Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 12 of 352
Found at i:3712977 original size:125 final size:125
Alignment explanation
Indices: 3712837--3713083 Score: 340
Period size: 127 Copynumber: 2.0 Consensus size: 125
3712827 CTGATTTTAT
* * *
3712837 CACTTTATTCGTATTTTTTACTTTCGTATATTAT-TTTTTAAATTTAATATTATTTTCA-TA-T-
1 CACTTTATTCATATTTTTTACTTTCGTATATTATGTTTTCAAA--T-ATATT-TTTTAAGTATTA
* * *
3712898 TTTTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTATATATTAC
62 TTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAGTATTTTCTATATATTAC
3712962 CACTTTATTCATATTTTTTACTTTCGTATATTATGTTTTCAAATATATTTTTTAAGTATTTTATT
1 CACTTTATTCATATTTTTTACTTTCGTATATTATGTTTTCAAATATATTTTTTAAGTA--TTATT
* *
3713027 TTTTATATTATTTTAGCAAAAATTGTTTCAAATGTATTACTTAAGTGTTTTCTATAT
64 TTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAGTATTTTCTATAT
3713084 TAATTTAATA
Statistics
Matches: 108, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
122 5 0.05
123 7 0.06
124 1 0.01
125 33 0.31
126 8 0.07
127 54 0.50
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (125 bp):
CACTTTATTCATATTTTTTACTTTCGTATATTATGTTTTCAAATATATTTTTTAAGTATTATTTT
TTATATTATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAGTATTTTCTATATATTAC
Found at i:3713028 original size:16 final size:17
Alignment explanation
Indices: 3713007--3713041 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
3712997 TTTTCAAATA
3713007 TATTTTTTA-AGTATTT
1 TATTTTTTATAGTATTT
*
3713023 TATTTTTTATATTATTT
1 TATTTTTTATAGTATTT
3713040 TA
1 TA
3713042 GCAAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TATTTTTTATAGTATTT
Found at i:3713188 original size:299 final size:294
Alignment explanation
Indices: 3712905--3713490 Score: 746
Period size: 299 Copynumber: 1.9 Consensus size: 294
3712895 TATTTTTTTA
** * **** *
3712905 TATTATTTTAGTAAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTATATATTACCACTTTAT
1 TATTA-TTTAGTAAAAAATGTTTCAAATGTATTAAATAAATAACCCTGAT-T-TTACCACTTTAT
3712970 TCATATTTTTTACTTTCGTATATTATGTTTTCAAA-T-ATATT-TTTTAAGTATTTTATTTTTTA
63 TCATATTTTTTACTTTCGTATATTAT-TTTTCAAATTAATATTATTTTAA-TA---T-TTTTTTA
* *
3713032 TATTATTTTAGCAAAAATTGTTTCAAATGTATTACTTAAGTGTTTTCTATATTAATTTAATAAAT
122 TATTATTTTAGCAAAAACTGTTTCAAATGTATTACTTAAGTATTTT-T-TA-TAATTTAATAAAT
*
3713097 AACCCTGACTTTGGCACCTTGTTCGTATTTTTTAATTTTCTAATTTTATTTTTTAAAATATACTA
184 AACCCTGACTTTGGCACCTTGTTCGTATTTTTTAATTTTCAAATTTTATTTTTTAAAATATACTA
3713162 TTTTCATATTTTATTTCTTTATATTATTTTAATACATAATGTTTTAAATG
249 TTTTCATATTTTATTT-TTTATATTA-TTT--TACATAATGTTTTAAATG
* ** ** * * * * * * *
3713212 TATTATTTATTTTAGTATTTTTTATATTTTTTAAATAAATAACCCTGATTTTATCACTTTATTCG
1 TATTATTTAGTAAAAAATGTTTCAAATGTATTAAATAAATAACCCTGATTTTACCACTTTATTCA
* * *
3713277 TATTTTTTACTTTTGTATATTATTTTTTAAATTTAATATTATTTTCATATTTTTTTATATTATTT
66 TATTTTTTACTTTCGTATATTATTTTTCAAA-TTAATATTATTTTAATATTTTTTTATATTATTT
*
3713342 TAGCAAAAACTGTTTCAAATGTATTATTTAAGTATTTTTTATAATTTAATAAATAACCCTGACTT
130 TAGCAAAAACTGTTTCAAATGTATTACTTAAGTATTTTTTATAATTTAATAAATAACCCTGACTT
*
3713407 TGGCACCTTGTTCGTATTTTTTTATTTTCAAATTTTATTTTTTAAAATATACTATTTTCATATTT
195 TGGCACCTTGTTCGTATTTTTTAATTTTCAAATTTTATTTTTTAAAATATACTATTTTCATATTT
3713472 TATTTTTTATATTATTTTA
260 TATTTTTTATATTATTTTA
3713491 GTAAAAAACT
Statistics
Matches: 247, Mismatches: 28, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
295 2 0.01
297 3 0.01
298 9 0.04
299 92 0.37
300 2 0.01
301 1 0.00
302 50 0.20
303 8 0.03
304 35 0.14
305 2 0.01
306 33 0.13
307 10 0.04
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.56
Consensus pattern (294 bp):
TATTATTTAGTAAAAAATGTTTCAAATGTATTAAATAAATAACCCTGATTTTACCACTTTATTCA
TATTTTTTACTTTCGTATATTATTTTTCAAATTAATATTATTTTAATATTTTTTTATATTATTTT
AGCAAAAACTGTTTCAAATGTATTACTTAAGTATTTTTTATAATTTAATAAATAACCCTGACTTT
GGCACCTTGTTCGTATTTTTTAATTTTCAAATTTTATTTTTTAAAATATACTATTTTCATATTTT
ATTTTTTATATTATTTTACATAATGTTTTAAATG
Found at i:3713231 original size:429 final size:427
Alignment explanation
Indices: 3712431--3713384 Score: 1621
Period size: 429 Copynumber: 2.2 Consensus size: 427
3712421 AGTAAAACAT
* * * * * *
3712431 TTTCGTATATCATTTTTTAAAATATAATA-TAATAT-ATTTTATTTTTATATCATTTTAGCAAAA
1 TTTCGTATATTATTTTTT-AAATTTAATATTATTTTCATATT-TTTTTATATTATTTTAGCAAAA
* *
3712494 AATGTTTCAAATGTATTATTTAAGTGTTTTTTATATATTACCACTTTATTCGTATTTTTTACTTT
64 AATGTTTCAAATGTATTATTTAAGTATTTTTTATATATTACCACTTTATTCATATTTTTTACTTT
*
3712559 CGTATATTATTTCTTAAAATATATTATTTACGTATTTTATTTTTTTATATTATTTTAGCAAAAAT
129 CGTATATTATTTCTTAAAATATATTATTTAAGTATTTTATTTTTTTATATTATTTTAGCAAAAAT
* *
3712624 TGTTTCAAATGTACTTAAGTGTTTTTTATATTAATTTAATAAATAACCTTGACTTTGGCACCTTG
194 TGTTTCAAATGTACTTAAGTGTTTTCTATATTAATTTAATAAATAACCCTGACTTTGGCACCTTG
* *
3712689 TTCGTATTTTTTAATTTTTGGATTTTATTTTTTAAAATATATTATTTTCATATTTTATTTCTTTA
259 TTCGTATTTTTTAATTTTTGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTCTTTA
*
3712754 TATTATTTTAGTACATAATGTTTCAAATGTATTATTTATTTAAGTATTTTTTATATTTTTTAAAT
324 TATTATTTTAATACATAATGTTTCAAATGTATTATTTATTTAAGTATTTTTTATATTTTTTAAAT
3712819 AAATAACCCTGATTTTATCACTTTATTCGTATTTTTTAC
389 AAATAACCCTGATTTTATCACTTTATTCGTATTTTTTAC
*
3712858 TTTCGTATATTATTTTTTAAATTTAATATTATTTTCATATTTTTTTATATTATTTTAGTAAAAAA
1 TTTCGTATATTATTTTTTAAATTTAATATTATTTTCATATTTTTTTATATTATTTTAGCAAAAAA
3712923 TGTTTCAAATGTATTATTTAAGTATTTTTTATATATTACCACTTTATTCATATTTTTTACTTTCG
66 TGTTTCAAATGTATTATTTAAGTATTTTTTATATATTACCACTTTATTCATATTTTTTACTTTCG
* *
3712988 TATATTATGTT-TTCAAATATATTTTTTAAGTATTTTA-TTTTTTATATTATTTTAGCAAAAATT
131 TATATTAT-TTCTTAAAATATATTATTTAAGTATTTTATTTTTTTATATTATTTTAGCAAAAATT
3713051 GTTTCAAATGTATTACTTAAGTGTTTTCTATATTAATTTAATAAATAACCCTGACTTTGGCACCT
195 GTTTCAAATG---TACTTAAGTGTTTTCTATATTAATTTAATAAATAACCCTGACTTTGGCACCT
3713116 TGTTCGTATTTTTTAATTTTCT-AATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTCT
257 TGTTCGTATTTTTTAATTTT-TGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTCT
* *
3713180 TTATATTATTTTAATACATAATGTTTTAAATGTATTATTTATTTTAGTATTTTTTATATTTTTTA
321 TTATATTATTTTAATACATAATGTTTCAAATGTATTATTTATTTAAGTATTTTTTATATTTTTTA
3713245 AATAAATAACCCTGATTTTATCACTTTATTCGTATTTTTTAC
386 AATAAATAACCCTGATTTTATCACTTTATTCGTATTTTTTAC
* *
3713287 TTTTGTATATTATTTTTTAAATTTAATATTATTTTCATATTTTTTTATATTATTTTAGCAAAAAC
1 TTTCGTATATTATTTTTTAAATTTAATATTATTTTCATATTTTTTTATATTATTTTAGCAAAAAA
3713352 TGTTTCAAATGTATTATTTAAGTATTTTTTATA
66 TGTTTCAAATGTATTATTTAAGTATTTTTTATA
3713385 ATTTAATAAA
Statistics
Matches: 498, Mismatches: 22, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
426 45 0.09
427 137 0.28
428 6 0.01
429 309 0.62
430 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (427 bp):
TTTCGTATATTATTTTTTAAATTTAATATTATTTTCATATTTTTTTATATTATTTTAGCAAAAAA
TGTTTCAAATGTATTATTTAAGTATTTTTTATATATTACCACTTTATTCATATTTTTTACTTTCG
TATATTATTTCTTAAAATATATTATTTAAGTATTTTATTTTTTTATATTATTTTAGCAAAAATTG
TTTCAAATGTACTTAAGTGTTTTCTATATTAATTTAATAAATAACCCTGACTTTGGCACCTTGTT
CGTATTTTTTAATTTTTGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTCTTTATA
TTATTTTAATACATAATGTTTCAAATGTATTATTTATTTAAGTATTTTTTATATTTTTTAAATAA
ATAACCCTGATTTTATCACTTTATTCGTATTTTTTAC
Found at i:3714079 original size:22 final size:21
Alignment explanation
Indices: 3714047--3714114 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 21
3714037 TCCTCCCCCT
3714047 TCTTTTTCTTTCTTCTTCTTC
1 TCTTTTTCTTTCTTCTTCTTC
*
3714068 TCTTCTTTCTTTCTTCTCCTTC
1 TCTT-TTTCTTTCTTCTTCTTC
* *
3714090 TCTTTTTTTTTCTTTTTTCTTC
1 TCTTTTTCTTTC-TTCTTCTTC
3714112 TCT
1 TCT
3714115 CAAGTGCCGG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
21 11 0.27
22 30 0.73
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (21 bp):
TCTTTTTCTTTCTTCTTCTTC
Found at i:3714122 original size:102 final size:104
Alignment explanation
Indices: 3713976--3714206 Score: 423
Period size: 102 Copynumber: 2.2 Consensus size: 104
3713966 CCTTCCCTCC
3713976 TCTTCTCCTTCTCTTTTTTTTTTCTTTTTTCTTCTCTCAAGTGCCGGCCTCCTTCTTCTCCTCCT
1 TCTTCTCCTTCTC-TTTTTTTTTCTTTTTTCTTCTCTCAAGTGCCGGCCTCCTTCTTCTCCTCCT
3714041 -C-CCCCTTCTTTTTCTTTCTTCTTCTTCTCTTCTTTCTT
65 CCTCCCCTTCTTTTTCTTTCTTCTTCTTCTCTTCTTTCTT
3714079 TCTTCTCCTTCTCTTTTTTTTTCTTTTTTCTTCTCTCAAGTGCCGGCCTCCTTCTTCTCCTCCTC
1 TCTTCTCCTTCTCTTTTTTTTTCTTTTTTCTTCTCTCAAGTGCCGGCCTCCTTCTTCTCCTCCTC
3714144 CTCCCCTTCTTTTTCTTTCTTCTTCTTCTCTTCTTTCTT
66 CTCCCCTTCTTTTTCTTTCTTCTTCTTCTCTTCTTTCTT
*
3714183 TCTTCTCCTTCT-TTTCTTTTTCTT
1 TCTTCTCCTTCTCTTTTTTTTTCTT
3714207 CTTCTCCTTC
Statistics
Matches: 125, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
102 51 0.41
103 25 0.20
104 49 0.39
ACGTcount: A:0.02, C:0.35, G:0.03, T:0.59
