Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008439.1 Hibiscus syriacus cultivar Beakdansim tig00111238_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: 2703160
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:1175440 original size:3 final size:3
Alignment explanation
Indices: 1175432--1175460 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1175422 GTTGAACATC
1175432 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1175461 CACGCGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1176319 original size:21 final size:21
Alignment explanation
Indices: 1176295--1176342 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
1176285 GAGAGAAAGT
1176295 AACAAAGAGGCTAGAAGGAGG
1 AACAAAGAGGCTAGAAGGAGG
*
1176316 AACAAAGAGGCTATAAGGAGG
1 AACAAAGAGGCTAGAAGGAGG
1176337 AACAAA
1 AACAAA
1176343 TCGGGTTGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.52, C:0.10, G:0.31, T:0.06
Consensus pattern (21 bp):
AACAAAGAGGCTAGAAGGAGG
Found at i:1178301 original size:21 final size:20
Alignment explanation
Indices: 1178215--1178372 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
1178205 AAATGACCAA
**
1178215 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1178234 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1178254 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1178274 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1178295 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1178316 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1178336 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1178357 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1178373 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1178401 original size:20 final size:20
Alignment explanation
Indices: 1178339--1178532 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
1178329 CGATTTTCCA
* ** *
1178339 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1178359 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1178379 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1178399 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1178419 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1178439 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1178459 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
1178479 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
1178499 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
1178520 AAATCGCAACGCG
1 AAATCGCAACGCG
1178533 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1178423 original size:60 final size:60
Alignment explanation
Indices: 1178339--1178532 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
1178329 CGATTTTCCA
* ** * *
1178339 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
1178399 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
1178459 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
1178520 AAATCGCAACGCG
1 AAATCGCAACGCG
1178533 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:1178953 original size:32 final size:32
Alignment explanation
Indices: 1178915--1178983 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
1178905 ATTTCACTTA
*
1178915 GATTTCATTTCGCGTTACGATTCTGTCGTTGC
1 GATTTCATTTCGCGTTACGATTCTCTCGTTGC
* *
1178947 GATTTCATTTCGCGTTGCTATTCTCTCGTTGC
1 GATTTCATTTCGCGTTACGATTCTCTCGTTGC
1178979 GATTT
1 GATTT
1178984 TCAAGTTAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (32 bp):
GATTTCATTTCGCGTTACGATTCTCTCGTTGC
Found at i:1178964 original size:18 final size:18
Alignment explanation
Indices: 1178915--1178964 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
1178905 ATTTCACTTA
*
1178915 GATTTCATTTCGCGTTAC
1 GATTTCATTTCGCGTTGC
*
1178933 GA-TTC-TGT--CGTTGC
1 GATTTCATTTCGCGTTGC
1178947 GATTTCATTTCGCGTTGC
1 GATTTCATTTCGCGTTGC
1178965 TATTCTCTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 3 0.12
16 4 0.16
17 3 0.12
18 8 0.32
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (18 bp):
GATTTCATTTCGCGTTGC
Found at i:1179110 original size:20 final size:20
Alignment explanation
Indices: 1179066--1179175 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
1179056 TGCAGAAGAG
*
1179066 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
1179087 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
1179107 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
1179128 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
1179142 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
1179161 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
1179176 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:1179123 original size:41 final size:38
Alignment explanation
Indices: 1179059--1179175 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
1179049 TTTAATTTGC
* *
1179059 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1179097 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
1179138 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1179171 AGAAT
1 AGAAT
1179176 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:1179145 original size:14 final size:14
Alignment explanation
Indices: 1179126--1179182 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1179116 GAGAAATGAA
1179126 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1179140 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1179159 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1179173 AATCGCAACG
1 AATCGCAACG
1179183 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1179158 original size:33 final size:33
Alignment explanation
Indices: 1179118--1179187 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
1179108 CGCAACGAGA
1179118 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1179151 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1179184 GAAA
1 GAAA
1179188 CCAAAATCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.47, C:0.20, G:0.24, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1179194 original size:33 final size:33
Alignment explanation
Indices: 1179124--1179195 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
1179114 GAGAGAAATG
**
1179124 AAAATCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1179157 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1179190 AAAATC
1 AAAATC
1179196 ACATTGCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.47, C:0.24, G:0.21, T:0.08
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:1179235 original size:14 final size:14
Alignment explanation
Indices: 1179216--1179272 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1179206 TTTCATTTCG
1179216 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1179230 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1179249 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1179263 CGTTGCGATT
1 CGTTGCGATT
1179273 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1179246 original size:33 final size:33
Alignment explanation
Indices: 1179199--1179280 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
1179189 CAAAATCACA
*
1179199 TTGCAATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1179232 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1179265 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1179281 TCTCGTAGCG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1179283 original size:21 final size:21
Alignment explanation
Indices: 1179257--1179321 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
1179247 CGCGTTGCGA
1179257 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
* ***
1179278 TTCTCTCGTAGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
1179298 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
1179319 TTC
1 TTC
1179322 AACCAAAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.12, C:0.26, G:0.15, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1181177 original size:93 final size:93
Alignment explanation
Indices: 1181018--1181486 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
1181008 TAGATTGCTT
*
1181018 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1181083 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1181111 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1181176 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1181204 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1181269 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1181297 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1181362 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1181390 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
1181455 TTTGCCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1181482 AGTAA
1 AGTAA
1181487 TGCAATCCAT
Statistics
Matches: 374, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 368 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1181574 original size:19 final size:19
Alignment explanation
Indices: 1181534--1181662 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
1181524 TAGTTTACTT
* *
1181534 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1181554 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
* **
1181573 TCGCAACGCAAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1181592 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1181606 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
1181625 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
1181639 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1181658 TCGCA
1 TCGCA
1181663 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 19 0.22
15 2 0.02
16 4 0.05
17 3 0.03
18 2 0.02
19 45 0.51
20 13 0.15
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1181608 original size:33 final size:32
Alignment explanation
Indices: 1181570--1181662 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
1181560 CGCGAAACCA
* **
1181570 AAATCGCAACGCAAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1181602 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1181635 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1181663 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1181660 original size:52 final size:52
Alignment explanation
Indices: 1181534--1181662 Score: 147
