Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 49
Found at i:6277212 original size:7 final size:7
Alignment explanation
Indices: 6277200--6277244 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
6277190 GTCAAAGAAA
6277200 GTCAACG
1 GTCAACG
*
6277207 GTCAACA
1 GTCAACG
6277214 GTCAACG
1 GTCAACG
6277221 GTCAACG
1 GTCAACG
6277228 GTCAACG
1 GTCAACG
6277235 GTCAACG
1 GTCAACG
6277242 GTC
1 GTC
6277245 GGGTCGGGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:6277251 original size:5 final size:5
Alignment explanation
Indices: 6277241--6277303 Score: 72
Period size: 5 Copynumber: 11.8 Consensus size: 5
6277231 AACGGTCAAC
* *
6277241 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCAAC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTC--G
6277290 GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTC
6277304 AGATCGGTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 42 0.84
7 8 0.16
ACGTcount: A:0.06, C:0.22, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:6277275 original size:39 final size:38
Alignment explanation
Indices: 6277227--6277303 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
6277217 AACGGTCAAC
*
6277227 GGTCAACGGTCAACGGTCGGGTC-GGGTCGGGTCGGGTCG
1 GGTCAACGGTC--CGGTCGGGTCACGGTCGGGTCGGGTCG
*
6277266 GGTCAACGGTCGGGTCGGGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCCGGTCGGGTC-ACGGTCGGGTCGGGTC
6277304 AGATCGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 9 0.26
39 25 0.74
ACGTcount: A:0.10, C:0.23, G:0.48, T:0.18
Consensus pattern (38 bp):
GGTCAACGGTCCGGTCGGGTCACGGTCGGGTCGGGTCG
Found at i:6277278 original size:17 final size:17
Alignment explanation
Indices: 6277234--6277304 Score: 119
Period size: 17 Copynumber: 4.3 Consensus size: 17
6277224 AACGGTCAAC
6277234 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
6277251 GGTC--GGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
6277266 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
6277283 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
6277300 GGTCA
1 GGTCA
6277305 GATCGGTCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.28
17 36 0.72
ACGTcount: A:0.10, C:0.23, G:0.49, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:6277347 original size:19 final size:19
Alignment explanation
Indices: 6277302--6277369 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
6277292 TCGGGTCGGG
*
6277302 TCAGATCGGTCAAACCGAT
1 TCAGACCGGTCAAACCGAT
*
6277321 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGAT
*
6277340 TC-GAACCGGTTGAAACCGA-
1 TCAG-ACCGG-TCAAACCGAT
6277359 TCAGAACCGGT
1 TCAG-ACCGGT
6277370 TGAAAACCGG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.02
19 27 0.64
20 14 0.33
ACGTcount: A:0.29, C:0.28, G:0.25, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGAT
Found at i:6277357 original size:20 final size:20
Alignment explanation
Indices: 6277332--6277390 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
6277322 CAGACCGGTC
6277332 AAACCGGTTCGAACCGGTTG-
1 AAACCGG-TCGAACCGGTTGA
*
6277352 AAACCGATCAGAACCGGTTGA
1 AAACCGGTC-GAACCGGTTGA
*
6277373 AAACCGGTCAAACCGGTT
1 AAACCGGTCGAACCGGTT
6277391 TCCAGCAGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.06
20 24 0.71
21 8 0.24
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.17
Consensus pattern (20 bp):
AAACCGGTCGAACCGGTTGA
Found at i:6283569 original size:32 final size:31
Alignment explanation
Indices: 6283533--6283609 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
6283523 CGGGGCCATG
*
6283533 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
6283565 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
6283596 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
6283610 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:6284480 original size:7 final size:7
Alignment explanation
Indices: 6284468--6284498 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
6284458 GTCAAAGAAA
6284468 GTCAACG
1 GTCAACG
6284475 GTCAACG
1 GTCAACG
6284482 GTCAACG
1 GTCAACG
6284489 GTCAACG
1 GTCAACG
6284496 GTC
1 GTC
6284499 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:6284516 original size:22 final size:22
Alignment explanation
Indices: 6284488--6284530 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
6284478 AACGGTCAAC
6284488 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
6284510 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
6284531 AGACCGGTCA
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:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:6284545 original size:9 final size:9
Alignment explanation
Indices: 6284527--6284644 Score: 101
Period size: 9 Copynumber: 12.3 Consensus size: 9
6284517 GGTCGGGTCG
*
6284527 GGTCAGACC
1 GGTCAAACC
6284536 GGTCAAACC
1 GGTCAAACC
* *
6284545 GATTCAGACC
1 G-GTCAAACC
6284555 GGTCAAACC
1 GGTCAAACC
* *
6284564 AGTTCGAACC
1 -GGTCAAACC
*
6284574 GGTTAAAACC
1 GG-TCAAACC
6284584 GGTCAAACC
1 GGTCAAACC
6284593 GGTCAGAACC
1 GGTCA-AACC
*
6284603 GGTCAAACT
1 GGTCAAACC
6284612 GGTCAGAACC
1 GGTCA-AACC
*
6284622 GGTTGAAAACC
1 GG-T-CAAACC
6284633 GGTCAAACC
1 GGTCAAACC
6284642 GGT
1 GGT
6284645 TTCCAGCAGC
Statistics
Matches: 87, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
9 43 0.49
10 36 0.41
11 7 0.08
12 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:6284574 original size:19 final size:18
Alignment explanation
Indices: 6284533--6284642 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 18
6284523 GTCGGGTCAG
*
6284533 ACCGGTCAAACCGATTCAG
1 ACCGGTCAAACCG-TTCAA
*
6284552 ACCGGTCAAACCAGTTCGA
1 ACCGGTCAAACC-GTTCAA
* *
6284571 ACCGGTTAAAACCGGTCAA
1 ACCGG-TCAAACCGTTCAA
*
6284590 ACCGGTCAGAACCGGTCAA
1 ACCGGTCA-AACCGTTCAA
* *
6284609 ACTGGTCAGAACCGGTTGAAA
1 ACCGGTCA-AACC-GTT-CAA
6284630 ACCGGTCAAACCG
1 ACCGGTCAAACCG
6284643 GTTTCCAGCA
Statistics
Matches: 76, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
18 2 0.03
19 52 0.68
20 13 0.17
21 9 0.12
ACGTcount: A:0.33, C:0.29, G:0.24, T:0.15
Consensus pattern (18 bp):
ACCGGTCAAACCGTTCAA
Found at i:6284585 original size:48 final size:49
Alignment explanation
Indices: 6284533--6284644 Score: 158
Period size: 48 Copynumber: 2.3 Consensus size: 49
6284523 GTCGGGTCAG
* *
6284533 ACCGGTCAAACCGATTCAG-ACCGGTCAAACCAGTTC-GAACCGGTT-AAA
1 ACCGGTCAAACCG-GTCAGAACCGGTCAAA-CAGGTCAGAACCGGTTGAAA
*
6284581 ACCGGTCAAACCGGTCAGAACCGGTCAAACTGGTCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTCAGAACCGGTCAAACAGGTCAGAACCGGTTGAAA
6284630 ACCGGTCAAACCGGT
1 ACCGGTCAAACCGGT
6284645 TTCCAGCAGC
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
47 8 0.14
48 32 0.55
49 18 0.31
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.15
Consensus pattern (49 bp):
ACCGGTCAAACCGGTCAGAACCGGTCAAACAGGTCAGAACCGGTTGAAA
Found at i:6284601 original size:29 final size:27
Alignment explanation
Indices: 6284527--6284644 Score: 101
Period size: 29 Copynumber: 4.1 Consensus size: 27
6284517 GGTCGGGTCG
* * *
6284527 GGTCAGACCGGTCAAACCGATTCAGACC
1 GGTCAAACCGGTCAAACCG-GTCAAACC
* * *
6284555 GGTCAAACCAGTTCGAACCGGTTAAAACC
1 GGTCAAACC-GGTCAAACCGG-TCAAACC
*
6284584 GGTCAAACCGGTCAGAACCGGTCAAACT
1 GGTCAAACCGGTCA-AACCGGTCAAACC
*
6284612 GGTCAGAACCGGTTGAAAACCGGTCAAACC
1 GGTCA-AACCGG-T-CAAACCGGTCAAACC
6284642 GGT
1 GGT
6284645 TTCCAGCAGC
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
28 21 0.29
29 34 0.47
30 16 0.22
31 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.15
Consensus pattern (27 bp):
GGTCAAACCGGTCAAACCGGTCAAACC
Found at i:6291775 original size:15 final size:15
Alignment explanation
Indices: 6291755--6291786 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6291745 AAACTAAGTC
6291755 AATCGAGCCAACTCA
1 AATCGAGCCAACTCA
*
6291770 AATCGAGTCAACTCA
1 AATCGAGCCAACTCA
6291785 AA
1 AA
6291787 CTGGTCTGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.28, G:0.12, T:0.16
Consensus pattern (15 bp):
AATCGAGCCAACTCA
Found at i:6294147 original size:366 final size:366
Alignment explanation
Indices: 6293475--6294209 Score: 1299
Period size: 366 Copynumber: 2.0 Consensus size: 366
6293465 TCTAATATCT
* *
6293475 GGTTTTGATAATATATACATCTAGCTCCGGATTTTGATATTATCATTTACTGTTTAACATTCTTT
1 GGTTTTGATAATATATACATCTAGCTCCGGATTTTGATATTAGCATTTACTGTTTAACATACTTT
* *
6293540 ATAATGGGGTATTATCTGGGATTTGTTATAAGCCTAAGGCAACCCTTGAGGTTGTCTCCTAGGCC
66 ATAATGGGGTATTATCTGGGATCTGTTATAAGCCTAAGGCAACCCTTGAGGTGGTCTCCTAGGCC
6293605 CAATAAGCCTTGTGGTAAGACTTTATAGACCCTAAGGGTTGCTATTTTGCTTTGTGCTTAAGGTA
131 CAATAAGCCTTGTGGTAAGACTTTATAGACCCTAAGGGTTGCTATTTTGCTTTGTGCTTAAGGTA
6293670 AATCCTTATGGAACTAGGGGAACTCTTCTCAAGTGGCTCCTACGCTTCGGTTAAGGTAAGTTCTT
196 AATCCTTATGGAACTAGGGGAACTCTTCTCAAGTGGCTCCTACGCTTCGGTTAAGGTAAGTTCTT
* * *
6293735 ATGGACCCAAGATTCTCCCTTAGGTTGGCTCCTACGCCCAATGGGCCTAGGATAAGTCCTTATGG
261 ATGGACCCAAGATACTCCCTTAGGTTGGCTCATACGCCCAATGGGCCTAGAATAAGTCCTTATGG
* *
6293800 ATGTAGTTTTGGGGAATTGCATAGGAAATGTTTAGGTAGAG
326 ATGCAGTTTTGGGGAACTGCATAGGAAATGTTTAGGTAGAG
* * *
6293841 GGTTTTGATAATATATACATCTAGCTTCGGATTTTGATATTAGCGTTTACTGTTTAACCTACTTT
1 GGTTTTGATAATATATACATCTAGCTCCGGATTTTGATATTAGCATTTACTGTTTAACATACTTT
