351 AAATAAAATA
1 AAATAAAATA
7687361 AAATAAAATA
1 AAATAAAATA
7687371 AAATAAA
1 AAATAAA
7687378 TAGTTTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
9 13 0.32
10 19 0.47
11 2 0.05
12 1 0.03
13 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATAAAATA
Found at i:7689482 original size:30 final size:30
Alignment explanation
Indices: 7689441--7689520 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
7689431 CACCTGTTAG
* * *
7689441 TTCACCGCCACCATCATCGCAACCTCCCCT
1 TTCAACGCCACCACCATCACAACCTCCCCT
*
7689471 TTCAACGCCACCACCAGCACAACCTCCCCT
1 TTCAACGCCACCACCATCACAACCTCCCCT
7689501 TTCAACGCCACCACCATCAC
1 TTCAACGCCACCACCATCAC
7689521 GATCTCCACC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.25, C:0.53, G:0.06, T:0.16
Consensus pattern (30 bp):
TTCAACGCCACCACCATCACAACCTCCCCT
Found at i:7689578 original size:36 final size:36
Alignment explanation
Indices: 7689506--7689578 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
7689496 CCCCTTTCAA
* * *
7689506 CGCCACCACCATCACGATCTCCACCACCAAATCCAC
1 CGCCACCACCATCACAAACTCCACCAACAAATCCAC
*
7689542 CGCCACCACCATCACAAACTCCGCCAACAGAA-CCAC
1 CGCCACCACCATCACAAACTCCACCAACA-AATCCAC
7689578 C
1 C
7689579 AAATTCCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 30 0.94
37 2 0.06
ACGTcount: A:0.33, C:0.52, G:0.07, T:0.08
Consensus pattern (36 bp):
CGCCACCACCATCACAAACTCCACCAACAAATCCAC
Found at i:7698829 original size:50 final size:50
Alignment explanation
Indices: 7698775--7698893 Score: 134
Period size: 50 Copynumber: 2.4 Consensus size: 50
7698765 TGACAGTTAT
*** *
7698775 ATTTATTATTTAATTA-AGTGATTTTATAAAAAAA-TTAATTATAATATAAG
1 ATTTATTATTTAATTATAGT-ACAATA-AAAAAAATTTAATTATAACATAAG
** *
7698825 ATTTATGGTTTAATTATAGTACAATAAAAAAAATTTAATTATGACATAAG
1 ATTTATTATTTAATTATAGTACAATAAAAAAAATTTAATTATAACATAAG
7698875 AGTTTATTATTTAATTATA
1 A-TTTATTATTTAATTATA
7698894 ATTCTATCAA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
49 7 0.12
50 32 0.56
51 18 0.32
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.45
Consensus pattern (50 bp):
ATTTATTATTTAATTATAGTACAATAAAAAAAATTTAATTATAACATAAG
Found at i:7708016 original size:7 final size:7
Alignment explanation
Indices: 7707990--7708025 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
7707980 AATTATTTGA
*
7707990 AATAAAT
1 AATATAT
7707997 AATATAT
1 AATATAT
7708004 ATATATAT
1 A-ATATAT
7708012 AATATAT
1 AATATAT
7708019 AATATAT
1 AATATAT
7708026 TTTTATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:7710820 original size:14 final size:13
Alignment explanation
Indices: 7710803--7710845 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
7710793 TACCTATGTA
7710803 TTTAATTTTTATAT
1 TTTAATTTTT-TAT
7710817 TTTAATTTTTTA-
1 TTTAATTTTTTAT
*
7710829 TTTAGTTTATTTAT
1 TTTAATTT-TTTAT
7710843 TTT
1 TTT
7710846 TTCAATTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 7 0.27
13 6 0.23
14 13 0.50
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTAATTTTTTAT
Found at i:7713226 original size:29 final size:29
Alignment explanation
Indices: 7713194--7713255 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
7713184 AAACGGGACC
*
7713194 TTTGGA-TGCCCGGGGGT-GAAATGGTAATT
1 TTTGGACT-CCCGGGGGTAAAAAT-GTAATT
*
7713223 TTT-GACTTCCGGGGGTAAAAATGTAATT
1 TTTGGACTCCCGGGGGTAAAAATGTAATT
7713251 TTTGG
1 TTTGG
7713256 TGAAATCGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (29 bp):
TTTGGACTCCCGGGGGTAAAAATGTAATT
Found at i:7713475 original size:57 final size:59
Alignment explanation
Indices: 7713240--7713604 Score: 512
Period size: 58 Copynumber: 6.3 Consensus size: 59
7713230 TCCGGGGGTA
* * *
7713240 AAAAT-GTAATTTTTGGTGAAATCGGGGTTGAAAATGGGATTTTAAGAAA-TTT-GAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTT-GGAAAGTTTCGA-GGT
* * * * * *
7713298 AAAATGGTAA-TTTTGATGAAACCGAGGTTAAAAATAGGATTTTGGGAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTCGAGGT
* *
7713356 AAAATGATAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGGAAG-TTCGAGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTCGAGGT
7713414 AAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGATTTTGGAAAG-TTCGAGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTCGAGGT
* *
7713471 AAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTCGAGGT
* * *
7713529 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGGAAGTTTGGAGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTCGAGGT
7713588 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
7713605 ACAGTCCAGG
Statistics
Matches: 279, Mismatches: 22, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
57 78 0.28
58 118 0.42
59 83 0.30
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTCGAGGT
Found at i:7713530 original size:173 final size:176
Alignment explanation
Indices: 7713240--7713604 Score: 571
Period size: 173 Copynumber: 2.1 Consensus size: 176
7713230 TCCGGGGGTA
* *
7713240 AAAAT-GTAATTTTTGGTGAAATCGGGGTTGAAAATGGGATTTTAAGAAATTTGAGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTGAAAATGGGATTTTAAGAAATTCGAGGGTAAAATG
* *
7713304 GTAATTTTGATGAAACCGAGGTTAAAAATAGGATTTTGGGAAGTTTGGGGGTAAAATGATAATTT
66 GTAATTTTGATGAAACCGAGGTTAAAAATAGGATTTTGGAAAGTTTAGGGGTAAAATGATAATTT
7713369 TTGGTGAAATCGAGGTTAAAAATGGGATTTTGGGAAG-TTCGAGGT
131 TTGGTGAAATCGAGGTTAAAAATGGGATTTTGGGAAGTTTCGAGGT
*
7713414 AAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGATTTT-GGAAAGTTCGA-GGTAAAAT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTGAAAATGGGATTTTAAGAAA-TTCGAGGGTAAAAT
* * * *
7713476 GGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGATTTTGGAAAGTTTAGGGGTAAAATGGTAAT
65 GGTAA-TTTTGATGAAACCGAGGTTAAAAATAGGATTTTGGAAAGTTTAGGGGTAAAATGATAAT
* *
7713540 TTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGGAAGTTTGGAGGT
129 TTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGGAAGTTTCGAGGT
7713588 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
7713605 ACAGTCCAGG
Statistics
Matches: 176, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
173 90 0.51
174 63 0.36
175 23 0.13
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.34
Consensus pattern (176 bp):
AAAATGGTAATTTTTGGTGAAATCGAGGTTGAAAATGGGATTTTAAGAAATTCGAGGGTAAAATG
GTAATTTTGATGAAACCGAGGTTAAAAATAGGATTTTGGAAAGTTTAGGGGTAAAATGATAATTT
TTGGTGAAATCGAGGTTAAAAATGGGATTTTGGGAAGTTTCGAGGT
Found at i:7713572 original size:29 final size:28
Alignment explanation
Indices: 7713240--7713574 Score: 195
Period size: 29 Copynumber: 11.5 Consensus size: 28
7713230 TCCGGGGGTA
* *
7713240 AAAATGTAATTTTTGGTGAAATCGGGGTT
1 AAAATGGAA-TTTTGGTGAAATCGAGGTT
* ** * *
7713269 GAAAATGGGATTTT-AAGAAATTTGAGGGT
1 -AAAATGGAATTTTGGTGAAA-TCGAGGTT
* *
7713298 AAAATGGTAATTTTGATGAAACCGAGGTT
1 AAAATGG-AATTTTGGTGAAATCGAGGTT
* * * *
7713327 AAAAATAGG-ATTTTGG-GAAGTTTGGGGGT
1 -AAAAT-GGAATTTTGGTGAA-ATCGAGGTT
*
7713356 AAAATGATAATTTTTGGTGAAATCGAGGTT
1 AAAATG-GAA-TTTTGGTGAAATCGAGGTT
* *
7713386 AAAAATGGGATTTTGG-GAAGTTCGAGG-T
1 -AAAATGGAATTTTGGTGAA-ATCGAGGTT
7713414 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGG-AA-TTTTGGTGAAATCGAGGTT
*
7713444 AAAATGGGATTTT-G-GAAAGTTCGAGG-T
1 AAAATGGAATTTTGGTGAAA--TCGAGGTT
7713471 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGG-AA-TTTTGGTGAAATCGAGGTT
* ** *
7713501 AAAATGGGATTTT-G-GAAAGTTTAGGGGT
1 AAAATGGAATTTTGGTGAAA-TCGA-GGTT
*
7713529 AAAATGGTAATTTTTGGTGAAATCGGGGTT
1 AAAATGG-AA-TTTTGGTGAAATCGAGGTT
*
7713559 AAAAATGGGATTTTGG
1 -AAAATGGAATTTTGG
7713575 GAAGTTTGGA
Statistics
Matches: 235, Mismatches: 40, Indels: 61
0.70 0.12 0.18
Matches are distributed among these distances:
26 8 0.03
27 20 0.09
28 49 0.21
29 73 0.31
30 57 0.24
31 24 0.10
32 4 0.02