Period size: 52 Copynumber: 2.5 Consensus size: 52
1181524 TAGTTTACTT
**
1181534 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
* * * *
1181586 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGACAAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CAAAA
*
1181639 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
1181663 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 40 0.65
53 5 0.08
54 6 0.10
55 2 0.03
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
Found at i:1181680 original size:19 final size:19
Alignment explanation
Indices: 1181658--1181830 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
1181648 GAAACCAAAA
*
1181658 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1181677 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1181693 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1181710 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1181726 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1181743 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
1181762 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
1181781 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATT
* *
1181800 TTGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1181820 TCGTGTTGCGA
1 TCGCGTTGCGA
1181831 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 15 0.12
16 11 0.09
17 11 0.09
19 78 0.62
20 11 0.09
ACGTcount: A:0.11, C:0.18, G:0.24, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1181699 original size:14 final size:14
Alignment explanation
Indices: 1181680--1181736 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1181670 TTTCATTTCG
1181680 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1181694 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1181711 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1181727 CGTTGCGATT
1 CGTTGCGATT
1181737 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1181705 original size:33 final size:33
Alignment explanation
Indices: 1181663--1181755 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1181653 CAAAATCGCA
*
1181663 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1181696 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1181729 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1181756 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1181788 original size:38 final size:38
Alignment explanation
Indices: 1181658--1181830 Score: 159
Period size: 33 Copynumber: 4.8 Consensus size: 38
1181648 GAAACCAAAA
*
1181658 TCGCATTGCGATTTTCATTTCGCGTTGCGA-T-TC-TT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
1181693 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* **
1181726 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
** *
1181762 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* * *
1181800 TTGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
1181831 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
33 56 0.49
34 1 0.01
35 2 0.02
36 2 0.02
38 43 0.37
39 11 0.10
ACGTcount: A:0.11, C:0.18, G:0.24, T:0.47
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
Found at i:1183774 original size:14 final size:14
Alignment explanation
Indices: 1183755--1183790 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1183745 ATTGTTTAAT
1183755 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1183769 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1183783 TGATTTGT
1 TGATTTGT
1183791 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1183913 original size:19 final size:19
Alignment explanation
Indices: 1183897--1183994 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
1183887 AAAAATGACT
1183897 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1183916 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1183935 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1183949 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1183968 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1183988 ATCGCAA
1 ATCGCAA
1183995 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1184026 original size:53 final size:53
Alignment explanation
Indices: 1183897--1184013 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
1183887 AAAAATGACT
1183897 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1183949 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1184002 ATCGCAATGCGA
1 ATCGCAATGCGA
1184014 TTTTAATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:1184031 original size:19 final size:19
Alignment explanation
Indices: 1184003--1184205 Score: 203
Period size: 19 Copynumber: 11.7 Consensus size: 19
1183993 AACGAGAGAA
* *
1184003 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
1184022 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1184038 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1184055 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1184074 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1184090 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1184107 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1184126 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1184142 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1184159 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
1184177 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
1184193 TCGCATTGCGATT
1 TCGCATTGCGATT
1184206 CTCTCGTTGC
Statistics
Matches: 153, Mismatches: 10, Indels: 42
0.75 0.05 0.20
Matches are distributed among these distances:
14 29 0.19
16 23 0.15
17 19 0.12
18 3 0.02
19 67 0.44
20 12 0.08
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1184066 original size:52 final size:52
Alignment explanation
Indices: 1184003--1184177 Score: 323
Period size: 52 Copynumber: 3.3 Consensus size: 52
1183993 AACGAGAGAA
* *
1184003 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1184055 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1184107 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1184159 TCCGCATTGCGATTTTCAT
1 T-CGCATTGCGATTTTCAT
1184178 GTTGGGATTT
Statistics
Matches: 120, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
52 103 0.86
53 17 0.14
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:1184227 original size:33 final size:33
Alignment explanation
Indices: 1184009--1184215 Score: 215
Period size: 33 Copynumber: 6.1 Consensus size: 33
1183999 AGAATCGCAA
*
1184009 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
1184042 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
1184080 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
1184113 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
1184146 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
1184180 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1184213 TGC
1 TGC
1184216 TATTGTAATT
Statistics
Matches: 143, Mismatches: 17, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
31 9 0.06
32 6 0.04
33 67 0.47
34 29 0.20
35 6 0.04
36 4 0.03
37 2 0.01
38 8 0.06
39 3 0.02
40 9 0.06
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:1186520 original size:12 final size:12
Alignment explanation
Indices: 1186503--1186527 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1186493 TCTTCGGGGA
1186503 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1186515 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1186527 C
1 C
1186528 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1186736 original size:24 final size:24
Alignment explanation
Indices: 1186702--1186748 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1186692 CTGAAACATC
1186702 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1186726 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1186749 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1187459 original size:20 final size:20
Alignment explanation
Indices: 1187431--1187660 Score: 228
Period size: 20 Copynumber: 11.5 Consensus size: 20
1187421 AAATTTCAGT
* * *
1187431 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1187451 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1187471 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1187491 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
1187511 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
1187531 GTTGCGATATACAGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
1187551 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
1187571 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
1187591 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1187611 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1187631 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1187651 GTTGCGATTT
1 GTTGCGATTT
1187661 TGGAAAATCG
Statistics
Matches: 181, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 180 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1187677 original size:21 final size:21
Alignment explanation
Indices: 1187647--1187729 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
1187637 ATTTTCATAT
*
1187647 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1187668 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1187689 TCGCATTGCGATTTT-TAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1187710 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1187730 CTGATTTGCG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1187720 original size:42 final size:43
Alignment explanation
Indices: 1187627--1187725 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1187617 ATTTATGTGT
*
1187627 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGGAAAA
** *
1187668 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-TAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGGAA-AA
*
1187710 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1187726 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGGAAAA
Found at i:1192937 original size:27 final size:27
Alignment explanation
Indices: 1192901--1192963 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
1192891 GAAAATATAT
1192901 AAATT-AACTATAATAATATTATAGTA
1 AAATTCAACTATAATAATATTATAGTA
1192927 AAATTCAACTATAATAATATTATAGTA
1 AAATTCAACTATAATAATATTATAGTA
1192954 AAATTCAACT
1 AAATTCAACT
