Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_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: 3548142
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 17
Found at i:1482404 original size:18 final size:20
Alignment explanation
Indices: 1482371--1482409 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
1482361 TTAAAAAATC
1482371 ATATTATTAAAATTTT-AAA
1 ATATTATTAAAATTTTCAAA
*
1482390 ATATT-TTATAATTTTCAAA
1 ATATTATTAAAATTTTCAAA
1482409 A
1 A
1482410 AACATTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTATTAAAATTTTCAAA
Found at i:1486180 original size:18 final size:18
Alignment explanation
Indices: 1486153--1486219 Score: 116
Period size: 18 Copynumber: 3.7 Consensus size: 18
1486143 ATTCAAGCCA
1486153 ATTTTCCTTTCAATATTC
1 ATTTTCCTTTCAATATTC
*
1486171 ATTTTTCTTTCAATATTC
1 ATTTTCCTTTCAATATTC
*
1486189 AATTTCCTTTCAATATTC
1 ATTTTCCTTTCAATATTC
1486207 ATTTTCCTTTCAA
1 ATTTTCCTTTCAA
1486220 GAGTACAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTCCTTTCAATATTC
Found at i:1491712 original size:21 final size:22
Alignment explanation
Indices: 1491685--1491782 Score: 91
Period size: 21 Copynumber: 4.6 Consensus size: 22
1491675 CCTAAGATTG
1491685 ATCGATACCCCTTTGAATAGGT
1 ATCGATACCCCTTTGAATAGGT
*
1491707 -TCGATACTCC--TGCAATAGGT
1 ATCGATACCCCTTTG-AATAGGT
* *
1491727 ATCGACACCTCCTTTGAATATGT
1 ATCGATACC-CCTTTGAATAGGT
*
1491750 ATCGATA-CCCTCCTG-AT-GGT
1 ATCGATACCCCT-TTGAATAGGT
1491770 ATCGATACCCCTT
1 ATCGATACCCCTT
1491783 GTCAGATTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
19 2 0.03
20 16 0.26
21 24 0.39
22 5 0.08
23 12 0.20
24 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (22 bp):
ATCGATACCCCTTTGAATAGGT
Found at i:1491771 original size:43 final size:41
Alignment explanation
Indices: 1491685--1491782 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 41
1491675 CCTAAGATTG
1491685 ATCGATACCCCTTTGAATAGGTTCGATACTCCTGCAATAGGT
1 ATCGATACCCCTTTGAATAGGTTCGATACTCCTG-AATAGGT
* *
1491727 ATCGACACCTCCTTTGAATATGTATCGATACCCTCCTG-AT-GGT
1 ATCGATACC-CCTTTGAATAGGT-TCGATA--CTCCTGAATAGGT
1491770 ATCGATACCCCTT
1 ATCGATACCCCTT
1491783 GTCAGATTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
42 12 0.24
43 23 0.47
44 8 0.16
46 6 0.12
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (41 bp):
ATCGATACCCCTTTGAATAGGTTCGATACTCCTGAATAGGT
Found at i:1497250 original size:26 final size:26
Alignment explanation
Indices: 1497221--1497321 Score: 166
Period size: 26 Copynumber: 3.9 Consensus size: 26
1497211 ATGGTCCTAA
*
1497221 AGATAACAAGGACTTTAAGATCTTAT
1 AGATAATAAGGACTTTAAGATCTTAT
*
1497247 AGATAATAAGGACTTTAAGATATTAT
1 AGATAATAAGGACTTTAAGATCTTAT
*
1497273 AGATAATAAGGAATTTAAGATCTTAT
1 AGATAATAAGGACTTTAAGATCTTAT
*
1497299 AGATAATAAGGACTTTAATATCT
1 AGATAATAAGGACTTTAAGATCT
1497322 CATTTTCCCA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.34
Consensus pattern (26 bp):
AGATAATAAGGACTTTAAGATCTTAT
Found at i:1497479 original size:32 final size:32
Alignment explanation
Indices: 1497443--1497503 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
1497433 AATGAAACAA
1497443 TGAACACTTCAACTACTGACGGCAAAATGTAG
1 TGAACACTTCAACTACTGACGGCAAAATGTAG
* *
1497475 TGAACACTTCAATTACTGACTGCAAAATG
1 TGAACACTTCAACTACTGACGGCAAAATG
1497504 CCCTTACTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (32 bp):
TGAACACTTCAACTACTGACGGCAAAATGTAG
Found at i:1505989 original size:11 final size:10
Alignment explanation
Indices: 1505925--1506014 Score: 53
Period size: 9 Copynumber: 9.0 Consensus size: 10
1505915 CAAACGTGAG
*
1505925 AATAATAAAT
1 AATAATAAAA
*
1505935 AA-AACAAAA
1 AATAATAAAA
1505944 AA-AATAAAA
1 AATAATAAAA
*
1505953 AAAAATAACAA
1 AATAATAA-AA
* **
1505964 AACACGCAAAA
1 AATA-ATAAAA
1505975 AATAATAAAA
1 AATAATAAAA
1505985 TAATAAT-AAA
1 -AATAATAAAA
*
1505995 AATAA-ACAA
1 AATAATAAAA
1506004 AATGAATAAAA
1 AAT-AATAAAA
1506015 TGTTAAAAAC
Statistics
Matches: 62, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
9 25 0.40
10 16 0.26
11 19 0.31
12 2 0.03
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (10 bp):
AATAATAAAA
Found at i:1506288 original size:17 final size:16
Alignment explanation
Indices: 1506196--1506328 Score: 51
Period size: 17 Copynumber: 7.9 Consensus size: 16
1506186 GATATACATT
1506196 ATATTAAGAAAAAT-A
1 ATATTAAGAAAAATAA
*
1506211 ATAAT-AGAAAAAATAA
1 ATATTAAG-AAAAATAA
1506227 AGTA--AAGTAAAAATATA
1 A-TATTAAG-AAAAATA-A
* *
1506244 ATA-TATATATAAATAA
1 ATATTA-AGAAAAATAA
** *
1506260 ATAAAAACAAAAATAGA
1 ATATTAAGAAAAATA-A
*
1506277 ATATTAAGAAAATATAT
1 ATATTAAGAAAA-ATAA
**
1506294 ATAAAAACGTATAAAATATA
1 ATATTAA-G-A-AAAATA-A
1506314 ATATTAAGAAAAATA
1 ATATTAAGAAAAATA
1506329 TATACACAGT
Statistics
Matches: 88, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
14 2 0.02
15 10 0.11
16 24 0.27
17 33 0.38
18 6 0.07
19 5 0.06
20 8 0.09
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.26
Consensus pattern (16 bp):
ATATTAAGAAAAATAA
Found at i:1506292 original size:38 final size:38
Alignment explanation
Indices: 1506256--1506330 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
1506246 ATATATATAA
1506256 ATAA-ATAAAAAC-A-AAAATAGAATATTAAG-AAAAT
1 ATAATATAAAAACGATAAAATAGAATATTAAGAAAAAT
*
1506290 AT-ATATAAAAACGTATAAAATATAATATTAAGAAAAAT
1 ATAATATAAAAACG-ATAAAATAGAATATTAAGAAAAAT
1506328 ATA
1 ATA
1506331 TACACAGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
33 1 0.03
34 10 0.29
36 1 0.03
37 15 0.44
38 7 0.21
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (38 bp):
ATAATATAAAAACGATAAAATAGAATATTAAGAAAAAT
Found at i:1506374 original size:2 final size:2
Alignment explanation
Indices: 1506362--1506408 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
1506352 TTAATACATC
* *
1506362 TA TA CA TA TA TA TA TA TA TA TA TA TA TA -A TGA TA TA -A GA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
1506403 TA TA TA
1 TA TA TA
1506409 ATAAAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
1 2 0.05
2 35 0.90
3 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:1506412 original size:14 final size:14
Alignment explanation
Indices: 1506369--1506429 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
1506359 ATCTATACAT
*
1506369 ATATATATATATAT
1 ATATATATATATAA
1506383 ATATATAATGATATAA
1 ATATAT-AT-ATATAA
1506399 GATATATATA-ATAA
1 -ATATATATATATAA
*
1506413 AAATAATATAATATAA
1 ATAT-ATAT-ATATAA
1506429 A
1 A
1506430 AAAAGGAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 3 0.08
14 14 0.36
15 4 0.10
16 12 0.31
17 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
ATATATATATATAA
Found at i:1506421 original size:25 final size:27
Alignment explanation
Indices: 1506373--1506423 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
1506363 ATACATATAT
* *
1506373 ATATATATATATATATAATGATATAAG
1 ATATATATATATATAAAATAATATAAG
1506400 ATATATATA-ATA-AAAATAATATAA
1 ATATATATATATATAAAATAATATAA
1506424 TATAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
ATATATATATATATAAAATAATATAAG
Found at i:1507696 original size:83 final size:84
Alignment explanation
Indices: 1507516--1507700 Score: 232
Period size: 83 Copynumber: 2.2 Consensus size: 84
1507506 GACAATTTTC
* * * *
1507516 GTTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATTTGATTTACCTCTGAGTTGAATGT
1 GTTGACAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATTTGATGTA-CTCTGAGTTGAACGT
1507581 AATCGAACTCGAAGGTCTTT
65 AATCGAACTCGAAGGTCTTT
* * * *
1507601 GATGATAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATTATG-TGT-CT-TGGAGTTGAGCG
1 GTTGACAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATT-TGATGTACTCT-GAGTTGAACG
* *
1507663 TAGTTGAACTCGAAGGTCTTT
64 TAATCGAACTCGAAGGTCTTT
1507684 GTTGACAGATAACCCTT
1 GTTGACAGATAACCCTT
1507701 ATTTGAGTTG
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
82 1 0.01
83 44 0.51
85 39 0.45
86 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (84 bp):
GTTGACAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATTTGATGTACTCTGAGTTGAACGTA
ATCGAACTCGAAGGTCTTT
Found at i:1508141 original size:110 final size:108
Alignment explanation
Indices: 1507883--1508149 Score: 305
Period size: 110 Copynumber: 2.5 Consensus size: 108
1507873 ACTATTGTTC
* *
1507883 CGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTG--GAACTGGGAAATTATTTGTTG
1 CGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAGAACTGGAAAATTATTTGTTG
* *
1507945 ACAGCCAACCGCCCCTTCATTGTGAAGTTGAGATTGTGTTGTCT
65 ACAACCAACCGCCCCTTCATTATGAAGTTGAGATTGTGTTGTCT
* * * *
1507989 CGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGACGCTGAATGAAACT-GAAAAGTTGTTTGT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA-G-AACTGGAAAA-TTATTTGT
* ** * * *
1508053 TGACAATCAGTCGCCCCTTCTTTATGAATTTGAGCTTGTGTTGTCT
63 TGACAACCAACCGCCCCTTCATTATGAAGTTGAGATTGTGTTGTCT
*
1508099 TGAGTCCAATATCCCTT-GCTGTGAAGTTGAAATTGGCTCTG-A-AACTGGAAA
1 CGAGTCCAATAT-CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAGAACTGGAAA
1508150 GCCCCTTCGT
Statistics
Matches: 135, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
106 39 0.29
107 5 0.04
109 6 0.04
110 81 0.60
111 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (108 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAGAACTGGAAAATTATTTGTTGA
CAACCAACCGCCCCTTCATTATGAAGTTGAGATTGTGTTGTCT
Found at i:1508946 original size:67 final size:66
Alignment explanation
Indices: 1508802--1508986 Score: 205
Period size: 65 Copynumber: 2.7 Consensus size: 66
1508792 GTAAACGATC
* * * * *
1508802 TCAAAGATATCTGTTGTTTCATGAAAAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAA
1 TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAA-GGAGACAAAA-TTTGTTTTAAGGGAAA
1508867 TAAAT
62 TAAAT
**
1508872 TTGAAGATTTTGTGTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTTGTTTT-AGGAGAAATA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAA-GGAGACAAAATTTGTTTTAAGG-GAAATA
1508936 AAT
64 AAT
* *
1508939 TCAAAGA-TTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTG
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAG-GAGACAAAATTTG
1508987 CAAGAGAAAC
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
64 1 0.01
65 34 0.34
66 6 0.06
67 22 0.22
68 29 0.29
69 3 0.03
70 6 0.06
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.32
Consensus pattern (66 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGAGACAAAATTTGTTTTAAGGGAAATAAA
T
Found at i:1508984 original size:65 final size:67
Alignment explanation
Indices: 1508815--1509126 Score: 198
Period size: 65 Copynumber: 4.7 Consensus size: 67
1508805 AAGATATCTG
* * * * * * **
1508815 TTGTTTCATGAAAAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGG-GAAATA-A-ATTTGAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTG-TTTCAGGAGAAATACAGATTCAAA
1508877 GATTT
64 GA-TT
*
1508882 TGTGTTTCAAGAGAAACTGTCTCAATG-GAGACAAAATTTGTTTTAGGAGAAATA-A-ATTCAAA
1 T-TGTTTCAAGAGAAACTGTCTCAA-GAGAGACAAAATTTGTTTCAGGAGAAATACAGATTCAAA
1508944 GATT
64 GATT