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTGGTGAAATCGAGGTT
Found at i:7714502 original size:3 final size:3
Alignment explanation
Indices: 7714494--7714523 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
7714484 AATATTATAC
*
7714494 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7714524 ATAATGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:7715350 original size:6 final size:6
Alignment explanation
Indices: 7715339--7715403 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
7715329 TTAAATTTGA
* *
7715339 TTAAAT TTAAAT TTAAA- ATAAAT TTAAAT AAATAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
7715387 ATAAAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAA
7715404 ATACATTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
5 8 0.16
6 36 0.73
8 5 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:7715360 original size:17 final size:17
Alignment explanation
Indices: 7715340--7715420 Score: 123
Period size: 17 Copynumber: 4.9 Consensus size: 17
7715330 TAAATTTGAT
7715340 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
7715357 TAAATTTAAA--T-AAA
1 TAAATTTAAATTTAAAA
7715371 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
7715388 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
7715405 TACATTTAAACTTTAA
1 TAAATTTAAA-TTTAA
7715421 TTAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
14 13 0.22
15 1 0.02
16 1 0.02
17 39 0.66
18 5 0.08
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:7715362 original size:11 final size:11
Alignment explanation
Indices: 7715346--7715397 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
7715336 TGATTAAATT
7715346 TAAATTTAAAA
1 TAAATTTAAAA
7715357 TAAATTT-AAA
1 TAAATTTAAAA
*
7715367 TAAA--TAAATT
1 TAAATTTAAA-A
7715377 TAAATTTAAAA
1 TAAATTTAAAA
7715388 TAAATTTAAA
1 TAAATTTAAA
7715398 TTTAAAATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
8 1 0.03
9 2 0.06
10 11 0.31
11 17 0.49
12 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:7715378 original size:31 final size:31
Alignment explanation
Indices: 7715340--7715398 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
7715330 TAAATTTGAT
7715340 TAAATTTAAATTTAAAATAAATTTAAATAAA
1 TAAATTTAAATTTAAAATAAATTTAAATAAA
7715371 TAAATTTAAATTTAAAATAAATTTAAAT
1 TAAATTTAAATTTAAAATAAATTTAAAT
7715399 TTAAAATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
TAAATTTAAATTTAAAATAAATTTAAATAAA
Found at i:7718670 original size:6 final size:6
Alignment explanation
Indices: 7718651--7718708 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
7718641 GATTCAGTAA
* * * * *
7718651 TCTCTC TCTCTC TCTTTC TCTCTC TCTCCC TCTCCC TCTCCC TCTCCC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
*
7718699 TCTCCC TCTC
1 TCTCTC TCTC
7718709 CCAACTGCGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (6 bp):
TCTCTC
Found at i:7718689 original size:18 final size:18
Alignment explanation
Indices: 7718651--7718708 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
7718641 GATTCAGTAA
* **
7718651 TCTCTCTCTCTCTCTTTC
1 TCTCTCTCTCCCTCTCCC
7718669 TCTCTCTCTCCCTCTCCC
1 TCTCTCTCTCCCTCTCCC
*
7718687 TCTCCCTCTCCCTCTCCC
1 TCTCTCTCTCCCTCTCCC
7718705 TCTC
1 TCTC
7718709 CCAACTGCGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (18 bp):
TCTCTCTCTCCCTCTCCC
Found at i:7718709 original size:6 final size:6
Alignment explanation
Indices: 7718668--7718710 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
7718658 CTCTCTCTTT
*
7718668 CTCTCT CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC C
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC C
7718711 AACTGCGTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (6 bp):
CTCTCC
Found at i:7728149 original size:22 final size:23
Alignment explanation
Indices: 7728107--7728158 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
7728097 ACATACCTTT
7728107 ATATAAAACTATAATAAATATAAA
1 ATATAAAACTATAATAAATAT-AA
* *
7728131 ATATAAAA-T-TATTAAATATCA
1 ATATAAAACTATAATAAATATAA
7728152 ATATAAA
1 ATATAAA
7728159 TAAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 8 0.31
22 9 0.35
23 1 0.04
24 8 0.31
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
ATATAAAACTATAATAAATATAA
Found at i:7728160 original size:6 final size:6
Alignment explanation
Indices: 7728120--7728195 Score: 71
Period size: 6 Copynumber: 12.0 Consensus size: 6
7728110 TAAAACTATA
* *
7728120 ATAAAT ATAAAAT ATAAAATT ATTAAAT ATCAAT ATAAAT AAAAAT ATAAAT
1 ATAAAT AT-AAAT AT-AAA-T A-TAAAT ATAAAT ATAAAT ATAAAT ATAAAT
* * *
7728172 ATAGAC ATAAAT AAAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT
7728196 TTTAATTTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
6 39 0.68
7 12 0.21
8 5 0.09
9 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (6 bp):
ATAAAT
Found at i:7728160 original size:12 final size:12
Alignment explanation
Indices: 7728109--7728195 Score: 70
Period size: 12 Copynumber: 7.2 Consensus size: 12
7728099 ATACCTTTAT
*
7728109 ATAAAACTAT-A
1 ATAAAAATATAA
*
7728120 ATAAATATA-AA
1 ATAAAAATATAA
7728131 ATATAAAATTATTAA
1 ATA-AAAA-TA-TAA
**
7728146 ATATCAATATAA
1 ATAAAAATATAA
7728158 ATAAAAATATAA
1 ATAAAAATATAA
* * *
7728170 ATATAGACATAA
1 ATAAAAATATAA
7728182 ATAAAAATATAA
1 ATAAAAATATAA
7728194 AT
1 AT
7728196 TTTAATTTTA
Statistics
Matches: 58, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
11 11 0.19
12 36 0.62
13 4 0.07
14 2 0.03
15 5 0.09
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (12 bp):
ATAAAAATATAA
Found at i:7728839 original size:31 final size:31
Alignment explanation
Indices: 7728804--7728868 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
7728794 ACTTAGATAC
* * **
7728804 AAATTTTTGAATAGTTTAATAACTTAAATGA
1 AAATTTTCGAATAGTTCAATAACCAAAATGA
*
7728835 AAATTTTCGAATAGTTCAATGACCAAAATGA
1 AAATTTTCGAATAGTTCAATAACCAAAATGA
7728866 AAA
1 AAA
7728869 CTTATCCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.34
Consensus pattern (31 bp):
AAATTTTCGAATAGTTCAATAACCAAAATGA
Found at i:7738612 original size:12 final size:12
Alignment explanation
Indices: 7738595--7738619 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7738585 ATATATAAAA
7738595 GAATAATCCAAT
1 GAATAATCCAAT
7738607 GAATAATCCAAT
1 GAATAATCCAAT
7738619 G
1 G
7738620 TTTACTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (12 bp):
GAATAATCCAAT
Found at i:7744643 original size:4 final size:4
Alignment explanation
Indices: 7744634--7744659 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
7744624 GGAAAATGCA
7744634 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
7744660 AAAGCTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:7752924 original size:6 final size:6
Alignment explanation
Indices: 7752915--7752955 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
7752905 GCTAGGGTTT
7752915 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTC
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTC
7752956 TTTTTAGCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (6 bp):
TCTTCC
Found at i:7754629 original size:6 final size:6
Alignment explanation
Indices: 7754615--7754696 Score: 55
Period size: 6 Copynumber: 13.8 Consensus size: 6
7754605 AAAGTTTGAA
* ** *
7754615 TTAATT TTAAAT TTATTT TTAAAT TT--AT CTTAAAT TTAAAT TTACTTAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTA--AAT
* *
7754664 TTAAAT TT-ATT TTAAAT TTAAAC TT-AAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
7754697 ATAATATTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
4 2 0.03
5 10 0.17
6 39 0.67
7 2 0.03
8 5 0.09
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (6 bp):
TTAAAT
Found at i:7754632 original size:11 final size:11