Consensus pattern (104 bp):
TCTTCTCCTTCTCTTTTTTTTTCTTTTTTCTTCTCTCAAGTGCCGGCCTCCTTCTTCTCCTCCTC
CTCCCCTTCTTTTTCTTTCTTCTTCTTCTCTTCTTTCTT
Found at i:3714166 original size:3 final size:3
Alignment explanation
Indices: 3714149--3714217 Score: 61
Period size: 3 Copynumber: 22.7 Consensus size: 3
3714139 TCCTCCTCCC
* *
3714149 CTT CTT TTT CTTT CTT CTT CTT C-T CTT CTTT CTTT CTT CTC CTT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT C-TT C-TT CTT CTT CTT CTT
* *
3714196 -TT CTT TTT CTT CTT CTC CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CT
3714218 GCTCCCGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
2 4 0.07
3 40 0.74
4 10 0.19
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:3714183 original size:22 final size:22
Alignment explanation
Indices: 3714151--3714211 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
3714141 CTCCTCCCCT
3714151 TCTT-TTTCTTTCTTCTTCTTC
1 TCTTCTTTCTTTCTTCTTCTTC
*
3714172 TCTTCTTTCTTTCTTCTCCTTC
1 TCTTCTTTCTTTCTTCTTCTTC
*
3714194 TTTTC-TT-TTTCTTCTTCT
1 TCTTCTTTCTTTCTTCTTCT
3714212 CCTTCTGCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 6 0.17
22 20 0.56
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (22 bp):
TCTTCTTTCTTTCTTCTTCTTC
Found at i:3714216 original size:9 final size:9
Alignment explanation
Indices: 3714126--3714222 Score: 55
Period size: 9 Copynumber: 11.4 Consensus size: 9
3714116 AAGTGCCGGC
3714126 CTCCTTCTT
1 CTCCTTCTT
* *
3714135 CTCCTCCTC
1 CTCCTTCTT
*
3714144 CTCC-CCTT
1 CTCCTTCTT
**
3714152 CTTTTTCTTT
1 CTCCTTC-TT
*
3714162 CTTCTTCTT
1 CTCCTTCTT
3714171 CT-CTTCTT
1 CTCCTTCTT
*
3714179 -TCTTTCTT
1 CTCCTTCTT
3714187 CTCCTTCTT
1 CTCCTTCTT
*
3714196 -TTCTT-TT
1 CTCCTTCTT
3714203 -T-CTTCTT
1 CTCCTTCTT
*
3714210 CTCCTTCTG
1 CTCCTTCTT
3714219 CTCC
1 CTCC
3714223 CGAAACTCAA
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
6 3 0.04
7 6 0.09
8 21 0.30
9 32 0.46
10 8 0.11
ACGTcount: A:0.00, C:0.40, G:0.01, T:0.59
Consensus pattern (9 bp):
CTCCTTCTT
Found at i:3722864 original size:25 final size:28
Alignment explanation
Indices: 3722829--3722881 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
3722819 AATAAATATA
*
3722829 ATAATTTATTT-T-TATATTATATAAAT
1 ATAATTTATTTGTGTATATTACATAAAT
3722855 ATAA-TTATTTGTGTATATTACATAAAT
1 ATAATTTATTTGTGTATATTACATAAAT
3722882 TGGATCAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 6 0.25
26 5 0.21
27 13 0.54
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (28 bp):
ATAATTTATTTGTGTATATTACATAAAT
Found at i:3728210 original size:25 final size:25
Alignment explanation
Indices: 3728182--3728231 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
3728172 AAAGAAGTAT
*
3728182 CATTAATGAAGCTTACTTAAGTTTA
1 CATTAACGAAGCTTACTTAAGTTTA
3728207 CATTAACGAAGCTTACTTAAGTTTA
1 CATTAACGAAGCTTACTTAAGTTTA
3728232 TGGAAACTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (25 bp):
CATTAACGAAGCTTACTTAAGTTTA
Found at i:3733276 original size:22 final size:22
Alignment explanation
Indices: 3733251--3733316 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
3733241 GACTATAATG
3733251 TAAATATTAAAAATATATATTT
1 TAAATATTAAAAATATATATTT
* *
3733273 TAAAATTTTAATAAATAAATA-TT
1 T-AAATATTAA-AAATATATATTT
* *
3733296 AAATATATTAAAAATGTATAT
1 TAA-ATATTAAAAATATATAT
3733317 ATAAATTTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
22 10 0.29
23 16 0.47
24 8 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TAAATATTAAAAATATATATTT
Found at i:3735130 original size:17 final size:17
Alignment explanation
Indices: 3735097--3735147 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
3735087 ATCATCTTTT
* *
3735097 GTTTGATTTAATAAAAA
1 GTTTGAATTAAAAAAAA
3735114 GTTTGAATTAAAAAAAA
1 GTTTGAATTAAAAAAAA
* *
3735131 ATTTAAATTAAATAAAA
1 GTTTGAATTAAA-AAAA
3735148 TATAATTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (17 bp):
GTTTGAATTAAAAAAAA
Found at i:3739330 original size:23 final size:21
Alignment explanation
Indices: 3739303--3739359 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
3739293 AAACTCAACT
*
3739303 AACCTAGCCCAATACCCTAAACC
1 AACCTAGCCCAAT--CCTAAAAC
*
3739326 AACCTAGCTCAATCCTAAAAC
1 AACCTAGCCCAATCCTAAAAC
*
3739347 TACCTGAGCCCAA
1 AACCT-AGCCCAA
3739360 ATTTTAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 11 0.38
22 6 0.21
23 12 0.41
ACGTcount: A:0.39, C:0.39, G:0.07, T:0.16
Consensus pattern (21 bp):
AACCTAGCCCAATCCTAAAAC
Found at i:3739351 original size:21 final size:22
Alignment explanation
Indices: 3739299--3739359 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
3739289 CCCAAAACTC
3739299 AACTAACCTAGCCCAATACCCTAA
1 AACT-ACCTAGCCCAATA-CCTAA
* * *
3739323 ACCAACCTAGCTCAAT-CCTAA
1 AACTACCTAGCCCAATACCTAA
3739344 AACTACCTGAGCCCAA
1 AACTACCT-AGCCCAA
3739360 ATTTTAAAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 11 0.37
22 6 0.20
23 11 0.37
24 2 0.07
ACGTcount: A:0.39, C:0.38, G:0.07, T:0.16
Consensus pattern (22 bp):
AACTACCTAGCCCAATACCTAA
Found at i:3740558 original size:14 final size:14
Alignment explanation
Indices: 3740539--3740569 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3740529 TATCCACTTT
3740539 TTATATTATTATTA
1 TTATATTATTATTA
*
3740553 TTATATTATTTTTA
1 TTATATTATTATTA
3740567 TTA
1 TTA
3740570 CTATGGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATATTATTATTA
Found at i:3751449 original size:19 final size:18
Alignment explanation
Indices: 3751411--3751449 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3751401 TCATTTCATT
**
3751411 AAAAAATAAAATCTCTTC
1 AAAAAATAAAATCTAATC
3751429 AAAAAATAAAATCTAAATC
1 AAAAAATAAAATCT-AATC
3751448 AA
1 AA
3751450 GTAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAATAAAATCTAATC
Found at i:3752429 original size:4 final size:4
Alignment explanation
Indices: 3752420--3752448 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
3752410 GTAGACTAAT
3752420 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
3752449 AATTCATAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:3760486 original size:16 final size:16
Alignment explanation
Indices: 3760457--3760490 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
3760447 GAAATTGATA
3760457 TGAATATGTGATTAAT
1 TGAATATGTGATTAAT
3760473 TGAA-ATGTGTATTAAT
1 TGAATATGTG-ATTAAT
3760489 TG
1 TG
3760491 GAAACTGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (16 bp):
TGAATATGTGATTAAT
Found at i:3760684 original size:29 final size:28
Alignment explanation
Indices: 3760645--3760728 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
3760635 CACTTTGTGC
3760645 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
* *
3760674 TATTCTGGTGTGTTTGGGAGGATTGTAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
3760702 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
3760729 CTGGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 31 0.63
29 18 0.37
ACGTcount: A:0.18, C:0.04, G:0.32, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:3760729 original size:23 final size:25
Alignment explanation
Indices: 3760649--3760742 Score: 102
Period size: 28 Copynumber: 3.6 Consensus size: 25
3760639 TTGTGCTATT
3760649 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGATTATA-TA
*
3760676 TTCTGGTGTGTTTGGGAGGATTGTATGATA
1 --CTGGTGTGTTTTGGAGGA-T-TAT-ATA
3760706 CTGGTGTGTTTTGGAGGA-T-TATA
1 CTGGTGTGTTTTGGAGGATTATATA
3760729 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
3760743 TTGGACATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
23 17 0.28
24 1 0.02
25 1 0.02
28 20 0.33
29 15 0.25
30 5 0.08
31 1 0.02
ACGTcount: A:0.15, C:0.04, G:0.35, T:0.46
Consensus pattern (25 bp):
CTGGTGTGTTTTGGAGGATTATATA
Found at i:3760963 original size:23 final size:23
Alignment explanation
Indices: 3760933--3761019 Score: 103
Period size: 21 Copynumber: 4.0 Consensus size: 23
3760923 GCTATACTGA
3760933 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
*
3760956 TCAGGCACCTCT-TGTGTCGTA--
1 TCAGGCA-CTTTATGTGTCGTATT
* *
3760977 TCAGGCACCTTGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
3760999 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
3761020 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
20 2 0.04
21 31 0.57
22 2 0.04
23 16 0.30
24 3 0.06
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.40
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:3761214 original size:7 final size:7
Alignment explanation
Indices: 3761202--3761231 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
3761192 TGAAAAGAAA
