Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold488
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: 2093548
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 8 of 14
Found at i:1049330 original size:222 final size:222
Alignment explanation
Indices: 1048944--1049377 Score: 823
Period size: 222 Copynumber: 2.0 Consensus size: 222
1048934 ATACCTTCTT
1048944 AAAGTCCACGACTCAGTGGCATCTTTTTTCTCAAAGCCCACGACTCAGTGGCATCTTTCCTTCAA
1 AAAGTCCACGACTCAGTGGCATCTTTTTTCTCAAAGCCCACGACTCAGTGGCATCTTTCCTTCAA
1049009 AGTCCACGACTCCGTGGCATCCTTGTTCTTTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTC
66 AGTCCACGACTCCGTGGCATCCTTGTTCTTTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTC
1049074 AAGTCCACGACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTTAAG
131 AAGTCCACGACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTTAAG
1049139 TCCACGACTCAGTGGCAATCTCTTCCC
196 TCCACGACTCAGTGGCAATCTCTTCCC
*
1049166 AAAGTCCACGGCTCAGTGGCATCTTTTTTCTCAAAGCCCACGACTCAGTGGCATCTTTCCTTCAA
1 AAAGTCCACGACTCAGTGGCATCTTTTTTCTCAAAGCCCACGACTCAGTGGCATCTTTCCTTCAA
* *
1049231 AGTCCACGACTCCGTGGCATCCTTGTTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTTC
66 AGTCCACGACTCCGTGGCATCCTTGTTCTTTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTC
*
1049296 AAGTCCATGACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTTAAG
131 AAGTCCACGACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTTAAG
*
1049361 TCCACGACTCTGTGGCA
196 TCCACGACTCAGTGGCA
1049378 CCCTTTTAAG
Statistics
Matches: 207, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
222 207 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.31
Consensus pattern (222 bp):
AAAGTCCACGACTCAGTGGCATCTTTTTTCTCAAAGCCCACGACTCAGTGGCATCTTTCCTTCAA
AGTCCACGACTCCGTGGCATCCTTGTTCTTTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTC
AAGTCCACGACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTTAAG
TCCACGACTCAGTGGCAATCTCTTCCC
Found at i:1049335 original size:27 final size:27
Alignment explanation
Indices: 1049305--1049473 Score: 122
Period size: 27 Copynumber: 5.7 Consensus size: 27
1049295 CAAGTCCATG
*
1049305 ACTCTGTGGCACCCTTTTAAGCCCACA
1 ACTCCGTGGCACCCTTTTAAGCCCACA
* *
1049332 ACTCCGTGGCACTCTTTTTCCTTCTTAAGTCCACG
1 ACTCCGTGGCA--C-----CCTT-TTAAGCCCACA
*
1049367 ACTCTGTGGCACCCTTTTAAGCCCACA
1 ACTCCGTGGCACCCTTTTAAGCCCACA
* *
1049394 ACTCCGTGGCACTCTTTTTTCTTTTTAAGTCCACG
1 ACTCCGTGGCAC-C------C-TTTTAAGCCCACA
1049429 ACTCCGTGGCACCCTTTTAAGCCCACA
1 ACTCCGTGGCACCCTTTTAAGCCCACA
* *
1049456 ACTTCGTGGCACTCTTTT
1 ACTCCGTGGCACCCTTTT
1049474 TCCTTCTAAG
Statistics
Matches: 113, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
27 57 0.50
28 6 0.05
29 1 0.01
33 1 0.01
34 6 0.05
35 42 0.37
ACGTcount: A:0.18, C:0.34, G:0.15, T:0.33
Consensus pattern (27 bp):
ACTCCGTGGCACCCTTTTAAGCCCACA
Found at i:1049370 original size:62 final size:62
Alignment explanation
Indices: 1049268--1049507 Score: 362
Period size: 62 Copynumber: 3.9 Consensus size: 62
1049258 TTTTCAAAGT
* * * *
1049268 CCACGACTCAGTGGCA-TCTTTTT-CTT-TCAAGTCCATGACTCTGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTTAAGTCCACGACTCTGTGGCACCCTTTTAAGC
1049327 CCACAACTCCGTGGCACTCTTTTTCCTTCTTAAGTCCACGACTCTGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTTAAGTCCACGACTCTGTGGCACCCTTTTAAGC
* * *
1049389 CCACAACTCCGTGGCACTCTTTTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTTAAGTCCACGACTCTGTGGCACCCTTTTAAGC
* * *
1049451 CCACAACTTCGTGGCACTCTTTTTCCTTC-TAAGTCCACAACTCTGTGGCACCTTTTT
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTTAAGTCCACGACTCTGTGGCACCCTTTT
1049508 CCATTTTAAG
Statistics
Matches: 165, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
59 14 0.08
60 7 0.04
61 28 0.17
62 116 0.70
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.34
Consensus pattern (62 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTCTTAAGTCCACGACTCTGTGGCACCCTTTTAAGC
Found at i:1049418 original size:34 final size:34
Alignment explanation
Indices: 1049379--1049547 Score: 167
Period size: 34 Copynumber: 5.2 Consensus size: 34
1049369 TCTGTGGCAC
*
1049379 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTC-TTTTT
* *
1049414 CTTTTTAAGTCCACGACTCCGTGGCA--C-----
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
* *
1049441 CCTTTTAAGCCCACAACTTCGTGGCACTCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
* *
1049475 CCTTCTAAGTCCACAACTCTGTGGCAC-CTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
* * *
1049508 CCATTTTAAGTCCATAACTCCATGGCA-TCTTTCT
1 CC-TTTTAAGTCCACAACTCCGTGGCACTCTTTTT
1049542 CCTTTT
1 CCTTTT
1049548 CAAAAGCCCA
Statistics
Matches: 109, Mismatches: 16, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
27 22 0.20
29 1 0.01
33 13 0.12
34 50 0.46
35 23 0.21
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.37
Consensus pattern (34 bp):
CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
Found at i:1049440 original size:97 final size:96
Alignment explanation
Indices: 1048945--1049439 Score: 386
Period size: 97 Copynumber: 5.2 Consensus size: 96
1048935 TACCTTCTTA
* * **
1048945 AAGTCCACGACTCAGTGGCATCTTTTTTC-TCAAAGCCCACGACTCAGTGGCATCTTTCCTTCAA
1 AAGTCCACGACTCAGTGGCATCTTTTTCCTTCAAAGTCCACGACTCAGTGGCATC--TCCTTTTA
* * **
1049009 AGTCCACGACTCCGTGGCA-TCCTTGTTCTTTCA
64 AGCCCACGACTCCGTGGCACT-CTTTTTCTTTTT
*
1049042 AAGTCCACGACTCAGTGGCATC-TTTTCCTTTC-AAGTCCACGACTCTGTGGCA-C-CCTTTTAA
1 AAGTCCACGACTCAGTGGCATCTTTTTCC-TTCAAAGTCCACGACTCAGTGGCATCTCCTTTTAA
* *
1049103 GCCCACAACTCCGTGGCACTCTTTTTCCTTCTT
65 GCCCACGACTCCGTGGCACTCTTTTT-CTTTTT
* * **
1049136 AAGTCCACGACTCAGTGGCAATC-TCTTCC--CAAAGTCCACGGCTCAGTGGCATCTTTTTTCTC
1 AAGTCCACGACTCAGTGGC-ATCTTTTTCCTTCAAAGTCCACGACTCAGTGGCATCTCCTTT-T-
* * **
1049198 AAAGCCCACGACTCAGTGGCA-TC--TTTCCTTCA
63 -AAGCCCACGACTCCGTGGCACTCTTTTTCTTTTT
* * *
1049230 AAGTCCACGACTCCGTGGCATCCTTGTTT-TTTCAAAGTCCACGACTCAGTGGCATCTTTTTCTT
1 AAGTCCACGACTCAGTGGCAT-CTT-TTTCCTTCAAAGTCCACGACTCAGTGGCATC---TCCTT
* * * *
1049294 TCAAGTCCATGACTCTGTGGCAC-C-----C-TTTT
61 TTAAGCCCACGACTCCGTGGCACTCTTTTTCTTTTT
* * * * *
1049323 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTTAAGTCCACGACTCTGTGGCA-C-CCTTTTA
1 AAGTCCACGACTCAGTGGCA-TCTTTTTCCTTC-AAAGTCCACGACTCAGTGGCATCTCCTTTTA
*
1049386 AGCCCACAACTCCGTGGCACTCTTTTTTCTTTTT
64 AGCCCACGACTCCGTGGCACTC-TTTTTCTTTTT
*
1049420 AAGTCCACGACTCCGTGGCA
1 AAGTCCACGACTCAGTGGCA
1049440 CCCTTTTAAG
Statistics
Matches: 321, Mismatches: 46, Indels: 62
0.75 0.11 0.14
Matches are distributed among these distances:
89 21 0.07
90 1 0.00
92 4 0.01
93 74 0.23
94 66 0.21
95 15 0.05
96 10 0.03
97 105 0.33
98 20 0.06
100 5 0.02
ACGTcount: A:0.20, C:0.33, G:0.16, T:0.32
Consensus pattern (96 bp):
AAGTCCACGACTCAGTGGCATCTTTTTCCTTCAAAGTCCACGACTCAGTGGCATCTCCTTTTAAG
CCCACGACTCCGTGGCACTCTTTTTCTTTTT
Found at i:1049751 original size:97 final size:97
Alignment explanation
Indices: 1049579--1050551 Score: 1703
Period size: 97 Copynumber: 10.0 Consensus size: 97
1049569 GGCATCTTCT
* * * * *
1049579 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGACACTTCCACCTTTAAGTCCAATATAG
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT-CACCTTTAAGTCCAATATAG
*
1049644 CTGGCCTTGAATCAACATATTGGCACCTTCATC
65 CTGGCCTTGAATCAGCATATTGGCACCTTCATC
1049677 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
*
1049742 TGGCCTTGAATCAGCATATTAGCACCTTCATC
66 TGGCCTTGAATCAGCATATTGGCACCTTCATC
1049774 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
*
1049839 TGGCCTTGAATCAGCATATTAGCACCTTCATC
66 TGGCCTTGAATCAGCATATTGGCACCTTCATC
*
1049871 TTTAAGTCCAATGTAGCTGGCCTTAAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
1049936 TGGCCTTGAATCAGCATATTGGCACCTTCATC
66 TGGCCTTGAATCAGCATATTGGCACCTTCATC
*
1049968 TTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTCACCTTTAAGTCCAATATAGC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
1050033 TGGCCTTGAATCAGCATATTGGCACCTTCATC
66 TGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
1050065 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAGTGGCACCTCACTTTTAAGTCCAATATAAC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
1050130 TGGCCTTGAATCAGCATATTGGCACCTTCATC
66 TGGCCTTGAATCAGCATATTGGCACCTTCATC
1050162 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
1050227 TGGCCTTGAATCAGCATATTGGCACCTTCATC
66 TGGCCTTGAATCAGCATATTGGCACCTTCATC
*
1050259 TTTAAGTCCAATGTAGCTGGCCTTAAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
1050324 TGGCCTTGGAATCAGCATATTGGCACCTTCATC
66 TGGCCTT-GAATCAGCATATTGGCACCTTCATC
1050357 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
* *
1050422 TGGCCATGAATCAGCATATTGGCACCTTTATC
66 TGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
1050454 TTTCAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGTCACCTTCATCTTTAAGTCCAATATTG
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATATAG
* **
1050519 CTGGCCTTGACTCAGCATATTGGTGCCTTCATC
65 CTGGCCTTGAATCAGCATATTGGCACCTTCATC
1050552 ATTTTTAAAA
Statistics
Matches: 841, Mismatches: 32, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
97 660 0.78
98 181 0.22
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (97 bp):
TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
TGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:1050548 original size:49 final size:49
Alignment explanation
Indices: 1049579--1050551 Score: 1444
Period size: 49 Copynumber: 20.0 Consensus size: 49
1049569 GGCATCTTCT
* * *
1049579 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGACA-CTTCCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-CATC
*
1049628 TTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
1049677 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
1049725 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
1049774 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
1049822 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
1049871 TTTAAGTCCAATGTAGCTGGCCTTAAATCAGCACATTGGCACC-TCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1049919 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
1049968 TTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACC-TCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1050016 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
1050065 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAGTGGCACC-TCA-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
1050112 TTTTAAGTCCAATATAACTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
1050162 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1050210 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
1050259 TTTAAGTCCAATGTAGCTGGCCTTAAATCAGCACATTGGCACC-TCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1050307 TTTAAGTCCAATATAGCTGGCCTTGGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTT-GAATCAGCATATTGGCACCTTCATC
* * *
1050357 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
1050405 TTTAAGTCCAATATAGCTGGCCATGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
1050454 TTTCAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGTCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * **
1050503 TTTAAGTCCAATATTGCTGGCCTTGACTCAGCATATTGGTGCCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1050552 ATTTTTAAAA
Statistics
Matches: 831, Mismatches: 81, Indels: 24
0.89 0.09 0.03
Matches are distributed among these distances:
47 1 0.00
48 334 0.40
49 465 0.56
50 31 0.04
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:1051369 original size:19 final size:19
Alignment explanation
Indices: 1051345--1051410 Score: 90
Period size: 19 Copynumber: 3.8 Consensus size: 19
1051335 TGTCAACGAT
1051345 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1051364 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
1051378 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1051396 TTGTATCGATACATA
1 TTGTATCGATACATA
1051411 TTAAGCTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
17 2 0.05
19 26 0.63
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1051382 original size:32 final size:32
Alignment explanation
Indices: 1051346--1051408 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
1051336 GTCAACGATT
1051346 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1051378 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
1051409 TATTAAGCTA
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:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1051383 original size:13 final size:13
Alignment explanation
Indices: 1051365--1051389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1051355 ACATAAGTGT
1051365 TGTATCGATACAA
1 TGTATCGATACAA
1051378 TGTATCGATACA
1 TGTATCGATACA
1051390 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1051468 original size:13 final size:13
Alignment explanation
Indices: 1051450--1051476 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1051440 ACATTACTTA
1051450 ATTGTATCGATAC
1 ATTGTATCGATAC
1051463 ATTGTATCGATAC
1 ATTGTATCGATAC
1051476 A
1 A
1051477 CTGATTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:1051525 original size:52 final size:52
Alignment explanation
Indices: 1051485--1051610 Score: 198
Period size: 52 Copynumber: 2.4 Consensus size: 52
1051475 CACTGATTTT
* * *
1051485 TGTATCGATGCATGCAGGCGAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
1051537 TGTATCAATACATTCAGGCAAATTTGCCCGGATGTATCGATACACTATGAAA
1 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
1051589 TGTATCGATACATGCAGGCAAA
1 TGTATCAATACATGCAGGCAAA
1051611 ATTTCATATT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (52 bp):
TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1055378 original size:19 final size:20
Alignment explanation
Indices: 1055335--1055385 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1055325 TACAAGCCAA
**
1055335 TGTATCGATACATTTTATGG
1 TGTATCGATACATACTATGG
*
1055355 TGTATCGATACATACTGT-G
1 TGTATCGATACATACTATGG
1055374 TGTATCGATACA
1 TGTATCGATACA
1055386 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTATGG
Found at i:1055482 original size:20 final size:20
Alignment explanation
Indices: 1055440--1055489 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1055430 TGTTTTTCAA
*
1055440 GTATCGATACAATGCAACAT
1 GTATCGATACAATGAAACAT
* **
1055460 GTATCGATACAATTAAATGT
1 GTATCGATACAATGAAACAT
1055480 GTATCGATAC
1 GTATCGATAC
1055490 TTTTTAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATGAAACAT
Found at i:1057178 original size:168 final size:164
Alignment explanation
Indices: 1056813--1057327 Score: 511
Period size: 168 Copynumber: 3.1 Consensus size: 164
1056803 AAAGTAAATT
* * * * ** * * *
1056813 AATTTTTTAAAACTGAATTAATATG-AATCAAATAATGATGTTTGATGAATTTTAACAATTGAAA
1 AATTTTTGAAAACTAAATTAATATGAAAT-AAATGATAAAATTTGAT-AAATTTAAAAAATGAAA
* * * * * * *
1056877 ACTGAGAAAGATCTCCTCGAAAAAATTTACGGAGTAGAAAATATCGTATTCCGAATAAAAAAGAA
64 ACCGAGAAAAATCTCTTCGAAAAAATTTACGGAGTAGAAAATACCGTATTTC--AGAAAAAAGAG
* * * * *
1056942 GTTTCAAGAAAAAAATTAAAAA-TGAATGAAAATGAATG
127 GTTTTAAGGAAAAAATAAAAAACT-CATAAAAATGAATG
* * * * *
1056980 AATTTTTGAAAACTTAATTATTATGAAATAAATGGTAAAATTTGGTGAATTTTACAAAAAAATGA
1 AATTTTTGAAAACTAAATTAATATGAAATAAATGATAAAATTTGAT-AAATTT---AAAAAATGA
* * *
1057045 AAACCGAGAAAAATCTTTTCGAAAAAATATACGGAGTAGAAAATACCGTATTTCAGAAAAATG-G
62 AAACCGAGAAAAATCTCTTCGAAAAAATTTACGGAGTAGAAAATACCGTATTTCAGAAAAAAGAG
*
1057109 GTTTTAAGGAAAAGAATCAAAAACTCATAAAAATGAATG
127 GTTTTAAGGAAAA-AATAAAAAACTCATAAAAATGAATG
* * *
1057148 AGTTTTTGAAAACTAAATTAATATGAAATAAATGATAATATTTGATAAATTTAAAAAATTAAAAC
1 AATTTTTGAAAACTAAATTAATATGAAATAAATGATAAAATTTGATAAATTTAAAAAATGAAAAC
* *
1057213 CGAGAAAAATCCCCTT-GAAAAAATTTACGGAGTAGAAAGA-ACCGTATTTC-GAAAAAAGAGAA
66 CGAGAAAAAT-CTCTTCGAAAAAATTTACGGAGTAGAAA-ATACCGTATTTCAGAAAAAAGAG-G
* * *
1057275 ATTTAAGGGAAAAAATTAAAAAACTCATAAAGATGAATT
128 TTTTAA-GGAAAAAA-TAAAAAACTCATAAAAATGAATG
1057314 AATTTTTGAAAACT
1 AATTTTTGAAAACT
1057328 GATTCGATGA
Statistics
Matches: 292, Mismatches: 44, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
163 7 0.02
164 54 0.18
165 11 0.04
166 39 0.13
167 56 0.19
168 70 0.24
169 1 0.00
170 54 0.18
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (164 bp):
AATTTTTGAAAACTAAATTAATATGAAATAAATGATAAAATTTGATAAATTTAAAAAATGAAAAC
CGAGAAAAATCTCTTCGAAAAAATTTACGGAGTAGAAAATACCGTATTTCAGAAAAAAGAGGTTT
TAAGGAAAAAATAAAAAACTCATAAAAATGAATG
Found at i:1063358 original size:17 final size:18
Alignment explanation
Indices: 1063336--1063370 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
1063326 TTTAGAGATG
1063336 TAATTATATT-TTTATTT
1 TAATTATATTATTTATTT
1063353 TAATTATATTATTTATTT
1 TAATTATATTATTTATTT
1063371 ATTTATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TAATTATATTATTTATTT
Found at i:1063371 original size:17 final size:17
Alignment explanation
Indices: 1063336--1063388 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
1063326 TTTAGAGATG
1063336 TAATTATATT-TTTATTT
1 TAATTATATTATTTA-TT
1063353 TAATTATATTATTTATT
1 TAATTATATTATTTATT
*
1063370 T-ATT-TATTA-ATATT
1 TAATTATATTATTTATT
1063384 TAATT
1 TAATT
1063389 TGAAATATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.15
15 8 0.24
16 3 0.09
17 13 0.39
18 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TAATTATATTATTTATT
Found at i:1071786 original size:19 final size:19
Alignment explanation
Indices: 1071762--1071826 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
1071752 TAGCCAAACT
1071762 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
1071781 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
1071794 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
1071815 TGTATCGATACA
1 TGTATCGATACA
1071827 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:1071798 original size:13 final size:13
Alignment explanation
Indices: 1071780--1071805 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1071770 TACACAAAAT
1071780 ATGTATCGATACA
1 ATGTATCGATACA
1071793 ATGTATCGATACA
1 ATGTATCGATACA
1071806 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1071803 original size:32 final size:33
Alignment explanation
Indices: 1071762--1071826 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
1071752 TAGCCAAACT
1071762 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1071794 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1071827 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1074058 original size:21 final size:21
Alignment explanation
Indices: 1074025--1074074 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1074015 TTACAAGTTG
*
1074025 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1074047 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1074068 AAATAAA
1 AAATAAA
1074075 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1078015 original size:13 final size:13
Alignment explanation
Indices: 1077997--1078036 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
1077987 ATCGATGAAA
*
1077997 AATGTATCAATAC
1 AATGTATCGATAC
1078010 AATGTATCGATAC
1 AATGTATCGATAC
*
1078023 ACTGTATCGATAC
1 AATGTATCGATAC
1078036 A
1 A
1078037 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1078191 original size:20 final size:20
Alignment explanation
Indices: 1078148--1078193 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1078138 AAATCTTTTG
1078148 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1078169 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1078189 CAAAA
1 CAAAA
1078194 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1080579 original size:13 final size:13
Alignment explanation
Indices: 1080561--1080586 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1080551 TACACAAAAT
1080561 ATGTATCGATACA
1 ATGTATCGATACA
1080574 ATGTATCGATACA
1 ATGTATCGATACA
1080587 TAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1080584 original size:32 final size:33
Alignment explanation
Indices: 1080543--1080607 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
1080533 TAGCCAAACT
*
1080543 TGTATCGATAC-ACAAAATATGTATCGATACAA
1 TGTATCGATACAAAAAAATATGTATCGATACAA
1080575 TGTATCGATACATAAAAAATATGTATCGATACA
1 TGTATCGATACA-AAAAAATATGTATCGATACA
1080608 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 11 0.37
34 19 0.63
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAA
Found at i:1081961 original size:17 final size:16
Alignment explanation
Indices: 1081927--1081978 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
1081917 TTAGAGATGC
*
1081927 AATTATATTTTTATTTT
1 AATTATATTATTA-TTT
1081944 AATTATATTACTTATTT
1 AATTATATTA-TTATTT
*
1081961 -ATTA-ATTAATATTT
1 AATTATATTATTATTT
1081975 AATT
1 AATT
1081979 TGAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 4 0.13
17 12 0.39
