Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009460.1 Hibiscus syriacus cultivar Beakdansim tig00113722_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: 2853300
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 2 of 14
Found at i:222268 original size:27 final size:27
Alignment explanation
Indices: 222238--222294 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
222228 GAGATTGTTG
*
222238 TTATCATTATCTGAACGCAAACCAAAA
1 TTATCATTATATGAACGCAAACCAAAA
*
222265 TTATCATTATATGAACGCAATCCAAAA
1 TTATCATTATATGAACGCAAACCAAAA
222292 TTA
1 TTA
222295 ACAAAGATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (27 bp):
TTATCATTATATGAACGCAAACCAAAA
Found at i:243635 original size:25 final size:24
Alignment explanation
Indices: 243591--243640 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
243581 AATGTATTGA
243591 ATATCTTAATAATTATTTATATTTT
1 ATATCTTAATAATTATTTAT-TTTT
*
243616 ATATTTTAATAATT-TCTTATTTTT
1 ATATCTTAATAATTAT-TTATTTTT
243640 A
1 A
243641 AAATTAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATCTTAATAATTATTTATTTTT
Found at i:247484 original size:2 final size:2
Alignment explanation
Indices: 247477--247503 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
247467 AATGAAAAAT
247477 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
247504 TCTTTTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:247632 original size:15 final size:14
Alignment explanation
Indices: 247612--247663 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 14
247602 TAACCTCATT
247612 ATTAAATTATTTTGA
1 ATTAAATTATTTT-A
247627 ATTAAATTAATAATTT-
1 ATTAAATT-AT--TTTA
247643 ATTAAATTATTTTAA
1 ATTAAATTATTTT-A
247658 ATTAAA
1 ATTAAA
247664 ATAAAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.09
15 16 0.50
16 10 0.31
18 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
ATTAAATTATTTTA
Found at i:247648 original size:31 final size:30
Alignment explanation
Indices: 247610--247671 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 30
247600 TATAACCTCA
* *
247610 TTATTAAATTATTTTGAATTAAATTAATAAT
1 TTATTAAATTATTTTAAATTAAAATAA-AAT
247641 TTATTAAATTATTTTAAATTAAAATAAAAT
1 TTATTAAATTATTTTAAATTAAAATAAAAT
247671 T
1 T
247672 AATAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
TTATTAAATTATTTTAAATTAAAATAAAAT
Found at i:249202 original size:16 final size:16
Alignment explanation
Indices: 249169--249209 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
249159 GTTTACTTTA
249169 GAATGATT-AAACGCT
1 GAATGATTCAAACGCT
*
249184 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
249200 GAATGATTCA
1 GAATGATTCA
249210 GAGGCTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:262546 original size:31 final size:31
Alignment explanation
Indices: 262505--262575 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
262495 TTAAGAGGGA
* *
262505 ATAGTCCCTAA-ACTTATCGATCCATTTAATT
1 ATAGTTCCTAACA-TTATCGATCCATTCAATT
* *
262536 ATAGTTCCTAACATTATCGATCTATTCGATT
1 ATAGTTCCTAACATTATCGATCCATTCAATT
*
262567 TTAGTTCCT
1 ATAGTTCCT
262576 CATTCGTTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.42
Consensus pattern (31 bp):
ATAGTTCCTAACATTATCGATCCATTCAATT
Found at i:267555 original size:20 final size:20
Alignment explanation
Indices: 267530--267567 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
267520 CTATATGAGT
267530 TTGTTTTATTTATCTTTTGA
1 TTGTTTTATTTATCTTTTGA
*
267550 TTGTTTTATTTATGTTTT
1 TTGTTTTATTTATCTTTT
267568 AAATGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.03, G:0.11, T:0.74
Consensus pattern (20 bp):
TTGTTTTATTTATCTTTTGA
Found at i:281043 original size:21 final size:21
Alignment explanation
Indices: 281017--281056 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
281007 CAGAACCACA
*
281017 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
281038 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
281057 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:281091 original size:20 final size:21
Alignment explanation
Indices: 281037--281099 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
281027 GATTCCCCTG
281037 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
281061 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
281081 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
281100 TACACAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:284940 original size:22 final size:21
Alignment explanation
Indices: 284898--284937 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
284888 GAGTTTGTTT
*
284898 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
284919 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
284938 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:288394 original size:425 final size:421
Alignment explanation
Indices: 287615--288402 Score: 1461
Period size: 425 Copynumber: 1.9 Consensus size: 421
287605 TTTTGTTTTG
287615 TTTCTTTTTGTTTCGGTTATTTTTTCGTTTGAACCCTCTTTTCCCTCTATTTTTTGAATTATTTT
1 TTTCTTTTTGTTTCGGTTATTTTTTCGTTTGAACCCTCTTTTCCCTCTATTTTTTGAATTATTTT
287680 CCTCTTCTTTTTTTGTTCATTCGAGCTCTCTCACATATTTTCTTATTCTTTTTTTCTTCTTTTCG
66 CCTCTTCTTTTTTTGTTCATTCGAGCTCTCTCACATATTTTCTTATTCTTTTTTTCTTCTTTTCG
*
287745 TTTGAATCAGTCCCCCTTTTTATTTCTATGTTTTTGCGTGTTATGGTTGCTTCTTGGCAGAGGTG
131 TTTGAATCAATCCCCCTTTTTATTTCTATGTTTTTGCGTGTTATGGTTGCTTCTTGGCAGAGGTG
*
287810 ATGATGGTGTAGGAATATGGTTCCTAGATATGTTCATTTTTAATGGGTTTAATTTGATTTTTTGA
196 ATGATGGTGTAGGAATATGGTTCCCAGATATGTTCATTTTTAATGGGTTTAATTTGATTTTTTGA
* *
287875 TTGATTTCTCACTATTTGATTTATTCCTTGTTAGTTTTGGCTGAAATGGTGACGTCAGATTTAGC
261 TTGATTGCTCACTATTTGATTTATTCCTTGTTAGTTTGGGCTGAAATGGTGACGTCAGATTTAGC
287940 CTAAGCAGCGACGACAACAAAAGGTGGCGACAGCGGCATTAGAAGGTCTATCCACTCCTATGAGC
326 CTAAGCAGCGACGACAACAAAAGGTGGCGACAGCGGCATTAGAAGGTCTATCCACTCCTATGAGC
288005 GATAATTGTTGTTTTCAGAAGGTAAAACTAT
391 GATAATTGTTGTTTTCAGAAGGTAAAACTAT
*
288036 TTTCTTTTTGTTTTGGTTATTTTTTCGTTTGAACCCTCTTTTCCCTCTATTTTTTGAATTATTTT
1 TTTCTTTTTGTTTCGGTTATTTTTTCGTTTGAACCCTCTTTTCCCTCTATTTTTTGAATTATTTT
* *
288101 CCTTTTCTTTTTTTTGTTCATTCGAGCTCTCTCACATATTTTCTTATTCTTTTTTTTTCTTTTTT
66 CCTCTTC-TTTTTTTGTTCATTCGAGCTCTCTCACATATTTTCTTATTC--TTTTTTTCTTCTTT
288166 TCGTTTGAATCAATCCCCCTTTTTATTTCTATGTTTTTGCGTGTTATGGTTGCTTCTTGGCAGAG
128 TCGTTTGAATCAATCCCCCTTTTTATTTCTATGTTTTTGCGTGTTATGGTTGCTTCTTGGCAGAG
288231 GTGATGATGGTGTAGGAATATGGTTCCCAGATATGTTCATTTTTTAATGGGTTTAATTTGATTTT
193 GTGATGATGGTGTAGGAATATGGTTCCCAGATATGTTCA-TTTTTAATGGGTTTAATTTGATTTT
288296 TTGATTGATTGCTCACTATTTGATTTATTCCTTGTTAGTTTGGGCTGAAATGGTGACGTCAGATT
257 TTGATTGATTGCTCACTATTTGATTTATTCCTTGTTAGTTTGGGCTGAAATGGTGACGTCAGATT
288361 TAGCCTAAGCAAG-GACGACAACAAAAGGTGGCGACAGCGGCA
322 TAGCCTAAGC-AGCGACGACAACAAAAGGTGGCGACAGCGGCA
288403 ACAAGAGTCA
Statistics
Matches: 355, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
421 70 0.20
422 41 0.12
424 115 0.32
425 127 0.36
426 2 0.01
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.47
Consensus pattern (421 bp):
TTTCTTTTTGTTTCGGTTATTTTTTCGTTTGAACCCTCTTTTCCCTCTATTTTTTGAATTATTTT
CCTCTTCTTTTTTTGTTCATTCGAGCTCTCTCACATATTTTCTTATTCTTTTTTTCTTCTTTTCG
TTTGAATCAATCCCCCTTTTTATTTCTATGTTTTTGCGTGTTATGGTTGCTTCTTGGCAGAGGTG
ATGATGGTGTAGGAATATGGTTCCCAGATATGTTCATTTTTAATGGGTTTAATTTGATTTTTTGA
TTGATTGCTCACTATTTGATTTATTCCTTGTTAGTTTGGGCTGAAATGGTGACGTCAGATTTAGC
CTAAGCAGCGACGACAACAAAAGGTGGCGACAGCGGCATTAGAAGGTCTATCCACTCCTATGAGC
GATAATTGTTGTTTTCAGAAGGTAAAACTAT
Found at i:291386 original size:20 final size:20
Alignment explanation
Indices: 291358--291405 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
291348 CTGGGTACGT
*
291358 AGTACCGATAATGTTCTTAC
1 AGTATCGATAATGTTCTTAC
*
291378 AGTATCGATAATGTTCTTAT
1 AGTATCGATAATGTTCTTAC
291398 AGTATCGA
1 AGTATCGA
291406 CATTGCATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
AGTATCGATAATGTTCTTAC
Found at i:292900 original size:19 final size:19
Alignment explanation
Indices: 292874--292919 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
292864 ATGACTTTCT
292874 TTTTAAAA-CAAAAATG-AA
1 TTTTAAAATC-AAAATGAAA
292892 TTTTGAAAATCAAAATGAAA
1 TTTT-AAAATCAAAATGAAA
292912 TTTTAAAA
1 TTTTAAAA
292920 AAAGGATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.16
19 14 0.56
20 7 0.28
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (19 bp):
TTTTAAAATCAAAATGAAA
Found at i:293797 original size:75 final size:76
Alignment explanation
Indices: 293651--293799 Score: 223
Period size: 75 Copynumber: 2.0 Consensus size: 76
293641 AGGATAATAT
* * * *
293651 TTTATCTTTGTATTTTAGTTTAAATATGTTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTT
1 TTTATCTTTGTATTTTAGTTTAAATATGGTTTTAGTATTTTAATTAAGATTTAGAATATTATTTA
293716 TATATTTTATC
66 TATATTTTATC
293727 TTTATCTTTGTATTTTAGTTTAAATA-GGTTTTAGTATTTTAATT-AGAATTTAGAATATTATAT
1 TTTATCTTTGTATTTTAGTTTAAATATGGTTTTAGTATTTTAATTAAG-ATTTAGAATATTAT-T
293790 TAT-TATTTTA
64 TATATATTTTA
293800 GGTATTTTAG
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
74 2 0.03
75 36 0.54
76 29 0.43
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (76 bp):
TTTATCTTTGTATTTTAGTTTAAATATGGTTTTAGTATTTTAATTAAGATTTAGAATATTATTTA
TATATTTTATC
Found at i:294461 original size:21 final size:23
Alignment explanation
Indices: 294436--294483 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
294426 CTTTAATTTG
294436 TTTATTTAATT-AT-TTTTTTAT
1 TTTATTTAATTCATATTTTTTAT
*
294457 TTTATTTAATTCTTATTTTTTAT
1 TTTATTTAATTCATATTTTTTAT
294480 TTTA
1 TTTA
294484 ACCACAACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 11 0.46
22 1 0.04
23 12 0.50
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTATTTAATTCATATTTTTTAT
Found at i:300174 original size:11 final size:10
Alignment explanation
Indices: 300151--300190 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
300141 ATATTTTTGT
300151 TTTTATTTT-
1 TTTTATTTTC
300160 TTTTATTTTC
1 TTTTATTTTC
300170 ATTTTATTTTC
1 -TTTTATTTTC
300181 GTTTTATTTT
1 -TTTTATTTT
300191 TTAGCGAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
9 9 0.32
11 19 0.68
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (10 bp):
TTTTATTTTC
Found at i:300340 original size:30 final size:30
Alignment explanation
Indices: 300296--300358 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
300286 AACAGTACAG
* *
300296 AAAAACTGACTTGGTTCGAACTGTGCAGAA
1 AAAAACCGACTTGGTTCGAACAGTGCAGAA
*
300326 AAAAACCGATTTGGTTCGAACAGTGCAGAA
1 AAAAACCGACTTGGTTCGAACAGTGCAGAA
300356 AAA
1 AAA
300359 TACACAGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (30 bp):