3761202 TGTGAAT
1 TGTGAAT
3761209 TGTGAAT
1 TGTGAAT
3761216 TGTGAAT
1 TGTGAAT
3761223 TGTGAAT
1 TGTGAAT
3761230 TG
1 TG
3761232 AAATAGAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (7 bp):
TGTGAAT
Found at i:3762256 original size:45 final size:45
Alignment explanation
Indices: 3762118--3762261 Score: 137
Period size: 45 Copynumber: 3.0 Consensus size: 45
3762108 TTGGACCATG
*
3762118 GCATCAATGTGATATGTGA-TCTGTGTAAGACCATAGCTGGGCTAT
1 GCATCAGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCTAT
* * * * *
3762163 GGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGATAT
1 -GCATC--AG---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCTAT
*
3762216 GCATCAGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCTAT
1 GCATCAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCTAT
3762261 G
1 G
3762262 GCTACGGTGT
Statistics
Matches: 78, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
45 21 0.27
46 12 0.15
47 5 0.06
48 1 0.01
50 2 0.03
51 5 0.06
52 10 0.13
53 21 0.27
54 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (45 bp):
GCATCAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCTAT
Found at i:3765910 original size:3 final size:3
Alignment explanation
Indices: 3765860--3765894 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
3765850 TCTGATTTTT
3765860 TTA TATA TTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
3765895 GTTTACGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 24 0.80
4 6 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3765923 original size:15 final size:15
Alignment explanation
Indices: 3765905--3765938 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3765895 GTTTACGTTT
3765905 TATTATATATATATC
1 TATTATATATATATC
* *
3765920 TATTATATGTATATG
1 TATTATATATATATC
3765935 TATT
1 TATT
3765939 GAATATATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (15 bp):
TATTATATATATATC
Found at i:3766019 original size:24 final size:24
Alignment explanation
Indices: 3765968--3766049 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
3765958 ATACATGGCA
* *
3765968 TATATATTTATAACATTGTATTA--
1 TATATATTT-TAAAATTATATTATG
3765991 T-TATATTTTAAAATTATATTATG
1 TATATATTTTAAAATTATATTATG
* *
3766014 TATATATTTTCATATTATATTATG
1 TATATATTTTAAAATTATATTATG
3766038 TAATTATATTTT
1 T-A-TATATTTT
3766050 CTAATATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
21 11 0.22
22 7 0.14
23 2 0.04
24 21 0.42
25 1 0.02
26 8 0.16
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
TATATATTTTAAAATTATATTATG
Found at i:3766034 original size:13 final size:12
Alignment explanation
Indices: 3765989--3766078 Score: 62
Period size: 13 Copynumber: 7.5 Consensus size: 12
3765979 AACATTGTAT
3765989 TATTATATTTTAA
1 TATTATATTTT-A
* * *
3766002 AATTATATTATG
1 TATTATATTTTA
3766014 TA-TATATTTTCA
1 TATTATATTTT-A
3766026 TATTATATTATGTA
1 TATTATATT-T-TA
*
3766040 -ATTATATTTTC
1 TATTATATTTTA
* *
3766051 TAATATTTTTTA
1 TATTATATTTTA
3766063 TA-TAT-TTTTA
1 TATTATATTTTA
3766073 TATTAT
1 TATTAT
3766079 TAGTTATATT
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
10 7 0.11
11 14 0.23
12 14 0.23
13 23 0.38
14 2 0.03
15 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (12 bp):
TATTATATTTTA
Found at i:3766229 original size:21 final size:21
Alignment explanation
Indices: 3766201--3766261 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
3766191 ATTATTCTCA
*
3766201 TATA-TTATTATATTATTTAT
1 TATACTTATTATTTTATTTAT
3766221 TATACTTATTATTTTCA-TTAT
1 TATACTTATTATTTT-ATTTAT
3766242 TATCACTTATTATTTTATTT
1 TAT-ACTTATTATTTTATTT
3766262 TAATATTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 4 0.11
21 17 0.47
22 15 0.42
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TATACTTATTATTTTATTTAT
Found at i:3766232 original size:12 final size:11
Alignment explanation
Indices: 3766179--3766271 Score: 52
Period size: 12 Copynumber: 8.3 Consensus size: 11
3766169 TTGTATACAC
*
3766179 ATTATATATAGT
1 ATTAT-TATATT
*
3766191 ATTATTCTCATAT
1 ATTATTAT-AT-T
3766204 ATTATTATATT
1 ATTATTATATT
3766215 ATTTATTATACTT
1 A-TTATTATA-TT
*
3766228 ATTATT-T-TC
1 ATTATTATATT
3766237 ATTATTATCACTT
1 ATTATTAT-A-TT
*
3766250 ATTATTTTATT
1 ATTATTATATT
3766261 -TTA--ATATT
1 ATTATTATATT
3766269 ATT
1 ATT
3766272 GTGTATATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
8 4 0.06
9 9 0.14
10 4 0.06
11 7 0.11
12 22 0.34
13 19 0.29
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.60
Consensus pattern (11 bp):
ATTATTATATT
Found at i:3779446 original size:26 final size:27
Alignment explanation
Indices: 3779417--3779480 Score: 62
Period size: 26 Copynumber: 2.4 Consensus size: 27
3779407 TATCAAAGAT
3779417 TTTATTGATTAAAATATA-TATATT-TA
1 TTTATT-ATTAAAATATATTATATTATA
* *
3779443 TTTAATAATT-AAGTATATTATATTATA
1 TTT-ATTATTAAAATATATTATATTATA
3779470 TTATATTATTA
1 TT-TATTATTA
3779481 TATATAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
25 6 0.20
26 12 0.40
27 11 0.37
28 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
TTTATTATTAAAATATATTATATTATA
Found at i:3780681 original size:6 final size:6
Alignment explanation
Indices: 3780670--3780700 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
3780660 CTGTGTACCG
3780670 TACTGT TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
3780701 CCGGCTTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:3781455 original size:3 final size:3
Alignment explanation
Indices: 3781428--3781472 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
3781418 ATAAAAAAGA
3781428 AAT AA- AAT AA- AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
3781471 AA
1 AA
3781473 AATTGGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.16
3 29 0.76
4 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:3783862 original size:27 final size:24
Alignment explanation
Indices: 3783781--3783871 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 24
3783771 ATACATGGCA
* *
3783781 TATATATTTATAACATTGTATTA--
1 TATATATTT-TAATATTATATTATG
3783804 T-TATATTTTAATATTATATTATG
1 TATATATTTTAATATTATATTATG
*
3783827 TATATATTTTCATATTATATTATCATG
1 TATATATTTTAATATTATA-T-T-ATG
*
3783854 TATATATTTTTATATTAT
1 TATATATTTTAATATTAT
3783872 TAGTTATATT
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
21 11 0.19
22 7 0.12
23 2 0.03
24 16 0.28
25 1 0.02
26 1 0.02
27 20 0.34
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (24 bp):
TATATATTTTAATATTATATTATG
Found at i:3783881 original size:20 final size:22
Alignment explanation
Indices: 3783841--3783888 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 22
3783831 TATTTTCATA
3783841 TTATATTATCATGTATATATTT
1 TTATATTATCATGTATATATTT
*
3783863 TTATATTATTA-GT-TATATTT
1 TTATATTATCATGTATATATTT
3783883 TTATAT
1 TTATAT
3783889 ACCATCTCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 13 0.52
21 2 0.08
22 10 0.40
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
TTATATTATCATGTATATATTT
Found at i:3784026 original size:21 final size:21
Alignment explanation
Indices: 3783998--3784058 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
3783988 ATTATTCTCA
*
3783998 TATA-TTATTATATTATTTAT
1 TATACTTATTATTTTATTTAT
3784018 TATACTTATTATTTTCA-TTAT
1 TATACTTATTATTTT-ATTTAT
3784039 TATCACTTATTATTTTATTT
1 TAT-ACTTATTATTTTATTT
3784059 TAATATTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 4 0.11
21 17 0.47
22 15 0.42
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TATACTTATTATTTTATTTAT
Found at i:3784029 original size:12 final size:11
Alignment explanation
Indices: 3783987--3784068 Score: 50
Period size: 12 Copynumber: 7.6 Consensus size: 11
3783977 ATATATATAG
* *
3783987 TATTATTCTCA
1 TATTATTATTA
3783998 TA-TATTATTA
1 TATTATTATTA
3784008 TATTATTTATTA
1 TATTA-TTATTA
3784020 TACTTATTATT-
1 TA-TTATTATTA
*
3784031 T-TCATTATTA
1 TATTATTATTA
*
3784041 TCACTTATTATTT
1 T-A-TTATTATTA
3784054 TATT-TTA--A
1 TATTATTATTA
3784062 TATTATT
1 TATTATT
3784069 GTGTATATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 4 0.07
9 9 0.16
10 12 0.21
11 7 0.12
12 14 0.25
13 11 0.19
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATTATTA
Found at i:3784147 original size:11 final size:10
Alignment explanation
Indices: 3784121--3784161 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
3784111 ATATTTATTA
3784121 TATATATATG
1 TATATATATG
*
3784131 TATATATCATC
1 TATATAT-ATG
3784142 TATATATTATG
1 TATATA-TATG
3784153 TATATATAT
1 TATATATAT
3784162 ACTCTCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 10 0.37
11 16 0.59