18 3 0.10
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATATTATTATTT
Found at i:1084176 original size:14 final size:14
Alignment explanation
Indices: 1084139--1084187 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
1084129 TATTATTTTT
1084139 AATTT-ATTTTTAA
1 AATTTAATTTTTAA
**
1084152 AAAATATATTTTTAA
1 AATTTA-ATTTTTAA
1084167 AATTTAATTTTTAA
1 AATTTAATTTTTAA
1084181 TAATTTA
1 -AATTTA
1084188 GTATTTTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 3 0.10
14 8 0.28
15 18 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTTTTAA
Found at i:1084456 original size:22 final size:23
Alignment explanation
Indices: 1084417--1084461 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
1084407 TTTATTCAAA
*
1084417 TTTATTTATTAAACTT-AATATT
1 TTTATTTAATAAACTTAAATATT
**
1084439 TTTATTTAATAATTTTAAATATT
1 TTTATTTAATAAACTTAAATATT
1084462 AAATAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTATTTAATAAACTTAAATATT
Found at i:1085035 original size:18 final size:19
Alignment explanation
Indices: 1085014--1085052 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1085004 TTAATTTTAC
1085014 TAAATGAG-TTAAAATTTT
1 TAAATGAGATTAAAATTTT
*
1085032 TAAATTAGATTAAAATTTT
1 TAAATGAGATTAAAATTTT
1085051 TA
1 TA
1085053 GATTAGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (19 bp):
TAAATGAGATTAAAATTTT
Found at i:1085046 original size:19 final size:19
Alignment explanation
Indices: 1085022--1085061 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
1085012 ACTAAATGAG
1085022 TTAAAATTTTTAAATTAGA
1 TTAAAATTTTTAAATTAGA
*
1085041 TTAAAATTTTTAGATTAGA
1 TTAAAATTTTTAAATTAGA
1085060 TT
1 TT
1085062 GACTCATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TTAAAATTTTTAAATTAGA
Found at i:1088237 original size:13 final size:13
Alignment explanation
Indices: 1088219--1088247 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1088209 TTTTAATATT
1088219 TTTAATATTTATA
1 TTTAATATTTATA
1088232 TTTAATATTTATA
1 TTTAATATTTATA
1088245 TTT
1 TTT
1088248 GATAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTAATATTTATA
Found at i:1088293 original size:16 final size:16
Alignment explanation
Indices: 1088268--1088322 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
1088258 AAAATGTGAA
* * *
1088268 TAAATGTAAAATTTTT
1 TAAATATAAAATATAT
1088284 TAAATATAAAATATAT
1 TAAATATAAAATATAT
**
1088300 TAAATAT-ATTTATAT
1 TAAATATAAAATATAT
1088315 TAAATATA
1 TAAATATA
1088323 TATTTTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
15 13 0.39
16 20 0.61
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TAAATATAAAATATAT
Found at i:1088327 original size:17 final size:15
Alignment explanation
Indices: 1088295--1088323 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1088285 AAATATAAAA
1088295 TATATTAAATATATT
1 TATATTAAATATATT
1088310 TATATTAAATATAT
1 TATATTAAATATAT
1088324 ATTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATTAAATATATT
Found at i:1088563 original size:12 final size:13
Alignment explanation
Indices: 1088540--1088568 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1088530 ATTTATATAT
1088540 TTTTATAATAAAA
1 TTTTATAATAAAA
1088553 TTTTA-AATAAAA
1 TTTTATAATAAAA
1088565 TTTT
1 TTTT
1088569 TTTATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTTATAATAAAA
Found at i:1088569 original size:13 final size:14
Alignment explanation
Indices: 1088538--1088569 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1088528 ATATTTATAT
1088538 ATTTTTATAATAAA
1 ATTTTTATAATAAA
1088552 A-TTTTA-AATAAA
1 ATTTTTATAATAAA
1088564 ATTTTT
1 ATTTTT
1088570 TTATTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.41
13 9 0.53
14 1 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTTTATAATAAA
Found at i:1088707 original size:3 final size:3
Alignment explanation
Indices: 1088699--1088727 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1088689 ATACTATGCT
1088699 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1088728 GTAATCAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1093268 original size:14 final size:14
Alignment explanation
Indices: 1093251--1093283 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1093241 TCTTTTAAAT
1093251 ATTTAAAAAAAAAA
1 ATTTAAAAAAAAAA
*
1093265 ATTT-TAAAAAAAA
1 ATTTAAAAAAAAAA
1093278 ATTTAA
1 ATTTAA
1093284 TATATTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 2
0.80 0.10 0.10
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATTTAAAAAAAAAA
Found at i:1093272 original size:15 final size:16
Alignment explanation
Indices: 1093247--1093278 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1093237 ATGATCTTTT
1093247 AAATATTTAAAAAAAA
1 AAATATTTAAAAAAAA
1093263 AAAT-TTTAAAAAAAA
1 AAATATTTAAAAAAAA
1093278 A
1 A
1093279 TTTAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATATTTAAAAAAAA
Found at i:1093296 original size:15 final size:16
Alignment explanation
Indices: 1093278--1093313 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
1093268 TTAAAAAAAA
1093278 ATTTAAT-ATATTTAT
1 ATTTAATAATATTTAT
1093293 ATTTAATACATATTTAT
1 ATTTAATA-ATATTTAT
1093310 ATTT
1 ATTT
1093314 CACACTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
17 12 0.63
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTAATAATATTTAT
Found at i:1093507 original size:2 final size:2
Alignment explanation
Indices: 1093500--1093544 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
1093490 GCTCATAACT
* * *
1093500 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA AA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1093542 TA T
1 TA T
1093545 TATTTGAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1097847 original size:20 final size:20
Alignment explanation
Indices: 1097787--1097857 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
1097777 GGGTAGAATA
* *
1097787 TATCGATACATGGAAGAATG
1 TATCGATACATTGAAAAATG
* * ***
1097807 TATTGATACATTCATCCATG
1 TATCGATACATTGAAAAATG
1097827 TATCGATACATTGAAAAATG
1 TATCGATACATTGAAAAATG
*
1097847 TATCAATACAT
1 TATCGATACAT
1097858 CTAGGTAAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (20 bp):
TATCGATACATTGAAAAATG
Found at i:1101723 original size:4 final size:4
Alignment explanation
Indices: 1101716--1101761 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
1101706 TTTCTTTCTT
* * * *
1101716 TATA TATA TATA TATA TATA TATA TAGA TAGA TAGA TAGA TATA TA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TA
1101762 AATCATCCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (4 bp):
TATA
Found at i:1102664 original size:76 final size:76
Alignment explanation
Indices: 1102538--1102689 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
1102528 TTTGCCTAGT
1102538 CATGTATCGATACATGGTCCCAGTGGTTAAAATTTTTAAAATTCTACAATTTATATTGATATAAA
1 CATGTATCGATACATGGTCCCAGTGGTTAAAATTTTTAAAATTCTACAATTTATATTGATATAAA
1102603 TAGTAAATGTA
66 TAGTAAATGTA
1102614 CATGTATCGATACATGGTCCCAGTGGTTAAAATTTTTAAAATTCTACAATTTATATTGATATAAA
1 CATGTATCGATACATGGTCCCAGTGGTTAAAATTTTTAAAATTCTACAATTTATATTGATATAAA
1102679 TAGTAAATGTA
66 TAGTAAATGTA
1102690 TCGATACATA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (76 bp):
CATGTATCGATACATGGTCCCAGTGGTTAAAATTTTTAAAATTCTACAATTTATATTGATATAAA
TAGTAAATGTA
Found at i:1102734 original size:21 final size:21
Alignment explanation
Indices: 1102683--1102738 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
1102673 TATAAATAGT
1102683 AAATGTATCGATACATAAGTG
1 AAATGTATCGATACATAAGTG
* ***
1102704 -AATATATCGATACATGCTTG
1 AAATGTATCGATACATAAGTG
1102724 AAATGTATCGATACA
1 AAATGTATCGATACA
1102739 AAACCACTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
AAATGTATCGATACATAAGTG
Found at i:1105558 original size:78 final size:78
Alignment explanation
Indices: 1105204--1105581 Score: 294
Period size: 78 Copynumber: 4.8 Consensus size: 78
1105194 TTCATCTCGA
* * * * *
1105204 GGATACTCTAACCCTATTTTTATTTCTAAAATATTAATTTTTTTACTATTGGGGATACTCCAATC
1 GGATACTCCAACCCTGTTTTTA-TTCTAAAATATTAAATTTTTCACTA-TCGGGATACTCCAA-C
* **
1105269 CC-ATCATTTTGGAAA
63 CCTATCATTTTCGAGG
* * * *
1105284 GGATACTTCAACCC-ATTTTTATCTCCAAAATATTAAAATTTTCATCT-T-GAGGATACTCCAAC
1 GGATACTCCAACCCTGTTTTTAT-TCTAAAATATTAAATTTTTCA-CTATCG-GGATACTCCAAC
* *
1105346 CCTGTTATTTTCGAGG
63 CCTATCATTTTCGAGG
* * *
1105362 GGATACTCCAACCCCT-TTTTTATTTTCAAAATA-TCAA-TTTTCACTGTCGGGTATACTCCAAC
1 GGATACTCCAA-CCCTGTTTTTATTCT-AAAATATTAAATTTTTCACTATCGGG-ATACTCCAAC
* * *
1105424 CCTGTTATTTTCAAGG
63 CCTATCATTTTCGAGG
* * ** *
1105440 GGATACTTCAACCCTGTTTTTATTTTCAAAATA-TCGATTTTTTACTATCGGGATACTCCAATCC
1 GGATACTCCAACCCTGTTTTTATTCT-AAAATATTAAATTTTTCACTATCGGGATACTCCAA-CC
*
1105504 C-ATCACTTTCGAGG
64 CTATCATTTTCGAGG
* *
1105518 GGATACTCCAA-CTTGTTTTCACTTCTAAAATATTAAATTTTTCA-TATCAAGGG-TACTCCAAC
1 GGATACTCCAACCCTGTTTTTA-TTCTAAAATATTAAATTTTTCACTATC--GGGATACTCCAAC
1105580 CC
63 CC
1105582 CGTATTCCGA
Statistics
Matches: 250, Mismatches: 31, Indels: 37
0.79 0.10 0.12
Matches are distributed among these distances:
76 2 0.01
77 38 0.15
78 138 0.55
79 58 0.23
80 14 0.06
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (78 bp):
GGATACTCCAACCCTGTTTTTATTCTAAAATATTAAATTTTTCACTATCGGGATACTCCAACCCT
ATCATTTTCGAGG
Found at i:1110894 original size:88 final size:88
Alignment explanation
Indices: 1110733--1111257 Score: 375
Period size: 88 Copynumber: 6.0 Consensus size: 88
1110723 TAACCAAATT
* * * * * * * * *
1110733 TCTTTTCATTTTTGCTTGACGTATGGTTACCACCCTGGTTAAGTTCTTTTTATTTATG-TTTAAC
1 TCTTCTCATTTTAGTTTGACGTATGGTTACCACCTTGGTCAAATTCTTTTCA-TTCTGATTTGAC
* *
1110797 GTATAGTTACCACCCTGGTCAAAC
65 GTATGGTTACCACCCTAGTCAAAC
* * *
1110821 TCTTCTCATTTTAGTTTAACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTCTGATTTGATG
1 TCTTCTCATTTTAGTTTGACGTATGGTTACCACCTTGGTCAAATTCTTTTCATTCTGATTTGACG
* *
1110886 TATGGTTACCACCCTGGTTAAA-
66 TATGGTTACCACCCTAGTCAAAC
* * * * * * * * * *
1110908 TCTACCTC-CTTTATGTCTGGCATATGGTTGCCACCTTGGTCAAACTCTTCTT-ATTTTGGTCTG
1 TCT-TCTCATTTTA-GTTTGACGTATGGTTACCACCTTGGTCAAATTCTT-TTCATTCTGATTTG
* * *
1110971 ACGTCTGGTTACCACCATAGTCAAAT
63 ACGTATGGTTACCACCCTAGTCAAAC
* * * * * * * * ** *
1110997 TTTTTTCATTCTAATTTGACGTATGATTATCA-CTCTAGTTAAATT-TGCCTCCTTCTTG-TTTG
1 TCTTCTCATTTTAGTTTGACGTATGGTTACCACCT-TGGTCAAATTCT-TTTCATTC-TGATTTG
* *
1111059 ACGTATGGTTACCACCCTAATCATAC
63 ACGTATGGTTACCACCCTAGTCAAAC
* ** * *
