Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008314.1 Hibiscus syriacus cultivar Beakdansim tig00111008_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: 2414839
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 10
Found at i:1073167 original size:29 final size:29
Alignment explanation
Indices: 1073067--1073167 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
1073057 TTGAATACTA
* *
1073067 TAGGTACCTATTTTGATCAAAA-AATACTT
1 TAGGTACTTATTTTGAT-AAAATAAAACTT
** *
1073096 TAAATACTTATTTTGACAAAATAAGATAACTT
1 TAGGTACTTATTTTGATAAAAT-A-A-AACTT
* * *
1073128 TAGGCATTTATTTTGATAAAATAACACTT
1 TAGGTACTTATTTTGATAAAATAAAACTT
1073157 TAGGTACTTAT
1 TAGGTACTTAT
1073168 ATGAAGAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
28 4 0.07
29 26 0.47
30 2 0.04
31 2 0.04
32 21 0.38
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.40
Consensus pattern (29 bp):
TAGGTACTTATTTTGATAAAATAAAACTT
Found at i:1078836 original size:20 final size:20
Alignment explanation
Indices: 1078811--1078849 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1078801 TTATTTTTCC
1078811 AAAAAATTATTTTATACACA
1 AAAAAATTATTTTATACACA
1078831 AAAAAATTATTTTATACAC
1 AAAAAATTATTTTATACAC
1078850 CTAGTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAATTATTTTATACACA
Found at i:1086169 original size:63 final size:63
Alignment explanation
Indices: 1086097--1086223 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
1086087 TGCCATATTC
1086097 TGAAATATCATGATACTCATGACTTTCAAACCACATCTTCTGTCTCAGGGAGAAAGCATATGT
1 TGAAATATCATGATACTCATGACTTTCAAACCACATCTTCTGTCTCAGGGAGAAAGCATATGT
1086160 TGAAATATCATGATACTCATGACTTTCAAACCACATCTTCTGTCTCAGGGAGAAAGCATATGT
1 TGAAATATCATGATACTCATGACTTTCAAACCACATCTTCTGTCTCAGGGAGAAAGCATATGT
1086223 T
1 T
1086224 CATCCCTATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (63 bp):
TGAAATATCATGATACTCATGACTTTCAAACCACATCTTCTGTCTCAGGGAGAAAGCATATGT
Found at i:1087305 original size:59 final size:60
Alignment explanation
Indices: 1087213--1087331 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 60
1087203 AGTCATCCAA
1087213 GTCCACAAAACCTACAGATCAAATCTCATATGGAGAAAACTG-AAAATATGCAAATCTAC
1 GTCCACAAAACCTACAGATCAAATCTCATATGGAGAAAACTGAAAAATATGCAAATCTAC
* *
1087272 GTCCACAAAACCTACAGATCAAATCTCATATGGAGAAAATTGAAAAATGTGCAAATCTAC
1 GTCCACAAAACCTACAGATCAAATCTCATATGGAGAAAACTGAAAAATATGCAAATCTAC
1087332 AATCGGAGGC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 41 0.72
60 16 0.28
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (60 bp):
GTCCACAAAACCTACAGATCAAATCTCATATGGAGAAAACTGAAAAATATGCAAATCTAC
Found at i:1092809 original size:23 final size:22
Alignment explanation
Indices: 1092761--1092810 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
1092751 ACTTATGTAT
*
1092761 TTTCTATTTTTTTTAATAATAT
1 TTTCTATTTTTTTTAATAATAG
*
1092783 TTTCTATTCTTTTTTTAA-ATTAG
1 TTTCTA-T-TTTTTTTAATAATAG
1092806 TTTCT
1 TTTCT
1092811 CAATTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 9 0.38
24 9 0.38
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTCTATTTTTTTTAATAATAG
Found at i:1097827 original size:163 final size:163
Alignment explanation
Indices: 1097557--1098048 Score: 905
Period size: 163 Copynumber: 3.0 Consensus size: 163
1097547 ATTACCTCTA
* * * *
1097557 TTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTTCTTAGCTATGTGGGATTGTTTTGTTCT
1 TTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTTTTTAACCATGTGAGATTGTTTTGTTCT
* * *
1097622 CATATTTTTACTCTTTAAACTTTTGGGATACTCTTCTATGTTTCTTAACCATGTGAGATTGTTTT
66 CATATTTTTACTCTTTAAACTTTTGGGATACTCTTCTATGTTTCTTAGCCATCTGGGATTGTTTT
1097687 TTTAAAAATAATTAAACCAAATGACATCATTTG
131 TTTAAAAATAATTAAACCAAATGACATCATTTG
1097720 TTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTTTTTAACCATGTGAGATTGTTTTGTTCT
1 TTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTTTTTAACCATGTGAGATTGTTTTGTTCT
1097785 CATATTTTTACTCTTTAAACTTTTGGGATACTCTTCTATGTTTCTTAGCCATCTGGGATTGTTTT
66 CATATTTTTACTCTTTAAACTTTTGGGATACTCTTCTATGTTTCTTAGCCATCTGGGATTGTTTT
1097850 TTTAAAAATAATTAAACCAAATGACATCATTTG
131 TTTAAAAATAATTAAACCAAATGACATCATTTG
1097883 TTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTTTTTAACCATGTGAGATTGTTTTGTTCT
1 TTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTTTTTAACCATGTGAGATTGTTTTGTTCT
1097948 CATATTTTTACTCTTTAAACTTTTGGGATACTCTTCTATGTTTCTTAGCCATCTGGGATTGTTTT
66 CATATTTTTACTCTTTAAACTTTTGGGATACTCTTCTATGTTTCTTAGCCATCTGGGATTGTTTT
*
1098013 TTT-AAAACAATTAAACCAAATGACATCATTTG
131 TTTAAAAATAATTAAACCAAATGACATCATTTG
1098045 TTAT
1 TTAT
1098049 GATTTTTTTA
Statistics
Matches: 321, Mismatches: 8, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
162 32 0.10
163 289 0.90
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.47
Consensus pattern (163 bp):
TTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTTTTTAACCATGTGAGATTGTTTTGTTCT
CATATTTTTACTCTTTAAACTTTTGGGATACTCTTCTATGTTTCTTAGCCATCTGGGATTGTTTT
TTTAAAAATAATTAAACCAAATGACATCATTTG
Found at i:1100234 original size:8 final size:8
Alignment explanation
Indices: 1100035--1100221 Score: 302
Period size: 8 Copynumber: 23.4 Consensus size: 8
1100025 TCAAGTTAGT
*
1100035 CATACATA
1 CATACATG
*
1100043 CATACATA
1 CATACATG
*
1100051 CATACATA
1 CATACATG
*
1100059 CATACATA
1 CATACATG
*
1100067 CATACATA
1 CATACATG
*
1100075 CATACATA
1 CATACATG
1100083 CATACATG
1 CATACATG
1100091 CATACATG
1 CATACATG
1100099 CATACATG
1 CATACATG
1100107 CATACATG
1 CATACATG
1100115 CATACATG
1 CATACATG
1100123 CATACATG
1 CATACATG
1100131 CATACATG
1 CATACATG
1100139 CATACATG
1 CATACATG
1100147 CATACATG
1 CATACATG
1100155 CATACATG
1 CATACATG
1100163 CATACATG
1 CATACATG
1100171 CATACATG
1 CATACATG
*
1100179 CATACATC
1 CATACATG
*
1100187 CATACATC
1 CATACATG
1100195 CATACATG
1 CATACATG
1100203 CATACATG
1 CATACATG
1100211 CATACATG
1 CATACATG
1100219 CAT
1 CAT
1100222 GCATACATGC
Statistics
Matches: 176, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 176 1.00
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (8 bp):
CATACATG
Found at i:1109033 original size:17 final size:17
Alignment explanation
Indices: 1109009--1109041 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1108999 TACTCTAAAA
1109009 ATTTATCAAT-TCATCT
1 ATTTATCAATATCATCT
1109025 ATTTAATCAATATCATC
1 ATTT-ATCAATATCATC
1109042 ATTAGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTATCAATATCATCT
Found at i:1109849 original size:16 final size:17
Alignment explanation
Indices: 1109814--1109864 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
1109804 TTAGGTGACG
1109814 AAAATAAAATTATATATT
1 AAAA-AAAATTATATATT
1109832 AATAAAAAATTAT-T-TT
1 AA-AAAAAATTATATATT
1109848 AAAAAAAATATATATAT
1 AAAAAAAAT-TATATAT
1109865 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 2 0.07
18 11 0.38
19 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAAAAAATTATATATT
Found at i:1109860 original size:2 final size:2
Alignment explanation
Indices: 1109855--1109899 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1109845 TTTAAAAAAA
1109855 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
1109897 AT A
1 AT A
1109900 GAAATTTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1114745 original size:28 final size:28
Alignment explanation
Indices: 1114714--1114777 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
1114704 AATAGGGACT
*
1114714 ATAAAAATCAGTCCTAAAAAATTTTAGA
1 ATAAAAATCAATCCTAAAAAATTTTAGA
* * * *
1114742 ATAAAAATGAATCCTTAATAATTTTAGG
1 ATAAAAATCAATCCTAAAAAATTTTAGA
*
1114770 ATGAAAAT
1 ATAAAAAT
1114778 TTATAAATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.31
Consensus pattern (28 bp):
ATAAAAATCAATCCTAAAAAATTTTAGA
Found at i:1115513 original size:4 final size:4
Alignment explanation
Indices: 1115504--1115528 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1115494 TATTTTAGGC
1115504 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
1115529 TTGATAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:1124352 original size:21 final size:22
Alignment explanation
Indices: 1124311--1124353 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1124301 AATTAAAATG
*
1124311 TTTTTATGAATTTTCATTTAAA
1 TTTTTATGAATTTTAATTTAAA
1124333 TTTTTAT-AA-TTTAATATTAAA
1 TTTTTATGAATTTTAAT-TTAAA
1124354 CTTTAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTTATGAATTTTAATTTAAA
Found at i:1132301 original size:2 final size:2
Alignment explanation
Indices: 1132294--1132334 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1132284 CCTTCTAACT
1132294 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1132335 CACAAATTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1133417 original size:12 final size:13
Alignment explanation
Indices: 1133392--1133424 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
1133382 TATTTGGTAA
1133392 ATTTTATTGAAAAT
1 ATTTT-TTGAAAAT
1133406 ATTTTTTG-AAAT
1 ATTTTTTGAAAAT
1133418 ATTTTTT
1 ATTTTTT
1133425 TAGTGAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 3 0.16
14 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (13 bp):
ATTTTTTGAAAAT
Found at i:1138434 original size:32 final size:33
Alignment explanation
Indices: 1138373--1138434 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
1138363 TCTAATTCAT
* * * *
1138373 AATGTGTGCATTAGATTGACGATATATTACCGA
1 AATGTGTACATTAAATTAACGATAAATTACCGA
1138406 AATGTGTACA-TAAATTAACGATAAATTAC
1 AATGTGTACATTAAATTAACGATAAATTAC
1138435 TAAGTTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 16 0.64
33 9 0.36
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.32
Consensus pattern (33 bp):
AATGTGTACATTAAATTAACGATAAATTACCGA
Found at i:1138935 original size:17 final size:18
Alignment explanation
Indices: 1138894--1138941 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
1138884 TTAAAACAAC
*
1138894 AATAATACATAATATTGT
1 AATAATACATAATAGTGT
1138912 AATAATA-ATAATAGTGT
1 AATAATACATAATAGTGT
*
1138929 CAA-AATATATAAT
1 -AATAATACATAAT
1138942 TAAAGGGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.35
Consensus pattern (18 bp):
AATAATACATAATAGTGT
Found at i:1140779 original size:26 final size:25
Alignment explanation
Indices: 1140750--1140807 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
1140740 TATTATCAAG
* *
1140750 TATAATAACATATTAGGTAGCGCTTA
1 TATAATAA-ATAATAGGCAGCGCTTA
*
1140776 TATAAT--GTAATAGGCAGCGCTTA
1 TATAATAAATAATAGGCAGCGCTTA
1140799 TATAATAAA
1 TATAATAAA
1140808 ATAAGCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
23 20 0.77
26 6 0.23
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (25 bp):