12 1 0.04
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (10 bp):
TATATATATG
Found at i:3784285 original size:19 final size:19
Alignment explanation
Indices: 3784261--3784298 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3784251 ATGTGTACAG
3784261 TTTTTATATATATACTATT
1 TTTTTATATATATACTATT
*
3784280 TTTTTATATATATATTATT
1 TTTTTATATATATACTATT
3784299 ATCATTCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTATATATATACTATT
Found at i:3786129 original size:5 final size:5
Alignment explanation
Indices: 3786119--3786146 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
3786109 GTATAAAATT
3786119 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
3786147 TTTAAAAAAA
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:3789393 original size:48 final size:47
Alignment explanation
Indices: 3789318--3789510 Score: 201
Period size: 48 Copynumber: 4.0 Consensus size: 47
3789308 GCACCTGCGA
* * * * * *
3789318 CTCTTGTTGGTCATGATTCTGTAGTTTGTTTCCCTTGGGTTCATCTTG
1 CTCTAGTTGGTCTTGATT-TGTTGTTTGGTTCCCTTCGGTTCATCTTC
* * *
3789366 CTCTAGTTGATCTTGATTTAGTTGTTTGGTCCCCTTCGATTCATCTTC
1 CTCTAGTTGGTCTTGATTT-GTTGTTTGGTTCCCTTCGGTTCATCTTC
* * *
3789414 CTCTAGTTGGTCTTGATTCGGTTGTTTGGTTCCCTTGGGTTCATCCTC
1 CTCTAGTTGGTCTTGATT-TGTTGTTTGGTTCCCTTCGGTTCATCTTC
*
3789462 CTCTAGTTGGTCTTGAATTT-TTGGTTTGTTTACCC-TCGGTTCATCTTC
1 CTCTAGTTGGTCTTG-ATTTGTT-GTTTGGTT-CCCTTCGGTTCATCTTC
3789510 C
1 C
3789511 ATTTCCGCCA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
47 3 0.02
48 112 0.93
49 6 0.05
ACGTcount: A:0.09, C:0.22, G:0.21, T:0.48
Consensus pattern (47 bp):
CTCTAGTTGGTCTTGATTTGTTGTTTGGTTCCCTTCGGTTCATCTTC
Found at i:3789505 original size:96 final size:95
Alignment explanation
Indices: 3789318--3789510 Score: 237
Period size: 96 Copynumber: 2.0 Consensus size: 95
3789308 GCACCTGCGA
* * * * *
3789318 CTCTTGTTGGTCATGATTCTGTAGTTTGTTTCCCTTGGGTTCATCTTGCTCTAGTTGATCTTGAT
1 CTCTAGTTGGTCATGATTCGGTAGTTTGGTTCCCTTGGGTTCATCCTCCTCTAGTTGATCTTGAT
*
3789383 TTAGTTGTTTGGTCCCCTTCGATTCATCTTC
66 TTA-TTGTTTGGTACCCTTCGATTCATCTTC
* * *
3789414 CTCTAGTTGGTCTTGATTCGGTTGTTTGGTTCCCTTGGGTTCATCCTCCTCTAGTTGGTCTTGAA
1 CTCTAGTTGGTCATGATTCGGTAGTTTGGTTCCCTTGGGTTCATCCTCCTCTAGTTGATCTTG-A
* *
3789479 TTT-TTGGTTTGTTTACCC-TCGGTTCATCTTC
65 TTTATT-GTTTG-GTACCCTTCGATTCATCTTC
3789510 C
1 C
3789511 ATTTCCGCCA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
95 2 0.02
96 73 0.88
97 8 0.10
ACGTcount: A:0.09, C:0.22, G:0.21, T:0.48
Consensus pattern (95 bp):
CTCTAGTTGGTCATGATTCGGTAGTTTGGTTCCCTTGGGTTCATCCTCCTCTAGTTGATCTTGAT
TTATTGTTTGGTACCCTTCGATTCATCTTC
Found at i:3802892 original size:18 final size:18
Alignment explanation
Indices: 3802869--3802903 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3802859 CGTCGGCTAA
*
3802869 TTCCTCTGCTTCTTCTTT
1 TTCCTCCGCTTCTTCTTT
*
3802887 TTCCTCCGTTTCTTCTT
1 TTCCTCCGCTTCTTCTT
3802904 CCTCCAACGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.34, G:0.06, T:0.60
Consensus pattern (18 bp):
TTCCTCCGCTTCTTCTTT
Found at i:3812862 original size:19 final size:20
Alignment explanation
Indices: 3812823--3812862 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3812813 GAAAGGATTG
*
3812823 TGTTATAATTATATTTAAAA
1 TGTTATAATTATATATAAAA
*
3812843 TGTTATAGTT-TATATAAAA
1 TGTTATAATTATATATAAAA
3812862 T
1 T
3812863 TTAATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
TGTTATAATTATATATAAAA
Found at i:3813141 original size:19 final size:19
Alignment explanation
Indices: 3813106--3813142 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3813096 AAATGTGAAA
**
3813106 TAATAATTAATCCTTAAAT
1 TAATAATTAATAATTAAAT
3813125 TAATAATTAATAATTAAA
1 TAATAATTAATAATTAAA
3813143 AAATCACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATAATTAATAATTAAAT
Found at i:3817275 original size:14 final size:14
Alignment explanation
Indices: 3817256--3817285 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3817246 TGAAAAAAGT
3817256 AAGAATCTGTTGTA
1 AAGAATCTGTTGTA
3817270 AAGAATCTGTTGTA
1 AAGAATCTGTTGTA
3817284 AA
1 AA
3817286 TCACGGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (14 bp):
AAGAATCTGTTGTA
Found at i:3821586 original size:18 final size:19
Alignment explanation
Indices: 3821563--3821599 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3821553 TTATATATTT
3821563 TTTTATAA-TTTTTAAAAA
1 TTTTATAATTTTTTAAAAA
3821581 TTTTATAATTTTTTAAAAA
1 TTTTATAATTTTTTAAAAA
3821600 ATATAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTATAATTTTTTAAAAA
Found at i:3821608 original size:18 final size:19
Alignment explanation
Indices: 3821566--3821610 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
3821556 TATATTTTTT
* *
3821566 TATAA-TTTTTAAAAATTT
1 TATAATTTTTTAAAAAATA
3821584 TATAATTTTTTAAAAAATA
1 TATAATTTTTTAAAAAATA
3821603 TA-AATTTT
1 TATAATTTT
3821611 GAAATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATAATTTTTTAAAAAATA
Found at i:3821647 original size:19 final size:20
Alignment explanation
Indices: 3821606--3821654 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
3821596 AAAAATATAA
*
3821606 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTTAAAAAT
3821626 ATTTTG-AA-TTTTAAAAATT
1 ATTTTGAAATTTTTAAAAA-T
*
3821645 ATTTTTAAAT
1 ATTTTGAAAT
3821655 AATTTTGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAAAT
Found at i:3827953 original size:50 final size:50
Alignment explanation
Indices: 3827878--3827977 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
3827868 GGTTAACTAA
*
3827878 GAGTGAAATTATTCTTCACATGCTTGTAACCCAAGAATAAAAGGAAAAAG
1 GAGTGAAATTATTCTTCACATGCTTGTAACCCAAGAATAAAACGAAAAAG
*
3827928 GAGTGAAATTTTTCTTCACATGCTTGTAACCCAAGAATAAAACGAAAAAG
1 GAGTGAAATTATTCTTCACATGCTTGTAACCCAAGAATAAAACGAAAAAG
3827978 CGACCATGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (50 bp):
GAGTGAAATTATTCTTCACATGCTTGTAACCCAAGAATAAAACGAAAAAG
Found at i:3831977 original size:14 final size:15
Alignment explanation
Indices: 3831958--3831990 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
3831948 ATTTTTTATT
3831958 TAAAAAATA-TGACA
1 TAAAAAATATTGACA
3831972 TAAAAAATATTGACA
1 TAAAAAATATTGACA
3831987 -AAAA
1 TAAAA
3831991 TATTTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (15 bp):
TAAAAAATATTGACA
Found at i:3847613 original size:27 final size:27
Alignment explanation
Indices: 3847583--3847635 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
3847573 ATAAAATATA
* *
3847583 AATTTTGAAA-TTTTTATAAATATTTTG
1 AATTTTAAAAGTTTTT-TAAAAATTTTG
3847610 AATTTTAAAAGTTTTTTAAAAATTTT
1 AATTTTAAAAGTTTTTTAAAAATTTT
3847636 TTTTGTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (27 bp):
AATTTTAAAAGTTTTTTAAAAATTTTG
Found at i:3863769 original size:22 final size:23
Alignment explanation
Indices: 3863742--3863797 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
3863732 TTTTTTCACC
*
3863742 ATAAATTTATAGTT-CATAAAAT
1 ATAAATTTATAATTACATAAAAT
3863764 ATAAA-TTA-AATTACCATAAAAT
1 ATAAATTTATAATTA-CATAAAAT
*
3863786 AAAAATTTATAA
1 ATAAATTTATAA
3863798 GGGTTACGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 3 0.11
21 3 0.11
22 17 0.61
23 3 0.11
24 2 0.07
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAAATTTATAATTACATAAAAT
Found at i:3868262 original size:59 final size:58
Alignment explanation
Indices: 3868132--3868265 Score: 139
Period size: 59 Copynumber: 2.3 Consensus size: 58
3868122 TTAGAATAAC
* * * *
3868132 ATTTTGTACCTGAATTTGGAATTTTTTTAATTTGACACCTAAATATATTTTTTTTCTA
1 ATTTAGTACCTAAATTTGGAATTTTTTTAATTTGACACCTAAATATATTTTTTGTCCA
* * * *
3868190 ATTTGGTATCTAAATTT-GATACTTTTTCTTAATTTGATACGTAAA-AT-TTTTTTGGTCCA
1 ATTTAGTACCTAAATTTGGA-A-TTTTT-TTAATTTGACACCTAAATATATTTTTT-GTCCA
3868249 ATTTAGTACCTAAATTT
1 ATTTAGTACCTAAATTT
3868266 ATTAACTGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
57 2 0.03
58 21 0.33
59 25 0.40
60 15 0.24
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (58 bp):
ATTTAGTACCTAAATTTGGAATTTTTTTAATTTGACACCTAAATATATTTTTTGTCCA
Found at i:3873323 original size:23 final size:23
Alignment explanation
Indices: 3873293--3873348 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
3873283 ATCAAGGCTC
3873293 CACACGCCCGTGTAGGTATAGAG
1 CACACGCCCGTGTAGGTATAGAG
3873316 CACACGCCCGTGTAGGTATAGAG
1 CACACGCCCGTGTAGGTATAGAG
3873339 CACACGCCCG
1 CACACGCCCG
3873349 GGTGCTAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.25, C:0.32, G:0.29, T:0.14
Consensus pattern (23 bp):
CACACGCCCGTGTAGGTATAGAG
Found at i:3873896 original size:50 final size:50
Alignment explanation