1192964 TGTTAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (27 bp):
AAATTCAACTATAATAATATTATAGTA
Found at i:1209488 original size:196 final size:196
Alignment explanation
Indices: 1209150--1209695 Score: 821
Period size: 195 Copynumber: 2.8 Consensus size: 196
1209140 CTAACCTTAG
* * * *
1209150 AACTTTTGGCACCGCCTGATGTCGTACTCTTCCAGACAGGAGCAGAC-AGTTCCTTTTCTGATGA
1 AACTTTTGGCACCACCTGATGTTGTACTCTTCCAGACAGGAGCAGACTTGTTCCTTTTCTAATGA
** *
1209214 CTTCAAAGTTCCACCAACTGAAGAGCCTTTGGCCTCTGAAAATGGTTTTGAAGGTGGTTGAGGCG
66 CTTCAAAGTTCCACCAACTGAAGAGCCTTTGGCCTCTGAAAATGGCCTTGAAGGTGGTTGAGGTG
** * * *
1209279 CCAACTGAGAATGTTGGGAACTTTCCTGGTGATCTAAGTCCTCAGAAACTGAAGTTTTAGCCT-T
131 CCAACCAAGAATGTTGGGAACTTTCCTGGTGATATAAGTCCTCAGAAACTGAAATTCTAGCCTCT
1209343 CA
196 -A
* *
1209345 AACTTTTGGCACCACTTGATGTTGTACTCTTCCAGACAGAAGCAGACTTGTTCCTTTTCTAATGA
1 AACTTTTGGCACCACCTGATGTTGTACTCTTCCAGACAGGAGCAGACTTGTTCCTTTTCTAATGA
* *
1209410 CTTCAAAGTTCCACCGACTGAAGAGCCTTTGGCCTCTGGAAATGGCCTTGAAGGTGGTTGAGGTG
66 CTTCAAAGTTCCACCAACTGAAGAGCCTTTGGCCTCTGAAAATGGCCTTGAAGGTGGTTGAGGTG
*
1209475 CCAACCAAGAATGTTGGGAAC-TTCCTGGTGATATAAGTCCTCAGAAATTGAAATTCTAGCCTCT
131 CCAACCAAGAATGTTGGGAACTTTCCTGGTGATATAAGTCCTCAGAAACTGAAATTCTAGCCTCT
*
1209539 G
196 A
*
1209540 AACTTTTGGCACCACCTGATGTTGTACTCTTCCAGACAGGAGCAGACTGTTGTCCCTTTTCTAAT
1 AACTTTTGGCACCACCTGATGTTGTACTCTTCCAGACAGGAGCAGAC--TTGTTCCTTTTCTAAT
* * *
1209605 GACTTCAAAGTTCCACCAACTGAAGAGCCTTTGGCATCTGAAAATGGCCTAGAAGGTGGTTGGGG
64 GACTTCAAAGTTCCACCAACTGAAGAGCCTTTGGCCTCTGAAAATGGCCTTGAAGGTGGTTGAGG
*
1209670 TGCCAA-CACCGAATGTTGGGAACTTT
129 TGCCAACCA-AGAATGTTGGGAACTTT
1209696 TGGCACCACC
Statistics
Matches: 318, Mismatches: 27, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
195 125 0.39
196 97 0.31
197 94 0.30
198 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (196 bp):
AACTTTTGGCACCACCTGATGTTGTACTCTTCCAGACAGGAGCAGACTTGTTCCTTTTCTAATGA
CTTCAAAGTTCCACCAACTGAAGAGCCTTTGGCCTCTGAAAATGGCCTTGAAGGTGGTTGAGGTG
CCAACCAAGAATGTTGGGAACTTTCCTGGTGATATAAGTCCTCAGAAACTGAAATTCTAGCCTCT
A
Found at i:1215025 original size:21 final size:21
Alignment explanation
Indices: 1214996--1215042 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
1214986 AATTTTCAAG
*
1214996 CATTATTGCACCTAATTTTGA
1 CATTGTTGCACCTAATTTTGA
1215017 CATTGTTGCACCTAATTTTGA
1 CATTGTTGCACCTAATTTTGA
1215038 CATTG
1 CATTG
1215043 CAATATTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (21 bp):
CATTGTTGCACCTAATTTTGA
Found at i:1216299 original size:31 final size:31
Alignment explanation
Indices: 1216261--1216416 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
1216251 CCCGAAGGAC
* * *
1216261 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
1216292 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* * *
1216323 CAGTCCGTATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1216354 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1216385 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1216416 C
1 C
1216417 CCTCGACCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1216620 original size:23 final size:24
Alignment explanation
Indices: 1216594--1216640 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
1216584 ATATACTTGT
*
1216594 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
1216617 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
1216641 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:1217268 original size:21 final size:21
Alignment explanation
Indices: 1217244--1217288 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1217234 TCTTGTTCGT
* *
1217244 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1217265 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1217286 TTG
1 TTG
1217289 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1222075 original size:21 final size:21
Alignment explanation
Indices: 1222045--1222092 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1222035 TAATTTTCAA
*
1222045 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
*
1222066 ACATTGTTGCATCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
1222087 ACATTG
1 ACATTG
1222093 CAATATTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:1231091 original size:176 final size:177
Alignment explanation
Indices: 1230769--1231125 Score: 457
Period size: 176 Copynumber: 2.0 Consensus size: 177
1230759 AAGAGGCGAA
*
1230769 AATAAATTATCAATATAAAATATAAATAAAATATTTAAAATATACGAGAATTTAAAATTTTCAGG
1 AATAAATTATCAATATAAAATATAAATAAAATATTTAAAATATACAAGAATTTAAAATTTTCAGG
* * *
1230834 ATGATGATTGCCCTACCTCTTCAATCCATCCCTGTCTACCATCAAATGATCTAGTAGGATGATAC
66 AGGACGATTGCCCTACCTCTTCAATCCATCCCTGTCTACCATCAAATGATCTAATAGGATGATAC
* * ** * *
1230899 TTCATATCCTTTTAAGTAATTTTAGATGTTTGTAATGTCTATCCCAT
131 CTCATATCCATTTAAGTAAGGTTAGATGTTCGCAATGTCTATCCCAT
* * * *
1230946 AATAAATTATCAAT-TAAAATATAAATGAAGTATTTAAGATATACAAGAATTTAAAATTTTCATG
1 AATAAATTATCAATATAAAATATAAATAAAATATTTAAAATATACAAGAATTTAAAATTTTCAGG
* * ** * ** * *
1231010 AGGACGATTGCTCTCATCTCTTCGGTCTATCTTTGTCTATCATCACATGATCTAATAGGATGATA
66 AGGACGATTGCCCT-ACCTCTTCAATCCATCCCTGTCTACCATCAAATGATCTAATAGGATGATA
* * *
1231075 CCTCATAT-CATTTAAGTAGGGTTAGATGTTCGCGATGTCTATCTCAT
130 CCTCATATCCATTTAAGTAAGGTTAGATGTTCGCAATGTCTATCCCAT
1231122 AATA
1 AATA
1231126 GACATCTACA
Statistics
Matches: 153, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
176 91 0.59
177 62 0.41
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (177 bp):
AATAAATTATCAATATAAAATATAAATAAAATATTTAAAATATACAAGAATTTAAAATTTTCAGG
AGGACGATTGCCCTACCTCTTCAATCCATCCCTGTCTACCATCAAATGATCTAATAGGATGATAC
CTCATATCCATTTAAGTAAGGTTAGATGTTCGCAATGTCTATCCCAT
Found at i:1231984 original size:13 final size:13
Alignment explanation
Indices: 1231955--1231992 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
1231945 GTTAATAATT
1231955 ATAATTATTATAAA
1 ATAATTATTA-AAA
*
1231969 ATAAATATTAAAA
1 ATAATTATTAAAA
1231982 ATAATTATTAA
1 ATAATTATTAA
1231993 TTGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAATTATTAAAA
Found at i:1234949 original size:3 final size:3
Alignment explanation
Indices: 1234941--1234974 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
1234931 TTCTCTCTTA
1234941 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1234975 ATCCCTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1250399 original size:117 final size:122
Alignment explanation
Indices: 1250198--1250443 Score: 421
Period size: 118 Copynumber: 2.0 Consensus size: 122
1250188 AATGAAGAAA
1250198 AAAAATCAAAGATATTATAAAAAATAAAAGGAAACAAGAAAATCAACGCGACAACCAATATAAAA
1 AAAAATCAAAGATATTAT--AAAATAAAA-GAAACAAGAAAATCAACGCGACAACCAATATAAAA
*
1250263 ATTAATGTCGTCGTCTATCAATTAAAGATGAAG-ACAAAAAAACCAACGACGTTTAAGCT
63 ATTAATGTCGTCGTCTATCAATTAAAGATGAAGAAAAAAAAAACCAACGACGTTTAAGCT
1250322 AAAAATCAAAGATATTAT-AAA-AAAA-AAACAAGAAAATCAACGCGACAACCAATAT-AAAATT
1 AAAAATCAAAGATATTATAAAATAAAAGAAACAAGAAAATCAACGCGACAACCAATATAAAAATT
1250383 AATGTCGTCGTCTATCAATTAAAGATGAAGAAAAAAAAAACCAACGACGTTTAAGCT
66 AATGTCGTCGTCTATCAATTAAAGATGAAGAAAAAAAAAACCAACGACGTTTAAGCT
1250440 AAAA
1 AAAA
1250444 GAAATAAGAC
Statistics
Matches: 120, Mismatches: 1, Indels: 8
0.93 0.01 0.06
Matches are distributed among these distances:
117 36 0.30
118 59 0.49
120 4 0.03
121 3 0.03
124 18 0.15
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.19
Consensus pattern (122 bp):
AAAAATCAAAGATATTATAAAATAAAAGAAACAAGAAAATCAACGCGACAACCAATATAAAAATT
AATGTCGTCGTCTATCAATTAAAGATGAAGAAAAAAAAAACCAACGACGTTTAAGCT
Found at i:1256701 original size:29 final size:27
Alignment explanation
Indices: 1256640--1256701 Score: 63
Period size: 29 Copynumber: 2.2 Consensus size: 27
1256630 AATCAGGGAG
1256640 AATTTAAAAAATTTATTTTCGGTGTCA
1 AATTTAAAAAATTTATTTTCGGTGTCA
** *
1256667 GGTTTAGAGAAAATTTATTTTTGG-GATCA
1 AATTTA-A-AAAATTTATTTTCGGTG-TCA
1256696 AATTTA
1 AATTTA
1256702 TAATTTGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
27 4 0.15
28 2 0.07
29 21 0.78
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (27 bp):
AATTTAAAAAATTTATTTTCGGTGTCA
Found at i:1262882 original size:60 final size:59
Alignment explanation
Indices: 1262762--1262903 Score: 153
Period size: 60 Copynumber: 2.4 Consensus size: 59
1262752 GTATTTAAAA
* * * * * **
1262762 TTTTGAATATTCTAATTTTATCATCAAACTATGATACTCGTTCTTAATTAGTCCTTAAAC
1 TTTTGAA-ATTCTAATTTCATCCTCAAACTATGACACTCATTCTAAATTAGTCCCCAAAC
*
1262822 TTTTGAACATTCTAATTTCATCCTCAAACTATGACCCTCATTCTAAATT-GATCCCCAAAC
1 TTTTGAA-ATTCTAATTTCATCCTCAAACTATGACACTCATTCTAAATTAG-TCCCCAAAC
*
1262882 TTTT-AAATTTCCAATTTCATCC
1 TTTTGAAA-TTCTAATTTCATCC
1262904 AAATATATAA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
58 1 0.01
59 16 0.23
60 53 0.76
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.42
Consensus pattern (59 bp):
TTTTGAAATTCTAATTTCATCCTCAAACTATGACACTCATTCTAAATTAGTCCCCAAAC
Found at i:1264853 original size:2 final size:2
Alignment explanation
Indices: 1264846--1264875 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1264836 TCAGGTAGAC
1264846 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1264876 ATTTTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1266926 original size:23 final size:23
Alignment explanation
Indices: 1266896--1266944 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1266886 TTAATAATTT
1266896 AAAAATA-TAAGAAATTAAAAACA
1 AAAAATATTAAG-AATTAAAAACA
* *
1266919 AAAAATATTAAGTATTAAAAATA
1 AAAAATATTAAGAATTAAAAACA
1266942 AAA
1 AAA
1266945 TTGAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAAATATTAAGAATTAAAAACA
Found at i:1273403 original size:15 final size:14
Alignment explanation
Indices: 1273367--1273405 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
1273357 CCTAACTTAA
*
1273367 AACCCTAAACTGAT
1 AACCCTAAACTCAT
1273381 AACCCTAAACTCAT
1 AACCCTAAACTCAT
1273395 AATCCCTAAAC
1 AA-CCCTAAAC
1273406 CCTAAACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.44, C:0.33, G:0.03, T:0.21
Consensus pattern (14 bp):
AACCCTAAACTCAT
Found at i:1275522 original size:31 final size:31
Alignment explanation
Indices: 1275487--1275551 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
1275477 TATTTTGAAG
1275487 TTGTCCCCTCAT-TTTTATAGTTAATTATAAT
1 TTGTCCCCT-ATCTTTTATAGTTAATTATAAT
* * *
1275518 TTGTCTCCTATCTTTTATGGTTAATTATACT
1 TTGTCCCCTATCTTTTATAGTTAATTATAAT