1111085 TCTTCTTATTTCGGTCTGACGTATGGTTATCACCTTGGTCAAATTCTTTTCATTCTGATTTGACG
1 TCTTCTCATTTTAGTTTGACGTATGGTTACCACCTTGGTCAAATTCTTTTCATTCTGATTTGACG
* *
1111150 CATGGTTACCACCCTGGTCAAAC
66 TATGGTTACCACCCTAGTCAAAC
* * * * * * * * *
1111173 -CTGCCTCATTCCTA-TTTGACATATAGTTACCACCCTGGTCAAACTCTTCTCATTTTGATCTGA
1 TCT-TCTCATT-TTAGTTTGACGTATGGTTACCACCTTGGTCAAATTCTTTTCATTCTGATTTGA
*
1111236 CGTATGGTTACTACCCTAGTCA
64 CGTATGGTTACCACCCTAGTCA
1111258 GATTATAAAA
Statistics
Matches: 331, Mismatches: 91, Indels: 30
0.73 0.20 0.07
Matches are distributed among these distances:
87 19 0.06
88 300 0.91
89 12 0.04
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (88 bp):
TCTTCTCATTTTAGTTTGACGTATGGTTACCACCTTGGTCAAATTCTTTTCATTCTGATTTGACG
TATGGTTACCACCCTAGTCAAAC
Found at i:1110980 original size:132 final size:132
Alignment explanation
Indices: 1110748--1111257 Score: 544
Period size: 132 Copynumber: 3.9 Consensus size: 132
1110738 TCATTTTTGC
* * ** * * * *
1110748 TTGACGTATGGTTACCACCCTGGTTAAGT-T-CTTTTTATTTATGTTTAACGTATAGTTACCACC
1 TTGACGTATGGTTACCACCCTGGTTAAATCTGCCTCCT-TCTATG-TTGACATATGGTTACCACC
* * * * *
1110811 CTGGTCAAACTCTTCTCATTTTAGTTTAACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTC
64 CTGGTCAAACTCTTCTCATTTTGGTCTGACGTATGGTTACCACCTTAGTCAAATTCTTTTCATTC
1110876 TGAT
129 TGAT
* * * * *
1110880 TTGATGTATGGTTACCACCCTGGTTAAATCTACCTCCTT-TATGTCTGGCATATGGTTGCCACCT
1 TTGACGTATGGTTACCACCCTGGTTAAATCTGCCTCCTTCTATGT-TGACATATGGTTACCACCC
* * * *
1110944 TGGTCAAACTCTTCTTATTTTGGTCTGACGTCTGGTTACCACCATAGTCAAATTTTTTTCATTCT
65 TGGTCAAACTCTTCTCATTTTGGTCTGACGTATGGTTACCACCTTAGTCAAATTCTTTTCATTCT
*
1111009 AAT
130 GAT
* * * * * *
1111012 TTGACGTATGATTATCACTCTAGTTAAATTTGCCTCCTTCT-TGTTTGACGTATGGTTACCACCC
1 TTGACGTATGGTTACCACCCTGGTTAAATCTGCCTCCTTCTATG-TTGACATATGGTTACCACCC
** * * * * *
1111076 TAATCATACTCTTCTTATTTCGGTCTGACGTATGGTTATCACCTTGGTCAAATTCTTTTCATTCT
65 TGGTCAAACTCTTCTCATTTTGGTCTGACGTATGGTTACCACCTTAGTCAAATTCTTTTCATTCT
1111141 GAT
130 GAT
* * * * *
1111144 TTGACGCATGGTTACCACCCTGGTCAAACCTGCCTCATTCCTAT-TTGACATATAGTTACCACCC
1 TTGACGTATGGTTACCACCCTGGTTAAATCTGCCTCCTT-CTATGTTGACATATGGTTACCACCC
* * *
1111208 TGGTCAAACTCTTCTCATTTTGATCTGACGTATGGTTACTACCCTAGTCA
65 TGGTCAAACTCTTCTCATTTTGGTCTGACGTATGGTTACCACCTTAGTCA
1111258 GATTATAAAA
Statistics
Matches: 308, Mismatches: 63, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
131 1 0.00
132 297 0.96
133 6 0.02
134 4 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (132 bp):
TTGACGTATGGTTACCACCCTGGTTAAATCTGCCTCCTTCTATGTTGACATATGGTTACCACCCT
GGTCAAACTCTTCTCATTTTGGTCTGACGTATGGTTACCACCTTAGTCAAATTCTTTTCATTCTG
AT
Found at i:1111149 original size:44 final size:44
Alignment explanation
Indices: 1110748--1111257 Score: 306
Period size: 44 Copynumber: 11.6 Consensus size: 44
1110738 TCATTTTTGC
* * * *
1110748 TTGACGTATGGTTACCACCCTGGTTAAGTTCTTTTTATTTATG-T
1 TTGACGTATGGTTACCACCCTGGTCAAATTCTTTTCA-TTCTGAT
* * * * *
1110792 TTAACGTATAGTTACCACCCTGGTCAAACTCTTCTCATT-TTAGT
1 TTGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTCTGA-T
* * *
1110836 TTAACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTCTGAT
1 TTGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTCTGAT
* * ** *
1110880 TTGATGTATGGTTACCACCCTGGTTAAA-TCTACCTCCTT-T-AT
1 TTGACGTATGGTTACCACCCTGGTCAAATTCT-TTTCATTCTGAT
* * * * * * *
1110922 GTCTGGCATATGGTTGCCACCTTGGTCAAACTCTTCTT-ATTTTGGT
1 -T-TGACGTATGGTTACCACCCTGGTCAAATTCTT-TTCATTCTGAT
* * * * * *
1110968 CTGACGTCTGGTTACCACCATAGTCAAATTTTTTTCATTCTAAT
1 TTGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTCTGAT
* * * * * ** *
1111012 TTGACGTATGATTATCACTCTAGTTAAATT-TGCCTCCTTCTTG-T
1 TTGACGTATGGTTACCACCCTGGTCAAATTCT-TTTCATTC-TGAT
** * * *
1111056 TTGACGTATGGTTACCACCCTAATCATACTCTTCTT-ATT-TCGGT
1 TTGACGTATGGTTACCACCCTGGTCAAATTCTT-TTCATTCT-GAT
* * *
1111100 CTGACGTATGGTTATCACCTTGGTCAAATTCTTTTCATTCTGAT
1 TTGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTCTGAT
* * **
1111144 TTGACGCATGGTTACCACCCTGGTCAAA-CCTGCCTCATTCCT-AT
1 TTGACGTATGGTTACCACCCTGGTCAAATTCT-TTTCATT-CTGAT
* * * * *
1111188 TTGACATATAGTTACCACCCTGGTCAAACTCTTCTCATTTTGAT
1 TTGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTCTGAT
* * *
1111232 CTGACGTATGGTTACTACCCTAGTCA
1 TTGACGTATGGTTACCACCCTGGTCA
1111258 GATTATAAAA
Statistics
Matches: 352, Mismatches: 91, Indels: 46
0.72 0.19 0.09
Matches are distributed among these distances:
42 4 0.01
43 16 0.05
44 316 0.90
45 15 0.04
46 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (44 bp):
TTGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTCTGAT
Found at i:1124868 original size:47 final size:48
Alignment explanation
Indices: 1124775--1124915 Score: 133
Period size: 47 Copynumber: 3.0 Consensus size: 48
1124765 CTTAAAATAT
* * * * *
1124775 TCCAAGTATGGACTCTTAACTCTAATAGTCTTAAACTTG-GACAAAAC
1 TCCAAGTATGGACTCTTAACTCCAAAAGTCCTAAACTTGAAAAAAAAC
* * *
1124822 TTCGAGTATGGACTCCT-ACTCCAAAAGTCCTAAACTTGAAAAAAAAC
1 TCCAAGTATGGACTCTTAACTCCAAAAGTCCTAAACTTGAAAAAAAAC
*** * * **
1124869 TCCAAGTACAAACTTTTGACTCCAAAAGTCCTAAACTCAAAAAAAAA
1 TCCAAGTATGGACTCTTAACTCCAAAAGTCCTAAACTTGAAAAAAAA
1124916 AAAAAAACCC
Statistics
Matches: 75, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
46 18 0.24
47 30 0.40
48 27 0.36
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.25
Consensus pattern (48 bp):
TCCAAGTATGGACTCTTAACTCCAAAAGTCCTAAACTTGAAAAAAAAC
Found at i:1126590 original size:13 final size:13
Alignment explanation
Indices: 1126572--1126596 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1126562 CATAAAGTGT
1126572 TGTATCGATACAA
1 TGTATCGATACAA
1126585 TGTATCGATACA
1 TGTATCGATACA
1126597 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1126594 original size:33 final size:33
Alignment explanation
Indices: 1126552--1126618 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1126542 TTCAACGATT
1126552 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1126585 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1126618 T
1 T
1126619 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1126678 original size:13 final size:13
Alignment explanation
Indices: 1126660--1126684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1126650 ATTACTCAAA
1126660 TGTATCGATACAT
1 TGTATCGATACAT
1126673 TGTATCGATACA
1 TGTATCGATACA
1126685 CTAATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1126737 original size:52 final size:52
Alignment explanation
Indices: 1126673--1126821 Score: 271
Period size: 52 Copynumber: 2.9 Consensus size: 52
1126663 ATCGATACAT
* **
1126673 TGTATCGATACACTAATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1126725 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1126777 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1126822 TCATATTTCG
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 94 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (52 bp):
TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:1131155 original size:22 final size:23
Alignment explanation
Indices: 1131123--1131165 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1131113 TCATTCGTCT
* *
1131123 GACTCTGGTTTT-GCCCAAGTCC
1 GACTCTAGTTTTCACCCAAGTCC
1131145 GACTCTAGTTTTCACCCAAGT
1 GACTCTAGTTTTCACCCAAGT
1131166 TATTTATTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.33
Consensus pattern (23 bp):
GACTCTAGTTTTCACCCAAGTCC
Found at i:1131811 original size:2 final size:2
Alignment explanation
Indices: 1131799--1131831 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
1131789 ACAAAATGAC
1131799 AT AT AT GAT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT A
1131832 AAGAAGACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1134793 original size:104 final size:105
Alignment explanation
Indices: 1134664--1134872 Score: 393
Period size: 104 Copynumber: 2.0 Consensus size: 105
1134654 GGAACAGATT
1134664 ACCATTTGCCCAAAAATGTTTTTTGTTCTTCAAAATAAACAGCCTTACCAGAAATTTCCAGGTAT
1 ACCATTTGCCCAAAAATGTTTTTTGTTCTTCAAAATAAACAGCCTTACCAGAAATTTCCAGGTAT
1134729 TTTCTTTAACAA-TGAGCAGCAAGTGCTACAAGGTTTAGA
66 TTTCTTTAACAATTGAGCAGCAAGTGCTACAAGGTTTAGA
*
1134768 ACCATTTGCCCAAAAATGTTTTTTGTTGTTCAAAATAAACAGCCTTACCAGAAATTTCCAGGTAT
1 ACCATTTGCCCAAAAATGTTTTTTGTTCTTCAAAATAAACAGCCTTACCAGAAATTTCCAGGTAT
*
1134833 TTTCTTTAACAATTGAGCAGTAAGTGCTACAAGGTTTAGA
66 TTTCTTTAACAATTGAGCAGCAAGTGCTACAAGGTTTAGA
1134873 TGCCACTTTT
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
104 76 0.75
105 26 0.25
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (105 bp):
ACCATTTGCCCAAAAATGTTTTTTGTTCTTCAAAATAAACAGCCTTACCAGAAATTTCCAGGTAT
TTTCTTTAACAATTGAGCAGCAAGTGCTACAAGGTTTAGA
Found at i:1142042 original size:90 final size:91
Alignment explanation
Indices: 1141856--1142064 Score: 248
Period size: 90 Copynumber: 2.3 Consensus size: 91
1141846 ATTAAAACTT
* * *
1141856 TATTATATATTA-TTTTCAATTAAGTTTTTAATATATCTTATAAGATATAACGTCGTCTTATTAT
1 TATTATATATTATTTTTTAATTAAGTTTTTAATATATCTTATAAGATATAACGTCGTCCTACTAT
* ** *
1141920 TTTATAAGTTAAAATTTTTATTAACT
66 TGTATAAGTTAAAAAGTTTATTAACC
* * * *
1141946 TTTTATATATTATTTTTTAATTAAATTTTTAACT-TATCTTATAAGATAT-ATGTCTTCCTACTA
1 TATTATATATTATTTTTTAATTAAGTTTTTAA-TATATCTTATAAGATATAACGTCGTCCTACTA
1142009 TTGTATAA-TCTAAAAAGTTTATTAACC
65 TTGTATAAGT-TAAAAAGTTTATTAACC
* *
1142036 TATTATA-ATTTTTTTTTACTTAAGTTTTT
1 TATTATATATTATTTTTTAATTAAGTTTTT
1142065 GACATGTGTT
Statistics
Matches: 101, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
89 20 0.20
90 48 0.48
91 32 0.32
92 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (91 bp):
TATTATATATTATTTTTTAATTAAGTTTTTAATATATCTTATAAGATATAACGTCGTCCTACTAT
TGTATAAGTTAAAAAGTTTATTAACC
Found at i:1142590 original size:17 final size:16
Alignment explanation
Indices: 1142566--1142600 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1142556 TTTAAAAATT
1142566 AAAAAGAATTGAAAAA
1 AAAAAGAATTGAAAAA
*
1142582 AAAAGAGAATTTAAAAA
1 AAAA-AGAATTGAAAAA
1142599 AA
1 AA
1142601 TAAGTGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (16 bp):
AAAAAGAATTGAAAAA
Found at i:1142599 original size:18 final size:18
Alignment explanation
Indices: 1142556--1142619 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
1142546 TTGAAAATAG
*
1142556 TTTAAAAATTAAAA-AGAA
1 TTTAAAAA-AAAAAGAGAA
*
1142574 -TTGAAAAAAAAAGAGAA
1 TTTAAAAAAAAAAGAGAA
* * *
1142591 TTTAAAAAAATAAGTGTA
1 TTTAAAAAAAAAAGAGAA
*