Indices: 3873837--3873941 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
3873827 TTACATGACT
*
3873837 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATACTATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
3873887 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
3873937 -ATACT
1 AATACT
3873942 CACATTAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 5 0.09
50 49 0.91
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (50 bp):
AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
Found at i:3875764 original size:20 final size:18
Alignment explanation
Indices: 3875730--3875766 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
3875720 GCAACTCATA
3875730 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
3875748 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
3875767 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:3878012 original size:27 final size:27
Alignment explanation
Indices: 3877974--3878027 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
3877964 TCCAAAAAAG
3877974 TTAGAATATCAAAATAAATCTAATTGT
1 TTAGAATATCAAAATAAATCTAATTGT
3878001 TTAGAATATCAAAATAAATCTAATTGT
1 TTAGAATATCAAAATAAATCTAATTGT
3878028 AAATTTAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (27 bp):
TTAGAATATCAAAATAAATCTAATTGT
Found at i:3884277 original size:28 final size:28
Alignment explanation
Indices: 3884231--3884284 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
3884221 GTGTGCTCTA
*
3884231 ATAAAAAAAACATAAATACTTAATTGCT
1 ATAAAAAAAACATAAATACTAAATTGCT
* *
3884259 ATAAAAAAAACGTAGATACTAAATTG
1 ATAAAAAAAACATAAATACTAAATTG
3884285 AACATTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.26
Consensus pattern (28 bp):
ATAAAAAAAACATAAATACTAAATTGCT
Found at i:3884380 original size:62 final size:62
Alignment explanation
Indices: 3884259--3884391 Score: 164
Period size: 62 Copynumber: 2.2 Consensus size: 62
3884249 CTTAATTGCT
* * * *
3884259 ATAAAAAAAACGTAGATACTAAATTGAACATTAGAACCAAACTCAAGTACTCAAATGAGATA
1 ATAAAAAAAACGTAGATACTAAAATGAACATTAGAAACAAACTCAAATACTCAAATGAGACA
* * *
3884321 ATAAAAAAAACTTAGTTACTAAAATGAACATTA-AAGACAAATTCAAATA-TCAAATTGAGACA
1 ATAAAAAAAACGTAGATACTAAAATGAACATTAGAA-ACAAACTCAAATACTCAAA-TGAGACA
3884383 A-AAAAAAAA
1 ATAAAAAAAA
3884392 TCAAATATCA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
61 15 0.24
62 47 0.76
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (62 bp):
ATAAAAAAAACGTAGATACTAAAATGAACATTAGAAACAAACTCAAATACTCAAATGAGACA
Found at i:3886083 original size:12 final size:12
Alignment explanation
Indices: 3886066--3886092 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3886056 CCTTCTTCTC
3886066 CCCTTTCCCCTT
1 CCCTTTCCCCTT
3886078 CCCTTTCCCCTT
1 CCCTTTCCCCTT
3886090 CCC
1 CCC
3886093 CTTGGGTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (12 bp):
CCCTTTCCCCTT
Found at i:3886214 original size:25 final size:27
Alignment explanation
Indices: 3886154--3886214 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
3886144 CCAGGTAAGG
*
3886154 CTTCTTCTCCTTCATCCGTTCTTCATTC
1 CTTC-TCTTCTTCATCCGTTCTTCATTC
*
3886182 CTT-T-TTCTTCTTCCGTTCTTCA-T-
1 CTTCTCTTCTTCATCCGTTCTTCATTC
3886205 CTTCTCTTCT
1 CTTCTCTTCT
3886215 CAGCATATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 20 0.69
26 1 0.03
28 3 0.10
ACGTcount: A:0.05, C:0.36, G:0.03, T:0.56
Consensus pattern (27 bp):
CTTCTCTTCTTCATCCGTTCTTCATTC
Found at i:3886729 original size:12 final size:13
Alignment explanation
Indices: 3886706--3886731 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3886696 TCAATGAACC
3886706 CTTAATTTTTTTG
1 CTTAATTTTTTTG
3886719 CTTAATTTTTTTG
1 CTTAATTTTTTTG
3886732 GTACTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTAATTTTTTTG
Found at i:3890149 original size:21 final size:21
Alignment explanation
Indices: 3890123--3890178 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
3890113 CGCTGTTTCT
*
3890123 AATCTCACCGCTAC-GATATCC
1 AATCTCACCGCTACAG-TAACC
* *
3890144 AATCTCACCACTACAGTAACT
1 AATCTCACCGCTACAGTAACC
3890165 AATCTCACCGCTAC
1 AATCTCACCGCTAC
3890179 CACTGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.32, C:0.38, G:0.07, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:3896927 original size:28 final size:30
Alignment explanation
Indices: 3896868--3896960 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
3896858 AAAATTGATT
* * * *
3896868 TAAACTTAAAAAAT-TATAAATAAAATAAAA
1 TAAAATTATAAAATATATATATAAAAT-TAA
3896898 TAAAATT-TAAAA-A-A-ATCATAAAATCTAA
1 TAAAATTATAAAATATATAT-ATAAAAT-TAA
3896926 T-AAATTATAAAATATATATATAAAATTAA
1 TAAAATTATAAAATATATATATAAAATTAA
3896955 TAAAAT
1 TAAAAT
3896961 AATCAGTTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
27 6 0.12
28 16 0.31
29 9 0.18
30 18 0.35
31 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (30 bp):
TAAAATTATAAAATATATATATAAAATTAA
Found at i:3896928 original size:10 final size:10
Alignment explanation
Indices: 3896886--3896961 Score: 61
Period size: 10 Copynumber: 7.9 Consensus size: 10
3896876 AAAAATTATA
*
3896886 AATAAAATAA
1 AATAAAATAT
*
3896896 AATAAAATTT
1 AATAAAATAT
3896906 AA-AAAA-AT
1 AATAAAATAT
* *
3896914 CATAAAATCT
1 AATAAAATAT
*
3896924 AATAAATTAT
1 AATAAAATAT
*
3896934 AA-AATATAT
1 AATAAAATAT
3896943 ATATAAAAT-T
1 A-ATAAAATAT
3896953 AATAAAATA
1 AATAAAATA
3896962 ATCAGTTGGA
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
8 2 0.04
9 21 0.42
10 23 0.46
11 4 0.08
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAAAATAT
Found at i:3901781 original size:20 final size:20
Alignment explanation
Indices: 3901756--3901793 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3901746 TCATATTAAT
* *
3901756 TTTAATTAACTTAATTTTAC
1 TTTAATAAAATTAATTTTAC
3901776 TTTAATAAAATTAATTTT
1 TTTAATAAAATTAATTTT
3901794 CCCAAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTAATAAAATTAATTTTAC
Found at i:3904617 original size:52 final size:48
Alignment explanation
Indices: 3904434--3904640 Score: 186
Period size: 47 Copynumber: 4.2 Consensus size: 48
3904424 TGCACATAGT
* * ** * *
3904434 CACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTACACGG-AT
1 CACATATCACAT-CCGAAGCCATATCCCAGATATGGTCTTATACGGAAG
* * * * *
3904482 CACGTATCACA-CTGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACATCCGAAGCCATATCCCAGATATGGTCTTATACGGAAG
* *
3904529 CACATATCACA-CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACATCCGAAGCCATATCCCAGATATGGTCTTATACGGAAG
* * *
3904576 CACATATCACATTTGTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACATATCACA----TCCGAAGCCATATCCCAGATATGGTCTTATACGG-AAG
*
3904629 CACATTTCACAT
1 CACATATCACAT
3904641 GCTGTCATGG
Statistics
Matches: 132, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
46 26 0.20
47 54 0.41
48 10 0.08
49 1 0.01
52 29 0.22
53 12 0.09
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (48 bp):
CACATATCACATCCGAAGCCATATCCCAGATATGGTCTTATACGGAAG
Found at i:3905713 original size:25 final size:25
Alignment explanation
Indices: 3905685--3905736 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
3905675 AAAATTGGTA
3905685 AGACATTTTCCATTCT-TCTCTAAGC
1 AGACATTTTCCATTCTCT-TCTAAGC
3905710 AGACATTTTCCATTCTCTTCTAAGC
1 AGACATTTTCCATTCTCTTCTAAGC
3905735 AG
1 AG
3905737 CAGACATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (25 bp):
AGACATTTTCCATTCTCTTCTAAGC
Found at i:3907613 original size:58 final size:58
Alignment explanation
Indices: 3907544--3907680 Score: 274
Period size: 58 Copynumber: 2.4 Consensus size: 58
3907534 GTTAAACATT
3907544 ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAAAAAA
1 ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAAAAAA
3907602 ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAAAAAA
1 ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAAAAAA
3907660 ATTTATAACATTGTCAAATTT
1 ATTTATAACATTGTCAAATTT
3907681 TTTTGTTTAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 79 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (58 bp):
ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAAAAAA
Found at i:3911024 original size:14 final size:14
Alignment explanation
Indices: 3911001--3911040 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3910991 ACAGAAAAGT
*
3911001 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
3911015 AAATCATTTTACGG
1 AAAACATTTTACAG
3911029 AAAACATTTTAC
1 AAAACATTTTAC
3911041 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:3911026 original size:34 final size:35
Alignment explanation
