Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 18 of 185
Found at i:4924321 original size:24 final size:25
Alignment explanation
Indices: 4924269--4924321 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
4924259 CTCATGGGCT
* *
4924269 TCCTGTTATATGGTTCTTGCGAGCT
1 TCCTGTTATATAGTTCTTGCGAGCA
4924294 TCCTGTTA-ATAGTTCTT-CAGAGCA
1 TCCTGTTATATAGTTCTTGC-GAGCA
4924318 TCCT
1 TCCT
4924322 AATTGGTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 16 0.64
25 8 0.32
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.42
Consensus pattern (25 bp):
TCCTGTTATATAGTTCTTGCGAGCA
Found at i:4924473 original size:24 final size:26
Alignment explanation
Indices: 4924419--4924483 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 26
4924409 AGTTTTTTCA
* *
4924419 TGAGCTTCTCGATTAATTGGCTATCT
1 TGAGCTTCCCGATTAATTGGCTAGCT
* *
4924445 GGAGCTTCCCGA-T-ATTGGCTCGCT
1 TGAGCTTCCCGATTAATTGGCTAGCT
*
4924469 TGAGCTTCCCAATTA
1 TGAGCTTCCCGATTA
4924484 TGGCTTTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
24 19 0.61
25 2 0.06
26 10 0.32
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (26 bp):
TGAGCTTCCCGATTAATTGGCTAGCT
Found at i:4924539 original size:25 final size:25
Alignment explanation
Indices: 4924446--4924579 Score: 87
Period size: 25 Copynumber: 5.3 Consensus size: 25
4924436 TGGCTATCTG
* **
4924446 GAGCTTCCCGATAT-TGGCTCGCTT
1 GAGCTTCCCGTTATATGGCTCGAAT
** **
4924470 GAGCTTCCCAAT-TATGGCTTTAAT
1 GAGCTTCCCGTTATATGGCTCGAAT
* * **
4924494 GAGCTTTCTGTTATACAGCTCGAAT
1 GAGCTTCCCGTTATATGGCTCGAAT
4924519 GAGCTTCCCGTTATATGGCTCAAGAGA-
1 GAGCTTCCCGTTATATGGCTC--GA-AT
*
4924546 GAGCTTCCCGTT-TATGTGCTCGTAT
1 GAGCTTCCCGTTATATG-GCTCGAAT
4924571 GAGCATTCC
1 GAGC-TTCC
4924580 TGAATATGAA
Statistics
Matches: 84, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
23 1 0.01
24 26 0.31
25 30 0.36
26 8 0.10
27 18 0.21
28 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCGAAT
Found at i:4926047 original size:13 final size:13
Alignment explanation
Indices: 4926029--4926054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4926019 GCGACGAATA
4926029 TGAGAACTAAACG
1 TGAGAACTAAACG
4926042 TGAGAACTAAACG
1 TGAGAACTAAACG
4926055 AAAATATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (13 bp):
TGAGAACTAAACG
Found at i:4930461 original size:16 final size:16
Alignment explanation
Indices: 4930440--4930472 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4930430 AATAGATGGG
*
4930440 TAAATTTTCGACATGT
1 TAAATTTTCAACATGT
4930456 TAAATTTTCAACATGT
1 TAAATTTTCAACATGT
4930472 T
1 T
4930473 TTTTGTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (16 bp):
TAAATTTTCAACATGT
Found at i:4931528 original size:34 final size:34
Alignment explanation
Indices: 4931466--4931532 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
4931456 TTTTGTTTAT
*
4931466 ATTAAAAATAAATTTTCATTTTTGTAAAATTTGA
1 ATTAAAAATAAATTTTCATTTTTCTAAAATTTGA
* *
4931500 ATTAGAAATTAATTTT-ATTTTGTCTAAAATTTG
1 ATTAAAAATAAATTTTCATTTT-TCTAAAATTTG
4931533 TGATAAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 24 0.83
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (34 bp):
ATTAAAAATAAATTTTCATTTTTCTAAAATTTGA
Found at i:4933049 original size:23 final size:23
Alignment explanation
Indices: 4933019--4933064 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
4933009 ATGTTATACA
*
4933019 TTTTTTTATTTACTAAAATATAT
1 TTTTTTTATTTACCAAAATATAT
4933042 TTTTTTTATTTACCAAAATATAT
1 TTTTTTTATTTACCAAAATATAT
4933065 CAAAAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTTTATTTACCAAAATATAT
Found at i:4933161 original size:27 final size:27
Alignment explanation
Indices: 4933131--4933198 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
4933121 AAGGGAACAC
* *
4933131 TGTTGGCGGCACCAAATAAGGGGACCT
1 TGTTGGCGGCACCAAACAAGGAGACCT
* **
4933158 TGTTTGCGGCACCAAACAAGGATTCCT
1 TGTTGGCGGCACCAAACAAGGAGACCT
4933185 TGTTGGCGGCACCA
1 TGTTGGCGGCACCA
4933199 CCTTAAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (27 bp):
TGTTGGCGGCACCAAACAAGGAGACCT
Found at i:4933262 original size:4 final size:4
Alignment explanation
Indices: 4933253--4933394 Score: 59
Period size: 4 Copynumber: 35.2 Consensus size: 4
4933243 GGGGAAGAAG
* *
4933253 AAGA AAGA AAGG AAGA AAG- AA-A AAGA AGGA AA-A AAG- AA-A AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
* * *
4933296 AGGAA AAGGA AAGGA GAGGA AAGA AAG- AA-A AAGA AGGA AAGA AAGA
1 AAG-A AA-GA AA-GA -AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
* * *
4933342 AAAA TAAGGA AAGAA AAGGA AAG- GAGA AGAGA AGAGA AA-A AAAA AAGA
1 AAGA -AA-GA AAG-A AA-GA AAGA AAGA A-AGA A-AGA AAGA AAGA AAGA
4933390 AAGA A
1 AAGA A
4933395 GAAGAGGGAA
Statistics
Matches: 106, Mismatches: 15, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
3 20 0.19
4 53 0.50
5 29 0.27
6 4 0.04
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (4 bp):
AAGA
Found at i:4933278 original size:10 final size:10
Alignment explanation
Indices: 4933247--4933399 Score: 68
Period size: 10 Copynumber: 15.0 Consensus size: 10
4933237 AGGAGAGGGG
*
4933247 AAGAAGAAGA
1 AAGAAAAAGA
4933257 AAGAAAGGAAGA
1 AAGAAA--AAGA
4933269 AAGAAAAAG-
1 AAGAAAAAGA
*
4933278 AAG-GAAA-A
1 AAGAAAAAGA
4933286 AAGAAAAAGA
1 AAGAAAAAGA
* *
4933296 AGGAAAAGGA
1 AAGAAAAAGA
4933306 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
4933320 AAGAAAAAGA
1 AAGAAAAAGA
*
4933330 AGGAAAGAAAGA
1 AAG-AA-AAAGA
*
4933342 AA-AATAAGGA
1 AAGAA-AAAGA
*
4933352 AAGAAAAGGA
1 AAGAAAAAGA
* *
4933362 AAGGAGAAGA
1 AAGAAAAAGA
*
4933372 GAAG-AGAA-A
1 -AAGAAAAAGA
4933381 AA-AAAAAGA
1 AAGAAAAAGA
*
4933390 AAGAAGAAGA
1 AAGAAAAAGA
4933400 GGGAAGGAAG
Statistics
Matches: 111, Mismatches: 16, Indels: 32
0.70 0.10 0.20
Matches are distributed among these distances:
8 11 0.10
9 10 0.09
10 55 0.50
11 9 0.08
12 18 0.16
13 2 0.02
14 6 0.05
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:4933323 original size:34 final size:34
Alignment explanation
Indices: 4933236--4933335 Score: 107
Period size: 34 Copynumber: 2.9 Consensus size: 34
4933226 TGGGGGGAAG
*
4933236 AAGGAGAGGGGAAG-AAGAAGAAAGAAAGGAAGAAAGA
1 AAGGAGA-GGAAAGAAAGAA-AAAG-AAGGAA-AAAGA
* *
4933273 AA-AAGAAGGAAA-AAAGAAAAAGAAGGAAAAGGA
1 AAGGAG-AGGAAAGAAAGAAAAAGAAGGAAAAAGA
4933306 AAGGAGAGGAAAGAAAGAAAAAGAAGGAAA
1 AAGGAGAGGAAAGAAAGAAAAAGAAGGAAA
4933336 GAAAGAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
33 12 0.22
34 25 0.45
35 4 0.07
36 11 0.20
37 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (34 bp):
AAGGAGAGGAAAGAAAGAAAAAGAAGGAAAAAGA
Found at i:4933323 original size:51 final size:52
Alignment explanation
Indices: 4933264--4933404 Score: 173
Period size: 51 Copynumber: 2.7 Consensus size: 52
4933254 AGAAAGAAAG
* *
4933264 GAAGAAAGAAAAAGAAGGAAA-AAAGAAAAAGAAGGAAAAGGAAAGGAGAGGA
1 GAAGAAAGAAAAAGAAGGAAAGAAAGAAAAAGAAGG-AAAGAAAAGGAAAGGA
*
4933316 -AAGAAAGAAAAAGAAGGAAAGAAAGAAAAATAAGGAAAGAAAAGGAAAGGA
1 GAAGAAAGAAAAAGAAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGA
* * *
4933367 GAAGAGAAGAGAAAA-AA-AAAAGAAAGAAGAAGAGGGAA
1 GAAGA-AAGA-AAAAGAAGGAAAGAAAGAAAAAGAAGGAA
4933405 GGAAGGAAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
51 34 0.44
52 34 0.44
53 6 0.08
54 4 0.05
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (52 bp):
GAAGAAAGAAAAAGAAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGA
Found at i:4933353 original size:18 final size:18
Alignment explanation
Indices: 4933250--4933357 Score: 127
Period size: 18 Copynumber: 6.1 Consensus size: 18
4933240 AGAGGGGAAG
4933250 AAGAAGAAAGAAAGG-AAGA
1 AAGAA-AAAG-AAGGAAAGA
4933269 AAGAAAAAGAAGGAAA-A
1 AAGAAAAAGAAGGAAAGA
4933286 AAGAAAAAGAAGG--A-A
1 AAGAAAAAGAAGGAAAGA
* *
4933301 AAGGAAAGGAGAGGAAAGA
1 AAGAAAAAGA-AGGAAAGA
4933320 AAGAAAAAGAAGGAAAGA
1 AAGAAAAAGAAGGAAAGA
*
4933338 AAGAAAAATAAGGAAAGA
1 AAGAAAAAGAAGGAAAGA
4933356 AA
1 AA
4933358 AGGAAAGGAG
Statistics
Matches: 79, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
15 10 0.13
16 3 0.04
17 18 0.23
18 34 0.43
19 14 0.18
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (18 bp):
AAGAAAAAGAAGGAAAGA
Found at i:4933386 original size:28 final size:27
Alignment explanation
Indices: 4933265--4933399 Score: 97
Period size: 28 Copynumber: 5.0 Consensus size: 27
4933255 GAAAGAAAGG
4933265 AAGAAAGAAAAAGAAGGAAA--A-AAG-
1 AAGAAAGAAAAA-AAGGAAAGGAGAAGA
* *
4933289 AA-AAAGAAGGAAAAGGAAAGGAGAGGA
1 AAGAAAGAA-AAAAAGGAAAGGAGAAGA
4933316 AAGAAAGAAAAAGAAGGAAA-GA-AAGA
1 AAGAAAGAAAAA-AAGGAAAGGAGAAGA
*
4933342 AAAATAAGGAAAGAAAAGGAAAGGAGAAGA
1 AAGA-AA-GAAA-AAAAGGAAAGGAGAAGA
* *
4933372 GAAGAGAA-AAAAAAAAGAAAGAAGAAGA
1 -AAGA-AAGAAAAAAAGGAAAGGAGAAGA
4933400 GGGAAGGAAG
Statistics
Matches: 89, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
23 13 0.15
24 4 0.04
25 1 0.01
26 8 0.09
27 8 0.09
28 39 0.44
29 7 0.08
30 4 0.04
31 5 0.06
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (27 bp):
AAGAAAGAAAAAAAGGAAAGGAGAAGA
Found at i:4933408 original size:56 final size:56
Alignment explanation
Indices: 4933265--4933394 Score: 168
Period size: 56 Copynumber: 2.4 Consensus size: 56
4933255 GAAAGAAAGG
4933265 AAGAAAGAAAAAGAAGGAAA-AAAGAAAAAGAA-G---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
4933316 AAGAAAGAAAAAGAAGGAAAGAAAGAAAAATAAGGAAAGAAAAGGAAAGGAGAAGAGA
1 AAGAAAGAAAAAGAAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG-AG-GA
4933374 AGAGAAA-AAAAA-AA-GAAAGAA
1 A-AGAAAGAAAAAGAAGGAAAGAA
4933395 GAAGAGGGAA
Statistics
Matches: 70, Mismatches: 1, Indels: 11
0.85 0.01 0.13
Matches are distributed among these distances:
51 20 0.29
52 11 0.16
53 1 0.01
56 21 0.30
57 4 0.06
58 8 0.11
59 5 0.07
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (56 bp):
AAGAAAGAAAAAGAAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
Found at i:4934229 original size:28 final size:26
Alignment explanation
Indices: 4934198--4934268 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
4934188 AAATAAAAAA
4934198 TTACCAAAATATTATAACTTTTTTTTAT
1 TTACCAAAATATTATAA--TTTTTTTAT
* *
4934226 TTACCAAAAAATACATAATTTTTTTAT
1 TTACCAAAATAT-TATAATTTTTTTAT
4934253 TTACCAAAATA-TATAA
1 TTACCAAAATATTATAA