Alignment explanation
Indices: 7754613--7754683 Score: 67
Period size: 11 Copynumber: 6.5 Consensus size: 11
7754603 TTAAAGTTTG
*
7754613 AATTAATTTTA
1 AATTTATTTTA
7754624 AATTTATTTTTA
1 AATTTA-TTTTA
*
7754636 AATTTATCTTA
1 AATTTATTTTA
*
7754647 AATTTAAATTT-
1 AATTT-ATTTTA
*
7754658 -ACTTA-TTTA
1 AATTTATTTTA
7754667 AATTTATTTTA
1 AATTTATTTTA
7754678 AATTTA
1 AATTTA
7754684 AACTTAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 7 0.14
11 24 0.49
12 14 0.29
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:7754670 original size:31 final size:29
Alignment explanation
Indices: 7754615--7754712 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 29
7754605 AAAGTTTGAA
*
7754615 TTAATTTTAAATTTATTTTTAAATTTATC
1 TTAAATTTAAATTTATTTTTAAATTTATC
*
7754644 TTAAATTTAAATTTACTTATTTAAATTTATT
1 TTAAATTTAAATTTA-TT-TTTAAATTTATC
* * * * *
7754675 TTAAATTTAAACTTA-ATTTAAAATAATA
1 TTAAATTTAAATTTATTTTTAAATTTATC
7754703 TTAAATTTAA
1 TTAAATTTAA
7754713 TAAATTAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.32
29 14 0.23
30 2 0.03
31 25 0.42
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (29 bp):
TTAAATTTAAATTTATTTTTAAATTTATC
Found at i:7754694 original size:17 final size:17
Alignment explanation
Indices: 7754662--7754696 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7754652 AAATTTACTT
* *
7754662 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
7754679 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
7754696 A
1 A
7754697 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Found at i:7754751 original size:27 final size:27
Alignment explanation
Indices: 7754720--7754804 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 27
7754710 TAATAAATTA
*
7754720 AAATTCAATGTCC-ATTTACAAAAGCCC
1 AAATT-AAAGTCCGATTTACAAAAGCCC
*
7754747 AAATTAAAGGCCAGATTATA-AAAAGCCC
1 AAATTAAAGTCC-GATT-TACAAAAGCCC
7754775 AAATTAAAGGTCCGA-TTACAAAAAGCCC
1 AAATTAAA-GTCCGATTTAC-AAAAGCCC
7754803 AA
1 AA
7754805 TTGGGCTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
26 7 0.14
27 6 0.12
28 31 0.63
29 5 0.10
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.20
Consensus pattern (27 bp):
AAATTAAAGTCCGATTTACAAAAGCCC
Found at i:7754806 original size:27 final size:28
Alignment explanation
Indices: 7754735--7754804 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
7754725 CAATGTCCAT
7754735 TTAC-AAAAGCCCAAATTAAAGGCCAGA
1 TTACAAAAAGCCCAAATTAAAGGCCAGA
*
7754762 TTATAAAAAGCCCAAATTAAAGGTCC-GA
1 TTACAAAAAGCCCAAATTAAAGG-CCAGA
7754790 TTACAAAAAGCCCAA
1 TTACAAAAAGCCCAA
7754805 TTGGGCTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 3 0.08
28 34 0.87
29 2 0.05
ACGTcount: A:0.49, C:0.21, G:0.13, T:0.17
Consensus pattern (28 bp):
TTACAAAAAGCCCAAATTAAAGGCCAGA
Found at i:7755437 original size:18 final size:19
Alignment explanation
Indices: 7755414--7755455 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
7755404 GAAAGGTTTC
*
7755414 ATAATAAAT-ATGATATTA
1 ATAATAAATAATGATAATA
7755432 ATAAT-AATAATGATAATA
1 ATAATAAATAATGATAATA
7755450 A-AATAA
1 ATAATAA
7755456 CAAAAAAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
ATAATAAATAATGATAATA
Found at i:7755688 original size:15 final size:16
Alignment explanation
Indices: 7755663--7755693 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7755653 TTTTAAAAAA
7755663 AAAATTCCAGATCTGG
1 AAAATTCCAGATCTGG
7755679 AAAA-TCCAGATCTGG
1 AAAATTCCAGATCTGG
7755694 TTTTCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (16 bp):
AAAATTCCAGATCTGG
Found at i:7755762 original size:23 final size:25
Alignment explanation
Indices: 7755736--7755787 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 25
7755726 AAAAAGAGAT
*
7755736 GAGAAAAACCAAAA-GGAAAG-AAA
1 GAGAAAAACAAAAAGGGAAAGAAAA
7755759 GAG-AAAACAAAAAGGGAAAGAAAA
1 GAGAAAAACAAAAAGGGAAAGAAAA
7755783 GAGAA
1 GAGAA
7755788 GAAATCATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 9 0.36
23 9 0.36
24 6 0.24
25 1 0.04
ACGTcount: A:0.69, C:0.06, G:0.25, T:0.00
Consensus pattern (25 bp):
GAGAAAAACAAAAAGGGAAAGAAAA
Found at i:7756274 original size:33 final size:33
Alignment explanation
Indices: 7756224--7756288 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
7756214 TACGTGTTCG
*
7756224 GTCCTTTCGCATTTTTTATTTATTT-CAATTTA
1 GTCCTTTCGCATTTTTTAATTATTTGCAATTTA
*
7756256 GTCCATTTTGCATTTTTTAATTATTTGCAATTT
1 GTCC-TTTCGCATTTTTTAATTATTTGCAATTT
7756289 TGCCCGCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 4 0.14
33 19 0.66
34 6 0.21
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.58
Consensus pattern (33 bp):
GTCCTTTCGCATTTTTTAATTATTTGCAATTTA
Found at i:7756654 original size:30 final size:30
Alignment explanation
Indices: 7756567--7756769 Score: 234
Period size: 30 Copynumber: 6.7 Consensus size: 30
7756557 AAATTGTCTA
** *
7756567 AAAATTACATTTCAACCCTAAAACTTTTTC
1 AAAATTACATTTTGACCCCAAAACTTTTTC
* *
7756597 TAAAAATTATATTTTGACCCC-AAACTTTTTG
1 --AAAATTACATTTTGACCCCAAAACTTTTTC
* *
7756628 AAAATTACATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTTC
* * *
7756658 AAAATTATATTTTGACCCCAAAAATTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTTC
*
7756688 AAAATTATATTTTGACCCCAAAACTTTTTC
1 AAAATTACATTTTGACCCCAAAACTTTTTC
7756718 AAAATTACATTTTGACCCCAAAAC--TTTC
1 AAAATTACATTTTGACCCCAAAACTTTTTC
7756746 AAAAATTACTATTTT-ACCCTCAAA
1 -AAAATTAC-ATTTTGACCC-CAAA
7756770 CTTCCCTAAA
Statistics
Matches: 153, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
28 4 0.03
29 30 0.20
30 95 0.62
31 9 0.06
32 15 0.10
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTTC
Found at i:7756808 original size:59 final size:58
Alignment explanation
Indices: 7756745--7756942 Score: 175
Period size: 59 Copynumber: 3.4 Consensus size: 58
7756735 CCAAAACTTT
* * *
7756745 CAAAAATTACTATTTTACCCTCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCTCAAACTTTCC-AAATTCCATTTTTAACCCCGATTTCAC
* * * * * * *** * **
7756804 CAAAACTTACCGTTTT-GCCTCTGAACTTTCCAAAATTTCATTTTTGACTTTGTTTTTGC
1 CAAAAATTACCATTTTACCCTC-AAACTTTCC-AAATTCCATTTTTAACCCCGATTTCAC
* *
7756863 CAAAATTTACCATTTTATTCCC-CAAACTTTCCAAATTCCATTTTTAGCCCCGATTTCAC
1 CAAAAATTACCATTTTA--CCCTCAAACTTTCCAAATTCCATTTTTAACCCCGATTTCAC
*
7756922 AAAAAATTACCATTTTACCCT
1 CAAAAATTACCATTTTACCCT
7756943 TAAAAACCCA
Statistics
Matches: 103, Mismatches: 31, Indels: 11
0.71 0.21 0.08
Matches are distributed among these distances:
57 3 0.03
58 4 0.04
59 85 0.83
60 8 0.08
61 1 0.01
62 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.05, T:0.38
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCTCAAACTTTCCAAATTCCATTTTTAACCCCGATTTCAC
Found at i:7764110 original size:2 final size:2
Alignment explanation
Indices: 7764103--7764144 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
7764093 CGAAAGCTTA
7764103 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7764145 TTGACAGTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7771116 original size:19 final size:21
Alignment explanation
Indices: 7771089--7771128 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
7771079 GAAAGTGAGA
*
7771089 GAAAGTAAAA-GTTTT-AGGG
1 GAAAATAAAATGTTTTGAGGG
7771108 GAAAATAAAATGTTTTGAGGG
1 GAAAATAAAATGTTTTGAGGG
7771129 TTTTTGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 5 0.28
21 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (21 bp):
GAAAATAAAATGTTTTGAGGG
Found at i:7771353 original size:18 final size:18
Alignment explanation
Indices: 7771330--7771366 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7771320 TATAGTTTAA
*
7771330 TATTCGATTTATTCAAAT
1 TATTCGAGTTATTCAAAT
*
7771348 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCAAAT
7771366 T