* * * * *
1508948 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTG---CAAGAGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAGGAGAAA-----T--ACAGAT
* *
1509010 ACAAA-ACT
59 TCAAAGATT
* * * * * * * * *
1509018 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCA-AATAAA-ACATATTCAAATA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAGGAGAAATACAGATTCAAAGA
1509081 TT
66 TT
*
1509083 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCA
1509127 AGGGAAACTA
Statistics
Matches: 196, Mismatches: 32, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
62 7 0.04
64 8 0.04
65 74 0.38
66 9 0.05
67 20 0.10
68 28 0.14
69 2 0.01
70 37 0.19
71 5 0.03
72 4 0.02
73 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.29
Consensus pattern (67 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAGGAGAAATACAGATTCAAAGA
TT
Found at i:1508996 original size:33 final size:33
Alignment explanation
Indices: 1508954--1509056 Score: 125
Period size: 33 Copynumber: 3.0 Consensus size: 33
1508944 GATTTTGTTT
*
1508954 CAAGGGAAACTGTCTCAAGAGAGACGAAATTTG
1 CAAGAGAAACTGTCTCAAGAGAGACGAAATTTG
* *
1508987 CAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTC
1 CAAGAGAAACTGTCTCAAGAGAGACGAAA--T--TTG
* *
1509024 CAAAAGAAACTGTCTCAAGGGAGACGAAATTTG
1 CAAGAGAAACTGTCTCAAGAGAGACGAAATTTG
1509057 TTTCAAATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
33 29 0.49
35 2 0.03
37 28 0.47
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (33 bp):
CAAGAGAAACTGTCTCAAGAGAGACGAAATTTG
Found at i:1509041 original size:37 final size:33
Alignment explanation
Indices: 1508959--1509055 Score: 113
Period size: 37 Copynumber: 2.8 Consensus size: 33
1508949 TGTTTCAAGG
* * *
1508959 GAAACTGTCTCAAGAGAGACGAAATTTGCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTTCCAAAA
1508992 GAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA--T--TTCCAAAA
* *
1509029 GAAACTGTCTCAAGGGAGACGAAATTT
1 GAAACTGTCTCAAGAGAGACAAAATTT
1509056 GTTTCAAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
33 25 0.45
35 2 0.04
37 28 0.51
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (33 bp):
GAAACTGTCTCAAGAGAGACAAAATTTCCAAAA
Found at i:1509054 original size:135 final size:136
Alignment explanation
Indices: 1508893--1509153 Score: 375
Period size: 135 Copynumber: 1.9 Consensus size: 136
1508883 GTGTTTCAAG
* * *
1508893 AGAAACTGTCTCAATGGAGACAAAATTTGTTTTAGGAGAAATA-A-ATTCAAAGATTTTGTTTCA
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCA-AAGAAA-ACATATTCAAAGATTTTGTTTCA
* *
1508956 AGGGAAACTGTCTCAAGAGAGACGAAATTTG-CAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
64 AGGGAAACTGTCTCAAGAGAGACAAAATTTGTCAAGAGAAACTATCTCAAGAGAGACAAAACTTA
1509020 GTTCCAAA
129 GTTCCAAA
* * *
1509028 AGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAATAAAACATATTCAAATATTTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACATATTCAAAGATTTTGTTTCAAG
* *
1509093 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGATAAAA
66 GGAAACTGTCTCAAGAGAGACAAAATTTG--TCAAGAGAAACTATCTCAAGAGAGACAAAA
1509154 TCTTCTTTTT
Statistics
Matches: 111, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
133 1 0.01
134 5 0.05
135 79 0.71
138 26 0.23
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (136 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACATATTCAAAGATTTTGTTTCAAG
GGAAACTGTCTCAAGAGAGACAAAATTTGTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGT
TCCAAA
Found at i:1509129 original size:36 final size:36
Alignment explanation
Indices: 1509082--1509154 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
1509072 ATTCAAATAT
*
1509082 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
*
1509118 TTTGTTTCAAGGGAAACTATCTCAAGAGAGATAAAA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1509154 T
1 T
1509155 CTTCTTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
Found at i:1510821 original size:26 final size:27
Alignment explanation
Indices: 1510786--1510856 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 27
1510776 TTTTTCTTCA
1510786 ATTTTC-CTTTGTT-TTTTCTCTTT-TT
1 ATTTTCTCTTT-TTATTTTCTCTTTCTT
1510811 ATTTTCTCTTTTTATTTTCTCTTTGCTT
1 ATTTTCTCTTTTTATTTTCTCTTT-CTT
* *
1510839 TTTTTCTCTTTTTGTTTT
1 ATTTTCTCTTTTTATTTT
1510857 GATTGAATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.20
26 14 0.35
28 18 0.45
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.76
Consensus pattern (27 bp):
ATTTTCTCTTTTTATTTTCTCTTTCTT
Found at i:1510845 original size:15 final size:13
Alignment explanation
Indices: 1510786--1510856 Score: 83
Period size: 13 Copynumber: 5.4 Consensus size: 13
1510776 TTTTTCTTCA
1510786 ATTTTC-CTTTGTT
1 ATTTTCTCTTT-TT
1510799 -TTTTCTCTTTTT
1 ATTTTCTCTTTTT
1510811 ATTTTCTCTTTTT
1 ATTTTCTCTTTTT
1510824 ATTTTCTCTTTGCTT
1 ATTTTCTCTTT--TT
*
1510839 TTTTTCTCTTTTT
1 ATTTTCTCTTTTT
*
1510852 GTTTT
1 ATTTT
1510857 GATTGAATCT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
12 7 0.13
13 33 0.63
15 12 0.23
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.76
Consensus pattern (13 bp):
ATTTTCTCTTTTT
Found at i:1513989 original size:11 final size:11
Alignment explanation
Indices: 1513975--1514000 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1513965 CAAAACACGT
1513975 AAAAAATAATA
1 AAAAAATAATA
1513986 AAAAAATAATA
1 AAAAAATAATA
1513997 AAAA
1 AAAA
1514001 TAAACAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:1513999 original size:19 final size:21
Alignment explanation
Indices: 1513977--1514019 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
1513967 AAACACGTAA
1513977 AAAATAATAAA-AAAAT-AAT
1 AAAATAATAAACAAAATGAAT
1513996 -AAA-AATAAACAAAATGAAT
1 AAAATAATAAACAAAATGAAT
1514015 AAAAT
1 AAAAT
1514020 GTTTAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
17 6 0.30
18 8 0.40
19 3 0.15
20 3 0.15
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (21 bp):
AAAATAATAAACAAAATGAAT
Found at i:1514089 original size:17 final size:15
Alignment explanation
Indices: 1514057--1514101 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
1514047 AAATTAATGG
1514057 AGTAAAAAAATAAAA
1 AGTAAAAAAATAAAA
1514072 AGTAAAAGAAATTAAAA
1 AGTAAAA-AAA-TAAAA
* *
1514089 AGGAATAAAATAA
1 AGTAAAAAAATAA
1514102 TGTGTACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 10 0.38
16 6 0.23
17 10 0.38
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (15 bp):
AGTAAAAAAATAAAA
Found at i:1514250 original size:13 final size:12
Alignment explanation
Indices: 1514234--1514282 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
1514224 GTAAAAATAT
1514234 AATATATTAAATA
1 AATATATTAAA-A
1514247 AATA-A--AAAA
1 AATATATTAAAA
1514256 AATATATTAAGAA
1 AATATATTAA-AA
1514269 AATATATATAAAA
1 AATATAT-TAAAA
1514282 A
1 A
1514283 CGTATAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 5 0.16
10 4 0.13
12 3 0.10
13 16 0.52
14 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
AATATATTAAAA
Found at i:1514272 original size:22 final size:24
Alignment explanation
Indices: 1514217--1514265 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
1514207 TAGAAAAATA
1514217 AAATAAAGTAAAAATATAATATATT
1 AAATAAA-TAAAAATATAATATATT
1514242 AAATAAATAAAAA-A-AATATATT
1 AAATAAATAAAAATATAATATATT
1514264 AA
1 AA
1514266 GAAAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 10 0.42
23 1 0.04
24 6 0.25
25 7 0.29
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
AAATAAATAAAAATATAATATATT
Found at i:1514313 original size:25 final size:23
Alignment explanation
Indices: 1514214--1514313 Score: 71
Period size: 25 Copynumber: 4.1 Consensus size: 23
1514204 TAATAGAAAA
1514214 ATAAAATAAAGTA-AAAATATAATAT
1 ATAAAATAAA-TATAAAA-A-AATAT
*
1514239 ATTAAATAAATA-AAAAAAATAT
1 ATAAAATAAATATAAAAAAATAT
* **
1514261 ATTAAGAA-AATATATATAAAAACGT
1 A-TAA-AATAA-ATATAAAAAAATAT
1514286 ATAAAATAAATATTAAGAAAAATAT
1 ATAAAATAAATA-TAA-AAAAATAT
1514311 ATA
1 ATA
1514314 CATAGTAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
22 6 0.10
23 10 0.17
24 18 0.30
25 26 0.43
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (23 bp):
ATAAAATAAATATAAAAAAATAT
Found at i:1514373 original size:22 final size:22
Alignment explanation
Indices: 1514355--1514418 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
1514345 ATGATATAAG
* *
1514355 ATATATATAATAAAAATATATA
1 ATATAAATAAAAAAAATATATA
*
1514377 ATATAAATAAAAAAAAGGA-AT-
1 ATATAAATAAAAAAAA-TATATA
*
1514398 ATAGTAAATAAATAAAATATA
1 ATA-TAAATAAAAAAAATATA
1514419 ATTAAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 4 0.12
22 29 0.85
23 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (22 bp):
ATATAAATAAAAAAAATATATA
Found at i:1514375 original size:13 final size:13
Alignment explanation
Indices: 1514357--1514431 Score: 55
Period size: 13 Copynumber: 5.5 Consensus size: 13
1514347 GATATAAGAT
1514357 ATATATAATAAAA
1 ATATATAATAAAA
*
1514370 ATATATAATATAA
1 ATATATAATAAAA
*
1514383 ATA-A-AAAAAAGGA
1 ATATATAATAAA--A
1514396 ATATAGTAAATAAATA
1 ATATA-T-AATAAA-A
*
1514412 AAATATAATTAAAA
1 ATATATAA-TAAAA
1514426 ATATAT
1 ATATAT
1514432 TTATAGGGAC
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
11 4 0.08
12 1 0.02
13 19 0.40
14 9 0.19
15 5 0.10
16 5 0.10
17 5 0.10
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (13 bp):
ATATATAATAAAA
Found at i:1515076 original size:20 final size:19
Alignment explanation
Indices: 1515035--1515077 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
1515025 AAATGTTAAG
* *
1515035 TATTTTTTTTAAATAATTT
1 TATTTTTTTAAAATAATAT
*
1515054 TATTTTTTTAAAAATCATAT
1 TATTTTTTT-AAAATAATAT
1515074 TATT
1 TATT
1515078 AAAATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTTTTTTAAAATAATAT
Found at i:1515103 original size:18 final size:20
Alignment explanation
Indices: 1515070--1515108 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
1515060 TTTAAAAATC
1515070 ATATTATTAAAATTTT-AAA
1 ATATTATTAAAATTTTCAAA
*
1515089 ATATT-TTATAATTTTCAAA
1 ATATTATTAAAATTTTCAAA
1515108 A
1 A
1515109 AACATTTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTATTAAAATTTTCAAA
Found at i:1517990 original size:51 final size:51
Alignment explanation
Indices: 1517914--1518015 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
1517904 TTACCTGGTG
1517914 TACTAACTGCTTGAACCTCCCTCAAAATCAATCAATGGTCAATTTGTTTTT
1 TACTAACTGCTTGAACCTCCCTCAAAATCAATCAATGGTCAATTTGTTTTT
1517965 TACTAACTGCTTGAACCTCCCTCAAAATCAATCAATGGTCAATTTGTTTTT
1 TACTAACTGCTTGAACCTCCCTCAAAATCAATCAATGGTCAATTTGTTTTT
1518016 CTTATAGCTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (51 bp):
TACTAACTGCTTGAACCTCCCTCAAAATCAATCAATGGTCAATTTGTTTTT
Found at i:1520046 original size:25 final size:26
Alignment explanation
Indices: 1520007--1520059 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
1519997 ATGATCCTAA
*
1520007 AGATAATAAGGACTTTAAGATCTTAT
1 AGATAATAAAGACTTTAAGATCTTAT
1520033 AGAT-ATAAAGACTTTAAGATCTTAT
1 AGATAATAAAGACTTTAAGATCTTAT
1520058 AG
1 AG