TATAATAAATAATAGGCAGCGCTTA
Found at i:1140810 original size:23 final size:23
Alignment explanation
Indices: 1140763--1140810 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1140753 AATAACATAT
* **
1140763 TAGGTAGCGCTTATATAATGTAA
1 TAGGCAGCGCTTATATAATAAAA
1140786 TAGGCAGCGCTTATATAATAAAA
1 TAGGCAGCGCTTATATAATAAAA
1140809 TA
1 TA
1140811 AGCATTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (23 bp):
TAGGCAGCGCTTATATAATAAAA
Found at i:1140872 original size:87 final size:87
Alignment explanation
Indices: 1140726--1140888 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
1140716 AATGTTATAT
*
1140726 CATTTAACCGGAAATATTATCAAGTATAATAACATATTAGGTAGCGCTTATATAATGTAATAGGC
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGC
1140791 AGCGCTTATATAATAAAATAAG
66 AGCGCTTATATAATAAAATAAG
* *
1140813 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCTCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGC
1140878 AGCGCTTATAT
66 AGCGCTTATAT
1140889 TGACCTATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGC
AGCGCTTATATAATAAAATAAG
Found at i:1141350 original size:200 final size:196
Alignment explanation
Indices: 1140883--1141565 Score: 686
Period size: 200 Copynumber: 3.4 Consensus size: 196
1140873 TAGGTAGCGC
* ** * * * *
1140883 TTATATTGACCTATTTTCGAAGT-AAACCGGTATATTTATACCGGTAACATTGTAAATTTATCTA
1 TTATGTTGACCTATTTTCTCA-TAAAACCGATATATTTATACCAGTTACATTGTAAATTTACCTA
* * **
1140947 TTACATTATTATTATCGGTTACGATGTTTTATAGATCGATACAATTT-TAAATGTATCGACACTT
65 TTACATTA-TATTATCGGTTTCGATGTTTT-GAGATCGATACTTTTTATAAATGTATCGACACTT
* ** *
1141011 TATGCTTGCACCTGGTTGAGAATTCATATTTCATTCTGGA-AAAAAGTATCGACACAAACTAACA
128 TATGGTTGCACCT-GTT-----TTGGTA-TTCATTCTGGACAAAAA-TATCGACACAAATTAACA
1141075 ACGTGTCGATACA
185 A-GTGTCGATACA
* * * * *
1141088 TTAT-TTAGATCTATTCTCTCATAAAA-TGGTATATTTATACCAGTTACATTGAAAATTTACCTA
1 TTATGTT-GACCTATTTTCTCATAAAACCGATATATTTATACCAGTTACATTGTAAATTTACCTA
*
1141151 TTACATTATACTTAT-GAGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGTATCGACACT
65 TTACATTATA-TTATCG-GTTTCGATGTTT-TGAGATCGATACTTTTTATAAATGTATCGACACT
* *
1141215 TTATGGTTGCACCCT-TTTTGGTATTCATTCTGGACCAAAATTATCGACACAAATTTAGCAAGTG
127 TTATGGTTGCA-CCTGTTTTGGTATTCATTCTGGA-CAAAAATATCGACACAAA-TTAACAAGTG
*
1141279 TCGATACT
189 TCGATACA
* * * *
1141287 TTATGCTGACCTATTTTATCATAAAACCGATATATTTATATCAGTTACATTGTAAATTTACCTAA
1 TTATGTTGACCTATTTTCTCATAAAACCGATATATTTATACCAGTTACATTGTAAATTTACCTAT
* *
1141352 TATATTATAATTATCGGTTTCGATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTT
66 TACATTAT-ATTATCGGTTTCGATG-TTTTGAGATCGATACTTTTTATAAATGTATCGACACTTT
* * *
1141417 AT-GTGTGCACCTCG-TTTGTGCATTC-GTCATGGACAATAAATATTGACACAAATTACACAAGT
129 ATGGT-TGCACCT-GTTTTG-GTATTCATTC-TGGACAA-AAATATCGACACAAATTA-ACAAGT
1141479 GTCGATACA
188 GTCGATACA
* * * * * *
1141488 TTATGTTGACATGTTTTCTAAT-TAACCGATATATTTATACCGGTTACATTGTTAATTTACCTAT
1 TTATGTTGACCTATTTTCTCATAAAACCGATATATTTATACCAGTTACATTGTAAATTTACCTAT
1141552 TACATTATGATTAT
66 TACATTAT-ATTAT
1141566 TTTTTTTGAT
Statistics
Matches: 405, Mismatches: 51, Indels: 49
0.80 0.10 0.10
Matches are distributed among these distances:
198 11 0.03
199 51 0.13
200 164 0.40
201 57 0.14
203 3 0.01
204 72 0.18
205 44 0.11
206 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (196 bp):
TTATGTTGACCTATTTTCTCATAAAACCGATATATTTATACCAGTTACATTGTAAATTTACCTAT
TACATTATATTATCGGTTTCGATGTTTTGAGATCGATACTTTTTATAAATGTATCGACACTTTAT
GGTTGCACCTGTTTTGGTATTCATTCTGGACAAAAATATCGACACAAATTAACAAGTGTCGATAC
A
Found at i:1144499 original size:200 final size:198
Alignment explanation
Indices: 1144150--1144709 Score: 752
Period size: 200 Copynumber: 2.8 Consensus size: 198
1144140 TTTATTTACA
* * *
1144150 AAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGATATATTTA-ATCGGTTATATTA
1 AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTATATTA
* * *
1144214 CAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTTCGGTATCGATACTTTTAATAAAT
66 CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG-ATCGACACTTTTAATAAAT
*
1144279 GTATCGACACTTTGTGCGTTCATCCCTTTTGGCATCAATTCT-GAAAAAAAAGTATCGACACAA-
130 GTATCGACACTTTATGCGTTCA-CCCTTTTGGCATCAATTCTAGAAAAAAAA-TATCGACACAAT
1144342 ATTTAAC
193 A-TTAAC
* * *
1144349 AAGTGTCGCTACATGTTATAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACATTG
1 AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTATATTA
* * *
1144414 TAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGAGATCGACACTTTTTGA-AAA
66 CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG-GATCGACAC-TTTTAATAAA
* * *
1144478 TGTATCGACACTTTATGCGTTCACTCTTTTTGGCATCCATTCTAGACAAAAAATATCGACACAAT
129 TGTATCGACACTTTATGCGTTCAC-CCTTTTGGCATCAATTCTAGAAAAAAAATATCGACACAAT
*
1144543 ATTAAT
193 ATTAAC
* * * * * * *
1144549 AAGTGTCGATACATATTATAGACATATTCTCTCATAAAACGGGTATATATATACCAGCTATATTA
1 AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTATATTA
* *
1144614 CAAAATTACGTATTACATTATAATTATGGGTTTCGAT-TTTTTGGGATCGACACTTATAATAAAT
66 CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTT-GGATCGACACTTTTAATAAAT
* *
1144678 GTATCGAAACTTTATGCGTGCAACCCTTTTGG
130 GTATCGACACTTTATGCGTTC-ACCCTTTTGG
1144710 ATCGACAATC
Statistics
Matches: 317, Mismatches: 35, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
198 4 0.01
199 93 0.29
200 205 0.65
201 15 0.05
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (198 bp):
AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTATATTA
CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGATCGACACTTTTAATAAATG
TATCGACACTTTATGCGTTCACCCTTTTGGCATCAATTCTAGAAAAAAAATATCGACACAATATT
AAC
Found at i:1144900 original size:250 final size:252
Alignment explanation
Indices: 1144453--1144906 Score: 666
Period size: 250 Copynumber: 1.8 Consensus size: 252
1144443 GTTTCGATGT
* * * *
1144453 TTTTGAGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACTCTTTTTGGCATCCAT
1 TTTTGAGATCGACAATCTGTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCAT
* * *
1144518 TCTAGACAAAAAATATCGACACAATATTAATAAGTGTCGATACATATTATAGACATATTCTCTCA
66 TCTAGACAAAAAATATCGACACAATACTAATAAGTATCGATAAATATTATAGACATATTCTCTCA
* *
1144583 TAAAACGGGTATATATATACCAGCTATATTACAAAATTACGTATTACATTATAATTATGGGTTTC
131 TAAAACGGGTATATATATACCAGCTACATTACAAAATTACGTATTACATTATAATTATAGGTTTC
1144648 GAT-TTTTTGGGATCGACACTTATAATAAATGTATCGAAACTTTATGCGTGCAACCC
196 GATGTTTTTGGGATCGACACTTATAATAAATGTATCGAAACTTTATGCGTGCAACCC
*
1144704 TTTTG-GATCGACAATCTGTGAAAATGTATCGACACTTTGTAG-GTTCACCCTTTTTGGCATCCA
1 TTTTGAGATCGACAATCTGTGAAAATGTATCGACACTTTAT-GCGTTCACCCTTTTTGGCATCCA
* * * * * *
1144767 TTCTGGACAAAAAGTATCGACACAATACTAATAAGTATCGATAAATGTTGTAGACATATTTTTTC
65 TTCTAGACAAAAAATATCGACACAATACTAATAAGTATCGATAAATATTATAGACATATTCTCTC
* * * *
1144832 ATAAAACTGGTATATTTATACCGGTTACATTGA-AAAATTAC-TCATTACATTATAATTATAGGT
130 ATAAAACGGGTATATATATACCAGCTACATT-ACAAAATTACGT-ATTACATTATAATTATAGGT
1144895 TTCGATGTTTTT
193 TTCGATGTTTTT
1144907 TGGGTCGTTA
Statistics
Matches: 179, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
249 1 0.01
250 166 0.93
251 12 0.07
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (252 bp):
TTTTGAGATCGACAATCTGTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCAT
TCTAGACAAAAAATATCGACACAATACTAATAAGTATCGATAAATATTATAGACATATTCTCTCA
TAAAACGGGTATATATATACCAGCTACATTACAAAATTACGTATTACATTATAATTATAGGTTTC
GATGTTTTTGGGATCGACACTTATAATAAATGTATCGAAACTTTATGCGTGCAACCC
Found at i:1146224 original size:6 final size:6
Alignment explanation
Indices: 1146217--1146268 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
1146207 GTTTGGATCA
* * * * * *
1146217 TCATCA TCATCG TCGTCG TCATCT TCATCG TCATCT TCATTG TCATCT
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
1146265 TCAT
1 TCAT
1146269 TGACCGCTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.31, G:0.10, T:0.42
Consensus pattern (6 bp):
TCATCG
Found at i:1146247 original size:12 final size:12
Alignment explanation
Indices: 1146217--1146268 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
1146207 GTTTGGATCA
* *
1146217 TCATCATCATCG
1 TCATCGTCATCT
*
1146229 TCGTCGTCATCT
1 TCATCGTCATCT
1146241 TCATCGTCATCT
1 TCATCGTCATCT
*
1146253 TCATTGTCATCT
1 TCATCGTCATCT
1146265 TCAT
1 TCAT
1146269 TGACCGCTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.10, T:0.42
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:1147836 original size:17 final size:17
Alignment explanation
Indices: 1147816--1147853 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
1147806 TTATACTTAT
*
1147816 GGATATATATGTTTCTG
1 GGATACATATGTTTCTG
1147833 GGATACATATGTTTCTG
1 GGATACATATGTTTCTG
1147850 GGAT
1 GGAT
1147854 CGATACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (17 bp):
GGATACATATGTTTCTG
Found at i:1148206 original size:202 final size:201
Alignment explanation
Indices: 1147833--1148273 Score: 729
Period size: 202 Copynumber: 2.2 Consensus size: 201
1147823 TATGTTTCTG
* * *
1147833 GGATACATATGTTTCTGGGATCGATACTTTTTATAAATGTATCTACACTTTATGGTTGCACCATT
1 GGATGCATATGTTTATGGGATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCATT
* * * **
1147898 TTTGGCATTCATTCTGGACTAAAAGTATCGACACAACATTAAAAAAGTGTTGATACATGTTGTAG
66 TTTGACATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAAGTGTCAATACATGTTGTAG
**
1147963 ACCTATTATCTCATAAAACCGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTAT
131 ACCTATTATCTCATAAAACCAATATATTTATACCGGTTACATTGAAAATTTACCTATTACATTAT
*
1148028 GCTTAT
196 ACTTAT
* * *
1148034 GGATGCATATATTTTTGGGATCGATACTTTTTTATAAATGTATCGACACTTTATGGTTGCACCCT
1 GGATGCATATGTTTATGGGATCGATAC-TTTTTATAAATGTATCGACACTTTATGGTTGCACCAT
*
1148099 TTTTGACATTCATTTTGGACCAAAAGTATCGACACAAAATTAAAAAAGTGTCAATACATGTTGTA
65 TTTTGACATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAAGTGTCAATACATGTTGTA
*
1148164 GACCTATTCTCTCATAAAACCAATATATTTATACCGGTTACATTGAAAATTTACCTATTACATTA
130 GACCTATTATCTCATAAAACCAATATATTTATACCGGTTACATTGAAAATTTACCTATTACATTA
1148229 TACTTAT
195 TACTTAT
1148236 GGATGCATATGTTTATGGGATCGATACTTTTTATAAAT
1 GGATGCATATGTTTATGGGATCGATACTTTTTATAAAT
1148274 TATTGGGATT
Statistics
Matches: 222, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
201 35 0.16
202 187 0.84
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (201 bp):
GGATGCATATGTTTATGGGATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCATT
TTTGACATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAAGTGTCAATACATGTTGTAG
ACCTATTATCTCATAAAACCAATATATTTATACCGGTTACATTGAAAATTTACCTATTACATTAT
ACTTAT
Found at i:1148909 original size:19 final size:19
Alignment explanation