1 T
7771367 CGAAAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
TATTCGAGTTATTCAAAT
Found at i:7771439 original size:18 final size:18
Alignment explanation
Indices: 7771416--7771450 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7771406 ATTCGAGTTG
*
7771416 ACTCGAATAACTCGATTA
1 ACTCGAACAACTCGATTA
7771434 ACTCGAACAACTCGATT
1 ACTCGAACAACTCGATT
7771451 CGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (18 bp):
ACTCGAACAACTCGATTA
Found at i:7785331 original size:15 final size:16
Alignment explanation
Indices: 7785311--7785340 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7785301 CTTAATATAA
7785311 TTAATAT-ATAATTAT
1 TTAATATCATAATTAT
7785326 TTAATATCATAATTA
1 TTAATATCATAATTA
7785341 AAAAAACGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATATCATAATTAT
Found at i:7789425 original size:29 final size:27
Alignment explanation
Indices: 7789364--7789425 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
7789354 TTTAACTTTT
* *
7789364 TTTCTCTTTTATTTTCCTTTCTCTTCT
1 TTTCTCTTCTATTTTCCTTTCTCTTCA
*
7789391 TCTTCTCCTTCTATTTTCCTCTTTTCTTCA
1 T-TTCT-CTTCTATTTTCCT-TTCTCTTCA
7789421 TTTCT
1 TTTCT
7789426 TTTAACGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 1 0.03
28 4 0.14
29 16 0.55
30 8 0.28
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTCTCTTCTATTTTCCTTTCTCTTCA
Found at i:7794233 original size:16 final size:16
Alignment explanation
Indices: 7794212--7794243 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7794202 TGTCCAACAC
7794212 TTTGAAAATAATTTTA
1 TTTGAAAATAATTTTA
7794228 TTTGAAAATAATTTTA
1 TTTGAAAATAATTTTA
7794244 AGGACTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
TTTGAAAATAATTTTA
Found at i:7808783 original size:45 final size:45
Alignment explanation
Indices: 7808719--7808878 Score: 266
Period size: 45 Copynumber: 3.6 Consensus size: 45
7808709 CTTCTGTTCT
* * *
7808719 CACCATCCTCAGGTTCCTTCCTAGTATACACCCCTCCCTCCAACC
1 CACCATCCTCAGGCTCCTTCCTAGTATGCACTCCTCCCTCCAACC
*
7808764 CACCATCCTCAGGCTCCTTCCTAGTATGCATTCCTCCCTCCAACC
1 CACCATCCTCAGGCTCCTTCCTAGTATGCACTCCTCCCTCCAACC
* *
7808809 CACCATCCTCAGGTTCCTTCCTAATATGCACTCCTCCCTCCAACC
1 CACCATCCTCAGGCTCCTTCCTAGTATGCACTCCTCCCTCCAACC
7808854 CACCATCCTCAGGCTCCTTCCTAGT
1 CACCATCCTCAGGCTCCTTCCTAGT
7808879 CTTCAGGACA
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 106 1.00
ACGTcount: A:0.19, C:0.47, G:0.08, T:0.26
Consensus pattern (45 bp):
CACCATCCTCAGGCTCCTTCCTAGTATGCACTCCTCCCTCCAACC
Found at i:7824286 original size:6 final size:6
Alignment explanation
Indices: 7824272--7824305 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
7824262 AGACATCGAG
* *
7824272 GTGGAC GTGGGC GTGGAC CTGGAC GTGGAC GTGG
1 GTGGAC GTGGAC GTGGAC GTGGAC GTGGAC GTGG
7824306 TGGTCGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.12, C:0.18, G:0.53, T:0.18
Consensus pattern (6 bp):
GTGGAC
Found at i:7832318 original size:43 final size:42
Alignment explanation
Indices: 7832236--7832328 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 42
7832226 GTTAACATGT
* *
7832236 TAAATTATATTACTTGACTCATGTTAATATGGTTGCATGTTA
1 TAAATTATATTACTTGACTCATATTAATATGCTTGCATGTTA
*
7832278 CTAAATTATATTACTTGACTCTTATTAATAT-CTTGACATGTTA
1 -TAAATTATATTACTTGACTCATATTAATATGCTTG-CATGTTA
*
7832321 TTAATTAT
1 TAAATTAT
7832329 GCAGTTCATC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 10 0.22
43 35 0.78
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.47
Consensus pattern (42 bp):
TAAATTATATTACTTGACTCATATTAATATGCTTGCATGTTA
Found at i:7833270 original size:15 final size:16
Alignment explanation
Indices: 7833252--7833291 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
7833242 CTAAAACCCT
*
7833252 AAACATTAAAATTT-A
1 AAACCTTAAAATTTCA
7833267 AAACCTT-AAATTTCA
1 AAACCTTAAAATTTCA
7833282 AAACCTTAAA
1 AAACCTTAAA
7833292 CCATTAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 6 0.27
15 14 0.64
16 2 0.09
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (16 bp):
AAACCTTAAAATTTCA
Found at i:7835754 original size:30 final size:30
Alignment explanation
Indices: 7835685--7835756 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
7835675 ATATGTATTT
* * *
7835685 CATTTTATTTTTATTAAATTAATAATTTTTG
1 CATTTTA-TTTTAATAAATAAATAATTTTTA
* *
7835716 CATATTATTTTAATAAATAAATATTTTTTA
1 CATTTTATTTTAATAAATAAATAATTTTTA
*
7835746 TATTTTATTTT
1 CATTTTATTTT
7835757 GGTAAAAAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 28 0.82
31 6 0.18
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (30 bp):
CATTTTATTTTAATAAATAAATAATTTTTA
Found at i:7840459 original size:6 final size:6
Alignment explanation
Indices: 7840448--7840474 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7840438 ACGTCCTATC
7840448 TTCCAA TTCCAA TTCCAA TTCCAA TTC
1 TTCCAA TTCCAA TTCCAA TTCCAA TTC
7840475 AGTCCAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (6 bp):
TTCCAA
Found at i:7841566 original size:27 final size:26
Alignment explanation
Indices: 7841529--7841581 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
7841519 CTGTTCCTTG
*
7841529 GAATTTTCAGCACCTTCACATAAGCA
1 GAATTTTCAGCACCTACACATAAGCA
*
7841555 GAATCTTTCAGCACCTACATATAAGCA
1 GAAT-TTTCAGCACCTACACATAAGCA
7841582 TGAACGCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.26
Consensus pattern (26 bp):
GAATTTTCAGCACCTACACATAAGCA
Found at i:7845002 original size:17 final size:17
Alignment explanation
Indices: 7844982--7845014 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7844972 ATTATTTTAA
7844982 TATT-TATATTATAGTAG
1 TATTATATATT-TAGTAG
7844999 TATTATATATTTAGTA
1 TATTATATATTTAGTA
7845015 TATGTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TATTATATATTTAGTAG
Found at i:7852778 original size:18 final size:17
Alignment explanation
Indices: 7852731--7852765 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7852721 AATTAGTCCA
7852731 TTGTTTCTTATTTTTTT
1 TTGTTTCTTATTTTTTT
7852748 TTGTTTCTTATTTTTTT
1 TTGTTTCTTATTTTTTT
7852765 T
1 T
7852766 ATTTTATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.83
Consensus pattern (17 bp):
TTGTTTCTTATTTTTTT
Found at i:7858557 original size:2 final size:2
Alignment explanation
Indices: 7858550--7858599 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
7858540 TGAGAAGCTA
7858550 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7858592 AT AT AT AT
1 AT AT AT AT
7858600 TAATTTTAGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7858954 original size:3 final size:3
Alignment explanation
Indices: 7858946--7858970 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7858936 TTCTTTCCAC
7858946 CCT CCT CCT CCT CCT CCT CCT CCT C
1 CCT CCT CCT CCT CCT CCT CCT CCT C
7858971 TCTCTCTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CCT
Found at i:7862473 original size:98 final size:98
Alignment explanation
Indices: 7862304--7862482 Score: 245
Period size: 98 Copynumber: 1.8 Consensus size: 98
7862294 TATATTTGAT
* * * *
7862304 GAAAAGTTAAAATTTTTAGTTTTTGAAAAAATGTTTTGGGGCCAATTTTTAGCTTGAGAGAAATA
1 GAAAAGTTAAAATTTTCAGCTTTTGAAAAAATGCTTTGGGGCCAATTTTTAGCTTGAGAGAAACA
*
7862369 CTTTTTCTTTCAAAAAAACAATTTGTTTTTGGG
66 CTTTTTCTCTCAAAAAAACAATTTGTTTTTGGG
* * * *
7862402 GAAAAGTTAACATTTTCAGCTTTT-AAAAAAGTGCTTTGGGGCCAATTTTT-GATTTGGGAGAAG
1 GAAAAGTTAAAATTTTCAGCTTTTGAAAAAA-TGCTTTGGGGCCAATTTTTAG-CTTGAGAGAAA
7862465 CACTTTTTCTCTCAAAAA
64 CACTTTTTCTCTCAAAAA
7862483 TCAACTTGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
97 7 0.10
98 63 0.90
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (98 bp):
GAAAAGTTAAAATTTTCAGCTTTTGAAAAAATGCTTTGGGGCCAATTTTTAGCTTGAGAGAAACA
CTTTTTCTCTCAAAAAAACAATTTGTTTTTGGG
