Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold109
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: 1855911
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.34
Warning! 69956 characters in sequence are not A, C, G, or T
File 10 of 13
Found at i:1324097 original size:17 final size:17
Alignment explanation
Indices: 1324042--1324098 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
1324032 AAAAAATATG
*
1324042 TATAATAAATAATTAAA
1 TATATTAAATAATTAAA
* **
1324059 AATTATTAAATTAA-TATT
1 TA-TATTAAA-TAATTAAA
1324077 TATATTAAATAATTAAA
1 TATATTAAATAATTAAA
1324094 TATAT
1 TATAT
1324099 ATTAAAATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 3 0.10
17 15 0.50
18 9 0.30
19 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATATTAAATAATTAAA
Found at i:1324101 original size:75 final size:72
Alignment explanation
Indices: 1324022--1324182 Score: 161
Period size: 74 Copynumber: 2.2 Consensus size: 72
1324012 AACTATTAAA
* *
1324022 ATATTAAATTAAAAAATAT-GTATAATAAATAATTAAAAATTA-TTAAATTAATATTTATATTAA
1 ATATTAAATTAAAAAATATGGTA-AAT-AATAACTAAAAATTATTTAAATT-ATATTTAAATTAA
*
1324085 ATAATTAAATAT
63 A-AAATAAAT-T
****
1324097 ATATTAAAATT-ATGTTTATGGTAAATAATAACTAAAAATTATTTAAATTATATTTAAATTAAAA
1 ATATT-AAATTAAAAAATATGGTAAATAATAACTAAAAATTATTTAAATTATATTTAAATTAAAA
1324161 AATAAATT
65 AATAAATT
*
1324169 A-A-TAATTTAAAAAA
1 ATATTAAATTAAAAAA
1324183 ATAAAAAATT
Statistics
Matches: 70, Mismatches: 12, Indels: 13
0.74 0.13 0.14
Matches are distributed among these distances:
69 4 0.06
70 2 0.03
71 1 0.01
72 2 0.03
73 7 0.10
74 27 0.39
75 19 0.27
76 8 0.11
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (72 bp):
ATATTAAATTAAAAAATATGGTAAATAATAACTAAAAATTATTTAAATTATATTTAAATTAAAAA
ATAAATT
Found at i:1324107 original size:17 final size:17
Alignment explanation
Indices: 1324052--1324108 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
1324042 TATAATAAAT
*
1324052 AATTAAAAAT-TATT-A
1 AATTAAATATATATTAA
*
1324067 AATTAATATTTATATTAAA
1 AATTAA-ATATATATT-AA
1324086 TAATTAAATATATATTAA
1 -AATTAAATATATATTAA
1324104 AATTA
1 AATTA
1324109 TGTTTATGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 6 0.18
16 2 0.06
17 9 0.26
18 2 0.06
19 9 0.26
20 6 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAATATATATTAA
Found at i:1324108 original size:25 final size:25
Alignment explanation
Indices: 1324058--1324108 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
1324048 AAATAATTAA
* * *
1324058 AAATTATTAAATTAATATTTATATT
1 AAATAATTAAATTAATATTAAAATT
1324083 AAATAATTAAA-TATATATTAAAATT
1 AAATAATTAAATTA-ATATTAAAATT
1324108 A
1 A
1324109 TGTTTATGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AAATAATTAAATTAATATTAAAATT
Found at i:1324184 original size:17 final size:17
Alignment explanation
Indices: 1324159--1324207 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1324149 TTTAAATTAA
* *
1324159 AAAATAAATTAATAATTT
1 AAAA-AAATTAAAAATTG
*
1324177 AAAAAAATAAAAAATTG
1 AAAAAAATTAAAAATTG
*
1324194 AATAAAATTAAAAA
1 AAAAAAATTAAAAA
1324208 AAAAAAGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAAAAATTAAAAATTG
Found at i:1324197 original size:25 final size:24
Alignment explanation
Indices: 1324157--1324213 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 24
1324147 TATTTAAATT
* *
1324157 AAAAAATAAATTAAT-AATTTAAA
1 AAAAAAAAAATTAATAAAATTAAA
1324180 AAAATAAAAAATTGAATAAAATTAAA
1 AAAA-AAAAAATT-AATAAAATTAAA
1324206 AAAAAAAA
1 AAAAAAAA
1324214 GAAAAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.14
24 7 0.24
25 7 0.24
26 11 0.38
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (24 bp):
AAAAAAAAAATTAATAAAATTAAA
Found at i:1326748 original size:34 final size:36
Alignment explanation
Indices: 1326705--1326776 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
1326695 TAAATTAGTC
1326705 CAAATATATATA-A-ATATATAAAGTGATAGTTTCT
1 CAAATATATATATATATATATAAAGTGATAGTTTCT
*
1326739 CAAATATATATATATATATATAAAGTGGTAGTTTCT
1 CAAATATATATATATATATATAAAGTGATAGTTTCT
1326775 CA
1 CA
1326777 CATACTTACC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 12 0.34
35 1 0.03
36 22 0.63
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (36 bp):
CAAATATATATATATATATATAAAGTGATAGTTTCT
Found at i:1328188 original size:23 final size:22
Alignment explanation
Indices: 1328162--1328229 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
1328152 TTTATAAAAA
1328162 ATTATATTTAAATAAAATAATAT
1 ATTATATTTAAATAAAA-AATAT
*
1328185 A-T-TAGTTAAATAAAAAATAT
1 ATTATATTTAAATAAAAAATAT
* *
1328205 ATAATTTTTTAAATAAAAAGATAT
1 ATTA-TATTTAAATAAAAA-ATAT
1328229 A
1 A
1328230 ATTTTTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
20 6 0.16
21 12 0.32
22 1 0.03
23 13 0.35
24 5 0.14
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (22 bp):
ATTATATTTAAATAAAAAATAT
Found at i:1328205 original size:20 final size:20
Alignment explanation
Indices: 1328155--1328206 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
1328145 AATATTTTTT
*
1328155 ATAAAAAAT-TA-TATTTAA
1 ATAAAAAATATATTAGTTAA
1328173 ATAAAATAATATATTAGTTAA
1 ATAAAA-AATATATTAGTTAA
1328194 ATAAAAAATATAT
1 ATAAAAAATATAT
1328207 AATTTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 6 0.20
19 3 0.10
20 9 0.30
21 12 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
ATAAAAAATATATTAGTTAA
Found at i:1328235 original size:23 final size:23
Alignment explanation
Indices: 1328168--1328235 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 23
1328158 AAAAATTATA
* *
1328168 TTTAAATAAAATA-ATAT-ATTA
1 TTTAAATAAAAAATATATAATTT
*
1328189 GTTAAATAAAAAATATATAATTT
1 TTTAAATAAAAAATATATAATTT
*
1328212 TTTAAAT-AAAAAGATATAATTT
1 TTTAAATAAAAAATATATAATTT
1328234 TT
1 TT
1328236 ATAATCAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
21 11 0.28
22 20 0.50
23 9 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (23 bp):
TTTAAATAAAAAATATATAATTT
Found at i:1333651 original size:2 final size:2
Alignment explanation
Indices: 1333644--1333675 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1333634 GGAGCTGCCA
1333644 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
1333676 TTATGTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1333967 original size:37 final size:33
Alignment explanation
Indices: 1333894--1333968 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 33
1333884 TTTTAAATAC
*
1333894 TTAAATTTAATATTTTTATAATTAATATTAATT
1 TTAAATTTAATATTTTTATAATTAATATTAAAT
* *
1333927 TTAAATATTAAATATTTTTATTTTATTAATCTTAAAT
1 TTAAAT-TT-AATATTTTTA--TAATTAATATTAAAT
1333964 TTAAA
1 TTAAA
1333969 AATTTTTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 6 0.17
34 2 0.06
35 10 0.29
37 17 0.49
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (33 bp):
TTAAATTTAATATTTTTATAATTAATATTAAAT
Found at i:1335372 original size:2 final size:2
Alignment explanation
Indices: 1335359--1335393 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1335349 AGCCATCTCC
*
1335359 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1335394 AGTGATAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1340047 original size:22 final size:21
Alignment explanation
Indices: 1339995--1340050 Score: 94
Period size: 21 Copynumber: 2.6 Consensus size: 21
1339985 ATACAAGCTT
1339995 CATTGTATCGATACTCATTGC
1 CATTGTATCGATACTCATTGC
1340016 CATTGTATCGATACTCATTGC
1 CATTGTATCGATACTCATTGC
*
1340037 CTTATGTATCGATA
1 CAT-TGTATCGATA
1340051 TATAATGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 23 0.70
22 10 0.30
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.39
Consensus pattern (21 bp):
CATTGTATCGATACTCATTGC
Found at i:1342588 original size:20 final size:21
Alignment explanation
Indices: 1342549--1342599 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
1342539 TTCTACAATT
*
1342549 TGTATCGATACATTAGTG-AA
1 TGTATCGATACATGAGTGAAA
**
1342569 TGTATCGATACATGCTTGAAA
1 TGTATCGATACATGAGTGAAA
*
1342590 TGTATTGATA
1 TGTATCGATA
1342600 TAGGACCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (21 bp):
TGTATCGATACATGAGTGAAA
Found at i:1342671 original size:20 final size:20
Alignment explanation
Indices: 1342648--1342722 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
1342638 AAATGTATAT
1342648 ATACATTTTTTATTGTATCG
1 ATACATTTTTTATTGTATCG
1342668 ATACATTTTGGGTTTGATCTAATGTATCG
1 ATACA-TTT---TTT-A--T--TGTATCG
1342697 ATACATTTTTTATTGTATCG
1 ATACATTTTTTATTGTATCG
1342717 ATACAT
1 ATACAT
1342723 CCAACTAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
20 18 0.39
21 3 0.07
22 1 0.02
24 4 0.09
25 4 0.09
27 1 0.02
28 3 0.07
29 12 0.26
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (20 bp):
ATACATTTTTTATTGTATCG
Found at i:1346069 original size:13 final size:13
Alignment explanation
Indices: 1346051--1346076 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1346041 AAATAAATAA
1346051 ATTTAGTGGCATT
1 ATTTAGTGGCATT
1346064 ATTTAGTGGCATT
1 ATTTAGTGGCATT
1346077 TGTGGTAAAA
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:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