*
6293906 ATAATGGGGTATTATCTGGGATCTGTTATAAGCCTAAGGCGACCCTTGAGGTGGTCTCCTAGGCC
66 ATAATGGGGTATTATCTGGGATCTGTTATAAGCCTAAGGCAACCCTTGAGGTGGTCTCCTAGGCC
* * *
6293971 TAATAAGCCTTGTGGTAAGACTTTATAGACCCTAAGGGTTGCTCTTTTGCTTTGTGCTTGAGGTA
131 CAATAAGCCTTGTGGTAAGACTTTATAGACCCTAAGGGTTGCTATTTTGCTTTGTGCTTAAGGTA
* *
6294036 AATCCTTATGGAACTGGGGGCACTCTTCTCAAGTGGCTCCTACGCTTCGGTTAAGGTAAGTTCTT
196 AATCCTTATGGAACTAGGGGAACTCTTCTCAAGTGGCTCCTACGCTTCGGTTAAGGTAAGTTCTT
6294101 ATGGACCCAAGATACTCCCTTAGGTTGGCTCATACGCCCAATGGGCCTAGAATAAGTCCTTATGG
261 ATGGACCCAAGATACTCCCTTAGGTTGGCTCATACGCCCAATGGGCCTAGAATAAGTCCTTATGG
*
6294166 ATGCAGTTTTGGGGAACTGCATATGAAATGTTTAGGTAGAG
326 ATGCAGTTTTGGGGAACTGCATAGGAAATGTTTAGGTAGAG
6294207 GGT
1 GGT
6294210 ATTTCAATGA
Statistics
Matches: 350, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
366 350 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (366 bp):
GGTTTTGATAATATATACATCTAGCTCCGGATTTTGATATTAGCATTTACTGTTTAACATACTTT
ATAATGGGGTATTATCTGGGATCTGTTATAAGCCTAAGGCAACCCTTGAGGTGGTCTCCTAGGCC
CAATAAGCCTTGTGGTAAGACTTTATAGACCCTAAGGGTTGCTATTTTGCTTTGTGCTTAAGGTA
AATCCTTATGGAACTAGGGGAACTCTTCTCAAGTGGCTCCTACGCTTCGGTTAAGGTAAGTTCTT
ATGGACCCAAGATACTCCCTTAGGTTGGCTCATACGCCCAATGGGCCTAGAATAAGTCCTTATGG
ATGCAGTTTTGGGGAACTGCATAGGAAATGTTTAGGTAGAG
Found at i:6294657 original size:2 final size:2
Alignment explanation
Indices: 6294650--6294686 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6294640 TTCTTGCATG
6294650 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6294687 CGATATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6304462 original size:45 final size:45
Alignment explanation
Indices: 6304399--6304485 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 45
6304389 GTCATCTCTG
*
6304399 ATTATTAATCAGATTAAAAAGAAAATGCT-GCCTTTATGATGCCCT
1 ATTATTAATCAAATTAAAAAGAAAATG-TAGCCTTTATGATGCCCT
*
6304444 ATTATTAATCAAATTAAAAAGAAAATGTAGCCTTTGTGATGC
1 ATTATTAATCAAATTAAAAAGAAAATGTAGCCTTTATGATGC
6304486 ACTAGCTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 1 0.03
45 38 0.97
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (45 bp):
ATTATTAATCAAATTAAAAAGAAAATGTAGCCTTTATGATGCCCT
Found at i:6315780 original size:57 final size:57
Alignment explanation
Indices: 6315692--6315808 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
6315682 ATTACCTAAA
6315692 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
1 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
*
6315749 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
1 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
6315806 GGA
1 GGA
6315809 GGTTCCATAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (57 bp):
GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
Found at i:6315984 original size:21 final size:21
Alignment explanation
Indices: 6315958--6316001 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
6315948 GAGAGAGCTG
6315958 AACTGATTCATCAATATCCCA
1 AACTGATTCATCAATATCCCA
6315979 AACTGATTCATCAATATCCCA
1 AACTGATTCATCAATATCCCA
6316000 AA
1 AA
6316002 TTTGATATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (21 bp):
AACTGATTCATCAATATCCCA
Found at i:6319384 original size:31 final size:31
Alignment explanation
Indices: 6319340--6319401 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
6319330 AAAAAGTTAA
*
6319340 CTAGTCCTCAACTAGGTTTGAGATTCGGTTG
1 CTAGTCCTCAACTAGATTTGAGATTCGGTTG
* *
6319371 CTAGTACCT-AACTAGATTTGAGCTTGGGTTG
1 CTAGT-CCTCAACTAGATTTGAGATTCGGTTG
6319402 TTTATGGCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (31 bp):
CTAGTCCTCAACTAGATTTGAGATTCGGTTG
Found at i:6326262 original size:75 final size:75
Alignment explanation
Indices: 6326139--6326289 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 75
6326129 TTTCAGGTGC
* *
6326139 GCATATTGTTTTTTGTATGGATATTTGAAACGTTTGTCCAACTTTCATTCACATTTTACTTTACA
1 GCATATTGTTTTTTGTATGGACATTTGAAACATTTGTCCAACTTTCATTCACATTTTACTTTACA
6326204 TATATTCAGA
66 TATATTCAGA
*
6326214 GCATATTGTTTTTTGTATGGACATTTGAAACATTTGTCCAAGTTTCATTCACATTTTACTTTACA
1 GCATATTGTTTTTTGTATGGACATTTGAAACATTTGTCCAACTTTCATTCACATTTTACTTTACA
*
6326279 TATTTTCAGA
66 TATATTCAGA
6326289 G
1 G
6326290 ACGAGATGTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (75 bp):
GCATATTGTTTTTTGTATGGACATTTGAAACATTTGTCCAACTTTCATTCACATTTTACTTTACA
TATATTCAGA
Found at i:6327153 original size:2 final size:2
Alignment explanation
Indices: 6327146--6327183 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6327136 TATTTGTAGT
6327146 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6327184 GATTAAGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6329592 original size:60 final size:60
Alignment explanation
Indices: 6329528--6329655 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
6329518 ATAGTTAGGT
* ** * *
6329528 GACCATTTTGTAACTTTTAATAGTTGAGGGACTTAACAAAGTAACATCCTATAGTCGGA-G
1 GACCATTTTGTAACTGTTAATAGTCAAGGGACTCAACAAAGTAACACCCTATAGTC-GATG
* * *
6329588 GACCATTTTGTAACTGTTAATAGTCAATGGACTCAACAAAGTAATACCCTGTAGTCGATG
1 GACCATTTTGTAACTGTTAATAGTCAAGGGACTCAACAAAGTAACACCCTATAGTCGATG
6329648 GACCATTT
1 GACCATTT
6329656 GTATAATTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
59 2 0.03
60 57 0.97
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (60 bp):
GACCATTTTGTAACTGTTAATAGTCAAGGGACTCAACAAAGTAACACCCTATAGTCGATG
Found at i:6335061 original size:14 final size:14
Alignment explanation
Indices: 6335042--6335076 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
6335032 AAAGCAAAGG
6335042 GAAAGGAAGAGAGA
1 GAAAGGAAGAGAGA
*
6335056 GAAAGGAAGAGAGG
1 GAAAGGAAGAGAGA
6335070 GAAAGGA
1 GAAAGGA
6335077 GGTGTTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (14 bp):
GAAAGGAAGAGAGA
Found at i:6345466 original size:61 final size:61
Alignment explanation
Indices: 6345395--6345554 Score: 275
Period size: 61 Copynumber: 2.6 Consensus size: 61
6345385 CCATCTCCTG
6345395 CACTAAGTTTACACTCTAGGGCAGATCCGGATATGACACATAAAGTCATGCCCACAATCTT
1 CACTAAGTTTACACTCTAGGGCAGATCCGGATATGACACATAAAGTCATGCCCACAATCTT
*
6345456 CACTAGGTTTACACTCTAGGGCAGATCCGGATATGACACATAAAGTCATGCCCACAATCTT
1 CACTAAGTTTACACTCTAGGGCAGATCCGGATATGACACATAAAGTCATGCCCACAATCTT
* ** *
6345517 CACTAAGTTTACACTCTAGTGTTGATTCGGATATGACA
1 CACTAAGTTTACACTCTAGGGCAGATCCGGATATGACA
6345555 TAAGGTCGTA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 93 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (61 bp):
CACTAAGTTTACACTCTAGGGCAGATCCGGATATGACACATAAAGTCATGCCCACAATCTT
Found at i:6349221 original size:19 final size:21
Alignment explanation
Indices: 6349199--6349255 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
6349189 AGAACCCCAG
*
6349199 GGGGGTATCGATTCCCC-T-A
1 GGGGGTATCGGTTCCCCTTAA
*
6349218 GGGGGAATCGGTTCCCCTTCAA
1 GGGGGTATCGGTTCCCCTT-AA
6349240 GGGGGTATCGGTTCCC
1 GGGGGTATCGGTTCCC
6349256 TCTGCCCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.47
20 1 0.03
22 16 0.50
ACGTcount: A:0.14, C:0.26, G:0.35, T:0.25
Consensus pattern (21 bp):
GGGGGTATCGGTTCCCCTTAA
Found at i:6359393 original size:36 final size:36
Alignment explanation
Indices: 6359340--6359416 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
6359330 AAATTTTTAA
* *
6359340 TTTTTAAAATTATTTCACCATTACATTCTAAATTAT
1 TTTTTAAAATTATTTCACCATAACAATCTAAATTAT
* *
6359376 TATTTT-AAATTATTTCACCCTAATAATCTAAATTAT
1 T-TTTTAAAATTATTTCACCATAACAATCTAAATTAT
6359412 TTTTT
1 TTTTT
6359417 CAACTTCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 4 0.11
36 28 0.78
37 4 0.11
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (36 bp):
TTTTTAAAATTATTTCACCATAACAATCTAAATTAT
Found at i:6359452 original size:19 final size:20
Alignment explanation
Indices: 6359427--6359477 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
6359417 CAACTTCAAA
*
6359427 ATATTTTAAATTT-AATTGT
1 ATATTTTAAATTTCAATTAT
*
6359446 AT-TTTTTAATTTCAATTAT
1 ATATTTTAAATTTCAATTAT
*
6359465 ATAATTTAAATTT
1 ATATTTTAAATTT
6359478 TTAAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 9 0.35
19 9 0.35
20 8 0.31
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
ATATTTTAAATTTCAATTAT
Found at i:6359553 original size:16 final size:16
Alignment explanation
Indices: 6359534--6359567 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6359524 TTTTTATGTA
6359534 AATAT-ATTTAGAAAAT
1 AATATAATTTA-AAAAT
6359550 AATATAATTTAAAAAT
1 AATATAATTTAAAAAT
6359566 AA
1 AA
6359568 AAATATATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AATATAATTTAAAAAT
Found at i:6360339 original size:24 final size:24
Alignment explanation
Indices: 6360310--6360357 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
6360300 TTTAGTATTT
6360310 AAATTATTAATTTT-GATTTTTTTA
1 AAATTATT-ATTTTCGATTTTTTTA
6360334 AAATTATTATTTTCGATTTTTTTA
1 AAATTATTATTTTCGATTTTTTTA
6360358 CTTAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (24 bp):
AAATTATTATTTTCGATTTTTTTA
Found at i:6368465 original size:128 final size:128
Alignment explanation
Indices: 6368237--6368743 Score: 694
Period size: 128 Copynumber: 3.8 Consensus size: 128
6368227 TTACCTGATT
6368237 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