AAAAACCGACTTGGTTCGAACAGTGCAGAA
Found at i:301043 original size:19 final size:20
Alignment explanation
Indices: 301000--301041 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
300990 CACCTAGGAT
*
301000 AAACCCACTTTTCCCAAAAA
1 AAACCCACTTTTACCAAAAA
301020 AAACCCACTTTTACCAAAAA
1 AAACCCACTTTTACCAAAAA
301040 AA
1 AA
301042 CCTACCCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (20 bp):
AAACCCACTTTTACCAAAAA
Found at i:302137 original size:76 final size:73
Alignment explanation
Indices: 302042--302240 Score: 239
Period size: 68 Copynumber: 2.8 Consensus size: 73
302032 TTTAGGATAA
* *
302042 TATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGTTTTAGGATATTAT
1 TATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATATTA-
* *
302107 TTTTATATTT
65 TATTAT-TAT
* *
302117 TATCTTTATCTTTGTATTTTAGTTTAAATATG-TTTTAGTATTTTAATTAGGATTTAGAATATTA
1 TAT-TTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATATTA
302181 TATTATTAT
65 TATTATTAT
* * * *
302190 TATTTTA----GGTATTTTAGTTTAAAT-GGTTTTAAGTGTTTTAATTAGGATTTA
1 TATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTA
302241 AGATGTTTTA
Statistics
Matches: 112, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
67 1 0.01
68 38 0.34
72 4 0.04
73 5 0.04
74 5 0.04
75 32 0.29
76 27 0.24
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (73 bp):
TATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATATTAT
ATTATTAT
Found at i:302511 original size:19 final size:19
Alignment explanation
Indices: 302487--302527 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
302477 CTTAAATCGC
302487 TTCGGATTTTCTCTCTATT
1 TTCGGATTTTCTCTCTATT
*
302506 TTCGGATTTTCTCTCTGTT
1 TTCGGATTTTCTCTCTATT
302525 TTC
1 TTC
302528 TGAAGCTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.07, C:0.22, G:0.12, T:0.59
Consensus pattern (19 bp):
TTCGGATTTTCTCTCTATT
Found at i:302878 original size:21 final size:22
Alignment explanation
Indices: 302853--302893 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
302843 CTTTAATTTG
302853 TTTATTTAATTATT-TTTTTCT
1 TTTATTTAATTATTATTTTTCT
*
302874 TTTATTTAATTCTTATTTTT
1 TTTATTTAATTATTATTTTT
302894 TATTTTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTATTTAATTATTATTTTTCT
Found at i:303051 original size:21 final size:20
Alignment explanation
Indices: 303027--303065 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
303017 AAATTCTATC
*
303027 TTTTTCTAAAATCAAGAAAGA
1 TTTTTATAAAATC-AGAAAGA
*
303048 TTTTTATTAAATCAGAAA
1 TTTTTATAAAATCAGAAA
303066 CACCACAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
TTTTTATAAAATCAGAAAGA
Found at i:303303 original size:19 final size:19
Alignment explanation
Indices: 303257--303303 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
303247 AATGACTTTC
* *
303257 TTTTTAAATCAAAAATGGA
1 TTTTAAAATCAAAAATGAA
303276 TTTTGAAAATC-AAAATGAAA
1 TTTT-AAAATCAAAAATG-AA
303296 TTTTAAAA
1 TTTTAAAA
303304 AAGGATTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (19 bp):
TTTTAAAATCAAAAATGAA
Found at i:303304 original size:20 final size:20
Alignment explanation
Indices: 303262--303304 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
303252 CTTTCTTTTT
* *
303262 AAATCAAAAATGGATTTTGA
1 AAATCAAAAATGAATTTTAA
303282 AAATC-AAAATGAAATTTTAA
1 AAATCAAAAATG-AATTTTAA
303302 AAA
1 AAA
303305 AGGATTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (20 bp):
AAATCAAAAATGAATTTTAA
Found at i:322662 original size:20 final size:20
Alignment explanation
Indices: 322634--322671 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
322624 TTATACATTT
322634 AAAACATAAATAAAACAATC
1 AAAACATAAATAAAACAATC
*
322654 AAAAGATAAATAAAACAA
1 AAAACATAAATAAAACAA
322672 ACTCATATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.11, G:0.03, T:0.13
Consensus pattern (20 bp):
AAAACATAAATAAAACAATC
Found at i:326281 original size:12 final size:12
Alignment explanation
Indices: 326256--326348 Score: 73
Period size: 12 Copynumber: 7.8 Consensus size: 12
326246 ACGGAGATAT
* *
326256 CAGAAATCAAAA
1 CAGAATTCAGAA
326268 CAGAATTCAGAA
1 CAGAATTCAGAA
326280 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* * *
326292 CAGAATCCATAT
1 CAGAATTCAGAA
*
326304 CAGAAATCAGAA
1 CAGAATTCAGAA
**
326316 CAGAATTCAGGT
1 CAGAATTCAGAA
*
326328 CATGTA-TCAGAA
1 CA-GAATTCAGAA
326340 CAGAATTCA
1 CAGAATTCA
326349 AGTCAGAAAT
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
11 4 0.07
12 53 0.87
13 4 0.07
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.18
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:326283 original size:24 final size:24
Alignment explanation
Indices: 326256--326362 Score: 101
Period size: 24 Copynumber: 4.5 Consensus size: 24
326246 ACGGAGATAT
*
326256 CAGAAATCAAAACAGAATTCAGAA
1 CAGAAATCAGAACAGAATTCAGAA
* * * *
326280 CAGATATCAGAACAGAATCCATAT
1 CAGAAATCAGAACAGAATTCAGAA
**
326304 CAGAAATCAGAACAGAATTCAGGT
1 CAGAAATCAGAACAGAATTCAGAA
* *
326328 CATG-TATCAGAACAGAATTCA-AGT
1 CA-GAAATCAGAACAGAATTCAGA-A
326352 CAGAAATCAGA
1 CAGAAATCAGA
326363 TAAAATATTT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
23 1 0.01
24 66 0.97
25 1 0.01
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.18
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAGAA
Found at i:326323 original size:48 final size:48
Alignment explanation
Indices: 326252--326362 Score: 154
Period size: 48 Copynumber: 2.3 Consensus size: 48
326242 GTAAACGGAG
*
326252 ATATCAGAAATCAAAACAGAATTCAGAACA-GATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATTCAGAACATG-TATCAGAACAGAATCC
** *
326300 ATATCAGAAATCAGAACAGAATTCAGGTCATGTATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTCAGAACATGTATCAGAACAGAATCC
326348 A-AGTCAGAAATCAGA
1 ATA-TCAGAAATCAGA
326363 TAAAATATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.02
48 55 0.96
49 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (48 bp):
ATATCAGAAATCAGAACAGAATTCAGAACATGTATCAGAACAGAATCC
Found at i:327973 original size:17 final size:19
Alignment explanation
Indices: 327937--327975 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
327927 ACAAAACTAT
327937 TATTTCTTATGCACATCAA
1 TATTTCTTATGCACATCAA
*
327956 TATTT-TTAT-CAGATCAA
1 TATTTCTTATGCACATCAA
327973 TAT
1 TAT
327976 ATCTGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 4 0.21
19 5 0.26
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.46
Consensus pattern (19 bp):
TATTTCTTATGCACATCAA
Found at i:330936 original size:12 final size:12
Alignment explanation
Indices: 330919--331001 Score: 64
Period size: 12 Copynumber: 6.9 Consensus size: 12
330909 CATAAACCAA
330919 AACAGAATTCAG
1 AACAGAATTCAG
330931 AACAG-ATATCAG
1 AACAGAAT-TCAG
*
330943 AACA-AAATCTAG
1 AACAGAATTC-AG
* *
330955 ATCAGAAATCAG
1 AACAGAATTCAG
330967 AACAGAATTCAG
1 AACAGAATTCAG
** *
330979 GTCATGTA-TCAG
1 AACA-GAATTCAG
330991 AACAGAATTCA
1 AACAGAATTCA
331002 AGTCAGAAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
11 6 0.11
12 42 0.76
13 7 0.13
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:330989 original size:48 final size:48
Alignment explanation
Indices: 330919--331015 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 48
330909 CATAAACCAA
*
330919 AACAGAATTCAGAACAGATATCAGAACA-AAATCTAGATCAGAAATCAG
1 AACAGAATTCAGAACAGATATCAGAACAGAAATCAAG-TCAGAAATCAG
** *
330967 AACAGAATTCAGGTCATG-TATCAGAACAGAATTCAAGTCAGAAATCAG
1 AACAGAATTCAGAACA-GATATCAGAACAGAAATCAAGTCAGAAATCAG
331015 A
1 A
331016 TAAAATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 36 0.84
49 7 0.16
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.19
Consensus pattern (48 bp):
AACAGAATTCAGAACAGATATCAGAACAGAAATCAAGTCAGAAATCAG
Found at i:331013 original size:24 final size:25
Alignment explanation
Indices: 330919--331015 Score: 96
Period size: 24 Copynumber: 4.0 Consensus size: 25
330909 CATAAACCAA
* *
330919 AACAGAATTC-AGAACAGATATCAG
1 AACAGAATTCAAGATCAGAAATCAG
* *
330943 AACA-AAATCTAGATCAGAAATCAG
1 AACAGAATTCAAGATCAGAAATCAG
* *
330967 AACAGAATTC-AGGTCATG-TATCAG
1 AACAGAATTCAAGATCA-GAAATCAG
330991 AACAGAATTCAAG-TCAGAAATCAG
1 AACAGAATTCAAGATCAGAAATCAG
331015 A
1 A
331016 TAAAATATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
23 5 0.08
24 49 0.80
25 7 0.11
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.19
Consensus pattern (25 bp):
AACAGAATTCAAGATCAGAAATCAG
Found at i:332586 original size:17 final size:19
Alignment explanation
Indices: 332550--332588 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
332540 ACAAAACTAT
332550 TATTTCTTATGCACATCAA
1 TATTTCTTATGCACATCAA
*
332569 TATTT-TTAT-CAGATCAA
1 TATTTCTTATGCACATCAA
332586 TAT
1 TAT
332589 GTCTGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 4 0.21
19 5 0.26
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.46
Consensus pattern (19 bp):
TATTTCTTATGCACATCAA
Found at i:333456 original size:18 final size:18
Alignment explanation
Indices: 333429--333474 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
333419 CGCCGGTCAA
*
333429 CGGGTTGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
333447 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
333465 CGGGTCGGGT
1 CGGGTCGGGT
333475 TGTGATCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.09, C:0.20, G:0.52, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:333470 original size:13 final size:13
Alignment explanation
Indices: 333423--333452 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
333413 GGTCAACGCC
*
333423 GGTCAACGGGTTG
1 GGTCAACGGGTCG
333436 GGTCAACGGGTCG
1 GGTCAACGGGTCG
333449 GGTC
1 GGTC
333453 GGGTCAACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.20, G:0.47, T:0.20
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:334753 original size:60 final size:60
Alignment explanation
Indices: 334638--334753 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
334628 TGATTAGTCG
* * **
334638 GATGATCATTGTGTAACTTTTAATAGTCAAGAGACGTAATAAAGTAACATTCTATAGTTA
1 GATGACCATTGTGTAACTTTTAATAGTCAAGAGACGTAATAAAATAACACCCTATAGTTA
* * * * **
334698 GATGACCATTTTGTAACTTTTCATAGTCAAGGGACTTAATAAAATAGTACCCTATA
1 GATGACCATTGTGTAACTTTTAATAGTCAAGAGACGTAATAAAATAACACCCTATA
334754 ATCGAGTGAC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (60 bp):
GATGACCATTGTGTAACTTTTAATAGTCAAGAGACGTAATAAAATAACACCCTATAGTTA
Found at i:334878 original size:27 final size:26
Alignment explanation
Indices: 334848--334905 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