ATTTAGTGGCATT
Found at i:1352040 original size:22 final size:22
Alignment explanation
Indices: 1352012--1352053 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1352002 AAAATTAAAA
1352012 ATATTTTGAT-ATTAATATTTTC
1 ATATTTTGATAATTAA-ATTTTC
*
1352034 ATATTTTTATAATTAAATTT
1 ATATTTTGATAATTAAATTT
1352054 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
ATATTTTGATAATTAAATTTTC
Found at i:1352233 original size:27 final size:26
Alignment explanation
Indices: 1352171--1352260 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 26
1352161 TTTTTATTTG
1352171 AAATAAAAGCTTATTTAGATATAAATTAAA
1 AAATAAAA-CTTATTTA-A-ATAAA-TAAA
**
1352201 GTATAAGAACTTATTTAAATAAATAAA
1 AAATAA-AACTTATTTAAATAAATAAA
*
1352228 AAATAAAAAATTATTTAAATAAAATAATA
1 AAAT-AAAACTTATTTAAAT-AAATAA-A
1352257 AAAT
1 AAAT
1352261 TTAAAAGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
27 18 0.35
28 13 0.25
29 6 0.12
30 12 0.24
31 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.32
Consensus pattern (26 bp):
AAATAAAACTTATTTAAATAAATAAA
Found at i:1352266 original size:31 final size:27
Alignment explanation
Indices: 1352211--1352283 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 27
1352201 GTATAAGAAC
1352211 TTATTTAAAT-AAATAAAAAATAAAAAA
1 TTATTTAAATAAAATAAAAAAT-AAAAA
*
1352238 TTATTTAAATAAAATAATAAAATTTAAAAG
1 TTATTTAAATAAAATAA-AAAA--TAAAAA
*
1352268 TTTTTTAAATTAAAAT
1 TTATTTAAA-TAAAAT
1352284 TGAAATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 10 0.26
28 6 0.15
29 4 0.10
30 12 0.31
31 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (27 bp):
TTATTTAAATAAAATAAAAAATAAAAA
Found at i:1356214 original size:59 final size:59
Alignment explanation
Indices: 1356137--1356369 Score: 385
Period size: 59 Copynumber: 3.9 Consensus size: 59
1356127 TCTTGATCTA
* * * * * * *
1356137 AGTGACGTGGCGTTACTTAGTATTTGAATTTGGGTCACCTTGGTGGCGATCTGAGTTTA
1 AGTGACTTAGCGTCACTTAGTGTTTGAATTTGGGTCGCCTTGGTGGCGATCTGAGGTTG
*
1356196 AATGACTTAGCGTCACTTAGTGTTTGAATTTGGGTCGCCTTGGTGGCGATCTGAGGTTG
1 AGTGACTTAGCGTCACTTAGTGTTTGAATTTGGGTCGCCTTGGTGGCGATCTGAGGTTG
1356255 AGTGACTTAGCGTCACTTAGTGTTTGAATTTGGGTCGCCTTGGTGGCGATCTGAGGTTG
1 AGTGACTTAGCGTCACTTAGTGTTTGAATTTGGGTCGCCTTGGTGGCGATCTGAGGTTG
*
1356314 AGTGACTTAGCGTCACTTAGTGTTTGAATTTGGGTCGCCTTGGTGGCGATTTGAGG
1 AGTGACTTAGCGTCACTTAGTGTTTGAATTTGGGTCGCCTTGGTGGCGATCTGAGG
1356370 GGGAGTCGTA
Statistics
Matches: 164, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 164 1.00
ACGTcount: A:0.17, C:0.15, G:0.33, T:0.36
Consensus pattern (59 bp):
AGTGACTTAGCGTCACTTAGTGTTTGAATTTGGGTCGCCTTGGTGGCGATCTGAGGTTG
Found at i:1363489 original size:28 final size:28
Alignment explanation
Indices: 1363408--1363489 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1363398 TTTTGGAGAT
*
1363408 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
1363436 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
1363464 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
1363490 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:1363632 original size:51 final size:51
Alignment explanation
Indices: 1363472--1363642 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
1363462 GAAATAACGA
* * *
1363472 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
1363524 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
1363577 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAATTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
*
1363628 GGTTGAAGTATCCCC
1 GGTTGGAGTATCCCC
1363643 TCAGAAATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 38 0.40
52 16 0.17
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1366170 original size:20 final size:20
Alignment explanation
Indices: 1366143--1366197 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1366133 TAAAATTTCC
*
1366143 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
1366163 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
1366183 AAATGTATCGATACA
1 AAATGTATCGATACA
1366198 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:1366241 original size:19 final size:18
Alignment explanation
Indices: 1366217--1366284 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1366207 CAGTAGCTAA
1366217 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1366236 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1366251 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1366268 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1366285 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1366257 original size:13 final size:13
Alignment explanation
Indices: 1366239--1366263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1366229 ACAATACTTA
1366239 TGTATCGATACAT
1 TGTATCGATACAT
1366252 TGTATCGATACA
1 TGTATCGATACA
1366264 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1366261 original size:32 final size:32
Alignment explanation
Indices: 1366220--1366282 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1366210 TAGCTAATTA
*
1366220 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1366252 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1366283 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1366363 original size:20 final size:21
Alignment explanation
Indices: 1366320--1366397 Score: 149
Period size: 21 Copynumber: 3.8 Consensus size: 21
1366310 GTTGGGACCC
1366320 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTAGAA
1366341 TGTATCGATACATTTGT-GAA
1 TGTATCGATACATTTGTAGAA
1366361 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTAGAA
1366382 TGTATCGATACATTTG
1 TGTATCGATACATTTG
1366398 GAATTTTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
20 20 0.36
21 36 0.64
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTGTAGAA
Found at i:1366377 original size:41 final size:40
Alignment explanation
Indices: 1366320--1366401 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 40
1366310 GTTGGGACCC
1366320 TGTATCGATACATTTGTAGAATGTATCGATACATTTGTGAA
1 TGTATCGATACATTTGTAGAATGTATCGATACATTTG-GAA
1366361 TGTATCGATACATTTGTAGAATGTATCGATACATTTGGAA
1 TGTATCGATACATTTGTAGAATGTATCGATACATTTGGAA
1366401 T
1 T
1366402 TTTTTTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.10
41 37 0.90
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (40 bp):
TGTATCGATACATTTGTAGAATGTATCGATACATTTGGAA
Found at i:1367068 original size:55 final size:55
Alignment explanation
Indices: 1366973--1367658 Score: 993
Period size: 55 Copynumber: 12.3 Consensus size: 55
1366963 ATAAAGTGTA
* * * * * * *
1366973 TCCTTCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1367028 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * * * **
1367083 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TT-----TAAGAGGTG
** *
1367144 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
1367199 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1367254 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
1367310 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1367365 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
1367421 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1367476 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
1367531 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1367586 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGACGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1367641 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1367659 AAAAAGCGGA
Statistics
Matches: 574, Mismatches: 44, Indels: 26
0.89 0.07 0.04
Matches are distributed among these distances:
54 8 0.01
55 409 0.71
56 111 0.19
60 2 0.00
61 44 0.08
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:1367107 original size:26 final size:26
Alignment explanation
Indices: 1367019--1367108 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
1367009 GTGTGGGCTT
* *
1367019 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
1367045 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
1367072 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
1367100 TGAAAGGTG
1 TGAAAGGTG
1367109 CCACCAACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
25 3 0.06
26 16 0.34
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:1367326 original size:111 final size:110
Alignment explanation
Indices: 1366998--1367658 Score: 1022
Period size: 111 Copynumber: 5.9 Consensus size: 110
1366988 AGTAAAAAGT
* *
1366998 GCCACCAACTCGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC
1 GCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC
* * *
1367062 TTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGAAAGGT
65 TTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAGGC
* * * ** **
1367108 GCCACCAACTTGTGTAGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCA
1 GCCACCAACTTGTGTGGGC-TT-----TAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
*
1367173 CCAACCTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAGGC
60 CCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAGGC
1367224 GCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAAC
1 GCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAAC
*
1367289 TTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTGGAAGGC
65 TTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAGGC
1367335 GCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAAC
1 GCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAAC
*
1367400 TTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTGGAAGGC
65 TTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAGGC
*
1367446 GCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAAC
1 GCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAAC
***
1367510 TTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAAT
65 TTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGGAAGGC
1367556 GCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACT
1 GCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACT
*
1367621 TGTGTGGGCTTTAAGACGTGTCCTGCTCTTTGAGGACT
66 TGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT
1367659 AAAAAGCGGA
Statistics
Matches: 514, Mismatches: 26, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
109 6 0.01
110 183 0.36
111 225 0.44
115 4 0.01
116 96 0.19
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (110 bp):
GCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACT
TGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAGGC
Found at i:1368694 original size:16 final size:14
Alignment explanation
Indices: 1368625--1368703 Score: 85
Period size: 14 Copynumber: 5.8 Consensus size: 14
1368615 AAGCAGGTTC
*
1368625 TTTTTCTTTT-CTCT
1 TTTTTTTTTTGCT-T
*
1368639 TTTTTTCTTTG-TT
1 TTTTTTTTTTGCTT
*
1368652 TTGTTTTTTTG--T
1 TTTTTTTTTTGCTT
1368664 TTTTTTTTTTGCTT
1 TTTTTTTTTTGCTT
1368678 TTTTTTTTTTGCTCT
1 TTTTTTTTTTGCT-T
1368693 TTTTTTTTTTG
1 TTTTTTTTTTG
1368704 AAGAGAAGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
12 11 0.20
13 10 0.18
14 23 0.41
15 12 0.21
ACGTcount: A:0.00, C:0.09, G:0.08, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTTGCTT
Found at i:1378672 original size:28 final size:27
Alignment explanation
Indices: 1378633--1378713 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 27
1378623 TAATGTTTTG
*
1378633 GAGATAATAACGAGGTTGGAGTGTTCCCTC
1 GAGA-AATAACGAGGTTGGAGT-ATCCC-C
* *
1378663 G-GAAGTAACGGGGTTGGAGTATCCCC
1 GAGAAATAACGAGGTTGGAGTATCCCC
1378689 GATGAAATAACGAGGTTGGAGTATC
1 GA-GAAATAACGAGGTTGGAGTATC
1378714 ATCGATTGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 4 0.09
28 35 0.80
29 2 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.23
Consensus pattern (27 bp):
GAGAAATAACGAGGTTGGAGTATCCCC
Found at i:1378862 original size:51 final size:51
Alignment explanation
Indices: 1378702--1378872 Score: 180
Period size: 51 Copynumber: 3.3 Consensus size: 51
1378692 GAAATAACGA
** * *
1378702 GGTTGGAGTATCATCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
1378754 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
1378807 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
*
1378858 GGTTGAAGTATCCCC
1 GGTTGGAGTATCCCC
1378873 TCAGAAATAA
Statistics
Matches: 95, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
51 38 0.40
52 15 0.16
53 32 0.34
54 10 0.11
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1381400 original size:20 final size:20
Alignment explanation
Indices: 1381373--1381427 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1381363 TAAAATTTCC
*
1381373 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
1381393 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
1381413 AAATGTATCGATACA
1 AAATGTATCGATACA
1381428 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:1381471 original size:19 final size:18
Alignment explanation
Indices: 1381447--1381514 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1381437 CAGTAGCTAA
1381447 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1381466 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1381481 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1381498 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1381515 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1381487 original size:13 final size:13
Alignment explanation
Indices: 1381469--1381493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1381459 ACAATACTTA
1381469 TGTATCGATACAT
1 TGTATCGATACAT
1381482 TGTATCGATACA
1 TGTATCGATACA
1381494 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1381491 original size:32 final size:32
Alignment explanation
Indices: 1381450--1381512 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1381440 TAGCTAATTA
*
1381450 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1381482 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1381513 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1381576 original size:21 final size:22
Alignment explanation
Indices: 1381550--1381607 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
1381540 GTTGGGACCC
*
1381550 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGTACAAA
*
1381571 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTGTACAAA
1381592 TGTATCGATACATTTG
1 TGTATCGATACATTTG
1381608 GAATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 26 0.81
22 2 0.06
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (22 bp):
TGTATCGATACATTTGTACAAA
Found at i:1384798 original size:52 final size:52
Alignment explanation
Indices: 1384720--1384848 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
1384710 CGAAATATGA
*
1384720 AAATTGGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
1384772 AAATTTTCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
1384824 AAATTTGCCTGCATATCTCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1384849 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1384859 original size:52 final size:52
Alignment explanation
Indices: 1384720--1384868 Score: 183
Period size: 52 Copynumber: 2.9 Consensus size: 52
1384710 CGAAATATGA
* * **
1384720 AAATTGGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATATATCGATACATAACATAGTGTATCGATACATCTGGGC
* * * **
1384772 AAATTTTCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATATATCGATACATAACATAGTGTATCGATACATCTGGGC
* *
1384824 AAATTTGCCTGCATATCTCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATATATCGATACATAACAT-AGTGTATCGATACA
1384869 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATATATCGATACATAACATAGTGTATCGATACATCTGGGC
Found at i:1386718 original size:79 final size:79
Alignment explanation
Indices: 1386635--1387430 Score: 671
Period size: 79 Copynumber: 10.1 Consensus size: 79
1386625 ACCTCCTCAG
* * * * *
1386635 AAATAATGGGGTTGGAGTATCCCTAATGATGGAAAATCGATGTTTTAGAAATAAAATCGGGGTTA
1 AAATAACGGGGTTGGAGTATCCCTAATGATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTA
*
1386700 GAGTATCCTCTCGA
66 GAGTATCCCCTCGA
* * * * * * * *
1386714 AAATAATGGGATTGGAGTATCCCCAAT-AGTAAAAAATCGGTATTTTGGAAATAAAACCAGGGTT
1 AAATAACGGGGTTGGAGTATCCCTAATGA-TGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTT
1386778 AGAGTATCCCCTCGA
65 AGAGTATCCCCTCGA
* * * * * * * *
1386793 AAATAACGGGGTTAGAGTATTCCTGATTATGAAAATTTGGTATTTTAGAAATAAGATCGGGGTTA
1 AAATAACGGGGTTGGAGTATCCCTAATGATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTA
*
1386858 GAGTATCCTCTCGA
66 GAGTATCCCCTCGA
* * * * **
1386872 AAATAACAGGGTTGGAGTAT-CCTCGATTATGAAAATTTGGTGTTTT-GAAAATAAAACCGAAGT
1 AAATAACGGGGTTGGAGTATCCCT-AATGATGAAAAATTGGTGTTTTAG-AAATAAAACCGGGGT
* *** *
1386935 TGGAGTATTTTCTCAA
64 TAGAGTATCCCCTCGA
* * * * *
1386951 AAATAACGGGGTTAGAGTATCCCTGATTG-TGAAAAATTTGTGTTTTAAAAATAAAACCAGGGTT
1 AAATAACGGGGTTGGAGTATCCCT-AATGATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTT
*
1387015 -GAAATATCCCCTCGA
65 AG-AGTATCCCCTCGA
** * * *
1387030 AAATAACTAGGTTGGAGTATCCCTAATTG-TGGAAAATTGGTGTTGTGGAAATAAAACCGGGGTT
1 AAATAACGGGGTTGGAGTATCCCTAA-TGATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTT
** * *
1387094 AGAGTATCTACTTGG
65 AGAGTATCCCCTCGA
* * * * * * *
1387109 AAATAACGGGGTTGGAGTATCTTCGATTG-TGAAAAATCGGTGTTTTAAAAATAAAATCAGGGTT
1 AAATAACGGGGTTGGAGTATC-CCTAATGATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTT
* *
1387173 GGAGTATCCCCTCAA
65 AGAGTATCCCCTCGA
* * ** * * * * * *
1387188 AAATAATGGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTGGGAATAAAACCGGGGTTG
1 AAATAACGGGGTTGGAGTATCCCTAATGATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTA
1387253 GAGTATCCCCTC-A
66 GAGTATCCCCTCGA
* * * * * *
1387266 GAAATAACGAGGTTAGAGTATCTCC-AATTG-TGAAAAATTGGTGTTATGGAAATAAAACCGAGA
1 -AAATAACGGGGTTGGAGTATC-CCTAA-TGATGAAAAATTGGTGTTTTAGAAATAAAACCGGGG
* *
1387329 TTGGAGTATCCCCT-TA
63 TTAGAGTATCCCCTCGA
** * *
1387345 GAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTT-GAGAATAAAACTGGGGT
1 -AAATAACGGGGTTGGAGTATCCCTAATGATGAAAAATTGGTGTTTTAGA-AATAAAACCGGGGT
*
1387409 TAGAGTATCCCCTCGG
64 TAGAGTATCCCCTCGA
1387425 AAATAA
1 AAATAA
1387431 AAACATGAAT
Statistics
Matches: 577, Mismatches: 121, Indels: 38
0.78 0.16 0.05
Matches are distributed among these distances:
78 15 0.03