1142609 TATAAAAAAAA
1 TTTAAAAAAAA
1142620 TCCAGGTTCG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
16 4 0.11
17 10 0.28
18 22 0.61
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.23
Consensus pattern (18 bp):
TTTAAAAAAAAAAGAGAA
Found at i:1143098 original size:14 final size:14
Alignment explanation
Indices: 1143071--1143120 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
1143061 TATAAAAAAA
*
1143071 AAAAGTTTAGAATTT
1 AAAA-TTTAAAATTT
*
1143086 AAGATTTAAAATTT
1 AAAATTTAAAATTT
* *
1143100 AAAGTTTAAGATTT
1 AAAATTTAAAATTT
1143114 AAAATTT
1 AAAATTT
1143121 TAATTCAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 26 0.90
15 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (14 bp):
AAAATTTAAAATTT
Found at i:1146725 original size:136 final size:136
Alignment explanation
Indices: 1146465--1146709 Score: 300
Period size: 135 Copynumber: 1.8 Consensus size: 136
1146455 TTAATAAAAG
** * * *
1146465 CATTTTGGTCAAGTTTTGTAAGGATGATTAAGGACGTAAAATTAACCAAAAGATCCAACACAACT
1 CATTTTGGTCAAGTTTTACAAGGATAATCAAGGACGTAAAATTAACCAAAAGATCCAACACAACA
* * *
1146530 TATGTCGTAAAATATAATTAATTTATCATATATGAAATATTCTCCTTATTTACATTCTTATTATA
66 TATGTCATAAAATATAATCAATTTATCACATATGAAATATTCTCCTTATTTACATTCTTATTATA
1146595 GGGAAA
131 GGGAAA
* * *
1146601 CATTTTGGTCAA-TTTTACAAGGATAATCAATGACTTAAAATTAACCATAAA-ATCTAACACAAC
1 CATTTTGGTCAAGTTTTACAAGGATAATCAAGGACGTAAAATTAACCA-AAAGATCCAACACAAC
** *
1146664 GGATATG-CATATGATATAATCACCTTTATCACATATG-AATATTCTC
65 --ATATGTCATAAAATATAATCA-ATTTATCACATATGAAATATTCTC
1146710 TCTATTTGCT
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
135 40 0.44
136 35 0.38
137 16 0.18
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (136 bp):
CATTTTGGTCAAGTTTTACAAGGATAATCAAGGACGTAAAATTAACCAAAAGATCCAACACAACA
TATGTCATAAAATATAATCAATTTATCACATATGAAATATTCTCCTTATTTACATTCTTATTATA
GGGAAA
Found at i:1149705 original size:27 final size:27
Alignment explanation
Indices: 1149667--1149728 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
1149657 TTTGGTTGAA
1149667 AATGGGGTTGGAGTGTCCCCTCGGAGG
1 AATGGGGTTGGAGTGTCCCCTCGGAGG
1149694 AATGGGGTTGGAGTGTCCCCTCGGAGG
1 AATGGGGTTGGAGTGTCCCCTCGGAGG
1149721 AATGGGGT
1 AATGGGGT
1149729 GTTCCCGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.16, C:0.16, G:0.45, T:0.23
Consensus pattern (27 bp):
AATGGGGTTGGAGTGTCCCCTCGGAGG
Found at i:1151954 original size:13 final size:13
Alignment explanation
Indices: 1151936--1151960 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1151926 CAAAGATCAG
1151936 TGTATCGATACAA
1 TGTATCGATACAA
1151949 TGTATCGATACA
1 TGTATCGATACA
1151961 GTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1152045 original size:32 final size:32
Alignment explanation
Indices: 1152001--1152098 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
1151991 AGTAGCTTAA
* *
1152001 ATTGTATCGATACAAAACTTACGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
1152033 ATTGTATTGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
1152065 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
1152098 A
1 A
1152099 AATCGTTGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 46 0.75
33 15 0.25
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:1152063 original size:19 final size:19
Alignment explanation
Indices: 1152003--1152099 Score: 74
Period size: 19 Copynumber: 5.7 Consensus size: 19
1151993 TAGCTTAAAT
*
1152003 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
1152022 CGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
1152035 TGTATTGATACAACACTTA
1 TGTATCGATACAACACTTA
1152054 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
1152067 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
1152087 TGTATCGATACAA
1 TGTATCGATACAA
1152100 ATCGTTGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 25
0.67 0.06 0.28
Matches are distributed among these distances:
13 16 0.27
14 2 0.03
16 11 0.18
18 1 0.02
19 17 0.28
20 13 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1152072 original size:13 final size:13
Alignment explanation
Indices: 1152054--1152078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1152044 ACAACACTTA
1152054 TGTATCGATACAT
1 TGTATCGATACAT
1152067 TGTATCGATACA
1 TGTATCGATACA
1152079 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1153056 original size:12 final size:12
Alignment explanation
Indices: 1153039--1153063 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1153029 TATATTTATT
1153039 TTACCATGTAAA
1 TTACCATGTAAA
1153051 TTACCATGTAAA
1 TTACCATGTAAA
1153063 T
1 T
1153064 CTAATTAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TTACCATGTAAA
Found at i:1157300 original size:21 final size:19
Alignment explanation
Indices: 1157252--1157307 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
1157242 TGCAGGGTAG
1157252 TTTTGTATCGATACAACAC
1 TTTTGTATCGATACAACAC
* **
1157271 TTATGTATCGATACATTTAC
1 TTTTGTATCGATACA-ACAC
1157291 TGTTTGTATCGATACAA
1 T-TTTGTATCGATACAA
1157308 ATTATAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (19 bp):
TTTTGTATCGATACAACAC
Found at i:1157415 original size:13 final size:13
Alignment explanation
Indices: 1157397--1157454 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
1157387 CAGGGTAGTT
1157397 TTGTATCGATACA
1 TTGTATCGATACA
1157410 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
1157426 CTTATGTATCGATACA
1 --T-TGTATCGATACA
1157442 TTGTATCGATACA
1 TTGTATCGATACA
1157455 ACACTTATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 22 0.56
14 1 0.03
16 6 0.15
18 1 0.03
19 9 0.23
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1157435 original size:19 final size:19
Alignment explanation
Indices: 1157411--1157473 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
1157401 ATCGATACAT
1157411 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1157430 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
1157443 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1157462 TGTATCGATACA
1 TGTATCGATACA
1157474 TTTACTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1157439 original size:32 final size:32
Alignment explanation
Indices: 1157398--1157475 Score: 156
Period size: 32 Copynumber: 2.4 Consensus size: 32
1157388 AGGGTAGTTT
1157398 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
1157430 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
1157462 TGTATCGATACATT
1 TGTATCGATACATT
1157476 TACTGTTTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:1158666 original size:13 final size:13
Alignment explanation
Indices: 1158648--1158672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1158638 TTTCACAATT
1158648 TGTATCGATACAA
1 TGTATCGATACAA
1158661 TGTATCGATACA
1 TGTATCGATACA
1158673 TTCAGGCATT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1161045 original size:79 final size:78
Alignment explanation
Indices: 1160962--1161742 Score: 677
Period size: 79 Copynumber: 9.9 Consensus size: 78
1160952 ATTCATGTTT
* * **
1160962 TTATTTCTGAGAGGATACTCTAACCTCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGAT
1 TTATTTCTGAGGGGATACTCCAACC-CGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGG
*
1161027 ATACTCTAACCCTG
65 ATACTCCAACCCTG
* * * * *
1161041 TTATTTCCGAGGGGATGCTCCAATCCC-AGTTTTATTTCTAAAACACAAATTTTTCATAGTCAGG
1 TTATTTCTGAGGGGATACTCCAA-CCCGA-TTTTATTTCCAAAACACCAATTTTTCATAATCAGG
1161105 GATACTCCAATCCC-G
64 GATACTCCAA-CCCTG
* * * * *
1161120 TTATTTCCGAGGGGATACTTCAACTCTGGTTTTATTTCCAAAACACCAATTTTTCATAATCGGGG
1 TTATTTCTGAGGGGATACTCCAAC-CCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGG
* *
1161185 ATTCTCCAACCCCG
65 ATACTCCAACCCTG
* * * *
1161199 TTATTTCCGAGGGGATGCTCCAACCCCAGTTTTATTTCCAAAACACCAATTTTTCATAATCGGGG
1 TTATTTCTGAGGGGATACTCCAACCCGA-TTTTATTTCCAAAACACCAATTTTTCATAATCAGGG
*
1161264 ATACTCTAATCCC-G
65 ATACTCCAA-CCCTG
* * * *
1161278 TTATTT-TCGAGGGGATACTCTAACCCCAGTTTTATTTCCAAAACACTAATTTTTCATAATTAGG
1 TTATTTCT-GAGGGGATACTCCAACCCGA-TTTTATTTCCAAAACACCAATTTTTCATAATCAGG
* **
1161342 GATACTCTAA-TTTCG
64 GATACTCCAACCCT-G
* ** * * * *
1161357 TTATTTCTGAGGGGACACTTTAACCCCGTTTTTATTTCTAAAACACCAATTTTTTACAATCAGGG
1 TTATTTCTGAGGGGATACTCCAA-CCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGG
1161422 ATACTCCAACACC-G
65 ATACTCCAAC-CCTG
** * * * *
1161436 TTATTTCTGAAAGGATACTCCAACCTCGATTTTATTTCTAAAATACCGA-TTTTCTACAATC-GA
1 TTATTTCTGAGGGGATACTCCAACC-CGATTTTATTTCCAAAACACCAATTTTTC-ATAATCAG-
* *
1161499 TGATACTCCAA-CCTCA
63 GGATACTCCAACCCT-G
* * * * **
1161515 TTATTT-TCGAGAGTATACTCCAACCCTGATTTTATTTCTAAAACATCAATTTTT-ACCATCAGG
1 TTATTTCT-GAGGGGATACTCCAACCC-GATTTTATTTCCAAAACACCAATTTTTCATAATCAGG
*
1161578 GATACTCCAACCCCG
64 GATACTCCAACCCTG
* * * * * *
1161593 TTATTT-TCAAGGGGATACTCTAACCCCGATTTTATTTCTAAAATACCGATTTTTCATAATCGGG
1 TTATTTCT-GAGGGGATACTCCAA-CCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGG
* *
1161657 GATACTCCAACCTTA
64 GATACTCCAACCCTG
* * * ** * * * *
1161672 TTATTACTAAGAGGATACTCCAACTTTGATTTTATTTCCAGAACACCAATTTTCCACAATCGGGG
1 TTATTTCTGAGGGGATACTCCAAC-CCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGG
1161737 ATACTC
65 ATACTC
1161743 TGCCCTATTA
Statistics
Matches: 583, Mismatches: 90, Indels: 58
0.80 0.12 0.08
Matches are distributed among these distances:
77 2 0.00
78 74 0.13
79 490 0.84
80 17 0.03
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (78 bp):
TTATTTCTGAGGGGATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGA
TACTCCAACCCTG
Found at i:1161218 original size:158 final size:158
Alignment explanation
Indices: 1160962--1161742 Score: 784
Period size: 158 Copynumber: 4.9 Consensus size: 158
1160952 ATTCATGTTT
* * * * **
1160962 TTATTTCTGAGAGGATACTCTAACCTCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGAT
1 TTATTTCCGAGGGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCGGGG
* * * *
1161027 ATACTCTAACCCTGTTATTTCCGAGGGGATGCTCCAATCCCAG-TTTTATTTCTAAAACACAAAT
66 ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCCAGATTTTATTTCTAAAACACCAAT
* *
1161091 TTTTCATAGTCAGGGATACTCCAATCCCG
130 TTTTCACAATCAGGGATACTCCAATCCCG
* * *
1161120 TTATTTCCGAGGGGATACT-TCAACTCTGGTTTTATTTCCAAAACACCAATTTTTCATAATCGGG
1 TTATTTCCGAGGGGATACTCT-AACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCGGG
* * *
1161184 GATTCTCCAACCCCGTTATTTCCGAGGGGATGCTCCAACCCCAG-TTTTATTTCCAAAACACCAA