334838 ATGTTTCCTA
*
334848 ATTTTCAAAAAACTGAAAAT-GAAAATT
1 ATTTTCAAAAAAC-AAAAATAGAAAA-T
**
334875 ATTTTCTGAAAACAAAAATAGAAAAT
1 ATTTTCAAAAAACAAAAATAGAAAAT
334901 ATTTT
1 ATTTT
334906 TCTAAACCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (26 bp):
ATTTTCAAAAAACAAAAATAGAAAAT
Found at i:334906 original size:27 final size:25
Alignment explanation
Indices: 334863--334917 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
334853 CAAAAAACTG
334863 AAAATGAAAATTATTTTCTGAAAACA
1 AAAATGAAAATTATTTTCT-AAAACA
*
334889 AAAATAGAAAA-TATTTTTCTAAACCA
1 AAAAT-GAAAATTA-TTTTCTAAAACA
334915 AAA
1 AAA
334918 GGGACCCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.29
Consensus pattern (25 bp):
AAAATGAAAATTATTTTCTAAAACA
Found at i:340279 original size:6 final size:6
Alignment explanation
Indices: 340268--340306 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
340258 AAAGTGCCCT
340268 TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCT
1 TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCT
340307 GTAGTCCCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
TCTCCC
Found at i:341533 original size:31 final size:33
Alignment explanation
Indices: 341485--341563 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
341475 TTTAAATAGT
* *
341485 TATTATATTTTATATT-AAT-ATATTTATGTAAA
1 TATTAT-TTTTTTATTAAATAATATTTATATAAA
*
341517 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATT-AAATAATATTTATATAAA
*
341551 TATTATTTATTTA
1 TATTATTTTTTTA
341564 GAATTATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 8 0.20
32 6 0.15
33 3 0.08
34 23 0.57
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (33 bp):
TATTATTTTTTTATTAAATAATATTTATATAAA
Found at i:341555 original size:34 final size:31
Alignment explanation
Indices: 341475--341563 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 31
341465 TTAGTATTTT
* * *
341475 TTTAAATAGTTATTATATTTTATATTAATATA
1 TTTATATAATTATTAT-TTTTTTATTAATATA
* *
341507 TTTATGTAAATATTATTTTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTTTATT--AAT-ATA
*
341541 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTTTTTTA
341564 GAATTATTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 8 0.17
32 12 0.26
33 3 0.07
34 23 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (31 bp):
TTTATATAATTATTATTTTTTTATTAATATA
Found at i:341725 original size:17 final size:17
Alignment explanation
Indices: 341703--341756 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
341693 AATATTAATA
341703 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
341720 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
341737 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
341754 TTT
1 TTT
341757 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:346238 original size:21 final size:21
Alignment explanation
Indices: 346212--346264 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
346202 GTTTCCAGAT
346212 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
*
346233 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTCGACTA
*
346254 TCGCAATGCGA
1 TCGCAACGCGA
346265 TTTACATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:346310 original size:21 final size:21
Alignment explanation
Indices: 346283--346531 Score: 140
Period size: 21 Copynumber: 12.1 Consensus size: 21
346273 TTTGCATTGT
346283 GATAGTCCAAGTTCGCGTTGC
1 GATAGTCCAAGTTCGCGTTGC
* *
346304 TATAGTCGAAGTTCGCGTTGC
1 GATAGTCCAAGTTCGCGTTGC
** *
346325 GATTTTCCAAATT--CGTTGC
1 GATAGTCCAAGTTCGCGTTGC
*
346344 GATAGTCGAAGTTCGCGTTGC
1 GATAGTCCAAGTTCGCGTTGC
* * * *
346365 GATTTATTCTAAATT--CATTGC
1 GA--TAGTCCAAGTTCGCGTTGC
* *
346386 GATAGTCGAAGTTCGCGTTAC
1 GATAGTCCAAGTTCGCGTTGC
* ** * * *
346407 GGTTTTCTAAATT--AGTTGC
1 GATAGTCCAAGTTCGCGTTGC
*
346426 GATAGTCGAAGTTCGCGTTGC
1 GATAGTCCAAGTTCGCGTTGC
** * *
346447 GATTTTTCAAATT--CGTTGC
1 GATAGTCCAAGTTCGCGTTGC
* *
346466 GATAGTCAAAGTTAGCGTTGC
1 GATAGTCCAAGTTCGCGTTGC
* *
346487 GATTTATTCCAAATT--CGTTGC
1 GA--TAGTCCAAGTTCGCGTTGC
*
346508 GATAGTCGAAGTTCGCGTTGC
1 GATAGTCCAAGTTCGCGTTGC
346529 GAT
1 GAT
346532 TTATTCCAAA
Statistics
Matches: 165, Mismatches: 49, Indels: 28
0.68 0.20 0.12
Matches are distributed among these distances:
19 57 0.35
21 92 0.56
23 16 0.10
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (21 bp):
GATAGTCCAAGTTCGCGTTGC
Found at i:346349 original size:40 final size:42
Alignment explanation
Indices: 346298--346556 Score: 386
Period size: 40 Copynumber: 6.3 Consensus size: 42
346288 TCCAAGTTCG
*
346298 CGTTGCTATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
346338 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCTAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* * * *
346380 CATTGCGATAGTCGAAGTTCGCGTTACG-GTT-TTCTAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
346420 AGTTGCGATAGTCGAAGTTCGCGTTGCGATTT-TT-CAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* *
346460 CGTTGCGATAGTCAAAGTTAGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
346502 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
346544 TGTTGCGATAGTC
1 CGTTGCGATAGTC
346557 CAAAATCGTA
Statistics
Matches: 198, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
40 96 0.48
41 10 0.05
42 92 0.46
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (42 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:346442 original size:82 final size:81
Alignment explanation
Indices: 346298--346556 Score: 394
Period size: 82 Copynumber: 3.2 Consensus size: 81
346288 TCCAAGTTCG
*
346298 CGTTGCTATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
346363 GCGATTTATTCTAAATT
66 GCGATTTATTC-AAATT
* * * * *
346380 CATTGCGATAGTCGAAGTTCGCGTTACGGTTTTCTAAATTAGTTGCGATAGTCGAAGTTCGCGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
346445 GCGATTT-TTCAAATT
66 GCGATTTATTCAAATT
* *
346460 CGTTGCGATAGTCAAAGTTAGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
346525 TTGCGATTTATTCCAAATT
64 TTGCGATTTATT-CAAATT
*
346544 TGTTGCGATAGTC
1 CGTTGCGATAGTC
346557 CAAAATCGTA
Statistics
Matches: 159, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
80 29 0.18
81 5 0.03
82 105 0.66
83 2 0.01
84 18 0.11
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (81 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
GCGATTTATTCAAATT
Found at i:346516 original size:122 final size:124
Alignment explanation
Indices: 346299--346556 Score: 412
Period size: 122 Copynumber: 2.1 Consensus size: 124
346289 CCAAGTTCGC
* * *
346299 GTTGCTATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTG
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCAAAGTTAGCGTTG
* *
346364 CGATTTATTCTAAATTCATTGCGATAGTCGAAGTTCGCGTTACG-GTT-TTCTAAATTA
66 CGATTTATTCCAAATTCATTGCGATAGTCGAAGTTCGCGTTACGAGTTATTCCAAATTA
*
346421 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTTCAAATTCGTTGCGATAGTCAAAGTTAGCGTTG
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCAAAGTTAGCGTTG
* * * *
346486 CGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTT
66 CGATTTATTCCAAATTCATTGCGATAGTCGAAGTTCGCGTTACGAGTTATTCCAAATTA
346545 GTTGCGATAGTC
1 GTTGCGATAGTC
346557 CAAAATCGTA
Statistics
Matches: 124, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
122 102 0.82
123 2 0.02
124 20 0.16
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (124 bp):
GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCAAAGTTAGCGTTG
CGATTTATTCCAAATTCATTGCGATAGTCGAAGTTCGCGTTACGAGTTATTCCAAATTA
Found at i:346548 original size:21 final size:21
Alignment explanation
Indices: 346441--346552 Score: 85
Period size: 21 Copynumber: 5.4 Consensus size: 21
346431 TCGAAGTTCG
346441 CGTTGCGATTT-TT-CAAATT
1 CGTTGCGATTTATTCCAAATT
*
346460 CGTTGCGA--TAGT-CAAAGTT
1 CGTTGCGATTTATTCCAAA-TT
346479 AGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
* * *
346502 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
346521 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
*
346544 TGTTGCGAT
1 CGTTGCGAT
346553 AGTCCAAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
17 1 0.01
18 5 0.07
19 18 0.25
21 32 0.44
23 13 0.18
24 4 0.05
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:346662 original size:6 final size:6
Alignment explanation
Indices: 346651--346675 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
346641 GACACGTATT
346651 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
346676 GACGACCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:347331 original size:21 final size:19
Alignment explanation
Indices: 347293--347418 Score: 81
Period size: 21 Copynumber: 6.1 Consensus size: 19
347283 CTAGTCGTTG
* *
347293 CGAATTTGGACTATCGCAA
1 CGAACTTGGAATATCGCAA
*
347312 CGAATTTGGAATAAATCGCAA
1 CGAACTTGGAAT--ATCGCAA
* *
347333 CGCGAACTTCGACTATCGCAA
1 --CGAACTTGGAATATCGCAA
347354 CGAACTTGGAATAAATCGCAA
1 CGAACTTGGAAT--ATCGCAA
* * *
347375 CGTGAACTTCGACTACCGCAA
1 C--GAACTTGGAATATCGCAA
*
347396 CGAATTTGGAATAAATCGCAA
1 CGAACTTGGAAT--ATCGCAA
347417 CG
1 CG
347419 TGAACTGAAG
Statistics
Matches: 84, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
19 29 0.35
21 37 0.44
23 18 0.21
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (19 bp):
CGAACTTGGAATATCGCAA
Found at i:347351 original size:42 final size:42
Alignment explanation
Indices: 347292--347424 Score: 212
Period size: 42 Copynumber: 3.2 Consensus size: 42
347282 ACTAGTCGTT
* *
347292 GCGAATTTGGACTATCGCAACGAATTTGGAATAAATCGCAAC
1 GCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAAC
*
347334 GCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAAC
1 GCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAAC
* *
347376 GTGAACTTCGACTACCGCAACGAATTTGGAATAAATCGCAAC
1 GCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAAC
*
347418 GTGAACT
1 GCGAACT
347425 GAAGTTCGCG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (42 bp):
GCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAAC
Found at i:355267 original size:20 final size:20
Alignment explanation
Indices: 355229--355267 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
355219 AAATAAATAA
* *
355229 ATATTATTATTTAATTAAAT
1 ATATTATTATATAACTAAAT
*
355249 ATATTTTTATATAACTAAA
1 ATATTATTATATAACTAAA
355268 ATAATAACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTATTATATAACTAAAT
Found at i:355281 original size:11 final size:12
Alignment explanation
Indices: 355259--355342 Score: 52
Period size: 12 Copynumber: 7.1 Consensus size: 12