Indices: 1148885--1148933 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1148875 TTACATTCAC
1148885 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCTT
1148904 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCTT
*
1148923 ATAAAAAATTA
1 ATACAAAATTA
1148934 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCTT
Found at i:1149546 original size:12 final size:12
Alignment explanation
Indices: 1149529--1149589 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
1149519 ACACGCACAC
1149529 ACGCACACACGA
1 ACGCACACACGA
* *
1149541 ACGCACGCACGC
1 ACGCACACACGA
* *
1149553 ACGCACGCACGC
1 ACGCACACACGA
*
1149565 ACGTACACACGTA
1 ACGCACACACG-A
*
1149578 CACGTACACACG
1 -ACGCACACACG
1149590 TACACACGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
12 31 0.74
14 11 0.26
ACGTcount: A:0.33, C:0.43, G:0.20, T:0.05
Consensus pattern (12 bp):
ACGCACACACGA
Found at i:1149550 original size:4 final size:4
Alignment explanation
Indices: 1149512--1149567 Score: 76
Period size: 4 Copynumber: 14.0 Consensus size: 4
1149502 TGTTCTTTCA
* * * *
1149512 CACG CACA CACG CACA CACG CACA CACG AACG CACG CACG CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
1149560 CACG CACG
1 CACG CACG
1149568 TACACACGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.32, C:0.48, G:0.20, T:0.00
Consensus pattern (4 bp):
CACG
Found at i:1149575 original size:8 final size:8
Alignment explanation
Indices: 1149564--1149602 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
1149554 CGCACGCACG
1149564 CACGTACA
1 CACGTACA
1149572 CACGT--A
1 CACGTACA
1149578 CACGTACA
1 CACGTACA
1149586 CACGTACA
1 CACGTACA
1149594 CACGTACA
1 CACGTACA
1149602 C
1 C
1149603 GTACATACGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.21
8 23 0.79
ACGTcount: A:0.36, C:0.38, G:0.13, T:0.13
Consensus pattern (8 bp):
CACGTACA
Found at i:1149575 original size:16 final size:16
Alignment explanation
Indices: 1149510--1149602 Score: 81
Period size: 16 Copynumber: 6.2 Consensus size: 16
1149500 AATGTTCTTT
*
1149510 CACACGCACACACGCA
1 CACACGCACACACGTA
1149526 CACACGCACACACG--
1 CACACGCACACACGTA
* *
1149540 -A-ACGCACGCACGCA
1 CACACGCACACACGTA
* *
1149554 CGCACGCACGCACGTA
1 CACACGCACACACGTA
*
1149570 CACACG--TACACGTA
1 CACACGCACACACGTA
*
1149584 CACACGTACACACGTA
1 CACACGCACACACGTA
1149600 CAC
1 CAC
1149603 GTACATACGT
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
12 10 0.16
13 1 0.02
14 12 0.19
16 41 0.64
ACGTcount: A:0.34, C:0.44, G:0.16, T:0.05
Consensus pattern (16 bp):
CACACGCACACACGTA
Found at i:1149589 original size:22 final size:22
Alignment explanation
Indices: 1149564--1149629 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
1149554 CGCACGCACG
1149564 CACGTACACACGTACACGTACA
1 CACGTACACACGTACACGTACA
1149586 CACGTACACACGTACACGTACA
1 CACGTACACACGTACACGTACA
* * * *
1149608 TACGTATATACGTATACGTACA
1 CACGTACACACGTACACGTACA
1149630 TACATATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.36, C:0.30, G:0.14, T:0.20
Consensus pattern (22 bp):
CACGTACACACGTACACGTACA
Found at i:1149613 original size:14 final size:14
Alignment explanation
Indices: 1149564--1149594 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1149554 CGCACGCACG
1149564 CACGTACACACGTA
1 CACGTACACACGTA
1149578 CACGTACACACGTA
1 CACGTACACACGTA
1149592 CAC
1 CAC
1149595 ACGTACACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.39, G:0.13, T:0.13
Consensus pattern (14 bp):
CACGTACACACGTA
Found at i:1149635 original size:4 final size:4
Alignment explanation
Indices: 1149621--1152091 Score: 3360
Period size: 4 Copynumber: 621.8 Consensus size: 4
1149611 GTATATACGT
* * *
1149621 ATAC GTAC ATAC ATAT ATAC GTAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1149669 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1149717 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
1149765 ATAC ATAC ATAC GTAT ATAC ATAT ATAC AT-- ATAT ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * * **
1149811 AT-- ATAT ATAC GTAT GTAT ATAT ATAC GTAC ATAC ATAT ATAC ATGT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * *
1149857 ATAT GTAT ATAC ATAC ATAT ATAC ATAC ATAC GTAC GTAC GTAC GTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
1149905 ATAC CTAC ATAC ATAC ATAC AT-- ATAC ATAC GTAC GTAC GTAC GTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
1149951 ATAC CTAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC GTAC GTAT GTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * *
1149997 ATAT ATAC AT-- ATAC ATAC GTAC GTAT GTAC ATAC ATAC GTAT ATAT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
1150043 GTAC TTAC ATAC ACAC ACAC ACAC ACAC ACT-C ACTCAC ATAC --AC ATAG
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-TAC A-T-AC ATAC ATAC ATAC
** ** ** ** ** ** * * * * *
1150091 GCAC GCAC GCAC GCAC GCAC GCAC GTAC ACAC GTAC ACGTAC ACAC GTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A--TAC ATAC ATAC
* * * * * *
1150141 ACGTAC ACAC GTAC ACGTAC ACAC GTAC ACGTAC ATAC GTAC ATAC GT-C
1 A--TAC ATAC ATAC A--TAC ATAC ATAC A--TAC ATAC ATAC ATAC ATAC
*
1150190 -TAC GTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1150237 ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
1150285 ATAC GTAT ATAT ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1150333 ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * * *
1150381 ATAT ATAC AT-- ATAC ATAC GTAT GTAT GTAT ATAT ATAC ATAC ATAT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* ** * * * * *
1150427 ATAT ATAC ATGT ATAC GTAT ATAC ATAC ATAT ATAC ATAC GTAC GTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * *
1150475 GTAC GTAC GTAC GTAC ATAC ATAC AT-- ATAC ATAC GTAC GTAT GTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
1150521 ATAT ATAC AT-- ATAC ATAC GTAC GTAT GTAC ATAC ATAC GTAC ATAT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
1150567 GTAC TTAC ATAC ATAC ATAC ATAC --AC ACAC ACAC ATAC ATAC ACAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * ** ** * ** ** **
1150613 ACAC ACAC -TCAC ATAC --AC ATAC GCAC GCAC GTAC GCAC GCAC GCAC
1 ATAC ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
** ** ** ** * *
1150659 GCAC GCAC GCAC GCAT ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1150707 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1150755 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1150803 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1150851 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1150899 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1150947 ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1150993 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151041 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151089 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151137 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151185 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151233 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151281 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151329 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151377 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151425 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151473 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151521 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151569 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151617 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151665 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151713 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151761 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151809 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151857 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151905 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1151953 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1152001 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1152049 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1152092 TAAATCTCTT
Statistics
Matches: 2283, Mismatches: 145, Indels: 78
0.91 0.06 0.03
Matches are distributed among these distances:
2 25 0.01
3 2 0.00
4 2236 0.98
5 2 0.00
6 18 0.01
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:1150130 original size:6 final size:6
Alignment explanation
Indices: 1150119--1150175 Score: 60
Period size: 6 Copynumber: 8.5 Consensus size: 6
1150109 ACGCACGTAC
1150119 ACACGT ACACGT ACACACGT ACACGT ACACACGT ACACGT ACACACGT
1 ACACGT ACACGT --ACACGT ACACGT --ACACGT ACACGT --ACACGT
1150167 ACACGT ACA
1 ACACGT ACA
1150176 TACGTACATA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
6 27 0.60
8 18 0.40
ACGTcount: A:0.37, C:0.35, G:0.14, T:0.14
Consensus pattern (6 bp):
ACACGT
Found at i:1150600 original size:6 final size:6
Alignment explanation
Indices: 1150589--1150631 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
1150579 ATACATACAT
* * * *
1150589 ACACAC ACACAC ATACAT ACACAC ACACAC ACTCAC ATACAC A
1 ACACAC ACACAC ACACAC ACACAC ACACAC ACACAC ACACAC A
1150632 TACGCACGCA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.49, C:0.42, G:0.00, T:0.09
Consensus pattern (6 bp):
ACACAC
Found at i:1153324 original size:33 final size:33
Alignment explanation
Indices: 1153287--1153352 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1153277 CATCTTAAGA
*
1153287 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
1153320 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
1153353 CAATCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:1153415 original size:21 final size:21
Alignment explanation
Indices: 1153386--1153450 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
1153376 CCCCTTATGC
* *
1153386 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
1153407 CTCTTAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1153428 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1153449 CT
1 CT
1153451 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.15, C:0.31, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:1153857 original size:22 final size:24
Alignment explanation
Indices: 1153829--1153879 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1153819 AACCTGCATT
*
1153829 TATAATAAA-AT-TTATAATTTTA
1 TATAATAAATATACTATAATTTTA
*
1153851 TATAATAAATATACTATCATTTTA
1 TATAATAAATATACTATAATTTTA
1153875 TATAA
1 TATAA
1153880 AAACACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.36
23 2 0.08
