Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008129.1 Hibiscus syriacus cultivar Beakdansim tig00110684_pilon, whole genome shotgun sequence
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: 2577775
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 10
Found at i:1231211 original size:62 final size:63
Alignment explanation
Indices: 1231084--1231202 Score: 195
Period size: 62 Copynumber: 1.9 Consensus size: 63
1231074 TTTTCGACTA
*
1231084 GACTCGATTTGAAAAAAACTCGACTTGAATCTAGTTCAAGTTGTAATTTCATAAACTCAACTC
1 GACTCGATTTGAAAAAAACTCGACTTGAATCTACTTCAAGTTGTAATTTCATAAACTCAACTC
* * *
1231147 GACTCGATTTG-AGAAAACTCGACTTGAATTTACTTCAAGTTGTAATTTTATAAACT
1 GACTCGATTTGAAAAAAACTCGACTTGAATCTACTTCAAGTTGTAATTTCATAAACT
1231203 AGATTCGACA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
62 41 0.79
63 11 0.21
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (63 bp):
GACTCGATTTGAAAAAAACTCGACTTGAATCTACTTCAAGTTGTAATTTCATAAACTCAACTC
Found at i:1232936 original size:32 final size:32
Alignment explanation
Indices: 1232895--1232957 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
1232885 AAGTTAATAA
*
1232895 GAACAATAAAGTAAAAACTAGAATGTTAGTAT
1 GAACAATAAAATAAAAACTAGAATGTTAGTAT
**
1232927 GAACAATAAAATAAAAGTTAGAATGTTAGTA
1 GAACAATAAAATAAAAACTAGAATGTTAGTA
1232958 AGTTAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.54, C:0.05, G:0.16, T:0.25
Consensus pattern (32 bp):
GAACAATAAAATAAAAACTAGAATGTTAGTAT
Found at i:1235223 original size:6 final size:6
Alignment explanation
Indices: 1235212--1235265 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 6
1235202 TATATCAAAG
1235212 ATAAAA ATAAAA AT-AAA ATAAAA ATAGAAGGA GAT-AAA AT-AAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATA-AA--A -ATAAAA ATAAAA ATAAAA
1235261 ATAAA
1 ATAAA
1235266 GCAAAAAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
5 12 0.29
6 23 0.55
7 2 0.05
8 2 0.05
9 1 0.02
10 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:1236288 original size:109 final size:109
Alignment explanation
Indices: 1236118--1236390 Score: 406
Period size: 110 Copynumber: 2.5 Consensus size: 109
1236108 AATGGTTAGC
* * * *
1236118 AGAGTCTGGACCATAATAATGTGGTTCGTACCCGGATC-AGTTCACCACAAGGTCGAATAATAAA
1 AGAGTCTGAACCATAATAATGTGGATCGTACCCGGATCGA-ATCACCACAAGGTCAAATAATAAA
* * *
1236182 TCAAACAAATTAATAAAAAT-AATAAAACACAATTAGGAGTTAAT
65 TCAAACAAATTAATAAAAATAAAAAAAAAACAATTAAGAGTTAAT
1236226 AGAGTCTGAACCATAATAATGTGGATCGTATCCCGGATCGAATCACCACAAGGTCAAATAATAAA
1 AGAGTCTGAACCATAATAATGTGGATCGTA-CCCGGATCGAATCACCACAAGGTCAAATAATAAA
*
1236291 TCAAACAAATTAATAAAAATAAAAAAAAAACAGTTAAGAGTTAAT
65 TCAAACAAATTAATAAAAATAAAAAAAAAACAATTAAGAGTTAAT
* * *
1236336 AGAGTCTAAACCATAATAATGTGGATTGTACCCCAGATCGAATCACCACAAGGTC
1 AGAGTCTGAACCATAATAATGTGGATCGTA-CCCGGATCGAATCACCACAAGGTC
1236391 GAATCGAATA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
108 28 0.19
109 50 0.33
110 72 0.48
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (109 bp):
AGAGTCTGAACCATAATAATGTGGATCGTACCCGGATCGAATCACCACAAGGTCAAATAATAAAT
CAAACAAATTAATAAAAATAAAAAAAAAACAATTAAGAGTTAAT
Found at i:1236418 original size:4 final size:4
Alignment explanation
Indices: 1236405--1236434 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
1236395 CGAATAAGAG
1236405 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1236435 CAATAGTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1237258 original size:13 final size:13
Alignment explanation
Indices: 1237240--1237264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1237230 AGCCCAAAAA
1237240 AAGAAAGAGAAAT
1 AAGAAAGAGAAAT
1237253 AAGAAAGAGAAA
1 AAGAAAGAGAAA
1237265 ATTGAGAAGG
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:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (13 bp):
AAGAAAGAGAAAT
Found at i:1238155 original size:32 final size:32
Alignment explanation
Indices: 1238114--1238177 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1238104 TAAATTTCGC
1238114 ACCAGATACCATAAATCCAATTAAACTATTGG
1 ACCAGATACCATAAATCCAATTAAACTATTGG
1238146 ACCAGATACCATAAATCCAATTAAACTATTGG
1 ACCAGATACCATAAATCCAATTAAACTATTGG
1238178 TATATCAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (32 bp):
ACCAGATACCATAAATCCAATTAAACTATTGG
Found at i:1239440 original size:182 final size:182
Alignment explanation
Indices: 1239133--1239806 Score: 940
Period size: 182 Copynumber: 3.7 Consensus size: 182
1239123 TGTCGGTTTA
* * * * * *
1239133 TGTCGATACTTTATAA-AACTGTATTGATCTACATCAATATAACATGTAAAAATATGAAAAAACC
1 TGTCGATACTTTATAACAA-TGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACC
* * *
1239197 GGTTTCGAAAAGACAAAATCAGTA-A-AGCGGTACCAGATATATTGAAAGTGTCGATACTTTAAT
65 GGTCTCGAAAAGACAAAACCGGTATAGAGC-G-ACCAGATATATTGAAAGTGTCGATACTTTAAT
* **
1239260 ATAAGTATCGACACTTTGTGAATTTAAAAGAGAATCAGTTTTAGCGTTTATAAAG
128 ATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
**
1239315 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACTA
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * *
1239380 GTCTCTAAAGGACAAAACCGGTATAGAGCGACCGGCTATATTGAAAGTGTTGATACTTTAATATA
66 GTCTCGAAAAGACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
* * *
1239445 AGTATCAACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGTGCCTATAAAC
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* **
1239497 TGTCGCTACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAGTCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * *
1239562 GTCTCTAAAAGACAAAACCGGCATAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCGAAAAGACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
* *
1239627 AGTATCGACACTTTGTGAATTTAAAAGATAAGCAGTTTTAGCGCCAATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * * *
1239679 TGTTGATACTTTATAAAAATGTATCGATCCATAACGATATAACATGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * * *
1239744 GTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATATTGAACGTGTCGATACTTTAATA
66 GTCTCGAAAAGACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATA
1239807 AGTACGCGTA
Statistics
Matches: 435, Mismatches: 54, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
182 428 0.98
183 4 0.01
184 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (182 bp):
TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
GTCTCGAAAAGACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:1240414 original size:19 final size:19
Alignment explanation
Indices: 1240390--1240463 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 19
1240380 GTGACCGATT
1240390 AAATAATATTATAGGTAGA
1 AAATAATATTATAGGTAGA
* ** *
1240409 AAATAAATATGGATACCT-GT
1 AAAT-AATAT-TATAGGTAGA
*
1240429 ATATAATATTATAGGTAGA
1 AAATAATATTATAGGTAGA
* *
1240448 AAATTATATTTTAGGT
1 AAATAATATTATAGGT
1240464 TGTATAAATG
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
18 4 0.10
19 23 0.57
20 9 0.22
21 4 0.10
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.36
Consensus pattern (19 bp):
AAATAATATTATAGGTAGA
Found at i:1241815 original size:22 final size:23
Alignment explanation
Indices: 1241763--1241819 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
1241753 GAACATTTTT
* *
1241763 ATTTTTTTATATAAAATGATAGT
1 ATTTTATTATATAAAATGATAGA
* *
1241786 ATAGTTATTATATAAAATTATA-A
1 AT-TTTATTATATAAAATGATAGA
1241809 ATTTTATTATA
1 ATTTTATTATA
1241820 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 8 0.29
23 4 0.14
24 16 0.57
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (23 bp):
ATTTTATTATATAAAATGATAGA
Found at i:1242230 original size:21 final size:21
Alignment explanation
Indices: 1242206--1242249 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1242196 AAGACAATCA
1242206 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
1242227 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1242248 AG
1 AG
1242250 GCATAAGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.34, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1243113 original size:202 final size:198
Alignment explanation
Indices: 1242615--1243382 Score: 1008
Period size: 199 Copynumber: 3.9 Consensus size: 198
1242605 TAAAGTTTCC
* * * *
1242615 CATAAAGTGTCGATACATTTAT-AAAAGTATCGATCCCATAAACATCGAAACCCATTATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * * * *
1242679 GTAATATGTAATTTTTCAATGTAACCGGTATAAATATACCAATTTTAT-ACGATAATAGGTCTAG
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGA-GAAAATAGGTCAAC
* * * *
1242743 A-AAATGTATCGACACTTCTAGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCAAAAAGG
130 ATAAA-GTATCGACAATTTTA-AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGG
*
1242807 TGCACC
193 TGCACG
* * * *
1242813 CATTAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATTGAAACTGATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * *
1242878 GTAATAGGTAAATTTCCAATGTAACCAGTATAAATATACCGATTTTATGAGAAAATAGGTCAGCA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACA
* *
1242943 TAAAGTATCGACAATTGTTAAATTTATGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTT
131 TAAAGTATCGACAATT-TTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGG-T
*
1243008 ACACG
194 GCACG
* * **
1243013 CATAAAGTGTCGATACATTTTTTTAAAAAGTATCGATCCTAAAAACATCAAAATTGATAATTATA
1 CATAAAGTGTCGATACA--TTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATA
*
1243078 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTTAA
64 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAA
* * *
1243143 CATAATGTATCGACACATTTTAGATTTGTGTCGATACATTTTT-TCCAGAATGAATGCCAAATGG
129 CATAAAGTATCGACA-ATTTTAAATTTGTGTCGATAC-TTTTTGTCCAGAATGAATGCCAAA-AG
*
1243207 GGTGCATG
191 GGTGCACG
* * **
1243215 CACAAAGTGTCGATACA-TTTGAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
*
1243279 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACC-AGTTTTATGAGAGAATAGGTCAAC
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGA-TTTTATGAGAAAATAGGTCAAC
* * *
1243343 ATAATGTATCAACACTTTTAAATTTGTGTCGATACTTTTT
130 ATAAAGTATCGACAATTTTAAATTTGTGTCGATACTTTTT
1243383 AAATAACGTG
Statistics
Matches: 504, Mismatches: 55, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
197 5 0.01
198 40 0.08
199 253 0.50
200 26 0.05
202 169 0.34
203 11 0.02
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (198 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACA
TAAAGTATCGACAATTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGGTGC
ACG
Found at i:1245935 original size:24 final size:24
Alignment explanation
Indices: 1245895--1245941 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
1245885 AAAGTGCTAC