Indices: 3910966--3911032 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
3910956 CAAACACCAG
* *
3910966 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
3911001 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
3911033 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:3916584 original size:13 final size:13
Alignment explanation
Indices: 3916566--3916590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3916556 AAATCTGTTT
3916566 TGAGTGCTGCTCA
1 TGAGTGCTGCTCA
3916579 TGAGTGCTGCTC
1 TGAGTGCTGCTC
3916591 TTGTTAAGGC
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:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (13 bp):
TGAGTGCTGCTCA
Found at i:3917052 original size:16 final size:16
Alignment explanation
Indices: 3917031--3917072 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
3917021 TTATTAAATT
*
3917031 ATATATTTTAATTATA
1 ATATATTTTAATAATA
3917047 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
3917062 AT-TATGTTTAA
1 ATATAT-TTTAA
3917073 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:3917057 original size:15 final size:15
Alignment explanation
Indices: 3917022--3917063 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
3917012 TTAAGAATTT
*
3917022 TATTAAATTAT-ATA
1 TATTTAATTATAATA
3917036 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
3917050 TATTTAATAATAAT
1 TATTTAATTATAAT
3917064 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:3917203 original size:18 final size:17
Alignment explanation
Indices: 3917175--3917209 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3917165 ATTATTAAGA
*
3917175 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
3917192 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
3917210 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:3917208 original size:157 final size:157
Alignment explanation
Indices: 3917009--3917322 Score: 574
Period size: 157 Copynumber: 2.0 Consensus size: 157
3916999 AGAATATTAG
*
3917009 TTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
* *
3917074 TATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAAATTAAATAATAATAACAATAA
66 TATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAATAA
*
3917139 TAATTTACCAAAACAAATTTCTGCTAA
131 TAATTTACCAAAACAAATTTATGCTAA
3917166 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
*
3917231 TATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAA
66 TATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAATAA
*
3917296 TCATTTACCAAAACAAATTTATGCTAA
131 TAATTTACCAAAACAAATTTATGCTAA
3917323 GGGTATTCTA
Statistics
Matches: 151, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 151 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
TATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAATAA
TAATTTACCAAAACAAATTTATGCTAA
Found at i:3917466 original size:16 final size:16
Alignment explanation
Indices: 3917445--3917512 Score: 100
Period size: 16 Copynumber: 4.2 Consensus size: 16
3917435 GATTTGCTAT
*
3917445 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
3917461 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
*
3917477 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
*
3917493 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
3917509 TACA
1 TACA
3917513 GCGAACCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.35, C:0.34, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:3921250 original size:18 final size:18
Alignment explanation
Indices: 3921227--3921262 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3921217 TTGAAAGTTC
3921227 TCTATCAAGAAAAGAAAA
1 TCTATCAAGAAAAGAAAA
3921245 TCTATCAAGAAAAGAAAA
1 TCTATCAAGAAAAGAAAA
3921263 AAGAAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.17
Consensus pattern (18 bp):
TCTATCAAGAAAAGAAAA
Found at i:3921528 original size:27 final size:26
Alignment explanation
Indices: 3921494--3921576 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 26
3921484 TTTGATTTAA
3921494 TGTTTAATTTAGTATTTAATTTTTTT
1 TGTTTAATTTAGTATTTAATTTTTTT
**
3921520 TGTTCTAATTTAGTATTTAAGATTGTTTCAA
1 TGTT-TAATTTAGTATTT-A-ATT-TTT-TT
*
3921551 TATTTAATTTAGTATTTAATTTTTTT
1 TGTTTAATTTAGTATTTAATTTTTTT
3921577 AGTGTGATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
26 4 0.09
27 16 0.34
28 4 0.09
29 4 0.09
30 16 0.34
31 3 0.06
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (26 bp):
TGTTTAATTTAGTATTTAATTTTTTT
Found at i:3921594 original size:57 final size:57
Alignment explanation
Indices: 3921479--3921594 Score: 148
Period size: 57 Copynumber: 2.0 Consensus size: 57
3921469 TATTCAATAC
* * **
3921479 TTAAGTTTGATTTAATGTTTAATTTAGTATTTAATTTTTTTTGTTCTAATTTAGTAT
1 TTAAGATTGATTTAATATTTAATTTAGTATTTAATTTTTTTTGTGATAATTTAGTAT
3921536 TTAAGATTG-TTTCAATATTTAATTTAGTATTTAATTTTTTTAGTGTGAT-ATTTA-TAT
1 TTAAGATTGATTT-AATATTTAATTTAGTATTTAATTTTTTT--TGTGATAATTTAGTAT
3921593 TT
1 TT
3921595 GTATTTTTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
56 3 0.06
57 40 0.77
58 5 0.10
59 4 0.08
ACGTcount: A:0.28, C:0.02, G:0.10, T:0.60
Consensus pattern (57 bp):
TTAAGATTGATTTAATATTTAATTTAGTATTTAATTTTTTTTGTGATAATTTAGTAT
Found at i:3925036 original size:2 final size:2
Alignment explanation
Indices: 3925029--3925067 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
3925019 GATATTTTTC
* * *
3925029 AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3925068 ATTTAATCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:3925057 original size:16 final size:16
Alignment explanation
Indices: 3925032--3925072 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
3925022 ATTTTTCATA
*
3925032 TATATATATATATATT
1 TATATTTATATATATT
3925048 TATATTTATATATATT
1 TATATTTATATATATT
3925064 TATAATTTA
1 TAT-ATTTA
3925073 ATCTTTATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATTTATATATATT
Found at i:3925059 original size:24 final size:24
Alignment explanation
Indices: 3925030--3925081 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
3925020 ATATTTTTCA
3925030 TATATATATATATATATTT-ATATT
1 TATATATATATATA-ATTTAATATT
* *
3925054 TATATATATTTATAATTTAATCTT
1 TATATATATATATAATTTAATATT
3925078 TATA
1 TATA
3925082 CTATCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATATATATATAATTTAATATT
Found at i:3925853 original size:26 final size:28
Alignment explanation
Indices: 3925790--3925895 Score: 99
Period size: 31 Copynumber: 3.6 Consensus size: 28
3925780 TAGAACAAAG
*
3925790 AAAACTTAGCTATCAAATTTAATATTGAAAT
1 AAAACTTAGGTATCAAA-TTAATA-T-AAAT
*
3925821 CAAACTTAGGTATCAAATTAA-A-AAAT
1 AAAACTTAGGTATCAAATTAATATAAAT
*
3925847 AAAACTTAGGTACCAAATTGAATATTAAATT
1 AAAACTTAGGTATCAAATT-AATA-TAAA-T
* *
3925878 TAAACTTAGGCATCAAAT
1 AAAACTTAGGTATCAAAT
3925896 AGTATATTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
26 21 0.33
27 2 0.03
28 1 0.02
29 1 0.02
30 7 0.11
31 31 0.49
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.31
Consensus pattern (28 bp):
AAAACTTAGGTATCAAATTAATATAAAT
Found at i:3925903 original size:31 final size:31
Alignment explanation
Indices: 3925848--3925906 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
3925838 TTAAAAAATA
* *
3925848 AAACTTAGGTACCAAATTGAATATTAAATTT
1 AAACTTAGGCACCAAATAGAATATTAAATTT
* *
3925879 AAACTTAGGCATCAAATAGTATATTAAA
1 AAACTTAGGCACCAAATAGAATATTAAA
3925907 CCAGAAAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.32
Consensus pattern (31 bp):
AAACTTAGGCACCAAATAGAATATTAAATTT
Found at i:3930405 original size:21 final size:21
Alignment explanation
Indices: 3930380--3930423 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
3930370 CATCAAATGT
3930380 TTGCAAGTTTTTTCATGCATA
1 TTGCAAGTTTTTTCATGCATA
3930401 TTGCAAGTTTTTTCATGCATA
1 TTGCAAGTTTTTTCATGCATA
3930422 TT
1 TT
3930424 ACCAAAACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.50
Consensus pattern (21 bp):
TTGCAAGTTTTTTCATGCATA
Found at i:3930997 original size:20 final size:20
Alignment explanation
Indices: 3930919--3930998 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 20
3930909 CAATTATTAG
3930919 TAAAACTTAGAAGTTCTGAT
1 TAAAACTTAGAAGTTCTGAT
* * * *
3930939 TAAAATTTTAAAAATTTTGA-
1 TAAAA-CTTAGAAGTTCTGAT
* *
3930959 GAAAA-TTA-AA---CTAAT
1 TAAAACTTAGAAGTTCTGAT
3930974 TAAAACTTAGAAGTTCTGAT
1 TAAAACTTAGAAGTTCTGAT
3930994 TAAAA
1 TAAAA
3930999 TTTTTGAAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
14 2 0.05
15 4 0.09
16 3 0.07
17 4 0.09
18 3 0.07
20 18 0.41
21 10 0.23
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (20 bp):
TAAAACTTAGAAGTTCTGAT