4934269 AAAAAGTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
25 4 0.11
27 19 0.50
28 11 0.29
29 4 0.11
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (26 bp):
TTACCAAAATATTATAATTTTTTTAT
Found at i:4936584 original size:14 final size:14
Alignment explanation
Indices: 4936565--4936593 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4936555 TTTTTGTATC
4936565 AATTTAATTATTCT
1 AATTTAATTATTCT
4936579 AATTTAATTATTCT
1 AATTTAATTATTCT
4936593 A
1 A
4936594 CTTTCAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:4938999 original size:18 final size:18
Alignment explanation
Indices: 4938973--4939010 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4938963 ATCCCAATGA
* *
4938973 TCGCCACCACCTTCTTCT
1 TCGCAACCACATTCTTCT
4938991 TCGCAACCACATTCTTCT
1 TCGCAACCACATTCTTCT
4939009 TC
1 TC
4939011 ACCACCAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.45, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:4939017 original size:18 final size:18
Alignment explanation
Indices: 4938976--4939017 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4938966 CCAATGATCG
* *
4938976 CCACCACCTTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
4938994 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
4939012 CCACCA
1 CCACCA
4939018 ACCATATCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:4939735 original size:61 final size:62
Alignment explanation
Indices: 4939624--4939741 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 62
4939614 CCACTAATCC
* *
4939624 TAATAACTAACACAATAATAATATTAATAATTTTATATACAAAATAATACTAACTAAAATTAT
1 TAATAACTAACACAAAAATAATACTAAT-ATTTTATATACAAAATAATACTAACTAAAATTAT
*
4939687 TAATAACTAACTACAAAAATAATACTAAT-TTTT-TACTA-ACAATAATACTAACTAA
1 TAATAACTAAC-ACAAAAATAATACTAATATTTTATA-TACAAAATAATACTAACTAA
4939742 CATCTTAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
61 18 0.36
62 6 0.12
63 11 0.22
64 15 0.30
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (62 bp):
TAATAACTAACACAAAAATAATACTAATATTTTATATACAAAATAATACTAACTAAAATTAT
Found at i:4939755 original size:3 final size:3
Alignment explanation
Indices: 4939747--4939778 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4939737 ACTAACATCT
4939747 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4939779 CTATAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4940102 original size:27 final size:27
Alignment explanation
Indices: 4940064--4940131 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
4940054 ATAACACGAG
* * *
4940064 TGGTGCTGCCAATAGGGAACCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
*
4940091 TGGTGCCGCCAACAAGGAATCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
4940118 TGGTGCCGCCAACA
1 TGGTGCCGCCAACA
4940132 GTGTTCCCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGAACCCTTGTT
Found at i:4940193 original size:19 final size:19
Alignment explanation
Indices: 4940169--4940209 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
4940159 AATCGGTCCA
* *
4940169 GGTTTTTTTTATTTTTTTT
1 GGTTTTTTTTATATATTTT
4940188 GGTTTTTTTTATATATTTT
1 GGTTTTTTTTATATATTTT
4940207 GGT
1 GGT
4940210 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.15, T:0.76
Consensus pattern (19 bp):
GGTTTTTTTTATATATTTT
Found at i:4940254 original size:28 final size:28
Alignment explanation
Indices: 4940197--4940289 Score: 145
Period size: 28 Copynumber: 3.4 Consensus size: 28
4940187 TGGTTTTTTT
4940197 TATATATTTTGGTAAAT-AAAAAAATTA
1 TATATATTTTGGTAAATAAAAAAAATTA
*
4940224 TATATTTTTTGGTAAATAAAAAAAATTA
1 TATATATTTTGGTAAATAAAAAAAATTA
*
4940252 TATATATTTTGGTAAATAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAATTA
*
4940280 TA-ACATTTTG
1 TATATATTTTG
4940290 ATAATTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 23 0.38
28 38 0.62
ACGTcount: A:0.48, C:0.01, G:0.09, T:0.42
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAAATTA
Found at i:4940413 original size:28 final size:29
Alignment explanation
Indices: 4940376--4940434 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 29
4940366 ATGAAAATGT
4940376 TATAACTTTTTTTTATTTACCAAAATATA
1 TATAACTTTTTTTTATTTACCAAAATATA
4940405 TATAA-TTTTTTTTATTTACCAAAATATA
1 TATAACTTTTTTTTATTTACCAAAATATA
4940433 TA
1 TA
4940435 AAAAAAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (29 bp):
TATAACTTTTTTTTATTTACCAAAATATA
Found at i:4941640 original size:28 final size:25
Alignment explanation
Indices: 4941575--4941645 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 25
4941565 TTTACTTTTT
4941575 TTATATATTTTGGTAAATAAAAAAA
1 TTATATATTTTGGTAAATAAAAAAA
*
4941600 TTATGTATTTTTTGGTAAATAAAAAAAA
1 TTA--TATATTTTGGTAAAT-AAAAAAA
4941628 GTTATAATATTTTGGTAA
1 -TTAT-ATATTTTGGTAA
4941646 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 3 0.08
27 15 0.38
28 18 0.46
29 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.44
Consensus pattern (25 bp):
TTATATATTTTGGTAAATAAAAAAA
Found at i:4941668 original size:13 final size:13
Alignment explanation
Indices: 4941650--4941675 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4941640 TGGTAATTTT
4941650 TTATTTTTTTATA
1 TTATTTTTTTATA
4941663 TTATTTTTTTATA
1 TTATTTTTTTATA
4941676 AAACCCATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTTTTATA
Found at i:4941706 original size:19 final size:19
Alignment explanation
Indices: 4941682--4941722 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
4941672 TATAAAACCC
*
4941682 ATAATAAAAGATTACAAAA
1 ATAATAAAAGATTAAAAAA
*
4941701 ATAATAAAATATTAAAAAA
1 ATAATAAAAGATTAAAAAA
4941720 ATA
1 ATA
4941723 CCAAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
ATAATAAAAGATTAAAAAA
Found at i:4941728 original size:19 final size:19
Alignment explanation
Indices: 4941682--4941733 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
4941672 TATAAAACCC
* * *
4941682 ATAATAAAAGATTACAAAA
1 ATAACAAAATATTAAAAAA
*
4941701 ATAATAAAATATTAAAAAA
1 ATAACAAAATATTAAAAAA
*
4941720 ATACCAAAATATTA
1 ATAACAAAATATTA
4941734 TATATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAACAAAATATTAAAAAA
Found at i:4942452 original size:10 final size:10
Alignment explanation
Indices: 4942439--4942588 Score: 57
Period size: 10 Copynumber: 15.0 Consensus size: 10
4942429 CTTTCTTCCC
4942439 TCTTCTTCTT
1 TCTTCTTCTT
* *
4942449 TCTTTTTTTTT
1 TC-TTCTTCTT
*
4942460 CTCTTCTCCTT
1 -TCTTCTTCTT
4942471 TCCTT-TTCTT
1 T-CTTCTTCTT
*
4942481 TC--CTTATT
1 TCTTCTTCTT
4942489 T-TTCTTTCTT
1 TCTTC-TTCTT
* **
4942499 TCCTCCCCTT
1 TCTTCTTCTT
4942509 TCCTT-TTCTT
1 T-CTTCTTCTT
4942519 TC--CTTCTT
1 TCTTCTTCTT
4942527 T-TTCTTTCTT
1 TCTTC-TTCTT
* *
4942537 TCCTCTCCTT
1 TCTTCTTCTT
*
4942547 TCCTT-TTCCT
1 T-CTTCTTCTT
*
4942557 TCTTTTTCTT
1 TCTTCTTCTT
4942567 TCTTCCTTTCTT
1 TCTT-C-TTCTT
4942579 TCTTCTTCTT
1 TCTTCTTCTT
4942589 CCCCTCTCCT
Statistics
Matches: 101, Mismatches: 21, Indels: 36
0.64 0.13 0.23
Matches are distributed among these distances:
8 11 0.11
9 7 0.07
10 49 0.49
11 23 0.23
12 11 0.11
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (10 bp):
TCTTCTTCTT
Found at i:4942496 original size:18 final size:18
Alignment explanation
Indices: 4942475--4942585 Score: 95
Period size: 18 Copynumber: 6.1 Consensus size: 18
4942465 CTCCTTTCCT
*
4942475 TTTCTTTCCTTATTTTTC
1 TTTCTTTCCTTCTTTTTC
* * *
4942493 TTTCTTTCCTCCCCTTTCC
1 TTTCTTTCCT-TCTTTTTC
4942512 TTTTCTTTCCTTCTTTTTC
1 -TTTCTTTCCTTCTTTTTC
*
4942531 TTTCTTTCC-TCTCCTTTC
1 TTTCTTTCCTTCT-TTTTC
*
4942549 -CT-TTTCCTTCTTTTTC
1 TTTCTTTCCTTCTTTTTC
4942565 TTTC-TTCCTTTCTTTCTTC
1 TTTCTTTCC-TTCTTT-TTC
4942584 TT
1 TT
4942586 CTTCCCCTCT
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
16 9 0.12
17 12 0.16
18 29 0.39
19 14 0.19
20 10 0.14
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTCCTTCTTTTTC
Found at i:4942514 original size:38 final size:38
Alignment explanation
Indices: 4942467--4942576 Score: 159
Period size: 38 Copynumber: 2.9 Consensus size: 38
4942457 TTTCTCTTCT
4942467 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
1 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
* *
4942505 CCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCT
1 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
* * *
4942543 CCTTTCCTTTTCCTT-CTTTTTCTTTCTTCCTTTC
1 CCTTTCCTTTTCTTTCCTTATT-TTTCTTTCTTTC
4942577 TTTCTTCTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 5 0.08
38 61 0.92
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.65
Consensus pattern (38 bp):
CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
Found at i:4942529 original size:14 final size:14
Alignment explanation
Indices: 4942512--4942585 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
4942502 TCCCCTTTCC
4942512 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
4942526 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
4942541 CTCCTTTCCTTTTCCTTCT
1 -T--TTT-C-TTTCCTTCT
4942560 TTTTCTTT-CTTC-
1 TTTTCTTTCCTTCT
*
4942572 CTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
4942585 T
1 T
4942586 CTTCCCCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 11 0.22
13 4 0.08
14 14 0.29
15 3 0.06
16 4 0.08
18 4 0.08
19 3 0.06
20 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:4942537 original size:28 final size:28
Alignment explanation
Indices: 4942506--4942585 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
4942496 CTTTCCTCCC
4942506 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
4942534 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTT
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTT
4942568 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
4942586 CTTCCCCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.15
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 18 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTT
Found at i:4942581 original size:22 final size:23
Alignment explanation
Indices: 4942546--4942588 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4942536 TTCCTCTCCT
*
4942546 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
4942569 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