1520060 TTTAGGGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (26 bp):
AGATAATAAAGACTTTAAGATCTTAT
Found at i:1520237 original size:56 final size:56
Alignment explanation
Indices: 1520163--1520321 Score: 203
Period size: 56 Copynumber: 2.8 Consensus size: 56
1520153 TAAAATTTTC
* * * * * *
1520163 TAGATTTAGAGATCTTTAATGAGGCATTTTTCCTTAATGTA-TTCTTTTCTTTTATA
1 TAGATTTAGAGATATTTAACGAGACATTTTTCTTTAATATACTT-TTTTCTTTCATA
* *
1520219 TAGGTTTAGAGATATTTAACGAGACATTCTTCTTTAATATACTTTTTTCTTTCATA
1 TAGATTTAGAGATATTTAACGAGACATTTTTCTTTAATATACTTTTTTCTTTCATA
*
1520275 TAGATTTAGAGATTTTTAACGAGACATTTTTCTTTAATCAATACTTT
1 TAGATTTAGAGATATTTAACGAGACATTTTTCTTTAAT--ATACTTT
1520322 ATGATGATTT
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
56 80 0.90
57 2 0.02
58 7 0.08
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.49
Consensus pattern (56 bp):
TAGATTTAGAGATATTTAACGAGACATTTTTCTTTAATATACTTTTTTCTTTCATA
Found at i:1522848 original size:26 final size:26
Alignment explanation
Indices: 1522819--1522872 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
1522809 ATGATACTAA
1522819 AGATAACAAGGACTTTAAGATCTTAT
1 AGATAACAAGGACTTTAAGATCTTAT
*
1522845 AGATAATAAGGACTTTAAGATCTTAT
1 AGATAACAAGGACTTTAAGATCTTAT
1522871 AG
1 AG
1522873 TTTATTGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (26 bp):
AGATAACAAGGACTTTAAGATCTTAT
Found at i:1523070 original size:56 final size:57
Alignment explanation
Indices: 1522980--1523124 Score: 179
Period size: 56 Copynumber: 2.6 Consensus size: 57
1522970 AGATCTCTAG
* * * * * *
1522980 ATTTAGAGATCTTTAACGAGATATTCTTCCTTAATGTAC-TCTTTTCTTTTATATAT
1 ATTTAGAAATCTTTAACGATACATTCTTCTTTAATGTACTTCTTTTCTTTCATATAA
* * *
1523036 GTTTAGAAATATTTAACGATACATTCTTCTTTAATGTACTTTTTTTCTTTCATATAA
1 ATTTAGAAATCTTTAACGATACATTCTTCTTTAATGTACTTCTTTTCTTTCATATAA
*
1523093 ATTTAGAAATCTTTAACG-TACATT-TTTTTTAA
1 ATTTAGAAATCTTTAACGATACATTCTTCTTTAA
1523125 CCAAGATTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
55 7 0.09
56 39 0.51
57 30 0.39
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (57 bp):
ATTTAGAAATCTTTAACGATACATTCTTCTTTAATGTACTTCTTTTCTTTCATATAA
Found at i:1527302 original size:31 final size:31
Alignment explanation
Indices: 1527263--1527352 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
1527253 TAACGGTTAC
1527263 AAAAATAATCATTAAATTTATCAAACTAGT-
1 AAAAATAATCATTAAATTTATCAAACTAGTG
** * *
1527293 ACAAAATAATCGGTAGAATTTATCAAAATATTG
1 A-AAAATAATCATTA-AATTTATCAAACTAGTG
* * *
1527326 AGAAATTATGATTAAATTTATCAAACT
1 AAAAATAATCATTAAATTTATCAAACT
1527353 TATAGAATTA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
30 1 0.02
31 23 0.49
32 22 0.47
33 1 0.02
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (31 bp):
AAAAATAATCATTAAATTTATCAAACTAGTG
Found at i:1527771 original size:81 final size:81
Alignment explanation
Indices: 1527673--1527835 Score: 326
Period size: 81 Copynumber: 2.0 Consensus size: 81
1527663 TTATACCAGG
1527673 ACAATTAGTTGGATGGTAATTATCCATAGTAATATATATATTAATTAAAATTCAATAAAATTATA
1 ACAATTAGTTGGATGGTAATTATCCATAGTAATATATATATTAATTAAAATTCAATAAAATTATA
1527738 TGCATTACCATCTACA
66 TGCATTACCATCTACA
1527754 ACAATTAGTTGGATGGTAATTATCCATAGTAATATATATATTAATTAAAATTCAATAAAATTATA
1 ACAATTAGTTGGATGGTAATTATCCATAGTAATATATATATTAATTAAAATTCAATAAAATTATA
1527819 TGCATTACCATCTACA
66 TGCATTACCATCTACA
1527835 A
1 A
1527836 AGTCACAGCT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.37
Consensus pattern (81 bp):
ACAATTAGTTGGATGGTAATTATCCATAGTAATATATATATTAATTAAAATTCAATAAAATTATA
TGCATTACCATCTACA
Found at i:1536343 original size:20 final size:22
Alignment explanation
Indices: 1536318--1536361 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1536308 TCAATTAATT
1536318 ATGAAATC-AGT-ATGCTAACA
1 ATGAAATCAAGTCATGCTAACA
*
1536338 ATGAAATCAAGTCATGCTATCA
1 ATGAAATCAAGTCATGCTAACA
1536360 AT
1 AT
1536362 TAAAATTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 3 0.14
22 10 0.48
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (22 bp):
ATGAAATCAAGTCATGCTAACA
Found at i:1536518 original size:41 final size:41
Alignment explanation
Indices: 1536445--1536540 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
1536435 GGTTATTGTT
* * * * *
1536445 TGTTACCTTGATTTAAACTGAATTGGTTTGTGAATTAATACA
1 TGTTACCATGATCT-AATTGAATTGGTATGTGAATAAATACA
* **
1536487 TGTTATCATGATCTAATTGAATTGGTATGTGAATAAATGTA
1 TGTTACCATGATCTAATTGAATTGGTATGTGAATAAATACA
1536528 TGTTACCATGATC
1 TGTTACCATGATC
1536541 GAATCAAGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 34 0.76
42 11 0.24
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (41 bp):
TGTTACCATGATCTAATTGAATTGGTATGTGAATAAATACA
Found at i:1536560 original size:41 final size:41
Alignment explanation
Indices: 1536515--1536852 Score: 292
Period size: 41 Copynumber: 8.2 Consensus size: 41
1536505 GAATTGGTAT
* * *
1536515 GTGAATAAATGTATGTTACCATGATCGAATCAAGTTGAATG
1 GTGAATTATTGTATGTTACCATGATTGAATCAAGTTGAATG
* * *
1536556 GTGAATTATGGTAT-TCTACCATGGTAGAATCAAGTTGAATG
1 GTGAATTATTGTATGT-TACCATGATTGAATCAAGTTGAATG
* ** ** *
1536597 GTGAAGTATTACATGTTGTCATGATTGAATTGAA-TTGAATG
1 GTGAATTATTGTATGTTACCATGATTGAA-TCAAGTTGAATG
* ** * **
1536638 GTGAATTATTGCATACTACCATGGTCAAATCAAGTTGAATG
1 GTGAATTATTGTATGTTACCATGATTGAATCAAGTTGAATG
* * *
1536679 ATGAATTATTGTATGTTTCCATGATTGAATTGAA-TTGAATG
1 GTGAATTATTGTATGTTACCATGATTGAA-TCAAGTTGAATG
* *
1536720 GTGAATTATTGTAT-TCGACCATGATTGAATCAAGTTGAATA
1 GTGAATTATTGTATGT-TACCATGATTGAATCAAGTTGAATG
* * * * *
1536761 TTGAACTATTGTAT-TCTTCCATGATTGAATTGAA-TAGAATG
1 GTGAATTATTGTATGT-TACCATGATTGAA-TCAAGTTGAATG
* *
1536802 GTGAATTATTGCATGATACCATGATTGAATCAAGTTGAATG
1 GTGAATTATTGTATGTTACCATGATTGAATCAAGTTGAATG
* *
1536843 ATGAACTATT
1 GTGAATTATT
1536853 TCATGATTCC
Statistics
Matches: 233, Mismatches: 54, Indels: 20
0.76 0.18 0.07
Matches are distributed among these distances:
40 11 0.05
41 212 0.91
42 10 0.04
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (41 bp):
GTGAATTATTGTATGTTACCATGATTGAATCAAGTTGAATG
Found at i:1536601 original size:82 final size:82
Alignment explanation
Indices: 1536524--1536852 Score: 398
Period size: 82 Copynumber: 4.0 Consensus size: 82
1536514 TGTGAATAAA
* * * * * *
1536524 TGTATGTTACCATGATCGAA-TCAAGTTGAATGGTGAATTATGGTATTCTACCATGGTAGAATCA
1 TGTATGTTTCCATGATTGAATTGAA-TTGAATGGTGAATTATTGCATTCTACCATGATAGAATCA
* *
1536588 AGTTGAATGGTGAAGTAT
65 AGTTGAATGATGAACTAT
** * *
1536606 TACATGTTGT-CATGATTGAATTGAATTGAATGGTGAATTATTGCATACTACCATGGTCA-AATC
1 TGTATGTT-TCCATGATTGAATTGAATTGAATGGTGAATTATTGCATTCTACCATGAT-AGAATC
*
1536669 AAGTTGAATGATGAATTAT
64 AAGTTGAATGATGAACTAT
* * *
1536688 TGTATGTTTCCATGATTGAATTGAATTGAATGGTGAATTATTGTATTCGACCATGATTGAATCAA
1 TGTATGTTTCCATGATTGAATTGAATTGAATGGTGAATTATTGCATTCTACCATGATAGAATCAA
1536753 GTTGAAT-ATTGAACTAT
66 GTTGAATGA-TGAACTAT
* ** *
1536770 TGTAT-TCTTCCATGATTGAATTGAATAGAATGGTGAATTATTGCATGATACCATGATTGAATCA
1 TGTATGT-TTCCATGATTGAATTGAATTGAATGGTGAATTATTGCATTCTACCATGATAGAATCA
1536834 AGTTGAATGATGAACTAT
65 AGTTGAATGATGAACTAT
1536852 T
1 T
1536853 TCATGATTCC
Statistics
Matches: 216, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
81 3 0.01
82 208 0.96
83 5 0.02
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (82 bp):
TGTATGTTTCCATGATTGAATTGAATTGAATGGTGAATTATTGCATTCTACCATGATAGAATCAA
GTTGAATGATGAACTAT
Found at i:1536701 original size:123 final size:123
Alignment explanation
Indices: 1536474--1536729 Score: 295
Period size: 123 Copynumber: 2.1 Consensus size: 123
1536464 GAATTGGTTT
* * * **
1536474 GTGAATTAATACATGTTATCATGATCTAATTGAATTGGTATGTGAATAAATGTATGTTACCATGA
1 GTGAATTATTACATGTTATCATGATCTAATTGAATTGGAATGTGAATAAATGCATACTACCATGA
* * *
1536539 TCGAATCAAGTTGAATGGTGAATTATGGTATTCTACCATGGTAGAA-TCAAGTTGAATG
66 TCAAATCAAGTTGAATGATGAATTATGGTATTCTACCATGATAGAATTCAA-TTGAATG
* * * *
1536597 GTGAAGTATTACATGTTGTCATGAT-TGAATTGAATT-GAATGGTGAATTATTGCATACTACCAT
1 GTGAATTATTACATGTTATCATGATCT-AATTGAATTGGAAT-GTGAATAAATGCATACTACCAT
* * * * *
1536660 GGTCAAATCAAGTTGAATGATGAATTATTGTATGT-TTCCATGATTGAATTGAATTGAATG
64 GATCAAATCAAGTTGAATGATGAATTATGGTAT-TCTACCATGATAGAATTCAATTGAATG
1536720 GTGAATTATT
1 GTGAATTATT
1536730 GTATTCGACC
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
122 4 0.04
123 103 0.93
124 4 0.04
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (123 bp):
GTGAATTATTACATGTTATCATGATCTAATTGAATTGGAATGTGAATAAATGCATACTACCATGA
TCAAATCAAGTTGAATGATGAATTATGGTATTCTACCATGATAGAATTCAATTGAATG
Found at i:1536752 original size:164 final size:164
Alignment explanation
Indices: 1536524--1536852 Score: 441
Period size: 164 Copynumber: 2.0 Consensus size: 164
1536514 TGTGAATAAA
* *
1536524 TGTATGTTACCATGATCGAATCAAGTTGAATGGTGAATTATGGTATTCTACCATGGTAGAATCAA
1 TGTATGTTACCATGATCGAATCAAGTTGAATGGTGAATTATGGTATTCGACCATGATAGAATCAA
* * *
1536589 GTTGAATGGTGAAGTATTACATGT-TGT-CATGATTGAATTGAATTGAATGGTGAATTATTGCAT
66 GTTGAATAGTGAACTATTACAT-TCT-TCCATGATTGAATTGAATAGAATGGTGAATTATTGCAT
* *
1536652 -ACTACCATGGTCAAATCAAGTTGAATGATGAATTAT
129 GA-TACCATGATCAAATCAAGTTGAATGATGAACTAT
* * * * *
1536688 TGTATGTTTCCATGATTGAATTGAA-TTGAATGGTGAATTATTGTATTCGACCATGATTGAATCA
1 TGTATGTTACCATGATCGAA-TCAAGTTGAATGGTGAATTATGGTATTCGACCATGATAGAATCA
* **
1536752 AGTTGAATATTGAACTATTGTATTCTTCCATGATTGAATTGAATAGAATGGTGAATTATTGCATG
65 AGTTGAATAGTGAACTATTACATTCTTCCATGATTGAATTGAATAGAATGGTGAATTATTGCATG
**
1536817 ATACCATGATTGAATCAAGTTGAATGATGAACTAT
130 ATACCATGATCAAATCAAGTTGAATGATGAACTAT
1536852 T
1 T
1536853 TCATGATTCC
Statistics
Matches: 144, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
163 2 0.01
164 138 0.96
165 4 0.03
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (164 bp):
TGTATGTTACCATGATCGAATCAAGTTGAATGGTGAATTATGGTATTCGACCATGATAGAATCAA
GTTGAATAGTGAACTATTACATTCTTCCATGATTGAATTGAATAGAATGGTGAATTATTGCATGA
TACCATGATCAAATCAAGTTGAATGATGAACTAT
Found at i:1538356 original size:19 final size:19
Alignment explanation
Indices: 1538332--1538373 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
1538322 TTTCTTATCA
1538332 TCGATAATGCTCCCAATCC
1 TCGATAATGCTCCCAATCC
1538351 TCGATAATGCTCCCAATCC
1 TCGATAATGCTCCCAATCC
1538370 TCGA
1 TCGA
1538374 CTTGGGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.36, G:0.12, T:0.26
Consensus pattern (19 bp):
TCGATAATGCTCCCAATCC
Found at i:1542198 original size:16 final size:15
Alignment explanation
Indices: 1542173--1542206 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
1542163 TTTAATATCA
*
1542173 TAATATTAATTATAAT
1 TAATACTAATTAT-AT
1542189 TAATACTAATTATAT
1 TAATACTAATTATAT
1542204 TAA
1 TAA
1542207 GAAATTGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATACTAATTATAT
Found at i:1553255 original size:41 final size:41
Alignment explanation
Indices: 1553203--1553496 Score: 240
Period size: 41 Copynumber: 7.2 Consensus size: 41
1553193 TCAAACCATT
* * *
1553203 TTGAATGGTGAATTATGGTATGTTACCATGGTCGAATCAAG
1 TTGAATGGTGAATTATTGTATGCTACCATGATCGAATCAAG
* * * * * * *
1553244 TTGAATGGTGAAGTATTGTGTGTTGCCATCATTGAATTGAA-