1275549 TTG
1 TTG
1275552 CTCTCTCTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.22, C:0.15, G:0.09, T:0.54
Consensus pattern (31 bp):
TTGTCCCCTATCTTTTATAGTTAATTATAAT
Found at i:1277888 original size:239 final size:239
Alignment explanation
Indices: 1277469--1277935 Score: 918
Period size: 239 Copynumber: 2.0 Consensus size: 239
1277459 AACCTACACT
1277469 ATTTGTCTTTATTACAGGAAGCAGGAGTTAAGGTTTGTTCATTTTGCAGTCAAAGGTTATGGTAA
1 ATTTGTCTTTATTACAGGAAGCAGGAGTTAAGGTTTGTTCATTTTGCAGTCAAAGGTTATGGTAA
1277534 CTTCGAGGTTTGTAGTAATGAAATAATCGTGACGTGGGCTTCTTTTCGTCTGTTTATGTATTGCA
66 CTTCGAGGTTTGTAGTAATGAAATAATCGTGACGTGGGCTTCTTTTCGTCTGTTTATGTATTGCA
1277599 GACGGCTGTTTTCATGGGCTGCAGGAGTGGCGAGATTGAACTAGGGTCTCCCAAGGTAAATGTAA
131 GACGGCTGTTTTCATGGGCTGCAGGAGTGGCGAGATTGAACTAGGGTCTCCCAAGGTAAATGTAA
1277664 GCC-ATAAACTAAGACCATCCAAATAATATATATATGTCGCTGAG
196 GCCAATAAACTAAGACCATCCAAAT-ATATATATATGTCGCTGAG
1277708 ATTTGTCTTTATTACAGGAAGCAGGAGTTAAGGTTTGTTCATTTTGCAGTCAAAGGTTATGGTAA
1 ATTTGTCTTTATTACAGGAAGCAGGAGTTAAGGTTTGTTCATTTTGCAGTCAAAGGTTATGGTAA
1277773 CTTCGAGGTTTGTAGTAATGAAATAATCGTGACGTGGGCTTCTTTTCGTCTGTTTATGTATTGCA
66 CTTCGAGGTTTGTAGTAATGAAATAATCGTGACGTGGGCTTCTTTTCGTCTGTTTATGTATTGCA
1277838 GACGGCTGTTTTCATGGGCTGCAGGAGTGGCGAGATTGAACTAGGGTCTCCCAAGGTAAATGTAA
131 GACGGCTGTTTTCATGGGCTGCAGGAGTGGCGAGATTGAACTAGGGTCTCCCAAGGTAAATGTAA
1277903 GCCAATAAACTAAGACCATCCAAATATATATAT
196 GCCAATAAACTAAGACCATCCAAATATATATAT
1277936 CGCTGAGGTA
Statistics
Matches: 227, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
239 206 0.91
240 21 0.09
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (239 bp):
ATTTGTCTTTATTACAGGAAGCAGGAGTTAAGGTTTGTTCATTTTGCAGTCAAAGGTTATGGTAA
CTTCGAGGTTTGTAGTAATGAAATAATCGTGACGTGGGCTTCTTTTCGTCTGTTTATGTATTGCA
GACGGCTGTTTTCATGGGCTGCAGGAGTGGCGAGATTGAACTAGGGTCTCCCAAGGTAAATGTAA
GCCAATAAACTAAGACCATCCAAATATATATATATGTCGCTGAG
Found at i:1281554 original size:42 final size:42
Alignment explanation
Indices: 1281503--1281622 Score: 181
Period size: 42 Copynumber: 2.9 Consensus size: 42
1281493 TTTCTCCGAA
* * *
1281503 TTTC-CGTGTTTGTTTCACGTAATTTGTTTTTCGGAAAATGT
1 TTTCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGT
*
1281544 TTTCTCGTGTTTGTTTTACGTAATTCGTTTTCCGGAAAACGT
1 TTTCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGT
1281586 TTT-TCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTTCT-CGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1281623 TGTAATTCAT
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 5 0.07
42 67 0.93
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (42 bp):
TTTCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGT
Found at i:1281876 original size:36 final size:38
Alignment explanation
Indices: 1281810--1281893 Score: 104
Period size: 36 Copynumber: 2.3 Consensus size: 38
1281800 TTAATTATTA
* *
1281810 AAATATT-TAAATATATTATTAATATTTATAATAATAT
1 AAATATTATAAATATATTATCAATATATATAATAATAT
1281847 -AATATTATAAA-A-ATTATCAATTATATATAATAATAT
1 AAATATTATAAATATATTATCAA-TATATATAATAATAT
1281883 AAGATATTATA
1 AA-ATATTATA
1281894 TTTATTTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
35 7 0.17
36 21 0.51
37 5 0.12
38 8 0.20
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (38 bp):
AAATATTATAAATATATTATCAATATATATAATAATAT
Found at i:1281938 original size:27 final size:27
Alignment explanation
Indices: 1281867--1281961 Score: 97
Period size: 27 Copynumber: 3.5 Consensus size: 27
1281857 AAATTATCAA
* *
1281867 TTATATATAATAATATAAGATATTATAT
1 TTATATTTAATAATATAA-ATATTATTT
* *
1281895 TTAT-TTTAAAAATATAAAAATT-TTT
1 TTATATTTAATAATATAAATATTATTT
1281920 TTATATTTAATAATGAT-AATATTATTT
1 TTATATTTAATAAT-ATAAATATTATTT
*
1281947 ATATATTTCAATAAT
1 TTATATTT-AATAAT
1281962 TTTAGTAAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
25 6 0.11
26 17 0.30
27 23 0.41
28 10 0.18
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (27 bp):
TTATATTTAATAATATAAATATTATTT
Found at i:1282201 original size:20 final size:20
Alignment explanation
Indices: 1282123--1282192 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
1282113 TTTCCAGATG
1282123 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
1282143 TTTTCCAAAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
1282163 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
1282183 TTTTCCAGAA
1 TTTTCCAGAA
1282193 TTCAAATTCC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:1282201 original size:40 final size:40
Alignment explanation
Indices: 1282123--1282201 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
1282113 TTTCCAGATG
* **
1282123 TTTTCCAGAAATGTAATTCATTTTCCAAAAATGTAATTCA
1 TTTTACAGAAATGTAATTCATTTTCCAAAAATCAAATTCA
* *
1282163 TTTTACAGAAATGTAATTCATTTTCCAGAATTCAAATTC
1 TTTTACAGAAATGTAATTCATTTTCCAAAAATCAAATTC
1282202 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.41
Consensus pattern (40 bp):
TTTTACAGAAATGTAATTCATTTTCCAAAAATCAAATTCA
Found at i:1282211 original size:15 final size:15
Alignment explanation
Indices: 1282175--1282254 Score: 117
Period size: 15 Copynumber: 5.4 Consensus size: 15
1282165 TTACAGAAAT
**
1282175 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
1282190 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
1282204 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
1282219 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
1282234 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
1282249 GTAATT
1 GTAATT
1282255 TATTTTCTGG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.21
15 46 0.79
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:1282227 original size:30 final size:30
Alignment explanation
Indices: 1282175--1282254 Score: 135
Period size: 30 Copynumber: 2.7 Consensus size: 30
1282165 TTACAGAAAT
1282175 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
1282204 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
**
1282234 GTAATTCAAATTCCAGTAATT
1 GTAATTCATTTTCCAGTAATT
1282255 TATTTTCTGG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.33
30 32 0.67
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:1282249 original size:45 final size:44
Alignment explanation
Indices: 1282175--1282261 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
1282165 TTACAGAAAT
**
1282175 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
1 GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
*
1282219 GTAATTCAAATTCCAGTAATTCAAATTCCAGTAATTTATTTTC
1 GTAATTCAAATTCCAG-AATTCAAATTCCAGTAATTCATTTTC
1282262 TGGAAAACCA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.36
45 25 0.64
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.41
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
Found at i:1282980 original size:18 final size:17
Alignment explanation
Indices: 1282952--1283006 Score: 69
Period size: 18 Copynumber: 3.3 Consensus size: 17
1282942 TTCTTCTTCT
*
1282952 TCATCTCATCCTCCTCC
1 TCATCTCATCCTCATCC
1282969 TCATCGTCATCCTCATCC
1 TCATC-TCATCCTCATCC
*
1282987 TCATC-C-TCCTCATCG
1 TCATCTCATCCTCATCC
1283002 TCATC
1 TCATC
1283007 AATTTCGGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 13 0.37
16 1 0.03
17 5 0.14
18 16 0.46
ACGTcount: A:0.15, C:0.47, G:0.04, T:0.35
Consensus pattern (17 bp):
TCATCTCATCCTCATCC
Found at i:1283006 original size:6 final size:6
Alignment explanation
Indices: 1282952--1282994 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
1282942 TTCTTCTTCT
* *
1282952 TCAT-C TCATCC TCCTCC TCATCG TCATCC TCATCC TCATCC TC
1 TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TC
1282995 CTCATCGTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.14, C:0.49, G:0.02, T:0.35
Consensus pattern (6 bp):
TCATCC
Found at i:1285887 original size:22 final size:22
Alignment explanation
Indices: 1285862--1285919 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
1285852 TCACTCTCTA
*
1285862 CGACGACATCCGTCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
*
1285884 CGACGAAATCCCTCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
1285906 CGACGAAATCCGTC
1 CGACGAAATCCGTC
1285920 TATCTCCGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.22, C:0.47, G:0.14, T:0.17
Consensus pattern (22 bp):
CGACGAAATCCGTCCCCATCTC
Found at i:1286320 original size:14 final size:14
Alignment explanation
Indices: 1286301--1286333 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
1286291 TCGCAACGCA
1286301 ATTTTAGTTTCGCG
1 ATTTTAGTTTCGCG
1286315 ATTTTAGTTTCGCG
1 ATTTTAGTTTCGCG
1286329 ATTTT
1 ATTTT
1286334 CTCGTTGCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.18, T:0.55
Consensus pattern (14 bp):
ATTTTAGTTTCGCG
Found at i:1286358 original size:19 final size:20
Alignment explanation
Indices: 1286329--1286386 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
1286319 TAGTTTCGCG
*
1286329 ATTTTCTCGTTGCGATTTTC
1 ATTTTCGCGTTGCGATTTTC
**
1286349 A-TTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATTTTC
*
1286368 ATTTTCGTGTTGCGATTTT
1 ATTTTCGCGTTGCGATTTT
1286387 AAGTTTCAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.50
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATTTTC
Found at i:1287720 original size:18 final size:19
Alignment explanation
Indices: 1287697--1287732 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
1287687 CTCCACTTCG
1287697 AGAGCCATCACC-TCACCC
1 AGAGCCATCACCATCACCC
1287715 AGAGCCATCACCATCACC
1 AGAGCCATCACCATCACC
1287733 TGATCGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.31, C:0.47, G:0.11, T:0.11
Consensus pattern (19 bp):
AGAGCCATCACCATCACCC
Found at i:1287977 original size:21 final size:21
Alignment explanation
Indices: 1287953--1288009 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
1287943 TGGTGCATGG
*
1287953 CGTGATGAGGTATCAACTCTA
1 CGTGATGAGGTAGCAACTCTA
* **
1287974 CGTGGTGAGGTAGCGGCTCTA
1 CGTGATGAGGTAGCAACTCTA
1287995 CGTGA-GATGGTAGCA
1 CGTGATGA-GGTAGCA
1288010 TCGTTACAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.25
Consensus pattern (21 bp):
CGTGATGAGGTAGCAACTCTA
Found at i:1288299 original size:20 final size:20
Alignment explanation
Indices: 1288276--1288417 Score: 145
Period size: 20 Copynumber: 7.5 Consensus size: 20
1288266 GAAACTTAAA
1288276 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