24 14 0.56
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TATAATAAATATACTATAATTTTA
Found at i:1155979 original size:182 final size:181
Alignment explanation
Indices: 1155649--1156124 Score: 650
Period size: 182 Copynumber: 2.6 Consensus size: 181
1155639 CGTACTTATG
* *
1155649 AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGATTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCG-TTTTATCATTTCGATACCGGTTT
*
1155714 TATCATATTTTTATATGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTAT
65 TATCATATTTTTACATGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTAT
* * * *
1155779 AAGCGCTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATACTTCTATT
130 AAGCGCTAAAAATGCTTCTCTTTTAAATTAACAAAGTGTCGATACTTATATT
* * * * *
1155831 AAAGTACCGACACTTTAAATATATCTGATAGCTCTTTACCAGTTTTATCATTTCGATACCGATTT
1 AAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACC-GTTTTATCATTTCGATACCGGTTT
* * *
1155896 TGTCATATTTTTACCTGTTATATCGTTGTCGATCGATACATTTTTATAAAGTATCGACACTTTAT
65 TATCATATTTTTACATGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTAT
* * *
1155961 ATGCGTTAAAAATGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
130 AAGCGCTAAAAATGCTTCTCTTTTAAATTAACAAAGTGTCGATACTTATATT
* * * * *
1156013 AAAGTATCGACACGTTCAATATATCCGATAAG-GATTTACCGGTATTGTCTTTTCG-TGACCGGT
1 AAAGTATCGACACTTTCAATATATCCGAT-AGCGCTTTACC-GTTTTATCATTTCGAT-ACCGGT
* * *
1156076 TTTATCGATATTTTTACATGTTATATTGATATGGATCGATACATTTTTA
63 TTTATC-ATATTTTTACATGTTATATCGTTGTGGATCGATACATTTTTA
1156125 ATTTGGATCG
Statistics
Matches: 255, Mismatches: 35, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
181 1 0.00
182 214 0.84
183 40 0.16
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCGTTTTATCATTTCGATACCGGTTTT
ATCATATTTTTACATGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTATA
AGCGCTAAAAATGCTTCTCTTTTAAATTAACAAAGTGTCGATACTTATATT
Found at i:1157179 original size:20 final size:20
Alignment explanation
Indices: 1157156--1157207 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1157146 AACGCGATCC
1157156 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
1157176 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
1157196 CCAAAATCGCAA
1 CCAGAATCGCAA
1157208 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:1157288 original size:20 final size:20
Alignment explanation
Indices: 1157263--1157456 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
1157253 GATTTTCCAT
* *
1157263 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
1157283 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
1157303 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1157323 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
1157343 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
1157363 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1157383 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
1157403 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
1157424 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
1157444 AATCGCAACGCGA
1 AATCGCAACGCGA
1157457 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:1157308 original size:40 final size:39
Alignment explanation
Indices: 1157259--1157456 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
1157249 TTGCGATTTT
* ** *
1157259 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
1157297 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
1157338 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
1157378 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
1157417 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1157457 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:1157346 original size:60 final size:60
Alignment explanation
Indices: 1157263--1157455 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
1157253 GATTTTCCAT
* ** * *
1157263 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
1157323 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
1157383 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
1157444 AATCGCAACGCG
1 AATCGCAACGCG
1157456 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:1157876 original size:33 final size:33
Alignment explanation
Indices: 1157837--1157907 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1157827 TTCACTTAGA
*
1157837 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1157870 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1157903 TTTCA
1 TTTCA
1157908 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1158047 original size:14 final size:14
Alignment explanation
Indices: 1158028--1158082 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1158018 AGAATGACTG
1158028 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
1158042 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
1158061 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
1158075 TCGCAACG
1 TCGCAACG
1158083 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:1158065 original size:33 final size:33
Alignment explanation
Indices: 1158028--1158098 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1158018 AGAATGACTG
**
1158028 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1158061 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1158094 TCGCA
1 TCGCA
1158099 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:1158116 original size:19 final size:19
Alignment explanation
Indices: 1158094--1158224 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
1158084 GAAACCAAAA
*
1158094 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1158113 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1158127 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1158146 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1158160 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1158179 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
1158193 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
1158212 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1158225 CTCTCGTTGC
Statistics
Matches: 89, Mismatches: 8, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
14 30 0.34
16 8 0.09
17 9 0.10
19 42 0.47
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1158135 original size:14 final size:14
Alignment explanation
Indices: 1158116--1158238 Score: 93
Period size: 14 Copynumber: 7.7 Consensus size: 14
1158106 TTTCATTTCG
1158116 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1158130 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1158149 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1158163 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1158182 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1158196 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
1158213 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
1158229 CGTTGCGATT
1 CGTTGCGATT
1158239 TTCATTTCAA
Statistics
Matches: 90, Mismatches: 4, Indels: 30
0.73 0.03 0.24
Matches are distributed among these distances:
14 38 0.42
15 1 0.01
16 11 0.12
17 11 0.12
18 1 0.01
19 28 0.31
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1158141 original size:33 final size:33
Alignment explanation
Indices: 1158099--1158246 Score: 278
Period size: 33 Copynumber: 4.5 Consensus size: 33
1158089 CAAAATCGCA
1158099 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1158132 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1158165 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
1158198 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1158231 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1158247 AACCAAAAGA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 111 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1160171 original size:185 final size:186
Alignment explanation
Indices: 1159941--1160876 Score: 1833
Period size: 185 Copynumber: 5.0 Consensus size: 186
1159931 TAGATTGCTT
* *
1159941 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACCCTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160006 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1160071 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160126 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160191 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1160256 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160312 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160376 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1160441 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160497 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160562 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1160627 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160682 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160747 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1160812 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160868 AGTAAATTT
1 AGTAAATTT
1160877 ATCCATTCAA
Statistics
Matches: 746, Mismatches: 2, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
185 523 0.70
186 223 0.30
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1160255 original size:93 final size:93
Alignment explanation
Indices: 1159941--1160876 Score: 1833
Period size: 93 Copynumber: 10.1 Consensus size: 93
1159931 TAGATTGCTT
* *
1159941 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACCCTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160006 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160034 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160098 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160126 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160191 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160219 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160284 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160312 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160376 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160404 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160469 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160497 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160562 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160590 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160654 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160682 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160747 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160775 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160840 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1160868 AGTAAATTT