79 551 0.95
80 11 0.02
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (79 bp):
AAATAACGGGGTTGGAGTATCCCTAATGATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTA
GAGTATCCCCTCGA
Found at i:1386805 original size:158 final size:155
Alignment explanation
Indices: 1386635--1387430 Score: 756
Period size: 158 Copynumber: 5.0 Consensus size: 155
1386625 ACCTCCTCAG
* * * * *
1386635 AAATAATGGGGTTGGAGTATCCCTAATGATGGAAAATCGATGTTTTAGAAATAAAATCGGGGTTA
1 AAATAACGGGGTTAGAGTATCCCTAATG-TGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTA
* * * * *
1386700 GAGTATCCTCTCGAAAATAATGGGATTGGAGTATCCCCAATAGTAAAAAATCGGTATTTTGGAAA
65 GAGTATCCCCTCGAAAATAATGGG-TTGGAGTATCCCCATTA-TGAAAAATTGGTGTTTTGGAAA
*
1386765 TAAAACCAGGGTTAGAGTATCCCCTCGA
128 TAAAACCGGGGTTAGAGTATCCCCTCGA
* * * * * *
1386793 AAATAACGGGGTTAGAGTATTCCTGATTATGAAAATTTGGTATTTTAGAAATAAGATCGGGGTTA
1 AAATAACGGGGTTAGAGTATCCCT-AATGTGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTA
* * * * *
1386858 GAGTATCCTCTCGAAAATAACAGGGTTGGAGTATCCTCGATTATGAAAATTTGGTGTTTTGAAAA
65 GAGTATCCCCTCGAAAATAA-TGGGTTGGAGTATCC-CCATTATGAAAAATTGGTGTTTTGGAAA
** * *** *
1386923 TAAAACCGAAGTTGGAGTATTTTCTCAA
128 TAAAACCGGGGTTAGAGTATCCCCTCGA
* * * * *
1386951 AAATAACGGGGTTAGAGTATCCCTGATTGTGAAAAATTTGTGTTTTAAAAATAAAACCAGGGTT-
1 AAATAACGGGGTTAGAGTATCCCT-AATGTGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTA
* * * * * *
1387015 GAAATATCCCCTCGAAAATAACTAGGTTGGAGTATCCCTAATTGTGGAAAATTGGTGTTGTGGAA
65 G-AGTATCCCCTCGAAAATAA-TGGGTTGGAGTATCCC-CATTATGAAAAATTGGTGTTTTGGAA
** * *
1387080 ATAAAACCGGGGTTAGAGTATCTACTTGG
127 ATAAAACCGGGGTTAGAGTATCCCCTCGA
* * * * * * * *
1387109 AAATAACGGGGTTGGAGTATCTTCGATTGTGAAAAATCGGTGTTTTAAAAATAAAATCAGGGTTG
1 AAATAACGGGGTTAGAGTATC-CCTAATGTGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTA
* * * * *
1387174 GAGTATCCCCTCAAAAATAATGGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTGGGAA
65 GAGTATCCCCTCGAAAATAAT-GGGTTGGAGTATCCCC-ATTATGAAAAATTGGTGTTTTGGAAA
*
1387239 TAAAACCGGGGTTGGAGTATCCCCTC-A
128 TAAAACCGGGGTTAGAGTATCCCCTCGA
* * * * * *
1387266 GAAATAACGAGGTTAGAGTATCTCC-AATTGTGAAAAATTGGTGTTATGGAAATAAAACCGAGAT
1 -AAATAACGGGGTTAGAGTATC-CCTAA-TGTGAAAAATTGGTGTTTTAGAAATAAAATCGGGGT
* * *
1387330 TGGAGTATCCCCT-TAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTT-G
63 TAGAGTATCCCCTCGA-AAATAA-TGGGTTGGAGTATCCCC-ATTATGAAAAATTGGTGTTTTGG
* *
1387393 AGAATAAAACTGGGGTTAGAGTATCCCCTCGG
125 A-AATAAAACCGGGGTTAGAGTATCCCCTCGA
1387425 AAATAA
1 AAATAA
1387431 AAACATGAAT
Statistics
Matches: 526, Mismatches: 97, Indels: 30
0.81 0.15 0.05
Matches are distributed among these distances:
157 6 0.01
158 509 0.97
159 11 0.02
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (155 bp):
AAATAACGGGGTTAGAGTATCCCTAATGTGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAG
AGTATCCCCTCGAAAATAATGGGTTGGAGTATCCCCATTATGAAAAATTGGTGTTTTGGAAATAA
AACCGGGGTTAGAGTATCCCCTCGA
Found at i:1387005 original size:237 final size:234
Alignment explanation
Indices: 1386635--1387422 Score: 782
Period size: 237 Copynumber: 3.3 Consensus size: 234
1386625 ACCTCCTCAG
* * * * * * * * *
1386635 AAATAATGGGGTTGGAGTATCC-CTAATGATGGAAAATCGATGTTTT-AGAAATAAAATCGGGGT
1 AAATAACGGGGTTGGAGTATCCTC-GATTATGAAAAATTGGTGTTTTGA-AAATAAAACCAGAGT
* * * * * * * * * * **
1386698 TAGAGTATCCTCTCGAAAATAATGGGATTGGAGTATCCCC-AATAGTAAAAAATCGGTATTTTGG
64 TGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTA-TGAAAAATTGATATTTTAA
* * *
1386762 AAATAAAACCAGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATTCCTGATTATGAAA
128 AAATAAAACCAGGGTT-GAGTATCCCCTCGAAAATAACGAGGTTAGAGTATTCCTAATTGTGAAA
* * * * *
1386827 ATTTGGTATTTTAGAAATAAGATCGGGGTTAGAGTATCCTCTCGA
192 A-TTGGTGTTATGGAAATAAAACCGGGGTTAGAGTATCCTCT-GA
* *
1386872 AAATAACAGGGTTGGAGTATCCTCGATTATGAAAATTTGGTGTTTTGAAAATAAAACC-GAAGTT
1 AAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCAG-AGTT
*** * * *
1386936 GGAGTATTTTCTCAAAAATAACGGGGTTAGAGTATCCCTGATTGTGAAAAATTTG-TGTTTTAAA
65 GGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAA-TTGATATTTTAAA
* * * *
1387000 AATAAAACCAGGGTTGAAATATCCCCTCGAAAATAACTAGGTTGGAGTATCCCTAATTGTGGAAA
129 AATAAAACCAGGGTTG-AGTATCCCCTCGAAAATAACGAGGTTAGAGTATTCCTAATTGT-GAAA
* *
1387065 ATTGGTGTTGTGGAAATAAAACCGGGGTTAGAGTAT-CTACTTGG
192 ATTGGTGTTATGGAAATAAAACCGGGGTTAGAGTATCCT-C-TGA
* * * * * *
1387109 AAATAACGGGGTTGGAGTATCTTCGATTGTGAAAAATCGGTGTTTTAAAAATAAAATCAGGGTTG
1 AAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCAGAGTTG
* ***
1387174 GAGTATCCCCTCAAAAATAATGGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTGGGAA
66 GAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAAAAA
*
1387239 TAAAACCGGGGTTGGAGTATCCCCTC-AGAAATAACGAGGTTAGAGTATCTCC-AATTGTGAAAA
131 TAAAACCAGGGTT-GAGTATCCCCTCGA-AAATAACGAGGTTAGAGTAT-TCCTAATTGTG-AAA
* * * * *
1387302 ATTGGTGTTATGGAAATAAAACCGAGATTGGAGTATCCCCTTA
192 ATTGGTGTTATGGAAATAAAACCGGGGTTAGAGTATCCTCTGA
* * ** *
1387345 GAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAGAATAAAACTGGGGTT
1 -AAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCAGAGTT
*
1387410 AGAGTATCCCCTC
65 GGAGTATCCCCTC
1387423 GGAAATAAAA
Statistics
Matches: 456, Mismatches: 78, Indels: 34
0.80 0.14 0.06
Matches are distributed among these distances:
236 10 0.02
237 429 0.94
238 17 0.04
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (234 bp):
AAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCAGAGTTG
GAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAAAAA
TAAAACCAGGGTTGAGTATCCCCTCGAAAATAACGAGGTTAGAGTATTCCTAATTGTGAAAATTG
GTGTTATGGAAATAAAACCGGGGTTAGAGTATCCTCTGA
Found at i:1389834 original size:50 final size:50
Alignment explanation
Indices: 1389780--1389914 Score: 182
Period size: 50 Copynumber: 2.7 Consensus size: 50
1389770 AAAAATACCT
*
1389780 GAATGTATCGATACATTAAGA-AATGTATCGATACATCTAGGTAAAACCCG
1 GAATGTATCGATACAATAA-ACAATGTATCGATACATCTAGGTAAAACCCG
* *
1389830 GAATGTATCGATACAATAAACAATGTATCGATACATCTAGGTAAAATCCA
1 GAATGTATCGATACAATAAACAATGTATCGATACATCTAGGTAAAACCCG
* * * * *
1389880 AAATATATCGACACAATGAATAATGTATCGATACA
1 GAATGTATCGATACAATAAACAATGTATCGATACA
1389915 AATTGGGAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
49 1 0.01
50 75 0.99
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.26
Consensus pattern (50 bp):
GAATGTATCGATACAATAAACAATGTATCGATACATCTAGGTAAAACCCG
Found at i:1395860 original size:20 final size:21
Alignment explanation
Indices: 1395823--1395863 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1395813 AAATATATTT
*
1395823 TATATTAATTTTATATTTTAAA
1 TATATTAA-TTTAGATTTTAAA
1395845 TATATTAA-TTAGATTTTAA
1 TATATTAATTTAGATTTTAA
1395864 TTTTAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TATATTAATTTAGATTTTAAA
Found at i:1395881 original size:26 final size:25
Alignment explanation
Indices: 1395824--1395883 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
1395814 AATATATTTT
1395824 ATATTAATTTTATATTTTAAATATA
1 ATATTAATTTTATATTTTAAATATA
* *
1395849 TTAATTAGATTTTA-ATTTTAAAGTTTA
1 AT-ATTA-ATTTTATATTTTAAA-TATA
1395876 ATATTAAT
1 ATATTAAT
1395884 ACGGGTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 3 0.10
26 16 0.55
27 10 0.34
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (25 bp):
ATATTAATTTTATATTTTAAATATA
Found at i:1396465 original size:2 final size:2
Alignment explanation
Indices: 1396458--1396498 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1396448 AAAATTTTGA
1396458 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1396499 GACTGCCTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1398405 original size:19 final size:20
Alignment explanation
Indices: 1398381--1398418 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1398371 TAATTTACAT
1398381 TATTTTTT-AAATTCAAATC
1 TATTTTTTGAAATTCAAATC
1398400 TATTTTTTGAAATTCAAAT
1 TATTTTTTGAAATTCAAAT
1398419 ATTCAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.53
Consensus pattern (20 bp):
TATTTTTTGAAATTCAAATC
Found at i:1398942 original size:27 final size:24
Alignment explanation
Indices: 1398904--1398960 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 24
1398894 TATACTAAAA
1398904 ATTATACACAATATAAAATAAAATAT
1 ATTATACACAATATAAAA-AAAAT-T
* *
1398930 ATTAGTACTCAATATATAAAAAATT
1 ATTA-TACACAATATAAAAAAAATT
1398955 ATTATA
1 ATTATA
1398961 TAATTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 2 0.07
25 5 0.18
26 9 0.32
27 12 0.43
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (24 bp):
ATTATACACAATATAAAAAAAATT
Found at i:1401271 original size:16 final size:17
Alignment explanation
Indices: 1401250--1401289 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
1401240 TCTCCTATTT
1401250 TTAAAAAAA-ATAAAAA
1 TTAAAAAAATATAAAAA
*
1401266 TTAAAAAAATATATAAA
1 TTAAAAAAATATAAAAA
1401283 -TAAAAAA
1 TTAAAAAA
1401290 GATTGTCGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
TTAAAAAAATATAAAAA
Found at i:1408495 original size:10 final size:10
Alignment explanation
Indices: 1408482--1408511 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1408472 CCATTTCATA