Found at i:7869625 original size:2 final size:2
Alignment explanation
Indices: 7869618--7869646 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7869608 ACCGAATAGT
7869618 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7869647 GTCTGCATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7870538 original size:18 final size:17
Alignment explanation
Indices: 7870498--7870548 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
7870488 TTTAATATTT
* *
7870498 ATTTATAAATTTTAATAAT
1 ATTT-TAAAATTT-ATAAA
7870517 ATTTTACAAATTTATAAA
1 ATTTTA-AAATTTATAAA
7870535 ATTTTAAAATTTAT
1 ATTTTAAAATTTAT
7870549 TTTTTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 8 0.28
18 12 0.41
19 9 0.31
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTAAAATTTATAAA
Found at i:7877051 original size:16 final size:18
Alignment explanation
Indices: 7877012--7877045 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7877002 TAAATTTATA
7877012 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
7877029 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
7877046 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:7877186 original size:31 final size:30
Alignment explanation
Indices: 7877150--7877208 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
7877140 AAATAAAAAT
7877150 ATATAAA-ATTATTAAATATTAAAATAATATA
1 ATATAAATATTATTAAA-ATTAAAA-AATATA
* *
7877181 ATATAAATATTTTTTAAATTAAAAAATA
1 ATATAAATATTATTAAAATTAAAAAATA
7877209 ATATGGGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 14 0.56
32 7 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
ATATAAATATTATTAAAATTAAAAAATATA
Found at i:7878005 original size:3 final size:3
Alignment explanation
Indices: 7877997--7878022 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7877987 TAACCCAAGT
7877997 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
7878023 TTTTCGAAAT
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:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7880363 original size:16 final size:16
Alignment explanation
Indices: 7880344--7880374 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7880334 ATTGTTAAAT
*
7880344 TAAAATGATGAAAAAA
1 TAAAAAGATGAAAAAA
7880360 TAAAAAGATGAAAAA
1 TAAAAAGATGAAAAA
7880375 TATTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (16 bp):
TAAAAAGATGAAAAAA
Found at i:7880689 original size:24 final size:23
Alignment explanation
Indices: 7880642--7880687 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
7880632 GCTTGCAAGG
7880642 AAACAAAAAAGAAAAAGAAAAAC
1 AAACAAAAAAGAAAAAGAAAAAC
*
7880665 AAACAAAATCAAGAAAAGGAAAA
1 AAACAAAA--AAGAAAAAGAAAA
7880688 CATTAGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
25 12 0.60
ACGTcount: A:0.78, C:0.09, G:0.11, T:0.02
Consensus pattern (23 bp):
AAACAAAAAAGAAAAAGAAAAAC
Found at i:7882871 original size:16 final size:17
Alignment explanation
Indices: 7882850--7882883 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7882840 CCTAAAGGAG
7882850 TTAACC-GTTTCTTTCT
1 TTAACCAGTTTCTTTCT
*
7882866 TTAACCAGTTTGTTTCT
1 TTAACCAGTTTCTTTCT
7882883 T
1 T
7882884 GCTTCGTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.21, G:0.09, T:0.56
Consensus pattern (17 bp):
TTAACCAGTTTCTTTCT
Found at i:7889040 original size:3 final size:3
Alignment explanation
Indices: 7889032--7889074 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
7889022 GAAGTAGAAG
*
7889032 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA CAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7889075 CTTTTACCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:7889277 original size:20 final size:20
Alignment explanation
Indices: 7889241--7889278 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7889231 ATGTATATTA
*
7889241 AAATTATATATTTAATTTAT
1 AAATTATATATTGAATTTAT
7889261 AAATTGATATA-TGAATTT
1 AAATT-ATATATTGAATTT
7889279 TGATTTGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
AAATTATATATTGAATTTAT
Found at i:7892783 original size:23 final size:23
Alignment explanation
Indices: 7892753--7892877 Score: 162
Period size: 23 Copynumber: 5.4 Consensus size: 23
7892743 AGTGCTGGGC
*
7892753 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
7892776 AACAGAGAGTACACAAAGTACTA
1 AACAGAGAGCACACAAAGTGCTA
*
7892799 ATCAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
7892822 ATCAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* * *
7892845 ATCAGAGAGCACGA-GACGTGCTA
1 AACAGAGAGCAC-ACAAAGTGCTA
7892868 AACAGAGAGC
1 AACAGAGAGC
7892878 GTGCTAGTGT
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
23 91 0.99
24 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:7892805 original size:46 final size:46
Alignment explanation
Indices: 7892755--7892877 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 46
7892745 TGCTGGGCAA
*
7892755 CAGAGAGCACACACAGTGCTAAACAGAGAGTACACAAAGTACTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
* * *
7892801 CAGAGAGCACACAAAGTGCTAATCAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
*
7892847 CAGAGAGCACGAGAC-GTGCTAAACAGAGAGC
1 CAGAGAGCAC-ACACAGTGCTAAACAGAGAGC
7892878 GTGCTAGTGT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 67 0.97
47 2 0.03
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (46 bp):
CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
Found at i:7892828 original size:69 final size:66
Alignment explanation
Indices: 7892709--7892853 Score: 184
Period size: 69 Copynumber: 2.1 Consensus size: 66
7892699 ACGGAACAAG
* *
7892709 CAGAGAGTACCAAAGTACTAACAGAAAGCACATAAGTGCTGGGCAACAGAGAGCACACACAGTGC
1 CAGAGAGTACCAAAGTACTAACAGAAAGCACAAAAGTGCT--G-AACAGAGAGCACACAAAGTGC
7892774 TAAA
63 TAAA
*
7892778 CAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCT-AATCAGAGAGCACACAAAGTG
1 CAGAGAGTAC-CAAAGTACTAA-CAGAAAGCACA-AAAGTGCTGAA-CAGAGAGCACACAAAGTG
*
7892842 CTAAT
62 CTAAA
7892847 CAGAGAG
1 CAGAGAG
7892854 CACGAGACGT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
68 2 0.03
69 38 0.56
70 11 0.16
71 10 0.15
72 7 0.10
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (66 bp):
CAGAGAGTACCAAAGTACTAACAGAAAGCACAAAAGTGCTGAACAGAGAGCACACAAAGTGCTAA
A
Found at i:7900051 original size:23 final size:23
Alignment explanation
Indices: 7900021--7900099 Score: 115
Period size: 23 Copynumber: 3.4 Consensus size: 23
7900011 AGTGCTGGGC
7900021 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
*
7900044 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
* *
7900067 ATCAGAGAGCACGAGAC-GTGCTA
1 AACAGAGAGCAC-ACACAGTGCTA
7900090 AACAGAGAGC
1 AACAGAGAGC
7900100 GCGCTAGTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
23 48 0.96
24 2 0.04
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (23 bp):
AACAGAGAGCACACACAGTGCTA
Found at i:7902612 original size:21 final size:22
Alignment explanation
Indices: 7902578--7902622 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
7902568 TCTAAAATAA
7902578 AAAATTAATATGAA-AAAATCG
1 AAAATTAATATGAACAAAATCG
*
7902599 AAAATTAA-ACTGAACTAAATCG
1 AAAATTAATA-TGAACAAAATCG
7902621 AA
1 AA
7902623 TTACGATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 12 0.57
22 8 0.38
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.22
Consensus pattern (22 bp):
AAAATTAATATGAACAAAATCG
Found at i:7902994 original size:30 final size:30
Alignment explanation
Indices: 7902961--7903016 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
7902951 ATATTTTAGT
7902961 TTTTTTAAAAA-TATAAAAATTTAATTTAA
1 TTTTTTAAAAATTATAAAAATTTAATTTAA
* *
7902990 TTTTTTAAAAATTATAAAGATATAATT
1 TTTTTTAAAAATTATAAAAATTTAATT
7903017 CATTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (30 bp):