1245895 AACAAAAAGCAACAAGAAAGAAGAA
1 AACAAAAAGCAACAAGAAA-AAGAA
1245920 AACAAAAGAG-AA-AAGAAAAAGA
1 AACAAAA-AGCAACAAGAAAAAGA
1245942 CTCCTACATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 6 0.29
25 9 0.43
26 2 0.10
ACGTcount: A:0.74, C:0.09, G:0.17, T:0.00
Consensus pattern (24 bp):
AACAAAAAGCAACAAGAAAAAGAA
Found at i:1251719 original size:19 final size:19
Alignment explanation
Indices: 1251695--1251743 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
1251685 TATGGAGGGT
1251695 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
** *
1251714 TAATTTTACATACGATTTA
1 TAATTTTGTATAAGATTTA
1251733 TAATTTTGTAT
1 TAATTTTGTAT
1251744 GTGAATGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1254645 original size:199 final size:197
Alignment explanation
Indices: 1254194--1254911 Score: 851
Period size: 199 Copynumber: 3.6 Consensus size: 197
1254184 ACCTAAATAT
1254194 GTGTCGATACATTT-TCTAAAAGTATCGA-CCCAAAAAACATCGAAACC-AGTAATTATAATGTA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGA-TAATTATAATGTA
* * * * *
1254256 ATAGGTAAATTAACAATGTAACCGATATAAATATACCGGTTAATTAGAAAACAGGTCAACATAAT
63 ATAGGTAAATTTACAATGTATCCGATATAAATATACCGGTTTATGAGAAAATAGGTC-ACATAAT
* ** * *
1254321 GTATCAATACTTGTGGAATTTGTGTTGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTACA
127 GTATCAACACTTGTTAAATTTGTGTCGATACTT-TTGTCCAGAATGAATG-CCAAACGAGGTGCA
1254386 CGCATAAA
190 CGCATAAA
* *
1254394 GTGTCGATACATTTATTAAAAGTATTGATCCCAATAAA-ATCGAAATCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAA-AAACATCGAAACCGATAATTATAATGTAAT
* * *
1254458 ATGTAAATTTACAATGTATCCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAGCATAAAG
65 AGGTAAATTTACAATGTATCCGATATAAATATACCGG-TTTATGAGAAAATAGGTCA-CATAATG
* *
1254523 TATCTACACTTGTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGCCAAACG-GGTGCACG
128 TATCAACACTTGTTAAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCAAACGAGGTGCACG
1254587 CATAAA
192 CATAAA
* * *
1254593 GTGTCGATACATTTATTAAAAGTATCAATCCCAAAAACATCGAAACCGATAATTACAATGTGATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * *
1254658 GGTAAATTTACAATGTACCCGATAGAAATATACTGGTTTTATGAGAAAATAAGTCTAAATAATGT
66 GGTAAATTTACAATGTATCCGATATAAATATACCGG-TTTATGAGAAAATAGGTC-ACATAATGT
* * ** * * * *
1254723 ATCGACACTTTTTATGTTTGAGTCGATACTTTTTTCTAGAATGAATGCCCAACGAGGTGCACGCA
129 ATCAACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCA
1254788 TACAA
194 TA-AA
** * * *
1254793 -TGTCGATACATTTCA--AATTGTATCTATCCAAAAAACATCAAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTT-ATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * *
1254855 AGGTAAATTTACAATAT-TACCGGTATAAATATACCGGTTTACTTATAAAATAGGTCA
65 AGGTAAATTTACAATGTAT-CCGATATAAATATACCGGTTTA-TGAGAAAATAGGTCA
1254912 ATATAAGAGC
Statistics
Matches: 450, Mismatches: 54, Indels: 31
0.84 0.10 0.06
Matches are distributed among these distances:
197 5 0.01
198 106 0.24
199 173 0.38
200 95 0.21
201 69 0.15
202 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (197 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTATCCGATATAAATATACCGGTTTATGAGAAAATAGGTCACATAATGTAT
CAACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATA
AA
Found at i:1261018 original size:6 final size:6
Alignment explanation
Indices: 1261003--1261061 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
1260993 ATAATATAAG
* *
1261003 AAAA-A AAAAGA AAAAGA AAACGA AGAAA-A AAATAGA ACAAG- AAAAG-
1 AAAAGA AAAAGA AAAAGA AAAAGA A-AAAGA AAA-AGA AAAAGA AAAAGA
1261049 AAAAGA AAAAGA A
1 AAAAGA AAAAGA A
1261062 GGAAAAAATG
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
5 15 0.33
6 25 0.56
7 5 0.11
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:1261019 original size:16 final size:16
Alignment explanation
Indices: 1261000--1261061 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 16
1260990 AATATAATAT
1261000 AAGAAAAA-AAAAGAAA
1 AAGAAAAAGAAAA-AAA
1261016 AAGAAAACGAAGAAAAAAA
1 AAG-AAA--AAGAAAAAAA
* * *
1261035 TAGAACAAGAAAAGAA
1 AAGAAAAAGAAAAAAA
1261051 AAGAAAAAGAA
1 AAGAAAAAGAA
1261062 GGAAAAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
16 21 0.57
17 3 0.08
18 2 0.05
19 7 0.19
20 4 0.11
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (16 bp):
AAGAAAAAGAAAAAAA
Found at i:1261028 original size:25 final size:24
Alignment explanation
Indices: 1261000--1261068 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
1260990 AATATAATAT
1261000 AAGAAAAAAAAAGAAAAAGAAAACG
1 AAGAAAAAAAAAGAAAAAGAAAA-G
* *
1261025 AAGAAAAAAATAGAACAAGAAAAG
1 AAGAAAAAAAAAGAAAAAGAAAAG
1261049 AA-AAGAAAAAGAAGGAAAAA
1 AAGAA-AAAAA-AA-GAAAAA
1261069 ATGAGAGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 2 0.05
24 8 0.22
25 22 0.59
26 5 0.14
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.01
Consensus pattern (24 bp):
AAGAAAAAAAAAGAAAAAGAAAAG
Found at i:1261051 original size:5 final size:5
Alignment explanation
Indices: 1261000--1261057 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
1260990 AATATAATAT
*
1261000 AAGAA AAAAA AAGAAA AAGAA AACG-- AAGAA AA-AA ATAGAA CAAGAA
1 AAGAA AAGAA AAG-AA AAGAA AA-GAA AAGAA AAGAA A-AGAA -AAGAA
1261046 AAGAA AAGAA AA
1 AAGAA AAGAA AA
1261058 AGAAGGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
3 1 0.02
4 5 0.11
5 25 0.57
6 12 0.27
7 1 0.02
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (5 bp):
AAGAA
Found at i:1272104 original size:90 final size:89
Alignment explanation
Indices: 1271946--1272113 Score: 284
Period size: 90 Copynumber: 1.9 Consensus size: 89
1271936 GACCTAACAT
* *
1271946 ACCCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTA
1 ACCCTCTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATCATTTCAAATTAATTAAATCTA
1272011 TATTTAATTAATTGGAATTTAATA
66 TATTTAATTAATTGGAATTTAATA
*
1272035 ACCCTCTTATATCCAAGTTACCCTAATCATATT-GGAGATTTTATCATTTCAAATTAATTAAATC
1 ACCCTCTTATAGCCAAGTTACCCTAATCATATTAGG-G-TTTTATCATTTCAAATTAATTAAATC
1272099 TATATTTAATTAATT
64 TATATTTAATTAATT
1272114 AATTGAAATT
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
88 2 0.03
89 32 0.43
90 40 0.54
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (89 bp):
ACCCTCTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATCATTTCAAATTAATTAAATCTA
TATTTAATTAATTGGAATTTAATA
Found at i:1273168 original size:46 final size:46
Alignment explanation
Indices: 1273111--1273222 Score: 181
Period size: 46 Copynumber: 2.4 Consensus size: 46
1273101 ACTCTAACAG
*
1273111 TTATGGGATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGT
1 TTATGGGATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
1273157 TTATGGCATTAAATGGTAAGTATATTGGTAAAATAAGTTTACGAGC
1 TTATGGGATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1273203 TTATGGGGA-TAAATGGTAAG
1 TTAT-GGGATTAAATGGTAAG
1273223 AGATTTTATC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
46 58 0.95
47 3 0.05
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (46 bp):
TTATGGGATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:1275762 original size:62 final size:63
Alignment explanation
Indices: 1275635--1275753 Score: 195
Period size: 62 Copynumber: 1.9 Consensus size: 63
1275625 TTTTCGTCTA
*
1275635 GACTTGATTTGAAAAAAACTCGACTTGAATTTACTTCAAGTTGTAATTTCATAAACTCAACTC
1 GACTCGATTTGAAAAAAACTCGACTTGAATTTACTTCAAGTTGTAATTTCATAAACTCAACTC
* * *
1275698 GACTCGATTTG-AGAAAACTTGACTTGAATTTACTTCAAGTTGTAATTTTATAAACT
1 GACTCGATTTGAAAAAAACTCGACTTGAATTTACTTCAAGTTGTAATTTCATAAACT
1275754 AGATTCGACC
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
62 42 0.81
63 10 0.19
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (63 bp):
GACTCGATTTGAAAAAAACTCGACTTGAATTTACTTCAAGTTGTAATTTCATAAACTCAACTC
Found at i:1276659 original size:5 final size:5
Alignment explanation
Indices: 1276649--1276696 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
1276639 ATCAAAGATA
* * *
1276649 AAAAT AAAAT AAAAAT AGAAT GAGAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
1276697 TAAGATAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
5 31 0.86
6 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:1276725 original size:24 final size:24
Alignment explanation
Indices: 1276680--1276725 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1276670 GAGATAAAAT
* * *
1276680 AAAATAAAATAAAATAATAAGATA
1 AAAATAAAACAAAAAAAGAAGATA
*
1276704 AAAATAAAGCAAAAAAAGAAGA
1 AAAATAAAACAAAAAAAGAAGA
1276726 CTATTGAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (24 bp):
AAAATAAAACAAAAAAAGAAGATA
Found at i:1277287 original size:9 final size:9
Alignment explanation
Indices: 1277273--1277301 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1277263 AAGTGCTAGA
1277273 AAAATAAAT
1 AAAATAAAT
1277282 AAAATAAAT
1 AAAATAAAT
1277291 -AAATAAAT
1 AAAATAAAT
1277299 AAA
1 AAA
1277302 TTGCATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAATAAAT
Found at i:1277498 original size:32 final size:32
Alignment explanation
Indices: 1277440--1277534 Score: 147
Period size: 32 Copynumber: 2.9 Consensus size: 32
1277430 TTAGTTTGTG
1277440 CAATAAAATAAAATGTTAGTAA-GTTAGTAAGAA
1 CAATAAAATAAAA-GTTAG-AATGTTAGTAAGAA
* *
1277473 CAATAAAGTAAAAGTTAGAATGTTAGTATGAA
1 CAATAAAATAAAAGTTAGAATGTTAGTAAGAA
1277505 CAATAAAATAAAAGTTAGAATGTTAGTAAG
1 CAATAAAATAAAAGTTAGAATGTTAGTAAG
1277535 TTAGAAAAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
31 2 0.04
32 43 0.75
33 12 0.21
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.27
Consensus pattern (32 bp):
CAATAAAATAAAAGTTAGAATGTTAGTAAGAA
Found at i:1280612 original size:32 final size:32
Alignment explanation
Indices: 1280520--1280616 Score: 115
Period size: 34 Copynumber: 2.9 Consensus size: 32
1280510 TTAGTTTGTG
**
1280520 CAATAAAATAAAAGGTTAGTAA-GTTAAAAAGAA
1 CAATAAAATAAAA-GTTAG-AATGTTAGTAAGAA
* *
1280553 CAATAAAGTAAAAGTTAGAGAATGTTAGTATGAA
1 CAATAAAATAAAAGTT--AGAATGTTAGTAAGAA
1280587 CAATAAAATAAAAGTTAGAATGTTAGTAAG
1 CAATAAAATAAAAGTTAGAATGTTAGTAAG
1280617 TTAGAAAAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
32 16 0.29
33 14 0.25
34 25 0.45
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.25
Consensus pattern (32 bp):
CAATAAAATAAAAGTTAGAATGTTAGTAAGAA
Found at i:1280814 original size:109 final size:108
Alignment explanation
Indices: 1280624--1280909 Score: 378
Period size: 109 Copynumber: 2.6 Consensus size: 108
1280614 AAGTTAGAAA
* * * *
1280624 AGTTAGTG-GTTAGCAGAGTCTGGACTATAATAATGTGGATCGTACCCGGATC-AGGTCACCACA
1 AGTTAG-GAGTTAGTAGAGTCTGAACCATAATAATGTGGATCGTACCCGGATCGA-ATCACCACA
*
1280687 AGGTCGAATAATAAATCAAACAAATTAATAAAAATAAAAAAAAAC