1 AGTAAATTT
1160877 ATCCATTCAA
Statistics
Matches: 838, Mismatches: 2, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
92 276 0.33
93 562 0.67
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1160438 original size:278 final size:278
Alignment explanation
Indices: 1159941--1160876 Score: 1854
Period size: 278 Copynumber: 3.4 Consensus size: 278
1159931 TAGATTGCTT
* *
1159941 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACCCTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160006 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1160071 GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
131 GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
1160136 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG
196 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG
1160201 TTTTGTCTTTTGGTTGAA
261 TTTTGTCTTTTGGTTGAA
1160219 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160284 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1160349 GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
131 GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
1160414 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG
196 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG
1160479 TTTTGTCTTTTGGTTGAA
261 TTTTGTCTTTTGGTTGAA
1160497 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160562 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1160627 GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
131 GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
1160692 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG
196 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG
1160757 TTTTGTCTTTTGGTTGAA
261 TTTTGTCTTTTGGTTGAA
1160775 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1160840 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
1160877 ATCCATTCAA
Statistics
Matches: 656, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
278 656 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (278 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG
TTTTGTCTTTTGGTTGAA
Found at i:1160959 original size:19 final size:19
Alignment explanation
Indices: 1160919--1161047 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1160909 TAGTTTACTT
* *
1160919 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1160939 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1160958 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1160977 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1160991 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
1161010 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
1161024 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1161043 TCGCA
1 TCGCA
1161048 TTGCGATTTC
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1160998 original size:33 final size:32
Alignment explanation
Indices: 1160955--1161047 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
1160945 CGCGAAACCA
**
1160955 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1160987 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1161020 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1161048 TTGCGATTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1161045 original size:52 final size:52
Alignment explanation
Indices: 1160919--1161047 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
1160909 TAGTTTACTT
**
1160919 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
1160971 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
1161024 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
1161048 TTGCGATTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:1161083 original size:14 final size:14
Alignment explanation
Indices: 1161064--1161120 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1161054 TTTCATTTCG
1161064 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1161078 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1161095 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1161111 CGTTGCGATT
1 CGTTGCGATT
1161121 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1161095 original size:33 final size:33
Alignment explanation
Indices: 1161048--1161139 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
1161038 CAAAATCGCA
*
1161048 TTGCGA-TTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1161080 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1161113 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1161140 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 6 0.11
33 50 0.89
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1161104 original size:19 final size:19
Alignment explanation
Indices: 1161043--1161176 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
1161033 GAAACCAAAA
*
1161043 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
1161061 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1161077 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1161094 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1161110 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1161127 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
1161146 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1161166 TCGTGTTGCGA
1 TCGCGTTGCGA
1161177 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
18 10 0.11
19 36 0.38
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1163097 original size:14 final size:14
Alignment explanation
Indices: 1163078--1163113 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1163068 ATTGTTTAAT
1163078 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1163092 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1163106 TGATTTGT
1 TGATTTGT
1163114 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1163235 original size:19 final size:19
Alignment explanation
Indices: 1163219--1163320 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
1163209 CAAAATGACT
1163219 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1163238 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1163257 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1163271 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1163290 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1163310 ATCGCAATGCG
1 ATCGCAATGCG
1163321 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1163373 original size:19 final size:19
Alignment explanation
Indices: 1163349--1163636 Score: 338
Period size: 19 Copynumber: 16.4 Consensus size: 19
1163339 GATTATCTCG
1163349 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1163368 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1163387 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
1163401 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1163420 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1163439 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1163458 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1163477 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
1163491 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1163510 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1163529 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1163543 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1163562 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1163576 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1163596 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
1163610 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
1163629 TTGCGATT
1 TTGCGATT
1163637 GTATTTTCCG
Statistics
Matches: 233, Mismatches: 10, Indels: 52
0.79 0.03 0.18
Matches are distributed among these distances:
14 35 0.15
16 31 0.13
17 27 0.12
18 3 0.01
19 125 0.54
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1163389 original size:52 final size:51
Alignment explanation
Indices: 1163327--1163636 Score: 262
Period size: 52 Copynumber: 5.9 Consensus size: 51
1163317 TGCGTTTATA
1163327 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
1163379 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
1163431 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTC
1 ATTTCGCATTGCGA-TTTC---TCG--TTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * *
1163490 GTTGCG-ATTTTC-ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* * * * * *
1163538 -TCTCG--TTGCGATTT-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTCTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
* *
1163587 ATTTCCGCATTGCGATTT-TCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 ATTT-CGCATTGCGATTTCTC--GTTGCGATTTTCATTTCGCATTGCGATT
1163637 GTATTTTCCG
Statistics
Matches: 212, Mismatches: 24, Indels: 43
0.76 0.09 0.15
Matches are distributed among these distances:
45 12 0.06
46 8 0.04
47 12 0.06
48 2 0.01
49 4 0.02
50 2 0.01
51 2 0.01
52 89 0.42
53 25 0.12
54 5 0.02
55 9 0.04
57 30 0.14
58 3 0.01
59 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (51 bp):
ATTTCGCATTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:1163547 original size:33 final size:33
Alignment explanation
Indices: 1163368--1163636 Score: 267
Period size: 33 Copynumber: 7.8 Consensus size: 33
1163358 TCATTTCGCA
*
1163368 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
1163401 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* *
1163437 CATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TT-CTCTCG
* * * * *
1163475 CATTGCGATTCTGTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
1163510 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1163543 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
1163576 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
1163610 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
1163637 GTATTTTCCG
Statistics
Matches: 207, Mismatches: 15, Indels: 28
0.83 0.06 0.11
Matches are distributed among these distances:
31 9 0.04
32 5 0.02
33 95 0.46
34 29 0.14
35 6 0.03
36 5 0.02
37 2 0.01
38 44 0.21
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:1163548 original size:14 final size:14
Alignment explanation
Indices: 1163529--1163583 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1163519 TCATTTCGCA
1163529 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
1163543 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
1163560 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
1163576 TTGCGATT