Found at i:3935904 original size:18 final size:18
Alignment explanation
Indices: 3935881--3935918 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
3935871 AAACACAACT
3935881 TGTAAGGATTGCCATTGA
1 TGTAAGGATTGCCATTGA
3935899 TGTAAGGATTGCCATTGA
1 TGTAAGGATTGCCATTGA
3935917 TG
1 TG
3935919 AGAAAGGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (18 bp):
TGTAAGGATTGCCATTGA
Found at i:3940159 original size:12 final size:12
Alignment explanation
Indices: 3940142--3940168 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3940132 CCAATGTAAT
3940142 AATTCATTTTTC
1 AATTCATTTTTC
3940154 AATTCATTTTTC
1 AATTCATTTTTC
3940166 AAT
1 AAT
3940169 GCCGCACGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTCATTTTTC
Found at i:3940511 original size:11 final size:11
Alignment explanation
Indices: 3940495--3940522 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
3940485 AATTAACATT
3940495 TAAACTGACAA
1 TAAACTGACAA
3940506 TAAACTGACAA
1 TAAACTGACAA
3940517 TAAACT
1 TAAACT
3940523 ATATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.18, G:0.07, T:0.21
Consensus pattern (11 bp):
TAAACTGACAA
Found at i:3945087 original size:21 final size:21
Alignment explanation
Indices: 3945063--3945104 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3945053 ATCGTGAAAG
*
3945063 AAGGATTGGAGACGGCGGAGA
1 AAGGACTGGAGACGGCGGAGA
*
3945084 AAGGGCTGGAGACGGCGGAGA
1 AAGGACTGGAGACGGCGGAGA
3945105 GAGGGATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.50, T:0.07
Consensus pattern (21 bp):
AAGGACTGGAGACGGCGGAGA
Found at i:3945109 original size:21 final size:21
Alignment explanation
Indices: 3945069--3945109 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
3945059 AAAGAAGGAT
3945069 TGGAGACGGCGGAGAAAGGGC
1 TGGAGACGGCGGAGAAAGGGC
*
3945090 TGGAGACGGCGGAGAGAGGG
1 TGGAGACGGCGGAGAAAGGG
3945110 ATCTTTACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.56, T:0.05
Consensus pattern (21 bp):
TGGAGACGGCGGAGAAAGGGC
Found at i:3945673 original size:3 final size:3
Alignment explanation
Indices: 3945665--3945689 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3945655 TTCGGTAAGA
3945665 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
3945690 TATTAAGTGA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3950960 original size:27 final size:27
Alignment explanation
Indices: 3950887--3950961 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
3950877 AAATTGGAAA
*
3950887 AATTAAATTCAATCACTTAAATTTAAAGTC
1 AATTAAATTC-A--ACTTAATTTTAAAGTC
*
3950917 AATTAAATTCAATTTAATTTTAAAAGTC
1 AATTAAATTCAACTTAATTTT-AAAGTC
3950945 AA-T-AATTCAGACTTAAT
1 AATTAAATTCA-ACTTAAT
3950962 GAACCTAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 6 0.15
27 15 0.38
28 8 0.20
29 1 0.03
30 10 0.25
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.39
Consensus pattern (27 bp):
AATTAAATTCAACTTAATTTTAAAGTC
Found at i:3960819 original size:13 final size:12
Alignment explanation
Indices: 3960801--3960845 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 12
3960791 CCAAATAATC
3960801 ATTTTTTTCTCTT
1 ATTTTTTT-TCTT
3960814 ATTTTTCTTTCTT
1 ATTTTT-TTTCTT
3960827 ATTTATTTTTCTT
1 ATTT-TTTTTCTT
3960840 ACTTTT
1 A-TTTT
3960846 CATTCCTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 22 0.76
14 7 0.24
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTTTTCTT
Found at i:3962339 original size:50 final size:51
Alignment explanation
Indices: 3962251--3962352 Score: 161
Period size: 50 Copynumber: 2.0 Consensus size: 51
3962241 TTCACACTCC
3962251 ACACTCCGCAGTTTCTTCTTTATTAAGTAATATTTATATTTGCATTAGGGTCT
1 ACACTCCGCAGTTTCTTC--TATTAAGTAATATTTATATTTGCATTAGGGTCT
* *
3962304 ACACTCCGCAGTTTCTTC-ATTACGTAATATTTATATTTGCATTATGGTC
1 ACACTCCGCAGTTTCTTCTATTAAGTAATATTTATATTTGCATTAGGGTC
3962353 CACAACCGCA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 29 0.62
53 18 0.38
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.44
Consensus pattern (51 bp):
ACACTCCGCAGTTTCTTCTATTAAGTAATATTTATATTTGCATTAGGGTCT
Found at i:3966212 original size:16 final size:16
Alignment explanation
Indices: 3966191--3966221 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3966181 TATATTTTAA
3966191 TATATTATATTAATAT
1 TATATTATATTAATAT
*
3966207 TATATTATGTTAATA
1 TATATTATATTAATA
3966222 AAATAATAAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:3966318 original size:12 final size:12
Alignment explanation
Indices: 3966301--3966331 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3966291 GAAGCAGGGG
3966301 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
3966313 AGAAAAAGGGAA
1 AGAAAAAGAGAA
3966325 AGAAAAA
1 AGAAAAA
3966332 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:3968653 original size:33 final size:32
Alignment explanation
Indices: 3968616--3968711 Score: 104
Period size: 33 Copynumber: 2.9 Consensus size: 32
3968606 AGAATATGGA
3968616 GGTGGATATGGGCCGGGAGGAGTAGAGTACGA-C
1 GGTGGATA-GGGCCGGGAGGAGTAGAGTAC-ATC
* * * *
3968649 GGTGGATACGGCTCTGGAGGAGTTGAGTACATG
1 GGTGGATAGGGC-CGGGAGGAGTAGAGTACATC
*
3968682 GGTGGATACGGGCCGGAAGGAGTAGAGTAC
1 GGTGGATA-GGGCCGGGAGGAGTAGAGTAC
3968712 TGAGATAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
32 4 0.08
33 45 0.87
34 3 0.06
ACGTcount: A:0.24, C:0.12, G:0.46, T:0.18
Consensus pattern (32 bp):
GGTGGATAGGGCCGGGAGGAGTAGAGTACATC
Found at i:3972599 original size:46 final size:45
Alignment explanation
Indices: 3972545--3972852 Score: 384
Period size: 46 Copynumber: 6.7 Consensus size: 45
3972535 ATAGAAAATG
* *
3972545 TGTAAGACCATGGTTGAAAGATACCATGGAAACCTGATATGAAACA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA-A
*
3972591 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA-A
* * *
3972637 CGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA-A
* *
3972683 TGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA-A
* ** *
3972729 TGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGGAAA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* *
3972774 TGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-GAAAA
1 TG--TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* * *
3972820 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 T--GTAAGACCATGGTTGAAAGATACCATGGCA
3972853 TCATGTCGAA
Statistics
Matches: 239, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
45 2 0.01
46 202 0.85
47 34 0.14
48 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (45 bp):
TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
Found at i:3974337 original size:22 final size:23
Alignment explanation
Indices: 3974311--3974374 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
3974301 TCAACATTTT
*
3974311 AATAAATTA-ATAAAAATTATCA
1 AATAAATTATATAAAAATTATAA
*
3974333 AATAAA-TATATAATAA-TATAA
1 AATAAATTATATAAAAATTATAA
*
3974354 AATTACATTATATAAAAATTA
1 AA-TAAATTATATAAAAATTA
3974375 CATTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 8 0.24
22 15 0.44
23 9 0.26
24 2 0.06
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
AATAAATTATATAAAAATTATAA
Found at i:3974368 original size:15 final size:16
Alignment explanation
Indices: 3974348--3974379 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3974338 ATATATAATA
3974348 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
3974363 ATATAAAAATTACATT
1 ATATAAAAATTACATT
3974379 A
1 A
3974380 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:3974662 original size:115 final size:115
Alignment explanation
Indices: 3974437--3975228 Score: 1371
Period size: 115 Copynumber: 6.9 Consensus size: 115
3974427 ATACTAGCAC
* * *
3974437 AAAATAACTATAAAATTATTTTTTT-AAATACATTACTTAAAAAAAATCACAATATACACTAATA
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTAC-TAAAAAAAATCAC-A-ATACACTAAT-
*
3974501 CACACTAAACCACTAAACACTAATAA--TATATAACCTAATCTTAAATTACTAAT
62 -ACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
3974554 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
3974619 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
3974669 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
3974734 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
3974784 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
3974849 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
*
3974899 AAAATAGCTATAAAAATATTTTTTTTAAATATATTACTAAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
3974964 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* * *
3975014 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACT-AAAAAAATTACAATACGCTAATATAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