65 GATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCCAGATTTTATTTCTAAAACACCAA
* * *
1161248 TTTTTCATAATCGGGGATACTCTAATCCCG
129 TTTTTCACAATCAGGGATACTCCAATCCCG
* * **
1161278 TTATTTTCGAGGGGATACTCTAACCCC-AGTTTTATTTCCAAAACACTAATTTTTCATAATTAGG
1 TTATTTCCGAGGGGATACTCTAACCCCGA-TTTTATTTCCAAAACACCAATTTTTCATAATCGGG
* *** * * ** * *
1161342 GATACTCTAATTTCGTTATTTCTGAGGGGACACTTTAACCCCGTTTTTATTTCTAAAACACCAAT
65 GATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCAGATTTTATTTCTAAAACACCAAT
*
1161407 TTTTTACAATCAGGGATACTCCAA-CACCG
130 TTTTCACAATCAGGGATACTCCAATC-CCG
* ** * * * * * * **
1161436 TTATTTCTGAAAGGATACTCCAACCTCGATTTTATTTCTAAAATACCGA-TTTTCTACAATCGAT
1 TTATTTCCGAGGGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTTC-ATAATCGGG
* * * * * * *
1161500 GATACTCCAACCTCATTATTTTCGAGAGTATACTCCAACCCTGATTTTATTTCTAAAACATCAAT
65 GATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCAGATTTTATTTCTAAAACACCAAT
* *
1161565 TTTT-ACCATCAGGGATACTCCAACCCCG
130 TTTTCACAATCAGGGATACTCCAATCCCG
* * * * *
1161593 TTATTTTCAAGGGGATACTCTAACCCCGATTTTATTTCTAAAATACCGATTTTTCATAATCGGGG
1 TTATTTCCGAGGGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCGGGG
*** * ** * *** * *
1161658 ATACTCCAACCTTATTATTACTAAGAGGATACTCCAACTTTGATTTTATTTCCAGAACACCAATT
66 ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCAGATTTTATTTCTAAAACACCAATT
* *
1161723 TTCCACAATCGGGGATACTC
131 TTTCACAATCAGGGATACTC
1161743 TGCCCTATTA
Statistics
Matches: 518, Mismatches: 95, Indels: 20
0.82 0.15 0.03
Matches are distributed among these distances:
157 137 0.26
158 379 0.73
159 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (158 bp):
TTATTTCCGAGGGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCGGGG
ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCAGATTTTATTTCTAAAACACCAATT
TTTCACAATCAGGGATACTCCAATCCCG
Found at i:1161345 original size:237 final size:235
Alignment explanation
Indices: 1160962--1161743 Score: 899
Period size: 237 Copynumber: 3.3 Consensus size: 235
1160952 ATTCATGTTT
* * * **
1160962 TTATTTCTGAGAGGATACTCTAACCTCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGAT
1 TTATTTCTGAGAGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
* * *
1161027 ATACTCTAACCCTGTTATTTCCGAGGGGATGCTCCAATCCCAGTTTTATTTCTAAAACACAAATT
66 ATACTCTAACCC-GTTATTTTCGAGGGGATACTCCAA-CCCAGTTTTATTTCTAAAACACTAATT
* * * *
1161092 TTTCATAGTCAGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTTCAACTCTGGTTTTATTT
129 TTTCATAATCAGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTTCAACCCCGATTTTATTT
* *
1161157 CCAAAACACCAATTTTTCATAATCGGGGATTCTCCAACCCCG
194 CTAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCG
* * * * *
1161199 TTATTTCCGAGGGGATGCTCCAACC-CCAGTTTTATTTCCAAAACACCAATTTTTCATAATCGGG
1 TTATTTCTGAGAGGATACTCCAACCTCGA-TTTTATTTCCAAAACACCAATTTTTCACAATCGGG
* *
1161263 GATACTCTAATCCCGTTATTTTCGAGGGGATACTCTAACCCCAGTTTTATTTCCAAAACACTAAT
65 GATACTCTAA-CCCGTTATTTTCGAGGGGATACTCCAA-CCCAGTTTTATTTCTAAAACACTAAT
* * ** * * * *
1161328 TTTTCATAATTAGGGATACTCTAATTTCGTTATTTCTGAGGGGACACTTTAACCCCGTTTTTATT
128 TTTTCATAATCAGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTTCAACCCCGATTTTATT
* * * *
1161393 TCTAAAACACCAATTTTTTACAATCAGGGATACTCCAACACCG
193 TCTAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCG
* * * * **
1161436 TTATTTCTGAAAGGATACTCCAACCTCGATTTTATTTCTAAAATACCGA-TTTTCTACAATCGAT
1 TTATTTCTGAGAGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTC-ACAATCGGG
* * * * *
1161500 GATACTCCAACCTCATTATTTTCGAGAGTATACTCCAACCCTGATTTTATTTCTAAAACA-TCAA
65 GATACTCTAACC-CGTTATTTTCGAGGGGATACTCCAACCCAG-TTTTATTTCTAAAACACT-AA
** * * *
1161564 TTTTT-ACCATCAGGGATACTCCAACCCCGTTATTTTCAAGGGGATAC-TCTAACCCCGATTTTA
127 TTTTTCATAATCAGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTTC-AACCCCGATTTTA
* * ***
1161627 TTTCTAAAATACCGATTTTTCATAATCGGGGATACTCCAACCTTA
191 TTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCG
* * * * * *
1161672 TTATTACTAAGAGGATACTCCAACTTTGATTTTATTTCCAGAACACCAATTTTCCACAATCGGGG
1 TTATTTCTGAGAGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
1161737 ATACTCT
66 ATACTCT
1161744 GCCCTATTAT
Statistics
Matches: 452, Mismatches: 84, Indels: 19
0.81 0.15 0.03
Matches are distributed among these distances:
235 1 0.00
236 147 0.33
237 299 0.66
238 5 0.01
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (235 bp):
TTATTTCTGAGAGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
ATACTCTAACCCGTTATTTTCGAGGGGATACTCCAACCCAGTTTTATTTCTAAAACACTAATTTT
TCATAATCAGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTTCAACCCCGATTTTATTTCT
AAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCG
Found at i:1163097 original size:32 final size:33
Alignment explanation
Indices: 1163039--1163100 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1163029 TATCCAAATG
*
1163039 TATCGATACATTATGCTTTGTATCGATACAATA
1 TATCGATACATTATGCATTGTATCGATACAATA
1163072 TATCGATACATGT-T-CATTGTATCGATACA
1 TATCGATACAT-TATGCATTGTATCGATACA
1163101 TACTCAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 14 0.52
33 12 0.44
34 1 0.04
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACAATA
Found at i:1164067 original size:13 final size:13
Alignment explanation
Indices: 1164049--1164073 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1164039 CAATTCATCA
1164049 TGTATCGATACAT
1 TGTATCGATACAT
1164062 TGTATCGATACA
1 TGTATCGATACA
1164074 ATGTGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1164167 original size:19 final size:19
Alignment explanation
Indices: 1164123--1164178 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1164113 CTGCCAGTTT
**
1164123 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
1164143 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1164162 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1164179 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1164181 original size:13 final size:13
Alignment explanation
Indices: 1164163--1164189 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1164153 TACAATGAAC
1164163 ATGTATCGATACA
1 ATGTATCGATACA
1164176 ATGTATCGATACA
1 ATGTATCGATACA
1164189 A
1 A
1164190 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1173143 original size:21 final size:22
Alignment explanation
Indices: 1173092--1173147 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
1173082 AAGTATTTTT
1173092 ATTTTAAAACATTTGATTTAAG
1 ATTTTAAAACATTTGATTTAAG
* **
1173114 GTTCAAAAACATTTG-TTTATA-
1 ATTTTAAAACATTTGATTTA-AG
1173135 ATTTTAAAACATT
1 ATTTTAAAACATT
1173148 CATTGATATA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (22 bp):
ATTTTAAAACATTTGATTTAAG
Found at i:1177787 original size:109 final size:109
Alignment explanation
Indices: 1177596--1177814 Score: 384
Period size: 109 Copynumber: 2.0 Consensus size: 109
1177586 GAGAAACAAA
1177596 GCTAGGCTAGTAGCTAAAGGTTATAGTCAAAAGAAAGGTATTGACTATGACAAAACCTATGCACC
1 GCTAGGCTAGTAGCTAAAGGTTATAGTCAAAAGAAAGGTATTGACTATGACAAAACCTATGCACC
* * *
1177661 CATAGCTAGGTTAGAAGCTATTAGAATATTGCTAGCCTTTGCAT
66 CATAACTAGGTTAGAAGCTATTAAAATATTGCTAGCCGTTGCAT
* *
1177705 GCTAGGCTAGTAGCTAAAGGTTATAGTCAAAAGGAAGGTATTGACTATGACGAAACCTATGCACC
1 GCTAGGCTAGTAGCTAAAGGTTATAGTCAAAAGAAAGGTATTGACTATGACAAAACCTATGCACC
*
1177770 CGTAACTAGGTTAGAAGCTATTAAAATATTGCTAGCCGTTGCAT
66 CATAACTAGGTTAGAAGCTATTAAAATATTGCTAGCCGTTGCAT
1177814 G
1 G
1177815 TTTTTATGAT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 104 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (109 bp):
GCTAGGCTAGTAGCTAAAGGTTATAGTCAAAAGAAAGGTATTGACTATGACAAAACCTATGCACC
CATAACTAGGTTAGAAGCTATTAAAATATTGCTAGCCGTTGCAT
Found at i:1182096 original size:19 final size:20
Alignment explanation
Indices: 1182069--1182119 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
1182059 TGATATATTG
* *
1182069 TATCGATACATGTTC-ATTA
1 TATCAATACATGCTCAATTA
* *
1182088 TATCAATACATACTCAATTG
1 TATCAATACATGCTCAATTA
1182108 TATCAATACATG
1 TATCAATACATG
1182120 AAACTGGCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (20 bp):
TATCAATACATGCTCAATTA
Found at i:1182113 original size:20 final size:19
Alignment explanation
Indices: 1182065--1182118 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
1182055 GTATTGATAT
* **
1182065 ATTGTATCGATACATGTTC
1 ATTGTATCAATACATACTC
*
1182084 ATTATATCAATACATACTC
1 ATTGTATCAATACATACTC
1182103 AATTGTATCAATACAT
1 -ATTGTATCAATACAT
1182119 GAAACTGGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (19 bp):
ATTGTATCAATACATACTC
Found at i:1182961 original size:22 final size:19
Alignment explanation
Indices: 1182920--1182973 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 19
1182910 TTCAACAATT
1182920 TGTATCGATACAAACAAGTAA
1 TGTATCGATAC-AACAAGT-A
*
1182941 CTGTATCGATACAACTGAGTA
1 -TGTATCGATACAAC-AAGTA
1182962 TGTATCGATACA
1 TGTATCGATACA
1182974 TGCAAGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 12 0.40
21 4 0.13
22 14 0.47
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (19 bp):
TGTATCGATACAACAAGTA
Found at i:1194438 original size:13 final size:13
Alignment explanation
Indices: 1194420--1194445 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1194410 CAATTTTTTG
1194420 TGTATCGATACAT
1 TGTATCGATACAT
1194433 TGTATCGATACAT
1 TGTATCGATACAT
1194446 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1194460 original size:32 final size:33
Alignment explanation
Indices: 1194400--1194463 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1194390 TACAAGCCAA
** *
1194400 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1194433 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1194464 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1196995 original size:13 final size:13
Alignment explanation
Indices: 1196977--1197014 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1196967 ATAATCCCCC
1196977 TGTATCGATACAG
1 TGTATCGATACAG
*
1196990 TGTATCGATACAT
1 TGTATCGATACAG
1197003 TGTATCGATACA
1 TGTATCGATACA
1197015 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1199116 original size:15 final size:15
Alignment explanation
Indices: 1199096--1199126 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1199086 ATTTCGTTTG
*
1199096 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1199111 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1199126 G
1 G
1199127 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1200957 original size:21 final size:21