1 TTGCGATT
1163584 TTCATTTCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:1165936 original size:12 final size:12
Alignment explanation
Indices: 1165919--1165943 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1165909 TCTTCGGGGA
1165919 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1165931 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1165943 C
1 C
1165944 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1166152 original size:24 final size:24
Alignment explanation
Indices: 1166118--1166164 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1166108 CTGAAACATC
1166118 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1166142 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1166165 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1166875 original size:20 final size:20
Alignment explanation
Indices: 1166847--1167215 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
1166837 AAATTTCAGT
* * * *
1166847 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1166867 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
1166887 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1166907 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1166927 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1166947 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1166967 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
1166987 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1167007 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1167027 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
1167047 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
1167067 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1167087 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* * **
1167107 ATTGTGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
1167127 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
1167147 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
1167167 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
1167187 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
1167207 GTTGCGATT
1 GTTGCGATT
1167216 ATGGAAAATC
Statistics
Matches: 307, Mismatches: 34, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
19 5 0.02
20 297 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:1173275 original size:13 final size:13
Alignment explanation
Indices: 1173252--1173293 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
1173242 AAGTATTAGT
1173252 TTTTTAGAAAAATA
1 TTTTTA-AAAAATA
*
1173266 TTTTT-TAAAATAA
1 TTTTTAAAAAAT-A
1173279 TTTTTAAAAAATA
1 TTTTTAAAAAATA
1173292 TT
1 TT
1173294 CTAACATGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 5 0.21
13 9 0.38
14 10 0.42
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
TTTTTAAAAAATA
Found at i:1174256 original size:23 final size:23
Alignment explanation
Indices: 1174238--1174321 Score: 114
Period size: 23 Copynumber: 3.7 Consensus size: 23
1174228 CTCGTATAAA
1174238 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* **
1174261 TGTACCGAAGTGCCGTGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
**
1174284 TGCACCGAAGTGCCGTGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
1174307 TGCACCGAAATGCCA
1 TGCACCGAAGTGCCA
1174322 TATAAAATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:1175403 original size:3 final size:3
Alignment explanation
Indices: 1175397--1175422 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1175387 AGAGAGAAAG
1175397 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1175423 ATGAAGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1185857 original size:32 final size:32
Alignment explanation
Indices: 1185821--1185881 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
1185811 AAATTTACGC
1185821 ATTTGACTTCATTTAC-AAGAATTGTAAAATAA
1 ATTTGACTTCA-TTACAAAGAATTGTAAAATAA
* *
1185853 ATTTGAGTTTATTACAAAGAATTGTAAAA
1 ATTTGACTTCATTACAAAGAATTGTAAAA
1185882 ATTGCGAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (32 bp):
ATTTGACTTCATTACAAAGAATTGTAAAATAA
Found at i:1220907 original size:32 final size:35
Alignment explanation
Indices: 1220862--1220925 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
1220852 CAAACCCAAG
1220862 AAAAATGAAAAT-A-AATAAATAAA-AATATATCTA
1 AAAAATGAAAATAATAAT-AATAAACAATATATCTA
*
1220895 AAAAAT-ATAATAATAATAATAAACAATATAT
1 AAAAATGAAAATAATAATAATAAACAATATAT
1220926 ATATAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 4 0.15
33 13 0.48
34 10 0.37
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (35 bp):
AAAAATGAAAATAATAATAATAAACAATATATCTA
Found at i:1220917 original size:21 final size:21
Alignment explanation
Indices: 1220893--1220932 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1220883 AAAATATATC
1220893 TAAAAAATATA-ATAATAATAA
1 TAAAAAATATATAT-ATAATAA
*
1220914 TAAACAATATATATATAAT
1 TAAAAAATATATATATAAT
1220933 TAAAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAAAATATATATATAATAA
Found at i:1224638 original size:2 final size:2
Alignment explanation
Indices: 1224631--1224696 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
1224621 ACACAATGTA
1224631 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
1224673 AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1224697 GTTGTAATGT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1228126 original size:16 final size:16
Alignment explanation
Indices: 1228105--1228135 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1228095 ATAAATAAAT
1228105 GAACATAAACGAACAC
1 GAACATAAACGAACAC
*
1228121 GAACATAAATGAACA
1 GAACATAAACGAACA
1228136 AATTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.19, G:0.13, T:0.10
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:1228243 original size:16 final size:16
Alignment explanation
Indices: 1228224--1228264 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
1228214 AACGCGTACT
1228224 AACATAAACCAACACG
1 AACATAAACCAACACG
**
1228240 AACATAAATGAACACG
1 AACATAAACCAACACG
1228256 AACATAAAC
1 AACATAAAC
1228265 GTTGGAGACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.24, G:0.07, T:0.10
Consensus pattern (16 bp):
AACATAAACCAACACG
Found at i:1229329 original size:14 final size:14
Alignment explanation
Indices: 1229312--1229343 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1229302 AATGAACATA
1229312 AACGAACATAACCG
1 AACGAACATAACCG
*
1229326 AACGAACATAATCG
1 AACGAACATAACCG
1229340 AACG
1 AACG
1229344 TTCACGAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:1237942 original size:12 final size:13
Alignment explanation
Indices: 1237927--1237955 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1237917 ACTGTAAGTA
1237927 TATATGTAT-ATG
1 TATATGTATAATG
1237939 TATATGTATAATG
1 TATATGTATAATG
1237952 TATA
1 TATA
1237956 ATGTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (13 bp):
TATATGTATAATG
Found at i:1242420 original size:24 final size:22
Alignment explanation
Indices: 1242392--1242448 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
1242382 TTTTGGACAC
1242392 TTATTTATATAAGCAAATATATAG
1 TTATTTATATAAGCAAA-A-ATAG
* ** *
1242416 TTATTCATATAATTAAAAATAT
1 TTATTTATATAAGCAAAAATAG
1242438 TTATTTATATA
1 TTATTTATATA
1242449 TTTTGGATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 13 0.46
23 1 0.04
24 14 0.50
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (22 bp):
TTATTTATATAAGCAAAAATAG
Found at i:1247544 original size:12 final size:12
Alignment explanation
Indices: 1247527--1247552 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1247517 GAAGAAGAAT
1247527 TTCTTTTATTTA
1 TTCTTTTATTTA
1247539 TTCTTTTATTTA
1 TTCTTTTATTTA
1247551 TT
1 TT
1247553 TGCATTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTCTTTTATTTA
Found at i:1271489 original size:5 final size:5
Alignment explanation
Indices: 1271479--1271802 Score: 559
Period size: 5 Copynumber: 64.6 Consensus size: 5
1271469 GTTTCTGTGG
1271479 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1271529 ATATA ATATA ATATA ATATA ATATA ATATA ATATAA TATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATAT-A -ATATA ATATA ATATA
1271581 ATAATA TATATA ATATA ATATA ATATA ATAT- ATA-A TATATA ATATA
1 AT-ATA -ATATA ATATA ATATA ATATA ATATA ATATA -ATATA ATATA
1271627 ATATA ATATA ATATA ATAT- A-ATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1271675 ATAT- ATATA ATATA TATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1271725 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1271775 ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATA
1271803 ATTTGTGTTG
Statistics
Matches: 308, Mismatches: 0, Indels: 22
0.93 0.00 0.07
Matches are distributed among these distances:
3 2 0.01
4 9 0.03
5 277 0.90
6 14 0.05
7 6 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:1275507 original size:7 final size:7
Alignment explanation
Indices: 1275495--1275522 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1275485 TTGAACATTA
1275495 GAAAATG
1 GAAAATG
1275502 GAAAATG
1 GAAAATG
1275509 GAAAATG
1 GAAAATG
1275516 GAAAATG
1 GAAAATG
1275523 TTTTAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (7 bp):
GAAAATG
Found at i:1288929 original size:18 final size:18
Alignment explanation
Indices: 1288906--1288968 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 18
1288896 GAAATAAAAG
1288906 AGAAAAAATGAAAAAATA
1 AGAAAAAATGAAAAAATA
1288924 AGAAAAAA-G-AAAAATA
1 AGAAAAAATGAAAAAATA
* *
1288940 ATGGAAAAATCGAAAAGAAAA
1 A-GAAAAAAT-GAAAA-AATA
1288961 AGAAAAAA
1 AGAAAAAA
1288969 AAAAGAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 8 0.22
17 7 0.19
18 8 0.22
19 1 0.03
20 9 0.24
21 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (18 bp):
AGAAAAAATGAAAAAATA
Found at i:1288961 original size:41 final size:40
Alignment explanation
Indices: 1288910--1288986 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
1288900 TAAAAGAGAA
*
1288910 AAAATGAAAAA-ATAAGAAAAAAGAAAAATAATGGAAAAATCG
1 AAAATGAAAAAGA-AAAAAAAAAG-AAAA-AATGGAAAAATCG
1288952 AAAA-GAAAAAGAAAAAAAAAAGAAAAAATGGAAAA
1 AAAATGAAAAAGAAAAAAAAAAGAAAAAATGGAAAA
1288987 GGGAATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
39 9 0.27
40 4 0.12
41 15 0.45
42 5 0.15
ACGTcount: A:0.77, C:0.01, G:0.14, T:0.08
Consensus pattern (40 bp):
AAAATGAAAAAGAAAAAAAAAAGAAAAAATGGAAAAATCG
Found at i:1288968 original size:31 final size:30
Alignment explanation
Indices: 1288901--1288987 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 30
1288891 AAGAAGAAAT
* * *