355249 ATATTTTTAT
355259 ATAACTAAAATA
1 ATAACTAAAATA
355271 ATAAC-AAAATA
1 ATAACTAAAATA
* *
355282 ATAATTAAAGTA
1 ATAACTAAAATA
* *
355294 CTAATTAAATATA
1 ATAACTAAA-ATA
*
355307 TATAAATATAACAT-
1 -ATAACTA-AA-ATA
355321 AT-ACTAAAAT-
1 ATAACTAAAATA
355331 ATAA-TAAAATA
1 ATAACTAAAATA
355342 A
1 A
355343 AATTTAAACA
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
10 10 0.17
11 14 0.24
12 21 0.36
13 4 0.07
14 5 0.09
15 4 0.07
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (12 bp):
ATAACTAAAATA
Found at i:355332 original size:10 final size:10
Alignment explanation
Indices: 355257--355341 Score: 50
Period size: 11 Copynumber: 8.3 Consensus size: 10
355247 ATATATTTTT
355257 ATATAACTAAA
1 ATATAA-TAAA
*
355268 ATAATAACAAA
1 AT-ATAATAAA
355279 ATAATAATTAAA
1 AT-ATAA-TAAA
* *
355291 GTACTAATTAA
1 ATA-TAATAAA
*
355302 ATAT-ATATA
1 ATATAATAAA
*
355311 A-AT-ATAAC
1 ATATAATAAA
*
355319 ATATACTAAA
1 ATATAATAAA
355329 ATATAATAAA
1 ATATAATAAA
355339 ATA
1 ATA
355342 AAATTTAAAC
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
8 6 0.11
9 6 0.11
10 16 0.28
11 18 0.32
12 11 0.19
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (10 bp):
ATATAATAAA
Found at i:355663 original size:2 final size:2
Alignment explanation
Indices: 355656--355691 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
355646 CTAAAAAGAA
355656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
355692 CAAATTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:356998 original size:3 final size:3
Alignment explanation
Indices: 356978--357061 Score: 93
Period size: 3 Copynumber: 28.0 Consensus size: 3
356968 AAATGGCTTG
356978 TAA T-A TAA TAA -AA TTAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* * *
357023 TAA TAT TAA TAT TAA TTAT TAA TAA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
357062 AAACGAATGG
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.09
3 56 0.81
4 7 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:357014 original size:28 final size:28
Alignment explanation
Indices: 356982--357061 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
356972 GGCTTGTAAT
356982 ATAATAA-AATTAATAATAATAATAATAA
1 ATAATAATAA-TAATAATAATAATAATAA
* *
357010 ATAATAATAATAATAATATTAATATTAA
1 ATAATAATAATAATAATAATAATAATAA
* *
357038 TTATTAATAATAATAA-AATAATAA
1 ATAATAATAATAATAATAATAATAA
357062 AAACGAATGG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 6 0.13
28 37 0.82
29 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
ATAATAATAATAATAATAATAATAATAA
Found at i:357589 original size:122 final size:115
Alignment explanation
Indices: 357423--357740 Score: 342
Period size: 122 Copynumber: 2.7 Consensus size: 115
357413 GAATTAAGGC
* *
357423 AAGGTTGAACAAGTTCATCTCATTATGAACTTATT-TTACTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTA
* * * ***
357487 TGAACACTTCTGGAAATGTTGATGTTGATCTATCTCCTTCTG-TGATAGAGTCATGCAA
65 TGAACTCTTCTGGAAAT-TTGA-GCTGATCCA--T-CAAATGATGA-A-AGTCA-GCAA
* * *
357545 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
* ** *
357610 GAACTTTCTCTGGAAA----AGCTGATCCATCAAATGATGAATTTGAGCAA
66 GAACTCT-TCTGGAAATTTGAGCTGATCCATCAAATGATGAAAGTCAGCAA
*
357657 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCATTA
*
357722 TGAACTCTTCCGGAAATTT
65 TGAACTCTTCTGGAAATTT
357741 TGAAAACATT
Statistics
Matches: 168, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
112 48 0.29
113 32 0.19
114 4 0.02
115 4 0.02
117 7 0.04
118 1 0.01
122 62 0.37
123 10 0.06
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (115 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTTCTGGAAATTTGAGCTGATCCATCAAATGATGAAAGTCAGCAA
Found at i:358563 original size:22 final size:22
Alignment explanation
Indices: 358538--358859 Score: 482
Period size: 22 Copynumber: 14.6 Consensus size: 22
358528 AATAAAGCTT
* *
358538 TCATCTTTGAAAAAAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
* * *
358560 TCATATTTGAAAAGAGAATCCA
1 TCATCTTTGAAGAGAGAATCTA
* *
358582 TCATCTTTGAAAAGAGAATCTT
1 TCATCTTTGAAGAGAGAATCTA
* *
358604 TCATCTTTGAAAAGAGAATTTA
1 TCATCTTTGAAGAGAGAATCTA
*
358626 TTATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
* *
358648 TCATCTTTGAAGAGTGCATCTA
1 TCATCTTTGAAGAGAGAATCTA
358670 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
* *
358692 TCATCTTTGAAGAGTGCATCTA
1 TCATCTTTGAAGAGAGAATCTA
* *
358714 TTATCTTTGAATAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
358736 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
358758 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
358780 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
*
358802 TCATCTTTGAAGAGAGAATCCA
1 TCATCTTTGAAGAGAGAATCTA
*
358824 TCATCTTTAAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
358846 TCATCTTTGAAGAG
1 TCATCTTTGAAGAG
358860 TGCAGATGTA
Statistics
Matches: 272, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 272 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:363227 original size:72 final size:72
Alignment explanation
Indices: 363109--363243 Score: 234
Period size: 72 Copynumber: 1.9 Consensus size: 72
363099 TATAATAGGT
* *
363109 TAGCTGAATATCATCAATAAAGCCGGGGCTACTAACCAATTGCTTTAGGGGGATAACTCAAGCAT
1 TAGCTGAAAATCATCAATAAAGCCGGGGCTACTAACCAATTACTTTAGGGGGATAACTCAAGCAT
363174 AACAAGC
66 AACAAGC
* *
363181 TAGCTGAAAATTATCCATAAAGCCGGGGCTACTAACCAATTACTTTAGGGGGATAACTCAAGC
1 TAGCTGAAAATCATCAATAAAGCCGGGGCTACTAACCAATTACTTTAGGGGGATAACTCAAGC
363244 TTTATTGTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (72 bp):
TAGCTGAAAATCATCAATAAAGCCGGGGCTACTAACCAATTACTTTAGGGGGATAACTCAAGCAT
AACAAGC
Found at i:365799 original size:16 final size:15
Alignment explanation
Indices: 365773--365803 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
365763 AGTATAAATG
365773 AAAAATGAAAATGCA
1 AAAAATGAAAATGCA
365788 AAAAATGCAAAATGCA
1 AAAAATG-AAAATGCA
365804 TGTATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.65, C:0.10, G:0.13, T:0.13
Consensus pattern (15 bp):
AAAAATGAAAATGCA
Found at i:367215 original size:17 final size:18
Alignment explanation
Indices: 367184--367218 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
367174 TAATATCTAA
367184 AAAGGATAGAAAAATAAT
1 AAAGGATAGAAAAATAAT
367202 AAAGGATA-AAAAATAAT
1 AAAGGATAGAAAAATAAT
367219 TGAAAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (18 bp):
AAAGGATAGAAAAATAAT
Found at i:367857 original size:20 final size:20
Alignment explanation
Indices: 367819--367857 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
367809 AAATAAATAA
* *
367819 ATATTATTATTTAATTAAAT
1 ATATTATTATATAACTAAAT
*
367839 ATATTTTTATATAACTAAA
1 ATATTATTATATAACTAAA
367858 ATAATAACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTATTATATAACTAAAT
Found at i:368240 original size:2 final size:2
Alignment explanation
Indices: 368233--368257 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
368223 TCTTACCATA
368233 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
368258 AATAACTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:369076 original size:21 final size:19
Alignment explanation
Indices: 369033--369076 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
369023 ATATTTGGTG
369033 GTTGGTTGTTGTATTGCTC
1 GTTGGTTGTTGTATTGCTC
*
369052 -TTGGTTGTTGTTCTTGCTC
1 GTTGGTTGTTG-TATTGCTC
369071 TGTTGG
1 -GTTGG
369077 GCTCGTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.48
19 7 0.33
21 4 0.19
ACGTcount: A:0.02, C:0.11, G:0.32, T:0.55
Consensus pattern (19 bp):
GTTGGTTGTTGTATTGCTC
Found at i:369614 original size:3 final size:3
Alignment explanation
Indices: 369606--369647 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
369596 ATCATAAAAT
*
369606 TAA TAA TAA TAA TAA TAA TTAT TAA TAA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
369648 AAACGAATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:369631 original size:19 final size:18
Alignment explanation
Indices: 369599--369647 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
369589 ATGTAATATC
369599 ATAAAATTAATAATAATA
1 ATAAAATTAATAATAATA
*
369617 ATAATAATTATTAATAATA
1 ATAA-AATTAATAATAATA
369636 ATAAAA-TAATAA
1 ATAAAATTAATAA
369648 AAACGAATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 5 0.18
18 6 0.21
19 17 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAATTAATAATAATA
Found at i:374860 original size:25 final size:27
Alignment explanation
Indices: 374832--374882 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
374822 GATTGTATTT
374832 TATTTTATATTTGATT-CTGA-AAATC
1 TATTTTATATTTGATTACTGATAAATC
* *
374857 TATTTTATTTTTTATTACTGATAAAT
1 TATTTTATATTTGATTACTGATAAAT
374883 TTTATCTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.64
26 4 0.18
27 4 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (27 bp):
TATTTTATATTTGATTACTGATAAATC
Found at i:375271 original size:77 final size:78
Alignment explanation
Indices: 375180--375338 Score: 225
Period size: 77 Copynumber: 2.1 Consensus size: 78
375170 TTATTTTGAA
375180 TTTATTAAAATCTTATTTAATTAATTC-AAATTAAATATCCATT-AAAGACTTATAATCAGAATT
1 TTTATTAAAATCTTATTTAATT-ATTCTAAATTAAATATCCATTAAAAGACTTATAATCAGAATT
*
375243 ATACTC-TTTAATG
65 ACACTCTTTTAATG
* * * *
375256 TTTATTTAAACTCTTATTTAATTATTCTAAATTAAATATCTATTAAAAGAGTTGTAATCAGAATT
1 TTTA-TTAAAATCTTATTTAATTATTCTAAATTAAATATCCATTAAAAGACTTATAATCAGAATT
*
375321 ACATTCTTTTAATG
65 ACACTCTTTTAATG
375335 TTTA
1 TTTA
375339 CTTACTATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
76 8 0.11
77 32 0.44
78 22 0.30
79 11 0.15
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (78 bp):
TTTATTAAAATCTTATTTAATTATTCTAAATTAAATATCCATTAAAAGACTTATAATCAGAATTA
CACTCTTTTAATG
Found at i:375520 original size:18 final size:18
Alignment explanation
Indices: 375499--375540 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
375489 TAATTATTAG
375499 AACAATTTTAATATTGCA
1 AACAATTTTAATATTGCA
375517 AACAATTTTAATATTGCA
1 AACAATTTTAATATTGCA
375535 AACAAT
1 AACAAT
375541 AAGTGACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (18 bp):
AACAATTTTAATATTGCA
Found at i:376869 original size:22 final size:22
Alignment explanation
Indices: 376816--376856 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
376806 AATAATAAAT
376816 TATTT-AAAATAAATCAATCCA
1 TATTTAAAAATAAATCAATCCA
*
376837 TATTTTAAAATAAATCAATC
1 TATTTAAAAATAAATCAATC
376857 TATTCTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TATTTAAAAATAAATCAATCCA