1288296 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
1288316 ATCGCAA--C-AAGAT-A--
1 ATCGCAACGCGAAAATGACT
* * *
1288330 ATCGCAATGCG-AAATAACA
1 ATCGCAACGCGAAAATGACT
1288349 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
1288369 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
**
1288389 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
1288409 ATTGCAACG
1 ATCGCAACG
1288418 GGATAATCGC
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
14 7 0.07
16 5 0.05
17 4 0.04
18 1 0.01
19 10 0.10
20 75 0.74
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1288362 original size:73 final size:73
Alignment explanation
Indices: 1288253--1288396 Score: 220
Period size: 73 Copynumber: 2.0 Consensus size: 73
1288243 CAAAAGAAGA
*
1288253 ATAATCGCAACACGAAACTTAAAATCGCAACGCGAAAATGACTATCGCAACGC-GAATTTGACTA
1 ATAATCGCAACACGAAAC-TAAAATCGCAACGCGAAAATGACTATCGCAACGCGGAA-ATGACTA
1288317 TCGCAACAAG
64 TCGCAACAAG
**
1288327 ATAATCGCAATGCGAAA-TAACAATCGCAACGCGAAAATGACTATCGCAACGCGGAAATGACTAT
1 ATAATCGCAACACGAAACTAA-AATCGCAACGCGAAAATGACTATCGCAACGCGGAAATGACTAT
1288391 CGCAAC
65 CGCAAC
1288397 GCGAATTTGA
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
72 3 0.05
73 44 0.68
74 18 0.28
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.17
Consensus pattern (73 bp):
ATAATCGCAACACGAAACTAAAATCGCAACGCGAAAATGACTATCGCAACGCGGAAATGACTATC
GCAACAAG
Found at i:1288368 original size:53 final size:54
Alignment explanation
Indices: 1288275--1288376 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 54
1288265 CGAAACTTAA
* * **
1288275 AATCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACAAGAT
1 AATCGCAACGCGAAAATAACAATCGCAACGCGAAAATGACTATCGCAACAAGAT
*
1288329 AATCGCAATGCG-AAATAACAATCGCAACGCGAAAATGACTATCGCAAC
1 AATCGCAACGCGAAAATAACAATCGCAACGCGAAAATGACTATCGCAAC
1288377 GCGGAAATGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 32 0.74
54 11 0.26
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.17
Consensus pattern (54 bp):
AATCGCAACGCGAAAATAACAATCGCAACGCGAAAATGACTATCGCAACAAGAT
Found at i:1288416 original size:93 final size:94
Alignment explanation
Indices: 1288276--1288455 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 94
1288266 GAAACTTAAA
1288276 ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACAAGATAATCGCAATGCG
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACAAGATAATCGCAATGCG
1288341 AAAT-AACAA-TCGCAACGCGAAAATGACT
66 AAATGAA-AATTCGCAACGCGAAAATGACT
* * **
1288369 ATCGCAACGCGGAAATGACTATCGCAACGCGAATTTGACTATTGCAACGGGATAATCGCAATGCG
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACAAGATAATCGCAATGCG
*
1288434 AAATGAAAATTCGCAATGCGAA
66 AAATGAAAATTCGCAACGCGAA
1288456 TTTAGTTTCG
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
93 67 0.84
94 13 0.16
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (94 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACAAGATAATCGCAATGCG
AAATGAAAATTCGCAACGCGAAAATGACT
Found at i:1288557 original size:20 final size:20
Alignment explanation
Indices: 1288513--1288561 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1288503 GCGATTATCT
1288513 TGTTGCGATAGTCAAATTCG
1 TGTTGCGATAGTCAAATTCG
* *
1288533 CGTTGCGATAGTC-ATTTCCG
1 TGTTGCGATAGTCAAATT-CG
1288553 TGTTGCGAT
1 TGTTGCGAT
1288562 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
TGTTGCGATAGTCAAATTCG
Found at i:1289165 original size:21 final size:21
Alignment explanation
Indices: 1289054--1289166 Score: 86
Period size: 21 Copynumber: 5.4 Consensus size: 21
1289044 CACCTGTCAT
* * *
1289054 GTTCAAGAGGCCTCTCCTATC
1 GTTCAAGAGGCCCCTCCCACC
**
1289075 GTTCAAGAGGCCCCTATCATCC
1 GTTCAAGAGGCCCCTCCCA-CC
* *
1289097 -CTCAAGA-TCCCCTCCCACC
1 GTTCAAGAGGCCCCTCCCACC
** *
1289116 GTTCAAGAGGCCCCTGTCATC
1 GTTCAAGAGGCCCCTCCCACC
* *
1289137 GTTGAAGAGGTCCCTCCCACC
1 GTTCAAGAGGCCCCTCCCACC
*
1289158 ATTCAAGAG
1 GTTCAAGAG
1289167 CCCGATTCAT
Statistics
Matches: 68, Mismatches: 21, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
19 2 0.03
20 13 0.19
21 52 0.76
22 1 0.01
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (21 bp):
GTTCAAGAGGCCCCTCCCACC
Found at i:1293096 original size:24 final size:24
Alignment explanation
Indices: 1293029--1293088 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
1293019 CTGAAACATC
1293029 ATCAAAATTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
* * *
1293053 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
1293077 ATCAAATTTCGA
1 ATCAAAATTCGA
1293089 ATACTGACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:1293969 original size:20 final size:20
Alignment explanation
Indices: 1293903--1294054 Score: 173
Period size: 20 Copynumber: 7.4 Consensus size: 20
1293893 GAAATTCAGT
1293903 GTTGCGATAGTCAGAATCGCGC
1 GTTGCGATAGTCAGAAT--CGC
**
1293925 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
*
1293946 GTTGCGATAGTCAGAATCGT
1 GTTGCGATAGTCAGAATCGC
1293966 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
** *
1293986 GTTGCGATTATGT-ATTATTGC
1 GTTGCGA-TA-GTCAGAATCGC
1294007 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
1294027 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
1294047 ATTGCGAT
1 GTTGCGAT
1294055 TTACATATTC
Statistics
Matches: 111, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
19 4 0.04
20 67 0.60
21 24 0.22
22 9 0.08
23 5 0.05
24 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:1294009 original size:61 final size:61
Alignment explanation
Indices: 1293901--1294055 Score: 265
Period size: 61 Copynumber: 2.5 Consensus size: 61
1293891 TTGAAATTCA
1293901 GTGTTGCGATAGTCAGAATCGCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATC
1 GTGTTGCGATAGTCAGAAT--CGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATC
*
1293964 GTGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATTGCGTTGCGATAGTCAGAATC
1 GTGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATC
* *
1294025 GCGTTGCGATAGTCAGAATCGCATTGCGATT
1 GTGTTGCGATAGTCAGAATCGCGTTGCGATT
1294056 TACATATTCG
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
61 70 0.79
63 19 0.21
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (61 bp):
GTGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATC
Found at i:1294128 original size:20 final size:20
Alignment explanation
Indices: 1294103--1294196 Score: 77
Period size: 20 Copynumber: 4.7 Consensus size: 20
1294093 GAATTTGAAA
*
1294103 AATCGCAATGCGATAGTCAT
1 AATCGCATTGCGATAGTCAT
*
1294123 AATCGCGTTGCGATTATGT-AT
1 AATCGCATTGCGA-TA-GTCAT
* * *
1294144 TATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAT
* *
1294164 AATCACATTGCGAT--TTAT
1 AATCGCATTGCGATAGTCAT
1294182 AGATCGCATTGCGAT
1 A-ATCGCATTGCGAT
1294197 TTTGTTGGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
18 3 0.05
19 14 0.23
20 25 0.42
21 16 0.27
22 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAT
Found at i:1294156 original size:41 final size:41
Alignment explanation
Indices: 1294111--1294196 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
1294101 AAAATCGCAA
* **
1294111 TGCGATAGTCATAATCGCGTTGCGATTATGTATTATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATTATGTAGAATCGCGT
* * * *
1294152 TGCGATAGTCAGAATCACATTGCGATT-TATAG-ATCGCAT
1 TGCGATAGTCAGAATCGCGTTGCGATTATGTAGAATCGCGT
1294191 TGCGAT
1 TGCGAT
1294197 TTTGTTGGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 12 0.31
40 3 0.08
41 24 0.62
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (41 bp):
TGCGATAGTCAGAATCGCGTTGCGATTATGTAGAATCGCGT
Found at i:1306148 original size:100 final size:104
Alignment explanation
Indices: 1305979--1306173 Score: 272
Period size: 100 Copynumber: 1.9 Consensus size: 104
1305969 AAAACGAAAT
*
1305979 AAAAAGTAAACGTCAAGTATGATTTTAAGAAAAAATAAAAAATTAAATACCAAAACGGGGTAAAT
1 AAAAAGTAAACGTCAAGTATGATTTT-AG-AAAAATAAAAAATTAAATACCAAAACGGGATAAAT
1306044 GTAAT-AGTTTAGATATTAAACTTGTAGTTGAAAATAAAAC
64 GTAATAAGTTTAGATATTAAACTTGTAGTTGAAAATAAAAC
* ** *
1306084 AAAAAGTAAACGTTAAGTATGATTTT-G-AAAA-AAAAAATTAAATATTAAAACGGGATAGATGT
1 AAAAAGTAAACGTCAAGTATGATTTTAGAAAAATAAAAAATTAAATACCAAAACGGGATAAATGT
* * *
1306146 AATAATTTTAGGTATTTAACTTGTAGTT
66 AATAAGTTTAGATATTAAACTTGTAGTT
1306174 TACCTTATAT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
100 30 0.37
101 25 0.31
103 1 0.01
105 25 0.31
ACGTcount: A:0.50, C:0.05, G:0.15, T:0.30
Consensus pattern (104 bp):
AAAAAGTAAACGTCAAGTATGATTTTAGAAAAATAAAAAATTAAATACCAAAACGGGATAAATGT
AATAAGTTTAGATATTAAACTTGTAGTTGAAAATAAAAC
Found at i:1309825 original size:36 final size:35
Alignment explanation
Indices: 1309750--1309825 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
1309740 TTTTGGGAAT
* * * * *
1309750 TATATGTTTTATATAAAATTTGATTAAAATTATTT
1 TATATGTTTCAAATAAAATTTGATTAAAAATAATC
*
1309785 TATATGTTTCAAATAAAATTTGGTTTAAAAATAATC
1 TATATGTTTCAAATAAAATTT-GATTAAAAATAATC
1309821 TATAT
1 TATAT
1309826 TATATTGAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (35 bp):
TATATGTTTCAAATAAAATTTGATTAAAAATAATC
Found at i:1311653 original size:12 final size:12
Alignment explanation
Indices: 1311624--1311660 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1311614 AAAATTTCAA
1311624 GAGCTCGA--TT
1 GAGCTCGATTTT
1311634 GAAGCTCGATTTT
1 G-AGCTCGATTTT
1311647 GAGCTCGATTTT
1 GAGCTCGATTTT
1311659 GA
1 GA
1311661 ACATACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.04
11 7 0.29
12 13 0.54
13 3 0.12
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (12 bp):
GAGCTCGATTTT
Found at i:1312069 original size:30 final size:31
Alignment explanation
Indices: 1312014--1312074 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 31
1312004 CCAGTTAAGC
1312014 TTACTTACAAAAGATGACAGCAACATGTCAAGT
1 TTACTTACAAAAGAT-A-AGCAACATGTCAAGT
*
1312047 TTACTTACAAAAGAT-TGCAACATGTCAA
1 TTACTTACAAAAGATAAGCAACATGTCAA
1312075 ATTAAGTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.44
33 15 0.56
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (31 bp):
TTACTTACAAAAGATAAGCAACATGTCAAGT
Found at i:1322728 original size:22 final size:21
Alignment explanation
Indices: 1322680--1322757 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 21
1322670 TTAAGATTTT
* *
1322680 AAATATATTTATTATATAATGTTA
1 AAATATA-TTATTA-ATTAT-TAA
1322704 AAATATATTACTTAATTATTAA
1 AAATATATTA-TTAATTATTAA
* *
1322726 AAATATAATA-T-ATTATTATG