64 AGGTCAAATAATAAATCAAACAAATTAATAAAAATAAAAAAAAAC
* * *
1280732 AGTTAGGAGTTAGTAGAGTCTGAACCATAATAATGTGAATTGTATCGCGGATCGAATCACCACAA
1 AGTTAGGAGTTAGTAGAGTCTGAACCATAATAATGTGGATCGTA-CCCGGATCGAATCACCACAA
* *
1280797 GGTCAAATAATAAATCAAACAAATTAATAAAAATAATAAAAAAT
65 GGTCAAATAATAAATCAAACAAATTAATAAAAATAAAAAAAAAC
* * * * * *
1280841 AGTTAAGAGTTAATAGAGTCCGAACCATAAGAATGTGGATCGTACCCCAGATCGGATCACCACAA
1 AGTTAGGAGTTAGTAGAGTCTGAACCATAATAATGTGGATCGTA-CCCGGATCGAATCACCACAA
1280906 GGTC
65 GGTC
1280910 GAATCGAACA
Statistics
Matches: 155, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
107 1 0.01
108 37 0.24
109 116 0.75
110 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (108 bp):
AGTTAGGAGTTAGTAGAGTCTGAACCATAATAATGTGGATCGTACCCGGATCGAATCACCACAAG
GTCAAATAATAAATCAAACAAATTAATAAAAATAAAAAAAAAC
Found at i:1281708 original size:13 final size:13
Alignment explanation
Indices: 1281684--1281718 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1281674 CCCAAAAAAT
1281684 GAAAGA-AAATAA
1 GAAAGAGAAATAA
1281696 GAAAGAGAAATAA
1 GAAAGAGAAATAA
1281709 GAAAGAGAAA
1 GAAAGAGAAA
1281719 ATCGAGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (13 bp):
GAAAGAGAAATAA
Found at i:1281958 original size:11 final size:11
Alignment explanation
Indices: 1281944--1281969 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1281934 TATAAACCAT
1281944 ATATGAAAAAA
1 ATATGAAAAAA
1281955 ATATGAAAAAA
1 ATATGAAAAAA
1281966 ATAT
1 ATAT
1281970 ATATGTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (11 bp):
ATATGAAAAAA
Found at i:1286928 original size:3 final size:3
Alignment explanation
Indices: 1286920--1286953 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1286910 TCTTTCTCAG
1286920 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1286954 AACCCTATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:1287140 original size:13 final size:14
Alignment explanation
Indices: 1287122--1287151 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1287112 AGTTGAACAA
1287122 TCTTCATATGCA-G
1 TCTTCATATGCACG
1287135 TCTTCATATGCACG
1 TCTTCATATGCACG
1287149 TCT
1 TCT
1287152 GTAATGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (14 bp):
TCTTCATATGCACG
Found at i:1290307 original size:48 final size:49
Alignment explanation
Indices: 1290231--1290343 Score: 167
Period size: 48 Copynumber: 2.3 Consensus size: 49
1290221 ATCAAAACAT
*
1290231 AATCCAGGTCAAGTA-TCAGATCAGAATCCAGGTCAAGTATTCGATCAG
1 AATCCAGGTCAAGTATTCAGATCAGAATCCAGGTCAAGTATCCGATCAG
*
1290279 AATCCAGGTCAAGTATTC-GATCATAATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATTCAGATCAGAATCCAGGTCAAGTATCCGATCAG
* * *
1290327 AATTCAAGTCATGTATT
1 AATCCAGGTCAAGTATT
1290344 ATAATAGAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 57 0.97
49 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (49 bp):
AATCCAGGTCAAGTATTCAGATCAGAATCCAGGTCAAGTATCCGATCAG
Found at i:1290342 original size:24 final size:24
Alignment explanation
Indices: 1290231--1290329 Score: 162
Period size: 24 Copynumber: 4.1 Consensus size: 24
1290221 ATCAAAACAT
*
1290231 AATCCAGGTCAAGTATCAGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
*
1290255 AATCCAGGTCAAGTATTCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
* *
1290279 AATCCAGGTCAAGTATTCGATCAT
1 AATCCAGGTCAAGTATCCGATCAG
1290303 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
1290327 AAT
1 AAT
1290330 TCAAGTCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCGATCAG
Found at i:1294733 original size:20 final size:21
Alignment explanation
Indices: 1294681--1294741 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
1294671 TTCCCCTGTG
1294681 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
*
1294704 GGGGGAATCGGTTCCCTC-AT
1 GGGGGAATCGGTTCCCTCAAA
* *
1294724 GGGGGTATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
1294742 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:1303990 original size:17 final size:16
Alignment explanation
Indices: 1303968--1304006 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
1303958 GAGTTCAATT
1303968 AATTAAATTAATT-TTAA
1 AATTAAATT-ATTATT-A
1303985 AATTAAATTATTATTA
1 AATTAAATTATTATTA
1304001 AATTAA
1 AATTAA
1304007 TTCAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTAAATTATTATTA
Found at i:1304396 original size:20 final size:20
Alignment explanation
Indices: 1304371--1304411 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1304361 AACACAATAT
1304371 ATGATTTAAAAAATTAATTA
1 ATGATTTAAAAAATTAATTA
1304391 ATGATTTAAAAAATTAATTA
1 ATGATTTAAAAAATTAATTA
1304411 A
1 A
1304412 ATATGCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
ATGATTTAAAAAATTAATTA
Found at i:1304605 original size:79 final size:80
Alignment explanation
Indices: 1304513--1304672 Score: 250
Period size: 79 Copynumber: 2.0 Consensus size: 80
1304503 TTCATCAAAT
* * * *
1304513 AGGGTCATTATCCCGGAATAATCCGTTGGAACACGGTTCATC-GTATTACAATAAAAACTTATTC
1 AGGGTCATGATCCCGGAATAACCCGTTGGAACACGGTTCATCAGTATTACAATAAAAACCTACTC
*
1304577 CCTAGTTTCAAAGAA
66 CCAAGTTTCAAAGAA
*
1304592 AGGGTCATGATCCCGGAATAACCCGTTGGAACACGGTTCATCAAGTATTACAATAGAAACCTACT
1 AGGGTCATGATCCCGGAATAACCCGTTGGAACACGGTTCATC-AGTATTACAATAAAAACCTACT
1304657 CCCAAGTTTCAAAGAA
65 CCCAAGTTTCAAAGAA
1304673 GCTATTCCAT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
79 40 0.55
81 33 0.45
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (80 bp):
AGGGTCATGATCCCGGAATAACCCGTTGGAACACGGTTCATCAGTATTACAATAAAAACCTACTC
CCAAGTTTCAAAGAA
Found at i:1305741 original size:17 final size:17
Alignment explanation
Indices: 1305719--1305751 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1305709 ACCAAGATTT
1305719 GACCCGAATCCAGACCC
1 GACCCGAATCCAGACCC
*
1305736 GACCCGGATCCAGACC
1 GACCCGAATCCAGACC
1305752 GACTCGTGAC
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:0.27, C:0.45, G:0.21, T:0.06
Consensus pattern (17 bp):
GACCCGAATCCAGACCC
Found at i:1312208 original size:2 final size:2
Alignment explanation
Indices: 1312201--1312249 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1312191 CATAACCATA
1312201 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1312243 AT AT AT A
1 AT AT AT A
1312250 ATGTTGAGCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1314540 original size:38 final size:37
Alignment explanation
Indices: 1314496--1314606 Score: 102
Period size: 37 Copynumber: 3.0 Consensus size: 37
1314486 ATACAATTAT
*
1314496 TCTTAAAAACAAATTTGTTTCGCTTGAGACAGTTTTC
1 TCTTAAAAACAAATTTGTTTCGCTTGAGACAGTTTTA
* * *
1314533 TCTTTAAAAA-AAAATTGTCTT-GCTTAACACAGTTTTA
1 TC-TTAAAAACAAATTTGT-TTCGCTTGAGACAGTTTTA
* * *
1314570 TC-TAAAAAGCAAATTTTGTCTCGCTCGAGACAATTTT
1 TCTTAAAAA-CAAA-TTTGTTTCGCTTGAGACAGTTTT
1314607 TACTCATAAC
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
35 6 0.10
37 28 0.48
38 24 0.41
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (37 bp):
TCTTAAAAACAAATTTGTTTCGCTTGAGACAGTTTTA
Found at i:1314766 original size:67 final size:67
Alignment explanation
Indices: 1314687--1315018 Score: 490
Period size: 67 Copynumber: 5.0 Consensus size: 67
1314677 GAAACAAAAT
1314687 TACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGA
1 TACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGA
1314752 AA
66 AA
* * * * *
1314754 TACAAATCTTTGAATCTGTTTTCCTTGAAAAAAAGTTTTGTCTCCCTTGAGACAGTTTCTATTGA
1 TACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGA
1314819 AA
66 AA
* * * *
1314821 TACAAATATTTGA-TTATGTTTCCCTTGAAACAAAGTTTTATCTCCCTTGAAACAATTTCTCTTG
1 TACAAATCTTTGAGTT-TGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTG
1314885 AAA
65 AAA
* * * *
1314888 CACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTG-
1 TACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGA
1314952 AA
66 AA
* * *
1314954 -ACAAATCTTTGAGTTTATTTCCCTTGAAACAAAGATTTGTCTCCTTTGAGACAGTTTCTCTTGA
1 TACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGA
1315018 A
66 A
1315019 GCAAATCCCT
Statistics
Matches: 237, Mismatches: 25, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
65 57 0.24
66 4 0.02
67 175 0.74
68 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (67 bp):
TACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGA
AA
Found at i:1317537 original size:38 final size:38
Alignment explanation
Indices: 1317486--1317688 Score: 127
Period size: 37 Copynumber: 5.5 Consensus size: 38
1317476 TTTGAGATTG
* *
1317486 TTTCTCTT-GAAACAAAGTGTCGTCTCGCTAGATACAAT
1 TTTCTCTTAAAAACAAA-TGTCGTCTCGCTAGAGACAAT
* * * *
1317524 TTT-TCTTAAAAACAAATTTTGTCTCGCTTGAGACAGT
1 TTTCTCTTAAAAACAAATGTCGTCTCGCTAGAGACAAT
* * *
1317561 TTTCTCTTAAAAA-AAAT-T-GTCTCGCTTGAGATAGT
1 TTTCTCTTAAAAACAAATGTCGTCTCGCTAGAGACAAT
* * * *
1317596 TTTCTC-TAAAAAGAAAATTTTGTCTCGCTTGAGACAAT
1 TTTCTCTTAAAAA-CAAATGTCGTCTCGCTAGAGACAAT
* * * * * *
1317634 TTT-TAC-TCAGAACAAATTTCGTCTCACTTGAGACCAT
1 TTTCT-CTTAAAAACAAATGTCGTCTCGCTAGAGACAAT
*
1317671 TTT-TCTTCAAACACAAAT
1 TTTCTCTT-AAAAACAAAT
1317689 TCAGAATTAT
Statistics
Matches: 138, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
34 6 0.04
35 22 0.16
36 6 0.04
37 55 0.40
38 49 0.36
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (38 bp):
TTTCTCTTAAAAACAAATGTCGTCTCGCTAGAGACAAT
Found at i:1317550 original size:37 final size:37
Alignment explanation
Indices: 1317507--1317689 Score: 178
Period size: 37 Copynumber: 4.9 Consensus size: 37
1317497 ACAAAGTGTC
* *
1317507 GTCTCGCTAGATACAATTTTTCTTAAAAACAAATTTT
1 GTCTCGCTTGAGACAATTTTTCTTAAAAACAAATTTT
*
1317544 GTCTCGCTTGAGACAGTTTTCTCTTAAAAA-AAA--TT
1 GTCTCGCTTGAGACAATTTT-TCTTAAAAACAAATTTT
* * *
1317579 GTCTCGCTTGAGA-TAGTTTTCTCTAAAAAGAAAATTTT
1 GTCTCGCTTGAGACAATTTTTCT-TAAAAA-CAAATTTT
* * *
1317617 GTCTCGCTTGAGACAATTTTTAC-TCAGAACAAATTTC
1 GTCTCGCTTGAGACAATTTTT-CTTAAAAACAAATTTT
* * *
1317654 GTCTCACTTGAGACCATTTTTCTTCAAACACAAATT
1 GTCTCGCTTGAGACAATTTTTCTT-AAAAACAAATT
1317690 CAGAATTATT
Statistics
Matches: 119, Mismatches: 17, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
33 3 0.03
34 9 0.08
35 15 0.13
36 4 0.03
37 46 0.39
38 36 0.30
39 5 0.04
40 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.38
Consensus pattern (37 bp):
GTCTCGCTTGAGACAATTTTTCTTAAAAACAAATTTT
Found at i:1317651 original size:73 final size:73
Alignment explanation
Indices: 1317524--1317666 Score: 184
Period size: 73 Copynumber: 2.0 Consensus size: 73
1317514 TAGATACAAT
* * * *
1317524 TTTTCTTAAAAACAAATTTTGTCTCGCTTGAGACAGTTTTCTCTTAAAAAAAA-TT-GTCTCGCT
1 TTTTCTTAAAAAAAAATTTTGTCTCGCTTGAGACAATTTTCTCTCAAAAAAAATTTCGTCTCACT
1317587 TGAGATAG