1408482 TTTTTTCTTT
1 TTTTTTCTTT
1408492 TTTTTTCTTT
1 TTTTTTCTTT
*
1408502 TTCTTTCTTT
1 TTTTTTCTTT
1408512 CTTCTTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1408508 original size:20 final size:22
Alignment explanation
Indices: 1408485--1408538 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
1408475 TTTCATATTT
*
1408485 TTTCTTTTTTT-TTCTT-TTTC
1 TTTCTTTTTTTCATCTTCTTTC
1408505 TTTCTTTCTTCTTCATCTTCTTTC
1 TTTCTTT-TT-TTCATCTTCTTTC
1408529 TTTCTTTTTT
1 TTTCTTTTTT
1408539 ACCTAACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 3 0.10
23 6 0.21
24 11 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTCTTTTTTTCATCTTCTTTC
Found at i:1408935 original size:25 final size:23
Alignment explanation
Indices: 1408897--1408942 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
1408887 CTCTTCAATC
1408897 GGAAAACCCACTTTGGTTTTTTTTT
1 GGAAAACCCACTTT--TTTTTTTTT
* *
1408922 GGAAAGCCCTCTTTTTTTTTT
1 GGAAAACCCACTTTTTTTTTT
1408943 CGACCCCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
25 12 0.63
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (23 bp):
GGAAAACCCACTTTTTTTTTTTT
Found at i:1409237 original size:20 final size:20
Alignment explanation
Indices: 1409212--1409250 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1409202 TTTTCCTCCC
1409212 CCTTTTTT-TTCTTTTTGTTT
1 CCTTTTTTATT-TTTTTGTTT
1409232 CCTTTTTTATTTTTTTGTT
1 CCTTTTTTATTTTTTTGTT
1409251 GTTGGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.03, C:0.13, G:0.05, T:0.79
Consensus pattern (20 bp):
CCTTTTTTATTTTTTTGTTT
Found at i:1409817 original size:32 final size:32
Alignment explanation
Indices: 1409771--1410437 Score: 1106
Period size: 32 Copynumber: 20.8 Consensus size: 32
1409761 AAAATGGAGA
** *
1409771 TTTGAAAAT-GGTTGCCACTAACTTGCGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
*
1409803 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1409835 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1409867 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1409899 TTT-AGAATGGGTTACCACCGACTTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
1409931 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1409963 TTTGAAAAGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1409995 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1410027 TTTGAAATGGGTTGCCACGGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1410059 TTTGGAATGGGTTGCCGCCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1410091 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1410123 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1410155 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1410187 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1410219 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1410251 TTTGGAATGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1410283 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1410315 TTTGAAAAT-GATTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
1410347 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1410379 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1410411 TTTGAAATGGGTTGCCACCGACTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
1410438 GACTTAAAAG
Statistics
Matches: 595, Mismatches: 35, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
31 9 0.02
32 582 0.98
33 4 0.01
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1410584 original size:109 final size:108
Alignment explanation
Indices: 1410423--1411021 Score: 885
Period size: 109 Copynumber: 5.5 Consensus size: 108
1410413 TGAAATGGGT
* * * *
1410423 TGCCACCGACTTGTGGACTTAAAAGAGATGCCACGGAGCTGTGGACTTAAAAGGGATGCCACGGA
1 TGCCACAGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGA
** *
1410488 GTTGTGGACTTAAAAGGGTGCCGTGGAGTTGTGGACTTAAAAAGG
64 GTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* *
1410533 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* * **
1410598 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTAGACTTAAAAAGAA
66 TGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGG
* **
1410643 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
1410708 TGTGGACTTAAAAGGGTGCCACGGA-TTGTGGTCTTAAAAGGG
66 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
1410750 ATGCCACAGAGTTGTGGACTTAAAAGGGTGTCACGAAGTTGTGGACTTAAAAGGGTGCCACAGAG
1 -TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1410815 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
65 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1410859 ATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 -TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * *
1410924 TTGTGGACTAAAAAGGGTGCCACAGAGTTGTAGACTTTAAAAGGG
65 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
1410969 TGCCACAGAGTTGTGGACTTAAAAAGATGCCACAGAGTTGTGGACTTTAAAAG
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG
1411022 AAAATGCCAC
Statistics
Matches: 447, Mismatches: 36, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
107 5 0.01
108 110 0.25
109 220 0.49
110 112 0.25
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.23
Consensus pattern (108 bp):
TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:1411022 original size:27 final size:27
Alignment explanation
Indices: 1410423--1411021 Score: 876
Period size: 27 Copynumber: 21.9 Consensus size: 27
1410413 TGAAATGGGT
* * *
1410423 TGCCACCGACTTGTGGACTTAAAAGAGA
1 TGCCACGGAGTTGTGGACTTAAAAG-GG
*
1410451 TGCCACGGAGCTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1410478 ATGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
** *
1410506 TGCCGTGGAGTTGTGGACTTAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1410533 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1410560 TGCCACGGAGTTGTGGACTAAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1410587 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * **
1410615 TGCCACAGAGTTGTAGACTTAAAAAGAA
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
1410643 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
**
1410670 TGCCACGGAGTTGTGGACTTAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1410697 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1410724 TGCCACGGA-TTGTGGTCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1410750 ATGCCACAGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
* *
1410778 TGTCACGAAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1410805 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1410832 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1410859 ATGCCACAGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
1410887 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1410914 TGCCACGGAGTTGTGGACTAAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
1410941 TGCCACAGAGTTGTAGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
1410969 TGCCACAGAGTTGTGGACTTAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1410996 TGCCACAGAGTTGTGGACTTTAAAAG
1 TGCCACGGAGTTGTGGAC-TTAAAAG
1411022 AAAATGCCAC
Statistics
Matches: 518, Mismatches: 45, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
26 16 0.03
27 334 0.64
28 168 0.32
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:1416019 original size:13 final size:13
Alignment explanation
Indices: 1416001--1416026 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1415991 TACACCAAGT
1416001 ATGTATCGATACA
1 ATGTATCGATACA
1416014 ATGTATCGATACA
1 ATGTATCGATACA
1416027 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1416024 original size:32 final size:33
Alignment explanation
Indices: 1415983--1416046 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1415973 TAGCCAAACT
* **
1415983 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1416015 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1416047 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1418272 original size:21 final size:21
Alignment explanation
Indices: 1418239--1418283 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1418229 TTGCAAGTTG
*
1418239 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1418261 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1418281 AAA
1 AAA
1418284 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1420107 original size:15 final size:15
Alignment explanation
Indices: 1420087--1420117 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1420077 TAAAAATGTC
*
1420087 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1420102 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1420117 C
1 C
1420118 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1422216 original size:13 final size:13
Alignment explanation
Indices: 1422198--1422223 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1422188 ACATTTTTCT
1422198 TTGTATCGATACA
1 TTGTATCGATACA
1422211 TTGTATCGATACA
1 TTGTATCGATACA
1422224 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1422387 original size:20 final size:20
Alignment explanation
Indices: 1422344--1422389 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1422334 AAATCTTTTA