Found at i:376872 original size:54 final size:54
Alignment explanation
Indices: 376808--377544 Score: 382
Period size: 54 Copynumber: 13.8 Consensus size: 54
376798 ACAACTACAA
376808 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATTC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATTC
** * *
376862 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTC
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCTATTC
* ** * ** * * *
376922 --AT--A-T-TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAT-AAATC
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCTATTC
** * *
376971 -AATCCA-TATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATTC
*
377024 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-C-TATTC
* * * * * * * *
377080 TAAAATAAATCAATCTATACT-AATAAAT---TA-TTTAAAACAAATCAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATTC
* * *
377132 -AACTACA--A--T--AATAAATCAATCTATATTTTAAAATAAATCAATAC-ATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-CTATTC
* * *
377180 TAATAAATTATTTAAAATTAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATTC
* ** *
377234 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAAT-C-TATTC
* * * * * * *
377294 TAAAATAAATCAATTCATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATTC
** * ** * * *
377346 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT-AAATC
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCTATTC
** *
377401 -AATCCA-TATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-TCATAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCT-ATTC
* * * *
377454 TAATAAATTATTTAAAATAAATCAATTCATA--CT--AATAAAT---TAT-TTA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATTC
* * *
377500 AAATAAATTATTTAAAAATAAATCAATCCATATTTTATAATAAAT
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAAT
377545 TAATTTAAAA
Statistics
Matches: 531, Mismatches: 91, Indels: 125
0.71 0.12 0.17
Matches are distributed among these distances:
43 2 0.00
44 6 0.01
45 1 0.00
46 10 0.02
47 23 0.04
48 23 0.04
49 18 0.03
50 31 0.06
51 7 0.01
52 15 0.03
53 28 0.05
54 260 0.49
55 25 0.05
56 8 0.02
57 5 0.01
58 26 0.05
59 9 0.02
60 15 0.03
62 13 0.02
63 6 0.01
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATTC
Found at i:376878 original size:32 final size:31
Alignment explanation
Indices: 376840--377050 Score: 172
Period size: 32 Copynumber: 7.5 Consensus size: 31
376830 CAATCCATAT
*
376840 TTTAAAATAAATCAATCTATTCTAATAAATTA
1 TTTAAAATAAATCAATC-ATACTAATAAATTA
376872 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
376904 TTTAAAATAAATCAAT--T-C--AT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
376926 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAA-TCATACTAATAAATTA
376958 TTTAAAATAAATCAATC---C--AT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
376980 TTTAAAATAAATCAATCCATA-T---------
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
377002 TTTAAAATAAATCAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATC-ATACTAATAAATTA
377034 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
377051 CATATTTTAA
Statistics
Matches: 151, Mismatches: 1, Indels: 54
0.73 0.00 0.26
Matches are distributed among these distances:
21 1 0.01
22 50 0.33
23 5 0.03
24 2 0.01
25 1 0.01
26 5 0.03
28 4 0.03
29 1 0.01
30 1 0.01
31 3 0.02
32 77 0.51
33 1 0.01
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (31 bp):
TTTAAAATAAATCAATCATACTAATAAATTA
Found at i:376930 original size:22 final size:22
Alignment explanation
Indices: 376904--376946 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
376894 TAATAAATTA
376904 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATTCATAT
376926 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATTCATA
376947 CTAATAAATT
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:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATTCATAT
Found at i:376955 original size:22 final size:22
Alignment explanation
Indices: 376906--376954 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
376896 ATAAATTATT
**
376906 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATTCATATAA
376928 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATTCATA-TAA
376951 TAAA
1 TAAA
376955 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATAAATCAATTCATATAA
Found at i:377107 original size:22 final size:22
Alignment explanation
Indices: 376958--377018 Score: 122
Period size: 22 Copynumber: 2.8 Consensus size: 22
376948 TAATAAATTA
376958 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
376980 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
377002 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
377019 AATACTAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:377203 original size:32 final size:32
Alignment explanation
Indices: 377158--377507 Score: 308
Period size: 32 Copynumber: 12.4 Consensus size: 32
377148 CAATCTATAT
*
377158 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
377190 TTTAAAATTAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
377212 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
377244 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
377274 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
377292 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
377324 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
377356 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
377388 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
377410 TTTAAAATAAATCAATCCATA-T---------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
377432 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
377464 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
377496 TTTAAAATAAAT
1 TTTAAAATAAAT
377508 TATTTAAAAA
Statistics
Matches: 271, Mismatches: 6, Indels: 82
0.75 0.02 0.23
Matches are distributed among these distances:
20 1 0.00
22 64 0.24
23 6 0.02
24 4 0.01
25 1 0.00
26 20 0.07
28 5 0.02
30 2 0.01
31 5 0.02
32 163 0.60
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:377203 original size:134 final size:134
Alignment explanation
Indices: 377056--377484 Score: 659
Period size: 134 Copynumber: 3.2 Consensus size: 134
377046 CAATCCATAT
* *
377056 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAACAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
* *
377121 TCAATCCATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATACATACTAATAA
66 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAA
377186 ATTA
131 ATTA
*
377190 TTTAAAATTAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
377255 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAA
66 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAA
377320 ATTA
131 ATTA
377324 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTAT
* **
377389 TTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATTC
56 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC
377450 ATACTAATAAATTA
121 ATACTAATAAATTA
*
377464 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
377485 CTAATAAATT
Statistics
Matches: 275, Mismatches: 10, Indels: 22
0.90 0.03 0.07
Matches are distributed among these distances:
132 1 0.00
134 146 0.53
135 1 0.00
136 1 0.00
138 1 0.00
140 67 0.24
141 4 0.01
142 1 0.00
143 1 0.00
144 52 0.19
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (134 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAA
ATTA
Found at i:377216 original size:22 final size:22
Alignment explanation
Indices: 377190--377232 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
377180 TAATAAATTA
*
377190 TTTAAAATTAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
377212 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
377233 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:377241 original size:22 final size:22
Alignment explanation
Indices: 377192--377240 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
377182 ATAAATTATT
* **
377192 TAAAATTAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
377214 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
377237 TAAA
1 TAAA
377241 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:377461 original size:22 final size:22
Alignment explanation
Indices: 377388--377452 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
377378 TAATAAATTA
377388 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
377410 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
377432 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
377453 CTAATAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:377468 original size:140 final size:142
Alignment explanation
Indices: 377212--377507 Score: 524
Period size: 140 Copynumber: 2.1 Consensus size: 142
377202 CAATCCATAT
377212 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--AACTACAATAA
377277 TAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCC
64 TAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCC
377342 ATACTAATAAATTA
129 ATACTAATAAATTA
* **
377356 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT-ATTTTAA-AATA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAACTACAATAATA
*
377419 AATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATTCAT
66 AATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCAT
377484 ACTAATAAATTA
131 ACTAATAAATTA
377496 TTTAAAATAAAT
1 TTTAAAATAAAT
377508 TATTTAAAAA
Statistics
Matches: 148, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
140 92 0.62
141 4 0.03
144 52 0.35
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (142 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAACTACAATAATA
AATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCAT
ACTAATAAATTA
Found at i:377519 original size:15 final size:14
Alignment explanation
Indices: 377455--377589 Score: 90
Period size: 15 Copynumber: 8.5 Consensus size: 14
377445 AATTCATACT
377455 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
377469 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
377487 AATAAATTATTTAA
1 AATAAATTATTTAA
377501 AATAAATTATTTAAA
1 AATAAATTATTT-AA
*
377516 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TA-TTTAA
377538 AATAAATTAATTTAA
1 AATAAATT-ATTTAA
*
377553 AATAAATTATTTTAT
1 AATAAATTA-TTTAA
377568 AATAAATTATTTTAA
1 AATAAATTA-TTTAA
377583 AATAAAT
1 AATAAAT
377590 AACCTTATTA
Statistics
Matches: 98, Mismatches: 8, Indels: 29
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.20