66 TGAGATAG
* *
1317595 TTTTCTCTAAAAAGAAAATTTTGTCTCGCTTGAGACAATTTT-TACTCAGAACAAATTTCGTCTC
1 TTTTCT-TAAAAA-AAAATTTTGTCTCGCTTGAGACAATTTTCT-CTCAAAAAAAATTTCGTCTC
1317659 ACTTGAGA
63 ACTTGAGA
1317667 CCATTTTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
71 6 0.10
72 7 0.11
73 34 0.56
74 2 0.03
75 12 0.20
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (73 bp):
TTTTCTTAAAAAAAAATTTTGTCTCGCTTGAGACAATTTTCTCTCAAAAAAAATTTCGTCTCACT
TGAGATAG
Found at i:1317824 original size:67 final size:67
Alignment explanation
Indices: 1317716--1318047 Score: 445
Period size: 67 Copynumber: 5.0 Consensus size: 67
1317706 GAAACAAAAT
* * * * * *
1317716 TACAAATCTTTGAGTTTGTTTCCGTTGAAAGAAAGTTTTGTCTCCCTTGATACAATTTCTCTTGA
1 TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCCATTGAGACAGTTTCTCTTGA
1317781 AA
66 AA
* * ** *
1317783 TACAAATATTTGAGTCTGTTTCCCTTGAAACAAAATTTTGTCTCTTTTGAGACAATTTCTCTTGA
1 TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCCATTGAGACAGTTTCTCTTGA
1317848 AA
66 AA
* * * *
1317850 TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTATCTCCAATGAGATAGCTTCTCTTGA
1 TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCCATTGAGACAGTTTCTCTTGA
1317915 AA
66 AA
* * *
1317917 TACAAATATTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCTC-TTGAAACAGTTTCTCTTG
1 TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTC-CATTGAGACAGTTTCTCTTG
1317981 -AA
65 AAA
* * *
1317983 -AGAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTATCTCCATTGAGACAGTTTCTATTGA
1 TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCCATTGAGACAGTTTCTCTTGA
1318047 A
66 A
1318048 GCAAATCCCT
Statistics
Matches: 232, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
64 1 0.00
65 55 0.24
66 3 0.01
67 172 0.74
68 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (67 bp):
TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCCATTGAGACAGTTTCTCTTGA
AA
Found at i:1317885 original size:134 final size:133
Alignment explanation
Indices: 1317716--1318047 Score: 495
Period size: 134 Copynumber: 2.5 Consensus size: 133
1317706 GAAACAAAAT
* * * * * * *
1317716 TACAAATCTTTGAGTTTGTTTCCGTTGAAAGAAAGTTTTGTCTCCCTTGATACAATTTCTCTTGA
1 TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTATCTCCATTGAGACAGTTTCTCTTGA
* *
1317781 AATACAAATATTTGAGTCTGTTTCCCTTGAAACAAAATTTTGTCTCTTTTGAGACAATTTCTCTT
66 AATACAAATATTTGAGTCTGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAAACAATTTCTCTT
1317846 GAAA
131 G-AA
* * *
1317850 TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTATCTCCAATGAGATAGCTTCTCTTGA
1 TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTATCTCCATTGAGACAGTTTCTCTTGA
* * *
1317915 AATACAAATATTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAAACAGTTTCTCTT
66 AATACAAATATTTGAGTCTGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAAACAATTTCTCTT
1317980 GAA
131 GAA
* *
1317983 -AGAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTATCTCCATTGAGACAGTTTCTATTGA
1 TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTATCTCCATTGAGACAGTTTCTCTTGA
1318047 A
66 A
1318048 GCAAATCCCT
Statistics
Matches: 178, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
132 60 0.34
133 2 0.01
134 116 0.65
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (133 bp):
TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTATCTCCATTGAGACAGTTTCTCTTGA
AATACAAATATTTGAGTCTGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAAACAATTTCTCTT
GAA
Found at i:1318259 original size:40 final size:40
Alignment explanation
Indices: 1318204--1318342 Score: 127
Period size: 40 Copynumber: 3.4 Consensus size: 40
1318194 TGGCATGTCA
*
1318204 TCCTCATCATATAGGAACCGTGTCATCTACTGACCATACC
1 TCCTCATCACATAGGAACCGTGTCATCTACTGACCATACC
* * * * *
1318244 TCCTCATCACGTAGGAGCCGTGTCACCTCTAAATAACCAGT-CA
1 TCCTCATCACATAGGAACCGTGTCA--TCT-ACTGACCA-TACC
* * * * * *
1318287 TCCTCATCGCGTAGGAACTGTTTCATCCACTGACCATATC
1 TCCTCATCACATAGGAACCGTGTCATCTACTGACCATACC
1318327 TCCTCATCACATAGGA
1 TCCTCATCACATAGGA
1318343 GTTGTGTCAC
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
39 1 0.01
40 42 0.55
41 2 0.03
42 3 0.04
43 28 0.36
44 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (40 bp):
TCCTCATCACATAGGAACCGTGTCATCTACTGACCATACC
Found at i:1318293 original size:83 final size:83
Alignment explanation
Indices: 1318200--1318354 Score: 220
Period size: 83 Copynumber: 1.9 Consensus size: 83
1318190 AAGATGGCAT
* * *
1318200 GTCATCCTCATCATATAGGAACCGTGTCATCTACTGACCATACCTCCTCATCACGTAGGAGCCGT
1 GTCATCCTCATCACATAGGAACCGTGTCATCCACTGACCATACCTCCTCATCACATAGGAGCCGT
1318265 GTCACCTCTAAATAACCA
66 GTCACCTCTAAATAACCA
* * * * * **
1318283 GTCATCCTCATCGCGTAGGAACTGTTTCATCCACTGACCATATCTCCTCATCACATAGGAGTTGT
1 GTCATCCTCATCACATAGGAACCGTGTCATCCACTGACCATACCTCCTCATCACATAGGAGCCGT
1318348 GTCACCT
66 GTCACCT
1318355 TTAGATGACC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 62 1.00
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (83 bp):
GTCATCCTCATCACATAGGAACCGTGTCATCCACTGACCATACCTCCTCATCACATAGGAGCCGT
GTCACCTCTAAATAACCA
Found at i:1319508 original size:21 final size:21
Alignment explanation
Indices: 1319458--1319513 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
1319448 TTGCTTCGAT
* *
1319458 TTCAGTATTATCACCGTTGACC
1 TTCAGTATCATCA-TGTTGACC
* *
1319480 AT-ATTATCATCATGTTGACC
1 TTCAGTATCATCATGTTGACC
1319500 TTCAGTATCATCAT
1 TTCAGTATCATCAT
1319514 TTATGACCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 8 0.30
21 18 0.67
22 1 0.04
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (21 bp):
TTCAGTATCATCATGTTGACC
Found at i:1322961 original size:46 final size:46
Alignment explanation
Indices: 1322864--1323039 Score: 277
Period size: 46 Copynumber: 3.9 Consensus size: 46
1322854 AATGATAAAC
* *
1322864 TGGTAAAATAAGCTTACGAGCTTAT-GGAAT-AATGGCAAGTATAT
1 TGGTAAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATAT
1322908 TGGTAAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATAT
1 TGGTAAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATAT
* * *
1322954 TGGTAAAATAAGCTTGCGAGCTTATGGTATTAAATGGAAAGTATAT
1 TGGTAAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATAT
*
1323000 TGGTAAAATAAGCTTACGAGCTTATGGGA-TAAATTGTAAG
1 TGGTAAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAG
1323040 AGATTTTATC
Statistics
Matches: 121, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
44 25 0.21
45 13 0.11
46 83 0.69
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (46 bp):
TGGTAAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATAT
Found at i:1325687 original size:6 final size:6
Alignment explanation
Indices: 1325678--1325732 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
1325668 TAAAAAGAAT
* * *
1325678 AAAAAG AAAAAG AAAACG AAGAAAA AAAATAG AACAAG -AAAAG -AAAAG
1 AAAAAG AAAAAG AAAAAG AA-AAAG AAAA-AG AAAAAG AAAAAG AAAAAG
1325726 AAAAAG A
1 AAAAAG A
1325733 GGAAAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
5 9 0.22
6 23 0.57
7 8 0.20
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:1325719 original size:16 final size:16
Alignment explanation
Indices: 1325669--1325729 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 16
1325659 ATATAAGAAT
*
1325669 AAAAAGAATA-AAAAG
1 AAAAAGAAAAGAAAAG
1325684 AAAAAGAAAACG--AAG
1 AAAAAGAAAA-GAAAAG
1325699 AAAAA-AAATAGAACAAG
1 AAAAAGAAA-AGAA-AAG
1325716 -AAAAGAAAAGAAAA
1 AAAAAGAAAAGAAAA
1325730 AGAGGAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
14 4 0.11
15 20 0.53
16 8 0.21
17 6 0.16
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAAGAAAAG
Found at i:1325729 original size:26 final size:26
Alignment explanation
Indices: 1325670--1325744 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
1325660 TATAAGAATA
*
1325670 AAAAGAATAAAAAGAAAAAGAAAACG
1 AAAAGAAAAAAAAGAAAAAGAAAACG
* *
1325696 AAGAA-AAAAAATAGAACAAGAAAA-G
1 AA-AAGAAAAAAAAGAAAAAGAAAACG
* * *
1325721 AAAAGAAAAAGAGGAAAAATAAAA
1 AAAAGAAAAAAAAGAAAAAGAAAA
1325745 GATTATTGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
24 2 0.05
25 17 0.44
26 18 0.46
27 2 0.05
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.04
Consensus pattern (26 bp):
AAAAGAAAAAAAAGAAAAAGAAAACG
Found at i:1329584 original size:46 final size:45
Alignment explanation
Indices: 1329489--1329661 Score: 260
Period size: 46 Copynumber: 3.8 Consensus size: 45
1329479 GATAAACTGA
* *
1329489 TAAAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGG
1 TAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGG
*
1329533 TAAAATAAGCTTATGAGCTTATGAGATTAAATGGTAAGTATATTGG
1 TAAAATAAGCTTACGAGCTTATG-GATTAAATGGTAAGTATATTGG
* *
1329579 CAAAATAAGCTTACGAGTTTATGGTATTAAATGGTAAGTATATTGG
1 TAAAATAAGCTTACGAGCTTATGG-ATTAAATGGTAAGTATATTGG
1329625 TAAAATAAGCTTACGAGCTTATGGGA-TAAATGGTAAG
1 TAAAATAAGCTTACGAGCTTAT-GGATTAAATGGTAAG
1329662 AGATTTTATC
Statistics
Matches: 117, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
44 22 0.19
45 15 0.13
46 78 0.67
47 2 0.02
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.32
Consensus pattern (45 bp):
TAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGG
Found at i:1330797 original size:30 final size:30
Alignment explanation
Indices: 1330756--1330816 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
1330746 CCGTGTGTTG
*
1330756 CGCCGATGGT-CCTGACAGAAACTCCTCATA
1 CGCCGACGGTCCCT-ACAGAAACTCCTCATA
1330786 CGCCGACGGTCCCTACAGAAACTCCTCATA
1 CGCCGACGGTCCCTACAGAAACTCCTCATA
1330816 C
1 C
1330817 TCTTCATTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.26, C:0.38, G:0.18, T:0.18
Consensus pattern (30 bp):
CGCCGACGGTCCCTACAGAAACTCCTCATA
Found at i:1332085 original size:62 final size:62
Alignment explanation
Indices: 1331960--1332076 Score: 189
Period size: 62 Copynumber: 1.9 Consensus size: 62
1331950 TTTTGACTAT
1331960 ACTCAATTTGAAAAAACTCGACTTGAATTTACTTCAAGTAGTAATTTCATAAACTCAACTCG
1 ACTCAATTTGAAAAAACTCGACTTGAATTTACTTCAAGTAGTAATTTCATAAACTCAACTCG
* * * * *
1332022 ACTCGATTTGAGAAAACTTGACTTGAATTTACTTCAAGTTGTAATTTTATAAACT
1 ACTCAATTTGAAAAAACTCGACTTGAATTTACTTCAAGTAGTAATTTCATAAACT
1332077 AGATTCGACC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (62 bp):
ACTCAATTTGAAAAAACTCGACTTGAATTTACTTCAAGTAGTAATTTCATAAACTCAACTCG
Found at i:1333752 original size:32 final size:32
Alignment explanation
Indices: 1333694--1333786 Score: 134
Period size: 32 Copynumber: 2.9 Consensus size: 32
1333684 TTAGTTTGTG
1333694 CAATAAAATAAAATGTTAGTAA-GTTAGTAAGAA
1 CAATAAAATAAAA-GTTAG-AATGTTAGTAAGAA
* * *
1333727 CAATAAAGTAAAAGTTAGAATGTTAGTATGAG