1 AAATATATTATTAATTATTA-A
1322746 AAATATATTATT
1 AAATATATTATT
1322758 TTAATAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 7 0.15
20 10 0.22
21 1 0.02
22 11 0.24
23 7 0.15
24 10 0.22
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (21 bp):
AAATATATTATTAATTATTAA
Found at i:1322738 original size:42 final size:43
Alignment explanation
Indices: 1322692--1322788 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 43
1322682 ATATATTTAT
*
1322692 TATATAATGT-TAAAATATATTA-CTTAATTATTAAAAATATAA
1 TATATAAT-TATAAAATATATTATCTTAATAATTAAAAATATAA
* * * * *
1322734 TATATTATTATGAAATATATTATTTTAATAATTTAAAATATTA
1 TATATAATTATAAAATATATTATCTTAATAATTAAAAATATAA
*
1322777 TAAATATATTAT
1 TATATA-ATTAT
1322789 TTTAATTATT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 18 0.41
43 20 0.45
44 5 0.11
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (43 bp):
TATATAATTATAAAATATATTATCTTAATAATTAAAAATATAA
Found at i:1322784 original size:47 final size:42
Alignment explanation
Indices: 1322704--1322789 Score: 109
Period size: 47 Copynumber: 1.9 Consensus size: 42
1322694 TATAATGTTA
*
1322704 AAATATATTACTTAATTATTAAAAATATAATATATTATTATG
1 AAATATATTACTTAATAATTAAAAATATAATATATTATTATG
*
1322746 AAATATATTATTTTAATAATTTAAAATATTATAAATATATTATT
1 AAATATATTA-CTTAATAA-TTAAAA-A-TAT-AATATATTATT
1322790 TTAATTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
42 10 0.27
43 6 0.16
44 6 0.16
45 1 0.03
46 3 0.08
47 11 0.30
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (42 bp):
AAATATATTACTTAATAATTAAAAATATAATATATTATTATG
Found at i:1322786 original size:32 final size:33
Alignment explanation
Indices: 1322739--1322807 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
1322729 TATAATATAT
1322739 TATTATGAAATATATTATTTTAATAATTTAAAA
1 TATTATGAAATATATTATTTTAATAATTTAAAA
*
1322772 TATTAT-AAATATATTATTTTAATTATTTAAAA
1 TATTATGAAATATATTATTTTAATAATTTAAAA
1322804 TATT
1 TATT
1322808 GATATATTCG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 29 0.83
33 6 0.17
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (33 bp):
TATTATGAAATATATTATTTTAATAATTTAAAA
Found at i:1322790 original size:23 final size:21
Alignment explanation
Indices: 1322764--1322807 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
1322754 TATTTTAATA
1322764 ATTTAAAATATTATAAATATATT
1 ATTTAAAATATT-TAAA-ATATT
* *
1322787 ATTTTAATTATTTAAAATATT
1 ATTTAAAATATTTAAAATATT
1322808 GATATATTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 10 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTAAAATATTTAAAATATT
Found at i:1330449 original size:187 final size:186
Alignment explanation
Indices: 1329776--1330456 Score: 658
Period size: 187 Copynumber: 3.6 Consensus size: 186
1329766 CAATCAATAT
* * * *
1329776 CATTCTTGGACGCAACCGGATCTGTTAACGTGATTGATTACATTTTCGGTTTTCAACTTATTTTA
1 CATTCTTGGGCGCAACC-GATTTGTTAACGTGATTGATAACATTTTCGGCTTTCAACTTATTTTA
* * * * * *
1329841 TAATACTATGACTATTTTCTTTGAC-CAATTTGTTAAA-TCTCGGTAACATTTTCGGTCCAAACC
65 T--TACCATGACTAATTTCTTAGACTC-ATTTGCTAAACTC-CGGTAACATTTTAGGTCCAAATC
* * * *
1329904 GGATTTGTTAAATAAACTTATAACA-TTCACGATCTCAACCTAATTTCTTAGTGATTGATTA
126 GGATTTGTTAAAAAAACTTATAACATTTCA-GATCTCAACCTAATTTCTTAGTGATCGGTAA
* * * * * *
1329965 CATTCTTGGGCGCAATCGGATTTGTTGACGTGATTGATAATATGTTCGACTTTCAACTTATTTTG
1 CATTCTTGGGCGCAA-CCGATTTGTTAACGTGATTGATAACATTTTCGGCTTTCAACTTATTTTA
* * * * * * * *
1330030 TTACAATGACTATTTTCTTTGACTCTTTTGCTAAATTTCGGTAACTTTTTAGGTCCAAATCGAAT
65 TTACCATGACTAATTTCTTAGACTCATTTGCTAAACTCCGGTAACATTTTAGGTCCAAATCGGAT
* * * *
1330095 TTGTTAAAGAAACTTATAAC-TTTCCAAATCGCAACCTAATTTCTCT-GCGATCGGTAA
130 TTGTTAAAAAAACTTATAACATTT-CAGATCTCAACCTAATTTCT-TAGTGATCGGTAA
* * * * * * * * *
1330152 CATTATTGGGTGCAACCGAATTTATTAACGCGATTGATAATATTTTCAGATTTTAACTTATTTTG
1 CATTCTTGGGCGCAACCG-ATTTGTTAACGTGATTGATAACATTTTCGGCTTTCAACTTATTTTA
* *** * * * *
1330217 TTACCGTGACTAAACCCTTAGTC-CATTTGCTAAACTTCGGTAACATTTTAGATCCAAAATTGGA
65 TTACCATGACTAATTTCTTAGACTCATTTGCTAAACTCCGGTAACATTTTAGGTCC-AAATCGGA
*** * *
1330281 TTTAAAAAAAAAACTTATAGCATTTTAGATCTCAACCTAATTTCTTAGTGATCCGGTAA
129 TTTGTTAAAAAAACTTATAACATTTCAGATCTCAACCTAATTTCTTAGTGAT-CGGTAA
* *
1330340 TATTCTTGGGCGCAACCGATTTGTTAACATGATTGATAACATTTTCGGCTTTCAACTTATTTTAT
1 CATTCTTGGGCGCAACCGATTTGTTAACGTGATTGATAACATTTTCGGCTTTCAACTTATTTTAT
* * *
1330405 TACCATGGCTAAATTT-TTAG-CTCATTTGTTAAACTCCAGTAACATTTTAGGT
66 TACCATGACT-AATTTCTTAGACTCATTTGCTAAACTCCGGTAACATTTTAGGT
1330457 GCAACCGAAT
Statistics
Matches: 400, Mismatches: 79, Indels: 28
0.79 0.16 0.06
Matches are distributed among these distances:
186 32 0.08
187 282 0.70
188 31 0.08
189 54 0.14
190 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (186 bp):
CATTCTTGGGCGCAACCGATTTGTTAACGTGATTGATAACATTTTCGGCTTTCAACTTATTTTAT
TACCATGACTAATTTCTTAGACTCATTTGCTAAACTCCGGTAACATTTTAGGTCCAAATCGGATT
TGTTAAAAAAACTTATAACATTTCAGATCTCAACCTAATTTCTTAGTGATCGGTAA
Found at i:1331165 original size:23 final size:25
Alignment explanation
Indices: 1331124--1331170 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
1331114 TGGACAAAAA
1331124 TGGTCATTTGAAGCTCTCT-GACTT
1 TGGTCATTTGAAGCTCTCTAGACTT
1331148 TGGTC-TTTGCAAGC-CTCTAGACT
1 TGGTCATTTG-AAGCTCTCTAGACT
1331171 GTAGAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (25 bp):
TGGTCATTTGAAGCTCTCTAGACTT
Found at i:1335000 original size:3 final size:3
Alignment explanation
Indices: 1334992--1335047 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
1334982 TTATAACCCC
* * * * *
1334992 CTT CTT CTT CCT CTT CTT CTT ATT -AT CCT CTTT ATT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT
1335037 CTT CTT CTT CT
1 CTT CTT CTT CT
1335048 CTCACACCTC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 41 0.95
4 1 0.02
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:1345839 original size:3 final size:3
Alignment explanation
Indices: 1345831--1345863 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1345821 TGACTTAAAT
*
1345831 ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1345864 CAAGTGAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:1355223 original size:108 final size:108
Alignment explanation
Indices: 1355077--1355363 Score: 346
Period size: 108 Copynumber: 2.6 Consensus size: 108
1355067 GATTGTATTT
* * * * * *
1355077 GTTTAAAGTTGATGTGACCTTAAAAATCTGAAGATAACAAAATAGATTAATTATTTATTTTGTTA
1 GTTT-AAGTTGATGAGGCCTTAGAAATCTCACGATAACAAAATAGGTTAATTATTTATTTTGTTA
* *
1355142 TTAATATTATCAACATATTAGATAGCGTC-TAAAATGTTATCAAA
65 TAAATATTATCAACATATTAGATAGCG-CATAAAATGTTACCAAA
* *
1355186 GTTTAAGTTGATTG-GGCCTTAGAAATCTCACGATAACAAAATAGGTTAATTACTTATTTTGCTA
1 GTTTAAGTTGA-TGAGGCCTTAGAAATCTCACGATAACAAAATAGGTTAATTATTTATTTTGTTA
* * * *
1355250 TAAATATTATCAACATATTAGGTTGTGCATAATATGTTACCAAA
65 TAAATATTATCAACATATTAGATAGCGCATAAAATGTTACCAAA
* * * * *
1355294 GTTTAAGATGATGAGGCATTCGAAATAC-CACGACAACAAAATAGGTTAAATATTTATTTTGTTA
1 GTTTAAGTTGATGAGGCCTTAGAAAT-CTCACGATAACAAAATAGGTTAATTATTTATTTTGTTA
1355358 TAAATA
65 TAAATA
1355364 AATATTAACA
Statistics
Matches: 154, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
107 3 0.02
108 144 0.94
109 7 0.05
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (108 bp):
GTTTAAGTTGATGAGGCCTTAGAAATCTCACGATAACAAAATAGGTTAATTATTTATTTTGTTAT
AAATATTATCAACATATTAGATAGCGCATAAAATGTTACCAAA
Found at i:1356120 original size:100 final size:100
Alignment explanation
Indices: 1355994--1356202 Score: 305
Period size: 100 Copynumber: 2.1 Consensus size: 100
1355984 CTAAAAAAAA
* * * *
1355994 TATTTCAAACGGTTAAGTTGTAAATATTTTAGCGTTTACATT-ATTATTATACCTTTAAACAAAT
1 TATTTTAACCGGTTAAGTTGTAAATATTTTACCGTTTACATTAATT-TTATACCTTTAAACAAAC
* *
1356058 TGGTAAG-TAGTTTAACGTAATAGGTAGCGCCTATTT
65 CGGT-AGTTAATTTAACGTAATAGGTAGCGCCTATTT
* *
1356094 TATTTTAACCGGTTAAGTTTTAAATATTTTACCGTTTACATTAATTTTGTACCTTTAAACAAACC
1 TATTTTAACCGGTTAAGTTGTAAATATTTTACCGTTTACATTAATTTTATACCTTTAAACAAACC
*
1356159 GGTAGTTAATTTAACGTAATAGGTAGCGTCTATTT
66 GGTAGTTAATTTAACGTAATAGGTAGCGCCTATTT
1356194 TATTTTAAC
1 TATTTTAAC
1356203 TTATTACATT
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
99 2 0.02
100 93 0.95
101 3 0.03
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (100 bp):
TATTTTAACCGGTTAAGTTGTAAATATTTTACCGTTTACATTAATTTTATACCTTTAAACAAACC
GGTAGTTAATTTAACGTAATAGGTAGCGCCTATTT
Found at i:1356224 original size:77 final size:76
Alignment explanation
Indices: 1356118--1356354 Score: 305
Period size: 76 Copynumber: 3.1 Consensus size: 76
1356108 AAGTTTTAAA
* * * * * *
1356118 TATTTTACCGTTTACATTAATT-TTGTACCTTTAAACAAACCGGTAGTTAATTTAACGTAATAGG
1 TATTTTAACGTTTACATT-ATTATTATACCTTTAAACAAATCGGTAGCTAGTTTAACGTAATAGA
*
1356182 TAGCGTCTATTT
65 TAGCGCCTATTT
* * *
1356194 TATTTTAACTTATTACATTATTATTATACCTTTAAACAAATCAGTAGGTAGTTTAACGTAATAGA
1 TATTTTAACGT-TTACATTATTATTATACCTTTAAACAAATCGGTAGCTAGTTTAACGTAATAGA
1356259 TAGCGCCTATTT
65 TAGCGCCTATTT
* * * * *
1356271 TATTTTATCGTTTACATTATTATTATACCTTTAAATAAATCGATAGCTAGTTTAACATAATAGTT
1 TATTTTAACGTTTACATTATTATTATACCTTTAAACAAATCGGTAGCTAGTTTAACGTAATAGAT
*
1356336 AGCCCCTATTT
66 AGCGCCTATTT
1356347 TATTTTAA
1 TATTTTAA
1356355 TCGGTTAAGT
Statistics
Matches: 140, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
76 77 0.55
77 63 0.45
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (76 bp):
TATTTTAACGTTTACATTATTATTATACCTTTAAACAAATCGGTAGCTAGTTTAACGTAATAGAT
AGCGCCTATTT
Found at i:1356396 original size:100 final size:100
Alignment explanation
Indices: 1356271--1356461 Score: 249
Period size: 100 Copynumber: 1.9 Consensus size: 100
1356261 GCGCCTATTT
* * * * * * *
1356271 TATTTTATCGTTTACATTATTATTATACCTTTAAATAAA-TCGATAGCTAGTTTAACATAATAGT
1 TATTTTACCGTTTACATTAATATTATACATTTAAACAAACT-AATAGCTAGTCTAACATAATAGG
1356335 TAGCCCCTATTTTATTTTAATCGGTTAAGTTGTAAA
65 TAGCCCCTATTTTATTTTAATCGGTTAAGTTGTAAA
* * **
1356371 TATTTTACCGTTTACATTAATATTATACATTTAAACAAACTAATAGGTGGTCTAATGTAATAGGT
1 TATTTTACCGTTTACATTAATATTATACATTTAAACAAACTAATAGCTAGTCTAACATAATAGGT
**
1356436 AGCTTCTATTTTATTTTAATCGGTTA
66 AGCCCCTATTTTATTTTAATCGGTTA
1356462 CATTATTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
100 76 0.99
101 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (100 bp):
TATTTTACCGTTTACATTAATATTATACATTTAAACAAACTAATAGCTAGTCTAACATAATAGGT
AGCCCCTATTTTATTTTAATCGGTTAAGTTGTAAA