4942589 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:4942586 original size:28 final size:30
Alignment explanation
Indices: 4942508--4942589 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 30
4942498 TTCCTCCCCT
*
4942508 TTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTCTTCTTCTTTCTTTCC
*
4942540 TCTCCTTTCCTTT-TCCTTCTT-TTTCTTT-C
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
4942569 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
4942590 CCCTCTCCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 4 0.09
28 13 0.30
29 2 0.05
30 7 0.16
31 6 0.14
32 4 0.09
33 7 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:4942587 original size:18 final size:17
Alignment explanation
Indices: 4942423--4942590 Score: 86
Period size: 18 Copynumber: 9.8 Consensus size: 17
4942413 TATTTTCTTT
*
4942423 TTTTTCCTTTCTTCCCTC
1 TTTTT-CTTTCTTCCTTC
*
4942441 TTCTTCTTTCTT--TT-
1 TTTTTCTTTCTTCCTTC
4942455 TTTTTCTCTTC-TCCTTTC
1 TTTTTCT-TTCTTCC-TTC
* *
4942473 CTTTTC--T-TTCCTTA
1 TTTTTCTTTCTTCCTTC
*
4942487 TTTTTCTTTCTTTCCTCCC
1 TTTTTCTTTC-TTCCT-TC
* *
4942506 CTTTCCTTTTCTTTCCTTC
1 TTTTTC-TTTC-TTCCTTC
4942525 TTTTTCTTTCTTTCC-TC
1 TTTTTCTTTC-TTCCTTC
* *
4942542 TCCTTTCCTT-TTCCTTC
1 T-TTTTCTTTCTTCCTTC
4942559 TTTTTCTTTCTTCCTTTC
1 TTTTTCTTTCTTCC-TTC
4942577 TTTCTTC-TTCTTCC
1 TTT-TTCTTTCTTCC
4942591 CCTCTCCTTC
Statistics
Matches: 116, Mismatches: 17, Indels: 34
0.69 0.10 0.20
Matches are distributed among these distances:
14 14 0.12
15 8 0.07
16 11 0.09
17 19 0.16
18 42 0.36
19 12 0.10
20 10 0.09
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTCTTTCTTCCTTC
Found at i:4942599 original size:42 final size:40
Alignment explanation
Indices: 4942487--4942602 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 40
4942477 TCTTTCCTTA
* *
4942487 TTTTTCTTTCTTTCCTCCCCTT-TCCT-T--TTCTTTCCTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTT--TTC
* * *
4942525 TTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCTTTTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
* *
4942565 TTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCTT
1 TTT-TT-CTTTCTTTCCTCTCCTTCCCCTCTCCTTCTT
4942603 CCCCCCACCA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
38 21 0.33
39 2 0.03
40 7 0.11
41 2 0.03
42 32 0.50
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
Found at i:4942675 original size:27 final size:27
Alignment explanation
Indices: 4942637--4942703 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
4942627 AATTCAAGGG
4942637 TGGTGCCGCCAACAAGGAACCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
* **
4942664 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
4942691 TGGTGCCGCCAAC
1 TGGTGCCGCCAAC
4942704 CTGCTTCTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.16, C:0.31, G:0.28, T:0.24
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGAACCCTTGTT
Found at i:4942812 original size:27 final size:28
Alignment explanation
Indices: 4942782--4942837 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
4942772 TACTTTTTTG
4942782 ATATATTTTGGTAAATAAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
4942809 ATATATTTTGGTAAATAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
4942837 A
1 A
4942838 ACATTTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAGTTAT
Found at i:4942843 original size:27 final size:27
Alignment explanation
Indices: 4942786--4942849 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
4942776 TTTTTGATAT
*
4942786 ATTTTGGTAAATAAAAAAATTATATAT
1 ATTTTGGTAAATAAAAAAATTATATAC
4942813 ATTTTGGTAAATAAAAAAAGTTATA-AC
1 ATTTTGGTAAATAAAAAAA-TTATATAC
*
4942840 ATTTTAGTAA
1 ATTTTGGTAA
4942850 TTTTTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 29 0.85
28 5 0.15
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (27 bp):
ATTTTGGTAAATAAAAAAATTATATAC
Found at i:4944626 original size:22 final size:22
Alignment explanation
Indices: 4944583--4944628 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
4944573 TATGCACAAG
*
4944583 TAAACAGAGAGCACAAGTGTGC
1 TAAACAGAGAGCACAAGCGTGC
4944605 TAAACAGAGAGCACTAA-CGTGC
1 TAAACAGAGAGCAC-AAGCGTGC
4944627 TA
1 TA
4944629 GAAAACAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (22 bp):
TAAACAGAGAGCACAAGCGTGC
Found at i:4948561 original size:22 final size:22
Alignment explanation
Indices: 4948518--4948563 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4948508 TATGCACGAG
* *
4948518 TAAACGGAGAGCACAAGTGTGC
1 TAAACAGAGAGCACAAGCGTGC
4948540 TAAACAGAGAGCACTAA-CGTGC
1 TAAACAGAGAGCAC-AAGCGTGC
4948562 TA
1 TA
4948564 GAAAATAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (22 bp):
TAAACAGAGAGCACAAGCGTGC
Found at i:4951211 original size:15 final size:15
Alignment explanation
Indices: 4951191--4951228 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
4951181 ACAGTAATCC
4951191 AAAATAAATGTTCCA
1 AAAATAAATGTTCCA
4951206 AAAATAAATGTTCCA
1 AAAATAAATGTTCCA
4951221 AAAA-AAAT
1 AAAATAAAT
4951229 TAGAACAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (15 bp):
AAAATAAATGTTCCA
Found at i:4973162 original size:30 final size:30
Alignment explanation
Indices: 4973122--4973185 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 30
4973112 GTTAATAATT
* *
4973122 TATAAGAATTGGATC-AAATCAAAATTTCATG
1 TATAAGAATTGCA-CAAAATC-AAAGTTCATG
4973153 TATAA-AATTGCACAAAATCAAAGTTCATG
1 TATAAGAATTGCACAAAATCAAAGTTCATG
4973182 TATA
1 TATA
4973186 CATTTACACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 14 0.47
30 11 0.37
31 5 0.17
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (30 bp):
TATAAGAATTGCACAAAATCAAAGTTCATG
Found at i:4973195 original size:29 final size:30
Alignment explanation
Indices: 4973137--4973216 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
4973127 GAATTGGATC
* *
4973137 AAATCAAAATTTCATGTATAAAATTGCACA-
1 AAATC-AAAGTTCATGTATAAAATTACACAT
* *
4973167 AAATCAAAGTTCATGTATACATTTACACATT
1 AAATCAAAGTTCATGTATAAAATTACACA-T
* *
4973198 AAATCATAGTTAATGTATA
1 AAATCAAAGTTCATGTATA
4973217 GTTTTAGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 20 0.48
30 5 0.12
31 17 0.40
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTACACAT
Found at i:4973478 original size:16 final size:16
Alignment explanation
Indices: 4973459--4973492 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4973449 TGATATTCGG
* *
4973459 TAATTTTACTATTATT
1 TAATTTTAATAATATT
4973475 TAATTTTAATAATATT
1 TAATTTTAATAATATT
4973491 TA
1 TA
4973493 CATAATTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTTAATAATATT
Found at i:4977000 original size:44 final size:44
Alignment explanation
Indices: 4976937--4977024 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
4976927 TTTGGTACAT
*
4976937 ACACTTGTCTCCACTTCATAATTGTCATGAGCT-GGGTGAACGTA
1 ACACTTGTCTCCACTTCATAATTCTCATG-GCTAGGGTGAACGTA
*
4976981 ACACTTGTCTCCACTTCATAATTCTCATGGGTAGGGTGAACGTA
1 ACACTTGTCTCCACTTCATAATTCTCATGGCTAGGGTGAACGTA
4977025 GGAGGTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (44 bp):
ACACTTGTCTCCACTTCATAATTCTCATGGCTAGGGTGAACGTA
Found at i:4981517 original size:22 final size:21
Alignment explanation
Indices: 4981482--4981603 Score: 80
Period size: 19 Copynumber: 6.1 Consensus size: 21
4981472 AAAAGGTATC
* *
4981482 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
4981503 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
4981526 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
4981545 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
4981564 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
4981583 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
4981602 TA
1 TA
4981604 TACATTATAT
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
19 62 0.69
21 3 0.03
22 15 0.17
23 10 0.11
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:4981525 original size:23 final size:22
Alignment explanation
Indices: 4981482--4981539 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4981472 AAAAGGTATC
* *
4981482 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
4981503 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
4981526 TGCATATCATATCT
1 TACAAATCATATCT
4981540 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:4981542 original size:19 final size:19
Alignment explanation
Indices: 4981518--4981647 Score: 188
Period size: 19 Copynumber: 6.8 Consensus size: 19
4981508 AATCATATCT
*
4981518 TCTAAGATTGCATATCATA
1 TCTAAGATTGTATATCATA
*
4981537 TCTAAGATTATATATCATA
1 TCTAAGATTGTATATCATA
*
4981556 TCTAAGATTATATATCATA
1 TCTAAGATTGTATATCATA
*
4981575 TCTAAGATTGCATATCATA
1 TCTAAGATTGTATATCATA
* * *
4981594 TCTAAGATTATACATTATA
1 TCTAAGATTGTATATCATA
4981613 TCTAAGATTGTATATCATA
1 TCTAAGATTGTATATCATA
*
4981632 TCTAAGATTGCATATC
1 TCTAAGATTGTATATC
4981648 CCTGAAGATT
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 99 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGTATATCATA
Found at i:4981579 original size:57 final size:57
Alignment explanation
Indices: 4981518--4981647 Score: 233
Period size: 57 Copynumber: 2.3 Consensus size: 57
4981508 AATCATATCT
*
4981518 TCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATACATCATATCTAAGATTATATATCATA
* *
4981575 TCTAAGATTGCATATCATATCTAAGATTATACATTATATCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATACATCATATCTAAGATTATATATCATA
4981632 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
4981648 CCTGAAGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 70 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (57 bp):
TCTAAGATTGCATATCATATCTAAGATTATACATCATATCTAAGATTATATATCATA
Found at i:4982195 original size:132 final size:132
Alignment explanation
Indices: 4981973--4982540 Score: 960
Period size: 132 Copynumber: 4.3 Consensus size: 132
4981963 TAGGACTTAC
* * * * *
4981973 AATCTTCAACCTATTCCACTGCTGACCAGAG-AGATATG-GTTACTGGCTTCAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCACT
*
4982036 GTAACCAGAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
64 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
4982101 CTGA
129 CTGA
* * * * *
4982105 AATCTTCAATCCATTCTACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