1288901 AAAAGAGAAAAAATGAAAAAAT--AAGA-A
1 AAAAGAAAAAAAAAGAAAAAATCGAAAAGA
* * *
1288928 AAAAGAAAAATAATGGAAAAATCGAAAAGA
1 AAAAGAAAAAAAAAGAAAAAATCGAAAAGA
*
1288958 AAAAGAAAAAAAAAAGAAAAAATGGAAAAG
1 AAAAG-AAAAAAAAAGAAAAAATCGAAAAG
1288988 GGAATAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 19 0.40
29 3 0.06
30 6 0.12
31 20 0.42
ACGTcount: A:0.76, C:0.01, G:0.16, T:0.07
Consensus pattern (30 bp):
AAAAGAAAAAAAAAGAAAAAATCGAAAAGA
Found at i:1288978 original size:18 final size:18
Alignment explanation
Indices: 1288894--1289012 Score: 62
Period size: 18 Copynumber: 6.4 Consensus size: 18
1288884 TTGCTTGAAG
* *
1288894 AAGAAATAAAAGAGAAAA
1 AAGAAAAAAAAAAGAAAA
*
1288912 AATG-AAAAAATAAGAAAA
1 AA-GAAAAAAAAAAGAAAA
* **
1288930 AAGAAAAATAATGGAAAA
1 AAGAAAAAAAAAAGAAAA
* *
1288948 ATCGAAAAGAAAAAGAAAA
1 A-AGAAAAAAAAAAGAAAA
1288967 AA-AAAAGAAAAAATGGAAAA
1 AAGAAAA-AAAAAA--GAAAA
** * *
1288987 GGGAATAAAAAATGAAAA
1 AAGAAAAAAAAAAGAAAA
*
1289005 ATGAAAAA
1 AAGAAAAA
1289013 TGAAAAAAAT
Statistics
Matches: 73, Mismatches: 21, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
17 5 0.07
18 41 0.56
19 14 0.19
20 10 0.14
21 3 0.04
ACGTcount: A:0.75, C:0.01, G:0.16, T:0.08
Consensus pattern (18 bp):
AAGAAAAAAAAAAGAAAA
Found at i:1288986 original size:25 final size:25
Alignment explanation
Indices: 1288952--1289035 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 25
1288942 GGAAAAATCG
1288952 AAAA-GAAAAA-GAAAAAAAAAAGAA
1 AAAATGAAAAAGGAAAAAAAAAAG-A
* * *
1288976 AAAATGGAAAAGGGAATAAAAAATGA
1 AAAAT-GAAAAAGGAAAAAAAAAAGA
* *
1289002 AAAATGAAAAATG--AAAAAAATGA
1 AAAATGAAAAAGGAAAAAAAAAAGA
1289025 AAAATGAAAAA
1 AAAATGAAAAA
1289036 AGAGAAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
23 20 0.39
24 4 0.08
25 6 0.12
26 11 0.22
27 10 0.20
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.08
Consensus pattern (25 bp):
AAAATGAAAAAGGAAAAAAAAAAGA
Found at i:1289004 original size:7 final size:7
Alignment explanation
Indices: 1288994--1289035 Score: 66
Period size: 7 Copynumber: 5.7 Consensus size: 7
1288984 AAAGGGAATA
1288994 AAAAATG
1 AAAAATG
1289001 AAAAATG
1 AAAAATG
1289008 AAAAATG
1 AAAAATG
1289015 AAAAAAATG
1 --AAAAATG
1289024 AAAAATG
1 AAAAATG
1289031 AAAAA
1 AAAAA
1289036 AGAGAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 26 0.79
9 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:1289042 original size:16 final size:15
Alignment explanation
Indices: 1288909--1289042 Score: 71
Period size: 16 Copynumber: 8.2 Consensus size: 15
1288899 ATAAAAGAGA
1288909 AAAAATGAAAAAATAAG
1 AAAAATG-AAAAA-AAG
*
1288926 AAAAAAGAAAAATAATGG
1 AAAAATGAAAAA-AA--G
1288944 AAAAATCGAAAAGAAA-
1 AAAAAT-GAAAA-AAAG
1288960 AAGAAA--AAAAAAAG
1 AA-AAATGAAAAAAAG
1288974 AAAAAATGGAAAAGGGAATA-
1 -AAAAAT-GAAAA---AA-AG
*
1288994 AAAAATG-AAAAATG
1 AAAAATGAAAAAAAG
1289008 AAAAATGAAAAAAATG
1 AAAAATGAAAAAAA-G
1289024 AAAAATGAAAAAAGAG
1 AAAAATGAAAAAA-AG
1289040 AAA
1 AAA
1289043 TAAAAGGAGG
Statistics
Matches: 95, Mismatches: 4, Indels: 37
0.70 0.03 0.27
Matches are distributed among these distances:
13 3 0.03
14 16 0.17
15 7 0.07
16 28 0.29
17 17 0.18
18 7 0.07
19 13 0.14
20 3 0.03
21 1 0.01
ACGTcount: A:0.75, C:0.01, G:0.16, T:0.09
Consensus pattern (15 bp):
AAAAATGAAAAAAAG
Found at i:1290406 original size:36 final size:37
Alignment explanation
Indices: 1290316--1290425 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
1290306 TTCAAAACAG
* * *
1290316 GTCAATCTTAAGCCTTCATGAAAGAGCAGTGAAGCAA
1 GTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAA
* *
1290353 TTCAAACTTAAGCCTTCACGGAAGAGTAGTGAAGCAA
1 GTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAA
1290390 GTC-ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAA
1 GTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAA
1290426 ATTCGTTTGT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
36 32 0.48
37 34 0.52
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (37 bp):
GTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAA
Found at i:1290501 original size:48 final size:49
Alignment explanation
Indices: 1290444--1290621 Score: 144
Period size: 55 Copynumber: 3.4 Consensus size: 49
1290434 GTTGAAGATT
*
1290444 GAGTCCTATACTCTCTGAAG-GAGCGAACAAATTCATTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGAGAGCGAACAAATTCATTGAAGATTGTTC
* ***
1290492 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTCA-TGAAGATTGTTC
1 GAGTTCTATACTCTCT----G-A-AGAGAGC-GAACAAATTCATTGAAGATTGTTC
** **
1290547 GAGTTCTATACTCTCTGAAGGAATAGAAAGCGAACACGTTTGTTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAA-G---AG--AGCGAACAAATTCATTGAAGATTGTTC
1290602 GAGTTCTATACTCTCTGAAG
1 GAGTTCTATACTCTCTGAAG
1290622 GAATAGAGAG
Statistics
Matches: 104, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
48 15 0.14
49 1 0.01
50 2 0.02
51 1 0.01
52 1 0.01
53 3 0.03
54 8 0.08
55 66 0.63
56 7 0.07
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (49 bp):
GAGTTCTATACTCTCTGAAGAGAGCGAACAAATTCATTGAAGATTGTTC
Found at i:1290539 original size:55 final size:55
Alignment explanation
Indices: 1290480--1290904 Score: 503
Period size: 55 Copynumber: 7.8 Consensus size: 55
1290470 ACAAATTCAT
*
1290480 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTCA
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA
* * *
1290535 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAAAGCGAACACGTTTGT-
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TA
*
1290590 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCATTTTA
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA
* * * * *
1290645 TGAAGATTGCTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCGAACACGTTTGT-
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TA
* * * * *
1290700 TAAAGA---TT-GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACCTG-TTTA
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA
1290750 TTGAAGATT-TTCCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA
1 -TGAAGATTGTT-CGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA
* * * * * *
1290806 TTGAAGATTGTTCAAG-TCTTATACTATCTGAATGAATAGAGAGCAGACACATTTTA
1 -TGAAGATTGTTCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA
*
1290862 TGAAGATTGTTCGAG-TCTTATACT-TCCTGAAGGAATAGGGAGC
1 TGAAGATTGTTCGAGTTC-TATACTCT-CTGAAGGAATAGAGAGC
1290905 AGACTCGTCA
Statistics
Matches: 321, Mismatches: 36, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
49 1 0.00
50 2 0.01
51 37 0.12
52 1 0.00
53 2 0.01
54 2 0.01
55 225 0.70
56 49 0.15
57 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (55 bp):
TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA
Found at i:1290781 original size:161 final size:164
Alignment explanation
Indices: 1290478--1290899 Score: 482
Period size: 161 Copynumber: 2.6 Consensus size: 164
1290468 GAACAAATTC
* * * * *
1290478 ATTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTCATGAAGATT
1 ATTGAAGATTGCTCGAGTTCTATACTCCCTGAAGGAATAGAGAGCGAACACGTTTCATAAAGA-T
* * *
1290543 GTTCGAGTTCTATACTCTCTGAAGGAATAGAAAGCGAACACGTTTGTTGAAGATTGTTCGAGTTC
65 -TTCGAGTCCTATACTCTCTGAAAGAATAGAAAGCGAACACGTTTATTGAAGATTGTTCGAGTTC
1290608 TATACTCTCTGAAGGAATAGAGAGCGGACCCATTTT
129 TATACTCTCTGAAGGAATAGAGAGCGGACCCATTTT
* **
1290644 A-TGAAGATTGCTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCGAACACGTTTGTTAAAGA-T
1 ATTGAAGATTGCTCGAGTTCTATACTCCCTGAAGGAATAGAGAGCGAACACGTTTCATAAAGATT
** *
1290707 T-GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGAC-CTGTTTATTGAAGATT-TTCCGAGTTC
66 TCGAGTCCTATACTCTCTGAAAGAATAGAAAGCGAACAC-GTTTATTGAAGATTGTT-CGAGTTC
*
1290769 TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTT
129 TATACTCTCTGAAGGAATAGAGAGCGGACCCATTTT
* * ** * * * *
1290805 ATTGAAGATTGTTCAAG-TCTTATACTATCTGAATGAATAGAGAGC-AGACACATTTTATGAAGA
1 ATTGAAGATTGCTCGAGTTC-TATACTCCCTGAAGGAATAGAGAGCGA-ACACGTTTCATAAAGA
* *
1290868 TTGTTCGAGTCTTATACT-TCCTGAAGGAATAG
64 -T-TTCGAGTCCTATACTCT-CTGAAAGAATAG
1290900 GGAGCAGACT
Statistics
Matches: 219, Mismatches: 27, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
160 3 0.01
161 89 0.41
162 48 0.22
165 56 0.26
166 23 0.11
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (164 bp):
ATTGAAGATTGCTCGAGTTCTATACTCCCTGAAGGAATAGAGAGCGAACACGTTTCATAAAGATT
TCGAGTCCTATACTCTCTGAAAGAATAGAAAGCGAACACGTTTATTGAAGATTGTTCGAGTTCTA
TACTCTCTGAAGGAATAGAGAGCGGACCCATTTT
Found at i:1295895 original size:16 final size:17
Alignment explanation
Indices: 1295863--1295895 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1295853 GCAGTTGTTT
*
1295863 TTATTGTTTGGCTTGCA
1 TTATTGTTTGACTTGCA
1295880 TTATTGTTT-ACTTGCA
1 TTATTGTTTGACTTGCA
1295896 GTGTACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.12, G:0.18, T:0.55
Consensus pattern (17 bp):
TTATTGTTTGACTTGCA
Found at i:1298804 original size:32 final size:32
Alignment explanation
Indices: 1298703--1298809 Score: 123
Period size: 31 Copynumber: 3.4 Consensus size: 32
1298693 TAGGTCCCGA
* *
1298703 AGAACCTAGGTAA-ACTGTCCATATGTTCCTT
1 AGAACATAGGTAATACTGTCCATATGTTCCAT
* *
1298734 AGAACATAGGT-ATACTGTCCATATGTCTCGAA
1 AGAACATAGGTAATACTGTCCATATGT-TCCAT
1298766 AG-ACATAGGTAATTA-TGTCCATATGTTCCAT
1 AGAACATAGGTAA-TACTGTCCATATGTTCCAT
*
1298797 AGAACATAAGTAA
1 AGAACATAGGTAA
1298810 ACCCTCGACT
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
30 1 0.02
31 36 0.56
32 25 0.39
33 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (32 bp):
AGAACATAGGTAATACTGTCCATATGTTCCAT
Found at i:1312402 original size:36 final size:36
Alignment explanation
Indices: 1312361--1312463 Score: 188
Period size: 36 Copynumber: 2.9 Consensus size: 36
1312351 AGTTGAGTAT
*
1312361 TATCAGCTTTGGTACATTCATGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
1312397 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1312433 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
1312464 CCAGCACCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:1316485 original size:36 final size:36
Alignment explanation
Indices: 1316444--1316546 Score: 188
Period size: 36 Copynumber: 2.9 Consensus size: 36
1316434 AGTTGAGTAT
*
1316444 TATCAGCTTTGGTACATTCATGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
1316480 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1316516 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
1316547 CCAGCACCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:1326233 original size:21 final size:21
Alignment explanation
Indices: 1326209--1326250 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1326199 AGCTGGATTC