1422344 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1422365 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1422385 CAAAA
1 CAAAA
1422390 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1424026 original size:22 final size:22
Alignment explanation
Indices: 1423998--1424047 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
1423988 AGAGAAAATA
1423998 GATATGTGCAAATAAATTTTTT
1 GATATGTGCAAATAAATTTTTT
1424020 GATATGTGCAAATAAATTTTTT
1 GATATGTGCAAATAAATTTTTT
1424042 GATATG
1 GATATG
1424048 AATTACTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (22 bp):
GATATGTGCAAATAAATTTTTT
Found at i:1424814 original size:20 final size:20
Alignment explanation
Indices: 1424769--1424820 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1424759 GTAGCCAAAC
* **
1424769 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACAAAAAA
1424789 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
1424808 TTGTATCGATACA
1 TTGTATCGATACA
1424821 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1428753 original size:17 final size:17
Alignment explanation
Indices: 1428727--1428781 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
1428717 CATTTCATAT
1428727 TTTTTC-TTTTTTTTTC
1 TTTTTCTTTTTTTTTTC
*
1428743 TTTTTCTTTTTTTCTTC
1 TTTTTCTTTTTTTTTTC
** * *
1428760 TTCATCTTCTTTCTTTC
1 TTTTTCTTTTTTTTTTC
1428777 TTTTT
1 TTTTT
1428782 TACCTAACTT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
16 6 0.20
17 24 0.80
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:1428771 original size:20 final size:17
Alignment explanation
Indices: 1428727--1428761 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
1428717 CATTTCATAT
1428727 TTTTTCTTTTTTT-TTC
1 TTTTTCTTTTTTTCTTC
1428743 TTTTTCTTTTTTTCTTC
1 TTTTTCTTTTTTTCTTC
1428760 TT
1 TT
1428762 CATCTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTCTTTTTTTCTTC
Found at i:1430899 original size:52 final size:52
Alignment explanation
Indices: 1430754--1430879 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
1430744 AATATGAAAT
*
1430754 TTTGCCTGCATGTATCAATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
* * *
1430806 TTTGCTTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGTAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1430858 TTTGCCTGCATGTATCGATACA
1 TTTGCCTGCATGTATCGATACA
1430880 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
Found at i:1430906 original size:13 final size:13
Alignment explanation
Indices: 1430888--1430912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1430878 CAAAGATCAG
1430888 TGTATCGATACAC
1 TGTATCGATACAC
1430901 TGTATCGATACA
1 TGTATCGATACA
1430913 TTTGAGTAAT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1431984 original size:13 final size:13
Alignment explanation
Indices: 1431968--1431995 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1431958 TAGGGTAATT
1431968 TTGTATCGATACA
1 TTGTATCGATACA
1431981 TTGTATCGATACA
1 TTGTATCGATACA
1431994 TT
1 TT
1431996 CTAACAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1432513 original size:12 final size:14
Alignment explanation
Indices: 1432483--1432514 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1432473 AAAAAAATTC
1432483 AAATTTTATATATA
1 AAATTTTATATATA
1432497 AAATTTTAT-TA-A
1 AAATTTTATATATA
1432509 AAATTT
1 AAATTT
1432515 ATACAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 2 0.11
14 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATTTTATATATA
Found at i:1433321 original size:31 final size:28
Alignment explanation
Indices: 1433280--1433343 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
1433270 TATTTGATGG
* *
1433280 ATATAGTTTTAATAATTAATTTTTAATATAA
1 ATATAATTTTAATAATT-A--TTTAACATAA
*
1433311 ATATAATTTTAATTATTATTTAACATAA
1 ATATAATTTTAATAATTATTTAACATAA
1433339 ATATA
1 ATATA
1433344 TTTGTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 14 0.47
30 1 0.03
31 15 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
ATATAATTTTAATAATTATTTAACATAA
Found at i:1433486 original size:21 final size:21
Alignment explanation
Indices: 1433460--1433549 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
1433450 TATGCATATC
1433460 TTATTATTAATTTTAATTTTA
1 TTATTATTAATTTTAATTTTA
*
1433481 TTATTA-TAATAATTAATTTAATCA
1 TTATTATTAAT-TTTAATTT--T-A
* * *
1433505 TTATTATTATTTTTAATCTCA
1 TTATTATTAATTTTAATTTTA
* * *
1433526 TCATAATTAATTTTATTATTTA
1 TTATTATTAATTTTAAT-TTTA
1433548 TT
1 TT
1433550 TTAATCTCAC
Statistics
Matches: 51, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
20 4 0.08
21 27 0.53
22 3 0.06
23 1 0.02
24 13 0.25
25 3 0.06
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTATTAATTTTAATTTTA
Found at i:1434976 original size:71 final size:71
Alignment explanation
Indices: 1434896--1435034 Score: 242
Period size: 71 Copynumber: 2.0 Consensus size: 71
1434886 ACTCAAAAAG
1434896 AATTTAATTATGTCTAAATATAATAGATGTAATAATATTATTCCTTTATTATCTTTATAAAAGCT
1 AATTTAATTATGTCTAAATATAATAGATGTAATAATATTATTCCTTTATTATCTTTATAAAAGCT
1434961 AAGAAA
66 AAGAAA
* * **
1434967 AATTTAATTATGTTTAAATATAATAGATGTAATCATATTATTTTTTTATTATCTTTATAAAAGCT
1 AATTTAATTATGTCTAAATATAATAGATGTAATAATATTATTCCTTTATTATCTTTATAAAAGCT
1435032 AAG
66 AAG
1435035 TATCTAAAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (71 bp):
AATTTAATTATGTCTAAATATAATAGATGTAATAATATTATTCCTTTATTATCTTTATAAAAGCT
AAGAAA
Found at i:1441267 original size:14 final size:13
Alignment explanation
Indices: 1441239--1441293 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 13
1441229 CATAAATAAA
*
1441239 ATATTTTAATTTTT
1 ATATTTTAA-ATTT
1441253 ATATTATTAAATTT
1 ATATT-TTAAATTT
*
1441267 AGTATTTTATATTT
1 A-TATTTTAAATTT
1441281 ATATTTTTAAATT
1 ATA-TTTTAAATT
1441294 ATAATATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 2 0.06
14 25 0.71
15 8 0.23
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (13 bp):
ATATTTTAAATTT
Found at i:1441311 original size:19 final size:20
Alignment explanation
Indices: 1441289--1441328 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1441279 TTATATTTTT
1441289 AAATT-ATAATATATAAAAA
1 AAATTAATAATATATAAAAA
*
1441308 AAATTAATAATATTTAAAAA
1 AAATTAATAATATATAAAAA
1441328 A
1 A
1441329 TTATTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATTAATAATATATAAAAA
Found at i:1441873 original size:16 final size:17
Alignment explanation
Indices: 1441834--1441886 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
1441824 TGAGAATTTG
* *
1441834 AAATGTAAAAATAAATAC
1 AAATTTAAAAAT-AATAA
*
1441852 ATATTT-AAAATAATAA
1 AAATTTAAAAATAATAA
1441868 AAATTTAAAAATAATAA
1 AAATTTAAAAATAATAA
1441885 AA
1 AA
1441887 TAATTTTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 9 0.30
17 17 0.57
18 4 0.13
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
AAATTTAAAAATAATAA
Found at i:1442811 original size:22 final size:21
Alignment explanation
Indices: 1442748--1442811 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 21
1442738 TAAAAAAAAT
*
1442748 ATAATAA-TTAAATTTAAATAA
1 ATAATAATTTAAATTT-ATTAA
* *
1442769 AAAATATTTTAAA--TATTAA
1 ATAATAATTTAAATTTATTAA
1442788 ATAATAATTTAAATTTCATTAA
1 ATAATAATTTAAATTT-ATTAA
1442810 AT
1 AT
1442812 TGATCTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
19 15 0.44
20 1 0.03
21 6 0.18
22 12 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAATAATTTAAATTTATTAA
Found at i:1443228 original size:21 final size:20
Alignment explanation
Indices: 1443191--1443230 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1443181 CTTATATATT
**
1443191 TTATAAATAATTTTTTAAAA
1 TTATAAATAATAATTTAAAA
1443211 TTATAAAATAATAATTTAAA
1 TTAT-AAATAATAATTTAAA
1443231 TTGAATTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTATAAATAATAATTTAAAA
Found at i:1448727 original size:50 final size:52
Alignment explanation
Indices: 1448633--1448732 Score: 129
Period size: 50 Copynumber: 2.0 Consensus size: 52
1448623 TCTTATTCAC
1448633 ATTTATTGTTATAATTAATAAAAATTAAGAAAGTTTTTTATATTA-ATATTT
1 ATTTATTGTTATAATTAATAAAAATTAAGAAAGTTTTTTATATTACATATTT
*
1448684 ATTTATT-TTATAATTAATTTAAAA-TAA-AAA-TTTTTTAATTATTACATAT
1 ATTTATTGTTATAATTAA-TAAAAATTAAGAAAGTTTTTT-A-TATTACATAT
1448733 GAATTCTGGC
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
48 6 0.14
49 4 0.09
50 18 0.41
51 16 0.36
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (52 bp):
ATTTATTGTTATAATTAATAAAAATTAAGAAAGTTTTTTATATTACATATTT
Found at i:1449055 original size:2 final size:2
Alignment explanation
Indices: 1449048--1449088 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1449038 AATAATTGAT
1449048 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
1449089 CTCTTAGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1454494 original size:132 final size:134
Alignment explanation
Indices: 1454252--1454497 Score: 433
Period size: 132 Copynumber: 1.9 Consensus size: 134
1454242 TGACAAACAG
*
1454252 TTATGCAATGAAAAGCATTATGAACTACAAAGCTTTATCCAAGGTCCACACAGAAGGGGGCATCA
1 TTATGCAAAGAAAAGCATTATGAACTACAAAGCTTTATCCAAGGTCCACACAGAAGGGGGCATCA