6368302 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
* *
6368365 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGGCATAATAAGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *** *
6368430 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCT-GAGAAATAATAGG
* *
6368493 TACTAATATATCTAGTGTCCCCGAGGGATATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * **
6368558 TGACAAAATAATGGAAAGTGCGCCCCCGGGAACGCGCGCCCCCGGGAACG-CGCCTTCATGTGAA
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAA--CGCGCCTTC---AA-GTC-CC--C---TG--
*
6368622 TAGTGAATTAATAGG
117 -A--GAAATAATAGG
*
6368637 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGATATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
6368702 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCTCCTTCA
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCA
6368744 TGTGAATAGT
Statistics
Matches: 331, Mismatches: 29, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
127 1 0.00
128 210 0.63
130 7 0.02
133 1 0.00
134 1 0.00
139 2 0.01
140 1 0.00
142 6 0.02
144 102 0.31
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
Found at i:6368596 original size:16 final size:16
Alignment explanation
Indices: 6368577--6368610 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6368567 AATGGAAAGT
6368577 GCGCCCCCGGGAACGC
1 GCGCCCCCGGGAACGC
6368593 GCGCCCCCGGGAACGC
1 GCGCCCCCGGGAACGC
6368609 GC
1 GC
6368611 CTTCATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.50, G:0.38, T:0.00
Consensus pattern (16 bp):
GCGCCCCCGGGAACGC
Found at i:6368707 original size:144 final size:144
Alignment explanation
Indices: 6368442--6368736 Score: 527
Period size: 144 Copynumber: 2.0 Consensus size: 144
6368432 ACAAAATAAT
*
6368442 GGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTAATATATCTA
1 GGAACGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTAATATATCTA
*
6368507 GTGTCCCCGAGGGATATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGG
66 GTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGG
*
6368572 AAAGTGCGCCCCCG
131 AAAGCGCGCCCCCG
* *
6368586 GGAACGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAATTAATAGGTACTGATATATCTA
1 GGAACGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTAATATATCTA
*
6368651 GTGTCCCCGAGGGACATGAGTGATATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGG
66 GTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGG
*
6368716 AAGGCGCGCCCCCG
131 AAAGCGCGCCCCCG
6368730 GGAACGC
1 GGAACGC
6368737 TCCTTCATGT
Statistics
Matches: 144, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 144 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (144 bp):
GGAACGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTAATATATCTA
GTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGG
AAAGCGCGCCCCCG
Found at i:6368837 original size:8 final size:8
Alignment explanation
Indices: 6368824--6368864 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
6368814 TCACAAGCTT
6368824 TCAAATTC
1 TCAAATTC
6368832 TCAAATTC
1 TCAAATTC
* *
6368840 CCAAACTC
1 TCAAATTC
6368848 T-AAATTC
1 TCAAATTC
6368855 TCAAATTC
1 TCAAATTC
6368863 TC
1 TC
6368865 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:6374048 original size:33 final size:32
Alignment explanation
Indices: 6374003--6374068 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
6373993 AATTCTCATG
* * *
6374003 TTCAAAATTTGGCCACCAATCAAAATGAAATT
1 TTCAAAAGTTGGCCACCAACCAAAATAAAATT
*
6374035 TTCAATAAGTTGGCCACCAACCAAGATAAAATT
1 TTCAA-AAGTTGGCCACCAACCAAAATAAAATT
6374068 T
1 T
6374069 CCAACTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (32 bp):
TTCAAAAGTTGGCCACCAACCAAAATAAAATT
Found at i:6383340 original size:45 final size:45
Alignment explanation
Indices: 6383288--6383565 Score: 310
Period size: 45 Copynumber: 6.2 Consensus size: 45
6383278 AATACATCAT
* * *
6383288 TATGCATTTTAAACTCTAACAT-CTTTTCCGTTGATAATGCACCCA
1 TATGCA-TTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* * * * *
6383333 TATGCATTTCAACTATAGTATACTTTTATGTTGATAGTGTACCCA
1 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* * * *
6383378 TATACATCTCAA-TCATAGCATACTTTTTTGTTGATAATGTACCCA
1 TATGCATTTCAACTC-TAGCATACTTTTCTGTTGATAATGCACCCA
* * *
6383423 TATACATTTCAACTCTAGCATACTTTTTTGTTGATAATACACCCA
1 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
*
6383468 TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* * ***
6383513 TATGCATTTCAACTCTGGCAT-CCTTTCATGCCAATAATGCACCCA
1 TATGCATTTCAACTCTAGCATACTTTTC-TGTTGATAATGCACCCA
*
6383558 TGTGCATT
1 TATGCATT
6383566 ATTCTTTTAT
Statistics
Matches: 201, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
44 17 0.08
45 182 0.91
46 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.39
Consensus pattern (45 bp):
TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
Found at i:6383621 original size:79 final size:79
Alignment explanation
Indices: 6383503--6383652 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 79
6383493 TTCTGTTGAT
* * * *
6383503 AATGCACCCATATGCATTTCAACTCTGGCATCCTTTCATGCCAATAATGCACCCATGTGCATTAT
1 AATGCACCCATATACATTTCAACTATGACATCCTTTCATGCCAATAATGCACCCATATGCATTAT
6383568 TCTTTTATGCTGAC
66 TCTTTTATGCTGAC
* * * *
6383582 AATGTACCCATATACATTTCAGCTATGACATTCTTTCATGTCAATAATGCACCCATATGCATTAT
1 AATGCACCCATATACATTTCAACTATGACATCCTTTCATGCCAATAATGCACCCATATGCATTAT
6383647 TCTTTT
66 TCTTTT
6383653 TCATTTGTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 63 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (79 bp):
AATGCACCCATATACATTTCAACTATGACATCCTTTCATGCCAATAATGCACCCATATGCATTAT
TCTTTTATGCTGAC
Found at i:6384060 original size:18 final size:19
Alignment explanation
Indices: 6384037--6384073 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6384027 ACATTTTTGA
6384037 CCCTT-AGGTATCGATACC
1 CCCTTAAGGTATCGATACC
*
6384055 CCCTTAATGTATCGATACC
1 CCCTTAAGGTATCGATACC
6384074 GAAATTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (19 bp):
CCCTTAAGGTATCGATACC
Found at i:6384197 original size:75 final size:74
Alignment explanation
Indices: 6384063--6384203 Score: 178
Period size: 75 Copynumber: 1.9 Consensus size: 74
6384053 CCCCCTTAAT
* *
6384063 GTATCGATACCGAAATTAACTTCGATGTAGTCTGGTATCGATACCATGGTGCTATGGTACCGATA
1 GTATCGATACCCAAATTAACTTCGATGTAGTCTGGTATCGATACCATAGTGCTATGGTACCGATA
6384128 CCCCTCTAG
66 CCCCTCTAG
* ** * *
6384137 GTATTGATACCCAAATTAGA-TTCGATGTTTTACTGGTATCGATACCCTATTGCT-TGGGTACCG
1 GTATCGATACCCAAATTA-ACTTCGATGTAGT-CTGGTATCGATACCATAGTGCTAT-GGTACCG
6384200 ATAC
63 ATAC
6384204 TGGTTGAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
74 26 0.46
75 31 0.54
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (74 bp):
GTATCGATACCCAAATTAACTTCGATGTAGTCTGGTATCGATACCATAGTGCTATGGTACCGATA
CCCCTCTAG
Found at i:6385116 original size:30 final size:30
Alignment explanation
Indices: 6385037--6385134 Score: 124
Period size: 30 Copynumber: 3.2 Consensus size: 30
6385027 CCCGCAGGAC
*
6385037 CTATCCAGAGGTCATAAAGATCATCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
6385067 CTATCCAGAGGTAATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* ** * *
6385097 CTATCCATAGGTCCCAAAGAACCTAGGTTAA
1 CTATCCAGAGGTCATAAAGATCCTCGG-TAA
6385128 CTATCCA
1 CTATCCA
6385135 TATGTTCCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
30 49 0.83
31 10 0.17
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:6385149 original size:31 final size:30
Alignment explanation
Indices: 6385092--6385187 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 30
6385082 AAAGATCCTC
* *
6385092 GGTAACTATCCATAGGTCCCAAAGAACCTA
1 GGTAACTATCCATATGTCCCAAAGAACATA
* **
6385122 GGTTAACTATCCATATGTTCCTTAGAACATA
1 GG-TAACTATCCATATGTCCCAAAGAACATA
* *
6385153 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTA-ACTATCCATATGTC-CCAAAGAACATA
6385184 GGTA
1 GGTA
6385188 GTTCTTTGAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
30 4 0.08
31 46 0.87
32 3 0.06
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (30 bp):
GGTAACTATCCATATGTCCCAAAGAACATA
Found at i:6389509 original size:30 final size:30
Alignment explanation
Indices: 6389473--6389570 Score: 124
Period size: 30 Copynumber: 3.2 Consensus size: 30
6389463 CCCGCAGGAC
6389473 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
6389503 CTATCCAGAGGTAATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* * ** * *
6389533 CTGTCCATAGGTCCCAAAGAACCTAGGTTAA
1 CTATCCAGAGGTCATAAAGATCCTCGG-TAA
6389564 CTATCCA
1 CTATCCA
6389571 TATGTTCCTT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
30 49 0.84
31 9 0.16
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:6391513 original size:119 final size:119
Alignment explanation
Indices: 6391302--6391540 Score: 478
Period size: 119 Copynumber: 2.0 Consensus size: 119
6391292 TTTAATCACC
6391302 ATATTCTGAAATTTTACAATTTTGGTCACTAACCCGTATTTTGGGATGTTACACCTACCCAGATT
1 ATATTCTGAAATTTTACAATTTTGGTCACTAACCCGTATTTTGGGATGTTACACCTACCCAGATT
6391367 TTCCAGGTTTTCCACTCGAAATTTACCCAACTTTGGGCAATTTTCATCTTCTTT
66 TTCCAGGTTTTCCACTCGAAATTTACCCAACTTTGGGCAATTTTCATCTTCTTT