1 TTGAATGGTGAATTATTGTATGCTACCATGATCGAA-TCAAG
* * *
1553285 TTGAATGGTGAATTATTGCATGCTACCATGGTTGAATCAAG
1 TTGAATGGTGAATTATTGTATGCTACCATGATCGAATCAAG
* * * * *
1553326 TTGAATGAT-AATCTATTGTAT-CCAGTCGTGATCGAATTGAA-
1 TTGAATGGTGAAT-TATTGTATGCTA-CCATGATCGAA-TCAAG
* *
1553367 TTTAATGGTGAATTATTGCATGCTACCATGATCGAATCAAG
1 TTGAATGGTGAATTATTGTATGCTACCATGATCGAATCAAG
* * * * *
1553408 TTGAATGATGAACTATTGTATGCTGCCATGATTGAATTGAA-
1 TTGAATGGTGAATTATTGTATGCTACCATGATCGAA-TCAAG
* * *
1553449 TCGAATAGTGAATTATT-TCATGCTACCATGATCGAATCGAG
1 TTGAATGGTGAATTATTGT-ATGCTACCATGATCGAATCAAG
1553490 TTGAATG
1 TTGAATG
1553497 ATAAACTATT
Statistics
Matches: 194, Mismatches: 48, Indels: 22
0.73 0.18 0.08
Matches are distributed among these distances:
40 14 0.07
41 166 0.86
42 14 0.07
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (41 bp):
TTGAATGGTGAATTATTGTATGCTACCATGATCGAATCAAG
Found at i:1553297 original size:82 final size:82
Alignment explanation
Indices: 1553203--1553517 Score: 407
Period size: 82 Copynumber: 3.8 Consensus size: 82
1553193 TCAAACCATT
* * * * * * * *
1553203 TTGAATGGTGAATTATGGTATGTTACCATGGTCGAATCAAGTTGAATGGTGAAGTATTGTGTGTT
1 TTGAATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCT
*
1553268 GCCATCATTGAATTGAA
66 GCCATGATTGAATTGAA
* * *
1553285 TTGAATGGTGAATTATTGCATGCTACCATGGTTGAATCAAGTTGAATGAT-AATCTATTGTATCC
1 TTGAATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATGAA-CTATTGTATGC
* * * *
1553349 AGTCGTGATCGAATTGAA
65 TGCCATGATTGAATTGAA
*
1553367 TTTAATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCT
1 TTGAATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCT
1553432 GCCATGATTGAATTGAA
66 GCCATGATTGAATTGAA
* * * * * *
1553449 TCGAATAGTGAATTATTTCATGCTACCATGATCGAATCGAGTTGAATGATAAACTATTGCATGCT
1 TTGAATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCT
1553514 GCCA
66 GCCA
1553518 AGATCAAACT
Statistics
Matches: 202, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
81 2 0.01
82 198 0.98
83 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (82 bp):
TTGAATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCT
GCCATGATTGAATTGAA
Found at i:1553382 original size:164 final size:164
Alignment explanation
Indices: 1553206--1553507 Score: 460
Period size: 164 Copynumber: 1.8 Consensus size: 164
1553196 AACCATTTTG
* * * * * * *
1553206 AATGGTGAATTATGGTATGTTACCATGGTCGAATCAAGTTGAATGGTGAAGTATTGTGTGTTGCC
1 AATGGTGAATTATGGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCTGCC
* * * *
1553271 ATCATTGAATTGAATTGAATGGTGAATTATTGCATGCTACCATGGTTGAATCAAGTTGAATGATA
66 ATCATTGAATTGAATCGAATAGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATA
*
1553336 ATCTATTGTATCCAGTCGTGATCGAATTGAATTT
131 AACTATTGTATCCAGTCGTGATCGAATTGAATTT
*
1553370 AATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCTGCC
1 AATGGTGAATTATGGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCTGCC
* * *
1553435 ATGATTGAATTGAATCGAATAGTGAATTATTTCATGCTACCATGATCGAATCGAGTTGAATGATA
66 ATCATTGAATTGAATCGAATAGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATA
1553500 AACTATTG
131 AACTATTG
1553508 CATGCTGCCA
Statistics
Matches: 122, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
164 122 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (164 bp):
AATGGTGAATTATGGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCTGCC
ATCATTGAATTGAATCGAATAGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATA
AACTATTGTATCCAGTCGTGATCGAATTGAATTT
Found at i:1561046 original size:41 final size:41
Alignment explanation
Indices: 1560999--1561079 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
1560989 TCTTGATTTA
* * *
1560999 AATTGAATT-AGTTTGTGAATTAATACATGTTATCATGATCT
1 AATTGAATTGA-TATGTGAATAAATACATGTTACCATGATCT
**
1561040 AATTGAATTGATATGTGAATAAATGTATGTTACCATGATC
1 AATTGAATTGATATGTGAATAAATACATGTTACCATGATC
1561080 AAATCAAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (41 bp):
AATTGAATTGATATGTGAATAAATACATGTTACCATGATCT
Found at i:1561099 original size:41 final size:39
Alignment explanation
Indices: 1561045--1561392 Score: 212
Period size: 41 Copynumber: 8.5 Consensus size: 39
1561035 GATCTAATTG
* *
1561045 AATTGATAT-GTGAATAAATGTATGTTACCATGATCAAATC
1 AATTGA-ATGGTGAAT-ATTGTATGCTACCATGATCAAATC
* * * *
1561085 AAGTTGAATGGTGAATTATGGTATACTACCATGGTCGAATC
1 AA-TTGAATGGTGAA-TATTGTATGCTACCATGATCAAATC
* * * * *
1561126 ATATTGAATGCTGAAGTATTGTATGCTGCCATGATTGAATTG
1 A-ATTGAATGGTGAA-TATTGTATGCTACCATGA-TCAAATC
* * * *
1561168 AATTGACTGGTAAATTATTGCATGCTACCATGATCGAATC
1 AATTGAATGGTGAA-TATTGTATGCTACCATGATCAAATC
* * * * *
1561208 AAGTTGAATGATGAACTATTGTATGCTGCCATGATTGAATTG
1 AA-TTGAATGGTGAA-TATTGTATGCTACCATGA-TCAAATC
* * *
1561250 AATTGAATGGGGAATTATTGCATGCTACCATGATCGAATC
1 AATTGAATGGTGAA-TATTGTATGCTACCATGATCAAATC
* * * * * * *
1561290 AACTTAAATGATGAACTATTGTATGATGCCATGATTGAATTG
1 AA-TTGAATGGTGAA-TATTGTATGCTACCATGA-TCAAATC
* * * *
1561332 AATCGAATGGTGAATTATTGAATGCTACCATGATCTACTC
1 AATTGAATGGTGAA-TATTGTATGCTACCATGATCAAATC
*
1561372 AAGTTGAATGATGAACTATTG
1 AA-TTGAATGGTGAA-TATTG
1561393 CATACTTCCA
Statistics
Matches: 228, Mismatches: 70, Indels: 19
0.72 0.22 0.06
Matches are distributed among these distances:
40 19 0.08
41 193 0.85
42 16 0.07
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (39 bp):
AATTGAATGGTGAATATTGTATGCTACCATGATCAAATC
Found at i:1561149 original size:82 final size:82
Alignment explanation
Indices: 1561088--1561392 Score: 441
Period size: 82 Copynumber: 3.7 Consensus size: 82
1561078 TCAAATCAAG
* * * * * *
1561088 TTGAATGGTGAATTATGGTATACTACCATGGTCGAATCATA-TTGAATGCTGAAGTATTGTATGC
1 TTGAATGGTGAATTATTGCATGCTACCATGATCGAATCA-ACTTGAATGATGAACTATTGTATGC
1561152 TGCCATGATTGAATTGAA
65 TGCCATGATTGAATTGAA
* * *
1561170 TTGACTGGTAAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCT
1 TTGAATGGTGAATTATTGCATGCTACCATGATCGAATCAACTTGAATGATGAACTATTGTATGCT
1561235 GCCATGATTGAATTGAA
66 GCCATGATTGAATTGAA
* * *
1561252 TTGAATGGGGAATTATTGCATGCTACCATGATCGAATCAACTTAAATGATGAACTATTGTATGAT
1 TTGAATGGTGAATTATTGCATGCTACCATGATCGAATCAACTTGAATGATGAACTATTGTATGCT
1561317 GCCATGATTGAATTGAA
66 GCCATGATTGAATTGAA
* * * * *
1561334 TCGAATGGTGAATTATTGAATGCTACCATGATCTACTCAAGTTGAATGATGAACTATTG
1 TTGAATGGTGAATTATTGCATGCTACCATGATCGAATCAACTTGAATGATGAACTATTG
1561393 CATACTTCCA
Statistics
Matches: 201, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
81 1 0.00
82 200 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (82 bp):
TTGAATGGTGAATTATTGCATGCTACCATGATCGAATCAACTTGAATGATGAACTATTGTATGCT
GCCATGATTGAATTGAA
Found at i:1561310 original size:123 final size:123
Alignment explanation
Indices: 1561070--1561366 Score: 294
Period size: 123 Copynumber: 2.4 Consensus size: 123
1561060 AAATGTATGT
* * * *
1561070 TACCATGATCAAATCAAGTTGAATGGTGAATTATGGTATACTACCATGGTCGAATCATATTGAAT
1 TACCATGATCGAATCAAGTTGAATGGTGAATTATTGTATGCTACCATGATCGAATCATATTGAAT
* * * * * * * * * *
1561135 GCTGAAGTATTGTATGCTGCCATGATTGAATTGAATTGACTGGTAAATTATTGCATGC
66 GCGGAAGTATTGCATGCTACCATGATCGAATTCAATTAAATGATAAACTATTGCATGA
* * * * *
1561193 TACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCTGCCATGATTGAATTGA-ATTGAA
1 TACCATGATCGAATCAAGTTGAATGGTGAATTATTGTATGCTACCATGATCGAA-TCATATTGAA
* * * *
1561257 TGGGGAATTATTGCATGCTACCATGATCGAA-TCAACTTAAATGATGAACTATTGTATGA
65 TGCGGAAGTATTGCATGCTACCATGATCGAATTCAA-TTAAATGATAAACTATTGCATGA
* * * * *
1561316 TGCCATGATTGAATTGAA-TCGAATGGTGAATTATTGAATGCTACCATGATC
1 TACCATGATCGAA-TCAAGTTGAATGGTGAATTATTGTATGCTACCATGATC
1561367 TACTCAAGTT
Statistics
Matches: 139, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
122 3 0.02
123 131 0.94
124 5 0.04
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (123 bp):
TACCATGATCGAATCAAGTTGAATGGTGAATTATTGTATGCTACCATGATCGAATCATATTGAAT
GCGGAAGTATTGCATGCTACCATGATCGAATTCAATTAAATGATAAACTATTGCATGA
Found at i:1563358 original size:3 final size:3
Alignment explanation
Indices: 1563352--1563435 Score: 100
Period size: 3 Copynumber: 27.7 Consensus size: 3
1563342 CTCCATTTTC
*
1563352 TAT TAT TATT TAT AAT TAT TAT TAT TAT T-T TAT ATAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* *
1563398 TAT TAT T-T TATT TAT TAT TAT TAA AAT TAT TAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA
1563436 CAAACAGGCC
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
2 4 0.06
3 57 0.81
4 9 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1563393 original size:24 final size:24
Alignment explanation
Indices: 1563352--1563434 Score: 112
Period size: 24 Copynumber: 3.4 Consensus size: 24
1563342 CTCCATTTTC
*
1563352 TATTATTATTTATAATTATTATTAT
1 TATT-TTATTTATTATTATTATTAT
*
1563377 TATTTTATATATTATTATTATTAT
1 TATTTTATTTATTATTATTATTAT
**
1563401 TATTTTATTTATTATTATTAAAAT
1 TATTTTATTTATTATTATTATTAT
1563425 TATTATTATT
1 TATT-TTATT
1563435 ACAAACAGGC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
24 43 0.83
25 9 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTTTATTTATTATTATTATTAT
Found at i:1565028 original size:20 final size:19
Alignment explanation
Indices: 1565003--1565044 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1564993 CTATTTTATA
1565003 AATTATATATTAATTATTTT
1 AATTATATATTAATT-TTTT
* *
1565023 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
1565042 AAT
1 AAT
1565045 ATCGAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:1566380 original size:11 final size:11
Alignment explanation
Indices: 1566364--1566405 Score: 84
Period size: 11 Copynumber: 3.8 Consensus size: 11
1566354 TGTCTGCATT
1566364 ACATAATCATG
1 ACATAATCATG
1566375 ACATAATCATG
1 ACATAATCATG
1566386 ACATAATCATG
1 ACATAATCATG
1566397 ACATAATCA
1 ACATAATCA
1566406 AAAGGTGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (11 bp):
ACATAATCATG
Found at i:1567345 original size:35 final size:34
Alignment explanation
Indices: 1567290--1567359 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 34
1567280 CATTCACATA
*
1567290 TTTACATTTGCATTTGCATTTTGCATATTTGCATT
1 TTTACATTTGCATTTACATTTT-CATATTTGCATT
* * *
1567325 TTTACGTTTGTATTTACATTTTCATGTTTGCATT
1 TTTACATTTGCATTTACATTTTCATATTTGCATT
1567359 T
1 T
1567360 GCATCTTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 12 0.39
35 19 0.61
ACGTcount: A:0.19, C:0.13, G:0.11, T:0.57
Consensus pattern (34 bp):
TTTACATTTGCATTTACATTTTCATATTTGCATT
Found at i:1567353 original size:20 final size:20
Alignment explanation
Indices: 1567315--1567359 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1567305 GCATTTTGCA
* *
1567315 TATTTGCATTTTTACGTTTG
1 TATTTACATTTTCACGTTTG
*
1567335 TATTTACATTTTCATGTTTG
1 TATTTACATTTTCACGTTTG
*
1567355 CATTT
1 TATTT
1567360 GCATCTTTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.60
Consensus pattern (20 bp):
TATTTACATTTTCACGTTTG
Found at i:1577780 original size:14 final size:14
Alignment explanation
Indices: 1577761--1577791 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1577751 TTTCTGAAGT
1577761 AGAAAGGAAACAAA
1 AGAAAGGAAACAAA