TTTTTTAAAAATTATAAAAATTTAATTTAA
Found at i:7903729 original size:188 final size:188
Alignment explanation
Indices: 7903412--7903789 Score: 756
Period size: 188 Copynumber: 2.0 Consensus size: 188
7903402 AACCAAAACA
7903412 AACCTTCATTGTTTTGGCGAAGAAGAAAGCCATGTCTTGGACTCGATTGAGCTACAACCTGCTAC
1 AACCTTCATTGTTTTGGCGAAGAAGAAAGCCATGTCTTGGACTCGATTGAGCTACAACCTGCTAC
7903477 TTTGGATACATTTTTCCCCTTCATTAGCTCCCTTACTTTCTCAGCTTCATCAAACTTGCTAGCAG
66 TTTGGATACATTTTTCCCCTTCATTAGCTCCCTTACTTTCTCAGCTTCATCAAACTTGCTAGCAG
7903542 CGGCGTATATGTTTGACAACAACACATAATAACCTGCTTTCTCTGGCTCTAGACTAAT
131 CGGCGTATATGTTTGACAACAACACATAATAACCTGCTTTCTCTGGCTCTAGACTAAT
7903600 AACCTTCATTGTTTTGGCGAAGAAGAAAGCCATGTCTTGGACTCGATTGAGCTACAACCTGCTAC
1 AACCTTCATTGTTTTGGCGAAGAAGAAAGCCATGTCTTGGACTCGATTGAGCTACAACCTGCTAC
7903665 TTTGGATACATTTTTCCCCTTCATTAGCTCCCTTACTTTCTCAGCTTCATCAAACTTGCTAGCAG
66 TTTGGATACATTTTTCCCCTTCATTAGCTCCCTTACTTTCTCAGCTTCATCAAACTTGCTAGCAG
7903730 CGGCGTATATGTTTGACAACAACACATAATAACCTGCTTTCTCTGGCTCTAGACTAAT
131 CGGCGTATATGTTTGACAACAACACATAATAACCTGCTTTCTCTGGCTCTAGACTAAT
7903788 AA
1 AA
7903790 GTTTCTTTGC
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 190 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (188 bp):
AACCTTCATTGTTTTGGCGAAGAAGAAAGCCATGTCTTGGACTCGATTGAGCTACAACCTGCTAC
TTTGGATACATTTTTCCCCTTCATTAGCTCCCTTACTTTCTCAGCTTCATCAAACTTGCTAGCAG
CGGCGTATATGTTTGACAACAACACATAATAACCTGCTTTCTCTGGCTCTAGACTAAT
Found at i:7905519 original size:21 final size:21
Alignment explanation
Indices: 7905495--7905540 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
7905485 GGGGGAGGGA
* * *
7905495 TTTCGTTATTTTGCTTCGTGT
1 TTTCGTCACTTTGCTTCATGT
*
7905516 TTTCGTCGCTTTGCTTCATGT
1 TTTCGTCACTTTGCTTCATGT
7905537 TTTC
1 TTTC
7905541 ATCCTTCATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.20, G:0.17, T:0.59
Consensus pattern (21 bp):
TTTCGTCACTTTGCTTCATGT
Found at i:7906472 original size:20 final size:20
Alignment explanation
Indices: 7906424--7906472 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
7906414 TTAAACTCAA
*
7906424 AACCTTAAATCCTTAAATTG
1 AACCTTAAATCCTCAAATTG
7906444 AAGCC-TAAAT-CTCAAATTTG
1 AA-CCTTAAATCCTCAAA-TTG
7906464 AACCTTAAA
1 AACCTTAAA
7906473 CCTTAAGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 7 0.28
20 16 0.64
21 2 0.08
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (20 bp):
AACCTTAAATCCTCAAATTG
Found at i:7906516 original size:21 final size:20
Alignment explanation
Indices: 7906490--7906557 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
7906480 CCAAAAGGTC
7906490 AAGTTTAGGGTTTAAGATTT
1 AAGTTTAGGGTTTAAGATTT
* *
7906510 GAAGTTTAGGATTT-TGATTT
1 -AAGTTTAGGGTTTAAGATTT
* * *
7906530 AGAGTTTAAGGTTCACGATTT
1 A-AGTTTAGGGTTTAAGATTT
7906551 AAGTTTA
1 AAGTTTA
7906558 AAATTTTAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 20 0.51
21 18 0.46
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.44
Consensus pattern (20 bp):
AAGTTTAGGGTTTAAGATTT
Found at i:7909494 original size:17 final size:17
Alignment explanation
Indices: 7909455--7909498 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
7909445 ACTATTAAAA
7909455 ATAATATAAATGATAAT
1 ATAATATAAATGATAAT
7909472 ATTAATATAAAT-ATAAT
1 A-TAATATAAATGATAAT
7909489 CATAATATAA
1 -ATAATATAA
7909499 GTAATTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAATATAAATGATAAT
Found at i:7911979 original size:24 final size:24
Alignment explanation
Indices: 7911952--7912003 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
7911942 GAACGTACAC
*
7911952 TTATGCTCGTCAGCCACTATACGT
1 TTATGCTCGTCAACCACTATACGT
7911976 TTATGCTCGTCAACCACTATACGT
1 TTATGCTCGTCAACCACTATACGT
7912000 TTAT
1 TTAT
7912004 ACATTTATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (24 bp):
TTATGCTCGTCAACCACTATACGT
Found at i:7912011 original size:32 final size:32
Alignment explanation
Indices: 7911969--7912035 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
7911959 CGTCAGCCAC
*
7911969 TATACGTTTATGCTCG-TCAACCACTATACGTT
1 TATACATTTATGCTCGAT-AACCACTATACGTT
* *
7912001 TATACATTTATGCTCGATAGCCACTATATGTT
1 TATACATTTATGCTCGATAACCACTATACGTT
7912033 TAT
1 TAT
7912036 GCTCACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 30 0.97
33 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (32 bp):
TATACATTTATGCTCGATAACCACTATACGTT
Found at i:7923417 original size:18 final size:18
Alignment explanation
Indices: 7923394--7923441 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
7923384 ACAATTCATA
7923394 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* * *
7923412 TCACTTTCAGTTTCACTT
1 TCACTTTCAATTCCAATT
7923430 TCACTTTCAATT
1 TCACTTTCAATT
7923442 TTGATCACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:7923419 original size:6 final size:6
Alignment explanation
Indices: 7923394--7923438 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
7923384 ACAATTCATA
* * * *
7923394 TCACTT TCAATT CCAATT TCACTT TCAGTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
7923439 ATTTTGATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.22, C:0.29, G:0.02, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:7926285 original size:24 final size:24
Alignment explanation
Indices: 7926240--7926285 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
7926230 ATAATTTTTT
*
7926240 ATTTATATAAAATTTCAACAATTC
1 ATTTATATAAAATTTAAACAATTC
*
7926264 ATTTATTTAAAA-TTAAATCAAT
1 ATTTATATAAAATTTAAA-CAAT
7926286 AATTAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTTATATAAAATTTAAACAATTC
Found at i:7927355 original size:13 final size:13
Alignment explanation
Indices: 7927325--7927366 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
7927315 CTTTATTTAA
7927325 ATTTAA-ATTATAT
1 ATTTAAGATTAT-T
*
7927338 TTTTAAGATTATT
1 ATTTAAGATTATT
*
7927351 ATTTACGATTATT
1 ATTTAAGATTATT
7927364 ATT
1 ATT
7927367 ATATTGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 20 0.80
14 5 0.20
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (13 bp):
ATTTAAGATTATT
Found at i:7927446 original size:30 final size:30
Alignment explanation
Indices: 7927412--7927470 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
7927402 GCATTATAAT
* * * *
7927412 TTAGAGTTTAATTTGGATCTAATTAAGGAA
1 TTAGAATTTAAATTGGATCCAACTAAGGAA
7927442 TTAGAATTTAAATTGGATCCAACTAAGGA
1 TTAGAATTTAAATTGGATCCAACTAAGGA
7927471 TTTTCATGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.36
Consensus pattern (30 bp):
TTAGAATTTAAATTGGATCCAACTAAGGAA
Found at i:7929424 original size:17 final size:17
Alignment explanation
Indices: 7929402--7929436 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7929392 TTCTCATATT
7929402 TTGATAAATTATAAATA
1 TTGATAAATTATAAATA
* *
7929419 TTGATATATTATTAATA
1 TTGATAAATTATAAATA
7929436 T
1 T
7929437 AATATAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
TTGATAAATTATAAATA
Found at i:7944497 original size:58 final size:58
Alignment explanation
Indices: 7944432--7944551 Score: 179
Period size: 58 Copynumber: 2.1 Consensus size: 58
7944422 ACCCATCAAC
* * *
7944432 AAACTAAATCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAA-AACACTTAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCT-AAATAACACTCAT
* *
7944490 AAACTAAACCCAAATATTTTTAAACTCAAATATAATTTTATTCCTAAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
7944548 AAAC
1 AAAC
7944552 AACTCCTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 3 0.05
58 53 0.95
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.33
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
Found at i:7960723 original size:2 final size:2
Alignment explanation
Indices: 7960716--7960753 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