6391421 ATATTCTGAAATTTTACAATTTTGGTCACTAACCCGTATTTTGGGATGTTACACCTACCCAGATT
1 ATATTCTGAAATTTTACAATTTTGGTCACTAACCCGTATTTTGGGATGTTACACCTACCCAGATT
6391486 TTCCAGGTTTTCCACTCGAAATTTACCCAACTTTGGGCAATTTTCATCTTCTTT
66 TTCCAGGTTTTCCACTCGAAATTTACCCAACTTTGGGCAATTTTCATCTTCTTT
6391540 A
1 A
6391541 CCCCTACAAT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.40
Consensus pattern (119 bp):
ATATTCTGAAATTTTACAATTTTGGTCACTAACCCGTATTTTGGGATGTTACACCTACCCAGATT
TTCCAGGTTTTCCACTCGAAATTTACCCAACTTTGGGCAATTTTCATCTTCTTT
Found at i:6391954 original size:9 final size:9
Alignment explanation
Indices: 6391940--6391966 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
6391930 TCTTCTAGGG
6391940 GGAAGAAGA
1 GGAAGAAGA
6391949 GGAAGAAGA
1 GGAAGAAGA
6391958 GGAAGAAGA
1 GGAAGAAGA
6391967 AAGAGAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (9 bp):
GGAAGAAGA
Found at i:6397182 original size:215 final size:206
Alignment explanation
Indices: 6396813--6397197 Score: 527
Period size: 215 Copynumber: 1.8 Consensus size: 206
6396803 AAGCATCCGA
* * *
6396813 GAAGAATAGTAGAGAAAATTTTGAACGAAATTTTCTTCCAATCTATAATCTATAAGTGTTATTTG
1 GAAGAATAGTAGAGAAAATTTTGAACGAAATTTTCTTCCAATCTATAATCTATAAGTATTATATA
* * * *
6396878 AAATAAAATTATATTCGTATTCGAATAAAATATGTTTATTTCGGGAAGGTTTTTAAAATATTATC
66 AAATAAAATTATATTCGTATTCGAATAAAATATCTCTATTTCGGAAAGGTTATTAAAATATTATC
* *
6396943 TTTAATATTTTGTTGCAGGTAAAAAAGAAGTGAGTAATAAATTCGAGAAGGTTTTTTTTATAACA
131 TTTAATATGTTGTTGCAAGTAAAAAAGAAGTGAGTAATAAATTCGAGAAGGTTTTTTTTATAACA
6397008 TCAACTTGTCG
196 TCAACTTGTCG
* * *
6397019 GAAGAATAGTAGAGAAAATTTTGAACGAAATTTTCTTTCAATCTATAATTTGTAAGTATTATGAA
1 GAAGAATAGTAGAGAAAATTTTGAACGAAATTTTCTTCCAATCTATAATCTATAAGTATTAT--A
** * *
6397084 TAAAATTTTATTCGTATTCTTATTCGTATTCGAATAATATATCTCTATTTCGGAAAGGTTATTAA
64 TAAAA---TA---AAATT-ATATTCGTATTCGAATAAAATATCTCTATTTCGGAAAGGTTATTAA
* *
6397149 AATATTGTTTTTAATATGTTGTTGCAAGTAAAAAAGAAGTGAGTAATAA
122 AATATTATCTTTAATATGTTGTTGCAAGTAAAAAAGAAGTGAGTAATAA
6397198 CATCAACTTG
Statistics
Matches: 152, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
206 58 0.38
208 4 0.03
211 2 0.01
214 3 0.02
215 85 0.56
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.39
Consensus pattern (206 bp):
GAAGAATAGTAGAGAAAATTTTGAACGAAATTTTCTTCCAATCTATAATCTATAAGTATTATATA
AAATAAAATTATATTCGTATTCGAATAAAATATCTCTATTTCGGAAAGGTTATTAAAATATTATC
TTTAATATGTTGTTGCAAGTAAAAAAGAAGTGAGTAATAAATTCGAGAAGGTTTTTTTTATAACA
TCAACTTGTCG
Found at i:6397383 original size:24 final size:25
Alignment explanation
Indices: 6397349--6397396 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
6397339 GTTTGTAGTA
*
6397349 GAAAAATAATATTTATTATAATGAC
1 GAAAAATAATATTAATTATAATGAC
6397374 GAAAAA-AATATTAATTATAATGA
1 GAAAAATAATATTAATTATAATGA
6397397 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (25 bp):
GAAAAATAATATTAATTATAATGAC
Found at i:6398861 original size:14 final size:14
Alignment explanation
Indices: 6398844--6398871 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6398834 AAATAATAAC
6398844 ATTTGAATATTAAT
1 ATTTGAATATTAAT
6398858 ATTTGAATATTAAT
1 ATTTGAATATTAAT
6398872 TAGGGTAAAC
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:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATTTGAATATTAAT
Found at i:6399120 original size:46 final size:46
Alignment explanation
Indices: 6399062--6399158 Score: 176
Period size: 46 Copynumber: 2.1 Consensus size: 46
6399052 ATGATTTACT
* *
6399062 AAAACGACGTCGTTTCAACACAACTATTTTGATGTTCAATAAAGAC
1 AAAATGACGTCGTTTCAACACAACTATTTTGATGCTCAATAAAGAC
6399108 AAAATGACGTCGTTTCAACACAACTATTTTGATGCTCAATAAAGAC
1 AAAATGACGTCGTTTCAACACAACTATTTTGATGCTCAATAAAGAC
6399154 AAAAT
1 AAAAT
6399159 AACATTGTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (46 bp):
AAAATGACGTCGTTTCAACACAACTATTTTGATGCTCAATAAAGAC
Found at i:6403246 original size:10 final size:10
Alignment explanation
Indices: 6403231--6403256 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6403221 TTCAACTTTC
6403231 TTTCTTTCCT
1 TTTCTTTCCT
6403241 TTTCTTTCCT
1 TTTCTTTCCT
6403251 TTTCTT
1 TTTCTT
6403257 CTTTTTGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTCTTTCCT
Found at i:6405942 original size:28 final size:27
Alignment explanation
Indices: 6405896--6405949 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
6405886 TGGAATACTA
* *
6405896 TTTAACATAATTTTTTTAAATATTTAT
1 TTTAAAATAATTTTATTAAATATTTAT
6405923 TTTAAAATACATTTTATTAAATATTTA
1 TTTAAAATA-ATTTTATTAAATATTTA
6405950 CTATTTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTAAAATAATTTTATTAAATATTTAT
Found at i:6406225 original size:3 final size:3
Alignment explanation
Indices: 6406217--6406243 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6406207 AGTTTTCTTC
6406217 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
6406244 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6407257 original size:17 final size:16
Alignment explanation
Indices: 6407235--6407267 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
6407225 GTTAGGACAT
6407235 TTATTTTAATAATAATA
1 TTATTTTAATAA-AATA
6407252 TTATTTTAATAAAATA
1 TTATTTTAATAAAATA
6407268 ATACCACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATTTTAATAAAATA
Found at i:6408240 original size:28 final size:29
Alignment explanation
Indices: 6408206--6408266 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
6408196 CATTTAAAGT
6408206 TATTTTTTG-TCAAAATAAATACTTAAAA
1 TATTTTTTGATCAAAATAAATACTTAAAA
* *
6408234 TA-TTTTTGATCAAAATAGATACTTAAAT
1 TATTTTTTGATCAAAATAAATACTTAAAA
6408262 TATTT
1 TATTT
6408267 AATTTTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.21
28 21 0.72
29 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.46
Consensus pattern (29 bp):
TATTTTTTGATCAAAATAAATACTTAAAA
Found at i:6408261 original size:27 final size:28
Alignment explanation
Indices: 6408199--6408266 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
6408189 CTAGAAGCAT
*
6408199 TTAAAGTTATTTTTTGTCAAAATAAATAC
1 TTAAAATTA-TTTTTGTCAAAATAAATAC
*
6408228 TTAAAA-TATTTTTGATCAAAATAGATAC
1 TTAAAATTATTTTTG-TCAAAATAAATAC
6408256 TT-AAATTATTT
1 TTAAAATTATTT
6408267 AATTTTTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 9 0.26
28 21 0.60
29 5 0.14
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (28 bp):
TTAAAATTATTTTTGTCAAAATAAATAC
Found at i:6409504 original size:17 final size:17
Alignment explanation
Indices: 6409482--6409515 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6409472 TTTCGTCAAC
6409482 AAATCGAAAAACAATGT
1 AAATCGAAAAACAATGT
6409499 AAATCGAAAAACAATGT
1 AAATCGAAAAACAATGT
6409516 GTGAACGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.18
Consensus pattern (17 bp):
AAATCGAAAAACAATGT
Found at i:6413190 original size:16 final size:16
Alignment explanation
Indices: 6413171--6413212 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
6413161 GTTTGCCTAA
6413171 GATAAAATTTGATCTT
1 GATAAAATTTGATCTT
6413187 GATAAAATTTGATCTT
1 GATAAAATTTGATCTT
6413203 GATAAAATTT
1 GATAAAATTT
6413213 ATGATGCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (16 bp):
GATAAAATTTGATCTT
Found at i:6414106 original size:34 final size:34
Alignment explanation
Indices: 6414058--6414125 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
6414048 GAAATAAACA
*
6414058 AAGAATGAGGAAACTCAAGATTCCCTCAAGAATC
1 AAGAATGAGAAAACTCAAGATTCCCTCAAGAATC
6414092 AAGAATGAGAAAACTCAAGATTCCCTCAAGAATC
1 AAGAATGAGAAAACTCAAGATTCCCTCAAGAATC
6414126 TAACTCTAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.46, C:0.21, G:0.16, T:0.18
Consensus pattern (34 bp):
AAGAATGAGAAAACTCAAGATTCCCTCAAGAATC
Found at i:6415375 original size:23 final size:23
Alignment explanation
Indices: 6415333--6415391 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
6415323 CTCATATAAA
6415333 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* **
6415356 TGCACCGTAGTGCCGGGTAGAAAT
1 TGCACCGAAGTGCCACGTAG-AAT
*
6415380 T-CACCAAAGTGC
1 TGCACCGAAGTGC
6415392 TATATAAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:6419470 original size:20 final size:20
Alignment explanation
Indices: 6419425--6419479 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
6419415 ACAAATTACT
* * *
6419425 TAAAAGTATCAAAACTATTG
1 TAAAAGTTTCGAAACTATAG
6419445 -AAAAGTTTCGAAACTATAG
1 TAAAAGTTTCGAAACTATAG
6419464 TAAAAGTTTCGAAACT
1 TAAAAGTTTCGAAACT
6419480 CCTAAGGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (20 bp):
TAAAAGTTTCGAAACTATAG
Found at i:6424050 original size:92 final size:92
Alignment explanation
Indices: 6423893--6424087 Score: 320
Period size: 92 Copynumber: 2.1 Consensus size: 92
6423883 ACCGGTCTAT
* *
6423893 AAATGACAAAACAGGTAAAACACTACTGGACATATTGAAAGTGTCGATACTTTATAAAAATGTAT
1 AAATGACAAAAAAGGTAAAACACTACCGGACATATTGAAAGTGTCGATACTTTATAAAAATGTAT
6423958 CGATCCATAACAATATAA-TAGGTAAAA
66 CGATCCATAACAATATAACT-GGTAAAA
* * * *
6423985 AAATGACAAAAAAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAGTGTAT
1 AAATGACAAAAAAGGTAAAACACTACCGGACATATTGAAAGTGTCGATACTTTATAAAAATGTAT
6424050 CGATCCATAACAATATAACTGGTAAAA
66 CGATCCATAACAATATAACTGGTAAAA
6424077 AAATGACAAAA
1 AAATGACAAAA