4982170 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
4982235 GA
131 GA
*
4982237 AATCTTCAATTTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
4982302 AACCACAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTTCTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
4982367 GA
131 GA
*
4982369 AATCTTCAATCTATTCCATTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
4982434 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
4982499 GA
131 GA
4982501 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAAT
4982541 NNNNNNNNNN
Statistics
Matches: 408, Mismatches: 26, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 405 0.99
133 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:4982532 original size:44 final size:45
Alignment explanation
Indices: 4982220--4982532 Score: 107
Period size: 44 Copynumber: 7.1 Consensus size: 45
4982210 ACTACTGCTT
* *
4982220 AGGGAGATAAGATCTGAAATCTTCAATTTATTCCACTGTTGTC-C
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * ***
4982264 AGGGA-AGT-AGAATTACTG---GCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * * ** * * ** **
4982308 AGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACT-TCTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * *
4982352 AGGGAGATAAGACCTGAAATCTTCAATCTATTCCATTGTTGTC-C
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * ***
4982396 AGGGA-AGT-AGAATTACTG---GCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * * ** * * ** **
4982440 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG-CTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
*
4982484 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTC-C
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
4982528 AGGGA
1 AGGGA
4982533 AGTAGAATNN
Statistics
Matches: 183, Mismatches: 64, Indels: 44
0.63 0.22 0.15
Matches are distributed among these distances:
42 4 0.02
43 43 0.23
44 96 0.52
45 34 0.19
46 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
Found at i:4986236 original size:22 final size:21
Alignment explanation
Indices: 4986201--4986334 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
4986191 AAAGGGTATC
* *
4986201 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
4986222 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
4986245 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
4986264 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
4986283 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
4986302 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
4986321 TGCATATCATATCT
1 TACAAATCATATCT
4986335 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
17 2 0.02
19 60 0.64
21 7 0.07
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:4986244 original size:23 final size:22
Alignment explanation
Indices: 4986201--4986258 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4986191 AAAGGGTATC
* *
4986201 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
4986222 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
4986245 TGCATATCATATCT
1 TACAAATCATATCT
4986259 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:4986261 original size:19 final size:19
Alignment explanation
Indices: 4986237--4986347 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
4986227 AATCATATCT
4986237 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
4986256 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
4986275 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
4986294 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
4986313 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4986332 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
4986348 CCTGAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4986284 original size:38 final size:38
Alignment explanation
Indices: 4986237--4986340 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
4986227 AATCATATCT
4986237 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
4986275 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
4986313 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
4986341 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:4986837 original size:44 final size:45
Alignment explanation
Indices: 4986763--4987893 Score: 182
Period size: 44 Copynumber: 25.7 Consensus size: 45
4986753 AAAATCCGCC
* * * **
4986763 ATCTTCGATCTGCTCCACTACTG-CTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* *
4986807 ATCTTCAATCTATTCCACTGTTGTC-CAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGA-TAAG-A-T-CTGAA
* * *** * * * **
4986851 -GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * * **
4986895 ATCTTCGATCTGCTCCACTACTG-CTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* *
4986939 ATCTTCAATCTATTCCACTGTTGTC-CAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGA-TAAG-A-T-CTGAA
* * *** * * * **
4986983 -GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * * ** *
4987027 ATCTTCGATCTGCTCCACTACTG-CTTAGGGAGATAAGACCTGAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * *
4987071 ATCTTCAATCTATTCCATTGTTGTC-CAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGA-TAAG-A-T-CTGAA
* * * *** * * *
4987115 -GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGAC
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * * ** *
4987159 ATCTTCGATCTGCTCCACTACT-TCTTAGGGAGATAAGACCTGAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * *
4987203 ATCTTCAATCTATTCCATTGTTGTC-CAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGA-TAAG-A-T-CTGAA
* * * *** * * * **
4987247 -GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * * ** * *
4987291 ATCTTCGATCTGCTCCACTACTG-CTTAGGGATATAAGACCTGAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
*
4987335 ATCTTCAATCTATTCCACTATTGTC-CAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGA-TAAG-A-T-CTGAA
* * *** * * * **
4987379 -GCTTCAATATACTCCACTATAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * * ** *
4987423 ATTTTCGATCTACTCCACTACTG-CTTAGGGAGATAAGATCTAAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * * * *
4987467 ATTTTCAATCTATTCCACTGTTGT-TCAGGGA-AGT-AGAAT-T-ACT
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGA-TAAG-ATCTGA-A
* * * *** * * **
4987510 AGCTTCAATGTACTCCACTGTAACCACAGGGAGATAAAATCCGCC
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * **
4987555 ATCTTCGATCTACTCCACTACTG-CTTAGGGAGATAAGAT-TCGAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCT-GAA
* * *
4987599 ATCTTCAATCTATTCCACTGTTGTC-TAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGA-TAAG-A-T-CTGAA
* * *** * * * **
4987643 -GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * * **
4987687 ATCTTCGATCTGCTCCACTACTG-CTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * * *
4987731 ATCTTCAATCTATTCTACTGTTGTC-TAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGA-TAAG-A-T-CTGAA
* * *** * * * **
4987775 -GCTTCAATATACTCCACTATAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* * * **
4987819 ATCTTCGATCTGCTCCACTACTG-CTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
* *
4987863 ATCTTCAATCTATTCCACTGTTGTC-CAGGGA
1 ATCTTCAATCTACTCCACTATTGTCACAGGGA
4987894 AGTAGAATTA
Statistics
Matches: 743, Mismatches: 255, Indels: 178
0.63 0.22 0.15
Matches are distributed among these distances:
42 16 0.02
43 168 0.23
44 398 0.54
45 141 0.19
46 19 0.03
47 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (45 bp):
ATCTTCAATCTACTCCACTATTGTCACAGGGAGATAAGATCTGAA
Found at i:4986896 original size:132 final size:132
Alignment explanation
Indices: 4986674--4987964 Score: 2219
Period size: 132 Copynumber: 9.8 Consensus size: 132
4986664 TAGGACTTAC
* * * * *
4986674 AATCTTCAACCTATTCCACTGCTGACCAGAG-AGATATG-GTTACTGGCTTCAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCACT
* *
4986737 GTAACCAGAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
64 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
4986802 CTGA
129 CTGA
4986806 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
4986871 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
4986936 GA
131 GA
4986938 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
4987003 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
4987068 GA
131 GA
* *
4987070 AATCTTCAATCTATTCCATTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* * * *
4987135 AACCACAGGGAGGTAAAATCTGACATCTTCGATCTGCTCCACTACTTCTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
4987200 GA
131 GA
* *
4987202 AATCTTCAATCTATTCCATTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* *
4987267 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
4987332 GA
131 GA
* *
4987334 AATCTTCAATCTATTCCACTATTGTCCAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* *
4987399 AACCACAGGGAGGTAAAATCCGCCATTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
*
4987464 AA
131 GA
* * * *
4987466 AATTTTCAATCTATTCCACTGTTGTTCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* *
4987531 AACCACAGGGAGATAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGAT-T
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
4987595 CGA
131 -GA
*
4987598 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
4987663 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
4987728 GA
131 GA
* * *
4987730 AATCTTCAATCTATTCTACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
4987795 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
4987860 GA
131 GA
*
4987862 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
4987927 AACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
4987965 TCGCTGTCAA
Statistics
Matches: 1106, Mismatches: 49, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
131 2 0.00
132 1101 1.00
133 3 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:4994525 original size:19 final size:19
Alignment explanation
Indices: 4994501--4994611 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
4994491 AATCATATCT
*
4994501 TCTAAGATTGCATATCAAA
1 TCTAAGATTGCATATCATA
**
4994520 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
4994539 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