Alignment explanation
Indices: 1200928--1200972 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1200918 AAGTTTTTAT
*
1200928 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1200948 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1200970 TTT
1 TTT
1200973 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1202889 original size:32 final size:30
Alignment explanation
Indices: 1202853--1202911 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1202843 GAAAACAAAT
1202853 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1202885 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1202912 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1203210 original size:13 final size:13
Alignment explanation
Indices: 1203192--1203217 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1203182 CAATTTTTTG
1203192 TGTATCGATACAT
1 TGTATCGATACAT
1203205 TGTATCGATACAT
1 TGTATCGATACAT
1203218 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1203232 original size:32 final size:33
Alignment explanation
Indices: 1203172--1203235 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1203162 TACAAGCCAA
** *
1203172 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1203205 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1203236 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1204485 original size:78 final size:79
Alignment explanation
Indices: 1204157--1204637 Score: 548
Period size: 79 Copynumber: 6.1 Consensus size: 79
1204147 ATAATAATAG
* * *
1204157 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTGAAGTATCCCCGATTATGAAAAATCGATGA-TT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAT-ATTT
*
1204221 TAGAAATAAAATCG-
65 TAGAAATAAAACCGA
*** * *
1204235 GGATTGGAGTATTTTCTCGAAAATAACGGGGTTGGAGTATCCCCGACTATGAAAAATTGATGTTT
1 GG-TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTT
1204300 TAGAAATAAAACC-A
65 TAGAAATAAAACCGA
* * ** * *
1204314 GGGTTAGAGTATCCCCTCGGAAATAACAAGGTTGGAGTATCCCCGATTATGAGAAATTAATATTT
1 -GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTT
* *
1204379 TAAAAATAAAACCGG
65 TAGAAATAAAACCGA
* * * *
1204394 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGAAGTAT-CCCGATTATGAGAAATTAATATTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTT
*
1204458 AGAAATAAAGCCGA
66 AGAAATAAAACCGA
* * *
1204472 GGTTAGG-GGATCCCCTCGAAAATAACGGGGTTGGAGTAT-CCC--TGATGAAAAATTGATGTTT
1 GGTT-GGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTT
1204533 TAGAAATAAAACCGA
65 TAGAAATAAAACCGA
* * * * * * *
1204548 GGTTGGAGTGTCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTT
* *
1204613 GGAAATAAAATC-A
66 AGAAATAAAACCGA
1204626 GAGTTGGAGTAT
1 G-GTTGGAGTAT
1204638 TCCCGATTAT
Statistics
Matches: 344, Mismatches: 48, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
75 2 0.01
76 61 0.18
77 3 0.01
78 76 0.22
79 200 0.58
80 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTT
AGAAATAAAACCGA
Found at i:1204637 original size:51 final size:51
Alignment explanation
Indices: 1204577--1204756 Score: 211
Period size: 51 Copynumber: 3.5 Consensus size: 51
1204567 AAATAACGGG
*
1204577 GTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCAGA
* * * * *
1204628 GTTGGAGTATTCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCAGA
* * * * * * *
1204679 GTTTGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAA-CCGG
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCAGA
*
1204729 GATTGGAGTATCCCCGA-GATGAAAAATC
1 G-TTGGAGTATCCCCGATTATGAAAAATC
1204757 TAGAAATTTA
Statistics
Matches: 108, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
50 11 0.10
51 97 0.90
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCAGA
Found at i:1209398 original size:13 final size:13
Alignment explanation
Indices: 1209380--1209406 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1209370 ACAACATTCC
1209380 TTGTATCGATACA
1 TTGTATCGATACA
1209393 TTGTATCGATACA
1 TTGTATCGATACA
1209406 T
1 T
1209407 AGGGTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1211311 original size:22 final size:22
Alignment explanation
Indices: 1211261--1211337 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
1211251 AGATTTGACA
**
1211261 AAAGGGGAGAAATGCTTTGATT
1 AAAGGGGAGAAATTTTTTGATT
* *
1211283 GAGGGGGAGAAATTTTTTGATT
1 AAAGGGGAGAAATTTTTTGATT
* *
1211305 AAAGGGGAAAAATTTTTTAATT
1 AAAGGGGAGAAATTTTTTGATT
1211327 -AAGGGGAGAAA
1 AAAGGGGAGAAA
1211338 AACGAAAACT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 10 0.22
22 36 0.78
ACGTcount: A:0.39, C:0.01, G:0.31, T:0.29
Consensus pattern (22 bp):
AAAGGGGAGAAATTTTTTGATT
Found at i:1211984 original size:13 final size:13
Alignment explanation
Indices: 1211966--1212013 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1211956 CATGGTAGAA
1211966 TGTATCGATACAT
1 TGTATCGATACAT
1211979 TGTATCGATACA-
1 TGTATCGATACAT
1211991 TG-AT-G--A-AT
1 TGTATCGATACAT
1211999 TGTATCGATACAT
1 TGTATCGATACAT
1212012 TG
1 TG
1212014 CTTGTAACGG
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.07
10 2 0.07
11 2 0.07
12 3 0.10
13 16 0.55
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1211990 original size:33 final size:33
Alignment explanation
Indices: 1211945--1212013 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1211935 CTACCACTGT
*
1211945 TTGTATCAATACATGGTAGAA-TGTATCGATACA
1 TTGTATCAATACATGAT-GAATTGTATCGATACA
*
1211978 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCAATACATGATGAATTGTATCGATACA
1212011 TTG
1 TTG
1212014 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCAATACATGATGAATTGTATCGATACA
Found at i:1212775 original size:20 final size:20
Alignment explanation
Indices: 1212747--1212797 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1212737 GAGCTTTCAA
* *
1212747 TATCGATACATTCATACATG
1 TATCGATACATTCAAAAATG
* *
1212767 TATCAATACATTGAAAAATG
1 TATCGATACATTCAAAAATG
1212787 TATCGATACAT
1 TATCGATACAT
1212798 CTGGGTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (20 bp):
TATCGATACATTCAAAAATG
Found at i:1213840 original size:58 final size:56
Alignment explanation
Indices: 1213726--1214194 Score: 444
Period size: 58 Copynumber: 8.2 Consensus size: 56
1213716 CTAACTTTTA
* * * * *
1213726 TGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGTGCCACCGACTAG
1 TGGGCTTTG-AAAG-GATGCCACTGAC-T-TGTGGGCTTTGAAAGGGTGCCACTGACTTG
* * * *
1213786 TAGGCTTTGAAAGGGTATGCCACCGACTTGTGGCCTTTGAAAGGGTGCCACCGACTTG
1 TGGGCTTTGAAA-GG-ATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
* * * * *
1213844 TGGGCTTT-AAAGGGGTATGCCACTAACTTGTGAGCTTTGAAAGGCTACCATTGACTTG
1 TGGGCTTTGAAA--GG-ATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
1213902 TGGGCTTTGAAAGGAT-CCACTGACTTATGGTCTTTGAAGGGGTATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG--TGCCACTGACTTG
* * **
1213959 TGGGCTTTGAAAAGG-TGCCATTGACTTGTGGG-TTTTAAAGGGGTATGCCACTGACTCA
1 TGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAA-GGG--TGCCACTGACTTG
* * * * *
1214017 TGGGTTTTGAAAGGCTGCCACTAACTTGTGGACTTTGAAAGGAT-CCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
* * * * *
1214072 AGGTCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
* * ** *
1214128 TAGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAAGGACGCCACTGACCTG
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
1214184 TGGGCTTTGAA
1 TGGGCTTTGAA
1214195 GAGATGAATG
Statistics
Matches: 339, Mismatches: 58, Indels: 28
0.80 0.14 0.07
Matches are distributed among these distances:
55 65 0.19
56 68 0.20
57 36 0.11
58 137 0.40
59 14 0.04
60 19 0.06
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (56 bp):
TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
Found at i:1213843 original size:28 final size:28
Alignment explanation
Indices: 1213726--1214194 Score: 424
Period size: 28 Copynumber: 16.4 Consensus size: 28
1213716 CTAACTTTTA
* *
1213726 TGGGCTTTGAAAAGAGTTGCCACCGACTTGTG
1 TGGGCTTTG-AAAG-GGTGCCACTGAC-T-TG
* * *
1213758 TGGGCTTTGAAAAGGTGCCACCGACTAG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
1213786 TAGGCTTTGAAAGGGTATGCCACCGACTTG
1 TGGGCTTTGAAAGGG--TGCCACTGACTTG
* *
1213816 TGGCCTTTGAAAGGGTGCCACCGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
1213844 TGGGCTTT-AAAGGGGTATGCCACTAACTTG
1 TGGGCTTTGAAA-GGG--TGCCACTGACTTG
* * * *
1213874 TGAGCTTTGAAAGGCTACCATTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
1213902 TGGGCTTTGAAAGGAT-CCACTGACTTA
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
1213929 TGGTCTTTGAAGGGGTATGCCACTGACTTG
1 TGGGCTTTGAAAGGG--TGCCACTGACTTG
* *
1213959 TGGGCTTTGAAAAGGTGCCATTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* **
1213987 TGGG-TTTTAAAGGGGTATGCCACTGACTCA
1 TGGGCTTTGAAA-GGG--TGCCACTGACTTG
* * *
1214017 TGGGTTTTGAAAGGCTGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
1214045 TGGACTTTGAAAGGAT-CCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
1214072 AGGTCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
1214100 TGGGCTTTGAAAAGGTGCCACTAACTTA
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
1214128 TAGGCTTTGAAAGGATGCCACTGACTTA
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
** *
1214156 TGGGCTTTGAAAGGACGCCACTGACCTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
1214184 TGGGCTTTGAA
1 TGGGCTTTGAA
1214195 GAGATGAATG
Statistics
Matches: 365, Mismatches: 58, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
27 54 0.15
28 194 0.53
29 2 0.01
30 94 0.26
31 12 0.03
32 9 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (28 bp):
TGGGCTTTGAAAGGGTGCCACTGACTTG
Found at i:1213967 original size:143 final size:142
Alignment explanation
Indices: 1213723--1214194 Score: 557
Period size: 143 Copynumber: 3.3 Consensus size: 142
1213713 TCACTAACTT
* * *
1213723 TTATGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGG-TGCCACCGAC-TAG
1 TTATGGGCTTTG-AAAG-GCTGCCACTGAC-T-TGTGGGCTTTG-AAAGGAT-CCACTGACTTA-
* * * *
1213786 TAGG-CTTTGAAAGGGTATGCCACCGACTTGTGGCCTTTGAAAGGGTGCCACCGACTTGTGGGCT
59 T-GGTCTTTG-AAGGGTATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCT
*
1213850 TTAAAGGGGTATGCCACTAAC
122 TTAAAGGGGTATGCCACTGAC
* * * *
1213871 TTGTGAGCTTTGAAAGGCTACCATTGACTTGTGGGCTTTGAAAGGATCCACTGACTTATGGTCTT
1 TTATGGGCTTTGAAAGGCTGCCACTGACTTGTGGGCTTTGAAAGGATCCACTGACTTATGGTCTT
* *