6424088 CCGGTCTATA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 95 0.99
93 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (92 bp):
AAATGACAAAAAAGGTAAAACACTACCGGACATATTGAAAGTGTCGATACTTTATAAAAATGTAT
CGATCCATAACAATATAACTGGTAAAA
Found at i:6424171 original size:204 final size:204
Alignment explanation
Indices: 6423822--6424200 Score: 634
Period size: 204 Copynumber: 1.9 Consensus size: 204
6423812 TTGTTGGTTT
*
6423822 GTGTCGATACTTTATAAAAATATATTGATACATAACAATATAACAGGTAAAAAATGACAAAACCG
1 GTGTCGATACTTTATAAAAATATATCGATACATAACAATATAACAGGTAAAAAATGACAAAACCG
* *
6423887 GTCTATAAATGACAAAACAGGTAAAACACTACTGGACATATTGAAAGTGTCGATACTTTATAAAA
66 GTCTATAAATGACAAAACAGGTAAAACACTACCGGACATATTGAAAGTGTCAATACTTTATAAAA
6423952 ATGTATCGATCCATAACAATATAATAGGT-AAAAAAATGACAAAAAAGGTAAAGCGCTACCGGAT
131 ATGTATCGATCCATAACAATATAATAGGTAAAAAAAATGACAAAAAAGGTAAAGCGCTACCGGAT
6424016 ATATTGAAA
196 ATATTGAAA
* * * *
6424025 GTGTCGATACTTTATAAAAGTGTATCGATCCATAACAATATAACTGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATACATAACAATATAACAGGT-AAAAAATGACAAAACC
* * * *
6424090 GGTCTATAAATGACAAAAGAGGTAAAGCGCTACCGGATATATTGAAAGTGTCAATACTTTATAAA
65 GGTCTATAAATGACAAAACAGGTAAAACACTACCGGACATATTGAAAGTGTCAATACTTTATAAA
*
6424155 AATGTATCGATCCATAACAATATAATATGTAAAAAAAATGACAAAA
130 AATGTATCGATCCATAACAATATAATAGGTAAAAAAAATGACAAAA
6424201 CCGGTCTATA
Statistics
Matches: 162, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
203 43 0.27
204 104 0.64
205 15 0.09
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (204 bp):
GTGTCGATACTTTATAAAAATATATCGATACATAACAATATAACAGGTAAAAAATGACAAAACCG
GTCTATAAATGACAAAACAGGTAAAACACTACCGGACATATTGAAAGTGTCAATACTTTATAAAA
ATGTATCGATCCATAACAATATAATAGGTAAAAAAAATGACAAAAAAGGTAAAGCGCTACCGGAT
ATATTGAAA
Found at i:6424187 original size:112 final size:113
Alignment explanation
Indices: 6423985--6424264 Score: 458
Period size: 112 Copynumber: 2.5 Consensus size: 113
6423975 ATAGGTAAAA
*
6423985 AAATGACAAAAAAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAGTGTAT
1 AAATGACAAAAAAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
6424050 CGATCCATAACAATATAACTGGT-AAAAAAATGACAAAACCGGTCTAT
66 CGATCCATAACAATATAACTGGTAAAAAAAATGACAAAACCGGTCTAT
* *
6424097 AAATGACAAAAGAGGTAAAGCGCTACCGGATATATTGAAAGTGTCAATACTTTATAAAAATGTAT
1 AAATGACAAAAAAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
*
6424162 CGATCCATAACAATATAA-TATGTAAAAAAAATGACAAAACCGGTCTAT
66 CGATCCATAACAATATAACT-GGTAAAAAAAATGACAAAACCGGTCTAT
* * *
6424210 AAATGACAAAACAGGTAAAGCGCTACCGGATATGTT-AATAGTATCGATACTTTAT
1 AAATGACAAAAAAGGTAAAGCGCTACCGGATATATTGAA-AGTGTCGATACTTTAT
6424265 TATAAGTATC
Statistics
Matches: 157, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
111 1 0.01
112 84 0.54
113 72 0.46
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (113 bp):
AAATGACAAAAAAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
CGATCCATAACAATATAACTGGTAAAAAAAATGACAAAACCGGTCTAT
Found at i:6424469 original size:182 final size:183
Alignment explanation
Indices: 6424134--6424591 Score: 706
Period size: 183 Copynumber: 2.5 Consensus size: 183
6424124 GGATATATTG
* *
6424134 AAAGTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAATATGTAAAAAAAATGACAA
1 AAAGTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACATGT-AAAAATATGACAA
* * * *
6424199 AACCGGTCT-ATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTAATAGTATCGATACTTT
65 AATCGGTCTCA-AAATGACAAAACCGGTAAAGAGCTACCAGATATGTTAATAGTATCGATACTTT
* * *
6424263 ATTATAAGTATCGACACTTTTGGAATTTAAAAG-AGAAGAAGTTATAGCGCTAAT
129 ATTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAAAAAGTTATAGCGCCAAT
6424317 AAAGTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
1 AAAGTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
* * * * * *
6424382 ATCGGTCTCGAAATGAAAAAACCGGTAAAGAGCTATCATATATGTTGAA-AGTGTTGATACTTTA
66 ATCGGTCTCAAAATGACAAAACCGGTAAAGAGCTACCAGATATGTT-AATAGTATCGATACTTTA
*
6424446 TTATAAGTATCGATACTTTTGGAATTTAAAAGAAAAAAAAGTTATAGCGCCAAT
130 TTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAAAAAGTTATAGCGCCAAT
* *
6424500 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
6424565 ATCGGTCTCAAAATGACAAAACCGGTA
66 ATCGGTCTCAAAATGACAAAACCGGTA
6424592 GTAAAAAAGT
Statistics
Matches: 252, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
182 94 0.37
183 158 0.63
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (183 bp):
AAAGTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
ATCGGTCTCAAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTAATAGTATCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAAAAAGTTATAGCGCCAAT
Found at i:6425069 original size:23 final size:23
Alignment explanation
Indices: 6425023--6425070 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
6425013 AAATATGTCA
*
6425023 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTAATACATT
* *
6425046 ATATAAACGCTACTTAATATATT
1 ATATAAACGCTACCTAATACATT
6425069 AT
1 AT
6425071 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.38
Consensus pattern (23 bp):
ATATAAACGCTACCTAATACATT
Found at i:6425373 original size:2 final size:2
Alignment explanation
Indices: 6425368--6425396 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6425358 AAAATATGAA
6425368 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6425397 GTTAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6425528 original size:13 final size:13
Alignment explanation
Indices: 6425510--6425539 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6425500 ATAATTTTAT
*
6425510 AAATTCAACTAAA
1 AAATTCAAATAAA
6425523 AAATTCAAATAAA
1 AAATTCAAATAAA
6425536 AAAT
1 AAAT
6425540 ATGATTTATA
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:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATTCAAATAAA
Found at i:6439853 original size:15 final size:13
Alignment explanation
Indices: 6439833--6439911 Score: 60
Period size: 12 Copynumber: 6.1 Consensus size: 13
6439823 TAGGGTTTTG
6439833 TAATATTTAATTTAA
1 TAATATTTAA--TAA
6439848 TAATA-TTAATAA
1 TAATATTTAATAA
*
6439860 TAATATAT-ATAA
1 TAATATTTAATAA
*
6439872 TAATA-ATAATAA
1 TAATATTTAATAA
6439884 TAAT-TTTAA-AA
1 TAATATTTAATAA
6439895 CTAATAATTTAAATAA
1 -TAAT-ATTT-AATAA
6439911 T
1 T
6439912 TTAAGTAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
11 4 0.07
12 32 0.59
13 1 0.02
14 7 0.13
15 8 0.15
16 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (13 bp):
TAATATTTAATAA
Found at i:6439860 original size:12 final size:12
Alignment explanation
Indices: 6439845--6439892 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
6439835 ATATTTAATT
6439845 TAATAATATTAA
1 TAATAATATTAA
6439857 TAATAATA-TATA
1 TAATAATATTA-A
*
6439869 TAATAATAATAA
1 TAATAATATTAA
*
6439881 TAATAATTTTAA
1 TAATAATATTAA
6439893 AACTAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 2 0.06
12 28 0.88
13 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:6439902 original size:3 final size:3
Alignment explanation
Indices: 6439845--6439887 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
6439835 ATATTTAATT
*
6439845 TAA TAA TAT TAA TAA TAA T-A TATA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA T
6439888 TTTAAAACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:6440159 original size:76 final size:76
Alignment explanation
Indices: 6440028--6440442 Score: 713
Period size: 76 Copynumber: 5.5 Consensus size: 76
6440018 GATGGAAATG
* * * * * * *
6440028 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGATCCGAAGGCTTTAAAAACATCATAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
6440093 CCCGAAGGCTT
66 CCCGAAGGCTT
6440104 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
6440169 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
6440180 TTTGGAAACATCATGCACTGTAGGACTTACAGATGGCCCTAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
6440245 CCCGAAGGCTT
66 CCCGAAGGCTT
*
6440256 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAATGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
6440321 CCCGAAGGCTT
66 CCCGAAGGCTT
6440332 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
6440397 CCCAAAGGCTT
66 CCCGAAGGCTT
* *
6440408 TTTGGAAACATCATGCACTGCAGGACTTAAAGATG
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATG
6440443 TGGGAAATAG
Statistics
Matches: 323, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 323 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:6440717 original size:165 final size:165
Alignment explanation
Indices: 6440445--6440767 Score: 538
Period size: 165 Copynumber: 2.0 Consensus size: 165
6440435 TAAAGATGTG
*
6440445 GGAAATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTCCTTACTTTTCAACAATTTCATTTT
1 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTCCTTACTTTTCAACAATTTCATTTT
** * *
6440510 AGAAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTCCAAAATAACATGTTGAT
66 AGAAAAGATAAAATGAGAAACTATGGAAATCATTTTCTCATTATTTTCCAAAATAACATGTCGAT
*
6440575 TGGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
131 TAGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
* *
6440610 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATTGTTTTCTTACTTTTCAACAATTTCATTTT