4994558 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
4994577 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4994596 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
4994612 CCTTAAGATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4994548 original size:38 final size:38
Alignment explanation
Indices: 4994501--4994604 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
4994491 AATCATATCT
*
4994501 TCTAAGATTGCATATCAAATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
4994539 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
4994577 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
4994605 GCATATCCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:4995563 original size:51 final size:51
Alignment explanation
Indices: 4995501--4995662 Score: 279
Period size: 51 Copynumber: 3.2 Consensus size: 51
4995491 CACATATCAC
4995501 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTT
*
4995552 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAACTAAAGTTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTT
* * * *
4995603 ATTACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTACAACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTT
4995654 ATCACTTGT
1 ATCACTTGT
4995663 TACTGATCAG
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 104 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTT
Found at i:5000352 original size:30 final size:30
Alignment explanation
Indices: 5000317--5000387 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
5000307 GATACAGGGG
*
5000317 ACACACGGCTGTGTCACTTGGCTGTTTGTC
1 ACACACGGCTGTGTCACTTGGCTGTGTGTC
*
5000347 ACACACGGCCGTGTCACTTGGCTGTGTGTC
1 ACACACGGCTGTGTCACTTGGCTGTGTGTC
5000377 ACACACGGCTG
1 ACACACGGCTG
5000388 AGACACACGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.15, C:0.30, G:0.28, T:0.27
Consensus pattern (30 bp):
ACACACGGCTGTGTCACTTGGCTGTGTGTC
Found at i:5000715 original size:23 final size:21
Alignment explanation
Indices: 5000683--5000724 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
5000673 ACGTATAACA
5000683 CTCATACTCATATCACAATATAC
1 CTCATACTCATA-C-CAATATAC
*
5000706 CTCATTCTCATACCAATAT
1 CTCATACTCATACCAATAT
5000725 GTAAGTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (21 bp):
CTCATACTCATACCAATATAC
Found at i:5001252 original size:21 final size:21
Alignment explanation
Indices: 5001206--5001272 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
5001196 CCGAATACGC
* *
5001206 AACAGAAGCTTG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTA
*
5001225 AATAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
*
5001246 AACAGAAGCTCGTAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTA
5001267 AACAGA
1 AACAGA
5001273 CAGTAAAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
19 10 0.24
20 2 0.05
21 29 0.71
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:5004575 original size:23 final size:23
Alignment explanation
Indices: 5004549--5004646 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
5004539 ATAAGTGCCA
5004549 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
5004572 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
5004595 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
5004617 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
5004640 CACTGAT
1 CACTGAT
5004647 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:5004614 original size:45 final size:45
Alignment explanation
Indices: 5004556--5004644 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
5004546 CCACACTGAT
* *
5004556 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
5004601 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
5004645 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:5011929 original size:20 final size:20
Alignment explanation
Indices: 5011891--5011929 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5011881 ACTAAATTAT
5011891 ATATTTATATGTTTGAATTTA
1 ATATTTATATG-TTGAATTTA
5011912 ATATTGTATATG-TGAATT
1 ATATT-TATATGTTGAATT
5011930 GTATAAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (20 bp):
ATATTTATATGTTGAATTTA
Found at i:5012293 original size:25 final size:24
Alignment explanation
Indices: 5012265--5012356 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 24
5012255 TCTTTGTGAG
5012265 CTTCCTGATTAATGGCTCTCCGGAA
1 CTTCCTGA-TAATGGCTCTCCGGAA
* **
5012290 CTTCCTGAT-ATAGCT-TGCTTGAA
1 CTTCCTGATAATGGCTCT-CCGGAA
* * *
5012313 CTTCCCGATATATGGCTATCCGGAG
1 CTTCCTGATA-ATGGCTCTCCGGAA
5012338 CTTCCTGATTAATGGCTCT
1 CTTCCTGA-TAATGGCTCT
5012357 TTAGAGCTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
22 1 0.02
23 17 0.33
24 1 0.02
25 30 0.58
26 3 0.06
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (24 bp):
CTTCCTGATAATGGCTCTCCGGAA
Found at i:5024360 original size:18 final size:18
Alignment explanation
Indices: 5024337--5024379 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
5024327 CCCCCGTAAC
*
5024337 CTTGAAATAGTATTCACA
1 CTTGAAATAGCATTCACA
*
5024355 CTTG-AAGAGCATTCACA
1 CTTGAAATAGCATTCACA
*
5024372 CTTAAAAT
1 CTTGAAAT
5024380 GTGGGTGGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (18 bp):
CTTGAAATAGCATTCACA
Found at i:5031503 original size:30 final size:30
Alignment explanation
Indices: 5031467--5031526 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
5031457 TCAAACCCTC
5031467 TAATTGTAGTGTTTGGTGAATGAAGGTTTG
1 TAATTGTAGTGTTTGGTGAATGAAGGTTTG
5031497 TAATTGTAGTGTTTGGTGAATGAAGGTTTG
1 TAATTGTAGTGTTTGGTGAATGAAGGTTTG
5031527 CAAAAATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (30 bp):
TAATTGTAGTGTTTGGTGAATGAAGGTTTG
Found at i:5031525 original size:15 final size:15
Alignment explanation
Indices: 5031477--5031526 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
5031467 TAATTGTAGT
5031477 GTTTGGTGAATGAAG
1 GTTTGGTGAATGAAG
*
5031492 GTTT-GT-AATTGTAG
1 GTTTGGTGAA-TGAAG
5031506 TGTTTGGTGAATGAAG
1 -GTTTGGTGAATGAAG
5031522 GTTTG
1 GTTTG
5031527 CAAAAATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 2 0.07
14 6 0.21
15 13 0.45
16 6 0.21
17 2 0.07
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (15 bp):
GTTTGGTGAATGAAG
Found at i:5046819 original size:25 final size:25
Alignment explanation
Indices: 5046788--5046845 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
5046778 TGTAAACGAG
5046788 AAGCTCATTTGAGCTGAATAATGGA
1 AAGCTCATTTGAGCTGAATAATGGA
* *
5046813 AAGCTCATGTGAGCTGAATAATGGG
1 AAGCTCATTTGAGCTGAATAATGGA
5046838 AAGC-CATT
1 AAGCTCATT
5046846 GCGAGCTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 3 0.10
25 27 0.90
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (25 bp):
AAGCTCATTTGAGCTGAATAATGGA
Found at i:5046851 original size:25 final size:25
Alignment explanation
Indices: 5046788--5046852 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
5046778 TGTAAACGAG
**
5046788 AAGCTCATTTGAGCTGAATAATGGA
1 AAGCTCATGCGAGCTGAATAATGGA
* *
5046813 AAGCTCATGTGAGCTGAATAATGGG
1 AAGCTCATGCGAGCTGAATAATGGA
5046838 AAGC-CATTGCGAGCT
1 AAGCTCA-TGCGAGCT
5046853 AAGGATCAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 2 0.06
25 34 0.94
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGAATAATGGA
Found at i:5054018 original size:31 final size:31
Alignment explanation
Indices: 5053976--5054036 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
5053966 CAAAATAATC
*
5053976 ATTGAATTATTC-GAAAGTTTTCATTTAAGTT
1 ATTGAACTATTCAG-AAGTTTTCATTTAAGTT
*
5054007 ATTGAACTATTCAGAAGTTTTTATTTAAGT
1 ATTGAACTATTCAGAAGTTTTCATTTAAGT
5054037 CATAAGGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTGAACTATTCAGAAGTTTTCATTTAAGTT
Found at i:5057988 original size:26 final size:24
Alignment explanation
Indices: 5057959--5058007 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 24
5057949 GGCGGTGTCA
5057959 AACATAAATAACTTTATATATAAAAT
1 AACATAAATAAC-TTATA-ATAAAAT
5057985 AACATAAATAACTTATAATAAAA
1 AACATAAATAACTTATAATAAAA
5058008 AATTGAGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.26
25 5 0.22
26 12 0.52
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (24 bp):
AACATAAATAACTTATAATAAAAT
Found at i:5062095 original size:24 final size:24
Alignment explanation
Indices: 5062067--5062118 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
5062057 TTAGTAAGTC
* *
5062067 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
5062091 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
5062115 AAAT
1 AAAT
5062119 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:5063222 original size:12 final size:12
Alignment explanation
Indices: 5063200--5063229 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
5063190 AGGGTCTCCC
5063200 TGAAGGACTTGTA
1 TGAA-GACTTGTA
5063213 TGAAGACTTGTA
1 TGAAGACTTGTA
5063225 TGAAG
1 TGAAG
5063230 GGGGTAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (12 bp):
TGAAGACTTGTA
Found at i:5064095 original size:24 final size:24
Alignment explanation
Indices: 5064043--5064095 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
5064033 ATTAGTAAGT
* *
5064043 CAAATAAATTATGCTAATAAATGC
1 CAAATAAATTATACTAATAAATAC
* *
5064067 TAAATATATTATACTAATAAATAC
1 CAAATAAATTATACTAATAAATAC
5064091 CAAAT
1 CAAAT
5064096 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (24 bp):
CAAATAAATTATACTAATAAATAC
Found at i:5067663 original size:6 final size:6
Alignment explanation
Indices: 5067648--5067743 Score: 138
Period size: 6 Copynumber: 16.0 Consensus size: 6
5067638 CATCGTCGTA
* * * * *
5067648 TTCTTC TTCCTC TTCCTC TTCCTC TTCCTC TTCTTC TTCCTC TTCTTC
1 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC
*
5067696 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCCTC TTCTTC TTCTTC
1 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC
5067744 GTAAGACACT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 84 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (6 bp):
TTCTTC
Found at i:5068005 original size:135 final size:135
Alignment explanation
Indices: 5067763--5068028 Score: 487
Period size: 135 Copynumber: 2.0 Consensus size: 135
5067753 TGGTTGGACC
*
5067763 ATTCCTTCCTTATCCTCAACTTCTTGTTGACTTTCAGCAACATCAGCTTGCATTTGTACACGAGA