1 CAATAAAATAAAAGTTAGAATGTTAGTAAGAA
1333759 CAATAAAATAAAAGTTAGAATGTTAGTA
1 CAATAAAATAAAAGTTAGAATGTTAGTA
1333787 CGTTAGAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
31 2 0.04
32 41 0.75
33 12 0.22
ACGTcount: A:0.52, C:0.03, G:0.17, T:0.28
Consensus pattern (32 bp):
CAATAAAATAAAAGTTAGAATGTTAGTAAGAA
Found at i:1336914 original size:32 final size:32
Alignment explanation
Indices: 1336843--1336935 Score: 107
Period size: 32 Copynumber: 2.9 Consensus size: 32
1336833 TTAGTTTGTG
* * *
1336843 CAATAAAATAAAATGTTAGTAA-GTTAATAAGAA
1 CAATAAAATAAAA-GTTA-AAATGTTAGTATGAA
* *
1336876 CAATAAAGTAAAATTTAAAATGTTAGTATGAA
1 CAATAAAATAAAAGTTAAAATGTTAGTATGAA
*
1336908 CAATAAAATAAAAGTTATAATGTTAGTA
1 CAATAAAATAAAAGTTAAAATGTTAGTA
1336936 AGTTAGAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
31 2 0.04
32 37 0.73
33 12 0.24
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (32 bp):
CAATAAAATAAAAGTTAAAATGTTAGTATGAA
Found at i:1337072 original size:109 final size:108
Alignment explanation
Indices: 1336953--1337235 Score: 390
Period size: 109 Copynumber: 2.6 Consensus size: 108
1336943 AACGTTAGTG
* * * *
1336953 GTTAGCAGAGTTTGGACTATAATAATGTGGATCGTACTCGGATCAGGTCACCACAAGGTCGAATA
1 GTTAGTAGAGTCTGAACTATAATAATGTGGATCGTACTCGGATCAGATCACCACAAGGTCGAATA
* *
1337018 ATAAATCAAACAAATTAATAAAAATAATAAAAAAACAGTTAGGA
66 ATAAATCAAAAAAATTAATAAAAATAAT-AAAAAACAGTTAAGA
* * *
1337062 GTTAGTAGAGTCTAAACCATAATAATGTGGATCGTA-TCGTGAATC-GAATCACCACAAGGTCAA
1 GTTAGTAGAGTCTGAACTATAATAATGTGGATCGTACTCG-G-ATCAG-ATCACCACAAGGTCGA
*
1337125 ATAATAAATCAAAAAAATTAATAAAAATAATAAAAAATAGTTAAGA
63 ATAATAAATCAAAAAAATTAATAAAAATAATAAAAAACAGTTAAGA
* * *
1337171 GTTAATAGAGTCTGAACTATAATAATGTGGATCGTACCCTAGATCAGATCACCACAAGGTCGAAT
1 GTTAGTAGAGTCTGAACTATAATAATGTGGATCGTACTC-GGATCAGATCACCACAAGGTCGAAT
1337236 CGAATAAGAG
Statistics
Matches: 152, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
108 3 0.02
109 99 0.65
110 50 0.33
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (108 bp):
GTTAGTAGAGTCTGAACTATAATAATGTGGATCGTACTCGGATCAGATCACCACAAGGTCGAATA
ATAAATCAAAAAAATTAATAAAAATAATAAAAAACAGTTAAGA
Found at i:1338059 original size:12 final size:12
Alignment explanation
Indices: 1338044--1338072 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
1338034 CCCAAAAAAT
1338044 GAAAGAAAATAA
1 GAAAGAAAATAA
1338056 GAAAG-AAATAA
1 GAAAGAAAATAA
1338067 GAAAGA
1 GAAAGA
1338073 GAAAATTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (12 bp):
GAAAGAAAATAA
Found at i:1342748 original size:18 final size:18
Alignment explanation
Indices: 1342712--1342774 Score: 90
Period size: 18 Copynumber: 3.5 Consensus size: 18
1342702 TCATGGAATG
* * *
1342712 TAAGATTACCAGTGAGAA
1 TAAGATTACCGGCGGGAA
*
1342730 TAGGATTACCGGCGGGAA
1 TAAGATTACCGGCGGGAA
1342748 TAAGATTACCGGCGGGAA
1 TAAGATTACCGGCGGGAA
1342766 TAAGATTAC
1 TAAGATTAC
1342775 TGGGAATGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.21
Consensus pattern (18 bp):
TAAGATTACCGGCGGGAA
Found at i:1345787 original size:20 final size:20
Alignment explanation
Indices: 1345762--1345802 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1345752 AACACAATAT
1345762 ATGATTTAAAAAATTAATTA
1 ATGATTTAAAAAATTAATTA
1345782 ATGATTTAAAAAATTAATTA
1 ATGATTTAAAAAATTAATTA
1345802 A
1 A
1345803 ATATGCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
ATGATTTAAAAAATTAATTA
Found at i:1346000 original size:79 final size:80
Alignment explanation
Indices: 1345903--1346062 Score: 259
Period size: 79 Copynumber: 2.0 Consensus size: 80
1345893 TTCACCAAAT
* * * *
1345903 AGGGTCATTATCCCGGAATAATCCGTTGGATCACGGTTCATC-GTATTACAATAGAAACCTATTC
1 AGGGTCATGATCCCGGAATAACCCGTTGGAACACGGTTCATCAGTATTACAATAGAAACCTACTC
*
1345967 CCTAGTTTCAAAGAA
66 CCAAGTTTCAAAGAA
1345982 AGGGTCATGATCCCGGAATAACCCGTTGGAACACGGTTCATCAAGTATTACAATAGAAACCTACT
1 AGGGTCATGATCCCGGAATAACCCGTTGGAACACGGTTCATC-AGTATTACAATAGAAACCTACT
1346047 CCCAAGTTTCAAAGAA
65 CCCAAGTTTCAAAGAA
1346063 GCTATTCCAT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
79 39 0.53
81 35 0.47
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (80 bp):
AGGGTCATGATCCCGGAATAACCCGTTGGAACACGGTTCATCAGTATTACAATAGAAACCTACTC
CCAAGTTTCAAAGAA
Found at i:1346992 original size:3 final size:3
Alignment explanation
Indices: 1346984--1347008 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1346974 GGTCGTAAAA
1346984 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
1347009 ACTTTTTTAC
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1347123 original size:17 final size:16
Alignment explanation
Indices: 1347101--1347141 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
1347091 TTACCAAGAT
1347101 CCGACCCGGATCCAGA
1 CCGACCCGGATCCAGA
*
1347117 CCCGACCCAGATCCAGA
1 -CCGACCCGGATCCAGA
1347134 CCGACCCG
1 CCGACCCG
1347142 TGACCATCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.24, C:0.49, G:0.22, T:0.05
Consensus pattern (16 bp):
CCGACCCGGATCCAGA
Found at i:1348989 original size:5 final size:5
Alignment explanation
Indices: 1348976--1349006 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
1348966 CTCTTTTCAC
*
1348976 TTTTA TTTTG TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1349007 CTTTTCGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:1355033 original size:21 final size:21
Alignment explanation
Indices: 1355007--1355046 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1354997 CAGAACCCCA
*
1355007 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1355028 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1355047 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:1355081 original size:20 final size:21
Alignment explanation
Indices: 1355027--1355089 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
1355017 GATTCCCCTG
1355027 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
1355051 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
1355071 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
1355090 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:1358939 original size:22 final size:21
Alignment explanation
Indices: 1358897--1358936 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1358887 GAGTTTGTTT
*
1358897 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1358918 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1358937 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1364176 original size:37 final size:36
Alignment explanation
Indices: 1364005--1364194 Score: 157
Period size: 38 Copynumber: 5.1 Consensus size: 36
1363995 GAGATTGTTC
* * * * *
1364005 TCTCAAAACAAAGTGTCGTCTCACTAGATACAATTTT
1 TCTCAAAACAAA-TTTTGTCTCGCTTGAGACAATTTT
* * *
1364042 TCTTAAAAACAAATATTGTCTCGCTTGAGACAGTTTT
1 TC-TCAAAACAAATTTTGTCTCGCTTGAGACAATTTT
* * *
1364079 CTCTTAAAAACAAATTTTGTCTTGCTTGAGAC-AGTTT
1 -TC-TCAAAACAAATTTTGTCTCGCTTGAGACAATTTT
*
1364116 TCTCTAAAAGGAAAATTTTGTCTCGCTTGAGACAATTTT
1 TCTC-AAAA--CAAATTTTGTCTCGCTTGAGACAATTTT
* * * *
1364155 TACTCAGAACAAATTTCGTCTCACTTGAGACCATTTT
1 T-CTCAAAACAAATTTTGTCTCGCTTGAGACAATTTT
1364192 TCT
1 TCT
1364195 TTAAAACACA
Statistics
Matches: 126, Mismatches: 20, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
35 1 0.01
36 8 0.06
37 48 0.38
38 58 0.46
39 8 0.06
40 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (36 bp):
TCTCAAAACAAATTTTGTCTCGCTTGAGACAATTTT
Found at i:1364208 original size:76 final size:75
Alignment explanation
Indices: 1364002--1364208 Score: 215
Period size: 76 Copynumber: 2.7 Consensus size: 75
1363992 TTTGAGATTG
* * * * *
1364002 TTCTCTCAAAACAAAGTGTCGTCTCACTAGATACAATTTTTC-TTAAAAACAAATATTGTCTCGC
1 TTCTCTCAAAACAAA-TTTCGTCTCACTTGAGACCATTTTTCTTTAAAAACAAATTTTGTCTCGC
*
1364066 TTGAGACAGTT
65 TTGAGACAATT
* * ** * *
1364077 TTCTCTTAAAAACAAATTTTGTCTTGCTTGAGA-CAGTTTTCTCTAAAAGGA-AAATTTTGTCTC
1 TTCTC-TCAAAACAAATTTCGTCTCACTTGAGACCATTTTTCTTTAAAA--ACAAATTTTGTCTC
1364140 GCTTGAGACAATT
63 GCTTGAGACAATT
*
1364153 TT-TACTCAGAACAAATTTCGTCTCACTTGAGACCATTTTTCTTTAAAACACAAATT
1 TTCT-CTCAAAACAAATTTCGTCTCACTTGAGACCATTTTTCTTTAAAA-ACAAATT
1364209 CTGAAATTGT
Statistics
Matches: 105, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
74 6 0.06
75 45 0.43
76 53 0.50
77 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (75 bp):
TTCTCTCAAAACAAATTTCGTCTCACTTGAGACCATTTTTCTTTAAAAACAAATTTTGTCTCGCT
TGAGACAATT
Found at i:1364323 original size:67 final size:67
Alignment explanation
Indices: 1364236--1364419 Score: 278
Period size: 67 Copynumber: 2.7 Consensus size: 67
1364226 GAAACAAAAT
* *
1364236 TACAAATCTTTAAGTTTGTTTACCTTGAAACAAAGTTTTGTCTCCCTTGAGACAATTTCTCTTGA
1 TACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAATTTCTCTTGA
1364301 AA
66 AA
* * *
1364303 TACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTTA
1 TACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAATTTCTCTTGA
1364368 AA
66 AA
* * * * *
1364370 AACAAATATTTGATTTTGTTTCCCTTAAAACAAATTTTTGTCTCCCTTGA
1 TACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGA
1364420 AACACAAATC
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 106 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.41
Consensus pattern (67 bp):
TACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAATTTCTCTTGA
AA
Found at i:1364401 original size:28 final size:28
Alignment explanation
Indices: 1364368--1364455 Score: 80
Period size: 22 Copynumber: 3.3 Consensus size: 28
1364358 TTTCTCTTTA
1364368 AAAACAAATATTTGATTTTGTTTCCCTT
1 AAAACAAATATTTGATTTTGTTTCCCTT
*
1364396 AAAAC-AA-A--T--TTTTGTCTCCCTT
1 AAAACAAATATTTGATTTTGTTTCCCTT
* * *
1364418 GAAACACAAATCTTTGAGTATGTTTCCCTT
1 -AAA-ACAAATATTTGATTTTGTTTCCCTT
1364448 AAAACAAA
1 AAAACAAA
1364456 GTTTTGTCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
22 12 0.26
23 3 0.06
24 3 0.06
25 2 0.04
26 1 0.02
27 2 0.04
28 11 0.23
29 3 0.06
30 10 0.21
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (28 bp):
AAAACAAATATTTGATTTTGTTTCCCTT
Found at i:1364409 original size:22 final size:22
Alignment explanation
Indices: 1364383--1364480 Score: 72
Period size: 22 Copynumber: 4.1 Consensus size: 22
1364373 AAATATTTGA
*
1364383 TTTTGTTTCCCTTAAAACAAAT
1 TTTTGTCTCCCTTAAAACAAAT
1364405 TTTTGTCTCCCTTGAAACACAAATCT
1 TTTTGTCTCCCTT-AAA-ACAAA--T
* *
1364431 TTGAGTATGTTTCCCTTAAAACAAAG
1 TT---T-TGTCTCCCTTAAAACAAAT
* *
1364457 TTTTGTCTCTCTTAAGAC-AAT
1 TTTTGTCTCCCTTAAAACAAAT
1364478 TTT
1 TTT
1364481 CTTGAAACAA
Statistics
Matches: 61, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
21 5 0.08
22 24 0.39
23 4 0.07
24 5 0.08
26 5 0.08
28 5 0.08