15 48 0.49
16 1 0.01
17 6 0.06
18 10 0.10
19 3 0.03
20 1 0.01
22 6 0.06
23 3 0.03
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:377564 original size:30 final size:30
Alignment explanation
Indices: 377530--377589 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
377520 AATCAATCCA
377530 TATTTTATAATAAATTAATTTAAAATAAAT
1 TATTTTATAATAAATTAATTTAAAATAAAT
*
377560 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTAATTTAAAATAAAT
377590 AACCTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
TATTTTATAATAAATTAATTTAAAATAAAT
Found at i:384154 original size:19 final size:19
Alignment explanation
Indices: 384130--384168 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
384120 CCGAATTCCA
*
384130 TGCGCCCCCATTCTTGACT
1 TGCGCCCCCATTATTGACT
*
384149 TGCGCCCCTATTATTGACT
1 TGCGCCCCCATTATTGACT
384168 T
1 T
384169 TACATCATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.36, G:0.15, T:0.36
Consensus pattern (19 bp):
TGCGCCCCCATTATTGACT
Found at i:387547 original size:45 final size:45
Alignment explanation
Indices: 387483--387571 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
387473 ATTGATAAGC
387483 AAGAAGAATTTAAAGTGCTACAACTGTGGAAAGAATGGTCACTTA
1 AAGAAGAATTTAAAGTGCTACAACTGTGGAAAGAATGGTCACTTA
*
387528 AAGAAGAATTTAAAGTGCTACAACTGTGGAAAGTATGGTCACTT
1 AAGAAGAATTTAAAGTGCTACAACTGTGGAAAGAATGGTCACTT
387572 CAGATGATGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.26
Consensus pattern (45 bp):
AAGAAGAATTTAAAGTGCTACAACTGTGGAAAGAATGGTCACTTA
Found at i:387957 original size:20 final size:19
Alignment explanation
Indices: 387932--387985 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
387922 GCGAAATAAA
387932 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
387952 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
387972 AATCGCAACGCGAT
1 AATCGCAACGCGAT
387986 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:387996 original size:21 final size:20
Alignment explanation
Indices: 387972--388204 Score: 84
Period size: 20 Copynumber: 11.4 Consensus size: 20
387962 CAGTTCCCAG
387972 AATCGCAACGCGATTATGAA
1 AATCGCAACGCGATTATGAA
*
387992 GAATCGCAATGCGA-TAGTAGAA
1 -AATCGCAACGCGATTA-T-GAA
* * ** * * *
388014 ATTCACATTGCGATTTTCCAT
1 AATCGCAACGCGATTAT-GAA
*
388035 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGATTATGAA
**
388055 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGATTATGA-A
* * *
388075 AATCGCAATGCGATTCTGAC
1 AATCGCAACGCGATTATGAA
* * *
388095 TATCGCAA--CGAGTATCCGTA
1 AATCGCAACGCGATTAT--GAA
* *
388115 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGATTATG-AA
* *
388136 AATCGCAACGCG-TATCTGTA
1 AATCGCAACGCGAT-TATGAA
* * * *
388156 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGATTATGAA
*
388176 AATCGCAACGCG-TATATGTA
1 AATCGCAACGCGAT-TATGAA
388196 AATCGCAAC
1 AATCGCAAC
388205 AAGAATACGT
Statistics
Matches: 155, Mismatches: 42, Indels: 31
0.68 0.18 0.14
Matches are distributed among these distances:
18 5 0.03
19 1 0.01
20 91 0.59
21 50 0.32
22 7 0.05
23 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGATTATGAA
Found at i:388060 original size:20 final size:20
Alignment explanation
Indices: 388035--388305 Score: 228
Period size: 20 Copynumber: 13.5 Consensus size: 20
388025 GATTTTCCAT
* *
388035 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
388055 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
* *
388075 AATCGCAATGCG-ATTC-TGA
1 AATCGCAACGCGAATACGT-A
* * * *
388094 CTATCGCAACGAGTATCCGTA
1 -AATCGCAACGCGAATACGTA
388115 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
*
388136 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
*
388156 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* *
388176 AATCGCAACGCGTATATGTA
1 AATCGCAACGCGAATACGTA
**
388196 AATCGCAACAAGAATACGTA
1 AATCGCAACGCGAATACGTA
** * *
388216 AATCGCAATACGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
388236 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
* *
388256 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAATACGTA
*
388276 AATCGCAATGCGAAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
388296 AATCGCAACG
1 AATCGCAACG
388306 AGATTCTGAC
Statistics
Matches: 202, Mismatches: 39, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
18 1 0.00
19 3 0.01
20 177 0.88
21 20 0.10
22 1 0.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:391797 original size:14 final size:14
Alignment explanation
Indices: 391778--391805 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
391768 CAATGCGAAA
391778 TGAAAATCGCAACG
1 TGAAAATCGCAACG
391792 TGAAAATCGCAACG
1 TGAAAATCGCAACG
391806 CGGAAATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
TGAAAATCGCAACG
Found at i:391812 original size:14 final size:14
Alignment explanation
Indices: 391779--391812 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
391769 AATGCGAAAT
*
391779 GAAAATCGCAACGT
1 GAAAATCGCAACGC
391793 GAAAATCGCAACGC
1 GAAAATCGCAACGC
*
391807 GGAAAT
1 GAAAAT
391813 GACTATCGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (14 bp):
GAAAATCGCAACGC
Found at i:391821 original size:34 final size:34
Alignment explanation
Indices: 391730--391823 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 34
391720 CTTAATGTCT
* *
391730 ATCGCAAAGCGAAAACT-ACTATCGCAACGAGAGA
1 ATCGCAAAGCGGAAA-TGACTATCGCAACGAGAAA
* ** *
391764 ATCGCAATGC-GAAATGAAAATCGCAACGTGAAA
1 ATCGCAAAGCGGAAATGACTATCGCAACGAGAAA
*
391797 ATCGCAACGCGGAAATGACTATCGCAA
1 ATCGCAAAGCGGAAATGACTATCGCAA
391824 TGCGAAACGA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
32 1 0.02
33 25 0.51
34 23 0.47
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.14
Consensus pattern (34 bp):
ATCGCAAAGCGGAAATGACTATCGCAACGAGAAA
Found at i:391856 original size:33 final size:33
Alignment explanation
Indices: 391817--392015 Score: 290
Period size: 33 Copynumber: 5.8 Consensus size: 33
391807 GGAAATGACT
*
391817 ATCGCAATGCGAAACGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
391850 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
391883 ATCGCAATGCGAAATGAAAATCGCAACGCGAAAATGA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG-AGA-GA
*
391920 CTATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 --ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
391955 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
391988 ATCGCAATGCAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
392016 CGAATTTAGT
Statistics
Matches: 151, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
33 115 0.76
35 4 0.03
36 3 0.02
37 4 0.03
39 25 0.17
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:391873 original size:72 final size:68
Alignment explanation
Indices: 391792--392017 Score: 271
Period size: 72 Copynumber: 3.2 Consensus size: 68
391782 AATCGCAACG
*
391792 TGAAAATCGCAACGCGGAAATGACTATCGCAATGCGAAACGAAAATCGCAACGAGAGAATCGCAA
1 TGAAAATCGCAACGCGG-AA-GA--ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAA
391857 TGCGAAA
62 TGCGAAA
* *
391864 TGAAAATCGCAACGAGG--GAATCGCAATGCGAAATGAAAATCGCAACGCGAAAATGACTATCGC
1 TGAAAATCGCAACGCGGAAGAATCGCAATGCGAAATGAAAATCGCAA--CG-AGA-GA--ATCGC
391927 AATGCGAAA
60 AATGCGAAA
* * * *
391936 TGAAAATCACAACG-AG-AGAATCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCA
1 TGAAAATCGCAACGCGGAAGAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCG
391999 AAA
66 AAA
392002 TGAAAATCGCAACGCG
1 TGAAAATCGCAACGCG
392018 AATTTAGTTT
Statistics
Matches: 136, Mismatches: 10, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
66 51 0.38
68 6 0.04
69 3 0.02
70 4 0.03
71 1 0.01
72 71 0.52
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (68 bp):
TGAAAATCGCAACGCGGAAGAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCG
AAA
Found at i:391912 original size:105 final size:105
Alignment explanation
Indices: 391792--392019 Score: 420
Period size: 105 Copynumber: 2.2 Consensus size: 105
391782 AATCGCAACG
* *
391792 TGAAAATCGCAACGCGGAAATGACTATCGCAATGCGAAACGAAAATCGCAACGAGAGAATCGCAA
1 TGAAAATCGCAACGCGAAAATGACTATCGCAATGCGAAACGAAAATCACAACGAGAGAATCGCAA
*
391857 TGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAA
66 TGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCAAAA
*
391897 TGAAAATCGCAACGCGAAAATGACTATCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAA
1 TGAAAATCGCAACGCGAAAATGACTATCGCAATGCGAAACGAAAATCACAACGAGAGAATCGCAA
391962 TGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCAAAA
66 TGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCAAAA
392002 TGAAAATCGCAACGCGAA
1 TGAAAATCGCAACGCGAA
392020 TTTAGTTTCG
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 119 1.00
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (105 bp):
TGAAAATCGCAACGCGAAAATGACTATCGCAATGCGAAACGAAAATCACAACGAGAGAATCGCAA
TGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCAAAA
Found at i:391926 original size:86 final size:87
Alignment explanation
Indices: 391730--391928 Score: 269
Period size: 86 Copynumber: 2.3 Consensus size: 87
391720 CTTAATGTCT
*
391730 ATCGCAAAGCGAAAACT-ACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGTG
1 ATCGCAAAGCGAAAA-TGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAG
**
391794 AAAATCGCAACGCGGAAATGACT
65 AAAATCGCAACGCGGAAATGAAA
* * ** *
391817 ATCGCAATGCG-AAACGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGG
1 ATCGCAAAGCGAAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGA
* *
391881 GAATCGCAATGC-GAAATGAAA
66 AAATCGCAACGCGGAAATGAAA
*
391902 ATCGCAACGCGAAAATGACTATCGCAA
1 ATCGCAAAGCGAAAATGACTATCGCAA
391929 TGCGAAATGA
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
85 17 0.18
86 69 0.72
87 10 0.10
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (87 bp):
ATCGCAAAGCGAAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGA
AAATCGCAACGCGGAAATGAAA
Found at i:392231 original size:14 final size:14
Alignment explanation
Indices: 392212--392248 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
392202 CATCAATTAA
392212 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
392226 ACAAATCATCTTTT
1 ACAAATCAACTTTT
392240 ACAAATCAA
1 ACAAATCAA
392249 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:395727 original size:19 final size:19
Alignment explanation
Indices: 395663--395739 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 19
395653 CCTTTTGGTT
*
395663 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