Found at i:1356447 original size:176 final size:176
Alignment explanation
Indices: 1356206--1356528 Score: 465
Period size: 176 Copynumber: 1.8 Consensus size: 176
1356196 TTTTAACTTA
* * * *
1356206 TTACATTATTATTATACCTTTAAACAAATCAGTAGGTAGTTTAACGTAATAGATAGCGCCTATTT
1 TTACATTAATATTATACATTTAAACAAATCAATAGGTAGTCTAACGTAATAGATAGCGCCTATTT
*
1356271 TATTTT-ATCGTTTACATTATTATTATACCTTTAAATAAATC-G-ATAGCTAGTTTAACATAATA
66 TATTTTAATCGGTTACATTATTATTATACCTTTAAA-AAATCAGTAT-G-TAGTTTAACATAATA
*
1356333 GTTAGCCCCTATTTTATTTTAATCGGTTAAGTTGTAAATATTTTACCGT
128 GGTAGCCCCTATTTTATTTTAATCGGTTAAGTTGTAAATATTTTACCGT
* * * **
1356382 TTACATTAATATTATACATTTAAACAAA-CTAATAGGTGGTCTAATGTAATAGGTAGCTTCTATT
1 TTACATTAATATTATACATTTAAACAAATC-AATAGGTAGTCTAACGTAATAGATAGCGCCTATT
*
1356446 TTATTTTAATCGGTTACATTATTATTATACCTTTAAACAATCAGTATGTAGTTTAACATAATAGG
65 TTATTTTAATCGGTTACATTATTATTATACCTTTAAAAAATCAGTATGTAGTTTAACATAATAGG
*
1356511 TAGCGCCTATTTTATTTT
130 TAGCCCCTATTTTATTTT
1356529 GCCGTTTACA
Statistics
Matches: 130, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
175 1 0.01
176 97 0.75
177 30 0.23
178 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (176 bp):
TTACATTAATATTATACATTTAAACAAATCAATAGGTAGTCTAACGTAATAGATAGCGCCTATTT
TATTTTAATCGGTTACATTATTATTATACCTTTAAAAAATCAGTATGTAGTTTAACATAATAGGT
AGCCCCTATTTTATTTTAATCGGTTAAGTTGTAAATATTTTACCGT
Found at i:1356557 original size:75 final size:75
Alignment explanation
Indices: 1356371--1356605 Score: 272
Period size: 76 Copynumber: 3.1 Consensus size: 75
1356361 AAGTTGTAAA
* * * * * *
1356371 TATTTTACCGTTTACATTAATATTATACATTTAAACAAACTAATAGGTGGTCTAATGTAATAGGT
1 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAAC-AGTAGGTAGTTTAACGTAATAGGT
**
1356436 AGCTTCTATTT
65 AGCACCTATTT
* * * * *
1356447 TATTTTAATCGGTTACATTATTATTATACCTTTAAACAATCAGTATGTAGTTTAACATAATAGGT
1 TATTTT-ACCGTTTACATTATTATTATACCTTTAAACAAACAGTAGGTAGTTTAACGTAATAGGT
*
1356512 AGCGCCTATTT
65 AGCACCTATTT
* * * *
1356523 TATTTTGCCGTTTACATGATTATTATACCTTTAAACAAACCGGTAGGTAGTTTAGCGTAATAGGT
1 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAA-CAGTAGGTAGTTTAACGTAATAGGT
*
1356588 AACACCTATTT
65 AGCACCTATTT
1356599 TATTTTA
1 TATTTTA
1356606 ACCAGTTAAG
Statistics
Matches: 132, Mismatches: 25, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
75 28 0.21
76 75 0.57
77 29 0.22
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (75 bp):
TATTTTACCGTTTACATTATTATTATACCTTTAAACAAACAGTAGGTAGTTTAACGTAATAGGTA
GCACCTATTT
Found at i:1356618 original size:252 final size:250
Alignment explanation
Indices: 1356018--1356874 Score: 1117
Period size: 252 Copynumber: 3.4 Consensus size: 250
1356008 AAGTTGTAAA
* *
1356018 TATTTTAGCGTTTACATTATTATTATACCTTTAAACAAATTGGTAAG-TAGTTTAACGTAATAGG
1 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAATCGGT-AGCTAGTTTAACGTAATAGG
* * * *
1356082 TAGCGCCTATTTTATTTTAACCGGTTAAGTTTTAAATATTTTACCGTTTACATTAATTTTGTACC
65 TAGCACCTATTTTATTTTAACCGGTTAAGTTGTAAATATTTTACCGTTTACATTAATATTATACC
* * * *
1356147 TTTAAACAAACCGGTAGTTAATTTAACGTAATAGGTAGCGTCTATTTTATTTTAACTTATTACAT
130 TTTAAACAAACCAGTAGGTAGTTTAACGTAATAGGTAGCGTCTATTTTATTTTAAC-GATTACAT
*
1356212 TATTATTATACCTTTAAACAAATCAGTAGGTAGTTTAACGTAATAGATAGCGCCTATTT
194 TATTATTATACCTTTAAAC-AATCAGTA-GTAGTTTAACGTAATAGGTAGCGCCTATTT
* * * * *
1356271 TATTTTATCGTTTACATTATTATTATACCTTTAAATAAATCGATAGCTAGTTTAACATAATAGTT
1 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAATCGGTAGCTAGTTTAACGTAATAGGT
* * *
1356336 AGCCCCTATTTTATTTTAATCGGTTAAGTTGTAAATATTTTACCGTTTACATTAATATTATACAT
66 AGCACCTATTTTATTTTAACCGGTTAAGTTGTAAATATTTTACCGTTTACATTAATATTATACCT
* * * * * * *
1356401 TTAAACAAACTAATAGGTGGTCTAATGTAATAGGTAGCTTCTATTTTATTTTAATCGGTTACATT
131 TTAAACAAACCAGTAGGTAGTTTAACGTAATAGGTAGCGTCTATTTTATTTTAA-CGATTACATT
*
1356466 ATTATTATACCTTTAAACAATCAGTATGTAGTTTAACATAATAGGTAGCGCCTATTT
195 ATTATTATACCTTTAAACAATCAGTA-GTAGTTTAACGTAATAGGTAGCGCCTATTT
* * * * *
1356523 TATTTTGCCGTTTACATGATTATTATACCTTTAAACAAACCGGTAGGTAGTTTAGCGTAATAGGT
1 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAATCGGTAGCTAGTTTAACGTAATAGGT
* * * * * * *
1356588 AACACCTATTTTATTTTAACCAGTTAAGTTGTAAATATTTTATCGATTGCATTATTACTATACCT
66 AGCACCTATTTTATTTTAACCGGTTAAGTTGTAAATATTTTACCGTTTACATTAATATTATACCT
* ** * *
1356653 TTAAATAAACCAGTAGGTAGTTTAACGTAATAATTAGCGTCTATTTTATTTTACCGTTTACATTA
131 TTAAACAAACCAGTAGGTAGTTTAACGTAATAGGTAGCGTCTATTTTATTTTAACGATTACATTA
* * * * *
1356718 TTATTATACCTTTAAACAAACATGGAGCTAGTTTAATGTAATAGGTTGCGTCTATTT
196 TTATTATACCTTTAAACAATCA-GTAG-TAGTTTAACGTAATAGGTAGCGCCTATTT
* * *
1356775 TATTATACCGTTTACATTATTATTATACCTTTAAACAAATCGGTAGCTAGTTTAACGTAGTATGT
1 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAATCGGTAGCTAGTTTAACGTAATAGGT
* *
1356840 TGTGA-CTATTTTATTTTAACC-GTCTAAGTTGTAAA
66 AG-CACCTATTTTATTTTAACCGGT-TAAGTTGTAAA
1356875 ATAAAGGGAG
Statistics
Matches: 524, Mismatches: 74, Indels: 13
0.86 0.12 0.02
Matches are distributed among these distances:
251 34 0.06
252 303 0.58
253 186 0.35
254 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.42
Consensus pattern (250 bp):
TATTTTACCGTTTACATTATTATTATACCTTTAAACAAATCGGTAGCTAGTTTAACGTAATAGGT
AGCACCTATTTTATTTTAACCGGTTAAGTTGTAAATATTTTACCGTTTACATTAATATTATACCT
TTAAACAAACCAGTAGGTAGTTTAACGTAATAGGTAGCGTCTATTTTATTTTAACGATTACATTA
TTATTATACCTTTAAACAATCAGTAGTAGTTTAACGTAATAGGTAGCGCCTATTT
Found at i:1356726 original size:76 final size:75
Alignment explanation
Indices: 1356623--1356862 Score: 286
Period size: 76 Copynumber: 3.1 Consensus size: 75
1356613 AAGTTGTAAA
* * * * * *
1356623 TATTTTATCGATTGCATTATTACTATACCTTTAAATAAACCAGTAGGTAGTTTAACGTAATA-AT
1 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAA-CAGTAGCTAGTTTAACGTAATAGAT
1356687 TAGCGTCTATTT
65 T-GCGTCTATTT
* * *
1356699 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAACATGGAGCTAGTTTAATGTAATAGGT
1 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAACA-GTAGCTAGTTTAACGTAATAGAT
1356764 TGCGTCTATTT
65 TGCGTCTATTT
* * *
1356775 TATTATACCGTTTACATTATTATTATACCTTTAAACAAATCGGTAGCTAGTTTAACGTAGTATG-
1 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAA-CAGTAGCTAGTTTAACGTAATA-GA
* *
1356839 TTGTGACTATTT
64 TTGCGTCTATTT
1356851 TATTTTAACCGT
1 TATTTT-ACCGT
1356863 CTAAGTTGTA
Statistics
Matches: 142, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
75 2 0.01
76 131 0.92
77 9 0.06
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (75 bp):
TATTTTACCGTTTACATTATTATTATACCTTTAAACAAACAGTAGCTAGTTTAACGTAATAGATT
GCGTCTATTT
Found at i:1356778 original size:176 final size:176
Alignment explanation
Indices: 1356447--1356763 Score: 458
Period size: 176 Copynumber: 1.8 Consensus size: 176
1356437 GCTTCTATTT
* * * * * *
1356447 TATTTTAATCGGTTACATTATTATTATACCTTTAAACAATCAGTATGTAGTTTAACATAATAGGT
1 TATTTTAATCGATTACATTATTACTATACCTTTAAAAAACCAGTAGGTAGTTTAACATAATAAGT
* *
1356512 AGCGCCTATTTTATTTTGCCGTTTACATGATTATTATACCTTTAAACAAACCGGTAGGTAGTTTA
66 AGCGCCTATTTTATTTTACCGTTTACATGATTATTATACCTTTAAACAAACCGGTAGCTAGTTTA
*
1356577 GCGTAATAGGTAACACCTATTTTATTTTAACCAGTTAAGTTGTAAA
131 ACGTAATAGGTAACACCTATTTTATTTTAACCAGTTAAGTTGTAAA
* * *
1356623 TATTTT-ATCGATTGCATTATTACTATACCTTTAAATAAACCAGTAGGTAGTTTAACGTAATAAT
1 TATTTTAATCGATTACATTATTACTATACCTTTAAA-AAACCAGTAGGTAGTTTAACATAATAAG
* * *
1356687 TAGCGTCTATTTTATTTTACCGTTTACATTATTATTATACCTTTAAACAAACATGG-AGCTAGTT
65 TAGCGCCTATTTTATTTTACCGTTTACATGATTATTATACCTTTAAACAAAC-CGGTAGCTAGTT
*
1356751 TAATGTAATAGGT
129 TAACGTAATAGGT
1356764 TGCGTCTATT
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
175 26 0.21
176 95 0.77
177 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (176 bp):
TATTTTAATCGATTACATTATTACTATACCTTTAAAAAACCAGTAGGTAGTTTAACATAATAAGT
AGCGCCTATTTTATTTTACCGTTTACATGATTATTATACCTTTAAACAAACCGGTAGCTAGTTTA
ACGTAATAGGTAACACCTATTTTATTTTAACCAGTTAAGTTGTAAA
Found at i:1367896 original size:27 final size:27
Alignment explanation
Indices: 1367858--1367914 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
1367848 CGTGTTCACA
1367858 AATACTAAATCAATAGGGAGATCAATT
1 AATACTAAATCAATAGGGAGATCAATT
1367885 AATACTAAATCAATAGGGAGATCAATT
1 AATACTAAATCAATAGGGAGATCAATT
1367912 AAT
1 AAT
1367915 TACACCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (27 bp):
AATACTAAATCAATAGGGAGATCAATT
Found at i:1370042 original size:12 final size:12
Alignment explanation
Indices: 1370027--1370053 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1370017 ATTTTTAATA
1370027 TTTATTTTGTAT
1 TTTATTTTGTAT
1370039 TTTATTTTGTAT
1 TTTATTTTGTAT
1370051 TTT
1 TTT
1370054 TTTATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTATTTTGTAT
Found at i:1370054 original size:20 final size:20
Alignment explanation
Indices: 1370010--1370061 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
1370000 TGAATAGTGT
1370010 TTTTTGTATTTTTAATATTTA
1 TTTTTGTA-TTTTAATATTTA
*
1370031 -TTTTGTATTTT-ATTTTGTA
1 TTTTTGTATTTTAATATT-TA
*
1370050 TTTTTTTATTTT
1 TTTTTGTATTTT
1370062 TTATTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
19 6 0.22
20 17 0.63
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (20 bp):
TTTTTGTATTTTAATATTTA
Found at i:1370839 original size:18 final size:18
Alignment explanation
Indices: 1370816--1370850 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1370806 CTCCATTTCA
1370816 TGTTTTGTATATTTAGAT
1 TGTTTTGTATATTTAGAT
1370834 TGTTTTGTATATTTAGA
1 TGTTTTGTATATTTAGA
1370851 CTAACCTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (18 bp):
TGTTTTGTATATTTAGAT
Found at i:1372755 original size:21 final size:21
Alignment explanation
Indices: 1372717--1372757 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1372707 AAATAATTAT
*
1372717 CTAAAATATTATTATTTTTAC
1 CTAAAATATAATTATTTTTAC
1372738 CTAAAATATCAATT-TTTTTA
1 CTAAAATAT-AATTATTTTTA
1372758 ACATTTCCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (21 bp):
CTAAAATATAATTATTTTTAC
Found at i:1372826 original size:69 final size:68
Alignment explanation
Indices: 1372752--1372893 Score: 158
Period size: 68 Copynumber: 2.1 Consensus size: 68
1372742 AATATCAATT
** * * ** **
1372752 TTTTTAACATTTCCGGTAAAAATATCCAACAATAATAAAACAGATAGCGTCTAATAATATTTCTG
1 TTTTTAACAAATCCGGT-AAAATATCAAACAATAACAAAACAGATAGCAACTAATAATATTTAAG
1372817 GTCA
65 GTCA
* * * * *
1372821 TTTTTATCAAATCCGGTAAAATGTCAAATAATAACAAAACTGGTAGCAACTAATAATATTTAAGG