*
1454317 GAAGTATTGCATTCAAAAAGATTAAAACTAATTTGAAAATATATTTTTATATCAACAATCATACA
66 GAAGTATTGCATTCAAAAAGATTAAAACTAACTTGAAAATATATTTTTATATCAACAATCATACA
1454382 AAAA
131 AAAA
* *
1454386 TTATGCAAAGAAAAGCATTATGAACTACAAAGCTTTATCC-AGGTCCACACAGGA-GGGGTATCA
1 TTATGCAAAGAAAAGCATTATGAACTACAAAGCTTTATCCAAGGTCCACACAGAAGGGGGCATCA
*
1454449 GAAGTATTGCATTCAAAAAGATTAAAACTAACTTGAAAATGTATTTTTA
66 GAAGTATTGCATTCAAAAAGATTAAAACTAACTTGAAAATATATTTTTA
1454498 CATTACAAAC
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
132 55 0.51
133 13 0.12
134 39 0.36
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (134 bp):
TTATGCAAAGAAAAGCATTATGAACTACAAAGCTTTATCCAAGGTCCACACAGAAGGGGGCATCA
GAAGTATTGCATTCAAAAAGATTAAAACTAACTTGAAAATATATTTTTATATCAACAATCATACA
AAAA
Found at i:1456873 original size:14 final size:15
Alignment explanation
Indices: 1456854--1456894 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
1456844 GAATATTAAA
*
1456854 AATATTTTTAT-ATT
1 AATATTTATATAATT
1456868 AATATTTATATAATT
1 AATATTTATATAATT
*
1456883 AA-ATTTAAATAA
1 AATATTTATATAA
1456895 AATATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AATATTTATATAATT
Found at i:1456927 original size:40 final size:37
Alignment explanation
Indices: 1456861--1456936 Score: 89
Period size: 39 Copynumber: 2.0 Consensus size: 37
1456851 AAAAATATTT
*
1456861 TTATATTAATATTTATATAATTAAATTTAAATAAAATA
1 TTATATTAATATTTATATAATCAAA-TTAAATAAAATA
* * *
1456899 TTATTTTAATATATTAATATGATCAAATTAAATTAAAT
1 TTATATTAATAT-TT-ATATAATCAAATTAAATAAAAT
1456937 TAAATCATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 11 0.34
39 12 0.38
40 9 0.28
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (37 bp):
TTATATTAATATTTATATAATCAAATTAAATAAAATA
Found at i:1457953 original size:26 final size:26
Alignment explanation
Indices: 1457924--1458019 Score: 88
Period size: 26 Copynumber: 3.7 Consensus size: 26
1457914 AAAATTTTTA
* *
1457924 AAGTATGATTTTATTTTTATTTGTAG
1 AAGTATAAATTTATTTTTATTTGTAG
* *
1457950 AAGTTTAAATTTATTTTTTGATTTG-AC
1 AAGTATAAATTTA-TTTTT-ATTTGTAG
* **
1457977 TA-TACGAATTTATTTTTATTTGTAG
1 AAGTATAAATTTATTTTTATTTGTAG
*
1458002 AAGTTTAAATTTATTTTT
1 AAGTATAAATTTATTTTT
1458020 TGATTTAATT
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
24 5 0.09
25 7 0.13
26 29 0.55
27 7 0.13
28 5 0.09
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.57
Consensus pattern (26 bp):
AAGTATAAATTTATTTTTATTTGTAG
Found at i:1467498 original size:13 final size:13
Alignment explanation
Indices: 1467480--1467507 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1467470 ATACAAAGAT
1467480 CAATGTATCGATA
1 CAATGTATCGATA
1467493 CAATGTATCGATA
1 CAATGTATCGATA
1467506 CA
1 CA
1467508 TTGAGTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1467593 original size:32 final size:32
Alignment explanation
Indices: 1467551--1467621 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
1467541 AGCTTCGTAG
*
1467551 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATATATTGTATCGATACAAAACTTATGTAT
**
1467583 CGATATATTGTATCGATACATCACTTATGTAT
1 CGATATATTGTATCGATACAAAACTTATGTAT
1467615 CGATATA
1 CGATATA
1467622 GTTACTGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (32 bp):
CGATATATTGTATCGATACAAAACTTATGTAT
Found at i:1467615 original size:19 final size:18
Alignment explanation
Indices: 1467559--1467619 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
1467549 AGCGATACAT
*
1467559 TGTATCGATACAAAACTTA
1 TGTATCGATAC-ATACTTA
1467578 TGTATCGAT--ATA--T-
1 TGTATCGATACATACTTA
1467591 TGTATCGATACATCACTTA
1 TGTATCGATACAT-ACTTA
1467610 TGTATCGATA
1 TGTATCGATA
1467620 TAGTTACTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
13 9 0.26
14 1 0.03
15 2 0.06
16 3 0.09
18 1 0.03
19 19 0.54
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATACTTA
Found at i:1467706 original size:21 final size:20
Alignment explanation
Indices: 1467680--1467718 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1467670 GTTGGGACCT
1467680 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
1467701 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
1467719 CAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:1467953 original size:14 final size:14
Alignment explanation
Indices: 1467934--1467967 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
1467924 GTGTCTACAA
1467934 TATTAAATCTTATT
1 TATTAAATCTTATT
*
1467948 TATTAAATCTTGTT
1 TATTAAATCTTATT
1467962 TATTAA
1 TATTAA
1467968 TATTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (14 bp):
TATTAAATCTTATT
Found at i:1471839 original size:38 final size:39
Alignment explanation
Indices: 1471786--1471883 Score: 101
Period size: 38 Copynumber: 2.5 Consensus size: 39
1471776 GATTCTTATC
**
1471786 AAGAATCCATGCATTAGTCATATCTTTCAGATTCCAATA
1 AAGAATCCACACATTAGTCATATCTTTCAGATTCCAATA
* * * * *
1471825 AA-AATCTATACATTAGAT-ATGTTTTTGAGATTCCAATA
1 AAGAATCCACACATTAG-TCATATCTTTCAGATTCCAATA
*
1471863 AAGAATCCACACATAAGTCAT
1 AAGAATCCACACATTAGTCAT
1471884 CATCCTTTGG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
38 32 0.67
39 16 0.33
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (39 bp):
AAGAATCCACACATTAGTCATATCTTTCAGATTCCAATA
Found at i:1472935 original size:18 final size:20
Alignment explanation
Indices: 1472914--1472954 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
1472904 ATTAAAATAT
1472914 TAAAAATTTAT-T-TTTATA
1 TAAAAATTTATATATTTATA
*
1472932 TAAATATTTATATATTTATA
1 TAAAAATTTATATATTTATA
1472952 TAA
1 TAA
1472955 TTAAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 1 0.05
20 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAAAAATTTATATATTTATA
Found at i:1474747 original size:18 final size:18
Alignment explanation
Indices: 1474724--1474762 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1474714 TTAATTTCAA
*
1474724 AAAAATGTAAAAGAGAAT
1 AAAAATGTAAAAGAAAAT
*
1474742 AAAAATGTAAAGGAAAAT
1 AAAAATGTAAAAGAAAAT
1474760 AAA
1 AAA
1474763 TATAATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (18 bp):
AAAAATGTAAAAGAAAAT
Found at i:1474969 original size:15 final size:15
Alignment explanation
Indices: 1474930--1474971 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
1474920 ATATAGATAA
*
1474930 TATATAAAATTATAT
1 TATATAATATTATAT
*
1474945 TATATTATATTAT-T
1 TATATAATATTATAT
1474959 TATAATAATATTA
1 TAT-ATAATATTA
1474972 AATCTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATAATATTATAT
Found at i:1477205 original size:30 final size:30
Alignment explanation
Indices: 1477171--1477269 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
1477161 CTCCTCATGA
1477171 ATATCCCCAACAAGGCTACCCACCTGCTGC
1 ATATCCCCAACAAGGCTACCCACCTGCTGC
* * * * * *
1477201 ATATCCTCCACCAGGGGGATATCCTCCT-CATGA
1 ATATCC-CCAACA--AGGCTACCCACCTGC-TGC
*
1477234 ATATCCCCAACAAGGCTACCCACCTGCCGC
1 ATATCCCCAACAAGGCTACCCACCTGCTGC
1477264 ATATCC
1 ATATCC
1477270 TCCACCAGGG
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
30 22 0.43
31 6 0.12
32 6 0.12
33 17 0.33
ACGTcount: A:0.26, C:0.40, G:0.14, T:0.19
Consensus pattern (30 bp):
ATATCCCCAACAAGGCTACCCACCTGCTGC
Found at i:1477235 original size:63 final size:63
Alignment explanation
Indices: 1477154--1477292 Score: 269
Period size: 63 Copynumber: 2.2 Consensus size: 63
1477144 CCCTCCACAA
*
1477154 GGATATCCTCCTCATGAATATCCCCAACAAGGCTACCCACCTGCTGCATATCCTCCACCAGGG
1 GGATATCCTCCTCATGAATATCCCCAACAAGGCTACCCACCTGCCGCATATCCTCCACCAGGG
1477217 GGATATCCTCCTCATGAATATCCCCAACAAGGCTACCCACCTGCCGCATATCCTCCACCAGGG
1 GGATATCCTCCTCATGAATATCCCCAACAAGGCTACCCACCTGCCGCATATCCTCCACCAGGG
1477280 GGATATCCTCCTC
1 GGATATCCTCCTC
1477293 CTGGTGGATA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 75 1.00
ACGTcount: A:0.24, C:0.39, G:0.16, T:0.21
Consensus pattern (63 bp):
GGATATCCTCCTCATGAATATCCCCAACAAGGCTACCCACCTGCCGCATATCCTCCACCAGGG
Found at i:1478052 original size:6 final size:6
Alignment explanation
Indices: 1478041--1478070 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1478031 ATGGGGGTTA
*
1478041 CCATGG CCATGG CCATGG CCATGG TCATGG
1 CCATGG CCATGG CCATGG CCATGG CCATGG
1478071 AAAATTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (6 bp):
CCATGG
Found at i:1479898 original size:13 final size:13
Alignment explanation
Indices: 1479880--1479905 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1479870 CTAAAAGATT
1479880 AAAACAATAAAAG
1 AAAACAATAAAAG
1479893 AAAACAATAAAAG
1 AAAACAATAAAAG
1479906 TTCATAACTT
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:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAACAATAAAAG
Found at i:1480313 original size:26 final size:26
Alignment explanation
Indices: 1480265--1480314 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
1480255 TTCCAATTAC
*
1480265 TTTCTCTCTATTTTCTTCTTATTTCA
1 TTTCTCTCTATTTTCTTATTATTTCA
1480291 TTTCTCTCT-TTTTCTTATATATTT
1 TTTCTCTCTATTTTCTTAT-TATTT
1480315 TTTACCATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTCTCTCTATTTTCTTATTATTTCA
Found at i:1481360 original size:23 final size:21
Alignment explanation