1326209 AAAGATCTGTGTTATGAATTA
1 AAAGATCTGTGTTATGAATTA
1326230 AAAGATCTGTGTTATGAATTA
1 AAAGATCTGTGTTATGAATTA
1326251 CTTCATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (21 bp):
AAAGATCTGTGTTATGAATTA
Found at i:1333049 original size:21 final size:21
Alignment explanation
Indices: 1333007--1333049 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1332997 TTTCTGGGCT
* *
1333007 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
1333028 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1333049 A
1 A
1333050 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1333101 original size:20 final size:20
Alignment explanation
Indices: 1333076--1333113 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1333066 GAATGCTAGA
*
1333076 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
1333096 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
1333114 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:1340187 original size:78 final size:78
Alignment explanation
Indices: 1340058--1340221 Score: 328
Period size: 78 Copynumber: 2.1 Consensus size: 78
1340048 CATGGCATTG
1340058 TGCCTCTCCTGTAATTTTCTTGATTTTACACAAACTTTCCATTCTGTTATTAAACAGTTTAGTGT
1 TGCCTCTCCTGTAATTTTCTTGATTTTACACAAACTTTCCATTCTGTTATTAAACAGTTTAGTGT
1340123 ACTGCATGCATAC
66 ACTGCATGCATAC
1340136 TGCCTCTCCTGTAATTTTCTTGATTTTACACAAACTTTCCATTCTGTTATTAAACAGTTTAGTGT
1 TGCCTCTCCTGTAATTTTCTTGATTTTACACAAACTTTCCATTCTGTTATTAAACAGTTTAGTGT
1340201 ACTGCATGCATAC
66 ACTGCATGCATAC
1340214 TGCCTCTC
1 TGCCTCTC
1340222 TTTTAGGAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 86 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (78 bp):
TGCCTCTCCTGTAATTTTCTTGATTTTACACAAACTTTCCATTCTGTTATTAAACAGTTTAGTGT
ACTGCATGCATAC
Found at i:1348233 original size:25 final size:25
Alignment explanation
Indices: 1348199--1348248 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1348189 TTCCTCCTTT
1348199 GGTTGGCCTGGATTGTCATTCGTAG
1 GGTTGGCCTGGATTGTCATTCGTAG
1348224 GGTTGGCCTGGATTGTCATTCGTAG
1 GGTTGGCCTGGATTGTCATTCGTAG
1348249 ATTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.16, G:0.36, T:0.36
Consensus pattern (25 bp):
GGTTGGCCTGGATTGTCATTCGTAG
Found at i:1351438 original size:18 final size:18
Alignment explanation
Indices: 1351415--1351452 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
1351405 AATTCGTATG
1351415 CTTCTTTCTTCAATATAT
1 CTTCTTTCTTCAATATAT
1351433 CTTCTTTCTTCAATATAT
1 CTTCTTTCTTCAATATAT
1351451 CT
1 CT
1351453 ATATTTATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (18 bp):
CTTCTTTCTTCAATATAT
Found at i:1351532 original size:2 final size:2
Alignment explanation
Indices: 1351525--1351578 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
1351515 TGATATAATG
1351525 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1351567 TA TA TA TA TA TA
1 TA TA TA TA TA TA
1351579 GTTTTTATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1352617 original size:16 final size:16
Alignment explanation
Indices: 1352596--1352673 Score: 102
Period size: 16 Copynumber: 4.9 Consensus size: 16
1352586 TTACCCGACC
1352596 TGTTTTCAACCTGACA
1 TGTTTTCAACCTGACA
*
1352612 TGTTTTCAACCTGACC
1 TGTTTTCAACCTGACA
*
1352628 TGTTTTCAACCTGATA
1 TGTTTTCAACCTGACA
* * *
1352644 TGTTTTTAACTTGACC
1 TGTTTTCAACCTGACA
*
1352660 TGTTTTTAACCTGA
1 TGTTTTCAACCTGA
1352674 TCTGGTATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 54 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.44
Consensus pattern (16 bp):
TGTTTTCAACCTGACA
Found at i:1352674 original size:32 final size:32
Alignment explanation
Indices: 1352592--1352674 Score: 130
Period size: 32 Copynumber: 2.6 Consensus size: 32
1352582 GGTATTACCC
*
1352592 GACCTGTTTTCAACCTGACATGTTTTCAACCT
1 GACCTGTTTTCAACCTGATATGTTTTCAACCT
* *
1352624 GACCTGTTTTCAACCTGATATGTTTTTAACTT
1 GACCTGTTTTCAACCTGATATGTTTTCAACCT
*
1352656 GACCTGTTTTTAACCTGAT
1 GACCTGTTTTCAACCTGAT
1352675 CTGGTATTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (32 bp):
GACCTGTTTTCAACCTGATATGTTTTCAACCT
Found at i:1352949 original size:23 final size:24
Alignment explanation
Indices: 1352915--1352960 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
1352905 ATGTAAAGGA
1352915 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
1352939 AAATT-ATATAGTTTAATTTATA
1 AAATTAATATAGTTTAATTTATA
1352961 AAAAGAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:1353071 original size:23 final size:23
Alignment explanation
Indices: 1353045--1353098 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
1353035 ATAATTTTGA
1353045 CAATACATTAGTTTACATAGGCC
1 CAATACATTAGTTTACATAGGCC
* *
1353068 CAATATATTAGTTTACATAGGCT
1 CAATACATTAGTTTACATAGGCC
1353091 CAATACAT
1 CAATACAT
1353099 AAATCAACTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (23 bp):
CAATACATTAGTTTACATAGGCC
Found at i:1353127 original size:2 final size:2
Alignment explanation
Indices: 1353120--1353173 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
1353110 TTTATTACAA
1353120 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
1353162 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1353174 GTGTGTGCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1353231 original size:14 final size:14
Alignment explanation
Indices: 1353208--1353247 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1353198 TTATATTAGG
1353208 GTTTAGGGTTTAAT
1 GTTTAGGGTTTAAT
*
1353222 GTTTATGGTTTAAAT
1 GTTTAGGGTTT-AAT
1353237 -TTTAGGGTTTA
1 GTTTAGGGTTTA
1353248 TAATTTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 1 0.04
14 19 0.83
15 3 0.13
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (14 bp):
GTTTAGGGTTTAAT
Found at i:1353344 original size:2 final size:2
Alignment explanation
Indices: 1353339--1353400 Score: 58
Period size: 2 Copynumber: 32.0 Consensus size: 2
1353329 TAATTTACTT
* **
1353339 TA TA TA -A TT TA TA TA TA TA TA TA TA GG T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1353379 TA TA TA -A TT TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA -TA TA
1353401 CATGGTTTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
1 3 0.06
2 44 0.90
3 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1353363 original size:19 final size:19
Alignment explanation
Indices: 1353339--1353400 Score: 88
Period size: 21 Copynumber: 3.1 Consensus size: 19
1353329 TAATTTACTT
1353339 TATATAATTTATATATATA
1 TATATAATTTATATATATA
*
1353358 TATATAGGTTATATATATATA
1 TATATA-ATT-TATATATATA
1353379 TATATAATTTATATATACTA
1 TATATAATTTATATATA-TA
1353399 TA
1 TA
1353401 CATGGTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
19 14 0.37
20 8 0.21
21 16 0.42
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (19 bp):
TATATAATTTATATATATA
Found at i:1354518 original size:2 final size:2
Alignment explanation
Indices: 1354507--1354661 Score: 55
Period size: 2 Copynumber: 81.0 Consensus size: 2
1354497 ATAGTATTTT
* *
1354507 TA TA -A TA TA TA TA TA TA TA TA TA -A TC TA TA AA T- TA CT- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
1354546 TA T- TA GT- TA TA CA TA CA TA TA TA TA CA -A TA T- TA -A TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
1354584 AA T- TA TA -A TT TA TA AA CTA TA TA T- TT TA TA TA GTT TA TA CA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
1354625 TA TA TA GTT TA CA TA CA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1354662 GAAAATTAAA
Statistics
Matches: 110, Mismatches: 26, Indels: 34
0.65 0.15 0.20
Matches are distributed among these distances:
1 12 0.11
2 93 0.85
3 5 0.05
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1354640 original size:17 final size:15
Alignment explanation
Indices: 1354610--1354662 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 15
1354600 CTATATATTT
1354610 TATATAGTTTATACA
1 TATATAGTTTATACA
1354625 TATATAGTTTACATACA
1 TATATAGTTT--ATACA
* *
1354642 TATATA-TATATATA
1 TATATAGTTTATACA
1354656 TATATAG
1 TATATAG
1354663 AAAATTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 10 0.30
15 10 0.30
16 2 0.06
17 11 0.33
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:1354929 original size:27 final size:27
Alignment explanation
Indices: 1354899--1354966 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
1354889 TTCATTTAAA
*
1354899 TTCTCAATTTCCCTATATTCTCAAAAT
1 TTCTCAATTTCCCTATATTCGCAAAAT
*
1354926 TTCTCAATTTTCCTATATTCGCAAAAT
1 TTCTCAATTTCCCTATATTCGCAAAAT
1354953 TTCTCAATTTCCCT
1 TTCTCAATTTCCCT
1354967 CTAAATTCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.26, C:0.26, G:0.01, T:0.46
Consensus pattern (27 bp):
TTCTCAATTTCCCTATATTCGCAAAAT
Found at i:1355104 original size:25 final size:26
Alignment explanation
Indices: 1355075--1355128 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
1355065 TTAATATAAA
1355075 TTATAATTTATA-A-ACTATATACTTT
1 TTATAATTTATATATA-TATATACTTT
*
1355100 TTATAATTTATATATATATATATTTT
1 TTATAATTTATATATATATATACTTT
1355126 TTA
1 TTA
1355129 CATATATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 12 0.46
26 13 0.50
27 1 0.04
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
TTATAATTTATATATATATATACTTT
Found at i:1355221 original size:17 final size:15
Alignment explanation
Indices: 1355179--1355238 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
1355169 TTTATATTAA
1355179 AAATATAGTT-TATAT
1 AAATATA-TTATATAT
*
1355194 ATATA-ATTTATATAT
1 AAATATA-TTATATAT
1355209 AAACTTATATTATATAT
1 AAA--TATATTATATAT
*
1355226 ATATATATTATAT
1 AAATATATTATAT
1355239 TTTTTCAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 3 0.08
15 21 0.57
17 12 0.32
18 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
AAATATATTATATAT
Found at i:1355237 original size:13 final size:13
Alignment explanation
Indices: 1355108--1355239 Score: 68
Period size: 13 Copynumber: 10.5 Consensus size: 13
1355098 TTTTATAATT
1355108 TATA-TATATATA
1 TATATTATATATA
* * *
1355120 TATTTTTTACATA
1 TATATTATATATA
1355133 TATCATT-TATATA
1 TAT-ATTATATATA
*
1355146 TATAGCT-TATA-A
1 TATA-TTATATATA
*
1355158 TA-ATTATATAGTT
1 TATATTATATA-TA
* *
1355171 TATATTAAAAATA
1 TATATTATATATA
1355184 TAGT-TTATATATA
1 TA-TATTATATATA
1355197 TA-ATT-TATATA
1 TATATTATATATA
*
1355208 TAAACTTATAT-TA
1 TATA-TTATATATA
1355221 TATA-TATATATA
1 TATATTATATATA
1355233 TTATATT
1 -TATATT
1355240 TTTTCAAATT
Statistics
Matches: 91, Mismatches: 14, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
10 1 0.01
11 18 0.20
12 12 0.13
13 47 0.52
14 13 0.14
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (13 bp):
TATATTATATATA
Done.