7960706 CAGACATGCA
*
7960716 AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7960754 TAAGATGGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7965560 original size:4 final size:4
Alignment explanation
Indices: 7965551--7965579 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
7965541 AAGCATCCAT
7965551 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
7965580 ACAACCCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:7970175 original size:5 final size:5
Alignment explanation
Indices: 7970158--7970196 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
7970148 CCACGGTTTG
*
7970158 CCTCT CCTGT CCTCT CCTCT CCTCT CCTCT CCTCT CCTC
1 CCTCT CCTCT CCTCT CCTCT CCTCT CCTCT CCTCT CCTC
7970197 AATCTCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.59, G:0.03, T:0.38
Consensus pattern (5 bp):
CCTCT
Found at i:7974293 original size:62 final size:62
Alignment explanation
Indices: 7974222--7974342 Score: 224
Period size: 62 Copynumber: 2.0 Consensus size: 62
7974212 AGGCGAAAAC
*
7974222 ATTTAATTTCTATATTCAGAGTAGCATAAAATTGCTCCAAATCCAATAAAAGAAAACAAGGG
1 ATTTAATTTCTATATTAAGAGTAGCATAAAATTGCTCCAAATCCAATAAAAGAAAACAAGGG
*
7974284 ATTTAATTTCTATATTAATAGTAGCATAAAATTGCTCCAAATCCAATAAAAGAAAACAA
1 ATTTAATTTCTATATTAAGAGTAGCATAAAATTGCTCCAAATCCAATAAAAGAAAACAA
7974343 TCCTTAAGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (62 bp):
ATTTAATTTCTATATTAAGAGTAGCATAAAATTGCTCCAAATCCAATAAAAGAAAACAAGGG
Found at i:7999969 original size:18 final size:17
Alignment explanation
Indices: 7999943--7999987 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
7999933 GTTAAAATAC
7999943 TTTTT-AAATAGTTTTAA
1 TTTTTAAAAT-GTTTTAA
7999960 TTTTTAAAATGTTTTAA
1 TTTTTAAAATGTTTTAA
7999977 TTATTTAAAAT
1 TT-TTTAAAAT
7999988 TATTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (17 bp):
TTTTTAAAATGTTTTAA
Found at i:8001375 original size:20 final size:20
Alignment explanation
Indices: 8001352--8001389 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8001342 CTTTAAATAC
8001352 TATATATT-TAATTTATATGT
1 TATATATTATAA-TTATATGT
8001372 TATATATTATAATTATAT
1 TATATATTATAATTATAT
8001390 TTTAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TATATATTATAATTATATGT
Found at i:8004602 original size:60 final size:61
Alignment explanation
Indices: 8004448--8004695 Score: 249
Period size: 61 Copynumber: 4.1 Consensus size: 61
8004438 CTTTTTTGTC
* *** * * * * *
8004448 AGAAAAAAATTTCAAAATTTTGAAGTGTTGGCCATCAAATAGTCGACATCCTCTATTT-GCA
1 AGAAAAAAA-TTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCTCTATTTCTCG
* * * *
8004509 AAAAAAAAATTGC--A-TTTTTGGGTGTTGGCCATCAAATGGCTGACACCCT-TATTTCTTG
1 AGAAAAAAATT-CAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCTCTATTTCTCG
* *
8004567 AGAAAAAAATTTAAATTTTTTTTGTGTTGGCCATCAAATGGCCGACACCCTCTATTTCTCG
1 AGAAAAAAATTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCTCTATTTCTCG
* * * *
8004628 AGAAAAAAATTCAAATTTTTTTGGTGTTAGTCATGC-AATGGACGACACCCCCT-TTTCTCG
1 AGAAAAAAATTCAAATTTTTTTGGTGTTGGCCAT-CAAATGGCCGACACCCTCTATTTCTCG
8004688 AGAAAAAA
1 AGAAAAAA
8004696 TGTTAGCCAT
Statistics
Matches: 157, Mismatches: 23, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
57 5 0.03
58 38 0.24
59 2 0.01
60 49 0.31
61 62 0.39
62 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (61 bp):
AGAAAAAAATTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCTCTATTTCTCG
Found at i:8004631 original size:61 final size:61
Alignment explanation
Indices: 8004448--8004695 Score: 247
Period size: 60 Copynumber: 4.1 Consensus size: 61
8004438 CTTTTTTGTC
* *** * * * *
8004448 AGAAAAAAATTTCAAAATTTTGAAGTGTTGGCCATCAAATAGTCGACATCCTCTATTT-GC-
1 AGAAAAAAATTT-AAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCTCTATTTCTCG
* * ** * * *
8004508 AAAAAAAAAATTGCA-TTTTTGGGTGTTGGCCATCAAATGGCTGACACCCT-TATTTCTTG
1 AGAAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCTCTATTTCTCG
*
8004567 AGAAAAAAATTTAAATTTTTTTTGTGTTGGCCATCAAATGGCCGACACCCTCTATTTCTCG
1 AGAAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCTCTATTTCTCG
* * * * *
8004628 AGAAAAAAATTCAAATTTTTTTGGTGTTAGTCATGC-AATGGACGACACCCCCT-TTTCTCG
1 AGAAAAAAATTTAAATTTTTTTGGTGTTGGCCAT-CAAATGGCCGACACCCTCTATTTCTCG
8004688 AGAAAAAA
1 AGAAAAAA
8004696 TGTTAGCCAT
Statistics
Matches: 156, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
57 5 0.03
58 28 0.18
59 12 0.08
60 57 0.37
61 53 0.34
62 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (61 bp):
AGAAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCTCTATTTCTCG
Found at i:8004721 original size:165 final size:165
Alignment explanation
Indices: 8004531--8004860 Score: 481
Period size: 165 Copynumber: 2.0 Consensus size: 165
8004521 CATTTTTGGG
* * * * *
8004531 TGTTGGCCATCAAATGGCTGACACCCT-TATTTCTTGAGAAAAAAATTTAAATTTTTTTTGTGTT
1 TGTTAGCCATCAAATGGCTGACACCCTCTATTTCTCGAGAAAAAAATTCAAATTTTTTTGGTATT
* *
8004595 GGCCAT-CAAATGGCCGACACCCTCTATTTCTCGAGAAAAAAATTCAAATTTTTTTGGTGTTAGT
66 GGCCATGC-AATGGCCGACACCCCCT-TTTCTCGAGAAAAAAATTCAAATTTTTTTGGTGTTAGC
*
8004659 CATGC-AATGGA-CGACACCCCCTTTTCTCGAGAAAAAA
129 CAT-CAAAT-GATCGACACCCCCTGTTCTCGAGAAAAAA
*
8004696 TGTTAGCCATCAAATGG-TCGACACCCTCTTTTTCTCGAGAAAAAAATTCAAATTTTTTTGGTAT
1 TGTTAGCCATCAAATGGCT-GACACCCTCTATTTCTCGAGAAAAAAATTCAAATTTTTTTGGTAT
* *
8004760 TGGTCATGCAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCAAATTTTTTTGGTGTTGGCC
65 TGGCCATGCAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCAAATTTTTTTGGTGTTAGCC
8004825 ATCAAATGATCGACACCCCCTGTTCTCGAGAAAAAA
130 ATCAAATGATCGACACCCCCTGTTCTCGAGAAAAAA
8004861 AAATTTAAAT
Statistics
Matches: 149, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
164 4 0.03
165 91 0.61
166 53 0.36
167 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (165 bp):
TGTTAGCCATCAAATGGCTGACACCCTCTATTTCTCGAGAAAAAAATTCAAATTTTTTTGGTATT
GGCCATGCAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCAAATTTTTTTGGTGTTAGCCA
TCAAATGATCGACACCCCCTGTTCTCGAGAAAAAA
Found at i:8004779 original size:105 final size:105
Alignment explanation
Indices: 8004591--8004800 Score: 366
Period size: 105 Copynumber: 2.0 Consensus size: 105
8004581 ATTTTTTTTG
* *
8004591 TGTTGGCCATCAAATGGCCGACACCCTCTATTTCTCGAGAAAAAAATTCAAATTTTTTTGGTGTT
1 TGTTAGCCATCAAATGGCCGACACCCTCTATTTCTCGAGAAAAAAATTCAAATTTTTTTGGTATT
8004656 AGTCATGCAATGGACGACACCCCCTTTTCTCGAGAAAAAA
66 AGTCATGCAATGGACGACACCCCCTTTTCTCGAGAAAAAA
* *
8004696 TGTTAGCCATCAAATGGTCGACACCCTCTTTTTCTCGAGAAAAAAATTCAAATTTTTTTGGTATT
1 TGTTAGCCATCAAATGGCCGACACCCTCTATTTCTCGAGAAAAAAATTCAAATTTTTTTGGTATT
* *
8004761 GGTCATGCAATGGCCGACACCCCCTTTTCTCGAGAAAAAA
66 AGTCATGCAATGGACGACACCCCCTTTTCTCGAGAAAAAA
8004801 ATTCAAATTT
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (105 bp):
TGTTAGCCATCAAATGGCCGACACCCTCTATTTCTCGAGAAAAAAATTCAAATTTTTTTGGTATT
AGTCATGCAATGGACGACACCCCCTTTTCTCGAGAAAAAA
Found at i:8004872 original size:62 final size:60
Alignment explanation
Indices: 8004696--8004965 Score: 355
Period size: 60 Copynumber: 4.4 Consensus size: 60
8004686 CGAGAAAAAA
* * *
8004696 TGTTAGCCATCAAATGGTCGACACCCTCTTTTTCTCGAGAAAAAAATTCAAATTTTTTTGG
1 TGTTGGCCATCAAATGGCCGACACCC-CCTTTTCTCGAGAAAAAAATTCAAATTTTTTTGG
* *
8004757 TATTGGTCATGC-AATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCAAATTTTTTTGG
1 TGTTGGCCAT-CAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCAAATTTTTTTGG
** * *
8004817 TGTTGGCCATCAAATGATCGACACCCCCTGTTCTCGAGAAAAAAAAATTTAAATTTTTTTGGG
1 TGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAG--AAAAAAATTCAAATTTTTTT-GG
* *
8004880 TGTTGGCCATCAAATGGCCGACA-CCCCTTTTCTCGAATAAAAAAATTCTAAATTTTTTTTG
1 TGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCG-AGAAAAAAATTC-AAATTTTTTTGG