1577775 AGAAAGGAAACAAA
1 AGAAAGGAAACAAA
1577789 AGA
1 AGA
1577792 GAAAGGGTTG
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:0.71, C:0.06, G:0.23, T:0.00
Consensus pattern (14 bp):
AGAAAGGAAACAAA
Found at i:1579420 original size:130 final size:130
Alignment explanation
Indices: 1579130--1579476 Score: 328
Period size: 130 Copynumber: 2.7 Consensus size: 130
1579120 ATATTGAGAA
* * *
1579130 AGTAA-ATCTTTTCATTTCGGTTGGAGTAAT-AATGATTGCTTTAAGGCATGAGAGGTTATTTAT
1 AGTAATATCTTTTTATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTAT
* * * * * *
1579193 TCTCGATTGGAAATAATTTGATATTGATGTTTCTCTCGAATTAATATCGATTTTTAAGATGGAAT
66 TCTCGATTGGAAATAATTAGATATTCATGTTTCTCTCGAATCAATATCGAATTTTAAGACGAAAT
* * * * * *
1579258 AGTGATATCTCTTTATTTCGATTCGAGCAATAAATGGA-TGCTTTAAGGTATGAGATGTCATTTA
1 AGTAATATCTTTTTATTTCGATTGGAGTAATAAAT-GATTGCTTTAAGGCATGAGAGGTCATTTA
* * * * * * *
1579322 TTCTCGATTGTAAATCATTAGTTA-TCATCGTTTTTACTTGAATCGATATTGAATTTTAAGACGA
65 TTCTCGATTGGAAATAATTAGATATTCAT-GTTTCT-CTCGAATCAATATCGAATTTTAAGACGA
1579386 AAT
128 AAT
* * * ** ** * *
1579389 AGTAATATCTTTTTATTTCAATTGGA-TAATAAATTACTG-TTTAATACACAAAAGATCATTTAT
1 AGTAATATCTTTTTATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTAT
* *
1579452 TCTTGATTGGAAATAAGTAGATATT
66 TCTCGATTGGAAATAATTAGATATT
1579477 ATCGTTTTCA
Statistics
Matches: 171, Mismatches: 41, Indels: 12
0.76 0.18 0.05
Matches are distributed among these distances:
128 4 0.02
129 58 0.34
130 61 0.36
131 48 0.28
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (130 bp):
AGTAATATCTTTTTATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTAT
TCTCGATTGGAAATAATTAGATATTCATGTTTCTCTCGAATCAATATCGAATTTTAAGACGAAAT
Found at i:1580817 original size:35 final size:37
Alignment explanation
Indices: 1580771--1580857 Score: 117
Period size: 38 Copynumber: 2.4 Consensus size: 37
1580761 AAGGTGATGG
1580771 AGTTCTTTATTTTTC-TA-TCCCTTTTAAAGTTTGGT
1 AGTTCTTTATTTTTCTTATTCCCTTTTAAAGTTTGGT
1580806 AGTTCTTTA-TTTTCTTATCTTCCCTTTTAAAGTTTGGT
1 AGTTCTTTATTTTTCTTA--TTCCCTTTTAAAGTTTGGT
* *
1580844 AGCTCTTTGTTTTT
1 AGTTCTTTATTTTT
1580858 GATTGTTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
34 5 0.11
35 11 0.24
38 25 0.56
39 4 0.09
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.59
Consensus pattern (37 bp):
AGTTCTTTATTTTTCTTATTCCCTTTTAAAGTTTGGT
Found at i:1580915 original size:2 final size:2
Alignment explanation
Indices: 1580908--1580956 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
1580898 TTGTTGTCTA
1580908 AT AT AT AT AT A- 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
1580949 AT AT AT AT
1 AT AT AT AT
1580957 GTTCCATGGC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1583253 original size:163 final size:161
Alignment explanation
Indices: 1582959--1583282 Score: 630
Period size: 163 Copynumber: 2.0 Consensus size: 161
1582949 CTTGAAACTA
1582959 AAACTTCTTCAACTTTACATGCATCTGCTACTCCCGCAAATGAAAACAGAAGCTTTCCGCATTTC
1 AAACTTCTTCAACTTTACATGCATCTGCTACTCCCGCAAATGAAAACAGAAGCTTTCCGCATTTC
1583024 ATTATTACCCCACCACATATCCTCAACTTATCATTTAAAACAAACCCCCATTTGCAAAAAAACTG
66 ATTATTACCCCACCACATATCCTCAACTTATCATTTAAAACAAACCCCCATTTGCAAAAAAACTG
1583089 ACCAAATTTTAGGCCAAGTACCTAAACGTGT
131 ACCAAATTTTAGGCCAAGTACCTAAACGTGT
1583120 AAACTTCTTCAACTTTACATGCATCTGCTACTCCCGCAAATGAAAACAGAAGGCTTTCCGCATTT
1 AAACTTCTTCAACTTTACATGCATCTGCTACTCCCGCAAATGAAAACAGAA-GCTTTCCGCATTT
1583185 CATTATTACCCCACCACCATATCCTCAACTTATCATTTAAAACAAACCCCCATTTGCAAAAAAAC
65 CATTATTACCCCACCA-CATATCCTCAACTTATCATTTAAAACAAACCCCCATTTGCAAAAAAAC
1583250 TGACCAAATTTTAGGCCAAGTACCTAAACGTGT
129 TGACCAAATTTTAGGCCAAGTACCTAAACGTGT
1583283 TGGGATCTCC
Statistics
Matches: 161, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
161 51 0.32
162 29 0.18
163 81 0.50
ACGTcount: A:0.35, C:0.29, G:0.09, T:0.27
Consensus pattern (161 bp):
AAACTTCTTCAACTTTACATGCATCTGCTACTCCCGCAAATGAAAACAGAAGCTTTCCGCATTTC
ATTATTACCCCACCACATATCCTCAACTTATCATTTAAAACAAACCCCCATTTGCAAAAAAACTG
ACCAAATTTTAGGCCAAGTACCTAAACGTGT
Found at i:1589212 original size:24 final size:24
Alignment explanation
Indices: 1589183--1589237 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
1589173 TATCAGAGTG
* *
1589183 AGCAATCCTTGGGAGATTGGGATC
1 AGCAATCCTTGGGAAATTAGGATC
* *
1589207 ATCAATCTTTGGGAAATTAGGATC
1 AGCAATCCTTGGGAAATTAGGATC
1589231 AGCAATC
1 AGCAATC
1589238 ACGGGAGCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (24 bp):
AGCAATCCTTGGGAAATTAGGATC
Found at i:1591222 original size:42 final size:42
Alignment explanation
Indices: 1591150--1591348 Score: 145
Period size: 42 Copynumber: 4.8 Consensus size: 42
1591140 AATTGATACT
** * * *
1591150 TTAGCGGCGTTTTTAGTACAAACGCTGCAATAGAGTTG-ACA
1 TTAGCGGCGTTTTTACAACAAACGCCGCAATAGAGTGGTAAA
* * *
1591191 TATAGCGGCGTTTTTACAAAAAATGCCGCAATAGGGTGGTAAA
1 T-TAGCGGCGTTTTTACAACAAACGCCGCAATAGAGTGGTAAA
* * * *
1591234 TTAGCGGCGTTTATACCACAAACGCCACAATAGAGT-ATAAAA
1 TTAGCGGCGTTTTTACAACAAACGCCGCAATAGAGTGGT-AAA
* * * * *
1591276 TTTGCGGCG-ATTGAGCCA-AAACACCGCAATAGAGTGGTAAA
1 TTAGCGGCGTTTTTA-CAACAAACGCCGCAATAGAGTGGTAAA
* * * * *
1591317 TTCGTGGCGTTTATACCACAAACGCCGTAATA
1 TTAGCGGCGTTTTTACAACAAACGCCGCAATA
1591349 TATTACACAT
Statistics
Matches: 122, Mismatches: 29, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
41 32 0.26
42 87 0.71
43 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (42 bp):
TTAGCGGCGTTTTTACAACAAACGCCGCAATAGAGTGGTAAA
Found at i:1591256 original size:84 final size:82
Alignment explanation
Indices: 1591150--1591342 Score: 201
Period size: 83 Copynumber: 2.3 Consensus size: 82
1591140 AATTGATACT
* ** ** * * * *
1591150 TTAGCGGCGTTTTTAGTACAAACGCTGCAATAGAGT-TGACATATAGCGGCGTTTTTA-CAAAAA
1 TTAGCGGCGTTTATACCACAAACGCCACAATAGAGTATAAAAT-TAGCGGCG-ATTGACCAAAAA
*
1591213 ATGCCGCAATAGGGTGGTAAA
64 A--CCGCAATAGAGTGGTAAA
* *
1591234 TTAGCGGCGTTTATACCACAAACGCCACAATAGAGTATAAAATTTGCGGCGATTGAGCCAAAACA
1 TTAGCGGCGTTTATACCACAAACGCCACAATAGAGTATAAAATTAGCGGCGATTGA-CCAAAAAA
1591299 CCGCAATAGAGTGGTAAA
65 CCGCAATAGAGTGGTAAA
* *
1591317 TTCGTGGCGTTTATACCACAAACGCC
1 TTAGCGGCGTTTATACCACAAACGCC
1591343 GTAATATATT
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
83 44 0.48
84 38 0.41
85 10 0.11
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (82 bp):
TTAGCGGCGTTTATACCACAAACGCCACAATAGAGTATAAAATTAGCGGCGATTGACCAAAAAAC
CGCAATAGAGTGGTAAA
Found at i:1591537 original size:40 final size:41
Alignment explanation
Indices: 1591377--1591536 Score: 227
Period size: 41 Copynumber: 3.9 Consensus size: 41
1591367 GTTTATTCCT
*
1591377 CAAACGCCGCAATAGTGATAATCAATAGTGGTGTTTTTAGA
1 CAAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTTAGA
** * *
1591418 CAAACGCCATAATAGTGTTAATCAATAATGGCGTTTTTAGA
1 CAAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTTAGA
*
1591459 AAAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTTTA-A
1 CAAACGCCGCAATAGTGATAATCAATAGTGGCG-TTTTTAGA
1591500 CAAACGCCAG-AATAGTG-TAATCAATAGTGGCGTTTTT
1 CAAACGCC-GCAATAGTGATAATCAATAGTGGCGTTTTT
1591537 TTGTATAAAC
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
39 5 0.05
40 15 0.14
41 79 0.75
42 7 0.07
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (41 bp):
CAAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTTAGA
Found at i:1591537 original size:82 final size:83
Alignment explanation
Indices: 1591378--1591553 Score: 268
Period size: 82 Copynumber: 2.1 Consensus size: 83
1591368 TTTATTCCTC
* *
1591378 AAACGCCGCAATAGTGATAATCAATAGTGGTGTTTTTAGACAAACGCCATAATAGTGTTAATCAA
1 AAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTTAGACAAACGCCAGAATAGTGTTAATCAA
1591443 TAATGGCGTTTTTAG-AA
66 TAATGGCGTTTTTAGTAA
1591460 AAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTTTA-ACAAACGCCAGAATAGTG-TAATCA
1 AAACGCCGCAATAGTGATAATCAATAGTGGCG-TTTTTAGACAAACGCCAGAATAGTGTTAATCA
* * *
1591523 ATAGTGGCGTTTTTTTGTAT
65 ATAATGGCG-TTTTTAGTAA
1591543 AAACGCCGCAA
1 AAACGCCGCAA
1591554 AATGTTAAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
81 14 0.16
82 54 0.63
83 18 0.21
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (83 bp):
AAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTTAGACAAACGCCAGAATAGTGTTAATCAA
TAATGGCGTTTTTAGTAA
Found at i:1596362 original size:22 final size:20
Alignment explanation
Indices: 1596324--1596375 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
1596314 TGGGTAGATG
*
1596324 TTTTAAATTTACCTGAC-TT
1 TTTTATATTTACCTGACATT
1596343 TATTTATATTGTACCATGACATT
1 T-TTTATATT-TACC-TGACATT
1596366 TTTTAT-TTTA
1 TTTTATATTTA
1596376 ATTAATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 9 0.32
21 6 0.21
22 9 0.32
23 3 0.11
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTATATTTACCTGACATT
Found at i:1596711 original size:21 final size:21
Alignment explanation
Indices: 1596676--1596760 Score: 102
Period size: 21 Copynumber: 4.1 Consensus size: 21
1596666 ATGAAGCAAG
1596676 GGAA-CAGAGAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
**
1596696 GGAAGCAGCTAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
*
1596717 GGAAGCAGAGAGAGAAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
* *
1596738 GGCAGCACAGAGAG-AGGCAGC
1 GGAAGCAGAGAGAGCA-GCAGC
1596759 GG
1 GG
1596761 CAGAACAGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
20 5 0.09
21 51 0.91
ACGTcount: A:0.36, C:0.20, G:0.42, T:0.01
Consensus pattern (21 bp):
GGAAGCAGAGAGAGCAGCAGC
Found at i:1596761 original size:21 final size:21
Alignment explanation
Indices: 1596683--1596775 Score: 98
Period size: 21 Copynumber: 4.4 Consensus size: 21
1596673 AAGGGAACAG
* *
1596683 AGAGAGCAGCAGCGGAAGCAGC
1 AGAGAGAAGCAGCGGCAGCA-C
* * * *
1596705 -TAGAGCAGCAGCGGAAGCAG
1 AGAGAGAAGCAGCGGCAGCAC
1596725 AGAGAGAAGCAGCGGCAGCAC
1 AGAGAGAAGCAGCGGCAGCAC
* *
1596746 AGAGAGAGGCAGCGGCAGAAC
1 AGAGAGAAGCAGCGGCAGCAC
1596767 AGAGAGAAG
1 AGAGAGAAG
1596776 TATATATCAG
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.39, C:0.19, G:0.41, T:0.01
Consensus pattern (21 bp):
AGAGAGAAGCAGCGGCAGCAC
Found at i:1597246 original size:43 final size:42
Alignment explanation
Indices: 1597111--1597341 Score: 137
Period size: 43 Copynumber: 5.3 Consensus size: 42
1597101 CATACATTTA
* * *
1597111 GCGGCGTTTTTGATA-AAAACGCCGCAAAATCTCAATACATATTCT
1 GCGGCGTTTTTGA-AGAAAACGCCGCTAAATATCAAAAC-TA-T-T
* * * * * * *
1597156 GCGGCATTTTT-AGGAAAACGCCGGTAAAAATAAAAATTTACT
1 GCGGCGTTTTTGAAGAAAACGCCGCTAAATATCAAAA-CTATT
* * *
1597198 ACGGCGTTTTTGAAGAAAACGCCGCTAAACATCAACGACTATT
1 GCGGCGTTTTTGAAGAAAACGCCGCTAAATATCAA-AACTATT
* ** ** * *
1597241 GCGGCGTTTGTCTACCAAATGCCGTTAAATATCAAAACCTATT
1 GCGGCGTTTTTGAAGAAAACGCCGCTAAATATCAAAA-CTATT
* *
1597284 GCGGCG-TTTT-AATGATAAACGCCGCTAAATATCAATACATTTT
1 GCGGCGTTTTTGAA-GA-AAACGCCGCTAAATATCAAAAC-TATT
1597327 GCGGCGTTTGTTGAA
1 GCGGCGTTT-TTGAA
1597342 CAATCGCCGC
Statistics
Matches: 138, Mismatches: 37, Indels: 21
0.70 0.19 0.11
Matches are distributed among these distances:
41 1 0.01
42 15 0.11
43 86 0.62
44 22 0.16
45 12 0.09