1 ATTCCTTCCTTATCATCAACTTCTTGTTGACTTTCAGCAACATCAGCTTGCATTTGTACACGAGA
5067828 AGTCATTAATCGGTCCATTGTATCTCGGAAATCACTGCCAAGCAAAGTTGAAACTCTTCCCCTGC
66 AGTCATTAATCGGTCCATTGTATCTCGGAAATCACTGCCAAGCAAAGTTGAAACTCTTCCCCTGC
5067893 ATATA
131 ATATA
* ** *
5067898 ATTCCTTCCTTATCATCCACTTCTTGTTGACTTTCAGCCCCATCCGCTTGCATTTGTACACGAGA
1 ATTCCTTCCTTATCATCAACTTCTTGTTGACTTTCAGCAACATCAGCTTGCATTTGTACACGAGA
5067963 AGTCATTAATCGGTCCATTGTATCTCGGAAATCACTGCCAAGCAAAGTTGAAACTCTTCCCCTGC
66 AGTCATTAATCGGTCCATTGTATCTCGGAAATCACTGCCAAGCAAAGTTGAAACTCTTCCCCTGC
5068028 A
131 A
5068029 AGTAAATTGG
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 126 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.32
Consensus pattern (135 bp):
ATTCCTTCCTTATCATCAACTTCTTGTTGACTTTCAGCAACATCAGCTTGCATTTGTACACGAGA
AGTCATTAATCGGTCCATTGTATCTCGGAAATCACTGCCAAGCAAAGTTGAAACTCTTCCCCTGC
ATATA
Found at i:5073606 original size:30 final size:30
Alignment explanation
Indices: 5073572--5073628 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
5073562 TTTCAGAAGC
*
5073572 CACACGGGCTGGGCACACACCCATGTGGGA
1 CACACGGGCTGGACACACACCCATGTGGGA
* *
5073602 CACACGGGCTGGACACACGCCCTTGTG
1 CACACGGGCTGGACACACACCCATGTG
5073629 CCAGCCAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.35, G:0.32, T:0.12
Consensus pattern (30 bp):
CACACGGGCTGGACACACACCCATGTGGGA
Found at i:5074246 original size:17 final size:17
Alignment explanation
Indices: 5074224--5074267 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
5074214 AACAATATGT
5074224 GTTTTAATTAGAAAGAG
1 GTTTTAATTAGAAAGAG
5074241 GTTTTAATTAGAAAGAG
1 GTTTTAATTAGAAAGAG
*
5074258 ATTTTAATTA
1 GTTTTAATTA
5074268 ATCAACTTAG
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:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (17 bp):
GTTTTAATTAGAAAGAG
Found at i:5077700 original size:112 final size:104
Alignment explanation
Indices: 5077515--5077806 Score: 451
Period size: 103 Copynumber: 2.7 Consensus size: 104
5077505 TTGTTTAAAT
5077515 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
5077580 TTATTTTGAAATTTTTTTAAAAAGGATATTAAGCCATTTGGTTGAAC
66 TTATTTTGAAA-TTTTTT-----GG--ATTAAGCCATTTGGTTGAAC
* * *
5077627 GAGAAAAATCGACACCCAGCACCTTAGGACATGTTTTCTCGAATTTCCAAATGCAAAACATTACC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
*
5077692 TTATTTTGAAA-TTTTTGGATTAAGCCCTTTGGTTGAAC
66 TTATTTTGAAATTTTTTGGATTAAGCCATTTGGTTGAAC
*
5077730 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCT
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
*
5077795 TTATTTTAAAAT
66 TTATTTTGAAAT
5077807 ACTTTTCTTT
Statistics
Matches: 170, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
103 90 0.53
105 2 0.01
110 5 0.03
112 73 0.43
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (104 bp):
GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
TTATTTTGAAATTTTTTGGATTAAGCCATTTGGTTGAAC
Found at i:5078584 original size:15 final size:16
Alignment explanation
Indices: 5078564--5078596 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
5078554 TTTAACATAG
5078564 ATAATAATATATA-AA
1 ATAATAATATATATAA
5078579 ATAATAATATATATAA
1 ATAATAATATATATAA
5078595 AT
1 AT
5078597 TTAAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATAATATATATAA
Found at i:5083929 original size:32 final size:32
Alignment explanation
Indices: 5083889--5083951 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
5083879 AAATTATGAG
5083889 CTAAATTTATTATTATACCAATTTTTAAATTA
1 CTAAATTTATTATTATACCAATTTTTAAATTA
5083921 CTAAATTTATTATTATACCAATTTTTAAATT
1 CTAAATTTATTATTATACCAATTTTTAAATT
5083952 GTCACTTCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.51
Consensus pattern (32 bp):
CTAAATTTATTATTATACCAATTTTTAAATTA
Found at i:5089322 original size:32 final size:32
Alignment explanation
Indices: 5089282--5089344 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
5089272 AAATTATGAG
5089282 CTAAATTTATTATTATACCAATTTTTAAATTA
1 CTAAATTTATTATTATACCAATTTTTAAATTA
5089314 CTAAATTTATTATTATACCAATTTTTAAATT
1 CTAAATTTATTATTATACCAATTTTTAAATT
5089345 GTCACTTCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.51
Consensus pattern (32 bp):
CTAAATTTATTATTATACCAATTTTTAAATTA
Found at i:5101931 original size:32 final size:28
Alignment explanation
Indices: 5101886--5101943 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 28
5101876 TTACGGATCT
5101886 TAATTTGGAACTCTGTAGCTCCGGATAAAAA
1 TAATTTGGAACTCTG-A-CT-CGGATAAAAA
*
5101917 TAATTTAGTAACTCTGACTCGGATAAA
1 TAATTT-GGAACTCTGACTCGGATAAA
5101944 CAGTTTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 8 0.32
30 2 0.08
31 7 0.28
32 8 0.32
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (28 bp):
TAATTTGGAACTCTGACTCGGATAAAAA
Found at i:5102682 original size:86 final size:86
Alignment explanation
Indices: 5102585--5102754 Score: 331
Period size: 86 Copynumber: 2.0 Consensus size: 86
5102575 AATATTGTTA
*
5102585 TGTATACTGCATTGAACTGTGAAAATACTGAAATAATGAATTACTGCAATACTGTGAAACTGATT
1 TGTATACTGCATTGAACAGTGAAAATACTGAAATAATGAATTACTGCAATACTGTGAAACTGATT
5102650 GAAATAAGAAATTATAATTTG
66 GAAATAAGAAATTATAATTTG
5102671 TGTATACTGCATTGAACAGTGAAAATACTGAAATAATGAATTACTGCAATACTGTGAAACTGATT
1 TGTATACTGCATTGAACAGTGAAAATACTGAAATAATGAATTACTGCAATACTGTGAAACTGATT
5102736 GAAATAAGAAATTATAATT
66 GAAATAAGAAATTATAATT
5102755 GATACTGAAC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (86 bp):
TGTATACTGCATTGAACAGTGAAAATACTGAAATAATGAATTACTGCAATACTGTGAAACTGATT
GAAATAAGAAATTATAATTTG
Found at i:5102958 original size:39 final size:39
Alignment explanation
Indices: 5102877--5103088 Score: 183
Period size: 45 Copynumber: 5.0 Consensus size: 39
5102867 ATTTGCCGGC
* * * *
5102877 TTACTGATTAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
5102915 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
*
5102954 TTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTAC---T---GATTCGGCACTTTGTGTGTCGAATACTGTTACTG
5102999 TTACTGTTATCGATTCGGCACTTTGTGTGTCGAATACTGTTACCGTTACTG
1 TTAC-----T-GATTCGGCACTTTGTGTGTCGAATAC---T---GTTACTG
* * *
5103050 TTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
5103089 CTACCGTTAC
Statistics
Matches: 148, Mismatches: 11, Indels: 29
0.79 0.06 0.15
Matches are distributed among these distances:
38 14 0.09
39 31 0.21
42 2 0.01
45 87 0.59
47 2 0.01
48 1 0.01
51 11 0.07
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:5102972 original size:45 final size:45
Alignment explanation
Indices: 5102904--5103103 Score: 310
Period size: 45 Copynumber: 4.4 Consensus size: 45
5102894 ATGTGCCGAC
*
5102904 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
*
5102949 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
*
5102994 TACTGTTACTGTTATCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* * * *
5103039 TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* * *
5103084 TACTGCTACCGTTACTGATT
1 TACTGTTACTGTTACCGATT
5103104 ACTGTATACT
Statistics
Matches: 142, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 142 1.00
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:5111040 original size:331 final size:331
Alignment explanation
Indices: 5110438--5111413 Score: 1925
Period size: 331 Copynumber: 2.9 Consensus size: 331
5110428 AAACCTGGGG
*
5110438 TTTCATGCATAGCTTATTAATAATCATCTATTATTATCTTGAATAAATTAAGTGTAATACAAAAT
1 TTTCATGCATAGCTTATTAATAATCATCTATTATTATCCTGAATAAATTAAGTGTAATACAAAAT
5110503 AAAATCAAAACCTTAAGTCCTATGCCACAGTTTATAGTAAAATATTACAGTACTCGAATAATATA
66 AAAATCAAAACCTTAAGTCCTATGCCACAGTTTATAGTAAAATATTACAGTACTCGAATAATATA
5110568 ATAAATCATATAATGAACCTAAAATAATTTTGTAATTAGAAATCGAGCCGAGGCCCTCTGGATGT
131 ATAAATCATATAATGAACCTAAAATAATTTTGTAATTAGAAATCGAGCCGAGGCCCTCTGGATGT
5110633 CGCATCTGAGTCTTAAATTGATAGGTTATCTGTAATGATGAAAATTAAAGGGAGAGTAAGCTGTG
196 CGCATCTGAGTCTTAAATTGATAGGTTATCTGTAATGATGAAAATTAAAGGGAGAGTAAGCTGTG
5110698 ACGCTCAGTGTGAATTCCATCACATGAATCAGTGCCAAATAATAATCCAAGCATCACATGAATCA
261 ACGCTCAGTGTGAATTCCATCACATGAATCAGTGCCAAATAATAATCCAAGCATCACATGAATCA
5110763 CATGAA
326 CATGAA
*
5110769 TTTCATGCATAGCTTATTAATAATCATCTATTATTATCCTAAATAAATTAAGTGTAATACAAAAT
1 TTTCATGCATAGCTTATTAATAATCATCTATTATTATCCTGAATAAATTAAGTGTAATACAAAAT
5110834 AAAATCAAAACCTTAAGTCCTATGCCACAGTTTATAGTAAAATATTACAGTACTCGAATAATATA
66 AAAATCAAAACCTTAAGTCCTATGCCACAGTTTATAGTAAAATATTACAGTACTCGAATAATATA
5110899 ATAAATCATATAATGAACCTAAAATAATTTTGTAATTAGAAATCGAGCCGAGGCCCTCTGGATGT
131 ATAAATCATATAATGAACCTAAAATAATTTTGTAATTAGAAATCGAGCCGAGGCCCTCTGGATGT
5110964 CGCATCTGAGTCTTAAATTGATAGGTTATCTGTAATGATGAAAATTAAAGGGAGAGTAAGCTGTG
196 CGCATCTGAGTCTTAAATTGATAGGTTATCTGTAATGATGAAAATTAAAGGGAGAGTAAGCTGTG
5111029 ACGCTCAGTGTGAATTCCATCACATGAATCAGTGCCAAATAATAATCCAAGCATCACATGAATCA
261 ACGCTCAGTGTGAATTCCATCACATGAATCAGTGCCAAATAATAATCCAAGCATCACATGAATCA
5111094 CATGAA
326 CATGAA
5111100 TTTCATGCATAGCTTATTAATAATCATCTATTATTATCCTGAATAAATTAAGTGTAATACAAAAT
1 TTTCATGCATAGCTTATTAATAATCATCTATTATTATCCTGAATAAATTAAGTGTAATACAAAAT
*
5111165 AAAATCAAAACCTTAAGTCCTATGCCACAGTTTATAGTAAAATATTACAGTACTCGAATAACATA
66 AAAATCAAAACCTTAAGTCCTATGCCACAGTTTATAGTAAAATATTACAGTACTCGAATAATATA
5111230 ATAAATCATATAATGAACCTAAAATAATTTTGTAATTAGAAATCGAGCCGAGGCCCTCTGGATGT
131 ATAAATCATATAATGAACCTAAAATAATTTTGTAATTAGAAATCGAGCCGAGGCCCTCTGGATGT
5111295 CGCATCTGAGTCTTAAATTGATAGGTTATCTGTAATGATGAAAATTAAAGGGAGAGTAAGCTGTG
196 CGCATCTGAGTCTTAAATTGATAGGTTATCTGTAATGATGAAAATTAAAGGGAGAGTAAGCTGTG
5111360 ACGCTCAGTGTGAATTCCATCACATGAATCAGTGCCAAATAATAATCCAAGCAT
261 ACGCTCAGTGTGAATTCCATCACATGAATCAGTGCCAAATAATAATCCAAGCAT
5111414 ATGTAATAAC
Statistics
Matches: 641, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
331 641 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (331 bp):
TTTCATGCATAGCTTATTAATAATCATCTATTATTATCCTGAATAAATTAAGTGTAATACAAAAT
AAAATCAAAACCTTAAGTCCTATGCCACAGTTTATAGTAAAATATTACAGTACTCGAATAATATA
ATAAATCATATAATGAACCTAAAATAATTTTGTAATTAGAAATCGAGCCGAGGCCCTCTGGATGT
CGCATCTGAGTCTTAAATTGATAGGTTATCTGTAATGATGAAAATTAAAGGGAGAGTAAGCTGTG
ACGCTCAGTGTGAATTCCATCACATGAATCAGTGCCAAATAATAATCCAAGCATCACATGAATCA
CATGAA
Found at i:5111766 original size:91 final size:90
Alignment explanation
Indices: 5111604--5111797 Score: 268