*
8004941 TGTTGGTCATCAAATGGCCGACACC
1 TGTTGGCCATCAAATGGCCGACACC
8004966 AACTTCTTCT
Statistics
Matches: 183, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
59 1 0.01
60 64 0.35
61 52 0.28
62 42 0.23
63 24 0.13
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (60 bp):
TGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCAAATTTTTTTGG
Found at i:8008704 original size:12 final size:12
Alignment explanation
Indices: 8008687--8008719 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
8008677 TACTTGTGTA
8008687 AAAATTAATTTG
1 AAAATTAATTTG
8008699 AAAATTAATTTG
1 AAAATTAATTTG
*
8008711 GAAATTAAT
1 AAAATTAAT
8008720 GAAAATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (12 bp):
AAAATTAATTTG
Found at i:8008937 original size:83 final size:82
Alignment explanation
Indices: 8008850--8009441 Score: 743
Period size: 83 Copynumber: 7.3 Consensus size: 82
8008840 AAAAAGATAG
* * * * * *
8008850 TTATTATATTATAATTTATATCAAATATTGTATT-AATTGACAATACATTATTTATT-ATTTTTT
1 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
* *
8008913 CATATTTAAAGTACAAATTA
66 -ATCTTTAAA-TA-AAATTT
*
8008933 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
1 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
8008998 ATCTTTAAATAAAATTTT
66 ATCTTTAAATAAAA-TTT
* * * *
8009016 TTATTATATTACAATTTTTAATAATA-AATGTGTTGATTTAACAATACAATATTTATTAATTTTA
1 TTATTATATTATAATTTTT-ATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTA
8009080 TATCTTTAAATAAAAATTT
65 TATCTTTAAAT-AAAATTT
* * *
8009099 TTATTATATTAAAATTTTTATCATATAATGTGTTGATTTGATAATACATTGTTTATTAATTTTAT
1 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
8009164 ATCTTTAAAT-AAATTCT
66 ATCTTTAAATAAAATT-T
*
8009181 TTTTTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
1 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
*
8009246 ATCTTTAAATAAATTCTT
66 ATCTTTAAATAAAAT-TT
* * *
8009264 TTTTTATATTACAAATTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
1 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
8009329 AT-TTTAAAT-AAATTCT
66 ATCTTTAAATAAAATT-T
* *
8009345 TTTTTATATTACAATTTTTATC-----A-----T-ATTTGACAATACATTATTTATTAATTTTAT
1 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
*
8009399 ATATTTAAAT-AAATCTT
66 ATCTTTAAATAAAAT-TT
*
8009416 TTTTTATATTATAATTTTTATCATAT
1 TTATTATATTATAATTTTTATCATAT
8009442 TTTATATTTA
Statistics
Matches: 465, Mismatches: 28, Indels: 40
0.87 0.05 0.08
Matches are distributed among these distances:
70 32 0.07
71 34 0.07
72 1 0.00
76 1 0.00
80 1 0.00
81 30 0.06
82 87 0.19
83 235 0.51
84 38 0.08
85 6 0.01
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (82 bp):
TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
ATCTTTAAATAAAATTT
Found at i:8009114 original size:17 final size:17
Alignment explanation
Indices: 8009092--8009124 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8009082 TCTTTAAATA
*
8009092 AAAATTTTTATTATATT
1 AAAATTTTTATCATATT
8009109 AAAATTTTTATCATAT
1 AAAATTTTTATCATAT
8009125 AATGTGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
AAAATTTTTATCATATT
Found at i:8009273 original size:165 final size:162
Alignment explanation
Indices: 8008853--8009441 Score: 758
Period size: 165 Copynumber: 3.6 Consensus size: 162
8008843 AAGATAGTTA
* * * * *
8008853 TTATATTATAATTTATATCA-AATATTGTATTAATTGACAATACATTATTTATT-ATTTTTTCAT
1 TTATATTACAATTTTTATCATAA-A-TGTGTTATTTGACAATACATTATTTATTAATTTTAT-AT
* *
8008916 ATTTAAAGTACAAATTATTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACA
63 ATTTAAA-TA-AAATTTTTATTATATTAAAATTTTTATCATATAATGTGTTGATTTGACAATACA
*
8008981 ATATTTATTAATTTTATATCTTTAAATAAAATT-TTTT
126 TTATTTATTAATTTTATATCTTTAAAT-AAATTCTTTT
* * *
8009018 ATTATATTACAATTTTTAATAATAAATGTGTTGATTTAACAATACAATATTTATTAATTTTATAT
1 -TTATATTACAATTTTT-ATCATAAATGTGTT-ATTTGACAATACATTATTTATTAATTTTATAT
* *
8009083 CTTTAAATAAAAATTTTTATTATATTAAAATTTTTATCATATAATGTGTTGATTTGATAATACAT
63 ATTTAAAT-AAAATTTTTATTATATTAAAATTTTTATCATATAATGTGTTGATTTGACAATACAT
*
8009148 TGTTTATTAATTTTATATCTTTAAATAAATTCTTTT
127 TATTTATTAATTTTATATCTTTAAATAAATTCTTTT
* *
8009184 TTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTATATC
1 TTATATTACAATTTTTATCATA-AATGTGTT-ATTTGACAATACATTATTTATTAATTTTATATA
* *
8009249 TTTAAATAAATTCTTTTTTTATATTACAAA-TTTTATCATATAATGTGTTGATTTGACAATACAT
64 TTTAAATAAAAT-TTTTATTATATTA-AAATTTTTATCATATAATGTGTTGATTTGACAATACAT
8009313 TATTTATTAATTTTATAT-TTTAAATAAATTCTTTT
127 TATTTATTAATTTTATATCTTTAAATAAATTCTTTT
8009348 TTATATTACAATTTTTATC----A-----TATTTGACAATACATTATTTATTAATTTTATATATT
1 TTATATTACAATTTTTATCATAAATGTGTTATTTGACAATACATTATTTATTAATTTTATATATT
* *
8009404 TAAAT-AAATCTTTTTTTATATTATAATTTTTATCATAT
66 TAAATAAAAT-TTTTATTATATTAAAATTTTTATCATAT
8009442 TTTATATTTA
Statistics
Matches: 387, Mismatches: 26, Indels: 34
0.87 0.06 0.08
Matches are distributed among these distances:
151 2 0.01
152 28 0.07
153 39 0.10
154 1 0.00
159 1 0.00
164 44 0.11
165 129 0.33
166 103 0.27
167 32 0.08
168 8 0.02
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (162 bp):
TTATATTACAATTTTTATCATAAATGTGTTATTTGACAATACATTATTTATTAATTTTATATATT
TAAATAAAATTTTTATTATATTAAAATTTTTATCATATAATGTGTTGATTTGACAATACATTATT
TATTAATTTTATATCTTTAAATAAATTCTTTT
Found at i:8009381 original size:70 final size:71
Alignment explanation
Indices: 8009299--8009443 Score: 258
Period size: 71 Copynumber: 2.1 Consensus size: 71
8009289 TAATGTGTTG
8009299 ATTTGACAATACATTATTTATTAATTTTATAT-TTTAAATAAAT-TCTTTTTTATATTACAATTT
1 ATTTGACAATACATTATTTATTAATTTTATATATTTAAATAAATCT-TTTTTTATATTACAATTT
8009362 TTATCAT
65 TTATCAT
*
8009369 ATTTGACAATACATTATTTATTAATTTTATATATTTAAATAAATCTTTTTTTATATTATAATTTT
1 ATTTGACAATACATTATTTATTAATTTTATATATTTAAATAAATCTTTTTTTATATTACAATTTT
8009434 TATCAT
66 TATCAT
8009440 ATTT
1 ATTT
8009444 TATATTTATT
Statistics
Matches: 72, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
70 32 0.44
71 39 0.54
72 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (71 bp):
ATTTGACAATACATTATTTATTAATTTTATATATTTAAATAAATCTTTTTTTATATTACAATTTT
TATCAT
Found at i:8009643 original size:20 final size:20
Alignment explanation
Indices: 8009620--8009676 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
8009610 TTGACTGCCC
* *
8009620 TTGATCGATTTTGTCCGCCG
1 TTGATCGACTTTATCCGCCG
*
8009640 TTGACCGACTTTATCCGCCG
1 TTGATCGACTTTATCCGCCG
*
8009660 TTAATCGACTTTCATCC
1 TTGATCGACTTT-ATCC
8009677 ATCATATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 27 0.87
21 4 0.13
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.37
Consensus pattern (20 bp):
TTGATCGACTTTATCCGCCG
Found at i:8011897 original size:30 final size:30
Alignment explanation
Indices: 8011858--8011928 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 30
8011848 TTTTTTTCCC
8011858 TTTACTTTTAAATTTAATTT-GTAATTTTGTT-
1 TTTA-TTTTAAATTTAATTTCG-AATTTT-TTG
8011889 TTTATTTTAAATTTAATTTCGAATTTTTTG
1 TTTATTTTAAATTTAATTTCGAATTTTTTG
*
8011919 TATATTTTAA
1 TTTATTTTAA
8011929 TTTTTCTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 2 0.05
30 30 0.81
31 5 0.14
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (30 bp):
TTTATTTTAAATTTAATTTCGAATTTTTTG
Found at i:8011944 original size:30 final size:30
Alignment explanation
Indices: 8011891--8011960 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
8011881 ATTTTGTTTT
* **
8011891 TATTTTAAATTTAATTTCGAATTTTTTGTA
1 TATTTTAATTTTAATTTCGAATTTCATGTA
** *
8011921 TATTTTAATTTTTCTTTCTAATTTCATGTA
1 TATTTTAATTTTAATTTCGAATTTCATGTA
*
8011951 TATTCTAATT
1 TATTTTAATT
8011961 ATTATTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.61
Consensus pattern (30 bp):
TATTTTAATTTTAATTTCGAATTTCATGTA
Done.