46 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (42 bp):
GCGGCGTTTTTGAAGAAAACGCCGCTAAATATCAAAACTATT
Found at i:1597446 original size:15 final size:15
Alignment explanation
Indices: 1597402--1597473 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
1597392 TGCCGCAAAC
* *
1597402 TTTAGCGGCGCTATT
1 TTTAGCGGCGTTTTT
*
1597417 TTTAGCGGCG---CT
1 TTTAGCGGCGTTTTT
1597429 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
*
1597444 TTTA-CGCCGTATGTATT
1 TTTAGCGGCGT-T-T-TT
1597461 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
1597474 AAAAACGCCG
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
12 11 0.24
14 5 0.11
15 16 0.35
16 2 0.04
17 7 0.15
18 5 0.11
ACGTcount: A:0.11, C:0.18, G:0.26, T:0.44
Consensus pattern (15 bp):
TTTAGCGGCGTTTTT
Found at i:1602305 original size:22 final size:22
Alignment explanation
Indices: 1602277--1602320 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1602267 TGGAAGAATC
1602277 TTGTGTTCTCTCTCTCTCATGT
1 TTGTGTTCTCTCTCTCTCATGT
1602299 TTGTGTTCTCTCTCTCTCATGT
1 TTGTGTTCTCTCTCTCTCATGT
1602321 CTACATTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.05, C:0.27, G:0.14, T:0.55
Consensus pattern (22 bp):
TTGTGTTCTCTCTCTCTCATGT
Found at i:1604211 original size:31 final size:31
Alignment explanation
Indices: 1604173--1604234 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
1604163 TCAAACGGGC
1604173 GGGGACCATATTACAAACAGACTAAATGTTG
1 GGGGACCATATTACAAACAGACTAAATGTTG
**
1604204 GGGGACCATATTACAAATGGACTAAATGTTG
1 GGGGACCATATTACAAACAGACTAAATGTTG
1604235 AGAGATTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (31 bp):
GGGGACCATATTACAAACAGACTAAATGTTG
Found at i:1605521 original size:6 final size:7
Alignment explanation
Indices: 1605498--1605527 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
1605488 AAACAAAATC
1605498 AAAAGAAA
1 AAAAG-AA
1605506 AAAAGAA
1 AAAAGAA
1605513 AAAAGAA
1 AAAAGAA
1605520 AAAAGAA
1 AAAAGAA
1605527 A
1 A
1605528 GGGTTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:1609208 original size:2 final size:2
Alignment explanation
Indices: 1609201--1609233 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1609191 TAACACTTAT
1609201 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1609234 TTAATTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1609527 original size:16 final size:16
Alignment explanation
Indices: 1609484--1609527 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1609474 TTATTTTTCA
1609484 TTTATT-TATTATTAT
1 TTTATTATATTATTAT
*
1609499 TGTTACTAT-TTATTAT
1 T-TTATTATATTATTAT
1609515 TTTATTATATTAT
1 TTTATTATATTAT
1609528 ACATACTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 7 0.29
16 16 0.67
17 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTATTATATTATTAT
Found at i:1609563 original size:17 final size:18
Alignment explanation
Indices: 1609536--1609585 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
1609526 ATACATACTG
1609536 TTTTATATTTTTTTTATA-
1 TTTT-TATTTTTTTTATAC
*
1609554 TTTTTATTTTATTTATAC
1 TTTTTATTTTTTTTATAC
*
1609572 TATTTATTTATTTT
1 TTTTTATTT-TTTT
1609586 CATTATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 12 0.44
18 12 0.44
19 3 0.11
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTATTTTTTTTATAC
Found at i:1609665 original size:18 final size:19
Alignment explanation
Indices: 1609642--1609684 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1609632 TATATATATA
*
1609642 TTTTTTCTTC-ATTT-ATT
1 TTTTTTATTCAATTTCATT
1609659 TTATTTTATTCAATTTCATT
1 TT-TTTTATTCAATTTCATT
1609679 TTTTTT
1 TTTTTT
1609685 TATATTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.09
18 7 0.32
19 8 0.36
20 5 0.23
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTATTCAATTTCATT
Found at i:1610900 original size:19 final size:20
Alignment explanation
Indices: 1610864--1610901 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1610854 ACCTTACTAA
*
1610864 CTCTTTTCATTTTTTTTCCT
1 CTCTTTTCATTTTATTTCCT
1610884 CTCTTTT-ATTTTATTTCC
1 CTCTTTTCATTTTATTTCC
1610902 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (20 bp):
CTCTTTTCATTTTATTTCCT
Found at i:1614320 original size:20 final size:20
Alignment explanation
Indices: 1614295--1614354 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
1614285 CAAAAAGGGC
1614295 AAAAAACAAAAAAGAAAACA
1 AAAAAACAAAAAAGAAAACA
* *
1614315 AAAAAACAAAAAAAGGAAAGA
1 AAAAAAC-AAAAAAGAAAACA
1614336 ATAAAAATC-AAAAAGAAAA
1 A-AAAAA-CAAAAAAGAAAA
1614355 AGGGATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 7 0.21
21 21 0.62
22 5 0.15
23 1 0.03
ACGTcount: A:0.82, C:0.07, G:0.08, T:0.03
Consensus pattern (20 bp):
AAAAAACAAAAAAGAAAACA
Found at i:1614356 original size:22 final size:21
Alignment explanation
Indices: 1614296--1614365 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 21
1614286 AAAAAGGGCA
*
1614296 AAAAACAAAAA-AGAAAACAA-
1 AAAAACAAAAAGA-AAAAGAAT
1614316 AAAAACAAAAA-AAGGAAAGAAT
1 AAAAACAAAAAGAA--AAAGAAT
*
1614338 AAAAATCAAAAAGAAAAAGGGAT
1 AAAAA-CAAAAAGAAAAA-GAAT
1614361 AAAAA
1 AAAAA
1614366 AACACATGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 1 0.02
20 12 0.29
21 5 0.12
22 8 0.19
23 14 0.33
24 2 0.05
ACGTcount: A:0.79, C:0.06, G:0.11, T:0.04
Consensus pattern (21 bp):
AAAAACAAAAAGAAAAAGAAT
Found at i:1615009 original size:22 final size:22
Alignment explanation
Indices: 1614956--1615010 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1614946 AGCACCCCAT
*
1614956 CAAACCTTTAAGAATCAAATGC
1 CAAACCTTTGAGAATCAAATGC
*
1614978 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGAATCAAATGC
1615000 CAAACCTTTGA
1 CAAACCTTTGA
1615011 CCAAACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGAATCAAATGC
Found at i:1617672 original size:106 final size:106
Alignment explanation
Indices: 1615939--1617666 Score: 2578
Period size: 106 Copynumber: 16.3 Consensus size: 106
1615929 TGGCCATCCG
* * * * * * * *
1615939 CAATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAATG
1 CAATTTCAACTTCACAACGAAGGATAT--TG-GACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
1616004 AAGGGA-TGACTGGTTGTCAACAAACAACTTCCCAAATTCAGAGC
63 AAGGGACCG-CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
** * ** *
1616048 CAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGAAAATACAAGTTCAACTTCACGACAAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * *
1616113 GGACCGCTGGTTGTCAACAAATAACTTCTCAATTTTAGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
1616154 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * *
1616219 GGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
*
1616260 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAAGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
1616325 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
* * * *
1616366 CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCATGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
1616431 GGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
* *
1616472 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAAGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
1616537 GGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
1616578 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * *
1616643 GGACTGCTGATTATCAATAAACAACTTCCCAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
* *
1616684 CAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAATGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
** * *
1616749 GGATTGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
* *
1616790 CAATTTCAACTTCACAACGAAAGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
1616855 GGACCGCTGGTTGTCAACAAACAAATTCCCAATTTCGGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
* * *
1616896 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGATGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
1616961 GGACCGTTGGTTGTCAACAAA-AACTTCTCAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
* *
1617001 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAAGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
1617066 GGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
* * *
1617107 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAGAACGCAAGTTCAAATTCACGATGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * *
1617172 GGACCGCTGGTTATCAATAAACAACTTCCCAATTTTAGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
* * *
1617213 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAATGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*** * *
1617278 GGATTTCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
* *
1617319 CAATTTCAACTTCACAACGAAAGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
1617384 GGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
*
1617425 CAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* **
1617490 GGACCGCTGGTTGTCAACAAACAATTTCCCAATTTTGGAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
* * * * * *
1617531 CAATATCAACTTCACAACAAAGGATATTGGACTCGAGACAACACATGTTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * * * *
1617596 GGACGGCTAGTTGTCAACAAACAATTTCCCGATTCCAAAGC
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
* * *
1617637 CAATTTCAACTTCACGATGGAGGATATTGG
1 CAATTTCAACTTCACAACGAAGGATATTGG
1617667 GCTCGAAACA
Statistics
Matches: 1494, Mismatches: 123, Indels: 7
0.92 0.08 0.00
Matches are distributed among these distances:
105 99 0.07
106 1370 0.92
107 3 0.00
109 22 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
Found at i:1618473 original size:37 final size:37
Alignment explanation
Indices: 1618416--1618520 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
1618406 CATTTTCGTC
*
1618416 CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
1618453 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
1618490 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
1618521 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:1618959 original size:23 final size:23
Alignment explanation
Indices: 1618931--1618979 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
1618921 TGTATATATA
1618931 TATTTAATTAT-ATTTTATTT-ATT
1 TATTT-ATTATAATTTT-TTTCATT
1618954 TATTTATTATAATTTTTTTCATT
1 TATTTATTATAATTTTTTTCATT
1618977 TAT
1 TAT
1618980 CTTTGCGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTTATTATAATTTTTTTCATT
Found at i:1619238 original size:22 final size:20
Alignment explanation
Indices: 1619203--1619255 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
1619193 CTATTTAGTA
1619203 TTTTATTATATTATACATACTTT
1 TTTTATT-T-TTATACATA-TTT
*
1619226 TTTATATTTTTATATATATTT
1 TTT-TATTTTTATACATATTT
1619247 TTTTATTTT
1 TTTTATTTT
1619256 ATATTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 6 0.21
21 6 0.21
22 8 0.29
23 4 0.14
24 4 0.14
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATTTTTATACATATTT
Found at i:1619255 original size:19 final size:19
Alignment explanation