*
3975078 TAAACCACTAAACACTAACAATTTATATAATCTAATCTTAAATTACTAAT
66 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
*
3975128 AAAATAGCTATAAAATTATTATTTTT-AAATATATTACT-AAAAAAATCACAATACACTAATACA
1 AAAATAGCTATAAAAATATT-TTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACA
* * *
3975191 TTAAACTACTAAACACTAACAATTTATATAACCAAATC
65 CTAAACCACTAAACACTAACAATTTATATAACCTAATC
3975229 AACTATAATT
Statistics
Matches: 653, Mismatches: 18, Indels: 11
0.96 0.03 0.02
Matches are distributed among these distances:
113 24 0.04
114 159 0.24
115 423 0.65
116 1 0.00
117 36 0.06
118 10 0.02
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (115 bp):
AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
Found at i:3976210 original size:16 final size:16
Alignment explanation
Indices: 3976189--3976219 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3976179 AAAGTAAAAC
3976189 AAAAGAAAAAGAGAAA
1 AAAAGAAAAAGAGAAA
*
3976205 AAAAGAAACAGAGAA
1 AAAAGAAAAAGAGAA
3976220 GGAGACGAAA
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:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAGAAA
Found at i:3977820 original size:3 final size:3
Alignment explanation
Indices: 3977812--3977850 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
3977802 TTACAATTAC
*
3977812 CTT CTT CTT CTT CTT CTT CTT CCTT CTT CTT CTC CTT CT
1 CTT CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CT
3977851 CCTTTCTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:3977857 original size:19 final size:19
Alignment explanation
Indices: 3977815--3977854 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
3977805 CAATTACCTT
*
3977815 CTTCTTCTTCTTCTTCTTC
1 CTTCTTCTTCTCCTTCTTC
3977834 CTTCTTCTTCTCCTTC-TC
1 CTTCTTCTTCTCCTTCTTC
3977852 CTT
1 CTT
3977855 TCTCTCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (19 bp):
CTTCTTCTTCTCCTTCTTC
Found at i:3989068 original size:3 final size:3
Alignment explanation
Indices: 3989060--3989092 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3989050 GAAACAAAAG
3989060 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3989093 GGACTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3990610 original size:3 final size:3
Alignment explanation
Indices: 3990602--3990628 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3990592 ACAAGCATTA
3990602 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
3990629 TCTATACAAA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3991296 original size:33 final size:33
Alignment explanation
Indices: 3991258--3991334 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
3991248 TATTTTTAAC
*
3991258 AATAATAATAAAATAAG-TGTTATATAATATCTA
1 AATAATAATAAAATAAGAT-TTATACAATATCTA
* *
3991291 AATAATTACAAAATAAGATTTATACAATATCTA
1 AATAATAATAAAATAAGATTTATACAATATCTA
3991324 AATAATAATAA
1 AATAATAATAA
3991335 CACAATATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 37 0.97
34 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (33 bp):
AATAATAATAAAATAAGATTTATACAATATCTA
Found at i:3994209 original size:22 final size:22
Alignment explanation
Indices: 3994184--3994226 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3994174 TTTCCCTATT
3994184 TTACTACCATTTTGTTATTATG
1 TTACTACCATTTTGTTATTATG
* *
3994206 TTACTACTATTTTGTTGTTAT
1 TTACTACCATTTTGTTATTAT
3994227 TGCATGGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (22 bp):
TTACTACCATTTTGTTATTATG
Found at i:4007899 original size:31 final size:32
Alignment explanation
Indices: 4007850--4007913 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 32
4007840 ATATTAAATA
4007850 AGATATTTATTAATTAAATA-ATT-ATATTATG
1 AGATATTTATTAATTAAATATATTGA-ATTATG
*
4007881 AGATTTTTATGTAA-TAAATATATTGAATTATG
1 AGATATTTAT-TAATTAAATATATTGAATTATG
4007913 A
1 A
4007914 CAAATGTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 15 0.52
32 13 0.45
33 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTGAATTATG
Found at i:4027172 original size:3 final size:3
Alignment explanation
Indices: 4027157--4027228 Score: 67
Period size: 3 Copynumber: 24.3 Consensus size: 3
4027147 AATACTAACG
* ** * *
4027157 ATA ATA GTA ATA ATA ATA ACC ATA ATA ATA ATA GTA A-A CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
4027204 ATA TTTA A-A ATA ATA ATA ATA ATA A
1 ATA -ATA ATA ATA ATA ATA ATA ATA A
4027229 CATAAAATTG
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 3 0.06
3 49 0.91
4 2 0.04
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4027285 original size:29 final size:28
Alignment explanation
Indices: 4027241--4027330 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 28
4027231 TAAAATTGCT
4027241 AAAATAT-GGGCTAAATCGAAATAAAACA
1 AAAATATAGGGCTAAATCGAAATAAAA-A
* * *
4027269 AAAATATAGGGCGAAATTGAAAGAAAAA
1 AAAATATAGGGCTAAATCGAAATAAAAA
* *
4027297 TAAAATAAAAGGGACTAAATCAAAATAAAAA
1 -AAAAT-ATAGGG-CTAAATCGAAATAAAAA
4027328 AAA
1 AAA
4027331 GAAACTGGGC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
28 8 0.16
29 21 0.42
30 8 0.16
31 13 0.26
ACGTcount: A:0.63, C:0.07, G:0.14, T:0.16
Consensus pattern (28 bp):
AAAATATAGGGCTAAATCGAAATAAAAA
Found at i:4029451 original size:7 final size:7
Alignment explanation
Indices: 4029441--4029472 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
4029431 ATTTTAAATT
*
4029441 TTTTTAA
1 TTTTGAA
4029448 TTTTGAA
1 TTTTGAA
4029455 TTTTGAA
1 TTTTGAA
4029462 TTTTGAA
1 TTTTGAA
4029469 TTTT
1 TTTT
4029473 AAGAATCAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (7 bp):
TTTTGAA
Found at i:4030184 original size:21 final size:23
Alignment explanation
Indices: 4030143--4030185 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
4030133 TAGACAAAGT
4030143 TTATTATATATTATAGTTAAAATA
1 TTATTATATATTATAG-TAAAATA
4030167 TTATTATATA-TATA-TAAAA
1 TTATTATATATTATAGTAAAA
4030186 GGGTTAGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
23 4 0.21
24 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTATTATATATTATAGTAAAATA
Found at i:4030552 original size:27 final size:26
Alignment explanation
Indices: 4030473--4030566 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
4030463 AATCTTGAAG
*
4030473 TAAT-TAATATAAATTATTTTTAAAATT
1 TAATATAATATAAATTATATTT--AATT
* **
4030500 AAATATAATAATAAGATT-TAGATAATT
1 TAATATAAT-ATAA-ATTATATTTAATT
*
4030527 TAATATAATCATAAATTATATTTAATA
1 TAATATAAT-ATAAATTATATTTAATT
*
4030554 TAATTTAATATAA
1 TAATATAATATAA
4030567 TAATACATGA
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
26 7 0.13
27 33 0.62
28 4 0.08
29 6 0.11
30 3 0.06
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (26 bp):
TAATATAATATAAATTATATTTAATT
Found at i:4030561 original size:10 final size:10
Alignment explanation
Indices: 4030521--4030567 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
4030511 TAAGATTTAG
4030521 ATAATTTAAT
1 ATAATTTAAT
*
4030531 ATAATCATAA-
1 ATAAT-TTAAT
4030541 ATTATATTTAAT
1 A-TA-ATTTAAT
4030553 ATAATTTAAT
1 ATAATTTAAT
4030563 ATAAT
1 ATAAT
4030568 AATACATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 18 0.58
11 10 0.32
12 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAATTTAAT
Found at i:4030597 original size:33 final size:34
Alignment explanation
Indices: 4030531--4030614 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 34
4030521 ATAATTTAAT
*
4030531 ATAAT-CATAAATTATATTTAATATAATTTAATATA
1 ATAATACATAAA--ATATTTAATATAATTCAATATA
*
4030566 ATAATACATGAAATATTTAA-ATAATTCAATATA
1 ATAATACATAAAATATTTAATATAATTCAATATA
* *
4030599 ATCATATATAAAATAT
1 ATAATACATAAAATAT
4030615 AAATCAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
33 25 0.58
34 8 0.19
35 5 0.12
36 5 0.12
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (34 bp):
ATAATACATAAAATATTTAATATAATTCAATATA
Found at i:4034630 original size:69 final size:68
Alignment explanation
Indices: 4034518--4034651 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 68
4034508 GACTTTGAAA
* * *
4034518 GCAAGGAAGATAATGGTCCGGTTGCAAAGATAGTAAAGTTAAA-TTATTATTATTTTTAGAAAAA
1 GCAAGGAAAATAATGGTCCGGTTGCAAAGAGAGTAAAGGTAAATTTATT-TT-TTTTTAGAAAAA
4034582 CAAAC
64 CAAAC
4034587 GCAAGGAAAATAATGGTCCGGTTGCAAAGAGAGTAAAGGTAAATTTATTTTTTTTTAGAAAAACA
1 GCAAGGAAAATAATGGTCCGGTTGCAAAGAGAGTAAAGGTAAATTTATTTTTTTTTAGAAAAACA
4034652 GCTGGCTTGC
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
68 14 0.23
69 42 0.69
70 5 0.08
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (68 bp):
GCAAGGAAAATAATGGTCCGGTTGCAAAGAGAGTAAAGGTAAATTTATTTTTTTTTAGAAAAACA
AAC
Done.