29 4 0.07
30 9 0.15
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (22 bp):
TTTTGTCTCCCTTAAAACAAAT
Found at i:1364442 original size:119 final size:116
Alignment explanation
Indices: 1364296--1364519 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 116
1364286 GACAATTTCT
* * * * *
1364296 CTTGAAATACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTT
1 CTTGAAACACAAATCTTTGAGTATGTTTCCCTTAAAACAAAGTTTTGTCTCCCTTAAGACAATTT
*
1364361 CTCTTTAAAAACAAATATTTGATTTTGTTTCCCTTAAAACAAATTTTTGTCTCC
66 -TC-TT-AAAACAAATATTTGAGTTTGTTTCCCTTAAAACAAATTTTTGTCTCC
*
1364415 CTTGAAACACAAATCTTTGAGTATGTTTCCCTTAAAACAAAGTTTTGTCTCTCTTAAGACAATTT
1 CTTGAAACACAAATCTTTGAGTATGTTTCCCTTAAAACAAAGTTTTGTCTCCCTTAAGACAATTT
* * *
1364480 TCTTGAAACAAATCTTTGAGTTTGTTTCCCTTGAAACAAA
66 TCTTAAAACAAATATTTGAGTTTGTTTCCCTTAAAACAAA
1364520 GGTTTCTCTC
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
116 32 0.34
117 2 0.02
118 2 0.02
119 59 0.62
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (116 bp):
CTTGAAACACAAATCTTTGAGTATGTTTCCCTTAAAACAAAGTTTTGTCTCCCTTAAGACAATTT
TCTTAAAACAAATATTTGAGTTTGTTTCCCTTAAAACAAATTTTTGTCTCC
Found at i:1364518 original size:64 final size:65
Alignment explanation
Indices: 1364423--1364558 Score: 211
Period size: 64 Copynumber: 2.1 Consensus size: 65
1364413 CCCTTGAAAC
* *
1364423 ACAAATCTTTGAGTATGTTTCCCTTAAAACAAAGTTTTGTCTCTCTTAAGACAATTT-TCTTGAA
1 ACAAATCTTTGAGTATGTTTCCCTTAAAACAAAGGTTTCTCTCTCTTAAGACAATTTATCTTGAA
* * * *
1364487 ACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGGTTTCTCTCTCTTGAGACAGTTTATCTTGAA
1 ACAAATCTTTGAGTATGTTTCCCTTAAAACAAAGGTTTCTCTCTCTTAAGACAATTTATCTTGAA
1364552 ACAAATC
1 ACAAATC
1364559 CCTAAAGATG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
64 51 0.78
65 14 0.22
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (65 bp):
ACAAATCTTTGAGTATGTTTCCCTTAAAACAAAGGTTTCTCTCTCTTAAGACAATTTATCTTGAA
Found at i:1364795 original size:131 final size:131
Alignment explanation
Indices: 1364556--1364813 Score: 313
Period size: 131 Copynumber: 2.0 Consensus size: 131
1364546 CTTGAAACAA
* * * * *
1364556 ATCCCTAAAGATGGCCAGTCGTCCTCATCACGTAAGAATCATGTCATCCCCTGACCAGATCTCCT
1 ATCCCTAAAGATGGCCAGCCATCCTCATCACGTAAGAATCATGCCATCCACTGACCAGACCTCCT
* * *
1364621 CATCACGTAGGAGTTGTGTCAACCTCAGGTAACCAACCGTCCTCATCACATAGGAACTATGTTAT
66 CATCACGTAGGAGTCGTGTCAACCTCAGATAACCAACCATCCTCATCACATAGGAACTATGTTAT
1364686 C
131 C
* * * *
1364687 ATCCCTAAAGATGGCCTA-CCATTCTCATTACGTAGGAATCGTGCCATCCACTGACCAGACCTCC
1 ATCCCTAAAGATGGCC-AGCCATCCTCATCACGTAAGAATCATGCCATCCACTGACCAGACCTCC
* * ** * * *
1364751 TCATCACGTAGGAGTCGTGTC-TCCTCTAGATAACTAGTCATCCTCATCGCGTAGGAGCTATGT
65 TCATCACGTAGGAGTCGTGTCAACCTC-AGATAACCAACCATCCTCATCACATAGGAACTATGT
1364814 CATCCACCGA
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
130 4 0.04
131 101 0.95
132 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (131 bp):
ATCCCTAAAGATGGCCAGCCATCCTCATCACGTAAGAATCATGCCATCCACTGACCAGACCTCCT
CATCACGTAGGAGTCGTGTCAACCTCAGATAACCAACCATCCTCATCACATAGGAACTATGTTAT
C
Found at i:1364855 original size:40 final size:40
Alignment explanation
Indices: 1364710--1364855 Score: 114
Period size: 40 Copynumber: 3.6 Consensus size: 40
1364700 GCCTACCATT
* ** * * * *
1364710 CTCATTACGTAGGAATCGTGCCATCCACTGACCAGACCTC
1 CTCATCACGTAGGAGCCGTGTCATCCACAGACCATATCTC
* * **
1364750 CTCATCACGTAGGAGTCGTGTC-TCCTCTAGATAACTAGTCATC
1 CTCATCACGTAGGAGCCGTGTCATCCAC-AGACCA-TA-TC-TC
* ** *
1364793 CTCATCGCGTAGGAGCTATGTCATCCACCGACCATATCTC
1 CTCATCACGTAGGAGCCGTGTCATCCACAGACCATATCTC
1364833 CTCATCACGTAGGAGCCGTGTCA
1 CTCATCACGTAGGAGCCGTGTCA
1364856 CCCTTAGACG
Statistics
Matches: 81, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
39 4 0.05
40 44 0.54
41 3 0.04
42 3 0.04
43 23 0.28
44 4 0.05
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (40 bp):
CTCATCACGTAGGAGCCGTGTCATCCACAGACCATATCTC
Found at i:1367073 original size:38 final size:38
Alignment explanation
Indices: 1367029--1367123 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 38
1367019 ATTTCTCTCG
* *
1367029 AAACAAAGTGTCGTCTTGCTAGATACAATTTT-TCTTAA
1 AAACAAA-TGTCGTCTCGCTAGAGACAATTTTCTCTTAA
** * *
1367067 AAACAAATGTTTTCTCGCTTGAGACAGTTTTCTCTTAA
1 AAACAAATGTCGTCTCGCTAGAGACAATTTTCTCTTAA
* *
1367105 AAACAAATTTTGTCTCGCT
1 AAACAAATGTCGTCTCGCT
1367124 TAAGATAGCT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 18 0.38
38 30 0.62
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.38
Consensus pattern (38 bp):
AAACAAATGTCGTCTCGCTAGAGACAATTTTCTCTTAA
Found at i:1367124 original size:38 final size:38
Alignment explanation
Indices: 1367057--1367166 Score: 136
Period size: 38 Copynumber: 2.9 Consensus size: 38
1367047 CTAGATACAA
1367057 TTTT-TCTTAAAAACAAATGTTT-TCTCGCTTGAGACAG
1 TTTTCTCTTAAAAACAAAT-TTTGTCTCGCTTGAGACAG
* *
1367094 TTTTCTCTTAAAAACAAATTTTGTCTCGCTTAAGATAG
1 TTTTCTCTTAAAAACAAATTTTGTCTCGCTTGAGACAG
* * *
1367132 CTTTCTC-TAAAAAGCAAATTCTGTCTCACTTGAGA
1 TTTTCTCTTAAAAA-CAAATTTTGTCTCGCTTGAGA
1367167 TAAGTTTTAC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
37 13 0.20
38 51 0.80
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (38 bp):
TTTTCTCTTAAAAACAAATTTTGTCTCGCTTGAGACAG
Found at i:1367327 original size:67 final size:67
Alignment explanation
Indices: 1367254--1367584 Score: 488
Period size: 67 Copynumber: 5.0 Consensus size: 67
1367244 AAACAAAATT
1367254 ACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCATTGAGACAGTTTCTCTTGAA
1 ACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCATTGAGACAGTTTCTCTTGAA
*
1367319 AT
66 AC
* * *
1367321 ACAAATCTTTGAGTTTGTTTCCCATGAAACAAAGTTTTGTCTCCCTTGCGACAGTTTCTCTTGAA
1 ACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCATTGAGACAGTTTCTCTTGAA
1367386 AC
66 AC
* * * * * * *
1367388 AAAAATCTTTGAGTATGTTTCCCTTGAAATAAAGTTTTTTCTCCCTCGAGACAGTTTTTCTTGAA
1 ACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCATTGAGACAGTTTCTCTTGAA
1367453 AC
66 AC
* * * *
1367455 ACAAATCTATGAATCTGTTTCCCTTGAAACAAAGTTTTGTCTCTC-TTGAGACAGTTTCTCATG-
1 ACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTC-CATTGAGACAGTTTCTCTTGA
1367518 AA-
65 AAC
*
1367520 ACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCATTGAGACAGTTTCTATTGAA
1 ACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCATTGAGACAGTTTCTCTTGAA
1367585 GCAAATCCCT
Statistics
Matches: 235, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
64 1 0.00
65 56 0.24
66 3 0.01
67 174 0.74
68 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (67 bp):
ACAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCCATTGAGACAGTTTCTCTTGAA
AC
Found at i:1367665 original size:40 final size:40
Alignment explanation
Indices: 1367607--1367726 Score: 116
Period size: 43 Copynumber: 2.9 Consensus size: 40
1367597 AGATGGCCAA
* *
1367607 TCGTCCTCATCACATAGGAACTGTGTCATCCCCCGACTAG
1 TCGTCCTCATCACGTAGGAACTGTGTCATCCACCGACTAG
* ** * ***
1367647 ATC-TCCTCATCACGTAGGAGCCATGTCAACCTGAGATAACTAG
1 -TCGTCCTCATCACGTAGGAACTGTGTCATCC--A-CCGACTAG
1367690 TCGTCCTCATCACGTAGGAACTGTGTCATCCACCGAC
1 TCGTCCTCATCACGTAGGAACTGTGTCATCCACCGAC
1367727 CAAAACTCTT
Statistics
Matches: 59, Mismatches: 16, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
40 25 0.42
41 3 0.05
42 2 0.03
43 29 0.49
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (40 bp):
TCGTCCTCATCACGTAGGAACTGTGTCATCCACCGACTAG
Found at i:1367923 original size:3 final size:3
Alignment explanation
Indices: 1367908--1367977 Score: 95
Period size: 3 Copynumber: 22.7 Consensus size: 3
1367898 GTCATAAAAA
*
1367908 TAT TAT TAG TAT TAT TAAT TAT TAT TAT TAT TAAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* *
1367955 TAT TAT TAT TAT CAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
1367978 ACTTTTTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
3 53 0.90
4 6 0.10
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1367930 original size:16 final size:16
Alignment explanation
Indices: 1367909--1367966 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
1367899 TCATAAAAAT
*
1367909 ATTATTAGTATTATTA
1 ATTATTATTATTATTA
1367925 ATTATTATTATTATTA
1 ATTATTATTATTATTA
1367941 ATTATTATTATTATT-
1 ATTATTATTATTATTA
1367956 ATTATTATTAT
1 ATTATTATTAT
1367967 CAATATTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
15 11 0.27
16 30 0.73
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTATTATTATTATTA
Found at i:1368015 original size:12 final size:12
Alignment explanation
Indices: 1367998--1368027 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1367988 TATTTTAAAG
1367998 GGCCCAACCAGA
1 GGCCCAACCAGA
1368010 GGCCCAACCAGA
1 GGCCCAACCAGA
*
1368022 AGCCCA
1 GGCCCA
1368028 CTCAGATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.43, G:0.23, T:0.00
Consensus pattern (12 bp):
GGCCCAACCAGA
Found at i:1368486 original size:2 final size:2
Alignment explanation
Indices: 1368481--1368513 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1368471 CTTTCTTTAC
1368481 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 A
1368514 CATTCATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1369960 original size:5 final size:5
Alignment explanation
Indices: 1369947--1369976 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
1369937 CTCTTTTCAC
*
1369947 TTTTA TTTTG TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1369977 ATTACGCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:1375562 original size:24 final size:24
Alignment explanation
Indices: 1375535--1375580 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1375525 CTCACTAGAG
* *
1375535 GCAATTTGCTCATGCTGAGAAGAT
1 GCAACTTGATCATGCTGAGAAGAT
*
1375559 GCAACTTGATCATGTTGAGAAG
1 GCAACTTGATCATGCTGAGAAG
1375581 GAGCATAGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (24 bp):
GCAACTTGATCATGCTGAGAAGAT
Found at i:1378455 original size:23 final size:24
Alignment explanation
Indices: 1378408--1378455 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1378398 GCTACCAGCC
* *
1378408 TAACCTAATACGGTTTAGCATGCT
1 TAACCTAATACGGTTTAACAAGCT
*
1378432 TAACC-AATATGGTTTAACAAGCT
1 TAACCTAATACGGTTTAACAAGCT
1378455 T
1 T
1378456 GACATGGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (24 bp):
TAACCTAATACGGTTTAACAAGCT
Found at i:1380334 original size:24 final size:24
Alignment explanation
Indices: 1380307--1380354 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1380297 TTAGTTGTAG
*
1380307 ATCAGTCTCCTGCTGCAATTTCGA
1 ATCAGTCTCCTACTGCAATTTCGA
*
1380331 ATCAGTCTCCTACTGCAGTTTCGA
1 ATCAGTCTCCTACTGCAATTTCGA