Indices: 1619201--1619259 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
1619191 TACTATTTAG
* * *
1619201 TATTTTATTATATTATACA
1 TATTTTTTTATTTTATATA
1619220 TACTTTTTTATATTTTTATATA
1 TA-TTTTTT-TA-TTTTATATA
1619242 TATTTTTTTATTTTATAT
1 TATTTTTTTATTTTATAT
1619260 TTTATTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 10 0.29
20 7 0.21
21 8 0.24
22 9 0.26
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTTTTTATTTTATATA
Found at i:1619255 original size:29 final size:31
Alignment explanation
Indices: 1619223--1619284 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 31
1619213 TTATACATAC
1619223 TTTTTTATATTTT-TATATA-TATTT-TTT-
1 TTTTTTATATTTTATATATACTATTTATTTA
* *
1619250 TATTTTATATTTTATTTATACTATTTATTTA
1 TTTTTTATATTTTATATATACTATTTATTTA
1619281 TTTT
1 TTTT
1619285 CATTATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.43
28 5 0.18
29 5 0.18
30 3 0.11
31 3 0.11
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (31 bp):
TTTTTTATATTTTATATATACTATTTATTTA
Found at i:1619276 original size:20 final size:18
Alignment explanation
Indices: 1619194--1619277 Score: 53
Period size: 19 Copynumber: 4.4 Consensus size: 18
1619184 TTATTGTTAC
*
1619194 TATTTAGTATTTTATTATA
1 TATTTA-TATTTTTTTATA
** *
1619213 TTATACATACTTTTTTATA
1 -TATTTATATTTTTTTATA
* *
1619232 TTTTTATATATATTTTTTTA
1 TATTTATAT-T-TTTTTATA
1619252 T-TTTATATTTTATTTATA
1 TATTTATATTTT-TTTATA
1619270 CTATTTAT
1 -TATTTAT
1619278 TTATTTTCAT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
17 2 0.04
18 11 0.22
19 19 0.39
20 17 0.35
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.67
Consensus pattern (18 bp):
TATTTATATTTTTTTATA
Found at i:1619280 original size:13 final size:13
Alignment explanation
Indices: 1619226--1619281 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 13
1619216 TACATACTTT
1619226 TTTATAT-TTTTA
1 TTTATATATTTTA
* *
1619238 TATATATTTTTTTA
1 TTTATA-TATTTTA
1619252 TTT-TATATTTTA
1 TTTATATATTTTA
1619264 TTTATACTA-TTTA
1 TTTATA-TATTTTA
1619277 TTTAT
1 TTTAT
1619282 TTTCATTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 14 0.38
13 14 0.38
14 9 0.24
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATATATTTTA
Found at i:1619894 original size:22 final size:19
Alignment explanation
Indices: 1619866--1619906 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 19
1619856 TATGAACTTA
1619866 TAAAATTTTAAAATAATAAAAT
1 TAAAA-TTT-AAAT-ATAAAAT
1619888 TAAAATTTAAATATAAAAT
1 TAAAATTTAAATATAAAAT
1619907 ATAATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 3 0.16
22 5 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAATTTAAATATAAAAT
Found at i:1621003 original size:46 final size:46
Alignment explanation
Indices: 1620950--1621040 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
1620940 TCAGTGCCAC
* *
1620950 ACTAATAATTGTATTATACTACATTCATTCACGAAAACATATTCTA
1 ACTAATAACTGTACTATACTACATTCATTCACGAAAACATATTCTA
1620996 ACTAATAACTGTACTATACTACATTCATTCACGAAAACATATTCT
1 ACTAATAACTGTACTATACTACATTCATTCACGAAAACATATTCT
1621041 GAACGCTGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (46 bp):
ACTAATAACTGTACTATACTACATTCATTCACGAAAACATATTCTA
Found at i:1621119 original size:74 final size:74
Alignment explanation
Indices: 1620996--1621163 Score: 291
Period size: 74 Copynumber: 2.3 Consensus size: 74
1620986 ACATATTCTA
*
1620996 ACTAATAACTGTACTATACTACATTCATTCACGAAAACATATTCTGAACGCTGAGCTTAAGAGCT
1 ACTAATAACTGTACTATACTACATTCATTCACGAAAACATATTCCGAACGCTGAGCTTAAGAGCT
*
1621061 CAGTGTCAC
66 CAGTGACAC
* *
1621070 ACTAATAACTATATTATACTACATTCATTCACGAAAACATATTCCGAACGCTGAGCTTAAGAGCT
1 ACTAATAACTGTACTATACTACATTCATTCACGAAAACATATTCCGAACGCTGAGCTTAAGAGCT
*
1621135 CAGTGACAT
66 CAGTGACAC
1621144 ACTAATAACTGTACTATACT
1 ACTAATAACTGTACTATACT
1621164 GATATAAAGT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 87 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (74 bp):
ACTAATAACTGTACTATACTACATTCATTCACGAAAACATATTCCGAACGCTGAGCTTAAGAGCT
CAGTGACAC
Found at i:1625194 original size:59 final size:59
Alignment explanation
Indices: 1625091--1625218 Score: 145
Period size: 59 Copynumber: 2.2 Consensus size: 59
1625081 TTTATGATAT
* * *
1625091 ATTTTATATTGATTTATTAAATAATCTTTAAATGATTTTAGGTATGCATTACCCAATAC
1 ATTTTATATTGATTTATTAAATAATATTTAAATGATTTTAGGTATGAAGTACCCAATAC
* * * *
1625150 ATTTTATA-TGAATTTTATTACATGATATTTGAATG-TTTTGGGTATGAAGTACCCAATAC
1 ATTTTATATTG-A-TTTATTAAATAATATTTAAATGATTTTAGGTATGAAGTACCCAATAC
1625209 ATGTTT-TATT
1 AT-TTTATATT
1625219 TATGATAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
58 2 0.03
59 34 0.59
60 22 0.38
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (59 bp):
ATTTTATATTGATTTATTAAATAATATTTAAATGATTTTAGGTATGAAGTACCCAATAC
Found at i:1625865 original size:17 final size:16
Alignment explanation
Indices: 1625828--1625863 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1625818 AATAAGTCCT
*
1625828 ATTTATTTTATAAATG
1 ATTTAATTTATAAATG
1625844 ATTTAATTTATAAATG
1 ATTTAATTTATAAATG
1625860 ATTT
1 ATTT
1625864 TATATGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTTAATTTATAAATG
Found at i:1626010 original size:164 final size:165
Alignment explanation
Indices: 1625706--1626011 Score: 551
Period size: 166 Copynumber: 1.9 Consensus size: 165
1625696 TGCAGGTTTG
1625706 ATTTTTATATTTTACAGTAAAGTTCTATTTACAAAGTTTGATTTAATACAACGTGATTTATAGAC
1 ATTTTTATATTTTACAGTAAAGTTCTATTTACAAAGTTTGATTTAATACAACGTGATTTATAGAC
* * *
1625771 TAAAGATTAAAAAGTTAATTGCATATGAAATATATGAAAATGATTTTAATAAGTCCTATTTATTT
66 GAAAGATT-AAAAGTTAATCGCATATGAAATATATGAAAATGATTTTAACAAGTCCTATTTATTT
1625836 TATAAATGATTTAATTTATAAATGATTTTATATGAT
130 TATAAATGATTTAATTTATAAATGATTTTATATGAT
*
1625872 ATTTTTATATTTTATAGTAAAGTTCTATTTACAAAGTTTGATTTAATACAACGTGATTTATAGAC
1 ATTTTTATATTTTACAGTAAAGTTCTATTTACAAAGTTTGATTTAATACAACGTGATTTATAGAC
*
1625937 GAAATATT-AAAGTTAATCGCATATGAAATATATGAAAATGATTTTAACAAGTCCTATTTATTTT
66 GAAAGATTAAAAGTTAATCGCATATGAAATATATGAAAATGATTTTAACAAGTCCTATTTATTTT
1626001 ATAAATGATTT
131 ATAAATGATTT
1626012 TATATGATAT
Statistics
Matches: 135, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
164 65 0.48
166 70 0.52
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.43
Consensus pattern (165 bp):
ATTTTTATATTTTACAGTAAAGTTCTATTTACAAAGTTTGATTTAATACAACGTGATTTATAGAC
GAAAGATTAAAAGTTAATCGCATATGAAATATATGAAAATGATTTTAACAAGTCCTATTTATTTT
ATAAATGATTTAATTTATAAATGATTTTATATGAT
Found at i:1633337 original size:85 final size:85
Alignment explanation
Indices: 1633201--1633363 Score: 263
Period size: 85 Copynumber: 1.9 Consensus size: 85
1633191 TTTAATTGGG
* ** *
1633201 GTTTTTTTACAGGCGTGGGAAAATCATGTTTGCTCTTGCAGTTTATTGACAAGAGATTCCAATCG
1 GTTTTTTTACAGGCGTGGAAAAATCATGTTTGCTCTTGCAGTTTACCGACAAGAGATTCCAACCG
* *
1633266 GTTCATGATTTAATCGGCGA
66 ATTCAAGATTTAATCGGCGA
*
1633286 GTTTTTTTACAGGCGTGGAAAAATCATGTTTGCTCTTGCATTTTACCGACAAGAGATTCCAACCG
1 GTTTTTTTACAGGCGTGGAAAAATCATGTTTGCTCTTGCAGTTTACCGACAAGAGATTCCAACCG
1633351 ATTCAAGATTTAA
66 ATTCAAGATTTAA
1633364 CCATCGGTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (85 bp):
GTTTTTTTACAGGCGTGGAAAAATCATGTTTGCTCTTGCAGTTTACCGACAAGAGATTCCAACCG
ATTCAAGATTTAATCGGCGA
Found at i:1635500 original size:43 final size:43
Alignment explanation
Indices: 1635453--1635534 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
1635443 ACAAAATGTT
* * *
1635453 GCTATATGTCGCGACCTTTTGCGGTGTTTGTTCCTAAAATGCC
1 GCTATATGTCGCGACCTTTTGCAGAGTTTATTCCTAAAATGCC
**
1635496 GCTATATGTCTTGACCTTTTGCAGAGTTTATTCCTAAAA
1 GCTATATGTCGCGACCTTTTGCAGAGTTTATTCCTAAAA
1635535 CACTGTTGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.39
Consensus pattern (43 bp):
GCTATATGTCGCGACCTTTTGCAGAGTTTATTCCTAAAATGCC
Found at i:1641306 original size:24 final size:24
Alignment explanation
Indices: 1641262--1641307 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1641252 TTGATGAATA
*
1641262 ATATTATATTTATAGATAAATTTT
1 ATATTATATTTATAAATAAATTTT
*
1641286 ATATTATGTTT-TAAATGAAATT
1 ATATTATATTTATAAAT-AAATT
1641308 AATTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (24 bp):
ATATTATATTTATAAATAAATTTT
Found at i:1644735 original size:2 final size:2
Alignment explanation
Indices: 1644728--1644775 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1644718 TAACTTTCCG
1644728 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
1644770 AT AT AT
1 AT AT AT
1644776 GTATGTATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1645961 original size:60 final size:59
Alignment explanation
Indices: 1645839--1645965 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 59
1645829 AACATAATGA
* * **
1645839 ATAGTCGGTGACTATTTTATAACTTTTAATAATTGAATGACTTAAAAAAGCAACATTTT
1 ATAGTCGATGACTATTTTATAACTTTTAATAATCGAATGACTTAAAAAAGCAACATCCT
* *
1645898 ATAGTCAGATGACTATTTTATAACTTTTAATAGTCG-ATAGACTTAATAAAA-CAATATCCT
1 ATAGTC-GATGACTATTTTATAACTTTTAATAATCGAAT-GACTTAA-AAAAGCAACATCCT
1645958 ATAGTCGA
1 ATAGTCGA
1645966 CTGTACAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
59 10 0.17
60 45 0.76
61 4 0.07
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (59 bp):
ATAGTCGATGACTATTTTATAACTTTTAATAATCGAATGACTTAAAAAAGCAACATCCT
Found at i:1646007 original size:2 final size:2
Alignment explanation
Indices: 1645996--1646379 Score: 153
Period size: 2 Copynumber: 205.5 Consensus size: 2
1645986 GATACCTTTT
1645996 TA TA -A 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
*
1646037 TA T- TA TA T- TG TA TA -A TA TA -A TA T- TA TA T- TA TA TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * * *
1646074 TA TG T- TA TA TA TA TA TA TA TA TA TT TG T- TA T- TT TA TG TGG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
* * *
1646114 TA TA TA -A TA TA CA T- TA TA TA TT TA TA T- TA TA TA GCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * **
1646154 T- TA TA T- TA TA TCA TA TA TA -A TA GCA TA TT TT TA T- TA CG T-
1 TA TA TA TA TA TA T-A TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
1646193 TA GA TA T- TA TA TA GTA CA TA TA TA TT TA TA TA -A TA CA TA GTA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
1646235 T- TA TA TA GTA TA TA TA T- TA TA TA TT TA T- TA TA CT- TA TA T-
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
1646274 TA TA TA T- TA TA TT TA TA TA -A TA GTA T- TA TT TA TG TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* *
1646313 CA TA TA T- TA TA -A TA T- TA TA T- TA TA -A TA T- TA TC T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1646348 TA CGA TA TA T- TA TA TA GTA TA TA T- TA T- TA TA T
1 TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA T
1646380 TGTATTATTA
Statistics
Matches: 291, Mismatches: 40, Indels: 102
0.67 0.09 0.24
Matches are distributed among these distances:
1 39 0.13
2 232 0.80
3 20 0.07
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1646045 original size:5 final size:5
Alignment explanation
Indices: 1645995--1646404 Score: 88
Period size: 5 Copynumber: 78.8 Consensus size: 5
1645985 CGATACCTTT