1213936 TGAAGGGGTATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCATTGACTTGTGGGTTTTAAAGGG
66 TGAA-GGGTATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTAAAGGG
1214001 GTATGCCACTGAC
130 GTATGCCACTGAC
* * * *
1214014 TCATGGGTTTTGAAAGGCTGCCACTAACTTGTGGACTTTGAAAGGATCCACTGACTTGA-GGTCT
1 TTATGGGCTTTGAAAGGCTGCCACTGACTTGTGGGCTTTGAAAGGATCCACTGACTT-ATGGTCT
* * * *
1214078 TTGAAAGG-ATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTATAGGCTTTGAAA--
65 TTGAAGGGTATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTT-AAAGG
1214140 GG-ATGCCACTGAC
129 GGTATGCCACTGAC
*
1214153 TTATGGGCTTTGAAAGGAC-GCCACTGACCTGTGGGCTTTGAA
1 TTATGGGCTTTGAAAGG-CTGCCACTGACTTGTGGGCTTTGAA
1214195 GAGATGAATG
Statistics
Matches: 284, Mismatches: 33, Indels: 23
0.84 0.10 0.07
Matches are distributed among these distances:
139 46 0.16
140 3 0.01
141 45 0.16
142 9 0.03
143 143 0.50
144 15 0.05
145 1 0.00
146 8 0.03
147 4 0.01
148 10 0.04
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (142 bp):
TTATGGGCTTTGAAAGGCTGCCACTGACTTGTGGGCTTTGAAAGGATCCACTGACTTATGGTCTT
TGAAGGGTATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTAAAGGGG
TATGCCACTGAC
Found at i:1215468 original size:25 final size:26
Alignment explanation
Indices: 1215439--1215502 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
1215429 TTTGGACCCC
* *
1215439 TTTTTTGTTTGTTTGTTTTTTGT-TTAT
1 TTTTTTGTTT-TTGGTTTTTTCTGTT-T
1215466 TTTTTTGTTTTTGGTTTTTTCTG-TT
1 TTTTTTGTTTTTGGTTTTTTCTGTTT
1215491 TTTTTTGTTTTT
1 TTTTTTGTTTTT
1215503 TTTCTTGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 13 0.38
26 11 0.32
27 10 0.29
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.83
Consensus pattern (26 bp):
TTTTTTGTTTTTGGTTTTTTCTGTTT
Found at i:1215474 original size:19 final size:18
Alignment explanation
Indices: 1215450--1215516 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
1215440 TTTTTGTTTG
1215450 TTTGTTTTTTGTTTATTTT
1 TTTGTTTTTTGTTT-TTTT
*
1215469 TTTGTTTTTGGTTTTTTCT
1 TTTGTTTTTTGTTTTTT-T
*
1215488 GTT-TTTTTTGTTTTTTT
1 TTTGTTTTTTGTTTTTTT
1215505 TCTTGGTTTTTT
1 T-TT-GTTTTTT
1215517 TTGGTACGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.03
18 17 0.43
19 16 0.40
20 6 0.15
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.82
Consensus pattern (18 bp):
TTTGTTTTTTGTTTTTTT
Found at i:1215495 original size:10 final size:9
Alignment explanation
Indices: 1215440--1215505 Score: 62
Period size: 9 Copynumber: 6.9 Consensus size: 9
1215430 TTGGACCCCT
1215440 TTTTTGTTTG
1 TTTTT-TTTG
1215450 TTTGTTTTTTG
1 -TT-TTTTTTG
1215461 TTTATTTTT-
1 TTT-TTTTTG
*
1215470 TTGTTTTTGG
1 TT-TTTTTTG
*
1215480 TTTTTTCTG
1 TTTTTTTTG
1215489 TTTTTTTTG
1 TTTTTTTTG
1215498 TTTTTTTT
1 TTTTTTTT
1215506 CTTGGTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
9 28 0.60
10 10 0.21
11 6 0.13
12 3 0.06
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.83
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1219976 original size:20 final size:22
Alignment explanation
Indices: 1219946--1219989 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1219936 TGATTTCCTG
1219946 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
1219967 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
1219988 TG
1 TG
1219990 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:1222595 original size:13 final size:13
Alignment explanation
Indices: 1222577--1222615 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1222567 ATAATCCCCC
*
1222577 TGTATCGATACAG
1 TGTATCGATACAA
1222590 TGTATCGATACAA
1 TGTATCGATACAA
1222603 TGTATCGATACAA
1 TGTATCGATACAA
1222616 AGAAAGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1228740 original size:20 final size:22
Alignment explanation
Indices: 1228710--1228753 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1228700 TGATTTCCCG
1228710 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
1228731 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
1228752 TG
1 TG
1228754 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:1228827 original size:13 final size:13
Alignment explanation
Indices: 1228809--1228834 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1228799 TTTTTTTTGG
1228809 TGTATCGATACAT
1 TGTATCGATACAT
1228822 TGTATCGATACAT
1 TGTATCGATACAT
1228835 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1236894 original size:52 final size:52
Alignment explanation
Indices: 1236746--1236874 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1236736 CGAAATATGA
*
1236746 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* *
1236798 AAATTTTCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1236850 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1236875 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:1236901 original size:13 final size:13
Alignment explanation
Indices: 1236883--1236907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1236873 CAAAGATCAG
1236883 TGTATCGATACAA
1 TGTATCGATACAA
1236896 TGTATCGATACA
1 TGTATCGATACA
1236908 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1236974 original size:19 final size:20
Alignment explanation
Indices: 1236950--1237002 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1236940 TAGCTTACAT
1236950 TGTATCGATACAAAAC-TTA
1 TGTATCGATACAAAACTTTA
*
1236969 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAACTTTA
1236989 TGTATCGATACAAA
1 TGTATCGATACAAA
1237003 TCATTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAAAACTTTA
Found at i:1246676 original size:52 final size:52
Alignment explanation
Indices: 1246598--1246798 Score: 332
Period size: 52 Copynumber: 3.9 Consensus size: 52
1246588 CGAAATATGA
*
1246598 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
1246650 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
* *
1246702 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCGGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
**
1246754 AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGTAT-AGTGTATCGATACA
1246799 ATGTATCGAT
Statistics
Matches: 142, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
51 2 0.01
52 140 0.99
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
Found at i:1246805 original size:13 final size:13
Alignment explanation
Indices: 1246787--1246811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1246777 CAAAGATCAG
1246787 TGTATCGATACAA
1 TGTATCGATACAA
1246800 TGTATCGATACA
1 TGTATCGATACA
1246812 TTTAAGTGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1246889 original size:33 final size:33
Alignment explanation
Indices: 1246852--1246918 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1246842 AGTAGCTTAA
1246852 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1246885 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1246918 A
1 A
1246919 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1246892 original size:13 final size:13
Alignment explanation
Indices: 1246874--1246898 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1246864 CAAAAAAATA
1246874 TGTATCGATACAT
1 TGTATCGATACAT
1246887 TGTATCGATACA
1 TGTATCGATACA
1246899 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1247860 original size:52 final size:52
Alignment explanation
Indices: 1247728--1247939 Score: 208
Period size: 52 Copynumber: 4.2 Consensus size: 52
1247718 GAAAAGTGAT
* * * * * * * *
1247728 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-G-A
* * *
1247782 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
1247835 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
1247878 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1247930 AAAGGTGCCA
1 AAAGGTGCCA
1247940 CCGACTTGTG
Statistics
Matches: 130, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
43 38 0.29
44 1 0.01
46 1 0.01
49 1 0.01
51 1 0.01
52 42 0.32
53 6 0.05
54 5 0.04
55 35 0.27
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:1247896 original size:43 final size:43
Alignment explanation
Indices: 1247835--1247924 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
1247825 TAAAGATGGA
*
1247835 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
1247878 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
1247921 AAAG
1 AAAG
1247925 ATGGAAAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:1247969 original size:30 final size:30
Alignment explanation
Indices: 1247929--1248136 Score: 253
Period size: 30 Copynumber: 7.0 Consensus size: 30
1247919 TTAAAGATGG
* * **
1247929 AAAAGGTGCCACCGACTTGTGGGCTTCGGA
1 AAAAGATGCCACTGACTTGTGGGCTTTTGA
* * *
1247959 AAAGGGTGCCACTGATTTGTGGGC-TTTG-
1 AAAAGATGCCACTGACTTGTGGGCTTTTGA
* *
1247987 -AAGGTTGCCACTGACTTGTGGGCTTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTTGA
*
1248016 AAAATATGCCACTGACTTGTGGGCTTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTTGA
*
1248046 AAAATATGCCACTGACTTGTGGGCTTTTGAA
1 AAAAGATGCCACTGACTTGTGGGCTTTTG-A
*
1248077 AAAAAATGCCACTGACTTGTGGGC-TTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTTGA
* *
1248106 AAAAAATGCCACTGACTTGTGGACTTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTTGA
1248136 A
1 A
1248137 GGGTGATGAA
Statistics
Matches: 161, Mismatches: 12, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
27 21 0.13
28 4 0.02
29 26 0.16
30 86 0.53
31 24 0.15
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (30 bp):
AAAAGATGCCACTGACTTGTGGGCTTTTGA
Found at i:1248026 original size:87 final size:88
Alignment explanation
Indices: 1247935--1248127 Score: 246
Period size: 87 Copynumber: 2.2 Consensus size: 88
1247925 ATGGAAAAGG
* * * * ***
1247935 TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGTTGCCAC
1 TGCCACTGACTTGTGGGCTTCGGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAAATGCCAC
*
1247998 TGACTTGTGGGCTTTTGAAAAATA
66 TGACTTGTGGGC-TTTGAAAAAAA
** *
1248022 TGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAAAAATGCC
1 TGCCACTGACTTGTGGGCTTCGGAAAAAGATGCCACTGACTTGTGGGCTTTTG--AAAAAATGCC
1248087 ACTGACTTGTGGGCTTTGAAAAAAA
64 ACTGACTTGTGGGCTTTGAAAAAAA
1248112 TGCCACTGACTTGTGG
1 TGCCACTGACTTGTGG
1248128 ACTTTTGAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
87 41 0.45
88 4 0.04
90 26 0.29
91 20 0.22
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (88 bp):
TGCCACTGACTTGTGGGCTTCGGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAAATGCCAC
TGACTTGTGGGCTTTGAAAAAAA
Done.