1380355 GTGATGCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (24 bp):
ATCAGTCTCCTACTGCAATTTCGA
Found at i:1383319 original size:93 final size:93
Alignment explanation
Indices: 1383149--1383330 Score: 256
Period size: 93 Copynumber: 2.0 Consensus size: 93
1383139 TAATTTGATA
* * * *
1383149 TTGAAGACAACACTGCTCATCCATATTGAAGAGTTCTTGTCGCTTTCATATGACATTTTTCCTTC
1 TTGAAGACAACACTACTCATCCATATTGAAGAGTTCTGGCCGCTTTCATATGACATTGTTCCTTC
* *
1383214 TTGTTGACGAAGTATGATCAATATAGTG
66 TCGTTAACGAAGTATGATCAATATAGTG
** *
1383242 TTGAAGATGACACTACTCATCCATGTTGAAGAGTTCTGGCCGCTTTCATATGACATTGTTCCTTC
1 TTGAAGACAACACTACTCATCCATATTGAAGAGTTCTGGCCGCTTTCATATGACATTGTTCCTTC
* * *
1383307 TCGTTAAGGAAGTCTGGTCAATAT
66 TCGTTAACGAAGTATGATCAATAT
1383331 GGATAATTTA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (93 bp):
TTGAAGACAACACTACTCATCCATATTGAAGAGTTCTGGCCGCTTTCATATGACATTGTTCCTTC
TCGTTAACGAAGTATGATCAATATAGTG
Found at i:1383954 original size:35 final size:36
Alignment explanation
Indices: 1383903--1383970 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
1383893 ACGTTTAAAG
* *
1383903 GGAAAACTATCTCAAGTGAGA-CAATATTGTTTTTA
1 GGAAAACAATCGCAAGTGAGATCAATATTGTTTTTA
*
1383938 GGAAAACAATCGCAAGTGAGATCAATTTTGTTT
1 GGAAAACAATCGCAAGTGAGATCAATATTGTTT
1383971 CAAGTGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 19 0.66
36 10 0.34
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (36 bp):
GGAAAACAATCGCAAGTGAGATCAATATTGTTTTTA
Found at i:1384069 original size:66 final size:66
Alignment explanation
Indices: 1383998--1384124 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 66
1383988 AAATTTGGGC
* *
1383998 TTCAAGGGAAACTGTCTCAAGCGAGACGAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTATG
1 TTCAAGAGAAACTGTCTCAAACGAGACGAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTATG
1384063 T
66 T
* * * * *
1384064 TTCAAGAGAAACTGTCTCAAATGTGATGAAATTTTGTTTCGAGAGAAACAATCTCAAAGGT
1 TTCAAGAGAAACTGTCTCAAACGAGACGAAACTTTGTTTCAAGAGAAACAATCTCAAAGGT
1384125 GATAGATAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (66 bp):
TTCAAGAGAAACTGTCTCAAACGAGACGAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTATG
T
Found at i:1392526 original size:100 final size:100
Alignment explanation
Indices: 1392401--1392619 Score: 255
Period size: 99 Copynumber: 2.2 Consensus size: 100
1392391 AAGAAATTTG
* * * * * *
1392401 TTTTAAGAGAAACTATCTCAGGTGAGA-CAAAATTTTGTTTCGAGTGAAAGAATTTCAAAATTTG
1 TTTTAAGAGAAACAATCACAAGTGAGATC--AATTTTGTTTCAAGTGAAACAATTCCAAAATTTG
* *
1392465 CGTTTCAAGGGAAACTATCTCCAGTGAGACGATATGT
64 CGCTTCAAGGGAAACTATCTCAAGTGAGACGATATGT
* *
1392502 TTTTAAG-GAAACAATCACAAGTGAGATCAATTTTGTTTCAAGTGAAACAATTCCGAAATTTGGG
1 TTTTAAGAGAAACAATCACAAGTGAGATCAATTTTGTTTCAAGTGAAACAATTCCAAAATTTGCG
* * *
1392566 CTTCAAGGGAAACTGTCTCAAGTGAGACAAAACT-T
66 CTTCAAGGGAAACTATCTCAAGTGAGACGATA-TGT
1392601 TGTTTCAAGAGAAACAATC
1 T-TTT-AAGAGAAACAATC
1392620 TCAAAGGTTT
Statistics
Matches: 100, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
99 60 0.60
100 20 0.20
101 11 0.11
102 9 0.09
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (100 bp):
TTTTAAGAGAAACAATCACAAGTGAGATCAATTTTGTTTCAAGTGAAACAATTCCAAAATTTGCG
CTTCAAGGGAAACTATCTCAAGTGAGACGATATGT
Found at i:1398978 original size:55 final size:55
Alignment explanation
Indices: 1398918--1399366 Score: 550
Period size: 55 Copynumber: 8.2 Consensus size: 55
1398908 ATGCACAATT
* * ** *
1398918 AGTGCCTATAC-GAGAGTTTATCAACTCATGATGAATTATGTGAATTTGCACAC-A
1 AGTGCCTGTACGGAGA-TTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
* * **
1398972 AGGTGCCTGTATGGTGATTCA-CAACTCATGATGAATTATGTGAATATGCACACGA
1 A-GTGCCTGTACGGAGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
* *
1399027 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTCCGTCAATATGCACACGA
1 AGTGCCTGTACGGAGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
* * * *
1399082 AGTGCCTATACGGTA-ATTCATTAACCCATGATGAATTTCGTGAATATGCACACGA
1 AGTGCCTGTACGG-AGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
* * * *
1399137 ATTGTCTGTAC-AATGATTCATCAACTCATGATGAATTCCATGAATATGCACACGA
1 AGTGCCTGTACGGA-GATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
* * *
1399192 AGTGCCTGTACGGTGATTCATCAACCCATGATGAATTCCATGAATATGCACACGA
1 AGTGCCTGTACGGAGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
* * **
1399247 AGTGCTTGTAC-AATGATTCATCAACTCATGATGAATTTTGTGAATATGCACACGA
1 AGTGCCTGTACGGA-GATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
* *
1399302 AGTGCCTGTACGGTGATTCATCAACTCATAATGAATTCCGTGAATATGCACACGA
1 AGTGCCTGTACGGAGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
*
1399357 AGTGCTTGTA
1 AGTGCCTGTA
1399367 GTACGCATAA
Statistics
Matches: 343, Mismatches: 42, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.00
54 50 0.15
55 289 0.84
56 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (55 bp):
AGTGCCTGTACGGAGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
Found at i:1399363 original size:110 final size:110
Alignment explanation
Indices: 1398937--1399366 Score: 623
Period size: 110 Copynumber: 3.9 Consensus size: 110
1398927 ACGAGAGTTT
** * * *
1398937 ATCAACTCATGATGAATTATGTGAATTTGCACAC-AAGGTGCCTGTATGGTGATTCA-CAACTCA
1 ATCAACTCATGATGAATTCCGTGAATATGCACACGAA-GTGCCTGTACGGTGATTCATCAACCCA
** * **
1399000 TGATGAATTATGTGAATATGCACACGAAGTGCCTGTACGGTGATTC
65 TGATGAATTCCGTGAATATGCACACGAAGTGCTTGTACAATGATTC
* * * *
1399046 ATCAACTCATGATGAATTCCGTCAATATGCACACGAAGTGCCTATACGGTAATTCATTAACCCAT
1 ATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGCCTGTACGGTGATTCATCAACCCAT
* *
1399111 GATGAATTTCGTGAATATGCACACGAATTG-TCTGTACAATGATTC
66 GATGAATTCCGTGAATATGCACACGAAGTGCT-TGTACAATGATTC
*
1399156 ATCAACTCATGATGAATTCCATGAATATGCACACGAAGTGCCTGTACGGTGATTCATCAACCCAT
1 ATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGCCTGTACGGTGATTCATCAACCCAT
*
1399221 GATGAATTCCATGAATATGCACACGAAGTGCTTGTACAATGATTC
66 GATGAATTCCGTGAATATGCACACGAAGTGCTTGTACAATGATTC
** *
1399266 ATCAACTCATGATGAATTTTGTGAATATGCACACGAAGTGCCTGTACGGTGATTCATCAACTCAT
1 ATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGCCTGTACGGTGATTCATCAACCCAT
*
1399331 AATGAATTCCGTGAATATGCACACGAAGTGCTTGTA
66 GATGAATTCCGTGAATATGCACACGAAGTGCTTGTA
1399367 GTACGCATAA
Statistics
Matches: 288, Mismatches: 29, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
109 46 0.16
110 241 0.84
111 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (110 bp):
ATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGCCTGTACGGTGATTCATCAACCCAT
GATGAATTCCGTGAATATGCACACGAAGTGCTTGTACAATGATTC
Found at i:1399815 original size:22 final size:23
Alignment explanation
Indices: 1399773--1399836 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 23
1399763 TTGGTATCGA
1399773 TACCCTTACCATGGTATCGATAC
1 TACCCTTACCATGGTATCGATAC
*
1399796 TACCC-TACTATGGT-TCCGATAC
1 TACCCTTACCATGGTAT-CGATAC
*
1399818 --CCCCTACC--GGTATCGATAC
1 TACCCTTACCATGGTATCGATAC
1399837 CAAAATTAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
19 9 0.25
20 4 0.11
21 4 0.11
22 14 0.39
23 5 0.14
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.28
Consensus pattern (23 bp):
TACCCTTACCATGGTATCGATAC
Found at i:1399861 original size:95 final size:96
Alignment explanation
Indices: 1399709--1399911 Score: 283
Period size: 95 Copynumber: 2.1 Consensus size: 96
1399699 ACTTCTATAT
* *
1399709 TATGGTATCGATACCCCCTTCGAGTATCGATACCAAAAATAGGTTCGATGTTGCTTGGTATCGAT
1 TATGGTATCGATACCCCCTCCGAGTATCGATACCAAAAATAGATTCGATGTTGCTTGGTATCGAT
*
1399774 A-CCCTTACCATGGTATCGATACTACCCTAC
66 ACCCCTTACCATAGTATCGATACTACCCTAC
* *
1399804 TATGGT-TCCGATACCCCCTACCG-GTATCGATACCAAAATTAGATTCGATGTTTCTTGGTATCG
1 TATGGTAT-CGATACCCCCT-CCGAGTATCGATACCAAAAATAGATTCGATGTTGCTTGGTATCG
*
1399867 ATACCCCTTATCATAGTATCGATACTA-CCT-C
64 ATACCCCTTACCATAGTATCGATACTACCCTAC
1399898 -ATCGGTATCGATAC
1 TAT-GGTATCGATAC
1399912 TGATTGAATC
Statistics
Matches: 97, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
93 2 0.02
94 11 0.11
95 61 0.63
96 23 0.24
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (96 bp):
TATGGTATCGATACCCCCTCCGAGTATCGATACCAAAAATAGATTCGATGTTGCTTGGTATCGAT
ACCCCTTACCATAGTATCGATACTACCCTAC
Found at i:1408650 original size:3 final size:3
Alignment explanation
Indices: 1408644--1408730 Score: 99
Period size: 3 Copynumber: 30.0 Consensus size: 3
1408634 ATTTATTATT
* * * * *
1408644 TAA TAA TGA TGA TGA TAA TAA TAA TAA TAT TAA T-A CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1408691 TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA -AA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1408731 AATGAGACAA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
2 5 0.07
3 68 0.93
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1409192 original size:41 final size:41
Alignment explanation
Indices: 1409129--1409237 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 41
1409119 ACATTCTGTC
* * * *
1409129 CAAAGGTCTTATGAATGGCCCGAAGGACTT-ATCATCTTGCT
1 CAAAAGTCTTATG-ATGACCCGAAGGACTTAAACATCATGCT
* *
1409170 CGAAAGTCTTATAGATGACCCGAAGGATTTAAACATCATGCT
1 CAAAAGTCTTAT-GATGACCCGAAGGACTTAAACATCATGCT
*
1409212 CAAAAGACTTACTGATGACCCGAAGG
1 CAAAAGTCTTA-TGATGACCCGAAGG
1409238 GTTTAAATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
41 24 0.42
42 32 0.56
43 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (41 bp):
CAAAAGTCTTATGATGACCCGAAGGACTTAAACATCATGCT
Found at i:1409506 original size:20 final size:21
Alignment explanation
Indices: 1409447--1409507 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 21
1409437 AGGCTTACAA
*
1409447 ATGACCCGAAGGATTTA-AGC
1 ATGACCCGAAGGATTTACTGC
* * *
1409467 ATCACGCTCGAAAGACTTACTG-
1 ATGAC-C-CGAAGGATTTACTGC
1409489 ATGACCCGAAGGATTTACT
1 ATGACCCGAAGGATTTACT
1409508 TTAATCTCGA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 15 0.48
21 2 0.06
22 13 0.42
23 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (21 bp):
ATGACCCGAAGGATTTACTGC
Found at i:1409745 original size:211 final size:212
Alignment explanation
Indices: 1409376--1409922 Score: 920
Period size: 211 Copynumber: 2.6 Consensus size: 212
1409366 AAAATTTCAT
* * * *
1409376 TTGAGAACATCCTGC-CCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGG
1 TTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGG
* * *
1409440 CTTACAAATGACCCGAAGGATTTAAGCATCACGCTCGAAAGACTTACTGATGACCCGAAGGATTT
66 CTTACAGATGACCCGAAGGATTTAAACATCACGCTCGAAAGACTTACTGATGACCCAAAGGATTT
* * * *
1409505 ACTTTAATCTCGAGTGAGACAAATTGCTATTTCAAGCAAGACATTGTTGATTCGAAATGTCGTGA
131 ACTTTAACCTCAAGTGAGACAAATTGCTATTTCAAGCAAGACATTGTTGATTCGAAATATCATGA