*
1645995 TTATA ATATA -TATA TATATA TATATA TATATA TATATA TATATA TTATA
1 TTATA TTATA TTATA T-TATA T-TATA T-TATA T-TATA T-TATA TTATA
* * * *
1646044 TTGTA TAATA TAATA TTATA TTATA -TAGTA -TATG TTATA -TATA -TATA
1 TTATA TTATA TTATA TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA
* * * * *
1646091 TATATA TT-TG TTATT TTATG TGGTATA TAATA -TACA TTATA -TAT-
1 T-TATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
* * **
1646135 TTATA TTATA -TAGCA -TATA TTATA TTATA TCATATA TAATA GCATA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA T--TATA TTATA TTATA
* ** * * *
1646181 TTTTTA TTACG TTAGATA TTATA TAGTACA TATATA TTTATA TAATA CATAGTA
1 -TTATA TTATA TT--ATA TTATA T--TATA T-TATA -TTATA TTATA -TTA-TA
*
1646235 TTATA -TAGTA TATATA TTATA TATTTA TTATA CTTATA TTATATA TTATA
1 TTATA TTA-TA T-TATA TTATA T-TATA TTATA -TTATA -T-TATA TTATA
* * *
1646285 TTTATA TAATA GTATTA TT-TA TGTATAA CATATA TTATA --ATA TTATA
1 -TTATA TTATA TTA-TA TTATA T-TAT-A -TTATA TTATA TTATA TTATA
* *
1646332 TTATA --ATA TTATC TTATA CGATATA TTATA -TAGTA TATATTA TTATA
1 TTATA TTATA TTATA TTATA --TTATA TTATA TTA-TA T-TA-TA TTATA
* *
1646379 TTGTA -T-TA TTATA TTAT- TAATA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTAT
1646405 TCTTGGTTTT
Statistics
Matches: 305, Mismatches: 52, Indels: 96
0.67 0.11 0.21
Matches are distributed among these distances:
3 8 0.03
4 41 0.13
5 146 0.48
6 72 0.24
7 38 0.12
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (5 bp):
TTATA
Found at i:1646280 original size:76 final size:76
Alignment explanation
Indices: 1646001--1646280 Score: 208
Period size: 74 Copynumber: 3.6 Consensus size: 76
1645991 CTTTTTATAA
* *
1646001 TATATATATATATATATATATATATATATATA-TATATATTATATTGTA-TA-ATATA-ATATTA
1 TATATATATATATATATATATATTTAT-TATACT-TATATTATA-TATAGTACATATATAT-TTA
*
1646062 TAT--TATATAGTA-
62 TATAATACATAGTAT
* * * *
1646074 TATGTTATATATATATATATATATTTGTTAT-TTTATGTGGTATATAATA-TACATTATATATTT
1 TAT-ATATATATATATATATATATTTATTATACTTATAT--TATAT-ATAGTACA-TATATATTT
1646137 ATATTATATAGCATA-TAT
61 ATA-TA-ATA-CATAGTAT
* *
1646155 TATATTATATCATATATAATAGCATATTT-TTATTACGTTAGA-TATTATATAGTACATATATAT
1 TATA-TATAT-ATATAT-ATA-TATATTTATTA-TAC-TTATATTA-TATATAGTACATATATAT
1646218 TTATATAATACATAGTAT
59 TTATATAATACATAGTAT
1646236 TATATAGTATATATAT-TATATATTTATTATACTTATATTATATAT
1 TATATA-TATATATATATATATATTTATTATACTTATATTATATAT
1646281 TATATTTATA
Statistics
Matches: 167, Mismatches: 13, Indels: 51
0.72 0.06 0.22
Matches are distributed among these distances:
72 4 0.02
73 8 0.05
74 29 0.17
75 1 0.01
76 18 0.11
77 14 0.08
78 5 0.03
80 16 0.10
81 24 0.14
82 8 0.05
83 23 0.14
84 14 0.08
86 3 0.02
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (76 bp):
TATATATATATATATATATATATTTATTATACTTATATTATATATAGTACATATATATTTATATA
ATACATAGTAT
Found at i:1646291 original size:76 final size:77
Alignment explanation
Indices: 1645995--1646292 Score: 206
Period size: 80 Copynumber: 3.8 Consensus size: 77
1645985 CGATACCTTT
* * *
1645995 TTATA-ATATATATATATATATATATA-TATA-TATATATATATATATTATATTGTATAATATAA
1 TTATATATATATATATATATATATTTATTATACT-TATATGTATATATTATATT-TAT-ATAT-T
* *
1646057 TATTATATTATATAGTA
62 TA-TATAATACATAGTA
* * * * * *
1646074 -TATGTTATATATATATATATATATTTGTTAT-TTTATGTGGTATATAATATACATTATATATTT
1 TTAT-ATATATATATATATATATATTTATTATACTTATAT-GTATATATTATA-TTTATATATTT
1646137 ATATTATATAGCATA-TA
63 ATA-TA-ATA-CATAGTA
* * *
1646154 TTATATTATATCATATATAATAGCATATTT-TTATTACGTTAGATAT-TATATAGTACA--TATA
1 TTATA-TATAT-ATATAT-ATA-TATATTTATTA-TAC-TT--ATATGTATATATTATATTTATA
1646215 TATTTATATAATACATAGTA
58 TATTTATATAATACATAGTA
1646235 TTATATAGTATATATAT-TATATATTTATTATACTTATAT-TATATATTATATTTATATA
1 TTATATA-TATATATATATATATATTTATTATACTTATATGTATATATTATATTTATATA
1646293 ATAGTATTAT
Statistics
Matches: 176, Mismatches: 19, Indels: 51
0.72 0.08 0.21
Matches are distributed among these distances:
74 13 0.07
76 8 0.05
77 9 0.05
78 10 0.06
79 4 0.02
80 43 0.24
81 41 0.23
82 9 0.05
83 18 0.10
84 7 0.04
86 11 0.06
88 3 0.02
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (77 bp):
TTATATATATATATATATATATATTTATTATACTTATATGTATATATTATATTTATATATTTATA
TAATACATAGTA
Found at i:1646318 original size:68 final size:65
Alignment explanation
Indices: 1646211--1646404 Score: 160
Period size: 75 Copynumber: 2.8 Consensus size: 65
1646201 ATATAGTACA
1646211 TATATATTTATATAATACATAGTATTATATAGTATATATATTAT-ATATT-TATTATACTTATAT
1 TATATATTTATATAATACATAGTATTATATAGTATATATATTATAATATTATATTATACTTATAT
* *
1646274 TATATATTATATTTATATA-ATAGTATTATTTATGTATAACATATATTATAATATTATATTATAA
1 TATATATT-TATATA-ATACATAGTATTATATA-GTAT---ATATATTATAATATTATATTAT-A
* *
1646338 TATTATCT
59 -CTTATAT
* * * *
1646346 TATACGATATATTATATAGTATATATTATTATATTGTATTATTATATTATTAATATTAT
1 TAT---ATAT-TTATATAATACATAGTATTATATAGTA-TA-TATATTA-TAATATTAT
1646405 TCTTGGTTTT
Statistics
Matches: 104, Mismatches: 9, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
63 8 0.08
64 17 0.16
65 7 0.07
68 9 0.09
69 5 0.05
70 6 0.06
71 1 0.01
72 9 0.09
73 7 0.07
74 14 0.13
75 20 0.19
76 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (65 bp):
TATATATTTATATAATACATAGTATTATATAGTATATATATTATAATATTATATTATACTTATAT
Found at i:1656152 original size:32 final size:32
Alignment explanation
Indices: 1656063--1656161 Score: 108
Period size: 32 Copynumber: 3.1 Consensus size: 32
1656053 TAAGGTGACC
* * *
1656063 TTGGGTAGGCTCTAAGGCCCCAAGGCATTTCA
1 TTGGGTAGGCTCTAAGGCCTCAAGGTACTTCA
* * * *
1656095 TTGGGTAAGATCTAAGTCCTCAAGGTACTTCT
1 TTGGGTAGGCTCTAAGGCCTCAAGGTACTTCA
* * *
1656127 TTGGGTAGGCTCTTAGGCCTTAAGGTACTACA
1 TTGGGTAGGCTCTAAGGCCTCAAGGTACTTCA
1656159 TTG
1 TTG
1656162 AGTAAGCTAT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (32 bp):
TTGGGTAGGCTCTAAGGCCTCAAGGTACTTCA
Found at i:1657861 original size:13 final size:13
Alignment explanation
Indices: 1657845--1657875 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1657835 AATAAAAATT
1657845 ATAAATTTATTTA
1 ATAAATTTATTTA
1657858 ATAAATTTATTTA
1 ATAAATTTATTTA
1657871 ATAAA
1 ATAAA
1657876 ATTAATCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAAATTTATTTA
Found at i:1658170 original size:2 final size:2
Alignment explanation
Indices: 1658163--1658232 Score: 110
Period size: 2 Copynumber: 36.5 Consensus size: 2
1658153 TTGTTGAGTT
1658163 TA TA TA TA TA TA TA TA TA TA TA T- 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
*
1658204 TA T- TA TA TA T- TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1658233 CTATTGTAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
1 3 0.05
2 60 0.95
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1658190 original size:21 final size:21
Alignment explanation
Indices: 1658165--1658232 Score: 122
Period size: 21 Copynumber: 3.3 Consensus size: 21
1658155 GTTGAGTTTA
1658165 TATATATATATATATATATAT
1 TATATATATATATATATATAT
1658186 TATATATATATATATATATAT
1 TATATATATATATATATATAT
1658207 TATATAT-TATATATATATAT
1 TATATATATATATATATATAT
1658227 T-TATAT
1 TATATAT
1658233 CTATTGTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.11
20 14 0.30
21 28 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATATATATATATATATATAT
Found at i:1658262 original size:51 final size:51
Alignment explanation
Indices: 1658162--1658265 Score: 131
Period size: 51 Copynumber: 2.0 Consensus size: 51
1658152 GTTGTTGAGT
*
1658162 TTATATATATATATATATATATATTATATATATATATATATATATTATATA
1 TTATATATATATATATATATATATTATAAATATATATATATATATTATATA
* * * *
1658213 TTATATATATATATTTATATCTATTGTAAATTTATAGTAT-TATGA-TATATA
1 TTATATATATATATATATATATATTATAAATATATA-TATATAT-ATTATATA
1658264 TT
1 TT
1658266 TTTTCTTTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 42 0.91
52 4 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (51 bp):
TTATATATATATATATATATATATTATAAATATATATATATATATTATATA
Found at i:1659921 original size:27 final size:27
Alignment explanation
Indices: 1659857--1659924 Score: 73
Period size: 31 Copynumber: 2.4 Consensus size: 27
1659847 AATTTGATAT
* **
1659857 AATTAAAAAAATATTTATTAATTTTTA
1 AATTAATAAAATATTTATTAATAATTA
1659884 AATGTTATAATAAAATATTTATTAATAATTA
1 AA---T-TAATAAAATATTTATTAATAATTA
1659915 AATTAATAAA
1 AATTAATAAA
1659925 TAGACCTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
27 9 0.26
28 1 0.03
30 1 0.03
31 23 0.68
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (27 bp):
AATTAATAAAATATTTATTAATAATTA
Found at i:1662707 original size:15 final size:15
Alignment explanation
Indices: 1662687--1662715 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1662677 TGCTACCGAT
1662687 ATTTGACCTGGACTG
1 ATTTGACCTGGACTG
1662702 ATTTGACCTGGACT
1 ATTTGACCTGGACT
1662716 TGACCTGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (15 bp):
ATTTGACCTGGACTG
Found at i:1666198 original size:34 final size:35
Alignment explanation
Indices: 1666159--1666250 Score: 89
Period size: 34 Copynumber: 2.6 Consensus size: 35
1666149 TAAATTCAAA
* * *
1666159 GATTTATTTCCTTTTACAAATAGGAAAATATA-CC
1 GATTTATTTCCTTTTACAAACAGGAAAACAAACCC
*
1666193 GATTTATTTGCTTTCATA-AAACAGGAAAACAAACCC
1 GATTTATTTCCTTT--TACAAACAGGAAAACAAACCC
*
1666229 AATGATTATTTCCTTTTACAAA
1 GAT--TTATTTCCTTTTACAAA
1666251 ATGTGAAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
34 13 0.28
35 12 0.26
36 8 0.17
37 3 0.07
38 10 0.22
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (35 bp):
GATTTATTTCCTTTTACAAACAGGAAAACAAACCC
Found at i:1666393 original size:38 final size:39
Alignment explanation
Indices: 1666312--1666398 Score: 104
Period size: 38 Copynumber: 2.2 Consensus size: 39
1666302 GATTCTTACA
* * * * * *
1666312 AAAATAAATTTTAACAATTTATTTTCTTTTGCAAGATATG
1 AAAATAAA-TTCAACAACTTATTTCCTTTTACAAAATAGG
1666352 AAAATAAATTCAACAACTTA-TTCCTTTTACAAAATAGG
1 AAAATAAATTCAACAACTTATTTCCTTTTACAAAATAGG
1666390 AAAATAAAT
1 AAAATAAAT
1666399 ACTATGATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 23 0.56
39 10 0.24
40 8 0.20
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (39 bp):
AAAATAAATTCAACAACTTATTTCCTTTTACAAAATAGG
Found at i:1666754 original size:55 final size:56
Alignment explanation
Indices: 1666614--1666800 Score: 229
Period size: 55 Copynumber: 3.3 Consensus size: 56
1666604 AAATCATCCC
* * * *
1666614 GATTCTCAAGAAATAAATTCGATAATTTATTTTCTTACAAAGTTAGAATCATTCAA
1 GATTCTTAAGAAATAAATTCAACAATCTATTTTCTTACAAAGTTAGAATCATTCAA
*
1666670 GATT-TTCAAGGAAATAAATTCAACAATCTATTTTACTTACAAAGTTAGAATCA-TCTA
1 GATTCTT-AA-GAAATAAATTCAACAATCTATTTT-CTTACAAAGTTAGAATCATTCAA
* *
1666727 -ATTCTTAAGAAATAAATTTAACAATCTATTTTCCTTACAAAGTTAGAATCAGTGCAA
1 GATTCTTAAGAAATAAATTCAACAATCTATTTT-CTTACAAAGTTAGAATCA-TTCAA
*
1666784 GATTC-TAAAAAATAAAT
1 GATTCTTAAGAAATAAAT
1666801 CCAGTGATTT
Statistics
Matches: 114, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
55 42 0.37
56 11 0.10
57 39 0.34
58 22 0.19
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (56 bp):
GATTCTTAAGAAATAAATTCAACAATCTATTTTCTTACAAAGTTAGAATCATTCAA
Done.