Period size: 91 Copynumber: 2.2 Consensus size: 90
5111594 ACACTTTATA
* * *
5111604 TTGTGGATAAACCACAAGTGTTGTAGGTTAATATGTTGTTAGTATTTGTGAATACACAACGGGTT
1 TTGTGGATAAACCACAAATGTTGTAGGTTAATATGTTGCTAGTAGTTGTGAATACACAACGGGTT
* *
5111669 TGCAGAT-AATAGTTGCCAGTATAAG
66 TACAGATGAA-AGCTGCCAGTATAAG
* *
5111694 TTGTGGATATACCACAAATGCTTGTAGGTTAATATGTTGCTAGTAGTTGTGAATACACAACGGTT
1 TTGTGGATAAACCACAAATG-TTGTAGGTTAATATGTTGCTAGTAGTTGTGAATACACAACGGGT
*
5111759 TTACAGATGAAAGCTGCCAG--TAAT
65 TTACAGATGAAAGCTGCCAGTATAAG
*
5111783 TTATGGATAAACCAC
1 TTGTGGATAAACCAC
5111798 TAGTGTTTGT
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
89 16 0.17
90 18 0.20
91 56 0.61
92 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (90 bp):
TTGTGGATAAACCACAAATGTTGTAGGTTAATATGTTGCTAGTAGTTGTGAATACACAACGGGTT
TACAGATGAAAGCTGCCAGTATAAG
Found at i:5114187 original size:9 final size:8
Alignment explanation
Indices: 5114171--5114209 Score: 51
Period size: 9 Copynumber: 4.5 Consensus size: 8
5114161 GGTGAAAAAA
5114171 AAAAGAAG
1 AAAAGAAG
5114179 AAGAAGAAG
1 AA-AAGAAG
5114188 AAAAAGAAG
1 -AAAAGAAG
5114197 AAAAGAGAG
1 AAAAGA-AG
5114206 AAAA
1 AAAA
5114210 ATAACACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.29
9 18 0.64
10 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (8 bp):
AAAAGAAG
Found at i:5114193 original size:18 final size:18
Alignment explanation
Indices: 5114170--5114210 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
5114160 TGGTGAAAAA
5114170 AAAAAGAAGAAGAAGA-AG
1 AAAAAGAAGAA-AAGAGAG
5114188 AAAAAGAAGAAAAGAGAG
1 AAAAAGAAGAAAAGAGAG
5114206 AAAAA
1 AAAAA
5114211 TAACACAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAAGAAGAAAAGAGAG
Found at i:5114641 original size:21 final size:21
Alignment explanation
Indices: 5114617--5114656 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5114607 CAAAACAACG
*
5114617 TAGTTTTGCCTTTTAACTTAA
1 TAGTTTTGACTTTTAACTTAA
5114638 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
5114657 TAGATAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:5114998 original size:29 final size:29
Alignment explanation
Indices: 5114955--5115013 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
5114945 CAAAATTATT
5114955 ATTTTATAAAATTTTTTA-ATTTTCAAAAA
1 ATTTTAT-AAATTTTTTAGATTTTCAAAAA
* *
5114984 ATTTTATATATTTTTTAGATTTTTAAAAA
1 ATTTTATAAATTTTTTAGATTTTCAAAAA
5115013 A
1 A
5115014 AAATCATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
ATTTTATAAATTTTTTAGATTTTCAAAAA
Found at i:5115063 original size:11 final size:9
Alignment explanation
Indices: 5115041--5115097 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
5115031 AAATACAAAA
5115041 TTTAAAATT
1 TTTAAAATT
5115050 TTTATAAATAT
1 TTTA-AAAT-T
5115061 TTT-AAATT
1 TTTAAAATT
*
5115069 TTAAAAATT
1 TTTAAAATT
*
5115078 ATTTTAAATT
1 -TTTAAAATT
*
5115088 TTTGAAATT
1 TTTAAAATT
5115097 T
1 T
5115098 ATTTTGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 3 0.08
9 22 0.55
10 11 0.28
11 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (9 bp):
TTTAAAATT
Found at i:5115067 original size:19 final size:20
Alignment explanation
Indices: 5115040--5115102 Score: 76
Period size: 19 Copynumber: 3.2 Consensus size: 20
5115030 AAAATACAAA
* *
5115040 ATTTAAAATTTTTATAAA-T
1 ATTTTAAATTTTTAAAAATT
5115059 ATTTTAAA-TTTTAAAAATT
1 ATTTTAAATTTTTAAAAATT
* *
5115078 ATTTTAAATTTTTGAAATTT
1 ATTTTAAATTTTTAAAAATT
5115098 ATTTT
1 ATTTT
5115103 GATTTTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.21
19 16 0.42
20 14 0.37
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTTAAATTTTTAAAAATT
Found at i:5115075 original size:28 final size:28
Alignment explanation
Indices: 5115044--5115097 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
5115034 TACAAAATTT
5115044 AAAATT-TTTATAAATATTTT-AAATTTTA
1 AAAATTATTT-TAAAT-TTTTGAAATTTTA
5115072 AAAATTATTTTAAATTTTTGAAATTT
1 AAAATTATTTTAAATTTTTGAAATTT
5115098 ATTTTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 4 0.17
28 17 0.71
29 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
AAAATTATTTTAAATTTTTGAAATTTTA
Found at i:5115641 original size:7 final size:7
Alignment explanation
Indices: 5115629--5115660 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
5115619 CTATAAATAA
5115629 ATTAATT
1 ATTAATT
5115636 ATTAATT
1 ATTAATT
5115643 ATTAATT
1 ATTAATT
5115650 ATTAA-T
1 ATTAATT
5115656 ATTAA
1 ATTAA
5115661 AAATTTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
ATTAATT
Found at i:5123788 original size:19 final size:20
Alignment explanation
Indices: 5123766--5123819 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
5123756 AACACTAAGA
5123766 ATAAAGTA-AAATTAATTA-T
1 ATAAAGTATAAA-TAATTATT
*
5123785 ATAAATTATAAATAATTATT
1 ATAAAGTATAAATAATTATT
**
5123805 ATAAAAAATAAATAA
1 ATAAAGTATAAATAA
5123820 AAAATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
ATAAAGTATAAATAATTATT
Found at i:5123849 original size:19 final size:19
Alignment explanation
Indices: 5123816--5123862 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
5123806 TAAAAAATAA
5123816 ATAAAA-AATTTATATTAAT
1 ATAAAATAA-TTATATTAAT
*
5123835 ATTAAATAATTATATTAAT
1 ATAAAATAATTATATTAAT
5123854 ATAAAATAA
1 ATAAAATAA
5123863 AATAAAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 23 0.92
20 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAAATAATTATATTAAT
Found at i:5123865 original size:24 final size:24
Alignment explanation
Indices: 5123775--5123867 Score: 60
Period size: 19 Copynumber: 4.1 Consensus size: 24
5123765 AATAAAGTAA
*
5123775 AATTA-ATT-ATATAAATTATAAAT
1 AATTATATTAATATAAAATA-AAAT
* *
5123798 AATTAT-TATAAAAAATAAATAAAA-
1 AATTATAT-TAATATA-AAATAAAAT
5123822 AATTTATATTAATAT----T-AAAT
1 AA-TTATATTAATATAAAATAAAAT
5123842 AATTATATTAATATAAAATAAAAT
1 AATTATATTAATATAAAATAAAAT
5123866 AA
1 AA
5123868 AACCCTCTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 23
0.65 0.06 0.28
Matches are distributed among these distances:
19 15 0.28
20 3 0.06
23 7 0.13
24 9 0.17
25 14 0.26
26 5 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AATTATATTAATATAAAATAAAAT
Found at i:5125572 original size:98 final size:98
Alignment explanation
Indices: 5125400--5125594 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
5125390 ACAATAAAAT
*
5125400 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
5125465 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
5125498 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
5125563 TTTAAAATCCCAAATTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
5125595 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:5126288 original size:25 final size:26
Alignment explanation
Indices: 5126258--5126307 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
5126248 ATATAAATAT
5126258 GAAAATATTC-ATTAAAAAAATATAG
1 GAAAATATTCGATTAAAAAAATATAG
* *
5126283 GAAAATATTCGTTTAAAAATATATA
1 GAAAATATTCGATTAAAAAAATATA
5126308 TATATATGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (26 bp):
GAAAATATTCGATTAAAAAAATATAG
Found at i:5126942 original size:19 final size:19
Alignment explanation
Indices: 5126918--5126992 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
5126908 AGTCATATCT
5126918 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
5126937 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
**
5126958 TCTAAGATTGTATATCATA
1 TCTAAGATTACATATCATA
*
5126977 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
5126993 CTCAAAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:5126955 original size:21 final size:21
Alignment explanation
Indices: 5126929--5126991 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
5126919 CTAAGATTAC
5126929 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
5126950 ATATCATATCTAAGATTG--T
1 ATATCATATCTAAGATTGCAT
5126969 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
5126990 AT
1 AT
5126992 CCTCAAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:5127756 original size:35 final size:35
Alignment explanation
Indices: 5127670--5127762 Score: 123
Period size: 35 Copynumber: 2.6 Consensus size: 35
5127660 AGTACATCGA
*
5127670 CAATCTAACCAAAACACACCAGATGTTCATAAGAGC
1 CAATCTAACCAAAACACACCA-ATGCTCATAAGAGC
* * *
5127706 CAATCCATCCGAAACACACCAATGCTCATAAGAGC
1 CAATCTAACCAAAACACACCAATGCTCATAAGAGC
* *
5127741 TAGTCTAACCAAAACACACCAA
1 CAATCTAACCAAAACACACCAA
5127763 AATAGAGAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
35 30 0.62
36 18 0.38
ACGTcount: A:0.44, C:0.31, G:0.10, T:0.15
Consensus pattern (35 bp):
CAATCTAACCAAAACACACCAATGCTCATAAGAGC
Found at i:5134050 original size:19 final size:19
Alignment explanation
Indices: 5134026--5134064 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
5134016 CTCAAATGTG
5134026 ATAGTGGTTGAATCAATTT
1 ATAGTGGTTGAATCAATTT
*
5134045 ATAGTGGTTGAATCAGTTT
1 ATAGTGGTTGAATCAATTT
5134064 A
1 A
5134065 GTTCTAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (19 bp):
ATAGTGGTTGAATCAATTT
Found at i:5136447 original size:18 final size:18
Alignment explanation
Indices: 5136426--5136460 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5136416 CAAAATTAAT
5136426 ATAAATAAATAAATATGC
1 ATAAATAAATAAATATGC
* *
5136444 ATAATTATATAAATATG
1 ATAAATAAATAAATATG
5136461 AGAAAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (18 bp):
ATAAATAAATAAATATGC
Found at i:5137988 original size:44 final size:45
Alignment explanation
Indices: 5137940--5138914 Score: 152
Period size: 44 Copynumber: 22.1 Consensus size: 45
5137930 CTGTAACCAC
*
5137940 AGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTGCTGCT-T
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCTGCTAT
* * * * * * *
5137984 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTG-TCT
1 AGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTGCTGCTAT
* * * **** * * * *
5138028 AGGGAAGTAGAAT-TATTGGCTTCAATGTACTCCACT-ATAACTAC
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCT-GCTAT
* * *
5138072 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTGCTGCT-T
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCTGCTAT
* * * * * * *
5138116 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTG-TCT