1 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTCCTTACTTTTCAACAATTTCATTTT
***
6440675 AGAAAAGATAAAATGAGAAACTATGGAAATCATTTTCTCATTATTTTTTGAAATAACATGTCGAT
66 AGAAAAGATAAAATGAGAAACTATGGAAATCATTTTCTCATTATTTTCCAAAATAACATGTCGAT
*
6440740 TAGGTAACATGCCCCGATCTCAAGATAA
131 TAGGTAACATGCCCCAATCTCAAGATAA
6440768 TGCTCATTTT
Statistics
Matches: 146, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
165 146 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (165 bp):
GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTCCTTACTTTTCAACAATTTCATTTT
AGAAAAGATAAAATGAGAAACTATGGAAATCATTTTCTCATTATTTTCCAAAATAACATGTCGAT
TAGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
Found at i:6441307 original size:22 final size:22
Alignment explanation
Indices: 6441282--6441341 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
6441272 AATAAAGCTT
*
6441282 TCATTTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
6441304 TCATCTTTAAAAAGATAATCTA
1 TCATCTTTGAAAAGAGAATCTA
6441326 TCATCTTTGAAAAGAG
1 TCATCTTTGAAAAGAG
6441342 TGTAGATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:6446265 original size:19 final size:19
Alignment explanation
Indices: 6446241--6446279 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6446231 ATTTCTCCCC
6446241 TTTTT-CTTTTTCCCTTTTT
1 TTTTTCCTTTTT-CCTTTTT
6446260 TTTTTCCTTTTTCCTTTTT
1 TTTTTCCTTTTTCCTTTTT
6446279 T
1 T
6446280 CTCATTTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCCTTTTTCCTTTTT
Found at i:6446270 original size:7 final size:7
Alignment explanation
Indices: 6446239--6446330 Score: 55
Period size: 7 Copynumber: 12.7 Consensus size: 7
6446229 CAATTTCTCC
6446239 CCTTTTT
1 CCTTTTT
6446246 -CTTTTT
1 CCTTTTT
6446252 CCCTTTTT
1 -CCTTTTT
6446260 --TTTTT
1 CCTTTTT
6446265 CCTTTTT
1 CCTTTTT
6446272 CCTTTTTT
1 CC-TTTTT
*
6446280 CTCATTTCT
1 C-C-TTTTT
* *
6446289 CATTTCT
1 CCTTTTT
*
6446296 CATTTTT
1 CCTTTTT
6446303 CCTTTTT
1 CCTTTTT
6446310 CATCTTTTT
1 C--CTTTTT
*
6446319 TCTTTTT
1 CCTTTTT
*
6446326 TCTTT
1 CCTTT
6446331 CTTTGCTGGA
Statistics
Matches: 71, Mismatches: 6, Indels: 16
0.76 0.06 0.17
Matches are distributed among these distances:
5 5 0.07
6 6 0.08
7 36 0.51
8 12 0.17
9 12 0.17
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.72
Consensus pattern (7 bp):
CCTTTTT
Found at i:6446329 original size:14 final size:14
Alignment explanation
Indices: 6446241--6446330 Score: 56
Period size: 16 Copynumber: 6.1 Consensus size: 14
6446231 ATTTCTCCCC
* *
6446241 TTTTTCTTTTTCCC
1 TTTTTCTTTTTTCT
*
6446255 TTTTT-TTTTTCCT
1 TTTTTCTTTTTTCT
*
6446268 TTTTCCTTTTTTCT
1 TTTTTCTTTTTTCT
* * *
6446282 CATTTCTCATTTCTCAT
1 --TTTTTCTTTTTTC-T
*
6446299 TTTTCCTTTTTCATCT
1 TTTTTCTTTTT--TCT
6446315 TTTTTCTTTTTTCT
1 TTTTTCTTTTTTCT
6446329 TT
1 TT
6446331 CTTTGCTGGA
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
13 11 0.19
14 17 0.29
15 7 0.12
16 20 0.34
17 3 0.05
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCTTTTTTCT
Found at i:6451929 original size:11 final size:10
Alignment explanation
Indices: 6451915--6451973 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 10
6451905 TTTATGTGAC
6451915 TAATATGAAAA
1 TAATAT-AAAA
6451926 TAATAATAAAA
1 TAAT-ATAAAA
6451937 TAATATAAAA
1 TAATATAAAA
*
6451947 GTAATAACAAAA
1 -TAAT-ATAAAA
*
6451959 TAATAAATAAA
1 TAATATA-AAA
6451970 TAAT
1 TAAT
6451974 GATTAAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 8 0.19
11 27 0.64
12 7 0.17
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (10 bp):
TAATATAAAA
Found at i:6451973 original size:22 final size:22
Alignment explanation
Indices: 6451915--6451973 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
6451905 TTTATGTGAC
* *
6451915 TAATATGAAAATAATAATAAAA
1 TAATATAAAAATAATAACAAAA
*
6451937 TAATATAAAAGTAATAACAAAA
1 TAATATAAAAATAATAACAAAA
6451959 TAATA-AATAAATAAT
1 TAATATAA-AAATAAT
6451974 GATTAAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (22 bp):
TAATATAAAAATAATAACAAAA
Found at i:6453227 original size:3 final size:3
Alignment explanation
Indices: 6453212--6453268 Score: 71
Period size: 3 Copynumber: 19.3 Consensus size: 3
6453202 ATATTTAATT
* **
6453212 TAA TAA TAT TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TTT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
6453259 AAA TAA TAA T
1 TAA TAA TAA T
6453269 TTAAATAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:6453235 original size:20 final size:20
Alignment explanation
Indices: 6453207--6453251 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
6453197 TTGTTATATT
* *
6453207 TAATTTAATAATATTAATAA
1 TAATATAATAATAATAATAA
6453227 TAATATAATAATAATAATAA
1 TAATATAATAATAATAATAA
6453247 TAATA
1 TAATA
6453252 ATTTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATATAATAATAATAATAA
Found at i:6454313 original size:3 final size:3
Alignment explanation
Indices: 6454305--6454334 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
6454295 CTTTACTTAA
6454305 AAT AAT AAT AAT AAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
6454335 AGAGTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6454396 original size:16 final size:16
Alignment explanation
Indices: 6454377--6454422 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
6454367 GAGAATTTAA
6454377 AATATTTTATATTTTT
1 AATATTTTATATTTTT
**
6454393 AATATTCAATATTTTT
1 AATATTTTATATTTTT
*
6454409 -CTA-TTTATATTTTT
1 AATATTTTATATTTTT
6454423 TTGGGATTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 9 0.36
15 2 0.08
16 14 0.56
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (16 bp):
AATATTTTATATTTTT
Found at i:6459754 original size:185 final size:183
Alignment explanation
Indices: 6459393--6459781 Score: 613
Period size: 185 Copynumber: 2.1 Consensus size: 183
6459383 ATTAAATTTT
* * * *
6459393 AAATTTTAAATATATTATATATAACATATGAGCTCAGCTCAAATCATTTGAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTAACCTCAAATCATTTAAAACCCAATTAATAA
6459458 TTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTT
66 TTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTT
*
6459523 TATTTTATAATTACATATTATTTAAATTAATTGTAAACTGTTTTTTTTAATTAAA
131 TATTTTATAATTACATATTATTTAAATTAATTATAAAC-G-TTTTTTTAATTAAA
* *
6459578 AAATATTAAATATATTATATATAACATATGGGCTAAACCT-AAATCATTTAAAACTCAATTAATA
1 AAATATTAAATATATTATATATAACATATGAGCT-AACCTCAAATCATTTAAAACCCAATTAATA
*
6459642 ATTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATCTGAAATT
65 ATTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATT-AAAAAATTATAT-AAATT
*
6459707 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAAC-TTTTTTTAATTAAA
128 TTTTATTTTATAATTACATATTATTTAAATTAATTATAAACGTTTTTTTAATTAAA
* *
6459762 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
6459782 AATTAGAAAA
Statistics
Matches: 190, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
183 8 0.04
184 24 0.13
185 100 0.53
186 14 0.07
187 44 0.23
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATGAGCTAACCTCAAATCATTTAAAACCCAATTAATAA
TTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTT
TATTTTATAATTACATATTATTTAAATTAATTATAAACGTTTTTTTAATTAAA
Found at i:6467120 original size:20 final size:20
Alignment explanation
Indices: 6467082--6467121 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6467072 TAATCATATT
**
6467082 CACTGGTAATCTTTTATTCC
1 CACTGGTAATCTTACATTCC
6467102 CACTGGTAATCTTACATTCC
1 CACTGGTAATCTTACATTCC
6467122 ATGAACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.40
Consensus pattern (20 bp):
CACTGGTAATCTTACATTCC
Found at i:6476167 original size:10 final size:10
Alignment explanation
Indices: 6476136--6476190 Score: 53
Period size: 9 Copynumber: 5.6 Consensus size: 10
6476126 GTCGGGTCAG
6476136 ACCGGTCAAA
1 ACCGGTCAAA
*
6476146 A-CGGTTC-GA
1 ACCGG-TCAAA
6476155 ACCGGTCAAA
1 ACCGGTCAAA
*
6476165 ACCGGTTGAAA
1 ACCGG-TCAAA
6476176 ACCGGTC-AA
1 ACCGGTCAAA
6476185 ACCGGT
1 ACCGGT
6476191 TTCCAGCAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
9 15 0.41
10 13 0.35
11 9 0.24
ACGTcount: A:0.33, C:0.27, G:0.25, T:0.15
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:6476186 original size:20 final size:19
Alignment explanation
Indices: 6476136--6476191 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
6476126 GTCGGGTCAG
*
6476136 ACCGGTCAAAACGGTTCGA
1 ACCGGTCAAACCGGTTCGA
6476155 ACCGGTCAAAACCGGTT-GAAA
1 ACCGGTC-AAACCGGTTCG--A
6476176 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
6476192 TCCAGCAGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 8 0.24
20 17 0.52
21 8 0.24
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCGA
Found at i:6477455 original size:50 final size:50
Alignment explanation
Indices: 6477400--6477499 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
6477390 ATCTTATTCT
6477400 CTGATAATATTTTATTTTTACTTATAATCTTATATTCCGTAAAACAAACG
1 CTGATAATATTTTATTTTTACTTATAATCTTATATTCCGTAAAACAAACG
6477450 CTGATAATATTTTATTTTTACTTATAATCTTATATTCCGTAAAACAAACG
1 CTGATAATATTTTATTTTTACTTATAATCTTATATTCCGTAAAACAAACG
6477500 TATCCAAAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (50 bp):