1 TTTTTAACAAATCCGGTAAAATATCAAACAATAACAAAACAGATAGCAACTAATAATATTTAAGG
1372886 TCA
66 TCA
1372889 TTTTT
1 TTTTT
1372894 TACCCGTTTT
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
68 46 0.77
69 14 0.23
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (68 bp):
TTTTTAACAAATCCGGTAAAATATCAAACAATAACAAAACAGATAGCAACTAATAATATTTAAGG
TCA
Found at i:1375615 original size:31 final size:31
Alignment explanation
Indices: 1375577--1375651 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
1375567 TTTAAATAGT
* *
1375577 TATTATTTTTTATATTAATATATTATGTAAA
1 TATTATTTTTTATATTAAAATAATATGTAAA
* *
1375608 TATTATTTTTT-TATTAAAATAATATTTATA
1 TATTATTTTTTATATTAAAATAATATGTAAA
*
1375638 TAATTATTATTTAT
1 T-ATTATTTTTTAT
1375652 TTAGAATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 16 0.43
31 20 0.54
32 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (31 bp):
TATTATTTTTTATATTAAAATAATATGTAAA
Found at i:1375646 original size:34 final size:31
Alignment explanation
Indices: 1375567--1375654 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 31
1375557 GTTAGTATTT
* *
1375567 TTTAAATAGTTATTATTTTTTATATTAATATA
1 TTTATATAATTATTATTTTTT-TATTAATATA
* *
1375599 -TTATGTAAATATTATTTTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTTTATT--AAT-ATA
*
1375632 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTTTTTTA
1375655 GAATTATTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 4 0.09
31 16 0.36
32 3 0.07
33 3 0.07
34 19 0.42
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (31 bp):
TTTATATAATTATTATTTTTTTATTAATATA
Found at i:1377102 original size:13 final size:13
Alignment explanation
Indices: 1377084--1377123 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
1377074 TACATAAATA
1377084 TATTTAATATAAT
1 TATTTAATATAAT
1377097 TATTTAATATAA-
1 TATTTAATATAAT
*
1377109 TATTTAATATTAT
1 TATTTAATATAAT
1377122 TA
1 TA
1377124 GTTATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTTAATATAAT
Found at i:1377767 original size:15 final size:15
Alignment explanation
Indices: 1377747--1377778 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1377737 GGTATCAGTT
1377747 ATGTAAAAACCCGGA
1 ATGTAAAAACCCGGA
1377762 ATGTAAAAACCCGGA
1 ATGTAAAAACCCGGA
1377777 AT
1 AT
1377779 ACAAGGGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.16
Consensus pattern (15 bp):
ATGTAAAAACCCGGA
Found at i:1378018 original size:14 final size:15
Alignment explanation
Indices: 1377999--1378029 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1377989 CCTGTTTCCT
1377999 TTTTATTTATT-TTA
1 TTTTATTTATTGTTA
1378013 TTTTATTTATTGTTA
1 TTTTATTTATTGTTA
1378028 TT
1 TT
1378030 CGAGCTGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTATTTATTGTTA
Found at i:1379638 original size:26 final size:26
Alignment explanation
Indices: 1379598--1379676 Score: 131
Period size: 26 Copynumber: 3.0 Consensus size: 26
1379588 TGGACTATCT
*
1379598 CAACGAACTTAGAATAAATTGCAACG
1 CAACGAACTTAGAATAAATCGCAACG
*
1379624 CAACGAACTTGGAATAAATCGCAACG
1 CAACGAACTTAGAATAAATCGCAACG
*
1379650 CAACGAACTTTGAATAAATCGCAACG
1 CAACGAACTTAGAATAAATCGCAACG
1379676 C
1 C
1379677 GAATTTGGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (26 bp):
CAACGAACTTAGAATAAATCGCAACG
Found at i:1379689 original size:21 final size:21
Alignment explanation
Indices: 1379627--1379720 Score: 71
Period size: 21 Copynumber: 4.1 Consensus size: 21
1379617 TGCAACGCAA
1379627 CGAACTTGGAATAAATCGCAACG
1 CGAACTTGG-A-AAATCGCAACG
*
1379650 CAACGAACTTTGAATAAATCGCAACG
1 ---CGAAC-TTGGA-AAATCGCAACG
* *
1379676 CGAATTTGGAAAATCGTAACG
1 CGAACTTGGAAAATCGCAACG
** *
1379697 CGAACTTGGACTATCGCAATG
1 CGAACTTGGAAAATCGCAACG
1379718 CGA
1 CGA
1379721 TAGTCGAAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
21 29 0.50
22 4 0.07
23 4 0.07
26 18 0.31
27 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (21 bp):
CGAACTTGGAAAATCGCAACG
Found at i:1381308 original size:6 final size:6
Alignment explanation
Indices: 1381290--1381330 Score: 73
Period size: 6 Copynumber: 6.7 Consensus size: 6
1381280 ACAGCATCCA
1381290 AATGGC AAATGGC AATGGC AATGGC AATGGC AATGGC AATG
1 AATGGC -AATGGC AATGGC AATGGC AATGGC AATGGC AATG
1381331 AGCCAATGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.37, C:0.15, G:0.32, T:0.17
Consensus pattern (6 bp):
AATGGC
Found at i:1385226 original size:14 final size:15
Alignment explanation
Indices: 1385140--1385229 Score: 122
Period size: 15 Copynumber: 6.5 Consensus size: 15
1385130 TAATAAGGTT
1385140 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
1385155 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
1385170 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
1385185 ATTTA-TTT----TA
1 ATTTATTTTAAAATA
1385195 A-TTATTTTAAAATA
1 ATTTATTTTAAAATA
1385209 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
1385223 ATTTATT
1 ATTTATT
1385230 AGTATGGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
9 3 0.04
10 6 0.09
14 17 0.25
15 41 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:1385248 original size:22 final size:22
Alignment explanation
Indices: 1385232--1385274 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1385222 AATTTATTAG
1385232 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1385254 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1385275 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1385249 original size:32 final size:32
Alignment explanation
Indices: 1385209--1385622 Score: 167
Period size: 32 Copynumber: 12.4 Consensus size: 32
1385199 TTTTAAAATA
1385209 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1385241 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1385263 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* * *
1385295 ATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 ATTTATTTT-AAATA---ATTTA-TTAGTA-TGGA-TTG
**
1385334 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 -ATTTA-T-------TTTAAATAATTTATTAGTATGGATTG
*
1385375 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* * *
1385407 ATTTATTTTAAAATATGGATTGATTTATTATTG-TTG
1 ATTTATTTT-AAATA---ATTTA-TTAGTATGGATTG
* * * * * * **
1385443 -TTGTATGGATTGATTTATTT-TAAATAATTTATTAG
1 ATT-TAT--TTTAAATAATTTATTAGT-ATGGATT-G
** * ** * * *
1385478 TATGGA-TTGATTTATTTTA-AAATATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTG
1385509 ATTTATTTTAAATAA-TTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1385540 ATTTATTTTAAATAATTTATTATAGTATTGGATTGATTG
1 ATTTATTTTAAATAATTTA-T-TAGTA-T-G---GATTG
* *
1385579 ATTTATTTTAAATAATATATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1385611 ATTTATTTTAAA
1 ATTTATTTTAAA
1385623 ATATGAATTG
Statistics
Matches: 289, Mismatches: 43, Indels: 100
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.05
23 4 0.01
25 1 0.00
26 3 0.01
28 3 0.01
29 1 0.00
30 6 0.02
31 35 0.12
32 84 0.29
33 24 0.08
34 10 0.03
35 5 0.02
36 17 0.06
37 19 0.07
38 6 0.02
39 27 0.09
40 6 0.02
41 4 0.01
42 3 0.01
43 5 0.02
44 4 0.01
47 5 0.02
48 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:1385267 original size:54 final size:54
Alignment explanation
Indices: 1385209--1385435 Score: 288
Period size: 54 Copynumber: 4.1 Consensus size: 54
1385199 TTTTAAAATA
1385209 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1385263 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1385317 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
*
1385375 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1385429 ATTTATT
1 ATTTATT
1385436 ATTGTTGTTG
Statistics
Matches: 153, Mismatches: 2, Indels: 36
0.80 0.01 0.19
Matches are distributed among these distances:
48 18 0.12
49 5 0.03
50 2 0.01
52 5 0.03
54 75 0.49
55 2 0.01
57 2 0.01
58 14 0.09
60 5 0.03
62 2 0.01
63 5 0.03
64 18 0.12
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:1385349 original size:80 final size:79
Alignment explanation
Indices: 1385231--1385639 Score: 359
Period size: 80 Copynumber: 5.2 Consensus size: 79
1385221 TAATTTATTA
* *
1385231 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1 GTATGGATTTA-TTATTGTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1385296 TTTATTTTAAAATAT
65 TTTATTTTAAAATAT
* * ***
1385311 GGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1 GTATGGATTTATTATTGTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1385376 TTTATTTTAAATAATTTATTT
65 TTTATTTT-AA-AA--TA--T
* * *
1385397 GTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTTGTT-GTATGGATTG
1 GTATGGATTTA-TTATTGTAAAATATGGATTGATTTATTTTAAATAAT-TTATTAGTATGGATTG
1385455 ATTTATTTTAAATAATTTATT
64 ATTTATTTT-AA-AA--TA-T
* *
1385476 AGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAA-TTATTAGTATGGATTG
1 -GTATGGATTTA-TTATTGTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1385540 ATTTATTTT-AAATAAT
64 ATTTATTTTAAAAT-AT
* * * *
1385556 -T-T--ATTATAGTATTG---GAT-T-GATTGATTTATTTTAAATAATATATTAGTATGAATTGA
1 GTATGGATT-TATTATTGTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1385612 TTTATTTTAAAATAT
65 TTTATTTTAAAATAT
* *
1385627 GAATTGATTTATT
1 GTATGGATTTATT
1385640 TTAAATAATT
Statistics
Matches: 280, Mismatches: 24, Indels: 56
0.78 0.07 0.16
Matches are distributed among these distances:
70 20 0.07
71 26 0.09
72 6 0.02
73 1 0.00
74 3 0.01
75 10 0.04
76 1 0.00
77 1 0.00
78 1 0.00
79 9 0.03
80 127 0.45
81 7 0.03
82 8 0.03
83 1 0.00
84 10 0.04
85 19 0.07
86 23 0.08
87 7 0.03
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (79 bp):
GTATGGATTTATTATTGTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
TTATTTTAAAATAT
Found at i:1385382 original size:112 final size:112
Alignment explanation
Indices: 1385254--1385498 Score: 472
Period size: 112 Copynumber: 2.2 Consensus size: 112
1385244 TATTTTAAAA
1385254 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1385319 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
*
1385366 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
1385431 TTATTATTGTTGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
1385478 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1385499 ATATGGATTG
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 131 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.53
Consensus pattern (112 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
Done.