1 AGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTGCTGCTAT
* * * **** * * * *
5138160 AGGGAAGTAGAAT-TATTGGCTTCAATGTACTCCACT-ATAACTAC
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCT-GCTAT
* * *
5138204 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTGCTGCT-T
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCTGCTAT
* * * * * * **
5138248 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTG-TCC
1 AGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTGCTGCTAT
* * * *** * * * * *
5138292 AGGGAAGTAGAAT-TACTGGCTACAATGTACTCCAC--CATAACCAC
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGC-T-GCTAT
* * * * *
5138336 AGGGAGGTAAAATCCGCCATCTTCGATCCTGCTCCACTACTACT-T
1 AGGGAGGTAAAATCCACCATCTTCAAT-CTACTCCACTGCTGCTAT
* * * * * * **
5138381 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTG-TCC
1 AGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTGCTGCTAT
* * * * *** * * *
5138425 AGGAAAGTAGAAT-TACTGGCTTCAATGTACTCCACT-ATAACTAT
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCT-GCTAT
* * * *
5138469 AGGGAGGTAAAATCCACCATCTTCGATCTGCTTCACTACTGCT-T
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCTGCTAT
* * * * * * **
5138513 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTG-TCC
1 AGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTGCTGCTAT
* * * * *** * * *
5138557 AGGAAAGTAGAAT-TACTGGCTTCAATGTACTCCACT-ATAACTAT
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCT-GCTAT
* * * *
5138601 AGGGAGGTAAAATCCACCATCTTCGATCTGCTTCACTACTGCT-T
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCTGCTAT
* * * * * * **
5138645 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTG-TCC
1 AGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTGCTGCTAT
* * * * *** * * *
5138689 AGGAAAGTAGAAT-TACTGGCTTCAATGTACTCCACT-ATAACTAT
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCT-GCTAT
* * * *
5138733 AGGGAGGTAAAATCCACCATCTTCGATCTGCTTCACTACTGCT-T
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCTGCTAT
* * * * * * * **
5138777 AGGGAGATAAGATCTGA-AATCTTTAATCTATTCCACTGTTG-TCC
1 AGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTGCTGCTAT
* * * *** * * *
5138821 AGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACT-ATAACTAT
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCT-GCTAT
* * * *
5138865 AGGGAGGTAAAATCCACCATCTTCGATCTGCTTCACTACTGCT-T
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCTGCTAT
5138909 AGGGAG
1 AGGGAG
5138915 ATAAGATCTG
Statistics
Matches: 612, Mismatches: 267, Indels: 104
0.62 0.27 0.11
Matches are distributed among these distances:
42 14 0.02
43 109 0.18
44 342 0.56
45 130 0.21
46 15 0.02
47 1 0.00
48 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTGCTGCTAT
Found at i:5138032 original size:132 final size:132
Alignment explanation
Indices: 5137830--5139028 Score: 1920
Period size: 132 Copynumber: 9.1 Consensus size: 132
5137820 GGAACTAGTG
* * ** * * * * *
5137830 CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGA-CT--TATCTTTAACCTATTTCACTGCT
1 CTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
* * * * * *
5137892 GACCAGGG-AGATAGGATTGCTGGCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCCA
65 GTCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCCA
5137956 CCAT
129 CCAT
* *
5137960 CTTCGATCTACTCCACTGCTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
* * *
5138025 TCTAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCCGCC
66 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCCACC
5138090 AT
131 AT
*
5138092 CTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
* * *
5138157 TCTAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCCGCC
66 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCCACC
5138222 AT
131 AT
*
5138224 CTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
* * * *
5138289 TCCAGGGAAGTAGAATTACTGGCTACAATGTACTCCACCATAACCACAGGGAGGTAAAATCCGCC
66 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCCACC
5138354 AT
131 AT
*
5138356 CTTCGATCCTGCTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
1 CTTCGAT-CTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
* *
5138421 GTCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTATAGGGAGGTAAAATCCAC
65 GTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCCAC
5138486 CAT
130 CAT
*
5138489 CTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
* *
5138554 TCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTATAGGGAGGTAAAATCCACC
66 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCCACC
5138619 AT
131 AT
*
5138621 CTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
* *
5138686 TCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTATAGGGAGGTAAAATCCACC
66 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCCACC
5138751 AT
131 AT
* *
5138753 CTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
*
5138818 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTATAGGGAGGTAAAATCCACC
66 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCCACC
5138883 AT
131 AT
* *
5138885 CTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
* * *
5138950 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCC
66 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCCACC
5139015 AT
131 AT
*
5139017 CTTCGACCTGCT
1 CTTCGATCTGCT
5139029 TCGCTGTCGA
Statistics
Matches: 1023, Mismatches: 41, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
129 12 0.01
130 22 0.02
132 863 0.84
133 126 0.12
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (132 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCCACC
AT
Found at i:5140674 original size:40 final size:39
Alignment explanation
Indices: 5140609--5140817 Score: 305
Period size: 38 Copynumber: 5.4 Consensus size: 39
5140599 AAATTAAAAC
5140609 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
* * *
5140648 AAAAATT-TAAAAAGTATTTTAAAAAAATTTAAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATT-A
5140687 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
* * *
5140726 AAAAATT-TAAAAAGTATTTTAAAAAAATTTAAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATT-A
* *
5140765 AAAAATTAAAAAAAGTATTTTAAAAGTATTTTAAAAATA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
*
5140804 AAAAAATAAAAAAA
1 AAAAATTAAAAAAA
5140818 TTTATTATAT
Statistics
Matches: 151, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
38 54 0.36
39 45 0.30
40 52 0.34
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (39 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:5140816 original size:78 final size:78
Alignment explanation
Indices: 5140609--5140808 Score: 382
Period size: 78 Copynumber: 2.6 Consensus size: 78
5140599 AAATTAAAAC
5140609 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATTTAAAAAGTATTTTAAAAAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATTTAAAAAGTATTTTAAAAAA
5140674 ATTTAAAAATTAA
66 ATTTAAAAATTAA
5140687 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATTTAAAAAGTATTTTAAAAAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATTTAAAAAGTATTTTAAAAAA
5140752 ATTTAAAAATTAA
66 ATTTAAAAATTAA
* *
5140765 AAAAATTAAAAAAAGTATTTTAAAAGTATTTTAAAAATAAAAAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
5140809 ATAAAAAAAT
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 120 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (78 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATTTAAAAAGTATTTTAAAAAA
ATTTAAAAATTAA
Found at i:5143732 original size:41 final size:41
Alignment explanation
Indices: 5143681--5143863 Score: 165
Period size: 41 Copynumber: 4.5 Consensus size: 41
5143671 TTTAAACAGA
* **
5143681 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCAG
1 TTCACCGGCACTT-AGCCTGATAGGCTTATAGCCTAATTCAG
* * *
5143722 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGATAGGCTTATAGCCTAATTCAG
* * * * *
5143763 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGATAGGCTTATAG-CCTAATTCAG
* * * * * *
5143804 TTCACCGGCATTTAGCCTGCTAGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGATAGGCTTATAG-CCTAATTCAG
5143845 TTCACCGGCACTTAGCCTG
1 TTCACCGGCACTTAGCCTG
5143864 CTAGACGTAT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 125 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGATAGGCTTATAGCCTAATTCAG
Found at i:5143890 original size:41 final size:41
Alignment explanation
Indices: 5143716--5143877 Score: 254
Period size: 41 Copynumber: 4.0 Consensus size: 41
5143706 TTATAGTTTA
* * * *
5143716 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTGTAG-CCTG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-G
*
5143757 ATTCAGTTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
*
5143798 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
5143839 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
5143878 TGAATAATTT
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 112 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
Found at i:5143890 original size:82 final size:82
Alignment explanation
Indices: 5143722--5143895 Score: 244
Period size: 82 Copynumber: 2.1 Consensus size: 82
5143712 TTTAATTCAG
* * * *
5143722 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAATTCACCGGCACTTAGCCTGCTAGA
*
5143787 CGTATAGTCCGATTCAA
66 CGTATAGTCCGAATCAA
*
5143804 TTCACCGGCATTTAGCCTGCTAGACGTATAGTCC-GATTCAATTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAG-CCTGATTCAATTCACCGGCACTTAGCCTGCTAG
*
5143868 ACGTATAGTCTGAAT-AA
65 ACGTATAGTCCGAATCAA
*
5143885 TTTCACTGGCA
1 -TTCACCGGCA
5143896 ATAAATCCGA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
81 2 0.02
82 78 0.95
83 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (82 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAATTCACCGGCACTTAGCCTGCTAGA
CGTATAGTCCGAATCAA
Found at i:5145547 original size:13 final size:13
Alignment explanation
Indices: 5145529--5145553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5145519 CAATCAAATG
5145529 CACACAAAATAAA
1 CACACAAAATAAA
5145542 CACACAAAATAA
1 CACACAAAATAA
5145554 TATTAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Done.