CTGATAATATTTTATTTTTACTTATAATCTTATATTCCGTAAAACAAACG
Found at i:6479282 original size:24 final size:23
Alignment explanation
Indices: 6479247--6479292 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
6479237 TTTAAAAAGA
6479247 TATATAAATTTTAAAAAATAAAAT
1 TATATAAATTTT-AAAAATAAAAT
*
6479271 TATATAATTTTTAAAAATAAAA
1 TATATAAATTTTAAAAATAAAA
6479293 CATAGAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TATATAAATTTTAAAAATAAAAT
Found at i:6479286 original size:23 final size:24
Alignment explanation
Indices: 6479247--6479292 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
6479237 TTTAAAAAGA
6479247 TATATAAATTTTAAAAAATAAAAT
1 TATATAAATTTTAAAAAATAAAAT
*
6479271 TATAT-AATTTTTAAAAATAAAA
1 TATATAAATTTTAAAAAATAAAA
6479293 CATAGAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TATATAAATTTTAAAAAATAAAAT
Found at i:6479302 original size:23 final size:23
Alignment explanation
Indices: 6479252--6479304 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
6479242 AAAGATATAT
*
6479252 AAATTTTAAAAAATAAAATTATA
1 AAATTTTAAAAAATAAAATCATA
* *
6479275 TAATTTTTAAAAATAAAA-CATA
1 AAATTTTAAAAAATAAAATCATA
6479297 GAAATTTT
1 -AAATTTT
6479305 GAAATAAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
AAATTTTAAAAAATAAAATCATA
Found at i:6483131 original size:14 final size:14
Alignment explanation
Indices: 6483095--6483144 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
6483085 CTCAAGTGAA
*
6483095 AATTAATTAAAAAC
1 AATTAAATAAAAAC
*
6483109 TAAAT-AATAAAAAC
1 -AATTAAATAAAAAC
*
6483123 AATTAAATACAAAC
1 AATTAAATAAAAAC
6483137 -ATTAAATA
1 AATTAAATA
6483145 CAAATGTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 11 0.37
14 16 0.53
15 3 0.10
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (14 bp):
AATTAAATAAAAAC
Found at i:6483142 original size:13 final size:14
Alignment explanation
Indices: 6483114--6483148 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
6483104 AAAACTAAAT
*
6483114 AATAAAAACAATTA
1 AATACAAACAATTA
6483128 AATACAAAC-ATTA
1 AATACAAACAATTA
6483141 AATACAAA
1 AATACAAA
6483149 TGTTACAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (14 bp):
AATACAAACAATTA
Found at i:6483220 original size:44 final size:44
Alignment explanation
Indices: 6483172--6483292 Score: 183
Period size: 44 Copynumber: 2.8 Consensus size: 44
6483162 AAAAAAAGAT
*
6483172 AATAAAAACATTAAGAAA-ATAAATAAATAAAATGTTC-ATAATTA
1 AATAAAAACATTAAGAAACA-AAATAAATAAAAAG-TCAATAATTA
* *
6483216 AATAAAAATATCAAGAAACAAAATAAATAAAAAGTCAATAATTA
1 AATAAAAACATTAAGAAACAAAATAAATAAAAAGTCAATAATTA
6483260 AATAAAAACATTAAGAAACAAAATAAATAAAAA
1 AATAAAAACATTAAGAAACAAAATAAATAAAAA
6483293 CAAGTCTATC
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
43 2 0.03
44 67 0.96
45 1 0.01
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (44 bp):
AATAAAAACATTAAGAAACAAAATAAATAAAAAGTCAATAATTA
Found at i:6483242 original size:25 final size:24
Alignment explanation
Indices: 6483214--6483292 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 24
6483204 TGTTCATAAT
6483214 TAAATAAAAATATCAAGAAACAAAA
1 TAAATAAAAA-ATCAAGAAACAAAA
* * *
6483239 TAAATAAAAAGTC----AA-TAAT
1 TAAATAAAAAATCAAGAAACAAAA
*
6483258 TAAATAAAAACATTAAGAAACAAAA
1 TAAATAAAAA-ATCAAGAAACAAAA
6483283 TAAATAAAAA
1 TAAATAAAAA
6483293 CAAGTCTATC
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
19 12 0.29
20 3 0.07
24 4 0.10
25 22 0.54
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (24 bp):
TAAATAAAAAATCAAGAAACAAAA
Found at i:6483400 original size:3 final size:3
Alignment explanation
Indices: 6483392--6483421 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
6483382 CTCCTCACTC
*
6483392 TCA TCA TCA TCA TCA TCA TCA TCA ACA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
6483422 ATAGTAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (3 bp):
TCA
Found at i:6483921 original size:28 final size:28
Alignment explanation
Indices: 6483885--6483967 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 28
6483875 AAATTTTAGA
6483885 TAGTGACCAAAATGTAAATTTTAAAGTT
1 TAGTGACCAAAATGTAAATTTTAAAGTT
* *
6483913 TAGTAACCAAAGTGTAAATTTTGAAAAGTT
1 TAGTGACCAAAATGTAAATTTT--AAAGTT
*
6483943 TAGGGACCAAAATGGT-AATTTTAAA
1 TAGTGACCAAAAT-GTAAATTTTAAA
6483968 AGTTACAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
28 23 0.49
30 22 0.47
31 2 0.04
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (28 bp):
TAGTGACCAAAATGTAAATTTTAAAGTT
Found at i:6483943 original size:30 final size:29
Alignment explanation
Indices: 6483885--6483971 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 29
6483875 AAATTTTAGA
6483885 TAGTGACCAAAATGTAAATTTT-AAAGTT
1 TAGTGACCAAAATGTAAATTTTAAAAGTT
* *
6483913 TAGTAACCAAAGTGTAAATTTTGAAAAGTT
1 TAGTGACCAAAATGTAAATTTT-AAAAGTT
*
6483943 TAGGGACCAAAATGGT-AATTTTAAAAGTT
1 TAGTGACCAAAAT-GTAAATTTTAAAAGTT
6483972 ACAATTTGGC
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
28 20 0.39
29 7 0.14
30 22 0.43
31 2 0.04
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (29 bp):
TAGTGACCAAAATGTAAATTTTAAAAGTT
Found at i:6484108 original size:13 final size:13
Alignment explanation
Indices: 6484090--6484116 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6484080 GAAAAGATTT
6484090 AGTGAATCGAATC
1 AGTGAATCGAATC
6484103 AGTGAATCGAATC
1 AGTGAATCGAATC
6484116 A
1 A
6484117 AATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (13 bp):
AGTGAATCGAATC
Found at i:6486066 original size:40 final size:40
Alignment explanation
Indices: 6485990--6486071 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
6485980 ATAGTACAAG
* *
6485990 TTAGGTGGGCAAAGATCGACCTCAGCACTACGGTGCATTA
1 TTAGGTGAGCAAAGATCGACCTCAGCACTACGGTGCAATA
* * **
6486030 TTAGGTGAGCAAAGCTCTACCTCAGCACTATTGTGCAATA
1 TTAGGTGAGCAAAGATCGACCTCAGCACTACGGTGCAATA
6486070 TT
1 TT
6486072 TGACTCATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (40 bp):
TTAGGTGAGCAAAGATCGACCTCAGCACTACGGTGCAATA
Found at i:6488136 original size:17 final size:18
Alignment explanation
Indices: 6488099--6488136 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6488089 CTAAAAAATA
*
6488099 AATAAATAAAACATTCAT
1 AATAAATAAAACATACAT
*
6488117 AATAAATAAAATA-ACAT
1 AATAAATAAAACATACAT
6488134 AAT
1 AAT
6488137 TTAAAATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAAATAAAACATACAT
Found at i:6489857 original size:17 final size:17
Alignment explanation
Indices: 6489835--6489878 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
6489825 AGCAAAGACA
*
6489835 TAAGCATACAAGTATGC
1 TAAGCACACAAGTATGC
6489852 TAAGCACACAAGTATGC
1 TAAGCACACAAGTATGC
6489869 TAAGCACACA
1 TAAGCACACA
6489879 TACTGAGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (17 bp):
TAAGCACACAAGTATGC
Found at i:6491847 original size:60 final size:60
Alignment explanation
Indices: 6491735--6491853 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 60
6491725 ATATGTTCAC
* * ** * *
6491735 AAACTATGACTCTCATTTTAAATTTAGCCTTAAGTTTTTGAATATTTCAATTTCATCCTT
1 AAACTATGACTCTCATTCTAAATTAAGCCTTAAAATTTTAAAAATTTCAATTTCATCCTT
* * * *
6491795 AAACTATGACTCTCATTCTAAGTTAATCCTTAAAATTTTAAAAATTTTAATTTTATCCT
1 AAACTATGACTCTCATTCTAAATTAAGCCTTAAAATTTTAAAAATTTCAATTTCATCCT
6491854 CAAATTGTGA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (60 bp):
AAACTATGACTCTCATTCTAAATTAAGCCTTAAAATTTTAAAAATTTCAATTTCATCCTT
Found at i:6495034 original size:37 final size:38
Alignment explanation
Indices: 6494950--6495034 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 38
6494940 ATTAATCTTT
*
6494950 TTGTGTCAAAAAATATAGTCACAAAAAACATAAGTAAC
1 TTGTGTCAAAAAATACAGTCACAAAAAACATAAGTAAC
* *
6494988 TT-TGTCAAAAAATGCAGTCACAAAAAATATAAGTAA-
1 TTGTGTCAAAAAATACAGTCACAAAAAACATAAGTAAC
*
6495024 TTGTGACAAAA
1 TTGTGTCAAAA
6495035 TTCAATAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 2 0.05
37 38 0.90
38 2 0.05
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.25
Consensus pattern (38 bp):
TTGTGTCAAAAAATACAGTCACAAAAAACATAAGTAAC
Found at i:6495364 original size:31 final size:31
Alignment explanation
Indices: 6495276--6495382 Score: 94
Period size: 31 Copynumber: 3.5 Consensus size: 31
6495266 AAATTATAGG
*
6495276 TAAAATATCAATTTGATCTTTTAA-TTGAAGA
1 TAAAATATCAATTTGAT-TTTTAATTTTAAGA
* * *
6495307 TAAATTGTCAATTTGATTCTTAAATTTTAA-A
1 TAAAATATCAATTTGATT-TTTAATTTTAAGA
* *
6495338 TAAAATATTAATTTGACTTTTTAATTTT-GGA
1 TAAAATATCAATTTGA-TTTTTAATTTTAAGA
**
6495369 TACTATATCAATTT
1 TAAAATATCAATTT
6495383 AATCTTAAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
30 1 0.02
31 53 0.88
32 6 0.10
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (31 bp):
TAAAATATCAATTTGATTTTTAATTTTAAGA
Found at i:6496268 original size:9 final size:9
Alignment explanation
Indices: 6496254--6496280 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
6496244 TTTTATTATT
6496254 AAAAAAATA
1 AAAAAAATA
6496263 AAAAAAATA
1 AAAAAAATA
6496272 AAAAAAATA
1 AAAAAAATA
6496281 TAACGGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATA
Found at i:6496561 original size:28 final size:29
Alignment explanation
Indices: 6496513--6496570 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
6496503 CTTTGATTAT