Indices: 1481307--1481360 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
1481297 TATTTTTCAA
1481307 TTATATA-ATATATATTAATT
1 TTATATATATATATATTAATT
*
1481327 TTATATTTATATATTATGTAATT
1 TTATATATATATA-TAT-TAATT
1481350 TT-TATCATATA
1 TTATAT-ATATA
1481361 AAGAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 6 0.21
21 5 0.18
22 6 0.21
23 11 0.39
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTATATATATATATATTAATT
Found at i:1483140 original size:15 final size:17
Alignment explanation
Indices: 1483109--1483140 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1483099 ATAATTTATA
1483109 TTTTAATATTTATAATT
1 TTTTAATATTTATAATT
1483126 TTTTAAT-TTTA-AATT
1 TTTTAATATTTATAATT
1483141 ACAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTAATATTTATAATT
Found at i:1483146 original size:21 final size:23
Alignment explanation
Indices: 1483103--1483152 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 23
1483093 ATATTTATAA
*
1483103 TTTATATTTTAATATTTATAATTT
1 TTTA-ATTTTAATATTTACAATTT
1483127 TTTAATTTTAA-A-TTACAATTT
1 TTTAATTTTAATATTTACAATTT
1483148 TTTAA
1 TTTAA
1483153 AAAAAAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 13 0.52
22 1 0.04
23 7 0.28
24 4 0.16
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTAATTTTAATATTTACAATTT
Found at i:1483258 original size:2 final size:2
Alignment explanation
Indices: 1483251--1483275 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1483241 TTAAATCTAT
1483251 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1483276 GTTGGATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1491000 original size:35 final size:36
Alignment explanation
Indices: 1490947--1491016 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
1490937 ATATACTAAA
1490947 ACTTTATATATATATATA-TACAAAAATCATATATAT
1 ACTTTATATATATATATATTA-AAAAATCATATATAT
*
1490983 ACTTTATAT-TATATATATTAAAAAATTATATATA
1 ACTTTATATATATATATATTAAAAAATCATATATA
1491017 ATAAAATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 21 0.66
36 11 0.34
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (36 bp):
ACTTTATATATATATATATTAAAAAATCATATATAT
Found at i:1491012 original size:17 final size:17
Alignment explanation
Indices: 1490990--1491022 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1490980 TATACTTTAT
*
1490990 ATTATATATATTAAAAA
1 ATTATATATAATAAAAA
1491007 ATTATATATAATAAAA
1 ATTATATATAATAAAA
1491023 TTATGTTCAT
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTATATATAATAAAAA
Found at i:1491014 original size:15 final size:15
Alignment explanation
Indices: 1490994--1491026 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1490984 CTTTATATTA
1490994 TATATATTAA-AAAAT
1 TATATA-TAATAAAAT
1491009 TATATATAATAAAAT
1 TATATATAATAAAAT
1491024 TAT
1 TAT
1491027 GTTCATGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATATATAATAAAAT
Found at i:1491449 original size:20 final size:19
Alignment explanation
Indices: 1491408--1491473 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
1491398 ATAATACGAT
* *
1491408 ATAAATATAACATAGT-TA
1 ATAAATATAATATAATATA
*
1491426 ATAAATATAAATTTAATATA
1 ATAAATAT-AATATAATATA
*
1491446 ATAAATATAATATGATATA
1 ATAAATATAATATAATATA
1491465 ATATAATAT
1 ATA-AATAT
1491474 GTTTAATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.20
19 17 0.43
20 15 0.38
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (19 bp):
ATAAATATAATATAATATA
Found at i:1491457 original size:5 final size:5
Alignment explanation
Indices: 1491406--1491473 Score: 61
Period size: 5 Copynumber: 13.8 Consensus size: 5
1491396 AAATAATACG
* * *
1491406 ATATAA ATATA ACATA GT-TA ATA-A ATATAA ATTTA ATATA ATA-A ATATA
1 ATAT-A ATATA ATATA ATATA ATATA ATAT-A ATATA ATATA ATATA ATATA
*
1491455 ATATG ATATA ATATA ATAT
1 ATATA ATATA ATATA ATAT
1491474 GTTTAATATA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
4 11 0.22
5 31 0.62
6 8 0.16
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:1491488 original size:15 final size:15
Alignment explanation
Indices: 1491439--1491484 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
1491429 AATATAAATT
*
1491439 TAATATAATA-AATA
1 TAATATGATATAATA
1491453 TAATATGATATAATA
1 TAATATGATATAATA
*
1491468 TAATATG-TTTAATA
1 TAATATGATATAATA
1491482 TAA
1 TAA
1491485 ATATATCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (15 bp):
TAATATGATATAATA
Found at i:1494160 original size:35 final size:32
Alignment explanation
Indices: 1494121--1494184 Score: 74
Period size: 32 Copynumber: 1.9 Consensus size: 32
1494111 TTATTTATTT
1494121 AAAATAACAACTAAAAAGTAAAAAAAATCAAATTC
1 AAAATAACAA-TAAAAA-T-AAAAAAATCAAATTC
* * *
1494156 AAAATCATAATTAAAATAAAAAAATCAAA
1 AAAATAACAATAAAAATAAAAAAATCAAA
1494185 GTGCTATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 12 0.46
33 1 0.04
34 5 0.19
35 8 0.31
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (32 bp):
AAAATAACAATAAAAATAAAAAAATCAAATTC
Found at i:1495793 original size:18 final size:16
Alignment explanation
Indices: 1495769--1495813 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
1495759 AAGGCTTAAC
1495769 TTATTTTTTAAACAAAT
1 TTATTTTTTAAA-AAAT
**
1495786 TCTATTTTTTTTAAAAT
1 T-TATTTTTTAAAAAAT
1495803 TTATTTTTTAA
1 TTATTTTTTAA
1495814 GCTTAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 9 0.39
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTTTTTAAAAAAT
Found at i:1497346 original size:32 final size:33
Alignment explanation
Indices: 1497300--1497364 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1497290 TTTTAAAAAA
1497300 TAAATAATAAAAATATT-TTATTTAAAATTAAT
1 TAAATAATAAAAATATTATTATTTAAAATTAAT
* *
1497332 TAAATAATACAAATATTAATTTTTTAAAATTAA
1 TAAATAATAAAAATATT-ATTATTTAAAATTAA
1497365 GTTATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 16 0.55
34 13 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (33 bp):
TAAATAATAAAAATATTATTATTTAAAATTAAT
Found at i:1505506 original size:19 final size:18
Alignment explanation
Indices: 1505482--1505519 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1505472 TATTGGATTG
1505482 ATTTTTAATATGAATTTTT
1 ATTTTTAAT-TGAATTTTT
*
1505501 ATTTTTAATTTAATTTTT
1 ATTTTTAATTGAATTTTT
1505519 A
1 A
1505520 AATTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTTTAATTGAATTTTT
Found at i:1505590 original size:19 final size:19
Alignment explanation
Indices: 1505523--1505593 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
1505513 ATTTTTAAAT
1505523 TATTA-TTTAAAAAA-TAA
1 TATTATTTTAAAAAATTAA
* * *
1505540 TATTTTATTTAAATTAATTTA
1 TATTAT-TTTAAA-AAATTAA
1505561 TATATATTTTTAAAAAATTAA
1 TAT-TA-TTTTAAAAAATTAA
1505582 TATTATTTTAAA
1 TATTATTTTAAA
1505594 TAATAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
17 4 0.10
19 13 0.31
20 4 0.10
21 13 0.31
22 7 0.17
23 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TATTATTTTAAAAAATTAA
Found at i:1505592 original size:41 final size:42
Alignment explanation
Indices: 1505503--1505594 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 42
1505493 GAATTTTTAT
* * *
1505503 TTTTAATTTAATTTTTAAATTATTATTTAAAAAATAATATTT
1 TTTTAAATTAATTTATAAATTATTATTTAAAAAATAATATTA
*
1505545 TATTTAAATTAATTTATATA-TATT-TTTAAAAAATTAATATTA
1 T-TTTAAATTAATTTATAAATTATTATTTAAAAAA-TAATATTA
1505587 TTTTAAAT
1 TTTTAAAT
1505595 AATAAAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
41 16 0.36
42 13 0.30
43 15 0.34
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (42 bp):
TTTTAAATTAATTTATAAATTATTATTTAAAAAATAATATTA
Found at i:1505608 original size:19 final size:19
Alignment explanation
Indices: 1505568--1505609 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1505558 TTATATATAT
*
1505568 TTTTAAAAAATTAATATTA
1 TTTTAAAAAATTAAAATTA
*
1505587 TTTTAAATAA-TAAAATTAA
1 TTTTAAAAAATTAAAATT-A
1505606 TTTT
1 TTTT
1505610 TAATCAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTAAAAAATTAAAATTA
Found at i:1505686 original size:21 final size:21
Alignment explanation
Indices: 1505662--1505716 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
1505652 AAATAATAAA
*
1505662 TATAAATATATATTT-AATTTT
1 TATAAAT-TATATTTAAAATTT
*
1505683 TATAATTTAT-TTTAAAATTT
1 TATAAATTATATTTAAAATTT
*
1505703 TAAAAATTATATTT
1 TATAAATTATATTT
1505717 TTATATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.11
20 16 0.57
21 9 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATAAATTATATTTAAAATTT
Found at i:1505717 original size:35 final size:36
Alignment explanation
Indices: 1505675--1505773 Score: 114
Period size: 35 Copynumber: 2.7 Consensus size: 36
1505665 AAATATATAT
*
1505675 TTAATTTTTATAATTTATTTTAAA-ATTT-TAAAAA
1 TTAATTTTTATAATTTATTTTAAATATTTAAAAAAA
1505709 TTATATTTTTAT-ATTTATATTTAAATATTTAAAAAAA
1 TTA-ATTTTTATAATTTAT-TTTAAATATTTAAAAAAA
* *
1505746 TTAATTATTTAAAAACTTATTTTAAATA
1 TTAATT-TTT-ATAATTTATTTTAAATA
1505774 AAACCCATAC
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
34 9 0.16
35 14 0.25
36 7 0.13
37 11 0.20
38 9 0.16
39 5 0.09
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (36 bp):
TTAATTTTTATAATTTATTTTAAATATTTAAAAAAA
Done.