*
1409570 ATCAAGCAAC-AGGAATG
196 ATCAAGCAACGA-AAATG
1409587 TTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGCT-GAAAGG
1 TTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGG
*
1409651 CTTACAGATGACCCGAAGGATTTAAACATCACGCTCGAAAGATTTACTGATGACCCAAAGGATTT
66 CTTACAGATGACCCGAAGGATTTAAACATCACGCTCGAAAGACTTACTGATGACCCAAAGGATTT
1409716 ACTTTAACCTCAAGTGAGACAAATTGCTATTTCAAGCAAGACATTGTTGATTCGAAATATCATGA
131 ACTTTAACCTCAAGTGAGACAAATTGCTATTTCAAGCAAGACATTGTTGATTCGAAATATCATGA
1409781 ATCAAGCAACGAAAATG
196 ATCAAGCAACGAAAATG
1409798 TTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGG
1 TTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGG
* * *
1409863 CTTACAGAAGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGACTCAAAG
66 CTTACAGATGACCCGAAGGATTTAAACATCACGCTCGAAAGACTTACTGATGACCCAAAG
1409923 ATGACTCAAA
Statistics
Matches: 316, Mismatches: 17, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
211 213 0.67
212 103 0.33
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (212 bp):
TTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGG
CTTACAGATGACCCGAAGGATTTAAACATCACGCTCGAAAGACTTACTGATGACCCAAAGGATTT
ACTTTAACCTCAAGTGAGACAAATTGCTATTTCAAGCAAGACATTGTTGATTCGAAATATCATGA
ATCAAGCAACGAAAATG
Found at i:1410230 original size:42 final size:42
Alignment explanation
Indices: 1410162--1410281 Score: 159
Period size: 42 Copynumber: 2.9 Consensus size: 42
1410152 AAGGCTTTAT
* * * * *
1410162 CATCTTGCTCAAAAGGCTTACAGATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAA
* *
1410204 CATCGTGCTCGAAAGACTTATTGATGACCCGAAGGATTTAAA
1 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAA
* *
1410246 CATCATGCTCGAAAGACTTACTGATGGCCCAAAGGA
1 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGA
1410282 CTTATAAATT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAA
Found at i:1411724 original size:13 final size:13
Alignment explanation
Indices: 1411706--1411731 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1411696 CCTTTAGCAT
1411706 GCCCCAGCATTTG
1 GCCCCAGCATTTG
1411719 GCCCCAGCATTTG
1 GCCCCAGCATTTG
1411732 CTTATACGAA
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:0.38, G:0.23, T:0.23
Consensus pattern (13 bp):
GCCCCAGCATTTG
Found at i:1412551 original size:11 final size:10
Alignment explanation
Indices: 1412513--1412572 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 10
1412503 TGATTCAATT
*
1412513 TCTTTTATTC
1 TCTTTTTTTC
1412523 T-TTTTTTTC
1 TCTTTTTTTC
1412532 TC-TTTTTTC
1 TCTTTTTTTC
1412541 ATCTTTTTTTC
1 -TCTTTTTTTC
1412552 TTCTTCCTTTTT-
1 -TCTT--TTTTTC
1412564 TCTTTTTTT
1 TCTTTTTTT
1412573 AATAGATGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
9 20 0.47
10 3 0.07
11 15 0.35
13 5 0.12
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.78
Consensus pattern (10 bp):
TCTTTTTTTC
Found at i:1412555 original size:23 final size:21
Alignment explanation
Indices: 1412514--1412572 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 21
1412504 GATTCAATTT
1412514 CTTTTATTCTTTTTTTTCTCTT-
1 CTTTT-TTCTTTTTTTT-TCTTC
*
1412536 -TTTTCATCTTTTTTTCTTCTTC
1 CTTTT-TTCTTTTTTT-TTCTTC
1412558 CTTTTTTCTTTTTTT
1 CTTTTTTCTTTTTTT
1412573 AATAGATGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 17 0.55
22 10 0.32
23 4 0.13
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (21 bp):
CTTTTTTCTTTTTTTTTCTTC
Found at i:1412556 original size:21 final size:20
Alignment explanation
Indices: 1412512--1412556 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
1412502 TTGATTCAAT
1412512 TTCTTTTATTCTTTTTTTTC
1 TTCTTTTATTCTTTTTTTTC
1412532 -TCTTTT-TTCATCTTTTTTTC
1 TTCTTTTATTC-T-TTTTTTTC
1412552 TTCTT
1 TTCTT
1412557 CCTTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.14
19 7 0.32
20 8 0.36
21 4 0.18
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (20 bp):
TTCTTTTATTCTTTTTTTTC
Found at i:1419544 original size:3 final size:3
Alignment explanation
Indices: 1419538--1419591 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
1419528 ATTTATTATT
* * *
1419538 TAA TAA TAA TAA TAA TAA -AA TAA TAT TAA TAA TAA TAT TAT TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1419584 TAA -AA TAA
1 TAA TAA TAA
1419592 AATGGGACAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 6 0.14
3 38 0.86
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1419559 original size:17 final size:17
Alignment explanation
Indices: 1419539--1419572 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1419529 TTTATTATTT
1419539 AATAATAATAATAATAA
1 AATAATAATAATAATAA
*
1419556 AATAATATTAATAATAA
1 AATAATAATAATAATAA
1419573 TATTATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAATAATAATAATAA
Found at i:1419566 original size:26 final size:26
Alignment explanation
Indices: 1419537--1419586 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
1419527 TATTTATTAT
1419537 TTAATAATAATAATAATAAAATAATA
1 TTAATAATAATAATAATAAAATAATA
* *
1419563 TTAATAATAATATTATTAAAATAA
1 TTAATAATAATAATAATAAAATAA
1419587 AATAAAATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
TTAATAATAATAATAATAAAATAATA
Found at i:1421757 original size:59 final size:56
Alignment explanation
Indices: 1421614--1421788 Score: 154
Period size: 59 Copynumber: 2.9 Consensus size: 56
1421604 ATTATGATCC
* **
1421614 TTATTTTAAATTGGTCCATAAACTGTTAAACATTTTAATTTCATCCTTAAACTAT-GGCT
1 TTATTTTAAATTGGT-CATAAACT-TTAAACA-TTTAATTTCATCC-CAAACTATAACCT
* * * *
1421673 TTCATTTTAAATTAGTCTTTGAACTTTAAATATTTAAGTTTCATCCCAAAACTATAACCT
1 TT-ATTTTAAATTGGTC-ATAAACTTTAAACATTTAA-TTTCATCCC-AAACTATAACCT
* *
1421733 TTATTCTAAATTGGTCATCAAACTTTTTGAACATTTCAATTTCATCCCAAACTATA
1 TTATTTTAAATTGGTCAT-AAAC--TTTAAACATTT-AATTTCATCCCAAACTATA
1421789 TGTATATACT
Statistics
Matches: 94, Mismatches: 13, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
58 6 0.06
59 39 0.41
60 29 0.31
61 18 0.19
62 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (56 bp):
TTATTTTAAATTGGTCATAAACTTTAAACATTTAATTTCATCCCAAACTATAACCT
Found at i:1424672 original size:42 final size:42
Alignment explanation
Indices: 1424622--1424728 Score: 153
Period size: 42 Copynumber: 2.6 Consensus size: 42
1424612 TTCTCTGAAA
*
1424622 TTTT-GTGTTTGTTTCACATAATTCGTTTTTCGGAAAATATT
1 TTTTCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATATT
* *
1424663 TTTTCGTGTTTGTTTTAGGTAATTCGTTTTTCGGAAAATATT
1 TTTTCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATATT
** *
1424705 TTCCCGTATTTGTTTCACGTAATT
1 TTTTCGTGTTTGTTTCACGTAATT
1424729 GATTTTCTGG
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 4 0.07
42 53 0.93
ACGTcount: A:0.20, C:0.11, G:0.16, T:0.53
Consensus pattern (42 bp):
TTTTCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATATT
Found at i:1425059 original size:28 final size:28
Alignment explanation
Indices: 1425027--1425090 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
1425017 TTTATTTTAA
1425027 TAATATAT-AATAAAAAAAATTATATATT
1 TAATA-ATGAATAAAAAAAATTATATATT
* ** *
1425055 TAATAATGAATAATATTATTTATATATT
1 TAATAATGAATAAAAAAAATTATATATT
1425083 TAAATAAT
1 T-AATAAT
1425091 ATTTTAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.07
28 22 0.73
29 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (28 bp):
TAATAATGAATAAAAAAAATTATATATT
Found at i:1425070 original size:19 final size:19
Alignment explanation
Indices: 1425025--1425100 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
1425015 TTTTTATTTT
* *
1425025 AATAATATATAATAA-AAAA
1 AATAATATAT-TTAATAATA
* *
1425044 AATTATATATTTAATAATG
1 AATAATATATTTAATAATA
*
1425063 AATAATATTATTTATATATTTA
1 AATAATA-TATTTA-ATA-ATA
1425085 AATAATAT-TTTAATAA
1 AATAATATATTTAATAA
1425101 ATATATTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
18 3 0.07
19 20 0.44
20 10 0.22
21 4 0.09
22 8 0.18
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (19 bp):
AATAATATATTTAATAATA
Found at i:1425103 original size:12 final size:11
Alignment explanation
Indices: 1425063--1425130 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
1425053 TTTAATAATG
1425063 AATAATATTATT
1 AATAATATT-TT
* *
1425075 TAT-ATATTTA
1 AATAATATTTT
1425085 AATAATATTTT
1 AATAATATTTT
1425096 AATAAATATATTT
1 AAT-AATAT-TTT
**
1425109 AA-AATATACT
1 AATAATATTTT
1425119 AATTAATATTTT
1 AA-TAATATTTT
1425131 TAAAATATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
10 6 0.14
11 19 0.44
12 13 0.30
13 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (11 bp):
AATAATATTTT
Found at i:1425114 original size:15 final size:14
Alignment explanation
Indices: 1425076--1425111 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
1425066 AATATTATTT
1425076 ATATATTTAAAT-A
1 ATATATTTAAATAA
1425089 ATAT-TTT-AATAA
1 ATATATTTAAATAA
1425101 ATATATTTAAA
1 ATATATTTAAA
1425112 ATATACTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 7 0.35
14 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTTAAATAA
Found at i:1425114 original size:23 final size:23
Alignment explanation
Indices: 1425076--1425139 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
1425066 AATATTATTT
**
1425076 ATATATTTAAATAATATTTTAATAA
1 ATATATTT-AA-AATATACTAATAA
*
1425101 ATATATTTAAAATATACTAATTA
1 ATATATTTAAAATATACTAATAA
*
1425124 ATATTTTTAAAATATA
1 ATATATTTAAAATATA
1425140 ATATAACACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 25 0.71
24 2 0.06
25 8 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATTTAAAATATACTAATAA
Found at i:1425281 original size:27 final size:27
Alignment explanation
Indices: 1425239--1425290 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
1425229 AATTATAAAA
1425239 TTAATATTTAATAATAAATAA-ATTATT
1 TTAATATTTAATAAT-AATAATATTATT
1425266 TTAATATTTTAA-AATAATAATATTA
1 TTAATA-TTTAATAATAATAATATTA
1425291 AGTTTTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 5 0.22
27 13 0.57
28 5 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAATATTTAATAATAATAATATTATT
Found at i:1425291 original size:49 final size:50
Alignment explanation
Indices: 1425227--1425324 Score: 121
Period size: 49 Copynumber: 2.0 Consensus size: 50
1425217 TTTTTATTAA
*
1425227 AAAATTATAAAATTAA-TATTTAATAATAAATAA-ATTATTT-TAATATTTT
1 AAAATAATAAAATTAAGT-TTT-ATAATAAATAATATTATTTATAATATTTT
* * *
1425276 AAAATAATAATATTAAGTTTTATGATAAATAATATTATTTATTATATTT
1 AAAATAATAAAATTAAGTTTTATAATAAATAATATTATTTATAATATTT
1425325 AATATTTGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
48 10 0.24
49 24 0.57
50 8 0.19
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (50 bp):
AAAATAATAAAATTAAGTTTTATAATAAATAATATTATTTATAATATTTT
Done.