6496513 ATTCAAAATTAAATTAATATTTTATCTAA
1 ATTCAAAATTAAATTAATATTTTATCTAA
*
6496542 ATTCAAAA-TAAA-TAAGTATTTTATTTAA
1 ATTCAAAATTAAATTAA-TATTTTATCTAA
6496570 A
1 A
6496571 GAATAAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 3 0.11
28 16 0.59
29 8 0.30
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (29 bp):
ATTCAAAATTAAATTAATATTTTATCTAA
Found at i:6500010 original size:20 final size:19
Alignment explanation
Indices: 6499966--6500010 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
6499956 TTCTCCTAAG
6499966 AATTTAAAATTTTATATAT
1 AATTTAAAATTTTATATAT
*
6499985 ATTTTAAATATTTTAT-TAAT
1 AATTTAAA-ATTTTATAT-AT
6500005 AATTTA
1 AATTTA
6500011 GTTGTATCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTTAAAATTTTATATAT
Found at i:6503351 original size:25 final size:24
Alignment explanation
Indices: 6503310--6503357 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
6503300 CAAAAAATGG
6503310 AAAATGAAAATTATTTTCTAAAACA
1 AAAATGAAAATTATTTT-TAAAACA
*
6503335 AAAATAGAAAA-TCTTTTTAAAAC
1 AAAAT-GAAAATTATTTTTAAAAC
6503358 CAAAGAGACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 10 0.48
26 5 0.24
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.31
Consensus pattern (24 bp):
AAAATGAAAATTATTTTTAAAACA
Found at i:6507552 original size:20 final size:20
Alignment explanation
Indices: 6507529--6507568 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6507519 ATTTTTAAAA
6507529 TATTAAAATAATTTATTTAT
1 TATTAAAATAATTTATTTAT
*
6507549 TATTAAAATATTTTATTTAT
1 TATTAAAATAATTTATTTAT
6507569 AATTTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTAAAATAATTTATTTAT
Found at i:6507632 original size:31 final size:31
Alignment explanation
Indices: 6507525--6507634 Score: 92
Period size: 31 Copynumber: 3.7 Consensus size: 31
6507515 TATTATTTTT
* *
6507525 AAAATATTAAAATAATT-TA-TTTATT-ATT
1 AAAATATTAATATAATTATATTTTATTAATA
*
6507553 AAAATATT--T-TATTTATAATTTTATTAATA
1 AAAATATTAATATAATTAT-ATTTTATTAATA
**
6507582 AAAATATTAATATTTTTATATTTTATTGAAATA
1 AAAATATTAATATAATTATATTTTATT--AATA
6507615 AAAATATT-ATA-AATTATATT
1 AAAATATTAATATAATTATATT
6507635 AATTATTTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
25 4 0.06
26 1 0.01
27 1 0.01
28 14 0.21
29 10 0.15
31 16 0.24
32 9 0.13
33 12 0.18
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (31 bp):
AAAATATTAATATAATTATATTTTATTAATA
Found at i:6507855 original size:23 final size:23
Alignment explanation
Indices: 6507824--6507896 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
6507814 TATTATTAAA
*
6507824 ATTAAAATATAATATATTATATT
1 ATTATAATATAATATATTATATT
*
6507847 ATTATAATATAAT-TGATTATTTT
1 ATTATAATATAATAT-ATTATATT
* *
6507870 ATTCTAATATTAAAAATATTATATT
1 ATTATAATA-T-AATATATTATATT
6507895 AT
1 AT
6507897 ATTATTAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 1 0.02
23 27 0.66
24 1 0.02
25 11 0.27
26 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
ATTATAATATAATATATTATATT
Found at i:6507894 original size:22 final size:22
Alignment explanation
Indices: 6507864--6507912 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6507854 TATAATTGAT
* *
6507864 TATTTTATTCTAATATTAAAAA
1 TATTATATTATAATATTAAAAA
* *
6507886 TATTATATTATATTATTAGAAA
1 TATTATATTATAATATTAAAAA
6507908 TATTA
1 TATTA
6507913 ATAAATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTATATTATAATATTAAAAA
Found at i:6517870 original size:63 final size:64
Alignment explanation
Indices: 6517694--6517870 Score: 214
Period size: 63 Copynumber: 2.8 Consensus size: 64
6517684 TCTTTCTCTT
* * *
6517694 CATCATCATCTTTCCTAGATGCCGCCACTTCATCGTCTTTGTCATCATCATTGTCGTTTTCATCA
1 CATCATCATCTTTCCTCGATGCCGCCACTTCATCGTCTTTGTCGTCGTCA-T-TCGTTTTCATCA
6517759 C
64 C
* * * ** * *
6517760 CATAATCGTCTTTCCTCGATGCTGCCACTTCATCGTCTCCGTTGTCGTCA-TC-TTTCTCATCCC
1 CATCATCATCTTTCCTCGATGCCGCCACTTCATCGTCTTTGTCGTCGTCATTCGTTT-TCATCAC
*
6517823 CATCGTCATCTTTCCTCGATGCCGCCACTTCATCGTCTTTGTCGTCGT
1 CATCATCATCTTTCCTCGATGCCGCCACTTCATCGTCTTTGTCGTCGT
6517871 TTTCATCACC
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
62 3 0.03
63 49 0.53
66 41 0.44
ACGTcount: A:0.14, C:0.34, G:0.13, T:0.38
Consensus pattern (64 bp):
CATCATCATCTTTCCTCGATGCCGCCACTTCATCGTCTTTGTCGTCGTCATTCGTTTTCATCAC
Found at i:6520121 original size:16 final size:16
Alignment explanation
Indices: 6520076--6520120 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
6520066 TGAAACTCGA
6520076 CTCGAACTCTAAAAGG
1 CTCGAACTCTAAAAGG
6520092 CTCGAACTCTAAAAGG
1 CTCGAACTCTAAAAGG
6520108 CTCGAACTC-AAAA
1 CTCGAACTCTAAAA
6520121 ATATTTCAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 4 0.14
16 25 0.86
ACGTcount: A:0.40, C:0.27, G:0.16, T:0.18
Consensus pattern (16 bp):
CTCGAACTCTAAAAGG
Found at i:6520653 original size:50 final size:51
Alignment explanation
Indices: 6520595--6520722 Score: 172
Period size: 50 Copynumber: 2.5 Consensus size: 51
6520585 TTAGCAGAAA
* *
6520595 AGCGCGCCCCCTGCACCGTGCTATATGC-TGATTTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATATGCGTGATCTGGCGCCACGTGGGTAT
* * * *
6520645 AGCGCGCCCCCTGCCCCGCGATATA-CCGTGATCTGGCGCCACGTGTGTAT
1 AGCGCGCCCCCTGCACCGCGCTATATGCGTGATCTGGCGCCACGTGGGTAT
6520695 AGCGCGCCCCCTG-ATCCGCGCTATATGC
1 AGCGCGCCCCCTGCA-CCGCGCTATATGC
6520723 CACGTAGGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
49 1 0.02
50 64 0.97
51 1 0.02
ACGTcount: A:0.14, C:0.37, G:0.28, T:0.21
Consensus pattern (51 bp):
AGCGCGCCCCCTGCACCGCGCTATATGCGTGATCTGGCGCCACGTGGGTAT
Found at i:6524397 original size:35 final size:34
Alignment explanation
Indices: 6524312--6524398 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
6524302 ATTTGATATT
*
6524312 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
6524346 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
6524384 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
6524399 ACTAAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:6524635 original size:12 final size:12
Alignment explanation
Indices: 6524620--6524648 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6524610 GCTGTCATCG
6524620 TCGTCGTCACCA
1 TCGTCGTCACCA
6524632 TCGTCGTCACCA
1 TCGTCGTCACCA
6524644 TCGTC
1 TCGTC
6524649 ATTGTCGTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.41, G:0.17, T:0.28
Consensus pattern (12 bp):
TCGTCGTCACCA
Found at i:6525034 original size:18 final size:18
Alignment explanation
Indices: 6525005--6525058 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
6524995 AAAAGCGATG
*
6525005 GCGGCATTATATATGGCT
1 GCGGCATCATATATGGCT
*
6525023 GTGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
6525041 GCGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
6525059 ACGGTGGCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (18 bp):
GCGGCATCATATATGGCT
Found at i:6526706 original size:111 final size:111
Alignment explanation
Indices: 6526569--6526790 Score: 374
Period size: 111 Copynumber: 2.0 Consensus size: 111
6526559 ATTATAAAAA
* *
6526569 TTAATTCTTAATCTAATAATCATGCAT-TAAATGAATCAACTAATTATTACTAATAATTTAAATT
1 TTAATTCTTAATCTAATAATCATGCATAT-AATAAATCAACTAAATATTACTAATAATTTAAATT
* * *
6526633 AAATTAAAACGTTAAAATGTTATCGTATCAGCAAAGTATCGAGATAT
65 AAATTAAAACGTTAAAATGTTACCGTATCAACAAAGTATAGAGATAT
6526680 TTAATTCTTAATCTAATAATCATGCATATAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATATAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
6526745 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTATAGAGATAT
6526791 ATGATTTTCA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 103 0.99
112 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATATAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTATAGAGATAT
Found at i:6526775 original size:56 final size:55
Alignment explanation
Indices: 6526603--6526775 Score: 124
Period size: 56 Copynumber: 3.1 Consensus size: 55
6526593 CATTAAATGA
*
6526603 ATCAACTAATTATTACTAATAATTTAAATTAAATTAAAACGTTAAAATGTTATCGT
1 ATCAACTAAATATTACTAATAATTTAAATTAAATTAAAACGTTAAAATGTTA-CGT
* * * * * ** * ** *
6526659 ATCAGC-AAAGTA-T-CGAGAT-ATTTAATTCTTAATCTAATAATCATGCATATAATA--A
1 ATCAACTAAA-TATTACTA-ATAATTTAAAT-TAAAT-TAA-AA-CGTTAAAATGTTACGT
6526714 ATCAACTAAATATTACTAATAATTTAAATTAAATTAAAACGTTAAAATGTTACCGT
1 ATCAACTAAATATTACTAATAATTTAAATTAAATTAAAACGTTAAAATGTTA-CGT
6526770 ATCAAC
1 ATCAAC
6526776 AAAGTGTAGA
Statistics
Matches: 81, Mismatches: 23, Indels: 26
0.62 0.18 0.20
Matches are distributed among these distances:
53 7 0.09
54 11 0.14
55 19 0.23
56 26 0.32
57 11 0.14
58 7 0.09
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (55 bp):
ATCAACTAAATATTACTAATAATTTAAATTAAATTAAAACGTTAAAATGTTACGT
Found at i:6526871 original size:22 final size:24
Alignment explanation
Indices: 6526846--6526895 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 24
6526836 ACAAAAGAAT
*
6526846 TATATTAGTAA-AATATTA-AAAA
1 TATAATAGTAAGAATATTATAAAA
6526868 TATAATAGTAAGAATATTATAAAA
1 TATAATAGTAAGAATATTATAAAA
6526892 TATA
1 TATA
6526896 CCTTAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.40
23 7 0.28
24 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (24 bp):
TATAATAGTAAGAATATTATAAAA
Done.