395682 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
395702 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
*
395722 GAAATGAAAATCGTAACG
1 GAAATGAAAATCGCAACG
395740 AGAGAATCGC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.34
20 31 0.62
21 2 0.04
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:395887 original size:40 final size:40
Alignment explanation
Indices: 395808--395920 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 40
395798 GCGATTTTGG
* **
395808 TTTCGCGTTGCGATTTTCA-TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATTTTCATTTTCTCGTTGCGATAGTCAT
*
395846 TTTCACGTTGCGATTTTCATTTCTCTCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATTTTCATTT-TCTCGTTGCGATAGTCAT
*
395887 TTTCGTGTTGCGATTTTCATTTTCAT-GTTGCGAT
1 TTTCGCGTTGCGATTTTCATTTTC-TCGTTGCGAT
395921 TTTAAGTTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
38 18 0.28
39 2 0.03
40 24 0.37
41 21 0.32
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.49
Consensus pattern (40 bp):
TTTCGCGTTGCGATTTTCATTTTCTCGTTGCGATAGTCAT
Found at i:395898 original size:20 final size:20
Alignment explanation
Indices: 395808--395923 Score: 146
Period size: 19 Copynumber: 5.8 Consensus size: 20
395798 GCGATTTTGG
395808 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATTTTCAT
395827 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATTTTCAT
*
395846 TTTCACGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
* **
395866 TTCTCTCGTTGCGATAGTCAT
1 TT-TCGCGTTGCGATTTTCAT
*
395887 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
**
395907 TTTCATGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
395924 AAGTTTAGAA
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
19 37 0.43
20 32 0.37
21 17 0.20
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:396509 original size:20 final size:20
Alignment explanation
Indices: 396484--396637 Score: 191
Period size: 20 Copynumber: 7.5 Consensus size: 20
396474 CTTTAAAAAT
*
396484 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACAGATA
* *
396504 CGCGTTGCGATTTTACATATT
1 CGCGTTGCGA-TTTACAGATA
*
396525 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACAGATA
* *
396545 CGCGTTGCGATTTACATATT
1 CGCGTTGCGATTTACAGATA
*
396565 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACAGATA
*
396585 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACAGATA
*
396606 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACAGATA
*
396627 CTCGTTGCGAT
1 CGCGTTGCGAT
396638 AGTCAGAATC
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
20 62 0.53
21 55 0.47
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACAGATA
Found at i:396600 original size:61 final size:60
Alignment explanation
Indices: 396484--396637 Score: 209
Period size: 61 Copynumber: 2.5 Consensus size: 60
396474 CTTTAAAAAT
* * * *
396484 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACATATTCTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATACTCGTTGCGA-TTTACAGATACGCGTTGCGATTTACAGATA
** * *
396545 CGCGTTGCGATTTACATATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTTACGGATA
1 CGCGTTGCGATTTACGGATACTCGTTGCGATTTACAGATACGCGTTGCGA-TTTACAGATA
396606 CGCGTTGCGATTTTACGGATACTCGTTGCGAT
1 CGCGTTGCGA-TTTACGGATACTCGTTGCGAT
396638 AGTCAGAATC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
60 17 0.21
61 45 0.56
62 18 0.22
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACTCGTTGCGATTTACAGATACGCGTTGCGATTTACAGATA
Found at i:396651 original size:41 final size:40
Alignment explanation
Indices: 396481--396678 Score: 195
Period size: 40 Copynumber: 4.9 Consensus size: 40
396471 GTGCTTTAAA
* *
396481 AATCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACAT
1 AATCGCGTTGCGATTTACAGATACGCGTTGCGA-TTTACAG
* * *
396522 ATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTACAT
1 AATCGCGTTGCGATTTACAGATACGCGTTGCGATTTACAG
* *
396562 ATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTTAC-G
1 AATCGCGTTGCGATTTACAGATACGCGTTGCGA-TTTACAG
* * * *
396602 GATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAG
1 AAT-CGCGTTGCGA-TTTACAGATACGCGTTGCGAT-TTACAG
* * *
396644 AATCGCGTTGCAATTTATATG-TTCGCGTTGCGATT
1 AATCGCGTTGCGATTTACA-GATACGCGTTGCGATT
396679 ATGGAAAATC
Statistics
Matches: 134, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
40 56 0.42
41 56 0.42
42 22 0.16
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (40 bp):
AATCGCGTTGCGATTTACAGATACGCGTTGCGATTTACAG
Found at i:396671 original size:61 final size:60
Alignment explanation
Indices: 396484--396678 Score: 200
Period size: 61 Copynumber: 3.2 Consensus size: 60
396474 CTTTAAAAAT
* * * * *
396484 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACATATTCTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATACTCGTTGCGA-TTTACAGAATCGCGTTGCGATTTATAGATA
** *
396545 CGCGTTGCGATTTACATATTCTCGTTGCGATTTACAG-ATACGCGTTGCGATTT-TACGGATA
1 CGCGTTGCGATTTACGGATACTCGTTGCGATTTACAGAAT-CGCGTTGCGATTTATA--GATA
* * *
396606 CGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGAATCGCGTTGCAATTTATATG-TT
1 CGCGTTGCGA-TTTACGGATACTCGTTGCGAT-TTACAGAATCGCGTTGCGATTTATA-GATA
396667 CGCGTTGCGATT
1 CGCGTTGCGATT
396679 ATGGAAAATC
Statistics
Matches: 112, Mismatches: 15, Indels: 15
0.79 0.11 0.11
Matches are distributed among these distances:
59 2 0.02
60 20 0.18
61 51 0.46
62 34 0.30
63 5 0.04
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACTCGTTGCGATTTACAGAATCGCGTTGCGATTTATAGATA
Found at i:396673 original size:102 final size:101
Alignment explanation
Indices: 396484--396678 Score: 277
Period size: 102 Copynumber: 1.9 Consensus size: 101
396474 CTTTAAAAAT
* * *
396484 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACATATTCTCGTTGCGATTTACAGATACGCG
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACAGATACTCGTTGCGATGTACAGATACGCG
* *
396549 TTGCGATTTACATATTCTCGTTGCGATTTACAGATA
66 TTGCAATTTACATATTCGCGTTGCGATTTACAGATA
*
396585 CGCGTTGCGATTTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGA-ATC
1 CGCGTTGCGA-TTTACGGATACGCGTTGCGATTTTACAGATACTCGTTGCGAT-GTACAGATA-C
* *
396648 GCGTTGCAATTTATATGTTCGCGTTGCGATT
63 GCGTTGCAATTTACATATTCGCGTTGCGATT
396679 ATGGAAAATC
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
101 11 0.13
102 71 0.86
103 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (101 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACAGATACTCGTTGCGATGTACAGATACGCG
TTGCAATTTACATATTCGCGTTGCGATTTACAGATA
Found at i:396759 original size:20 final size:20
Alignment explanation
Indices: 396734--396785 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
396724 CATAATCGCG
396734 TTGCGATTCTGGGAACTGAT
1 TTGCGATTCTGGGAACTGAT
396754 TTGCGATTCTGGGAACTGAT
1 TTGCGATTCTGGGAACTGAT
396774 TTGCGATTCTGG
1 TTGCGATTCTGG
396786 ATATCGCGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.17, C:0.15, G:0.31, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTGGGAACTGAT
Found at i:409866 original size:14 final size:14
Alignment explanation
Indices: 409847--409882 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
409837 TTCTCCACCG
409847 TTTTTCTTCTTCGA
1 TTTTTCTTCTTCGA
*
409861 TTTTTCTTCTTCTA
1 TTTTTCTTCTTCGA
409875 TTTTTCTT
1 TTTTTCTT
409883 GGTGTTCCTC
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:0.06, C:0.19, G:0.03, T:0.72
Consensus pattern (14 bp):
TTTTTCTTCTTCGA
Found at i:419265 original size:23 final size:21
Alignment explanation
Indices: 419227--419269 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
419217 ATAATTATTT
419227 AAAAAATTAAATAAAAATATA
1 AAAAAATTAAATAAAAATATA
*
419248 AAAAATATTTAATAAAAA-ATA
1 AAAAA-ATTAAATAAAAATATA
419269 A
1 A
419270 TTTTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATATA
Found at i:419434 original size:12 final size:14
Alignment explanation
Indices: 419394--419434 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
419384 AACATATTAA
419394 ATAATAAATATAATT
1 ATAA-AAATATAATT
*
419409 ATAAAACTATAATT
1 ATAAAAATATAATT
419423 A-AAAAATA-AATT
1 ATAAAAATATAATT
419435 TGGGGCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 4 0.17
13 6 0.25
14 10 0.42
15 4 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAAAAATATAATT
Found at i:419606 original size:70 final size:70
Alignment explanation
Indices: 419493--419666 Score: 330
Period size: 70 Copynumber: 2.5 Consensus size: 70
419483 TTTTTTAAAT
419493 AATCCCACATTGCTAAGAAACATAGAAGAGCATCCCAAAAGTCTAAAGAGTAAAAATATGAGAAC
1 AATCCCACATTGCTAAGAAACATAGAAGAGCATCCCAAAAGTCTAAAGAGTAAAAATATGAGAAC
419558 AAAAC
66 AAAAC
419563 AATCCCACATTGCTAAGAAACATAGAAGAGCATCCCAAAAGTCTAAAGAGTAAAAATATGAGAAC
1 AATCCCACATTGCTAAGAAACATAGAAGAGCATCCCAAAAGTCTAAAGAGTAAAAATATGAGAAC
419628 AAAAC
66 AAAAC
* *
419633 AATCCCACATGGCTAAGAAACATAAAAGAGCATC
1 AATCCCACATTGCTAAGAAACATAGAAGAGCATC
419667 ACAACTAACT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 102 1.00
ACGTcount: A:0.51, C:0.20, G:0.14, T:0.16
Consensus pattern (70 bp):
AATCCCACATTGCTAAGAAACATAGAAGAGCATCCCAAAAGTCTAAAGAGTAAAAATATGAGAAC
AAAAC
Found at i:419820 original size:16 final size:15
Alignment explanation
Indices: 419799--419833 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
419789 TTCTAATTTT
419799 TTTTTTGAGTTTAAG
1 TTTTTTGAGTTTAAG
419814 CTTTTTTGAGTTTAAG
1 -TTTTTTGAGTTTAAG
419830 TTTT
1 TTTT
419834 AATATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.17, C:0.03, G:0.17, T:0.63
Consensus pattern (15 bp):
TTTTTTGAGTTTAAG
Found at i:424399 original size:23 final size:23
Alignment explanation
Indices: 424373--424441 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
424363 CACCACAGCT
*
424373 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
424396 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
424419 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
424442 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:424642 original size:104 final size:104
Alignment explanation
Indices: 424462--424670 Score: 364
Period size: 104 Copynumber: 2.0 Consensus size: 104
424452 TCCATAAGGA
* *
424462 CCACATATCATTCCTTAAAAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTT
1 CCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTT
424527 CACACATGTTCCAAAGAATACATATATGTCCCGAAAGAC
66 CACACATGTTCCAAAGAATACATATATGTCCCGAAAGAC
* *
424566 CCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTT
1 CCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTT
* *
424631 TACACATGTTCCAAAGAATACATATATGTCCCGAAGGAC
66 CACACATGTTCCAAAGAATACATATATGTCCCGAAAGAC
424670 C
1 C
424671 GCGTAGACCC
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 99 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.27
Consensus pattern (104 bp):
CCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTT
CACACATGTTCCAAAGAATACATATATGTCCCGAAAGAC
Found at i:427830 original size:24 final size:24
Alignment explanation
Indices: 427803--427848 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
427793 TTCCCTTTAC
*
427803 TATACCATAATAT-TATGATCCAAA
1 TATACAATAATATCTAT-ATCCAAA
*
427827 TATACAATTATATCTATATCCA
1 TATACAATAATATCTATATCCA
427849 TTTTATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.37
Consensus pattern (24 bp):
TATACAATAATATCTATATCCAAA
Found at i:429441 original size:23 final size:23
Alignment explanation
Indices: 429410--429455 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
429400 CACCACAGCT
*
429410 CGTATAATTGCACCAAAGTGCCA
1 CGTAGAATTGCACCAAAGTGCCA
**
429433 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCAAAGTGCCA
429456 TATAATAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCAAAGTGCCA
Found at i:429642 original size:103 final size:103
Alignment explanation
Indices: 429471--429685 Score: 376
Period size: 103 Copynumber: 2.1 Consensus size: 103
429461 TAATGTCCAT
* *
429471 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATATGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
429536 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
429574 AAGGACCACATATCATTCCTTAAGAATCATATGCATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
*
429639 GACTTCACACATGTTCCAAAGAATACATATATGTTCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
429677 AAGGACCAC
1 AAGGACCAC
429686 GTAGACCCTC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:432250 original size:979 final size:979
Alignment explanation
Indices: 430353--432305 Score: 3753
Period size: 979 Copynumber: 2.0 Consensus size: 979
430343 ATATAACTTA
*
430353 TATATCCTTATTTATGCCCTTGAATTTATACTATTCTCTTAGAGTCTCCTAACATTTCTCGTATA
1 TATATCCTTATTTATGCCCTTGAATTTATACTATTCTCTCAGAGTCTCCTAACATTTCTCGTATA
430418 ATCACTTATACCATATCATATGACTTATACTTGATTATCTTATTCTCTCATGTTCATTTCATTTC
66 ATCACTTATACCATATCATATGACTTATACTTGATTATCTTATTCTCTCATGTTCATTTCATTTC
430483 TTATGACTCTATCATATAACTTATTCCATGTTCTTCCATCATTACATAATAAAGTTTTACATAAA
131 TTATGACTCTATCATATAACTTATTCCATGTTCTTCCATCATTACATAATAAAGTTTTACATAAA
*
430548 TCATATAGCATATACAAAGCATATCATTATCTTTAGTCATGCATACATACACTCAGTGTAATACA
196 TCATATAACATATACAAAGCATATCATTATCTTTAGTCATGCATACATACACTCAGTGTAATACA
430613 TATAATCACATATAGTTATAACCAACACATAATCATGTCTATGACTTCATGCATATTACTCTAGG
261 TATAATCACATATAGTTATAACCAACACATAATCATGTCTATGACTTCATGCATATTACTCTAGG
430678 AAATAGACTCATCGCAAGTCTTATTTCCATTAAACACTACATGTCACTAGTATGCACTAACCTTG
326 AAATAGACTCATCGCAAGTCTTATTTCCATTAAACACTACATGTCACTAGTATGCACTAACCTTG
* *
430743 ATCTCACTAGTCAATTCCAATCTCTTATCTTTCCCTTGATCAATCTTACTTGCCAAATGTTCCGG
391 ACCTCACTAGTCAATTCCAATCTATTATCTTTCCCTTGATCAATCTTACTTGCCAAATGTTCCGG
* *
430808 AATTGCTTTACGCGCAGAATCTACATAAATGTACATTTTAAGGCAATCATTAGATACTTACACCT
456 AATTGCTTTACACGCAGAATCTACATAAATGTACATTTTAAGGCAATCATTACATACTTACACCT
430873 TGTAATTAGATACTAGCAACTTAAACGAACTTATTAAACCCATATTTACAATTTTCCTTTAGGGG
521 TGTAATTAGATACTAGCAACTTAAACGAACTTATTAAACCCATATTTACAATTTTCCTTTAGGGG
*
430938 GTATCGATTCCCTACTGTGGGGGTATCGGTTCCCCTCTAGCATTCTGGAATTCCATGTTCGTTTG
586 GTATCGATTCCCTACTGTGGAGGTATCGGTTCCCCTCTAGCATTCTGGAATTCCATGTTCGTTTG
431003 AGGGGGTATCGATTCCCCTTGAATGGGTATCGATTCCCCTAGCCCAGAAATCCTATTTTGAGCTC
651 AGGGGGTATCGATTCCCCTTGAATGGGTATCGATTCCCCTAGCCCAGAAATCCTATTTTGAGCTC
431068 GAAATTCACTTCATTTCAGCTTAAACCTTCATATTTTACTTCCTTTAATATTCCTAACTTCCATA
716 GAAATTCACTTCATTTCAGCTTAAACCTTCATATTTTACTTCCTTTAATATTCCTAACTTCCATA
431133 CACATATTTAAACTCATTTCTATTCCATAATCACTTCTTTAAACCCAAAATTCCATCATTTACAT
781 CACATATTTAAACTCATTTCTATTCCATAATCACTTCTTTAAACCCAAAATTCCATCATTTACAT
431198 GGCATTCAAGAATCACACTAAATTTTCAATGTGTTCTAATTCCAAGTCTAACACTTCATACTTCT
846 GGCATTCAAGAATCACACTAAATTTTCAATGTGTTCTAATTCCAAGTCTAACACTTCATACTTCT
431263 TAATTAGATTGATAACAAGTCAAATTCATCCATAAAACTTCAACAACCATACCATATCAAAATTT
911 TAATTAGATTGATAACAAGTCAAATTCATCCATAAAACTTCAACAACCATACCATATCAAAATTT
431328 CTCG
976 CTCG
431332 TATATCCTTATTTATGCCCTTGAATTTATACTATTCTCTCAGAGTCTCCTAACATTTCTCGTATA
1 TATATCCTTATTTATGCCCTTGAATTTATACTATTCTCTCAGAGTCTCCTAACATTTCTCGTATA
*
431397 ATCACTTATATCATATCATATGACTTATACTTGATTATCTTATTCTCTCATGTTCATTTCATTTC
66 ATCACTTATACCATATCATATGACTTATACTTGATTATCTTATTCTCTCATGTTCATTTCATTTC
*
431462 TTATGACTCTATCATATAACTTATTCCATGTTCTTCCATTATTACATAATAAAGTTTTACATAAA
131 TTATGACTCTATCATATAACTTATTCCATGTTCTTCCATCATTACATAATAAAGTTTTACATAAA
*
431527 TCATATAACATATACAAAGCATATCATTATCTTTAGTCATGCATACATATACTCAGTGTAATACA
196 TCATATAACATATACAAAGCATATCATTATCTTTAGTCATGCATACATACACTCAGTGTAATACA
431592 TATAATCACATATAGTTATAACCAACACATAATCATGTCTATGACTTCATGCATATTACTCTAGG
261 TATAATCACATATAGTTATAACCAACACATAATCATGTCTATGACTTCATGCATATTACTCTAGG
*
431657 AAATAGACTCATCGCAAGTCTTATTTCCATTAAACACTACATGTCACTAGTATGCACTCACCTTG
326 AAATAGACTCATCGCAAGTCTTATTTCCATTAAACACTACATGTCACTAGTATGCACTAACCTTG
*
431722 ACCTCACTAGTCAATTCCAATCTATTATCTTTCCCTTGATCGATCTTACTTGCCAAATGTTCCGG
391 ACCTCACTAGTCAATTCCAATCTATTATCTTTCCCTTGATCAATCTTACTTGCCAAATGTTCCGG
*
431787 AATTGCTTTACACGCAGAATCTACATAAATGTACATTTTAAGGTAATCATTACATACTTACACCT
456 AATTGCTTTACACGCAGAATCTACATAAATGTACATTTTAAGGCAATCATTACATACTTACACCT
*
431852 TGTAATTGGATACTAGCAACTTAAACGAACTTATTAAACCCATATTTACAATTTTCCTTTAGGGG
521 TGTAATTAGATACTAGCAACTTAAACGAACTTATTAAACCCATATTTACAATTTTCCTTTAGGGG
*
431917 GTATCGATTCCCTACTGTGGAGGTATCGGTTCCCCTCTGGCATTCTGGAATTCCATGTTCGTTTG
586 GTATCGATTCCCTACTGTGGAGGTATCGGTTCCCCTCTAGCATTCTGGAATTCCATGTTCGTTTG
431982 AGGGGGTATCGATTCCCCTTGAATGGGTATCGATTCCCCTAGCCCAGAAATCCTATTTTGAGCTC
651 AGGGGGTATCGATTCCCCTTGAATGGGTATCGATTCCCCTAGCCCAGAAATCCTATTTTGAGCTC
432047 GAAATTCACTTCATTTCAGCTTAAACCTTCATATTTTACTTCCTTTAATATTCCTAACTTCCATA
716 GAAATTCACTTCATTTCAGCTTAAACCTTCATATTTTACTTCCTTTAATATTCCTAACTTCCATA
432112 CACATATTTAAACTCATTTCTATTCCATAATCACTTCTTTAAACCCAAAATTCCATCATTTACAT
781 CACATATTTAAACTCATTTCTATTCCATAATCACTTCTTTAAACCCAAAATTCCATCATTTACAT
*
432177 GGCATTCAAGAATCACACTAAATTTTCAATGTGTTCTAATTCCAATTCTAACACTTCATACTTCT
846 GGCATTCAAGAATCACACTAAATTTTCAATGTGTTCTAATTCCAAGTCTAACACTTCATACTTCT
*
432242 TAATTAGATTGATGACAAGTCAAATTCATCCATAAAACTTCAACAACCATACCATATCAAAATT
911 TAATTAGATTGATAACAAGTCAAATTCATCCATAAAACTTCAACAACCATACCATATCAAAATT
432306 CCATCTTAAA
Statistics
Matches: 957, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
979 957 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (979 bp):
TATATCCTTATTTATGCCCTTGAATTTATACTATTCTCTCAGAGTCTCCTAACATTTCTCGTATA
ATCACTTATACCATATCATATGACTTATACTTGATTATCTTATTCTCTCATGTTCATTTCATTTC
TTATGACTCTATCATATAACTTATTCCATGTTCTTCCATCATTACATAATAAAGTTTTACATAAA
TCATATAACATATACAAAGCATATCATTATCTTTAGTCATGCATACATACACTCAGTGTAATACA
TATAATCACATATAGTTATAACCAACACATAATCATGTCTATGACTTCATGCATATTACTCTAGG
AAATAGACTCATCGCAAGTCTTATTTCCATTAAACACTACATGTCACTAGTATGCACTAACCTTG
ACCTCACTAGTCAATTCCAATCTATTATCTTTCCCTTGATCAATCTTACTTGCCAAATGTTCCGG
AATTGCTTTACACGCAGAATCTACATAAATGTACATTTTAAGGCAATCATTACATACTTACACCT
TGTAATTAGATACTAGCAACTTAAACGAACTTATTAAACCCATATTTACAATTTTCCTTTAGGGG
GTATCGATTCCCTACTGTGGAGGTATCGGTTCCCCTCTAGCATTCTGGAATTCCATGTTCGTTTG
AGGGGGTATCGATTCCCCTTGAATGGGTATCGATTCCCCTAGCCCAGAAATCCTATTTTGAGCTC
GAAATTCACTTCATTTCAGCTTAAACCTTCATATTTTACTTCCTTTAATATTCCTAACTTCCATA
CACATATTTAAACTCATTTCTATTCCATAATCACTTCTTTAAACCCAAAATTCCATCATTTACAT
GGCATTCAAGAATCACACTAAATTTTCAATGTGTTCTAATTCCAAGTCTAACACTTCATACTTCT
TAATTAGATTGATAACAAGTCAAATTCATCCATAAAACTTCAACAACCATACCATATCAAAATTT
CTCG
Found at i:433530 original size:63 final size:63
Alignment explanation
Indices: 433421--433726 Score: 184
Period size: 63 Copynumber: 4.9 Consensus size: 63
433411 TAACAATATC
* * * * * ** * *
433421 TTTTAATTTAAAATATTCAAAAGATAAAACT-CCTTTTACCATTCAAACTTAAATATGTAATA
1 TTTTAATTTGAAATATACAAAAGATATAATTATCTTTTAATATTCAAAATTAAATATATAATA
* * * *
433483 TTTTTATTTGAAATATACAAAAGTATATAATTATC-TTTAATATTCAAAGTTAAAAAGGTAACAA
1 TTTTAATTTGAAATATACAAAAG-ATATAATTATCTTTTAATATTCAAAATTAAATA--T-A-TA
433547 ATACA
61 AT--A
* * * * *
433552 TTTTTAAGTTGACATATTC-AAAGGT-TAATTATCCTATTAATATTCAAAATTAAATA-AT-ATA
1 -TTTTAATTTGAAATATACAAAAGATATAATTAT-CTTTTAATATTCAAAATTAAATATATAATA
* * * * * * * *
433613 -TTTAATTTGCAATAGT-CAAAAGGTA-AACT-CCTTTTACTATTCAAACTTAAACATATATTA
1 TTTTAATTTGAAATA-TACAAAAGATATAATTATCTTTTAATATTCAAAATTAAATATATAATA
* *
433673 TTTTAATTTAAAATA-ACAAAAATATATAATTATCTTTTAATATTCAAAATTAAA
1 TTTTAATTTGAAATATAC-AAAAGATATAATTATCTTTTAATATTCAAAATTAAA
433727 AAGATAACAA
Statistics
Matches: 184, Mismatches: 39, Indels: 41
0.70 0.15 0.16
Matches are distributed among these distances:
58 19 0.10
59 14 0.08
60 13 0.07
61 19 0.10
62 23 0.12
63 44 0.24
64 1 0.01
65 2 0.01
67 10 0.05
68 2 0.01
69 23 0.12
70 14 0.08
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (63 bp):
TTTTAATTTGAAATATACAAAAGATATAATTATCTTTTAATATTCAAAATTAAATATATAATA
Found at i:433728 original size:190 final size:191
Alignment explanation
Indices: 433422--433774 Score: 498
Period size: 190 Copynumber: 1.9 Consensus size: 191
433412 AACAATATCT
* * *
433422 TTTAATTTAAAATATTCAAAAGATAAAACTCCTTTTACCATTCAAACTTAAATATGTAATATTTT
1 TTTAATTTAAAATAGTCAAAAGATAAAACTCCTTTTACCATTCAAACTTAAACATATAATATTTT
* * * * *
433487 TATTTGAAATATACAAAAGTATATAATTATCTTTAATATTCAAAGTTAAAAAGGTAACAAATA-C
66 AATTTAAAATATACAAAAATATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAATATC
* * *
433551 ATTTTTAAGTTGACATATTCAAAG-GTTAATTATCCTATTAATATTCAAAATTAAATAATATA
131 -TTTCTAAATTGACATATTAAAAGAG-TAATTATCCTATTAATATTCAAAATTAAATAATATA
** * * *
433613 TTTAATTTGCAATAGTCAAAAGGT-AAACTCCTTTTACTATTCAAACTTAAACATATATTATTTT
1 TTTAATTTAAAATAGTCAAAAGATAAAACTCCTTTTACCATTCAAACTTAAACATATAATATTTT
433677 AATTTAAAATA-ACAAAAATATATAATTATCTTTTAATATTCAAAATTAAAAAGATAACAAATAT
66 AATTTAAAATATACAAAAATATATAATTATC-TTTAATATTCAAAATTAAAAAGATAACAAATAT
*
433741 CTTTCTAAATTGACTTATTAAAAGAGTAATTATC
130 CTTTCTAAATTGACATATTAAAAGAGTAATTATC
433775 AGATTTCCTT
Statistics
Matches: 142, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
189 18 0.13
190 102 0.72
191 22 0.15
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (191 bp):
TTTAATTTAAAATAGTCAAAAGATAAAACTCCTTTTACCATTCAAACTTAAACATATAATATTTT
AATTTAAAATATACAAAAATATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAATATC
TTTCTAAATTGACATATTAAAAGAGTAATTATCCTATTAATATTCAAAATTAAATAATATA
Done.